Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032245.1 Gossypioides kirkii chromosome KI_2_4
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: 41238926
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 6100 characters in sequence are not A, C, G, or T
File 115 of 132
Found at i:34955739 original size:60 final size:59
Alignment explanation
Indices: 34955441--34955749 Score: 209
Period size: 59 Copynumber: 5.2 Consensus size: 59
34955431 TAAACTTTCC
* ** * *
34955441 AAAATTCCATTTTTGACCTCG-ATTTTTCCAAAAATTACCATTTTACCCCTGAATGTCCA
1 AAAATTCCATTTTTAACCTCGAACCTTT-CAAAAATTACCATTTTTCCCCCGAATGTCCA
* * * * ** * * *
34955500 AAAACTCCATTTTTGACCCCGAAACTTTTGAAAATTACCATTTTAT-GCCTGAATGTTCA
1 AAAATTCCATTTTTAACCTCGAACCTTTCAAAAATTACCATTTT-TCCCCCGAATGTCCA
* * * * * * * *
34955559 AAAACTCCATTTTTTTACCTTGAAGCTTTCGAAAATTATCATTTTACCCTCGAATGTCC-
1 AAAATTCCA-TTTTTAACCTCGAACCTTTCAAAAATTACCATTTTTCCCCCGAATGTCCA
* * * * *
34955618 AAAATTCCATTTTTAACCCCAAACCTTTTAAAAAATTA-TATTTTTACCCCC-AA-GCTTCAA
1 AAAATTCCATTTTTAACCTCGAACC-TTTCAAAAATTACCATTTTT-CCCCCGAATG--TCCA
* * ** *
34955678 AAAATTCCATTTTTAACCTCGAACCTTCCAAAAATTACCATTTTTTCGTCGAGTGTCC-
1 AAAATTCCATTTTTAACCTCGAACCTTTCAAAAATTACCATTTTTCCCCCGAATGTCCA
34955736 AAAATTACCATTTT
1 AAAATT-CCATTTT
34955750 ACCCCTAAGA
Statistics
Matches: 195, Mismatches: 42, Indels: 26
0.74 0.16 0.10
Matches are distributed among these distances:
57 1 0.01
58 24 0.12
59 98 0.50
60 71 0.36
61 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.07, T:0.37
Consensus pattern (59 bp):
AAAATTCCATTTTTAACCTCGAACCTTTCAAAAATTACCATTTTTCCCCCGAATGTCCA
Found at i:34956387 original size:14 final size:14
Alignment explanation
Indices: 34956368--34956397 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
34956358 CGACTTTTCT
34956368 TCAAATCGAGATAA
1 TCAAATCGAGATAA
34956382 TCAAATCGAGATAA
1 TCAAATCGAGATAA
34956396 TC
1 TC
34956398 GAATATCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.47, C:0.17, G:0.13, T:0.23
Consensus pattern (14 bp):
TCAAATCGAGATAA
Found at i:34964716 original size:5 final size:5
Alignment explanation
Indices: 34964706--34964734 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
34964696 CAAACCCAAA
34964706 TCTCT TCTCT TCTCT TCTCT TCTCT TCTC
1 TCTCT TCTCT TCTCT TCTCT TCTCT TCTC
34964735 CATTTTCCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (5 bp):
TCTCT
Found at i:34976043 original size:28 final size:28
Alignment explanation
Indices: 34976012--34976075 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
34976002 TCTTTTTCGG
34976012 AATAATATG-AAAAAATTTTAATTATTAA
1 AATAATATGTAAAAAA-TTTAATTATTAA
**
34976040 AATAATATGTAAAAAATTTAATTATTTG
1 AATAATATGTAAAAAATTTAATTATTAA
34976068 AATAATAT
1 AATAATAT
34976076 CGACATATGG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
28 27 0.82
29 6 0.18
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.41
Consensus pattern (28 bp):
AATAATATGTAAAAAATTTAATTATTAA
Found at i:34976394 original size:15 final size:17
Alignment explanation
Indices: 34976374--34976411 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
34976364 TTTTTAAATT
34976374 TAAAAAAT-AATTAA-C
1 TAAAAAATAAATTAACC
34976389 T-AAAAATAAATTAACC
1 TAAAAAATAAATTAACC
34976405 TAAAAAA
1 TAAAAAA
34976412 GGAAATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 6 0.30
15 7 0.35
16 2 0.10
17 5 0.25
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (17 bp):
TAAAAAATAAATTAACC
Found at i:34976395 original size:14 final size:16
Alignment explanation
Indices: 34976376--34976410 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
34976366 TTTAAATTTA
34976376 AAAAAT-AATTAA-CT
1 AAAAATAAATTAACCT
34976390 AAAAATAAATTAACCT
1 AAAAATAAATTAACCT
34976406 AAAAA
1 AAAAA
34976411 AGGAAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.32
15 6 0.32
16 7 0.37
ACGTcount: A:0.69, C:0.09, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAAATAAATTAACCT
Found at i:34979153 original size:27 final size:27
Alignment explanation
Indices: 34979123--34979194 Score: 101
Period size: 27 Copynumber: 2.7 Consensus size: 27
34979113 TAATAAAAAT
*
34979123 AAAATTATAATTTAATTT-TTTTTTAA
1 AAAATTATAATTTAATTTAATTTTTAA
* *
34979149 AAAAATAAAATTTTAATTTAATTTTTAA
1 AAAATTATAA-TTTAATTTAATTTTTAA
34979177 AAAATTATAATTTAATTT
1 AAAATTATAATTTAATTT
34979195 CGACCATTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
26 8 0.21
27 16 0.41
28 15 0.38
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (27 bp):
AAAATTATAATTTAATTTAATTTTTAA
Found at i:34979154 original size:32 final size:33
Alignment explanation
Indices: 34979112--34979174 Score: 110
Period size: 32 Copynumber: 1.9 Consensus size: 33
34979102 AAATTTTAAA
34979112 TTAATAAAAATAAAATTATAATTTAATTTTTTT
1 TTAATAAAAATAAAATTATAATTTAATTTTTTT
*
34979145 TTAA-AAAAATAAAATTTTAATTTAATTTTT
1 TTAATAAAAATAAAATTATAATTTAATTTTT
34979175 AAAAAATTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 25 0.86
33 4 0.14
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (33 bp):
TTAATAAAAATAAAATTATAATTTAATTTTTTT
Found at i:34994085 original size:16 final size:16
Alignment explanation
Indices: 34994064--34994108 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
34994054 TTTGGTTCGC
*
34994064 TGTAATGAAATAGAAG
1 TGTAATGGAATAGAAG
*
34994080 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAAG
34994096 TGTAATGGAATAG
1 TGTAATGGAATAG
34994109 GACTGTAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.42, C:0.00, G:0.31, T:0.27
Consensus pattern (16 bp):
TGTAATGGAATAGAAG
Found at i:34994115 original size:16 final size:16
Alignment explanation
Indices: 34994063--34994117 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
34994053 GTTTGGTTCG
* *
34994063 CTGTAATGAAATAGAA
1 CTGTAATGGAATAGGA
*
34994079 GTGTAATGGAATA-GA
1 CTGTAATGGAATAGGA
*
34994094 GGTGTAATGGAATAGGA
1 -CTGTAATGGAATAGGA
34994111 CTGTAAT
1 CTGTAAT
34994118 CAGTAATTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
15 1 0.03
16 30 0.91
17 2 0.06
ACGTcount: A:0.40, C:0.04, G:0.29, T:0.27
Consensus pattern (16 bp):
CTGTAATGGAATAGGA
Found at i:34994356 original size:58 final size:59
Alignment explanation
Indices: 34994287--34994441 Score: 183
Period size: 58 Copynumber: 2.6 Consensus size: 59
34994277 AATTTTAATG
* * *
34994287 ATTATTATTAAATATAATTTAATAAAAATATTA-ATTAATTTATTTATA-TTTTAACATA
1 ATTATTATTAAATATAATTTAATAAAAATAATATA-TAATTTAATAATATTTTTAACATA
* *
34994345 ATTATTATTAAATACAATTTAAT-AAAATAATATATAATTTAATAATATTTTTAATATA
1 ATTATTATTAAATATAATTTAATAAAAATAATATATAATTTAATAATATTTTTAACATA
* *
34994403 ATTATTATTAAAATATGAA-TTAGTAAAAATTATAATATA
1 ATTATTATT-AAATAT-AATTTAATAAAAATAAT-ATATA
34994442 TAATATTAGA
Statistics
Matches: 83, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
57 19 0.23
58 41 0.49
59 9 0.11
60 9 0.11
61 5 0.06
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (59 bp):
ATTATTATTAAATATAATTTAATAAAAATAATATATAATTTAATAATATTTTTAACATA
Found at i:34994435 original size:25 final size:24
Alignment explanation
Indices: 34994406--34994456 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
34994396 TAATATAATT
*
34994406 ATTATTAAAATATGA-ATTAGTAAAA
1 ATTA-TAAAATATAATATTAG-AAAA
*
34994431 ATTATAATATATAATATTAGAAAA
1 ATTATAAAATATAATATTAGAAAA
34994455 AT
1 AT
34994457 AATATATAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (24 bp):
ATTATAAAATATAATATTAGAAAA
Found at i:35001012 original size:14 final size:14
Alignment explanation
Indices: 35000995--35001022 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
35000985 TTACTCCTAT
35000995 GTAATTACAAACAA
1 GTAATTACAAACAA
35001009 GTAATTACAAACAA
1 GTAATTACAAACAA
35001023 TTACATTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.14, G:0.07, T:0.21
Consensus pattern (14 bp):
GTAATTACAAACAA
Found at i:35002578 original size:17 final size:17
Alignment explanation
Indices: 35002548--35002580 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
35002538 ATTGTTACCC
35002548 TTGTTGATGATGATGAT
1 TTGTTGATGATGATGAT
35002565 TTGTGTGATG-TGATGA
1 TTGT-TGATGATGATGA
35002581 GGCAACGCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.45
Consensus pattern (17 bp):
TTGTTGATGATGATGAT
Found at i:35007857 original size:56 final size:56
Alignment explanation
Indices: 35007790--35007918 Score: 138
Period size: 56 Copynumber: 2.3 Consensus size: 56
35007780 TCTTTTTGGT
* * *
35007790 GTTTTGAGACACTGATGGCCGACACCAATTTTA-CTTGATATAAAAAAATTTCTGAA
1 GTTTTGAGACACTGATAGCCGACACCAACTTTATC-AGATATAAAAAAATTTCTGAA
* * * * *
35007846 GTTTTGGGACACTGATAGCTGATACCAACTTTATCAGATATAAATAAATTT-TTAGA
1 GTTTTGAGACACTGATAGCCGACACCAACTTTATCAGATATAAAAAAATTTCTGA-A
35007902 GTTTT-AGAACACTGATA
1 GTTTTGAG-ACACTGATA
35007919 ACAAACACCA
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
55 3 0.05
56 57 0.93
57 1 0.02
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (56 bp):
GTTTTGAGACACTGATAGCCGACACCAACTTTATCAGATATAAAAAAATTTCTGAA
Found at i:35008071 original size:31 final size:29
Alignment explanation
Indices: 35008036--35008096 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 29
35008026 TTTCATTTAA
*
35008036 TTTC-TTATTTAATATAAATTTAAATTATATT
1 TTTCTTTATTTAAT-TAAAATT-AATTA-ATT
35008067 TTTCTTTATTTAATTAAAATTAATTAATT
1 TTTCTTTATTTAATTAAAATTAATTAATT
35008096 T
1 T
35008097 ATCCTTCAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 4 0.14
30 5 0.18
31 10 0.36
32 9 0.32
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (29 bp):
TTTCTTTATTTAATTAAAATTAATTAATT
Found at i:35008137 original size:19 final size:18
Alignment explanation
Indices: 35008105--35008150 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
35008095 TTATCCTTCA
35008105 ATTATTTCAATT-AATATAT
1 ATTATTT-AATTAAAT-TAT
35008124 ATTATTTAATTTAAATTAT
1 ATTATTTAA-TTAAATTAT
35008143 ATT-TTTAA
1 ATTATTTAA
35008151 AAAAATTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 7 0.28
19 15 0.60
20 3 0.12
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTATTTAATTAAATTAT
Found at i:35008157 original size:23 final size:23
Alignment explanation
Indices: 35008131--35008174 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
35008121 TATATTATTT
35008131 AATTTAAATTATAT-TTTTAAAAA
1 AATTTAAATTAT-TGTTTTAAAAA
*
35008154 AATTTAATTTATTGTTTTAAA
1 AATTTAAATTATTGTTTTAAA
35008175 TTGATTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 1 0.05
23 18 0.95
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
AATTTAAATTATTGTTTTAAAAA
Found at i:35008226 original size:22 final size:22
Alignment explanation
Indices: 35008201--35008245 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
35008191 TAAATATGTA
35008201 TTTTTAAAACA-ATAAATTAAAT
1 TTTTTAAAA-ATATAAATTAAAT
*
35008223 TTTTTAAAAATATAATTTAAAT
1 TTTTTAAAAATATAAATTAAAT
35008245 T
1 T
35008246 AAATAAGACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 1 0.05
22 20 0.95
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (22 bp):
TTTTTAAAAATATAAATTAAAT
Found at i:35011210 original size:5 final size:5
Alignment explanation
Indices: 35011200--35011227 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
35011190 ACAGGAGAAT
