Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr3
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: 26558743
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1281270 characters in sequence are not A, C, G, or T
File 50 of 79
Found at i:16811781 original size:15 final size:14
Alignment explanation
Indices: 16811752--16811792 Score: 64
Period size: 15 Copynumber: 2.9 Consensus size: 14
16811742 TTTTTGTTCT
*
16811752 TAAAAATAAAGAAA
1 TAAAAATAAAAAAA
16811766 TAAAAATAACAAAAA
1 TAAAAATAA-AAAAA
16811781 TAAAAATAAAAA
1 TAAAAATAAAAA
16811793 GGACTTCTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 12 0.48
15 13 0.52
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.15
Consensus pattern (14 bp):
TAAAAATAAAAAAA
Found at i:16831127 original size:16 final size:16
Alignment explanation
Indices: 16831106--16831137 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
16831096 GTTTTGTTGC
*
16831106 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
16831122 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
16831138 CATTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:16831328 original size:46 final size:43
Alignment explanation
Indices: 16831255--16831353 Score: 119
Period size: 46 Copynumber: 2.2 Consensus size: 43
16831245 AATAATAACA
*
16831255 GATACACGGTGGATTCAGCACACAGCAACCACCCTTTGTAATCAAT
1 GATAC-CGGTGGATTCAGCACACAGCAACCA-CC-TTATAATCAAT
* *
16831301 GATATCCGGTGGGA-TCAGCACATAGCAACCACCTTATAATTAAT
1 GATA-CCGGT-GGATTCAGCACACAGCAACCACCTTATAATCAAT
16831345 GATACCGGT
1 GATACCGGT
16831354 TCACATAGTA
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
43 5 0.10
44 13 0.27
45 2 0.04
46 24 0.50
47 4 0.08
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.23
Consensus pattern (43 bp):
GATACCGGTGGATTCAGCACACAGCAACCACCTTATAATCAAT
Found at i:16831417 original size:51 final size:50
Alignment explanation
Indices: 16831359--16831549 Score: 190
Period size: 51 Copynumber: 3.8 Consensus size: 50
16831349 CCGGTTCACA
*
16831359 TAGTAGCCTGCACATATTACTACACATGTGACCATCACTACCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTACCCG-TACACG
* * * *** *
16831410 TAGTAGCCTGCACATAGTACTACACACGTGATCGA--AGCTATCCGGTGTGCA
1 TAGTAGCCTGCACATAGTACTACACATGTGA-CCATCA-CTA-CCCGTACACG
* * * *
16831461 TAGTAGCCTACACATAGTACTACACCTGCGACCTATCACT-CTCGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACC-ATCACTACCCGTACACG
* *
16831511 TAGTAGCCTGCACAAAATACTACACATGTGACCATCACT
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACT
16831550 TTCACTTTCA
Statistics
Matches: 110, Mismatches: 24, Indels: 14
0.74 0.16 0.09
Matches are distributed among these distances:
49 6 0.05
50 34 0.31
51 62 0.56
52 7 0.06
53 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTACCCGTACACG
Found at i:16831564 original size:101 final size:102
Alignment explanation
Indices: 16831353--16831575 Score: 242
Period size: 101 Copynumber: 2.2 Consensus size: 102
16831343 ATGATACCGG
* * *
16831353 TTCACATAGTAGCCTGCACATATTACTACACATGTGACCATCACTACCCGATACACGTAGTAGCC
1 TTCACATAGTAGCCTACACATAGTACTACACATGCGACCATCACTACCCGATACACGTAGTAGCC
* * *
16831418 TGCACATAGTACTACACACGTGATCGAAGCTATCCGGT
66 TGCACAAAATACTACACACGTGATCCAAGCTATCC-GT
* * * *
16831456 GT-GCATAGTAGCCTACACATAGTACTACACCTGCGACCTATCACT-CTCG-TACACGTAGTAGC
1 TTCACATAGTAGCCTACACATAGTACTACACATGCGACC-ATCACTACCCGATACACGTAGTAGC
* *
16831518 CTGCACAAAATACTACACATGTGA-CCATCA-CTTTCAC-T
65 CTGCACAAAATACTACACACGTGATCCA--AGCTATC-CGT
*
16831556 TTCACATAGTGGCCTACACA
1 TTCACATAGTAGCCTACACA
16831576 CAGTCTGTGC
Statistics
Matches: 100, Mismatches: 15, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
100 4 0.04
101 53 0.53
102 36 0.36
103 7 0.07
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.25
Consensus pattern (102 bp):
TTCACATAGTAGCCTACACATAGTACTACACATGCGACCATCACTACCCGATACACGTAGTAGCC
TGCACAAAATACTACACACGTGATCCAAGCTATCCGT
Found at i:16839317 original size:17 final size:18
Alignment explanation
Indices: 16839295--16839330 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
16839285 CTAAAATTTT
*
16839295 ATATTT-ATATTTTTTAA
1 ATATTTCATATATTTTAA
16839312 ATATTTCATATATTTTAA
1 ATATTTCATATATTTTAA
16839330 A
1 A
16839331 AAAAATTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (18 bp):
ATATTTCATATATTTTAA
Found at i:16839615 original size:43 final size:43
Alignment explanation
Indices: 16839554--16839671 Score: 128
Period size: 43 Copynumber: 2.7 Consensus size: 43
16839544 TTATGTGGGA
* * *
16839554 AAACGCCACTATAGAACATGATTTTTAGCGGCGCTTTTCATAC
1 AAACGCCGCTGTAGAACATGATATTTAGCGGCGCTTTTCATAC
** *
16839597 AAACGCCGCTGTAGAACATGATATTTAGCAACGCTTTTCCTAC
1 AAACGCCGCTGTAGAACATGATATTTAGCGGCGCTTTTCATAC
* * * * * *
16839640 AAATGCTGTTGTAGAATATGATCTTTAACGGC
1 AAACGCCGCTGTAGAACATGATATTTAGCGGC
16839672 ACTTGTAGGA
Statistics
Matches: 61, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 61 1.00
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.31
Consensus pattern (43 bp):
AAACGCCGCTGTAGAACATGATATTTAGCGGCGCTTTTCATAC
Found at i:16839776 original size:43 final size:43
Alignment explanation
Indices: 16839722--16839835 Score: 156
Period size: 43 Copynumber: 2.7 Consensus size: 43
16839712 AAACGATGCA
* *
16839722 AAAGATCATGTTCTTTAGCGGCATTTGTAGTAAAAGATTCGCT
1 AAAGATCATGTTCTATAGCGGCATTTGTAGTAAAAGAGTCGCT
* * * * *
16839765 AAAGATTATGTTCTATAGCGGCGTTTTTAGTAAAAGCGTCGTT
1 AAAGATCATGTTCTATAGCGGCATTTGTAGTAAAAGAGTCGCT
*
16839808 AAAGATCATGTTCTATAGCGACATTTGT
1 AAAGATCATGTTCTATAGCGGCATTTGT
16839836 GAGAAAACGC
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (43 bp):
AAAGATCATGTTCTATAGCGGCATTTGTAGTAAAAGAGTCGCT
Found at i:16840403 original size:16 final size:16
Alignment explanation
Indices: 16840382--16840431 Score: 100
Period size: 16 Copynumber: 3.1 Consensus size: 16
16840372 GGGTTGGACT
16840382 AACAAAAGATCCTTGA
1 AACAAAAGATCCTTGA
16840398 AACAAAAGATCCTTGA
1 AACAAAAGATCCTTGA
16840414 AACAAAAGATCCTTGA
1 AACAAAAGATCCTTGA
16840430 AA
1 AA
16840432 TCGAACCCGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.52, C:0.18, G:0.12, T:0.18
Consensus pattern (16 bp):
AACAAAAGATCCTTGA
Found at i:16842433 original size:13 final size:13
Alignment explanation
Indices: 16842415--16842439 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16842405 TTACTGTACA
16842415 TAATAAAATTTCC
1 TAATAAAATTTCC
16842428 TAATAAAATTTC
1 TAATAAAATTTC
16842440 TGCCTTCCAT
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:0.12, G:0.00, T:0.40
Consensus pattern (13 bp):
TAATAAAATTTCC
Found at i:16845694 original size:16 final size:16
Alignment explanation
Indices: 16845674--16845704 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
16845664 ATAACAATAT
16845674 TTTTTTATAT-ACAAG
1 TTTTTTATATGACAAG
16845689 TTTTTTATATGACAAG
1 TTTTTTATATGACAAG
16845705 AAATAGTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.32, C:0.06, G:0.10, T:0.52
Consensus pattern (16 bp):
TTTTTTATATGACAAG
Found at i:16848066 original size:50 final size:49
Alignment explanation
Indices: 16847942--16848071 Score: 136
Period size: 49 Copynumber: 2.6 Consensus size: 49
16847932 GATAATAACA
* * *
16847942 TGCCAAAGCCATGTCCAAGACATGGTCTTACATAGGATGTTTTCTATAC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATAGGATGTTCTCTATAC
* * * * **
16847991 TGCCAATGTCATATCCCAGATATGGTCTTACATGGGA-GTTCTCATATTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATAGGATGTTCTC-TA-TAC
**
16848041 TGCCCGTGCCATGTCCCAGACATGGTCTTAC
1 TGCCAATGCCATGTCCCAGACATGGTCTTAC
16848072 GGGGGACCTC
Statistics
Matches: 65, Mismatches: 14, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
48 5 0.08
49 33 0.51
50 27 0.42
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.31
Consensus pattern (49 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATAGGATGTTCTCTATAC
Found at i:16848084 original size:50 final size:50
Alignment explanation
Indices: 16848004--16848136 Score: 140
Period size: 50 Copynumber: 2.7 Consensus size: 50
16847994 CAATGTCATA
* ** * *** *
16848004 TCCCAGATATGGTCTTACATGGGAGTTCTCATATTGGTGCCCGTGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCACG
** * * *
16848054 TCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGTCAACGCTACG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCACG
*
16848104 TCCTAGACATGGTCTTACATGGGACCTCTCATA
1 TCCCAGACATGGTCTTACATGGGACCTCTCATA
16848137 ATCTTAATGA
Statistics
Matches: 66, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
50 66 1.00
ACGTcount: A:0.20, C:0.28, G:0.24, T:0.29
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCACG
Found at i:16850749 original size:13 final size:13
Alignment explanation
Indices: 16850731--16850756 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16850721 TTTTTGTCCA
16850731 TTTTATTTTTTAT
1 TTTTATTTTTTAT
16850744 TTTTATTTTTTAT
1 TTTTATTTTTTAT
16850757 ATCCTTTTTA
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:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTATTTTTTAT
Found at i:16854511 original size:18 final size:18
Alignment explanation
Indices: 16854488--16854523 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
16854478 AGAAAAAGTT
16854488 AGAAAAATTGAACTGCAA
1 AGAAAAATTGAACTGCAA
16854506 AGAAAAATTGAACTGCAA
1 AGAAAAATTGAACTGCAA
16854524 GGGTCACACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.56, C:0.11, G:0.17, T:0.17
Consensus pattern (18 bp):
AGAAAAATTGAACTGCAA
Found at i:16855910 original size:26 final size:26
Alignment explanation
Indices: 16855872--16855940 Score: 102
Period size: 26 Copynumber: 2.7 Consensus size: 26
16855862 TTTACATTAT
* *
16855872 TACTCACACGAGCTGTGAAATGTGCC
1 TACTCACAAGAGCTGTGAAATGGGCC
*
16855898 TACTCACAAGAGCTATGAAATGGGCC
1 TACTCACAAGAGCTGTGAAATGGGCC
*
16855924 TGCTCACAAGAGCTGTG
1 TACTCACAAGAGCTGTG
16855941 GGTCAGAATG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.29, C:0.25, G:0.25, T:0.22
Consensus pattern (26 bp):
TACTCACAAGAGCTGTGAAATGGGCC
Found at i:16873654 original size:20 final size:21
Alignment explanation
Indices: 16873629--16873667 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
16873619 TAATTCAAAT
*
16873629 TCAAATTATTATT-TTTAATA
1 TCAAATTATAATTATTTAATA
16873649 TCAAATTATAATTATTTAA
1 TCAAATTATAATTATTTAA
16873668 ATATGTATTA
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:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (21 bp):
TCAAATTATAATTATTTAATA
Found at i:16874357 original size:26 final size:26
Alignment explanation
Indices: 16874317--16874367 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
16874307 GAGTTGGACC
*
16874317 ATGTGAGGTTGAAACATGTTTTATTA
1 ATGTGAGGTTCAAACATGTTTTATTA
*
16874343 ATGTGGGGTTCAAACATGTTTTATT
1 ATGTGAGGTTCAAACATGTTTTATT
16874368 GTTGTTAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.27, C:0.06, G:0.24, T:0.43
Consensus pattern (26 bp):
ATGTGAGGTTCAAACATGTTTTATTA
Found at i:16875901 original size:18 final size:18
Alignment explanation
Indices: 16875865--16875902 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
16875855 CCAAAATCTT
*
16875865 ATTTTAATTCTTTTGTAC
1 ATTTTAATTCTTTTATAC
16875883 ATTTTAATT-TTATTATAC
1 ATTTTAATTCTT-TTATAC
16875901 AT
1 AT
16875903 ATTTTATTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.29, C:0.08, G:0.03, T:0.61
Consensus pattern (18 bp):
ATTTTAATTCTTTTATAC
Found at i:16877097 original size:22 final size:22
Alignment explanation
Indices: 16877079--16877120 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
16877069 TTGTTTTCTC
*
16877079 CTTATTTTGCTACCATTTTGCT
1 CTTATGTTGCTACCATTTTGCT
* *
16877101 TTTATGTTGCTACTATTTTG
1 CTTATGTTGCTACCATTTTG
