Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 115 of 211
Found at i:36106141 original size:48 final size:48
Alignment explanation
Indices: 36106070--36106166 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
36106060 ACGGAGATGA
36106070 AAATCTCACGAAGACATAGGTACGGATGTATCCCGAAAGTAATCCGCT
1 AAATCTCACGAAGACATAGGTACGGATGTATCCCGAAAGTAATCCGCT
36106118 AAATCTCACGAAGACATAGGTACGGATGTATCCCGAAAGTAATCCGCT
1 AAATCTCACGAAGACATAGGTACGGATGTATCCCGAAAGTAATCCGCT
36106166 A
1 A
36106167 TCCTACACGG
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:0.36, C:0.23, G:0.21, T:0.21
Consensus pattern (48 bp):
AAATCTCACGAAGACATAGGTACGGATGTATCCCGAAAGTAATCCGCT
Found at i:36109592 original size:16 final size:16
Alignment explanation
Indices: 36109573--36109606 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
36109563 TTAAAATATT
36109573 AAAAAAAT-GATTTGAA
1 AAAAAAATAGATTT-AA
36109589 AAAAAAATAGATTTAA
1 AAAAAAATAGATTTAA
36109605 AA
1 AA
36109607 TATAAATATA
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:0.68, C:0.00, G:0.09, T:0.24
Consensus pattern (16 bp):
AAAAAAATAGATTTAA
Found at i:36116106 original size:47 final size:46
Alignment explanation
Indices: 36116039--36116133 Score: 154
Period size: 47 Copynumber: 2.0 Consensus size: 46
36116029 GCTCTCTATT
*
36116039 TATTTTTCTTTATTTCCTTTAAATACTACTTAAAAATGTTAAAAAC
1 TATTTTTCTTTATTTCCTTTAAATACTAATTAAAAATGTTAAAAAC
* *
36116085 TATTTTTCCTTTATTTCCTTTAAATATTAATTAAAAGTGTTAAAAAC
1 TATTTTT-CTTTATTTCCTTTAAATACTAATTAAAAATGTTAAAAAC
36116132 TA
1 TA
36116134 ATCCATCTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
46 7 0.16
47 38 0.84
ACGTcount: A:0.37, C:0.12, G:0.03, T:0.48
Consensus pattern (46 bp):
TATTTTTCTTTATTTCCTTTAAATACTAATTAAAAATGTTAAAAAC
Found at i:36116721 original size:27 final size:29
Alignment explanation
Indices: 36116667--36116726 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 29
36116657 TAAATTAATG
36116667 ATCACATCTAATAATAACGATTAAAAAAAT
1 ATCACATCTAATAATAACGA-TAAAAAAAT
* *
36116697 ATCACATTTAATAATAACAATAAAAAAAT
1 ATCACATCTAATAATAACGATAAAAAAAT
36116726 A
1 A
36116727 ATTGTTGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
29 10 0.36
30 18 0.64
ACGTcount: A:0.60, C:0.12, G:0.02, T:0.27
Consensus pattern (29 bp):
ATCACATCTAATAATAACGATAAAAAAAT
Found at i:36125843 original size:26 final size:25
Alignment explanation
Indices: 36125804--36125854 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
36125794 CATTGTCATT
**
36125804 GTTTATTTTTTATTTATATTAATTTC
1 GTTTATTTACTATTTATATT-ATTTC
36125830 GTTTATTTACTATTTATATTATTTC
1 GTTTATTTACTATTTATATTATTTC
36125855 TATACAATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.24, C:0.06, G:0.04, T:0.67
Consensus pattern (25 bp):
GTTTATTTACTATTTATATTATTTC
Found at i:36131903 original size:44 final size:44
Alignment explanation
Indices: 36131864--36131996 Score: 180
Period size: 44 Copynumber: 3.0 Consensus size: 44
36131854 ATTGAAGCCA
* * *
36131864 GTGAATCCTATATCCCTGGCCAGTAGTGGAATGGGTTGAA-ATT
1 GTGAATCCTATCTCCCTGGTCAGTAGTGGAATAGGTTGAAGATT
* *
36131907 -TGTAAGTTCTGTCTCCCTGGTCAGTAGTGGAATAGGTTGAAGATT
1 GTG-AA-TCCTATCTCCCTGGTCAGTAGTGGAATAGGTTGAAGATT
*
36131952 GTGAATCCTATCTCCCTGGTTAGTAGTGGAATAGGTTGAAGATT
1 GTGAATCCTATCTCCCTGGTCAGTAGTGGAATAGGTTGAAGATT
36131996 G
1 G
36131997 CAAATTTTAC
Statistics
Matches: 78, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
42 2 0.03
43 2 0.03
44 67 0.86
45 5 0.06
46 2 0.03
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.33
Consensus pattern (44 bp):
GTGAATCCTATCTCCCTGGTCAGTAGTGGAATAGGTTGAAGATT
Found at i:36132425 original size:264 final size:264
Alignment explanation
Indices: 36131954--36132495 Score: 949
Period size: 264 Copynumber: 2.1 Consensus size: 264
36131944 TGAAGATTGT
* *
36131954 GAATCCTATCTCCCTGGTTAGTAGTGGAATAGGTTGAAGATTGCAAATTTTACTTTCCTGACGTT
1 GAATCCTATCTCCCCGGTTAGCAGTGGAATAGGTTGAAGATTGCAAATTTTACTTTCCTGACGTT
* *
36132019 ATAGCGGAGTAGATTAAAGCTGAGGGCAGCGAATCTTATCTCCCGGTCGTTAAGACTTGAAATAG
66 ATAGCGGAGCAGATTAAAGCTGAGGGCAGCGAATCTTATCTCCCGGGCGTTAAGACTTGAAATAG
* * *
36132084 CTGAAGTGGAGTGGATTAATGCTGTGGGCAGCGAATCTTATCTCTTTGGCATTATAGTGGAACAA
131 CTGAAGTGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTATAGTGGAACAA
* * *
36132149 ATTAATGCTAAATGTAGCGAATCTTGTTTCCCTAGCATTGCAGCGGAGCAGATTAAAGCTGAGGG
196 ATTAAAGCTAAATGTAACGAATCTTGTTTCCCTAGCATTGCAGCAGAGCAGATTAAAGCTGAGGG
36132214 CAGC
261 CAGC
*
36132218 GAATCCTATCTCCCCGGTTAGCAGTGGAATAGGTTGAAGATTGCGAATTTTACTTTCCTGACGTT
1 GAATCCTATCTCCCCGGTTAGCAGTGGAATAGGTTGAAGATTGCAAATTTTACTTTCCTGACGTT
36132283 ATAGCGGAGCAGATTAAAGCTGAGGGCAGCGAATCTTATCTCCCGGGCGTTAAGACTTGAAATAG
66 ATAGCGGAGCAGATTAAAGCTGAGGGCAGCGAATCTTATCTCCCGGGCGTTAAGACTTGAAATAG
*
36132348 CTGAAGTGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTATAGTGGAACAC
131 CTGAAGTGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTATAGTGGAACAA
*
36132413 ATTAAAGCTAAATGTAACGAATCTTGTTTCCCTAGCATTGCAGCAGAGTAGATTAAAGCTGAGGG
196 ATTAAAGCTAAATGTAACGAATCTTGTTTCCCTAGCATTGCAGCAGAGCAGATTAAAGCTGAGGG
36132478 CAGC
261 CAGC
* *
36132482 AAATCTTATCTCCC
1 GAATCCTATCTCCC
36132496 TGGTGTTAAG
Statistics
Matches: 263, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
264 263 1.00
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.28
Consensus pattern (264 bp):
GAATCCTATCTCCCCGGTTAGCAGTGGAATAGGTTGAAGATTGCAAATTTTACTTTCCTGACGTT
ATAGCGGAGCAGATTAAAGCTGAGGGCAGCGAATCTTATCTCCCGGGCGTTAAGACTTGAAATAG
CTGAAGTGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTATAGTGGAACAA
ATTAAAGCTAAATGTAACGAATCTTGTTTCCCTAGCATTGCAGCAGAGCAGATTAAAGCTGAGGG
CAGC
Found at i:36132889 original size:44 final size:45
Alignment explanation
Indices: 36132776--36132891 Score: 114
Period size: 45 Copynumber: 2.6 Consensus size: 45
36132766 TCACATCGGG
* * *
36132776 TCTTATCTCCCTAAAGTTGCAGTGGAGAAGACTCAAGAAAGCAAG
1 TCTTATCTCCCAAAAGTTGCAGTGGAGAAGACTAAAGAAAGCAAA
* * *
36132821 TCTTATC-CCCTTGAAA-TTACAGTGG-GACAGACTAAATAAA-CAAA
1 TCTTATCTCCC--AAAAGTTGCAGTGGAGA-AGACTAAAGAAAGCAAA
*
36132865 TCTTATCTCCCAAAAGTTGTAGTGGAG
1 TCTTATCTCCCAAAAGTTGCAGTGGAG
36132892 TGAGTGATGG
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
43 3 0.05
44 22 0.39
45 29 0.51
46 3 0.05
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (45 bp):
TCTTATCTCCCAAAAGTTGCAGTGGAGAAGACTAAAGAAAGCAAA
Found at i:36134659 original size:26 final size:25
Alignment explanation
Indices: 36134620--36134670 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
36134610 CATTGTCATT
**
36134620 GTTTATTTTTTATTTATATTAATTTC
1 GTTTATTTACTATTTATATT-ATTTC
36134646 GTTTATTTACTATTTATATTATTTC
1 GTTTATTTACTATTTATATTATTTC
36134671 TATACAATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.24, C:0.06, G:0.04, T:0.67
Consensus pattern (25 bp):
GTTTATTTACTATTTATATTATTTC
Found at i:36141106 original size:50 final size:50
Alignment explanation
Indices: 36140994--36141191 Score: 207
Period size: 50 Copynumber: 3.8 Consensus size: 50
36140984 ATTTGGGTAA
* *
36140994 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTCTG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCA---AGA---TG
*
36141050 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
** * * * *
36141100 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGACATGGGCACCTATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
** * * * *
36141150 AGAACTCTCATGTAAGATCATATCTGGGATATGGCATTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
36141192 GTACAAGAAA
Statistics
Matches: 122, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
50 77 0.63
53 3 0.02
56 42 0.34
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
Found at i:36150755 original size:7 final size:7
Alignment explanation
Indices: 36150743--36150774 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
36150733 CAGTTATGCT
36150743 TCCAATG
1 TCCAATG
36150750 TCCAATG
1 TCCAATG
36150757 TCCAATG
1 TCCAATG
36150764 TCCAATG
1 TCCAATG
36150771 TCCA
1 TCCA
36150775 CCTTTAGGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.28, C:0.31, G:0.12, T:0.28
Consensus pattern (7 bp):
TCCAATG
Found at i:36152467 original size:47 final size:46
Alignment explanation
Indices: 36152398--36152488 Score: 157
Period size: 47 Copynumber: 2.0 Consensus size: 46
36152388 TACGAGGGAG
36152398 TAAGATGAGAAGAAAAGTACAAGAGCATAGTAGTAAGGCACGACATA
1 TAAGATGAGAAGAAAAGTACAAGAGCATAGTAGT-AGGCACGACATA
36152445 TAAGATGAGAAGAGAAA-TACAAGAGCATAGTAGTAGGCACGACA
1 TAAGATGAGAAGA-AAAGTACAAGAGCATAGTAGTAGGCACGACA
36152489 CGTAGGCCGT
Statistics
Matches: 43, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
46 10 0.23
47 30 0.70
48 3 0.07
ACGTcount: A:0.48, C:0.11, G:0.26, T:0.14
Consensus pattern (46 bp):
TAAGATGAGAAGAAAAGTACAAGAGCATAGTAGTAGGCACGACATA
Found at i:36159381 original size:39 final size:39
Alignment explanation
Indices: 36159338--36159476 Score: 156
Period size: 39 Copynumber: 3.6 Consensus size: 39
36159328 CATATTTAGT
* * *
36159338 TTTAAGCA-AGTATCACATTACACATATAATCATATAACA
1 TTTAAGCATA-TATCACAATACTCATATAATCACATAACA
36159377 TTTAAGCATATATCACAATACTCATATAATCACATAA-A
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
* * * *
36159415 GTTCAAGCATATATCACAGTACTTATATAATCACATATCA
1 -TTTAAGCATATATCACAATACTCATATAATCACATAACA
* * *
36159455 TTCAGGCATATATCATAATACT
1 TTTAAGCATATATCACAATACT
36159477 TAAAAACATG
Statistics
Matches: 87, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
38 1 0.01
39 84 0.97
40 2 0.02
ACGTcount: A:0.43, C:0.19, G:0.06, T:0.32
Consensus pattern (39 bp):
TTTAAGCATATATCACAATACTCATATAATCACATAACA
Found at i:36159991 original size:58 final size:58
Alignment explanation
Indices: 36159868--36159982 Score: 203
Period size: 58 Copynumber: 2.0 Consensus size: 58
36159858 AAAATATTCA
* * *
36159868 AAATAAAACACATATCACTTGCCAATTTTCCATGCACTATCATTGCATATTTGTATCG
1 AAATCAAACACATATCACTTACCAAGTTTCCATGCACTATCATTGCATATTTGTATCG
36159926 AAATCAAACACATATCACTTACCAAGTTTCCATGCACTATCATTGCATATTTGTATC
1 AAATCAAACACATATCACTTACCAAGTTTCCATGCACTATCATTGCATATTTGTATC
36159983 TTTATCAAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 54 1.00
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.34
Consensus pattern (58 bp):
AAATCAAACACATATCACTTACCAAGTTTCCATGCACTATCATTGCATATTTGTATCG
Found at i:36162714 original size:10 final size:10
Alignment explanation
Indices: 36162699--36162726 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
36162689 TATAATAGTT
36162699 TTTCATTTAC
1 TTTCATTTAC
36162709 TTTCATTTAC
1 TTTCATTTAC
36162719 TTTCATTT
1 TTTCATTT
36162727 CCTTGACACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTCATTTAC
Found at i:36164563 original size:9 final size:9
Alignment explanation
Indices: 36164549--36164585 Score: 60
Period size: 9 Copynumber: 4.3 Consensus size: 9
36164539 TTTTTGTTCC
36164549 ATACAATTA
1 ATACAATTA
36164558 ATACAATT-
1 ATACAATTA
36164566 A-ACAATTA
1 ATACAATTA
36164574 ATACAATTA
1 ATACAATTA
36164583 ATA
1 ATA
36164586 ATTTGATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 6 0.23
8 2 0.08
9 18 0.69
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ATACAATTA
Found at i:36164572 original size:16 final size:16
Alignment explanation
Indices: 36164551--36164588 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
36164541 TTTGTTCCAT
36164551 ACAATTAATACAATTA
1 ACAATTAATACAATTA
36164567 ACAATTAATACAATTA
1 ACAATTAATACAATTA
*
36164583 ATAATT
1 ACAATT
36164589 TGATAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (16 bp):
ACAATTAATACAATTA
Found at i:36164679 original size:16 final size:16
Alignment explanation
Indices: 36164658--36164699 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
36164648 AATAATTTGA
*
36164658 TAATTTTACTAAAAAT
1 TAATTTTAATAAAAAT
*
36164674 TAATTTTAATAACAAT
1 TAATTTTAATAAAAAT
*
36164690 TAGTTTTAAT
1 TAATTTTAAT
36164700 TTTATTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAAAAAT
Found at i:36164683 original size:22 final size:22
Alignment explanation
Indices: 36164673--36164727 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
36164663 TTACTAAAAA
* * *
36164673 TTAATTTTAATAACAATTAGTT
1 TTAATTTTAATAAAAAATAATT
*
36164695 TTAATTTTATTAAAAAATAATT
1 TTAATTTTAATAAAAAATAATT
36164717 TTAATTTTAAT
1 TTAATTTTAAT
36164728 GCAAAACGGG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (22 bp):
TTAATTTTAATAAAAAATAATT
Found at i:36165372 original size:3 final size:3
Alignment explanation
Indices: 36165364--36165392 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
36165354 AGAAGATGAC
36165364 GAG GAG GAG GAG GAG GAG GAG GAG GAG GA
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GA
36165393 TGACGATGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.66, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:36175527 original size:30 final size:30
Alignment explanation
Indices: 36175491--36175548 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
36175481 GCATGTTCGT
*
36175491 AGTTATGATTGAGATAAGGTATTTATTAGC
1 AGTTATGATTGAGATAAGGTATCTATTAGC
36175521 AGTTATGATTGAGATAAGGTATCTATTA
1 AGTTATGATTGAGATAAGGTATCTATTA
36175549 ATCTAAGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.03, G:0.22, T:0.40
Consensus pattern (30 bp):
AGTTATGATTGAGATAAGGTATCTATTAGC
Found at i:36185911 original size:13 final size:13
Alignment explanation
Indices: 36185895--36185936 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
36185885 ATCTGCTTTA
*
36185895 TATAATCATTTCG
1 TATAACCATTTCG
* *
36185908 TATAACCATCTCA
1 TATAACCATTTCG
36185921 TATAACCATTTCG
1 TATAACCATTTCG
36185934 TAT
1 TAT
36185937 TATACATTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.33, C:0.21, G:0.05, T:0.40
Consensus pattern (13 bp):
TATAACCATTTCG
Found at i:36186985 original size:43 final size:40
Alignment explanation
Indices: 36186920--36187030 Score: 109
Period size: 41 Copynumber: 2.7 Consensus size: 40
36186910 AGCTCGTACA
*
36186920 ATGCCATATCCCAGAGATGGTCTTACATGCTAACGCATAT-CG
1 ATGCCATATCCCAGACATGGTCTTACATG--AA-GCATATACG
* * * *
36186962 ATGCCACTGTCCCAGACAGGGTCTTATATGAATCATATACG
1 ATGCCA-TATCCCAGACATGGTCTTACATGAAGCATATACG
36187003 ATGCCA-ATCTCTCAGACATGGTCTTACA
1 ATGCCATATC-C-CAGACATGGTCTTACA
36187031 CATTTTCTCA
Statistics
Matches: 57, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
39 2 0.04
40 6 0.11
41 24 0.42
42 6 0.11
43 19 0.33
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (40 bp):
ATGCCATATCCCAGACATGGTCTTACATGAAGCATATACG
Found at i:36187118 original size:43 final size:43
Alignment explanation
Indices: 36187002--36187118 Score: 189
Period size: 43 Copynumber: 2.7 Consensus size: 43
36186992 AATCATATAC
* * * *
36187002 GATGCCAATCTCTCAGACATGGTCTTACACATTTTCTCACTTT
1 GATGCCAATGTCCCAGACATGGTCTTACACGTTTTCTCACATT
*
36187045 GATGCCAATGTTCCAGACATGGTCTTACACGTTTTCTCACATT
1 GATGCCAATGTCCCAGACATGGTCTTACACGTTTTCTCACATT
36187088 GATGCCAATGTCCCAGACATGGTCTTACACG
1 GATGCCAATGTCCCAGACATGGTCTTACACG
36187119 AAATCACACC
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 68 1.00
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.32
Consensus pattern (43 bp):
GATGCCAATGTCCCAGACATGGTCTTACACGTTTTCTCACATT
Found at i:36187277 original size:30 final size:30
Alignment explanation
Indices: 36187241--36187333 Score: 105
Period size: 30 Copynumber: 3.1 Consensus size: 30
36187231 ATCCAATGCT
*
36187241 CAAATCAATTCAGCAATATATAAAAATATA
1 CAAATCAATTCGGCAATATATAAAAATATA
* ***
36187271 CAAATCAATTCGGCAATGTATATCCATATA
1 CAAATCAATTCGGCAATATATAAAAATATA
* * *
36187301 AAAATAAATTCGGCAATATAGAAAACATATA
1 CAAATCAATTCGGCAATATATAAAA-ATATA
36187332 CA
1 CA
36187334 TTTTAATTCA
Statistics
Matches: 49, Mismatches: 13, Indels: 1
0.78 0.21 0.02
Matches are distributed among these distances:
30 43 0.88
31 6 0.12
ACGTcount: A:0.52, C:0.15, G:0.08, T:0.26
Consensus pattern (30 bp):
CAAATCAATTCGGCAATATATAAAAATATA
Found at i:36188537 original size:45 final size:45
Alignment explanation
Indices: 36188430--36188691 Score: 210
Period size: 45 Copynumber: 5.8 Consensus size: 45
36188420 GTTTCAAGGA
* * * * * * *
36188430 TGCCATAACGTCTTTC-AGTCATGGTCTTATTTATTTTCGACATGA
1 TGCCATAATGTCTTTCAACT-ATGGTTTTATTCATTTTTGTCATGT
* * * *
36188475 TGTCATAGTGTCATTCAAATATGGTATTT-TT-ATTTTTCGTCATGT
1 TGCCATAATGTCTTTCAACTATGGT-TTTATTCATTTTT-GTCATGT
*
36188520 TGCCATAATTTCTTTCAACTATGGTTTTATTCATTTTTGTCATGT
1 TGCCATAATGTCTTTCAACTATGGTTTTATTCATTTTTGTCATGT
* ** *
36188565 TGCCATAATGTCTTTCAACTATGGTCTTATTCATTTCCGTTATAG-
1 TGCCATAATGTCTTTCAACTATGGTTTTATTCATTTTTGTCAT-GT
* * * * **
36188610 TGTCGTAGTGTCTTTCAACTATGGTCTTATTCATTTTTAGT-ATAA
1 TGCCATAATGTCTTTCAACTATGGTTTTATTCATTTTT-GTCATGT
* * * *
36188655 TGCCATATTATCTTTCAACTATGGTCTTATTCGTTTT
1 TGCCATAATGTCTTTCAACTATGGTTTTATTCATTTT
36188692 CCAAGCCAAT
Statistics
Matches: 179, Mismatches: 30, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
44 8 0.04
45 158 0.88
46 13 0.07
ACGTcount: A:0.21, C:0.16, G:0.14, T:0.48
Consensus pattern (45 bp):
TGCCATAATGTCTTTCAACTATGGTTTTATTCATTTTTGTCATGT
Found at i:36188588 original size:90 final size:90
Alignment explanation
Indices: 36188430--36188686 Score: 243
Period size: 90 Copynumber: 2.9 Consensus size: 90
36188420 GTTTCAAGGA
* * * * * * * * *
36188430 TGCCATAACGTCTTTC-AGTCATGGTCTTATTTATTTTCGACATGATGTCATAGTGTCATTCAAA
1 TGCCATAATGTCTTTCAACT-ATGGTCTTATTCATTTTTGTCATGATGCCATAATGTCTTTCAAC
* *
36188494 TATGGTATT-TTTATTTTTCGTCAT-G
65 TATGGTATTATTCA-TTTCCGTCATAG
* * *
36188519 TTGCCATAATTTCTTTCAACTATGGTTTTATTCATTTTTGTCATGTTGCCATAATGTCTTTCAAC
1 -TGCCATAATGTCTTTCAACTATGGTCTTATTCATTTTTGTCATGATGCCATAATGTCTTTCAAC
* *
36188584 TATGGTCTTATTCATTTCCGTTATAG
65 TATGGTATTATTCATTTCCGTCATAG
* * * * * *
36188610 TGTCGTAGTGTCTTTCAACTATGGTCTTATTCATTTTTAGT-ATAATGCCATATTATCTTTCAAC
1 TGCCATAATGTCTTTCAACTATGGTCTTATTCATTTTT-GTCATGATGCCATAATGTCTTTCAAC
*
36188674 TATGGTCTTATTC
65 TATGGTATTATTC
36188687 GTTTTCCAAG
Statistics
Matches: 138, Mismatches: 25, Indels: 8
0.81 0.15 0.05
Matches are distributed among these distances:
90 130 0.94
91 8 0.06
ACGTcount: A:0.22, C:0.17, G:0.14, T:0.48
Consensus pattern (90 bp):
TGCCATAATGTCTTTCAACTATGGTCTTATTCATTTTTGTCATGATGCCATAATGTCTTTCAACT
ATGGTATTATTCATTTCCGTCATAG
Found at i:36188619 original size:135 final size:135
Alignment explanation
Indices: 36188430--36188691 Score: 316
Period size: 135 Copynumber: 1.9 Consensus size: 135
36188420 GTTTCAAGGA
* * *
36188430 TGCCATAACGTCTTTCAGTCATGGTCTTATTTATTTTCGACATGATGTCATAGTGTCATTCAAAT
1 TGCCATAACGTCTTTCACTCATGGTCTTATTCATTTCCGACATGATGTCATAGTGTCATTCAAAT
* * ** *
36188495 ATGGTATT-TTTATTTTTCGTCATGTTGCCATAATT-TCTTTCAACTATGGTTTTATTCATTTTT
66 ATGGTATTATTCATTTTTAGT-ATAATGCCAT-ATTATCTTTCAACTATGGTCTTATTCATTTTT
36188558 GTCATGT
129 GTCATGT
* ** * *
36188565 TGCCATAATGTCTTTCAACT-ATGGTCTTATTCATTTCCGTTAT-AGTGTCGTAGTGTCTTTCAA
1 TGCCATAACGTCTTTC-ACTCATGGTCTTATTCATTTCCGACATGA-TGTCATAGTGTCATTCAA
* * *
36188628 CTATGGTCTTATTCATTTTTAGTATAATGCCATATTATCTTTCAACTATGGTCTTATTCGTTTT
64 ATATGGTATTATTCATTTTTAGTATAATGCCATATTATCTTTCAACTATGGTCTTATTCATTTT
36188692 CCAAGCCAAT
Statistics
Matches: 107, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
134 4 0.04
135 91 0.85
136 12 0.11
ACGTcount: A:0.21, C:0.16, G:0.14, T:0.48
Consensus pattern (135 bp):
TGCCATAACGTCTTTCACTCATGGTCTTATTCATTTCCGACATGATGTCATAGTGTCATTCAAAT
ATGGTATTATTCATTTTTAGTATAATGCCATATTATCTTTCAACTATGGTCTTATTCATTTTTGT
CATGT
Found at i:36206125 original size:19 final size:19
Alignment explanation
Indices: 36206103--36206141 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
36206093 AATAGGGACT
*
36206103 AATATGAAAAATAA-TAAAA
1 AATACGAAAAA-AACTAAAA
36206122 AATACGAAAAAAACTAAAA
1 AATACGAAAAAAACTAAAA
36206141 A
1 A
36206142 TAGGGGTCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 2 0.11
19 16 0.89
ACGTcount: A:0.74, C:0.05, G:0.05, T:0.15
Consensus pattern (19 bp):
AATACGAAAAAAACTAAAA
Found at i:36214370 original size:56 final size:56
Alignment explanation
Indices: 36214277--36214389 Score: 174
Period size: 56 Copynumber: 2.0 Consensus size: 56
36214267 CTAAAAAGTA
* * *
36214277 GGTAGACGGTTGGAGAGTCATTTTGGAAGGAGAAATCCCTTAGATGAAAATA-AGG
1 GGTAGACGATTGGAGAGTCATTTTGGAAGGAGAAATCCCTTAAACGAAAATAGAGG
*
36214332 GGTAGACGATTGGGGAGTCATTTTTGGAAGGAGAAATCCCTTAAACGAAAATAGAGG
1 GGTAGACGATTGGAGAGTCA-TTTTGGAAGGAGAAATCCCTTAAACGAAAATAGAGG
36214389 G
1 G
36214390 TAGCGGTTGC
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
55 18 0.35
56 30 0.58
57 4 0.08
ACGTcount: A:0.35, C:0.10, G:0.33, T:0.23
Consensus pattern (56 bp):
GGTAGACGATTGGAGAGTCATTTTGGAAGGAGAAATCCCTTAAACGAAAATAGAGG
Found at i:36224152 original size:19 final size:19
Alignment explanation
Indices: 36224106--36224152 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
36224096 CTTGTTAATG
* *
36224106 ATGTCTGATTAGTGGAATT
1 ATGTCTGATTAGTGCAATC
*
36224125 GTGTCTGATTAGTGCAATC
1 ATGTCTGATTAGTGCAATC
*
36224144 ATGTGTGAT
1 ATGTCTGAT
36224153 GAGTAGAACT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.23, C:0.09, G:0.28, T:0.40
Consensus pattern (19 bp):
ATGTCTGATTAGTGCAATC
Found at i:36241762 original size:30 final size:30
Alignment explanation
Indices: 36241727--36241786 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
36241717 ACACAAATTA
36241727 GACCTCATAAACTTAAAATATCATAACTTC
1 GACCTCATAAACTTAAAATATCATAACTTC
36241757 GACCTCATAAACTTAAAATATCATAACTTC
1 GACCTCATAAACTTAAAATATCATAACTTC
36241787 AAAATCCTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.43, C:0.23, G:0.03, T:0.30
Consensus pattern (30 bp):
GACCTCATAAACTTAAAATATCATAACTTC
Found at i:36241784 original size:15 final size:16
Alignment explanation
Indices: 36241731--36241791 Score: 56
Period size: 15 Copynumber: 3.9 Consensus size: 16
36241721 AAATTAGACC
36241731 TCATAAACTTAAAATA
1 TCATAAACTTAAAATA
** **
36241747 TCAT-AACTT-CGACC
1 TCATAAACTTAAAATA
36241761 TCATAAACTTAAAATA
1 TCATAAACTTAAAATA
36241777 TCAT-AACTTCAAAAT
1 TCATAAACTT-AAAAT
36241792 CCTTTTGACT
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
14 5 0.15
15 15 0.44
16 14 0.41
ACGTcount: A:0.48, C:0.20, G:0.02, T:0.31
Consensus pattern (16 bp):
TCATAAACTTAAAATA
Found at i:36245086 original size:44 final size:44
Alignment explanation
Indices: 36245037--36245337 Score: 426
Period size: 44 Copynumber: 6.8 Consensus size: 44
36245027 ATAGAAACTG
* **
36245037 ATCTTCCACCTATTCCACTG-TGGGTTAGGGAGATAGGACTTGTA
1 ATCTTCCACCTATTCCACTGCT-GGTCAGGGAGATAGGACTTACA
*
36245081 ATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTTACA
1 ATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTACA
*
36245125 ATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTTACA
1 ATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTACA
*
36245169 ATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGGCTTACA
1 ATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTACA
* *
36245213 ACCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGGCTTACA
1 ATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTACA
** * * * *
36245257 ATCTTCCATATATTCCACTACTGTGT-AAGGAGTTAGGTCTTACA
1 ATCTTCCACCTATTCCACTGCTG-GTCAGGGAGATAGGACTTACA
* *
36245301 ATCTTCAACCTATTCCACTTCTGGTCAGGGAGATAGG
1 ATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGG
36245338 GCTTTGTGAT
Statistics
Matches: 234, Mismatches: 20, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
43 2 0.01
44 229 0.98
45 3 0.01
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (44 bp):
ATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTACA
Found at i:36255227 original size:40 final size:40
Alignment explanation
Indices: 36255167--36255246 Score: 126
Period size: 40 Copynumber: 2.0 Consensus size: 40
36255157 GAAGAATGAC
36255167 CAACCATTTCTCTTTCGAGATGTCATCTCCCCTTGGTGTA
1 CAACCATTTCTCTTTCGAGATGTCATCTCCCCTTGGTGTA
* *
36255207 CAACTATTTCTC-TTCTGAGATGTCATCTCTCCTTGGTGTA
1 CAACCATTTCTCTTTC-GAGATGTCATCTCCCCTTGGTGTA
36255247 GCTGCTATCC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
39 3 0.08
40 34 0.92
ACGTcount: A:0.17, C:0.28, G:0.15, T:0.40
Consensus pattern (40 bp):
CAACCATTTCTCTTTCGAGATGTCATCTCCCCTTGGTGTA
Found at i:36261918 original size:15 final size:15
Alignment explanation
Indices: 36261887--36261935 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
36261877 TTTTAATTTA
*
36261887 ATAAT-ATTTAGAAT
1 ATAATAATTTATAAT
36261901 ATAATAACTTT-TAAT
1 ATAATAA-TTTATAAT
36261916 AT-ATAATTTAATAAT
1 ATAATAATTT-ATAAT
36261931 ATAAT
1 ATAAT
36261936 GATATTTCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
13 3 0.10
14 9 0.31
15 12 0.41
16 5 0.17
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (15 bp):
ATAATAATTTATAAT
Found at i:36263682 original size:48 final size:48
Alignment explanation
Indices: 36263603--36263696 Score: 136
Period size: 48 Copynumber: 2.0 Consensus size: 48
36263593 AGGGAATTCT
* * * *
36263603 GTTGAATCCTTTATTGTTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
1 GTTGAATCCTTTATCGATGCAAGTTGAGCTGACTTAGGCATTTTTACG
36263651 GTTGAATCCTTTATCGATGCAAGTT-AGGCTGACTTAGGCATTTTTA
1 GTTGAATCCTTTATCGATGCAAGTTGA-GCTGACTTAGGCATTTTTA
36263697 AGCCAAGAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
47 1 0.02
48 40 0.98
ACGTcount: A:0.20, C:0.15, G:0.24, T:0.40
Consensus pattern (48 bp):
GTTGAATCCTTTATCGATGCAAGTTGAGCTGACTTAGGCATTTTTACG
Found at i:36266232 original size:48 final size:48
Alignment explanation
Indices: 36266153--36266246 Score: 145
Period size: 48 Copynumber: 2.0 Consensus size: 48
36266143 AGGGAATTCT
* * *
36266153 GTTGAATCCTTTATTGTTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
1 GTTGAATCCTTTATCGATGCAAGTTGAGCTGACTTAGGCGTTTTTACG
36266201 GTTGAATCCTTTATCGATGCAAGTT-AGGCTGACTTAGGCGTTTTTA
1 GTTGAATCCTTTATCGATGCAAGTTGA-GCTGACTTAGGCGTTTTTA
36266247 AGCCAAGAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
47 1 0.02
48 41 0.98
ACGTcount: A:0.19, C:0.15, G:0.26, T:0.40
Consensus pattern (48 bp):
GTTGAATCCTTTATCGATGCAAGTTGAGCTGACTTAGGCGTTTTTACG
Found at i:36269561 original size:42 final size:42
Alignment explanation
Indices: 36269509--36269632 Score: 164
Period size: 42 Copynumber: 3.0 Consensus size: 42
36269499 ACTGAGATGT
*
36269509 GATTACGTGTAAGAACATGTCTGGGACATTGGCATCGATATGA
1 GATT-CGTGTAAGACCATGTCTGGGACATTGGCATCGATATGA
* *
36269552 GATTCGTGTAAGACCATGTCTGGGACATTGACATCAATATGA
1 GATTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATGA
*
36269594 AATTCGTGTAAGACCATAGT-T-GG-CTATTGGCATCGATAT
1 GATTCGTGTAAGACCAT-GTCTGGGAC-ATTGGCATCGATAT
36269633 ATGATAGCAT
Statistics
Matches: 73, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
40 1 0.01
41 14 0.19
42 52 0.71
43 6 0.08
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (42 bp):
GATTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATGA
Found at i:36282179 original size:13 final size:13
Alignment explanation
Indices: 36282161--36282186 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
36282151 GTGATAAATG
36282161 TAAAATAAAATAA
1 TAAAATAAAATAA
36282174 TAAAATAAAATAA
1 TAAAATAAAATAA
36282187 CATAAATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
TAAAATAAAATAA
Found at i:36283348 original size:33 final size:33
Alignment explanation
Indices: 36283278--36283357 Score: 90
Period size: 33 Copynumber: 2.4 Consensus size: 33
36283268 GTTTGATTTG
* * * *
36283278 TGTTTATTGTCCCAGTGGACTTACTCCGTTCTG
1 TGTTTACTGTCCCAGCGAACTTACTCCGTTCTA
*
36283311 TGTTTACTGTCCCAGCGAACTTACTCTGTT-TCA
1 TGTTTACTGTCCCAGCGAACTTACTCCGTTCT-A
*
36283344 TGTTTACTATCCCA
1 TGTTTACTGTCCCA
36283358 AAAAACATAC
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
32 1 0.03
33 39 0.98
ACGTcount: A:0.16, C:0.26, G:0.16, T:0.41
Consensus pattern (33 bp):
TGTTTACTGTCCCAGCGAACTTACTCCGTTCTA
Found at i:36283458 original size:7 final size:7
Alignment explanation
Indices: 36283446--36283482 Score: 74
Period size: 7 Copynumber: 5.3 Consensus size: 7
36283436 ATCTATGGTT
36283446 TTATACC
1 TTATACC
36283453 TTATACC
1 TTATACC
36283460 TTATACC
1 TTATACC
36283467 TTATACC
1 TTATACC
36283474 TTATACC
1 TTATACC
36283481 TT
1 TT
36283483 GCCGCCATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.46
Consensus pattern (7 bp):
TTATACC
Found at i:36291753 original size:32 final size:32
Alignment explanation
Indices: 36291715--36291830 Score: 169
Period size: 32 Copynumber: 3.6 Consensus size: 32
36291705 CCATAAGTAC
* *
36291715 AGTAATATGATTGGCACAAAACCATCAGTAGT
1 AGTAATATGATCGGCACAAAACCATCAGTAAT
*
36291747 AGTAATATGATCGGCACACAACCATCAGTAAT
1 AGTAATATGATCGGCACAAAACCATCAGTAAT
* * *
36291779 GGTAATATGATCGGCACACAGCCATCAGTAAT
1 AGTAATATGATCGGCACAAAACCATCAGTAAT
*
36291811 GGTAATATGATCGGCACAAA
1 AGTAATATGATCGGCACAAA
36291831 GCTATCAATA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 78 1.00
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (32 bp):
AGTAATATGATCGGCACAAAACCATCAGTAAT
Found at i:36291872 original size:26 final size:26
Alignment explanation
Indices: 36291836--36291885 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
36291826 ACAAAGCTAT
36291836 CAATAGCATCGCAGCAAAGCTGCCGA
1 CAATAGCATCGCAGCAAAGCTGCCGA
*
36291862 CAATAGTATCGCAGCAAAGCTGCC
1 CAATAGCATCGCAGCAAAGCTGCC
36291886 AGTAACAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.34, C:0.30, G:0.22, T:0.14
Consensus pattern (26 bp):
CAATAGCATCGCAGCAAAGCTGCCGA
Found at i:36292053 original size:24 final size:24
Alignment explanation
Indices: 36292024--36292145 Score: 113
Period size: 24 Copynumber: 5.1 Consensus size: 24
36292014 TCAGTCATAC
*
36292024 AAATCACAGACAAATTAGACATTT
1 AAATCACAGACAAATCAGACATTT
* *
36292048 AAATCACAGACATATCAGTCATTT
1 AAATCACAGACAAATCAGACATTT
*
36292072 AAATCACAGACAAATCAGTCATTT
1 AAATCACAGACAAATCAGACATTT
* * * *
36292096 ACATCTCAAACAAATTA-ATCATTT
1 AAATCACAGACAAATCAGA-CATTT
* * *
36292120 ACATCATAGGCAAATCA-ATCATTT
1 AAATCACAGACAAATCAGA-CATTT
36292144 AA
1 AA
36292146 CCCGAAGGGC
Statistics
Matches: 82, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
24 82 1.00
ACGTcount: A:0.46, C:0.20, G:0.07, T:0.28
Consensus pattern (24 bp):
AAATCACAGACAAATCAGACATTT
Found at i:36292118 original size:48 final size:48
Alignment explanation
Indices: 36292024--36292145 Score: 136
Period size: 48 Copynumber: 2.5 Consensus size: 48
36292014 TCAGTCATAC
* * * * *
36292024 AAATCACAGACAAATTAGACATTTAAATCACAGACATATCAGTCATTT
1 AAATCACAGACAAATCAGTCATTTAAATCACAAACAAATCAATCATTT
* * *
36292072 AAATCACAGACAAATCAGTCATTTACATCTCAAACAAATTAATCATTT
1 AAATCACAGACAAATCAGTCATTTAAATCACAAACAAATCAATCATTT
* * * *
36292120 ACATCATAGGCAAATCAATCATTTAA
1 AAATCACAGACAAATCAGTCATTTAA
36292146 CCCGAAGGGC
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 61 1.00
ACGTcount: A:0.46, C:0.20, G:0.07, T:0.28
Consensus pattern (48 bp):
AAATCACAGACAAATCAGTCATTTAAATCACAAACAAATCAATCATTT
Found at i:36292195 original size:27 final size:27
Alignment explanation
Indices: 36292165--36292660 Score: 513
Period size: 27 Copynumber: 18.4 Consensus size: 27
36292155 CAAAATAGTT
36292165 ATTTTACCCTACAAGGGCATTACGGTC
1 ATTTTACCCTACAAGGGCATTACGGTC
* *
36292192 ATTTTACCCTACAGGGGCATTACGATC
1 ATTTTACCCTACAAGGGCATTACGGTC
* *
36292219 ATTTTACCTTACAAGGGCATTACGGTT
1 ATTTTACCCTACAAGGGCATTACGGTC
* *
36292246 ATTTTACCCTATAAGGGCATTACGATC
1 ATTTTACCCTACAAGGGCATTACGGTC
*
36292273 ATTTTACCCTACAGGGGCATTACGGTC
1 ATTTTACCCTACAAGGGCATTACGGTC
* *
36292300 ATTTTACCTTA-TAGGAGCATTACGGTC
1 ATTTTACCCTACAAGG-GCATTACGGTC
** * **
36292327 ATTTTACTTTACAGGGGCATTATTGTC
1 ATTTTACCCTACAAGGGCATTACGGTC
* * *
36292354 ATTTTACTCTATAGGGGCATTACGGTC
1 ATTTTACCCTACAAGGGCATTACGGTC
*
36292381 ATTTTACCCTAC-AGAGGAATTACGGTC
1 ATTTTACCCTACAAG-GGCATTACGGTC
* **
36292408 ATTTTACCCTA-TAGGAGCATTATAGTC
1 ATTTTACCCTACAAGG-GCATTACGGTC
* *
36292435 ATTTTACCCTACAGGGGCATTACAGTC
1 ATTTTACCCTACAAGGGCATTACGGTC
* *
36292462 ATTTTACCCTA-GAGAGGCATTATGGTC
1 ATTTTACCCTACAAG-GGCATTACGGTC
*
36292489 ATTTTACCCTACAAGAGCATTACGGTC
1 ATTTTACCCTACAAGGGCATTACGGTC
* * *
36292516 ATTTTACCCTACAGGGGCGTTACGATC
1 ATTTTACCCTACAAGGGCATTACGGTC
36292543 ATTTTACCCTAC-AGGAGCATTACGGTC
1 ATTTTACCCTACAAGG-GCATTACGGTC
* *
36292570 ATTTTATCCTATC-AGAGCATTACGGTC
1 ATTTTACCCTA-CAAGGGCATTACGGTC
* * **
36292597 ATTTTACCC-ATCGAGGGTATTTTGGTC
1 ATTTTACCCTA-CAAGGGCATTACGGTC
* * * *
36292624 ATTTTACCC-ACCGAGGGTATTTCGATC
1 ATTTTACCCTA-CAAGGGCATTACGGTC
36292651 ATTTTACCCT
1 ATTTTACCCT
36292661 TTGAGTGTAT
Statistics
Matches: 398, Mismatches: 59, Indels: 23
0.83 0.12 0.05
Matches are distributed among these distances:
26 10 0.03
27 379 0.95
28 9 0.02
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.34
Consensus pattern (27 bp):
ATTTTACCCTACAAGGGCATTACGGTC
Found at i:36292681 original size:27 final size:27
Alignment explanation
Indices: 36292593--36292683 Score: 119
Period size: 27 Copynumber: 3.4 Consensus size: 27
36292583 AGAGCATTAC
36292593 GGTCATTTTACCCATCGAGGGTATTTT
1 GGTCATTTTACCCATCGAGGGTATTTT
* *
36292620 GGTCATTTTACCCACCGAGGGTATTTC
1 GGTCATTTTACCCATCGAGGGTATTTT
* * * *
36292647 GATCATTTTACCCTTTGAGTGTATTTT
1 GGTCATTTTACCCATCGAGGGTATTTT
*
36292674 GGTAATTTTA
1 GGTCATTTTA
36292684 AAACCTTTTC
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.43
Consensus pattern (27 bp):
GGTCATTTTACCCATCGAGGGTATTTT
Found at i:36297519 original size:43 final size:43
Alignment explanation
Indices: 36297456--36297821 Score: 341
Period size: 43 Copynumber: 8.6 Consensus size: 43
36297446 AGATTCCCCG
36297456 AGGGGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAA
1 AGGGGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAA
* * * *
36297499 AGGGGTTGCTATGTGTTGATTCCA-CGTATCA-TTGAATAT-AA
1 AGGGGTTGCTAAGTGCTGATTCCACCGTAT-ATTTGATTGTGAA
36297540 AGGTGGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAA
1 AGG-GGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAA
* * * * *
36297584 AGGGGTTGCTATGTGCTGATTCC-CCGTATCA-CTCAATAT-AA
1 AGGGGTTGCTAAGTGCTGATTCCACCGTAT-ATTTGATTGTGAA
*
36297625 AGGTGGTTGCTAAGTGCTGATTCCACCGTATCTTTGATTGTGAA
1 AGG-GGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAA
* * * * *
36297669 AGCGGG-TGCTATGTGCTGATTCC-CCGTATCA-CTCAATAT-AA
1 AG-GGGTTGCTAAGTGCTGATTCCACCGTAT-ATTTGATTGTGAA
*
36297710 AGGTGGTTGCTAAGTGCTGATTCCACCGTATCTTTGATTGTGAA
1 AGG-GGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAA
* * *
36297754 AGCGGG-TGTTATGTGCTGATTCC-CCGTATCA-CTGAATT-T--A
1 AG-GGGTTGCTAAGTGCTGATTCCACCGTAT-ATTTG-ATTGTGAA
*
36297794 AGGTGGTTGCTAAGTGCTGAATCCACCG
1 AGG-GGTTGCTAAGTGCTGATTCCACCG
36297822 AGTAACGGAT
Statistics
Matches: 262, Mismatches: 38, Indels: 47
0.76 0.11 0.14
Matches are distributed among these distances:
39 1 0.00
40 6 0.02
41 30 0.11
42 98 0.37
43 108 0.41
44 17 0.06
45 2 0.01
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (43 bp):
AGGGGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAA
Found at i:36297604 original size:85 final size:85
Alignment explanation
Indices: 36297459--36297821 Score: 597
Period size: 85 Copynumber: 4.3 Consensus size: 85
36297449 TTCCCCGAGG
* *
36297459 GGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAG-GGGTTGCTATGTGTTGATTCCA
1 GGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAGCGGG-TGCTATGTGCTGATTCCC
* *
36297523 CGTATCATTGAATATAAAGGT
65 CGTATCACTCAATATAAAGGT
36297544 GGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAG-GGGTTGCTATGTGCTGATTCCC
1 GGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAGCGGG-TGCTATGTGCTGATTCCC
36297608 CGTATCACTCAATATAAAGGT
65 CGTATCACTCAATATAAAGGT
*
36297629 GGTTGCTAAGTGCTGATTCCACCGTATCTTTGATTGTGAAAGCGGGTGCTATGTGCTGATTCCCC
1 GGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAGCGGGTGCTATGTGCTGATTCCCC
36297694 GTATCACTCAATATAAAGGT
66 GTATCACTCAATATAAAGGT
* *
36297714 GGTTGCTAAGTGCTGATTCCACCGTATCTTTGATTGTGAAAGCGGGTGTTATGTGCTGATTCCCC
1 GGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAGCGGGTGCTATGTGCTGATTCCCC
* *
36297779 GTATCACTGAAT-TTAAGGT
66 GTATCACTCAATATAAAGGT
*
36297798 GGTTGCTAAGTGCTGAATCCACCG
1 GGTTGCTAAGTGCTGATTCCACCG
36297822 AGTAACGGAT
Statistics
Matches: 268, Mismatches: 9, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
84 29 0.11
85 236 0.88
86 3 0.01
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.34
Consensus pattern (85 bp):
GGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAGCGGGTGCTATGTGCTGATTCCCC
GTATCACTCAATATAAAGGT
Found at i:36299902 original size:27 final size:28
Alignment explanation
Indices: 36299843--36299896 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
36299833 AAAATAATTA
*
36299843 AAATTAACTATGTTAATAATTTAAGTGC
1 AAATTAACTATGTTAATAATTAAAGTGC
* *
36299871 AAATTAATTAT-TTTATAATTAAAGTG
1 AAATTAACTATGTTAATAATTAAAGTG
36299897 TGAATTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 13 0.57
28 10 0.43
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.43
Consensus pattern (28 bp):
AAATTAACTATGTTAATAATTAAAGTGC
Found at i:36300847 original size:43 final size:43
Alignment explanation
Indices: 36300783--36301031 Score: 383
Period size: 43 Copynumber: 5.8 Consensus size: 43
36300773 GCGTCGCTAA
* *
36300783 CTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACTAGGAC
1 CTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCAGGAC
36300826 CTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCAGGAC
1 CTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCAGGAC
* * * *
36300869 CTTTAGCGGTGCTTTTCCCACAAACGCCTCTAAAGACCATGAC
1 CTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCAGGAC
* * *
36300912 CTTTAGCGGCGCCTTTT-TCACAAACGCCACTAAAGACCATGAC
1 CTTTAGCGGCG-CTTTTACCACAAACGCCGCTAAAGACCAGGAC
*
36300955 CTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACCAGGAC
1 CTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCAGGAC
*
36300998 CTTTAGCAGCGCTTTTACCACAAACGCCGCTAAA
1 CTTTAGCGGCGCTTTTACCACAAACGCCGCTAAA
36301032 AACATGACTT
Statistics
Matches: 190, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
42 5 0.03
43 180 0.95
44 5 0.03
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.22
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCAGGAC
Found at i:36301255 original size:18 final size:18
Alignment explanation
Indices: 36301232--36301290 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
36301222 TTAAAACAAG
36301232 TTACATTCTATATTAGAA
1 TTACATTCTATATTAGAA
*** * *
36301250 TTACATAAGAAAATT-G-T
1 TTACAT-TCTATATTAGAA
36301267 TTACATTCTATATTAGAA
1 TTACATTCTATATTAGAA
36301285 TTACAT
1 TTACAT
36301291 AAGTTCTGTT
Statistics
Matches: 28, Mismatches: 10, Indels: 6
0.64 0.23 0.14
Matches are distributed among these distances:
16 4 0.14
17 7 0.25
18 13 0.46
19 4 0.14
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.42
Consensus pattern (18 bp):
TTACATTCTATATTAGAA
Found at i:36306082 original size:27 final size:30
Alignment explanation
Indices: 36306022--36306078 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
36306012 GGAAACAGAC
** *
36306022 TCTTGTTCGGCAACAGTTGTTTCTTCTCGT
1 TCTTGTTCAACAACAGCTGTTTCTTCTCGT
36306052 TCTTGTTCAACAACAGCTGTTTCTTCT
1 TCTTGTTCAACAACAGCTGTTTCTTCT
36306079 TCTTCTGCAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.14, C:0.25, G:0.16, T:0.46
Consensus pattern (30 bp):
TCTTGTTCAACAACAGCTGTTTCTTCTCGT
Found at i:36306390 original size:13 final size:13
Alignment explanation
Indices: 36306368--36306400 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
36306358 TCTTTTATTG
*
36306368 TTAATCTGTTACA
1 TTAATTTGTTACA
36306381 TTAATTTGTTACA
1 TTAATTTGTTACA
36306394 TTAATTT
1 TTAATTT
36306401 ATTTATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.30, C:0.09, G:0.06, T:0.55
Consensus pattern (13 bp):
TTAATTTGTTACA
Found at i:36306898 original size:7 final size:7
Alignment explanation
Indices: 36306888--36306946 Score: 91
Period size: 7 Copynumber: 8.4 Consensus size: 7
36306878 CACTAACTCT
36306888 TAACCCC
1 TAACCCC
36306895 TAACCCC
1 TAACCCC
*
36306902 TAACCTC
1 TAACCCC
36306909 TAACCCC
1 TAACCCC
36306916 TAACCCC
1 TAACCCC
36306923 TAACCCC
1 TAACCCC
**
36306930 TAACTAC
1 TAACCCC
36306937 TAACCCC
1 TAACCCC
36306944 TAA
1 TAA
36306947 ATCTTATTTA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 46 1.00
ACGTcount: A:0.32, C:0.49, G:0.00, T:0.19
Consensus pattern (7 bp):
TAACCCC
Found at i:36306904 original size:21 final size:21
Alignment explanation
Indices: 36306880--36306952 Score: 85
Period size: 21 Copynumber: 3.5 Consensus size: 21
36306870 CCCTAAATCA
36306880 CTAACTCTTAACCCCTAACCC
1 CTAACTCTTAACCCCTAACCC
36306901 CTAAC-CTCTAACCCCTAACCC
1 CTAACTCT-TAACCCCTAACCC
* * **
36306922 CTAACCCCTAACTACTAACCC
1 CTAACTCTTAACCCCTAACCC
*
36306943 CTAAATCTTA
1 CTAACTCTTA
36306953 TTTAATATAT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
20 2 0.05
21 41 0.93
22 1 0.02
ACGTcount: A:0.32, C:0.45, G:0.00, T:0.23
Consensus pattern (21 bp):
CTAACTCTTAACCCCTAACCC
Found at i:36307021 original size:20 final size:20
Alignment explanation
Indices: 36306989--36307028 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
36306979 ATTAATCTAG
36306989 ACCCTAAATCCTAAACCCTA
1 ACCCTAAATCCTAAACCCTA
*
36307009 ACCC-AAATCCCTAACCCCTA
1 ACCCTAAAT-CCTAAACCCTA
36307029 CACCTTATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.38, C:0.45, G:0.00, T:0.17
Consensus pattern (20 bp):
ACCCTAAATCCTAAACCCTA
Found at i:36307268 original size:14 final size:14
Alignment explanation
Indices: 36307246--36307282 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
36307236 ATCCCAAATT
36307246 AACCATATACCCTA
1 AACCATATACCCTA
* *
36307260 AATCATATACCTTA
1 AACCATATACCCTA
36307274 AACCATATA
1 AACCATATA
36307283 TATTAAACCC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.27
Consensus pattern (14 bp):
AACCATATACCCTA
Found at i:36307711 original size:41 final size:41
Alignment explanation
Indices: 36307654--36307815 Score: 279
Period size: 41 Copynumber: 4.0 Consensus size: 41
36307644 TCAAAAACAG
*
36307654 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCAA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
* *
36307695 GCATTAGCGGCGCTTCTTCAAAAATGCCACTAAAGGCCCGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
* *
36307736 GCATTAGCGGCGCTTATTCAAAAACGCCGTTAAAGGCCCGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
36307777 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCC
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCC
36307816 CAAAAACTCA
Statistics
Matches: 112, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 112 1.00
ACGTcount: A:0.28, C:0.30, G:0.23, T:0.19
Consensus pattern (41 bp):
GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
Found at i:36307917 original size:39 final size:38
Alignment explanation
Indices: 36307863--36307983 Score: 134
Period size: 39 Copynumber: 3.1 Consensus size: 38
36307853 GTTGCGACGC
*
36307863 TTTTCAAAAAACGCCGCTAATGCTTATTTTTAGCGGCG
1 TTTTCAAAAAGCGCCGCTAATGCTTATTTTTAGCGGCG
****
36307901 TTTTCCAAAAAGCGCCGCTAATGCTCGCCTTTAGCGGCG
1 TTTT-CAAAAAGCGCCGCTAATGCTTATTTTTAGCGGCG
* * * *
36307940 TTTTTAGAAAAGCACCGCTAATGCTTGATTTTTAGTGGCA
1 TTTTCA-AAAAGCGCCGCTAATGCTT-ATTTTTAGCGGCG
36307980 TTTT
1 TTTT
36307984 TTGTCCAAAC
Statistics
Matches: 67, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
38 5 0.07
39 50 0.75
40 12 0.18
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (38 bp):
TTTTCAAAAAGCGCCGCTAATGCTTATTTTTAGCGGCG
Found at i:36311014 original size:24 final size:25
Alignment explanation
Indices: 36310987--36311047 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 25
36310977 ATTTCACACT
36310987 GTAAAATTTTGAAAATTTTAC-CCA
1 GTAAAATTTTGAAAATTTTACTCCA
* ** **
36311011 GTAAAATTTTTATGATTTTACTCTG
1 GTAAAATTTTGAAAATTTTACTCCA
36311036 GTAAAATTTTGA
1 GTAAAATTTTGA
36311048 GAAAATTCGT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 18 0.60
25 12 0.40
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.44
Consensus pattern (25 bp):
GTAAAATTTTGAAAATTTTACTCCA
Found at i:36313302 original size:20 final size:20
Alignment explanation
Indices: 36313277--36313320 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
36313267 GTTAGTTGCA
36313277 ATGTCACTGCAGTAGGTTTC
1 ATGTCACTGCAGTAGGTTTC
* *
36313297 ATGTCATTGTAGTAGGTTTC
1 ATGTCACTGCAGTAGGTTTC
36313317 ATGT
1 ATGT
36313321 GCTAGCCCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.20, C:0.14, G:0.25, T:0.41
Consensus pattern (20 bp):
ATGTCACTGCAGTAGGTTTC
Found at i:36321019 original size:17 final size:17
Alignment explanation
Indices: 36320997--36321040 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
36320987 TGAGGAATTT
* *
36320997 TTTCTTTTCTTTTTCTC
1 TTTCTTTTCTTTGTCAC
36321014 TTTCTTTTCTTTGTCAC
1 TTTCTTTTCTTTGTCAC
*
36321031 TTACTTTTCT
1 TTTCTTTTCT
36321041 ATTCTATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.05, C:0.23, G:0.02, T:0.70
Consensus pattern (17 bp):
TTTCTTTTCTTTGTCAC
Found at i:36324595 original size:20 final size:19
Alignment explanation
Indices: 36324566--36324607 Score: 75
Period size: 20 Copynumber: 2.2 Consensus size: 19
36324556 ACTATTATTA
36324566 TTTCGATGTTTATAATGAT
1 TTTCGATGTTTATAATGAT
36324585 TTTCTGATGTTTATAATGAT
1 TTTC-GATGTTTATAATGAT
36324605 TTT
1 TTT
36324608 TACTTATTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.24, C:0.05, G:0.14, T:0.57
Consensus pattern (19 bp):
TTTCGATGTTTATAATGAT
Found at i:36324855 original size:26 final size:26
Alignment explanation
Indices: 36324826--36324928 Score: 118
Period size: 26 Copynumber: 4.0 Consensus size: 26
36324816 TTTAGTTGGG
* *
36324826 TTTGAGTCGATGTTTATCTAGCAGGC
1 TTTGAGCCGATGATTATCTAGCAGGC
* *
36324852 TTTGAGCC-AGTGTTTATCTAGCAGAC
1 TTTGAGCCGA-TGATTATCTAGCAGGC
* *
36324878 TTTGAGCCGATGATTATTTAGCAGGA
1 TTTGAGCCGATGATTATCTAGCAGGC
* *
36324904 TTTGAGCCAATGATTATTTAGCAGG
1 TTTGAGCCGATGATTATCTAGCAGG
36324929 TACTATGTAC
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
25 1 0.01
26 66 0.97
27 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.36
Consensus pattern (26 bp):
TTTGAGCCGATGATTATCTAGCAGGC
Found at i:36324882 original size:52 final size:52
Alignment explanation
Indices: 36324826--36324927 Score: 141
Period size: 52 Copynumber: 2.0 Consensus size: 52
36324816 TTTAGTTGGG
* * * * *
36324826 TTTGAGTCGATGTTTATCTAGCAGGCTTTGAGCCAGTGTTTATCTAGCAGAC
1 TTTGAGCCGATGATTATCTAGCAGGATTTGAGCCAATGATTATCTAGCAGAC
* *
36324878 TTTGAGCCGATGATTATTTAGCAGGATTTGAGCCAATGATTATTTAGCAG
1 TTTGAGCCGATGATTATCTAGCAGGATTTGAGCCAATGATTATCTAGCAG
36324928 GTACTATGTA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.36
Consensus pattern (52 bp):
TTTGAGCCGATGATTATCTAGCAGGATTTGAGCCAATGATTATCTAGCAGAC
Found at i:36325845 original size:54 final size:54
Alignment explanation
Indices: 36325720--36325851 Score: 138
Period size: 54 Copynumber: 2.4 Consensus size: 54
36325710 AGGATGGTTT
* * ***
36325720 ACACGGGCATAGTGAGTTACACTGCCTGGGGACATGGCCATGTGATCCTGAGTC
1 ACACGGGCATAGTGAGTTACACGGCCTGGGGACATGGCCATGTGATCCTAAAAA
** * ** * * * *
36325774 ACATAGGCACAACGAGTTACACGGCCTTGGGATATGGCCGTGTGATCTTAAAAA
1 ACACGGGCATAGTGAGTTACACGGCCTGGGGACATGGCCATGTGATCCTAAAAA
36325828 ACACGGGCATAGTGAGTTACACGG
1 ACACGGGCATAGTGAGTTACACGG
36325852 TTTGAGCTTA
Statistics
Matches: 59, Mismatches: 19, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
54 59 1.00
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.21
Consensus pattern (54 bp):
ACACGGGCATAGTGAGTTACACGGCCTGGGGACATGGCCATGTGATCCTAAAAA
Found at i:36335263 original size:21 final size:21
Alignment explanation
Indices: 36335219--36335265 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
36335209 ACAGTTTGAG
*
36335219 CACACGGGCATAAGGGGGTTGC
1 CACACGGGCAT-AGGGGGTAGC
36335241 CACACGGGCAT-GTGGGGTAGC
1 CACACGGGCATAG-GGGGTAGC
36335262 CACA
1 CACA
36335266 TGGTCGTGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 1 0.04
21 11 0.48
22 11 0.48
ACGTcount: A:0.23, C:0.26, G:0.38, T:0.13
Consensus pattern (21 bp):
CACACGGGCATAGGGGGTAGC
Found at i:36335856 original size:24 final size:24
Alignment explanation
Indices: 36335815--36335862 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
36335805 GACAGGAGCC
*
36335815 CAAAATTTAAAATTATTTTAGGTT
1 CAAAATTTAAAATGATTTTAGGTT
36335839 CAAAATTTGAAAA-GATTTTAGGTT
1 CAAAATTT-AAAATGATTTTAGGTT
36335863 TGAAGTGCGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.42, C:0.04, G:0.12, T:0.42
Consensus pattern (24 bp):
CAAAATTTAAAATGATTTTAGGTT
Found at i:36343088 original size:5 final size:5
Alignment explanation
Indices: 36343078--36343108 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
36343068 TTTGATAACA
36343078 TATTT TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT TATTT T
36343109 TAAAAAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:36358185 original size:360 final size:360
Alignment explanation
Indices: 36357524--36358603 Score: 1998
Period size: 360 Copynumber: 3.0 Consensus size: 360
36357514 TACACAGTCC
*
36357524 CTTTTACTTACTTATTACTTGATTACGACTGTGTAACTTGCACAAACCCCAGTGTTACAGCATGC
1 CTTTTACTTACTTATTACTTGATTACGACTGTGTAACTTGCACAAACCCCAGCGTTACAGCATGC
* *
36357589 AGACTCGTTTTTGAAAAGAAATAAAGTCTGAGGTTTTGAACCTTGGATCTAATACCACTAAATGT
66 AGACTCATTTTTGAAAAGAAATAAAGTCTGAGGTTTTGAACCTTGGATCTGATACCACTAAATGT
* *
36357654 AAACTCCAAAACTATGCCTAAATTTTATGGCTAAATTGTGAAGATCACATTAGTCACCTATGCGA
131 AAACTCCAAAACTAGGCCTAAATGTTATGGCTAAATTGTGAAGATCACATTAGTCACCTATGCGA
*
36357719 CAAAGTTAGTCTATTGTTTGACAAAATCCTTAAGTACTCACCTTTTTAAGAAAAACCATGGTTAC
196 CAAAGTTAGTCTATTGTTTGACAAAAACCTTAAGTACTCACCTTTTTAAGAAAAACCATGGTTAC
36357784 CCTTGTTATTTTTGGAAAACGTTCATTAATAAAAATCAACCTTATTAAGTCATGTTATTAACATT
261 CCTTGTTATTTTTGGAAAACGTTCATTAATAAAAATCAACCTTATTAAGTCATGTTATTAACATT
*
36357849 AGTGTGGTCTAGAAAACACTTTACTCATCATTGTT
326 AGTGTGGTCTAGAAAACACTTTACTCATCATTGCT
36357884 CTTTTACTTACTTATTACTTGATTACGACTGTGTAACTTGCACAAACCCCAGCGTTACAGCATGC
1 CTTTTACTTACTTATTACTTGATTACGACTGTGTAACTTGCACAAACCCCAGCGTTACAGCATGC
*
36357949 AGACTCATTTTTGAAAAGAAATAAAGTCTGAGGTTTTGAACCTTGGATTTGATACCACTAAATGT
66 AGACTCATTTTTGAAAAGAAATAAAGTCTGAGGTTTTGAACCTTGGATCTGATACCACTAAATGT
*
36358014 AAACTCCAAAACTAGGCCTAAATGTTATGGCTAAATTGTGAAGATCACATTAGTCACCTATACGA
131 AAACTCCAAAACTAGGCCTAAATGTTATGGCTAAATTGTGAAGATCACATTAGTCACCTATGCGA
*
36358079 CAAAGTTAGGCTATTGTTTGACAAAAACCTTAAGTACTCACCTTTTTAAGAAAAACCATGGTTAC
196 CAAAGTTAGTCTATTGTTTGACAAAAACCTTAAGTACTCACCTTTTTAAGAAAAACCATGGTTAC
36358144 CCTTGTTATTTTTGGAAAACGTTCATTAATAAAAATCAACCTTATTAAGTCATGTTATTAACATT
261 CCTTGTTATTTTTGGAAAACGTTCATTAATAAAAATCAACCTTATTAAGTCATGTTATTAACATT
*
36358209 AGTGTGGTATAGAAAACACTTTACTCATCATTGCT
326 AGTGTGGTCTAGAAAACACTTTACTCATCATTGCT
* * *
36358244 CTTTTACTTACTTATTACTTGATTACGACTATGTAACTTGCACAAACCCCAACGTTATAGCATGC
1 CTTTTACTTACTTATTACTTGATTACGACTGTGTAACTTGCACAAACCCCAGCGTTACAGCATGC
* *
36358309 AGACTCATTTTTGAAAAGAAATAAAGTCCGAGGTTTTGAACCTTGGATCTGATACCACTAAATAT
66 AGACTCATTTTTGAAAAGAAATAAAGTCTGAGGTTTTGAACCTTGGATCTGATACCACTAAATGT
*
36358374 AAACTCCAAAACTAGGCCTAAATGTTATGGCTAAATCGTGAAGATCACATTAGTCACCTATGCGA
131 AAACTCCAAAACTAGGCCTAAATGTTATGGCTAAATTGTGAAGATCACATTAGTCACCTATGCGA
*
36358439 CAAAGTTAGTCTATTGTTTGACAAAAACCTTAAGTACTCACATTTTTAAGAAAAACCATGGTTAC
196 CAAAGTTAGTCTATTGTTTGACAAAAACCTTAAGTACTCACCTTTTTAAGAAAAACCATGGTTAC
36358504 CCTTGTTATTTTTGGAAAACGTTCATTAATAAAAATCAACCTTATTAAGTCATGTTATTAACATT
261 CCTTGTTATTTTTGGAAAACGTTCATTAATAAAAATCAACCTTATTAAGTCATGTTATTAACATT
36358569 AGTGTGGTCTAGAAAACACTTTACTCATCATTGCT
326 AGTGTGGTCTAGAAAACACTTTACTCATCATTGCT
36358604 TTTGTAGAAC
Statistics
Matches: 698, Mismatches: 22, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
360 698 1.00
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (360 bp):
CTTTTACTTACTTATTACTTGATTACGACTGTGTAACTTGCACAAACCCCAGCGTTACAGCATGC
AGACTCATTTTTGAAAAGAAATAAAGTCTGAGGTTTTGAACCTTGGATCTGATACCACTAAATGT
AAACTCCAAAACTAGGCCTAAATGTTATGGCTAAATTGTGAAGATCACATTAGTCACCTATGCGA
CAAAGTTAGTCTATTGTTTGACAAAAACCTTAAGTACTCACCTTTTTAAGAAAAACCATGGTTAC
CCTTGTTATTTTTGGAAAACGTTCATTAATAAAAATCAACCTTATTAAGTCATGTTATTAACATT
AGTGTGGTCTAGAAAACACTTTACTCATCATTGCT
Found at i:36364657 original size:41 final size:41
Alignment explanation
Indices: 36364560--36364759 Score: 228
Period size: 41 Copynumber: 5.0 Consensus size: 41
36364550 AATAATCCTG
* *
36364560 AATTTCACATACGTGCCCCTATTTGTACTTCGGTA-CCCTA
1 AATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTA
* * *
36364600 AATTGCACATATGTGCCCTTGTTTGTACTTCGATACCCCTA
1 AATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTA
* * *
36364641 AATTACACATGCGTGCCCCTGTTTGTACTTCGGTACCCCTG
1 AATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTA
* * * * *
36364682 AATTGCACATGCAT-CCCCT-TTTTTACTTCGGTACCCTTG
1 AATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTA
* * *
36364721 AATTGCA-AAATGTGCCCCTGTTTGTACTTTGGTACCCCT
1 AATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCT
36364760 GGAGGTGCTT
Statistics
Matches: 135, Mismatches: 22, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
38 2 0.01
39 30 0.22
40 51 0.38
41 52 0.39
ACGTcount: A:0.20, C:0.29, G:0.15, T:0.35
Consensus pattern (41 bp):
AATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTA
Found at i:36364723 original size:39 final size:40
Alignment explanation
Indices: 36364560--36364759 Score: 181
Period size: 40 Copynumber: 5.0 Consensus size: 40
36364550 AATAATCCTG
* *
36364560 AATTTCACATACGTGCCCCTATTTGTACTTCGGTA-CCCTA
1 AATTGCACATGCGT-CCCCTATTTGTACTTCGGTACCCCTA
** * * *
36364600 AATTGCACATATGTGCCCTTGTTTGTACTTCGATACCCCTA
1 AATTGCACATGCGT-CCCCTATTTGTACTTCGGTACCCCTA
* * *
36364641 AATTACACATGCGTGCCCCTGTTTGTACTTCGGTACCCCTG
1 AATTGCACATGCGT-CCCCTATTTGTACTTCGGTACCCCTA
* * * *
36364682 AATTGCACATGCATCCCCT-TTTTTACTTCGGTACCCTTG
1 AATTGCACATGCGTCCCCTATTTGTACTTCGGTACCCCTA
* * * *
36364721 AATTGCAAAATGTG-CCCCTGTTTGTACTTTGGTACCCCT
1 AATTGC-ACATGCGTCCCCTATTTGTACTTCGGTACCCCT
36364760 GGAGGTGCTT
Statistics
Matches: 136, Mismatches: 21, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
39 29 0.21
40 55 0.40
41 52 0.38
ACGTcount: A:0.20, C:0.29, G:0.15, T:0.35
Consensus pattern (40 bp):
AATTGCACATGCGTCCCCTATTTGTACTTCGGTACCCCTA