35011200 TTAAA TTAAA TTAAA TTAAA TTAAA TTA
1 TTAAA TTAAA TTAAA TTAAA TTAAA TTA
35011228 TTTAAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
TTAAA
Found at i:35012183 original size:3 final size:3
Alignment explanation
Indices: 35012175--35012209 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
35012165 TTGAATCAAT
35012175 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
35012210 GGTAATCATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:35013300 original size:22 final size:23
Alignment explanation
Indices: 35013262--35013305 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
35013252 TAAATTTTTT
35013262 TTATTCACATTTTTAAATAAAGC
1 TTATTCACATTTTTAAATAAAGC
*
35013285 TTATTCGCA-TTTTAAATAAAG
1 TTATTCACATTTTTAAATAAAG
35013306 AACTTGTGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.43
Consensus pattern (23 bp):
TTATTCACATTTTTAAATAAAGC
Found at i:35013653 original size:46 final size:45
Alignment explanation
Indices: 35013489--35013657 Score: 198
Period size: 44 Copynumber: 3.8 Consensus size: 45
35013479 CAAATCAGAA
* * * * * *
35013489 TTTAAGGATTCAATCATTCTTGAATGAATTTAATAGAGCAGAGA-
1 TTTAAGGATTCAAGCATTCATGAACGAATTTAATGGAGAAAAGAC
* * **
35013533 TTTAAGGATACAAGCATTCATGAACGAATTTAATGGTGGGAAGAC
1 TTTAAGGATTCAAGCATTCATGAACGAATTTAATGGAGAAAAGAC
35013578 -TTAAGGATTCAAGCATTCATGAACGAATTTAATGGAGAAAAGAC
1 TTTAAGGATTCAAGCATTCATGAACGAATTTAATGGAGAAAAGAC
* * *
35013622 TTTAAAGGATTCAAGAATTCATAAACAAATTTAATG
1 TTT-AAGGATTCAAGCATTCATGAACGAATTTAATG
35013658 TCATGTGTTT
Statistics
Matches: 106, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
44 75 0.71
45 2 0.02
46 29 0.27
ACGTcount: A:0.41, C:0.10, G:0.19, T:0.30
Consensus pattern (45 bp):
TTTAAGGATTCAAGCATTCATGAACGAATTTAATGGAGAAAAGAC
Found at i:35016711 original size:30 final size:30
Alignment explanation
Indices: 35016672--35016858 Score: 239
Period size: 30 Copynumber: 6.2 Consensus size: 30
35016662 TAATTTTTTG
* *
35016672 AAAGCTTTGGGGTCAAAATATAATTTTAGA
1 AAAGTTTTGGGGTCAAAATATAATTTTGGA
* * ** *
35016702 GAAGTTTTGGGATCAAAATATGGTTTTAGA
1 AAAGTTTTGGGGTCAAAATATAATTTTGGA
35016732 AAAGTTTTGGGGTCAAAATATAATTTTGGA
1 AAAGTTTTGGGGTCAAAATATAATTTTGGA
* *
35016762 AAAGTTTTAGGGTCAAAATGTAATTTTGGA
1 AAAGTTTTGGGGTCAAAATATAATTTTGGA
* *
35016792 AAAGTTTTGTGGTCAAAATGTAATTTTGGA
1 AAAGTTTTGGGGTCAAAATATAATTTTGGA
* * * *
35016822 AAAGTTTTAGGGTCAAAATGTAATTTCGAA
1 AAAGTTTTGGGGTCAAAATATAATTTTGGA
35016852 AAAGTTT
1 AAAGTTT
35016859 CGGGTAATTC
Statistics
Matches: 139, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 139 1.00
ACGTcount: A:0.37, C:0.04, G:0.22, T:0.36
Consensus pattern (30 bp):
AAAGTTTTGGGGTCAAAATATAATTTTGGA
Found at i:35016794 original size:15 final size:15
Alignment explanation
Indices: 35016776--35016824 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
35016766 TTTTAGGGTC
35016776 AAAATGTAATTTTGG
1 AAAATGTAATTTTGG
35016791 AAAA-GT--TTTGTGG
1 AAAATGTAATTT-TGG
35016804 TCAAAATGTAATTTTGG
1 --AAAATGTAATTTTGG
35016821 AAAA
1 AAAA
35016825 GTTTTAGGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 12
0.70 0.00 0.30
Matches are distributed among these distances:
12 3 0.11
13 3 0.11
14 2 0.07
15 12 0.43
16 2 0.07
17 3 0.11
18 3 0.11
ACGTcount: A:0.41, C:0.02, G:0.20, T:0.37
Consensus pattern (15 bp):
AAAATGTAATTTTGG
Found at i:35022467 original size:30 final size:30
Alignment explanation
Indices: 35022428--35022664 Score: 294
Period size: 30 Copynumber: 7.9 Consensus size: 30
35022418 TAATTTTTTG
* *
35022428 AAAGCTTTGGGGTCAAAATATAATTTTAGA
1 AAAGTTTTGGGGTCAAAATATAATTTTGGA
* * ** *
35022458 GAAGTTTTGGGATCAAAATATGGTTTTAGA
1 AAAGTTTTGGGGTCAAAATATAATTTTGGA
* *
35022488 AAAGTTTTAGGGTCAAAATGTAATTTTGGA
1 AAAGTTTTGGGGTCAAAATATAATTTTGGA
* * *
35022518 AAAGTTTTAGGGTTAAAATGTAATTTTGGA
1 AAAGTTTTGGGGTCAAAATATAATTTTGGA
* * *
35022548 AAAGTTTCGGGGTTAAAATGTAATTTTGGA
1 AAAGTTTTGGGGTCAAAATATAATTTTGGA
* * *
35022578 AAAGTTTTTGGGTTAAAATATAATTTTGAA
1 AAAGTTTTGGGGTCAAAATATAATTTTGGA
* *
35022608 AAAGTTTCGGGGTCAAAATGTAATTTTGGA
1 AAAGTTTTGGGGTCAAAATATAATTTTGGA
35022638 AAAGTTTTGGGGTCAAAATATAATTTT
1 AAAGTTTTGGGGTCAAAATATAATTTT
35022665 TGGACAATTT
Statistics
Matches: 181, Mismatches: 26, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 181 1.00
ACGTcount: A:0.36, C:0.03, G:0.23, T:0.38
Consensus pattern (30 bp):
AAAGTTTTGGGGTCAAAATATAATTTTGGA
Found at i:35023748 original size:3 final size:3
Alignment explanation
Indices: 35023740--35023802 Score: 58
Period size: 3 Copynumber: 21.3 Consensus size: 3
35023730 CTTCAATTTC
* * * *
35023740 ATT ATT ATT ATT ATT -TT -TT AAT ATT ATT AAT GTT ATT AATT AAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT
*
35023784 ATT ATT ATT ATT GTT ATT A
1 ATT ATT ATT ATT ATT ATT A
35023803 AATGTTATGA
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
2 4 0.08
3 41 0.85
4 3 0.06
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:35023768 original size:22 final size:22
Alignment explanation
Indices: 35023740--35023803 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 22
35023730 CTTCAATTTC
**
35023740 ATTATTATTATTATTTTTTAAT
1 ATTATTATTATTATTAATTAAT
* *
35023762 ATTATTAATGTTATTAATTAAT
1 ATTATTATTATTATTAATTAAT
*
35023784 ATTATTATTATTGTT-ATTAA
1 ATTATTATTATTATTAATTAA
35023804 ATGTTATGAT
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
21 5 0.14
22 30 0.86
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (22 bp):
ATTATTATTATTATTAATTAAT
Found at i:35024367 original size:40 final size:41
Alignment explanation
Indices: 35024320--35024399 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 41
35024310 CATTGGGCCT
* *
35024320 ATTTGGGCCATCGTAATTGGGCCTTTG-ATTTGGGCCTTTG
1 ATTTGGGCCATCGTAATTGGGCATTTGTAATTGGGCCTTTG
** *
35024360 ATTTGGGCTTTTGTAATTGGGCATTTGTAATTGGGCCTTT
1 ATTTGGGCCATCGTAATTGGGCATTTGTAATTGGGCCTTT
35024400 TGTAATTGGA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
40 23 0.68
41 11 0.32
ACGTcount: A:0.14, C:0.14, G:0.29, T:0.44
Consensus pattern (41 bp):
ATTTGGGCCATCGTAATTGGGCATTTGTAATTGGGCCTTTG
Found at i:35024381 original size:14 final size:14
Alignment explanation
Indices: 35024322--35024408 Score: 97
Period size: 14 Copynumber: 6.3 Consensus size: 14
35024312 TTGGGCCTAT
* *
35024322 TTGGGCCATCGTAA
1 TTGGGCCTTTGTAA
*
35024336 TTGGGCCTTTG-AT
1 TTGGGCCTTTGTAA
*
35024349 TTGGGCCTTTG-AT
1 TTGGGCCTTTGTAA
*
35024362 TTGGGCTTTTGTAA
1 TTGGGCCTTTGTAA
*
35024376 TTGGGCATTTGTAA
1 TTGGGCCTTTGTAA
35024390 TTGGGCCTTTTGTAA
1 TTGGGCC-TTTGTAA
35024405 TTGG
1 TTGG
35024409 ACTCTGGACT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
13 24 0.38
14 29 0.45
15 11 0.17
ACGTcount: A:0.14, C:0.13, G:0.30, T:0.44
Consensus pattern (14 bp):
TTGGGCCTTTGTAA
Found at i:35024480 original size:17 final size:15
Alignment explanation
Indices: 35024450--35024487 Score: 58
Period size: 17 Copynumber: 2.4 Consensus size: 15
35024440 AATTTATTCC
35024450 AAATTTACCAAATTT
1 AAATTTACCAAATTT
35024465 AAATTTAACACAAATTT
1 AAATTT-AC-CAAATTT
35024482 AAATTT
1 AAATTT
35024488 TAAGATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 6 0.29
16 2 0.10
17 13 0.62
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (15 bp):
AAATTTACCAAATTT
Found at i:35024497 original size:18 final size:17
Alignment explanation
Indices: 35024459--35024523 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 17
35024449 CAAATTTACC
*
35024459 AAATTTAAA-TTTAACAC
1 AAATTTAAATTTTAA-AT
35024476 AAATTTAAATTTTAAGAT
1 AAATTTAAATTTTAA-AT
**
35024494 AAATCCAAATTTGTAAAT
1 AAATTTAAATTT-TAAAT
35024512 AAATTTAGAATT
1 AAATTTA-AATT
35024524 AACTTAAACC
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
17 9 0.23
18 23 0.59
19 7 0.18
ACGTcount: A:0.51, C:0.06, G:0.05, T:0.38
Consensus pattern (17 bp):
AAATTTAAATTTTAAAT
Found at i:35030330 original size:15 final size:15
Alignment explanation
Indices: 35030310--35030342 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
35030300 ATTTGAAGTT
*
35030310 ATTGGTTGGATTTGA
1 ATTGGTTGAATTTGA
35030325 ATTGGTTGAATTTGA
1 ATTGGTTGAATTTGA
35030340 ATT
1 ATT
35030343 TACAGAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.48
Consensus pattern (15 bp):
ATTGGTTGAATTTGA
Found at i:35030466 original size:43 final size:43
Alignment explanation
Indices: 35030405--35030571 Score: 235
Period size: 43 Copynumber: 3.9 Consensus size: 43
35030395 AAATCTGTTA
35030405 ATTTAGCGGCGTTTGTGGGGAAAGCGCCACTAAAAAACATGGT
1 ATTTAGCGGCGTTTGTGGGGAAAGCGCCACTAAAAAACATGGT
* * * *
35030448 ATTTAGCGACGTTTGTGGGGAAAGCGCCGCTAAAGAACATGAT
1 ATTTAGCGGCGTTTGTGGGGAAAGCGCCACTAAAAAACATGGT
* * * **
35030491 CTTTAACGGCGTTTTTGGAAAAAGCGCCACTAAAAAACATGGT
1 ATTTAGCGGCGTTTGTGGGGAAAGCGCCACTAAAAAACATGGT
* *
35030534 CTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAAAAC
1 ATTTAGCGGCGTTTGTGGGGAAAGCGCCACTAAAAAAC
35030572 TATTTTCCTG
Statistics
Matches: 106, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 106 1.00
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (43 bp):
ATTTAGCGGCGTTTGTGGGGAAAGCGCCACTAAAAAACATGGT
Found at i:35030515 original size:86 final size:86
Alignment explanation
Indices: 35030406--35030567 Score: 270
Period size: 86 Copynumber: 1.9 Consensus size: 86
35030396 AATCTGTTAA
* **
35030406 TTTAGCGGCGTTTGTGGGGAAAGCGCCACTAAAAAACATGGTATTTAGCGACGTTTGTGGGGAAA
1 TTTAACGGCGTTTGTGGAAAAAGCGCCACTAAAAAACATGGTATTTAGCGACGTTTGTGGGGAAA
35030471 GCGCCGCTAAAGAACATGATC
66 GCGCCGCTAAAGAACATGATC
* * *
35030492 TTTAACGGCGTTTTTGGAAAAAGCGCCACTAAAAAACATGGTCTTTAGCGGCGTTTGTGGGGAAA
1 TTTAACGGCGTTTGTGGAAAAAGCGCCACTAAAAAACATGGTATTTAGCGACGTTTGTGGGGAAA
35030557 GCGCCGCTAAA
66 GCGCCGCTAAA
35030568 AAACTATTTT
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
86 70 1.00
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (86 bp):
TTTAACGGCGTTTGTGGAAAAAGCGCCACTAAAAAACATGGTATTTAGCGACGTTTGTGGGGAAA
GCGCCGCTAAAGAACATGATC
Found at i:35030616 original size:23 final size:22
Alignment explanation
Indices: 35030588--35030631 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
35030578 CCTGTTGTGT
*
35030588 CTTATTCATATTTTTAAATAAAA
1 CTTATTCACA-TTTTAAATAAAA
*
35030611 CTTATTTACATTTTAAATAAA
1 CTTATTCACATTTTAAATAAA
35030632 GAACTTGTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (22 bp):
CTTATTCACATTTTAAATAAAA
Found at i:35030874 original size:44 final size:44
Alignment explanation
Indices: 35030820--35030948 Score: 195
Period size: 44 Copynumber: 2.9 Consensus size: 44
35030810 ATATCAGAAT
* *
35030820 TTAAGGATTCAAACATTCATGAACGAATATAATGGAGGGACGAC
1 TTAAGAATTCAAACATTCATGAACGAATATAATGGAGGGAAGAC
*
35030864 TTAAGAATTCAGACATTCATGAACGAATATAATGGAGGGAAGAC
1 TTAAGAATTCAAACATTCATGAACGAATATAATGGAGGGAAGAC
* * * *
35030908 TTAAGAATTCAAGCATTCATTAACTAATTTAATGGAGGGAA
1 TTAAGAATTCAAACATTCATGAACGAATATAATGGAGGGAA
35030949 TTATAAAAGG
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 77 1.00
ACGTcount: A:0.42, C:0.12, G:0.21, T:0.26
Consensus pattern (44 bp):
TTAAGAATTCAAACATTCATGAACGAATATAATGGAGGGAAGAC
Found at i:35031105 original size:44 final size:45
Alignment explanation
Indices: 35031002--35031124 Score: 133
Period size: 44 Copynumber: 2.8 Consensus size: 45
