Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 36 of 175
Found at i:9738584 original size:20 final size:20
Alignment explanation
Indices: 9738559--9738596 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
9738549 GATACCCAAT
9738559 TATTTCATGGCTACGGTACG
1 TATTTCATGGCTACGGTACG
*
9738579 TATTTCATGGTTACGGTA
1 TATTTCATGGCTACGGTA
9738597 TGTGAAGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.16, G:0.24, T:0.39
Consensus pattern (20 bp):
TATTTCATGGCTACGGTACG
Found at i:9740779 original size:14 final size:14
Alignment explanation
Indices: 9740760--9740793 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
9740750 TATAGTTTAG
*
9740760 GGTTTAATATATAT
1 GGTTTAAGATATAT
*
9740774 GGTTTAGGATATAT
1 GGTTTAAGATATAT
9740788 GGTTTA
1 GGTTTA
9740794 GTGTATATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (14 bp):
GGTTTAAGATATAT
Found at i:9740801 original size:14 final size:14
Alignment explanation
Indices: 9740768--9740794 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9740758 AGGGTTTAAT
9740768 ATATATGGTTTAGG
1 ATATATGGTTTAGG
9740782 ATATATGGTTTAG
1 ATATATGGTTTAG
9740795 TGTATATATA
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:0.30, C:0.00, G:0.26, T:0.44
Consensus pattern (14 bp):
ATATATGGTTTAGG
Found at i:9740890 original size:14 final size:15
Alignment explanation
Indices: 9740857--9740890 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
9740847 TAAGGTTTAT
9740857 AGATTATGGAATTAG
1 AGATTATGGAATTAG
9740872 AGATTATGG-ATTAG
1 AGATTATGGAATTAG
*
9740886 GGATT
1 AGATT
9740891 TTGATTTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.35, C:0.00, G:0.29, T:0.35
Consensus pattern (15 bp):
AGATTATGGAATTAG
Found at i:9741102 original size:130 final size:133
Alignment explanation
Indices: 9740910--9741156 Score: 297
Period size: 130 Copynumber: 1.9 Consensus size: 133
9740900 GGGTTGTGAT
* *
9740910 TTAGGGGTAGGGGTTAGGGGTTAGAGATTAAGAGTTAAGGATTAATTTAGGGTTTATGGATTCGA
1 TTAGGGGTAAGGGTTAGGGGTTAGAGATTAAAAGTTAAGGA-TAATTTAGGGTTTATGGATTCGA
* * * *
9740975 TATCAGGTTAGGGTTTAGGGTTTAGATGAATTAGT-GTGTTTTAATTTATATTAAATAATGTTTA
65 GATCAGGATAAGGTTTAAGGTTTAGATGAATTAGTAGTGTTTTAATTTATATTAAATAATGTTTA
9741039 TGGG
130 TGGG
* * *
9741043 TTAGGGGTTAAGGGTTGGGGGTTAGAGGTTAAAAGTT-A-G-TGATTTAGGGTTTA-GAGATTCG
1 TTAGGGG-TAAGGGTTAGGGGTTAGAGATTAAAAGTTAAGGATAATTTAGGGTTTATG-GATTCG
* * * * * *
9741104 GGGTCGGGATAAGGTTTAAGGTTTAGATTAATTAGTATTTTTTTAATTTATAT
64 AGATCAGGATAAGGTTTAAGGTTTAGATGAATTAGTAGTGTTTTAATTTATAT
9741157 ATCAATTAAG
Statistics
Matches: 96, Mismatches: 15, Indels: 8
0.81 0.13 0.07
Matches are distributed among these distances:
129 1 0.01
130 47 0.49
131 14 0.15
132 1 0.01
133 8 0.08
134 25 0.26
ACGTcount: A:0.27, C:0.02, G:0.31, T:0.40
Consensus pattern (133 bp):
TTAGGGGTAAGGGTTAGGGGTTAGAGATTAAAAGTTAAGGATAATTTAGGGTTTATGGATTCGAG
ATCAGGATAAGGTTTAAGGTTTAGATGAATTAGTAGTGTTTTAATTTATATTAAATAATGTTTAT
GGG
Found at i:9746029 original size:43 final size:43
Alignment explanation
Indices: 9745968--9746220 Score: 260
Period size: 43 Copynumber: 5.9 Consensus size: 43
9745958 TTTTTGGCAG
* * *
9745968 AAGCGCCGC-AAAAGGTCATGATCTTTAGCGGTGTTTATAGGAA
1 AAGCGCCGCTAAAA-GTCATGATCTTTAGCGGCGTTTGTAAGAA
*
9746011 AAGCGCCGCTAAAAGTCATGATCTTTTAGCGGCGTTTGTAATAA
1 AAGCGCCGCTAAAAGTCATGATC-TTTAGCGGCGTTTGTAAGAA
* * * *
9746055 AAGCGTCGCTAAAGGTCTTGACCTTTAGCGGCGTTTGTAAGAA
1 AAGCGCCGCTAAAAGTCATGATCTTTAGCGGCGTTTGTAAGAA
* * * * **
9746098 AAGCGTCGCTAAAGGTCCTG-GCTTTTAGCGGCGTTTGTGGGAA
1 AAGCGCCGCTAAAAGTCATGATC-TTTAGCGGCGTTTGTAAGAA
* * * ***
9746141 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGACGTTT-TTTTAA
1 AAGCGCCGCTAAAAGTCATGATCTTTAGCGGCGTTTGTAAGAA
* *
9746183 AAGCGCCGCTAAAAGTCATGACCTTTAGCGGTGTTTGT
1 AAGCGCCGCTAAAAGTCATGATCTTTAGCGGCGTTTGT
9746221 TTCTAAAAAC
Statistics
Matches: 180, Mismatches: 25, Indels: 10
0.84 0.12 0.05
Matches are distributed among these distances:
42 35 0.19
43 105 0.58
44 40 0.22
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (43 bp):
AAGCGCCGCTAAAAGTCATGATCTTTAGCGGCGTTTGTAAGAA
Found at i:9746153 original size:86 final size:85
Alignment explanation
Indices: 9745949--9746220 Score: 301
Period size: 87 Copynumber: 3.2 Consensus size: 85
9745939 CCAAAGGTCA
* * * * * *
9745949 TTAGTGGCGTTTTTGGCAGAAGCGCCGCAAAAGGTCATGATCTTTAGCGGTGTTTATAGGAAAAG
1 TTAGCGGCGTTTGTGGCAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCGTTT-TAAGAAAAG
9746014 CGCCGCTAAAAGTCATGATCTT
65 CGCCGCTAAAAGTCATGA-CTT
*** * * *
9746036 TTAGCGGCGTTTGTAATAAAAGCGTCGCTAAAGGTCTTGACCTTTAGCGGCGTTTGTAAGAAAAG
1 TTAGCGGCGTTTGTGGCAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCGTTT-TAAGAAAAG
* * * *
9746101 CGTCGCTAAAGGTCCTGGCTT
65 CGCCGCTAAAAGTCATGACTT
* * * ***
9746122 TTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGACGTTTTTTTAAAAGC
1 TTAGCGGCGTTTGTGGCAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCGTTTTAAGAAAAGC
*
9746187 GCCGCTAAAAGTCATGACCT
66 GCCGCTAAAAGTCATGACTT
*
9746207 TTAGCGGTGTTTGT
1 TTAGCGGCGTTTGT
9746221 TTCTAAAAAC
Statistics
Matches: 151, Mismatches: 34, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
85 35 0.23
86 50 0.33
87 66 0.44
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (85 bp):
TTAGCGGCGTTTGTGGCAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCGTTTTAAGAAAAGC
GCCGCTAAAAGTCATGACTT
Found at i:9746234 original size:86 final size:86
Alignment explanation
Indices: 9745968--9746240 Score: 296
Period size: 86 Copynumber: 3.2 Consensus size: 86
9745958 TTTTTGGCAG
* *
9745968 AAGCGCCGCAAAAGGTCATGATCTTTAGCGGTGTTTATAGGAAAAGCGCCGCTAAAAGTCATGAT
1 AAGCGCCGCAAAAGGTCATGATCTTTAGCGGCGTTTATAAGAAAAGCGCCGCTAAAAGTCATGA-
9746033 CTTTTAGCGGCGTTTGTAATAA
65 CTTTTAGCGGCGTTTGTAATAA
* * * * * * * * *
9746055 AAGCGTCGCTAAAGGTCTTGACCTTTAGCGGCGTTTGTAAGAAAAGCGTCGCTAAAGGTCCTGGC
1 AAGCGCCGCAAAAGGTCATGATCTTTAGCGGCGTTTATAAGAAAAGCGCCGCTAAAAGTCATGAC
***
9746120 TTTTAGCGGCGTTTGTGGGAA
66 TTTTAGCGGCGTTTGTAATAA
* * * ***
9746141 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGACGTTT-TTTTAAAAGCGCCGCTAAAAGTCATGAC
1 AAGCGCCGCAAAAGGTCATGATCTTTAGCGGCGTTTATAAGAAAAGCGCCGCTAAAAGTCATGAC
* * **
9746205 CTTTAGCGGTGTTTGTTTCTAA
66 TTTTAGCGGCGTTTG-TAATAA
*
9746227 AAACGCCGCAAAAG
1 AAGCGCCGCAAAAG
9746241 TTAGCGACGT
Statistics
Matches: 152, Mismatches: 33, Indels: 3
0.81 0.18 0.02
Matches are distributed among these distances:
85 34 0.22
86 65 0.43
87 53 0.35
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (86 bp):
AAGCGCCGCAAAAGGTCATGATCTTTAGCGGCGTTTATAAGAAAAGCGCCGCTAAAAGTCATGAC
TTTTAGCGGCGTTTGTAATAA
Found at i:9751720 original size:190 final size:190
Alignment explanation
Indices: 9751394--9751779 Score: 763
Period size: 190 Copynumber: 2.0 Consensus size: 190
9751384 TAAAAGAGAT
9751394 TCAACAAATGATAGCATAGTAAAAGATTCAAAAGTCTAAGACGATAAATGAGAATTAGTGGTAAA
1 TCAACAAATGATAGCATAGTAAAAGATTCAAAAGTCTAAGACGATAAATGAGAATTAGTGGTAAA
*
9751459 AATTGGAAACACATGTTTTAATGCTTACTAAATGTATTAAATTGAGGTCTATGACTAATGCTTAT
66 AATTGGAAACACATGTTTTAATGCTTACTAAATGTATTAAATTGAGGTCTATGACTAATGCTTAC
9751524 AATGGTTAGTATATGGTTTATTTAGAGTTTGTATGAGCACCATTGAGCTTCAAAGAATGC
131 AATGGTTAGTATATGGTTTATTTAGAGTTTGTATGAGCACCATTGAGCTTCAAAGAATGC
9751584 TCAACAAATGATAGCATAGTAAAAGATTCAAAAGTCTAAGACGATAAATGAGAATTAGTGGTAAA
1 TCAACAAATGATAGCATAGTAAAAGATTCAAAAGTCTAAGACGATAAATGAGAATTAGTGGTAAA
9751649 AATTGGAAACACATGTTTTAATGCTTACTAAATGTATTAAATTGAGGTCTATGACTAATGCTTAC
66 AATTGGAAACACATGTTTTAATGCTTACTAAATGTATTAAATTGAGGTCTATGACTAATGCTTAC
9751714 AATGGTTAGTATATGGTTTATTTAGAGTTTGTATGAGCACCATTGAGCTTCAAAGAATGC
131 AATGGTTAGTATATGGTTTATTTAGAGTTTGTATGAGCACCATTGAGCTTCAAAGAATGC
9751774 TCAACA
1 TCAACA
9751780 TGTGCAATTG
Statistics
Matches: 195, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
190 195 1.00
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.32
Consensus pattern (190 bp):
TCAACAAATGATAGCATAGTAAAAGATTCAAAAGTCTAAGACGATAAATGAGAATTAGTGGTAAA
AATTGGAAACACATGTTTTAATGCTTACTAAATGTATTAAATTGAGGTCTATGACTAATGCTTAC
AATGGTTAGTATATGGTTTATTTAGAGTTTGTATGAGCACCATTGAGCTTCAAAGAATGC
Found at i:9757855 original size:27 final size:26
Alignment explanation
Indices: 9757803--9757858 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
9757793 AATAATAATT
9757803 TATATAATTTTTTAAAACTAATAAAA
1 TATATAATTTTTTAAAACTAATAAAA
* * * *
9757829 TATATTATTTTTTTAAAGTTATAAAA
1 TATATAATTTTTTAAAACTAATAAAA
9757855 -ATAT
1 TATAT
9757859 TTTTACAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 4 0.15
26 22 0.85
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (26 bp):
TATATAATTTTTTAAAACTAATAAAA
Found at i:9763996 original size:21 final size:20
Alignment explanation
Indices: 9763970--9764014 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
9763960 TAAGGAGATA
9763970 TTTAAAAATATTAATTTATTT
1 TTTAAAAATA-TAATTTATTT
* * *
9763991 TTTAAAATTATATTTTGTTT
1 TTTAAAAATATAATTTATTT
9764011 TTTA
1 TTTA
9764015 TTAAAAGGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTAAAAATATAATTTATTT
Found at i:9765419 original size:36 final size:36
Alignment explanation
Indices: 9765372--9765445 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
9765362 TTTCGTTAAC
9765372 TAAGCTATTTTCTGTGAAATAAACATATAAAACACA
1 TAAGCTATTTTCTGTGAAATAAACATATAAAACACA
9765408 TAAGCTATTTTCTGTGAAATAAACATATAAAACACA
1 TAAGCTATTTTCTGTGAAATAAACATATAAAACACA
9765444 TA
1 TA
9765446 TTTTCTATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.47, C:0.14, G:0.08, T:0.31
Consensus pattern (36 bp):
TAAGCTATTTTCTGTGAAATAAACATATAAAACACA
Found at i:9768443 original size:27 final size:27
Alignment explanation
Indices: 9768388--9768445 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
9768378 CCACACGACT
* * ** *
9768388 TGGCACACGGCCTACCATACGGTCGTG
1 TGGCACACGACCTACCACACGACCCTG
9768415 TGGCACACGACCTACCACACGACCCTG
1 TGGCACACGACCTACCACACGACCCTG
9768442 TGGC
1 TGGC
9768446 GCTTAAGGTC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.21, C:0.38, G:0.26, T:0.16
Consensus pattern (27 bp):
TGGCACACGACCTACCACACGACCCTG
Found at i:9769764 original size:17 final size:17
Alignment explanation
Indices: 9769742--9769784 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
9769732 GTTTCGCTTG
9769742 AATTAAATTAATTCT-AT
1 AATTAAATTAATT-TGAT
* *
9769759 AATTAATTTAATTTGGT
1 AATTAAATTAATTTGAT
9769776 AATTAAATT
1 AATTAAATT
9769785 TCCAACACAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 1 0.05
17 21 0.95
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (17 bp):
AATTAAATTAATTTGAT
Found at i:9770909 original size:21 final size:20
Alignment explanation
Indices: 9770878--9770933 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 20
9770868 TTCTTAATCC
9770878 AATATACATTTCAATACCACAAT
1 AATAT-CATTTCAAT-CCA-AAT
*
9770901 AAT-TCATTT-AATTCAAAT
1 AATATCATTTCAATCCAAAT
9770919 AATATCATTTGCAAT
1 AATATCATTT-CAAT
9770934 TTCCATTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
18 6 0.21
19 8 0.28
20 3 0.10
21 8 0.28
22 1 0.03
23 3 0.10
ACGTcount: A:0.45, C:0.16, G:0.02, T:0.38
Consensus pattern (20 bp):
AATATCATTTCAATCCAAAT
Found at i:9781941 original size:20 final size:20
Alignment explanation
Indices: 9781916--9781969 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
9781906 CGATACCAAT
**
9781916 TAAAAATATCGATAATTTTG
1 TAAAAATATCGATAATCGTG
* *
9781936 TAAAAATATTGATACTCGTG
1 TAAAAATATCGATAATCGTG
*
9781956 TAAATATATCGATA
1 TAAAAATATCGATA
9781970 CCATTGGGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.37
Consensus pattern (20 bp):
TAAAAATATCGATAATCGTG
Found at i:9787650 original size:15 final size:16
Alignment explanation
Indices: 9787621--9787650 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9787611 CAAACATGCT
9787621 TTAACACATTATCAAA
1 TTAACACATTATCAAA
9787637 TTAACACA-TATCAA
1 TTAACACATTATCAA
9787651 CAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:9791812 original size:21 final size:24
Alignment explanation
Indices: 9791788--9791834 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
9791778 GATTAGGAGT
9791788 GTTAC-ATTTA-CTGG-TATCAGA
1 GTTACAATTTAGCTGGTTATCAGA
*
9791809 GTTACAATTTAGCTGGTTATTAGA
1 GTTACAATTTAGCTGGTTATCAGA
9791833 GT
1 GT
9791835 AAACGTAGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 5 0.23
22 5 0.23
23 4 0.18
24 8 0.36
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (24 bp):
GTTACAATTTAGCTGGTTATCAGA
Found at i:9798773 original size:43 final size:43
Alignment explanation
Indices: 9798644--9798778 Score: 148
Period size: 43 Copynumber: 3.2 Consensus size: 43
9798634 TAATGCCATA
* * * * * *
9798644 TCCCAGATATGGTCTTACATGTTATCACATATTGATGCCATTG
1 TCCCAGACATGGTCTTACATGTAATCTCATATCGATGCTAATG
* * *
9798687 TCCCAGACAGGGTCTTATATG-AA-ATCATATACGATGCTAATG
1 TCCCAGACATGGTCTTACATGTAATCTCATAT-CGATGCTAATG
* *
9798729 TCGCAGACATGGTCTTACACGTAATCTCATATCGATGCTAATG
1 TCCCAGACATGGTCTTACATGTAATCTCATATCGATGCTAATG
9798772 TCCCAGA
1 TCCCAGA
9798779 TGTAACACCC
Statistics
Matches: 74, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
41 5 0.07
42 26 0.35
43 37 0.50
44 6 0.08
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACATGTAATCTCATATCGATGCTAATG
Found at i:9800384 original size:28 final size:28
Alignment explanation
Indices: 9800321--9800418 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
9800311 ATATTAAGTC
*
9800321 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
9800348 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * *
9800376 CGCACACTTAGTGCTGA-ACAATTTAAACC
1 CGCACACTTAGTGCT-ATATAA-TCAAACT
9800405 CGCACACTTAGTGC
1 CGCACACTTAGTGC
9800419 CAATCTCATG
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 22 0.34
28 22 0.34
29 20 0.31
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:9820422 original size:25 final size:25
Alignment explanation
Indices: 9820385--9820437 Score: 81
Period size: 25 Copynumber: 2.1 Consensus size: 25
9820375 CTCAGGGTAC
9820385 TACTAACAAGTTTAAATTTG-AGAAG
1 TACTAACAAGTTTAAATTTGTA-AAG
*
9820410 TACTAACATGTTTAAATTTGTAAAG
1 TACTAACAAGTTTAAATTTGTAAAG
9820435 TAC
1 TAC
9820438 ACCTCCACCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 25 0.96
26 1 0.04
ACGTcount: A:0.42, C:0.09, G:0.13, T:0.36
Consensus pattern (25 bp):
TACTAACAAGTTTAAATTTGTAAAG
Found at i:9821065 original size:45 final size:45
Alignment explanation
Indices: 9820995--9821093 Score: 137
Period size: 45 Copynumber: 2.2 Consensus size: 45
9820985 CGATGGATGG
* * *
9820995 TTTTATTTTGTTGGATCAGTTTGATGGATGTATTTTGATGTACGA
1 TTTTATTTTGTTGAATCAGTTTGATGGATGTATTTTGATGGACAA
*
9821040 TTTTATTTTGTTGAATCA-TTCTGATGGTTGTATTTTGATGGACAA
1 TTTTATTTTGTTGAATCAGTT-TGATGGATGTATTTTGATGGACAA
9821085 TTTATATTT
1 TTT-TATTT
9821094 ATCCTTTATA
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
44 2 0.04
45 41 0.85
46 5 0.10
ACGTcount: A:0.21, C:0.05, G:0.20, T:0.54
Consensus pattern (45 bp):
TTTTATTTTGTTGAATCAGTTTGATGGATGTATTTTGATGGACAA
Found at i:9821989 original size:56 final size:56
Alignment explanation
Indices: 9821908--9822020 Score: 172
Period size: 56 Copynumber: 2.0 Consensus size: 56
9821898 GATTGAGACA
*
9821908 AATTTGATAAGATTTTATTTCTTTCTTTATTTAGGATTGAGCCAATCCTTGATTAT
1 AATTTGATAAGACTTTATTTCTTTCTTTATTTAGGATTGAGCCAATCCTTGATTAT
* * ***
9821964 AATTTGATGAGACTTTATTTGTTTCTTTATTTAGGATTGATTTAATCCTTGATTAT
1 AATTTGATAAGACTTTATTTCTTTCTTTATTTAGGATTGAGCCAATCCTTGATTAT
9822020 A
1 A
9822021 GGGATTCTTC
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 51 1.00
ACGTcount: A:0.27, C:0.09, G:0.13, T:0.51
Consensus pattern (56 bp):
AATTTGATAAGACTTTATTTCTTTCTTTATTTAGGATTGAGCCAATCCTTGATTAT
Found at i:9826153 original size:16 final size:16
Alignment explanation
Indices: 9826116--9826157 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
9826106 TTAATCATAT
*
9826116 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
9826132 TT-AAATATATTATAA
1 TTAAAATATATTATAA
9826147 TTAAAATATAT
1 TTAAAATATAT
9826158 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:9826164 original size:14 final size:15
Alignment explanation
Indices: 9826125--9826166 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
9826115 TTTAAACATA
*
9826125 ATTATTATTAAATAT
1 ATTATAATTAAATAT
9826140 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
9826154 A-TATAATTTAATA
1 ATTATAATTAAATA
9826167 AAATTATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:9826275 original size:16 final size:16
Alignment explanation
Indices: 9826231--9826277 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
9826221 TACTATAAAA
*
9826231 TATAATTTAACATA-AT
1 TATAA-TTAAAATATAT
*
9826247 TATTATT-AAATATAT
1 TATAATTAAAATATAT
9826262 TATAATTAAAATATAT
1 TATAATTAAAATATAT
9826278 AATTTAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 4 0.15
15 10 0.38
16 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TATAATTAAAATATAT
Found at i:9826395 original size:16 final size:16
Alignment explanation
Indices: 9826351--9826397 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
9826341 TACTATAAAA
*
9826351 TATAATTTAACATA-AT
1 TATAA-TTAAAATATAT
*
9826367 TATTATT-AAATATAT
1 TATAATTAAAATATAT
9826382 TATAATTAAAATATAT
1 TATAATTAAAATATAT
9826398 AATTTAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 4 0.15
15 10 0.38
16 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TATAATTAAAATATAT
Found at i:9826635 original size:16 final size:16
Alignment explanation
Indices: 9826592--9826637 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
9826582 ACTATAAAAG
*
9826592 ATAATTTAACATA-ATT
1 ATAA-TTAAAATATATT
*
9826608 ATTATT-AAATATATT
1 ATAATTAAAATATATT
9826623 ATAATTAAAATATAT
1 ATAATTAAAATATAT
9826638 AATTTAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 4 0.16
15 10 0.40
16 11 0.44
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATTAAAATATATT
Found at i:9826644 original size:14 final size:15
Alignment explanation
Indices: 9826592--9826646 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
9826582 ACTATAAAAG
9826592 ATAATTTAACATA-ATT
1 ATAA-TTAA-ATATATT
*
9826608 ATTATTAAATATATT
1 ATAATTAAATATATT
9826623 ATAATTAAA-ATA-T
1 ATAATTAAATATATT
*
9826636 ATAATTTAATA
1 ATAATTAAATA
9826647 AAATTCTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.26
14 7 0.21
15 15 0.44
16 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATTAAATATATT
Found at i:9826755 original size:16 final size:16
Alignment explanation
Indices: 9826712--9826757 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
9826702 ACTATAAAAG
*
9826712 ATAATTTAACATA-ATT
1 ATAA-TTAAAATATATT
*
9826728 ATTATT-AAATATATT
1 ATAATTAAAATATATT
9826743 ATAATTAAAATATAT
1 ATAATTAAAATATAT
9826758 AATTTAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 4 0.16
15 10 0.40
16 11 0.44
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATTAAAATATATT
Found at i:9826764 original size:14 final size:15
Alignment explanation
Indices: 9826712--9826766 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
9826702 ACTATAAAAG
9826712 ATAATTTAACATA-ATT
1 ATAA-TTAA-ATATATT
*
9826728 ATTATTAAATATATT
1 ATAATTAAATATATT
9826743 ATAATTAAA-ATA-T
1 ATAATTAAATATATT
*
9826756 ATAATTTAATA
1 ATAATTAAATA
9826767 AAATTATTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.26
14 7 0.21
15 15 0.44
16 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATTAAATATATT
Found at i:9826885 original size:120 final size:120
Alignment explanation
Indices: 9826114--9826870 Score: 1345
Period size: 120 Copynumber: 6.3 Consensus size: 120
9826104 ATTTAATCAT
9826114 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATA
1 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATA
*
9826179 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
65 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
9826235 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAA
* * *
9826300 TCAATATTATTATATGAATTTACTCAAATCGTAATATATGATACTATAAAATATA
66 TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
*
9826355 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAA
* *
9826420 TCAATATTATTATATGAATTTACTCAAATCGTAATATATGATACTATAAAAGATA
66 TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
* *
9826475 ATTTAACATAATTATTATTAAATAAATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAA
*
9826540 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
66 TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
*
9826595 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAA
*
9826660 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
66 TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
9826715 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAA
* *
9826780 TCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
66 TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
* *
9826835 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAA
1 ATTT-AACATAATTATTATTAAATATATTATAATTAA
9826871 TATTAAATAA
Statistics
Matches: 620, Mismatches: 15, Indels: 3
0.97 0.02 0.00
Matches are distributed among these distances:
120 614 0.99
121 6 0.01
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.42
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAA
TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
Found at i:9828020 original size:25 final size:25
Alignment explanation
Indices: 9827986--9828037 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
9827976 AAGAATCAGT
9827986 AAACTTAAACAGACGGGACTGGTGA
1 AAACTTAAACAGACGGGACTGGTGA
9828011 AAACTTAAACAGACGGGACTGGTGA
1 AAACTTAAACAGACGGGACTGGTGA
9828036 AA
1 AA
9828038 TACAAATGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.42, C:0.15, G:0.27, T:0.15
Consensus pattern (25 bp):
AAACTTAAACAGACGGGACTGGTGA
Found at i:9828387 original size:137 final size:138
Alignment explanation
Indices: 9828138--9828408 Score: 438
Period size: 137 Copynumber: 2.0 Consensus size: 138
9828128 AACTTAAAAT
* * *
9828138 TGAAATCAATTATGGAATGCGTTACATTCAAAATAACAATAAACAAAATATGGATATAACACTAG
1 TGAAATCAATTATGGAATGAGTTACATTCAAAATAACAATAAACAAAAGATGGATATAACACTAA
* * *
9828203 CTACAAAAGTAATTTAACAATATCATGTGGTAACAAGTTCACCTGAAAGTG-AGATATGAAAGAT
66 CTACAAAAGTAATTTAACAATATCATGTAGTAACAAGTTCACATGAAAGTGCA-ATATGAAAGAC
9828267 ATGCCCAAA
130 ATGCCCAAA
* *
9828276 TGAAATCATTTATGGCATGAGTTACATTCAAAATAACAAT-AACAAAAGATGGATATAACACTAA
1 TGAAATCAATTATGGAATGAGTTACATTCAAAATAACAATAAACAAAAGATGGATATAACACTAA
*
9828340 CTACAAAATTAATTTAACAATATCATGTAGTAACAAGTTCACATGAAAGTGCAATATGAAAGACA
66 CTACAAAAGTAATTTAACAATATCATGTAGTAACAAGTTCACATGAAAGTGCAATATGAAAGACA
9828405 TGCC
131 TGCC
9828409 ATTTTCTGAA
Statistics
Matches: 123, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
137 85 0.69
138 38 0.31
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.26
Consensus pattern (138 bp):
TGAAATCAATTATGGAATGAGTTACATTCAAAATAACAATAAACAAAAGATGGATATAACACTAA
CTACAAAAGTAATTTAACAATATCATGTAGTAACAAGTTCACATGAAAGTGCAATATGAAAGACA
TGCCCAAA
Found at i:9831831 original size:32 final size:32
Alignment explanation
Indices: 9831794--9831860 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 32
9831784 AATTTTAAGA
9831794 GAAAA-CGAAAGAGGAAAGAAAT-GAAAGATGTT
1 GAAAACCGAAAGA-GAAAGAAATGGAAA-ATGTT
* *
9831826 GAAAACCGAAAGAGAAATAGATGGAAAATGTT
1 GAAAACCGAAAGAGAAAGAAATGGAAAATGTT
9831858 GAA
1 GAA
9831861 GATGAAGGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
32 20 0.65
33 11 0.35
ACGTcount: A:0.55, C:0.04, G:0.27, T:0.13
Consensus pattern (32 bp):
GAAAACCGAAAGAGAAAGAAATGGAAAATGTT
Found at i:9835957 original size:20 final size:20
Alignment explanation
Indices: 9835928--9835974 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
9835918 AGTCAGCCCC
9835928 CCATGCAGCAGCCAAGGTGG
1 CCATGCAGCAGCCAAGGTGG
* *
9835948 CCATGTAGCAGTCAAGGTGG
1 CCATGCAGCAGCCAAGGTGG
9835968 CCATGCA
1 CCATGCA
9835975 AGGAACGTGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.26, C:0.28, G:0.32, T:0.15
Consensus pattern (20 bp):
CCATGCAGCAGCCAAGGTGG
Found at i:9840432 original size:20 final size:20
Alignment explanation
Indices: 9840407--9840454 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
9840397 AGTCAGCCCC
*
9840407 CCATGCAGCAGCCAAGGTGG
1 CCATGCAACAGCCAAGGTGG
*
9840427 CCATGCAACAGTCAAGGTGG
1 CCATGCAACAGCCAAGGTGG
9840447 CCATGCAA
1 CCATGCAA
9840455 GGAACGTGCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.29, C:0.29, G:0.29, T:0.12
Consensus pattern (20 bp):
CCATGCAACAGCCAAGGTGG
Found at i:9842030 original size:21 final size:22
Alignment explanation
Indices: 9841989--9842045 Score: 73
Period size: 21 Copynumber: 2.6 Consensus size: 22
9841979 TTAAAATTAA
*
9841989 AATTTTGTTTT-ATATTCTTTAT
1 AATTTT-TTTTAAAATTCTTTAT
9842011 AATTTTTTTTAAAATT-TTTAT
1 AATTTTTTTTAAAATTCTTTAT
*
9842032 AATTTTTTTGAAAA
1 AATTTTTTTTAAAA
9842046 ATATATAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
21 22 0.69
22 10 0.31
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.63
Consensus pattern (22 bp):
AATTTTTTTTAAAATTCTTTAT
Found at i:9845046 original size:8 final size:8
Alignment explanation
Indices: 9845033--9845062 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
9845023 ATTTTTACCA
9845033 ATCTCTCT
1 ATCTCTCT
9845041 ATCTCTCT
1 ATCTCTCT
9845049 ATCTCTCT
1 ATCTCTCT
*
9845057 CTCTCT
1 ATCTCT
9845063 TAATCTCCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.10, C:0.40, G:0.00, T:0.50
Consensus pattern (8 bp):
ATCTCTCT
Found at i:9845068 original size:16 final size:17
Alignment explanation
Indices: 9845032--9845069 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
9845022 TATTTTTACC
9845032 AATCTCTCTATCTCTCT
1 AATCTCTCTATCTCTCT
*
9845049 -ATCTCTCTCTCTCT-T
1 AATCTCTCTATCTCTCT
9845064 AATCTC
1 AATCTC
9845070 CTTTGTTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 1 0.05
16 18 0.95
ACGTcount: A:0.16, C:0.37, G:0.00, T:0.47
Consensus pattern (17 bp):
AATCTCTCTATCTCTCT
Found at i:9848041 original size:5 final size:5
Alignment explanation
Indices: 9848016--9848052 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
9848006 TACTTACATG
9848016 TTATA -TATA -TATA TGTATA TTATA TTATA TTATA TTA
1 TTATA TTATA TTATA T-TATA TTATA TTATA TTATA TTA
9848053 ACAATTGTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 8 0.27
5 17 0.57
6 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (5 bp):
TTATA
Found at i:9855897 original size:5 final size:5
Alignment explanation
Indices: 9855876--9855914 Score: 60
Period size: 5 Copynumber: 7.6 Consensus size: 5
9855866 CACCAACATG
*
9855876 AAAAG AAAAC AATAAC AAAAC AAAAC AAAAC AAAAC AAA
1 AAAAC AAAAC AA-AAC AAAAC AAAAC AAAAC AAAAC AAA
9855915 GAGCAACTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
5 27 0.84
6 5 0.16
ACGTcount: A:0.79, C:0.15, G:0.03, T:0.03
Consensus pattern (5 bp):
AAAAC
Found at i:9856170 original size:30 final size:30
Alignment explanation
Indices: 9856099--9856170 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
9856089 TGATAGGGGG
* * *
9856099 ATGGAAAATGGCAGCTCCGTTAAGTTTGTA
1 ATGGAAAATGGTAGCTCCGTTAAGTCTATA
* * *
9856129 ACGGAAAATGGTAGCTTCGTTACGTCTATA
1 ATGGAAAATGGTAGCTCCGTTAAGTCTATA
9856159 ATGGAAAATGGT
1 ATGGAAAATGGT
9856171 TAGTGGCAAC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.29
Consensus pattern (30 bp):
ATGGAAAATGGTAGCTCCGTTAAGTCTATA
Found at i:9856506 original size:9 final size:9
Alignment explanation
Indices: 9856492--9856525 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
9856482 ATTTTCGAAT
*
9856492 TCGAATAAC
1 TCGAATAAA
*
9856501 TCGAATAAT
1 TCGAATAAA
9856510 TCGAATAAA
1 TCGAATAAA
9856519 TCGAATA
1 TCGAATA
9856526 CCAAACTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.26
Consensus pattern (9 bp):
TCGAATAAA
Found at i:9856510 original size:18 final size:18
Alignment explanation
Indices: 9856489--9856525 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
9856479 TTAATTTTCG
*
9856489 AATTCGAATAACTCGAAT
1 AATTCGAATAAATCGAAT
9856507 AATTCGAATAAATCGAAT
1 AATTCGAATAAATCGAAT
9856525 A
1 A
9856526 CCAAACTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.27
Consensus pattern (18 bp):
AATTCGAATAAATCGAAT
Found at i:9856585 original size:23 final size:23
Alignment explanation
Indices: 9856539--9856585 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
9856529 AACTATAATA
*
9856539 TTTTACATTTTACCCCAATTTTT
1 TTTTACATTTTACCCCAATCTTT
*
9856562 TTTTAC-TTTTCCCCCAATACTTT
1 TTTTACATTTTACCCCAAT-CTTT
9856585 T
1 T
9856586 ACTCCCTCGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.19, C:0.26, G:0.00, T:0.55
Consensus pattern (23 bp):
TTTTACATTTTACCCCAATCTTT
Found at i:9857168 original size:19 final size:19
Alignment explanation
Indices: 9857144--9857181 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
9857134 AAGTTAATAA
9857144 CAAATTTGATTACGATGGG
1 CAAATTTGATTACGATGGG
9857163 CAAATTTGATTACGATGGG
1 CAAATTTGATTACGATGGG
9857182 TGACAGTGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.32
Consensus pattern (19 bp):
CAAATTTGATTACGATGGG
Found at i:9859600 original size:6 final size:6
Alignment explanation
Indices: 9859589--9859615 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
9859579 TCAGGGCCTG
9859589 AAACAC AAACAC AAACAC AAACAC AAA
1 AAACAC AAACAC AAACAC AAACAC AAA
9859616 TAAATTGACC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.70, C:0.30, G:0.00, T:0.00
Consensus pattern (6 bp):
AAACAC
Found at i:9861029 original size:56 final size:56
Alignment explanation
Indices: 9860943--9861057 Score: 230
Period size: 56 Copynumber: 2.1 Consensus size: 56
9860933 TTAGAATTAG
9860943 TTAGTCAATTCTAATCAGATGATAACTAATGGACACGATAGTTGGAAGATGCATGC
1 TTAGTCAATTCTAATCAGATGATAACTAATGGACACGATAGTTGGAAGATGCATGC
9860999 TTAGTCAATTCTAATCAGATGATAACTAATGGACACGATAGTTGGAAGATGCATGC
1 TTAGTCAATTCTAATCAGATGATAACTAATGGACACGATAGTTGGAAGATGCATGC
9861055 TTA
1 TTA
9861058 ATTTATATCC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 59 1.00
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.30
Consensus pattern (56 bp):
TTAGTCAATTCTAATCAGATGATAACTAATGGACACGATAGTTGGAAGATGCATGC
Found at i:9865124 original size:24 final size:24
Alignment explanation
Indices: 9865062--9865129 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
9865052 TTCAGGCTCT
* * *
9865062 TCAACAACAGTTTGAGTAGGTGCC
1 TCAACAATAGCTTGAGTGGGTGCC
* * *
9865086 TCGACAATAGGTTGAGTGGGTGCT
1 TCAACAATAGCTTGAGTGGGTGCC
* *
9865110 TCAACAGTAGCTTGAATGGG
1 TCAACAATAGCTTGAGTGGG
9865130 CTCCTTGGCA
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.26
Consensus pattern (24 bp):
TCAACAATAGCTTGAGTGGGTGCC
Found at i:9867193 original size:22 final size:23
Alignment explanation
Indices: 9867143--9867205 Score: 55
Period size: 22 Copynumber: 2.9 Consensus size: 23
9867133 GTGCTTAAAA
*
9867143 TAAATATGT-TATATATATTAACT
1 TAAA-ATGTATATATATAATAACT
*
9867166 T-TAATGTATATATATAATAA-T
1 TAAAATGTATATATATAATAACT
*
9867187 TAAAATG-A-ATGTATAATAA
1 TAAAATGTATATATATAATAA
9867206 AAGAAAGAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
20 10 0.29
21 7 0.21
22 16 0.47
23 1 0.03
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (23 bp):
TAAAATGTATATATATAATAACT
Found at i:9872130 original size:44 final size:44
Alignment explanation
Indices: 9872079--9872503 Score: 214
Period size: 44 Copynumber: 9.7 Consensus size: 44
9872069 ATTACAGATA
9872079 TTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATC
1 TTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATC
* * ** **
9872123 CTATCTCCTTGAGATTACAGTGGAGCAGATT-AAAATAAAAGATC
1 TTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTA-ATC
* * * * * * * *
9872167 TTATCTCTCT-AAAGTTACAGTAGAGTAGATCGCATC-AG--GTC
1 TTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGCTAGTAATC
** ** * *
9872208 TTATCTCCCTGAGATTACAGTGGAATAGACCGAAG-AATTTCAGATC
1 TTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTA-GT-A-ATC
*
9872254 TTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATC
1 TTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATC
* * ** *
9872298 CTATCTCCCTGAGATTACAGTGGAGCGGATT-AAAATAAAG-GATC
1 TTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCT--AGTAATC
* * * * * * * *
9872342 TTATCTCTCT-AAAGTTACAGTAGAGTAGATCGCATC-AG--GTC
1 TTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGCTAGTAATC
* ** * **
9872383 TTATCTTCCTGAGATTACAGTGGA--ATGAACCGAAGAATTTTAGATC
1 TTATCTCCCTGAGATTACAGTGGAGCA-G-ATTGAAG-CTAGTA-ATC
*
9872429 TTATCTCCTTGAGATTACA-TCGGAGCAGATTGAAGCTAGTAATC
1 TTATCTCCCTGAGATTACAGT-GGAGCAGATTGAAGCTAGTAATC
* ** * *
9872473 CTATCTGTCTGATATTACAGTGGAGCGGATT
1 TTATCTCCCTGAGATTACAGTGGAGCAGATT
9872504 AAAATAAAGG
Statistics
Matches: 279, Mismatches: 75, Indels: 54
0.68 0.18 0.13
Matches are distributed among these distances:
39 1 0.00
40 1 0.00
41 51 0.18
42 6 0.02
43 12 0.04
44 135 0.48
45 10 0.04
46 60 0.22
47 2 0.01
48 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (44 bp):
TTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATC
Found at i:9872355 original size:175 final size:175
Alignment explanation
Indices: 9872064--9872609 Score: 893
Period size: 175 Copynumber: 3.1 Consensus size: 175
9872054 ACAGATCAGT
* * *
9872064 GAAGAATTACAGATATTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCT
1 GAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCT
* * *
9872129 CCTTGAGATTACAGTGGAGCAGATTAAAATAAAAGATCTTATCTCTCTAAAGTTACAGTAGAGTA
66 CCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTA
9872194 GATCGCATCAGGTCTTATCTCCCTGAGATTACAGTGGAATAGACC
131 GATCGCATCAGGTCTTATCTCCCTGAGATTACAGTGGAATAGACC
9872239 GAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCT
1 GAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCT
9872304 CCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTA
66 CCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTA
*
9872369 GATCGCATCAGGTCTTATCTTCCTGAGATTACAGTGGAAT-GAACC
131 GATCGCATCAGGTCTTATCTCCCTGAGATTACAGTGGAATAG-ACC
* * *
9872414 GAAGAATTTTAGATCTTATCTCCTTGAGATTACATCGGAGCAGATTGAAGCTAGTAATCCTATCT
1 GAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCT
** * *
9872479 GTCTGATATTACAGTGGAGCGGATTAAAATAAAGGATCTTA--TCTCTAAAGTTACAGTAGAGCA
66 CCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTA
* *
9872542 GATCGTATCAGGTCTTATTTCCCTGAGATTACAGTGGAATAGACC
131 GATCGCATCAGGTCTTATCTCCCTGAGATTACAGTGGAATAGACC
* *
9872587 GAAGAATGTCAGACCTTA-CTCCC
1 GAAGAATTTCAGATCTTATCTCCC
9872610 CCAGCGGTGC
Statistics
Matches: 348, Mismatches: 21, Indels: 7
0.93 0.06 0.02
Matches are distributed among these distances:
172 4 0.01
173 76 0.22
174 2 0.01
175 266 0.76
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (175 bp):
GAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCT
CCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTA
GATCGCATCAGGTCTTATCTCCCTGAGATTACAGTGGAATAGACC
Found at i:9874430 original size:17 final size:16
Alignment explanation
Indices: 9874405--9874445 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
9874395 TTCAAAAGGC
9874405 TTTTAATAAATCAAAT
1 TTTTAATAAATCAAAT
* *
9874421 TTTATAATAATTCATAT
1 TTT-TAATAAATCAAAT
9874438 TTTTAATA
1 TTTTAATA
9874446 TCATTTTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (16 bp):
TTTTAATAAATCAAAT
Found at i:9874476 original size:21 final size:22
Alignment explanation
Indices: 9874441--9874481 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
9874431 TTCATATTTT
**
9874441 TAATATCATTTTAA-TATTGGC
1 TAATATCATCATAATTATTGGC
9874462 TAATATCATCATAATTATTG
1 TAATATCATCATAATTATTG
9874482 CTATTAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.46
Consensus pattern (22 bp):
TAATATCATCATAATTATTGGC
Found at i:9876480 original size:43 final size:43
Alignment explanation
Indices: 9876433--9876518 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 43
9876423 TATGTGATTG
*
9876433 ATATTGAAATGGA-AAAAATGAGAAATGA-ATATGAGATGAGAAA
1 ATATTGAAAT-GACAAAAATGAGAAACGATA-ATGAGATGAGAAA
*
9876476 ATATTGAAATGACAAATATGAGAAACGATAATGAGATGAGAAA
1 ATATTGAAATGACAAAAATGAGAAACGATAATGAGATGAGAAA
9876519 TGAAATATGA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
42 2 0.05
43 36 0.92
44 1 0.03
ACGTcount: A:0.55, C:0.02, G:0.22, T:0.21
Consensus pattern (43 bp):
ATATTGAAATGACAAAAATGAGAAACGATAATGAGATGAGAAA
Found at i:9881714 original size:138 final size:138
Alignment explanation
Indices: 9881466--9881743 Score: 448
Period size: 138 Copynumber: 2.0 Consensus size: 138
9881456 CTGTTTTTTG
* *
9881466 AGACAAAATCAACATAAGCAATTGGAAAATTCCTACTTGAAGTAAGTCTAAACATACATAAAGAT
1 AGACAAAATCAACAAAAGCAATTGGAAAAATCCTACTTGAAGTAAGTCTAAACATACATAAAGAT
* *
9881531 CAGCATCCATTTACAAGCTTTTTAACAGTAAAGAACAAAATCAAGCTTCTGTTAATAGAGAAAAC
66 CAGCATCCATTTACAAGCTTTTTAACAGTAAACAACAAAATCAAGCTGCTGTTAATAGAGAAAAC
9881596 ATTCTATA
131 ATTCTATA
**
9881604 AGACAAAATCAACAAAAGCAATTGGAAAAATCCTACTTTTAGTAAGTCTAAACATACATAAAGAT
1 AGACAAAATCAACAAAAGCAATTGGAAAAATCCTACTTGAAGTAAGTCTAAACATACATAAAGAT
* * * * * *
9881669 CAGCATCCGTTTACAAGCTTTTTGACATTGAACAATAAAATCAAGCTGCTGTTAATAGAGAAATC
66 CAGCATCCATTTACAAGCTTTTTAACAGTAAACAACAAAATCAAGCTGCTGTTAATAGAGAAAAC
9881734 ATTCTATA
131 ATTCTATA
9881742 AG
1 AG
9881744 CGATGCAATA
Statistics
Matches: 128, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
138 128 1.00
ACGTcount: A:0.45, C:0.17, G:0.12, T:0.27
Consensus pattern (138 bp):
AGACAAAATCAACAAAAGCAATTGGAAAAATCCTACTTGAAGTAAGTCTAAACATACATAAAGAT
CAGCATCCATTTACAAGCTTTTTAACAGTAAACAACAAAATCAAGCTGCTGTTAATAGAGAAAAC
ATTCTATA
Found at i:9891335 original size:30 final size:30
Alignment explanation
Indices: 9891301--9891367 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
9891291 GTGTCTCAGC
*
9891301 CGTGTTTGACACACGGCCACGCGATACGGA
1 CGTGTGTGACACACGGCCACGCGATACGGA
* * *
9891331 CGTGTGTGACACACGTCCATGCGATACGGT
1 CGTGTGTGACACACGGCCACGCGATACGGA
9891361 CGTGTGT
1 CGTGTGT
9891368 CCCTCGTAGG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.19, C:0.27, G:0.31, T:0.22
Consensus pattern (30 bp):
CGTGTGTGACACACGGCCACGCGATACGGA
Found at i:9896346 original size:27 final size:27
Alignment explanation
Indices: 9896316--9896409 Score: 113
Period size: 27 Copynumber: 3.4 Consensus size: 27
9896306 CAATTTCGAT
9896316 TAGTTGGGTGACCAA-AAAAATGGGCAA
1 TAGTTGGGTGACCAATAAAAA-GGGCAA
**
9896343 TAGTTGGGTGACCAAATTAAAAAAATG--A
1 TAGTTGGGTGACC-AA-T-AAAAAGGGCAA
9896371 TAGTTGGGTGACCAATAAAAAGGGCAA
1 TAGTTGGGTGACCAATAAAAAGGGCAA
9896398 TAGTTGGGTGAC
1 TAGTTGGGTGAC
9896410 ATGTGGTATA
Statistics
Matches: 57, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
25 6 0.11
26 1 0.02
27 28 0.49
28 16 0.28
30 1 0.02
31 5 0.09
ACGTcount: A:0.39, C:0.10, G:0.29, T:0.22
Consensus pattern (27 bp):
TAGTTGGGTGACCAATAAAAAGGGCAA
Found at i:9899081 original size:33 final size:33
Alignment explanation
Indices: 9899035--9899148 Score: 146
Period size: 33 Copynumber: 3.5 Consensus size: 33
9899025 TCTTGACAAA
9899035 CTCT-TTCTGTGTTTACTATCCCAGCGAGCTAT
1 CTCTGTTCTGTGTTTACTATCCCAGCGAGCTAT
9899067 CTCTGTTCTGTGTTTACTATCCCAGC-AGACTAT
1 CTCTGTTCTGTGTTTACTATCCCAGCGAG-CTAT
* *
9899100 CTCTATTTTGTGTTTACTATCCCAATG-GA-CTAT
1 CTCTGTTCTGTGTTTACTATCCC-A-GCGAGCTAT
*
9899133 CTATGTTCTGTGTTTA
1 CTCTGTTCTGTGTTTA
9899149 AGTCCTAGCA
Statistics
Matches: 72, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
32 6 0.08
33 63 0.88
34 1 0.01
35 2 0.03
ACGTcount: A:0.18, C:0.24, G:0.15, T:0.44
Consensus pattern (33 bp):
CTCTGTTCTGTGTTTACTATCCCAGCGAGCTAT
Found at i:9899148 original size:66 final size:65
Alignment explanation
Indices: 9899042--9899170 Score: 183
Period size: 66 Copynumber: 2.0 Consensus size: 65
9899032 AAACTCTTTC
*
9899042 TGTGTTTACTATCCCAGCGAGCTATCTCTGTTCTGTGTTTACTA-TCCCAGCAGACTATCTCTAT
1 TGTGTTTACTATCCCAGCGAGCTATCTATGTTCTGTGTTTA--AGTCCCAGCAGACTATCTCTAT
9899106 TT
64 TT
*
9899108 TGTGTTTACTATCCCAATG-GA-CTATCTATGTTCTGTGTTTAAGTCCTAGCAGACTATCTCTAT
1 TGTGTTTACTATCCC-A-GCGAGCTATCTATGTTCTGTGTTTAAGTCCCAGCAGACTATCTCTAT
9899171 GGATGCCATG
Statistics
Matches: 58, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
64 1 0.02
65 19 0.33
66 34 0.59
67 3 0.05
68 1 0.02
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.41
Consensus pattern (65 bp):
TGTGTTTACTATCCCAGCGAGCTATCTATGTTCTGTGTTTAAGTCCCAGCAGACTATCTCTATTT
Found at i:9916592 original size:16 final size:16
Alignment explanation
Indices: 9916584--9916661 Score: 50
Period size: 16 Copynumber: 4.6 Consensus size: 16
9916574 AAAGTACAAG
9916584 AAAATAAAAATAAAAC
1 AAAATAAAAATAAAAC
*
9916600 AAAATAACTAAAAATAAAAAT
1 --AA-AA-TAAAAAT-AAAAC
* **
9916621 AAACATAAAATTAAATT
1 AAA-ATAAAAATAAAAC
*
9916638 AAATTAAAAATAAAAC
1 AAAATAAAAATAAAAC
9916654 -AAATAAAA
1 AAAATAAAA
9916662 TCAATTATCC
Statistics
Matches: 48, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
15 7 0.15
16 9 0.19
17 7 0.15
18 9 0.19
19 5 0.10
20 7 0.15
21 4 0.08
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.19
Consensus pattern (16 bp):
AAAATAAAAATAAAAC
Found at i:9916595 original size:6 final size:6
Alignment explanation
Indices: 9916584--9916652 Score: 54
Period size: 6 Copynumber: 11.5 Consensus size: 6
9916574 AAAGTACAAG
*
9916584 AAAATA AAAATA AAACA-A AATAACTA AAAATA AAAATA AACAT- AAAAT-
1 AAAATA AAAATA AAA-ATA AA-AA-TA AAAATA AAAATA AAAATA AAAATA
* * *
9916632 TAAATT AAATTA AAAATA AAA
1 AAAATA AAAATA AAAATA AAA
9916653 CAAATAAAAT
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
5 8 0.16
6 36 0.71
7 4 0.08
8 3 0.06
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.20
Consensus pattern (6 bp):
AAAATA
Found at i:9918141 original size:15 final size:16
Alignment explanation
Indices: 9918111--9918142 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
9918101 AACTACTAAG
9918111 AAATAATAAGGAAGAA
1 AAATAATAAGGAAGAA
9918127 AAATAATAA-GAAGAA
1 AAATAATAAGGAAGAA
9918142 A
1 A
9918143 CGAAATGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.72, C:0.00, G:0.16, T:0.12
Consensus pattern (16 bp):
AAATAATAAGGAAGAA
Found at i:9918346 original size:17 final size:18
Alignment explanation
Indices: 9918310--9918348 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
9918300 TAAACTAATG
*
9918310 ATAAGAAAAGTAAGAATA
1 ATAAGAAAAATAAGAATA
*
9918328 ATAAGAAAAATGA-AATA
1 ATAAGAAAAATAAGAATA
9918345 ATAA
1 ATAA
9918349 TAATGATAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.69, C:0.00, G:0.13, T:0.18
Consensus pattern (18 bp):
ATAAGAAAAATAAGAATA
Found at i:9918412 original size:22 final size:23
Alignment explanation
Indices: 9918368--9918413 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
9918358 TAATGACAAG
9918368 AAATAATTACAACTAGAAAAATA
1 AAATAATTACAACTAGAAAAATA
*
9918391 AAATAA-TATAACTA-AAATAATA
1 AAATAATTACAACTAGAAA-AATA
9918413 A
1 A
9918414 TATTAAGTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 3 0.14
22 12 0.57
23 6 0.29
ACGTcount: A:0.67, C:0.07, G:0.02, T:0.24
Consensus pattern (23 bp):
AAATAATTACAACTAGAAAAATA
Found at i:9926064 original size:28 final size:26
Alignment explanation
Indices: 9926032--9926102 Score: 63
Period size: 30 Copynumber: 2.6 Consensus size: 26
9926022 TCCTAAAAGA
*
9926032 TTATATTATAAAAAAATTTATATGTATT
1 TTATATTATAAAAAAATATATAT-TA-T
9926060 TTATAAAGTTAT-AAAAAATATATATTAT
1 TTAT--A-TTATAAAAAAATATATATTAT
* *
9926088 TTAAATCATAAAAAA
1 TTATATTATAAAAAA
9926103 TTTCTAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
25 3 0.08
26 6 0.17
28 8 0.22
29 2 0.06
30 13 0.36
31 4 0.11
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (26 bp):
TTATATTATAAAAAAATATATATTAT
Found at i:9926418 original size:8 final size:8
Alignment explanation
Indices: 9926384--9926428 Score: 56
Period size: 8 Copynumber: 5.6 Consensus size: 8
9926374 TAAAACATTT
9926384 TTTTTATAA
1 TTTTTAT-A
*
9926393 ATTTTATA
1 TTTTTATA
9926401 -TTTTATA
1 TTTTTATA
*
9926408 TTTTTACA
1 TTTTTATA
9926416 TTTTTATA
1 TTTTTATA
9926424 TTTTT
1 TTTTT
9926429 TTAACTTGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
7 7 0.22
8 19 0.59
9 6 0.19
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (8 bp):
TTTTTATA
Found at i:9927363 original size:13 final size:13
Alignment explanation
Indices: 9927347--9927386 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
9927337 TTTAAACCAA
9927347 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
9927360 ACTTTTTC-ACAGC
1 AC-TTTTCAAAAGC
9927373 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
9927386 A
1 A
9927387 TTGTCAAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 5 0.22
13 13 0.57
14 5 0.22
ACGTcount: A:0.35, C:0.25, G:0.07, T:0.33
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:9929849 original size:28 final size:30
Alignment explanation
Indices: 9929791--9929855 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 30
9929781 ACCATAAACT
9929791 CTTTCTTTTTGGTTACATGAACCAATTAATTAA
1 CTTTCTTTTTGGTTACATGAACC-A--AATTAA
*
9929824 CTTT-TTTTTTGTTACATGAACC-AATTAA
1 CTTTCTTTTTGGTTACATGAACCAAATTAA
9929852 CTTT
1 CTTT
9929856 GATTCATTGC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
28 10 0.32
32 17 0.55
33 4 0.13
ACGTcount: A:0.28, C:0.15, G:0.08, T:0.49
Consensus pattern (30 bp):
CTTTCTTTTTGGTTACATGAACCAAATTAA
Found at i:9929988 original size:27 final size:27
Alignment explanation
Indices: 9929939--9930003 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
9929929 AAATATTCTC
*
9929939 TAAATTAATAA-ATATTAATTTATCGA
1 TAAATTAATAAGATATTAATTTATCAA
*
9929965 TAAATTAATAAGATATTCATTTATCAA
1 TAAATTAATAAGATATTAATTTATCAA
*
9929992 TAAACTAATAAG
1 TAAATTAATAAG
9930004 CTCAATAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
26 11 0.31
27 24 0.69
ACGTcount: A:0.51, C:0.06, G:0.05, T:0.38
Consensus pattern (27 bp):
TAAATTAATAAGATATTAATTTATCAA
Found at i:9939673 original size:24 final size:24
Alignment explanation
Indices: 9939615--9939689 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 24
9939605 GCTTTACATA
*
9939615 TTTTTGTT-AATTTGATATTT-AT
1 TTTTTATTAAATTTGATATTTAAT
*
9939637 TTTTTAATTAAATTTGATTTTTAAT
1 TTTTT-ATTAAATTTGATATTTAAT
*
9939662 TTTTT-TTCAAATTTAATCA-TTAAT
1 TTTTTATT-AAATTTGAT-ATTTAAT
9939686 TTTT
1 TTTT
9939690 GAAAAATAGT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
22 5 0.11
23 4 0.09
24 28 0.64
25 7 0.16
ACGTcount: A:0.28, C:0.03, G:0.04, T:0.65
Consensus pattern (24 bp):
TTTTTATTAAATTTGATATTTAAT
Found at i:9939798 original size:19 final size:19
Alignment explanation
Indices: 9939776--9939815 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
9939766 TTCATGCTAA
9939776 TTTTT-TAATTTTTATGAAT
1 TTTTTATAATTTTTAT-AAT
*
9939795 TTTTTATATTTTTTATAAT
1 TTTTTATAATTTTTATAAT
9939814 TT
1 TT
9939816 ATATTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (19 bp):
TTTTTATAATTTTTATAAT
Found at i:9939800 original size:11 final size:10
Alignment explanation
Indices: 9939776--9939815 Score: 50
Period size: 9 Copynumber: 4.2 Consensus size: 10
9939766 TTCATGCTAA
9939776 TTTTT-TAA-
1 TTTTTATAAT
9939784 TTTTTATGAAT
1 TTTTTAT-AAT
9939795 TTTTTAT-AT
1 TTTTTATAAT
9939804 TTTTTATAAT
1 TTTTTATAAT
9939814 TT
1 TT
9939816 ATATTTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
8 5 0.18
9 10 0.36
10 6 0.21
11 7 0.25
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:9940239 original size:18 final size:18
Alignment explanation
Indices: 9940213--9940282 Score: 52
Period size: 18 Copynumber: 3.7 Consensus size: 18
9940203 AAATAAAAGT
*
9940213 AATAAAAAAATCTA-GAAA
1 AATATAAAAAT-TATGAAA
*
9940231 AATATAAAAATTATTAAA
1 AATATAAAAATTATGAAA
* *
9940249 AATTTAAAAATATATAAAGAA
1 AATATAAAAAT-TAT-GA-AA
*
9940270 AATATCAAAATTA
1 AATATAAAAATTA
9940283 ATTAAAAAGT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
17 2 0.05
18 23 0.55
19 3 0.07
20 3 0.07
21 11 0.26
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.27
Consensus pattern (18 bp):
AATATAAAAATTATGAAA
Found at i:9940248 original size:10 final size:10
Alignment explanation
Indices: 9940235--9940366 Score: 51
Period size: 10 Copynumber: 12.9 Consensus size: 10
9940225 TAGAAAAATA
9940235 TAAAAATTAT
1 TAAAAATTAT
9940245 TAAAAA-T-T
1 TAAAAATTAT
9940253 TAAAAATATAT
1 TAAAAAT-TAT
* *
9940264 AAAGAAAATA-
1 TAA-AAATTAT
*
9940274 TCAAAATTAAT
1 TAAAAATT-AT
9940285 TAAAAAGTTA-
1 TAAAAA-TTAT
* **
9940295 GAAAAAGAAT
1 TAAAAATTAT
9940305 ATAAAAA-TAT
1 -TAAAAATTAT
*
9940315 AAGAAAATTAT
1 TA-AAAATTAT
*
9940326 TTAAAA-TAT
1 TAAAAATTAT
*
9940335 ATACAAATTTTAT
1 -TA-AAA-ATTAT
9940348 TAAAAATTAT
1 TAAAAATTAT
*
9940358 AAAAAATTA
1 TAAAAATTA
9940367 AAAAATTCCT
Statistics
Matches: 89, Mismatches: 18, Indels: 30
0.65 0.13 0.22
Matches are distributed among these distances:
8 7 0.08
9 10 0.11
10 37 0.42
11 25 0.28
12 7 0.08
13 3 0.03
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.32
Consensus pattern (10 bp):
TAAAAATTAT
Found at i:9940249 original size:39 final size:40
Alignment explanation
Indices: 9940214--9940337 Score: 103
Period size: 42 Copynumber: 3.1 Consensus size: 40
9940204 AATAAAAGTA
* *
9940214 ATAAAAAAATCTAGA-AAAATATAAAAATT-ATTAAAAAT
1 ATAAAAAAATATAAAGAAAATATAAAAATTAATTAAAAAT
* * *
9940252 TTAAAAATATATAAAGAAAATATCAAAATTAATTAAAAAGTT
1 ATAAAAAAATATAAAGAAAATATAAAAATTAATTAAAAA--T
* * *
9940294 AGAAAAAGAATATAAA-AATATA-AGAAAATTATTTAAAATAT
1 ATAAAAA-AATATAAAGAAAATATA-AAAATTAATTAAAA-AT
9940335 ATA
1 ATA
9940338 CAAATTTTAT
Statistics
Matches: 67, Mismatches: 12, Indels: 11
0.74 0.13 0.12
Matches are distributed among these distances:
38 11 0.16
39 13 0.19
40 8 0.12
41 3 0.04
42 24 0.36
43 8 0.12
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (40 bp):
ATAAAAAAATATAAAGAAAATATAAAAATTAATTAAAAAT
Found at i:9940312 original size:40 final size:38
Alignment explanation
Indices: 9940228--9940331 Score: 102
Period size: 40 Copynumber: 2.6 Consensus size: 38
9940218 AAAAATCTAG
* *
9940228 AAAAATATAAAAATTATTAAAAATTTAAAAATATATAA
1 AAAAATATAAAAATTATTAAAAAGTTAAAAATAAATAA
* *
9940266 AGAAAATATCAAAATTAATTAAAAAGTTAGAAAA-AGAATAT
1 A-AAAATATAAAAATT-ATTAAAAAGTTA-AAAATA-AATAA
*
9940307 AAAAATATAAGAAAATTATTTAAAA
1 AAAAATAT-A-AAAATTATTAAAAA
9940332 TATATACAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
38 1 0.02
39 13 0.24
40 19 0.35
41 15 0.28
42 6 0.11
ACGTcount: A:0.66, C:0.01, G:0.05, T:0.28
Consensus pattern (38 bp):
AAAAATATAAAAATTATTAAAAAGTTAAAAATAAATAA
Found at i:9940333 original size:20 final size:19
Alignment explanation
Indices: 9940228--9940366 Score: 79
Period size: 21 Copynumber: 6.9 Consensus size: 19
9940218 AAAAATCTAG
9940228 AAAAATAT-AAAAATTATT
1 AAAAATATAAAAAATTATT
*
9940246 AAAAAT-TTAAAAA-TATAT
1 AAAAATATAAAAAATTAT-T
* *
9940264 AAAGAAAATATCAAAATTAATT
1 AAA-AATATA-AAAAATT-ATT
**
9940286 AAAAAGT-TAGAAAAAGAATAT
1 AAAAA-TATA-AAAAATTAT-T
9940307 AAAAATATAAGAAAATTATTT
1 AAAAATATAA-AAAATTA-TT
**
9940328 AAAATATATACAAATTTTATT
1 AAAA-ATATA-AAAAATTATT
9940349 AAAAATTATAAAAAATTA
1 AAAAA-TATAAAAAATTA
9940367 AAAAATTCCT
Statistics
Matches: 92, Mismatches: 14, