Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold281
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: 622278
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
File 1 of 4
Found at i:3952 original size:21 final size:22
Alignment explanation
Indices: 3926--3979 Score: 101
Period size: 21 Copynumber: 2.5 Consensus size: 22
3916 CGGACATGTT
3926 AAAAATGCATGAAACATAAT-A
1 AAAAATGCATGAAACATAATAA
3947 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
3969 AAAAATGCATG
1 AAAAATGCATG
3980 GTCAAAGGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 20 0.62
22 12 0.38
ACGTcount: A:0.61, C:0.09, G:0.11, T:0.19
Consensus pattern (22 bp):
AAAAATGCATGAAACATAATAA
Found at i:4939 original size:20 final size:20
Alignment explanation
Indices: 4892--4966 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
4882 AAAAAGACAT
*
4892 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
4911 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
4932 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
4952 AATGTATCGATACAT
1 AATGTATCGATACAT
4967 CAAGGTAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:4960 original size:40 final size:39
Alignment explanation
Indices: 4889--4966 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
4879 GGTAAAAAGA
* *
4889 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
4928 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
4967 CAAGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:10990 original size:51 final size:51
Alignment explanation
Indices: 10840--11060 Score: 257
Period size: 51 Copynumber: 4.3 Consensus size: 51
10830 GAAATAATGA
* * * * * *
10840 GGTTTGAGTATCCTCGATTGTGAAAAATTGGTGTATTTAGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGGAAAATTAGTGT-TTTAGAAATAAAACCGG
* * *
10892 AGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTT-GAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT-ATGGAAAATTAGTGTTTTAG-AAATAAAACCGG
* *
10944 GGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAACTGG
1 GGTTGGAGTATCCCCGATTATGGAAAATTAGTGTTTTAGAAATAAAACCGG
* * * *
10995 GGTTGGAGTATCCCCGATTAT-GAGAAATCAATATTTTAGAAATAAAGCCGG
1 GGTTGGAGTATCCCCGATTATGGA-AAATTAGTGTTTTAGAAATAAAACCGG
11046 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
11061 TTGGAGGTAA
Statistics
Matches: 147, Mismatches: 18, Indels: 9
0.84 0.10 0.05
Matches are distributed among these distances:
50 2 0.01
51 84 0.57
52 49 0.33
53 12 0.08
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGGAAAATTAGTGTTTTAGAAATAAAACCGG
Found at i:11083 original size:28 final size:27
Alignment explanation
Indices: 11043--11120 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 27
11033 GAAATAAAGC
*
11043 CGGGGTTGGAGTATCCCC-TTGGAGGTAA
1 CGGGGTTGGAGTATCCCCGAT-GA-GTAA
* *
11071 CGGGGTTGGAGTACCCCCGATGATTAA
1 CGGGGTTGGAGTATCCCCGATGAGTAA
*
11098 CGGGGTTGGAGTATCCCCAATGA
1 CGGGGTTGGAGTATCCCCGATGA
11121 AAAATTGATA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
27 24 0.55
28 19 0.43
29 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.36, T:0.23
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCCGATGAGTAA
Found at i:11175 original size:103 final size:105
Alignment explanation
Indices: 10993--11183 Score: 251
Period size: 103 Copynumber: 1.8 Consensus size: 105
10983 AAATAAAACT
* * *
10993 GGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAGCCGGGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCGA-TATGAAAAATCAATATTTTAGAAATAAAACCGGGGTTAGAGTATC
*** **
11058 CCCTTGGAGGTAACGGGGTTGGAGTACCCCCGATGATTAAC
65 CCCCCAGAAATAACGGGGTTGGAGTACCCCCGATGATTAAC
** * *
11099 GGGGTTGGAGTATCCCC-A-ATGAAAAATTGATATTTTAGAAATAAAATCGGGGTTAGAGTGTCC
1 GGGGTTGGAGTATCCCCGATATGAAAAATCAATATTTTAGAAATAAAACCGGGGTTAGAGTATCC
11162 CCCCAGAAATAACGGGGTTGGA
66 CCCCAGAAATAACGGGGTTGGA
11184 ATATCCGCGA
Statistics
Matches: 73, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
103 55 0.75
105 1 0.01
106 17 0.23
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (105 bp):
GGGGTTGGAGTATCCCCGATATGAAAAATCAATATTTTAGAAATAAAACCGGGGTTAGAGTATCC
CCCCAGAAATAACGGGGTTGGAGTACCCCCGATGATTAAC
Found at i:11246 original size:51 final size:51
Alignment explanation
Indices: 11178--11298 Score: 156
Period size: 51 Copynumber: 2.4 Consensus size: 51
11168 AAATAACGGG
* * * *
11178 GTTGGAATATCCGCGATTGT-GAAAAGTCGGTGCTTTGA-AAATAAAATTGGA
1 GTTGGAGTATCCCCGATTATGGAAAA-TCGGTG-TTTGAGAAATAAAATCGGA
* *
11229 GTTGGAGTATCCCCGATTATGGAAAATGGGTGTTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGGAAAATCGGTGTTTGAGAAATAAAATCGGA
11280 GTTGGAGTATCCCCGATTA
1 GTTGGAGTATCCCCGATTA
11299 AGAGAAATTG
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
50 4 0.06
51 53 0.85
52 5 0.08
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.30
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGGAAAATCGGTGTTTGAGAAATAAAATCGGA
Found at i:11314 original size:51 final size:51
Alignment explanation
Indices: 11216--11343 Score: 161
Period size: 51 Copynumber: 2.5 Consensus size: 51
11206 GGTGCTTTGA
* * *
11216 AAATAAAATTGGAGTTGGAGTATCCCCGATTATGGAAAATGGGTGTTTTAG
1 AAATAAAATCGGAGTTGGAGTATCCCCGATTAAGGAAAATGGATGTTTTAG
* *
11267 AAATAAAATCGGAGTTGGAGTATCCCCGATTAA-GAGAAATTGATGTTTTGG
1 AAATAAAATCGGAGTTGGAGTATCCCCGATTAAGGA-AAATGGATGTTTTAG
* *
11318 AAATGAAACCGG-GATTGGAGTATCCC
1 AAATAAAATCGGAG-TTGGAGTATCCC
11344 TTCGAAAATA
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
50 3 0.04
51 65 0.96
ACGTcount: A:0.34, C:0.11, G:0.27, T:0.28
Consensus pattern (51 bp):
AAATAAAATCGGAGTTGGAGTATCCCCGATTAAGGAAAATGGATGTTTTAG
Found at i:11382 original size:78 final size:79
Alignment explanation
Indices: 11280--11453 Score: 210
Period size: 78 Copynumber: 2.2 Consensus size: 79
11270 TAAAATCGGA
** * * * *
11280 GTTGGAGTATCCCCGATTAAGAGAAATTGATGTTTT-GGAAATGAAA-CCGGGATTGGAGTATCC
1 GTTGGAGTATCCCCGATTAAGAGAAATCAATATTTTAAG-AAT-AAAGCAGGGATTAGAGTATCC
* *
11343 CTTCGAAAATAACGGG
64 CCTCAAAAATAACGGG
* *
11359 GTTGGAGTAT-CCCGATTATGAGAAATCAATATTTTAAGAATAAAGCAGGGGTTAGAGTATCCCC
1 GTTGGAGTATCCCCGATTAAGAGAAATCAATATTTTAAGAATAAAGCAGGGATTAGAGTATCCCC
11423 TCAAAAATAACGGG
66 TCAAAAATAACGGG
*
11437 GTTGGAGTACCCCCGAT
1 GTTGGAGTATCCCCGAT
11454 GATTAACGGG
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
77 3 0.04
78 61 0.75
79 17 0.21
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.26
Consensus pattern (79 bp):
GTTGGAGTATCCCCGATTAAGAGAAATCAATATTTTAAGAATAAAGCAGGGATTAGAGTATCCCC
TCAAAAATAACGGG
Found at i:11444 original size:28 final size:28
Alignment explanation
Indices: 11406--11475 Score: 81
Period size: 27 Copynumber: 2.5 Consensus size: 28
11396 GAATAAAGCA
*
11406 GGGGTTAGAGTATCCCCTC-AAAAATAAC
1 GGGGTTGGAGTATCCCC-CGAAAAATAAC
** *
11434 GGGGTTGGAGTA-CCCCCGATGATTAAC
1 GGGGTTGGAGTATCCCCCGAAAAATAAC
11461 GGGGTTGGAGTATCC
1 GGGGTTGGAGTATCC
11476 TCGATTGTGA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
26 1 0.03
27 22 0.61
28 13 0.36
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCCCGAAAAATAAC
Found at i:13969 original size:13 final size:13
Alignment explanation
Indices: 13951--13976 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13941 ACAAAGATCG
13951 ATGTATCGATACA
1 ATGTATCGATACA
13964 ATGTATCGATACA
1 ATGTATCGATACA
13977 TTTCTTTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:14039 original size:13 final size:13
Alignment explanation
Indices: 14021--14072 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
14011 AGCTTCGTAG
14021 CGATACATTGTAT
1 CGATACATTGTAT
14034 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
14053 CGATACATTGTAT
1 CGATACATTGTAT
14066 CGATACA
1 CGATACA
14073 ACACTTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 2 0.06
16 2 0.06
17 2 0.06
19 10 0.30
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:14053 original size:19 final size:18
Alignment explanation
Indices: 14029--14091 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
14019 AGCGATACAT
14029 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
14048 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
14061 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
14080 TGTATCGATACA
1 TGTATCGATACA
14092 TTTACTGAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
16 2 0.05
18 1 0.03
19 23 0.61
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:14062 original size:32 final size:32
Alignment explanation
Indices: 14021--14093 Score: 137
Period size: 32 Copynumber: 2.3 Consensus size: 32
14011 AGCTTCGTAG
14021 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
14053 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
14085 CGATACATT
1 CGATACATT
14094 TACTGAATGT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:15818 original size:87 final size:87
Alignment explanation
Indices: 15698--15874 Score: 336
Period size: 87 Copynumber: 2.0 Consensus size: 87
15688 CAAAGGCTAG
*
15698 ATTTGGATGGCCTTTTCCATCTATCTCGAGGCATAACATCAAAAGTTTTCATCAAGTTTCTTTTC
1 ATTTGGATGGCCTTTTCCATCTATCTCGAGGCATAACATCAAAAGTCTTCATCAAGTTTCTTTTC
15763 CATACCCATAAGGGAGAGACAC
66 CATACCCATAAGGGAGAGACAC
*
15785 ATTTGGATGGCCTTTTCCATCTATCTCGAGGCATAACATCGAAAGTCTTCATCAAGTTTCTTTTC
1 ATTTGGATGGCCTTTTCCATCTATCTCGAGGCATAACATCAAAAGTCTTCATCAAGTTTCTTTTC
15850 CATACCCATAAGGGAGAGACAC
66 CATACCCATAAGGGAGAGACAC
15872 ATT
1 ATT
15875 AGGACCACAT
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 88 1.00
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.32
Consensus pattern (87 bp):
ATTTGGATGGCCTTTTCCATCTATCTCGAGGCATAACATCAAAAGTCTTCATCAAGTTTCTTTTC
CATACCCATAAGGGAGAGACAC
Found at i:22353 original size:79 final size:79
Alignment explanation
Indices: 22220--22418 Score: 229
Period size: 79 Copynumber: 2.5 Consensus size: 79
22210 AATAACGGGG
* * ** * *
22220 TTGGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCCCGGTTGTGAAAAATCGATGA-TTAG
1 TTGGAGTATCCCCTAGGAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAAT-ATTTAG
*
22284 GAAATAAAATCAGGA
65 GAAATAAAACCAGGA
* * * *
22299 TTGGAGTATCCCCTCGGAAATAACAGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGG
1 TTGGAGTATCCCCTAGGAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTAGG
* * * *
22364 GAATAAAGCCGGGG
66 AAATAAAACCAGGA
**
22378 TTGGAGTATCCCCTAGGAGGTAACGGGGTTGGAGTATCCCC
1 TTGGAGTATCCCCTAGGAAATAACGGGGTTGGAGTATCCCC
22419 GATGAAATAA
Statistics
Matches: 101, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 1 0.01
79 100 0.99
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (79 bp):
TTGGAGTATCCCCTAGGAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTAGG
AAATAAAACCAGGA
Found at i:22429 original size:28 final size:28
Alignment explanation
Indices: 22373--22444 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
22363 GGAATAAAGC
* **
22373 CGGGGTTGGAGTATCCCCTAGGAGGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
22401 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
* *
22429 CGAGGTTAGAGTATCC
1 CGGGGTTGGAGTATCC
22445 TTGATTGTGA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.25, C:0.18, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:22588 original size:51 final size:51
Alignment explanation