35030992 ATAAAGCTTT
* * * *
35031002 AAGGATTTAAGCATTCATGAACGAATTTAATGGAGGGAACAGTTA
1 AAGGATTTAAGCATTCATTAACAAATTTAATGGAGAGAACAGCTA
* * * *
35031047 AA-GATTCAAACATTCATTAATAAATTTAATGGAGAGAAGA-CTA
1 AAGGATTTAAGCATTCATTAACAAATTTAATGGAGAGAACAGCTA
* *
35031090 AAGGATTTAAGCATTCATTGGACAGATTTAATGGA
1 AAGGATTTAAGCATTCATT-AACAAATTTAATGGA
35031125 AGGTATTATA
Statistics
Matches: 63, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
43 4 0.06
44 45 0.71
45 14 0.22
ACGTcount: A:0.42, C:0.09, G:0.20, T:0.28
Consensus pattern (45 bp):
AAGGATTTAAGCATTCATTAACAAATTTAATGGAGAGAACAGCTA
Found at i:35031366 original size:184 final size:184
Alignment explanation
Indices: 35030819--35032072 Score: 1931
Period size: 184 Copynumber: 6.9 Consensus size: 184
35030809 CATATCAGAA
* * * * *
35030819 TTTAAGGATTCAAACATTCATGAACGAATATAATGGAGGG-ACGACTTAAGAATTCAGACATTCA
1 TTTAAGGATTTAAGCATTCATGAACGAATTTAATGGAGGGAAC-AGTTAAGAATTCAAACATTCA
* * * * * *
35030883 TGAACGAATATAATGGA-GG--GAAGACTTAAGAATTCAAGCATTCATT-AACTA-ATTTAATGG
65 TTAACAAATTTAATGGAGGGAAGAAGACTTAAGGATTTAAGCATTCATTGGAC-AGATTTAATGG
* * * *
35030943 AGGGAATTATAAAAGGTTCACATCCATGCAT-GTTCATTCACATGTTTAAATAAAGC
129 AAGGTATTATAAAAGGTTGACATCCATGCATATTTC-TTCACATGTTTAAATAAAGC
35030999 TTTAAGGATTTAAGCATTCATGAACGAATTTAATGGAGGGAACAGTTAA-AGATTCAAACATTCA
1 TTTAAGGATTTAAGCATTCATGAACGAATTTAATGGAGGGAACAGTTAAGA-ATTCAAACATTCA
* *
35031063 TTAATAAATTTAATGGA--G-AGAAGACTAAAGGATTTAAGCATTCATTGGACAGATTTAATGGA
65 TTAACAAATTTAATGGAGGGAAGAAGACTTAAGGATTTAAGCATTCATTGGACAGATTTAATGGA
35031125 AGGTATTATAAAAGGTTGACATCCATGCATATTTCTTCACATGTTTAAATAAAGC
130 AGGTATTATAAAAGGTTGACATCCATGCATATTTCTTCACATGTTTAAATAAAGC
35031180 TTTAAGGATTTAAGCATTCATGAACGAATTTAATGGAGGGAACAGTTAA-AGATTCAAACATTCA
1 TTTAAGGATTTAAGCATTCATGAACGAATTTAATGGAGGGAACAGTTAAGA-ATTCAAACATTCA
* *
35031244 TTAATAAATTTAATGGAGGGAAGAAGACTAAAGGATTTAAGCATTCATTGGACAGATTTAATGGA
65 TTAACAAATTTAATGGAGGGAAGAAGACTTAAGGATTTAAGCATTCATTGGACAGATTTAATGGA
35031309 AGGTATTATAAAAGGTTGACATCCATGCATATTTCTTCACATGTTTAAATAAAGC
130 AGGTATTATAAAAGGTTGACATCCATGCATATTTCTTCACATGTTTAAATAAAGC
35031364 TTTAAGGATTTAAGCATTCATGAACGAATTTAATGGAGGGAACAGTTAA-AGATTCAAACATTCA
1 TTTAAGGATTTAAGCATTCATGAACGAATTTAATGGAGGGAACAGTTAAGA-ATTCAAACATTCA
* *
35031428 TTAATAAATTTAATGGAGGGAAGAAGACTAAAGGATTTAAGCATTCATTGGACAGATTTAATGGA
65 TTAACAAATTTAATGGAGGGAAGAAGACTTAAGGATTTAAGCATTCATTGGACAGATTTAATGGA
*
35031493 AGGTATTATAAAAGGTTGACATCCATGCATATTTATTCACATGTTTAAATAAAGC
130 AGGTATTATAAAAGGTTGACATCCATGCATATTTCTTCACATGTTTAAATAAAGC
* * * * * * *
35031548 TTTAAGGATTTAAGCATTTATGAACGAATTTAATGGAGGAAAGACTTAGGAATTCAAGCATACAT
1 TTTAAGGATTTAAGCATTCATGAACGAATTTAATGGAGGGAACAGTTAAGAATTCAAACATTCAT
35031613 TAACAAATTTAATGGAGGGAAGAAGACTTAAGGATTTAAGCATTCATTGGACAGATTTAATGGAA
66 TAACAAATTTAATGGAGGGAAGAAGACTTAAGGATTTAAGCATTCATTGGACAGATTTAATGGAA
35031678 GGTATTATAAAAGGTTGACATCCATGCATATTTCTTCACATGTTTAAATAAAGC
131 GGTATTATAAAAGGTTGACATCCATGCATATTTCTTCACATGTTTAAATAAAGC
* * * * * * *
35031732 TTTAAGGATTTAAGCATTTATGGACGAATTTAATGGAGGAAAGACTTAAGAATTCAAGCATACAT
1 TTTAAGGATTTAAGCATTCATGAACGAATTTAATGGAGGGAACAGTTAAGAATTCAAACATTCAT
*
35031797 TAACAAATTTAATGGAGGGAAGAAGACTTAAGGATTTAAGCAATCATTGGACAGATTTAATGGAA
66 TAACAAATTTAATGGAGGGAAGAAGACTTAAGGATTTAAGCATTCATTGGACAGATTTAATGGAA
* *
35031862 GGTATTATAAAAGGTTGACATCCATGCATATTTATTCACGTGTTTAAATAAAGC
131 GGTATTATAAAAGGTTGACATCCATGCATATTTCTTCACATGTTTAAATAAAGC
* * * * * * *
35031916 TTTAAGGATTTAAGCATTTATGAACGAATTTAATGGAGGAAAGACTCAAGAATTCAAGCATACAT
1 TTTAAGGATTTAAGCATTCATGAACGAATTTAATGGAGGGAACAGTTAAGAATTCAAACATTCAT
35031981 TAACAAATTTAATGGAGGGAAGAAGACTTAAGGATTTAAGCATTCATTGGACAGATTTAATGGAA
66 TAACAAATTTAATGGAGGGAAGAAGACTTAAGGATTTAAGCATTCATTGGACAGATTTAATGGAA
* *
35032046 GGTATTATAAAAGATTCACATCCATGC
131 GGTATTATAAAAGGTTGACATCCATGC
35032073 TTGTAAATAT
Statistics
Matches: 1026, Mismatches: 38, Indels: 16
0.95 0.04 0.01
Matches are distributed among these distances:
179 2 0.00
180 92 0.09
181 142 0.14
182 3 0.00
183 1 0.00
184 785 0.77
185 1 0.00
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (184 bp):
TTTAAGGATTTAAGCATTCATGAACGAATTTAATGGAGGGAACAGTTAAGAATTCAAACATTCAT
TAACAAATTTAATGGAGGGAAGAAGACTTAAGGATTTAAGCATTCATTGGACAGATTTAATGGAA
GGTATTATAAAAGGTTGACATCCATGCATATTTCTTCACATGTTTAAATAAAGC
Found at i:35031654 original size:47 final size:44
Alignment explanation
Indices: 35031549--35032044 Score: 145
Period size: 44 Copynumber: 10.8 Consensus size: 44
35031539 AAATAAAGCT
* * *
35031549 TTAAGGATTTAAGCATTTATGAACGAATTTAATGGAGGAAAGAC
1 TTAAGGATTTAAGCATTCATTAACAAATTTAATGGAGGAAAGAC
* *
35031593 TT-AGGAATTCAAGCATACATTAACAAATTTAATGGAGGGAAGAAGAC
1 TTAAGG-ATTTAAGCATTCATTAACAAATTTAATGGA-GG-A-AAGAC
* * * **
35031640 TTAAGGATTTAAGCATTCATTGGACAGATTTAATGGAAGGTATTA-
1 TTAAGGATTTAAGCATTCATT-AACAAATTTAATGG-AGGAAAGAC
* * * ** * ** * **
35031685 TAAAAGG--TTGA-CATCCATGCATATTTCTTCACATGTTTAAATAAAG-C
1 T-TAAGGATTTAAGCATTCATTAACAAAT-TT-A-ATG---GAGGAAAGAC
* ** *
35031732 TTTAAGGATTTAAGCATTTATGGACGAATTTAATGGAGGAAAGAC
1 -TTAAGGATTTAAGCATTCATTAACAAATTTAATGGAGGAAAGAC
* * *
35031777 TTAAGAATTCAAGCATACATTAACAAATTTAATGGAGGGAAGAAGAC
1 TTAAGGATTTAAGCATTCATTAACAAATTTAATGGA-GG-A-AAGAC
* * * * **
35031824 TTAAGGATTTAAGCAATCATTGGACAGATTTAATGGAAGGTATTA-
1 TTAAGGATTTAAGCATTCATT-AACAAATTTAATGG-AGGAAAGAC
* * * * * ** *
35031869 TAAAAGG--TTGA-CATCCA-T-GCATATTT-ATTCACGTGTTTAAATAAAGC
1 T-TAAGGATTTAAGCATTCATTAACAAATTTAATGGA-G-G----AA-AGA-C
* * *
35031916 TTTAAGGATTTAAGCATTTATGAACGAATTTAATGGAGGAAAGAC
1 -TTAAGGATTTAAGCATTCATTAACAAATTTAATGGAGGAAAGAC
* * * *
35031961 TCAAGAATTCAAGCATACATTAACAAATTTAATGGAGGGAAGAAGAC
1 TTAAGGATTTAAGCATTCATTAACAAATTTAATGGA-GG-A-AAGAC
* *
35032008 TTAAGGATTTAAGCATTCATTGGACAGATTTAATGGA
1 TTAAGGATTTAAGCATTCATT-AACAAATTTAATGGA
35032045 AGGTATTATA
Statistics
Matches: 317, Mismatches: 89, Indels: 88
0.64 0.18 0.18
Matches are distributed among these distances:
38 1 0.00
39 3 0.01
40 7 0.02
42 4 0.01
43 15 0.05
44 98 0.31
45 14 0.04
46 17 0.05
47 79 0.25
48 47 0.15
49 10 0.03
50 12 0.04
51 1 0.00
52 6 0.02
53 3 0.01
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.30
Consensus pattern (44 bp):
TTAAGGATTTAAGCATTCATTAACAAATTTAATGGAGGAAAGAC
Found at i:35031991 original size:44 final size:48
Alignment explanation
Indices: 35031936--35032044 Score: 127
Period size: 47 Copynumber: 2.4 Consensus size: 48
35031926 TAAGCATTTA
*
35031936 TGAACGAATTTAATGGA-GG-A-AAGACTCAAGAATTCAAGCATACAT
1 TGAACAAATTTAATGGAGGGAAGAAGACTCAAGAATTCAAGCATACAT
* * * *
35031981 T-AACAAATTTAATGGAGGGAAGAAGACTTAAGGATTTAAGCATTCAT
1 TGAACAAATTTAATGGAGGGAAGAAGACTCAAGAATTCAAGCATACAT
* *
35032028 TGGACAGATTTAATGGA
1 TGAACAAATTTAATGGA
35032045 AGGTATTATA
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
44 14 0.26
45 3 0.06
46 1 0.02
47 22 0.42
48 13 0.25
ACGTcount: A:0.42, C:0.10, G:0.22, T:0.26
Consensus pattern (48 bp):
TGAACAAATTTAATGGAGGGAAGAAGACTCAAGAATTCAAGCATACAT
Found at i:35032598 original size:1 final size:1
Alignment explanation
Indices: 35032592--35032616 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
35032582 TTGATTCTTG
35032592 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
35032617 ATAAATAACG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:35033280 original size:17 final size:17
Alignment explanation
Indices: 35033258--35033295 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
35033248 CATTTAAAAG
35033258 AAATTAATTCT-AAAATT
1 AAATTAATT-TAAAAATT
35033275 AAATTAATTTAAAAATT
1 AAATTAATTTAAAAATT
35033292 AAAT
1 AAAT
35033296 GAAAATATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 1 0.05
17 19 0.95
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (17 bp):
AAATTAATTTAAAAATT
Found at i:35035883 original size:17 final size:19
Alignment explanation
Indices: 35035861--35035910 Score: 56
Period size: 17 Copynumber: 2.9 Consensus size: 19
35035851 AAATTAGTAC
35035861 TTAAATTTA-TTATTT-TT
1 TTAAATTTAGTTATTTATT
*
35035878 TTAAA-TTAGTTTTTTATT
1 TTAAATTTAGTTATTTATT
35035896 TTAAA-TTAG-TATTTA
1 TTAAATTTAGTTATTTA
35035911 AATCTTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 3 0.10
17 15 0.52
18 11 0.38
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (19 bp):
TTAAATTTAGTTATTTATT
Found at i:35036956 original size:52 final size:52
Alignment explanation
Indices: 35036873--35036974 Score: 195
Period size: 52 Copynumber: 2.0 Consensus size: 52
35036863 AAGAAGAAGC
*
35036873 AGTAGAAGAGATGATAGAAAAATGGGGGTGGGGGTAGAAAAGTCAAAAAGGA
1 AGTAGAAGAGATGATAGAAAAATGGGAGTGGGGGTAGAAAAGTCAAAAAGGA
35036925 AGTAGAAGAGATGATAGAAAAATGGGAGTGGGGGTAGAAAAGTCAAAAAG
1 AGTAGAAGAGATGATAGAAAAATGGGAGTGGGGGTAGAAAAGTCAAAAAG
35036975 CAAAAAAATT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.47, C:0.02, G:0.37, T:0.14
Consensus pattern (52 bp):
AGTAGAAGAGATGATAGAAAAATGGGAGTGGGGGTAGAAAAGTCAAAAAGGA
Found at i:35037087 original size:13 final size:13
Alignment explanation
Indices: 35037069--35037111 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
35037059 TAATCGTATT
35037069 AAATTCAAATATC
1 AAATTCAAATATC
**
35037082 AAATTCATGAATAAA
1 AAATTCA--AATATC
35037097 AAATTCAAATATC
1 AAATTCAAATATC
35037110 AA
1 AA
35037112 TATGAGATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
13 13 0.54
15 11 0.46
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.28
Consensus pattern (13 bp):
AAATTCAAATATC
Found at i:35038008 original size:2 final size:2
Alignment explanation
Indices: 35038003--35038031 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
35037993 TCTATCTATC
35038003 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
35038032 TTAATTTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:35040973 original size:113 final size:113
Alignment explanation
Indices: 35040842--35041066 Score: 378
Period size: 113 Copynumber: 2.0 Consensus size: 113
35040832 TCTTCTTCCC
* * * *
35040842 TTTTGATTCCAATATCTTTAGTTACAAATTTGTCTTAAAGTTTAAATCTTTAAAATCTATTAACC
1 TTTTGATTCCAATATCTTTAGTTACAAATCTGTCTTAAAGCTTAAATCTTTAAAACCCATTAACC
*
35040907 AAAAGATTCAATATATTTGGTTCCAATATCTTCTTCCTGTTAAGTTTT
66 AAAAGATTCAATATATTTGGCTCCAATATCTTCTTCCTGTTAAGTTTT
* *
35040955 TTTTGATTCCAATATCTTTAGTTATAAATCTGTTTTAAAGCTTAAATCTTTAAAACCCATTAACC
1 TTTTGATTCCAATATCTTTAGTTACAAATCTGTCTTAAAGCTTAAATCTTTAAAACCCATTAACC
*
35041020 AAAAGATTCAATATTTTTGGCTCCAATATCTTCTTCCTGTTAAGTTT
66 AAAAGATTCAATATATTTGGCTCCAATATCTTCTTCCTGTTAAGTTT
35041067 CTTTGAGTTA
Statistics
Matches: 104, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
113 104 1.00
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.45
Consensus pattern (113 bp):
TTTTGATTCCAATATCTTTAGTTACAAATCTGTCTTAAAGCTTAAATCTTTAAAACCCATTAACC
AAAAGATTCAATATATTTGGCTCCAATATCTTCTTCCTGTTAAGTTTT
Found at i:35059675 original size:29 final size:29
Alignment explanation
Indices: 35059631--35059705 Score: 107
Period size: 32 Copynumber: 2.5 Consensus size: 29
35059621 TAAATAATTT
35059631 TAAAATTATTAAA-ATTATTTTTAAAAAA
1 TAAAATTATTAAATATTATTTTTAAAAAA
*
35059659 TATAAATTATTAAAATTATTATTTTTAAATAA
1 TA-AAATTATT-AAA-TATTATTTTTAAAAAA
35059691 TAAAATTATTAAATA
1 TAAAATTATTAAATA
35059706 ATTTTAATTT
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