16877121 TTGTTATTGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.14, C:0.17, G:0.12, T:0.57
Consensus pattern (22 bp):
CTTATGTTGCTACCATTTTGCT
Found at i:16877365 original size:14 final size:12
Alignment explanation
Indices: 16877349--16877373 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16877339 ATTTTAAAGT
16877349 ATATAAAAATTA
1 ATATAAAAATTA
16877361 ATATAAAAATTA
1 ATATAAAAATTA
16877373 A
1 A
16877374 AATGGGCGGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
ATATAAAAATTA
Found at i:16878494 original size:21 final size:21
Alignment explanation
Indices: 16878470--16878510 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
16878460 ATCTATAGAC
16878470 TCTAAAGACTAAACCTTAAAA
1 TCTAAAGACTAAACCTTAAAA
* * *
16878491 TCTAAATATTAAATCTTAAA
1 TCTAAAGACTAAACCTTAAA
16878511 TTTTATCCAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.51, C:0.15, G:0.02, T:0.32
Consensus pattern (21 bp):
TCTAAAGACTAAACCTTAAAA
Found at i:16880464 original size:42 final size:41
Alignment explanation
Indices: 16880380--16880481 Score: 134
Period size: 42 Copynumber: 2.5 Consensus size: 41
16880370 CGAAATGGCC
* *
16880380 TCACACACCCGTGTG-CTAGGCGTGTGCCTTACGCGGCTAAG
1 TCACACACCCGTGTGTCT-GGCGTGTGCCTTACACGGCCAAG
* * *
16880421 TCACACACTCGTGTGTCTGGCCGTGTGTCTTACATGGCCAAG
1 TCACACACCCGTGTGTCTGG-CGTGTGCCTTACACGGCCAAG
16880463 TCACACACCCGTGTGTCTG
1 TCACACACCCGTGTGTCTG
16880482 TCATGTGGAC
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
41 16 0.30
42 37 0.70
ACGTcount: A:0.17, C:0.31, G:0.26, T:0.25
Consensus pattern (41 bp):
TCACACACCCGTGTGTCTGGCGTGTGCCTTACACGGCCAAG
Found at i:16883167 original size:109 final size:109
Alignment explanation
Indices: 16882976--16883189 Score: 419
Period size: 109 Copynumber: 2.0 Consensus size: 109
16882966 TGTGGGTGTG
16882976 GTGTGCTTCCATTGCTCAAATTCTTTTTGCGTGTTCCAATTTTGGTGTCAGGTAAGAGAATAATC
1 GTGTGCTTCCATTGCTCAAATTCTTTTTGCGTGTTCCAATTTTGGTGTCAGGTAAGAGAATAATC
16883041 TCTTTGTCGTTGATGTGGTAATATTTGGTTGTTAAGTTTTGAAT
66 TCTTTGTCGTTGATGTGGTAATATTTGGTTGTTAAGTTTTGAAT
*
16883085 GTGTGCTTCCATTGCTCAAATTCTTTTTGCGTGTTCCAATTTTGGTGTCAGGTAAGAGAATAATT
1 GTGTGCTTCCATTGCTCAAATTCTTTTTGCGTGTTCCAATTTTGGTGTCAGGTAAGAGAATAATC
16883150 TCTTTGTCGTTGATGTGGTAATATTTGGTTGTTAAGTTTT
66 TCTTTGTCGTTGATGTGGTAATATTTGGTTGTTAAGTTTT
16883190 ATTCAAATGA
Statistics
Matches: 104, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
109 104 1.00
ACGTcount: A:0.20, C:0.12, G:0.23, T:0.46
Consensus pattern (109 bp):
GTGTGCTTCCATTGCTCAAATTCTTTTTGCGTGTTCCAATTTTGGTGTCAGGTAAGAGAATAATC
TCTTTGTCGTTGATGTGGTAATATTTGGTTGTTAAGTTTTGAAT
Found at i:16886069 original size:38 final size:38
Alignment explanation
Indices: 16886018--16886094 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
16886008 TTGGGATCCA
16886018 GGTCTATAGGGATTGTGGTAAACCCCATCCAAGCGTGT
1 GGTCTATAGGGATTGTGGTAAACCCCATCCAAGCGTGT
*
16886056 GGTCTATAGGGATTGTGGTAAACCCCATCCGAGCGTGT
1 GGTCTATAGGGATTGTGGTAAACCCCATCCAAGCGTGT
16886094 G
1 G
16886095 TTGGAGGAGG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.22, C:0.21, G:0.31, T:0.26
Consensus pattern (38 bp):
GGTCTATAGGGATTGTGGTAAACCCCATCCAAGCGTGT
Found at i:16889634 original size:18 final size:17
Alignment explanation
Indices: 16889611--16889665 Score: 74
Period size: 19 Copynumber: 3.1 Consensus size: 17
16889601 AGCAACTCAT
16889611 TTATTAATCTAAGATGAG
1 TTATTAA-CTAAGATGAG
*
16889629 TTATTAACTAAGATGAAC
1 TTATTAACTAAGATG-AG
16889647 TTAATTAACTAAGATGAG
1 TT-ATTAACTAAGATGAG
16889665 T
1 T
16889666 AATTTATTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
17 8 0.24
18 12 0.36
19 13 0.39
ACGTcount: A:0.42, C:0.07, G:0.15, T:0.36
Consensus pattern (17 bp):
TTATTAACTAAGATGAG
Found at i:16893138 original size:18 final size:18
Alignment explanation
Indices: 16893115--16893212 Score: 67
Period size: 18 Copynumber: 5.3 Consensus size: 18
16893105 AAAGGAAGAC
16893115 AGAAAAAGAAATTGAAAA
1 AGAAAAAGAAATTGAAAA
16893133 AGAAAAAGAGAA-TGAAAAA
1 AGAAAAAGA-AATTG-AAAA
* * *
16893152 GAGCAAAAAGAGATTGAGAG
1 -AG-AAAAAGAAATTGAAAA
* *
16893172 TG-AAAAGAAATGTGAAAC
1 AGAAAAAGAAAT-TGAAAA
*
16893190 AG-ACAAGAAAATTGAAAA
1 AGAAAAAG-AAATTGAAAA
16893208 AGAAA
1 AGAAA
16893213 TTGAAGAAAG
Statistics
Matches: 61, Mismatches: 11, Indels: 15
0.70 0.13 0.17
Matches are distributed among these distances:
17 8 0.13
18 27 0.44
19 12 0.20
20 5 0.08
21 9 0.15
ACGTcount: A:0.64, C:0.03, G:0.22, T:0.10
Consensus pattern (18 bp):
AGAAAAAGAAATTGAAAA
Found at i:16893230 original size:31 final size:31
Alignment explanation
Indices: 16893174--16893232 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
16893164 ATTGAGAGTG
*
16893174 AAAAGAAATGTGAAACAGACAAGAAAATTGA
1 AAAAGAAATGTGAAAAAGACAAGAAAATTGA
16893205 AAAAGAAAT-TGAAGAAAGA-AGAGAAAAT
1 AAAAGAAATGTGAA-AAAGACA-AGAAAAT
16893233 GAGTTAGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 5 0.20
31 20 0.80
ACGTcount: A:0.64, C:0.03, G:0.20, T:0.12
Consensus pattern (31 bp):
AAAAGAAATGTGAAAAAGACAAGAAAATTGA
Found at i:16893764 original size:76 final size:76
Alignment explanation
Indices: 16893647--16893789 Score: 223
Period size: 76 Copynumber: 1.9 Consensus size: 76
16893637 AAAATCGACA
* *
16893647 AATTTGTGCAAATCTGTTTTGGAGAATAAAAAAAGTTTTGAATGTATGTTGGTATGTATGCGAAA
1 AATTTGTGCAAATCTGTTTTGGAGAATAAAAAAAGTTTTGAATATATATTGGTATGTATGCGAAA
16893712 ATAAATCCGCG
66 ATAAATCCGCG
* ****
16893723 AATTTGTGCAAATCTGTTTTGGTGAATAAAATTTTTTTTGAATATATATTGGTATGTATGCGAAA
1 AATTTGTGCAAATCTGTTTTGGAGAATAAAAAAAGTTTTGAATATATATTGGTATGTATGCGAAA
16893788 AT
66 AT
16893790 CCTCATGGTT
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
76 60 1.00
ACGTcount: A:0.34, C:0.06, G:0.20, T:0.39
Consensus pattern (76 bp):
AATTTGTGCAAATCTGTTTTGGAGAATAAAAAAAGTTTTGAATATATATTGGTATGTATGCGAAA
ATAAATCCGCG
Found at i:16898516 original size:23 final size:23
Alignment explanation
Indices: 16898489--16898536 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
16898479 AAGTCGAACA
*
16898489 AGACTTGTATGAAATAGGAGAGG
1 AGACTTGTACGAAATAGGAGAGG
16898512 AGACTTGTACGAAATAGGAGAGG
1 AGACTTGTACGAAATAGGAGAGG
16898535 AG
1 AG
16898537 GTAAACTCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.06, G:0.35, T:0.19
Consensus pattern (23 bp):
AGACTTGTACGAAATAGGAGAGG
Found at i:16899368 original size:17 final size:18
Alignment explanation
Indices: 16899335--16899368 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
16899325 AACAACTCAT
16899335 TTATTAATCTAAAATGAG
1 TTATTAATCTAAAATGAG
*
16899353 TTATTAA-CTAAGATGA
1 TTATTAATCTAAAATGA
16899369 ACTCAGTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (18 bp):
TTATTAATCTAAAATGAG
Found at i:16901376 original size:14 final size:15
Alignment explanation
Indices: 16901356--16901396 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
16901346 TTTGATTGGC
16901356 AGTAAAATGTTTTC-
1 AGTAAAATGTTTTCT
* *
16901370 CGTAAAATGATTTCT
1 AGTAAAATGTTTTCT
16901385 AG-AAAATGTTTT
1 AGTAAAATGTTTT
16901397 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 21 0.95
15 1 0.05
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (15 bp):
AGTAAAATGTTTTCT
Found at i:16904882 original size:22 final size:23
Alignment explanation
Indices: 16904840--16904882 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
16904830 GCATATTATA
*
16904840 CCAAATCATAAATCAAGCACACC
1 CCAAATCATAAATCAACCACACC
16904863 CCAAA-CATATAA-CAACCACA
1 CCAAATCATA-AATCAACCACA
16904883 AATGCCATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.51, C:0.35, G:0.02, T:0.12
Consensus pattern (23 bp):
CCAAATCATAAATCAACCACACC
Found at i:16908496 original size:18 final size:18
Alignment explanation
Indices: 16908473--16908507 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
16908463 TAAGATCTAT
*
16908473 ATATGTTTCTGAAATTGA
1 ATATGTATCTGAAATTGA
16908491 ATATGTATCTGAAATTG
1 ATATGTATCTGAAATTG
16908508 CGTTTGCTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.06, G:0.17, T:0.43
Consensus pattern (18 bp):
ATATGTATCTGAAATTGA
Found at i:16915316 original size:21 final size:20
Alignment explanation
Indices: 16915275--16915316 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
16915265 TTTTATTAGT
*
16915275 ATTAAAATTTATTTGGCATC
1 ATTAAAATTAATTTGGCATC
*
16915295 ATTAAAATTAAGTTTTGCATC
1 ATTAAAATTAA-TTTGGCATC
16915316 A
1 A
16915317 AAATGTTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.43
Consensus pattern (20 bp):
ATTAAAATTAATTTGGCATC
Found at i:16920937 original size:30 final size:29
Alignment explanation
Indices: 16920903--16920970 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 29
16920893 CCTCGACTCT
16920903 AACTTTGACAAAATTATGA-TTTTGCCCCTA
1 AACTTTGACAAAATTAT-ACTTTTGCCCC-A
* *
16920933 AACTTTTACATAATTATACTTTTGCCCCA
1 AACTTTGACAAAATTATACTTTTGCCCCA
16920962 AAGCTTTGA
1 AA-CTTTGA
16920971 AATTAAACTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 4 0.12
30 29 0.88
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.38
Consensus pattern (29 bp):
AACTTTGACAAAATTATACTTTTGCCCCA
Found at i:16927993 original size:50 final size:50
Alignment explanation
Indices: 16927920--16928112 Score: 208
Period size: 50 Copynumber: 3.9 Consensus size: 50
16927910 TCTTGTACTA
* * * * ** * *
16927920 CCAATGCCATATCCCAAATATGGTCTTACATGGAAGTTCTTATATAGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGGTG
* ** *
16927970 CCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGGTG
* *
16928020 CCAACT-CCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
1 CCAA-TGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGGTG
* * * *
16928070 CCAACGCCATGTCCCAGACATAGTTTTACATGAGACCTCTCAT
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT
16928113 AATCTCAATG
Statistics
Matches: 119, Mismatches: 22, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
50 118 0.99
51 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGGTG
Found at i:16934787 original size:52 final size:53
Alignment explanation
Indices: 16934708--16934815 Score: 155
Period size: 52 Copynumber: 2.1 Consensus size: 53
16934698 TTGCATCTTT
* * * * *
16934708 TGGAAAGAAGACCATATCGTGTAAGACCATAATTGGGGGGTTGTGGCATCATA
1 TGGAAAGAAAACCATATCGTATAAGACCATAACTGGGGGGTTATGACATCATA
*
16934761 TGGAAA-AAAACCATATCGTATAAGACCATAACTGGTGGGTTATGACATCATA
1 TGGAAAGAAAACCATATCGTATAAGACCATAACTGGGGGGTTATGACATCATA
16934813 TGG
1 TGG
16934816 GAAGGACTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
52 43 0.88
53 6 0.12
ACGTcount: A:0.35, C:0.14, G:0.26, T:0.25
Consensus pattern (53 bp):
TGGAAAGAAAACCATATCGTATAAGACCATAACTGGGGGGTTATGACATCATA
Found at i:16935103 original size:57 final size:57
Alignment explanation
Indices: 16934940--16935137 Score: 195
Period size: 57 Copynumber: 3.5 Consensus size: 57
16934930 AAATAACAAC
* * * * * *
16934940 CTTTGTGGCAAAACTCTAGGAAGGTAAGCTTTTGTGGTGAACCTGTAAAAGGATAGT
1 CTTTGTGGTAAAACTCTAGAAAGGTAAGCCTTTGTGGTGAACCTATTAAAGGACAGT
* * * * * *
16934997 CTTTGTGGAAAAAGTCTGGAATGATAAGCCTTTATGGTGAACCTATTAAAGGACAGT
1 CTTTGTGGTAAAACTCTAGAAAGGTAAGCCTTTGTGGTGAACCTATTAAAGGACAGT
* * *
16935054 CTTTGTGGTAAAACTCTAGAAAGGTAACCCTTTGTGGCGAACC-ATTTAAAGGAC-GC
1 CTTTGTGGTAAAACTCTAGAAAGGTAAGCCTTTGTGGTGAACCTA-TTAAAGGACAGT
* * * *
16935110 CTTTATGGTGAGACTCTA-AAAGGAAAGC
1 CTTTGTGGTAAAACTCTAGAAAGGTAAGC
16935138 TTTCTGGCGA
Statistics
Matches: 115, Mismatches: 25, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
55 8 0.07
56 17 0.15
57 90 0.78
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (57 bp):
CTTTGTGGTAAAACTCTAGAAAGGTAAGCCTTTGTGGTGAACCTATTAAAGGACAGT
Found at i:16946915 original size:50 final size:50
Alignment explanation
