Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 50 of 199
Found at i:14640102 original size:24 final size:26
Alignment explanation
Indices: 14640048--14640102 Score: 64
Period size: 24 Copynumber: 2.2 Consensus size: 26
14640038 GTGTTTTGCA
14640048 ATTGAAATGGATTGATTTAGTATGTG
1 ATTGAAATGGATTGATTTAGTATGTG
*
14640074 A-TGAAAT-TATTGAATTTA-TAT-TG
1 ATTGAAATGGATTG-ATTTAGTATGTG
14640097 ATTGAA
1 ATTGAA
14640103 TTGGTATATG
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
23 3 0.12
24 11 0.42
25 11 0.42
26 1 0.04
ACGTcount: A:0.36, C:0.00, G:0.20, T:0.44
Consensus pattern (26 bp):
ATTGAAATGGATTGATTTAGTATGTG
Found at i:14640304 original size:41 final size:39
Alignment explanation
Indices: 14640260--14640394 Score: 139
Period size: 40 Copynumber: 3.4 Consensus size: 39
14640250 GACTTCGAGT
*
14640260 CGATGAGACACTGGGTGTCAATTTACTACTTCGGATTAATT
1 CGATGAGACACTGGGTGTCAATTTA-TACTTCGGATT-ATC
* * * * *
14640301 CGATGAGGCACTGGTTGCCAA-TT-TACTTCGGTTTAGC
1 CGATGAGACACTGGGTGTCAATTTATACTTCGGATTATC
* * *
14640338 CAATGAGACACTGGGTGTCAGTTTATTACTTCGAATTATC
1 CGATGAGACACTGGGTGTCAATTTA-TACTTCGGATTATC
*
14640378 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
14640395 CCAAACTGGT
Statistics
Matches: 75, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
37 17 0.23
38 12 0.16
40 28 0.37
41 18 0.24
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.32
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAATTTATACTTCGGATTATC
Found at i:14646932 original size:22 final size:22
Alignment explanation
Indices: 14646889--14646932 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
14646879 CTATCAAAGA
**
14646889 TTTATTTTTCTTTTGATTAACT
1 TTTATTTTTCTTTTGAAGAACT
14646911 TTTATTTTAT-TTTTGAAGAACT
1 TTTATTTT-TCTTTTGAAGAACT
14646933 CTATGGAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.23, C:0.07, G:0.07, T:0.64
Consensus pattern (22 bp):
TTTATTTTTCTTTTGAAGAACT
Found at i:14647761 original size:27 final size:27
Alignment explanation
Indices: 14647703--14647764 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 27
14647693 AATTATGGCC
14647703 AAAAAGTTTATAATAATTTACATGTTAT
1 AAAAAGTTTATAATAATTTA-ATGTTAT
14647731 -AAAAGTGTTATAATATATTT-AT-TTAT
1 AAAAAGT-TTATAATA-ATTTAATGTTAT
14647757 AAAAAGTT
1 AAAAAGTT
14647765 AGATTACGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
26 5 0.16
27 14 0.45
28 8 0.26
29 4 0.13
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.44
Consensus pattern (27 bp):
AAAAAGTTTATAATAATTTAATGTTAT
Found at i:14648746 original size:76 final size:76
Alignment explanation
Indices: 14648650--14648803 Score: 263
Period size: 76 Copynumber: 2.0 Consensus size: 76
14648640 GACAAGAATA
* * *
14648650 ACGACCTTAGGGTTGGCTTTACTTTAGATTTGTAGATGATATTAGTAAACCCATTGCTAATCTTA
1 ACGACCTTAGGGCTGGCTTTACTGTAGATTTGCAGATGATATTAGTAAACCCATTGCTAATCTTA
14648715 CCTTACCAACC
66 CCTTACCAACC
* *
14648726 ACGACCTTGGGGCTGGCTTTAGTGTAGATTTGCAGATGATATTAGTAAACCCATTGCTAATCTTA
1 ACGACCTTAGGGCTGGCTTTACTGTAGATTTGCAGATGATATTAGTAAACCCATTGCTAATCTTA
14648791 CCTTACCAACC
66 CCTTACCAACC
14648802 AC
1 AC
14648804 ATTTTTCTAG
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
76 73 1.00
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (76 bp):
ACGACCTTAGGGCTGGCTTTACTGTAGATTTGCAGATGATATTAGTAAACCCATTGCTAATCTTA
CCTTACCAACC
Found at i:14655489 original size:21 final size:21
Alignment explanation
Indices: 14655463--14655524 Score: 97
Period size: 21 Copynumber: 3.0 Consensus size: 21
14655453 TTACACCATG
*
14655463 TTGTGGATAAACCACTCATCA
1 TTGTGGATGAACCACTCATCA
* *
14655484 TTGTGGATGAACTACTTATCA
1 TTGTGGATGAACCACTCATCA
14655505 TTGTGGATGAACCACTCATC
1 TTGTGGATGAACCACTCATC
14655525 GGTGCAGATA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (21 bp):
TTGTGGATGAACCACTCATCA
Found at i:14655839 original size:21 final size:21
Alignment explanation
Indices: 14655797--14655842 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
14655787 ACGATATGGG
* *
14655797 TAAACCACTCATCGATGTAGA
1 TAAACCACTAATCGATGCAGA
14655818 TAAACCACTAATCTG-TGCAGA
1 TAAACCACTAATC-GATGCAGA
14655839 TAAA
1 TAAA
14655843 TTGCTCTTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.41, C:0.22, G:0.13, T:0.24
Consensus pattern (21 bp):
TAAACCACTAATCGATGCAGA
Found at i:14655933 original size:34 final size:34
Alignment explanation
Indices: 14655894--14655970 Score: 111
Period size: 34 Copynumber: 2.3 Consensus size: 34
14655884 TGCAATATGG
**
14655894 CATGCTTATAACAGATCAATATGGTAGCAATAA-A
1 CATGCTTATAACAGATCAATACAGTAGCAA-AAGA
*
14655928 CATGCTTATAACAGATCAATACAGTAGCAAAAGT
1 CATGCTTATAACAGATCAATACAGTAGCAAAAGA
14655962 CATGCTTAT
1 CATGCTTAT
14655971 CATGTATTCG
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
33 2 0.05
34 37 0.95
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (34 bp):
CATGCTTATAACAGATCAATACAGTAGCAAAAGA
Found at i:14656799 original size:5 final size:5
Alignment explanation
Indices: 14656789--14656825 Score: 56
Period size: 5 Copynumber: 7.0 Consensus size: 5
14656779 TAAGAATGAG
14656789 AGAAA AGAAA AGAAAA AGAAA AGAGAA AGAAA AGAAA
1 AGAAA AGAAA AG-AAA AGAAA AGA-AA AGAAA AGAAA
14656826 TAGGAGATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 20 0.67
6 10 0.33
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:14656807 original size:11 final size:11
Alignment explanation
Indices: 14656791--14656825 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
14656781 AGAATGAGAG
14656791 AAAAGAAAAGA
1 AAAAGAAAAGA
14656802 AAAAGAAAAGA
1 AAAAGAAAAGA
*
14656813 GAAAGAAAAGA
1 AAAAGAAAAGA
14656824 AA
1 AA
14656826 TAGGAGATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAGA
Found at i:14656810 original size:16 final size:16
Alignment explanation
Indices: 14656789--14656825 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
14656779 TAAGAATGAG
14656789 AGAAAAGA-AAAGAAAA
1 AGAAAAGAGAAAG-AAA
14656805 AGAAAAGAGAAAGAAA
1 AGAAAAGAGAAAGAAA
14656821 AGAAA
1 AGAAA
14656826 TAGGAGATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (16 bp):
AGAAAAGAGAAAGAAA
Found at i:14675700 original size:9 final size:8
Alignment explanation
Indices: 14675679--14675703 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
14675669 TGTTGTATTT
14675679 ATTTTTTA
1 ATTTTTTA
14675687 ATTTTTTA
1 ATTTTTTA
14675695 ATTTTTTA
1 ATTTTTTA
14675703 A
1 A
14675704 ATACAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (8 bp):
ATTTTTTA
Found at i:14676866 original size:18 final size:17
Alignment explanation
Indices: 14676848--14676881 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
14676838 AAGAATTTTA
*
14676848 AAACGGTATCGATACTT
1 AAACGGTATCAATACTT
*
14676865 AAATGGTATCAATACTT
1 AAACGGTATCAATACTT
14676882 CTTAAATAGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (17 bp):
AAACGGTATCAATACTT
Found at i:14678191 original size:21 final size:22
Alignment explanation
Indices: 14678165--14678214 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
14678155 CAAAACTTAA
*
14678165 TTAATTAAAT-TAA-ATTAAATC
1 TTAATTAAATCTAATACTAAA-C
14678186 TTAATT-AATCTAATACTAAAC
1 TTAATTAAATCTAATACTAAAC
14678207 TTAATTAA
1 TTAATTAA
14678215 TCGAAAGTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 3 0.12
21 16 0.64
22 6 0.24
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (22 bp):
TTAATTAAATCTAATACTAAAC
Found at i:14684734 original size:22 final size:22
Alignment explanation
Indices: 14684709--14684759 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
14684699 TGTAATAAAC
*
14684709 TATAAGTTCATATGTAACAACA
1 TATAAGTTCACATGTAACAACA
* * **
14684731 TATAGGTTCGCATGTATTAACA
1 TATAAGTTCACATGTAACAACA
14684753 TATAAGT
1 TATAAGT
14684760 AGTGGTTTGC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (22 bp):
TATAAGTTCACATGTAACAACA
Found at i:14691832 original size:22 final size:24
Alignment explanation
Indices: 14691795--14691838 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
14691785 TAATTTATAG
14691795 AGAGAAGAGAAGAGAAAATAAAAT
1 AGAGAAGAGAAGAGAAAATAAAAT
*
14691819 AGAGAA-AG-AGAGAACATAAA
1 AGAGAAGAGAAGAGAAAATAAA
14691839 GAAATTCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 11 0.58
23 2 0.11
24 6 0.32
ACGTcount: A:0.66, C:0.02, G:0.25, T:0.07
Consensus pattern (24 bp):
AGAGAAGAGAAGAGAAAATAAAAT
Found at i:14693154 original size:25 final size:25
Alignment explanation
Indices: 14693126--14693179 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
14693116 AAAAACATTT
14693126 TTATACTAAATACGAAATTTCAATA
1 TTATACTAAATACGAAATTTCAATA
**
14693151 TTATTGTAAATACGAAATTTCAATA
1 TTATACTAAATACGAAATTTCAATA
14693176 TTAT
1 TTAT
14693180 TGTTCGATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (25 bp):
TTATACTAAATACGAAATTTCAATA
Found at i:14693180 original size:25 final size:25
Alignment explanation
Indices: 14693132--14693182 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
14693122 ATTTTTATAC
14693132 TAAATACGAAATTTCAATATTATTG
1 TAAATACGAAATTTCAATATTATTG
14693157 TAAATACGAAATTTCAATATTATTG
1 TAAATACGAAATTTCAATATTATTG
14693182 T
1 T
14693183 TCGATATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.41
Consensus pattern (25 bp):
TAAATACGAAATTTCAATATTATTG
Found at i:14705212 original size:18 final size:19
Alignment explanation
Indices: 14705189--14705248 Score: 74
Period size: 18 Copynumber: 3.3 Consensus size: 19
14705179 TTGTGAATAA
14705189 AAAAATAAAAATAA-AAAT
1 AAAAATAAAAATAAGAAAT
14705207 AAAAATAAAAATAAGAAAT
1 AAAAATAAAAATAAGAAAT
14705226 --AAATAAGAAAT-AGAAATT
1 AAAAATAA-AAATAAGAAA-T
14705244 AAAAA
1 AAAAA
14705249 AACAAGTGGA
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
17 11 0.30
18 19 0.51
19 4 0.11
20 3 0.08
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (19 bp):
AAAAATAAAAATAAGAAAT
Found at i:14705242 original size:6 final size:6
Alignment explanation
Indices: 14705189--14705228 Score: 71
Period size: 6 Copynumber: 6.5 Consensus size: 6
14705179 TTGTGAATAA