28 2 0.05
29 10 0.24
30 6 0.14
31 8 0.19
32 16 0.38
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (29 bp):
TAAAATTATTAAATATTATTTTTAAAAAA
Found at i:35059704 original size:16 final size:16
Alignment explanation
Indices: 35059651--35059707 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
35059641 AAAATTATTT
*
35059651 TTAAAAAATATAAATTA
1 TTAAATAATA-AAATTA
* ** *
35059668 TTAAA-ATTATTATTT
1 TTAAATAATAAAATTA
35059683 TTAAATAATAAAATTA
1 TTAAATAATAAAATTA
35059699 TTAAATAAT
1 TTAAATAAT
35059708 TTTAATTTTC
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
15 8 0.26
16 18 0.58
17 5 0.16
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAAATAATAAAATTA
Found at i:35059813 original size:20 final size:20
Alignment explanation
Indices: 35059788--35059833 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
35059778 ACTTTTGGGG
*
35059788 ATTTTGATTTAGGTTTCAAA
1 ATTTTGATTTAAGTTTCAAA
35059808 ATTTTGATTTAAGTTTCAAA
1 ATTTTGATTTAAGTTTCAAA
35059828 ATTTTG
1 ATTTTG
35059834 GGATTTTCGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.30, C:0.04, G:0.13, T:0.52
Consensus pattern (20 bp):
ATTTTGATTTAAGTTTCAAA
Found at i:35060704 original size:42 final size:42
Alignment explanation
Indices: 35060596--35060707 Score: 138
Period size: 42 Copynumber: 2.7 Consensus size: 42
35060586 TTCCAACAAG
* * *
35060596 AAGAACCAAACCAAGCTT-GTTAAACCATCAAATGTATCTAGC
1 AAGAACCAAACCAAG-TTGGTTAAATCATCAAATGTATCGACC
* * *
35060638 AAGAACCAAACCAAGCTGGTTAAATTAGT-GAATGTATCGACC
1 AAGAACCAAACCAAGTTGGTTAAATCA-TCAAATGTATCGACC
35060680 AAGAACCAAACCAAGTTGGTTAAATCAT
1 AAGAACCAAACCAAGTTGGTTAAATCAT
35060708 TGAGAAAATA
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
41 2 0.03
42 57 0.95
43 1 0.02
ACGTcount: A:0.43, C:0.21, G:0.15, T:0.21
Consensus pattern (42 bp):
AAGAACCAAACCAAGTTGGTTAAATCATCAAATGTATCGACC
Found at i:35061068 original size:22 final size:23
Alignment explanation
Indices: 35061043--35061129 Score: 83
Period size: 22 Copynumber: 3.9 Consensus size: 23
35061033 AAATTATTTA
*
35061043 ATAATTTT-ATTATTTTAAAAAT
1 ATAATTTTAATAATTTTAAAAAT
***
35061065 ATAATTTTAATAATTTTATATTTT
1 ATAATTTTAATAATTTTA-AAAAT
* *
35061089 AAAAATTT-AT-ATTTTAAAAA-
1 ATAATTTTAATAATTTTAAAAAT
35061109 ATAATTTTAATAATTTTAAAA
1 ATAATTTTAATAATTTTAAAA
35061130 TTATTTGTTG
Statistics
Matches: 50, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
20 6 0.12
21 3 0.06
22 23 0.46
23 10 0.20
24 8 0.16
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
ATAATTTTAATAATTTTAAAAAT
Found at i:35061089 original size:30 final size:32
Alignment explanation
Indices: 35061039--35061105 Score: 111
Period size: 31 Copynumber: 2.2 Consensus size: 32
35061029 ATTAAAATTA
35061039 TTTAATAATTTTATTATTTTAAAAATATA-AT
1 TTTAATAATTTTATTATTTTAAAAATATATAT
*
35061070 TTTAATAATTTTA-TATTTTAAAAATTTATAT
1 TTTAATAATTTTATTATTTTAAAAATATATAT
35061101 TTTAA
1 TTTAA
35061106 AAAATAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
30 14 0.41
31 20 0.59
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (32 bp):
TTTAATAATTTTATTATTTTAAAAATATATAT
Found at i:35061110 original size:16 final size:15
Alignment explanation
Indices: 35061048--35061108 Score: 79
Period size: 15 Copynumber: 4.0 Consensus size: 15
35061038 ATTTAATAAT
35061048 TTTATTATTTTAAAAA
1 TTTA-TATTTTAAAAA
* *
35061064 TATA-ATTTTAATAAT
1 TTTATATTTTAA-AAA
35061079 TTTATATTTTAAAAA
1 TTTATATTTTAAAAA
35061094 TTTATATTTTAAAAA
1 TTTATATTTTAAAAA
35061109 ATAATTTTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
14 7 0.18
15 22 0.56
16 10 0.26
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TTTATATTTTAAAAA
Found at i:35061125 original size:44 final size:47
Alignment explanation
Indices: 35061039--35061126 Score: 146
Period size: 44 Copynumber: 1.9 Consensus size: 47
35061029 ATTAAAATTA
*
35061039 TTTAATAATTTTATTATTTTAAAAATATAATTTTAATAATTTTATAT
1 TTTAATAAATTTATTATTTTAAAAATATAATTTTAATAATTTTATAT
35061086 TTTAA-AAATTTA-TATTTTAAAAA-ATAATTTTAATAATTTTA
1 TTTAATAAATTTATTATTTTAAAAATATAATTTTAATAATTTTA
35061127 AAATTATTTG
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
44 18 0.45
45 11 0.28
46 6 0.15
47 5 0.12
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (47 bp):
TTTAATAAATTTATTATTTTAAAAATATAATTTTAATAATTTTATAT
Found at i:35063972 original size:24 final size:24
Alignment explanation
Indices: 35063940--35063985 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
35063930 ATTTATCTAC
35063940 GCTCGTAAGAGCTAACCATTCTGG
1 GCTCGTAAGAGCTAACCATTCTGG
35063964 GCTCGTAAGAGCTAACCATTCT
1 GCTCGTAAGAGCTAACCATTCT
35063986 AGGCGTGTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (24 bp):
GCTCGTAAGAGCTAACCATTCTGG
Found at i:35068551 original size:17 final size:17
Alignment explanation
Indices: 35068525--35068566 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
35068515 ATTAATTATT
35068525 ATCATATTTAAAATAAA
1 ATCATATTTAAAATAAA
* *
35068542 ATCATGTTTATAAT-AA
1 ATCATATTTAAAATAAA
35068558 AT-ATATTTA
1 ATCATATTTA
35068567 TTTAATTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 6 0.27
16 4 0.18
17 12 0.55
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (17 bp):
ATCATATTTAAAATAAA
Found at i:35070566 original size:24 final size:24
Alignment explanation
Indices: 35070514--35070567 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
35070504 AAAATTATAA
*
35070514 AAAAAATAGAACTTTGAAAATTTT
1 AAAAAATAGAACTTTGAAAATGTT
* *
35070538 AAAAAATAGAATTTTTAAAA-GTT
1 AAAAAATAGAACTTTGAAAATGTT
*
35070561 ACAAAAT
1 AAAAAAT
35070568 TATAAAAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 8 0.31
24 18 0.69
ACGTcount: A:0.57, C:0.04, G:0.07, T:0.31
Consensus pattern (24 bp):
AAAAAATAGAACTTTGAAAATGTT
Found at i:35070585 original size:10 final size:10
Alignment explanation
Indices: 35070563--35070605 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
35070553 TAAAAGTTAC
35070563 AAAATTA-TA
1 AAAATTATTA
35070572 AAAATTATTA
1 AAAATTATTA
* *
35070582 AAAAATAATA
1 AAAATTATTA
35070592 GAAAATTATTA
1 -AAAATTATTA
35070603 AAA
1 AAA
35070606 TTTTAGAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
9 7 0.25
10 13 0.46
11 8 0.29
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (10 bp):
AAAATTATTA
Found at i:35070597 original size:21 final size:20
Alignment explanation
Indices: 35070563--35070605 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
35070553 TAAAAGTTAC
*
35070563 AAAATTATAAAAATTATTAA
1 AAAATAATAAAAATTATTAA
35070583 AAAATAATAGAAAATTATTAA
1 AAAATAATA-AAAATTATTAA
35070604 AA
1 AA
35070606 TTTTAGAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (20 bp):
AAAATAATAAAAATTATTAA
Found at i:35070690 original size:18 final size:20
Alignment explanation
Indices: 35070667--35070703 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
35070657 TTCAAATATT
35070667 ATAAAA-ATTA-TTAAAAAA
1 ATAAAACATTATTTAAAAAA
35070685 ATAAAACATTATTTAAAAA
1 ATAAAACATTATTTAAAAA
35070704 TTATGAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 4 0.24
20 7 0.41
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (20 bp):
ATAAAACATTATTTAAAAAA
Found at i:35070725 original size:28 final size:30
Alignment explanation
Indices: 35070662--35070728 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
35070652 ATTTTTTCAA
*
35070662 ATATTATAAAAATTATTAAAAAAATAAAAC
1 ATATTATAAAAATTATGAAAAAAATAAAAC
* *
35070692 ATTATT-TAAAAATTATGAAAAATAT-ATAC
1 A-TATTATAAAAATTATGAAAAAAATAAAAC
35070721 ATATTATA
1 ATATTATA
35070729 TTTTTTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
28 4 0.12
29 6 0.19
30 18 0.56
31 4 0.12
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (30 bp):
ATATTATAAAAATTATGAAAAAAATAAAAC
Found at i:35070966 original size:9 final size:9
Alignment explanation
Indices: 35070954--35070987 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
35070944 AACAATTTTT
35070954 TATTTTTAA
1 TATTTTTAA
*
35070963 TATTTTTCA
1 TATTTTTAA
*
35070972 TAATTTTAA
1 TATTTTTAA
35070981 TATTTTT
1 TATTTTT
35070988 TTTATACTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (9 bp):
TATTTTTAA
Found at i:35071129 original size:21 final size:22
Alignment explanation
Indices: 35071105--35071145 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
35071095 GTTTTTTTGT
35071105 TTTTAA-ATAATTTT-ATATTAG
1 TTTTAATA-AATTTTCATATTAG
35071126 TTTTAATAAATTTTCATATT
1 TTTTAATAAATTTTCATATT
35071146 TTTAACTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (22 bp):
TTTTAATAAATTTTCATATTAG
Found at i:35071197 original size:29 final size:29
Alignment explanation
Indices: 35071159--35071215 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
35071149 AACTTTTTAT
* * *
35071159 AATTTTTTATAACTTTAAATTTTTTTAAG
1 AATTTATTATAACTTTAAAATATTTTAAG
* *
35071188 AATTTATTATTATTTTAAAATATTTTAA
1 AATTTATTATAACTTTAAAATATTTTAA
35071216 AGGAAAATTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (29 bp):
AATTTATTATAACTTTAAAATATTTTAAG
Found at i:35072438 original size:3 final size:3
Alignment explanation
Indices: 35072430--35072458 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
35072420 GGAACGGAAC
35072430 CAA CAA CAA CAA CAA CAA CAA CAA CAA CA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA CA
35072459 GTGGTGTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.34, G:0.00, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:35075842 original size:59 final size:59
Alignment explanation
Indices: 35075754--35075892 Score: 147
Period size: 59 Copynumber: 2.4 Consensus size: 59
35075744 GAACTTTACG
* * ** * * * *
35075754 TTTTTTTTTAAGTTGGTACCTATA-TTTTTTTTTACTCAATTTGGTACTTTAACTTGATA
1 TTTTTTTTTAATTTGGTACCTAAACTTTTTTTGGACCCAATTTAGTACTTGAA-TTGACA
* *
35075813 TTTTTTTTTAATTTGGTA-CTCAAACTTTTTTTGGACCCAATTTAGTTCTTGAATTTACA
1 TTTTTTTTTAATTTGGTACCT-AAACTTTTTTTGGACCCAATTTAGTACTTGAATTGACA
*
35075872 TTTTTTCTTAATTTGGTACCT
1 TTTTTTTTTAATTTGGTACCT
35075893 GAGGTTTTTT
Statistics
Matches: 66, Mismatches: 11, Indels: 5
0.80 0.13 0.06
Matches are distributed among these distances:
58 2 0.03
59 40 0.61
60 24 0.36
ACGTcount: A:0.22, C:0.12, G:0.10, T:0.56
Consensus pattern (59 bp):
TTTTTTTTTAATTTGGTACCTAAACTTTTTTTGGACCCAATTTAGTACTTGAATTGACA
Found at i:35076167 original size:30 final size:30
Alignment explanation
Indices: 35076128--35076212 Score: 91
Period size: 30 Copynumber: 2.8 Consensus size: 30
35076118 TCTTAAAAAA
* *
35076128 TTTAAGTATCAATTTAA-AAAAAGTGTCAAG
1 TTTAAGTATCAAATTAAGAAAAAATGT-AAG
*
35076158 TTTAGGTATCAAATTAAGAAAAAATGTAAG
1 TTTAAGTATCAAATTAAGAAAAAATGTAAG
* * *
35076188 TTTGAGTACCAAATTGAATAAAAAA
1 TTTAAGTATCAAATT-AAGAAAAAA
35076213 ATTTTAGTTA
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
30 30 0.65
31 16 0.35
ACGTcount: A:0.49, C:0.06, G:0.14, T:0.31
Consensus pattern (30 bp):
TTTAAGTATCAAATTAAGAAAAAATGTAAG
Found at i:35083423 original size:54 final size:54
Alignment explanation
Indices: 35083358--35083464 Score: 205
Period size: 54 Copynumber: 2.0 Consensus size: 54
35083348 AAAAACTTAC
*
35083358 CCAATGCTCTACAAATATTCCCTGATCGCTAAATTTCTTCAAGGACTATGTGTA
1 CCAATGCTCTACAAATATTCCCTGATCCCTAAATTTCTTCAAGGACTATGTGTA