Indices: 16946835--16947079 Score: 244
Period size: 50 Copynumber: 4.9 Consensus size: 50
16946825 CATTGACATT
* * **
16946835 ATGAAAGGTCCCACGTAAGACCATGTCTGGGACATGGTGTTGGCATCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAG
* *
16946885 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAG
** * * * *
16946935 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAG
** * * * *
16946985 ATGAGAACTCCCATGTAAGACTATATCTGGGATATGGAATTGGCAGTAC-A-
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-T-CGAG
* ** * *
16947035 A-GAAACATCCCATGTAAGACCATGTCTGGGATATGGCTTTGGCAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
16947080 GTTATTATAA
Statistics
Matches: 166, Mismatches: 27, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
48 1 0.01
49 36 0.22
50 127 0.77
51 1 0.01
52 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAG
Found at i:16946989 original size:100 final size:104
Alignment explanation
Indices: 16946782--16947029 Score: 290
Period size: 100 Copynumber: 2.4 Consensus size: 104
16946772 ATTTGGGTAA
* *
16946782 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGACATTATGAAAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCA-CGA-ATGATGAAAGGTCCC
** * *
16946847 ACGTAAGACCATGTCTGGGACATGGTGTTGGCATCGAGATG
64 ACGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
* * * *
16946888 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-C-CG-A-GATGAGAGGTCCCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCACGAATGATGAAAGGTCCCAC
* *
16946949 GTAAGACCATGTCTGGGACATGGCATGGGCACCTATATG
66 GTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
* * * *
16946988 AGA-ACTCCCATGTAAGACTATATCTGGGATATGGAATTGGCA
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
16947030 GTACAAGAAA
Statistics
Matches: 123, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
100 80 0.65
101 1 0.01
103 1 0.01
105 1 0.01
106 40 0.33
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (104 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCACGAATGATGAAAGGTCCCAC
GTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
Found at i:16947077 original size:49 final size:49
Alignment explanation
Indices: 16946787--16947078 Score: 230
Period size: 50 Copynumber: 5.8 Consensus size: 49
16946777 GGTAAAGAGA
* *
16946787 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGACATTATGAAAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C-GT-AC---ATGAAA-C
* ** * **
16946843 TCCCACGTAAGACCATGTCTGGGACATGGTGTTGGCATCG-AGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CGTACATGA-AAC
* * **
16946893 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCG-AGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CGTACATGA-AAC
** * * *
16946943 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACGTACATGA-AAC
* * * * *
16946993 TCCCATGTAAGACTATATCTGGGATATGGAATTGGCA-GTACAAGAAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACGTACATGAAAC
* *
16947041 ATCCCATGTAAGACCATGTCTGGGATATGGCTTTGGCA
1 -TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
16947079 TGTTATTATA
Statistics
Matches: 202, Mismatches: 31, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
48 3 0.01
49 39 0.19
50 122 0.60
51 1 0.00
53 1 0.00
56 36 0.18
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (49 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACGTACATGAAAC
Found at i:16953252 original size:50 final size:50
Alignment explanation
Indices: 16953194--16953380 Score: 250
Period size: 50 Copynumber: 3.7 Consensus size: 50
16953184 CATTAAGATT
* *
16953194 ATGAGAGGTCCCATGTAAGACCATTTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAG
*
16953244 ATGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCAAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAG
* * * * *
16953294 ATGAGAGGTCTCC-CGTAAGACCATGTCTGGGACATGGCATGGGCACCTAT
1 ATGAGAGGTC-CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAG
** * *
16953344 ATGAGAACTCCCATGTAAGACCATATCTGGGATATGG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGG
16953381 AATTGGCAGT
Statistics
Matches: 121, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
49 2 0.02
50 117 0.97
51 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAG
Found at i:16956278 original size:50 final size:50
Alignment explanation
Indices: 16956224--16956397 Score: 233
Period size: 50 Copynumber: 3.5 Consensus size: 50
16956214 CATTAAGATT
16956224 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
16956274 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
* * * * ** * * *
16956324 ATGAGAGGTCTCC-CGTAAGACTATTTGTGGGACATGGTATGGGCACCTAT
1 ATGAGAGGTC-CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
**
16956374 ATGAGAACTCCCATGTAAGACCAT
1 ATGAGAGGTCCCATGTAAGACCAT
16956398 ATCTACGATA
Statistics
Matches: 109, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
49 2 0.02
50 105 0.96
51 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.22
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
Found at i:16956417 original size:100 final size:100
Alignment explanation
Indices: 16956224--16956418 Score: 221
Period size: 100 Copynumber: 1.9 Consensus size: 100
16956214 CATTAAGATT
* * * **
16956224 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATG
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAACTCCCATG
* ** **
16956289 TAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
66 TAAGACCATATCTACGACATGGAATTGGCACCGAG
* * * * * *
16956324 ATGAGAGGTCTCC-CGTAAGACTATTTGTGGGACATGGTATGGGCACCTATATGAGAACTCCCAT
1 ATGAGAGGTC-CCACGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAACTCCCAT
*
16956388 GTAAGACCATATCTACGATATGGAATTGGCA
65 GTAAGACCATATCTACGACATGGAATTGGCA
16956419 GTACAAGAAA
Statistics
Matches: 77, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
100 75 0.97
101 2 0.03
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.23
Consensus pattern (100 bp):
ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAACTCCCATG
TAAGACCATATCTACGACATGGAATTGGCACCGAG
Found at i:16957004 original size:56 final size:51
Alignment explanation
Indices: 16956910--16957191 Score: 177
Period size: 50 Copynumber: 5.5 Consensus size: 51
16956900 TTGGGTAAAG
* * ** ** *
16956910 AGATCTCATGTAAGACCATGTCTGGGATATGGTATTGGCATAATTGAGGTTATGAG
1 AGATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGC--AACCGAGG---TGAA
* *
16956966 AGGTCCCATGTAAGACCATGTCTGGGACAGGGCGTTGGC-ACCGAGGTGAA
1 AGATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCAACCGAGGTGAA
* *
16957016 AGATCCCATGTAAGACTATGTCTGGGACATGGCGTTGGC-ACCGAGATGAGA
1 AGATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCAACCGAGGTGA-A
* * * * * * * **
16957067 GGTTCCC-CGTAAGATCATGTCTAGGACATGGCATGGGC-ACCGATATGAGA
1 AGATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCAACCGAGGTGA-A
* * * * * *
16957117 A-CTCCCATGTAAGATCATATCTGGGATATGGCATTGGCAGTA-C-A--AGAA
1 AGATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA--ACCGAGGTGAA
*
16957165 ACATCCCATGTAAGACCATGTCTGGGA
1 AGATCCCATGTAAGACCATGTCTGGGA
16957192 TATCTCTTTG
Statistics
Matches: 187, Mismatches: 33, Indels: 19
0.78 0.14 0.08
Matches are distributed among these distances:
48 2 0.01
49 28 0.15
50 110 0.59
51 7 0.04
52 1 0.01
53 6 0.03
56 33 0.18
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (51 bp):
AGATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCAACCGAGGTGAA
Found at i:16957079 original size:50 final size:50
Alignment explanation
Indices: 16956961--16957155 Score: 207
Period size: 50 Copynumber: 3.9 Consensus size: 50
16956951 AATTGAGGTT
* *
16956961 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACAGGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACTATGTCTGGGACATGGCGTTGGCACCGAG
* * *
16957011 GTGAAAGATCCCATGTAAGACTATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACTATGTCTGGGACATGGCGTTGGCACCGAG
* * * * *
16957061 ATGAGAGGTTCCC-CGTAAGA-TCATGTCTAGGACATGGCATGGGCACCGAT
1 ATGAGAGG-TCCCATGTAAGACT-ATGTCTGGGACATGGCGTTGGCACCGAG
** * * *
16957111 ATGAGAACTCCCATGTAAGA-TCATATCTGGGATATGGCATTGGCA
1 ATGAGAGGTCCCATGTAAGACT-ATGTCTGGGACATGGCGTTGGCA
16957156 GTACAAGAAA
Statistics
Matches: 122, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
49 5 0.04
50 113 0.93
51 4 0.03
ACGTcount: A:0.27, C:0.21, G:0.31, T:0.22
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACTATGTCTGGGACATGGCGTTGGCACCGAG
Found at i:16957106 original size:100 final size:100
Alignment explanation
Indices: 16956961--16957155 Score: 234
Period size: 100 Copynumber: 1.9 Consensus size: 100
16956951 AATTGAGGTT
* * * * *
16956961 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACAGGGCGTTGGCACCGAGGTGA-AAGATCCCAT
1 ATGAGAGGTCCCACGTAAGACCATGTCTAGGACAGGGCATGGGCACCGAGATGAGAA-ATCCCAT
* *
16957025 GTAAGA-CTATGTCTGGGACATGGCGTTGGCACCGAG
65 GTAAGATC-ATATCTGGGACATGGCATTGGCACCGAG
* * * *
16957061 ATGAGAGGTTCCC-CGTAAGATCATGTCTAGGACATGGCATGGGCACCGATATGAGAACTCCCAT
1 ATGAGAGG-TCCCACGTAAGACCATGTCTAGGACAGGGCATGGGCACCGAGATGAGAAATCCCAT
*
16957125 GTAAGATCATATCTGGGATATGGCATTGGCA
65 GTAAGATCATATCTGGGACATGGCATTGGCA
16957156 GTACAAGAAA
Statistics
Matches: 80, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
100 73 0.91
101 7 0.09
ACGTcount: A:0.27, C:0.21, G:0.31, T:0.22
Consensus pattern (100 bp):
ATGAGAGGTCCCACGTAAGACCATGTCTAGGACAGGGCATGGGCACCGAGATGAGAAATCCCATG
TAAGATCATATCTGGGACATGGCATTGGCACCGAG
Found at i:16960337 original size:25 final size:25
Alignment explanation
Indices: 16960295--16960378 Score: 82
Period size: 25 Copynumber: 3.3 Consensus size: 25
16960285 TTTTAAGTGT
*
16960295 TTTCAGTATATAGTCTATCTATAGTAG
1 TTTCAGTATATA--CTATCTATAGCAG
*
16960322 TCTT-AGTATATACTATTTATAGCAG
1 T-TTCAGTATATACTATCTATAGCAG
* *
16960347 TTTCAGGATATACTATC-AAAGACAG
1 TTTCAGTATATACTATCTATAG-CAG
16960372 TTTCAGT
1 TTTCAGT
16960379 TTCAGTTTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
24 5 0.10
25 32 0.67
27 9 0.19
28 2 0.04
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.40
Consensus pattern (25 bp):
TTTCAGTATATACTATCTATAGCAG
Found at i:16967805 original size:16 final size:18
Alignment explanation
Indices: 16967761--16967806 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 18
16967751 ATAGGGTTTT
*
16967761 TAAAAGTATATTACAAAA
1 TAAAATTATATTACAAAA
16967779 TAAAATT-TATTA-AAAA
1 TAAAATTATATTACAAAA
*
16967795 T-ATATTATATTA
1 TAAAATTATATTA
16967807 GATTTAAGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
15 4 0.16
16 10 0.40
17 5 0.20
18 6 0.24
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (18 bp):
TAAAATTATATTACAAAA
Found at i:16973488 original size:199 final size:199
Alignment explanation
Indices: 16973050--16974077 Score: 1289
Period size: 199 Copynumber: 5.2 Consensus size: 199
16973040 TACCAATTTA
*
16973050 ACTTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACATTG
1 ACTTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTG
* *
16973115 CAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTCCCCAGGCGACGCAGTGG-AGAGATTA
66 CAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTCCCCAGGCGATGCAGTGGAACAGATTA
* * * *
16973179 AAGCCACATCAGTGAATCTTGCTTCCCCGACTTTGCAGTTAAAAAGATTATAGCAACAACAGGAA
131 AAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACAGG-A
16973244 ATCTT
195 ATCTT
* * * * * * *
16973249 ATTTCCCTGGCGGTGCAGTGGAACAGATTACAGTCACATCGGTGAATCTGGCTTCCCCGACATTA
1 ACTTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTG
* * *
16973314 CAGTTAAAAAGATTAAAGCTACAACAGCAAATCCTACTCCCCAGGCGATGCAGTGGAATAGATTA
66 CAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTCCCCAGGCGATGCAGTGGAACAGATTA
* *