Indices: 22432--22614 Score: 188
Period size: 51 Copynumber: 3.5 Consensus size: 51
22422 GAAATAACGA
** ** *
22432 GGTTAGAGTATCCTTGATTGTGAAAAATTGGTGTTTTTGTCAATAAAATTGG
1 GGTTAGAGTATCCCCGATTGTGAAAAATTGGTG-TTTTGAAAATAAAATCGG
* * ***
22484 AGTTGGAGTATCCCCGACTAAAGAAAAATTGGTGTTTTGAAAATAAAATCGG
1 GGTTAGAGTATCCCCGA-TTGTGAAAAATTGGTGTTTTGAAAATAAAATCGG
* * * *
22536 GGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTT-AGAAATAAAACCGG
1 GGTTAGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGA-AAATAAAATCGG
* *
22587 GGTTAGAGTATCCCCGATTTTGAGAAAT
1 GGTTAGAGTATCCCCGATTGTGAAAAAT
22615 CAATATTTTG
Statistics
Matches: 108, Mismatches: 21, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
50 1 0.01
51 50 0.46
52 44 0.41
53 13 0.12
ACGTcount: A:0.32, C:0.10, G:0.25, T:0.32
Consensus pattern (51 bp):
GGTTAGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAATAAAATCGG
Found at i:22631 original size:51 final size:51
Alignment explanation
Indices: 22524--22652 Score: 143
Period size: 51 Copynumber: 2.5 Consensus size: 51
22514 GGTGTTTTGA
* * * * *
22524 AAATAAAATCGGGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAG
1 AAATAAAACCGGGGTTAGAGTATCCCCGATTGTGGAAAATCAATATTTTAG
* *
22575 AAATAAAACCGGGGTTAGAGTATCCCCGATT-TTGAGAAATCAATATTTTGG
1 AAATAAAACCGGGGTTAGAGTATCCCCGATTGTGGA-AAATCAATATTTTAG
* * * *
22626 GAATAAAGCCGAGGTCAGAGTATCCCC
1 AAATAAAACCGGGGTTAGAGTATCCCC
22653 TCAGAGGTAA
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
50 3 0.05
51 63 0.95
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (51 bp):
AAATAAAACCGGGGTTAGAGTATCCCCGATTGTGGAAAATCAATATTTTAG
Found at i:22790 original size:52 final size:53
Alignment explanation
Indices: 22717--22817 Score: 159
Period size: 52 Copynumber: 1.9 Consensus size: 53
22707 TTGATTGTGA
*
22717 AAAATTGGTGTTTTTGGAAATAAAATCGGAGTCGGAGTATCCCCGATTAAAGG
1 AAAATTGGTGTTTTTGAAAATAAAATCGGAGTCGGAGTATCCCCGATTAAAGG
* * *
22770 AAAATTGGTG-TTTTGAAAATAAAATCGGGGTTGGAGTATCCCTGATTA
1 AAAATTGGTGTTTTTGAAAATAAAATCGGAGTCGGAGTATCCCCGATTA
22818 GGAACAATTG
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
52 34 0.77
53 10 0.23
ACGTcount: A:0.34, C:0.10, G:0.26, T:0.31
Consensus pattern (53 bp):
AAAATTGGTGTTTTTGAAAATAAAATCGGAGTCGGAGTATCCCCGATTAAAGG
Found at i:22795 original size:262 final size:262
Alignment explanation
Indices: 22324--22816 Score: 826
Period size: 262 Copynumber: 1.9 Consensus size: 262
22314 GGAAATAACA
* * **
22324 GGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTATCC
1 GGGTTAGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGAGGTCAGAGTATCC
22389 CCTAGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTAGAGTATCCTTGATTGTG
66 CCTAGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTAGAGTATCCTTGATTGTG
** * *
22454 AAAAATTGGTGTTTTTGTCAATAAAATTGGAGTTGGAGTATCCCCGACTAAAGAAAAATTGGTGT
131 AAAAATTGGTGTTTTTGGAAATAAAATCGGAGTCGGAGTATCCCCGACTAAAGAAAAATTGGTGT
22519 TTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAAC
196 TTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAAC
22584 CG
261 CG
* *
22586 GGGTTAGAGTATCCCCGATTTTGAGAAATCAATATTTTGGGAATAAAGCCGAGGTCAGAGTATCC
1 GGGTTAGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGAGGTCAGAGTATCC
* * *
22651 CCTCA-GAGGTAACGGGTTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTGTCCTTGATTGT
66 CCT-AGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTAGAGTATCCTTGATTGT
* *
22715 GAAAAATTGGTGTTTTTGGAAATAAAATCGGAGTCGGAGTATCCCCGATTAAAGGAAAATTGGTG
130 GAAAAATTGGTGTTTTTGGAAATAAAATCGGAGTCGGAGTATCCCCGACTAAAGAAAAATTGGTG
*
22780 TTTTGAAAATAAAATCGGGGTTGGAGTATCCCTGATT
195 TTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATT
22817 AGGAACAATT
Statistics
Matches: 214, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
262 213 1.00
263 1 0.00
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (262 bp):
GGGTTAGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGAGGTCAGAGTATCC
CCTAGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTAGAGTATCCTTGATTGTG
AAAAATTGGTGTTTTTGGAAATAAAATCGGAGTCGGAGTATCCCCGACTAAAGAAAAATTGGTGT
TTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAAC
CG
Found at i:25257 original size:19 final size:18
Alignment explanation
Indices: 25233--25295 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
25223 AGTGATACAT
25233 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
25252 TGTATCGATAC--A-TTA
1 TGTATCGATACAAACTTA
25267 --TATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
25284 TGTATCGATACA
1 TGTATCGATACA
25296 TTTTCTGTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 9 0.24
15 3 0.08
16 2 0.05
17 3 0.08
19 21 0.55
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:25271 original size:32 final size:32
Alignment explanation
Indices: 25226--25297 Score: 126
Period size: 32 Copynumber: 2.2 Consensus size: 32
25216 GCTTCGTAGT
*
25226 GATACATTGTATCGATACAAAACTTATGTATC
1 GATACATTATATCGATACAAAACTTATGTATC
*
25258 GATACATTATATCGATACAACACTTATGTATC
1 GATACATTATATCGATACAAAACTTATGTATC
25290 GATACATT
1 GATACATT
25298 TTCTGTTTGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.35
Consensus pattern (32 bp):
GATACATTATATCGATACAAAACTTATGTATC
Found at i:25324 original size:19 final size:19
Alignment explanation
Indices: 25267--25325 Score: 57
Period size: 19 Copynumber: 3.0 Consensus size: 19
25257 CGATACATTA
*
25267 TATCGATACAACACT-TATG
1 TATCGATACAA-ACTGTTTG
**
25286 TATCGATACATTTTCTGTTTG
1 TATCGATACA--AACTGTTTG
25307 TATCGATACAAACTGTTTG
1 TATCGATACAAACTGTTTG
25326 AAGTTCAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
19 17 0.53
20 2 0.06
21 13 0.41
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.41
Consensus pattern (19 bp):
TATCGATACAAACTGTTTG
Found at i:26996 original size:80 final size:79
Alignment explanation
Indices: 26715--27236 Score: 469
Period size: 79 Copynumber: 6.6 Consensus size: 79
26705 TAAAAAAAGA
* * * ** ****
26715 GTTGGAGTATCCACGATAGTGAAAATTTAATATTTTGGAAATAAAAATGGGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATGGTGAAAAATCGATATTTTGGAAATAAAACCAAGGTTGGAGTATCCCC
****
26780 TCGAAAATGGTGGG
66 TCGAAAATAACAGG
* * * * * * ** * ** * *
26794 GTTAGAGTATCCTCGATGATAAAAAATTGATATGTTAAAAATAAAATCGGGGTTAGAGTATCCCT
1 GTTGGAGTATCCCCGATGGTGAAAAATCGATATTTTGGAAATAAAACCAAGGTTGGAGTATCCCC
* * *
26859 TAGAAAATAGCAAG
66 TCGAAAATAACAGG
* * *
26873 GTTGGAGTAT-CTCGATGCTGAAAAATCAATATTTT-GAGAATAAAACCAAGGTTGGAGTATCCC
1 GTTGGAGTATCCCCGATGGTGAAAAATCGATATTTTGGA-AATAAAACCAAGGTTGGAGTATCCC
*
26936 CTCGGAAATAACAGG
65 CTCGAAAATAACAGG
* ** * *
26951 GTGGGAGTATCCCTAATGGTGAAAAAATCAATATTTTGGAAATAAAACCAAGGTTGGAATATCCC
1 GTTGGAGTATCCCCGATGGTG-AAAAATCGATATTTTGGAAATAAAACCAAGGTTGGAGTATCCC
* * *
27016 CT-TAGAAACAACAAG
65 CTCGA-AAATAACAGG
* * * *
27031 ATTGGAGTATCCCCGATAGTGAAAAATCGATATTTTGGAAATAAAAACGAGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATGGTGAAAAATCGATATTTTGGAAATAAAACCAAGGTTGGAGTATCCCC
*
27096 TTGAAAATAAC-GAG
66 TCGAAAATAACAG-G
* * * * * * **
27110 CTCGGAGCATCCCCGATGATGAAAAATCGATGTTTTAGAAATAAAA-CTGGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATGGTGAAAAATCGATATTTTGGAAATAAAACCAAGGTTGGAGTATCCCC
27174 TCGAAAATAACAGG
66 TCGAAAATAACAGG
* *
27188 GTTGGAGTATCCCTGATGGTGAAAAATTGATATTTTGGAAATAAAACCA
1 GTTGGAGTATCCCCGATGGTGAAAAATCGATATTTTGGAAATAAAACCA
27237 GGGATAGAGT
Statistics
Matches: 358, Mismatches: 76, Indels: 18
0.79 0.17 0.04
Matches are distributed among these distances:
77 1 0.00
78 125 0.35
79 164 0.46
80 66 0.18
81 2 0.01
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (79 bp):
GTTGGAGTATCCCCGATGGTGAAAAATCGATATTTTGGAAATAAAACCAAGGTTGGAGTATCCCC
TCGAAAATAACAGG
Found at i:29661 original size:21 final size:20
Alignment explanation
Indices: 29628--29666 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
29618 CACATTTTTA
29628 TCTAAATGAATCGATACATT
1 TCTAAATGAATCGATACATT
*
29648 TCTAGAATGTATCGATACA
1 TCTA-AATGAATCGATACA
29667 ATGTCCCAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.33
Consensus pattern (20 bp):
TCTAAATGAATCGATACATT
Found at i:33665 original size:21 final size:20
Alignment explanation
Indices: 33613--33666 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
33603 CATTTTAGGC
*
33613 ATGTATCGATGCATTCACTT
1 ATGTATCGATACATTCACTT
** *
33633 ATGTATTAATACATTTACTGT
1 ATGTATCGATACATTCACT-T
*
33654 TTGTATCGATACA
1 ATGTATCGATACA
33667 AATCATAGAA
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 15 0.58
21 11 0.42
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTCACTT
Found at i:36514 original size:2 final size:2
Alignment explanation
Indices: 36505--36546 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
36495 TTGTAGATGG
36505 TC TC -C TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
36546 T
1 T
36547 ATATATATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:36551 original size:2 final size:2
Alignment explanation
Indices: 36546--36570 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
36536 TCTCTCTCTC
36546 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 T
36571 TTACTTTGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:38308 original size:19 final size:21
Alignment explanation
Indices: 38278--38321 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 21
38268 ATAAATTTAA
*
38278 TTTAATTTAAAATTATAT-TT
1 TTTAATTTAAAATAATATATT
38298 TTTAA-TTAAAATAATATATT
1 TTTAATTTAAAATAATATATT
38318 TTTA
1 TTTA
38322 TATAAATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTAATTTAAAATAATATATT
Found at i:38344 original size:21 final size:21
Alignment explanation
Indices: 38320--38363 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
38310 AATATATTTT
*
38320 TATATAAAT-TTAATTATAAAA
1 TATATAAATATTAA-TAAAAAA
38341 TATATAAATATTAATAAAAAA
1 TATATAAATATTAATAAAAAA
38362 TA
1 TA
38364 AATATTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
TATATAAATATTAATAAAAAA
Found at i:38357 original size:19 final size:19
Alignment explanation
Indices: 38335--38379 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
38325 AAATTTAATT
38335 ATAAAATATATAAATA-TTA
1 ATAAAATA-ATAAATATTTA
38354 ATAAAA-AATAAATATTTTA
1 ATAAAATAATAAATA-TTTA
38373 ATAAAAT
1 ATAAAAT
38380 GATCAGCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 7 0.30
18 1 0.04
19 15 0.65
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
ATAAAATAATAAATATTTA
Found at i:38377 original size:50 final size:50
Alignment explanation
Indices: 38276--38379 Score: 122
Period size: 52 Copynumber: 2.1 Consensus size: 50
38266 AAATAAATTT
** * *
38276 AATTTAATTTAAAATTATATTTTTTAATTAAAATAATATATTTTTATATA
1 AATTTAATTTAAAATTATAAATATTAATAAAAATAATATATTTTTATATA
*
38326 AATTTAATTATAAAATATATAAATATTAATAAAAAATAA-ATATTTTAATA-A
1 AATTTAATT-TAAAAT-TATAAATATTAAT-AAAAATAATATATTTTTATATA
38377 AAT
1 AAT
38380 GATCAGCTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
50 9 0.20
51 10 0.22
52 20 0.43
53 7 0.15
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (50 bp):
AATTTAATTTAAAATTATAAATATTAATAAAAATAATATATTTTTATATA
Found at i:38447 original size:18 final size:19
Alignment explanation
Indices: 38424--38459 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
38414 CAGATCAAAA