35083412 CCAATGCTCTACAAATATTCCCTGATCCCTAAATTTCTTCAAGGACTATGTGT
1 CCAATGCTCTACAAATATTCCCTGATCCCTAAATTTCTTCAAGGACTATGTGT
35083465 TTGTTTTAGG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (54 bp):
CCAATGCTCTACAAATATTCCCTGATCCCTAAATTTCTTCAAGGACTATGTGTA
Found at i:35083896 original size:23 final size:24
Alignment explanation
Indices: 35083843--35083907 Score: 69
Period size: 23 Copynumber: 2.7 Consensus size: 24
35083833 ATATTCCCTT
* * *
35083843 TTAAAAACAAAAAAATAAAATTAAT
1 TTAAAAA-GAAAAAATAAAATGAAA
35083868 TCTAAAAAGAAAAAATAAAA-GAAA
1 T-TAAAAAGAAAAAATAAAATGAAA
*
35083892 TTAAAAAGATAAAATA
1 TTAAAAAGAAAAAATA
35083908 GGTTTTCCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
23 14 0.40
24 3 0.09
25 12 0.34
26 6 0.17
ACGTcount: A:0.72, C:0.03, G:0.05, T:0.20
Consensus pattern (24 bp):
TTAAAAAGAAAAAATAAAATGAAA
Found at i:35097980 original size:20 final size:20
Alignment explanation
Indices: 35097955--35098029 Score: 55
Period size: 19 Copynumber: 3.4 Consensus size: 20
35097945 ATAAAAATAA
35097955 AAAAAAATCTAATAAATTAT
1 AAAAAAATCTAATAAATTAT
35097975 -AAAAAATCATAA-AGATATTAT
1 AAAAAAATC-TAATA-A-ATTAT
35097996 AAAAATTATAAAATCTAATAAATTAT
1 ---AA--A-AAAATCTAATAAATTAT
35098022 AAAAAAAT
1 AAAAAAAT
35098030 ATTAAAAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 22
0.67 0.00 0.33
Matches are distributed among these distances:
19 9 0.20
20 9 0.20
21 6 0.14
23 2 0.05
25 1 0.02
26 5 0.11
27 5 0.11
28 7 0.16
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.29
Consensus pattern (20 bp):
AAAAAAATCTAATAAATTAT
Found at i:35098004 original size:30 final size:28
Alignment explanation
Indices: 35097968--35098096 Score: 90
Period size: 28 Copynumber: 4.5 Consensus size: 28
35097958 AAAATCTAAT
35097968 AAATTATAAAAAATCATAAAGATATTATAA
1 AAATTATAAAAAATCATAAA-A-ATTATAA
35097998 AAATTAT--AAAATC-TAATAAATTATAAA
1 AAATTATAAAAAATCATAA-AAATTAT-AA
*
35098025 AAAATATTAAAAAATCATAGAAACA-TATAA
1 AAATTA-TAAAAAATCATA-AAA-ATTATAA
* * * *
35098055 ATATTAT-AAAAAT-ATAATAAGTTCTGAT
1 AAATTATAAAAAATCATAA-AAATTAT-AA
35098083 AAATTATAAAAAAT
1 AAATTATAAAAAAT
35098097 ATATATTTTA
Statistics
Matches: 80, Mismatches: 7, Indels: 25
0.71 0.06 0.22
Matches are distributed among these distances:
26 6 0.08
27 18 0.22
28 21 0.26
29 7 0.09
30 19 0.24
31 7 0.09
32 2 0.03
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.31
Consensus pattern (28 bp):
AAATTATAAAAAATCATAAAAATTATAA
Found at i:35098028 original size:68 final size:67
Alignment explanation
Indices: 35097951--35098100 Score: 171
Period size: 68 Copynumber: 2.2 Consensus size: 67
35097941 ACTTATAAAA
* * *
35097951 ATAAAAAAAAATCTAATAAATTATAAAAA-ATCATAAAGATATTATAAAAATTATAA-AA-TCTA
1 ATAAAAAAATAT-TAAAAAATCATAAAAACAT-AT-AA-ATATTATAAAAA-TATAATAAGTCTA
35098013 ATAAATT
61 ATAAATT
* *
35098020 ATAAAAAAATATTAAAAAATCATAGAAACATATAAATATTATAAAAATATAATAAGTTCTGATAA
1 ATAAAAAAATATTAAAAAATCATAAAAACATATAAATATTATAAAAATATAATAAG-TCTAATAA
35098085 ATT
65 ATT
35098088 ATAAAAAATATAT
1 ATAAAAAA-ATAT
35098101 ATTTTATAAT
Statistics
Matches: 71, Mismatches: 5, Indels: 10
0.83 0.06 0.12
Matches are distributed among these distances:
65 5 0.07
66 14 0.20
67 2 0.03
68 33 0.46
69 17 0.24
ACGTcount: A:0.63, C:0.04, G:0.03, T:0.31
Consensus pattern (67 bp):
ATAAAAAAATATTAAAAAATCATAAAAACATATAAATATTATAAAAATATAATAAGTCTAATAAA
TT
Found at i:35098095 original size:58 final size:56
Alignment explanation
Indices: 35097935--35098096 Score: 166
Period size: 58 Copynumber: 2.8 Consensus size: 56
35097925 AATAAATTTA
* * * * *
35097935 ATATAAACTTATAAAAATAAAAAAAAATCTAATAAATTATAAAAAATCATAAAGAT
1 ATATAAAATTATAAAAATATAATAAATTCTAATAAATTATAAAAAATCATAAAGAC
* * * *
35097991 ATTATAAAAATTAT-AAAATCTAATAAATTATAAAAAAATATTAAAAAATCATAGAA-AC
1 A-TAT-AAAATTATAAAAATATAATAAATTCTAATAAATTA-TAAAAAATCATA-AAGAC
* *
35098049 ATATAAATATTATAAAAATATAATAAGTTCTGATAAATTATAAAAAAT
1 ATATAAA-ATTATAAAAATATAATAAATTCTAATAAATTATAAAAAAT
35098097 ATATATTTTA
Statistics
Matches: 85, Mismatches: 15, Indels: 11
0.77 0.14 0.10
Matches are distributed among these distances:
56 4 0.05
57 38 0.45
58 41 0.48
59 2 0.02
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.30
Consensus pattern (56 bp):
ATATAAAATTATAAAAATATAATAAATTCTAATAAATTATAAAAAATCATAAAGAC
Found at i:35099027 original size:9 final size:9
Alignment explanation
Indices: 35099005--35099098 Score: 64
Period size: 9 Copynumber: 10.0 Consensus size: 9
35098995 ATAATTTTTA
35099005 TTTATAAGTT
1 TTTATAA-TT
*
35099015 TTTATGATT
1 TTTATAATT
*
35099024 TTTATAAAT
1 TTTATAATT
35099033 TTTATAATT
1 TTTATAATT
**
35099042 TAACATTAATT
1 T-TTA-TAATT
* *
35099053 TTAATATTT
1 TTTATAATT
35099062 TTTA-AATAT
1 TTTATAAT-T
*
35099071 TTTTTAACTT
1 TTTATAA-TT
*
35099081 TTAATAATT
1 TTTATAATT
35099090 TTTATAATT
1 TTTATAATT
35099099 CCTTCAAAAA
Statistics
Matches: 64, Mismatches: 15, Indels: 11
0.71 0.17 0.12
Matches are distributed among these distances:
8 2 0.03
9 39 0.61
10 16 0.25
11 7 0.11
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (9 bp):
TTTATAATT
Found at i:35115967 original size:20 final size:20
Alignment explanation
Indices: 35115942--35115981 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
35115932 ATTAACAGAG
35115942 TAAATAT-ATTCATATTTATA
1 TAAATATCA-TCATATTTATA
*
35115962 TAAATATCATCATCTTTATA
1 TAAATATCATCATATTTATA
35115982 ATACCCAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.47
Consensus pattern (20 bp):
TAAATATCATCATATTTATA
Found at i:35126407 original size:12 final size:11
Alignment explanation
Indices: 35126376--35126411 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
35126366 TAAAAATCAT
35126376 AAAAATTATAA
1 AAAAATTATAA
35126387 AAAAATTATAA
1 AAAAATTATAA
*
35126398 AAGAAGTTATAA
1 AA-AAATTATAA
35126410 AA
1 AA
35126412 TTTTAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 13 0.57
12 10 0.43
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (11 bp):
AAAAATTATAA
Found at i:35126428 original size:20 final size:20
Alignment explanation
Indices: 35126348--35126428 Score: 51
Period size: 20 Copynumber: 4.1 Consensus size: 20
35126338 TAAGCACTTT
* *
35126348 TAAAATTTTAAAAATATTTA
1 TAAAATTTTAAAATTATATA
* *
35126368 -AAAATCATAAAAATTATA-A
1 TAAAAT-TTTAAAATTATATA
* * **
35126387 AAAAATTATAAAAGAAGT-TA
1 TAAAATTTTAAAATTA-TATA
35126407 TAAAATTTTAAAATTATATA
1 TAAAATTTTAAAATTATATA
35126427 TA
1 TA
35126429 TATATAAATT
Statistics
Matches: 43, Mismatches: 13, Indels: 10
0.65 0.20 0.15
Matches are distributed among these distances:
19 12 0.28
20 31 0.72
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.36
Consensus pattern (20 bp):
TAAAATTTTAAAATTATATA
Found at i:35128464 original size:14 final size:13
Alignment explanation
Indices: 35128445--35128484 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 13
35128435 CTTTTTATCT
35128445 TTTATATAAATTAA
1 TTTATATAAATT-A
35128459 TTTATA-AAATT-
1 TTTATATAAATTA
35128470 TTT-TATAAATTA
1 TTTATATAAATTA
35128482 TTT
1 TTT
35128485 CCTTTGCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
10 2 0.08
11 8 0.33
12 3 0.12
13 5 0.21
14 6 0.25
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
TTTATATAAATTA
Found at i:35129705 original size:19 final size:19
Alignment explanation
Indices: 35129681--35129718 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
35129671 ATCTTTAACG
*
35129681 ATTGACCTGTGGTAACATT
1 ATTGACCTGTGATAACATT
35129700 ATTGACCTGTGATAACATT
1 ATTGACCTGTGATAACATT
35129719 CTTTTTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (19 bp):
ATTGACCTGTGATAACATT
Found at i:35132772 original size:20 final size:21
Alignment explanation
Indices: 35132747--35132791 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
35132737 ACAATATAAT
35132747 AGCAAAACAACAACAAATAG-
1 AGCAAAACAACAACAAATAGC
* *
35132767 AGCAAAATAGCAACAAATAGC
1 AGCAAAACAACAACAAATAGC
35132788 AGCA
1 AGCA
35132792 GAAATTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.60, C:0.20, G:0.13, T:0.07
Consensus pattern (21 bp):
AGCAAAACAACAACAAATAGC
Found at i:35136529 original size:23 final size:23
Alignment explanation
Indices: 35136503--35136690 Score: 136
Period size: 23 Copynumber: 8.1 Consensus size: 23
35136493 ACACTAGCGC
35136503 GCTCTCTGATTAGCACTGTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
* *
35136526 GCTCTCTGTTTAGCAC-GTCTCGT
1 GCTCTCTGATTAGCACTGTGT-GT
35136549 GCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG--ATTAGCACTGTGTGT
* * *
35136574 GCTCTCTGATCAGTACTTTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
* * * *
35136597 ACTCTCTGTTTCGCACTTTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
* *
35136620 GC-CTACTGTTTCGCACT-TCGTGT
1 GCTCT-CTGATTAGCACTGT-GTGT
* * * *
35136643 GC-CTACTGATTTGCGCTATGTGC
1 GCTCT-CTGATTAGCACTGTGTGT
35136666 GC-CTACTGATT-GCACTGTGTGT
1 GCTCT-CTGATTAGCACTGTGTGT
35136688 GCT
1 GCT
35136691 TACTGTTTCC
Statistics
Matches: 137, Mismatches: 20, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
22 16 0.12
23 100 0.73
24 1 0.01
25 17 0.12
26 3 0.02
ACGTcount: A:0.11, C:0.25, G:0.23, T:0.40
Consensus pattern (23 bp):
GCTCTCTGATTAGCACTGTGTGT
Found at i:35136555 original size:25 final size:25
Alignment explanation
Indices: 35136504--35136580 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 25
35136494 CACTAGCGCG
* *
35136504 CTCTCTGATTAGCACTGTGTGTGCT
1 CTCTCTTATTAGCACTGTCTGTGCT
*
35136529 CTCT-GT-TTAGCAC-GTCTCGTGCT
1 CTCTCTTATTAGCACTGTCT-GTGCT
* *
35136552 CTCTGTTATTAGCACTGTGTGTGCT
1 CTCTCTTATTAGCACTGTCTGTGCT
35136577 CTCT
1 CTCT
35136581 GATCAGTACT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
22 3 0.07
23 16 0.37
24 1 0.02
25 20 0.47
26 3 0.07
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.42
Consensus pattern (25 bp):
CTCTCTTATTAGCACTGTCTGTGCT
Found at i:35146501 original size:29 final size:28
Alignment explanation
Indices: 35146469--35146556 Score: 70
Period size: 31 Copynumber: 2.9 Consensus size: 28
35146459 TTGTTTAATA
35146469 TGCAATTGTATACATGAACTTTAATTTGG
1 TGCAA-TGTATACATGAACTTTAATTTGG
*
35146498 TGCAAT-TATACATGTGAAACTTTAATTGTTG
1 TGCAATGTATACA--TG-AACTTTAATT-TGG
* * *
35146529 TTCAAATGTATACTTAAAACTTTAATTT
1 TGC-AATGTATACAT-GAACTTTAATTT
35146557 TGATTTAATC
Statistics
Matches: 48, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
27 6 0.12
28 1 0.02
29 7 0.15
30 11 0.23
31 15 0.31
32 3 0.06
33 5 0.10
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.43
Consensus pattern (28 bp):
TGCAATGTATACATGAACTTTAATTTGG
Found at i:35153775 original size:20 final size:20
Alignment explanation
Indices: 35153750--35153788 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
35153740 TTGAATATTA
35153750 AAAATTATTTTAAATTTTTG
1 AAAATTATTTTAAATTTTTG
*
35153770 AAAATTATTTTGAATTTTT
1 AAAATTATTTTAAATTTTT
35153789 TTACAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (20 bp):
AAAATTATTTTAAATTTTTG
Found at i:35155470 original size:16 final size:16
Alignment explanation
Indices: 35155449--35155480 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
35155439 ACTTAAATTT
*
35155449 AAAATTAAAAATATGA
1 AAAATTAAAAAAATGA
35155465 AAAATTAAAAAAATGA
1 AAAATTAAAAAAATGA