14705189 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAGAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AA-AAAT AAA
14705229 TAAGAAATAG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 27 0.82
7 6 0.18
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:14707847 original size:79 final size:79
Alignment explanation
Indices: 14707716--14707942 Score: 283
Period size: 79 Copynumber: 2.9 Consensus size: 79
14707706 ACATGCACGA
* ** * * * *
14707716 TTATAAATCAGAATCAGTAACAAGCAATTTAACATATGCAGATATCGTATATTCTTCATCAATAG
1 TTATAAATCAGAATCAGTAACAATCAATCCAACATTTTCAGATATCGCATATTCTTCATCAACAG
*
14707781 AGTAACATAAACGG
66 AATAACATAAACGG
* * * *
14707795 TTATAAATTAGAATCGGTAACAATCAATCCAACATTTTCAGTTATCGCATATTCTTTATCAACAG
1 TTATAAATCAGAATCAGTAACAATCAATCCAACATTTTCAGATATCGCATATTCTTCATCAACAG
* ** *
14707860 AATCATGTAAAGGG
66 AATAACATAAACGG
* * *
14707874 CTATAAATCAAAATCAGTAACAATCAATCCAACATTTTCAAATATCGCATATTCTTCATCAACAG
1 TTATAAATCAGAATCAGTAACAATCAATCCAACATTTTCAGATATCGCATATTCTTCATCAACAG
14707939 AATA
66 AATA
14707943 GCGCAGAGGC
Statistics
Matches: 124, Mismatches: 24, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
79 124 1.00
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (79 bp):
TTATAAATCAGAATCAGTAACAATCAATCCAACATTTTCAGATATCGCATATTCTTCATCAACAG
AATAACATAAACGG
Found at i:14711458 original size:19 final size:19
Alignment explanation
Indices: 14711434--14711470 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
14711424 AAAAAAAAAC
14711434 CAATCTATGATTTGAGGAA
1 CAATCTATGATTTGAGGAA
14711453 CAATCTATGATTTGAGGA
1 CAATCTATGATTTGAGGA
14711471 TTTTTACAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.32
Consensus pattern (19 bp):
CAATCTATGATTTGAGGAA
Found at i:14716312 original size:16 final size:17
Alignment explanation
Indices: 14716291--14716323 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
14716281 ATTTAATTTT
14716291 TTTTAT-TATTTATAAG
1 TTTTATATATTTATAAG
14716307 TTTTATCATATTTATAA
1 TTTTAT-ATATTTATAA
14716324 ATAAGATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (17 bp):
TTTTATATATTTATAAG
Found at i:14716958 original size:15 final size:15
Alignment explanation
Indices: 14716929--14716957 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
14716919 AAGGGTACAG
14716929 TAAAGTATTAAAAAA
1 TAAAGTATTAAAAAA
14716944 TAAA-TATTAAAAAA
1 TAAAGTATTAAAAAA
14716958 AATACATGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (15 bp):
TAAAGTATTAAAAAA
Found at i:14717870 original size:22 final size:21
Alignment explanation
Indices: 14717829--14717871 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
14717819 TTACTAAGCA
14717829 TTCATTGTTTACGTAGTTTTCT
1 TTCATTGTTTAC-TAGTTTTCT
14717851 TTCATTGCTTTA-TAGATTTTC
1 TTCATTG-TTTACTAG-TTTTC
14717872 GGAAGCTCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 3 0.16
22 12 0.63
23 4 0.21
ACGTcount: A:0.16, C:0.14, G:0.12, T:0.58
Consensus pattern (21 bp):
TTCATTGTTTACTAGTTTTCT
Found at i:14722377 original size:18 final size:20
Alignment explanation
Indices: 14722342--14722387 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
14722332 AGTAATTTTT
*
14722342 TTATTAAAATTGTTAG-AAA
1 TTATTAAAATTATTAGAAAA
14722361 TTATTAAAA-TATTAGAAAA
1 TTATTAAAATTATTAGAAAA
14722380 TT-TTAAAA
1 TTATTAAAA
14722388 AATGTCCAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 11 0.44
19 14 0.56
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (20 bp):
TTATTAAAATTATTAGAAAA
Found at i:14723543 original size:5 final size:5
Alignment explanation
Indices: 14723526--14723568 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
14723516 AGAACTCGAG
* * *
14723526 AGAAA ATGAAA AGAAA AGAAA GGAAT TGAAA AGAAA AGAAA AG
1 AGAAA A-GAAA AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA AG
14723569 TGAAGAGTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
5 27 0.84
6 5 0.16
ACGTcount: A:0.70, C:0.00, G:0.23, T:0.07
Consensus pattern (5 bp):
AGAAA
Found at i:14724624 original size:9 final size:9
Alignment explanation
Indices: 14724610--14724638 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
14724600 TTTCAAATCA
14724610 CAACCAATT
1 CAACCAATT
14724619 CAACCAATT
1 CAACCAATT
14724628 CAACCAATT
1 CAACCAATT
14724637 CA
1 CA
14724639 TTTCACATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.45, C:0.34, G:0.00, T:0.21
Consensus pattern (9 bp):
CAACCAATT
Found at i:14725253 original size:13 final size:14
Alignment explanation
Indices: 14725229--14725260 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
14725219 CCAAACACAC
14725229 CAGTATACAGTAAT
1 CAGTATACAGTAAT
14725243 CAGTA-ACAGTAAT
1 CAGTATACAGTAAT
14725256 -AGTAT
1 CAGTAT
14725261 TCAACACACA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 4 0.24
13 8 0.47
14 5 0.29
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.28
Consensus pattern (14 bp):
CAGTATACAGTAAT
Found at i:14725290 original size:39 final size:39
Alignment explanation
Indices: 14725240--14725409 Score: 191
Period size: 39 Copynumber: 4.2 Consensus size: 39
14725230 AGTATACAGT
* * *
14725240 AATCAGTAACAGTAATAGTATTCAACACACAAAGTGCTG
1 AATCAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
*
14725279 AACCTGTAACAGTAACGGTAACAGTATTCGACACACAAAGTGCCG
1 AA----T--CAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
*
14725324 AGTCAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
1 AATCAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
* * *
14725363 AATCAGTAACAGTAACAGTAGTCGGCACA-TAAGTGCCTG
1 AATCAGTAACAGTAACAGTATTCGACACACAAAGTGCC-G
14725402 -ATCAGTAA
1 AATCAGTAA
14725410 GCCGTCAAAT
Statistics
Matches: 114, Mismatches: 10, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
38 15 0.13
39 64 0.56
41 1 0.01
43 1 0.01
45 33 0.29
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.20
Consensus pattern (39 bp):
AATCAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
Found at i:14725294 original size:45 final size:43
Alignment explanation
Indices: 14725238--14725382 Score: 181
Period size: 45 Copynumber: 3.3 Consensus size: 43
14725228 CCAGTATACA
* * *
14725238 GTAATCAGTAACAGTAATAGTATTCAACACACAAAGTGCTGAACC
1 GTAA-CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAA-C
*
14725283 TGTAACAGTAACGGTAACAGTATTCGACACACAAAGTGCCG-A-
1 -GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAC
14725325 GT--CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATC
1 GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAA-C
14725367 AGTAACAGTAACAGTA
1 -GTAACAGTAACAGTA
14725383 GTCGGCACAT
Statistics
Matches: 88, Mismatches: 5, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
39 35 0.40
40 1 0.01
41 2 0.02
43 2 0.02
44 1 0.01
45 43 0.49
46 4 0.05
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.20
Consensus pattern (43 bp):
GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAC
Found at i:14726456 original size:10 final size:10
Alignment explanation
Indices: 14726441--14726475 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
14726431 CTCTGTTTCT
14726441 TTTTATGTTC
1 TTTTATGTTC
14726451 TTTTATGTTC
1 TTTTATGTTC
*
14726461 TTTTGT-TTC
1 TTTTATGTTC
14726470 TTTTAT
1 TTTTAT
14726476 TTTACTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 8 0.35
10 15 0.65
ACGTcount: A:0.09, C:0.09, G:0.09, T:0.74
Consensus pattern (10 bp):
TTTTATGTTC
Found at i:14727584 original size:36 final size:33
Alignment explanation
Indices: 14727540--14727618 Score: 95
Period size: 34 Copynumber: 2.3 Consensus size: 33
14727530 AATAATCATC
* *
14727540 TTTTTAAATAAATTTTTACTACTTAATAAAATTAA
1 TTTTTAAAT-AACTTTTACTA-TTAATAAAATAAA
*
14727575 TTTTATAAATAACTTTTATTATTAATAAAATAAA
1 TTTT-TAAATAACTTTTACTATTAATAAAATAAA
14727609 TTATTTAAAT
1 TT-TTTAAAT
14727619 GTTATTAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
34 19 0.49
35 15 0.38
36 5 0.13
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (33 bp):
TTTTTAAATAACTTTTACTATTAATAAAATAAA
Found at i:14731574 original size:10 final size:9
Alignment explanation
Indices: 14731557--14731622 Score: 50
Period size: 8 Copynumber: 7.4 Consensus size: 9
14731547 ACTTATTATA
14731557 ATATATAAT
1 ATATATAAT
14731566 ATAATATAAT
1 AT-ATATAAT
*
14731576 ATATATACT
1 ATATATAAT
14731585 -TA-ATAATT
1 ATATATAA-T
* *
14731593 AAGATCTAAT
1 -ATATATAAT
14731603 AT-TATAAT
1 ATATATAAT
14731611 AT-TATAAT
1 ATATATAAT
14731619 ATAT
1 ATAT
14731623 TTTTTAACTT
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
7 3 0.07
8 18 0.40
9 10 0.22
10 11 0.24
11 3 0.07
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.44
Consensus pattern (9 bp):
ATATATAAT
Found at i:14734051 original size:3 final size:3
Alignment explanation
Indices: 14734043--14734067 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
14734033 TTCTTTTCAT
14734043 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
14734068 GACAACTATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:14734346 original size:3 final size:3
Alignment explanation
Indices: 14734338--14734375 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
14734328 ACTTTGTTAT
14734338 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
14734376 TTCACACTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:14737824 original size:16 final size:16
Alignment explanation
Indices: 14737803--14737838 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
14737793 TCTTTCTCTT
*
14737803 TTTCTTTTTCTTTTTG
1 TTTCTTTTTCTTTTTA
*
14737819 TTTCTTTTTGTTTTTA
1 TTTCTTTTTCTTTTTA
14737835 TTTC
1 TTTC
14737839 GTTTAACCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.03, C:0.11, G:0.06, T:0.81
Consensus pattern (16 bp):
TTTCTTTTTCTTTTTA
Found at i:14737943 original size:8 final size:8
Alignment explanation
Indices: 14737930--14737961 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
14737920 ATAATTAAGA
14737930 TATAATAT
1 TATAATAT
14737938 TATAATAT
1 TATAATAT
14737946 TATAATAT
1 TATAATAT
14737954 TATAATAT
1 TATAATAT