38424 TTAAATTT-AAATTTAAAT
1 TTAAATTTAAAATTTAAAT
38442 TTAAATTTAAAATTTAAA
1 TTAAATTTAAAATTTAAA
38460 ATATTTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TTAAATTTAAAATTTAAAT
Found at i:38461 original size:7 final size:6
Alignment explanation
Indices: 38424--38459 Score: 63
Period size: 6 Copynumber: 5.8 Consensus size: 6
38414 CAGATCAAAA
38424 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAAT TTAAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TT-AAAT TTAAA
38460 ATATTTTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (6 bp):
TTAAAT
Found at i:39149 original size:19 final size:18
Alignment explanation
Indices: 39115--39164 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
39105 CGTCTTATTT
*
39115 ATATTTTTTATTTTTAATA
1 ATATTATTT-TTTTTAATA
* *
39134 ATAATTATTTTTTTTATTT
1 AT-ATTATTTTTTTTAATA
39153 ATATTATTTTTT
1 ATATTATTTTTT
39165 CATGTTATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 10 0.37
19 11 0.41
20 6 0.22
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
ATATTATTTTTTTTAATA
Found at i:39172 original size:18 final size:18
Alignment explanation
Indices: 39134--39178 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 18
39124 ATTTTTAATA
*
39134 ATAATTATTTTTTTTATTT
1 ATAATTA-TTTTTTCATTT
39153 AT-ATTATTTTTTCATGTT
1 ATAATTATTTTTTCAT-TT
39171 ATAATTAT
1 ATAATTAT
39179 ATTAAAAGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 8 0.35
18 8 0.35
19 7 0.30
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (18 bp):
ATAATTATTTTTTCATTT
Found at i:39893 original size:15 final size:15
Alignment explanation
Indices: 39859--39896 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
39849 AATAAGATAA
39859 ATAAAACAAAATATTT
1 ATAAAA-AAAATATTT
*
39875 -TAAAAAAATTATTT
1 ATAAAAAAAATATTT
39889 ATAAAAAA
1 ATAAAAAA
39897 TTTTATTCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (15 bp):
ATAAAAAAAATATTT
Found at i:40420 original size:14 final size:15
Alignment explanation
Indices: 40401--40429 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
40391 CATAGTTATG
40401 TCACTT-TTTTAAAA
1 TCACTTATTTTAAAA
40415 TCACTTATTTTAAAA
1 TCACTTATTTTAAAA
40430 ATGATTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.38, C:0.14, G:0.00, T:0.48
Consensus pattern (15 bp):
TCACTTATTTTAAAA
Found at i:42897 original size:20 final size:21
Alignment explanation
Indices: 42868--42906 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
42858 AACATAAACA
42868 TATCACAAATATATATGAACT
1 TATCACAAATATATATGAACT
*
42889 TATCA-AAATTTATATGAA
1 TATCACAAATATATATGAA
42907 ATAAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.49, C:0.10, G:0.05, T:0.36
Consensus pattern (21 bp):
TATCACAAATATATATGAACT
Found at i:43160 original size:18 final size:19
Alignment explanation
Indices: 43134--43170 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
43124 ATATGAATAT
*
43134 AATTTAAAAATAAT-TAAA
1 AATTAAAAAATAATATAAA
43152 AATTAAAAAATAATATAAA
1 AATTAAAAAATAATATAAA
43171 TATATAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
AATTAAAAAATAATATAAA
Found at i:43171 original size:17 final size:17
Alignment explanation
Indices: 43129--43171 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
43119 ATACGATATG
*
43129 AATAT-AATTTAAAAAT
1 AATATAAATTAAAAAAT
*
43145 AATTAAAAATTAAAAAAT
1 AA-TATAAATTAAAAAAT
43163 AATATAAAT
1 AATATAAAT
43172 ATATAAATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 2 0.09
17 8 0.36
18 12 0.55
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AATATAAATTAAAAAAT
Found at i:43185 original size:15 final size:15
Alignment explanation
Indices: 43165--43194 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
43155 TAAAAAATAA
*
43165 TATAAATATATAAAT
1 TATAAAAATATAAAT
43180 TATAAAAATATAAAT
1 TATAAAAATATAAAT
43195 AAAGTGAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TATAAAAATATAAAT
Found at i:43484 original size:18 final size:18
Alignment explanation
Indices: 43461--43499 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
43451 TTTAAAATTT
43461 AAAAATATAAAAT-TAAAA
1 AAAAATA-AAAATATAAAA
*
43479 AAAAATAAAACTATAAAA
1 AAAAATAAAAATATAAAA
43497 AAA
1 AAA
43500 TGACATGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (18 bp):
AAAAATAAAAATATAAAA
Found at i:43486 original size:16 final size:16
Alignment explanation
Indices: 43461--43500 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
43451 TTTAAAATTT
* *
43461 AAAAATATAAAATTAA
1 AAAAAAATAAAACTAA
*
43477 AAAAAAATAAAACTAT
1 AAAAAAATAAAACTAA
43493 AAAAAAAT
1 AAAAAAAT
43501 GACATGATAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.20
Consensus pattern (16 bp):
AAAAAAATAAAACTAA
Found at i:43549 original size:16 final size:16
Alignment explanation
Indices: 43530--43595 Score: 59
Period size: 16 Copynumber: 4.2 Consensus size: 16
43520 ATATATCATA
43530 ATAACATAATATTTTT
1 ATAACATAATATTTTT
*
43546 ATAACAT-ATCA---TA
1 ATAACATAAT-ATTTTT
43559 ATAACATAATATTTTT
1 ATAACATAATATTTTT
* *
43575 ATAACATTTATAATTTT
1 ATAACA-TAATATTTTT
43592 ATAA
1 ATAA
43596 ATTACATTAC
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
13 9 0.22
14 2 0.05
15 2 0.05
16 15 0.38
17 12 0.30
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (16 bp):
ATAACATAATATTTTT
Found at i:43554 original size:29 final size:29
Alignment explanation
Indices: 43512--43581 Score: 122
Period size: 29 Copynumber: 2.4 Consensus size: 29
43502 ACATGATACT
* *
43512 TTTTTATCATATATCATAATAACATAATA
1 TTTTTATAACATATCATAATAACATAATA
43541 TTTTTATAACATATCATAATAACATAATA
1 TTTTTATAACATATCATAATAACATAATA
43570 TTTTTATAACAT
1 TTTTTATAACAT
43582 TTATAATTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (29 bp):
TTTTTATAACATATCATAATAACATAATA
Found at i:44079 original size:116 final size:115
Alignment explanation
Indices: 43944--44335 Score: 518
Period size: 116 Copynumber: 3.4 Consensus size: 115
43934 TTTTTAATAC
*
43944 AAAATAATATTTAATTAACTTTAAAAAAATTTATATTAATAAATTAAAATATTAATTATTTTTTA
1 AAAATAATATTTAATTAACTTTAAAAAAATTTATATTAACAAATTAAAATATTAATTATTTTTTA
*
44009 AAATAAAAAATTAAATTAAAAAGCGTTTATTATTATTTTTTAATAAAATTA
66 AAATAAAAAATTAAATTAAAAAG-ATTTATTATTATTTTTTAATAAAATTA
* * *
44060 AAAATAATATTTACTTAACTTTAAAAAAATTTATATTGATAAATTAAAATATTAATTATTTTTTA
1 AAAATAATATTTAATTAACTTTAAAAAAATTTATATTAACAAATTAAAATATTAATTATTTTTT-
44125 AAAATAAAAAATTAAATTAAAAAGATTTATTATTATTATTTCTTAATAAAATTA
65 AAAATAAAAAATTAAATTAAAAAGATTTATTATTA-T-TTT-TTAATAAAATTA
* *
44179 AAAATAATATTTAATTAAGTTTAAAAAAA-TTACATTAACAAATTAAAATATTAATTATTATATT
1 AAAATAATATTTAATTAACTTTAAAAAAATTTATATTAACAAATTAAAATATTAATTATT-T-TT
* * *
44243 T----T-TATAA--AAA-TAAAAAGTATTTATT-TT-TTTTTTAATAAAATAAA
64 TAAAATAAAAAATTAAATTAAAAAG-ATTTATTATTATTTTTTAATAAAAT-TA
* *
44287 AAAATGATATTTAATTAAATTTAAAAAAATTTATATTAACAAATTAAAA
1 AAAATAATATTTAATTAACTTTAAAAAAATTTATATTAACAAATTAAAA
44336 AAATTAAGAA
Statistics
Matches: 253, Mismatches: 14, Indels: 25
0.87 0.05 0.09
Matches are distributed among these distances:
107 10 0.04
108 31 0.12
109 19 0.08
111 9 0.04
112 10 0.04
114 3 0.01
115 1 0.00
116 72 0.28
117 25 0.10
118 30 0.12
119 40 0.16
120 3 0.01
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (115 bp):
AAAATAATATTTAATTAACTTTAAAAAAATTTATATTAACAAATTAAAATATTAATTATTTTTTA
AAATAAAAAATTAAATTAAAAAGATTTATTATTATTTTTTAATAAAATTA
Found at i:44325 original size:25 final size:24
Alignment explanation
Indices: 44273--44340 Score: 68
Period size: 23 Copynumber: 2.8 Consensus size: 24
44263 TTATTTTTTT
* *
44273 TTTAATAAAATAAAAAAA-TGATA
1 TTTAACAAATTAAAAAAATTGATA
* *
44296 TTTAATTAAATTTAAAAAAATTTATA
1 TTTAA-CAAA-TTAAAAAAATTGATA
44322 -TTAACAAATTAAAAAAATT
1 TTTAACAAATTAAAAAAATT
44341 AAGAAATTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
23 16 0.41
24 7 0.18
25 12 0.31
26 4 0.10
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (24 bp):
TTTAACAAATTAAAAAAATTGATA
Found at i:44347 original size:17 final size:17
Alignment explanation
Indices: 44321--44357 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
44311 AAAAATTTAT
44321 ATTAACAAATTAAAAAA
1 ATTAACAAATTAAAAAA
*
44338 ATTAAGAAATTAAAAAA
1 ATTAACAAATTAAAAAA
44355 ATT
1 ATT
44358 TATCATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.27
Consensus pattern (17 bp):
ATTAACAAATTAAAAAA
Found at i:44680 original size:15 final size:15
Alignment explanation
Indices: 44660--44689 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
44650 AATAAAAAGC
44660 TTTTTTAATTTAAAA
1 TTTTTTAATTTAAAA
*
44675 TTTTTTATTTTAAAA
1 TTTTTTAATTTAAAA
44690 AACATAATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTTTTAATTTAAAA
Found at i:44788 original size:123 final size:123
Alignment explanation
Indices: 44645--45000 Score: 489
Period size: 124 Copynumber: 2.9 Consensus size: 123
44635 AATAAAAATT
*
44645 ATTATAATAAAAAGCTTTTTTAATTTAAAATTTTTTATTTTAAAAAACATAATAATTAATATTTT
1 ATTATAATAAAAAACTTTTTTAATTTAAAATTTTTTATTTTAAAAAACATAATAATTAATATTTT
*
44710 AATTTGTTAATATAAAATTTTAAAACTTAATTAAATATTATTTTTTATTTTATTCA-AA
66 AATTTGTTAATATAAAATTTTTAAACTTAATTAAATATTATTTTTTATTTTATT-AGAA
*
44768 ATTATAATAAAAAACATTTTTTATTTTAAAATTTTTTATTTTTATAAAAACATAATAATTAATAT
1 ATTATAATAAAAAAC-TTTTTTAATTTAAAATTTTTTA-TTTTA-AAAAACATAATAATTAATAT
* *
44833 TTTAATTTGTTAATGT--AATTTTTAAACTTAATTAAATATTATTTTTAATTTTATTAGAA
63 TTTAATTTGTTAATATAAAATTTTTAAACTTAATTAAATATTATTTTTTATTTTATTAGAA
* * *
44892 A-AATAATAATAAACCTTTTTTTATTT--AATTTTTTATTTT--AAAA-A-AATAATTAATATTT
1 ATTATAATAA-AAAACTTTTTTAATTTAAAATTTTTTATTTTAAAAAACATAATAATTAATATTT
* * *
44950 TAATTTGTTAATATAAATTTTTTTAAAGTTAAGTAAATATTATTTTTTATT
65 TAATTTGTTAATATAAA-ATTTTTAAACTTAATTAAATATTATTTTTTATT
45001 AAAAATAATA
Statistics
Matches: 211, Mismatches: 14, Indels: 21
0.86 0.06 0.09
Matches are distributed among these distances:
115 27 0.13
116 1 0.00
117 5 0.02
118 29 0.14
120 4 0.02
121 9 0.04
123 31 0.15
124 65 0.31
125 5 0.02
126 35 0.17
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (123 bp):
ATTATAATAAAAAACTTTTTTAATTTAAAATTTTTTATTTTAAAAAACATAATAATTAATATTTT
AATTTGTTAATATAAAATTTTTAAACTTAATTAAATATTATTTTTTATTTTATTAGAA
Found at i:45039 original size:9 final size:9
Alignment explanation
Indices: 45025--45057 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
45015 ATACATTATT
45025 ATTTATTAA
1 ATTTATTAA
45034 ATTTATTAA
1 ATTTATTAA
45043 ATTTAATT-A
1 ATTT-ATTAA
45052 ATTTAT
1 ATTTAT
45058 AAAAAAACTG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 2 0.09
9 18 0.78
10 3 0.13
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
ATTTATTAA
Found at i:45714 original size:90 final size:91
Alignment explanation
Indices: 45543--46234 Score: 955
Period size: 90 Copynumber: 7.6 Consensus size: 91
45533 CTATAAAAAA
** *
45543 TAGACTAATGCATGGATTATATCTGAGAATTGGATTCTTTTTTATGAAAAAAAAGAAAAGTTGAT
1 TAGACTAATGCATTAATTATATCTGAGAA-TCGATTCTTTTTTATGAAAAAAAAGAAAAGTTGAT
* *
45608 TGATTGTAAATGTCAGATTGCAAGGAT
65 TGATTGTAAATATCAGACTGCAAGGAT
* * * *
45635 TAGATTAATGCATTAATTATATTTGAGAATCAATTCTTTTTTAT-AAAAAAAAGAAAAATTGATT
1 TAGACTAATGCATTAATTATATCTGAGAATCGATTCTTTTTTATGAAAAAAAAGAAAAGTTGATT
*
45699 GATTGTAAATATCAGACTGCAAAGAT
66 GATTGTAAATATCAGACTGCAAGGAT
* * *
45725 TAGACTAATGCATGAATTATATTTGAGAATCGGATTCTTTTTTATGGAAAAAAAGAAAAGTTGAT