35155481 CTAAAATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (16 bp):
AAAATTAAAAAAATGA
Found at i:35164974 original size:13 final size:13
Alignment explanation
Indices: 35164958--35164998 Score: 57
Period size: 12 Copynumber: 3.2 Consensus size: 13
35164948 AACAACTTAA
35164958 AAAAATAAAAAAT
1 AAAAATAAAAAAT
*
35164971 AAAAAT-AAAAAC
1 AAAAATAAAAAAT
35164983 AAAAATAAGAAAAT
1 AAAAATAA-AAAAT
35164997 AA
1 AA
35164999 TAATTTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 11 0.46
13 7 0.29
14 6 0.25
ACGTcount: A:0.83, C:0.02, G:0.02, T:0.12
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:35166920 original size:59 final size:60
Alignment explanation
Indices: 35166752--35166999 Score: 308
Period size: 59 Copynumber: 4.2 Consensus size: 60
35166742 AAATTAGTGC
* * * ** **
35166752 TGGCCATGCAATGGCCGACACCCCCTTTTTATTTGA-CAGGAAA-TAAAAATTTTGGTGT
1 TGGCCATGCAATGGCCGACACCCCTTTTTTATCTGATAAAAAAATTAAATTTTTTGGTGT
* * *
35166810 TGGCCATTGC-ATGACCGACACCCCTTTTTAATCTGATAAAAAAATTAAATTTTTGGGTGT
1 TGGCCA-TGCAATGGCCGACACCCCTTTTTTATCTGATAAAAAAATTAAATTTTTTGGTGT
* * * *
35166870 TGACCATGCAATGGCCGACACCCCTTTTTTGTCAGAT-AAAAAATTTAATTTTTTGGTGT
1 TGGCCATGCAATGGCCGACACCCCTTTTTTATCTGATAAAAAAATTAAATTTTTTGGTGT
* *
35166929 TGGCCATGCAATGGCTGACACCCC-TATTTATCTGATAAAAAAATTAAATTTTTTGGTGT
1 TGGCCATGCAATGGCCGACACCCCTTTTTTATCTGATAAAAAAATTAAATTTTTTGGTGT
35166988 TGGCCATGCAAT
1 TGGCCATGCAAT
35167000 AAAATACCGT
Statistics
Matches: 162, Mismatches: 23, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
58 37 0.23
59 85 0.52
60 40 0.25
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (60 bp):
TGGCCATGCAATGGCCGACACCCCTTTTTTATCTGATAAAAAAATTAAATTTTTTGGTGT
Found at i:35167700 original size:16 final size:17
Alignment explanation
Indices: 35167674--35167716 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
35167664 ATAATTTTAC
*
35167674 TGTTATTAATT-TAAAA
1 TGTTATAAATTATAAAA
*
35167690 TTTTATAAATTATAAAA
1 TGTTATAAATTATAAAA
35167707 TGTT-TAAATT
1 TGTTATAAATT
35167717 GATTTACCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 15 0.65
17 8 0.35
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (17 bp):
TGTTATAAATTATAAAA
Found at i:35183373 original size:28 final size:28
Alignment explanation
Indices: 35183333--35183404 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 28
35183323 TTTAATTAAT
* *
35183333 TTTTAAAATTTAAAAATTATAAAAACTA
1 TTTTAAAAATTAAAAATCATAAAAACTA
* * *
35183361 TTTTAAAAATTAAGAATCATTAAAATTA
1 TTTTAAAAATTAAAAATCATAAAAACTA
35183389 -TTTAAAAATTATAAAA
1 TTTTAAAAATTA-AAAA
35183405 ATATTTTTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
27 11 0.30
28 26 0.70
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (28 bp):
TTTTAAAAATTAAAAATCATAAAAACTA
Found at i:35183935 original size:63 final size:63
Alignment explanation
Indices: 35183830--35183951 Score: 174
Period size: 63 Copynumber: 1.9 Consensus size: 63
35183820 TTCAAAGTAC
** *
35183830 AAGTACCAAATTGGGTATTTTATGAAAGTAAAGGTACTATAATAAAACACATATTGATAGTTT
1 AAGTACCAAATTGGACATTTTATGAAAGTAAAGGTACCATAATAAAACACATATTGATAGTTT
* * *
35183893 AAGTACCAAATTGTACATTTTATGAAAGTATAA-GTACCATAATAAAATATATATTGATA
1 AAGTACCAAATTGGACATTTTATGAAAGTA-AAGGTACCATAATAAAACACATATTGATA
35183952 ATTCATATAC
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
63 50 0.96
64 2 0.04
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (63 bp):
AAGTACCAAATTGGACATTTTATGAAAGTAAAGGTACCATAATAAAACACATATTGATAGTTT
Found at i:35183976 original size:63 final size:63
Alignment explanation
Indices: 35183829--35183994 Score: 169
Period size: 63 Copynumber: 2.6 Consensus size: 63
35183819 TTTCAAAGTA
** * *
35183829 CAAGTACCAAATTGGGTATTTTATGAAAGTA-AAGGTACTATAATAAAACACATATTGATAGTT
1 CAAGTACCAAATTGTATATTTTATGAAAGTATAA-GTACCATAATAAAACACATATTGATAATT
* * * *
35183892 TAAGTACCAAATTGTACATTTTATGAAAGTATAAGTACCATAATAAAATATATATTGATAATT
1 CAAGTACCAAATTGTATATTTTATGAAAGTATAAGTACCATAATAAAACACATATTGATAATT
* **
35183955 CATA-TACCACATTAG-ATATTTTACAAAAGTACT-AGTACCA
1 CA-AGTACCAAATT-GTATATTTTATGAAAGTA-TAAGTACCA
35183995 AATGTGACAT
Statistics
Matches: 86, Mismatches: 13, Indels: 8
0.80 0.12 0.07
Matches are distributed among these distances:
63 81 0.94
64 5 0.06
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.33
Consensus pattern (63 bp):
CAAGTACCAAATTGTATATTTTATGAAAGTATAAGTACCATAATAAAACACATATTGATAATT
Found at i:35184364 original size:22 final size:23
Alignment explanation
Indices: 35184339--35184382 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
35184329 CCCATAAATA
35184339 AACATT-TACTTTAAATAATTAC
1 AACATTATACTTTAAATAATTAC
*
35184361 AACATTCATATTTTAAATAATT
1 AACATT-ATACTTTAAATAATT
35184383 CCCCTGGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
24 13 0.68
ACGTcount: A:0.45, C:0.11, G:0.00, T:0.43
Consensus pattern (23 bp):
AACATTATACTTTAAATAATTAC
Found at i:35189694 original size:19 final size:20
Alignment explanation
Indices: 35189666--35189713 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
35189656 TATTTATATA
*
35189666 AATA-ATATAATAAATATGT
1 AATATATATAATAAAAATGT
35189685 AAT-TATATAATAAAAATGT
1 AATATATATAATAAAAATGT
*
35189704 TATATATATA
1 AATATATATA
35189714 TTAATTATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (20 bp):
AATATATATAATAAAAATGT
Found at i:35190465 original size:24 final size:24
Alignment explanation
Indices: 35190403--35190466 Score: 101
Period size: 24 Copynumber: 2.7 Consensus size: 24
35190393 CTAGAGTAAT
*
35190403 AAGAGTTTAACTCAAACAAATAAA
1 AAGAGTTTAACTGAAACAAATAAA
* *
35190427 CAGAGTTTAATTGAAACAAATAAA
1 AAGAGTTTAACTGAAACAAATAAA
35190451 AAGAGTTTAACTGAAA
1 AAGAGTTTAACTGAAA
35190467 GATTATTTCT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.55, C:0.09, G:0.12, T:0.23
Consensus pattern (24 bp):
AAGAGTTTAACTGAAACAAATAAA
Found at i:35192455 original size:24 final size:24
Alignment explanation
Indices: 35192394--35192456 Score: 99
Period size: 24 Copynumber: 2.6 Consensus size: 24
35192384 TAGAATAATA
* *
35192394 AGAGTTTGACTCAAACAAATAAAC
1 AGAGTTTAACTGAAACAAATAAAC
*
35192418 AGAGTTTAATTGAAACAAATAAAC
1 AGAGTTTAACTGAAACAAATAAAC
35192442 AGAGTTTAACTGAAA
1 AGAGTTTAACTGAAA
35192457 GATTATTTCT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.51, C:0.11, G:0.14, T:0.24
Consensus pattern (24 bp):
AGAGTTTAACTGAAACAAATAAAC
Found at i:35199485 original size:24 final size:24
Alignment explanation
Indices: 35199432--35199490 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
35199422 TAGACTAATA
* *
35199432 AGAGTTTGACTGAAACAAATAAAC
1 AGAGTTTAATTGAAACAAATAAAC
* * *
35199456 AAAGTTTAATTGAAATAAATAAAT
1 AGAGTTTAATTGAAACAAATAAAC
35199480 AGAGTTTAATT
1 AGAGTTTAATT
35199491 AGAAGATTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.51, C:0.05, G:0.14, T:0.31
Consensus pattern (24 bp):
AGAGTTTAATTGAAACAAATAAAC
Found at i:35200932 original size:26 final size:27
Alignment explanation
Indices: 35200863--35200933 Score: 69
Period size: 24 Copynumber: 2.8 Consensus size: 27
35200853 ACTTGATGGC
*
35200863 TACTAAATAAAATTTTTCCA-TAATGT
1 TACTAAATAAAATTTTTTCATTAATGT
* * **
35200889 TA-TTAA-ACAATTAATTCATTAA-GT
1 TACTAAATAAAATTTTTTCATTAATGT
35200913 TACTAAATAAAATTTTTTCAT
1 TACTAAATAAAATTTTTTCAT
35200934 AAATTGTATT
Statistics
Matches: 33, Mismatches: 9, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
24 12 0.36
25 9 0.27
26 12 0.36
ACGTcount: A:0.44, C:0.10, G:0.03, T:0.44
Consensus pattern (27 bp):
TACTAAATAAAATTTTTTCATTAATGT
Found at i:35201438 original size:12 final size:12
Alignment explanation
Indices: 35201421--35201448 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
35201411 ACTTTTATGT
35201421 TTTAATTTTGAA
1 TTTAATTTTGAA
35201433 TTTAATTTTGAA
1 TTTAATTTTGAA
35201445 TTTA
1 TTTA
35201449 TTTAAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (12 bp):
TTTAATTTTGAA
Found at i:35203402 original size:30 final size:30
Alignment explanation
Indices: 35203363--35203437 Score: 123
Period size: 30 Copynumber: 2.5 Consensus size: 30
35203353 CCTAAACTGC
*
35203363 CCAAAATTACATTTTGACCCCAAAACTTTT
1 CCAATATTACATTTTGACCCCAAAACTTTT
*
35203393 CTAATATTACATTTTGACCCCAAAACTTTT
1 CCAATATTACATTTTGACCCCAAAACTTTT
*
35203423 CCCATATTACATTTT
1 CCAATATTACATTTT
35203438 TAACCCTAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.33, C:0.25, G:0.03, T:0.39
Consensus pattern (30 bp):
CCAATATTACATTTTGACCCCAAAACTTTT
Found at i:35212232 original size:91 final size:91
Alignment explanation
Indices: 35212077--35212258 Score: 364
Period size: 91 Copynumber: 2.0 Consensus size: 91
35212067 ATAAGGTTTT
35212077 ACTTAAAAAAGTATGAACAGATATTGAAAAAATTATATTTAAATTTTTTTACCGCTTTTTCACTT
1 ACTTAAAAAAGTATGAACAGATATTGAAAAAATTATATTTAAATTTTTTTACCGCTTTTTCACTT
35212142 TAATCCTCTTTTTTTTACCCTAATAC
66 TAATCCTCTTTTTTTTACCCTAATAC
35212168 ACTTAAAAAAGTATGAACAGATATTGAAAAAATTATATTTAAATTTTTTTACCGCTTTTTCACTT
1 ACTTAAAAAAGTATGAACAGATATTGAAAAAATTATATTTAAATTTTTTTACCGCTTTTTCACTT
35212233 TAATCCTCTTTTTTTTACCCTAATAC
66 TAATCCTCTTTTTTTTACCCTAATAC
35212259 TTAGAAAAAG
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 91 1.00
ACGTcount: A:0.35, C:0.15, G:0.05, T:0.44
Consensus pattern (91 bp):
ACTTAAAAAAGTATGAACAGATATTGAAAAAATTATATTTAAATTTTTTTACCGCTTTTTCACTT
TAATCCTCTTTTTTTTACCCTAATAC
Found at i:35215447 original size:85 final size:86
Alignment explanation
Indices: 35215214--35215555 Score: 332
Period size: 86 Copynumber: 3.9 Consensus size: 86
35215204 TTAAGGGTGT
* * *
35215214 AAAAAGTTCTCAAACTTTTTCAAAAAAAAAAACAATTAAGCTTATGTTTTTATTTTGTACTCACT
1 AAAAAGTTCTCAAACTTTTTC-AAAAAAAAAACAATTAAGCTCATGCTTTTATTTTGTACTCAAT
* *
35215279 TGAATACTTGAACTTTTAATAA
65 TGGATACTTGAACTTTGAATAA
** * * * *
35215301 AAAAGACAT-TCAAATTTTTTCAAAAAAAAAATAATTAAGCTCATGCTTTTATTTTGCACTCATT
1 AAAA-AGTTCTCAAACTTTTTCAAAAAAAAAACAATTAAGCTCATGCTTTTATTTTGTACTCAAT
35215365 TGGATACTTGAACTTTGAATAA
65 TGGATACTTGAACTTTGAATAA
* * *
35215387 AAAAAGTTTTCAAACTTTTTC-CAAAAAAAGCAATTAAGCTCATGCTTTTATTTTGTACTCAATT
1 AAAAAGTTCTCAAACTTTTTCAAAAAAAAAACAATTAAGCTCATGCTTTTATTTTGTACTCAATT
* * *
35215451 GGGTATTTGAACTTTTAAATGCATAAA
66 GGATACTTGAAC--TT---TGAAT-AA
** * * * * * *
35215478 AAAAAGACCTCAAACTTTTTC-AAAAAAAAGCAATTAAG-TCCTTGATTTTTTTTTTTGCATTCA
1 AAAAAGTTCTCAAACTTTTTCAAAAAAAAAACAATTAAGCT-CATG--CTTTTATTTTGTACTCA
35215541 ATTGGATACTTGAAC
63 ATTGGATACTTGAAC
35215556 CACCCTTAAT
Statistics
Matches: 212, Mismatches: 32, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
85 50 0.24
86 73 0.34
87 17 0.08
88 2 0.01
90 5 0.02
91 39 0.18
93 26 0.12
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.38
Consensus pattern (86 bp):
AAAAAGTTCTCAAACTTTTTCAAAAAAAAAACAATTAAGCTCATGCTTTTATTTTGTACTCAATT
GGATACTTGAACTTTGAATAA
Found at i:35215704 original size:19 final size:18
Alignment explanation
Indices: 35215682--35215722 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
35215672 TTTATTTAAA
35215682 TTTAATCATTTTTATATTT
1 TTTAATCATTTTTAT-TTT
* *
35215701 TTTATTGATTTTTATTTT
1 TTTAATCATTTTTATTTT
35215719 TTTA
1 TTTA
35215723 TAATTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (18 bp):
TTTAATCATTTTTATTTT
Found at i:35215731 original size:18 final size:19
Alignment explanation
Indices: 35215689--35215730 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
35215679 AAATTTAATC
*
35215689 ATTTTTATATTTTTTATTG
1 ATTTTTATATTTTTTATTA
35215708 ATTTTTAT-TTTTTTA-TA
1 ATTTTTATATTTTTTATTA
35215725 ATTTTT
1 ATTTTT
35215731 TTTACCACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.32
18 7 0.32
19 8 0.36
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.76
Consensus pattern (19 bp):
ATTTTTATATTTTTTATTA
Found at i:35216039 original size:92 final size:90
Alignment explanation
Indices: 35215867--35216077 Score: 225
Period size: 92 Copynumber: 2.3 Consensus size: 90
35215857 AAAATCGGGA
* * *
35215867 GCTTAATTG-TTTATTTTAAAAAAGTTTGAAGACTTTTTTTTGATACATTTTGAAAATTCAAGTA
1 GCTTAATTGTTTTTTTTTAAAAAAGTTTGAAGAC-TCTTTTTGATACATTTTAAAAATTCAAGTA
* * *
35215931 CCTAATTGAATACAAAATAAAAGCAGAG
65 CCCAAGTGAATACAAAAAAAAAG-A-AG
* * *
35215959 GCTTAATTGTTTTTTTCTTGAAAAATTTTGAAGAC-CTTTTTGATGCATTTTAAAAATTCAAGTA
1 GCTTAATTGTTTTTTT-TTAAAAAAGTTTGAAGACTCTTTTTGATACATTTTAAAAATTCAAGTA
*
35216023 CCCAAGT-AAGTGCAAAAAAAAAGAAG
65 CCCAAGTGAA-TACAAAAAAAAAGAAG
* *
35216049 GATTTAATTG-TTTTTTTGAAAAAA-TTTGA
1 G-CTTAATTGTTTTTTTTTAAAAAAGTTTGA
35216078 GAATTTTTTA
Statistics
Matches: 102, Mismatches: 13, Indels: 12
0.80 0.10 0.09
Matches are distributed among these distances:
88 5 0.05
89 6 0.06
90 9 0.09
91 10 0.10
92 51 0.50
93 5 0.05
94 16 0.16
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.39
Consensus pattern (90 bp):
GCTTAATTGTTTTTTTTTAAAAAAGTTTGAAGACTCTTTTTGATACATTTTAAAAATTCAAGTAC
CCAAGTGAATACAAAAAAAAAGAAG
Found at i:35226658 original size:22 final size:23
Alignment explanation
Indices: 35226624--35226669 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
35226614 AAGACATAAA
* *
35226624 AATTACTTCTTTTA-TTATTTTG
1 AATTAATTCTTTTAGTTACTTTG
*
35226646 AATTAATTTTTTTAGTTACTTTG
1 AATTAATTCTTTTAGTTACTTTG
35226669 A
1 A
35226670 TCTCAACTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.26, C:0.07, G:0.07, T:0.61
Consensus pattern (23 bp):
AATTAATTCTTTTAGTTACTTTG
Found at i:35228474 original size:28 final size:28
Alignment explanation
Indices: 35228424--35228492 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
35228414 GATTTAGTAT
35228424 AAATATAAATATATATAATTATTATTTA
1 AAATATAAATATATATAATTATTATTTA
* *
35228452 AAATATATAATTTATATAA-TATTTTTTA
1 AAATATA-AATATATATAATTATTATTTA
* *
35228480 TAACAT-AATATAT
1 AAATATAAATATAT
35228493 TCGGATCGGA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
26 6 0.17
28 19 0.54
29 10 0.29
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (28 bp):
AAATATAAATATATATAATTATTATTTA
Found at i:35244722 original size:22 final size:22
Alignment explanation
Indices: 35244671--35244731 Score: 52
Period size: 22 Copynumber: 2.7 Consensus size: 22
35244661 AATACGTGGC
*
35244671 TTTCTTTTTTATTT-CATATCTT
1 TTTCTTTTTT-TTTAAATATCTT
** *
35244693 TTAATTTTTTTTTAAATTTCTT
1 TTTCTTTTTTTTTAAATATCTT
35244715 TTTCTTTTATCTTTTAA
1 TTTCTTTT-T-TTTTAA
35244732 TCTTTAAAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
21 3 0.10
22 20 0.67
23 1 0.03
24 6 0.20
ACGTcount: A:0.18, C:0.10, G:0.00, T:0.72
Consensus pattern (22 bp):
TTTCTTTTTTTTTAAATATCTT
Found at i:35246716 original size:50 final size:49
Alignment explanation
Indices: 35246633--35247080 Score: 311
Period size: 50 Copynumber: 9.1 Consensus size: 49
35246623 ACAGGTTTGA
* * * * *
35246633 AAGGGAAGATTGAGGCCGCAACGGCGAACCCGATACCTTAGAAGATGTG
1 AAGGGAAGGTTGAGGTCGCAACGGTGAATCCGATACCTTAGAAGATATG
* *
35246682 ATGGGAAGGATTGAGGTCGCAACGGTGAATCCGATACCAT-GAAGATATG
1 AAGGGAAGG-TTGAGGTCGCAACGGTGAATCCGATACCTTAGAAGATATG
* * *
35246731 AAGGGAAAGGTTGAGGCCGCAATGGTGAA-CCTGATACCTTAAAAGATATG
1 AAGGG-AAGGTTGAGGTCGCAACGGTGAATCC-GATACCTTAGAAGATATG
* * * * * * *
35246781 AAGGGAAAGGTTGAGG-CTGTAACGGTAAATCGGGTGCCTTAAAAGACATG
1 AAGGG-AAGGTTGAGGTC-GCAACGGTGAATCCGATACCTTAGAAGATATG
* * * *
35246831 ATGGGAAGGATTGAGGTCGCAACGGTGAATCTGGTACCAT-GAAGATATG
1 AAGGGAAGG-TTGAGGTCGCAACGGTGAATCCGATACCTTAGAAGATATG
* ** * * *
35246880 AACGGAAAGGTTGAGG-CTATAACGGCGAA-CCTTATACCTTAGAAGATGTG
1 AA-GGGAAGGTTGAGGTC-GCAACGGTGAATCC-GATACCTTAGAAGATATG
* * * * * *
35246930 ATGTGAAGGATTAAGGTCACAACGGTGAATCCGGTACCAT-GAAGATATG
1 AAGGGAAGG-TTGAGGTCGCAACGGTGAATCCGATACCTTAGAAGATATG
* * ** * * * *
35246979 AAGGGAAAGGTTGAGGCCGTAATAGCGAACCCGGTACCTTAGAATATATG
1 AAGGG-AAGGTTGAGGTCGCAACGGTGAATCCGATACCTTAGAAGATATG
* * **
35247029 AAGGGAAAGGTTGAAGCCGCAACGACGAA-CCGTATACCTTAG-AGATATG
1 AAGGG-AAGGTTGAGGTCGCAACGGTGAATCCG-ATACCTTAGAAGATATG
35247078 AAG
1 AAG
35247081 AGAAAGATTG
Statistics
Matches: 315, Mismatches: 66, Indels: 36
0.76 0.16 0.09
Matches are distributed among these distances:
48 4 0.01
49 124 0.39
50 182 0.58
51 5 0.02
ACGTcount: A:0.34, C:0.15, G:0.31, T:0.20
Consensus pattern (49 bp):
AAGGGAAGGTTGAGGTCGCAACGGTGAATCCGATACCTTAGAAGATATG
Found at i:35246876 original size:99 final size:99
Alignment explanation
Indices: 35246723--35247052 Score: 315
Period size: 99 Copynumber: 3.3 Consensus size: 99
35246713 CGATACCATG
* * * * * * *
35246723 AAGATATGAAGGGAAAGG-TTGAGGCCGCAATGGTGAACCTGATACCTTAAAAGATATGAAGGGA
1 AAGATATGATGGG-AAGGATTGAGGTCGCAACGGTGAATCTGGTACCAT-GAAGATATGAAGGGA
* * * *
35246787 AAGGTTGAGGCTGTAACGGTAAATCGGGTGCCTTAA
64 AAGGTTGAGGCTGTAACGGCAAACCGGATACCTTAA
* *
35246823 AAGACATGATGGGAAGGATTGAGGTCGCAACGGTGAATCTGGTACCATGAAGATATGAACGGAAA
1 AAGATATGATGGGAAGGATTGAGGTCGCAACGGTGAATCTGGTACCATGAAGATATGAAGGGAAA
* * ** *
35246888 GGTTGAGGCTATAACGGCGAACCTTATACCTTAG
66 GGTTGAGGCTGTAACGGCAAACCGGATACCTTAA
* * * * *
35246922 AAGATGTGATGTGAAGGATTAAGGTCACAACGGTGAATCCGGTACCATGAAGATATGAAGGGAAA
1 AAGATATGATGGGAAGGATTGAGGTCGCAACGGTGAATCTGGTACCATGAAGATATGAAGGGAAA
* ** * *
35246987 GGTTGAGGCCGTAATAGCGAACCCGG-TACCTTAG
66 GGTTGAGGCTGTAACGGC-AAACCGGATACCTTAA
* * * *
35247021 AATATATGAAGGGAAAGG-TTGAAGCCGCAACG
1 AAGATATGATGGG-AAGGATTGAGGTCGCAACG
35247053 ACGAACCGTA
Statistics
Matches: 186, Mismatches: 41, Indels: 7
0.79 0.18 0.03
Matches are distributed among these distances:
99 143 0.77
100 43 0.23
ACGTcount: A:0.35, C:0.14, G:0.31, T:0.20
Consensus pattern (99 bp):
AAGATATGATGGGAAGGATTGAGGTCGCAACGGTGAATCTGGTACCATGAAGATATGAAGGGAAA
GGTTGAGGCTGTAACGGCAAACCGGATACCTTAA
Found at i:35246954 original size:149 final size:149
Alignment explanation
Indices: 35246680--35247086 Score: 385
Period size: 149 Copynumber: 2.7 Consensus size: 149
35246670 TTAGAAGATG
*
35246680 TGATGGGAAGGATTGAGGTCGCAACGGTGAATCCGATACCATGAAGATATGAAGGGAAAGGTTGA
1 TGATGGGAAGGATTGAGGTCGCAACGGTGAATCCGATACCATGAAGATATGAACGGAAAGGTTGA
* * * * **
35246745 GGCCGCAATGGTGAACCTGATACCTTAAAAGATATGAAGGGAAAGGTTGAGGCTGTAACGGTAAA
66 GGCCACAACGGCGAACCTGATACCTTAAAAGATATGAAGGGAAAGGTTAAGGCTACAACGGTAAA
35246810 TCGGGTGCCTTAAAAGACA
131 TCGGGTGCCTTAAAAGACA
* *
35246829 TGATGGGAAGGATTGAGGTCGCAACGGTGAATCTGGTACCATGAAGATATGAACGGAAAGGTTGA
1 TGATGGGAAGGATTGAGGTCGCAACGGTGAATCCGATACCATGAAGATATGAACGGAAAGGTTGA
* * * * * * * *
35246894 GGCTATAACGGCGAACCTTATACCTTAGAAGATGTGATGTG-AAGGATTAAGG-TCACAACGGTG
66 GGCCACAACGGCGAACCTGATACCTTAAAAGATATGAAGGGAAAGG-TTAAGGCT-ACAACGGTA
* * * * *
35246957 AATCCGGTACCAT-GAAGATA
129 AATCGGGTGCCTTAAAAGACA
* * * ** * * * * * *
35246977 TGAAGGGAAAGG-TTGAGGCCGTAATAGCGAACCCGGTACCTTAGAATATATGAAGGGAAAGGTT
1 TGATGGG-AAGGATTGAGGTCGCAACGGTGAATCCGATACCAT-GAAGATATGAACGGAAAGGTT
* * * * *
35247041 GAAGCCGCAACGACGAACC-GTATACCTT-AGAGATATGAAGAGAAAG
64 GAGGCCACAACGGCGAACCTG-ATACCTTAAAAGATATGAAGGGAAAG
35247087 ATTGAGACTG
Statistics
Matches: 208, Mismatches: 44, Indels: 12
0.79 0.17 0.05
Matches are distributed among these distances:
148 47 0.23
149 161 0.77
ACGTcount: A:0.35, C:0.14, G:0.31, T:0.20
Consensus pattern (149 bp):
TGATGGGAAGGATTGAGGTCGCAACGGTGAATCCGATACCATGAAGATATGAACGGAAAGGTTGA
GGCCACAACGGCGAACCTGATACCTTAAAAGATATGAAGGGAAAGGTTAAGGCTACAACGGTAAA
TCGGGTGCCTTAAAAGACA
Found at i:35247412 original size:77 final size:78
Alignment explanation
Indices: 35247320--35247487 Score: 230
Period size: 78 Copynumber: 2.2 Consensus size: 78
35247310 AAGCTACCCA
** * *
35247320 CCAATCTCTTACCTTAATCAAAAGGCAGATTGAAGACA-TGCGATCTCTTACACCGATCATGAGG
1 CCAATCTCTTACCTTAATCAAAAGGCAGATTGAAGACACACCAATCTCTTACACCAATCATGAGG
*
35247384 AAGATTGAAGAAT
66 AAGATTGAAAAAT
* * * * *
35247397 CCAATCTCTTACCTTAATCAGAAGGTAGATTGAAGACACACCAATTTCTTACCCCAATCATGGGG
1 CCAATCTCTTACCTTAATCAAAAGGCAGATTGAAGACACACCAATCTCTTACACCAATCATGAGG
*
35247462 CAGATTGAAAAAT
66 AAGATTGAAAAAT
35247475 CCAATCTCTTACC
1 CCAATCTCTTACC
35247488 CCGATCATGG
Statistics
Matches: 79, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
77 36 0.46
78 43 0.54
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (78 bp):
CCAATCTCTTACCTTAATCAAAAGGCAGATTGAAGACACACCAATCTCTTACACCAATCATGAGG
AAGATTGAAAAAT
Found at i:35247427 original size:38 final size:38
Alignment explanation
Indices: 35247320--35248000 Score: 396
Period size: 38 Copynumber: 17.6 Consensus size: 38
35247310 AAGCTACCCA
* **
35247320 CCAATCTCTTACCTTAATCAAAAGGCAGATTGAAGACAT
1 CCAATCTCTTACCTCAATCATGAGGCAGATTGAAGA-AT
* * * *
35247359 GCGATCTCTTACAC-CGATCATGAGGAAGATTGAAGAAT
1 CCAATCTCTTAC-CTCAATCATGAGGCAGATTGAAGAAT
* * *
35247397 CCAATCTCTTACCTTAATCA-GAAGGTAGATTGAAGACACA
1 CCAATCTCTTACCTCAATCATG-AGGCAGATTGAAGA-A-T
* * * *
35247437 CCAATTTCTTACCCCAATCATGGGGCAGATTGAAAAAT
1 CCAATCTCTTACCTCAATCATGAGGCAGATTGAAGAAT
* * *
35247475 CCAATCTCTTACCCCGATCATGGGGCAGATTGAAGAAT
1 CCAATCTCTTACCTCAATCATGAGGCAGATTGAAGAAT
* *
35247513 CTAATCTCTTACCTTAATCA-GAAGGCAGATTGAAGACAT
1 CCAATCTCTTACCTCAATCATG-AGGCAGATTGAAGA-AT
* * * * *
35247552 GCAATCTCTTACCCCGATCATGGGGCAGATT-AAAACAT
1 CCAATCTCTTACCTCAATCATGAGGCAGATTGAAGA-AT
* * *
35247590 CCAATCTTTTACCTTAATTA-GAAGGCAGATTGAAG-A-
1 CCAATCTCTTACCTCAATCATG-AGGCAGATTGAAGAAT
* * * * *
35247626 CAAACCTCTTACCCCGATCATG-GGACAGATTGAAGCAT
1 CCAATCTCTTACCTCAATCATGAGG-CAGATTGAAGAAT
* * *
35247664 CCAATCTTTTACCTTAATCA-GAAGGCAGATTAAAGATAT
1 CCAATCTCTTACCTCAATCATG-AGGCAGATTGAAGA-AT
** * *
35247703 TTAATCTCTTACCTCGATCATGAGGCAGATTGAAGCAT
1 CCAATCTCTTACCTCAATCATGAGGCAGATTGAAGAAT
* * * *
35247741 CCAATCTCTTACCCCGATCATGAGGTAGATTGAAAACCAT
1 CCAATCTCTTACCTCAATCATGAGGCAGATTGAAGA--AT
* * * * **
35247781 CCGATCTCTTATCC-CGATCATGGGGCAGATCGCAACCAT
1 CCAATCTCTTA-CCTCAATCATGAGGCAGATTG-AAGAAT
* * * * *
35247820 CTAATCTCTTACCCCGATCATGAGGTAGATTGAAAACCAT
1 CCAATCTCTTACCTCAATCATGAGGCAGATTGAAGA--AT
** * * * **
35247860 TTAATCTCTTACCTCGATCATGGGGCAGATCGTAACCAT
1 CCAATCTCTTACCTCAATCATGAGGCAGATTG-AAGAAT
* * * * *
35247899 TCAATCTCTTACCTCGATCATGGGGCAAATT-AAAACCTAT
1 CCAATCTCTTACCTCAATCATGAGGCAGATTGAAGA---AT
** * *
35247939 CTGATCTCTTACCTCGATCAT-AGGGCAGATTGAAAACCAT
1 CCAATCTCTTACCTCAATCATGA-GGCAGATTGAAGA--AT
* * *
35247979 CCGATCACTTACCTCGATCATG
1 CCAATCTCTTACCTCAATCATG
35248001 GTGCAAATCA
Statistics
Matches: 505, Mismatches: 104, Indels: 64
0.75 0.15 0.10
Matches are distributed among these distances:
35 2 0.00
36 23 0.05
37 10 0.02
38 180 0.36
39 143 0.28
40 136 0.27
41 11 0.02
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (38 bp):
CCAATCTCTTACCTCAATCATGAGGCAGATTGAAGAAT
Found at i:35247622 original size:115 final size:116
