Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 154 of 313
Found at i:48788040 original size:23 final size:22
Alignment explanation
Indices: 48788008--48788069 Score: 79
Period size: 22 Copynumber: 2.7 Consensus size: 22
48787998 CCCGGCCCGT
* *
48788008 TTTTTAATTAAAATTATAATTATA
1 TTTTT-ATTAAAATTAAAACTA-A
48788032 TTTTTATTAAAATTAAAACTAA
1 TTTTTATTAAAATTAAAACTAA
*
48788054 TTGTTATTAAAATTAA
1 TTTTTATTAAAATTAA
48788070 TTGTTATCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
22 16 0.46
23 14 0.40
24 5 0.14
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (22 bp):
TTTTTATTAAAATTAAAACTAA
Found at i:48788064 original size:16 final size:16
Alignment explanation
Indices: 48788043--48788095 Score: 88
Period size: 16 Copynumber: 3.3 Consensus size: 16
48788033 TTTTATTAAA
*
48788043 ATTAAAACTAATTGTT
1 ATTAAAATTAATTGTT
48788059 ATTAAAATTAATTGTT
1 ATTAAAATTAATTGTT
*
48788075 ATCAAAATTAATTGTT
1 ATTAAAATTAATTGTT
48788091 ATTAA
1 ATTAA
48788096 CATTGTATCA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (16 bp):
ATTAAAATTAATTGTT
Found at i:48788232 original size:83 final size:83
Alignment explanation
Indices: 48788145--48788396 Score: 468
Period size: 83 Copynumber: 3.0 Consensus size: 83
48788135 TTTATAAAAT
48788145 CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTAATAAAATTATCAAATT
1 CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTAATAAAATTATCAAATT
48788210 ATTAATTATTAATTGTTA
66 ATTAATTATTAATTGTTA
48788228 CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTAATAAAATTATCAAATT
1 CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTAATAAAATTATCAAATT
48788293 ATTAATTATTAATTGTTA
66 ATTAATTATTAATTGTTA
*
48788311 CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTAGTAAAATTATCAAATT
1 CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTAATAAAATTATCAAATT
48788376 ATATCAAATTATTAATTGTTA
66 AT-T--AATTATTAATTGTTA
48788397 ATTGTATTAA
Statistics
Matches: 165, Mismatches: 1, Indels: 3
0.98 0.01 0.02
Matches are distributed among these distances:
83 149 0.90
84 1 0.01
86 15 0.09
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.49
Consensus pattern (83 bp):
CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTAATAAAATTATCAAATT
ATTAATTATTAATTGTTA
Found at i:48788262 original size:40 final size:40
Alignment explanation
Indices: 48788205--48788348 Score: 159
Period size: 40 Copynumber: 3.5 Consensus size: 40
48788195 TAAAATTATC
48788205 AAATTATTAATTATTAATTGTTACTAACATTTTGTTAGTA
1 AAATTATTAATTATTAATTGTTACTAACATTTTGTTAGTA
* * * * *
48788245 AAATTATTAATTGTTAATTG-TATTAA-TTGTTAATAAAATTA-TC
1 AAATTATTAATTATTAATTGTTACTAACAT-TT--T---GTTAGTA
48788288 AAATTATTAATTATTAATTGTTACTAACATTTTGTTAGTA
1 AAATTATTAATTATTAATTGTTACTAACATTTTGTTAGTA
*
48788328 AAATTATTAATTGTTAATTGT
1 AAATTATTAATTATTAATTGT
48788349 ATTAATTGTT
Statistics
Matches: 84, Mismatches: 11, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
38 1 0.01
39 10 0.12
40 40 0.48
41 1 0.01
42 1 0.01
43 20 0.24
44 10 0.12
45 1 0.01
ACGTcount: A:0.39, C:0.03, G:0.08, T:0.50
Consensus pattern (40 bp):
AAATTATTAATTATTAATTGTTACTAACATTTTGTTAGTA
Found at i:48788458 original size:10 final size:10
Alignment explanation
Indices: 48788443--48788468 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
48788433 TTAGTAAAAT
48788443 TATCAAATTA
1 TATCAAATTA
48788453 TATCAAATTA
1 TATCAAATTA
48788463 TATCAA
1 TATCAA
48788469 GTTTACCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (10 bp):
TATCAAATTA
Found at i:48790850 original size:43 final size:43
Alignment explanation
Indices: 48790744--48791000 Score: 185
Period size: 43 Copynumber: 6.0 Consensus size: 43
48790734 TATAAATAAG
* * * * *
48790744 CGCCGCTAAAGGTCAGGATCTTTAGCGG-CGCTTTTCCAAAAA
1 CGCCGCTAAAGATCATGACCTTTAGCGGCCCCTTTTCCACAAA
* ** ** *
48790786 CTCTACTAAAGGCCATGACCTTTAGCGGCCCCTTTCCCACAAA
1 CGCCGCTAAAGATCATGACCTTTAGCGGCCCCTTTTCCACAAA
** *** *
48790829 CGCCGCTAAAGATCATGACCTTTAGCGG-TGCTTATAAAAAAAA
1 CGCCGCTAAAGATCATGACCTTTAGCGGCCCCTT-TTCCACAAA
* * * * *
48790872 TGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTTCCACAAA
1 CGCCGCTAAAGATCATGACCTTTAGCGGCCCCTTTTCCACAAA
* * * * * **
48790915 TGCCGCTATAGATCTTGACCTTTAGCGGCGCTTTTTGAACAAA
1 CGCCGCTAAAGATCATGACCTTTAGCGGCCCCTTTTCCACAAA
* * * * *
48790958 CGCCGCTACAGATCATGACTTTTAGCGGCGCTTTTTTCACAAA
1 CGCCGCTAAAGATCATGACCTTTAGCGGCCCCTTTTCCACAAA
48791001 TGCCTCTGAA
Statistics
Matches: 172, Mismatches: 40, Indels: 5
0.79 0.18 0.02
Matches are distributed among these distances:
42 25 0.15
43 145 0.84
44 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (43 bp):
CGCCGCTAAAGATCATGACCTTTAGCGGCCCCTTTTCCACAAA
Found at i:48791001 original size:86 final size:86
Alignment explanation
Indices: 48790799--48791004 Score: 277
Period size: 86 Copynumber: 2.4 Consensus size: 86
48790789 TACTAAAGGC
* * * * * *
48790799 CATGACCTTTAGCGGCCCCTTTCCCACAAACGCCGCTAAAGATCATGACCTTTAGCGGTGCTTAT
1 CATGACTTTTAGCGGCGCTTTTTCCACAAATGCCGCTAAAGATCATGACCTTTAGCGGCGCTTAT
* *
48790864 AAAAAAAATGCCGCTATAGAT
66 AAAAAAAACGCCGCTACAGAT
* * *
48790885 CATGACTTTTAGCGGCGCTTTTTCCACAAATGCCGCTATAGATCTTGACCTTTAGCGGCGCTTTT
1 CATGACTTTTAGCGGCGCTTTTTCCACAAATGCCGCTAAAGATCATGACCTTTAGCGGCGCTTAT
** *
48790950 TGAACAAACGCCGCTACAGAT
66 AAAAAAAACGCCGCTACAGAT
*
48790971 CATGACTTTTAGCGGCGCTTTTTTCACAAATGCC
1 CATGACTTTTAGCGGCGCTTTTTCCACAAATGCC
48791005 TCTGAAACAT
Statistics
Matches: 105, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
86 105 1.00
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (86 bp):
CATGACTTTTAGCGGCGCTTTTTCCACAAATGCCGCTAAAGATCATGACCTTTAGCGGCGCTTAT
AAAAAAAACGCCGCTACAGAT
Found at i:48791095 original size:21 final size:21
Alignment explanation
Indices: 48791071--48791116 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
48791061 CTCTGCTCTG
* *
48791071 CTCTGCTTCCTTTGCTACAGC
1 CTCTGCTTCCCTCGCTACAGC
*
48791092 CTCTGCTTCCCTCGCTACCGC
1 CTCTGCTTCCCTCGCTACAGC
48791113 CTCT
1 CTCT
48791117 ACTTTAAGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.07, C:0.46, G:0.13, T:0.35
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTACAGC
Found at i:48793134 original size:9 final size:9
Alignment explanation
Indices: 48793117--48793309 Score: 176
Period size: 9 Copynumber: 22.8 Consensus size: 9
48793107 CATGTATTAA
*
48793117 GTAAATTAT
1 GTAAGTTAT
48793126 GTAAGTTAT
1 GTAAGTTAT
*
48793135 GT--CTTAT
1 GTAAGTTAT
*
48793142 ATAAGTTAT
1 GTAAGTTAT
48793151 GTAAGTTAT
1 GTAAGTTAT
48793160 GT-A-TTAT
1 GTAAGTTAT
*
48793167 GTATGTTAT
1 GTAAGTTAT
*
48793176 GTAAGTTGT
1 GTAAGTTAT
*
48793185 GT-A-TGAT
1 GTAAGTTAT
*
48793192 GTATGTTAT
1 GTAAGTTAT
*
48793201 GTAAGTTGT
1 GTAAGTTAT
*
48793210 GT-AG-AAT
1 GTAAGTTAT
*
48793217 GTAAGCTAT
1 GTAAGTTAT
48793226 GTAAGTTAT
1 GTAAGTTAT
48793235 GTAAGTTAT
1 GTAAGTTAT
*
48793244 GTAAGTTGT
1 GTAAGTTAT
*
48793253 GT-A-TAAT
1 GTAAGTTAT
48793260 GTAAGTTAT
1 GTAAGTTAT
*
48793269 GAAAGTTAT
1 GTAAGTTAT
48793278 GT-A-TTAT
1 GTAAGTTAT
48793285 GTAAGTTAT
1 GTAAGTTAT
*
48793294 TTAAGTTAT
1 GTAAGTTAT
48793303 GTAAGTT
1 GTAAGTT
48793310 GTTGAAGTCT
Statistics
Matches: 146, Mismatches: 26, Indels: 24
0.74 0.13 0.12
Matches are distributed among these distances:
7 28 0.19
8 10 0.07
9 108 0.74
ACGTcount: A:0.32, C:0.01, G:0.22, T:0.46
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:48793141 original size:16 final size:16
Alignment explanation
Indices: 48793122--48793152 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48793112 ATTAAGTAAA
*
48793122 TTATGTAAGTTATGTC
1 TTATATAAGTTATGTC
48793138 TTATATAAGTTATGT
1 TTATATAAGTTATGT
48793153 AAGTTATGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.03, G:0.16, T:0.52
Consensus pattern (16 bp):
TTATATAAGTTATGTC
Found at i:48793150 original size:25 final size:25
Alignment explanation
Indices: 48793108--48793309 Score: 178
Period size: 25 Copynumber: 8.0 Consensus size: 25
48793098 ATATATATTC
* *
48793108 ATGTATTAAGTAAATTATGTAAGTT
1 ATGTATTATGTAAGTTATGTAAGTT
* *
48793133 ATGTCTTATATAAGTTATGTAAGTT
1 ATGTATTATGTAAGTTATGTAAGTT
*
48793158 ATGTATTATGTATGTTATGTAAGTT
1 ATGTATTATGTAAGTTATGTAAGTT
* * *
48793183 GTGTATGATGTATGTTATGTAAGTT
1 ATGTATTATGTAAGTTATGTAAGTT
* ** *
48793208 GTGTAGAATGTAAGCTATGTAAGTT
1 ATGTATTATGTAAGTTATGTAAGTT
* *
48793233 ATGTAAGTTATGTAAGTTGTGT-A-TA
1 ATGT-A-TTATGTAAGTTATGTAAGTT
*
48793258 ATGTAAGTTATGAAAGTTATGT-A-TT
1 ATGT-A-TTATGTAAGTTATGTAAGTT
*
48793283 ATGTAAGTTATTTAAGTTATGTAAGTT
1 ATGT-A-TTATGTAAGTTATGTAAGTT
48793310 GTTGAAGTCT
Statistics
Matches: 149, Mismatches: 24, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
25 133 0.89
26 3 0.02
27 13 0.09
ACGTcount: A:0.32, C:0.01, G:0.21, T:0.46
Consensus pattern (25 bp):
ATGTATTATGTAAGTTATGTAAGTT
Found at i:48793181 original size:34 final size:35
Alignment explanation
Indices: 48793077--48793305 Score: 126
Period size: 34 Copynumber: 6.7 Consensus size: 35
48793067 AGTATAAATG
* * *
48793077 AGTTATGTAAGTTATGATATGATATATAT-TCATGT-
1 AGTTATGTAAGTTATG-TA-GTTATGTATGTTATGTA
* * * *
48793112 A-TTAAGTAAATTATGTAAGTTATG--TCTTATATA
1 AGTTATGTAAGTTATGT-AGTTATGTATGTTATGTA
48793145 AGTTATGTAAGTTATGTA-TTATGTATGTTATGTA
1 AGTTATGTAAGTTATGTAGTTATGTATGTTATGTA
* * * *
48793179 AGTTGTGT-A-TGATGTATGTTATGTAAGTTGTGT-
1 AGTTATGTAAGTTATGTA-GTTATGTATGTTATGTA
* * *
48793212 AG-AATGTAAGCTATGTAAGTTATGTAAGTTATGTA
1 AGTTATGTAAGTTATGT-AGTTATGTATGTTATGTA
* * * *
48793247 AGTTGTGT-A-TAATGTAAGTTATGAAAGTTATGT-
1 AGTTATGTAAGTTATGT-AGTTATGTATGTTATGTA
*
48793280 A-TTATGTAAGTTATTTAAGTTATGTA
1 AGTTATGTAAGTTATGT-AGTTATGTA
48793306 AGTTGTTGAA
Statistics
Matches: 151, Mismatches: 28, Indels: 31
0.72 0.13 0.15
Matches are distributed among these distances:
31 1 0.01
32 23 0.15
33 13 0.09
34 106 0.70
35 5 0.03
36 3 0.02
ACGTcount: A:0.33, C:0.01, G:0.21, T:0.45
Consensus pattern (35 bp):
AGTTATGTAAGTTATGTAGTTATGTATGTTATGTA
Found at i:48793309 original size:34 final size:34
Alignment explanation
Indices: 48793117--48793309 Score: 151
Period size: 34 Copynumber: 5.5 Consensus size: 34
48793107 CATGTATTAA
* * *
48793117 GTAAATTATGTAAGTTATGTCTTATATAAGTTAT
1 GTAAGTTATGTAAGTTATGTATTATGTAAGTTAT
48793151 GTAAGTTATGT-A-TTATGTATGTTATGTAAGTTGTGTATGAT
1 GTAAGTTATGTAAGTTATGTA--TTATGTAA-----GT-T-AT
* * ** *
48793192 GTATGTTATGTAAGTTGTGTAGAATGTAAGCTAT
1 GTAAGTTATGTAAGTTATGTATTATGTAAGTTAT
* *
48793226 GTAAGTTATGTAAGTTATGTAAGTTGTGT-A-TAAT
1 GTAAGTTATGTAAGTTATGT-A-TTATGTAAGTTAT
*
48793260 GTAAGTTATGAAAGTTATGTATTATGTAAGTTAT
1 GTAAGTTATGTAAGTTATGTATTATGTAAGTTAT
*
48793294 TTAAGTTATGTAAGTT
1 GTAAGTTATGTAAGTT
48793310 GTTGAAGTCT
Statistics
Matches: 124, Mismatches: 20, Indels: 30
0.71 0.11 0.17
Matches are distributed among these distances:
32 11 0.09
33 3 0.02
34 75 0.60
35 3 0.02
36 4 0.03
39 2 0.02
40 1 0.01
41 18 0.15
42 1 0.01
43 6 0.05
ACGTcount: A:0.32, C:0.01, G:0.22, T:0.46
Consensus pattern (34 bp):
GTAAGTTATGTAAGTTATGTATTATGTAAGTTAT
Found at i:48793498 original size:64 final size:64
Alignment explanation
Indices: 48793424--48793813 Score: 298
Period size: 64 Copynumber: 6.1 Consensus size: 64
48793414 AAATTGTTTA
* * ** *
48793424 TTATAAAATTTGATCTTTAAATTATTTAAGTTATGTATTATGTAAAATCTTTAAATTATGTAAG
1 TTATGAAATTTGATCTTTAAATTATGTAAGTTATGTATTATGTAAGTTCTGTAAATTATGTAAG
* * * * * *
48793488 TTATAAAATTTGATATTTAAATTATGTAACTTATGTATTATGTAAGTTAC-GTAAGTTGT-TTA-
1 TTATGAAATTTGATCTTTAAATTATGTAAGTTATGTATTATGTAAGTT-CTGTAAATTATGTAAG
** ** *
48793550 TTATGAAATTTGATCTTTAAATTATGTAAGTTATGTAAGAAATGTAAGAACATG-ATATT-TG-A
1 TTATGAAATTTGATCTTTAAATTATGTAAGTTATGT-A-TTATGTAAGTTC-TGTAAATTATGTA
**
48793612 TC
63 AG
* ** * * *