1 TAGACTAATGCATTAATTATATCTGAGAATC-GATTCTTTTTTATGAAAAAAAAGAAAAGTTGAT
*
45790 TGATTGTAAATGTCAGACTGCAAGGAT
65 TGATTGTAAATATCAGACTGCAAGGAT
* *
45817 TAGATTAATGCATT-ATTATATCTGAGAATCGATTCTTTTTTATAGAAAAAAAAAAGAAAAATTG
1 TAGACTAATGCATTAATTATATCTGAGAATCGATTCTTTTTTAT-G--AAAAAAAAGAAAAGTTG
* *
45881 ATTGATTGTAAATCTCAAACTGCAAGGAT
63 ATTGATTGTAAATATCAGACTGCAAGGAT
* * *
45910 TAGACTAATGCATGAATTATATCTGAGAATCGGTTTCTTTTTTATAGGAAAAAAAGAAAAGTTGA
1 TAGACTAATGCATTAATTATATCTGAGAATC-GATTCTTTTTTAT-GAAAAAAAAGAAAAGTTGA
*
45975 TTGATTGTAAATATCAGACTGCAAAGAT
64 TTGATTGTAAATATCAGACTGCAAGGAT
*
46003 TAGACTAATGCATAAATTATATCTGAGAATCGGATTCTTTTTTATGAAAAAAAA-AGAAAGTTGA
1 TAGACTAATGCATTAATTATATCTGAGAATC-GATTCTTTTTTATGAAAAAAAAGA-AAAGTTGA
* *
46067 TTGATTGTAAATGTCAGACTGAAAGGAT
64 TTGATTGTAAATATCAGACTGCAAGGAT
* * * *
46095 TAGACTAATGCATT-ATTATATTTGAGAATCAATTCTTTTTTATGGAAAAAAAGAAAAGTTAATT
1 TAGACTAATGCATTAATTATATCTGAGAATCGATTCTTTTTTATGAAAAAAAAGAAAAGTTGATT
**
46159 GATTGTAAATATCAGACTGCAATAAT
66 GATTGTAAATATCAGACTGCAAGGAT
* *
46185 TAGACTAATGCATT-ATTATATCTGAGAATCAATT-TTTTTATAGGAAAAAA
1 TAGACTAATGCATTAATTATATCTGAGAATCGATTCTTTTT-TATGAAAAAA
46235 GAAAGACTGT
Statistics
Matches: 540, Mismatches: 50, Indels: 22
0.88 0.08 0.04
Matches are distributed among these distances:
89 5 0.01
90 176 0.33
91 58 0.11
92 133 0.25
93 138 0.26
94 16 0.03
95 14 0.03
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.35
Consensus pattern (91 bp):
TAGACTAATGCATTAATTATATCTGAGAATCGATTCTTTTTTATGAAAAAAAAGAAAAGTTGATT
GATTGTAAATATCAGACTGCAAGGAT
Found at i:45825 original size:182 final size:182
Alignment explanation
Indices: 45518--46238 Score: 1015
Period size: 182 Copynumber: 4.0 Consensus size: 182
45508 TAATGTATAA
** * * * *
45518 ATTGTAAATATCAAACTATAAAAAATAGACTAATGCATGGATTATATCTGAGAATTGGATTCTTT
1 ATTGTAAATATCAAACTGCAAAGATTAGACTAATGCATGAATTATATCTGAGAATCGGATTCTTT
* * * *
45583 TTTATGAAAAAAAAGAAAAGTTGATTGATTGTAAATGTCAGATTGCAAGGATTAGATTAATGCAT
66 TTTATGGAAAAAAAGAAAAGTTGATTGATTGTAAATATCAGACTGCAAGGATTAGACTAATGCAT
*
45648 TAATTATATTTGAGAATCAATTCTTTTTTAT-AAAAAAAAGAAAAATTGATTG
131 T-ATTATATCTGAGAATCAATTCTTTTTTATAAAAAAAAAGAAAAATTGATTG
* *
45700 ATTGTAAATATCAGACTGCAAAGATTAGACTAATGCATGAATTATATTTGAGAATCGGATTCTTT
1 ATTGTAAATATCAAACTGCAAAGATTAGACTAATGCATGAATTATATCTGAGAATCGGATTCTTT
* *
45765 TTTATGGAAAAAAAGAAAAGTTGATTGATTGTAAATGTCAGACTGCAAGGATTAGATTAATGCAT
66 TTTATGGAAAAAAAGAAAAGTTGATTGATTGTAAATATCAGACTGCAAGGATTAGACTAATGCAT
*
45830 TATTATATCTGAGAATCGATTCTTTTTTATAGAAAAAAAAAAGAAAAATTGATTG
131 TATTATATCTGAGAATCAATTCTTTTTTAT---AAAAAAAAAGAAAAATTGATTG
* * *
45885 ATTGTAAATCTCAAACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCGGTTTCTTT
1 ATTGTAAATATCAAACTGCAAAGATTAGACTAATGCATGAATTATATCTGAGAATCGGATTCTTT
*
45950 TTTATAGGAAAAAAAGAAAAGTTGATTGATTGTAAATATCAGACTGCAAAGATTAGACTAATGCA
66 TTTAT-GGAAAAAAAGAAAAGTTGATTGATTGTAAATATCAGACTGCAAGGATTAGACTAATGCA
* * *
46015 TAAATTATATCTGAGAATCGGATTCTTTTTTATGAAAAAAAAAG-AAAGTTGATTG
130 T-TATTATATCTGAGAATC-AATTCTTTTTTAT-AAAAAAAAAGAAAAATTGATTG
* * * * *
46070 ATTGTAAATGTCAGACTG-AAAGGATTAGACTAATGCAT-TATTATATTTGAGAATC-AATTCTT
1 ATTGTAAATATCAAACTGCAAA-GATTAGACTAATGCATGAATTATATCTGAGAATCGGATTCTT
* **
46132 TTTTATGGAAAAAAAGAAAAGTTAATTGATTGTAAATATCAGACTGCAATAATTAGACTAATGCA
65 TTTTATGGAAAAAAAGAAAAGTTGATTGATTGTAAATATCAGACTGCAAGGATTAGACTAATGCA
**
46197 TTATTATATCTGAGAATCAA-T-TTTTTTATAGGAAAAAAGAAA
130 TTATTATATCTGAGAATCAATTCTTTTTTATAAAAAAAAAGAAA
46239 GACTGTAAGG
Statistics
Matches: 493, Mismatches: 37, Indels: 22
0.89 0.07 0.04
Matches are distributed among these distances:
177 8 0.02
178 10 0.02
179 1 0.00
180 1 0.00
181 43 0.09
182 178 0.36
183 11 0.02
184 17 0.03
185 128 0.26
186 67 0.14
187 16 0.03
188 13 0.03
ACGTcount: A:0.42, C:0.08, G:0.16, T:0.34
Consensus pattern (182 bp):
ATTGTAAATATCAAACTGCAAAGATTAGACTAATGCATGAATTATATCTGAGAATCGGATTCTTT
TTTATGGAAAAAAAGAAAAGTTGATTGATTGTAAATATCAGACTGCAAGGATTAGACTAATGCAT
TATTATATCTGAGAATCAATTCTTTTTTATAAAAAAAAAGAAAAATTGATTG
Found at i:46032 original size:278 final size:272
Alignment explanation
Indices: 45543--46238 Score: 1042
Period size: 278 Copynumber: 2.5 Consensus size: 272
45533 CTATAAAAAA
* *
45543 TAGACTAATGCATGGATTATATCTGAGAATTGGATTCTTTTTTATGAAAAAAAAGAAAAGTTGAT
1 TAGACTAATGCAT-TATTATATCTGAGAA-TCGATTCTTTTTTATGAAAAAAAAGAAAAGTTGAT
* * * *
45608 TGATTGTAAATGTCAGATTGCAAGGATTAGATTAATGCATTAATTATATTTGAGAATCAATTCTT
64 TGATTGTAAATATCAGACTGCAAGGATTAGACTAATGCA-TAATTATATCTGAGAATC-ATTCTT
45673 TTTTATA--AAAAAAAGAAAAATTGATTGATTGTAAATATCAGACTGCAAAGATTAGACTAATGC
127 TTTTATAGGAAAAAAAGAAAAATTGATTGATTGTAAATATCAGACTGCAAAGATTAGACTAATGC
* * *
45736 ATGAATTATATTTGAGAATCGGATTCTTTTTTATG-GAAAAAAAGAAAAGTTGATTGATTGTAAA
192 ATAAATTATATCTGAGAATCGGATTCTTTTTTATGAAAAAAAAAG-AAAGTTGATTGATTGTAAA
*
45800 TGTCAGACTGCAAGGAT
256 TGTCAGACTGAAAGGAT
* *
45817 TAGATTAATGCATTATTATATCTGAGAATCGATTCTTTTTTATAGAAAAAAAAAAGAAAAATTGA
1 TAGACTAATGCATTATTATATCTGAGAATCGATTCTTTTTTAT-G--AAAAAAAAGAAAAGTTGA
* * *
45882 TTGATTGTAAATCTCAAACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCGGTTTC
63 TTGATTGTAAATATCAGACTGCAAGGATTAGACTAATGCAT-AATTATATCTGAGAATC--ATTC
*
45947 TTTTTTATAGGAAAAAAAGAAAAGTTGATTGATTGTAAATATCAGACTGCAAAGATTAGACTAAT
125 TTTTTTATAGGAAAAAAAGAAAAATTGATTGATTGTAAATATCAGACTGCAAAGATTAGACTAAT
46012 GCATAAATTATATCTGAGAATCGGATTCTTTTTTATGAAAAAAAAAGAAAGTTGATTGATTGTAA
190 GCATAAATTATATCTGAGAATCGGATTCTTTTTTATGAAAAAAAAAGAAAGTTGATTGATTGTAA
46077 ATGTCAGACTGAAAGGAT
255 ATGTCAGACTGAAAGGAT
* * * *
46095 TAGACTAATGCATTATTATATTTGAGAATCAATTCTTTTTTATGGAAAAAAAGAAAAGTTAATTG
1 TAGACTAATGCATTATTATATCTGAGAATCGATTCTTTTTTATGAAAAAAAAGAAAAGTTGATTG
** * *
46160 ATTGTAAATATCAGACTGCAATAATTAGACTAATGCATTATTATATCTGAGAATCAAT-TTTTTT
66 ATTGTAAATATCAGACTGCAAGGATTAGACTAATGCATAATTATATCTGAGAATCATTCTTTTTT
46224 ATAGG-AAAAAAGAAA
131 ATAGGAAAAAAAGAAA
46239 GACTGTAAGG
Statistics
Matches: 385, Mismatches: 29, Indels: 20
0.89 0.07 0.05
Matches are distributed among these distances:
270 10 0.03
271 11 0.03
272 15 0.04
273 15 0.04
274 29 0.08
275 121 0.31
276 12 0.03
277 1 0.00
278 163 0.42
279 8 0.02
ACGTcount: A:0.41, C:0.08, G:0.17, T:0.35
Consensus pattern (272 bp):
TAGACTAATGCATTATTATATCTGAGAATCGATTCTTTTTTATGAAAAAAAAGAAAAGTTGATTG
ATTGTAAATATCAGACTGCAAGGATTAGACTAATGCATAATTATATCTGAGAATCATTCTTTTTT
ATAGGAAAAAAAGAAAAATTGATTGATTGTAAATATCAGACTGCAAAGATTAGACTAATGCATAA
ATTATATCTGAGAATCGGATTCTTTTTTATGAAAAAAAAAGAAAGTTGATTGATTGTAAATGTCA
GACTGAAAGGAT
Found at i:46514 original size:21 final size:21
Alignment explanation
Indices: 46484--46533 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
46474 TAATCTCATG
46484 CTTT-ATTATAAATAAGAGTT
1 CTTTCATTATAAATAAGAGTT
46504 CTTTCATTATAAATAAGAGTT
1 CTTTCATTATAAATAAGAGTT
*
46525 C-ATCATTAT
1 CTTTCATTAT
46534 CATTTTCGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 11 0.39
21 17 0.61
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.44
Consensus pattern (21 bp):
CTTTCATTATAAATAAGAGTT
Found at i:49289 original size:201 final size:200
Alignment explanation
Indices: 48935--49340 Score: 686
Period size: 201 Copynumber: 2.0 Consensus size: 200
48925 GCTAACTCAC
* * *
48935 ATGTTGTTTGTAGGTTTACACGAGCAAATCAATCTTTTTTTTTGAAGAATTGGAAAATCCAGAAG
1 ATGTTATTCGTAGGTTTACACGAGCAAATCAATATTTTTTTTTGAAGAATTGGAAAATCCAGAAG
*
49000 AAAGAATTGTCACTTCAAACTATAAAGTAAATCTTGCTGAGATGTGGTGTGACTGTGGTAAGTTC
66 AAAGAATTGTCACTTCAAACTATAAAGTAAATCTTGCTGAGATATGGTGTGACTGTGGTAAGTTC
**
49065 CAACCACAAAGGTTTTTATGTTCACATGTTGTTGCTACTTGTGCTCATGTCCATATAGATTGCAT
131 CAACCACAAAGGTTTCCATGTTCACATGTTGTTGCTACTTGTGCTCATGTCCATATAGATTGCAT
49130 GGAAT
196 GGAAT
49135 ATGTTATTCGTAGGTTTACACGAGCAAATCAATATTTTTTTATTGAAGAATTGGAAAATCCAGAA
1 ATGTTATTCGTAGGTTTACACGAGCAAATCAATATTTTTTT-TTGAAGAATTGGAAAATCCAGAA
* * ** *
49200 GAAGGAGTTGTTGCTTCAAACTATAAAGTAAATCTTGCTGATATATGGTGTGACTGTGGTAAGTT
65 GAAAGAATTGTCACTTCAAACTATAAAGTAAATCTTGCTGAGATATGGTGTGACTGTGGTAAGTT
* *
49265 CCAAGCACAAAGGTTTCCATGTTCACATGTTGTTGCTACTTGTGTTCATGTCCATATAGATTGCA
130 CCAACCACAAAGGTTTCCATGTTCACATGTTGTTGCTACTTGTGCTCATGTCCATATAGATTGCA
49330 TGGAAT
195 TGGAAT
49336 ATGTT
1 ATGTT
49341 GACAATGTTT
Statistics
Matches: 192, Mismatches: 13, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
200 38 0.20
201 154 0.80
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.36
Consensus pattern (200 bp):
ATGTTATTCGTAGGTTTACACGAGCAAATCAATATTTTTTTTTGAAGAATTGGAAAATCCAGAAG
AAAGAATTGTCACTTCAAACTATAAAGTAAATCTTGCTGAGATATGGTGTGACTGTGGTAAGTTC
CAACCACAAAGGTTTCCATGTTCACATGTTGTTGCTACTTGTGCTCATGTCCATATAGATTGCAT
GGAAT
Found at i:50160 original size:11 final size:11
Alignment explanation
Indices: 50144--50181 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
50134 ATAAATTTGT
50144 ATAAATTATAA
1 ATAAATTATAA
*
50155 ATAAATTAAAA
1 ATAAATTATAA
*
50166 ATAATTTATAA
1 ATAAATTATAA
50177 ATAAA
1 ATAAA
50182 AGTAATAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
ATAAATTATAA
Found at i:50623 original size:15 final size:15
Alignment explanation
Indices: 50605--50635 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
50595 ATAATACATG
50605 TAAAAATAAATTTAA
1 TAAAAATAAATTTAA
*
50620 TAAAAATGAATTTAA
1 TAAAAATAAATTTAA
50635 T
1 T
50636 TAATTTTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (15 bp):
TAAAAATAAATTTAA
Found at i:51466 original size:24 final size:26
Alignment explanation
Indices: 51416--51488 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 26
51406 GATTTTTATC
51416 AATACTTTTAATATAGTTATAATTTTAATAT
1 AATA-TTTTAAT-TA-TT-TAA-TTTAATAT
51447 -ATATTTT-ATTATTTAATTTAATAT
1 AATATTTTAATTATTTAATTTAATAT
51471 AAATATTTTAATTATTTA
1 -AATATTTTAATTATTTA
51489 TTATATATAC
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
24 8 0.21
25 3 0.08
26 9 0.23
27 10 0.26
28 2 0.05
29 4 0.10
30 3 0.08
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (26 bp):
AATATTTTAATTATTTAATTTAATAT
Found at i:51497 original size:26 final size:26
Alignment explanation
Indices: 51439--51488 Score: 77
Period size: 24 Copynumber: 2.0 Consensus size: 26
51429 TAGTTATAAT
51439 TTTAATAT--ATATTTTATTATTTAA
1 TTTAATATAAATATTTTATTATTTAA
51463 TTTAATATAAATATTTTAATTATTTA
1 TTTAATATAAATATTTT-ATTATTTA
51489 TTATATATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 8 0.35
26 7 0.30
27 8 0.35
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (26 bp):
TTTAATATAAATATTTTATTATTTAA
Found at i:51964 original size:20 final size:20
Alignment explanation
Indices: 51924--51966 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
51914 TTATAATATA
* *
51924 ATATAATATATTTATTTTTT
1 ATATAATATATTTAATCTTT
*
51944 ATATGATATATTTAATCTTT
1 ATATAATATATTTAATCTTT
51964 ATA
1 ATA
51967 AAAAATTACA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (20 bp):
ATATAATATATTTAATCTTT
Found at i:52091 original size:18 final size:17
Alignment explanation
Indices: 52066--52115 Score: 82
Period size: 18 Copynumber: 2.9 Consensus size: 17
52056 ATAAAATTCG
52066 ATTTATTTTTTAAATAA
1 ATTTATTTTTTAAATAA
*
52083 ATTTAATTTTTTAATTAA
1 ATTT-ATTTTTTAAATAA
52101 ATTTATTTTTTAAAT
1 ATTTATTTTTTAAAT
52116 TTATTTAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 14 0.47
18 16 0.53