Alignment explanation
Indices: 35247318--35247853 Score: 414
Period size: 115 Copynumber: 4.6 Consensus size: 116
35247308 CGAAGCTACC
** *** * * * * *
35247318 CACCAATCTCTTACCTTAATCAAAAGGCAGATTGAAGACATGCGATCTCTTACACCGATCATGAG
1 CACCAATCTCTTACCCCAATCATGGGGCAGATTGAA-AAATCCAATCTCTTACCCCAATCATGAG
* *
35247383 GAAGATTGAAGAATCCAATCTCTTACCTTAATCAGAAGGTAGATTGAAGACA
65 GCAGATTGAAGAATCCAATCTCTTACCTTAATCAGAAGGCAGATTGAAGACA
* * *
35247435 CACCAATTTCTTACCCCAATCATGGGGCAGATTGAAAAATCCAATCTCTTACCCCGATCATGGGG
1 CACCAATCTCTTACCCCAATCATGGGGCAGATTGAAAAATCCAATCTCTTACCCCAATCATGAGG
*
35247500 CAGATTGAAGAATCTAATCTCTTACCTTAATCAGAAGGCAGATTGAAGACA
66 CAGATTGAAGAATCCAATCTCTTACCTTAATCAGAAGGCAGATTGAAGACA
** * * ** *
35247551 -TGCAATCTCTTACCCCGATCATGGGGCAGATT-AAAACATCCAATCTTTTACCTTAATTA-GAA
1 CACCAATCTCTTACCCCAATCATGGGGCAGATTGAAAA-ATCCAATCTCTTACCCCAATCATG-A
* * ***
35247613 GGCAGATTGAAG-A-CAAACCTCTTACCCCGATCATG--GGACAGATTGAAG-CA
64 GGCAGATTGAAGAATCCAATCTCTTACCTTAATCA-GAAGG-CAGATTGAAGACA
* * ** * ** * *
35247663 -TCCAATCTTTTACCTTAATCA-GAAGGCAGATT-AAAGATATTTAATCTCTTACCTCGATCATG
1 CACCAATCTCTTACCCCAATCATG-GGGCAGATTGAAA-A-ATCCAATCTCTTACCCCAATCATG
* *** * *
35247725 AGGCAGATTGAAGCATCCAATCTCTTACCCCGATCATG-AGGTAGATTGAAAAC-
63 AGGCAGATTGAAGAATCCAATCTCTTACCTTAATCA-GAAGGCAGATTGAAGACA
* * * * ** * *
35247778 CATCCGATCTCTTATCCCGATCATGGGGCAGATCGCAACCATCTAATCTCTTACCCCGATCATGA
1 CA-CCAATCTCTTACCCCAATCATGGGGCAGATTG-AAAAATCCAATCTCTTACCCCAATCATGA
*
35247843 GGTAGATTGAA
64 GGCAGATTGAA
35247854 AACCATTTAA
Statistics
Matches: 343, Mismatches: 60, Indels: 32
0.79 0.14 0.07
Matches are distributed among these distances:
111 1 0.00
112 31 0.09
113 55 0.16
114 9 0.03
115 85 0.25
116 75 0.22
117 84 0.24
118 1 0.00
119 2 0.01
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (116 bp):
CACCAATCTCTTACCCCAATCATGGGGCAGATTGAAAAATCCAATCTCTTACCCCAATCATGAGG
CAGATTGAAGAATCCAATCTCTTACCTTAATCAGAAGGCAGATTGAAGACA
Found at i:35247771 original size:151 final size:152
Alignment explanation
Indices: 35247399--35247972 Score: 532
Period size: 151 Copynumber: 3.7 Consensus size: 152
35247389 TGAAGAATCC
** * * * *
35247399 AATCTCTTACCTTAATCA-GAAGGTAGATTGAAGACACACCAATTTCTTACCCCAATCATGGGGC
1 AATCTCTTACCTCGATCATG-AGGCAGATTGAAG-CA-TCCAATCTCTTACCCCAATCATGAGGC
*
35247463 AGATTGAAAAATCC-AATCTCTTACCCCGATCATGGGGCAGATTGAAGAATCTAATCTCTTACCT
63 AGATTG-AAAA-CCAAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCTAATCTCTTACCT
* **
35247527 TAATCAGAAGGCAGATTGAAGACATGC
126 TAATCAGAAGGCAGATTAAAGACATTT
* * * * * ** *
35247554 AATCTCTTACCCCGATCATGGGGCAGATTAAAACATCCAATCTTTTACCTTAATTA-GAAGGCAG
1 AATCTCTTACCTCGATCATGAGGCAGATTGAAGCATCCAATCTCTTACCCCAATCATG-AGGCAG
* * * * *
35247618 ATTGAAGA-CAAACCTCTTACCCCGATCATGGGACAGATTGAAGCATCCAATCTTTTACCTTAAT
65 ATTGAAAACCAAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCTAATCTCTTACCTTAAT
*
35247682 CAGAAGGCAGATTAAAGATATTT
130 CAGAAGGCAGATTAAAGACATTT
* *
35247705 AATCTCTTACCTCGATCATGAGGCAGATTGAAGCATCCAATCTCTTACCCCGATCATGAGGTAGA
1 AATCTCTTACCTCGATCATGAGGCAGATTGAAGCATCCAATCTCTTACCCCAATCATGAGGCAGA
* * * * **
35247770 TTGAAAACCATCCGATCTCTTATCCCGATCATGGGGCAGATCGCAACCATCTAATCTCTTACCCC
66 TTGAAAACCA---AATCTCTTACCCCGATCATGGGGCAGATTG-AAGCATCTAATCTCTTACCTT
* *
35247835 GATCATG-AGGTAGATTGAAA-ACCATTT
127 AATCA-GAAGGCAGATT-AAAGA-CATTT
* * * * * * * *
35247862 AATCTCTTACCTCGATCATGGGGCAGATCGTAACCATTCAATCTCTTACCTCGATCATGGGGCAA
1 AATCTCTTACCTCGATCATGAGGCAGATTG-AAGCATCCAATCTCTTACCCCAATCATGAGGCAG
* * *
35247927 ATT-AAAACCTATCTGATCTCTTACCTCGATCATAGGGCAGATTGAA
65 ATTGAAAACC-A---AATCTCTTACCCCGATCATGGGGCAGATTGAA
35247973 AACCATCCGA
Statistics
Matches: 344, Mismatches: 61, Indels: 26
0.80 0.14 0.06
Matches are distributed among these distances:
150 1 0.00
151 127 0.37
152 7 0.02
153 24 0.07
154 2 0.01
155 49 0.14
156 30 0.09
157 44 0.13
158 60 0.17
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (152 bp):
AATCTCTTACCTCGATCATGAGGCAGATTGAAGCATCCAATCTCTTACCCCAATCATGAGGCAGA
TTGAAAACCAAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCTAATCTCTTACCTTAATC
AGAAGGCAGATTAAAGACATTT
Found at i:35247797 original size:40 final size:40
Alignment explanation
Indices: 35247343--35248254 Score: 695
Period size: 40 Copynumber: 23.4 Consensus size: 40
35247333 TTAATCAAAA
* * * * *
35247343 GGCAGATTGAAGA-CATGCGATCTCTTACACCGATCATGA
1 GGCAGATTGAAAACCATCCAATCTCTTACCCCGATCATGG
* * *** *
35247382 GGAAGATTGAAGA--ATCCAATCTCTTACCTTAATCA-GAA
1 GGCAGATTGAAAACCATCCAATCTCTTACCCCGATCATG-G
* * * *
35247420 GGTAGATTGAAGACACA-CCAATTTCTTACCCCAATCATGG
1 GGCAGATTGAAAAC-CATCCAATCTCTTACCCCGATCATGG
35247460 GGCAGATTGAAAA--ATCCAATCTCTTACCCCGATCATGG
1 GGCAGATTGAAAACCATCCAATCTCTTACCCCGATCATGG
* * *** *
35247498 GGCAGATTGAAGA--ATCTAATCTCTTACCTTAATCA-GAA
1 GGCAGATTGAAAACCATCCAATCTCTTACCCCGATCATG-G
* *
35247536 GGCAGATTGAAGA-CATGCAATCTCTTACCCCGATCATGG
1 GGCAGATTGAAAACCATCCAATCTCTTACCCCGATCATGG
* *** * *
35247575 GGCAGATT-AAAA-CATCCAATCTTTTACCTTAATTA-GAA
1 GGCAGATTGAAAACCATCCAATCTCTTACCCCGATCATG-G
* *
35247613 GGCAGATTGAAGA-CA---AACCTCTTACCCCGATCATGG
1 GGCAGATTGAAAACCATCCAATCTCTTACCCCGATCATGG
* * * *** *
35247649 GACAGATTG--AAGCATCCAATCTTTTACCTTAATCA-GAA
1 GGCAGATTGAAAACCATCCAATCTCTTACCCCGATCATG-G
* ** * *
35247687 GGCAGATT-AAAGA-TATTTAATCTCTTACCTCGATCATGA
1 GGCAGATTGAAA-ACCATCCAATCTCTTACCCCGATCATGG
* *
35247726 GGCAGATTG--AAGCATCCAATCTCTTACCCCGATCATGA
1 GGCAGATTGAAAACCATCCAATCTCTTACCCCGATCATGG
* * *
35247764 GGTAGATTGAAAACCATCCGATCTCTTATCCCGATCATGG
1 GGCAGATTGAAAACCATCCAATCTCTTACCCCGATCATGG
* * * *
35247804 GGCAGATCG-CAACCATCTAATCTCTTACCCCGATCATGA
1 GGCAGATTGAAAACCATCCAATCTCTTACCCCGATCATGG
* ** *
35247843 GGTAGATTGAAAACCATTTAATCTCTTACCTCGATCATGG
1 GGCAGATTGAAAACCATCCAATCTCTTACCCCGATCATGG
* * * *
35247883 GGCAGATCG-TAACCATTCAATCTCTTACCTCGATCATGG
1 GGCAGATTGAAAACCATCCAATCTCTTACCCCGATCATGG
* ** * *
35247922 GGCAAATT-AAAACCTATCTGATCTCTTACCTCGATCATAG
1 GGCAGATTGAAAACC-ATCCAATCTCTTACCCCGATCATGG
* * *
35247962 GGCAGATTGAAAACCATCCGATCACTTACCTCGATCATGG
1 GGCAGATTGAAAACCATCCAATCTCTTACCCCGATCATGG
* * * * * *
35248002 TGCA-AATCACAACTATCCAATCTTATTACCCCGATCATGG
1 GGCAGATTGAAAACCATCCAATC-TCTTACCCCGATCATGG
* * *
35248042 GGAAGATTGAAAACCATCCGATCTTTTACCCCGATCATGG
1 GGCAGATTGAAAACCATCCAATCTCTTACCCCGATCATGG
* * * * * * *
35248082 GACAAATCG-CAACCATTCAATCTTTTACCCTGATCATGG
1 GGCAGATTGAAAACCATCCAATCTCTTACCCCGATCATGG
*
35248121 GGCAGATTGAAAACCATCCGA--TCTTACCCCGATCATGG
1 GGCAGATTGAAAACCATCCAATCTCTTACCCCGATCATGG
** * *
35248159 GATAAATTG-CAACCATCCAATCTCTTACCCCGATCATGG
1 GGCAGATTGAAAACCATCCAATCTCTTACCCCGATCATGG
* *
35248198 GGCAGATTGAAAACCATTCAATCTCTTACCCCGATCATGA
1 GGCAGATTGAAAACCATCCAATCTCTTACCCCGATCATGG
35248238 GGCAGATT-AAAACCATC
1 GGCAGATTGAAAACCATC
35248255 GTCCAATCTT
Statistics
Matches: 697, Mismatches: 141, Indels: 70
0.77 0.16 0.08
Matches are distributed among these distances:
34 1 0.00
35 2 0.00
36 20 0.03
37 16 0.02
38 193 0.28
39 215 0.31
40 229 0.33
41 21 0.03
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (40 bp):
GGCAGATTGAAAACCATCCAATCTCTTACCCCGATCATGG
Found at i:35247878 original size:79 final size:79
Alignment explanation
Indices: 35247343--35248254 Score: 709
Period size: 77 Copynumber: 11.7 Consensus size: 79
35247333 TTAATCAAAA
* * * * *
35247343 GGCAGATTGAAGA-CATGCGATCTCTTACACCGATCATGAGGAAGATTGAAGA--ATCCAATCTC
1 GGCAGATTGAA-ACCATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAAACCATCCAATCTC
*** *
35247405 TTACCTTAATCA-GAA
65 TTACCCCGATCATG-G
* * * *
35247420 GGTAGATTGAAGACACA-CCAATTTCTTACCCCAATCATGGGGCAGATTGAAAA--ATCCAATCT
1 GGCAGATTGAA-AC-CATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAAACCATCCAATCT
35247482 CTTACCCCGATCATGG
64 CTTACCCCGATCATGG
* *** * *
35247498 GGCAGATTGAAGA--ATCTAATCTCTTACCTTAATCA-GAAGGCAGATTGAAGA-CATGCAATCT
1 GGCAGATTGAA-ACCATCCAATCTCTTACCCCGATCATG-AGGCAGATTGAAAACCATCCAATCT
35247559 CTTACCCCGATCATGG
64 CTTACCCCGATCATGG
* * *** * * *
35247575 GGCAGATT-AAAACATCCAATCTTTTACCTTAATTA-GAAGGCAGATTGAAGA-CA---AACCTC
1 GGCAGATTGAAACCATCCAATCTCTTACCCCGATCATG-AGGCAGATTGAAAACCATCCAATCTC
35247634 TTACCCCGATCATGG
65 TTACCCCGATCATGG
* * * *** * **
35247649 GACAGATTG-AAGCATCCAATCTTTTACCTTAATCA-GAAGGCAGATT-AAAGA-TATTTAATCT
1 GGCAGATTGAAACCATCCAATCTCTTACCCCGATCATG-AGGCAGATTGAAA-ACCATCCAATCT
* *
35247710 CTTACCTCGATCATGA
64 CTTACCCCGATCATGG
* * *
35247726 GGCAGATTG-AAGCATCCAATCTCTTACCCCGATCATGAGGTAGATTGAAAACCATCCGATCTCT
1 GGCAGATTGAAACCATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAAACCATCCAATCTCT
*
35247790 TATCCCGATCATGG
66 TACCCCGATCATGG
* * * * **
35247804 GGCAGATCGCAACCATCTAATCTCTTACCCCGATCATGAGGTAGATTGAAAACCATTTAATCTCT
1 GGCAGATTGAAACCATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAAACCATCCAATCTCT
*
35247869 TACCTCGATCATGG
66 TACCCCGATCATGG
* * * * * * **
35247883 GGCAGATCGTAACCATTCAATCTCTTACCTCGATCATGGGGCAAATT-AAAACCTATCTGATCTC
1 GGCAGATTGAAACCATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAAACC-ATCCAATCTC
* *
35247947 TTACCTCGATCATAG
65 TTACCCCGATCATGG
* * * * * * *
35247962 GGCAGATTGAAAACCATCCGATCACTTACCTCGATCATG-GTGCA-AATCACAACTATCCAATCT
1 GGCAGATTG-AAACCATCCAATCTCTTACCCCGATCATGAG-GCAGATTGAAAACCATCCAATC-
*
35248025 TATTACCCCGATCATGG
63 TCTTACCCCGATCATGG
* * * * * * *
35248042 GGAAGATTGAAAACCATCCGATCTTTTACCCCGATCATG-GGACAAATCG-CAACCATTCAATCT
1 GGCAGATTG-AAACCATCCAATCTCTTACCCCGATCATGAGG-CAGATTGAAAACCATCCAATCT
* *
35248105 TTTACCCTGATCATGG
64 CTTACCCCGATCATGG
* * * *
35248121 GGCAGATTGAAAACCATCCGA--TCTTACCCCGATCATG-GGATAAATTG-CAACCATCCAATCT
1 GGCAGATTG-AAACCATCCAATCTCTTACCCCGATCATGAGG-CAGATTGAAAACCATCCAATCT
35248182 CTTACCCCGATCATGG
64 CTTACCCCGATCATGG
*
35248198 GGCAGATTGAAAACCATTCAATCTCTTACCCCGATCATGAGGCAGATT-AAAACCATC
1 GGCAGATTG-AAACCATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAAACCATC
35248255 GTCCAATCTT
Statistics
Matches: 707, Mismatches: 100, Indels: 54
0.82 0.12 0.06
Matches are distributed among these distances:
73 2 0.00
74 64 0.09
75 3 0.00
76 30 0.04
77 207 0.29
78 96 0.14
79 207 0.29
80 97 0.14
81 1 0.00
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (79 bp):
GGCAGATTGAAACCATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAAACCATCCAATCTCT
TACCCCGATCATGG
Found at i:35250319 original size:21 final size:21
Alignment explanation
Indices: 35250295--35250334 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
35250285 GTAGCTTTCT
*
35250295 TTTTTATTTCATATCTTTTAA
1 TTTTTATTTAATATCTTTTAA
* *
35250316 TTTTTTTTTAATTTCTTTT
1 TTTTTATTTAATATCTTTT
35250335 TCTTTATCTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.75
Consensus pattern (21 bp):
TTTTTATTTAATATCTTTTAA
Found at i:35250326 original size:11 final size:12
Alignment explanation
Indices: 35250290--35250335 Score: 51
Period size: 11 Copynumber: 3.8 Consensus size: 12
35250280 AATAGGTAGC
35250290 TTTCTTTTTT-A
1 TTTCTTTTTTAA
35250301 TTTCATATCTTTTAA
1 TTTC-T-T-TTTTAA
35250316 TTT-TTTTTTAA
1 TTTCTTTTTTAA
35250327 TTTCTTTTT
1 TTTCTTTTT
35250336 CTTTATCTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
11 13 0.43
12 7 0.23
13 2 0.07
14 4 0.13
15 4 0.13
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTCTTTTTTAA
Done.