48793614 TT-T-AACTTATG-TACGTTATGTATTATGTAAGTTATGCAAATTATGTAAGTTATGTAAGA-AA
1 TTATGAAATT-TGAT-C-TT-TAAATTATGTAAGTTATG--TATTATGTAAGTTCTGTAA-ATTA
*
48793675 TGTAGG
59 TGTAAG
* * * * *
48793681 TTATGATATTTGATCTTTAACTTATATACGTTATGTATTATGTAAGTTCTTTAAATTATGTAAG
1 TTATGAAATTTGATCTTTAAATTATGTAAGTTATGTATTATGTAAGTTCTGTAAATTATGTAAG
* * *
48793745 TTATGAAATTTGCTCTTTAAATTATGTAA-TTGATGTATTATGTAAGTTATGTAAATTGTGTAAG
1 TTATGAAATTTGATCTTTAAATTATGTAAGTT-ATGTATTATGTAAGTTCTGTAAATTATGTAAG
48793809 TTATG
1 TTATG
48793814 TAAGAAATGT
Statistics
Matches: 251, Mismatches: 53, Indels: 44
0.72 0.15 0.13
Matches are distributed among these distances:
62 38 0.15
63 12 0.05
64 145 0.58
65 26 0.10
66 17 0.07
67 5 0.02
68 4 0.02
69 4 0.02
ACGTcount: A:0.35, C:0.04, G:0.15, T:0.46
Consensus pattern (64 bp):
TTATGAAATTTGATCTTTAAATTATGTAAGTTATGTATTATGTAAGTTCTGTAAATTATGTAAG
Found at i:48793634 original size:9 final size:9
Alignment explanation
Indices: 48793620--48793895 Score: 106
Period size: 9 Copynumber: 30.6 Consensus size: 9
48793610 GATCTTTAAC
*
48793620 TTATGTACG
1 TTATGTAAG
48793629 TTATGT-A-
1 TTATGTAAG
48793636 TTATGTAAG
1 TTATGTAAG
* *
48793645 TTATGCAAA
1 TTATGTAAG
48793654 TTATGTAAG
1 TTATGTAAG
48793663 TTATGTAAG
1 TTATGTAAG
** *
48793672 AAATGTAGG
1 TTATGTAAG
*
48793681 TTATG-ATAT
1 TTATGTA-AG
* *
48793690 TTGATCTTTAAC
1 TT-A--TGTAAG
* *
48793702 TTATATACG
1 TTATGTAAG
48793711 TTATGT-A-
1 TTATGTAAG
48793718 TTATGTAAG
1 TTATGTAAG
* * *
48793727 TTCTTTAAA
1 TTATGTAAG
48793736 TTATGTAAG
1 TTATGTAAG
*
48793745 TTATGAAATTTG
1 TTATGTAA---G
* * * *
48793757 CTCTTTAAA
1 TTATGTAAG
48793766 TTATGTAA-
1 TTATGTAAG
48793774 TTGATGT-A-
1 TT-ATGTAAG
48793782 TTATGTAAG
1 TTATGTAAG
*
48793791 TTATGTAAA
1 TTATGTAAG
*
48793800 TTGTGTAAG
1 TTATGTAAG
48793809 TTATGTAAG
1 TTATGTAAG
**
48793818 AAATGTAAG
1 TTATGTAAG
*
48793827 TTATG-ATAT
1 TTATGTA-AG
* *
48793836 TTGATCTTTAAA
1 TT-A--TGTAAG
*
48793848 TTATGTACG
1 TTATGTAAG
48793857 TTATGT-A-
1 TTATGTAAG
48793864 TTATGTAAG
1 TTATGTAAG
*
48793873 TTATGTAAA
1 TTATGTAAG
*
48793882 TTACGTAAG
1 TTATGTAAG
48793891 TTATG
1 TTATG
48793896 AAATTTGCTG
Statistics
Matches: 192, Mismatches: 53, Indels: 44
0.66 0.18 0.15
Matches are distributed among these distances:
7 22 0.11
8 11 0.06
9 140 0.73
10 2 0.01
11 2 0.01
12 13 0.07
13 2 0.01
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:48793711 original size:82 final size:83
Alignment explanation
Indices: 48793568--48793749 Score: 294
Period size: 82 Copynumber: 2.2 Consensus size: 83
48793558 TTTGATCTTT
*
48793568 AAATTATGTAAGTTATGTAAGAAATGTAAGAACATGATATTTGATCTTTAACTTATGTACGTTAT
1 AAATTATGTAAGTTATGTAAGAAATGTAAGAACATGATATTTGATCTTTAACTTATATACGTTAT
48793633 GTATTATGTAAGTTATGC
66 GTATTATGTAAGTTATGC
***
48793651 AAATTATGTAAGTTATGTAAGAAATGT-AGGTTATGATATTTGATCTTTAACTTATATACGTTAT
1 AAATTATGTAAGTTATGTAAGAAATGTAAGAACATGATATTTGATCTTTAACTTATATACGTTAT
* **
48793715 GTATTATGTAAGTTCTTT
66 GTATTATGTAAGTTATGC
48793733 AAATTATGTAAGTTATG
1 AAATTATGTAAGTTATG
48793750 AAATTTGCTC
Statistics
Matches: 92, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
82 65 0.71
83 27 0.29
ACGTcount: A:0.35, C:0.05, G:0.16, T:0.43
Consensus pattern (83 bp):
AAATTATGTAAGTTATGTAAGAAATGTAAGAACATGATATTTGATCTTTAACTTATATACGTTAT
GTATTATGTAAGTTATGC
Found at i:48793781 original size:146 final size:146
Alignment explanation
Indices: 48793570--48793904 Score: 485
Period size: 146 Copynumber: 2.3 Consensus size: 146
48793560 TGATCTTTAA
* * ** * * * *
48793570 ATTATGTAAGTTATGTAAGA-AATGTAAGAACATGATATTTGATCTTTAACTTATGTACGTTATG
1 ATTATGTAAGTTATGTAA-ATTACGTAAG-TTATGAAATTTGCTCTTTAAATTATGTACATTATG
*
48793634 TATTATGTAAGTTATGCAAATTATGTAAGTTATGTAAGAAATGTAGGTTATGATATTTGATCTTT
64 TATTATGTAAGTTATGCAAATTATGTAAGTTATGTAAGAAATGTAAGTTATGATATTTGATCTTT
*
48793699 AACTTATATACGTTATGT
129 AAATTATATACGTTATGT
* * *
48793717 ATTATGTAAGTTCTTTAAATTATGTAAGTTATGAAATTTGCTCTTTAAATTATGTA-ATTGATGT
1 ATTATGTAAGTTATGTAAATTACGTAAGTTATGAAATTTGCTCTTTAAATTATGTACATT-ATGT
* *
48793781 ATTATGTAAGTTATGTAAATTGTGTAAGTTATGTAAGAAATGTAAGTTATGATATTTGATCTTTA
65 ATTATGTAAGTTATGCAAATTATGTAAGTTATGTAAGAAATGTAAGTTATGATATTTGATCTTTA
*
48793846 AATTATGTACGTTATGT
130 AATTATATACGTTATGT
48793863 ATTATGTAAGTTATGTAAATTACGTAAGTTATGAAATTTGCT
1 ATTATGTAAGTTATGTAAATTACGTAAGTTATGAAATTTGCT
48793905 GTCTTAATAA
Statistics
Matches: 169, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
145 2 0.01
146 144 0.85
147 23 0.14
ACGTcount: A:0.34, C:0.04, G:0.17, T:0.44
Consensus pattern (146 bp):
ATTATGTAAGTTATGTAAATTACGTAAGTTATGAAATTTGCTCTTTAAATTATGTACATTATGTA
TTATGTAAGTTATGCAAATTATGTAAGTTATGTAAGAAATGTAAGTTATGATATTTGATCTTTAA
ATTATATACGTTATGT
Found at i:48793807 original size:82 final size:82
Alignment explanation
Indices: 48793738--48793895 Score: 255
Period size: 82 Copynumber: 1.9 Consensus size: 82
48793728 TCTTTAAATT
*
48793738 ATGTAAGTTATGAAATTTGCTCTTTAAATTATGTA-ATTGATGTATTATGTAAGTTATGTAAATT
1 ATGTAAGTTATGAAATTTGATCTTTAAATTATGTACATT-ATGTATTATGTAAGTTATGTAAATT
*
48793802 GTGTAAGTTATGTAAGAA
65 ATGTAAGTTATGTAAGAA
* *
48793820 ATGTAAGTTATGATATTTGATCTTTAAATTATGTACGTTATGTATTATGTAAGTTATGTAAATTA
1 ATGTAAGTTATGAAATTTGATCTTTAAATTATGTACATTATGTATTATGTAAGTTATGTAAATTA
*
48793885 CGTAAGTTATG
66 TGTAAGTTATG
48793896 AAATTTGCTG
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
82 68 0.97
83 2 0.03
ACGTcount: A:0.34, C:0.03, G:0.18, T:0.45
Consensus pattern (82 bp):
ATGTAAGTTATGAAATTTGATCTTTAAATTATGTACATTATGTATTATGTAAGTTATGTAAATTA
TGTAAGTTATGTAAGAA
Found at i:48793808 original size:18 final size:18
Alignment explanation
Indices: 48793620--48793900 Score: 133
Period size: 18 Copynumber: 17.1 Consensus size: 18
48793610 GATCTTTAAC
*
48793620 TTATGTACGTTATGT--A
1 TTATGTAAGTTATGTAAA
*
48793636 TTATGTAAGTTATGCAAA
1 TTATGTAAGTTATGTAAA
48793654 TTATGTAAGTTATGTAAGA
1 TTATGTAAGTTATGTAA-A
* * *
48793673 -AATGTAGGTTATG-ATA
1 TTATGTAAGTTATGTAAA
*
48793689 TT-TG--A-TCT-T-TAAC
1 TTATGTAAGT-TATGTAAA
* *
48793702 TTATATACGTTATGT--A
1 TTATGTAAGTTATGTAAA
* *
48793718 TTATGTAAGTTCTTTAAA
1 TTATGTAAGTTATGTAAA
48793736 TTATGTAAGTTATG-AAA
1 TTATGTAAGTTATGTAAA
*
48793753 TT-TGCT---CT-T-TAAA
1 TTATG-TAAGTTATGTAAA
48793766 TTATGTAA-TTGATGT--A
1 TTATGTAAGTT-ATGTAAA
48793782 TTATGTAAGTTATGTAAA
1 TTATGTAAGTTATGTAAA
*
48793800 TTGTGTAAGTTATGTAAGA
1 TTATGTAAGTTATGTAA-A
* *
48793819 -AATGTAAGTTATG-ATA
1 TTATGTAAGTTATGTAAA
48793835 TT-TG--A-TCT-T-TAAA
1 TTATGTAAGT-TATGTAAA
*
48793848 TTATGTACGTTATGT--A
1 TTATGTAAGTTATGTAAA
48793864 TTATGTAAGTTATGTAAA
1 TTATGTAAGTTATGTAAA
*
48793882 TTACGTAAGTTATG-AAA
1 TTATGTAAGTTATGTAAA
48793899 TT
1 TT
48793901 TGCTGTCTTA
Statistics
Matches: 198, Mismatches: 30, Indels: 73
0.66 0.10 0.24
Matches are distributed among these distances:
13 18 0.09
14 9 0.05
15 1 0.01
16 62 0.31
17 20 0.10
18 86 0.43
19 2 0.01
ACGTcount: A:0.34, C:0.04, G:0.17, T:0.46
Consensus pattern (18 bp):
TTATGTAAGTTATGTAAA
Found at i:48795819 original size:147 final size:149
Alignment explanation
Indices: 48795607--48795913 Score: 317
Period size: 147 Copynumber: 2.1 Consensus size: 149
48795597 GTTTTATGCC
* * * * *
48795607 AAAACGCCACT-CATAACATTGAAAAACGACGACGTTTTCCATGACTGAACTAACAAATTCGCGG
1 AAAACGCCACTACATAACATGGAAAAACGACGACGTATTCCATGACTGAAATAACAAATCCACGG
* * ** *
48795671 CGTTTCTACA-TAAGCGCCACTAAATAACCCC-GAAAACGATGTCGTTTCCCGA-ACAGTTATG-
66 CGTTTATAAACT-AGCGCCACTAAATAACCCCAG-AAACGACATCGTTTCCC-ACACAATTATGT
**
48795732 ACCAAT-TTCTGGCGTTTTGGTTT
128 A--AATGTTCTGGCGTTTTGGCAT
* * **
48795755 AAAACGCCACTAC-TAACCTGGAAAAACGATGACGTATT-CATGACT-AAATGAACCCATCCACG
1 AAAACGCCACTACATAACATGGAAAAACGACGACGTATTCCATGACTGAAAT-AACAAATCCACG
* * *
48795817 GCGTTTATAAACTTGTGCCACTAAATAACCGCAGAAACGACATCGTTTCCCACACAATTATGTAA
65 GCGTTTATAAACTAGCGCCACTAAATAACCCCAGAAACGACATCGTTTCCCACACAATTATGTAA
*
48795882 ATGTTTTGGCGTTTTGGCAT
130 ATGTTCTGGCGTTTTGGCAT
48795902 AAAACGCCACTA
1 AAAACGCCACTA
48795914 AAAACATAGT
Statistics
Matches: 132, Mismatches: 20, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
146 7 0.05
147 89 0.67
148 35 0.27
149 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (149 bp):
AAAACGCCACTACATAACATGGAAAAACGACGACGTATTCCATGACTGAAATAACAAATCCACGG
CGTTTATAAACTAGCGCCACTAAATAACCCCAGAAACGACATCGTTTCCCACACAATTATGTAAA
TGTTCTGGCGTTTTGGCAT
Found at i:48798387 original size:102 final size:106
Alignment explanation
Indices: 48798158--48798413 Score: 385
Period size: 113 Copynumber: 2.4 Consensus size: 106
48798148 TTAAATGCTT
*
48798158 ACTTTTATAATATACAGAATTTTAAATTAATAACTCTTTAAACTACTAATTAACTTGCTGTTATA
1 ACTTTTATAATATATAGAATTTTAAATTAATAACTCTTTAAACTACTAATTAACTTGCTGTTATA
*
48798223 TTAACAAAAAAAAAAAAACACTACTCATCCACTTAGACTTAGATGCAT
66 TTAAC----AAAAAAAAACACTACTCATCCAC-T--ACTTAGATGCAC
*
48798271 ACTTTTATAATATATAGAATTTTAAATTAATAACACTTTAAACTACTAATTAACTTGCTGTTATA
1 ACTTTTATAATATATAGAATTTTAAATTAATAACTCTTTAAACTACTAATTAACTTGCTGTTATA
*
48798336 TTAAC-AAAAAAAGCACTACTCAT-C-C-ACTTAGATGCAC
66 TTAACAAAAAAAAACACTACTCATCCACTACTTAGATGCAC
48798373 ACTTTTATAATATATAGAATTTTAAATTAATAACTCTTTAA
1 ACTTTTATAATATATAGAATTTTAAATTAATAACTCTTTAA
48798414 TTTGTTATAA
Statistics
Matches: 138, Mismatches: 5, Indels: 11
0.90 0.03 0.07
Matches are distributed among these distances:
102 51 0.37
106 1 0.01
107 1 0.01
108 17 0.12
113 68 0.49
ACGTcount: A:0.43, C:0.15, G:0.05, T:0.37
Consensus pattern (106 bp):
ACTTTTATAATATATAGAATTTTAAATTAATAACTCTTTAAACTACTAATTAACTTGCTGTTATA
TTAACAAAAAAAAACACTACTCATCCACTACTTAGATGCAC
Found at i:48800444 original size:14 final size:14
Alignment explanation
Indices: 48800427--48800472 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
48800417 TGGAGGACCA
48800427 GAGGTGGATCGGTG
1 GAGGTGGATCGGTG
*
48800441 GAGGTCTTGA-CGGTG
1 GAGG--TGGATCGGTG
48800456 GAGGTGGATCGGTG
1 GAGGTGGATCGGTG
48800470 GAG
1 GAG
48800473 ACAGGCAGAC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
13 3 0.11
14 12 0.44
15 9 0.33
16 3 0.11
ACGTcount: A:0.15, C:0.09, G:0.54, T:0.22
Consensus pattern (14 bp):
GAGGTGGATCGGTG
Found at i:48800626 original size:22 final size:22
Alignment explanation
Indices: 48800595--48800638 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
48800585 AAACTTAAAA
*
48800595 TAAAACTAAAACTAT-TATATTT
1 TAAAAATAAAA-TATATATATTT
48800617 TAAAAATAAAATATATATATTT
1 TAAAAATAAAATATATATATTT
48800639 AATATATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (22 bp):
TAAAAATAAAATATATATATTT
Found at i:48801993 original size:30 final size:30
Alignment explanation
Indices: 48801950--48802051 Score: 177
Period size: 30 Copynumber: 3.4 Consensus size: 30
48801940 ACAACATGGT
* *
48801950 ACACGAGCGTGTCACTTGGCCGTGTGAGCC
1 ACACGGGCATGTCACTTGGCCGTGTGAGCC
48801980 ACACGGGCATGTCACTTGGCCGTGTGAGCC
1 ACACGGGCATGTCACTTGGCCGTGTGAGCC
*
48802010 ACACGGGCGTGTCACTTGGCCGTGTGAGCC
1 ACACGGGCATGTCACTTGGCCGTGTGAGCC
48802040 ACACGGGCATGT
1 ACACGGGCATGT
48802052 GTCCCCTGAA
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 68 1.00
ACGTcount: A:0.17, C:0.29, G:0.34, T:0.20
Consensus pattern (30 bp):
ACACGGGCATGTCACTTGGCCGTGTGAGCC
Found at i:48808378 original size:27 final size:27
Alignment explanation
Indices: 48808335--48808416 Score: 71
Period size: 27 Copynumber: 3.0 Consensus size: 27
48808325 AGAATGTGAA
*
48808335 AAAAAAAATCTTT-AAATTTTAAAAAAT
1 AAAAATAAT-TTTAAAATTTTAAAAAAT
* *
48808362 AAAAATAATTTTAAAATATATGAAAAAT
1 AAAAATAATTTTAAAAT-TTTAAAAAAT
*
48808390 ATAAAAT--TTTTCAAAAATTTAAAAAAT
1 A-AAAATAATTTT-AAAATTTTAAAAAAT
48808417 TGTGTTATTT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
26 3 0.07
27 24 0.53
28 13 0.29
29 5 0.11