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTTATTTTTTAAATAA
Found at i:52092 original size:17 final size:17
Alignment explanation
Indices: 52066--52138 Score: 65
Period size: 17 Copynumber: 4.2 Consensus size: 17
52056 ATAAAATTCG
*
52066 ATTTATTTTTTAAATAA
1 ATTTAATTTTTAAATAA
*
52083 ATTTAATTTTTTAATTAA
1 ATTTAA-TTTTTAAATAA
* **
52101 ATTTATTTTTTAAATTT
1 ATTTAATTTTTAAATAA
* * *
52118 ATTTAAATATTAAGTAA
1 ATTTAATTTTTAAATAA
52135 ATTT
1 ATTT
52139 TTAAATTTAA
Statistics
Matches: 43, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
17 28 0.65
18 15 0.35
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (17 bp):
ATTTAATTTTTAAATAA
Found at i:52113 original size:13 final size:13
Alignment explanation
Indices: 52097--52121 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52087 AATTTTTTAA
52097 TTAAATTTATTTT
1 TTAAATTTATTTT
52110 TTAAATTTATTT
1 TTAAATTTATTT
52122 AAATATTAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTAAATTTATTTT
Found at i:52153 original size:18 final size:19
Alignment explanation
Indices: 52119--52154 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
52109 TTTAAATTTA
*
52119 TTTAAATATTAAGTAAATT
1 TTTAAATATTAAATAAATT
52138 TTTAAAT-TTAAATAAAT
1 TTTAAATATTAAATAAAT
52155 AATTTAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (19 bp):
TTTAAATATTAAATAAATT
Found at i:52160 original size:19 final size:18
Alignment explanation
Indices: 52117--52165 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
52107 TTTTTAAATT
*
52117 TATTTAAATATTAAGTAAA
1 TATTTAAAT-TTAAATAAA
*
52136 TTTTTAAATTTAAATAAA
1 TATTTAAATTTAAATAAA
52154 TAATTT-AATTTA
1 T-ATTTAAATTTA
52166 GACGTGTCTC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 15 0.58
19 11 0.42
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (18 bp):
TATTTAAATTTAAATAAA
Found at i:52621 original size:17 final size:17
Alignment explanation
Indices: 52601--52672 Score: 51
Period size: 17 Copynumber: 4.2 Consensus size: 17
52591 TTAATTAATA
52601 AAATTAAAATTAAAATT
1 AAATTAAAATTAAAATT
** *
52618 AAATTATTATAATAAATT
1 AAATTAAAATTA-AAATT
*
52636 ATA-TAAAATATAAAA-T
1 AAATTAAAAT-TAAAATT
*
52652 AAATTAAGA-TAAAATAT
1 AAATTAAAATTAAAAT-T
52669 AAAT
1 AAAT
52673 ATGATACGAT
Statistics
Matches: 41, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
15 5 0.12
16 3 0.07
17 25 0.61
18 8 0.20
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (17 bp):
AAATTAAAATTAAAATT
Found at i:52673 original size:21 final size:21
Alignment explanation
Indices: 52628--52671 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
52618 AAATTATTAT
*
52628 AATAAATTATATAAAATATAA
1 AATAAATTAGATAAAATATAA
52649 AATAAATTAAGATAAAATATAA
1 AATAAATT-AGATAAAATATAA
52671 A
1 A
52672 TATGATACGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (21 bp):
AATAAATTAGATAAAATATAA
Found at i:53988 original size:7 final size:7
Alignment explanation
Indices: 53963--54006 Score: 61
Period size: 7 Copynumber: 6.1 Consensus size: 7
53953 TTCTACAGTT
53963 AAAAATA
1 AAAAATA
* *
53970 AAAATTTT
1 AAAA-ATA
53978 AAAAATA
1 AAAAATA
53985 AAAAATA
1 AAAAATA
53992 AAAAATA
1 AAAAATA
53999 AAAAATA
1 AAAAATA
54006 A
1 A
54007 TGAAACATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
7 27 0.84
8 5 0.16
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (7 bp):
AAAAATA
Found at i:64136 original size:3 final size:3
Alignment explanation
Indices: 64128--64168 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
64118 TTATTTTTAC
64128 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
64169 GGGTTAAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:64242 original size:38 final size:38
Alignment explanation
Indices: 64191--64286 Score: 192
Period size: 38 Copynumber: 2.5 Consensus size: 38
64181 GAAATTAACC
64191 CATAAATCACAGCCTTCACTTTTACATTTGATTCATTT
1 CATAAATCACAGCCTTCACTTTTACATTTGATTCATTT
64229 CATAAATCACAGCCTTCACTTTTACATTTGATTCATTT
1 CATAAATCACAGCCTTCACTTTTACATTTGATTCATTT
64267 CATAAATCACAGCCTTCACT
1 CATAAATCACAGCCTTCACT
64287 CTCAAGATTT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 58 1.00
ACGTcount: A:0.30, C:0.26, G:0.05, T:0.39
Consensus pattern (38 bp):
CATAAATCACAGCCTTCACTTTTACATTTGATTCATTT
Found at i:64314 original size:1 final size:1
Alignment explanation
Indices: 64308--64332 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
64298 AGTTCACGAG
64308 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
64333 ATGGATAGGG
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:70363 original size:2 final size:2
Alignment explanation
Indices: 70356--70384 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
70346 CATCGATGCC
70356 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
70385 GTCATGAAAC
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:71646 original size:26 final size:24
Alignment explanation
Indices: 71593--71658 Score: 73
Period size: 26 Copynumber: 2.7 Consensus size: 24
71583 TATTTATTCT
*
71593 TTATATAAA-A-AAGATTATATAA
1 TTATATAAATACAAAATTATATAA
71615 TATATATAAATACAAAATTAATATATA
1 T-TATATAAATACAAAATT-ATATA-A
*
71642 TTATATAATTACAAAAT
1 TTATATAAATACAAAAT
71659 AGCCAAGCTT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
22 1 0.03
23 8 0.22
24 1 0.03
25 5 0.14
26 20 0.54
27 2 0.05
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.38
Consensus pattern (24 bp):
TTATATAAATACAAAATTATATAA
Found at i:71812 original size:18 final size:20
Alignment explanation
Indices: 71771--71813 Score: 54
Period size: 18 Copynumber: 2.2 Consensus size: 20
71761 TAAGTTTGTT
71771 TAAATTCTTCAAATATTGAA
1 TAAATTCTTCAAATATTGAA
* *
71791 TAAATT-TTTAAAT-TTGAG
1 TAAATTCTTCAAATATTGAA
71809 TAAAT
1 TAAAT
71814 AACTCAACCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 9 0.43
19 6 0.29
20 6 0.29
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (20 bp):
TAAATTCTTCAAATATTGAA
Found at i:73210 original size:20 final size:20
Alignment explanation
Indices: 73181--73222 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
73171 TATAATTAAA
73181 TTTAAATAAAAATATTTTAT
1 TTTAAATAAAAATATTTTAT
* *
73201 TTTAATTAAAAATTTTTTAT
1 TTTAAATAAAAATATTTTAT
73221 TT
1 TT
73223 AAAGTTGAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TTTAAATAAAAATATTTTAT
Found at i:76826 original size:13 final size:13
Alignment explanation
Indices: 76808--76837 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
76798 TTATTATTAA
*
76808 TTTAATTATAATT
1 TTTAATTAAAATT
76821 TTTAATTAAAATT
1 TTTAATTAAAATT
76834 TTTA
1 TTTA
76838 CGTTTCTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTAATTAAAATT
Found at i:81261 original size:13 final size:13
Alignment explanation
Indices: 81243--81267 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
81233 TTATTAGTAT
81243 ATTTTTAAAAATG
1 ATTTTTAAAAATG
81256 ATTTTTAAAAAT
1 ATTTTTAAAAAT
81268 ATATAATGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (13 bp):
ATTTTTAAAAATG
Found at i:81980 original size:28 final size:29
Alignment explanation
Indices: 81940--81997 Score: 91
Period size: 28 Copynumber: 2.0 Consensus size: 29
81930 TTTAATAATA
81940 ATAAATTATTAAAAAAATATT-ATTTTAT
1 ATAAATTATTAAAAAAATATTGATTTTAT
* *
81968 ATAAATTATTAAATAATTATTGATTTTAT
1 ATAAATTATTAAAAAAATATTGATTTTAT
81997 A
1 A
81998 CTTTGATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 19 0.70
29 8 0.30
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (29 bp):
ATAAATTATTAAAAAAATATTGATTTTAT
Found at i:83181 original size:29 final size:29
Alignment explanation
Indices: 83149--83206 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
83139 GTAAATAAAA
* *
83149 TATTTTAATTTTTATA-TTATTAAATTTTT
1 TATTTTAATGTTTATACTT-TTAAAATTTT
83178 TATTTTAATGTTTATACTTTTAAAATTTT
1 TATTTTAATGTTTATACTTTTAAAATTTT
83207 AATAAATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 24 0.92
30 2 0.08
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (29 bp):
TATTTTAATGTTTATACTTTTAAAATTTT
Found at i:91096 original size:110 final size:110
Alignment explanation
Indices: 90903--91112 Score: 316
Period size: 110 Copynumber: 1.9 Consensus size: 110
90893 CTTCAAAGAA
*
90903 CATCAAATTTGTCTGATTTTCAAAGAAATTCATGTTTTATACAACCTAATCCAATTATGCCCAGT
1 CATCAAATTTGTCTGATTTTCAAAGAAATTCATGTTTTATACAACCTAATCCAATTATGCCCAGG
90968 AAAATAAGGCATGTATCCTATTAGTTTTGAAATTTGAGTCGACAT
66 AAAATAAGGCATGTATCCTATTAGTTTTGAAATTTGAGTCGACAT
* * * ***
91013 CATCAAATTTGTCTGATTTTCAAAGAAATTCATGTTTTCTACAACCTAATTC-ATTCGTGTTTAG
1 CATCAAATTTGTCTGATTTTCAAAGAAATTCATGTTTTATACAACCTAATCCAATT-ATGCCCAG
*
91077 GAAAAT-GGGACATGTATCCTATTAGTTTTGAAATTT
65 GAAAATAAGG-CATGTATCCTATTAGTTTTGAAATTT
91113 TTAAGCCAAC
Statistics
Matches: 90, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
109 5 0.06
110 85 0.94
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (110 bp):
CATCAAATTTGTCTGATTTTCAAAGAAATTCATGTTTTATACAACCTAATCCAATTATGCCCAGG
AAAATAAGGCATGTATCCTATTAGTTTTGAAATTTGAGTCGACAT
Found at i:91827 original size:44 final size:43
Alignment explanation
Indices: 91706--91914 Score: 125
Period size: 44 Copynumber: 4.7 Consensus size: 43
91696 CCATTAGACA
* * * * *
91706 ATATTGGCAATTGTATCGTATTATGTGTATTTGCTTCTTT-ATTG
1 ATATT-GCATTTGCATCGTATCATGTGTATTTGC-ACTTTAAATG
* * ***
91750 ATACTTGCATTTGCATTGTTTTCATGCACATTTGCACTTTAAATG
1 ATA-TTGCATTTGCATCG-TATCATGTGTATTTGCACTTTAAATG
* *
91795 ATATTAGCATTTGCATCGTATCATGTGTATTTGC-CTCTTTATTG
1 ATATT-GCATTTGCATCGTATCATGTGTATTTGCACT-TTAAATG
* * * * ** * *
91839 ATGCTTGCATTGGCATCGTTTTATGCATATTTACACTTTAGATG
1 AT-ATTGCATTTGCATCGTATCATGTGTATTTGCACTTTAAATG
* * *
91883 ACATTGGCATTTGTATCGTATCATGTGCATTT
1 ATATT-GCATTTGCATCGTATCATGTGTATTT
91915 ACCTCTTTAT
Statistics
Matches: 121, Mismatches: 36, Indels: 16
0.70 0.21 0.09
Matches are distributed among these distances:
43 4 0.03
44 83 0.69
45 34 0.28
ACGTcount: A:0.22, C:0.15, G:0.17, T:0.46
Consensus pattern (43 bp):
ATATTGCATTTGCATCGTATCATGTGTATTTGCACTTTAAATG
Found at i:91920 original size:88 final size:88
Alignment explanation
Indices: 91708--91982 Score: 338
Period size: 88 Copynumber: 3.1 Consensus size: 88
91698 ATTAGACAAT
* * * * * *
91708 ATTGGCAATTGTATCGTATTATGTGTATTTGCTTCTTTATTGATACTTGCATTTGCATTGTTTTC
1 ATTGGCATTTGTATCGTATCATGTGTATTTGCCTCTTTATTGATGCTTGCATTGGCATCGTTTT-
* * *
91773 ATGCACATTTGCACTTTAAATGAT
65 ATGCATATTTGCACTTTAGATGAC
* *
91797 ATTAGCATTTGCATCGTATCATGTGTATTTGCCTCTTTATTGATGCTTGCATTGGCATCGTTTTA
1 ATTGGCATTTGTATCGTATCATGTGTATTTGCCTCTTTATTGATGCTTGCATTGGCATCGTTTTA
*
91862 TGCATATTTACACTTTAGATGAC
66 TGCATATTTGCACTTTAGATGAC
* * * * *
91885 ATTGGCATTTGTATCGTATCATGTGCATTTACCTCTTTATTAATGCTTGCA-TGTGCATCATTTC
1 ATTGGCATTTGTATCGTATCATGTGTATTTGCCTCTTTATTGATGCTTGCATTG-GCATCGTTTT
* *
91949 ACGCATATTTGCACTTTAGAT-TC
65 ATGCATATTTGCACTTTAGATGAC
*
91972 ATTGGTATTTG
1 ATTGGCATTTG
91983 GATCAATTCA
Statistics
Matches: 162, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
87 13 0.08
88 93 0.57
89 56 0.35
ACGTcount: A:0.22, C:0.16, G:0.16, T:0.46
Consensus pattern (88 bp):
ATTGGCATTTGTATCGTATCATGTGTATTTGCCTCTTTATTGATGCTTGCATTGGCATCGTTTTA
TGCATATTTGCACTTTAGATGAC
Found at i:92031 original size:87 final size:88
Alignment explanation
Indices: 91742--92034 Score: 205