16973379 AAGCCACATCAGTGAATCTTTCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACAGTGA
131 AAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACAG-GA
16973444 ATCTT
195 ATCTT
* * * *
16973449 ACTCCCCAGGCGATGCAGTGG-AGAGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACTTTG
1 ACTTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTG
* * * * * * * *
16973513 CAATTAAAAAGATTAAAGCAACAACAGCAAATCTTATTTCCCTGGCGGTGTAGTGGAACAGATTA
66 CAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTCCCCAGGCGATGCAGTGGAACAGATTA
* * * *
16973578 AAGTCACATCGGTGAATCTGGCTTCCCCGACATTACAGTTAAAAAGATTAAAGCTACAACAGCAA
131 AAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACAGGAA
*
16973643 --AT
196 TCTT
* * *
16973645 ACTCCCCAGGCGATGCAGTGGAATAGATTAAAGCCACATCGGTGAATCTTTCTTCCCCGACATTG
1 ACTTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTG
* ** *
16973710 CAGTTAAAAAGATTAAAGCTACAACAGTGAATCTTACTAACCAGGCGACGCAGTGGAACAGATTA
66 CAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTCCCCAGGCGATGCAGTGGAACAGATTA
* * * * * * * * *
16973775 AAGCCATATCGGTGAATCTTGCTTCCCCAACTTTGTAGTT-AAAACATTAAACCTAAAATAGCAA
131 AAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACAG-GA
16973839 ATCTT
195 ATCTT
* * * * ** *
16973844 ATTTCCCTGGCAATGCAATGGAACAGATTAAAGCCACAAT-GGCAAACCTTGCTTCCCCGACATT
1 ACTTCCCAGGCGATGCAGTGGAACAGATTAAAGCCAC-ATCGGTGAATCTTGCTTCCCCGACATT
* * * *
16973908 GCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTTCTCAAGCGGTGCAGTGGAACAGATT
65 GCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTCCCCAGGCGATGCAGTGGAACAGATT
* * * * *
16973973 AATGCCAAAACGGTGAATCTTGCTTCCCC-AAAGTTGCAGTTAAAAAGATTAAAGCTACAATAGC
130 AAAGCCACATCGGTGAATCTTGCTTCCCCGACA-TTGCAGTTAAAAAGATTAAAGCTACAACAG-
16974037 GAATCTT
193 GAATCTT
* * * *
16974044 ACTTCCCAAGC-AGTGTAGTGGAACCGATTGAAGC
1 ACTTCCCAGGCGA-TGCAGTGGAACAGATTAAAGC
16974078 TACAGCAACG
Statistics
Matches: 714, Mismatches: 105, Indels: 19
0.85 0.13 0.02
Matches are distributed among these distances:
196 39 0.05
197 128 0.18
198 3 0.00
199 403 0.56
200 140 0.20
201 1 0.00
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (199 bp):
ACTTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTG
CAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTCCCCAGGCGATGCAGTGGAACAGATTA
AAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACAGGAA
TCTT
Found at i:16973592 original size:299 final size:298
Alignment explanation
Indices: 16973054--16974051 Score: 1495
Period size: 299 Copynumber: 3.3 Consensus size: 298
16973044 AATTTAACTT
16973054 CCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACATTGCAGT
1 CCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACATTGCAGT
16973119 TAAAAAGATTAAAGCTACAACAGCGAATCTTACTCCCCAGGCGACGCAGTGGAGAGATTAAAGCC
66 TAAAAAGATTAAAGCTACAACAGCGAATCTTACTCCCCAGGCGACGCAGTGGAGAGATTAAAGCC
* * *
16973184 ACATCAGTGAATCTTGCTTCCCCGACTTTGCAGTTAAAAAGATTATAGCAACAACAGGAAATCTT
131 ACATCGGTGAATCTTGCTTCCCCGACTTTGCAGTTAAAAAGATTAAAGCAACAACAGCAAATCTT
*
16973249 ATTTCCCTGGCGGTGCAGTGGAACAGATTACAGTCACATCGGTGAATCTGGCTTCCCCGACATTA
196 ATTTCCCTGGCGGTGCAGTGGAACAGATTAAAGTCACATCGGTGAATCTGGCTTCCCCGACATTA
16973314 CAGTTAAAAAGATTAAAGCTACAACAGCAAATCCTACTC
261 CAGTTAAAAAGATTAAAGCTACAACAGCAAAT-CTACTC
* *
16973353 CCCAGGCGATGCAGTGGAATAGATTAAAGCCACATCAGTGAATCTTTCTTCCCCGACATTGCAGT
1 CCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACATTGCAGT
* *
16973418 TAAAAAGATTAAAGCTACAACAGTGAATCTTACTCCCCAGGCGATGCAGTGGAGAGATTAAAGCC
66 TAAAAAGATTAAAGCTACAACAGCGAATCTTACTCCCCAGGCGACGCAGTGGAGAGATTAAAGCC
* *
16973483 ACATCGGTGAATCTTGCTTCCCTGACTTTGCAATTAAAAAGATTAAAGCAACAACAGCAAATCTT
131 ACATCGGTGAATCTTGCTTCCCCGACTTTGCAGTTAAAAAGATTAAAGCAACAACAGCAAATCTT
*
16973548 ATTTCCCTGGCGGTGTAGTGGAACAGATTAAAGTCACATCGGTGAATCTGGCTTCCCCGACATTA
196 ATTTCCCTGGCGGTGCAGTGGAACAGATTAAAGTCACATCGGTGAATCTGGCTTCCCCGACATTA
16973613 CAGTTAAAAAGATTAAAGCTACAACAGCAAA--TACTC
261 CAGTTAAAAAGATTAAAGCTACAACAGCAAATCTACTC
* * *
16973649 CCCAGGCGATGCAGTGGAATAGATTAAAGCCACATCGGTGAATCTTTCTTCCCCGACATTGCAGT
1 CCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACATTGCAGT
* ** *
16973714 TAAAAAGATTAAAGCTACAACAGTGAATCTTACTAACCAGGCGACGCAGTGGAACAGATTAAAGC
66 TAAAAAGATTAAAGCTACAACAGCGAATCTTACTCCCCAGGCGACGCAGTGG-AGAGATTAAAGC
* * * * * *
16973779 CATATCGGTGAATCTTGCTTCCCCAACTTTGTAGTT-AAAACATTAAACCTAA-AATAGCAAATC
130 CACATCGGTGAATCTTGCTTCCCCGACTTTGCAGTTAAAAAGATTAAAGC-AACAACAGCAAATC
** * * ** * *
16973842 TTATTTCCCTGGCAATGCAATGGAACAGATTAAAGCCACAAT-GGCAAACCTTGCTTCCCCGACA
194 TTATTTCCCTGGCGGTGCAGTGGAACAGATTAAAGTCAC-ATCGGTGAATCTGGCTTCCCCGACA
* * *
16973906 TTGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTT
258 TTACAGTTAAAAAGATTAAAGCTACAACAGCAAATC-TACTC
* * * * * * * *
16973948 CTCAAGCGGTGCAGTGGAACAGATTAATGCCAAAACGGTGAATCTTGCTTCCCC-AAAGTTGCAG
1 CCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACA-TTGCAG
* *
16974012 TTAAAAAGATTAAAGCTACAATAGCGAATCTTACTTCCCA
65 TTAAAAAGATTAAAGCTACAACAGCGAATCTTACTCCCCA
16974052 AGCAGTGTAG
Statistics
Matches: 643, Mismatches: 49, Indels: 14
0.91 0.07 0.02
Matches are distributed among these distances:
296 223 0.35
297 46 0.07
298 2 0.00
299 372 0.58
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (298 bp):
CCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACATTGCAGT
TAAAAAGATTAAAGCTACAACAGCGAATCTTACTCCCCAGGCGACGCAGTGGAGAGATTAAAGCC
ACATCGGTGAATCTTGCTTCCCCGACTTTGCAGTTAAAAAGATTAAAGCAACAACAGCAAATCTT
ATTTCCCTGGCGGTGCAGTGGAACAGATTAAAGTCACATCGGTGAATCTGGCTTCCCCGACATTA
CAGTTAAAAAGATTAAAGCTACAACAGCAAATCTACTC
Found at i:16974115 original size:100 final size:100
Alignment explanation
Indices: 16973050--16974077 Score: 1302
Period size: 100 Copynumber: 10.3 Consensus size: 100
16973040 TACCAATTTA
*
16973050 ACTTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACATTG
1 ACTTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTG
16973115 CAGTTAAAAAGATTAAAGCTACAACAGCGAATCTT
66 CAGTTAAAAAGATTAAAGCTACAACAGCGAATCTT
* * * * *
16973150 ACTCCCCAGGCGACGCAGTGG-AGAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACTTTG
1 ACTTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTG
* *
16973214 CAGTTAAAAAGATTATAGCAACAACAG-GAAATCTT
66 CAGTTAAAAAGATTAAAGCTACAACAGCG-AATCTT
* * * * * * *
16973249 ATTTCCCTGGCGGTGCAGTGGAACAGATTACAGTCACATCGGTGAATCTGGCTTCCCCGACATTA
1 ACTTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTG
* *
16973314 CAGTTAAAAAGATTAAAGCTACAACAGCAAATCCT
66 CAGTTAAAAAGATTAAAGCTACAACAGCGAATCTT
* * * *
16973349 ACTCCCCAGGCGATGCAGTGGAATAGATTAAAGCCACATCAGTGAATCTTTCTTCCCCGACATTG
1 ACTTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTG
*
16973414 CAGTTAAAAAGATTAAAGCTACAACAGTGAATCTT
66 CAGTTAAAAAGATTAAAGCTACAACAGCGAATCTT
* * * *
16973449 ACTCCCCAGGCGATGCAGTGG-AGAGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACTTTG
1 ACTTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTG
* * *
16973513 CAATTAAAAAGATTAAAGCAACAACAGCAAATCTT
66 CAGTTAAAAAGATTAAAGCTACAACAGCGAATCTT
* * * * * * *
16973548 ATTTCCCTGGCGGTGTAGTGGAACAGATTAAAGTCACATCGGTGAATCTGGCTTCCCCGACATTA
1 ACTTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTG
*
16973613 CAGTTAAAAAGATTAAAGCTACAACAGC-AA--AT
66 CAGTTAAAAAGATTAAAGCTACAACAGCGAATCTT
* * *
16973645 ACTCCCCAGGCGATGCAGTGGAATAGATTAAAGCCACATCGGTGAATCTTTCTTCCCCGACATTG
1 ACTTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTG
*
16973710 CAGTTAAAAAGATTAAAGCTACAACAGTGAATCTT
66 CAGTTAAAAAGATTAAAGCTACAACAGCGAATCTT
** * * * *
16973745 ACTAACCAGGCGACGCAGTGGAACAGATTAAAGCCATATCGGTGAATCTTGCTTCCCCAACTTTG
1 ACTTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTG
* * * * * *
16973810 TAGTT-AAAACATTAAACCTAAAATAGCAAATCTT
66 CAGTTAAAAAGATTAAAGCTACAACAGCGAATCTT
* * * * ** *
16973844 ATTTCCCTGGCAATGCAATGGAACAGATTAAAGCCACAAT-GGCAAACCTTGCTTCCCCGACATT
1 ACTTCCCAGGCGATGCAGTGGAACAGATTAAAGCCAC-ATCGGTGAATCTTGCTTCCCCGACATT
16973908 GCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTT
65 GCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTT
* * * * * * *
16973944 ACTTCTCAAGCGGTGCAGTGGAACAGATTAATGCCAAAACGGTGAATCTTGCTTCCCC-AAAGTT
1 ACTTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACA-TT
*
16974008 GCAGTTAAAAAGATTAAAGCTACAATAGCGAATCTT
65 GCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTT
* * * *
16974044 ACTTCCCAAGC-AGTGTAGTGGAACCGATTGAAGC
1 ACTTCCCAGGCGA-TGCAGTGGAACAGATTAAAGC
16974078 TACAGCAACG
Statistics
Matches: 790, Mismatches: 126, Indels: 24
0.84 0.13 0.03
Matches are distributed among these distances:
97 83 0.11
98 3 0.00
99 254 0.32
100 450 0.57
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (100 bp):
ACTTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTG
CAGTTAAAAAGATTAAAGCTACAACAGCGAATCTT
Found at i:16975660 original size:18 final size:16
Alignment explanation
Indices: 16975626--16975661 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
16975616 TAATATAATA
16975626 TATTTTTAATAACTTT
1 TATTTTTAATAACTTT
16975642 TATTTTGTAATATACTTT
1 TATTTT-TAATA-ACTTT
16975660 TA
1 TA
16975662 AAAACCCTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.33
17 5 0.28
18 7 0.39
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.61
Consensus pattern (16 bp):
TATTTTTAATAACTTT
Found at i:16983874 original size:26 final size:27
Alignment explanation
Indices: 16983823--16983884 Score: 83
Period size: 26 Copynumber: 2.3 Consensus size: 27
16983813 AAAGATTATT
* *
16983823 AAATGATCGAAATACCCTCTTAGGGTA
1 AAATGACCAAAATACCCTCTTAGGGTA
16983850 AAATGACCAAAATACCC-C-TACGGGTA
1 AAATGACCAAAATACCCTCTTA-GGGTA
16983876 AAATGACCA
1 AAATGACCA
16983885 TTTTAACCCT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
25 2 0.06
26 15 0.47
27 15 0.47
ACGTcount: A:0.42, C:0.23, G:0.16, T:0.19
Consensus pattern (27 bp):
AAATGACCAAAATACCCTCTTAGGGTA
Found at i:16988635 original size:47 final size:47
Alignment explanation
Indices: 16988576--16988773 Score: 261
Period size: 47 Copynumber: 4.2 Consensus size: 47
16988566 GTTATTGTAA
* * * * * *
16988576 TGCATATAAACTATCACTTAATGATATTGTGGACAAGTCACCACTGT
1 TGCAGATAAACTACCACTTAATAAAATTGTGGACAAGCCACCACTTT
16988623 TGCAGATAAACTACCACTTAATAAAATTGTGGACAAGCCACCACTTT
1 TGCAGATAAACTACCACTTAATAAAATTGTGGACAAGCCACCACTTT
* * * *
16988670 TGCAAATAAAATGCCACTTAATAAAATTGTGGACTAGCCACCACTTT
1 TGCAGATAAACTACCACTTAATAAAATTGTGGACAAGCCACCACTTT
* * * *
16988717 TGTAGATAAACTGCCACTTTATAATATTGTGGACAAGCCACCACTTT
1 TGCAGATAAACTACCACTTAATAAAATTGTGGACAAGCCACCACTTT
*
16988764 TGTAGATAAA
1 TGCAGATAAA
16988774 TTGCTACTTC
Statistics
Matches: 135, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 135 1.00
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.29
Consensus pattern (47 bp):
TGCAGATAAACTACCACTTAATAAAATTGTGGACAAGCCACCACTTT
Found at i:16999073 original size:32 final size:32
Alignment explanation
Indices: 16999032--16999093 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
16999022 AAAATTTTTT
16999032 ATATGCAATAATGATATGTATGAAGTATTGGC
1 ATATGCAATAATGATATGTATGAAGTATTGGC
16999064 ATATGCAATAATGATATGTATGAAGTATTG
1 ATATGCAATAATGATATGTATGAAGTATTG
16999094 TCTAAATAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.39, C:0.05, G:0.21, T:0.35
Consensus pattern (32 bp):
ATATGCAATAATGATATGTATGAAGTATTGGC
Found at i:17011182 original size:13 final size:13
Alignment explanation
Indices: 17011157--17011196 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
17011147 TAAGTAAATG
*
17011157 GAAATGGTTATAT
1 GAAATGTTTATAT
*
17011170 GAAGTGTTTATAT
1 GAAATGTTTATAT
17011183 GAAATGTTTATAT
1 GAAATGTTTATAT
17011196 G
1 G
17011197 GATATAGATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (13 bp):
GAAATGTTTATAT
Found at i:17011240 original size:13 final size:12
Alignment explanation
Indices: 17011222--17011255 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
17011212 AAAGGGACAT
17011222 TTGAAATGAATA
1 TTGAAATGAATA
17011234 CTTGAAATGAATA
1 -TTGAAATGAATA
17011247 TGTGAAATG
1 T-TGAAATG
17011256 TTAAATGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 1 0.05
13 19 0.95
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.32
Consensus pattern (12 bp):
TTGAAATGAATA
Found at i:17014710 original size:50 final size:50
Alignment explanation
Indices: 17014610--17014846 Score: 188
Period size: 50 Copynumber: 4.6 Consensus size: 50
17014600 AATGAGATCC
*
17014610 CATGTAAGACCATGTCTGGGACATGGCATTGGCATTTTTGAGGTTATGAGAGGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA---CTGA-G--ATGAGAGGTCT
* * *
17014666 CATGTAAGACCATGCCTGGGACATGGCGTTGGCACTGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGTCT
** * * * * **
17014716 CCCGTAAGACCATGTCTAGGACATGGCATGGGCACTAATATGAGAACTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGTCT
* ** * * * * * * ** *
17014766 CATGTAAGACCATATCTGAAATATGGAATTGGCAGT-ACAGGAAACATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGTCT
*
17014815 CATGTAAGACCATGTCTGGGACATGGCTTTGG
1 CATGTAAGACCATGTCTGGGACATGGCATTGG
17014847 TATGTTATTA
Statistics
Matches: 144, Mismatches: 37, Indels: 7
0.77 0.20 0.04
Matches are distributed among these distances:
49 33 0.23
50 75 0.52
52 1 0.01
53 3 0.02
56 32 0.22
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGTCT
Found at i:17017210 original size:31 final size:31
Alignment explanation
Indices: 17017175--17017236 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
17017165 CAAATTTTAC
17017175 GTGGAAAAACTTTTCAAAAGAGGATAAAAAA
1 GTGGAAAAACTTTTCAAAAGAGGATAAAAAA
17017206 GTGGAAAAACTTTTCAAAAGAGGATAAAAAA
1 GTGGAAAAACTTTTCAAAAGAGGATAAAAAA
17017237 ACCTTAGGCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.55, C:0.06, G:0.19, T:0.19
Consensus pattern (31 bp):
GTGGAAAAACTTTTCAAAAGAGGATAAAAAA
Found at i:17021279 original size:25 final size:25
Alignment explanation
Indices: 17021231--17021287 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
17021221 CATGTACATG
*
17021231 TATGCTCATATGAGCTGTGAATCGA
1 TATGCTCATATGAGCTATGAATCGA
* *
17021256 TATGCTCATTTGAGCTAT-AGATCGG
1 TATGCTCATATGAGCTATGA-ATCGA
17021281 TATGCTC
1 TATGCTC
17021288 TCACGAGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 1 0.04
25 27 0.96
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.35
Consensus pattern (25 bp):
TATGCTCATATGAGCTATGAATCGA
Found at i:17021295 original size:25 final size:25
Alignment explanation
Indices: 17021267--17021320 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
17021257 ATGCTCATTT
* *
17021267 GAGCTATAGATCGGTATGCTCTCAC
1 GAGCTATAAATCAGTATGCTCTCAC
* *
17021292 GAGCTATAAATCAGTATGCTTTCAT
1 GAGCTATAAATCAGTATGCTCTCAC
17021317 GAGC
1 GAGC
17021321 GGTGGAGTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (25 bp):
GAGCTATAAATCAGTATGCTCTCAC
Found at i:17029516 original size:22 final size:22
Alignment explanation
Indices: 17029468--17029543 Score: 55
Period size: 23 Copynumber: 3.4 Consensus size: 22
17029458 AATAAACAAT
* *
17029468 TAGGGTTCACATATTAACACATG
1 TAGGGTTCACATA-TAAAACATA
17029491 TAGGGTTCACATA-AATAACATA
1 TAGGGTTCACATATAA-AACATA
* ** * *
17029513 TAGGCTTCGTATATTAGAACATG
1 TAGGGTTCACATA-TAAAACATA
17029536 TAGGGTTC
1 TAGGGTTC
17029544 GCATGGTAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
21 2 0.05
22 14 0.33
23 25 0.60
24 1 0.02
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (22 bp):
TAGGGTTCACATATAAAACATA
Found at i:17040433 original size:28 final size:28
Alignment explanation
Indices: 17040390--17040456 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
17040380 AAAATTAGTT
* *
17040390 ACAAAAGAATAAATTAAGTATCACTTATG
1 ACAAAA-AAAAAATTAAGTATCAATTATG
* *
17040419 ACAAAAAAAAAATTAGGTATCAATTTTG
1 ACAAAAAAAAAATTAAGTATCAATTATG
17040447 A-AAAAAAAAA
1 ACAAAAAAAAA
17040457 GTATTGTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 9 0.26
28 19 0.56
29 6 0.18
ACGTcount: A:0.60, C:0.07, G:0.09, T:0.24
Consensus pattern (28 bp):
ACAAAAAAAAAATTAAGTATCAATTATG
Found at i:17041517 original size:24 final size:24
Alignment explanation
Indices: 17041489--17041537 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
17041479 AAATATTTAT
* *
17041489 TTTACTAGATTATCAATTTTATAA
1 TTTACTAGATTAACAACTTTATAA
*
17041513 TTTACTGGATTAACAACTTTATAA
1 TTTACTAGATTAACAACTTTATAA
17041537 T
1 T
17041538 GTGATGATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.37, C:0.10, G:0.06, T:0.47
Consensus pattern (24 bp):
TTTACTAGATTAACAACTTTATAA
Found at i:17055128 original size:25 final size:25
Alignment explanation
Indices: 17055089--17055216 Score: 168
Period size: 25 Copynumber: 5.1 Consensus size: 25
17055079 TATTGTACAT
*
17055089 GTATGCTCAT-ACGAGCTGTGAATCG
1 GTATGCTC-TCACGAGCTGTAAATCG
*
17055114 GTATGCTCTCTCGAGCTGTAAATCG
1 GTATGCTCTCACGAGCTGTAAATCG
*
17055139 GTATGCTCTCACGAGCTGTAATTCG
1 GTATGCTCTCACGAGCTGTAAATCG
* * *
17055164 GTATGCTCTCACAAGTTGTAAATCA
1 GTATGCTCTCACGAGCTGTAAATCG
* *
17055189 GTATGCTCTCACAAGCTGTAAACCG
1 GTATGCTCTCACGAGCTGTAAATCG
17055214 GTA
1 GTA
17055217 AGCTTATACG
Statistics
Matches: 91, Mismatches: 11, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
24 1 0.01
25 90 0.99
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.30
Consensus pattern (25 bp):
GTATGCTCTCACGAGCTGTAAATCG
Found at i:17101692 original size:17 final size:19
Alignment explanation
Indices: 17101672--17101712 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
17101662 TTAATTAGTA
*
17101672 TAAAATA-TTCAAT-AAAT
1 TAAAATAGTTAAATAAAAT
17101689 TAAAA-AGTTAAATAAAAT
1 TAAAATAGTTAAATAAAAT
17101707 TAAAAT
1 TAAAAT
17101713 TTAGGTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 1 0.05
17 10 0.50
18 9 0.45
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.32
Consensus pattern (19 bp):
TAAAATAGTTAAATAAAAT
Found at i:17102591 original size:30 final size:29
Alignment explanation
Indices: 17102534--17102592 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
17102524 TACCTTTGAA
*
17102534 AATATTTACAAAAAGAAACATCTAATTTTT
1 AATATTTACAAAAAGAAACA-CAAATTTTT
17102564 AATATTTACAAAAAGAGTAAC-CAAATTTT
1 AATATTTACAAAAAGA--AACACAAATTTT
17102593 GAAAATAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 23 0.88
32 3 0.12
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.34
Consensus pattern (29 bp):
AATATTTACAAAAAGAAACACAAATTTTT
Found at i:17105047 original size:27 final size:27
Alignment explanation
Indices: 17105008--17105148 Score: 137
Period size: 27 Copynumber: 5.2 Consensus size: 27
17104998 ATTCGTGGGC
* *
17105008 AAATGACTAAAATACCCTCAAAGGGTA
1 AAATGACTGAAATACCCCCAAAGGGTA
* * *
17105035 AAATGACTGAAATACCCTCGAAGGGTG
1 AAATGACTGAAATACCCCCAAAGGGTA
* *
17105062 AAATGACTAAAATACCCCCGAAA-GCTA
1 AAATGACTGAAATACCCCC-AAAGGGTA
* *
17105089 AAATGA-TCGAAATACCCCCGAAGAGTA
1 AAATGACT-GAAATACCCCCAAAGGGTA
17105116 AAATGA-TCGAAATACCCCCATAA-GGTA
1 AAATGACT-GAAATACCCCCA-AAGGGTA
17105143 AAATGA
1 AAATGA
17105149 TTGTTATACC
Statistics
Matches: 96, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
26 3 0.03
27 89 0.93
28 4 0.04
ACGTcount: A:0.45, C:0.21, G:0.17, T:0.17
Consensus pattern (27 bp):
AAATGACTGAAATACCCCCAAAGGGTA
Found at i:17105158 original size:54 final size:53
Alignment explanation
Indices: 17105008--17105151 Score: 173
Period size: 54 Copynumber: 2.7 Consensus size: 53
17104998 ATTCGTGGGC
* * * * *
17105008 AAATGACTAAAATACCCTCAAAGGGTAAAATGACTGAAATACCCTCGAAGGGTG
1 AAATGACTAAAATACCCCCAAA-GGTAAAATGATTGAAATACCCCCGAAGAGTA
* *
17105062 AAATGACTAAAATACCCCCGAAAGCTAAAATGATCGAAATACCCCCGAAGAGTA
1 AAATGACTAAAATACCCCC-AAAGGTAAAATGATTGAAATACCCCCGAAGAGTA
*
17105116 AAATGA-TCGAAATACCCCCATAAGGTAAAATGATTG
1 AAATGACT-AAAATACCCCCA-AAGGTAAAATGATTG
17105152 TTATACCATT
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
53 2 0.03
54 72 0.94
55 3 0.04
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.18
Consensus pattern (53 bp):
AAATGACTAAAATACCCCCAAAGGTAAAATGATTGAAATACCCCCGAAGAGTA
Found at i:17105348 original size:26 final size:26
Alignment explanation
Indices: 17105318--17105391 Score: 103
Period size: 26 Copynumber: 2.8 Consensus size: 26
17105308 TGCCGCATAT
* *
17105318 ATGTTATTGGCAGCTTTGCTGTGTTA
1 ATGTTACTGGCAGCTTTGCTGCGTTA
* *
17105344 TTGTTACTGGCAGCCTTGCTGCGTTA
1 ATGTTACTGGCAGCTTTGCTGCGTTA
*
17105370 ATATTACTGGCAGCTTTGCTGC
1 ATGTTACTGGCAGCTTTGCTGC
17105392 AATAATGGTG
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.15, C:0.19, G:0.26, T:0.41
Consensus pattern (26 bp):
ATGTTACTGGCAGCTTTGCTGCGTTA
Found at i:17105397 original size:26 final size:26
Alignment explanation
Indices: 17105347--17105397 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
17105337 TGTGTTATTG
**
17105347 TTACTGGCAGCCTTGCTGCGTTAATA
1 TTACTGGCAGCCTTGCTGCAATAATA
*
17105373 TTACTGGCAGCTTTGCTGCAATAAT
1 TTACTGGCAGCCTTGCTGCAATAAT
17105398 GGTGTGTTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.35
Consensus pattern (26 bp):
TTACTGGCAGCCTTGCTGCAATAATA
Found at i:17105563 original size:30 final size:29
Alignment explanation
Indices: 17105502--17105586 Score: 93
Period size: 30 Copynumber: 2.9 Consensus size: 29
17105492 CATTGTACTG
* *
17105502 ATTACTGTAATGGGCAAAGGCCCA-A-ACT
1 ATTACTGTATTGGGC-TAGGCCCACACACT
17105530 ATTACTGTATTGGGCTAGGACCCACACACT
1 ATTACTGTATTGGGCTAGG-CCCACACACT
**
17105560 ATTACCATATTGGGCTAAGGCCCACAC
1 ATTACTGTATTGGGCT-AGGCCCACAC
17105587 TGTACTAATA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
27 3 0.06
28 18 0.37
29 1 0.02
30 24 0.49
31 3 0.06
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.24
Consensus pattern (29 bp):
ATTACTGTATTGGGCTAGGCCCACACACT
Found at i:17105614 original size:33 final size:33
Alignment explanation
Indices: 17105557--17105621 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
17105547 GGACCCACAC
* *
17105557 ACTATTACCATATTGGGCTAAGGCCCACACTGT
1 ACTAATACCATATAGGGCTAAGGCCCACACTGT
* * *
17105590 ACTAATACTATATAGGGCTCAGGCCCAGACTG
1 ACTAATACCATATAGGGCTAAGGCCCACACTG
17105622 ATTCTGCGTG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (33 bp):
ACTAATACCATATAGGGCTAAGGCCCACACTGT
Found at i:17108261 original size:30 final size:28
Alignment explanation
Indices: 17108204--17108318 Score: 142
Period size: 30 Copynumber: 4.0 Consensus size: 28
17108194 ACTGTAATAT
* *
17108204 GCTAAGGCCCACATTATTACTGTATTGG
1 GCTAAGGCCCACACTGTTACTGTATTGG
*
17108232 GCTAAGGCACACACACTGTTACCGTATTGG
1 GCTAAGGC-C-CACACTGTTACTGTATTGG
*
17108262 GCTAAGGCCCACACGCTGTTACTGTACTGG
1 GCTAAGGCCCACA--CTGTTACTGTATTGG
17108292 GCTAAGGCCCACACTG-TACTGATATTG
1 GCTAAGGCCCACACTGTTACTG-TATTG
17108319 CATAGGGCTC
Statistics
Matches: 76, Mismatches: 6, Indels: 10
0.83 0.07 0.11
Matches are distributed among these distances:
27 5 0.07
28 19 0.25
29 2 0.03
30 50 0.66
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.26
Consensus pattern (28 bp):
GCTAAGGCCCACACTGTTACTGTATTGG
Found at i:17108964 original size:13 final size:13
Alignment explanation
Indices: 17108945--17108979 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
17108935 TGATTTCGTG
*
17108945 AAAATTTTGTTCA
1 AAAATTTCGTTCA
*
17108958 GAAATTTCGTTCA
1 AAAATTTCGTTCA
17108971 AAAATTTCG
1 AAAATTTCG
17108980 ACGTTTGGGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.40
Consensus pattern (13 bp):
AAAATTTCGTTCA
Found at i:17110013 original size:41 final size:40
Alignment explanation
Indices: 17109968--17110324 Score: 293
Period size: 41 Copynumber: 8.6 Consensus size: 40
17109958 CTTTGAATGT
* * * *
17109968 AAGGGGTTACTAAGTGCAGATTCCCCGAATCATTGATCAGA
1 AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTA-A
* * * *
17110009 AAGGGGTTGC-ATGTGTTGATTCCCCGTATCTTTGATTAT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTAA
* * *
17110048 AAGGTGGTTTCTAAGTGCTGATTCCACCGTATCCTTGATTGTGA
1 AAGG-GGTTGCTAAGTGCTGATTCC-CCGTATCATTGA-T-TAA
* * * *
17110092 AAGGGGTTGCTATGTTCTAATTCCCCGTATCATTGATTAT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTAA
* * *
17110132 AAGGTGGTTGCTAAGTGCTGATTCCACCATATCCTTGATTGTGA
1 AAGG-GGTTGCTAAGTGCTGATTCC-CCGTATCATTGA-T-TAA
* * * * *
17110176 AAGGGGTTGCTATGTGTTGATTCTCTGTATCATTGATTAT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTAA
* * **
17110216 AAGGTGGTTGCTAAGTACTGATTCCACCGTATCCTTGATTGTGG
1 AAGG-GGTTGCTAAGTGCTGATTCC-CCGTATCATTGA-T-TAA
** * *
17110260 AAGGGGTTGCTATCTACTGATTCCCCGTATCATTGATTAT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTAA
*
17110300 AAGGTGGTTGCTAAGTGTTGATTCC
1 AAGG-GGTTGCTAAGTGCTGATTCC
17110325 GTTGGGATCC
Statistics
Matches: 249, Mismatches: 53, Indels: 28
0.75 0.16 0.08
Matches are distributed among these distances:
39 4 0.02
40 42 0.17
41 72 0.29
42 62 0.25
43 54 0.22
44 15 0.06
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (40 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTAA
Found at i:17110080 original size:42 final size:40
Alignment explanation
Indices: 17109967--17110324 Score: 331
Period size: 42 Copynumber: 8.6 Consensus size: 40
17109957 TCTTTGAATG
* * * *
17109967 TAAGGGGTTACTAAGTGCAGATTCCCCGAATCATTGATCA
1 TAAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTA
* * * *
17110007 GAAAGGGGTTGC-ATGTGTTGATTCCCCGTATCTTTGATTA
1 -TAAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTA
* * *
17110047 TAAGGTGGTTTCTAAGTGCTGATTCCACCGTATCCTTGATTG
1 TAAGG-GGTTGCTAAGTGCTGATTCC-CCGTATCATTGATTA
* * *
17110089 TGAAAGGGGTTGCTATGTTCTAATTCCCCGTATCATTGATTA
1 T--AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTA
* * *
17110131 TAAGGTGGTTGCTAAGTGCTGATTCCACCATATCCTTGATTG
1 TAAGG-GGTTGCTAAGTGCTGATTCC-CCGTATCATTGATTA
* * * *
17110173 TGAAAGGGGTTGCTATGTGTTGATTCTCTGTATCATTGATTA
1 T--AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTA
* * *
17110215 TAAGGTGGTTGCTAAGTACTGATTCCACCGTATCCTTGATTG
1 TAAGG-GGTTGCTAAGTGCTGATTCC-CCGTATCATTGATTA
** *
17110257 TGGAAGGGGTTGCTATCTACTGATTCCCCGTATCATTGATTA
1 T--AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTA
*
17110299 TAAGGTGGTTGCTAAGTGTTGATTCC
1 TAAGG-GGTTGCTAAGTGCTGATTCC
17110325 GTTGGGATCC
Statistics
Matches: 255, Mismatches: 48, Indels: 28
0.77 0.15 0.08
Matches are distributed among these distances:
39 4 0.02
40 39 0.15
41 69 0.27
42 80 0.31
43 51 0.20
44 12 0.05
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.37
Consensus pattern (40 bp):
TAAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTA
Found at i:17110128 original size:84 final size:84
Alignment explanation
Indices: 17109967--17110324 Score: 510
Period size: 84 Copynumber: 4.3 Consensus size: 84
17109957 TCTTTGAATG
* * * * **
17109967 TAAGG-GGTTACTAAGTGCAGATTCC-CCGAATCATTGA-TCAGAAAGGGGTTGC-ATGTGTTGA
1 TAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGGGGTTGCTATGTGTTGA
*
17110028 TTCCCCGTATCTTTGATTA
66 TTCCCCGTATCATTGATTA
* *
17110047 TAAGGTGGTTTCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGGGGTTGCTATGT-TCTA
1 TAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGGGGTTGCTATGTGT-TG
17110111 ATTCCCCGTATCATTGATTA
65 ATTCCCCGTATCATTGATTA
*
17110131 TAAGGTGGTTGCTAAGTGCTGATTCCACCATATCCTTGATTGTGAAAGGGGTTGCTATGTGTTGA
1 TAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGGGGTTGCTATGTGTTGA
* *
17110196 TTCTCTGTATCATTGATTA
66 TTCCCCGTATCATTGATTA
* * * **
17110215 TAAGGTGGTTGCTAAGTACTGATTCCACCGTATCCTTGATTGTGGAAGGGGTTGCTATCTACTGA
1 TAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGGGGTTGCTATGTGTTGA
17110280 TTCCCCGTATCATTGATTA
66 TTCCCCGTATCATTGATTA
*
17110299 TAAGGTGGTTGCTAAGTGTTGATTCC
1 TAAGGTGGTTGCTAAGTGCTGATTCC
17110325 GTTGGGATCC
Statistics
Matches: 249, Mismatches: 23, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
80 5 0.02
81 18 0.07
82 10 0.04
83 14 0.06
84 201 0.81
85 1 0.00
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.37
Consensus pattern (84 bp):
TAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGGGGTTGCTATGTGTTGA
TTCCCCGTATCATTGATTA
Found at i:17110776 original size:21 final size:21
Alignment explanation
Indices: 17110752--17110792 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
17110742 GTGGCTTTGG
17110752 AAAATAATTAAAAATTATAAA
1 AAAATAATTAAAAATTATAAA
* *
17110773 AAAATAATTACAAGTTATAA
1 AAAATAATTAAAAATTATAA
17110793 TTTATATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.29
Consensus pattern (21 bp):
AAAATAATTAAAAATTATAAA
Found at i:17118158 original size:5 final size:5
Alignment explanation
Indices: 17118141--17118192 Score: 70
Period size: 5 Copynumber: 10.4 Consensus size: 5
17118131 CTTTCTTTTC
* *
17118141 TCTCT TC-CC TCTCT TCTCT TCTCT TCTCT TCTCT TCTCT TCCTCT CCTCT
1 TCTCT TCTCT TCTCT TCTCT TCTCT TCTCT TCTCT TCTCT T-CTCT TCTCT
17118191 TC
1 TC
17118193 ATTTAGTGTT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
4 3 0.07
5 34 0.83
6 4 0.10
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (5 bp):
TCTCT
Found at i:17119000 original size:27 final size:27
Alignment explanation
Indices: 17118867--17118999 Score: 160
Period size: 27 Copynumber: 4.9 Consensus size: 27
17118857 GTAAATGATT
*
17118867 GAAATACCCTCAAAGGGTAAAATGACC
1 GAAATACCCTCGAAGGGTAAAATGACC
* *
17118894 GAAATACCCTCGAAGAGTAAAATAACC
1 GAAATACCCTCGAAGGGTAAAATGACC
* *
17118921 GAAATACCCCCGAAGGGTAAGATGACC
1 GAAATACCCTCGAAGGGTAAAATGACC
* * * **
17118948 GAAATACCC-CTAAAAGGTAATATGATT
1 GAAATACCCTC-GAAGGGTAAAATGACC
17118975 GAAATACCCTCGAAGGGTAAAATGA
1 GAAATACCCTCGAAGGGTAAAATGA
17119000 TATATACTAG
Statistics
Matches: 89, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
26 1 0.01
27 87 0.98
28 1 0.01
ACGTcount: A:0.44, C:0.20, G:0.20, T:0.17
Consensus pattern (27 bp):
GAAATACCCTCGAAGGGTAAAATGACC
Found at i:17119061 original size:26 final size:26
Alignment explanation
Indices: 17119028--17119099 Score: 99
Period size: 26 Copynumber: 2.8 Consensus size: 26
17119018 CCACATATAC
*
17119028 TGTTACTGGAAGCTTTGCTGCGTTAT
1 TGTTACTGGCAGCTTTGCTGCGTTAT
*
17119054 TGTTACTGGCAGCCTTGCTGCGTTAT
1 TGTTACTGGCAGCTTTGCTGCGTTAT
* * *
17119080 TATTGCTAGCAGCTTTGCTG
1 TGTTACTGGCAGCTTTGCTG
17119100 GGATATTGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.14, C:0.19, G:0.26, T:0.40
Consensus pattern (26 bp):
TGTTACTGGCAGCTTTGCTGCGTTAT
Found at i:17119252 original size:28 final size:28
Alignment explanation
Indices: 17119211--17119296 Score: 118
Period size: 28 Copynumber: 3.0 Consensus size: 28
17119201 CATTGTACTG
*
17119211 ATTACTGTAATGGGCTAAGGCCCACTCT
1 ATTACTGTAATGGGCTAAGGCCCACACT
*
17119239 ATTACTGTATTGGGCTAAGGCCCACACACT
1 ATTACTGTAATGGGCTAAGG-CC-CACACT
* *
17119269 GTTACTGTACTGGGCTAAGGCCCACACT
1 ATTACTGTAATGGGCTAAGGCCCACACT
17119297 TACTGATACT
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
28 25 0.48
29 4 0.08
30 23 0.44
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (28 bp):
ATTACTGTAATGGGCTAAGGCCCACACT
Found at i:17119276 original size:30 final size:30
Alignment explanation
Indices: 17119207--17119324 Score: 132
Period size: 30 Copynumber: 3.9 Consensus size: 30
17119197 ACTGCATTGT
*
17119207 ACTGATTACTGTAATGGGCTAAGG-CC-CAC
1 ACTG-TTACTGTATTGGGCTAAGGCCCACAC
* *
17119236 TCTATTACTGTATTGGGCTAAGGCCCACAC
1 ACTGTTACTGTATTGGGCTAAGGCCCACAC
*
17119266 ACTGTTACTGTACTGGGCTAAGGCCCACAC
1 ACTGTTACTGTATTGGGCTAAGGCCCACAC
* * *
17119296 TTACTGATACTGTATAGGGCTCAGGCCCA
1 --ACTGTTACTGTATTGGGCTAAGGCCCA
17119325 GACTGGTTCT
Statistics
Matches: 75, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
28 18 0.24
29 4 0.05
30 30 0.40
32 23 0.31
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (30 bp):
ACTGTTACTGTATTGGGCTAAGGCCCACAC
Found at i:17119316 original size:32 final size:31
Alignment explanation
Indices: 17119206--17119324 Score: 124
Period size: 32 Copynumber: 3.9 Consensus size: 31
17119196 TACTGCATTG
*
17119206 TACTGATTACTGTA-ATGGGCTAAGGCCCACTC
1 TACTGA-TACTGTATA-GGGCTAAGGCCCACAC
*
17119238 TA-T--TACTGTATTGGGCTAAGGCCCACAC
1 TACTGATACTGTATAGGGCTAAGGCCCACAC
*
17119266 -ACTGTTACTGTACT-GGGCTAAGGCCCACAC
1 TACTGATACTGTA-TAGGGCTAAGGCCCACAC
*
17119296 TTACTGATACTGTATAGGGCTCAGGCCCA
1 -TACTGATACTGTATAGGGCTAAGGCCCA
17119325 GACTGGTTCT
Statistics
Matches: 75, Mismatches: 4, Indels: 16
0.79 0.04 0.17
Matches are distributed among these distances:
27 1 0.01
28 23 0.31
30 23 0.31
31 3 0.04
32 25 0.33
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (31 bp):
TACTGATACTGTATAGGGCTAAGGCCCACAC
Found at i:17127103 original size:8 final size:8
Alignment explanation
Indices: 17127090--17127117 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
17127080 CCAAAATGCA
17127090 AAATTCAC
1 AAATTCAC
17127098 AAATTCAC
1 AAATTCAC
17127106 AAATTCAC
1 AAATTCAC
17127114 AAAT
1 AAAT
17127118 AATGACTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.54, C:0.21, G:0.00, T:0.25
Consensus pattern (8 bp):
AAATTCAC
Found at i:17133758 original size:21 final size:21
Alignment explanation
Indices: 17133703--17133760 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
17133693 TTTATTAAGT
* *
17133703 ACTCAATTAAATACATTAGAA
1 ACTCAATTAAATATATGAGAA
*
17133724 ACTCAATTATATATATGAGAA
1 ACTCAATTAAATATATGAGAA
17133745 ACTCAATTAAATATAT
1 ACTCAATTAAATATAT
17133761 AAGACCCTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.50, C:0.12, G:0.05, T:0.33
Consensus pattern (21 bp):
ACTCAATTAAATATATGAGAA
Found at i:17134194 original size:13 final size:13
Alignment explanation
Indices: 17134172--17134205 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
17134162 CAAACATGGA
17134172 GCTAAGTGATACC
1 GCTAAGTGATACC
*
17134185 GCTAATTGATACC
1 GCTAAGTGATACC
*
17134198 ACTAAGTG
1 GCTAAGTG
17134206 TTACAAGTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (13 bp):
GCTAAGTGATACC
Found at i:17139989 original size:26 final size:26
Alignment explanation
Indices: 17139958--17140011 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
17139948 TCAATCTCTT
17139958 GAACAATTTCCAATGTCAATCCAAGC
1 GAACAATTTCCAATGTCAATCCAAGC
17139984 GAACAATTTCCAATGTCAATCCAAGC
1 GAACAATTTCCAATGTCAATCCAAGC
17140010 GA
1 GA
17140012 TTAATCAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.39, C:0.26, G:0.13, T:0.22
Consensus pattern (26 bp):
GAACAATTTCCAATGTCAATCCAAGC
Found at i:17144183 original size:41 final size:41
Alignment explanation
Indices: 17144081--17144401 Score: 341
Period size: 41 Copynumber: 7.7 Consensus size: 41
17144071 TCTTTGAATG
* *
17144081 TAAGGGGTTGCTAAGTG-TAGATTCC-CCGAATCATTGATAA
1 TAAGGGGTTGCTAAGTGCT-GATTCCACCGTATCATTGATTA
* *
17144121 AAAGGGGTTGCTATGTGCTGATTCC-CCGTATCATTGATTA
1 TAAGGGGTTGCTAAGTGCTGATTCCACCGTATCATTGATTA
*
17144161 TAAGGTGGTTGCTAAGTGCTGATTCCACCGTATC-TTGATTG
1 TAAGG-GGTTGCTAAGTGCTGATTCCACCGTATCATTGATTA
* * *
17144202 TGAAAGGGGTTGCTATGTGTTGATTCC-CCGTATAATTGATTA
1 T--AAGGGGTTGCTAAGTGCTGATTCCACCGTATCATTGATTA
* *
17144244 TAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTG-TTG
1 TAAGG-GGTTGCTAAGTGCTGATTCCACCGTATCATTGATTA
* *
17144285 TGAAAGGGGTTGCTATGTGTTGATTCC-CCGTATCATTGATTA
1 T--AAGGGGTTGCTAAGTGCTGATTCCACCGTATCATTGATTA
* * **
17144327 TAAGGTGGTTGCTAAGTGCTGATTCCACCGGGATCCTTTGAACA
1 TAAGG-GGTTGCTAAGTGCTGATTCCACC-GTAT-CATTGATTA
*
17144371 TGAGGTGGTTGCTAAGTGCTGATTCCACCGT
1 TAAGG-GGTTGCTAAGTGCTGATTCCACCGT
17144402 GTAACAGTTA
Statistics
Matches: 238, Mismatches: 28, Indels: 27
0.81 0.10 0.09
Matches are distributed among these distances:
40 46 0.19
41 82 0.34
42 64 0.27
43 12 0.05
44 34 0.14
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.35
Consensus pattern (41 bp):
TAAGGGGTTGCTAAGTGCTGATTCCACCGTATCATTGATTA
Found at i:17144227 original size:83 final size:83
Alignment explanation
Indices: 17144081--17144356 Score: 438
Period size: 83 Copynumber: 3.4 Consensus size: 83
17144071 TCTTTGAATG
* ** *
17144081 TAAGG-GGTTGCTAAGTG-TAGATTCC-CCGAATCATTGA-T-AAAAAGGGGTTGCTATGTGCTG
1 TAAGGTGGTTGCTAAGTGCT-GATTCCACCGTATC-TTGATTGTGAAAGGGGTTGCTATGTGTTG
17144141 ATTCCCCGTATCATTGATTA
64 ATTCCCCGTATCATTGATTA
17144161 TAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCTTGATTGTGAAAGGGGTTGCTATGTGTTGAT
1 TAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCTTGATTGTGAAAGGGGTTGCTATGTGTTGAT
*
17144226 TCCCCGTATAATTGATTA
66 TCCCCGTATCATTGATTA
17144244 TAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTG-TTGTGAAAGGGGTTGCTATGTGTTGA
1 TAAGGTGGTTGCTAAGTGCTGATTCCACCGTAT-CTTGATTGTGAAAGGGGTTGCTATGTGTTGA
17144308 TTCCCCGTATCATTGATTA
65 TTCCCCGTATCATTGATTA
17144327 TAAGGTGGTTGCTAAGTGCTGATTCCACCG
1 TAAGGTGGTTGCTAAGTGCTGATTCCACCG
17144357 GGATCCTTTG
Statistics
Matches: 184, Mismatches: 6, Indels: 9
0.92 0.03 0.05
Matches are distributed among these distances:
80 5 0.03
81 22 0.12
82 8 0.04
83 145 0.79
84 4 0.02
ACGTcount: A:0.22, C:0.16, G:0.26, T:0.35
Consensus pattern (83 bp):
TAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCTTGATTGTGAAAGGGGTTGCTATGTGTTGAT
TCCCCGTATCATTGATTA
Found at i:17152885 original size:12 final size:10
Alignment explanation
Indices: 17152849--17152895 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
17152839 GAATCTATCA
*
17152849 AAAATT-ATC
1 AAAATTAATT
*
17152858 AAAATTAATC
1 AAAATTAATT
17152868 AAAATTAACTAT
1 AAAATTAA-T-T
17152880 AAAATTAATT
1 AAAATTAATT
17152890 AAAATT
1 AAAATT
17152896 CTTCATGTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
9 6 0.18
10 18 0.53
11 2 0.06
12 8 0.24
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (10 bp):
AAAATTAATT
Found at i:17152951 original size:19 final size:20
Alignment explanation
Indices: 17152907--17152951 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
17152897 TTCATGTTCA
*
17152907 TATTTTTAACATAATTTATT
1 TATTTTTAACATAATTTAAT
17152927 TA-TTTTATA-AT-ATTTAAT
1 TATTTTTA-ACATAATTTAAT
17152945 TATTTTT
1 TATTTTT
17152952 TGACAAGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
18 8 0.36
19 11 0.50
20 3 0.14
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (20 bp):
TATTTTTAACATAATTTAAT
Found at i:17153674 original size:15 final size:15
Alignment explanation
Indices: 17153651--17153682 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
17153641 AATCAACCAC
*
17153651 TATTTTTTATTTAAT
1 TATTGTTTATTTAAT
17153666 TATTGTTTATTTAAT
1 TATTGTTTATTTAAT
17153681 TA
1 TA
17153683 CATTTGTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (15 bp):
TATTGTTTATTTAAT
Found at i:17155016 original size:62 final size:59
Alignment explanation
Indices: 17154905--17155018 Score: 149
Period size: 62 Copynumber: 1.9 Consensus size: 59
17154895 ATCACTTCAA
* * *
17154905 TATTAAATTAATATAATATTTATCCAGATAAATATTATATTAATCTTAATATAAAATAT
1 TATTAAAATAATAGAATATTTATCCAGATAAACATTATATTAATCTTAATATAAAATAT
*
17154964 TATTAAAATAATAGAATGTTTATCTACAAGATAAACATTATATTAAAT-TTAATAT
1 TATTAAAATAATAGAATATTTATC--C-AGATAAACATTATATT-AATCTTAATAT
17155019 TAAGATAATA
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
59 21 0.45
61 1 0.02
62 22 0.47
63 3 0.06
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.42
Consensus pattern (59 bp):
TATTAAAATAATAGAATATTTATCCAGATAAACATTATATTAATCTTAATATAAAATAT
Found at i:17158963 original size:4 final size:4
Alignment explanation
Indices: 17158954--17158984 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
17158944 GTTTTTCCTT
17158954 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT
17158985 TTTTGATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTC
Found at i:17161074 original size:13 final size:13
Alignment explanation
Indices: 17161047--17161075 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
17161037 GCTTAGTGGC
17161047 TTTTGACTTGATT
1 TTTTGACTTGATT
17161060 TTTTG-CTTGATT
1 TTTTGACTTGATT
17161072 TTTT
1 TTTT
17161076 AAGCAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.10, C:0.07, G:0.14, T:0.69
Consensus pattern (13 bp):
TTTTGACTTGATT
Found at i:17163393 original size:21 final size:21
Alignment explanation
Indices: 17163354--17163393 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
17163344 TCTATTTACG
*
17163354 AAAAACCTTAGTTTTTAGAAA
1 AAAAACCGTAGTTTTTAGAAA
17163375 AAAAACCGT-GTTTTGTAGA
1 AAAAACCGTAGTTTT-TAGA
17163394 GTTACAGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.33
Consensus pattern (21 bp):
AAAAACCGTAGTTTTTAGAAA
Found at i:17181358 original size:50 final size:50
Alignment explanation
Indices: 17181244--17181581 Score: 370
Period size: 50 Copynumber: 6.6 Consensus size: 50
17181234 AAAGAGATCT
* * * * * *
17181244 CATGTAAAACCATGCCTGGGACATGGCATTAGCATCATTGAGATTATGAAAGGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGGTCC
17181300 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
* * * *
17181350 CATCTAAGATCATGTCTAGGACATGGCGTTGGCACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
*
17181400 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
* * * * *
17181450 GATGTAAGACTATGTCTAGGACATGGCGTTGGCACCAAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
** * * * * * ** *
17181500 CCCGTAAAACCATGTCTCGGACATGGCATGGGCACCTATATGAGAACTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
* *
17181550 CATGTAAGACCATATCTGGGATATGGCATTGG
1 CATGTAAGACCATGTCTGGGACATGGCATTGG
17181582 TGGTACAAGA
Statistics
Matches: 241, Mismatches: 41, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
50 206 0.85
53 3 0.01
55 1 0.00
56 31 0.13
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
Found at i:17188392 original size:50 final size:50
Alignment explanation
Indices: 17188320--17188469 Score: 264
Period size: 50 Copynumber: 3.0 Consensus size: 50
17188310 CATTGAGATT
17188320 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
*
17188370 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
* **
17188420 ATGAGAGGTCCCATGTAAGGCCATGTCTGGGACATGGCACTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
17188470 TATCCTTAGT
Statistics
Matches: 95, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
50 95 1.00
ACGTcount: A:0.24, C:0.22, G:0.34, T:0.20
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
Found at i:17188451 original size:100 final size:102
Alignment explanation
Indices: 17188267--17188469 Score: 284
Period size: 100 Copynumber: 2.0 Consensus size: 102
17188257 ATTTGGGTAT
*
17188267 AGAGATCCCATGTAAGGCCAAGCCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCAAGCCTGGGACATGGCATTGGCATC--TGAG--TATGAGAGGTCCC
**
17188332 ATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
62 ATGTAAGACCATGTCTGGGACATGGCACTGGCACCGAGATG
* * * *
17188373 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATC-GAG-ATGAGAGGTCCCATGT
1 AGAGATCCCATGTAAGACCAAGCCTGGGACATGGCATTGGCATCTGAGTATGAGAGGTCCCATGT
*
17188436 AAGGCCATGTCTGGGACATGGCACTGGCACCGAG
66 AAGACCATGTCTGGGACATGGCACTGGCACCGAG
17188470 TATCCTTAGT
Statistics
Matches: 89, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
100 47 0.53
103 3 0.03
106 39 0.44
ACGTcount: A:0.25, C:0.22, G:0.33, T:0.21
Consensus pattern (102 bp):
AGAGATCCCATGTAAGACCAAGCCTGGGACATGGCATTGGCATCTGAGTATGAGAGGTCCCATGT
AAGACCATGTCTGGGACATGGCACTGGCACCGAGATG
Found at i:17199178 original size:17 final size:17
Alignment explanation
Indices: 17199156--17199194 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
17199146 CACTCAATGC
17199156 TCAGTGCACTATTTCCA
1 TCAGTGCACTATTTCCA
17199173 TCAGTGCACTATTTCCA
1 TCAGTGCACTATTTCCA
17199190 TCAGT
1 TCAGT
17199195 ACAAAACATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.23, C:0.28, G:0.13, T:0.36
Consensus pattern (17 bp):
TCAGTGCACTATTTCCA
Found at i:17205619 original size:20 final size:19
Alignment explanation
Indices: 17205594--17205650 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 19
17205584 GATTGGATTA
17205594 TAATTTAGCTTAATTAACCT
1 TAATTTA-CTTAATTAACCT
17205614 TAATTTTA-TTAATTAAACCT
1 TAA-TTTACTTAATT-AACCT
*
17205634 TATTTTACTTAAGTTAA
1 TAATTTACTTAA-TTAA
17205651 TGGTCCCCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
19 10 0.31
20 16 0.50
21 6 0.19
ACGTcount: A:0.37, C:0.11, G:0.04, T:0.49
Consensus pattern (19 bp):
TAATTTACTTAATTAACCT
Found at i:17205627 original size:19 final size:19
Alignment explanation
Indices: 17205597--17205650 Score: 65
Period size: 19 Copynumber: 2.7 Consensus size: 19
17205587 TGGATTATAA
17205597 TTTAGCTTAATTAACCTTAAT
1 TTTA-CTTAATTAACCTT-AT
17205618 TTTA-TTAATTAAACCTTAT
1 TTTACTTAATT-AACCTTAT
17205637 TTTACTTAAGTTAA
1 TTTACTTAA-TTAA
17205651 TGGTCCCCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
19 12 0.40
20 12 0.40
21 6 0.20
ACGTcount: A:0.35, C:0.11, G:0.04, T:0.50
Consensus pattern (19 bp):
TTTACTTAATTAACCTTAT
Found at i:17213646 original size:25 final size:24
Alignment explanation
Indices: 17213617--17213679 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
17213607 TAGTTTTATT
17213617 TTTTTATATTGTACTTAGTAACTCAC
1 TTTTTA-ATTG-ACTTAGTAACTCAC
* *
17213643 TTTTTCAATTGATTTAGTAACTTAC
1 TTTTT-AATTGACTTAGTAACTCAC
17213668 TTTTTCAATTGA
1 TTTTT-AATTGA
17213680 TCCTTTTTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
25 24 0.71
26 9 0.26
27 1 0.03
ACGTcount: A:0.27, C:0.13, G:0.08, T:0.52
Consensus pattern (24 bp):
TTTTTAATTGACTTAGTAACTCAC
Found at i:17213680 original size:25 final size:25
Alignment explanation
Indices: 17213631--17213680 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
17213621 TATATTGTAC
17213631 TTAGTAACTCACTTTTTCAATTGAT
1 TTAGTAACTCACTTTTTCAATTGAT
*
17213656 TTAGTAACTTACTTTTTCAATTGAT
1 TTAGTAACTCACTTTTTCAATTGAT
17213681 CCTTTTTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.28, C:0.14, G:0.08, T:0.50
Consensus pattern (25 bp):
TTAGTAACTCACTTTTTCAATTGAT
Found at i:17214599 original size:20 final size:20
Alignment explanation
Indices: 17214570--17214639 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
17214560 CAATTTATCT
*
17214570 ACATTACTGGTAGTTTGTCC
1 ACATTACTGGTAGCTTGTCC
* * *
17214590 ACAATACTGGCAGCTTGTCT
1 ACATTACTGGTAGCTTGTCC
*
17214610 ACATTACTAGT-GACTTGTCC
1 ACATTACTGGTAG-CTTGTCC
17214630 ACATTACTGG
1 ACATTACTGG
17214640 CAATTTGTCT
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
19 1 0.03
20 39 0.98
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATTACTGGTAGCTTGTCC
Found at i:17214647 original size:20 final size:20
Alignment explanation
Indices: 17214554--17214648 Score: 73
Period size: 20 Copynumber: 4.8 Consensus size: 20
17214544 AAGGATGAAG
* * *
17214554 TACTAGCAATTTATCTACAT
1 TACTGGCAATTTGTCCACAT
* * *
17214574 TACTGGTAGTTTGTCCACAA
1 TACTGGCAATTTGTCCACAT
** *
17214594 TACTGGCAGCTTGTCTACAT
1 TACTGGCAATTTGTCCACAT
* ** *
17214614 TACTAGTGACTTGTCCACAT
1 TACTGGCAATTTGTCCACAT
17214634 TACTGGCAATTTGTC
1 TACTGGCAATTTGTC
17214649 TGAAAATTTG
Statistics
Matches: 56, Mismatches: 19, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 56 1.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (20 bp):
TACTGGCAATTTGTCCACAT
Found at i:17214648 original size:40 final size:40
Alignment explanation
Indices: 17214554--17214649 Score: 113
Period size: 40 Copynumber: 2.4 Consensus size: 40
17214544 AAGGATGAAG
* * * *
17214554 TACTAGCAATTTATCTACATTACTGGTAGTTTGTCCACAA
1 TACTGGCAATTTGTCTACATTACTAGTAGCTTGTCCACAA
** *
17214594 TACTGGCAGCTTGTCTACATTACTAGT-GACTTGTCCACAT
1 TACTGGCAATTTGTCTACATTACTAGTAG-CTTGTCCACAA
17214634 TACTGGCAATTTGTCT
1 TACTGGCAATTTGTCT
17214650 GAAAATTTGG
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
39 1 0.02
40 45 0.98
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (40 bp):
TACTGGCAATTTGTCTACATTACTAGTAGCTTGTCCACAA
Found at i:17215560 original size:20 final size:20
Alignment explanation
Indices: 17215531--17215600 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
17215521 CAATTTATCT
*
17215531 ACATTACTGGTAGTTTGTCC
1 ACATTACTGGTAGCTTGTCC
* * *
17215551 ACAATACTGGCAGCTTGTCT
1 ACATTACTGGTAGCTTGTCC
*
17215571 ACATTACTAGT-GACTTGTCC
1 ACATTACTGGTAG-CTTGTCC
17215591 ACATTACTGG
1 ACATTACTGG
17215601 CAATTTGTCT
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
19 1 0.03
20 39 0.98
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATTACTGGTAGCTTGTCC
Found at i:17215608 original size:20 final size:20
Alignment explanation
Indices: 17215515--17215609 Score: 73
Period size: 20 Copynumber: 4.8 Consensus size: 20
17215505 AAGGATGAAG
* * *
17215515 TACTAGCAATTTATCTACAT
1 TACTGGCAATTTGTCCACAT
* * *
17215535 TACTGGTAGTTTGTCCACAA
1 TACTGGCAATTTGTCCACAT
** *
17215555 TACTGGCAGCTTGTCTACAT
1 TACTGGCAATTTGTCCACAT
* ** *
17215575 TACTAGTGACTTGTCCACAT
1 TACTGGCAATTTGTCCACAT
17215595 TACTGGCAATTTGTC
1 TACTGGCAATTTGTC
17215610 TGAAAATTTG
Statistics
Matches: 56, Mismatches: 19, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 56 1.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (20 bp):
TACTGGCAATTTGTCCACAT
Found at i:17215609 original size:40 final size:40
Alignment explanation
Indices: 17215515--17215610 Score: 113
Period size: 40 Copynumber: 2.4 Consensus size: 40
17215505 AAGGATGAAG
* * * *
17215515 TACTAGCAATTTATCTACATTACTGGTAGTTTGTCCACAA
1 TACTGGCAATTTGTCTACATTACTAGTAGCTTGTCCACAA
** *
17215555 TACTGGCAGCTTGTCTACATTACTAGT-GACTTGTCCACAT
1 TACTGGCAATTTGTCTACATTACTAGTAG-CTTGTCCACAA
17215595 TACTGGCAATTTGTCT
1 TACTGGCAATTTGTCT
17215611 GAAAATTTGG
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
39 1 0.02
40 45 0.98
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (40 bp):
TACTGGCAATTTGTCTACATTACTAGTAGCTTGTCCACAA
Found at i:17215879 original size:961 final size:961
Alignment explanation
Indices: 17214018--17215939 Score: 3826
Period size: 961 Copynumber: 2.0 Consensus size: 961
17214008 ATGTTTAAAA
17214018 AGGCGACTTTTAATGTAAGGTCACTTTGATAACAGATCGATTTTCCATTGGTTAAGATCCGAGTG
1 AGGCGACTTTTAATGTAAGGTCACTTTGATAACAGATCGATTTTCCATTGGTTAAGATCCGAGTG
17214083 TGGACGTTCTTAAAGTGGTGTTTCGCATGAGATCTACTATCAAGTGTGGTTCTAATCCAAATAAA
66 TGGACGTTCTTAAAGTGGTGTTTCGCATGAGATCTACTATCAAGTGTGGTTCTAATCCAAATAAA
17214148 AATTTATATACATTAATTTTAATGTTTAAATAAATATTATTATTGGATTGTACATTATTCGAATA
131 AATTTATATACATTAATTTTAATGTTTAAATAAATATTATTATTGGATTGTACATTATTCGAATA
17214213 ATTAAAGTATCATACCAAGTAAGTGACTCCAAACCAACTAGCTTGTGAAAAGTATGTTGTGTGGT
196 ATTAAAGTATCATACCAAGTAAGTGACTCCAAACCAACTAGCTTGTGAAAAGTATGTTGTGTGGT
17214278 TATATTTATCTCTAATTTTAAAAGTATGATGTTCTCATTCTCATGTTATGTGATATTATGGCATA
261 TATATTTATCTCTAATTTTAAAAGTATGATGTTCTCATTCTCATGTTATGTGATATTATGGCATA
17214343 ATTGATTTTACATGACTCTTAAAAATGTGATGTTTTGATACAACAAAATAATACGTGAATTGCAT
326 ATTGATTTTACATGACTCTTAAAAATGTGATGTTTTGATACAACAAAATAATACGTGAATTGCAT
17214408 GTCAAAACATGCTTATGTGATACTATATGTTAAATGATTCGATGAGCATGATTCACATGCCTAAA
391 GTCAAAACATGCTTATGTGATACTATATGTTAAATGATTCGATGAGCATGATTCACATGCCTAAA
17214473 GTGATATTTTGTAACAAATTGAAAATGTGTTCATTGTAGTCATATCACATGCATGGGGTTGGGAC
456 GTGATATTTTGTAACAAATTGAAAATGTGTTCATTGTAGTCATATCACATGCATGGGGTTGGGAC
17214538 ATGTGTAAGGATGAAGTACTAGCAATTTATCTACATTACTGGTAGTTTGTCCACAATACTGGCAG
521 ATGTGTAAGGATGAAGTACTAGCAATTTATCTACATTACTGGTAGTTTGTCCACAATACTGGCAG
17214603 CTTGTCTACATTACTAGTGACTTGTCCACATTACTGGCAATTTGTCTGAAAATTTGGTGGCTTCG
586 CTTGTCTACATTACTAGTGACTTGTCCACATTACTGGCAATTTGTCTGAAAATTTGGTGGCTTCG
17214668 TCCACATATATTGGAGTGTAGCGGTGATGGGTAGGATATTTTATAAAGAATCGCATAATTTTTTT
651 TCCACATATATTGGAGTGTAGCGGTGATGGGTAGGATATTTTATAAAGAATCGCATAATTTTTTT
17214733 ACAAAAATTGCATTGCCATAATCATGTGCATAAATATTGGTTATTTTGTATGATAAGTATGTGCT
716 ACAAAAATTGCATTGCCATAATCATGTGCATAAATATTGGTTATTTTGTATGATAAGTATGTGCT
17214798 TATTATTTTTTAATTTGTTATAAGACTCACATTGGGCTTTAAAAGCTCACCCCTTTAGTTTCATA
781 TATTATTTTTTAATTTGTTATAAGACTCACATTGGGCTTTAAAAGCTCACCCCTTTAGTTTCATA
17214863 ACACTTCAAGCGATTCACGAGCATAGGACTTGGATTCGGCATATGGAGGGGTCTCTCTACTGGAT
846 ACACTTCAAGCGATTCACGAGCATAGGACTTGGATTCGGCATATGGAGGGGTCTCTCTACTGGAT
17214928 TTTTAATAAATGGTTTATGAACTATTGGTTTGTTATTTTGGACATTGGACT
911 TTTTAATAAATGGTTTATGAACTATTGGTTTGTTATTTTGGACATTGGACT
17214979 AGGCGACTTTTAATGTAAGGTCACTTTGATAACAGATCGATTTTCCATTGGTTAAGATCCGAGTG
1 AGGCGACTTTTAATGTAAGGTCACTTTGATAACAGATCGATTTTCCATTGGTTAAGATCCGAGTG
17215044 TGGACGTTCTTAAAGTGGTGTTTCGCATGAGATCTACTATCAAGTGTGGTTCTAATCCAAATAAA
66 TGGACGTTCTTAAAGTGGTGTTTCGCATGAGATCTACTATCAAGTGTGGTTCTAATCCAAATAAA
17215109 AATTTATATACATTAATTTTAATGTTTAAATAAATATTATTATTGGATTGTACATTATTCGAATA
131 AATTTATATACATTAATTTTAATGTTTAAATAAATATTATTATTGGATTGTACATTATTCGAATA
17215174 ATTAAAGTATCATACCAAGTAAGTGACTCCAAACCAACTAGCTTGTGAAAAGTATGTTGTGTGGT
196 ATTAAAGTATCATACCAAGTAAGTGACTCCAAACCAACTAGCTTGTGAAAAGTATGTTGTGTGGT
*
17215239 TATATTTATCTCTAATTTTAAAAGTATGATGTTCTCATTCTCATGTTATGTGATGTTATGGCATA
261 TATATTTATCTCTAATTTTAAAAGTATGATGTTCTCATTCTCATGTTATGTGATATTATGGCATA
17215304 ATTGATTTTACATGACTCTTAAAAATGTGATGTTTTGATACAACAAAATAATACGTGAATTGCAT
326 ATTGATTTTACATGACTCTTAAAAATGTGATGTTTTGATACAACAAAATAATACGTGAATTGCAT
17215369 GTCAAAACATGCTTATGTGATACTATATGTTAAATGATTCGATGAGCATGATTCACATGCCTAAA
391 GTCAAAACATGCTTATGTGATACTATATGTTAAATGATTCGATGAGCATGATTCACATGCCTAAA
17215434 GTGATATTTTGTAACAAATTGAAAATGTGTTCATTGTAGTCATATCACATGCATGGGGTTGGGAC
456 GTGATATTTTGTAACAAATTGAAAATGTGTTCATTGTAGTCATATCACATGCATGGGGTTGGGAC
17215499 ATGTGTAAGGATGAAGTACTAGCAATTTATCTACATTACTGGTAGTTTGTCCACAATACTGGCAG
521 ATGTGTAAGGATGAAGTACTAGCAATTTATCTACATTACTGGTAGTTTGTCCACAATACTGGCAG
17215564 CTTGTCTACATTACTAGTGACTTGTCCACATTACTGGCAATTTGTCTGAAAATTTGGTGGCTTCG
586 CTTGTCTACATTACTAGTGACTTGTCCACATTACTGGCAATTTGTCTGAAAATTTGGTGGCTTCG
*
17215629 TCCACATATATTGGAGTGTAGCGGTGATGGGTAGGATATTTTATAAAGAATTGCATAATTTTTTT
651 TCCACATATATTGGAGTGTAGCGGTGATGGGTAGGATATTTTATAAAGAATCGCATAATTTTTTT
17215694 ACAAAAATTGCATTGCCATAATCATGTGCATAAATATTGGTTATTTTGTATGATAAGTATGTGCT
716 ACAAAAATTGCATTGCCATAATCATGTGCATAAATATTGGTTATTTTGTATGATAAGTATGTGCT
17215759 TATTATTTTTTAATTTGTTATAAGACTCACATTGGGCTTTAAAAGCTCACCCCTTTAGTTTCATA
781 TATTATTTTTTAATTTGTTATAAGACTCACATTGGGCTTTAAAAGCTCACCCCTTTAGTTTCATA
17215824 ACACTTCAAGCGATTCACGAGCATAGGACTTGGATTCGGCATATGGAGGGGTCTCTCTACTGGAT
846 ACACTTCAAGCGATTCACGAGCATAGGACTTGGATTCGGCATATGGAGGGGTCTCTCTACTGGAT
17215889 TTTTAATAAATGGTTTATGAACTATTGGTTTGTTATTTTGGACATTGGACT
911 TTTTAATAAATGGTTTATGAACTATTGGTTTGTTATTTTGGACATTGGACT
17215940 TTTATTGGGT
Statistics
Matches: 959, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
961 959 1.00
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.38
Consensus pattern (961 bp):
AGGCGACTTTTAATGTAAGGTCACTTTGATAACAGATCGATTTTCCATTGGTTAAGATCCGAGTG
TGGACGTTCTTAAAGTGGTGTTTCGCATGAGATCTACTATCAAGTGTGGTTCTAATCCAAATAAA
AATTTATATACATTAATTTTAATGTTTAAATAAATATTATTATTGGATTGTACATTATTCGAATA
ATTAAAGTATCATACCAAGTAAGTGACTCCAAACCAACTAGCTTGTGAAAAGTATGTTGTGTGGT
TATATTTATCTCTAATTTTAAAAGTATGATGTTCTCATTCTCATGTTATGTGATATTATGGCATA
ATTGATTTTACATGACTCTTAAAAATGTGATGTTTTGATACAACAAAATAATACGTGAATTGCAT
GTCAAAACATGCTTATGTGATACTATATGTTAAATGATTCGATGAGCATGATTCACATGCCTAAA
GTGATATTTTGTAACAAATTGAAAATGTGTTCATTGTAGTCATATCACATGCATGGGGTTGGGAC
ATGTGTAAGGATGAAGTACTAGCAATTTATCTACATTACTGGTAGTTTGTCCACAATACTGGCAG
CTTGTCTACATTACTAGTGACTTGTCCACATTACTGGCAATTTGTCTGAAAATTTGGTGGCTTCG
TCCACATATATTGGAGTGTAGCGGTGATGGGTAGGATATTTTATAAAGAATCGCATAATTTTTTT
ACAAAAATTGCATTGCCATAATCATGTGCATAAATATTGGTTATTTTGTATGATAAGTATGTGCT
TATTATTTTTTAATTTGTTATAAGACTCACATTGGGCTTTAAAAGCTCACCCCTTTAGTTTCATA
ACACTTCAAGCGATTCACGAGCATAGGACTTGGATTCGGCATATGGAGGGGTCTCTCTACTGGAT
TTTTAATAAATGGTTTATGAACTATTGGTTTGTTATTTTGGACATTGGACT
Found at i:17217155 original size:51 final size:51
Alignment explanation
Indices: 17217088--17217188 Score: 193
Period size: 51 Copynumber: 2.0 Consensus size: 51
17217078 TATACGAAAG
*
17217088 ATATTAATGTAATTCATGAATAGTTTTATTAACCAATCTGTTCGAAAAAAA
1 ATATTAATGTAATTCATGAATAGTTTTATTAACCAATCTATTCGAAAAAAA
17217139 ATATTAATGTAATTCATGAATAGTTTTATTAACCAATCTATTCGAAAAAA
1 ATATTAATGTAATTCATGAATAGTTTTATTAACCAATCTATTCGAAAAAA
17217189 CTATAAGTGT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.44, C:0.10, G:0.09, T:0.38
Consensus pattern (51 bp):
ATATTAATGTAATTCATGAATAGTTTTATTAACCAATCTATTCGAAAAAAA
Found at i:17220582 original size:16 final size:17
Alignment explanation
Indices: 17220549--17220585 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
17220539 AATAGAAAAG
*
17220549 TTTTTTTTTAATTCTAA
1 TTTTTATTTAATTCTAA
17220566 TTTTTATTTAATT-TAA
1 TTTTTATTTAATTCTAA
17220582 TTTT
1 TTTT
17220586 ACAAGATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTTATTTAATTCTAA
Found at i:17220646 original size:31 final size:31
Alignment explanation
Indices: 17220611--17220706 Score: 80
Period size: 31 Copynumber: 3.2 Consensus size: 31
17220601 AACAATACAA
17220611 AGTAATTGAATGAAAGTATAATTACTATCTT
1 AGTAATTGAATGAAAGTATAATTACTATCTT
*** *
17220642 AGTAATT-ACACT-ATTCTATAATTAC-A---A
1 AGTAATTGA-A-TGAAAGTATAATTACTATCTT
17220669 AG-AATTGTAATGAAAGTATAATTACTATCTT
1 AGTAATTG-AATGAAAGTATAATTACTATCTT
17220700 AGTAATT
1 AGTAATT
17220707 ACACTATTCT
Statistics
Matches: 47, Mismatches: 8, Indels: 19
0.64 0.11 0.26
Matches are distributed among these distances:
26 5 0.11
27 13 0.28
28 2 0.04
30 2 0.04
31 20 0.43
32 5 0.11
ACGTcount: A:0.43, C:0.08, G:0.10, T:0.39
Consensus pattern (31 bp):
AGTAATTGAATGAAAGTATAATTACTATCTT
Found at i:17220681 original size:58 final size:58
Alignment explanation
Indices: 17220606--17220737 Score: 239
Period size: 58 Copynumber: 2.3 Consensus size: 58
17220596 GTTTGAACAA
17220606 TACAAAGTAATTG-AATGAAAGTATAATTACTATCTTAGTAATTACACTATTCTATAAT
1 TACAAAG-AATTGTAATGAAAGTATAATTACTATCTTAGTAATTACACTATTCTATAAT
17220664 TACAAAGAATTGTAATGAAAGTATAATTACTATCTTAGTAATTACACTATTCTATAAT
1 TACAAAGAATTGTAATGAAAGTATAATTACTATCTTAGTAATTACACTATTCTATAAT
*
17220722 TACAAAGAATCGTAAT
1 TACAAAGAATTGTAAT
17220738 TCTCTAGACG
Statistics
Matches: 72, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
57 5 0.07
58 67 0.93
ACGTcount: A:0.44, C:0.11, G:0.09, T:0.36
Consensus pattern (58 bp):
TACAAAGAATTGTAATGAAAGTATAATTACTATCTTAGTAATTACACTATTCTATAAT
Found at i:17220723 original size:31 final size:31
Alignment explanation
Indices: 17220627--17220724 Score: 91
Period size: 31 Copynumber: 3.3 Consensus size: 31
17220617 TGAATGAAAG
17220627 TATAATTACTATCTTAGTAATTACACTATTC
1 TATAATTACTATCTTAGTAATTACACTATTC
* ** * *
17220658 TATAATTACAAAGAATT-GTAATGA-A--A--G
1 TATAATTAC-TA-TCTTAGTAATTACACTATTC
17220685 TATAATTACTATCTTAGTAATTACACTATTC
1 TATAATTACTATCTTAGTAATTACACTATTC
17220716 TATAATTAC
1 TATAATTAC
17220725 AAAGAATCGT
Statistics
Matches: 49, Mismatches: 10, Indels: 16
0.65 0.13 0.21
Matches are distributed among these distances:
25 2 0.04
26 7 0.14
27 10 0.20
29 2 0.04
31 19 0.39
32 7 0.14
33 2 0.04
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (31 bp):
TATAATTACTATCTTAGTAATTACACTATTC
Done.