ACGTcount: A:0.62, C:0.02, G:0.01, T:0.34
Consensus pattern (27 bp):
AAAAATAATTTTAAAATTTTAAAAAAT
Found at i:48816184 original size:39 final size:39
Alignment explanation
Indices: 48816120--48816207 Score: 122
Period size: 39 Copynumber: 2.2 Consensus size: 39
48816110 AGATTTTGGG
* * *
48816120 TTGTTTGTTTGTTATTTATTGTTTGAATGTGTTGGGTTAT
1 TTGTTT-TTTGTTATTTATTCTTTGAATGTGCTGAGTTAT
* *
48816160 TTGTTTTTTGTTATTTGTTCTTTGATTGTGCTGAGTTAT
1 TTGTTTTTTGTTATTTATTCTTTGAATGTGCTGAGTTAT
48816199 TTGTTTTTT
1 TTGTTTTTT
48816208 TTAATGGAGT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
39 37 0.86
40 6 0.14
ACGTcount: A:0.10, C:0.02, G:0.22, T:0.66
Consensus pattern (39 bp):
TTGTTTTTTGTTATTTATTCTTTGAATGTGCTGAGTTAT
Found at i:48818216 original size:61 final size:60
Alignment explanation
Indices: 48818121--48818248 Score: 177
Period size: 61 Copynumber: 2.1 Consensus size: 60
48818111 CACGACATCT
* * *
48818121 ATGGATGTCAAGTTTATTGTCTACTACATGTTGAAATGACAACTCAATGAACTT-GACACCC
1 ATGGATGTCAAGTTCATTGTCTACTACATATTGAAATGA-AACTCAATGAA-TTCGACACAC
** *
48818182 ATGGATGTTGAGTTCATTGTCTACTACATATTGAAATGAAACTCAATGAATTCGACATAC
1 ATGGATGTCAAGTTCATTGTCTACTACATATTGAAATGAAACTCAATGAATTCGACACAC
48818242 ATGGATG
1 ATGGATG
48818249 CTAAATTCAC
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
59 2 0.03
60 23 0.38
61 35 0.58
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (60 bp):
ATGGATGTCAAGTTCATTGTCTACTACATATTGAAATGAAACTCAATGAATTCGACACAC
Found at i:48818947 original size:3 final size:3
Alignment explanation
Indices: 48818939--48818976 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
48818929 TCAACCATTG
48818939 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
48818977 GTGTTAGAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:48821764 original size:19 final size:20
Alignment explanation
Indices: 48821740--48821777 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
48821730 AAAAAAAATT
48821740 AAAATT-CAAAATATTTATA
1 AAAATTCCAAAATATTTATA
*
48821759 AAAATTCCAAAATTTTTAT
1 AAAATTCCAAAATATTTAT
48821778 TTTTAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (20 bp):
AAAATTCCAAAATATTTATA
Found at i:48821782 original size:26 final size:26
Alignment explanation
Indices: 48821753--48821802 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
48821743 ATTCAAAATA
*
48821753 TTTATAAAAATTCCAAAATTTTTATT
1 TTTAAAAAAATTCCAAAATTTTTATT
**
48821779 TTTAAAAAAATTTTAAAATTTTTA
1 TTTAAAAAAATTCCAAAATTTTTA
48821803 AAAAAAATCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (26 bp):
TTTAAAAAAATTCCAAAATTTTTATT
Found at i:48821788 original size:18 final size:19
Alignment explanation
Indices: 48821767--48821808 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
48821757 TAAAAATTCC
*
48821767 AAAATTTT-TATTTTTAAA
1 AAAATTTTAAATTTTTAAA
48821785 AAAATTTTAAAATTTTTAAA
1 AAAATTTT-AAATTTTTAAA
48821805 AAAA
1 AAAA
48821809 ATCTAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.38
20 13 0.62
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
AAAATTTTAAATTTTTAAA
Found at i:48821801 original size:20 final size:20
Alignment explanation
Indices: 48821776--48821818 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
48821766 CAAAATTTTT
* *
48821776 ATTTTTAAAAAAATTTTAAA
1 ATTTTTAAAAAAAATCTAAA
48821796 ATTTTTAAAAAAAATCTAAA
1 ATTTTTAAAAAAAATCTAAA
48821816 ATT
1 ATT
48821819 ATATATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (20 bp):
ATTTTTAAAAAAAATCTAAA
Found at i:48822374 original size:25 final size:25
Alignment explanation
Indices: 48822346--48822394 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
48822336 AAATAATAAG
*
48822346 ATTTGTTAACTCGACTCGACTCGAA
1 ATTTGTTAACTCGACTCAACTCGAA
* * *
48822371 ATTTTTTGACTCGATTCAACTCGA
1 ATTTGTTAACTCGACTCAACTCGA
48822395 TTAAAAAAAT
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:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (25 bp):
ATTTGTTAACTCGACTCAACTCGAA
Found at i:48827822 original size:18 final size:20
Alignment explanation
Indices: 48827785--48827823 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
48827775 ATTACAAAAT
*
48827785 AATTCAAAATCATTTTTAAA
1 AATTCAAAATCATTTATAAA
48827805 AATT-AAAAT-ATTTATAAA
1 AATTCAAAATCATTTATAAA
48827823 A
1 A
48827824 TTTATTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 5 0.28
20 4 0.22
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (20 bp):
AATTCAAAATCATTTATAAA
Found at i:48827855 original size:31 final size:31
Alignment explanation
Indices: 48827796--48827856 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
48827786 ATTCAAAATC
* * *
48827796 ATTTTTAAAAATTAAAATATTTATAAAATTT
1 ATTTTTAAAAATTAAAAAATTAAAAAAATTT
*
48827827 ATTTTTTAAAATTAAAAAATTAAAAAAATT
1 ATTTTTAAAAATTAAAAAATTAAAAAAATT
48827857 CTAAAAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (31 bp):
ATTTTTAAAAATTAAAAAATTAAAAAAATTT
Found at i:48832190 original size:22 final size:24
Alignment explanation
Indices: 48832140--48832190 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
48832130 TTGCAATGCT
48832140 TTTATATTTTAATAATTGAGTATTA
1 TTTATATTTTAAT-ATTGAGTATTA
48832165 -TTATATATTTAAT-TTGA-T-TTA
1 TTTATAT-TTTAATATTGAGTATTA
48832186 TTTAT
1 TTTAT
48832191 TTATAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
21 3 0.12
22 5 0.21
23 4 0.17
24 6 0.25
25 6 0.25
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (24 bp):
TTTATATTTTAATATTGAGTATTA
Found at i:48833530 original size:13 final size:13
Alignment explanation
Indices: 48833512--48833575 Score: 58
Period size: 13 Copynumber: 4.9 Consensus size: 13
48833502 TTCTTTATCA
48833512 CTTTTAAAAAGTG
1 CTTTTAAAAAGTG
*
48833525 CTTTTAAAAAATG
1 CTTTTAAAAAGTG
*
48833538 -TTGTGAAAAAGTG
1 CTT-TTAAAAAGTG
* *
48833551 CTTTTTAGAAGTG
1 CTTTTAAAAAGTG
* *
48833564 ATTTTGAAAAGT
1 CTTTTAAAAAGT
48833576 TTAATTTAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
12 2 0.05
13 36 0.90
14 2 0.05
ACGTcount: A:0.38, C:0.05, G:0.19, T:0.39
Consensus pattern (13 bp):
CTTTTAAAAAGTG
Found at i:48833755 original size:33 final size:30
Alignment explanation
Indices: 48833718--48833781 Score: 74
Period size: 33 Copynumber: 2.0 Consensus size: 30
48833708 ATTTTAGTAA
*
48833718 TAATATAAAAAATATCATAACTTGTTAATATTT
1 TAATATAAAAAATAT-A-AA-TTGTAAATATTT
**
48833751 TAATATATGAAATATAAATTGTAAATATTT
1 TAATATAAAAAATATAAATTGTAAATATTT
48833781 T
1 T
48833782 TAAGCAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 12 0.43
31 2 0.07
32 1 0.04
33 13 0.46
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.44
Consensus pattern (30 bp):
TAATATAAAAAATATAAATTGTAAATATTT
Found at i:48835375 original size:15 final size:15
Alignment explanation
Indices: 48835348--48835380 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
48835338 TTAAAAATTA
48835348 ATAATATTTTTATAT
1 ATAATATTTTTATAT
48835363 ATAAT-TTTATTATAT
1 ATAATATTT-TTATAT
48835378 ATA
1 ATA
48835381 TATAATTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 3 0.18
15 14 0.82
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
ATAATATTTTTATAT
Found at i:48840887 original size:16 final size:17
Alignment explanation
Indices: 48840843--48840894 Score: 70
Period size: 18 Copynumber: 3.1 Consensus size: 17
48840833 AAAGGGAAAA
48840843 TTCCAAAAATGAAAAGT
1 TTCCAAAAATGAAAAGT
*
48840860 TTACCAAAAATGACAA-T
1 TT-CCAAAAATGAAAAGT
*
48840877 TTCCTAAAATGAAAAGT
1 TTCCAAAAATGAAAAGT
48840894 T
1 T
48840895 ATCAAGAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 11 0.37
17 7 0.23
18 12 0.40
ACGTcount: A:0.50, C:0.13, G:0.10, T:0.27
Consensus pattern (17 bp):
TTCCAAAAATGAAAAGT
Found at i:48841808 original size:41 final size:40
Alignment explanation
Indices: 48841751--48841827 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 40
48841741 CGTGCATTCG
*
48841751 GGGATTTAGCGGCGTTTTTTATGAA-GCGCCGCTAAAGCTTA
1 GGGATTTAGCGGCG-TTTTTAAGAATGCGCCGC-AAAGCTTA
48841792 GGGATTTAGCGGCGTTTTTAAGAATGCGCCGCAAAG
1 GGGATTTAGCGGCGTTTTTAAGAATGCGCCGCAAAG
48841828 AAACCTAAGC
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
40 13 0.38
41 21 0.62
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.29
Consensus pattern (40 bp):
GGGATTTAGCGGCGTTTTTAAGAATGCGCCGCAAAGCTTA
Found at i:48844134 original size:134 final size:131
Alignment explanation
Indices: 48843949--48844211 Score: 463
Period size: 134 Copynumber: 2.0 Consensus size: 131
48843939 AGGGTTTCTA
* *
48843949 AAGTGCAAAGCATAAAGGTGAATTGACTCGGAACGACCATAGTTGCACAATGTTATCAACCTCAA
1 AAGTGCAAAGCATAAAGGTGAATTGACTCAGAACGACCATAGCTGCACAATGTTATCAACCTCAA
48844014 GTGGTTGTTTTTCACTATAGAATTCTAAAAAGTTGTAATGACGTACATTGAACTATTGCCCATAA
66 GT-G--GTTTTTCACTATAGAATTCTAAAAAGTTGTAATGACGTACATTGAACTATTGCCCATAA
48844079 CCTC
128 CCTC
*
48844083 AAGTGCAAAGCATAAAGGTGAATTGACTCAGAACGACCATAGCTGCGCAATGTTATCAACCTCAA
1 AAGTGCAAAGCATAAAGGTGAATTGACTCAGAACGACCATAGCTGCACAATGTTATCAACCTCAA
*
48844148 GTGGTTTTTCACTATAGAATTCTAAGAAGTTGTAATGACGTACATTGAACTATTGCCCATAACC
66 GTGGTTTTTCACTATAGAATTCTAAAAAGTTGTAATGACGTACATTGAACTATTGCCCATAACC
48844212 CACTTATTAA
Statistics
Matches: 125, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
131 60 0.48
133 1 0.01
134 64 0.51
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (131 bp):
AAGTGCAAAGCATAAAGGTGAATTGACTCAGAACGACCATAGCTGCACAATGTTATCAACCTCAA
GTGGTTTTTCACTATAGAATTCTAAAAAGTTGTAATGACGTACATTGAACTATTGCCCATAACCT
C
Found at i:48845670 original size:33 final size:33
Alignment explanation
Indices: 48845633--48845696 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
48845623 GTGTGCATTT
*
48845633 TAGTGAGCAACAACTTGTTTCGGGAGTTTTGGG
1 TAGTGAGCAACAACTAGTTTCGGGAGTTTTGGG
*
48845666 TAGTGAGCAACAACTAGTTTCGGGTGTTTTG
1 TAGTGAGCAACAACTAGTTTCGGGAGTTTTG
48845697 CGAAAGAGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.22, C:0.12, G:0.31, T:0.34
Consensus pattern (33 bp):
TAGTGAGCAACAACTAGTTTCGGGAGTTTTGGG
Found at i:48851109 original size:23 final size:23
Alignment explanation
Indices: 48851051--48851114 Score: 60
Period size: 23 Copynumber: 2.8 Consensus size: 23
48851041 TAAGGATTTG
48851051 ATTTGAATTAATTC-A-AATCCT
1 ATTTGAATTAATTCAATAATCCT
* *
48851072 ATTTCTATTTAAATTCAATAATCCT
1 ATTT-GAATT-AATTCAATAATCCT
* *
48851097 ATTTGGATTAATTTAATA
1 ATTTGAATTAATTCAATA
48851115 TTTTTCAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
21 4 0.12
22 3 0.09
23 13 0.39
24 3 0.09
25 10 0.30
ACGTcount: A:0.38, C:0.11, G:0.05, T:0.47
Consensus pattern (23 bp):
ATTTGAATTAATTCAATAATCCT
Found at i:48852080 original size:100 final size:100
Alignment explanation
Indices: 48851918--48852118 Score: 402
Period size: 100 Copynumber: 2.0 Consensus size: 100
48851908 AAATTTGTAA
48851918 TTTAGTCCTTATAGTTTTATTTCTAAGAATTCGCCTTTCTACTTTTAGATTTCAAATTTTAAGTC
1 TTTAGTCCTTATAGTTTTATTTCTAAGAATTCGCCTTTCTACTTTTAGATTTCAAATTTTAAGTC
48851983 TAACTGTTAATATTATTAAAATTATTTTCTTAAAT
66 TAACTGTTAATATTATTAAAATTATTTTCTTAAAT
48852018 TTTAGTCCTTATAGTTTTATTTCTAAGAATTCGCCTTTCTACTTTTAGATTTCAAATTTTAAGTC
1 TTTAGTCCTTATAGTTTTATTTCTAAGAATTCGCCTTTCTACTTTTAGATTTCAAATTTTAAGTC
48852083 TAACTGTTAATATTATTAAAATTATTTTCTTAAAT
66 TAACTGTTAATATTATTAAAATTATTTTCTTAAAT
48852118 T
1 T
48852119 CAAGTTCATT
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 101 1.00
ACGTcount: A:0.30, C:0.12, G:0.07, T:0.51
Consensus pattern (100 bp):
TTTAGTCCTTATAGTTTTATTTCTAAGAATTCGCCTTTCTACTTTTAGATTTCAAATTTTAAGTC
TAACTGTTAATATTATTAAAATTATTTTCTTAAAT
Found at i:48854782 original size:20 final size:21
Alignment explanation
Indices: 48854738--48854783 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
48854728 TTATTAATTT
*
48854738 TTTAAAAAAACTATAAAAATA