Period size: 88 Copynumber: 3.3 Consensus size: 88
91732 GTATTTGCTT
* * * ** * * * * * *
91742 CTTTATTGATACTTGCATTTGCATTGTTTTCATGCACATTTGCACTTTAAATGATATTAGCATTT
1 CTTTATTAATAATTGCATGTGCA-TCATTTCACGCATATTTACACTTTAGATGACATTGGCATTT
* * * ** * *
91807 GCATCGTATCATGTGTATTTGCCT
65 GGATCATATCATATACATTTACCA
* ** * * *
91831 CTTTATTGATGCTTGCAT-TGGCATCGTTTTATGCATATTTACACTTTAGATGACATTGGCATTT
1 CTTTATTAATAATTGCATGT-GCATCATTTCACGCATATTTACACTTTAGATGACATTGGCATTT
* * * * *
91895 GTATCGTATCATGTGCATTTACCT
65 GGATCATATCATATACATTTACCA
** * * *
91919 CTTTATTAATGCTTGCATGTGCATCATTTCACGCATATTTGCACTTTAGAT-TCATTGGTATTTG
1 CTTTATTAATAATTGCATGTGCATCATTTCACGCATATTTACACTTTAGATGACATTGGCATTTG
*
91983 GATCA-ATTCATATACATTTGCCA
66 GATCATA-TCATATACATTTACCA
* *
92006 CTTTATTAATAATTGCATTTTCATCATTT
1 CTTTATTAATAATTGCATGTGCATCATTT
92035 TACGTGTATC
Statistics
Matches: 172, Mismatches: 29, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
86 1 0.01
87 51 0.30
88 99 0.58
89 21 0.12
ACGTcount: A:0.24, C:0.17, G:0.14, T:0.45
Consensus pattern (88 bp):
CTTTATTAATAATTGCATGTGCATCATTTCACGCATATTTACACTTTAGATGACATTGGCATTTG
GATCATATCATATACATTTACCA
Found at i:92506 original size:60 final size:59
Alignment explanation
Indices: 92433--92866 Score: 358
Period size: 59 Copynumber: 7.3 Consensus size: 59
92423 GCTCATAAAT
* * * *
92433 AGTCATT-TTTAGGTTTTTCGTTTTATGCAAGCCATTTTGTTGAGTTTTGATTTTGCCCA
1 AGTCATTGTTTAGGTTTTTGGTTTTATCCAAGCCATTTT-TTGAGTCTTGGTTTTGCCCA
* * * * * * *
92492 AGTCATTGTTTAGGTTTTTAGTCTTGTCCAAGCCATTTTGTTAAGTTTTTGTTTTGCCTTA
1 AGTCATTGTTTAGGTTTTTGGTTTTATCCAAGCCATTTT-TTGAGTCTTGGTTTTGCC-CA
* * *
92553 AGTCATTGTTTAGGTTTTTGGCTTTATCCAAGGCATTTCTTTTAGTCTTGGTTTTGCCCA
1 AGTCATTGTTTAGGTTTTTGGTTTTATCCAAGCCATTT-TTTGAGTCTTGGTTTTGCCCA
* ** * * * *** *
92613 AGTCATTG-TTAGGTTTTTAGATTTT-TTGAAGTCATTTTGTTGAATCTTGCTTTAATCTA
1 AGTCATTGTTTAGGTTTTT-GGTTTTATCCAAGCCATTTT-TTGAGTCTTGGTTTTGCCCA
* * * *
92672 AGTCATT-ATTAGGTTTTTGGTTTTACCCAAGCCATTTCTTTAAGT-TATGGTTTTACCCA
1 AGTCATTGTTTAGGTTTTTGGTTTTATCCAAGCCATTT-TTTGAGTCT-TGGTTTTGCCCA
* * * * ** *
92731 AGTCATTGTTTGGGTTTCTGGTTTTATTCAGGATATTTCTTTGAGTCTTGGTTTCGCCCA
1 AGTCATTGTTTAGGTTTTTGGTTTTATCCAAGCCATTT-TTTGAGTCTTGGTTTTGCCCA
* * * * * * *
92791 GGTCATT-ATTAGGTTTTTGGCTTTATCTAAGCCATTTCATTGAGTCTTGGCTTTGCACA
1 AGTCATTGTTTAGGTTTTTGGTTTTATCCAAGCCATTT-TTTGAGTCTTGGTTTTGCCCA
92850 AGTCATTGTTTAGGTTT
1 AGTCATTGTTTAGGTTT
92867 CATCCATATC
Statistics
Matches: 296, Mismatches: 67, Indels: 23
0.77 0.17 0.06
Matches are distributed among these distances:
58 7 0.02
59 128 0.43
60 110 0.37
61 50 0.17
62 1 0.00
ACGTcount: A:0.18, C:0.14, G:0.19, T:0.49
Consensus pattern (59 bp):
AGTCATTGTTTAGGTTTTTGGTTTTATCCAAGCCATTTTTTGAGTCTTGGTTTTGCCCA
Found at i:92523 original size:30 final size:28
Alignment explanation
Indices: 92489--92572 Score: 87
Period size: 30 Copynumber: 2.8 Consensus size: 28
92479 TTGATTTTGC
92489 CCAAGTCATTGTTTAGGTTTTTAGTCTTG
1 CCAAGTCATTGTTTAGGTTTTT-GTCTTG
* * * *
92518 TCCAAGCCATTTTGTTAAGTTTTTGTTTTG
1 -CCAAGTCATTGT-TTAGGTTTTTGTCTTG
92548 CCTTAAGTCATTGTTTAGGTTTTTG
1 CC--AAGTCATTGTTTAGGTTTTTG
92573 GCTTTATCCA
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
29 2 0.05
30 25 0.57
31 17 0.39
ACGTcount: A:0.17, C:0.13, G:0.19, T:0.51
Consensus pattern (28 bp):
CCAAGTCATTGTTTAGGTTTTTGTCTTG
Found at i:92540 original size:31 final size:30
Alignment explanation
Indices: 92460--92541 Score: 85
Period size: 30 Copynumber: 2.7 Consensus size: 30
92450 TCGTTTTATG
* * *
92460 CAAGCCATTTTGTTGAGTTTTGATTTTGCC
1 CAAGCCATTTTGTTAAGTTTTTATCTTGCC
* * * *
92490 CAAGTCATTGT-TTAGGTTTTTAGTCTTGTC
1 CAAGCCATTTTGTTAAGTTTTTA-TCTTGCC
92520 CAAGCCATTTTGTTAAGTTTTT
1 CAAGCCATTTTGTTAAGTTTTT
92542 GTTTTGCCTT
Statistics
Matches: 40, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
29 8 0.20
30 23 0.57
31 9 0.22
ACGTcount: A:0.18, C:0.15, G:0.18, T:0.49
Consensus pattern (30 bp):
CAAGCCATTTTGTTAAGTTTTTATCTTGCC
Found at i:92753 original size:30 final size:31
Alignment explanation
Indices: 92680--92756 Score: 86
Period size: 30 Copynumber: 2.5 Consensus size: 31
92670 TAAGTCATTA
*
92680 TTAGGTTTTTGGTTTTACCCAAGCCATTTCT
1 TTAGGTTTATGGTTTTACCCAAGCCATTTCT
* * *
92711 TTAAG-TTATGGTTTTACCCAAGTCA-TTGT
1 TTAGGTTTATGGTTTTACCCAAGCCATTTCT
* *
92740 TTGGGTTTCTGGTTTTA
1 TTAGGTTTATGGTTTTA
92757 TTCAGGATAT
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
29 6 0.16
30 28 0.74
31 4 0.11
ACGTcount: A:0.17, C:0.14, G:0.19, T:0.49
Consensus pattern (31 bp):
TTAGGTTTATGGTTTTACCCAAGCCATTTCT
Found at i:92823 original size:119 final size:119
Alignment explanation
Indices: 92433--92867 Score: 375
Period size: 119 Copynumber: 3.6 Consensus size: 119
92423 GCTCATAAAT
* * * * * * *
92433 AGTCATTTTTAGGTTTTTCGTTTTATGCAAGCCATTT-TGTTGAGTTTTGATTTTGCCCAAGTCA
1 AGTCATTATTAGGTTTTTGGCTTTATCCAAGCCATTTCT-TTAAGTCTTGGTTTTGCCCAAGTCA
* * * * * ** *
92497 TTGTTTAGGTTTTTAG-TCTTGTCCAAGCCATTTTGTT-AAGTTTTTG-TTTTGCCTTA
65 TTGTTTAGGTTTCTAGAT-TTTTTCAAGTCATTTTGTTGAA--TCTTGCTTTAACC-CA
* * *
92553 AGTCATTGTTTAGGTTTTTGGCTTTATCCAAGGCATTTCTTTTAGTCTTGGTTTTGCCCAAGTCA
1 AGTCATT-ATTAGGTTTTTGGCTTTATCCAAGCCATTTCTTTAAGTCTTGGTTTTGCCCAAGTCA
* * * *
92618 TTG-TTAGGTTTTTAGATTTTTTGAAGTCATTTTGTTGAATCTTGCTTTAATCTA
65 TTGTTTAGGTTTCTAGATTTTTTCAAGTCATTTTGTTGAATCTTGCTTTAACCCA
* * *
92672 AGTCATTATTAGGTTTTTGGTTTTACCCAAGCCATTTCTTTAAGT-TATGGTTTTACCCAAGTCA
1 AGTCATTATTAGGTTTTTGGCTTTATCCAAGCCATTTCTTTAAGTCT-TGGTTTTGCCCAAGTCA
* * * * * **
92736 TTGTTTGGGTTTCT-GGTTTTATTCAGGAT-ATTTCT-TTGAGTCTTGGTTTCGCCCA
65 TTGTTTAGGTTTCTAGATTTT-TTCAAG-TCATTT-TGTTGAATCTTGCTTTAACCCA
* * * * * *
92791 GGTCATTATTAGGTTTTTGGCTTTATCTAAGCCATTTCATTGAGTCTTGGCTTTGCACAAGTCAT
1 AGTCATTATTAGGTTTTTGGCTTTATCCAAGCCATTTCTTTAAGTCTTGGTTTTGCCCAAGTCAT
92856 TGTTTAGGTTTC
66 TGTTTAGGTTTC
92868 ATCCATATCT
Statistics
Matches: 262, Mismatches: 42, Indels: 23
0.80 0.13 0.07
Matches are distributed among these distances:
117 1 0.00
118 57 0.22
119 108 0.41
120 41 0.16
121 54 0.21
122 1 0.00
ACGTcount: A:0.18, C:0.14, G:0.19, T:0.49
Consensus pattern (119 bp):
AGTCATTATTAGGTTTTTGGCTTTATCCAAGCCATTTCTTTAAGTCTTGGTTTTGCCCAAGTCAT
TGTTTAGGTTTCTAGATTTTTTCAAGTCATTTTGTTGAATCTTGCTTTAACCCA
Found at i:93958 original size:40 final size:40
Alignment explanation
Indices: 93896--93988 Score: 116
Period size: 40 Copynumber: 2.3 Consensus size: 40
93886 CATCCTAGAC
* * *
93896 AACCTTTCCCATTTGCTGACTTGTATGTTTTGTCTCA-ATT
1 AACCTTTCCCATTTGCTAACTTGCAAGTTTTGTC-CAGATT
* * *
93936 AACCCTTCCCATTTGTTAACTTGCAAGTTTTGTCCAGGTT
1 AACCTTTCCCATTTGCTAACTTGCAAGTTTTGTCCAGATT
93976 AACCTTTCCCATT
1 AACCTTTCCCATT
93989 CATTGACTTC
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
39 2 0.04
40 43 0.96
ACGTcount: A:0.19, C:0.26, G:0.12, T:0.43
Consensus pattern (40 bp):
AACCTTTCCCATTTGCTAACTTGCAAGTTTTGTCCAGATT
Found at i:94335 original size:66 final size:66
Alignment explanation
Indices: 94090--95180 Score: 590
Period size: 65 Copynumber: 16.8 Consensus size: 66
94080 TTGGTTAACT
* * * * * *
94090 CTTTTAGACCTAGGATTATATCTTGGTTA-CTTTGTTTGACTGTATC-GATTTTACCTTAATCAA
1 CTTTTAGACCTAGGATTATATCCTAGTCACCTTTGTTTGACTGTATCAG-TTTTGCCCTAGTCAA
94153 -C
65 CC
* * * * * * * * * *
94154 CTTGTAGACCTAGG-TTACATCTTGGTCACCTTCGTTTAACTGTAAT-TGTTTTGCCTTGGTTAA
1 CTTTTAGACCTAGGATTATATCCTAGTCACCTTTGTTTGACTGT-ATCAGTTTTGCCCTAGTCAA
94217 -C
65 CC
* * * * * * * * *
94218 CTTTTCGATCTAGG-TTACATTCTAGTTATCTTTGCTTGACTGTATCGGTTTTGCCCTAGTTAAC
1 CTTTTAGACCTAGGATTATATCCTAGTCACCTTTGTTTGACTGTATCAGTTTTGCCCTAGTCAAC
94282 C
66 C
* * * * * * *
94283 CTTTTAGACTTAGGATTACATCCTAGTTACCTTTATTTGACTATATCAGTTTTGCCTTAGTTAAC
1 CTTTTAGACCTAGGATTATATCCTAGTCACCTTTGTTTGACTGTATCAGTTTTGCCCTAGTCAAC
94348 C
66 C
* * * * * ** * ** * *
94349 TTTTTAGTCCTAGGATTATATCTTGGTCATCTTTACTTGGCTGTATTGGTTTTG-CCTTGGCAAC
1 CTTTTAGACCTAGGATTATATCCTAGTCACCTTTGTTTGACTGTATCAGTTTTGCCCTAGTCAAC
94413 C
66 C
* * * * ** *
94414 CTTTTAGACCCAAGATTATATCTTGGTCACCTTCATTTGATTGTATCAGTTTTGCCCTAGTCAAC
1 CTTTTAGACCTAGGATTATATCCTAGTCACCTTTGTTTGACTGTATCAGTTTTGCCCTAGTCAAC
94479 C
66 C
* * * * * * * *
94480 C-TTTAAACCTATG-TTACATCCTAGGCACCTTCGTTTGATTGTAT-TGATTTTGCCTTAGTCAA
1 CTTTTAGACCTAGGATTATATCCTAGTCACCTTTGTTTGACTGTATCAG-TTTTGCCCTAGTCAA
*
94542 CA
65 CC
* * * * * * *
94544 C-TTTAGACTTAGG-TTATGTCCTGGTCATCTTTGTTTGACTGTATC-GATTTACCTTAGTCAAC
1 CTTTTAGACCTAGGATTATATCCTAGTCACCTTTGTTTGACTGTATCAGTTTTGCCCTAGTCAAC
94606 C
66 C
* * * * * * * * *
94607 C-TTTAGACCTCGG-TTACATCCTAGTCATCTTTGCTTGACTGTATTA-ATTTGACCTGGTAAAC
1 CTTTTAGACCTAGGATTATATCCTAGTCACCTTTGTTTGACTGTATCAGTTTTGCCCTAGTCAAC
94669 C
66 C
* * * * * * * * *
94670 CTTTTAGATCGAAGATTATATCCTAGTCA-TTTTCATTTGATTGTATC-GGTTT-CATCTTGTTC
1 CTTTTAGACCTAGGATTATATCCTAGTCACCTTT-GTTTGACTGTATCAGTTTTGC-CCTAG-TC
*
94732 AACT
63 AACC
* * * * * * * ** * *
94736 TTTTTAGACCCAAGATTATAT-CTGGCCATCTTTGTTTGACTATATCAGTTTTGCATTAATTAAC
1 CTTTTAGACCTAGGATTATATCCTAGTCACCTTTGTTTGACTGTATCAGTTTTGCCCTAGTCAAC
94800 C
66 C
* * * *
94801 CTTTTAGACCTAGGATTATATCCTTGTCACCTTCT-CTTGACTATATTAG-TTTGCCCTAGTCAA
1 CTTTTAGACCTAGGATTATATCCTAGTCACCTT-TGTTTGACTGTATCAGTTTTGCCCTAGTCAA
94864 CC
65 CC
* * * * * *
94866 CTTTTAGACC-CGATATTATATCCTGGTCACCTTTGTTTG-CTTCTATCAATTTTGCCCTAGTTA
1 CTTTTAGACCTAG-GATTATATCCTAGTCACCTTTGTTTGAC-TGTATCAGTTTTGCCCTAGTCA
94929 ACC
64 ACC
* * * * * * * ** *
94932 C-TCTAGATCTAGGATTATATCCTGGCCACCTTCGGTTGACTATATTTGTTTTGCCCTGGTCAAC
1 CTTTTAGACCTAGGATTATATCCTAGTCACCTTTGTTTGACTGTATCAGTTTTGCCCTAGTCAAC
94996 C
66 C
* * * ** * * **
94997 C-TTTAGACCTAGGATTATATCATAATCATCTTCATTTGACTATAT-GGATTTCACCCTAGTCAA
1 CTTTTAGACCTAGGATTATATCCTAGTCACCTTTGTTTGACTGTATCAG-TTTTGCCCTAGTCAA
*
95060 TC
65 CC
* * * * * * *
95062 CTTTTAGACCTAGGATTATATACTGGTCAGCTTCGTTTGATTGTATCATTTTTTCCCTTA-TCAA
1 CTTTTAGACCTAGGATTATATCCTAGTCACCTTTGTTTGACTGTATCAGTTTTGCCC-TAGTCAA
95126 CC
65 CC
* ** * * * *
95128 C-TTTAGACCTAGG-TTACATTATGGTCATCTTTGCTTGACTGCATC-GTTTTGCC
1 CTTTTAGACCTAGGATTATATCCTAGTCACCTTTGTTTGACTGTATCAGTTTTGCC
95181 ACTGTCGATA
Statistics
Matches: 795, Mismatches: 201, Indels: 63
0.75 0.19 0.06
Matches are distributed among these distances:
63 86 0.11
64 198 0.25
65 296 0.37
66 211 0.27
67 4 0.01
ACGTcount: A:0.21, C:0.22, G:0.15, T:0.42
Consensus pattern (66 bp):
CTTTTAGACCTAGGATTATATCCTAGTCACCTTTGTTTGACTGTATCAGTTTTGCCCTAGTCAAC
C
Found at i:94959 original size:196 final size:193
Alignment explanation
Indices: 94090--95180 Score: 639
Period size: 196 Copynumber: 5.6 Consensus size: 193
94080 TTGGTTAACT
* * * * * * * * *
94090 CTTTTAGACCTAGGATTATATCTTGGTTA-CTTTGTTTGACTGTATCGATTTTACCTTAATCAA-
1 CTTTTAGACCGA-GATTATATCCTGGTCACCTTCGTTTGATTGTATCAATTTTGCCCTAGTCAAC
* * * * * * * * * *
94153 CCTTGTAGACCTAGGTTACATCTTGGTCACCTTCGTTTAACTGTAATTGTTTTGCCTTGGTTAAC
65 CCTT-TAGACCTAGGTTATATCCTGGCCATCTTTGTTTGACTAT-ATCGTTTTGCCTTAGTCAAC
* * * * * * * *** * ** * *
94218 CTTTTCGATCTAGG-TTACATTCTAGTTATCTTTGCTTGACTGTATCGGTTTTGCCCTAGTTAAC
128 CCTTTAGACCTAGGATTATATCCTAGTCACCTTCATTTGACTATATTAGATTTGCCCTAGTCAAC
94282 C
193 C
** * * * ** * * * * *
94283 CTTTTAGACTTAGGATTACATCCTAGTTACCTTTATTTGACTATATCAGTTTTGCCTTAGTTAAC
1 CTTTTAGACCGA-GATTATATCCTGGTCACCTTCGTTTGATTGTATCAATTTTGCCCTAGTCAAC
* * * * ** * * * *
94348 CTTTTTAGTCCTAGGATTATATCTTGGTCATCTTTACTTGGCTGTATTGGTTTTGCCTT-GGCAA
65 C-CTTTAGACCTAGG-TTATATCCTGGCCATCTTTGTTTGACTATA-TCGTTTTGCCTTAGTCAA
* * * * * * * *
94412 CCCTTTTAGACCCAAGATTATATCTTGGTCACCTTCATTTGATTGTATCAGTTTTGCCCTAGTCA
127 CCC-TTTAGACCTAGGATTATATCCTAGTCACCTTCATTTGACTATATTAGATTTGCCCTAGTCA
94477 ACC
191 ACC
* * * ** *
94480 C-TTTAAACCTATG-TTACATCCTAGG-CACCTTCGTTTGATTGTATTGATTTTGCCTTAGTCAA
1 CTTTTAGACCGA-GATTATATCCT-GGTCACCTTCGTTTGATTGTATCAATTTTGCCCTAGTCAA
* * * * * * *
94542 CACTTTAGACTTAGGTTATGTCCTGGTCATCTTTGTTTGACTGTATCGATTTACCTTAGTCAACC
64 CCCTTTAGACCTAGGTTATATCCTGGCCATCTTTGTTTGACTATATCGTTTTGCCTTAGTCAACC
* * * *** * * * *
94607 CTTTAGACCTCGG-TTACATCCTAGTCATCTTTGCTTGACTGTATTA-ATTTGACCTGGTAAACC
129 CTTTAGACCTAGGATTATATCCTAGTCACCTTCATTTGACTATATTAGATTTGCCCTAGTCAACC
* * ** * ** * *
94670 CTTTTAGATCGAAGATTATATCCTAGTCATTTTCATTTGATTGTATC-GGTTT-CATCTTGTTCA
1 CTTTTAGACCG-AGATTATATCCTGGTCACCTTCGTTTGATTGTATCAATTTTGC-CCTAG-TCA
** * * * * *
94733 ACTTTTTTAGACCCAAGATTATAT-CTGGCCATCTTTGTTTGACTATATCAGTTTTGCATTAATT
63 AC-CCTTTAGA-CCTAGGTTATATCCTGGCCATCTTTGTTTGACTATATC-GTTTTGCCTTAGTC
*
94797 AACCCTTTTAGACCTAGGATTATATCCTTGTCACCTTC-TCTTGACTATATTAG-TTTGCCCTAG
125 AACCC-TTTAGACCTAGGATTATATCCTAGTCACCTTCAT-TTGACTATATTAGATTTGCCCTAG
94860 TCAACC
188 TCAACC
* * * * *
94866 CTTTTAGACCCGATATTATATCCTGGTCACCTTTGTTTGCTTCTATCAATTTTGCCCTAGTTAAC
1 CTTTTAGA-CCGAGATTATATCCTGGTCACCTTCGTTTGATTGTATCAATTTTGCCCTAGTCAAC
* * * * * * * *
94931 CCTCTAGATCTAGGATTATATCCTGGCCACCTTCGGTTGACTATATTTGTTTTGCCCTGGTCAAC
65 CCTTTAGACCTAGG-TTATATCCTGGCCATCTTTGTTTGACTATA-TCGTTTTGCCTTAGTCAAC
* * * * *
94996 CCTTTAGACCTAGGATTATATCATAATCATCTTCATTTGACTATA-TGGATTTCACCCTAGTCAA
128 CCTTTAGACCTAGGATTATATCCTAGTCACCTTCATTTGACTATATTAGATTT-GCCCTAGTCAA
*
95060 TC
192 CC
* * * * *
95062 CTTTTAGACCTAGGATTATATACTGGTCAGCTTCGTTTGATTGTATCATTTTTTCCCTTA-TCAA
1 CTTTTAGACCGA-GATTATATCCTGGTCACCTTCGTTTGATTGTATCAATTTTGCCC-TAGTCAA
* ** * * **
95126 CCCTTTAGACCTAGGTTACATTATGGTCATCTTTGCTTGACTGCATCGTTTTGCC
64 CCCTTTAGACCTAGGTTATATCCTGGCCATCTTTGTTTGACTATATCGTTTTGCC
95181 ACTGTCGATA
Statistics
Matches: 688, Mismatches: 177, Indels: 65
0.74 0.19 0.07
Matches are distributed among these distances:
190 15 0.02
191 37 0.05
192 48 0.07
193 86 0.12
194 73 0.11
195 140 0.20
196 237 0.34
197 51 0.07
198 1 0.00
ACGTcount: A:0.21, C:0.22, G:0.15, T:0.42
Consensus pattern (193 bp):
CTTTTAGACCGAGATTATATCCTGGTCACCTTCGTTTGATTGTATCAATTTTGCCCTAGTCAACC
CTTTAGACCTAGGTTATATCCTGGCCATCTTTGTTTGACTATATCGTTTTGCCTTAGTCAACCCT
TTAGACCTAGGATTATATCCTAGTCACCTTCATTTGACTATATTAGATTTGCCCTAGTCAACC
Found at i:95054 original size:130 final size:130
Alignment explanation
Indices: 94795--95140 Score: 326
Period size: 131 Copynumber: 2.6 Consensus size: 130
94785 TTTGCATTAA
* * *
94795 TTAACCCTTTTAGACCTAGGATTATATCCTTGTCACCTTCTCTTGACTATATTAG-TTTGCCCTA
1 TTAACCC-TTTAGACCTAGGATTATATCCTGGTCACCTTCGCTTGACTATATTTGTTTTGCCCTA
* * * ** ** * **
94859 GTCAACCCTTTTAGACC-CGATATTATATCCTGGTCACCTTTGTTTGCTTCTATCAATTTTGCCC
65 GTCAACCC-TTTAGACCTAG-GATTATATCATAATCACCTTCATTTGCTTATATCAATTTCACCC
94923 TAG
128 TAG
* * * * *
94926 TTAACCCTCTAGATCTAGGATTATATCCTGGCCACCTTCGGTTGACTATATTTGTTTTGCCCTGG
1 TTAACCCTTTAGACCTAGGATTATATCCTGGTCACCTTCGCTTGACTATATTTGTTTTGCCCTAG
* **
94991 TCAACCCTTTAGACCTAGGATTATATCATAATCATCTTCATTTGAC-TATATGGATTTCACCCTA
66 TCAACCCTTTAGACCTAGGATTATATCATAATCACCTTCATTTG-CTTATATCAATTTCACCCTA
95055 G
130 G
* * * * * * *
95056 TCAATCCTTTTAGACCTAGGATTATATACTGGTCAGCTTCGTTTGATTGTATCATT-TTTT-CCC
1 TTAA-CCCTTTAGACCTAGGATTATATCCTGGTCACCTTCGCTTGACTATAT--TTGTTTTGCCC
95119 TTA-TCAACCCTTTAGACCTAGG
63 -TAGTCAACCCTTTAGACCTAGG
95141 TTACATTATG
Statistics
Matches: 176, Mismatches: 32, Indels: 14
0.79 0.14 0.06
Matches are distributed among these distances:
130 84 0.48
131 85 0.48
132 5 0.03
133 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (130 bp):
TTAACCCTTTAGACCTAGGATTATATCCTGGTCACCTTCGCTTGACTATATTTGTTTTGCCCTAG
TCAACCCTTTAGACCTAGGATTATATCATAATCACCTTCATTTGCTTATATCAATTTCACCCTAG
Found at i:98406 original size:154 final size:154
Alignment explanation
Indices: 98198--98531 Score: 350
Period size: 154 Copynumber: 2.2 Consensus size: 154
98188 TGTCCTGATG
* * * ** * * *
98198 AAGATACTTTCACATTGAAAGTATAATCTAGGGGCATTTCAGTAATTTTTTTAAAATCGAGTCCT
1 AAGATACTTTCACGTCGAAGGTATACCCTAGAGGCATTTCAGTAATTATCTTAAAATCGAG-CCT
**** * *
98263 GAA-TAGTCATTGGGTTACTTTGATGCCATAGGTATGCA-TTAGGATAGGTTCATCCTTTTAAGA
65 GAAGTAGTCACCAAGTTACTTTGATGCCAGAGGTATGCATTTACGATAGGTTCA-CCTTTTAAGA
*** *
98326 TAATTTTTGTGTCCTTTA-AGGTTACT
129 TAATTTTCAAGTCCTTTAGA-GTTAAT
* * * *
98352 GAGATACTTTCACGTCGAAGGTATACCCTAGAGGTATTTTAGTAATTATCTTAAAATCGAGCCTT
1 AAGATACTTTCACGTCGAAGGTATACCCTAGAGGCATTTCAGTAATTATCTTAAAATCGAGCCTG
* * * * *
98417 AAGTAGTCACCAAGTTATTTTTATGCCAGAGGTGTGCATTTACGATAGGTTCACTTTTTAAGATC
66 AAGTAGTCACCAAGTTACTTTGATGCCAGAGGTATGCATTTACGATAGGTTCACCTTTTAAGATA
*
98482 GTTTTCAAGTCCTTTAGAGTTAAT
131 ATTTTCAAGTCCTTTAGAGTTAAT
* *
98506 AAAATACTTTCATGTCGAAGGTATAC
1 AAGATACTTTCACGTCGAAGGTATAC
98532 TTTAAGGGCA
Statistics
Matches: 146, Mismatches: 31, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
153 5 0.03
154 127 0.87
155 14 0.10
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (154 bp):
AAGATACTTTCACGTCGAAGGTATACCCTAGAGGCATTTCAGTAATTATCTTAAAATCGAGCCTG
AAGTAGTCACCAAGTTACTTTGATGCCAGAGGTATGCATTTACGATAGGTTCACCTTTTAAGATA
ATTTTCAAGTCCTTTAGAGTTAAT
Found at i:99631 original size:22 final size:22
Alignment explanation
Indices: 99584--99631 Score: 73
Period size: 21 Copynumber: 2.2 Consensus size: 22
99574 AAAATTTTAA
99584 AAATATTTTTATATTAATATTT
1 AAATATTTTTATATTAATATTT
99606 -AATATTTTTATAATTAA-ATTT
1 AAATATTTTTAT-ATTAATATTT
99627 AAATA
1 AAATA
99632 AAAATATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
AAATATTTTTATATTAATATTT
Found at i:100348 original size:20 final size:19
Alignment explanation
Indices: 100325--100368 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
100315 AGAAAAAAAC
*
100325 CCATTCCTCGTAAAAACTAT
1 CCATTACTCGTAAAAA-TAT
* *
100345 CCATTATTCTTAAAAATAT
1 CCATTACTCGTAAAAATAT
100364 CCATT
1 CCATT
100369 TTTTTTGTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.36, C:0.25, G:0.02, T:0.36
Consensus pattern (19 bp):
CCATTACTCGTAAAAATAT
Found at i:102017 original size:15 final size:16
Alignment explanation
Indices: 101997--102031 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
101987 TTGTAGTTAG
101997 ATTATATCTA-AAATT
1 ATTATATCTATAAATT
*
102012 ATTATATGTATAAATT
1 ATTATATCTATAAATT
102028 ATTA
1 ATTA
102032 GTCATCCCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (16 bp):
ATTATATCTATAAATT
Found at i:102186 original size:16 final size:16
Alignment explanation
Indices: 102146--102245 Score: 58
Period size: 16 Copynumber: 6.2 Consensus size: 16
102136 CGAAATTGAT
*
102146 TGATCCGAACTTGAAAA
1 TGATCCGAACCTG-AAA
* * *
102163 TAACCCGAATCTGAAA
1 TGATCCGAACCTGAAA
**
102179 TGATCCGAACCCAAAA
1 TGATCCGAACCTGAAA
* * *
102195 T-AACTCAAACCCGAAA
1 TGATC-CGAACCTGAAA
*
102211 TGATCCGAACTTGAAA
1 TGATCCGAACCTGAAA
* * *
102227 TGATTCAAATCTGAAA
1 TGATCCGAACCTGAAA
102243 TGA
1 TGA
102246 CTTGAATAAT
Statistics
Matches: 61, Mismatches: 20, Indels: 5
0.71 0.23 0.06
Matches are distributed among these distances:
15 2 0.03
16 48 0.79
17 11 0.18
ACGTcount: A:0.43, C:0.22, G:0.14, T:0.21
Consensus pattern (16 bp):
TGATCCGAACCTGAAA
Found at i:102243 original size:32 final size:32
Alignment explanation
Indices: 102146--102245 Score: 110
Period size: 32 Copynumber: 3.1 Consensus size: 32
102136 CGAAATTGAT
* *
102146 TGATCCGAACTTGAAAATAACCCGAATCTGAAA
1 TGATCCGAACTTG-AAATAACTCAAATCTGAAA
*** * *
102179 TGATCCGAACCCAAAATAACTCAAACCCGAAA
1 TGATCCGAACTTGAAATAACTCAAATCTGAAA
* *
102211 TGATCCGAACTTGAAATGATTCAAATCTGAAA
1 TGATCCGAACTTGAAATAACTCAAATCTGAAA
102243 TGA
1 TGA
102246 CTTGAATAAT
Statistics
Matches: 53, Mismatches: 14, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
32 43 0.81
33 10 0.19
ACGTcount: A:0.43, C:0.22, G:0.14, T:0.21
Consensus pattern (32 bp):
TGATCCGAACTTGAAATAACTCAAATCTGAAA
Found at i:109127 original size:19 final size:19
Alignment explanation
Indices: 109103--109165 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
109093 AACGATACAT
109103 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
109122 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
*
109135 TGTATCAATACAACACTTA
1 TGTATCGATACAACACTTA
109154 TGTATCGATACA
1 TGTATCGATACA
109166 TTTACTGTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 8 0.22
14 1 0.03
16 6 0.17
18 1 0.03
19 20 0.56
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:109136 original size:32 final size:32
Alignment explanation
Indices: 109090--109167 Score: 138
Period size: 32 Copynumber: 2.4 Consensus size: 32
109080 GCAGTAGCTT
* *
109090 TGTAACGATACATTGTATCGATACAACACTTA
1 TGTATCGATACATTGTATCAATACAACACTTA
109122 TGTATCGATACATTGTATCAATACAACACTTA
1 TGTATCGATACATTGTATCAATACAACACTTA
109154 TGTATCGATACATT
1 TGTATCGATACATT
109168 TACTGTTTGT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATTGTATCAATACAACACTTA
Found at i:109603 original size:45 final size:47
Alignment explanation
Indices: 109489--109626 Score: 154
Period size: 52 Copynumber: 2.9 Consensus size: 47
109479 GGTGTCTACA
* *
109489 ATTATTTTTTAAATAGTAATTTGAGATTTAATATAAATATTTTTTTACTTTT
1 ATTA-TTTTTAAATAGTAATTTGAGATTTAATATAAA-A--TATATAC-TTT
* * *
109541 ATTAGTTTTAATATAGTATTTTAAGATTTAATATAAAATATATA-TTT
1 ATTATTTTTAA-ATAGTAATTTGAGATTTAATATAAAATATATACTTT
*
109588 -TTATTTTTAAATAGTAATTCGAGATTTAATATAAAATAT
1 ATTATTTTTAAATAGTAATTTGAGATTTAATATAAAATAT
109627 TTTTAATAGG
Statistics
Matches: 76, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
45 26 0.34
46 9 0.12
47 3 0.04
49 4 0.05
51 7 0.09
52 27 0.36
ACGTcount: A:0.40, C:0.01, G:0.07, T:0.52
Consensus pattern (47 bp):
ATTATTTTTAAATAGTAATTTGAGATTTAATATAAAATATATACTTT
Found at i:110065 original size:2 final size:2
Alignment explanation
Indices: 110058--110083 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
110048 GAGATTGAAG
110058 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
110084 GCGTAAACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:112602 original size:20 final size:20
Alignment explanation
Indices: 112565--112617 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 20
112555 TTTCAAAAAA
112565 TTTCTTTTATTTCATT-AATT
1 TTTCTTTT-TTTCATTAAATT
*
112585 TTTCTTTTTCTTCCTTAAAATT
1 TTTCTTTTT-TTCATT-AAATT
112607 TTTCTGTTTTT
1 TTTCT-TTTTT
112618 AAAATATAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
19 1 0.04
20 13 0.46
22 10 0.36
23 4 0.14
ACGTcount: A:0.15, C:0.13, G:0.02, T:0.70
Consensus pattern (20 bp):
TTTCTTTTTTTCATTAAATT
Found at i:113220 original size:10 final size:10
Alignment explanation
Indices: 113205--113257 Score: 56
Period size: 10 Copynumber: 5.1 Consensus size: 10
113195 GAAAGTACAG
113205 AGAAAAAAAA
1 AGAAAAAAAA
113215 AGAAAAAAGAA
1 AGAAAAAA-AA
113226 AG--AAAAAA
1 AGAAAAAAAA
113234 AGAAAAAAATA
1 AGAAAAAAA-A
113245 GAGAAAAATAAA
1 -AGAAAAA-AAA
113257 A
1 A
113258 AATTTTGCTA
Statistics
Matches: 37, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
8 4 0.11
9 4 0.11
10 13 0.35
11 6 0.16
12 8 0.22
13 2 0.05
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.04
Consensus pattern (10 bp):
AGAAAAAAAA
Found at i:113242 original size:20 final size:19
Alignment explanation
Indices: 113209--113259 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 19
113199 GTACAGAGAA
113209 AAAAAAAGAAAAAAGAAAG
1 AAAAAAAGAAAAAAGAAAG
*
113228 AAAAAAAGAAAAAA-ATAG
1 AAAAAAAGAAAAAAGAAAG
* *
113246 AGAAAAATAAAAAA
1 AAAAAAAGAAAAAA
113260 TTTTGCTAGC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 15 0.52
19 14 0.48
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.04
Consensus pattern (19 bp):
AAAAAAAGAAAAAAGAAAG
Found at i:119206 original size:22 final size:22
Alignment explanation
Indices: 119181--119226 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
119171 TTTTATCATT
*
119181 TAAGGTTCACAAAAATATTATG
1 TAAGGCTCACAAAAATATTATG
**
119203 TAAGGCTCATGAAAATATTATG
1 TAAGGCTCACAAAAATATTATG
119225 TA
1 TA
119227 CATCCCATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.09, G:0.15, T:0.33
Consensus pattern (22 bp):
TAAGGCTCACAAAAATATTATG
Found at i:124281 original size:16 final size:18
Alignment explanation
Indices: 124252--124293 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
124242 AGAAATTTTG
124252 TTTATTAT-GATTA-TCC
1 TTTATTATAGATTATTCC
*
124268 TTTATTATAG-TTATTTC
1 TTTATTATAGATTATTCC
124285 TTTATTATA
1 TTTATTATA
124294 TATAAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 11 0.48
17 12 0.52
ACGTcount: A:0.26, C:0.07, G:0.05, T:0.62
Consensus pattern (18 bp):
TTTATTATAGATTATTCC
Found at i:125690 original size:19 final size:18
Alignment explanation
Indices: 125666--125703 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
125656 ACTTGCTTGA
125666 TTTTCCTATTTTTTCTCTT
1 TTTTCCT-TTTTTTCTCTT
*
125685 TTTTCCTTTTTTTTTCTT
1 TTTTCCTTTTTTTCTCTT
125703 T
1 T
125704 CTTTTTTCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTCCTTTTTTTCTCTT
Found at i:128839 original size:33 final size:33
Alignment explanation
Indices: 128802--128871 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
128792 TTCAACGATT
128802 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
128835 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
128868 TGTA
1 TGTA
128872 AGCTACTGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:128840 original size:13 final size:13
Alignment explanation
Indices: 128822--128846 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
128812 CATAAAATGT
128822 TGTATCGATACAA
1 TGTATCGATACAA
128835 TGTATCGATACA
1 TGTATCGATACA
128847 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:128930 original size:13 final size:13
Alignment explanation
Indices: 128912--128936 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
128902 ATTACTCACA
128912 TGTATCGATACAT
1 TGTATCGATACAT
128925 TGTATCGATACA
1 TGTATCGATACA
128937 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:129001 original size:52 final size:52
Alignment explanation
Indices: 128945--129073 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
128935 CACTGATCTT
*
128945 TGTATCGATACATGCAGACAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGACAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
128997 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGACAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
129049 TGTATCGATACATGCAAATAAATTT
1 TGTATCGATACATGCAGACAAATTT
129074 TCATATTTCG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGACAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:135964 original size:1 final size:1
Alignment explanation
Indices: 135958--136065 Score: 81
Period size: 1 Copynumber: 108.0 Consensus size: 1
135948 AGAAGTGATG
* * * * * * * * *
135958 AAAAAAAAAAAAAAAAACAAACAAAAAAAACACACAAAAAAAACAAAAAACACAAAAAACAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * *
136023 ACAAAAAAAAAAAGAAGAAAAAGAAAAAAAAAACACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
136066 GTGCAAAGGT
Statistics
Matches: 77, Mismatches: 30, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 77 1.00
ACGTcount: A:0.86, C:0.11, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:136034 original size:48 final size:49
Alignment explanation
Indices: 135962--136065 Score: 149
Period size: 48 Copynumber: 2.1 Consensus size: 49
135952 GTGATGAAAA
*
135962 AAAAAAAAAAAAACAAACAAAAAAAACACACAAAAA-AAACAAAAAACAC
1 AAAAAAAAAAAAACAAACAAAAAAAACA-ACAAAAAGAAAAAAAAAACAC
* * *
136011 AAAAAACAAAAAACAAA-AAAAAAAAGAAGAAAAAGAAAAAAAAAACAC
1 AAAAAAAAAAAAACAAACAAAAAAAACAACAAAAAGAAAAAAAAAACAC
136059 AAAAAAA
1 AAAAAAA
136066 GTGCAAAGGT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
47 6 0.12
48 27 0.55
49 16 0.33
ACGTcount: A:0.86, C:0.12, G:0.03, T:0.00
Consensus pattern (49 bp):
AAAAAAAAAAAAACAAACAAAAAAAACAACAAAAAGAAAAAAAAAACAC
Found at i:137426 original size:31 final size:32
Alignment explanation
Indices: 137388--137530 Score: 168
Period size: 31 Copynumber: 4.5 Consensus size: 32
137378 TAAAAAAAAA
137388 TCCACGACTCAGTGGCAATCTCTTC-TCAAAG
1 TCCACGACTCAGTGGCAATCTCTTCTTCAAAG
*
137419 TCCACGACTCAGTGGCAATCTCTGC-TCAAAG
1 TCCACGACTCAGTGGCAATCTCTTCTTCAAAG
* *
137450 TCCACGACTCAGTGGC-ATCTTTTCCTTTAAAG
1 TCCACGACTCAGTGGCAATCTCTT-CTTCAAAG
* *
137482 TCCACGACTTAGTGGC-ATCCTTTTCTTCAAAG
1 TCCACGACTCAGTGGCAAT-CTCTTCTTCAAAG
* * *
137514 CCCACAACTCCGTGGCA
1 TCCACGACTCAGTGGCA
137531 CTCTTTTTCC
Statistics
Matches: 98, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
30 5 0.05
31 47 0.48
32 41 0.42
33 5 0.05
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (32 bp):
TCCACGACTCAGTGGCAATCTCTTCTTCAAAG
Found at i:137618 original size:34 final size:34
Alignment explanation
Indices: 137446--138313 Score: 743
Period size: 34 Copynumber: 25.9 Consensus size: 34
137436 ATCTCTGCTC
* * * *
137446 AAAGTCCACGACTCAGTGGCA-TCTTTTC-CTTT
1 AAAGCCCACAACTCCGTGGCACTTTTTTCTCTTT
* * ** ** *
137478 AAAGTCCACGACTTAGTGGCA-TCCTTT-TCTTC
1 AAAGCCCACAACTCCGTGGCACTTTTTTCTCTTT
*
137510 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCACT-TTTTTCTC-TTT
*
137546 CAAAGCCCACAACTCCGTGGCAC-----CCT-TTT
1 -AAAGCCCACAACTCCGTGGCACTTTTTTCTCTTT
*
137575 AAAGCCCACAATTCCGTGGCACTTTTTTCATCTTT
1 AAAGCCCACAACTCCGTGGCACTTTTTTC-TCTTT
* * *
137610 -AAGTCCACAACTCCGTGGCACCTTTTTCTGTTT
1 AAAGCCCACAACTCCGTGGCACTTTTTTCTCTTT
* *
137643 AAAGCCCACAACTTCGTGGCAC-----CCT-TTT
1 AAAGCCCACAACTCCGTGGCACTTTTTTCTCTTT
*
137671 AAAGCCCACAATTCCGTGGCACTTTTTTCATCTTT
1 AAAGCCCACAACTCCGTGGCACTTTTTTC-TCTTT
* *
137706 -AAGTCCACAACTCCGTGGCAC-----CCT-TTT
1 AAAGCCCACAACTCCGTGGCACTTTTTTCTCTTT
*
137733 AAAGCCCACAATTCCGTGGCACTTTTTTCATCTTT
1 AAAGCCCACAACTCCGTGGCACTTTTTTC-TCTTT
* * *
137768 -AAGTCCACAACTCCGTGGCACCTTTTTCTGTTT
1 AAAGCCCACAACTCCGTGGCACTTTTTTCTCTTT
* *
137801 AAAGCCCACAACTTCGTGGCAC-----CCT-TTT
1 AAAGCCCACAACTCCGTGGCACTTTTTTCTCTTT
*
137829 AAAGCCCACAATTCCGTGGCACTTTTTTTCATCTTT
1 AAAGCCCACAACTCCGTGGCAC-TTTTTTC-TCTTT
* * *
137865 -AAGTCCACAACTCCGTGGCACCTTTTTCTGTTT
1 AAAGCCCACAACTCCGTGGCACTTTTTTCTCTTT
*
137898 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCACT-TTTTTCTC-TTT
137934 CAAAGCCCACAACTCCGTGGCACTTTTTTCT-TTT
1 -AAAGCCCACAACTCCGTGGCACTTTTTTCTCTTT
*
137968 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT
1 AAAGCCCACAACTCCGTGGCACT-TTTTTCTCTTT
* * * *
138003 TAAGTCCACAACTCCGTGGCA-TCTTTCTCCCTTCCT
1 AAAGCCCACAACTCCGTGGCACT-TTTTTCTCTT--T
* * * *
138039 AAAGCCCACACAAGTCGGTGGCAACCTTCTTCT-TTT
1 AAAG-CC-CACAACTCCGTGGC-ACTTTTTTCTCTTT
* *
138075 CAAAGCCCACAACTCCGTGGCACCTTCTTCT-TTT
1 -AAAGCCCACAACTCCGTGGCACTTTTTTCTCTTT
** *
138109 AAAGCCCACAACTTTGTGGCACTCTTTTTTCCTTTTT
1 AAAGCCCACAACTCCGTGGCA--CTTTTTT-CTCTTT
* *
138146 AAAGCCCACAACACCGTGGCACCTTTTTC-CGTTT
1 AAAGCCCACAACTCCGTGGCACTTTTTTCTC-TTT
138180 AAAGCCCACAACTCCGTGGCACTCTTTTTC-CTTTT
1 AAAGCCCACAACTCCGTGGCACT-TTTTTCTC-TTT
138215 CAAAGCCCACAACTCCGTGGCACTTTTTTCT-TTT
1 -AAAGCCCACAACTCCGTGGCACTTTTTTCTCTTT
*
138249 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT
1 AAAGCCCACAACTCCGTGGCACT-TTTTTCTCTTT
* *
138284 TAAGTCCACAACTCCGTGGCATCTTTTTTC
1 AAAGCCCACAACTCCGTGGCA-CTTTTTTC
138314 CTTCCCAAAG
Statistics
Matches: 695, Mismatches: 79, Indels: 121
0.78 0.09 0.14
Matches are distributed among these distances:
27 3 0.00
28 87 0.13
29 8 0.01
31 1 0.00
32 45 0.06
33 81 0.12
34 207 0.30
35 125 0.18
36 48 0.07
37 71 0.10
38 14 0.02
39 5 0.01
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (34 bp):
AAAGCCCACAACTCCGTGGCACTTTTTTCTCTTT
Found at i:137655 original size:96 final size:96
Alignment explanation
Indices: 137505--138277 Score: 653
Period size: 96 Copynumber: 7.7 Consensus size: 96
137495 GGCATCCTTT
*
137505 TCTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCAC-
1 TCTTTAAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTT-AAAGCCCACAACTCCGTGGCACT
*
137569 CCTTTTAAAGCCCACAATTCCGTGGCACTTTTTTC
62 CCTTTTAAAGCCCACAACTCCGTGGCACTTTTTTC
* *
137604 ATCTTT-AAGTCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTTCGTGGCAC-CC
1 -TCTTTAAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTAAAGCCCACAACTCCGTGGCACTCC
*
137667 TTTTAAAGCCCACAATTCCGTGGCACTTTTTTC
64 TTTTAAAGCCCACAACTCCGTGGCACTTTTTTC
* * *
137700 ATCTTT-AAGTCCACAACTCCGTGGCACC-----CTTTTAAAGCCCACAATTCCGTGGCACT-TT
1 -TCTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCCT
* *
137758 TTTCATCTTTAAGTCCACAACTCCGTGGCACCTTTTTC
65 TTT-A-----AAGCCCACAACTCCGTGGCACTTTTTTC
* * * **
137796 TGTTTAAAGCCCACAACTTCGTGGCACC-----CTTTTAAAGCCCACAATTCCGTGGCACTTTTT
1 TCTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCCTT
* *
137856 TTCATCTTTAAGTCCACAACTCCGTGGCACCTTTTTC
66 TT-A-----AAGCCCACAACTCCGTGGCACTTTTTTC
*
137893 TGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACT
1 TCTTTAAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTT-AAAGCCCACAACTCCGTGGCAC-
*
137958 TTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
61 ---TCCTTTTAAAGCCCACAACTCCGTGGCACT-TTTTTC
* * * * * * * *
137998 CCTTTTAAGTCCACAACTCCGTGGCATCTTTCTCCCTTCCTAAAGCCCACACAAGTCGGTGGCAA
1 TCTTTAAAGCCCACAACTCCGTGGCACCTTT-T-TCTT-TTAAAG-CC-CACAACTCCGTGGC-A
* *
138063 CCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTC
60 -C-TC--CTTTT-AAAGCCCACAACTCCGTGGCACTTTTTTC
** *
138105 T-TTTAAAGCCCACAACTTTGTGGCACTCTTTTTTCCTTTTTAAAGCCCACAACACCGTGGCACC
1 TCTTTAAAGCCCACAACTCCGTGGCAC-C-TTTTT-C-TTTTAAAGCCCACAACTCCGTGGCA-C
*
138169 TTTTTCCGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
61 ----TCCTTTTAAAGCCCACAACTCCGTGGCACT-TTTTTC
* *
138210 -CTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCT
1 TC-TTT-AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCC
138274 TTTT
64 TTTT
138278 CCCTTTTAAG
Statistics
Matches: 579, Mismatches: 49, Indels: 92
0.80 0.07 0.13
Matches are distributed among these distances:
90 27 0.05
91 3 0.01
95 4 0.01
96 159 0.27
97 69 0.12
98 12 0.02
99 20 0.03
100 4 0.01
102 1 0.00
103 24 0.04
104 57 0.10
105 64 0.11
106 58 0.10
107 42 0.07
108 28 0.05
109 1 0.00
110 6 0.01
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (96 bp):
TCTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCCTT
TTAAAGCCCACAACTCCGTGGCACTTTTTTC
Done.