Found at i:36365936 original size:12 final size:12
Alignment explanation
Indices: 36365919--36365952 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
36365909 CGGCCAGACC
36365919 ATATTAATTTTT
1 ATATTAATTTTT
*
36365931 ATATTATTTTTT
1 ATATTAATTTTT
36365943 ATA-TAATTTT
1 ATATTAATTTT
36365953 AAAATGTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:36383980 original size:52 final size:51
Alignment explanation
Indices: 36383872--36383973 Score: 129
Period size: 52 Copynumber: 2.0 Consensus size: 51
36383862 ACATAATATT
* * *
36383872 TAAATGTTAATGGTTAATATTTTTAGATTCAAGACTAAATTGACATGCTATA
1 TAAATATTAAGGGTTAATATTTTTAGATTCAAAACTAAATTGACA-GCTATA
36383924 TAAATATTAAGGGTTAA-ATTTTTTAGATTCAAAA-TCAAATTGACA-CTATA
1 TAAATATTAAGGGTTAATA-TTTTTAGATTCAAAACT-AAATTGACAGCTATA
36383974 CATAAATGTT
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
50 5 0.11
51 2 0.04
52 38 0.84
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (51 bp):
TAAATATTAAGGGTTAATATTTTTAGATTCAAAACTAAATTGACAGCTATA
Found at i:36390090 original size:17 final size:17
Alignment explanation
Indices: 36390068--36390105 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
36390058 GTTGCCTTGC
36390068 AGAATTTATACAACA-AT
1 AGAATTT-TACAACACAT
36390085 AGAA-TTTACAACACAT
1 AGAATTTTACAACACAT
36390101 AGAAT
1 AGAAT
36390106 AAGAAGGAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 7 0.37
16 8 0.42
17 4 0.21
ACGTcount: A:0.53, C:0.13, G:0.08, T:0.26
Consensus pattern (17 bp):
AGAATTTTACAACACAT
Found at i:36390096 original size:15 final size:16
Alignment explanation
Indices: 36390076--36390105 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
36390066 GCAGAATTTA
36390076 TACAACA-ATAGAATT
1 TACAACACATAGAATT
36390091 TACAACACATAGAAT
1 TACAACACATAGAAT
36390106 AAGAAGGAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.53, C:0.17, G:0.07, T:0.23
Consensus pattern (16 bp):
TACAACACATAGAATT
Found at i:36390829 original size:17 final size:17
Alignment explanation
Indices: 36390803--36390841 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
36390793 GGAGAGTCAG
*
36390803 CCAAACCCTAAAGTTCA
1 CCAAAACCTAAAGTTCA
*
36390820 CCAAAACCTAGAGTTCA
1 CCAAAACCTAAAGTTCA
*
36390837 TCAAA
1 CCAAA
36390842 TGGTGAATCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.44, C:0.31, G:0.08, T:0.18
Consensus pattern (17 bp):
CCAAAACCTAAAGTTCA
Found at i:36400257 original size:26 final size:27
Alignment explanation
Indices: 36400201--36400446 Score: 293
Period size: 27 Copynumber: 9.2 Consensus size: 27
36400191 ATTCGTGGAC
*
36400201 AAATGACCGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCAAAGGGTA
36400228 AAATGACCGAAATACCC-CAAAGGGTA
1 AAATGACCGAAATACCCTCAAAGGGTA
*
36400254 AAATGACCGAAATACCCTCGAA-GGT-
1 AAATGACCGAAATACCCTCAAAGGGTA
** *
36400279 AAATGATTGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCAAAGGGTA
* * *
36400306 AAATGACCCAAAAACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCAAAGGGTA
* *
36400333 AAATGATCGAAATACCCTCAAAGAGTA
1 AAATGACCGAAATACCCTCAAAGGGTA
* *
36400360 AAATGACCCAAATACCCTCAAAAGGTA
1 AAATGACCGAAATACCCTCAAAGGGTA
* * * *
36400387 AAACGATCAAAATACCCCCAAAGGGTA
1 AAATGACCGAAATACCCTCAAAGGGTA
* *
36400414 AAATGACCAAAATACCCCCATAA-GGTA
1 AAATGACCGAAATACCCTCA-AAGGGTA
36400441 AAATGA
1 AAATGA
36400447 TTGTTATACC
Statistics
Matches: 191, Mismatches: 24, Indels: 8
0.86 0.11 0.04
Matches are distributed among these distances:
25 20 0.10
26 31 0.16
27 138 0.72
28 2 0.01
ACGTcount: A:0.46, C:0.22, G:0.17, T:0.15
Consensus pattern (27 bp):
AAATGACCGAAATACCCTCAAAGGGTA
Found at i:36400832 original size:28 final size:28
Alignment explanation
Indices: 36400796--36400861 Score: 114
Period size: 28 Copynumber: 2.4 Consensus size: 28
36400786 ACTGCACTAT
*
36400796 ACTGTTACTGTATTGGGCTAAGGCCCAC
1 ACTGATACTGTATTGGGCTAAGGCCCAC
*
36400824 ACTGGTACTGTATTGGGCTAAGGCCCAC
1 ACTGATACTGTATTGGGCTAAGGCCCAC
36400852 ACTGATACTG
1 ACTGATACTG
36400862 CTTAGGGCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.23, C:0.24, G:0.26, T:0.27
Consensus pattern (28 bp):
ACTGATACTGTATTGGGCTAAGGCCCAC
Found at i:36400869 original size:28 final size:29
Alignment explanation
Indices: 36400796--36400890 Score: 97
Period size: 28 Copynumber: 3.4 Consensus size: 29
36400786 ACTGCACTAT
* *
36400796 ACTGTTACTG-TATTGGGCTAAGGCCCAC
1 ACTGATACTGCTATAGGGCTAAGGCCCAC
* *
36400824 ACTGGTACTG-TATTGGGCTAAGGCCCAC
1 ACTGATACTGCTATAGGGCTAAGGCCCAC
* * *
36400852 ACTGATACTGCT-TAGGGCTCAGGCCTAG
1 ACTGATACTGCTATAGGGCTAAGGCCCAC
*
36400880 ACTGTTACTGC
1 ACTGATACTGC
36400891 ATGTCGTATA
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
28 58 0.98
29 1 0.02
ACGTcount: A:0.21, C:0.25, G:0.26, T:0.27
Consensus pattern (29 bp):
ACTGATACTGCTATAGGGCTAAGGCCCAC
Found at i:36402699 original size:48 final size:48
Alignment explanation
Indices: 36402643--36402737 Score: 145
Period size: 48 Copynumber: 2.0 Consensus size: 48
36402633 TGCCACGAAC
* * *
36402643 CGCTCCAAGTGTGGGCACGAATAATCATGAATCAAACACAAAACCAGT
1 CGCTCCAAGTATGGACACGAATAATCACGAATCAAACACAAAACCAGT
* *
36402691 CGCTCCAAGTATGGACTCGAATAATCACGAATCAAACACAGAACCAG
1 CGCTCCAAGTATGGACACGAATAATCACGAATCAAACACAAAACCAG
36402738 AAATAATTTG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.40, C:0.26, G:0.18, T:0.16
Consensus pattern (48 bp):
CGCTCCAAGTATGGACACGAATAATCACGAATCAAACACAAAACCAGT
Found at i:36417032 original size:12 final size:12
Alignment explanation
Indices: 36417015--36417047 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
36417005 TCAAAACTAA
*
36417015 ATTTTGCTGAAC
1 ATTTTGCTAAAC
36417027 ATTTTGCTAAAC
1 ATTTTGCTAAAC
36417039 ATTTTGCTA
1 ATTTTGCTA
36417048 TGGCAGGAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.45
Consensus pattern (12 bp):
ATTTTGCTAAAC
Found at i:36418938 original size:28 final size:28
Alignment explanation
Indices: 36418888--36418994 Score: 92
Period size: 29 Copynumber: 3.8 Consensus size: 28
36418878 AAAAGGATGA
*
36418888 TGACGACCATC-AACTATTAAAAGGGATAG
1 TGACGACCATCGAA-TA-TGAAAGGGATAG
36418917 TGACGACCATCGAATATGAAAGGGATAG
1 TGACGACCATCGAATATGAAAGGGATAG
* * * * * *
36418945 CT-TCGGCTATGGATTATGAAAAGGGATGG
1 -TGACGACCATCGAATATG-AAAGGGATAG
*
36418974 TGACGACCATTGAATATGAAA
1 TGACGACCATCGAATATGAAA
36418995 AGGGTCGGTT
Statistics
Matches: 62, Mismatches: 12, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
28 26 0.42
29 34 0.55
30 2 0.03
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.22
Consensus pattern (28 bp):
TGACGACCATCGAATATGAAAGGGATAG
Found at i:36425710 original size:33 final size:32
Alignment explanation
Indices: 36425668--36425764 Score: 114
Period size: 28 Copynumber: 3.1 Consensus size: 32
36425658 CATGCAGAAT
*
36425668 CAGTGTGGGCCTGAGCCCTATATAGTATCAGTA
1 CAGTGTGGGCCTTAGCCC-ATATAGTATCAGTA
36425701 CAGTGTGGGCCTTAG-CC-TAT--TA-CAGTTA
1 CAGTGTGGGCCTTAGCCCATATAGTATCAG-TA
36425729 CAGTGTGGGCCTTAGCCCAATATAGTAATCAGTA
1 CAGTGTGGGCCTTAGCCC-ATATAGT-ATCAGTA
36425763 CA
1 CA
36425765 ATGCAGTTAT
Statistics
Matches: 55, Mismatches: 1, Indels: 15
0.77 0.01 0.21
Matches are distributed among these distances:
27 3 0.05
28 19 0.35
29 2 0.04
30 3 0.05
31 3 0.05
32 2 0.04
33 15 0.27
34 5 0.09
35 3 0.05
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.28
Consensus pattern (32 bp):
CAGTGTGGGCCTTAGCCCATATAGTATCAGTA
Found at i:36425891 original size:26 final size:26
Alignment explanation
Indices: 36425869--36425940 Score: 108
Period size: 26 Copynumber: 2.8 Consensus size: 26
36425859 ACCAATATCG
** *
36425869 CAGCAAAGCTGGTAGTAATAATAACA
1 CAGCAAAGCTGCCAGTAACAATAACA
36425895 CAGCAAAGCTGCCAGTAACAATAACA
1 CAGCAAAGCTGCCAGTAACAATAACA
*
36425921 CAGCAAAGCTGCCAATAACA
1 CAGCAAAGCTGCCAGTAACA
36425941 GTATATGTGG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.46, C:0.24, G:0.17, T:0.14
Consensus pattern (26 bp):
CAGCAAAGCTGCCAGTAACAATAACA
Found at i:36426139 original size:27 final size:27
Alignment explanation
Indices: 36426109--36426376 Score: 290
Period size: 27 Copynumber: 9.9 Consensus size: 27
36426099 TTTTAACTTC
36426109 TAGGGGTATTTCGGTAATTTTACCCTT
1 TAGGGGTATTTCGGTAATTTTACCCTT
* * *
36426136 TAGGGTTATTTCGATAATTTTGCCCTT
1 TAGGGGTATTTCGGTAATTTTACCCTT
* *
36426163 TAGGGGTATTTCTGTAATTTTACCTTT
1 TAGGGGTATTTCGGTAATTTTACCCTT
* *
36426190 TAGGGGTATTTTGGTAATTTTACCTTT
1 TAGGGGTATTTCGGTAATTTTACCCTT
* *
36426217 TGGGGGTATTTCAGTAATTTTA-CCTT
1 TAGGGGTATTTCGGTAATTTTACCCTT
* *
36426243 TTGGAGGTATTTCGATAATTTTACCCTT
1 TAGG-GGTATTTCGGTAATTTTACCCTT
* ** *
36426271 CAGGGGTATTTTAGTAATTTTATCCTT
1 TAGGGGTATTTCGGTAATTTTACCCTT
* * *
36426298 CAAGGGTATTTCGATAATTTTACCC-T
1 TAGGGGTATTTCGGTAATTTTACCCTT
* * *
36426324 TCGAGGGTATTTCAGTACTTTTACCC-T
1 TAG-GGGTATTTCGGTAATTTTACCCTT
*
36426351 TCGAGGGTATTTCGGTAATTTTACCC
1 TAG-GGGTATTTCGGTAATTTTACCC
36426377 CCAATTCACA
Statistics
Matches: 202, Mismatches: 36, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
26 7 0.03
27 189 0.94
28 6 0.03
ACGTcount: A:0.20, C:0.15, G:0.20, T:0.46
Consensus pattern (27 bp):
TAGGGGTATTTCGGTAATTTTACCCTT
Found at i:36427076 original size:15 final size:14
Alignment explanation
Indices: 36427053--36427097 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 14
36427043 AATAAAGAGG
36427053 AGAAGAAGAGAAGA
1 AGAAGAAGAGAAGA
*
36427067 AGAGAGAAGAAAAAGA
1 AGA-AGAAG-AGAAGA
36427083 AGAAGAACGAGAAGA
1 AGAAGAA-GAGAAGA
36427098 TGGATTCAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 3 0.12
15 14 0.54
16 9 0.35
ACGTcount: A:0.64, C:0.02, G:0.33, T:0.00
Consensus pattern (14 bp):
AGAAGAAGAGAAGA
Found at i:36427077 original size:21 final size:20
Alignment explanation
Indices: 36427047--36427097 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
36427037 ACAAAAAATA
* *
36427047 AAGAGGAGAAG-AAGAGAAG
1 AAGAAGAGAAGAAAAAGAAG
36427066 AAG-AGAGAAGAAAAAGAAG
1 AAGAAGAGAAGAAAAAGAAG
36427085 AAGAACGAGAAGA
1 AAGAA-GAGAAGA
36427098 TGGATTCAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 6 0.22
19 13 0.48
20 1 0.04
21 7 0.26
ACGTcount: A:0.63, C:0.02, G:0.35, T:0.00
Consensus pattern (20 bp):
AAGAAGAGAAGAAAAAGAAG
Found at i:36427095 original size:12 final size:11
Alignment explanation
Indices: 36427047--36427097 Score: 63
Period size: 10 Copynumber: 4.8 Consensus size: 11
36427037 ACAAAAAATA
*
36427047 AAGAGGAGAAG
1 AAGAGAAGAAG
36427058 AAGAGAAGAAG
1 AAGAGAAGAAG
36427069 -AGAGAAGAA-
1 AAGAGAAGAAG
36427078 AA-AGAAGAAG
1 AAGAGAAGAAG
36427088 AACGAGAAGA
1 AA-GAGAAGA
36427098 TGGATTCAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
9 7 0.20
10 12 0.34
11 10 0.29
12 6 0.17
ACGTcount: A:0.63, C:0.02, G:0.35, T:0.00
Consensus pattern (11 bp):
AAGAGAAGAAG
Found at i:36428181 original size:72 final size:68
Alignment explanation
Indices: 36428048--36428185 Score: 199
Period size: 72 Copynumber: 2.0 Consensus size: 68