1 TTTAAAAAAAATATAAAAATA
*
48854759 -TTAAAAAAAAT-TAGAAATA
1 TTTAAAAAAAATATAAAAATA
48854778 TTTAAA
1 TTTAAA
48854784 CATAGTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (21 bp):
TTTAAAAAAAATATAAAAATA
Found at i:48855298 original size:18 final size:17
Alignment explanation
Indices: 48855270--48855321 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
48855260 ATTTTCTGTA
48855270 TTTTATAAATTTTAAGAAT
1 TTTTAT-AATTTTAA-AAT
* *
48855289 TTTTATAATTATTTAATT
1 TTTTATAATT-TTAAAAT
48855307 TTTTATAA-TTTAAAA
1 TTTTATAATTTTAAAA
48855322 AATCAAGTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
16 4 0.14
17 1 0.04
18 14 0.50
19 9 0.32
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (17 bp):
TTTTATAATTTTAAAAT
Found at i:48855893 original size:19 final size:19
Alignment explanation
Indices: 48855871--48855909 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
48855861 ACCATTGTCA
*
48855871 TCCATCGTAATAAAATTTT
1 TCCACCGTAATAAAATTTT
* *
48855890 TCCACCTTAATCAAATTTT
1 TCCACCGTAATAAAATTTT
48855909 T
1 T
48855910 TATTAACTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.33, C:0.21, G:0.03, T:0.44
Consensus pattern (19 bp):
TCCACCGTAATAAAATTTT
Found at i:48856714 original size:56 final size:56
Alignment explanation
Indices: 48856647--48856758 Score: 172
Period size: 56 Copynumber: 2.0 Consensus size: 56
48856637 AAAAGTTTTG
*
48856647 GGGGGAAAGTGGGAAA-GAGTAAAAGTTTTGAGGGAAAAGTAAAAAAATTTGAGAGT
1 GGGGAAAAGT-GGAAAGGAGTAAAAGTTTTGAGGGAAAAGTAAAAAAATTTGAGAGT
* **
48856703 GGGGAAAAGTGGAAAGGAGTAGAAGTTTTGAGGGAAAAGTAAAAAGGTTTGAGAGT
1 GGGGAAAAGTGGAAAGGAGTAAAAGTTTTGAGGGAAAAGTAAAAAAATTTGAGAGT
48856759 TTGGGGTAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
55 5 0.10
56 46 0.90
ACGTcount: A:0.43, C:0.00, G:0.38, T:0.20
Consensus pattern (56 bp):
GGGGAAAAGTGGAAAGGAGTAAAAGTTTTGAGGGAAAAGTAAAAAAATTTGAGAGT
Found at i:48856760 original size:30 final size:30
Alignment explanation
Indices: 48856670--48856760 Score: 84
Period size: 30 Copynumber: 3.2 Consensus size: 30
48856660 AAAGAGTAAA
**
48856670 AGTTTTGAGGGAAAAGTAAAAAAATTTGAG
1 AGTTTTGAGGGAAAAGTAAAAAGGTTTGAG
** **
48856700 AG---TG-GGGAAAAGTGGAAAGGAGT-AG
1 AGTTTTGAGGGAAAAGTAAAAAGGTTTGAG
48856725 AAGTTTTGAGGGAAAAGTAAAAAGGTTTGAG
1 -AGTTTTGAGGGAAAAGTAAAAAGGTTTGAG
48856756 AGTTT
1 AGTTT
48856761 GGGGTAAAAA
Statistics
Matches: 45, Mismatches: 10, Indels: 12
0.67 0.15 0.18
Matches are distributed among these distances:
25 2 0.04
26 15 0.33
27 2 0.04
29 2 0.04
30 22 0.49
31 2 0.04
ACGTcount: A:0.42, C:0.00, G:0.34, T:0.24
Consensus pattern (30 bp):
AGTTTTGAGGGAAAAGTAAAAAGGTTTGAG
Found at i:48856889 original size:9 final size:9
Alignment explanation
Indices: 48856872--48856902 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
48856862 TCATGTTGAT
48856872 TCGAATAAC
1 TCGAATAAC
*
48856881 TCGATTAAC
1 TCGAATAAC
48856890 TCGAATAAC
1 TCGAATAAC
48856899 TCGA
1 TCGA
48856903 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:48864764 original size:46 final size:46
Alignment explanation
Indices: 48864701--48864792 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
48864691 TTGGAAGAAG
*
48864701 AGCTTTACATGGAGCAGCCAGAGGGTTTTGTTGCACAAGGGAAAGA
1 AGCTTTACATGGAGCAGCCAGAGGGTTTTATTGCACAAGGGAAAGA
48864747 AGCTTTACATGGAGCAGCCAGAGGGTTTTATTGCACAAGGGAAAGA
1 AGCTTTACATGGAGCAGCCAGAGGGTTTTATTGCACAAGGGAAAGA
48864793 GGACTATGTG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.32, C:0.15, G:0.32, T:0.22
Consensus pattern (46 bp):
AGCTTTACATGGAGCAGCCAGAGGGTTTTATTGCACAAGGGAAAGA
Found at i:48869905 original size:240 final size:241
Alignment explanation
Indices: 48869265--48869928 Score: 715
Period size: 233 Copynumber: 2.8 Consensus size: 241
48869255 ACAAATGCAA
* * * * * * **
48869265 ACTTGGAGAAGGGTTTGGATCAATTTTGTGTTCAAGTTGTTTTGGGTTCAAGTGGCTTGAGTCTT
1 ACTTGAAGAAGGGTTTGAATCAATTTTGTGTTCGAGTTGTTTTGGGCTCAAGTAGTTTGAGTCAA
* * * * * * * * **
48869330 GAATTTTTAAGTGGGACACTATTAATTCAAGCCATTTTGGATATTCGAGGGCTAATA-TCTACTT
66 GGATTTTTAAGTCGGCCATTACTAGTTCAAGCCATTTTGGATATACAAGAACTAATATTC-ACTT
* * * ** * * * * *
48869394 CAAATATGCT-AGAAATGGTAATTA-AAATATTCAAATTTAAATACCATC-CAATAT-CCA-ATC
130 TAAATTTACTAAG-AATAATAATTAGAAA-ATCCGAATTTAAATATCATCTCAATCTACAATATC
* *
48869454 T---T-C-AAAAGGCAAGTTAGATATTTGCAAATATTCGAATCTACACT
193 TGAATCCTAAAAAGCAAGTTAGATATTTGCAAATATTCAAATCTACACT
* * * *
48869498 ACTTGAAGAAGGGTTTGGATCAATTTTGTGTTCGAGTTGTTTTGGGTTCATGTGGTTTGAGTCAA
1 ACTTGAAGAAGGGTTTGAATCAATTTTGTGTTCGAGTTGTTTTGGGCTCAAGTAGTTTGAGTCAA
* * * * *
48869563 GGATTTTTAAGTGGGTCATTATTAGTTCAAGCCATTTTGGATATACGAGAACTAATATTCATTTT
66 GGATTTTTAAGTCGGCCATTACTAGTTCAAGCCATTTTGGATATACAAGAACTAATATTCACTTT
* *
48869628 GAATTTACTAAGAATAGTAATTAGAAAATCCGAATTTAAATATCAT-TCGAATCTACAATATCTG
131 AAATTTACTAAGAATAATAATTAGAAAATCCGAATTTAAATATCATCTC-AATCTACAATATCTG
*
48869692 AATCCTAAAAAGCAAGTTAGATATTTGCAAATATTCAAATCTGCACT
195 AATCCTAAAAAGCAAGTTAGATATTTGCAAATATTCAAATCTACACT
* * *
48869739 ACTTGGAGAAGGGTTTGAATTAATTTTGTGTTCGAGTT-TTTTGGGCTCAAGTAGTTTGAGTCTA
1 ACTTGAAGAAGGGTTTGAATCAATTTTGTGTTCGAGTTGTTTTGGGCTCAAGTAGTTTGAGTCAA
* * *
48869803 GGATTTTTAGGTCGGCCATTGCTAGTTCAAGCCATTTTGGATATTCAAGAACTAATATTCACTTT
66 GGATTTTTAAGTCGGCCATTACTAGTTCAAGCCATTTTGGATATACAAGAACTAATATTCACTTT
* * * * * *
48869868 AAATTTGCTAGGGATAATAATTATAATATCTGAATTTAAATATCATCTCAATCTACAATAT
131 AAATTTACTAAGAATAATAATTAGAAAATCCGAATTTAAATATCATCTCAATCTACAATAT
48869929 ATCAGAATCC
Statistics
Matches: 368, Mismatches: 50, Indels: 19
0.84 0.11 0.04
Matches are distributed among these distances:
233 145 0.39
234 11 0.03
235 2 0.01
236 4 0.01
239 1 0.00
240 130 0.35
241 75 0.20
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.37
Consensus pattern (241 bp):
ACTTGAAGAAGGGTTTGAATCAATTTTGTGTTCGAGTTGTTTTGGGCTCAAGTAGTTTGAGTCAA
GGATTTTTAAGTCGGCCATTACTAGTTCAAGCCATTTTGGATATACAAGAACTAATATTCACTTT
AAATTTACTAAGAATAATAATTAGAAAATCCGAATTTAAATATCATCTCAATCTACAATATCTGA
ATCCTAAAAAGCAAGTTAGATATTTGCAAATATTCAAATCTACACT
Found at i:48880644 original size:26 final size:26
Alignment explanation
Indices: 48880623--48880677 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
48880613 CGAAAACTCG
* *
48880623 ACCGAGCATTGGTGGCAGAAAAAGGA
1 ACCGAGCATTGGGGGCAGAAAAACGA
* *
48880649 ACCGCGCATTGGGGGCAGAAAAAGGA
1 ACCGAGCATTGGGGGCAGAAAAACGA
48880675 ACC
1 ACC
48880678 TCTCTGCTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.36, C:0.20, G:0.35, T:0.09
Consensus pattern (26 bp):
ACCGAGCATTGGGGGCAGAAAAACGA
Found at i:48882697 original size:23 final size:22
Alignment explanation
Indices: 48882671--48882726 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 22
48882661 TGAAATTTTG
48882671 ATTACATTTATTTTAGTTTTAAA
1 ATTA-ATTTATTTTAGTTTTAAA
* * *
48882694 ATTAAATATCTTTTATTTTTAAA
1 ATT-AATTTATTTTAGTTTTAAA
48882717 ATTAATTTAT
1 ATTAATTTAT
48882727 GTTTTCTATT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
22 5 0.19
23 21 0.78
24 1 0.04
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.57
Consensus pattern (22 bp):
ATTAATTTATTTTAGTTTTAAA
Found at i:48886289 original size:14 final size:14
Alignment explanation
Indices: 48886261--48886310 Score: 61
Period size: 13 Copynumber: 3.7 Consensus size: 14
48886251 ATTTATGTTT
48886261 TTTTC-TTAAATAA
1 TTTTCTTTAAATAA
48886274 TTGTTCTTTAAA-AA
1 TT-TTCTTTAAATAA
*
48886288 TTTTCTATAAATAA
1 TTTTCTTTAAATAA
48886302 TTTT-TTTAA
1 TTTTCTTTAA
48886311 TCTTTCAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
13 14 0.44
14 13 0.41
15 5 0.16
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.56
Consensus pattern (14 bp):
TTTTCTTTAAATAA
Found at i:48888778 original size:22 final size:22
Alignment explanation
Indices: 48888753--48888795 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
48888743 TAATTGATAC
48888753 ATTACAAAAAAAAAATT-TAAAG
1 ATTA-AAAAAAAAAATTCTAAAG
* *
48888775 ATTAAAATAAAACATTCTAAA
1 ATTAAAAAAAAAAATTCTAAA
48888796 ATTTTGATCT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.65, C:0.07, G:0.02, T:0.26
Consensus pattern (22 bp):
ATTAAAAAAAAAAATTCTAAAG
Found at i:48890447 original size:6 final size:6
Alignment explanation
Indices: 48890436--48890461 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
48890426 TACTATACAG
48890436 ATATCA ATATCA ATATCA ATATCA AT
1 ATATCA ATATCA ATATCA ATATCA AT
48890462 TGAGCTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (6 bp):
ATATCA
Found at i:48890501 original size:148 final size:148
Alignment explanation
Indices: 48890323--48890618 Score: 583
Period size: 148 Copynumber: 2.0 Consensus size: 148
48890313 CTTAATTTTT
48890323 TGTTGTTGATTATTCTATTATTTATTTATTTTTTAAATCTAAAAGTTTTTAAACAACCACCCATA
1 TGTTGTTGATTATTCTATTATTTATTTATTTTTTAAATCTAAAAGTTTTTAAACAACCACCCATA
48890388 ATTCAGCAATTCAACAAATTTAAATTCACGGCCTCCTATACTATACAGATATCAATATCAATATC
66 ATTCAGCAATTCAACAAATTTAAATTCACGGCCTCCTATACTATACAGATATCAATATCAATATC
48890453 AATATCAATTGAGCTAAA
131 AATATCAATTGAGCTAAA
48890471 TGTTGTTGATTATTCTATTATTTATTTATTTTTTAAATCTAAAAGTTTTTAAACAACCACCCATA
1 TGTTGTTGATTATTCTATTATTTATTTATTTTTTAAATCTAAAAGTTTTTAAACAACCACCCATA
48890536 ATTCAGCAATTCAACAAATTTAAATTCACGGCCTCCTATACTATACAGATATCAATATCAATATC
66 ATTCAGCAATTCAACAAATTTAAATTCACGGCCTCCTATACTATACAGATATCAATATCAATATC
*
48890601 AATATCAATTGATCTAAA
131 AATATCAATTGAGCTAAA
48890619 ACTCGACCGA
Statistics
Matches: 147, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
148 147 1.00
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.39
Consensus pattern (148 bp):
TGTTGTTGATTATTCTATTATTTATTTATTTTTTAAATCTAAAAGTTTTTAAACAACCACCCATA
ATTCAGCAATTCAACAAATTTAAATTCACGGCCTCCTATACTATACAGATATCAATATCAATATC
AATATCAATTGAGCTAAA
Found at i:48890595 original size:6 final size:6
Alignment explanation
Indices: 48890584--48890609 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
48890574 TACTATACAG
48890584 ATATCA ATATCA ATATCA ATATCA AT
1 ATATCA ATATCA ATATCA ATATCA AT
48890610 TGATCTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (6 bp):
ATATCA
Found at i:48901204 original size:45 final size:44
Alignment explanation
Indices: 48901149--48901243 Score: 109
Period size: 44 Copynumber: 2.1 Consensus size: 44
48901139 GTTTGGGCAG
* * * *
48901149 TAAGATTTGCTATTCTCAATCTGCCCCATTGCAACTTCAGGGGGA
1 TAAGACTTGCT-TTCTCAACCTGCCCCATTGCAACCTCAGGGAGA
* ** *
48901194 TAAGACTTGCTTTCTCAGCCTGTTCCATTGTAACCTCAGGGAGA
1 TAAGACTTGCTTTCTCAACCTGCCCCATTGCAACCTCAGGGAGA
48901238 TAAGAC
1 TAAGAC
48901244 CTGAAGCGAT
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
44 32 0.76
45 10 0.24
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (44 bp):
TAAGACTTGCTTTCTCAACCTGCCCCATTGCAACCTCAGGGAGA
Found at i:48901523 original size:88 final size:88
Alignment explanation
Indices: 48901400--48901820 Score: 833
Period size: 88 Copynumber: 4.8 Consensus size: 88
48901390 GCCATCAGTA
*
48901400 CAGGAAGACAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGGAAGCGAGGCTGGTGTC
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGGAAGCGAGGCTGGTGTC
48901465 TTCGATCTGCTTCGTTGTCTACG
66 TTCGATCTGCTTCGTTGTCTACG
48901488 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGGAAGCGAGGCTGGTGTC
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGGAAGCGAGGCTGGTGTC
48901553 TTCGATCTGCTTCGTTGTCTACG
66 TTCGATCTGCTTCGTTGTCTACG
48901576 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGGAAGCGAGGCTGGTGTC
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGGAAGCGAGGCTGGTGTC
48901641 TTCGATCTGCTTCGTTGTCTACG
66 TTCGATCTGCTTCGTTGTCTACG
48901664 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGGAAGCGAGGCTGGTGTC
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGGAAGCGAGGCTGGTGTC
48901729 TTCGATCTGCTTCGTTGTCTACG
66 TTCGATCTGCTTCGTTGTCTACG
48901752 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGGAAGCGAGGCTGGTGTC
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGGAAGCGAGGCTGGTGTC
48901817 TTCG
66 TTCG
48901821 CAAGGCTTTG
Statistics
Matches: 332, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 332 1.00
ACGTcount: A:0.21, C:0.27, G:0.27, T:0.24
Consensus pattern (88 bp):
CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGGAAGCGAGGCTGGTGTC
TTCGATCTGCTTCGTTGTCTACG
Found at i:48902641 original size:25 final size:26
Alignment explanation
Indices: 48902625--48902677 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
48902615 GCTCCGGAGT
48902625 GCCATTAATCAGAAAGCTCACGAAGA
1 GCCATTAATCAGAAAGCTCACGAAGA
* * *
48902651 GCCTTTAATCAGGAAGCTTACGAAGA
1 GCCATTAATCAGAAAGCTCACGAAGA
48902677 G
1 G
48902678 TCACATAACA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.19
Consensus pattern (26 bp):
GCCATTAATCAGAAAGCTCACGAAGA
Found at i:48902781 original size:24 final size:24
Alignment explanation
Indices: 48902754--48902815 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 24
48902744 GGATGCTCCG
*
48902754 AAGAGCTATTAACGGAAAGCTCAC
1 AAGAGCTATTAACGGAAAGCTCAA
* * *
48902778 AAGAACCATATAACGGGAAGCTCAA
1 AAGAGCTAT-TAACGGAAAGCTCAA
* *
48902803 AAGGGCTAATAAC
1 AAGAGCTATTAAC
48902816 AGGACGCTCT
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
24 11 0.38
25 18 0.62
ACGTcount: A:0.45, C:0.19, G:0.21, T:0.15
Consensus pattern (24 bp):
AAGAGCTATTAACGGAAAGCTCAA
Found at i:48905374 original size:18 final size:18
Alignment explanation
Indices: 48905351--48905385 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
48905341 AGTTTTAATA
* *
48905351 TTTAATTTGGTATTTAAG
1 TTTAATTAGGTACTTAAG
48905369 TTTAATTAGGTACTTAA
1 TTTAATTAGGTACTTAA
48905386 TTGATATGTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.03, G:0.14, T:0.51
Consensus pattern (18 bp):
TTTAATTAGGTACTTAAG
Found at i:48915285 original size:9 final size:9
Alignment explanation
Indices: 48915271--48915331 Score: 52
Period size: 9 Copynumber: 6.7 Consensus size: 9
48915261 CAATCACTTA
48915271 ATTATTTTT
1 ATTATTTTT
*
48915280 ATTATTATT
1 ATTATTTTT
**
48915289 GCTATTTTT
1 ATTATTTTT
48915298 ATTATTTTAT
1 ATTATTTT-T
*
48915308 CACTATTTTT
1 -ATTATTTTT
*
48915318 -TTATTGTT
1 ATTATTTTT
48915326 ATTATT
1 ATTATT
48915332 ATATTTAATT
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
8 6 0.15
9 25 0.62
10 2 0.05
11 7 0.17
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.69
Consensus pattern (9 bp):
ATTATTTTT
Found at i:48915313 original size:20 final size:20
Alignment explanation
Indices: 48915273--48915327 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
48915263 ATCACTTAAT
**
48915273 TATTTTTATTA--TTATTGC
1 TATTTTTATTATTTTATCAC
48915291 TATTTTTATTATTTTATCAC
1 TATTTTTATTATTTTATCAC
48915311 TATTTTT-TTATTGTTAT
1 TATTTTTATTATT-TTAT
48915328 TATTATATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 11 0.34
19 5 0.16
20 16 0.50
ACGTcount: A:0.22, C:0.05, G:0.04, T:0.69
Consensus pattern (20 bp):
TATTTTTATTATTTTATCAC
Found at i:48920412 original size:19 final size:18
Alignment explanation
Indices: 48920390--48920440 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
48920380 GTTCAGATTC
*
48920390 AAAAAAAAATCAAAATAA
1 AAAAAAAAAACAAAATAA
48920408 AAAAAAAGAAGA-AAAATAA
1 AAAAAAA-AA-ACAAAATAA
*
48920427 AAATAAAAAACAAA
1 AAAAAAAAAACAAA
48920441 GGTCAAAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
17 1 0.04
18 12 0.43
19 15 0.54
ACGTcount: A:0.84, C:0.04, G:0.04, T:0.08
Consensus pattern (18 bp):
AAAAAAAAAACAAAATAA
Found at i:48920455 original size:25 final size:24
Alignment explanation
Indices: 48920394--48920441 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 24
48920384 AGATTCAAAA
*
48920394 AAAAATCAAAATAAAAAAAAAGAAG
1 AAAAATAAAAATAAAAAAAAAG-AG
48920419 AAAAATAAAAATAAAAAACAAAG
1 AAAAATAAAAATAAAAAA-AAAG
48920442 GTCAAAATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.81, C:0.04, G:0.06, T:0.08
Consensus pattern (24 bp):
AAAAATAAAAATAAAAAAAAAGAG
Found at i:48922420 original size:87 final size:87
Alignment explanation
Indices: 48922145--48922673 Score: 799
Period size: 87 Copynumber: 6.1 Consensus size: 87
48922135 AGATCAGTGA
* *
48922145 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAATGGAGCTGGTTGAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
48922210 CTTCCTGCGTTAACAGCGAAGC
66 CTTCCTGCGTTAACAGCGAAGC
* * *
48922232 AGATCTAAAACAAAACCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATA-CAGATTTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* * * *
48922296 CTTCCAGCATTAACAGCAAAGT
66 CTTCCTGCGTTAACAGCGAAGC
* *
48922318 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTAGTTGAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
** *
48922383 CTTCCTGCGTTAACAGTAAAGT
66 CTTCCTGCGTTAACAGCGAAGC
** *
48922405 AGATCGAAAGTAAAGCCTTGTCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
48922470 CTTCCTGCGTTAACAGCGAAGC
66 CTTCCTGCGTTAACAGCGAAGC
* *
48922492 AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCATATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
*
48922557 CTTCCTGCGTTAACAGCGAAGT
66 CTTCCTGCGTTAACAGCGAAGC
* * *
48922579 AGATCGAAAACAAAGCCTTGCCTCTATCGGTTGCAGTGGAGTTGGTTAAAGAAAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* * ** *
48922644 CCTCCTACGTCGACAGTGAAGC
66 CTTCCTGCGTTAACAGCGAAGC
48922666 AGATCGAA
1 AGATCGAA
48922674 TATTACAAGT
Statistics
Matches: 399, Mismatches: 42, Indels: 2
0.90 0.09 0.00
Matches are distributed among these distances:
86 77 0.19
87 322 0.81
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.24
Consensus pattern (87 bp):
AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
CTTCCTGCGTTAACAGCGAAGC
Found at i:48922922 original size:44 final size:45
Alignment explanation
Indices: 48922810--48922937 Score: 170
Period size: 44 Copynumber: 2.9 Consensus size: 45
48922800 ATCCCATCAG
48922810 GTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAA-AAAACGA
1 GTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGAAAACGA
* * *
48922854 GTCTTATCTTCCTAAAGTTGCAGTGGAGTAGACT-AAGAAAATGA
1 GTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGAAAACGA
* ** * *
48922898 GTCTTATCCCCCTGAAGTCACAGTGGGGCAGACTGAAGAA
1 GTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGAA
48922938 GCAAATCTTC
Statistics
Matches: 72, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
43 2 0.03
44 65 0.90
45 5 0.07
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (45 bp):
GTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGAAAACGA
Found at i:48923036 original size:42 final size:42
Alignment explanation
Indices: 48922964--48923047 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 42
48922954 TGAGGTTGCA
* *
48922964 GTGGAGCAGATTGAAGTCGATAATCCTATCTCCCTGAAGTTG
1 GTGGAGCAGATTAAAGTCAATAATCCTATCTCCCTGAAGTTG
* * *
48923006 GTGGAGCGGATTAAAGT-AATAGATCTTATCTCTCTGAAGTTG
1 GTGGAGCAGATTAAAGTCAATA-ATCCTATCTCCCTGAAGTTG
48923048 CACTAGAGCA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
41 3 0.08
42 33 0.92
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.31
Consensus pattern (42 bp):
GTGGAGCAGATTAAAGTCAATAATCCTATCTCCCTGAAGTTG
Found at i:48924517 original size:9 final size:9
Alignment explanation
Indices: 48924503--48924563 Score: 52
Period size: 9 Copynumber: 6.7 Consensus size: 9
48924493 CAATCACTTA
48924503 ATTATTTTT
1 ATTATTTTT
*
48924512 ATTATTATT
1 ATTATTTTT
**
48924521 GCTATTTTT
1 ATTATTTTT
48924530 ATTATTTTAT
1 ATTATTTT-T
*
48924540 CACTATTTTT
1 -ATTATTTTT
*
48924550 -TTATTGTT
1 ATTATTTTT
48924558 ATTATT
1 ATTATT
48924564 ATATTTAATT
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
8 6 0.15
9 25 0.62
10 2 0.05
11 7 0.17
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.69
Consensus pattern (9 bp):
ATTATTTTT
Found at i:48924545 original size:20 final size:20
Alignment explanation
Indices: 48924505--48924559 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
48924495 ATCACTTAAT
**
48924505 TATTTTTATTA--TTATTGC
1 TATTTTTATTATTTTATCAC
48924523 TATTTTTATTATTTTATCAC
1 TATTTTTATTATTTTATCAC
48924543 TATTTTT-TTATTGTTAT
1 TATTTTTATTATT-TTAT
48924560 TATTATATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 11 0.34
19 5 0.16
20 16 0.50
ACGTcount: A:0.22, C:0.05, G:0.04, T:0.69
Consensus pattern (20 bp):
TATTTTTATTATTTTATCAC
Found at i:48928490 original size:21 final size:21
Alignment explanation
Indices: 48928448--48928517 Score: 108
Period size: 21 Copynumber: 3.4 Consensus size: 21
48928438 GAGTACATCG
*
48928448 TGAACAGAAGCTTG-AA-AGC
1 TGAACAGAAGCTCGTAAGAGC
48928467 TGAACAGAAGCTCGTAAGAGC
1 TGAACAGAAGCTCGTAAGAGC
48928488 TGAACAGAAGCTCGTAAGAGC
1 TGAACAGAAGCTCGTAAGAGC
*
48928509 TGAATAGAA
1 TGAACAGAA
48928518 AGTAAAACAT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
19 13 0.28
20 2 0.04
21 32 0.68
ACGTcount: A:0.41, C:0.16, G:0.27, T:0.16
Consensus pattern (21 bp):
TGAACAGAAGCTCGTAAGAGC
Found at i:48935653 original size:24 final size:24
Alignment explanation
Indices: 48935623--48935718 Score: 147
Period size: 24 Copynumber: 4.0 Consensus size: 24
48935613 TTGTTTTGTG
48935623 GCAAAGGATGAATTGACGGTAAAT
1 GCAAAGGATGAATTGACGGTAAAT
*
48935647 GTAAAGGATGAATTGACGGTAAAT
1 GCAAAGGATGAATTGACGGTAAAT
* *
48935671 GCAAAGGATGAATTGATGGAAAAT
1 GCAAAGGATGAATTGACGGTAAAT
* *
48935695 GCAAAAGATGAATTGACGGCAAAT
1 GCAAAGGATGAATTGACGGTAAAT
48935719 TAGCCAAGTC
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 65 1.00
ACGTcount: A:0.44, C:0.07, G:0.28, T:0.21
Consensus pattern (24 bp):
GCAAAGGATGAATTGACGGTAAAT
Found at i:48938061 original size:16 final size:17
Alignment explanation
Indices: 48938031--48938063 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
48938021 TATTATAATC
*
48938031 TATATTATAATAATAGT
1 TATATTATAACAATAGT
48938048 TATA-TATAACAATAGT
1 TATATTATAACAATAGT
48938064 ACATTATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.42
Consensus pattern (17 bp):
TATATTATAACAATAGT
Found at i:48939485 original size:21 final size:21
Alignment explanation
Indices: 48939431--48939485 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
48939421 GGATTTTACT
* *
48939431 GGTGGTGGTGGAGACTTGACG
1 GGTGGTGGTGGTGACTAGACG
* * *
48939452 GGTGGAGGCGGTGAGTAGACG
1 GGTGGTGGTGGTGACTAGACG
48939473 GGTGGTGGTGGTG
1 GGTGGTGGTGGTG
48939486 GTGGTGAGCG
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.13, C:0.07, G:0.58, T:0.22
Consensus pattern (21 bp):
GGTGGTGGTGGTGACTAGACG
Found at i:48939539 original size:21 final size:21
Alignment explanation
Indices: 48939479--48939541 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
48939469 GACGGGTGGT
* * *
48939479 GGTGGTGGTGGTGAGCGCACT
1 GGTGGTGGTGGTGAGAGGACG
* *
48939500 GGTGGGGGTGGGGAGAGGACG
1 GGTGGTGGTGGTGAGAGGACG
*
48939521 GGTGGTGGTGGTGAAAGGACG
1 GGTGGTGGTGGTGAGAGGACG
48939542 NCCGTTGGAG
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.14, C:0.08, G:0.60, T:0.17
Consensus pattern (21 bp):
GGTGGTGGTGGTGAGAGGACG
Found at i:48941181 original size:14 final size:13
Alignment explanation
Indices: 48941161--48941194 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
48941151 GTGCTTTTTC
48941161 TAAAAAAAATTAA
1 TAAAAAAAATTAA
*
48941174 TCAAAAAAATTTAA
1 T-AAAAAAAATTAA
48941188 TAAAAAA
1 TAAAAAA
48941195 TTAAGTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAAAAAAATTAA
Found at i:48942034 original size:40 final size:40
Alignment explanation