14737962 ATATTTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
TATAATAT
Found at i:14737951 original size:27 final size:26
Alignment explanation
Indices: 14737879--14737967 Score: 85
Period size: 27 Copynumber: 3.2 Consensus size: 26
14737869 TTTATTTATT
14737879 ATATTTACTTATTATAATATATAATATA
1 ATATTTA--TATTATAATATATAATATA
14737907 ATATTTATACTTAATAAT-TA-AGATATA
1 ATATTTATA-TT-ATAATATATA-ATATA
14737934 ATATTATAATATTATAATATTATAATAT-
1 ATATT-T-ATATTATAATA-TATAATATA
14737962 ATATTT
1 ATATTT
14737968 TTTAACTTTA
Statistics
Matches: 53, Mismatches: 0, Indels: 17
0.76 0.00 0.24
Matches are distributed among these distances:
26 3 0.06
27 20 0.38
28 20 0.38
29 9 0.17
30 1 0.02
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.49
Consensus pattern (26 bp):
ATATTTATATTATAATATATAATATA
Found at i:14738238 original size:14 final size:14
Alignment explanation
Indices: 14738221--14738247 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14738211 ATATTTGTAA
14738221 TTTGAAAACTTAAG
1 TTTGAAAACTTAAG
14738235 TTTGAAAACTTAA
1 TTTGAAAACTTAA
14738248 TAAATATTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.37
Consensus pattern (14 bp):
TTTGAAAACTTAAG
Found at i:14738376 original size:13 final size:13
Alignment explanation
Indices: 14738341--14738378 Score: 67
Period size: 14 Copynumber: 2.8 Consensus size: 13
14738331 GAGATATTTG
14738341 TAATTTGAAAACT
1 TAATTTGAAAACT
14738354 TAAGTTTGAAAACT
1 TAA-TTTGAAAACT
14738368 TAATTTGAAAA
1 TAATTTGAAAA
14738379 TTTGGAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (13 bp):
TAATTTGAAAACT
Found at i:14738697 original size:34 final size:34
Alignment explanation
Indices: 14738647--14738810 Score: 197
Period size: 34 Copynumber: 4.8 Consensus size: 34
14738637 GCAAGTAATA
* *
14738647 TTTCATGTTCATGCATCATTTTTTGCAGGGAATC
1 TTTCCTGTTCACGCATCATTTTTTGCAGGGAATC
* *
14738681 TTTCCTATTCACGCATCATTTCTTGCAGGGAATC
1 TTTCCTGTTCACGCATCATTTTTTGCAGGGAATC
* *
14738715 TTTCCTGTTCACCTCATC-TTTTCTTGGAGGGAATC
1 TTTCCTGTTCA-CGCATCATTTT-TTGCAGGGAATC
* **
14738750 TTTCCTGTTCATGCATCATTCCTTGCAGGGAATC
1 TTTCCTGTTCACGCATCATTTTTTGCAGGGAATC
*
14738784 TTTCCTGTTCACACAT-ATTTTCTTGCA
1 TTTCCTGTTCACGCATCATTTT-TTGCA
14738811 TCATTTCTTC
Statistics
Matches: 109, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
33 3 0.03
34 77 0.71
35 29 0.27
ACGTcount: A:0.18, C:0.24, G:0.15, T:0.42
Consensus pattern (34 bp):
TTTCCTGTTCACGCATCATTTTTTGCAGGGAATC
Found at i:14738766 original size:69 final size:68
Alignment explanation
Indices: 14738660--14738810 Score: 223
Period size: 69 Copynumber: 2.2 Consensus size: 68
14738650 CATGTTCATG
*
14738660 CATCATTTT-TTGCAGGGAATCTTTCCTATTCACGCATCATTTCTTGCAGGGAATCTTTCCTGTT
1 CATC-TTTTCTTGCAGGGAATCTTTCCTATTCACGCATCATTCCTTGCAGGGAATCTTTCCTGTT
*
14738724 CACCT
65 CA-CA
* * *
14738729 CATCTTTTCTTGGAGGGAATCTTTCCTGTTCATGCATCATTCCTTGCAGGGAATCTTTCCTGTTC
1 CATCTTTTCTTGCAGGGAATCTTTCCTATTCACGCATCATTCCTTGCAGGGAATCTTTCCTGTTC
14738794 ACA
66 ACA
*
14738797 CATATTTTCTTGCA
1 CATCTTTTCTTGCA
14738811 TCATTTCTTC
Statistics
Matches: 74, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
68 17 0.23
69 57 0.77
ACGTcount: A:0.19, C:0.25, G:0.15, T:0.41
Consensus pattern (68 bp):
CATCTTTTCTTGCAGGGAATCTTTCCTATTCACGCATCATTCCTTGCAGGGAATCTTTCCTGTTC
ACA
Found at i:14743096 original size:7 final size:6
Alignment explanation
Indices: 14743080--14743146 Score: 55
Period size: 6 Copynumber: 10.5 Consensus size: 6
14743070 ATTTTCCTGC
* *
14743080 AAAAAT AAAAAT GAAAAT -AAAAT AAAATAGT AAAAAT AAATAAT AATAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA-A-T AAAAAT AAA-AAT AAAAAT
*
14743130 AATAAT AGGAAAAT AAA
1 AAAAAT A--AAAAT AAA
14743147 TTTTTTTCAA
Statistics
Matches: 52, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
5 5 0.10
6 30 0.58
7 7 0.13
8 10 0.19
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.21
Consensus pattern (6 bp):
AAAAAT
Found at i:14749136 original size:20 final size:23
Alignment explanation
Indices: 14749101--14749145 Score: 69
Period size: 20 Copynumber: 2.1 Consensus size: 23
14749091 GAACAAATTG
14749101 TTGATTCTATTTCTTTTTTG-AT
1 TTGATTCTATTTCTTTTTTGTAT
14749123 TTGA-TCTA-TTCTTTTTTGTAT
1 TTGATTCTATTTCTTTTTTGTAT
14749144 TT
1 TT
14749146 TTTTTCTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 10 0.45
21 8 0.36
22 4 0.18
ACGTcount: A:0.13, C:0.09, G:0.09, T:0.69
Consensus pattern (23 bp):
TTGATTCTATTTCTTTTTTGTAT
Found at i:14749199 original size:21 final size:23
Alignment explanation
Indices: 14749175--14749217 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
14749165 TAATTTTTTT
*
14749175 AAAACATATTT-CTTCT-TTTAG
1 AAAACAGATTTGCTTCTGTTTAG
*
14749196 AAAAGAGATTTGCTTCTGTTTA
1 AAAACAGATTTGCTTCTGTTTA
14749218 TGATTAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 5 0.28
23 4 0.22
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.44
Consensus pattern (23 bp):
AAAACAGATTTGCTTCTGTTTAG
Found at i:14753265 original size:17 final size:17
Alignment explanation
Indices: 14753243--14753278 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
14753233 CTATGTCCTT
14753243 AACATGCCAAGGTATAA
1 AACATGCCAAGGTATAA
14753260 AACATGCCAAGGTATAA
1 AACATGCCAAGGTATAA
14753277 AA
1 AA
14753279 TATCTAGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.50, C:0.17, G:0.17, T:0.17
Consensus pattern (17 bp):
AACATGCCAAGGTATAA
Found at i:14757935 original size:9 final size:9
Alignment explanation
Indices: 14757900--14757994 Score: 50
Period size: 9 Copynumber: 10.2 Consensus size: 9
14757890 ACAAAAATTT
14757900 ATTA-AAAA
1 ATTATAAAA
*
14757908 AATATAAAA
1 ATTATAAAA
*
14757917 ATCA-ATAAA
1 ATTATA-AAA
14757926 ATTATAAAA
1 ATTATAAAA
**
14757935 ATTATAACT
1 ATTATAAAA
*
14757944 TTTAATAAAA
1 ATT-ATAAAA
*
14757954 ATTTTAAAA
1 ATTATAAAA
*
14757963 ATTTATTAAA
1 A-TTATAAAA
* *
14757973 ATAGAAAAAA
1 AT-TATAAAA
14757983 ATTTATAAAA
1 A-TTATAAAA
14757993 AT
1 AT
14757995 CGTAAAATAT
Statistics
Matches: 62, Mismatches: 18, Indels: 13
0.67 0.19 0.14
Matches are distributed among these distances:
8 4 0.06
9 32 0.52
10 25 0.40
11 1 0.02
ACGTcount: A:0.63, C:0.02, G:0.01, T:0.34
Consensus pattern (9 bp):
ATTATAAAA
Found at i:14759733 original size:39 final size:38
Alignment explanation
Indices: 14759660--14759737 Score: 104
Period size: 39 Copynumber: 2.0 Consensus size: 38
14759650 TAATTAATTC
14759660 ATGGAAGACATTACTTAAATTATCATTCGATTTTTTTT
1 ATGGAAGACATTACTTAAATTATCATTCGATTTTTTTT
* * *
14759698 ATGGAAGACGTTAC-TAAGGATTATCATTTGCTTTTTTTT
1 ATGGAAGACATTACTTAA--ATTATCATTCGATTTTTTTT
14759737 A
1 A
14759738 ATAAAGGATA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
37 3 0.09
38 13 0.37
39 19 0.54
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.46
Consensus pattern (38 bp):
ATGGAAGACATTACTTAAATTATCATTCGATTTTTTTT
Found at i:14763971 original size:16 final size:16
Alignment explanation
Indices: 14763952--14763984 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
14763942 AAATGAAATG
14763952 ATGAAAAT-AAAAGAAA
1 ATGAAAATGAAAA-AAA
14763968 ATGAAAATGAAAAAAA
1 ATGAAAATGAAAAAAA
14763984 A
1 A
14763985 GGGATTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (16 bp):
ATGAAAATGAAAAAAA
Found at i:14763972 original size:24 final size:21
Alignment explanation
Indices: 14763941--14763985 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 21
14763931 TGATAGGAAA
14763941 AAAATGAAATGATGAAAATAAAAG
1 AAAATGAAA--ATGAAAA-AAAAG
14763965 AAAATGAAAATGAAAAAAAAG
1 AAAATGAAAATGAAAAAAAAG
14763986 GGATTTTCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 5 0.24
22 7 0.33
24 9 0.43
ACGTcount: A:0.71, C:0.00, G:0.16, T:0.13
Consensus pattern (21 bp):
AAAATGAAAATGAAAAAAAAG
Found at i:14768883 original size:14 final size:14
Alignment explanation
Indices: 14768864--14768891 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
14768854 CCAGGTTACT
14768864 ATAAAACAAAGTAA
1 ATAAAACAAAGTAA
14768878 ATAAAACAAAGTAA
1 ATAAAACAAAGTAA
14768892 GCATTTAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.07, G:0.07, T:0.14
Consensus pattern (14 bp):
ATAAAACAAAGTAA
Found at i:14769496 original size:23 final size:25
Alignment explanation
Indices: 14769470--14769540 Score: 83
Period size: 23 Copynumber: 2.9 Consensus size: 25
14769460 CATATATCGA
* *
14769470 GAAGTTCAAGCGAGCCA-T-ATCAG
1 GAAGCTCAAGAGAGCCATTAATCAG
14769493 GAAGCTCAAGAGAGCCATTAATCAG
1 GAAGCTCAAGAGAGCCATTAATCAG
* *
14769518 GAAGCTCACAAAGAGCCTTTAAT
1 GAAGCTCA-AGAGAGCCATTAAT
14769541 AGGGAAGTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
23 15 0.37
24 1 0.02
25 13 0.32
26 12 0.29
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (25 bp):
GAAGCTCAAGAGAGCCATTAATCAG
Found at i:14769522 original size:25 final size:25
Alignment explanation
Indices: 14769430--14769540 Score: 95
Period size: 25 Copynumber: 4.5 Consensus size: 25
14769420 GAAGCTTTGA
* **
14769430 AGAGCCATTAATCGGGAAGCTCCGG
1 AGAGCCATTAATCAGGAAGCTCAAG
* *
14769455 ATAGCCA-TATATC-GAGAAGTTCAAG
1 AGAGCCATTA-ATCAG-GAAGCTCAAG
*
14769480 CGAGCCA-T-ATCAGGAAGCTCAAG
1 AGAGCCATTAATCAGGAAGCTCAAG
*
14769503 AGAGCCATTAATCAGGAAGCTCACAA
1 AGAGCCATTAATCAGGAAGCTCA-AG
*
14769529 AGAGCCTTTAAT
1 AGAGCCATTAAT
14769541 AGGGAAGTTT
Statistics
Matches: 70, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
23 18 0.26
24 5 0.07
25 35 0.50
26 12 0.17
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (25 bp):
AGAGCCATTAATCAGGAAGCTCAAG
Found at i:14772560 original size:225 final size:225
Alignment explanation
Indices: 14772169--14772617 Score: 853
Period size: 225 Copynumber: 2.0 Consensus size: 225
14772159 ATAGAGTCCC
* *
14772169 TAATGAGTTAATGTGAAATCGTATTTTGATCCGATGCTAAATATTGAAAGATATGTTTATCTCGA
1 TAATGAGTTAATGTGAAATCGTATTTTGATCAGATGCTAAATATTGAAAGATATGTTTATCTCAA
*
14772234 GTTTAGGAACTAAATTGAATAAAATGCAAAATATGTTTGACTTTATATTTGAATGTGAATTGGAT
66 GTTTAGGAACTAAATTGAATAAAATGAAAAATATGTTTGACTTTATATTTGAATGTGAATTGGAT
* *
14772299 GAATTTTGATATTGTTCCATTGTTAATTATCAATTATAGATAAAGACGACATCGGGTTATCAAGA
131 GAATTCTGATATTGTTCCATTGTTAATTATCAATTATAGATAAAGACGACATCAGGTTATCAAGA
14772364 AGGAAGGGAAAAGCGAGAGTTGTAACACCT
196 AGGAAGGGAAAAGCGAGAGTTGTAACACCT
14772394 TAATGAGTTAATGTGAAATCGTATTTTGATCAGATGCTAAATATTGAAAGATATGTTTATCTCAA
1 TAATGAGTTAATGTGAAATCGTATTTTGATCAGATGCTAAATATTGAAAGATATGTTTATCTCAA
14772459 GTTTAGGAACTAAATTGAATAAAATGAAAAATATGTTTGACTTTATATTTGAATGTGAATTGGAT
66 GTTTAGGAACTAAATTGAATAAAATGAAAAATATGTTTGACTTTATATTTGAATGTGAATTGGAT
14772524 GAATTCTGATATTGTTCCATTGTTAATTATCAATTATAGATAAAGACGACATCAGGTTATCAAGA
131 GAATTCTGATATTGTTCCATTGTTAATTATCAATTATAGATAAAGACGACATCAGGTTATCAAGA
14772589 AGGAAGGGAAAAGCGAGAGTTGTAACACC
196 AGGAAGGGAAAAGCGAGAGTTGTAACACC
14772618 GTCAACTCGA
Statistics
Matches: 219, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
225 219 1.00
ACGTcount: A:0.37, C:0.09, G:0.20, T:0.34
Consensus pattern (225 bp):
TAATGAGTTAATGTGAAATCGTATTTTGATCAGATGCTAAATATTGAAAGATATGTTTATCTCAA
GTTTAGGAACTAAATTGAATAAAATGAAAAATATGTTTGACTTTATATTTGAATGTGAATTGGAT
GAATTCTGATATTGTTCCATTGTTAATTATCAATTATAGATAAAGACGACATCAGGTTATCAAGA
AGGAAGGGAAAAGCGAGAGTTGTAACACCT
Found at i:14773117 original size:161 final size:161
Alignment explanation
Indices: 14772848--14773169 Score: 572
Period size: 161 Copynumber: 2.0 Consensus size: 161
14772838 CAGACTCTCA
* **
14772848 GGACATAATCCTACAATATGCCAAAATCTAAAGATGTCCACTGTATGCATAATATTCCAGATCGT
1 GGACATAATCCTACAATATGCCAAAATCTAAAGATGTCCACTGTATGCATAATATCCCAGATCAC
* * *
14772913 CGTTTCTATGGTGTACTACTGACTTGTCTCTCTAGGCGGTCTCATTCATACAGCATAACCTAAAA
66 CGTTTCTATGGTGTACAAATGACTTGTCTCTCCAGGCGGTCTCATTCATACAGCATAACCTAAAA
14772978 CATAAACAAAACATTTATAAGTTACATGAGC
131 CATAAACAAAACATTTATAAGTTACATGAGC
14773009 GGACATAATCCTACAATATGCCAAAATCTAAAGATGTCCACTGTATGCATAATATCCCAGATCAC
1 GGACATAATCCTACAATATGCCAAAATCTAAAGATGTCCACTGTATGCATAATATCCCAGATCAC
* *
14773074 CGTTTCTATGGTGTACAAATGACTTGTCTCTCCAGGTGGTCTCATTCATACAGCATAACCTGAAA
66 CGTTTCTATGGTGTACAAATGACTTGTCTCTCCAGGCGGTCTCATTCATACAGCATAACCTAAAA
14773139 CATAAACAAAACATTTATAAGTTACATGAGC
131 CATAAACAAAACATTTATAAGTTACATGAGC
14773170 TTAGTGAATT
Statistics
Matches: 153, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
161 153 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (161 bp):
GGACATAATCCTACAATATGCCAAAATCTAAAGATGTCCACTGTATGCATAATATCCCAGATCAC
CGTTTCTATGGTGTACAAATGACTTGTCTCTCCAGGCGGTCTCATTCATACAGCATAACCTAAAA
CATAAACAAAACATTTATAAGTTACATGAGC
Found at i:14773931 original size:71 final size:71
Alignment explanation
Indices: 14773847--14773989 Score: 187
Period size: 71 Copynumber: 2.0 Consensus size: 71
14773837 CATAAATGTG
* * ** * *
14773847 ACATATATGATACGCCACATAAGCTTAGTAGAAGTACGCCACAAGAACCAATATAATGCGTCACA
1 ACATATAGGATACGCCACATAAGCTTAGCAGAAAAACGCCACAAGAACCAACAGAATGCGTCACA
14773912 AAGGCC
66 AAGGCC
* * * *
14773918 ACATATAGGATACGCCACATAGGCTTAGCATAAAAACGTCACAAGGACCAACAGAATGCGTCACA
1 ACATATAGGATACGCCACATAAGCTTAGCAGAAAAACGCCACAAGAACCAACAGAATGCGTCACA
*
14773983 AATGCC
66 AAGGCC
14773989 A
1 A
14773990 AACATAATTT
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
71 61 1.00
ACGTcount: A:0.41, C:0.24, G:0.17, T:0.17
Consensus pattern (71 bp):
ACATATAGGATACGCCACATAAGCTTAGCAGAAAAACGCCACAAGAACCAACAGAATGCGTCACA
AAGGCC
Found at i:14774142 original size:117 final size:117
Alignment explanation
Indices: 14773899--14774151 Score: 314
Period size: 117 Copynumber: 2.1 Consensus size: 117
14773889 AAGAACCAAT
* **
14773899 ATAATGCGTCACAAAGGCCACATATAGGATACGCCACATAGGCTTAGCATAAAAACGTCACAAGG
1 ATAATGC--CACAAAGGCCACATATAGGATACACCACATAGGCTTAGCATAAAAACACCACAAGG
* * * *
14773964 ACCAACAGAATGCGTCACAAATGCCAAACATAATTTACCATAAAGGTCAAACAG
64 ACCAACAGAATGCGCCACAAAGGCCAAACAAAATTCACCATAAAGGTCAAACAG
* *
14774018 A-ATATGCCACAAAGGCGACATATAGGATACACCACATAGGCTTAGCA-AAAGTACACCACAAGG
1 ATA-ATGCCACAAAGGCCACATATAGGATACACCACATAGGCTTAGCATAAA-AACACCACAAGG
* * * * *
14774081 GCCAATAGAATGTGCCACAAAGGCCAAACAAAATTCACCATAAAGGT-ATTACTG
64 ACCAACAGAATGCGCCACAAAGGCCAAACAAAATTCACCATAAAGGTCA-AACAG
14774135 ATAATGCCACAAAGGCC
1 ATAATGCCACAAAGGCC
14774152 CTATTTGGAT
Statistics
Matches: 115, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
116 4 0.03
117 104 0.90
118 2 0.02
119 5 0.04
ACGTcount: A:0.43, C:0.24, G:0.17, T:0.16
Consensus pattern (117 bp):
ATAATGCCACAAAGGCCACATATAGGATACACCACATAGGCTTAGCATAAAAACACCACAAGGAC
CAACAGAATGCGCCACAAAGGCCAAACAAAATTCACCATAAAGGTCAAACAG
Found at i:14774168 original size:117 final size:117
Alignment explanation
Indices: 14773908--14774127 Score: 316
Period size: 117 Copynumber: 1.9 Consensus size: 117
14773898 TATAATGCGT
* * **
14773908 CACAAAGGCCACATATAGGATACGCCACATAGGCTTAGCATAAAAACGTCACAAGGACCAACAGA
1 CACAAAGGCGACATATAGGATACACCACATAGGCTTAGCATAAAAACACCACAAGGACCAACAGA
* * * *
14773973 ATGCGTCACAAATGCCAAACATAATTTACCATAAAGGTCAAACAGAATATGC
66 ATGCGCCACAAAGGCCAAACAAAATTCACCATAAAGGTCAAACAGAATATGC
* * *
14774025 CACAAAGGCGACATATAGGATACACCACATAGGCTTAGCA-AAAGTACACCACAAGGGCCAATAG
1 CACAAAGGCGACATATAGGATACACCACATAGGCTTAGCATAAA-AACACCACAAGGACCAACAG
*
14774089 AATGTGCCACAAAGGCCAAACAAAATTCACCATAAAGGT
65 AATGCGCCACAAAGGCCAAACAAAATTCACCATAAAGGT
14774128 ATTACTGATA
Statistics
Matches: 90, Mismatches: 12, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
116 3 0.03
117 87 0.97
ACGTcount: A:0.44, C:0.24, G:0.17, T:0.15
Consensus pattern (117 bp):
CACAAAGGCGACATATAGGATACACCACATAGGCTTAGCATAAAAACACCACAAGGACCAACAGA
ATGCGCCACAAAGGCCAAACAAAATTCACCATAAAGGTCAAACAGAATATGC
Found at i:14778092 original size:19 final size:17
Alignment explanation
Indices: 14778085--14778242 Score: 74
Period size: 17 Copynumber: 8.7 Consensus size: 17
14778075 ATTTTAATAG
14778085 TTTAATATTAAATTAAA
1 TTTAATATTAAATTAAA
*
14778102 TTTAATATTAAAGTAATTA
1 TTTAATATTAAATTAA--A
14778121 TTTTAATATTAAATTTAATA
1 -TTTAATATTAAA-TTAA-A
*
14778141 TTT-ATCTTATAGA-TAAA
1 TTTAATATTA-A-ATTAAA
*
14778158 TATTATATTATTTTAA-TAAGA
1 T-TTA-A-TA-TTAAATTAA-A
*
14778179 TTTAATATATAAAATTTAA
1 TTTAATAT-T-AAATTAAA
* *
14778198 TTTAATATT-TATCTTAA
1 TTTAATATTAAAT-TAAA
* *
14778215 -TAAATATTAGATTAAA
1 TTTAATATTAAATTAAA
14778231 TTTAATATTAAA
1 TTTAATATTAAA
14778243 GTGATTAAGT
Statistics
Matches: 110, Mismatches: 13, Indels: 36
0.69 0.08 0.23
Matches are distributed among these distances:
16 12 0.11
17 33 0.30
18 14 0.13
19 17 0.15
20 25 0.23
21 7 0.06
22 2 0.02
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (17 bp):
TTTAATATTAAATTAAA
Found at i:14778113 original size:12 final size:12
Alignment explanation
Indices: 14778068--14778142 Score: 54
Period size: 12 Copynumber: 6.6 Consensus size: 12
14778058 ATTCCAAAAA
*
14778068 TAATATT-ATTT
1 TAATATTAAATT
*
14778079 TAATAGTTTAATAT
1 TAATA-TTAAAT-T
14778093 TAA-ATTAAATT
1 TAATATTAAATT
*
14778104 TAATATTAAA-G
1 TAATATTAAATT
*
14778115 T-A-ATT-ATTT
1 TAATATTAAATT
14778124 TAATATTAAATT
1 TAATATTAAATT
14778136 TAATATT
1 TAATATT
14778143 TATCTTATAG
Statistics
Matches: 50, Mismatches: 6, Indels: 15
0.70 0.08 0.21
Matches are distributed among these distances:
8 1 0.02
9 4 0.08
10 2 0.04
11 13 0.26
12 23 0.46
13 3 0.06
14 4 0.08
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (12 bp):
TAATATTAAATT
Found at i:14778123 original size:45 final size:46
Alignment explanation
Indices: 14778070--14778206 Score: 120
Period size: 45 Copynumber: 2.9 Consensus size: 46
14778060 TCCAAAAATA
14778070 ATATTATTTTAATAGTTTAATATTAAATTAAATTTAATATTAA-AGT
1 ATATTATTTTAATAGTTTAATATTAAATT-AATTTAATATTAATAGT
* * * * *
14778116 A-ATTATTTTAATA-TTAAAT-TTAATATTTATCTTATAGATAAATATT
1 ATATTATTTTAATAGTTTAATATTAA-ATTAAT-TTA-ATATTAATAGT
14778162 ATATTATTTTAATAAGATTTAATATATAAAATTTAATTTAATATT
1 ATATTATTTTAAT-AG-TTTAATAT-T-AAA-TTAATTTAATATT
14778207 TATCTTAATA
Statistics
Matches: 70, Mismatches: 9, Indels: 19
0.71 0.09 0.19
Matches are distributed among these distances:
43 6 0.09
44 11 0.16
45 17 0.24
46 4 0.06
47 11 0.16
48 1 0.01
50 5 0.07
51 4 0.06
52 5 0.07
53 6 0.09
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (46 bp):
ATATTATTTTAATAGTTTAATATTAAATTAATTTAATATTAATAGT
Found at i:14778142 original size:20 final size:19
Alignment explanation
Indices: 14778068--14778143 Score: 84
Period size: 20 Copynumber: 4.0 Consensus size: 19
14778058 ATTCCAAAAA
** *
14778068 TAATATTATTTTAATAGTT
1 TAATATTAAATTAATATTT
14778087 TAATATTAAATTAA-A-TT
1 TAATATTAAATTAATATTT
*
14778104 TAATATTAAAGTAATTATTT
1 TAATATTAAATTAA-TATTT
14778124 TAATATTAAATTTAATATTT
1 TAATATTAAA-TTAATATTT
14778144 ATCTTATAGA
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
17 15 0.31
18 1 0.02
19 13 0.27
20 17 0.35
21 3 0.06
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (19 bp):
TAATATTAAATTAATATTT
Found at i:14779550 original size:124 final size:124
Alignment explanation
Indices: 14779139--14779584 Score: 730
Period size: 125 Copynumber: 3.6 Consensus size: 124
14779129 ACGCACTTTC
* * * * *
14779139 GCTTCTAGCAAGATGCTGTTTGATAAGAATTTGTGAAATCACGCCCTCGTGGACACGCTTTTGCT
1 GCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCT
*
14779204 ACAGTAGGTCCTGAAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAATT
66 ACAGTAGGTCCTGGAA-AAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAATT
14779264 GCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCT
1 GCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCT
* * * * *
14779329 ATAGTCGGTCCTGGAAAAAATAATTTTGACTTGACGTTTTTGAGTAAATAGTATAAAATT
66 ACAGTAGGTCCTGG-AAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAATT
* *
14779389 ACTTCTAGCAGGATGCTATTTGAGAAGAATTTATGAAATCGCGCCCTCGTGGACGCGCTTTTGCT
1 GCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCT
*
14779454 ACAGTAGGTCCTGGAAAAATAATTTCGACTTGATGTTTCTGAGCAAATAGTATAAAATT
66 ACAGTAGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAATT
* *
14779513 GCTTCTAGCATGATGCTATTTGAGAAGAATTTGTGAAATTGCGCCCTCGTGGACGCGCTTTTGCT
1 GCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCT
14779578 ACAGTAG
66 ACAGTAG
14779585 CATGTTTGGG
Statistics
Matches: 297, Mismatches: 23, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
124 109 0.37
125 186 0.63
126 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (124 bp):
GCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCT
ACAGTAGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAATT
Found at i:14782787 original size:113 final size:114
Alignment explanation
Indices: 14782588--14782857 Score: 488
Period size: 113 Copynumber: 2.4 Consensus size: 114
14782578 AAATTATATT
* *
14782588 TGTAAAATTATTAATTGATAAATTGTATTAATGATTAGTAAAATTATCAAATTATATCAAATTAT
1 TGTAAAATTATTAACTGAT-AATTGTATTAATGGTTAGTAAAATTATCAAATTATATCAAATTAT
*
14782653 TAATTGTTAGTATCAGTCAAAACATTTTTCCAAATCT-ACATTATGTGAA
65 TAATTGTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAA
14782702 TGTAAAATTATTAACTGATAATTGTATTAATGGTTAGTAAAATTATCAAATTATATCAAATTATT
1 TGTAAAATTATTAACTGATAATTGTATTAATGGTTAGTAAAATTATCAAATTATATCAAATTATT
*
14782767 AATTGTTAGTACCAGTCAAAATATTTTTCCAAATCTAACATTATGTGAA
66 AATTGTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAA
14782816 TGTAAAATTATTAACTGATAATTGTATTAATGGTTAGTAAAA
1 TGTAAAATTATTAACTGATAATTGTATTAATGGTTAGTAAAA
14782858 ATCTTAAGGT
Statistics
Matches: 151, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
113 79 0.52
114 72 0.48
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.41
Consensus pattern (114 bp):
TGTAAAATTATTAACTGATAATTGTATTAATGGTTAGTAAAATTATCAAATTATATCAAATTATT
AATTGTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAA
Found at i:14782907 original size:21 final size:21
Alignment explanation
Indices: 14782865--14783413 Score: 503
Period size: 21 Copynumber: 25.2 Consensus size: 21
14782855 AAAATCTTAA
*
14782865 GGTTTTTAAGTTAAGGTTTTAG
1 GGTTTTTAAGTTAAGG-GTTAG
14782887 GGTTTTTAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
* *
14782908 GGTTATTAAGTTAAGGTTTAG
1 GGTTTTTAAGTTAAGGGTTAG
* *
14782929 GGTTTTTAATTTAAGGGTCAG
1 GGTTTTTAAGTTAAGGGTTAG
* * * *
14782950 GATTTTTAATTTAAGGTTTAT
1 GGTTTTTAAGTTAAGGGTTAG
* *
14782971 GGTTTTTAATTTAATGGTTAGGG
1 GGTTTTTAAGTTAAGGGTTA--G
* *
14782994 TTAGGTTTTTAAGTTAAAGGTTTAT
1 ---GGTTTTTAAGTT-AAGGGTTAG
14783019 GGTTTTTAAGTTAAGGGTTTAG
1 GGTTTTTAAGTTAAGGG-TTAG
* * *
14783041 GGTTATTAATTTAAGGGTGAG
1 GGTTTTTAAGTTAAGGGTTAG
* *
14783062 GGTTTTTAATTTAATGGTTTAG
1 GGTTTTTAAGTTAA-GGGTTAG
*
14783084 GGTTTTTAAGTTAAGGTTTAG
1 GGTTTTTAAGTTAAGGGTTAG
*
14783105 GGTTTTTAAATTAAGGGTTA-
1 GGTTTTTAAGTTAAGGGTTAG
14783125 GGTTTTTAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
**
14783146 GGTTTTTAAGTTAAAGCTTTAG
1 GGTTTTTAAGTT-AAGGGTTAG
*
14783168 GGTATAATTGT-A-TTAATGGTTTAG
1 GGT-T--TT-TAAGTTAA-GGGTTAG
*
14783192 GGTTTTTAATTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
14783213 GGTTTTTAA-TTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
* *
14783233 GGTTTTTAATTTAAGGTTTAG
1 GGTTTTTAAGTTAAGGGTTAG
* * *
14783254 GGTTTTAAATTTAATGGTTAGGGAGCG
1 GGTTTTTAAGTTAAGGGTT----A--G
* *
14783281 GGTTTTTAAGTTGAAGGTTTAT
1 GGTTTTTAAGTT-AAGGGTTAG
14783303 GGTTTTTAAGTTAAGGGTTTAG
1 GGTTTTTAAGTTAAGGG-TTAG
* * *
14783325 GGTTATTAATTTTAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
* *
14783346 GGTTATTAAGTTAAGTGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
*
14783367 GGTTTTTAAGTTAAGGGTTTAA
1 GGTTTTTAAGTTAAGGG-TTAG
* *
14783389 AGTTTTTAATTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
14783410 GGTT
1 GGTT
14783414 ATTGTTTTTT
Statistics
Matches: 441, Mismatches: 59, Indels: 55
0.79 0.11 0.10
Matches are distributed among these distances:
20 40 0.09
21 222 0.50
22 125 0.28
23 4 0.01
24 12 0.03
25 4 0.01
26 12 0.03
27 17 0.04
28 5 0.01
ACGTcount: A:0.25, C:0.01, G:0.28, T:0.46
Consensus pattern (21 bp):
GGTTTTTAAGTTAAGGGTTAG
Found at i:14782983 original size:26 final size:26
Alignment explanation
Indices: 14782955--14783032 Score: 78
Period size: 26 Copynumber: 3.2 Consensus size: 26
14782945 GTCAGGATTT
*
14782955 TTAATTTAAGGTTTATGGTTTTTAAT
1 TTAATTTAAGGTTTATGGTTTTTAAG
*
14782981 TTAATGGTT-AGGGTTA-GGTTTTTAAG
1 TTAAT--TTAAGGTTTATGGTTTTTAAG
14783007 TT-A---AAGGTTTATGGTTTTTAAG
1 TTAATTTAAGGTTTATGGTTTTTAAG
14783029 TTAA
1 TTAA
14783033 GGGTTTAGGG
Statistics
Matches: 44, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
21 6 0.14
22 12 0.27
23 1 0.02
25 1 0.02
26 16 0.36
27 6 0.14
28 2 0.05
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (26 bp):
TTAATTTAAGGTTTATGGTTTTTAAG
Found at i:14783307 original size:49 final size:49
Alignment explanation
Indices: 14783232--14783326 Score: 129
Period size: 49 Copynumber: 1.9 Consensus size: 49
14783222 TTAAGGGTTA
* * *
14783232 GGGTTTTTAATTTAAGGTTTAGGGTTTTAAATTTAATGG-TTAGGGAGC
1 GGGTTTTTAATTGAAGGTTTAGGGTTTTAAAGTTAAGGGTTTAGGGAGC
* *
14783280 GGGTTTTTAAGTTGAAGGTTTATGGTTTTTAAGTTAAGGGTTTAGGG
1 GGGTTTTTAA-TTGAAGGTTTAGGGTTTTAAAGTTAAGGGTTTAGGG
14783327 TTATTAATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
48 10 0.25
49 24 0.60
50 6 0.15
ACGTcount: A:0.23, C:0.01, G:0.32, T:0.44
Consensus pattern (49 bp):
GGGTTTTTAATTGAAGGTTTAGGGTTTTAAAGTTAAGGGTTTAGGGAGC
Found at i:14783434 original size:284 final size:283
Alignment explanation
Indices: 14782904--14783416 Score: 780
Period size: 284 Copynumber: 1.8 Consensus size: 283
14782894 AAGTTAAGGG
*
14782904 TTAGGGTTATTAAGTTAAGGTTTAGGGTTTTTAATTTAAGGGTCAGGATTTTTAATTTAAGGTTT
1 TTAGGGTTATTAAGTTAAGGGTTAGGGTTTTTAATTTAAGGGTCAGGATTTTTAATTTAAGGTTT
* * **
14782969 ATGGTTTTTAATTTAATGGTTAGGGTTAGGTTTTTAAGTTAAAGGTTTATGGTTTTTAAGTTAAG
66 AGGGTTTTAAATTTAATGGTTAGGGGCAGGTTTTTAAGTTAAAGGTTTATGGTTTTTAAGTTAAG
* *
14783034 GGTTTAGGGTTATTAATTTAAGGGTGAGGGTTTTTAATTTAATGGTTTAGGGTTTTTAAGTTAAG
131 GGTTTAGGGTTATTAATTTAAGGGTGAGGGTTATTAAGTTAATGGTTTAGGGTTTTTAAGTTAAG
** * *
14783099 GTTTAGGGTTTTTAAATTAAGGGTTAGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAAGCT
196 GTTTAAAGTTTTTAAATTAAGGGTTAGGTTATT-AGTTAAGGATTAGGGTTTTTAAGTTAAAGCT
14783164 TTAGGGTATAATTGTATTAATGGT
260 TTAGGGTATAATTGTATTAATGGT
* * * *
14783188 TTAGGGTTTTTAATTTAAGGGTTAGGGTTTTTAA-TTAAGGGTTAGGGTTTTTAATTTAAGGTTT
1 TTAGGGTTATTAAGTTAAGGGTTAGGGTTTTTAATTTAAGGGTCAGGATTTTTAATTTAAGGTTT
* *
14783252 AGGGTTTTAAATTTAATGGTTAGGGAGCGGGTTTTTAAGTTGAAGGTTTATGGTTTTTAAGTTAA
66 AGGGTTTTAAATTTAATGGTTAGGG-GCAGGTTTTTAAGTTAAAGGTTTATGGTTTTTAAGTTAA
* *
14783317 GGGTTTAGGGTTATTAATTTTAGGGTTAGGGTTATTAAGTTAA--GTGTTAGGGTTTTTAAGTTA
130 GGGTTTAGGGTTATTAATTTAAGGGTGAGGGTTATTAAGTTAATGGT-TTAGGGTTTTTAAGTTA
*
14783380 AGGGTTTAAAGTTTTTAATTTAAGGGTTAGGGTTATT
194 A-GGTTTAAAGTTTTTAAATTAAGGGTTA-GGTTATT
14783417 GTTTTTTATT
Statistics
Matches: 206, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
282 2 0.01
283 69 0.33
284 129 0.63
285 6 0.03
ACGTcount: A:0.26, C:0.01, G:0.27, T:0.47
Consensus pattern (283 bp):
TTAGGGTTATTAAGTTAAGGGTTAGGGTTTTTAATTTAAGGGTCAGGATTTTTAATTTAAGGTTT
AGGGTTTTAAATTTAATGGTTAGGGGCAGGTTTTTAAGTTAAAGGTTTATGGTTTTTAAGTTAAG
GGTTTAGGGTTATTAATTTAAGGGTGAGGGTTATTAAGTTAATGGTTTAGGGTTTTTAAGTTAAG
GTTTAAAGTTTTTAAATTAAGGGTTAGGTTATTAGTTAAGGATTAGGGTTTTTAAGTTAAAGCTT
TAGGGTATAATTGTATTAATGGT
Found at i:14785909 original size:11 final size:11
Alignment explanation
Indices: 14785895--14785948 Score: 58
Period size: 11 Copynumber: 4.9 Consensus size: 11
14785885 TTAAATATGG
14785895 ATTTGAGAGAA
1 ATTTGAGAGAA
*
14785906 ATTTG-GAAGGA
1 ATTTGAG-AGAA
14785917 ATTTGAGAGAA
1 ATTTGAGAGAA
*
14785928 AATTGAGAGGAA
1 ATTTGAGA-GAA
14785940 A-TTGAGAGA
1 ATTTGAGAGA
14785949 GGATTAGTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
10 3 0.08
11 29 0.78
12 5 0.14
ACGTcount: A:0.44, C:0.00, G:0.31, T:0.24
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:14785923 original size:22 final size:22
Alignment explanation
Indices: 14785895--14785948 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
14785885 TTAAATATGG
*
14785895 ATTTGAGAGAAATTTG-GAAGGA
1 ATTTGAGAGAAAATTGAG-AGGA
14785917 ATTTGAGAGAAAATTGAGAGGA
1 ATTTGAGAGAAAATTGAGAGGA
*
14785939 AATTGAGAGA
1 ATTTGAGAGA
14785949 GGATTAGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 28 0.97
23 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.31, T:0.24
Consensus pattern (22 bp):
ATTTGAGAGAAAATTGAGAGGA
Found at i:14786604 original size:23 final size:20
Alignment explanation
Indices: 14786578--14786628 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 20
14786568 CCGACCCATT
*
14786578 TTTTAATAAACACAAAAAATTTA
1 TTTTAA-AAACA-AAAAAA-GTA
*
14786601 TTTTAAAAATAAAAAAAGTA
1 TTTTAAAAACAAAAAAAGTA
14786621 TTTTAAAA
1 TTTTAAAA
14786629 GTATTTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 10 0.38
21 6 0.23
22 4 0.15
23 6 0.23
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (20 bp):
TTTTAAAAACAAAAAAAGTA
Found at i:14786630 original size:11 final size:11
Alignment explanation
Indices: 14786614--14786639 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
14786604 TAAAAATAAA
14786614 AAAAGTATTTT
1 AAAAGTATTTT
14786625 AAAAGTATTTT
1 AAAAGTATTTT
14786636 AAAA
1 AAAA
14786640 TTAAAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:14787507 original size:3 final size:3
Alignment explanation
Indices: 14787499--14787533 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
14787489 TTCCACACCA
14787499 TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TC
1 TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TC
14787534 TTCGAATTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.66, G:0.00, T:0.34
Consensus pattern (3 bp):
TCC
Found at i:14794851 original size:32 final size:32
Alignment explanation
Indices: 14794813--14794873 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
14794803 GTGGTTTTAG
*
14794813 TAATTGCTTTGATTTATTTTTTGCTCAAATAA
1 TAATTGCTTTGATTCATTTTTTGCTCAAATAA
14794845 TAATTGCTTTGATTCATTTTTTGCTCAAA
1 TAATTGCTTTGATTCATTTTTTGCTCAAA
14794874 ATGAAGAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.26, C:0.11, G:0.10, T:0.52
Consensus pattern (32 bp):
TAATTGCTTTGATTCATTTTTTGCTCAAATAA
Found at i:14798500 original size:32 final size:32
Alignment explanation
Indices: 14798438--14798498 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 32
14798428 ATATTTATAT
* *
14798438 AAATTTATAAACTTTTAATTCTTAATTTTTAA
1 AAATTTATAAACTTATAATTCATAATTTTTAA
14798470 AAATTTAT-AACTTATATATT-ATAATTTTT
1 AAATTTATAAACTTATA-ATTCATAATTTTT
14798499 TATATTTTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 15 0.58
32 11 0.42
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (32 bp):
AAATTTATAAACTTATAATTCATAATTTTTAA
Found at i:14811330 original size:24 final size:25
Alignment explanation
Indices: 14811240--14811486 Score: 220
Period size: 25 Copynumber: 10.0 Consensus size: 25
14811230 CTCATGTGAG
* **
14811240 CATATAATCGGGAAGCTCTTTCGAGC
1 CATAT-ATCGGGAAGCTCATAAGAGC
**
14811266 CATATTAT-GGGAAGCTCATGTGAGC
1 CATA-TATCGGGAAGCTCATAAGAGC
*
14811291 CATATAACGGGAAGCTCATAAGAGC
1 CATATATCGGGAAGCTCATAAGAGC
14811316 CATA-ATCGGGAAGCTCATAAGAGC
1 CATATATCGGGAAGCTCATAAGAGC
**
14811340 CATA-ATCGGGAAGCTCATGTGAGC
1 CATATATCGGGAAGCTCATAAGAGC
14811364 CA-ATATCGGGAAGCTCATAAGAGC
1 CATATATCGGGAAGCTCATAAGAGC
* *
14811388 CATATAAC-AGAATGCTCATAAGAGC
1 CATATATCGGGAA-GCTCATAAGAGC
* * * * * *
14811413 TAAATAACGGGAAGCTCGTGAGACC
1 CATATATCGGGAAGCTCATAAGAGC
* * *
14811438 CAAATATCAGGAAGTTCA-AGAGAGC
1 CATATATCGGGAAGCTCATA-AGAGC
* *
14811463 CA-ATATCGAGATGCTCATAAGAGC
1 CATATATCGGGAAGCTCATAAGAGC
14811487 TAATAACGGG
Statistics
Matches: 183, Mismatches: 30, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
23 1 0.01
24 84 0.46
25 88 0.48
26 9 0.05
27 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.20
Consensus pattern (25 bp):
CATATATCGGGAAGCTCATAAGAGC
Found at i:14811491 original size:24 final size:24
Alignment explanation
Indices: 14811246--14811502 Score: 191
Period size: 24 Copynumber: 10.5 Consensus size: 24
14811236 TGAGCATATA
* **
14811246 ATCGGGAAGCTCTTTCGAGCCATATT
1 ATCGGGAAGCTCATAAGAGCCA-A-T
**
14811272 AT-GGGAAGCTCATGTGAGCCATAT
1 ATCGGGAAGCTCATAAGAGCCA-AT
*
14811296 AACGGGAAGCTCATAAGAGCC-AT
1 ATCGGGAAGCTCATAAGAGCCAAT
14811319 AATCGGGAAGCTCATAAGAGCC-AT
1 -ATCGGGAAGCTCATAAGAGCCAAT
**
14811343 AATCGGGAAGCTCATGTGAGCCAAT
1 -ATCGGGAAGCTCATAAGAGCCAAT
14811368 ATCGGGAAGCTCATAAGAGCCATAT
1 ATCGGGAAGCTCATAAGAGCCA-AT
* * *
14811393 AAC-AGAATGCTCATAAGAGCTAAAT
1 ATCGGGAA-GCTCATAAGAGC-CAAT
* * * *
14811418 AACGGGAAGCTCGTGAGACCCAAAT
1 ATCGGGAAGCTCATAAGAGCC-AAT
* *
14811443 ATCAGGAAGTTCA-AGAGAGCCAAT
1 ATCGGGAAGCTCATA-AGAGCCAAT
* * *
14811467 ATCGAGATGCTCATAAGAGCTAAT
1 ATCGGGAAGCTCATAAGAGCCAAT
* *
14811491 AACGGGACGCTC
1 ATCGGGAAGCTC
14811503 TTGCGAGCTG
Statistics
Matches: 188, Mismatches: 33, Indels: 22
0.77 0.14 0.09
Matches are distributed among these distances:
23 2 0.01
24 96 0.51
25 84 0.45
26 6 0.03
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.19
Consensus pattern (24 bp):
ATCGGGAAGCTCATAAGAGCCAAT
Found at i:14816502 original size:15 final size:16
Alignment explanation
Indices: 14816479--14816517 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
14816469 TTATGGGTAC
*
14816479 AAAATAATAAGAT-TT
1 AAAAGAATAAGATATT
14816494 AAAAGAATAAGATATT
1 AAAAGAATAAGATATT
14816510 -AAAGAATA
1 AAAAGAATA
14816518 TATCATTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 20 0.91
16 2 0.09
ACGTcount: A:0.64, C:0.00, G:0.10, T:0.26
Consensus pattern (16 bp):
AAAAGAATAAGATATT
Found at i:14818245 original size:29 final size:29
Alignment explanation
Indices: 14818190--14818246 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
14818180 GTATTTTCAT
* *
14818190 AAAATGTTTAATGTGATACTTATACTTTA
1 AAAATATTTAATGTGATACTGATACTTTA
14818219 AAAATATTTAATGTGATATCTGA-ACTTT
1 AAAATATTTAATGTGATA-CTGATACTTT
14818247 CAATATTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 22 0.88
30 3 0.12
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.44
Consensus pattern (29 bp):
AAAATATTTAATGTGATACTGATACTTTA
Found at i:14818258 original size:91 final size:90
Alignment explanation
Indices: 14818093--14818262 Score: 206
Period size: 91 Copynumber: 1.9 Consensus size: 90
14818083 ATATTTGATG
* * * *
14818093 TTTTATAAAATGTTTAATATGGTATCTGTATTTTAAAAATGTTTATTGTGGTACTTGAATTATCA
1 TTTTATAAAATGTTTAATATGATATCTGTATTTTAAAAATATTTAATGTGATACTTGAATTATCA
14818158 ATTTATGTATTATTTGATACATGTA
66 ATTTATGTATTATTTGATACATGTA
*
14818183 TTTTCATAAAATGTTTAATGTGATA-CT-TATACTTTAAAAATATTTAATGTGATA-TCTGAACT
1 TTTT-ATAAAATGTTTAATATGATATCTGTAT--TTTAAAAATATTTAATGTGATACT-TGAA-T
14818245 T-TCAATATT-TGTATTATT
61 TATCAAT-TTATGTATTATT
14818263 ATGGTACTTG
Statistics
Matches: 69, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
89 3 0.04
90 7 0.10
91 55 0.80
92 4 0.06
ACGTcount: A:0.34, C:0.06, G:0.11, T:0.49
Consensus pattern (90 bp):
TTTTATAAAATGTTTAATATGATATCTGTATTTTAAAAATATTTAATGTGATACTTGAATTATCA
ATTTATGTATTATTTGATACATGTA
Found at i:14823649 original size:38 final size:38
Alignment explanation
Indices: 14823601--14823679 Score: 133
Period size: 38 Copynumber: 2.1 Consensus size: 38
14823591 TCGTGGTGTT
14823601 GGGTAAGGTTTAAGTTCC-ATTGTTGGATTTGTCTCTTG
1 GGGTAAGGTTTAAG-TCCTATTGTTGGATTTGTCTCTTG
*
14823639 GGGTAAGGTTTAAGTCCTATTGTTGGATTTGTCTTTTG
1 GGGTAAGGTTTAAGTCCTATTGTTGGATTTGTCTCTTG
14823677 GGG
1 GGG
14823680 GACGGTTGGT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
37 3 0.08
38 36 0.92
ACGTcount: A:0.15, C:0.09, G:0.32, T:0.44
Consensus pattern (38 bp):
GGGTAAGGTTTAAGTCCTATTGTTGGATTTGTCTCTTG
Found at i:14825708 original size:21 final size:21
Alignment explanation
Indices: 14825683--14825731 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
14825673 ACATAGAAAT
*
14825683 AAAATAAACAAATAAATAAAC
1 AAAATAAACAAATAAATAAAA
* * * *
14825704 AAAATGAATATATATATAAAA
1 AAAATAAACAAATAAATAAAA
14825725 AAAATAA
1 AAAATAA
14825732 TCCATGACAT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.20
Consensus pattern (21 bp):
AAAATAAACAAATAAATAAAA
Found at i:14826163 original size:29 final size:26
Alignment explanation
Indices: 14826102--14826164 Score: 72
Period size: 29 Copynumber: 2.3 Consensus size: 26
14826092 TATACATGTA
*
14826102 AAATATATTAAAAATAATTAAATAAT
1 AAATATATTAAAAATAATTAAAAAAT
**
14826128 ATCTATATTATCAAAATTAATTAAAAAAT
1 AAATATATTA--AAAA-TAATTAAAAAAT
14826157 AAATATAT
1 AAATATAT
14826165 GTATATATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 8 0.28
28 4 0.14
29 17 0.59
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (26 bp):
AAATATATTAAAAATAATTAAAAAAT
Found at i:14828046 original size:44 final size:44
Alignment explanation
Indices: 14827992--14828108 Score: 148
Period size: 44 Copynumber: 2.7 Consensus size: 44
14827982 ATGTGATCTA
* * *
14827992 CTCCACTGCAACTTCAGAGAGCTAAGATCT-GTGGTTTTAATCC-G
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TAGTAGTTTTAA-CCTG
* *
14828036 CTCCACTGCAACTTCAGGGAGATAGGATTATTAGTTTTAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTAGTAGTTTTAACCTG
*
14828080 CTCCATTGCAACTTCAGGGAGATAAGATT
1 CTCCACTGCAACTTCAGGGAGATAAGATT
14828109 CGCCATCTTC
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
43 3 0.05
44 61 0.95
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTAGTAGTTTTAACCTG
Found at i:14828193 original size:44 final size:45
Alignment explanation
Indices: 14828077--14828196 Score: 131
Period size: 45 Copynumber: 2.7 Consensus size: 45
14828067 TAGTTTTAAC
* *
14828077 CTGCTCCATTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATATTCAGT
* ** *
14828122 CTGCCCCACTGCAACTTCAGAGG-GATAAGACTT-G-TTTATTCGGT
1 CTGCTCCACTGCAACTTCAG-GGAGATAAGA-TTCGCCATATTCAGT
14828166 CTGCTCCACTGCAACCTT-AGGGAGATAAGAT
1 CTGCTCCACTGCAA-CTTCAGGGAGATAAGAT
14828197 CTAATATCTT
Statistics
Matches: 64, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
43 3 0.05
44 28 0.44
45 29 0.45
46 4 0.06
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.28
Consensus pattern (45 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATATTCAGT
Found at i:14828554 original size:267 final size:267
Alignment explanation
Indices: 14828204--14828749 Score: 869
Period size: 267 Copynumber: 2.0 Consensus size: 267
14828194 GATCTAATAT
* * * *
14828204 CTTCAATCTTTTTAATTGCAATGTGGGGGAAACAAGATTCGCTGTCGTAGCTTTAATTTGTTCCA
1 CTTCAATCTTTTAAATTGCAATGTGGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCA
*
14828269 CTACACCACCAAGGAAGTAAGATTCGCCGTTGCGGCTTTAATCTGCTCCACTGTAACACCAAAGA
66 CTACACCACCAAGGAAGTAAGATTCACCGTTGCGGCTTTAATCTGCTCCACTGTAACACCAAAGA
* * *
14828334 GATAGGATTCGCTGCCCACAGCTTTAATCCGCTCTACTTCAGCTAATCCAAGCCTTAACGCCAAG
131 GATAGGATTCACTACCCACAGCTTTAATCCGCTCCACTTCAGCTAATCCAAGCCTTAACGCC-AG
* * * *
14828399 G-AGATAAGATTCGCCGTTGTGGCTTCAATCTACTCTGCTACAATGCCAGGGAAATAATATTCGT
195 GTAGATAAGATTCGCCGTCGTGGCTTCAATCTACTCCGCTACAACGCCAGGGAAATAATATTCGC
14828463 CGTTGCGG
260 CGTTGCGG
* * *
14828471 CTTCAATCTTTTAAATTTCAATGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTGTTCCA
1 CTTCAATCTTTTAAATTGCAATGTGGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCA
* * **
14828536 CTACACCGCCAGGGAAGTAAGATTCACCGTTGCGGCTTTAATCTGCTCCACTGTAATGCCAAAGA
66 CTACACCACCAAGGAAGTAAGATTCACCGTTGCGGCTTTAATCTGCTCCACTGTAACACCAAAGA
14828601 GATAGGATTCACTACCCACAGCTTTAATCCGCTCCACTTCAGCTAATCCAAGCCTTAACGCCAGG
131 GATAGGATTCACTACCCACAGCTTTAATCCGCTCCACTTCAGCTAATCCAAGCCTTAACGCCAGG
* * *
14828666 TATATTAGATTCGCCGTCGTGGCTTCAATCTGCTCCGCTACAACGCCAGGGAAATAATATTCGCC
196 TAGATAAGATTCGCCGTCGTGGCTTCAATCTACTCCGCTACAACGCCAGGGAAATAATATTCGCC
*
14828731 GTTGTGG
261 GTTGCGG
14828738 CTTCAATCTTTT
1 CTTCAATCTTTT
14828750 TCTTTGCAAC
Statistics
Matches: 255, Mismatches: 23, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
266 3 0.01
267 252 0.99
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.29
Consensus pattern (267 bp):
CTTCAATCTTTTAAATTGCAATGTGGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCA
CTACACCACCAAGGAAGTAAGATTCACCGTTGCGGCTTTAATCTGCTCCACTGTAACACCAAAGA
GATAGGATTCACTACCCACAGCTTTAATCCGCTCCACTTCAGCTAATCCAAGCCTTAACGCCAGG
TAGATAAGATTCGCCGTCGTGGCTTCAATCTACTCCGCTACAACGCCAGGGAAATAATATTCGCC
GTTGCGG