36428038 TTTAATAGAT
*
36428048 TTAATATTAAATTTCATTTAATATTTATCGTAATAAAATTTTATTAATTTAATATATAAGTGATT
1 TTAATATTAAATTTAATTTAATATTTATCGTAATAAAATTTTATTAATTTAATATATAAGTGATT
36428113 ATC
66 ATC
36428116 TTAATATTAAATTTAATTTAAT-TTCTATCTTGTAGATAAATATTTTATTAATTTAATAT-TAAA
1 TTAATATTAAATTTAATTTAATATT-TATC--GTA-ATAAA-ATTTTATTAATTTAATATAT-AA
36428179 GTGATTA
60 GTGATTA
36428186 AGTTTAATCA
Statistics
Matches: 63, Mismatches: 1, Indels: 8
0.88 0.01 0.11
Matches are distributed among these distances:
67 2 0.03
68 25 0.40
70 3 0.05
71 6 0.10
72 27 0.43
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.51
Consensus pattern (68 bp):
TTAATATTAAATTTAATTTAATATTTATCGTAATAAAATTTTATTAATTTAATATATAAGTGATT
ATC
Found at i:36429188 original size:35 final size:35
Alignment explanation
Indices: 36429144--36429229 Score: 109
Period size: 35 Copynumber: 2.5 Consensus size: 35
36429134 CTCTTTCAAA
*
36429144 GTGTTGCTCCGTAGAGCCAGTAGACCATTTCCATG
1 GTGTCGCTCCGTAGAGCCAGTAGACCATTTCCATG
* * *
36429179 GTGTCGCTCCATAGAGCCTGTAGACCATTTTCATG
1 GTGTCGCTCCGTAGAGCCAGTAGACCATTTCCATG
* * *
36429214 TTGTCACTCTGTAGAG
1 GTGTCGCTCCGTAGAG
36429230 TTTCTAGACT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.31
Consensus pattern (35 bp):
GTGTCGCTCCGTAGAGCCAGTAGACCATTTCCATG
Found at i:36432709 original size:51 final size:51
Alignment explanation
Indices: 36432650--36432770 Score: 206
Period size: 51 Copynumber: 2.4 Consensus size: 51
36432640 CCTCTCTCAT
* *
36432650 ATTTCCTCTCAATTTCCTTCCAAAATTCTCTCAAATCTATATTTAATTTCA
1 ATTTCCTCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATTTCA
*
36432701 ATTTCCTCTCAATTTCCTTCAAAAATTCTCTTAAATCCATATTTAATTTCA
1 ATTTCCTCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATTTCA
*
36432752 ATTTCTTCTCAATTTCCTT
1 ATTTCCTCTCAATTTCCTT
36432771 TTTAAAAATA
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 66 1.00
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (51 bp):
ATTTCCTCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATTTCA
Found at i:36433866 original size:7 final size:7
Alignment explanation
Indices: 36433854--36433878 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
36433844 ATTTGATTGA
36433854 TATTTAG
1 TATTTAG
36433861 TATTTAG
1 TATTTAG
36433868 TATTTAG
1 TATTTAG
36433875 TATT
1 TATT
36433879 ATGTATGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:36434557 original size:18 final size:18
Alignment explanation
Indices: 36434531--36434565 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
36434521 AGGTGCTTTT
*
36434531 CCTAGCCCTTATATGTAC
1 CCTAACCCTTATATGTAC
36434549 CCTAACCCTTATATGTA
1 CCTAACCCTTATATGTA
36434566 TCCTTTTTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (18 bp):
CCTAACCCTTATATGTAC
Found at i:36435023 original size:44 final size:45
Alignment explanation
Indices: 36434975--36435061 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 45
36434965 ATATTTTGAA
*
36434975 TATTTTGATATTATTTTATGTAAAAAAATAGAAATTT-TTTGAGT
1 TATTTTGATATTATTTGATGTAAAAAAATAGAAATTTATTTGAGT
* *
36435019 TATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGA
1 TATTTTGATATTATTTGATGTAAAAAAATAGAAATTTATTTGA
36435062 TGTAATAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 34 0.87
45 5 0.13
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (45 bp):
TATTTTGATATTATTTGATGTAAAAAAATAGAAATTTATTTGAGT
Found at i:36435099 original size:23 final size:23
Alignment explanation
Indices: 36435067--36435509 Score: 469
Period size: 23 Copynumber: 18.6 Consensus size: 23
36435057 TTTGATGTAA
36435067 TAAAAACCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
*
36435090 TAAAAGCCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
36435113 TAAAAACCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
36435136 TAAAAACCCTAGCCTAACCTAATTTAAT
1 TAAAAA--C---CCTAACCTAATTTAAT
36435164 TAAAAACCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
*
36435187 TAAAAACCCTAAACC---CTTAAT
1 TAAAAACCCT-AACCTAATTTAAT
36435208 TAAAAACCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
36435231 TAAAAACCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
*
36435254 TAAAAACCTTAAACCCTTAA-TTAA-
1 TAAAAACCCT-AA-CC-TAATTTAAT
*
36435278 -AAACCCTAACCCTAACCTAATTCAAT
1 TAAA----AACCCTAACCTAATTTAAT
*
36435304 TAAAAACCCTAAACC---CTTAACT
1 TAAAAACCCT-AACCTAATTTAA-T
*
36435326 TAAAAACCCTAACCTAATTCAAT
1 TAAAAACCCTAACCTAATTTAAT
36435349 TAAAAACCATAGCTTAACCTAATTTAAT
1 TAAAAACC----C-TAACCTAATTTAAT
36435377 TAAAAACCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
*
36435400 TAAAAACCCTAAACC---CTTAACT
1 TAAAAACCCT-AACCTAATTTAA-T
* *
36435422 TAAAAACCTTAACCTAATTTGAT
1 TAAAAACCCTAACCTAATTTAAT
36435445 TAAAAACCCTAGCCTAACCTAATTTAAT
1 TAAAAA--C---CCTAACCTAATTTAAT
*
36435473 TAAAACCCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
36435496 TAAAAACCCTAACC
1 TAAAAACCCTAACC
36435510 CTAACCATTA
Statistics
Matches: 361, Mismatches: 20, Indels: 78
0.79 0.04 0.17
Matches are distributed among these distances:
20 4 0.01
21 30 0.08
22 21 0.06
23 191 0.53
24 24 0.07
25 13 0.04
26 7 0.02
27 9 0.02
28 62 0.17
ACGTcount: A:0.46, C:0.25, G:0.01, T:0.28
Consensus pattern (23 bp):
TAAAAACCCTAACCTAATTTAAT
Found at i:36435152 original size:51 final size:47
Alignment explanation
Indices: 36435067--36435509 Score: 438
Period size: 51 Copynumber: 9.3 Consensus size: 47
36435057 TTTGATGTAA
*
36435067 TAAAAACCCTAACCTAATTTAATT-AAAAGCCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAATTAAAAACCCCTAACCTAATTTAAT
36435113 TAAAAACCCTAACCTAATTTAATTAAAAACCCTAGCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAATTAAAAA-CC---CCTAACCTAATTTAAT
*
36435164 TAAAAACCCTAACCTAATTTAATTAAAAA-CCCTAAACC---CTTAAT
1 TAAAAACCCTAACCTAATTTAATTAAAAACCCCT-AACCTAATTTAAT
36435208 TAAAAACCCTAACCTAATTTAATTAAAAA-CCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAATTAAAAACCCCTAACCTAATTTAAT
* * *
36435254 TAAAAACCTTAAACC---CTTAATTAAAAACCCTAACCCTAACCTAATTCAAT
1 TAAAAACCCT-AACCTAATTTAATTAAAAA--C---CCCTAACCTAATTTAAT
* *
36435304 TAAAAACCCTAAACC---CTTAACTTAAAAA-CCCTAACCTAATTCAAT
1 TAAAAACCCT-AACCTAATTTAA-TTAAAAACCCCTAACCTAATTTAAT
36435349 TAAAAACCATAGCTTAACCTAATTTAATTAAAAA-CCCTAACCTAATTTAAT
1 TAAAAACC----C-TAACCTAATTTAATTAAAAACCCCTAACCTAATTTAAT
* * *
36435400 TAAAAACCCTAAACC---CTTAACTTAAAAA-CCTTAACCTAATTTGAT
1 TAAAAACCCT-AACCTAATTTAA-TTAAAAACCCCTAACCTAATTTAAT
36435445 TAAAAACCCTAGCCTAACCTAATTTAATT-AAAACCCCTAACCTAATTTAAT
1 TAAAAA--C---CCTAACCTAATTTAATTAAAAACCCCTAACCTAATTTAAT
36435496 TAAAAACCCTAACC
1 TAAAAACCCTAACC
36435510 CTAACCATTA
Statistics
Matches: 346, Mismatches: 15, Indels: 72
0.80 0.03 0.17
Matches are distributed among these distances:
43 4 0.01
44 53 0.15
45 53 0.15
46 49 0.14
47 18 0.05
48 1 0.00
49 11 0.03
50 43 0.12
51 106 0.31
52 8 0.02
ACGTcount: A:0.46, C:0.25, G:0.01, T:0.28
Consensus pattern (47 bp):
TAAAAACCCTAACCTAATTTAATTAAAAACCCCTAACCTAATTTAAT
Found at i:36435268 original size:30 final size:30
Alignment explanation
Indices: 36435234--36435320 Score: 86
Period size: 21 Copynumber: 3.2 Consensus size: 30
36435224 ATTTAATTAA
*
36435234 AAACCCTAACCTAATTTAATTAAAAACCTT
1 AAACCCTAACCTAATTTAATTAAAAACCCT
36435264 AAA--C---CC---T-TAATTAAAAACCCT
1 AAACCCTAACCTAATTTAATTAAAAACCCT
*
36435285 -AACCCTAACCTAATTCAATTAAAAACCCT
1 AAACCCTAACCTAATTTAATTAAAAACCCT
36435314 AAACCCT
1 AAACCCT
36435321 TAACTTAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 20
0.67 0.03 0.30
Matches are distributed among these distances:
20 2 0.04
21 13 0.29
22 2 0.04
25 4 0.09
28 2 0.04
29 13 0.29
30 9 0.20
ACGTcount: A:0.46, C:0.29, G:0.00, T:0.25
Consensus pattern (30 bp):
AAACCCTAACCTAATTTAATTAAAAACCCT
Found at i:36435401 original size:96 final size:91
Alignment explanation
Indices: 36435067--36435511 Score: 462
Period size: 96 Copynumber: 4.7 Consensus size: 91
36435057 TTTGATGTAA
*
36435067 TAAAAACC-C-TAACCTAATTTAATTAAAAGCCCTAACCTAATTTAATTAAAAACCCTAACCTAA
1 TAAAAACCTCTTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACC---
*
36435130 TTTAATTAAAAACCCTAGCCTAACCTAATTTAAT
63 CTTAATTAAAAA--C---CCTAACCTAATTTAAT
*
36435164 TAAAAACC-C-TAACCTAATTTAATTAAAAACCCTAAACC---CTTAATTAAAAACCCTAACCTA
1 TAAAAACCTCTTAACCTAATTTAATTAAAAACCCT-AACCTAATTTAATTAAAAACCCTAACC--
*
36435224 ATTTAATTAAAAACCCTAACCTAATTTAAT
63 -CTTAATTAAAAACCCTAACCTAATTTAAT
* *
36435254 TAAAAACCT-TAAACCCTTAA-TTAA--AAACCCTAACCCTAACCTAATTCAATTAAAAACCCTA
1 TAAAAACCTCTTAA-CC-TAATTTAATTAAA----AACCCTAACCTAATTTAATTAAAAACCCT-
*
36435315 AACCCTTAACTTAAAAACCCTAACCTAATTCAAT
59 AACCCTTAA-TTAAAAACCCTAACCTAATTTAAT
36435349 TAAAAACCATAGCTTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAAC
1 TAAAAACC-T--CTTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCT-AAC
* *
36435414 CCTTAACTTAAAAACCTTAACCTAATTTGAT
62 CCTTAA-TTAAAAACCCTAACCTAATTTAAT
* *
36435445 TAAAAACCCTAGCCTAACCTAATTTAATTAAAACCCCTAACCTAATTTAATTAAAAACCCTAACC
1 TAAAAA-CCT--CTTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACC
36435510 CT
63 CT
36435512 AACCATTAAT
Statistics
Matches: 312, Mismatches: 14, Indels: 46
0.84 0.04 0.12
Matches are distributed among these distances:
90 27 0.09
91 2 0.01
92 6 0.02
93 8 0.03
94 10 0.03
95 71 0.23
96 131 0.42
97 41 0.13
98 10 0.03
99 3 0.01
100 3 0.01
ACGTcount: A:0.46, C:0.25, G:0.01, T:0.28
Consensus pattern (91 bp):
TAAAAACCTCTTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTT
AATTAAAAACCCTAACCTAATTTAAT
Found at i:36435520 original size:73 final size:72
Alignment explanation
Indices: 36435171--36435520 Score: 208
Period size: 73 Copynumber: 4.9 Consensus size: 72
36435161 AATTAAAAAC
**
36435171 CCTAACCTAATTTAATTAAAAACCCTAAACCCTTAA-TTAAAAACCCTAACCTAATTTAATTAAA
1 CCTAACCTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCTAA-TCCATTAAA
36435235 AA--C---
65 AACCCTAG
* *
36435238 CCTAACCTAATTTAATTAAAAACCTTAAACCCTTAA-TTAAAAACCCTAACCCTAACCTAATTCA
1 CCTAACCTAATTTAATTAAAAACCCTAAACCCTTAACTT--AAA----AACCCTAACCTAA-TCC
36435302 ATTAAAAACCCTA-
59 ATTAAAAACCCTAG
* *
36435315 ---AACC---CTTAACTTAAAAACCCT-AACCTAATTCAA-TTAAAAACCATAGCTTAACCTAAT
1 CCTAACCTAATTTAA-TTAAAAACCCTAAACC--CTT-AACTTAAAAACC----C-TAACCTAA-
**
36435372 TTAATTAAAAA--C---
56 TCCATTAAAAACCCTAG
* **
36435384 CCTAACCTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAACCTTAACCTAATTTGATTAAA
1 CCTAACCTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCTAA-TCCATTAAA
36435449 AACCCTAG
65 AACCCTAG
* *
36435457 CCTAACCTAATTTAATTAAAACCCCT-AACCTAATTTAA-TTAAAAACCCTAACCCTAA-CCATT
1 CCTAACCTAATTTAATTAAAAACCCTAAACC---CTTAACTTAAAAACCCTAA-CCTAATCCATT
36435519 AA
62 AA
36435521 TACAATTTTT
Statistics
Matches: 232, Mismatches: 15, Indels: 66
0.74 0.05 0.21
Matches are distributed among these distances:
67 37 0.16
68 23 0.10
69 3 0.01
70 1 0.00
71 9 0.04
72 24 0.10