Indices: 48941990--48942069 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
48941980 ATAAAAAGTT
48941990 TTAGAGTTTGGAGAGTAAAATTTTGATGGGGGAATATTCA
1 TTAGAGTTTGGAGAGTAAAATTTTGATGGGGGAATATTCA
48942030 TTAGAGTTTGGAGAGTAAAATTTTGATGGGGGAATATTCA
1 TTAGAGTTTGGAGAGTAAAATTTTGATGGGGGAATATTCA
48942070 AAAAAATATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.33, C:0.03, G:0.30, T:0.35
Consensus pattern (40 bp):
TTAGAGTTTGGAGAGTAAAATTTTGATGGGGGAATATTCA
Found at i:48944119 original size:16 final size:16
Alignment explanation
Indices: 48944100--48944160 Score: 59
Period size: 16 Copynumber: 3.6 Consensus size: 16
48944090 TCTTGAGGTA
*
48944100 AAATTAATTTAAGTTT
1 AAATTAATTTAAATTT
*
48944116 AAATTATTTTAAAATTT
1 AAATTAATTT-AAATTT
*
48944133 AAACTAATTTAAATAACTT
1 AAATTAATTTAAAT---TT
48944152 AAATTAATT
1 AAATTAATT
48944161 GGATAAGTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
16 13 0.36
17 13 0.36
19 10 0.28
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (16 bp):
AAATTAATTTAAATTT
Found at i:48944133 original size:17 final size:17
Alignment explanation
Indices: 48944100--48944160 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
48944090 TCTTGAGGTA
*
48944100 AAATTAATTT-AAGTTT
1 AAATTAATTTAAAATTT
*
48944116 AAATTATTTTAAAATTT
1 AAATTAATTTAAAATTT
* *
48944133 AAACTAATTTAAATAACTT
1 AAATTAATTT-AA-AATTT
48944152 AAATTAATT
1 AAATTAATT
48944161 GGATAAGTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
16 9 0.25
17 13 0.36
18 2 0.06
19 12 0.33
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (17 bp):
AAATTAATTTAAAATTT
Found at i:48944345 original size:10 final size:10
Alignment explanation
Indices: 48944311--48944373 Score: 51
Period size: 9 Copynumber: 6.6 Consensus size: 10
48944301 TTTAAATTCC
*
48944311 TAAAATTATA
1 TAAAATTTTA
*
48944321 TAATATTTT-
1 TAAAATTTTA
48944330 TAAAATTTTA
1 TAAAATTTTA
*
48944340 TAAAA-TTCA
1 TAAAATTTTA
* *
48944349 AAAAATATT-
1 TAAAATTTTA
48944358 TAAAATTTTA
1 TAAAATTTTA
*
48944368 GAAAAT
1 TAAAAT
48944374 ATGAAAAATT
Statistics
Matches: 40, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
9 22 0.55
10 18 0.45
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (10 bp):
TAAAATTTTA
Found at i:48945917 original size:11 final size:11
Alignment explanation
Indices: 48945901--48945930 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
48945891 CGTTTAACGC
48945901 CGACCCGCGTG
1 CGACCCGCGTG
48945912 CGACCCCGCGTG
1 CGA-CCCGCGTG
48945924 CGACCCG
1 CGACCCG
48945931 ACCGGCTCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.10, C:0.50, G:0.33, T:0.07
Consensus pattern (11 bp):
CGACCCGCGTG
Found at i:48945921 original size:12 final size:12
Alignment explanation
Indices: 48945904--48945929 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
48945894 TTAACGCCGA
48945904 CCCGCGTGCGAC
1 CCCGCGTGCGAC
48945916 CCCGCGTGCGAC
1 CCCGCGTGCGAC
48945928 CC
1 CC
48945930 GACCGGCTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.54, G:0.31, T:0.08
Consensus pattern (12 bp):
CCCGCGTGCGAC
Found at i:48946361 original size:3 final size:3
Alignment explanation
Indices: 48946353--48946386 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
48946343 TTTAACCTTG
48946353 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
48946387 TACTCACTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:48947034 original size:72 final size:72
Alignment explanation
Indices: 48946933--48947075 Score: 241
Period size: 72 Copynumber: 2.0 Consensus size: 72
48946923 TATTTTCAAA
* * * *
48946933 CTCAAGTTTTAAACGATCTTGGGAATTAAGAAGAGATCGTGTCCTAATTTACTGGGCATGATCCT
1 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCA
48946998 TTTTTTT
66 TTTTTTT
*
48947005 CTCAAGTTTTAAATGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCA
1 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCA
48947070 TTTTTT
66 TTTTTT
48947076 AAATCCGAGA
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
72 66 1.00
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (72 bp):
CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCA
TTTTTTT
Found at i:48955530 original size:21 final size:21
Alignment explanation
Indices: 48955506--48955546 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
48955496 AAACGAACAT
*
48955506 GATAAATAATAAATACGTCAC
1 GATAAATAAGAAATACGTCAC
*
48955527 GATAAATAAGAAATATGTCA
1 GATAAATAAGAAATACGTCA
48955547 ATTTTATATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.54, C:0.10, G:0.12, T:0.24
Consensus pattern (21 bp):
GATAAATAAGAAATACGTCAC
Found at i:48955871 original size:14 final size:14
Alignment explanation
Indices: 48955852--48955878 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
48955842 TTTTAGTGGC
48955852 TTGATAATGGTGTT
1 TTGATAATGGTGTT
48955866 TTGATAATGGTGT
1 TTGATAATGGTGT
48955879 AAACAGCACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (14 bp):
TTGATAATGGTGTT
Found at i:48956750 original size:24 final size:24
Alignment explanation
Indices: 48956715--48956801 Score: 129
Period size: 24 Copynumber: 3.6 Consensus size: 24
48956705 TAGACTAATT
* *
48956715 AGAGTTTGATTGAAATAAATAAGC
1 AGAGTTTAATTGAAACAAATAAGC
48956739 AGAGTTTAATTGAAACAAATAAGC
1 AGAGTTTAATTGAAACAAATAAGC
* *
48956763 AGAGTTAAATTGAAACAAATAAAC
1 AGAGTTTAATTGAAACAAATAAGC
*
48956787 AGAGTTTAACTGAAA
1 AGAGTTTAATTGAAA
48956802 GATTATTTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 57 1.00
ACGTcount: A:0.51, C:0.07, G:0.17, T:0.25
Consensus pattern (24 bp):
AGAGTTTAATTGAAACAAATAAGC
Found at i:48963762 original size:24 final size:24
Alignment explanation
Indices: 48963735--48963786 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
48963725 TTAGTAAGTC
*
48963735 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
48963759 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
48963783 AAAT
1 AAAT
48963787 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:48966329 original size:3 final size:3
Alignment explanation
Indices: 48966321--48966359 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
48966311 CATTGAACCA
*
48966321 ATC ATC ATC ATC ATC ATC ATC ATC ATC AAC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
48966360 TCCATGACGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.31
Consensus pattern (3 bp):
ATC
Found at i:48973907 original size:8 final size:8
Alignment explanation
Indices: 48973896--48973927 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
48973886 AAAGTTTAAA
*
48973896 GAAATTGC
1 GAAATTAC
48973904 GAAATTAC
1 GAAATTAC
48973912 GAAATTAC
1 GAAATTAC
48973920 GAAATTAC
1 GAAATTAC
48973928 TCCACTGATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.47, C:0.12, G:0.16, T:0.25
Consensus pattern (8 bp):
GAAATTAC
Found at i:48976385 original size:19 final size:17
Alignment explanation
Indices: 48976353--48976387 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
48976343 ATTCACATTC
48976353 CATCATTCTCAATTCAA
1 CATCATTCTCAATTCAA
48976370 CATCAATTCGTCAATTCA
1 CATC-ATTC-TCAATTCA
48976388 TCATATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 4 0.25
19 8 0.50
ACGTcount: A:0.34, C:0.29, G:0.03, T:0.34
Consensus pattern (17 bp):
CATCATTCTCAATTCAA
Found at i:48981034 original size:21 final size:22
Alignment explanation
Indices: 48981010--48981068 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 22
48981000 ATTCATGAAG
*
48981010 TTAAAAAAATAACTCTTAATT-
1 TTAAAAAAATAACTCGTAATTA
*
48981031 TTAAAAAAATAA-ACGTAATTA
1 TTAAAAAAATAACTCGTAATTA
48981052 TCTAAAGAAAATAACTC
1 T-TAAA-AAAATAACTC
48981069 ATAGTATGAG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 6 0.19
21 13 0.42
22 4 0.13
23 7 0.23
24 1 0.03
ACGTcount: A:0.56, C:0.10, G:0.03, T:0.31
Consensus pattern (22 bp):
TTAAAAAAATAACTCGTAATTA
Found at i:48991886 original size:24 final size:24
Alignment explanation
Indices: 48991854--48991906 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
48991844 GTTTTAAGAG
48991854 AATGTTTACATACTCTTGAAGTAT
1 AATGTTTACATACTCTTGAAGTAT
48991878 AATGTTTACATACTCTTGAAGTAT
1 AATGTTTACATACTCTTGAAGTAT
48991902 -ATGTT
1 AATGTT
48991907 AAACCTTAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 5 0.17
24 24 0.83
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.43
Consensus pattern (24 bp):
AATGTTTACATACTCTTGAAGTAT
Found at i:48996050 original size:225 final size:224
Alignment explanation
Indices: 48995660--48996103 Score: 816
Period size: 225 Copynumber: 2.0 Consensus size: 224
48995650 CAAACCCTCT
*****
48995660 ACTCTCTATTTATACCAAAATTTTACAAATTTTTTTTACATTTTATTCACTTTAGTCCTTATGTA
1 ACTCTCTATTTATACCAAAATTTTACAAAAAAAATTTACATTTTATTCACTTTAGTCCTTATGTA
48995725 CAAAACTAACAATTTAATTTTACAATCTAGTCAATTTTCATAATCTAAGCTTAAAATCTATCAAT
66 CAAAACTAACAATTTAATTTTACAATCTAGTCAATTTTCATAATCTAAGCTTAAAATCTATCAAT
48995790 TTAACACCATTTTCTTCAAGACATAAACAATGACAACTTTCAAAAACTTTAATAGCTTTACAAAT
131 TTAACACCATTTTCTTCAAGACATAAACAATGACAACTTTCAAAAACTTTAATAGCTTTACAAAT
*
48995855 TGGTACGTGGGTTAGCTAAAACAATGACA
196 TGGTACATGGGTTAGCTAAAACAATGACA
48995884 ACTCTCTATTTATACCAAAATTTTACAAAAAAAAATTTACATTTTATTCACTTTAGTCCTTATGT
1 ACTCTCTATTTATACCAAAATTTTAC-AAAAAAAATTTACATTTTATTCACTTTAGTCCTTATGT
*
48995949 ACAAAACTAACAATTTAATTTTACAATCTATTCAATTTTCATAATCTAAGCTTAAAATCTATCAA
65 ACAAAACTAACAATTTAATTTTACAATCTAGTCAATTTTCATAATCTAAGCTTAAAATCTATCAA
48996014 TTTAACACCATTTTCTTCAAGACATAAACAATGACAACTTTCAAAAACTTTAATAGCTTTACAAA
130 TTTAACACCATTTTCTTCAAGACATAAACAATGACAACTTTCAAAAACTTTAATAGCTTTACAAA
48996079 TTGGTACATGGGTTAGCTAAAACAA
195 TTGGTACATGGGTTAGCTAAAACAA
48996104 GCTTCAATGA
Statistics
Matches: 212, Mismatches: 7, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
224 26 0.12
225 186 0.88
ACGTcount: A:0.39, C:0.17, G:0.06, T:0.37
Consensus pattern (224 bp):
ACTCTCTATTTATACCAAAATTTTACAAAAAAAATTTACATTTTATTCACTTTAGTCCTTATGTA
CAAAACTAACAATTTAATTTTACAATCTAGTCAATTTTCATAATCTAAGCTTAAAATCTATCAAT
TTAACACCATTTTCTTCAAGACATAAACAATGACAACTTTCAAAAACTTTAATAGCTTTACAAAT
TGGTACATGGGTTAGCTAAAACAATGACA
Found at i:48996572 original size:21 final size:21
Alignment explanation
Indices: 48996546--48996588 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
48996536 TTTTCTCTGG
48996546 AGAAAAACAAACTTAATAATT
1 AGAAAAACAAACTTAATAATT
**
48996567 AGAAAAACTTACTTAATAATT
1 AGAAAAACAAACTTAATAATT
48996588 A
1 A
48996589 TCATTGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.58, C:0.09, G:0.05, T:0.28
Consensus pattern (21 bp):
AGAAAAACAAACTTAATAATT
Found at i:48997588 original size:15 final size:15
Alignment explanation
Indices: 48997572--48997602 Score: 53
Period size: 15 Copynumber: 2.0 Consensus size: 15
48997562 AACGTGTTAT
48997572 AAAATAAATAGAAATA
1 AAAAT-AATAGAAATA
48997588 AAAATAATAGAAATA
1 AAAATAATAGAAATA
48997603 GGAGAGCAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.19
Consensus pattern (15 bp):
AAAATAATAGAAATA
Found at i:49000780 original size:35 final size:34
Alignment explanation
Indices: 49000741--49000832 Score: 91
Period size: 34 Copynumber: 2.6 Consensus size: 34
49000731 GTTTTTTAAG
49000741 TTTTAAAAAATAAGGTGTCTAA-T-CTCTTTATACTT
1 TTTTAAAAAATAA---GTCTAATTACTCTTTATACTT
*
49000776 TTTTATAAATATAAGTCTAATTACTCTTTATAC-T
1 TTTTA-AAAAATAAGTCTAATTACTCTTTATACTT
* *
49000810 TTTTATAAATATAAATCTAATTA
1 TTTTA-AAAAATAAGTCTAATTA
49000833 TTAATATTAT
Statistics
Matches: 52, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
33 6 0.12
34 24 0.46
35 15 0.29
36 7 0.13
ACGTcount: A:0.38, C:0.10, G:0.04, T:0.48
Consensus pattern (34 bp):
TTTTAAAAAATAAGTCTAATTACTCTTTATACTT
Found at i:49000786 original size:34 final size:34
Alignment explanation