Found at i:14828966 original size:44 final size:44
Alignment explanation
Indices: 14828916--14829081 Score: 244
Period size: 44 Copynumber: 3.8 Consensus size: 44
14828906 ATCTGCTATT
* *
14828916 TTCAACCTACTCTACTGCTG-CTCAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGAC-CAGGGAGATAGGATTCACAATC
** *
14828960 TTCAACCTATTCCACTGCTGACCAATGAGATACGATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
*
14829004 TTCAACCTATTCCATTGCTGACCAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
* *
14829048 TTCAATCTATTCCACTGTTGACCAGGGAGATAGG
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGG
14829082 GTTTTTTGAT
Statistics
Matches: 109, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
44 108 0.99
45 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (44 bp):
TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
Found at i:14829991 original size:25 final size:26
Alignment explanation
Indices: 14829952--14830000 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
14829942 AGTGTCTTGA
14829952 AAAGAAAAAAATA-TTCAAGAACAGC
1 AAAGAAAAAAATATTTCAAGAACAGC
* *
14829977 AAAGAATAAAGTATTTCAAGAACA
1 AAAGAAAAAAATATTTCAAGAACA
14830001 AACAAATTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.61, C:0.10, G:0.12, T:0.16
Consensus pattern (26 bp):
AAAGAAAAAAATATTTCAAGAACAGC
Found at i:14830304 original size:16 final size:17
Alignment explanation
Indices: 14830283--14830319 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
14830273 TCCATTTTAC
14830283 TTTTTC-CATTT-TTATT
1 TTTTTCACATTTGTT-TT
14830299 TTTTTCACATTTGTTTT
1 TTTTTCACATTTGTTTT
14830316 TTTT
1 TTTT
14830320 GTGAAACTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.32
17 11 0.58
18 2 0.11
ACGTcount: A:0.11, C:0.11, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTTTCACATTTGTTTT
Found at i:14835449 original size:29 final size:26
Alignment explanation
Indices: 14835388--14835450 Score: 72
Period size: 29 Copynumber: 2.3 Consensus size: 26
14835378 TATACATGTA
*
14835388 AAATATATTAAAAATAATTAAATAAT
1 AAATATATTAAAAATAATTAAAAAAT
**
14835414 ATCTATATTATCAAAATTAATTAAAAAAT
1 AAATATATTA--AAAA-TAATTAAAAAAT
14835443 AAATATAT
1 AAATATAT
14835451 GTATATATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 8 0.28
28 4 0.14
29 17 0.59
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (26 bp):
AAATATATTAAAAATAATTAAAAAAT
Found at i:14835523 original size:21 final size:22
Alignment explanation
Indices: 14835483--14835525 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
14835473 AACATTAGTT
14835483 GAAAAAAATAAATATGTACATAA
1 GAAAAAAATAAATA-GTACATAA
*
14835506 GAAAACAATAAATA-TACATA
1 GAAAAAAATAAATAGTACATA
14835526 TATATTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
23 13 0.68
ACGTcount: A:0.65, C:0.07, G:0.07, T:0.21
Consensus pattern (22 bp):
GAAAAAAATAAATAGTACATAA
Found at i:14837624 original size:151 final size:151
Alignment explanation
Indices: 14837347--14837649 Score: 516
Period size: 151 Copynumber: 2.0 Consensus size: 151
14837337 TGAATTGTGG
* *
14837347 AACACGTTGCCATGTCGCAACGTCGCATTCACCTCGTCGAGACACCATTCTTCACATCGTCGGGA
1 AACACGTTGCCATGTCGCAACGTCGCATGCACCTCGTCGAGACACCATTCTTCACATCGTCAGGA
* *
14837412 CGTGGCCAATCTTCTCATTAAGACGTCGTAGTCGGTTCGTCACAATGTCGGCTCTTCCTCATCGA
66 CATGGCCAATCTTCTCATCAAGACGTCGTAGTCGGTTCGTCACAATGTCGGCTCTTCCTCATCGA
14837477 AATGTCAGCTCATAAATACAA
131 AATGTCAGCTCATAAATACAA
*
14837498 AACACGTTGCCATGTCGCAACGTCGCATGCACCTCGTCGAGACGCCATTCTTCACATCGTCAGGA
1 AACACGTTGCCATGTCGCAACGTCGCATGCACCTCGTCGAGACACCATTCTTCACATCGTCAGGA
** * * *
14837563 CATGGCCAATCTTCTTGTCAAGACGTTGTAGTCGTTTCGTCACAATGTCGGCTCTTTCTCATCGA
66 CATGGCCAATCTTCTCATCAAGACGTCGTAGTCGGTTCGTCACAATGTCGGCTCTTCCTCATCGA
14837628 AATGTCAGCTCATAAATACAA
131 AATGTCAGCTCATAAATACAA
14837649 A
1 A
14837650 GCACACTCCC
Statistics
Matches: 142, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
151 142 1.00
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (151 bp):
AACACGTTGCCATGTCGCAACGTCGCATGCACCTCGTCGAGACACCATTCTTCACATCGTCAGGA
CATGGCCAATCTTCTCATCAAGACGTCGTAGTCGGTTCGTCACAATGTCGGCTCTTCCTCATCGA
AATGTCAGCTCATAAATACAA
Found at i:14841105 original size:20 final size:20
Alignment explanation
Indices: 14841080--14841118 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
14841070 GAAACTATAA
*
14841080 AAATTTGAATATAATATAGC
1 AAATTTGAATATAACATAGC
14841100 AAATTTGAATATAACATAG
1 AAATTTGAATATAACATAG
14841119 GGACCAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.05, G:0.10, T:0.33
Consensus pattern (20 bp):
AAATTTGAATATAACATAGC
Found at i:14847964 original size:28 final size:31
Alignment explanation
Indices: 14847906--14847964 Score: 79
Period size: 28 Copynumber: 2.0 Consensus size: 31
14847896 ATATATAGTT
14847906 TTTATATTATTTATAAAGGTTATAATAATAA
1 TTTATATTATTTATAAAGGTTATAATAATAA
* *
14847937 TTTATA-TA-TTAT-AATGTTATTATAATAA
1 TTTATATTATTTATAAAGGTTATAATAATAA
14847965 AAACAAAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 14 0.54
29 4 0.15
30 2 0.08
31 6 0.23
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (31 bp):
TTTATATTATTTATAAAGGTTATAATAATAA
Found at i:14849713 original size:41 final size:41
Alignment explanation
Indices: 14849668--14849766 Score: 155
Period size: 41 Copynumber: 2.4 Consensus size: 41
14849658 GACTTTACGT
14849668 CTAGCAGGCTAAGTGCCGATGAACTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGATGAACTGAATCAGGCTATAAGC
* * *
14849709 CTAGCGGGCTAAGTACCGGTGAACTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGATGAACTGAATCAGGCTATAAGC
14849750 CTAGCAGG-TGAAGTGCC
1 CTAGCAGGCT-AAGTGCC
14849767 AGTGAATCTG
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
40 1 0.02
41 51 0.98
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.19
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGATGAACTGAATCAGGCTATAAGC
Found at i:14851840 original size:25 final size:25
Alignment explanation
Indices: 14851809--14851865 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
14851799 GCTTCCTGAT
** *
14851809 ATGGCTCTTATAAGCTTCCCTTTAC
1 ATGGCTCACATAAGCTTCCCGTTAC
* *
14851834 ATGGCTCACATGAGCTTCCCGTTAT
1 ATGGCTCACATAAGCTTCCCGTTAC
14851859 ATGGCTC
1 ATGGCTC
14851866 GAGAGAGTGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (25 bp):
ATGGCTCACATAAGCTTCCCGTTAC
Found at i:14853372 original size:14 final size:15
Alignment explanation
Indices: 14853353--14853382 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
14853343 GGGTGTTATA
14853353 TTTCCTTC-TTTAAT
1 TTTCCTTCTTTTAAT
14853367 TTTCCTTCTTTTAAT
1 TTTCCTTCTTTTAAT
14853382 T
1 T
14853383 CCTTATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.13, C:0.20, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTCCTTCTTTTAAT
Found at i:14856036 original size:15 final size:17
Alignment explanation
Indices: 14856003--14856036 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
14855993 TTAATAATTT
14856003 TTTATAATTTATATATA
1 TTTATAATTTATATATA
14856020 TTTA-AATTTAT-TATA
1 TTTATAATTTATATATA
14856035 TT
1 TT
14856037 ATTATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 7 0.41
17 4 0.24
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTATAATTTATATATA
Found at i:14856042 original size:23 final size:22
Alignment explanation
Indices: 14856003--14856050 Score: 53
Period size: 23 Copynumber: 2.1 Consensus size: 22
14855993 TTAATAATTT
*
14856003 TTTATAATTTATATATATTTAAA
1 TTTATAATTTATATATA-ATAAA
*
14856026 TTTATTATATTAT-TATAATAAA
1 TTTATAAT-TTATATATAATAAA
14856048 TTT
1 TTT
14856051 TATTTTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 7 0.32
23 11 0.50
24 4 0.18
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
TTTATAATTTATATATAATAAA
Found at i:14856791 original size:8 final size:7
Alignment explanation
Indices: 14856760--14856793 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
14856750 GATAATCTGA
*
14856760 TTAAATA
1 TTAAATT
14856767 TTAAATT
1 TTAAATT
14856774 TTAAATT
1 TTAAATT
14856781 TTAACATT
1 TTAA-ATT
14856789 TTAAA
1 TTAAA
14856794 AAAGTTCATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
7 18 0.72
8 7 0.28
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (7 bp):
TTAAATT
Found at i:14856818 original size:6 final size:6
Alignment explanation
Indices: 14856800--14856836 Score: 65
Period size: 6 Copynumber: 6.0 Consensus size: 6
14856790 TAAAAAAGTT
14856800 CATTTG CCATTTG CATTTG CATTTG CATTTG CATTTG
1 CATTTG -CATTTG CATTTG CATTTG CATTTG CATTTG
14856837 GGGATTTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 24 0.80
7 6 0.20
ACGTcount: A:0.16, C:0.19, G:0.16, T:0.49
Consensus pattern (6 bp):
CATTTG
Found at i:14868413 original size:28 final size:28
Alignment explanation
Indices: 14868374--14868437 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
14868364 CTATTCAGTA
**
14868374 ACAGT-ACAGTGT-GGACCTTAGCCTGAT
1 ACAGTAACAGTGTAGG-CCTTAGCCCAAT
*
14868401 ACAGTAACAGTGTAGGTCTTAGCCCAAT
1 ACAGTAACAGTGTAGGCCTTAGCCCAAT
14868429 ACAGTAACA
1 ACAGTAACA
14868438 TTGCAATAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 5 0.16
28 25 0.78
29 2 0.06
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (28 bp):
ACAGTAACAGTGTAGGCCTTAGCCCAAT
Found at i:14868568 original size:26 final size:26
Alignment explanation
Indices: 14868538--14868591 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
14868528 ACACACCAAA
*
14868538 ATCGCAGCAAAGCTGCCAATAATAGT
1 ATCGCAGCAAAGCTGCCAATAACAGT
*
14868564 ATCGCAGCGAAGCTGCCAATAACAGT
1 ATCGCAGCAAAGCTGCCAATAACAGT
14868590 AT
1 AT
14868592 ATGTGGCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.19
Consensus pattern (26 bp):
ATCGCAGCAAAGCTGCCAATAACAGT
Found at i:14868847 original size:27 final size:27
Alignment explanation
Indices: 14868785--14868958 Score: 169
Period size: 27 Copynumber: 6.5 Consensus size: 27
14868775 ATAACAGTCA
*
14868785 ATTTCGGTCATTTTACCCTATG-GGGT
1 ATTTCAGTCATTTTACCCTATGAGGGT
* ***
14868811 ATTTCGGTCATTTTATATTATGAGGGT
1 ATTTCAGTCATTTTACCCTATGAGGGT
* *
14868838 ATTTCAGTCATTTTACCTTA-CAGGGGT
1 ATTTCAGTCATTTTACCCTATGA-GGGT
*
14868865 GTTTC-GATCATTTTACCCTATGAGGGT
1 ATTTCAG-TCATTTTACCCTATGAGGGT
* *
14868892 ATTTCAGTCATTTTACCTTA-CAGGGGT
1 ATTTCAGTCATTTTACCCTATGA-GGGT
*
14868919 GTTTC-GATCATTTTACCCTATGAGGGT
1 ATTTCAG-TCATTTTACCCTATGAGGGT
*
14868946 ATTTCAATCATTT
1 ATTTCAGTCATTT
14868959 ATTGACCTCT
Statistics
Matches: 121, Mismatches: 18, Indels: 17
0.78 0.12 0.11
Matches are distributed among these distances:
26 23 0.19
27 95 0.79
28 3 0.02
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.43
Consensus pattern (27 bp):
ATTTCAGTCATTTTACCCTATGAGGGT
Found at i:14868877 original size:54 final size:54
Alignment explanation
Indices: 14868785--14868958 Score: 260
Period size: 54 Copynumber: 3.2 Consensus size: 54
14868775 ATAACAGTCA
* * * * * ***
14868785 ATTTCGGTCATTTTACCCTA-TGGGGTATTTCGGTCATTTTATATTATGAGGGT
1 ATTTCAGTCATTTTACCTTACAGGGGTGTTTCGATCATTTTACCCTATGAGGGT
14868838 ATTTCAGTCATTTTACCTTACAGGGGTGTTTCGATCATTTTACCCTATGAGGGT
1 ATTTCAGTCATTTTACCTTACAGGGGTGTTTCGATCATTTTACCCTATGAGGGT
14868892 ATTTCAGTCATTTTACCTTACAGGGGTGTTTCGATCATTTTACCCTATGAGGGT
1 ATTTCAGTCATTTTACCTTACAGGGGTGTTTCGATCATTTTACCCTATGAGGGT
*
14868946 ATTTCAATCATTT
1 ATTTCAGTCATTT
14868959 ATTGACCTCT
Statistics
Matches: 111, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
53 18 0.16
54 93 0.84
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.43
Consensus pattern (54 bp):
ATTTCAGTCATTTTACCTTACAGGGGTGTTTCGATCATTTTACCCTATGAGGGT
Found at i:14868930 original size:81 final size:80
Alignment explanation
Indices: 14868786--14868935 Score: 205
Period size: 81 Copynumber: 1.9 Consensus size: 80
14868776 TAACAGTCAA
* * * *
14868786 TTTCGGTCATTTTACCCTATGGGGTATTTCGGTCATTTTATATTATGAGGGTATTTCAGTCATTT
1 TTTCGATCATTTTACCCTATGGGGTATTTCAGTCATTTTACATTAAGAGGGTATTTCAGTCATTT
14868851 TACCTTACAGGGGTG
66 TACCTTACAGGGGTG
* *
14868866 TTTCGATCATTTTACCCTATGAGGGTATTTCAGTCATTTTACCTTACAG-GGGTGTTTC-GATCA
1 TTTCGATCATTTTACCCTATG-GGGTATTTCAGTCATTTTACATTA-AGAGGGTATTTCAG-TCA
14868929 TTTTACC
63 TTTTACC
14868936 CTATGAGGGT
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
80 21 0.34
81 39 0.64
82 1 0.02
ACGTcount: A:0.19, C:0.17, G:0.20, T:0.43
Consensus pattern (80 bp):
TTTCGATCATTTTACCCTATGGGGTATTTCAGTCATTTTACATTAAGAGGGTATTTCAGTCATTT
TACCTTACAGGGGTG
Found at i:14868956 original size:81 final size:80
Alignment explanation
Indices: 14868792--14868958 Score: 196
Period size: 81 Copynumber: 2.1 Consensus size: 80
14868782 TCAATTTCGG
* * * *
14868792 TCATTTTACCCTATGGGGTATTTCGGTCATTTTATATTATGAGGGTATTTCAGTCATTTTACCTT
1 TCATTTTACCCTATGGGGTATTTCAGTCATTTTACATTAAGAGGGTATTTCAGTCATTTTACCCT
* *
14868857 ACAGGGGTGTTTCGA
66 ACAGGGGTATTTCAA
* *
14868872 TCATTTTACCCTATGAGGGTATTTCAGTCATTTTACCTTACAG-GGGTGTTTC-GATCATTTTAC
1 TCATTTTACCCTATG-GGGTATTTCAGTCATTTTACATTA-AGAGGGTATTTCAG-TCATTTTAC
*
14868935 CCTA-TGAGGGTATTTCAA
63 CCTACAG-GGGTATTTCAA
14868953 TCATTT
1 TCATTT
14868959 ATTGACCTCT
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
80 17 0.23
81 56 0.76
82 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.43
Consensus pattern (80 bp):
TCATTTTACCCTATGGGGTATTTCAGTCATTTTACATTAAGAGGGTATTTCAGTCATTTTACCCT
ACAGGGGTATTTCAA
Found at i:14881569 original size:16 final size:16
Alignment explanation
Indices: 14881548--14881582 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
14881538 AACTCAGGAA
14881548 CTGCAGGAGTACATGG
1 CTGCAGGAGTACATGG
14881564 CTGCAGGAGTACATGG
1 CTGCAGGAGTACATGG
14881580 CTG
1 CTG
14881583 TGATTTCTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.23, C:0.20, G:0.37, T:0.20
Consensus pattern (16 bp):
CTGCAGGAGTACATGG
Found at i:14882426 original size:120 final size:120
Alignment explanation
Indices: 14882299--14882588 Score: 501
Period size: 120 Copynumber: 2.4 Consensus size: 120
14882289 AATTATTTTA
** * * *
14882299 AATTTTATTAAATCGTATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTT-TCTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATTT-AAATTTATATTT
*
14882363 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
14882419 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATTTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATTTAAATTTATATTTT
14882484 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
14882539 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTAT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTAT
14882589 GTTTAAATAT
Statistics
Matches: 162, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
119 5 0.03
120 157 0.97
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATTTAAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:14882459 original size:15 final size:15
Alignment explanation
Indices: 14882424--14882475 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
14882414 TTAAGAATTT
*
14882424 TATTAAATTAT-ATA
1 TATTTAATTATAATA
14882438 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
14882452 TATTTAATAATAAT-
1 TATTTAATTATAATA
14882466 TATTTTAATT
1 TA-TTTAATT
14882476 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 7 0.22
15 17 0.53
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:14882574 original size:16 final size:16
Alignment explanation
Indices: 14882553--14882594 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
14882543 TTATTAAATT
*
14882553 ATATATTTTAATTATA
1 ATATATTTTAATAATA
14882569 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
14882584 AT-TATGTTTAA
1 ATATAT-TTTAA
14882595 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:14882579 original size:15 final size:15
Alignment explanation
Indices: 14882544--14882585 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
14882534 TTAAGAATTT
*
14882544 TATTAAATTAT-ATA
1 TATTTAATTATAATA
14882558 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
14882572 TATTTAATAATAAT
1 TATTTAATTATAAT
14882586 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:14882706 original size:157 final size:157
Alignment explanation
Indices: 14882528--14882844 Score: 589
Period size: 157 Copynumber: 2.0 Consensus size: 157
14882518 ATAAGAATAT
*
14882528 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
*
14882593 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
14882658 TAATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTATGC
14882685 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
*
14882750 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAATTTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
14882815 TAATCATTTACCAAAACAAATTTATGC
131 TAATAATTTACCAAAACAAATTTATGC
14882842 TAA
1 TAA
14882845 GGCTATTCTA
Statistics
Matches: 155, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
157 155 1.00
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:14882725 original size:18 final size:17
Alignment explanation
Indices: 14882697--14882731 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
14882687 ATTATTAAGA
*
14882697 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
14882714 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
14882732 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:14882765 original size:75 final size:75
Alignment explanation
Indices: 14882529--14882767 Score: 191
Period size: 75 Copynumber: 3.1 Consensus size: 75
14882519 TAAGAATATT
*
14882529 AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
14882594 AATATGATTA
66 AATATGATTA
* ** * * * * *
14882604 AATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATA-A--CAATAATAATT
1 AATTATTAAGAATT-TTATT-A-AA--TTA-TATATTTTAATTAA-AATATATTTAATAATAATT
**** * * *
14882666 -TACCAAAACAAAT-TTCTGCT
59 AT-GTTTAA-ATATGAT-T--A
14882686 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
14882751 AATATGATTA
66 AATATGATTA
14882761 AATTATT
1 AATTATT
14882768 TATTATTGAT
Statistics
Matches: 116, Mismatches: 31, Indels: 34
0.64 0.17 0.19
Matches are distributed among these distances:
75 22 0.19
76 16 0.14
77 8 0.07
78 16 0.14
79 16 0.14
80 8 0.07
81 15 0.13
82 15 0.13
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (75 bp):
AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
AATATGATTA
Found at i:14882988 original size:16 final size:16
Alignment explanation
Indices: 14882967--14883018 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
14882957 GATTTGCTAT
14882967 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
14882983 TACACCTCTAATCCAT
1 TACACCTCTAATCCAA
*
14882999 TACACCTCTGATCCAA
1 TACACCTCTAATCCAA
14883015 TACA
1 TACA
14883019 GCGAACCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.35, C:0.37, G:0.02, T:0.27
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:14887487 original size:12 final size:12
Alignment explanation
Indices: 14887470--14887497 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
14887460 AGGCATAAAA
14887470 TTTTTTAATTAT
1 TTTTTTAATTAT
14887482 TTTTTTAATTAT
1 TTTTTTAATTAT
14887494 TTTT
1 TTTT
14887498 GGTGTCTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTTAATTAT
Found at i:14888043 original size:16 final size:16
Alignment explanation
Indices: 14888015--14888069 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 16
14888005 TCGAGTTTGG
*
14888015 ATTTTTTCAGATTTAAA
1 ATTTTTTCGGATTT-AA
*
14888032 ATTTTTT-GGATTCAA
1 ATTTTTTCGGATTTAA
*
14888047 ATTTTTTCGGGTTTAA
1 ATTTTTTCGGATTTAA
14888063 ATTTTTT
1 ATTTTTT
14888070 AGAATTGTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
15 9 0.27
16 17 0.52
17 7 0.21
ACGTcount: A:0.25, C:0.05, G:0.11, T:0.58
Consensus pattern (16 bp):
ATTTTTTCGGATTTAA
Found at i:14888963 original size:15 final size:16
Alignment explanation
Indices: 14888943--14888975 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
14888933 AGGAAGTTGT
*
14888943 ATAAAATTTTAA-AAA
1 ATAAAATTATAATAAA
14888958 ATAAAATTATAATAAA
1 ATAAAATTATAATAAA
14888974 AT
1 AT
14888976 CTAATTGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
ATAAAATTATAATAAA
Done.