73 86 0.37
74 31 0.13
75 18 0.08
ACGTcount: A:0.46, C:0.25, G:0.01, T:0.28
Consensus pattern (72 bp):
CCTAACCTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCTAATCCATTAAAA
ACCCTAG
Found at i:36438991 original size:126 final size:125
Alignment explanation
Indices: 36438681--36439031 Score: 546
Period size: 126 Copynumber: 2.8 Consensus size: 125
36438671 CCTAAACATG
* * *
36438681 CTACTGTAGCAAAATCACGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
36438746 TAGAAGCGATTTTATATTATTTGCTCAGAAACGTC--AAAAAAATTATTTCTTACATGAC
66 TAGAAGCGATTTTATATTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTACATGAC
* * *
36438804 CTACTGTAGCAAAAGCGC-TCTGACGAGGCCGCAATTTCACAAATTCTTCTCAAATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTC-CACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTG
* * *
36438868 CTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATAATTATTTCTTTCGTGAC
65 CTAGAAGCGATTTTATATTATTTGCTCAGAAACGTCAAAAAAA-AATTATTTCTTACATGAC
* *
36438930 CTACTGTAGCAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTCTCAAATACCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
**
36438995 TAGAAGCGATTTTATATTATTTTATCAGAAACGTCAA
66 TAGAAGCGATTTTATATTATTTGCTCAGAAACGTCAA
36439032 CTCGAAATTA
Statistics
Matches: 206, Mismatches: 17, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
122 2 0.01
123 90 0.44
125 5 0.02
126 107 0.52
127 2 0.01
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATATTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTACATGAC
Found at i:36443066 original size:3 final size:3
Alignment explanation
Indices: 36443058--36443115 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
36443048 TCTCCTTCAA
36443058 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
36443106 AAT AAT AAT A
1 AAT AAT AAT A
36443116 TGAACTCAGT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:36448513 original size:40 final size:40
Alignment explanation
Indices: 36448476--36448700 Score: 280
Period size: 40 Copynumber: 5.7 Consensus size: 40
36448466 GCTACTCGTT
* *
36448476 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
36448516 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
36448556 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
**
36448596 CAAATGCCTTC-GGATCTTAGTCCGGA-TTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
** * * * *
36448635 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
36448676 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
36448701 CATCATTCAA
Statistics
Matches: 171, Mismatches: 9, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
39 42 0.25
40 116 0.68
41 13 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:36448660 original size:119 final size:120
Alignment explanation
Indices: 36448476--36448700 Score: 305
Period size: 119 Copynumber: 1.9 Consensus size: 120
36448466 GCTACTCGTT
*
36448476 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
36448541 ATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * **
36448596 CAAATGCCTTC-GGATCTTAGTCCGGAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGA-CATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* * *
36448658 GGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 GGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
36448701 CATCATTCAA
Statistics
Matches: 92, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
118 3 0.03
119 61 0.66
120 28 0.30
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:36456705 original size:39 final size:39
Alignment explanation
Indices: 36456584--36456805 Score: 281
Period size: 40 Copynumber: 5.7 Consensus size: 39
36456574 GCTACTCGTT
* *
36456584 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAT-TAGTAACTCGCA
*
36456624 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-TTAGTAACTCGCA
*
36456664 CAAATGCCTTCGGGACTTAACCCGGATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
* *
36456703 CAAATGCCTTC-GGATCTTAGTCCGGATTAGT-ACTCGTA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTAGTAACTCGCA
* * * *
36456741 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TAGTAACTCGCA
36456781 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
36456806 CATCATTCAA
Statistics
Matches: 167, Mismatches: 10, Indels: 11
0.89 0.05 0.06
Matches are distributed among these distances:
38 36 0.22
39 57 0.34
40 73 0.44
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
Found at i:36456789 original size:77 final size:78
Alignment explanation
Indices: 36456565--36456805 Score: 301
Period size: 77 Copynumber: 3.1 Consensus size: 78
36456555 CGGAATTTAA
* * *
36456565 CCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATG
1 CCGGAT-TAG-TACTCGTACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
36456630 CCTTCGGGACTTAAC
64 CCTTCGGGACTTAGC
* *
36456645 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT-TAGTAACTCGCACAAATG
1 CCGGA-TTAGT-ACTCGTACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
36456709 CCTTC-GGATCTTAGT
64 CCTTCGGGA-CTTAGC
* * * *
36456724 CCGGATTAGTACTCGTACAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTAGCACAAA-GC
1 CCGGATTAGTACTCGTACAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTCGCACAAATGC
36456787 CTTCGGGACTTAGC
65 CTTCGGGACTTAGC
36456801 CCGGA
1 CCGGA
36456806 CATCATTCAA
Statistics
Matches: 141, Mismatches: 14, Indels: 15
0.83 0.08 0.09
Matches are distributed among these distances:
76 3 0.02
77 43 0.30
78 24 0.17
79 33 0.23
80 37 0.26
81 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (78 bp):
CCGGATTAGTACTCGTACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCC
TTCGGGACTTAGC
Found at i:36471819 original size:10 final size:10
Alignment explanation
Indices: 36471804--36471853 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
36471794 CAACCTGAAA
36471804 AATTAAAAAT
1 AATTAAAAAT
36471814 AATT--AAAT
1 AATTAAAAAT
*
36471822 AAATAAAAAT
1 AATTAAAAAT
* *
36471832 AAATAAACAAA
1 AATTAAA-AAT
36471843 AATTAAAAAT
1 AATTAAAAAT
36471853 A
1 A
36471854 TCGTATTTAG
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
8 7 0.21
10 18 0.55
11 8 0.24
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (10 bp):
AATTAAAAAT
Found at i:36474766 original size:5 final size:5
Alignment explanation
Indices: 36474756--36474780 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
36474746 CAATTTCTCC
36474756 ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
36474781 TGCATAGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:36485913 original size:20 final size:20
Alignment explanation
Indices: 36485890--36485937 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
36485880 AATGAATTCA
* *
36485890 ACTTGATTGAAATCATTTTG-
1 ACTTGATTAAAACCA-TTTGC
*
36485910 ACTTGGTTAAAACCATTTGC
1 ACTTGATTAAAACCATTTGC
36485930 ACTTGATT
1 ACTTGATT
36485938 TTAAAATTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.42
Consensus pattern (20 bp):
ACTTGATTAAAACCATTTGC
Found at i:36486377 original size:23 final size:22
Alignment explanation
Indices: 36486338--36486388 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
36486328 ATATTTTAAT
36486338 ATTTTT-TATATTTTTTTTCTA
1 ATTTTTATATATTTTTTTTCTA
*
36486359 ATTTTTATTTATTTATTTTTCTA
1 ATTTTTATATATTT-TTTTTCTA
36486382 ATTTTTA
1 ATTTTTA
36486389 AAATATATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 6 0.22
22 6 0.22
23 15 0.56
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.75
Consensus pattern (22 bp):
ATTTTTATATATTTTTTTTCTA
Found at i:36487012 original size:13 final size:12
Alignment explanation
Indices: 36486983--36487010 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
36486973 TTATTTTTTA
36486983 TTTTAAAATACT
1 TTTTAAAATACT
36486995 TTTTAAAATACT
1 TTTTAAAATACT
36487007 TTTT
1 TTTT
36487011 TATTTTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (12 bp):
TTTTAAAATACT
Found at i:36503356 original size:15 final size:15
Alignment explanation
Indices: 36503332--36503368 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
36503322 GAAGTCCGCC
36503332 AAGA-CATATTGTGT
1 AAGACCATATTGTGT
36503346 AAGACCATATTGTGT
1 AAGACCATATTGTGT
36503361 AAGACCAT
1 AAGACCAT
36503369 GGTTGGATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 4 0.18
15 18 0.82
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.30
Consensus pattern (15 bp):
AAGACCATATTGTGT
Found at i:36509167 original size:3 final size:3
Alignment explanation
Indices: 36509159--36509187 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
36509149 TTTATGTATC
36509159 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
36509188 TACTTAATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:36509315 original size:31 final size:31
Alignment explanation
Indices: 36509279--36509340 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
36509269 AGATAATTTT
36509279 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
36509310 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
36509341 TAATTTTCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (31 bp):
AAAGAGTTTTATTAGGATTCAATTACTCTTG
Found at i:36515474 original size:31 final size:31
Alignment explanation
Indices: 36515438--36515499 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
36515428 AGATAATTTT
36515438 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
36515469 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
36515500 TAATTTGCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (31 bp):
AAAGAGTTTTATTAGGATTCAATTACTCTTG
Found at i:36515807 original size:3 final size:3
Alignment explanation
Indices: 36515799--36515824 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
36515789 ATCTATCCTT
36515799 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
36515825 TAACTAATTT
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:36522957 original size:4 final size:4
Alignment explanation
Indices: 36522948--36522978 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
36522938 ATTGAGTCTA
36522948 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT
36522979 TGTTAATTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTC
Found at i:36531688 original size:54 final size:54
Alignment explanation
Indices: 36531606--36531709 Score: 145
Period size: 54 Copynumber: 1.9 Consensus size: 54
36531596 AAAGCTGGAT
* * *
36531606 CCATGTGTAAATGAGTCATACAGCCATGTAGCCAAGCCGTGTAACTAACTAAAG
1 CCATGTGTAAATGAGTCACACAACCATGTAGCCAAGCCGTGCAACTAACTAAAG
* * **
36531660 CCATGTGTAAATGAGTCACATAACCATGTTGCCAAGTTGTGCAACTAACT
1 CCATGTGTAAATGAGTCACACAACCATGTAGCCAAGCCGTGCAACTAACT
36531710 GAAGTTGTGT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 43 1.00
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (54 bp):
CCATGTGTAAATGAGTCACACAACCATGTAGCCAAGCCGTGCAACTAACTAAAG
Done.