Indices: 49000757--49000832 Score: 120
Period size: 34 Copynumber: 2.3 Consensus size: 34
49000747 AAAATAAGGT
49000757 GTCTAA-T-CTCTTTATACTTTTTTATAAATATAA
1 GTCTAATTACTCTTTATAC-TTTTTATAAATATAA
49000790 GTCTAATTACTCTTTATACTTTTTATAAATATAA
1 GTCTAATTACTCTTTATACTTTTTATAAATATAA
*
49000824 ATCTAATTA
1 GTCTAATTA
49000833 TTAATATTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
33 6 0.15
34 24 0.60
35 10 0.25
ACGTcount: A:0.36, C:0.12, G:0.03, T:0.50
Consensus pattern (34 bp):
GTCTAATTACTCTTTATACTTTTTATAAATATAA
Found at i:49005195 original size:7 final size:7
Alignment explanation
Indices: 49005183--49005215 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
49005173 TAGTCGATTG
49005183 GTATTTA
1 GTATTTA
49005190 GTATTTA
1 GTATTTA
49005197 GTATTTA
1 GTATTTA
49005204 GTATTTA
1 GTATTTA
49005211 GTATT
1 GTATT
49005216 ATGTATATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:49005893 original size:18 final size:18
Alignment explanation
Indices: 49005866--49005905 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
49005856 CAGGTGCGTT
* *
49005866 TCCTAGCCCTTATATGTA
1 TCCTAACCCTTATATCTA
49005884 TCCTAACCCTTATATCTA
1 TCCTAACCCTTATATCTA
49005902 TCCT
1 TCCT
49005906 TTTCCGAGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.23, C:0.33, G:0.05, T:0.40
Consensus pattern (18 bp):
TCCTAACCCTTATATCTA
Found at i:49006370 original size:25 final size:25
Alignment explanation
Indices: 49006337--49006483 Score: 180
Period size: 25 Copynumber: 6.1 Consensus size: 25
49006327 TTTGATATTT
49006337 TTTGATGTAATAAAATAGAAGTTTA
1 TTTGATGTAATAAAATAGAAGTTTA
49006362 TTTGATGTAATAAAATAGAAGTTTA
1 TTTGATGTAATAAAATAGAAGTTTA
* *
49006387 TTTGATGTAATAAAATAGAAATTTT
1 TTTGATGTAATAAAATAGAAGTTTA
** *
49006412 TTTGA-GT--T-ATTTTG-A-TATTA
1 TTTGATGTAATAAAATAGAAGT-TTA
*
49006432 TTTGATGTAATATAATAGAAGTTTA
1 TTTGATGTAATAAAATAGAAGTTTA
*
49006457 TTTGATGTAATAAAATATAAGTTTA
1 TTTGATGTAATAAAATAGAAGTTTA
49006482 TT
1 TT
49006484 CTCCAACGCC
Statistics
Matches: 103, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
19 1 0.01
20 8 0.08
21 5 0.05
22 1 0.01
23 1 0.01
24 4 0.04
25 82 0.80
26 1 0.01
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.46
Consensus pattern (25 bp):
TTTGATGTAATAAAATAGAAGTTTA
Found at i:49007338 original size:25 final size:25
Alignment explanation
Indices: 49007305--49007451 Score: 180
Period size: 25 Copynumber: 6.1 Consensus size: 25
49007295 TTTGATATTT
49007305 TTTGATGTAATAAAATAGAAGTTTA
1 TTTGATGTAATAAAATAGAAGTTTA
49007330 TTTGATGTAATAAAATAGAAGTTTA
1 TTTGATGTAATAAAATAGAAGTTTA
* *
49007355 TTTGATGTAATAAAATAGAAATTTT
1 TTTGATGTAATAAAATAGAAGTTTA
** *
49007380 TTTGA-GT--T-ATTTTG-A-TATTA
1 TTTGATGTAATAAAATAGAAGT-TTA
*
49007400 TTTGATGTAATATAATAGAAGTTTA
1 TTTGATGTAATAAAATAGAAGTTTA
*
49007425 TTTGATGTAATAAAATATAAGTTTA
1 TTTGATGTAATAAAATAGAAGTTTA
49007450 TT
1 TT
49007452 CTCCAACGCC
Statistics
Matches: 103, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
19 1 0.01
20 8 0.08
21 5 0.05
22 1 0.01
23 1 0.01
24 4 0.04
25 82 0.80
26 1 0.01
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.46
Consensus pattern (25 bp):
TTTGATGTAATAAAATAGAAGTTTA
Found at i:49007788 original size:968 final size:968
Alignment explanation
Indices: 49005913--49007850 Score: 3860
Period size: 968 Copynumber: 2.0 Consensus size: 968
49005903 CCTTTTCCGA
49005913 GTCCTATGGCAGGTTGGAGCCAATGGCCCGGTTCAGCTCCATTTCCTGTTACGCTGAGTGGACCG
1 GTCCTATGGCAGGTTGGAGCCAATGGCCCGGTTCAGCTCCATTTCCTGTTACGCTGAGTGGACCG
49005978 CCGATGTATAGGCCAGCAGCGCACGAGGGATTACAAAAGGGGCTGTCGGAGAGCTCTCTTTTTTA
66 CCGATGTATAGGCCAGCAGCGCACGAGGGATTACAAAAGGGGCTGTCGGAGAGCTCTCTTTTTTA
49006043 CCAATCCCCACCAACGTATGGGTTTCAAACACCGTCGCCGTTCGTGACGCAAACACCTCCACATA
131 CCAATCCCCACCAACGTATGGGTTTCAAACACCGTCGCCGTTCGTGACGCAAACACCTCCACATA
49006108 CACTGTTCTTTGAGGGTGGATCATCATCCCAAGTTCGACAACCAGATGTCGTACCAGAAGAACCA
196 CACTGTTCTTTGAGGGTGGATCATCATCCCAAGTTCGACAACCAGATGTCGTACCAGAAGAACCA
49006173 GAATCCCCACTGGAGGAACAACAATCGCCACCAGAAGCTAGAGAAATGAGGAATCCATCGTGTAA
261 GAATCCCCACTGGAGGAACAACAATCGCCACCAGAAGCTAGAGAAATGAGGAATCCATCGTGTAA
49006238 CCGTCGACGGCTGCCATGTGGCACTGAATCCCCTGGGCATAGACATTGATTGCCATATTTAAATT
326 CCGTCGACGGCTGCCATGTGGCACTGAATCCCCTGGGCATAGACATTGATTGCCATATTTAAATT
49006303 TATTTATACAAATATTTTGAATATTTTGATATTTTTTGATGTAATAAAATAGAAGTTTATTTGAT
391 TATTTATACAAATATTTTGAATATTTTGATATTTTTTGATGTAATAAAATAGAAGTTTATTTGAT
49006368 GTAATAAAATAGAAGTTTATTTGATGTAATAAAATAGAAATTTTTTTGAGTTATTTTGATATTAT
456 GTAATAAAATAGAAGTTTATTTGATGTAATAAAATAGAAATTTTTTTGAGTTATTTTGATATTAT
49006433 TTGATGTAATATAATAGAAGTTTATTTGATGTAATAAAATATAAGTTTATTCTCCAACGCCTTTT
521 TTGATGTAATATAATAGAAGTTTATTTGATGTAATAAAATATAAGTTTATTCTCCAACGCCTTTT
49006498 GCTTAGCTATCCAAGCCTTGCGGTAAGAGCGCGTGTACCCCATTTGGCTACGAATATTGGTAATT
586 GCTTAGCTATCCAAGCCTTGCGGTAAGAGCGCGTGTACCCCATTTGGCTACGAATATTGGTAATT
49006563 AACACCGGCACTGAAGTCCTAGGATCTGCTTTAACCATAGGCAGTATCAAGCTAGCTAACATAGC
651 AACACCGGCACTGAAGTCCTAGGATCTGCTTTAACCATAGGCAGTATCAAGCTAGCTAACATAGC
49006628 TGAATCCATATTGGGATGATCTTGTGAAACACCTATAAACTGAGTACATTAAATTATGCAACATT
716 TGAATCCATATTGGGATGATCTTGTGAAACACCTATAAACTGAGTACATTAAATTATGCAACATT
49006693 GCATAATAAAAGTATTATTCAAAAACCGTCAATACTGTACCTGCAGCACATGTATGTGGAACTTT
781 GCATAATAAAAGTATTATTCAAAAACCGTCAATACTGTACCTGCAGCACATGTATGTGGAACTTT
49006758 GTACTTTTTAATCTCCCACAACCATGTCATTTTCCTTAACGAGGCGTAGATATTCCATGAACATG
846 GTACTTTTTAATCTCCCACAACCATGTCATTTTCCTTAACGAGGCGTAGATATTCCATGAACATG
49006823 TGTTGTCTTGGACCGCACACTTCGCCTCAAACTTATCAGATTTGGATTTAACGACGGG
911 TGTTGTCTTGGACCGCACACTTCGCCTCAAACTTATCAGATTTGGATTTAACGACGGG
49006881 GTCCTATGGCAGGTTGGAGCCAAAT-GCCCGGTTCAGCTCCATTTCCTGTTACGCTGAGTGGACC
1 GTCCTATGGCAGGTTGGAGCC-AATGGCCCGGTTCAGCTCCATTTCCTGTTACGCTGAGTGGACC
49006945 GCCGATGTATAGGCCAGCAGCGCACGAGGGATTACAAAAGGGGCTGTCGGAGAGCTCTCTTTTTT
65 GCCGATGTATAGGCCAGCAGCGCACGAGGGATTACAAAAGGGGCTGTCGGAGAGCTCTCTTTTTT
49007010 ACCAATCCCCACCAACGTATGGGTTTCAAACACCGTCGCCGTTCGTGACGCAAACACCTCCACAT
130 ACCAATCCCCACCAACGTATGGGTTTCAAACACCGTCGCCGTTCGTGACGCAAACACCTCCACAT
49007075 ACACTGTTCTTTGAGGGTGGATCATCATCCCAAGTTCGACAACCAGATGTCGTACCAGAAGAACC
195 ACACTGTTCTTTGAGGGTGGATCATCATCCCAAGTTCGACAACCAGATGTCGTACCAGAAGAACC
49007140 AGAATCCCCACTGGAGGAACAACAATCGCCACCAGAAGCTAGAGAAATGAGGAATCCATCGTGTA
260 AGAATCCCCACTGGAGGAACAACAATCGCCACCAGAAGCTAGAGAAATGAGGAATCCATCGTGTA
49007205 ACCGTCGACGGCTGCCATGTGGCACTGAATCCCCTGGGCATAGACATTGATTGCCATATTTAAAT
325 ACCGTCGACGGCTGCCATGTGGCACTGAATCCCCTGGGCATAGACATTGATTGCCATATTTAAAT
49007270 TTATTTATACAAATATTTTGAATATTTTGATATTTTTTGATGTAATAAAATAGAAGTTTATTTGA
390 TTATTTATACAAATATTTTGAATATTTTGATATTTTTTGATGTAATAAAATAGAAGTTTATTTGA
49007335 TGTAATAAAATAGAAGTTTATTTGATGTAATAAAATAGAAATTTTTTTGAGTTATTTTGATATTA
455 TGTAATAAAATAGAAGTTTATTTGATGTAATAAAATAGAAATTTTTTTGAGTTATTTTGATATTA
49007400 TTTGATGTAATATAATAGAAGTTTATTTGATGTAATAAAATATAAGTTTATTCTCCAACGCCTTT
520 TTTGATGTAATATAATAGAAGTTTATTTGATGTAATAAAATATAAGTTTATTCTCCAACGCCTTT
49007465 TGCTTAGCTATCCAAGCCTTGCGGTAAGAGCGCGTGTACCCCATTTGGCTACGAATATTGGTAAT
585 TGCTTAGCTATCCAAGCCTTGCGGTAAGAGCGCGTGTACCCCATTTGGCTACGAATATTGGTAAT
49007530 TAACACCGGCACTGAAGTCCTAGGATCTGCTTTAACCATAGGCAGTATCAAGCTAGCTAACATAG
650 TAACACCGGCACTGAAGTCCTAGGATCTGCTTTAACCATAGGCAGTATCAAGCTAGCTAACATAG
49007595 CTGAATCCATATTGGGATGATCTTGTGAAACACCTATAAACTGAGTACATTAAATTATGCAACAT
715 CTGAATCCATATTGGGATGATCTTGTGAAACACCTATAAACTGAGTACATTAAATTATGCAACAT
49007660 TGCATAATAAAAGTATTATTCAAAAACCGTCAATACTGTACCTGCAGCACATGTATGTGGAACTT
780 TGCATAATAAAAGTATTATTCAAAAACCGTCAATACTGTACCTGCAGCACATGTATGTGGAACTT
49007725 TGTACTTTTTAATCTCCCACAACCATGTCATTTTCCTTAACGAGGCGTAGATATTCCATGAACAT
845 TGTACTTTTTAATCTCCCACAACCATGTCATTTTCCTTAACGAGGCGTAGATATTCCATGAACAT
49007790 GTGTTGTCTTGGACCGCACACTTCGCCTCAAACTTATCAGATTTGGATTTAACGACGGG
910 GTGTTGTCTTGGACCGCACACTTCGCCTCAAACTTATCAGATTTGGATTTAACGACGGG
49007849 GT
1 GT
49007851 AGTTAACGCC
Statistics
Matches: 969, Mismatches: 0, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
968 966 1.00
969 3 0.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (968 bp):
GTCCTATGGCAGGTTGGAGCCAATGGCCCGGTTCAGCTCCATTTCCTGTTACGCTGAGTGGACCG
CCGATGTATAGGCCAGCAGCGCACGAGGGATTACAAAAGGGGCTGTCGGAGAGCTCTCTTTTTTA
CCAATCCCCACCAACGTATGGGTTTCAAACACCGTCGCCGTTCGTGACGCAAACACCTCCACATA
CACTGTTCTTTGAGGGTGGATCATCATCCCAAGTTCGACAACCAGATGTCGTACCAGAAGAACCA
GAATCCCCACTGGAGGAACAACAATCGCCACCAGAAGCTAGAGAAATGAGGAATCCATCGTGTAA
CCGTCGACGGCTGCCATGTGGCACTGAATCCCCTGGGCATAGACATTGATTGCCATATTTAAATT
TATTTATACAAATATTTTGAATATTTTGATATTTTTTGATGTAATAAAATAGAAGTTTATTTGAT
GTAATAAAATAGAAGTTTATTTGATGTAATAAAATAGAAATTTTTTTGAGTTATTTTGATATTAT
TTGATGTAATATAATAGAAGTTTATTTGATGTAATAAAATATAAGTTTATTCTCCAACGCCTTTT
GCTTAGCTATCCAAGCCTTGCGGTAAGAGCGCGTGTACCCCATTTGGCTACGAATATTGGTAATT
AACACCGGCACTGAAGTCCTAGGATCTGCTTTAACCATAGGCAGTATCAAGCTAGCTAACATAGC
TGAATCCATATTGGGATGATCTTGTGAAACACCTATAAACTGAGTACATTAAATTATGCAACATT
GCATAATAAAAGTATTATTCAAAAACCGTCAATACTGTACCTGCAGCACATGTATGTGGAACTTT
GTACTTTTTAATCTCCCACAACCATGTCATTTTCCTTAACGAGGCGTAGATATTCCATGAACATG
TGTTGTCTTGGACCGCACACTTCGCCTCAAACTTATCAGATTTGGATTTAACGACGGG
Found at i:49009279 original size:117 final size:117
Alignment explanation
Indices: 49008988--49009445 Score: 598
Period size: 117 Copynumber: 3.8 Consensus size: 117
49008978 TCCACGTGGG
* * * *
49008988 CGCGATTTCACAAATTCTTCTCGTAAAGCATCCTGGTAGAAGCGATTTTATACAATTTGCTCAGA
1 CGCGATTTAACAAATTCTTCTCATAAAGCATCCTGGTAAAAGCGATTTTATACTATTTGCTCAGA
* * * * *
49009053 AACATCAACTCGAAATTATTTTTTCCAAGACCAACTGTAGCAAAAGCG-TGTCCACGA
66 AACGTCAACTCGAAATAATTTTTT-CAGGACCTACTATAGCAAAAGCGCTG-----GA
* * * * * **
49009110 TGGCATGATTTTAGACATTCTTCTCA-AATAGCATCCTGCTTGAAGC-ATTTTTATACTATTTGC
1 -CGC--GATTTAACAAATTCTTCTCATAA-AGCATCCTGGTAAAAGCGA-TTTTATACTATTTGC
49009173 TCAGAAACGTCAACTCGAAATAATTTTTTCAGGACCTACTATAGCAAAAGCGCTGGA
61 TCAGAAACGTCAACTCGAAATAATTTTTTCAGGACCTACTATAGCAAAAGCGCTGGA
*
49009230 CGCGATTTAACAAATTCTTCTCATAAAGCATCCTGGTAAAAGCGATTTTATACTATTTTCTCAGA
1 CGCGATTTAACAAATTCTTCTCATAAAGCATCCTGGTAAAAGCGATTTTATACTATTTGCTCAGA
49009295 AACGTCAACTCGAAATAATTTTTTCAGGACCTACTATAGCAAAAGCGCTGGA
66 AACGTCAACTCGAAATAATTTTTTCAGGACCTACTATAGCAAAAGCGCTGGA
*
49009347 CGCGATTTAACAAATTCTTCTCATAAAGCATCCTGGTAAAAGCGATTTTATACTATTTTCTCAGA
1 CGCGATTTAACAAATTCTTCTCATAAAGCATCCTGGTAAAAGCGATTTTATACTATTTGCTCAGA
** *
49009412 AACGTCAACTCGAAATTCTTTCTTACAGGACCTA
66 AACGTCAACTCGAAATAATTT-TTTCAGGACCTA
49009446 AAAAACCTAA
Statistics
Matches: 303, Mismatches: 24, Indels: 21
0.87 0.07 0.06
Matches are distributed among these distances:
117 186 0.61
118 14 0.05
119 2 0.01
120 2 0.01
123 2 0.01
124 23 0.08
125 74 0.24
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (117 bp):
CGCGATTTAACAAATTCTTCTCATAAAGCATCCTGGTAAAAGCGATTTTATACTATTTGCTCAGA
AACGTCAACTCGAAATAATTTTTTCAGGACCTACTATAGCAAAAGCGCTGGA
Found at i:49012436 original size:25 final size:25
Alignment explanation
Indices: 49012402--49012454 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
49012392 GTTTTGATTT
49012402 TGTCCACAATAAAGAGTGTAAAAAA
1 TGTCCACAATAAAGAGTGTAAAAAA
49012427 TGTCCACAATAAAGAGTGTAAAAAA
1 TGTCCACAATAAAGAGTGTAAAAAA
49012452 TGT
1 TGT
49012455 GTGATGTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.49, C:0.11, G:0.17, T:0.23
Consensus pattern (25 bp):
TGTCCACAATAAAGAGTGTAAAAAA
Found at i:49015255 original size:43 final size:43
Alignment explanation
Indices: 49015214--49015768 Score: 738
Period size: 43 Copynumber: 12.9 Consensus size: 43
49015204 AAGCGCCGCA
* * * *
49015214 ATAGACTATGGTCTTTAGCGGCGCTTACACAAAACACGCCGCT
1 ATAGACCATGGTCTTTAGCGGCGCTTAGACAAAAAACGCCACT
* * *
49015257 ATAGACCATAGTCTTTCGCGGCGC-TATACAAAAAACGCCACT
1 ATAGACCATGGTCTTTAGCGGCGCTTAGACAAAAAACGCCACT
* * * *
49015299 ATAGATCATGGTCTTTTAGCAGCG-TTTGTACATAAAACGCCACT
1 ATAGACCATGGTC-TTTAGCGGCGCTTAG-ACAAAAAACGCCACT
* * *
49015343 ATAAACCATGGTCTTTAGCGGCGCTTGGACAAAAAGCGCCACT
1 ATAGACCATGGTCTTTAGCGGCGCTTAGACAAAAAACGCCACT
* * * *
49015386 ATAGACCGTGTTCTTTAGCGGCGATTGGACAAAAAACGCCACT
1 ATAGACCATGGTCTTTAGCGGCGCTTAGACAAAAAACGCCACT
* * *
49015429 ATAGACCCTGGTCTTTAGCGGCGCTTGGA-AAAAAAAGCCACT
1 ATAGACCATGGTCTTTAGCGGCGCTTAGACAAAAAACGCCACT
* * *
49015471 ATAGGCCATTGTCTTTAGCGGCGTTTAGACAAAAAACGCCACT
1 ATAGACCATGGTCTTTAGCGGCGCTTAGACAAAAAACGCCACT
49015514 ATAGACCATGGTCTTTAGCGGCGCTTAGACAAAAAACGCCACT
1 ATAGACCATGGTCTTTAGCGGCGCTTAGACAAAAAACGCCACT
* *
49015557 ATAGACCATGGTCTTTAGCGGCGCTTAGCCAAAAAACGCCTCT
1 ATAGACCATGGTCTTTAGCGGCGCTTAGACAAAAAACGCCACT
*
49015600 ATATACCATGGTCTTTAGCGGCGCTTAGACAAAAAACGCCACT
1 ATAGACCATGGTCTTTAGCGGCGCTTAGACAAAAAACGCCACT
49015643 ATAGACCATGGTCTTTAGCGGCGCTTAGACAAAAAACGCCACT
1 ATAGACCATGGTCTTTAGCGGCGCTTAGACAAAAAACGCCACT
* * * *
49015686 ATAGACCATGGTCTTTAGCGGCGCGTATACGAAAAATGCCACT
1 ATAGACCATGGTCTTTAGCGGCGCTTAGACAAAAAACGCCACT
* * * * **
49015729 ATAGGCCGTGTTCTTTAGCGGTGCTTACCCAAAAAACGCC
1 ATAGACCATGGTCTTTAGCGGCGCTTAGACAAAAAACGCC
49015769 GCTAATTTTG
Statistics
Matches: 451, Mismatches: 56, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
42 62 0.14
43 361 0.80
44 28 0.06
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.23
Consensus pattern (43 bp):
ATAGACCATGGTCTTTAGCGGCGCTTAGACAAAAAACGCCACT
Found at i:49016127 original size:21 final size:21
Alignment explanation
Indices: 49016073--49016142 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 21
49016063 TTTACGCTGT
*
49016073 TCTGCTTCCCTCGTTGCAGCC
1 TCTGCTTCCCTCGCTGCAGCC
***
49016094 TCCAATTCCCTCGCTGCAGCC
1 TCTGCTTCCCTCGCTGCAGCC
* * *
49016115 TCTGCTTCTCTCGCTGCTGCA
1 TCTGCTTCCCTCGCTGCAGCC
49016136 TCTGCTT
1 TCTGCTT
49016143 TAAGCTGCTG
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.07, C:0.41, G:0.17, T:0.34
Consensus pattern (21 bp):
TCTGCTTCCCTCGCTGCAGCC
Found at i:49017287 original size:5 final size:5
Alignment explanation
Indices: 49017277--49017301 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
49017267 TTTGTTATTG
49017277 TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT
49017302 AAAAATTATT
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):
TTTAT
Found at i:49017578 original size:13 final size:13
Alignment explanation
Indices: 49017560--49017585 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
49017550 TTTTTAAAAC
49017560 ATGTATTTTATAT
1 ATGTATTTTATAT
49017573 ATGTATTTTATAT
1 ATGTATTTTATAT
49017586 TTTATGATTC
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:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
ATGTATTTTATAT
Found at i:49017825 original size:16 final size:16
Alignment explanation
Indices: 49017804--49017880 Score: 55
Period size: 16 Copynumber: 4.7 Consensus size: 16
49017794 TAACGTATAC
49017804 ATATATATATACTTTT
1 ATATATATATACTTTT
* * *
49017820 ATATATACATGCTTTC
1 ATATATATATACTTTT
* *
49017836 ATATATCTCCATAATTTT
1 ATATATAT--ATACTTTT
* * * *
49017854 ATGTATATATGCATAT
1 ATATATATATACTTTT
49017870 ATATATATATA
1 ATATATATATA
49017881 TATCTTTTAC
Statistics
Matches: 43, Mismatches: 16, Indels: 4
0.68 0.25 0.06
Matches are distributed among these distances:
16 32 0.74
18 11 0.26
ACGTcount: A:0.38, C:0.10, G:0.04, T:0.48
Consensus pattern (16 bp):
ATATATATATACTTTT
Found at i:49020509 original size:12 final size:12
Alignment explanation
Indices: 49020492--49020518 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
49020482 CTCCTCGTTA
49020492 CTTTACAACCTC
1 CTTTACAACCTC
49020504 CTTTACAACCTC
1 CTTTACAACCTC
49020516 CTT
1 CTT
49020519 ATCCCAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.41, G:0.00, T:0.37
Consensus pattern (12 bp):
CTTTACAACCTC
Found at i:49022450 original size:843 final size:843
Alignment explanation
Indices: 49020825--49022510 Score: 3372
Period size: 843 Copynumber: 2.0 Consensus size: 843
49020815 AGAGTAATGT
49020825 TCAGAACATTTTTGTTGTTTTTAGCCTAAAGTGATAGAAATTCCTTTGTGAAATATGCTCATGTC
1 TCAGAACATTTTTGTTGTTTTTAGCCTAAAGTGATAGAAATTCCTTTGTGAAATATGCTCATGTC
49020890 TGAATGTTATTATTCTAATGAAATACATCTTTGCGATCATTTTTGAGCCAATGTTCATTCTTTTT
66 TGAATGTTATTATTCTAATGAAATACATCTTTGCGATCATTTTTGAGCCAATGTTCATTCTTTTT
49020955 GAATAATTATTTCTGATTATTTCATTCTTTTGGATTTTCTTCCACATCATTCATTCATTCATAAT
131 GAATAATTATTTCTGATTATTTCATTCTTTTGGATTTTCTTCCACATCATTCATTCATTCATAAT
49021020 CATATTGTATAAGTAATTGTTCATAAATTTATACATTCTTTTGTATATTCTTTGGTACTTATTAT
196 CATATTGTATAAGTAATTGTTCATAAATTTATACATTCTTTTGTATATTCTTTGGTACTTATTAT
49021085 GAGCCCCCAGATATCAATGACATGAATGACACTGCTACAGACTCAGATTTTCCTCTTGAATGAGG
261 GAGCCCCCAGATATCAATGACATGAATGACACTGCTACAGACTCAGATTTTCCTCTTGAATGAGG
49021150 CATGTGTTTAGACGGATCTCATGACTTTGGAAATGACATAGATCGTAGCTTATCTTCGGACTCGG
326 CATGTGTTTAGACGGATCTCATGACTTTGGAAATGACATAGATCGTAGCTTATCTTCGGACTCGG
49021215 TGAGGAGGGTAGAACAAGGGGAAACAGATCCTACCTCTCAAGGAATCATTAGAAATTGTGAGCTT
391 TGAGGAGGGTAGAACAAGGGGAAACAGATCCTACCTCTCAAGGAATCATTAGAAATTGTGAGCTT
49021280 GGTGAAGATTAGAATTGACCTGACTGCAAAGACGAAGCAAGGCCTTGTTGAGTTACCTCTAGAGT
456 GGTGAAGATTAGAATTGACCTGACTGCAAAGACGAAGCAAGGCCTTGTTGAGTTACCTCTAGAGT
49021345 TCAAAGATGTCTTTGTATGATCATAACAGGATATGCTCAAGTTAATCGCTGATAATGAAATCTGC
521 TCAAAGATGTCTTTGTATGATCATAACAGGATATGCTCAAGTTAATCGCTGATAATGAAATCTGC
49021410 ACAATAGCACGATATCAGAAATTTACAGTATGAACGGTGTAATTCTTTACCGGGGCAATGCCTTT
586 ACAATAGCACGATATCAGAAATTTACAGTATGAACGGTGTAATTCTTTACCGGGGCAATGCCTTT
49021475 CTCGTGGAGTCAGCATAGCTTCGCCCATTTGAAGTCGAATTTCCACCTTTTCAAGTTGTTGTTGC
651 CTCGTGGAGTCAGCATAGCTTCGCCCATTTGAAGTCGAATTTCCACCTTTTCAAGTTGTTGTTGC
49021540 GTCCATCCTGATTAAAGAGAAAGATCTAAAGTTTTCTATCGTAGTTGCGCCCCAAAAGGCTCAGA
716 GTCCATCCTGATTAAAGAGAAAGATCTAAAGTTTTCTATCGTAGTTGCGCCCCAAAAGGCTCAGA
49021605 TCAAAAAATGGAAGAAAAAGAAAAATCAAAATCAAAGTCAAAATGAAAATGAAAAAATCAAAA
781 TCAAAAAATGGAAGAAAAAGAAAAATCAAAATCAAAGTCAAAATGAAAATGAAAAAATCAAAA
49021668 TCAGAACATTTTTGTTGTTTTTAGCCTAAAGTGATAGAAATTCCTTTGTGAAATATGCTCATGTC
1 TCAGAACATTTTTGTTGTTTTTAGCCTAAAGTGATAGAAATTCCTTTGTGAAATATGCTCATGTC
49021733 TGAATGTTATTATTCTAATGAAATACATCTTTGCGATCATTTTTGAGCCAATGTTCATTCTTTTT
66 TGAATGTTATTATTCTAATGAAATACATCTTTGCGATCATTTTTGAGCCAATGTTCATTCTTTTT
49021798 GAATAATTATTTCTGATTATTTCATTCTTTTGGATTTTCTTCCACATCATTCATTCATTCATAAT
131 GAATAATTATTTCTGATTATTTCATTCTTTTGGATTTTCTTCCACATCATTCATTCATTCATAAT
49021863 CATATTGTATAAGTAATTGTTCATAAATTTATACATTCTTTTGTATATTCTTTGGTACTTATTAT
196 CATATTGTATAAGTAATTGTTCATAAATTTATACATTCTTTTGTATATTCTTTGGTACTTATTAT
49021928 GAGCCCCCAGATATCAATGACATGAATGACACTGCTACAGACTCAGATTTTCCTCTTGAATGAGG
261 GAGCCCCCAGATATCAATGACATGAATGACACTGCTACAGACTCAGATTTTCCTCTTGAATGAGG
49021993 CATGTGTTTAGACGGATCTCATGACTTTGGAAATGACATAGATCGTAGCTTATCTTCGGACTCGG
326 CATGTGTTTAGACGGATCTCATGACTTTGGAAATGACATAGATCGTAGCTTATCTTCGGACTCGG
49022058 TGAGGAGGGTAGAACAAGGGGAAACAGATCCTACCTCTCAAGGAATCATTAGAAATTGTGAGCTT
391 TGAGGAGGGTAGAACAAGGGGAAACAGATCCTACCTCTCAAGGAATCATTAGAAATTGTGAGCTT
49022123 GGTGAAGATTAGAATTGACCTGACTGCAAAGACGAAGCAAGGCCTTGTTGAGTTACCTCTAGAGT
456 GGTGAAGATTAGAATTGACCTGACTGCAAAGACGAAGCAAGGCCTTGTTGAGTTACCTCTAGAGT
49022188 TCAAAGATGTCTTTGTATGATCATAACAGGATATGCTCAAGTTAATCGCTGATAATGAAATCTGC
521 TCAAAGATGTCTTTGTATGATCATAACAGGATATGCTCAAGTTAATCGCTGATAATGAAATCTGC
49022253 ACAATAGCACGATATCAGAAATTTACAGTATGAACGGTGTAATTCTTTACCGGGGCAATGCCTTT
586 ACAATAGCACGATATCAGAAATTTACAGTATGAACGGTGTAATTCTTTACCGGGGCAATGCCTTT
49022318 CTCGTGGAGTCAGCATAGCTTCGCCCATTTGAAGTCGAATTTCCACCTTTTCAAGTTGTTGTTGC
651 CTCGTGGAGTCAGCATAGCTTCGCCCATTTGAAGTCGAATTTCCACCTTTTCAAGTTGTTGTTGC
49022383 GTCCATCCTGATTAAAGAGAAAGATCTAAAGTTTTCTATCGTAGTTGCGCCCCAAAAGGCTCAGA
716 GTCCATCCTGATTAAAGAGAAAGATCTAAAGTTTTCTATCGTAGTTGCGCCCCAAAAGGCTCAGA
49022448 TCAAAAAATGGAAGAAAAAGAAAAATCAAAATCAAAGTCAAAATGAAAATGAAAAAATCAAAA
781 TCAAAAAATGGAAGAAAAAGAAAAATCAAAATCAAAGTCAAAATGAAAATGAAAAAATCAAAA
49022511 AAAAAGAAGA
Statistics
Matches: 843, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
843 843 1.00
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (843 bp):
TCAGAACATTTTTGTTGTTTTTAGCCTAAAGTGATAGAAATTCCTTTGTGAAATATGCTCATGTC
TGAATGTTATTATTCTAATGAAATACATCTTTGCGATCATTTTTGAGCCAATGTTCATTCTTTTT
GAATAATTATTTCTGATTATTTCATTCTTTTGGATTTTCTTCCACATCATTCATTCATTCATAAT
CATATTGTATAAGTAATTGTTCATAAATTTATACATTCTTTTGTATATTCTTTGGTACTTATTAT
GAGCCCCCAGATATCAATGACATGAATGACACTGCTACAGACTCAGATTTTCCTCTTGAATGAGG
CATGTGTTTAGACGGATCTCATGACTTTGGAAATGACATAGATCGTAGCTTATCTTCGGACTCGG
TGAGGAGGGTAGAACAAGGGGAAACAGATCCTACCTCTCAAGGAATCATTAGAAATTGTGAGCTT
GGTGAAGATTAGAATTGACCTGACTGCAAAGACGAAGCAAGGCCTTGTTGAGTTACCTCTAGAGT
TCAAAGATGTCTTTGTATGATCATAACAGGATATGCTCAAGTTAATCGCTGATAATGAAATCTGC
ACAATAGCACGATATCAGAAATTTACAGTATGAACGGTGTAATTCTTTACCGGGGCAATGCCTTT
CTCGTGGAGTCAGCATAGCTTCGCCCATTTGAAGTCGAATTTCCACCTTTTCAAGTTGTTGTTGC
GTCCATCCTGATTAAAGAGAAAGATCTAAAGTTTTCTATCGTAGTTGCGCCCCAAAAGGCTCAGA
TCAAAAAATGGAAGAAAAAGAAAAATCAAAATCAAAGTCAAAATGAAAATGAAAAAATCAAAA
Found at i:49022632 original size:51 final size:49
Alignment explanation
Indices: 49022462--49022632 Score: 123
Period size: 51 Copynumber: 3.3 Consensus size: 49
49022452 AAAATGGAAG
** * * * *
49022462 AAAAAGAAAAA-TCAAAATCAAAGTCAAAATGAAAATGAAAAAATCAAAAAA
1 AAAAAGAAAAAGAAAAAATCAAAATCAAGATCAAAAT--AAAAAT-GAAAAA
49022513 AAAGAAGAAAGAAGAAAAAATCAAAATCAAGATCAAAATAAAAATGAGAAAA
1 AAA-AAGAAA-AAGAAAAAATCAAAATCAAGATCAAAATAAAAATGA-AAAA
* * * * *
49022565 AGAAAGAAGAATGAAAAAA-GAGAAATCTAGATGAAAA-AATCAGAATGAAAAA
1 AAAAAGAA-AAAGAAAAAATCA-AAATCAAGATCAAAATAA--A-AATGAAAAA
49022617 AAAAAGAAAAAGAAAA
1 AAAAAGAAAAAGAAAA
49022633 GGAGAGGCCA
Statistics
Matches: 98, Mismatches: 13, Indels: 18
0.76 0.10 0.14
Matches are distributed among these distances:
50 3 0.03
51 37 0.38
52 31 0.32
53 7 0.07
54 20 0.20
ACGTcount: A:0.71, C:0.05, G:0.13, T:0.10
Consensus pattern (49 bp):
AAAAAGAAAAAGAAAAAATCAAAATCAAGATCAAAATAAAAATGAAAAA
Found at i:49023382 original size:6 final size:7
Alignment explanation
Indices: 49023365--49023398 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
49023355 TCTGAGTCAA
49023365 AAAAATG
1 AAAAATG
49023372 AAAAATG
1 AAAAATG
49023379 AAAAATG
1 AAAAATG
49023386 -AAAATG
1 AAAAATG
49023392 AAAAATG
1 AAAAATG
49023399 GAGAGGCTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.15
Consensus pattern (7 bp):
AAAAATG
Found at i:49023389 original size:13 final size:14
Alignment explanation
Indices: 49023365--49023398 Score: 61
Period size: 13 Copynumber: 2.5 Consensus size: 14
49023355 TCTGAGTCAA
49023365 AAAAATGAAAAATG
1 AAAAATGAAAAATG
49023379 AAAAATG-AAAATG
1 AAAAATGAAAAATG
49023392 AAAAATG
1 AAAAATG
49023399 GAGAGGCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 13 0.65
14 7 0.35
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.15
Consensus pattern (14 bp):
AAAAATGAAAAATG
Found at i:49024761 original size:43 final size:43
Alignment explanation
Indices: 49024696--49024818 Score: 113
Period size: 44 Copynumber: 2.8 Consensus size: 43
49024686 TGAAGCCAGA
* *
49024696 GATCTTATCTCCCT-AAGATTACAGCAGAGCAGATCGAATACAC
1 GATCATATCTCCCTAAAG-TTACAGCAGAGCAGATCGAATAAAC
* ** * ** *
49024739 TATCATATCTCCCTAAAGTTACAGTGGAACAGATTAAAATAAAG
1 GATCATATCTCCCTAAAGTTACAGCAGAGCAGA-TCGAATAAAC
* * *
49024783 GATCTTATCTCTCTAAAGTTACAGCAGAGTAGATCG
1 GATCATATCTCCCTAAAGTTACAGCAGAGCAGATCG
49024819 CATCAGGTCT
Statistics
Matches: 60, Mismatches: 18, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
43 25 0.42
44 35 0.58
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (43 bp):
GATCATATCTCCCTAAAGTTACAGCAGAGCAGATCGAATAAAC
Done.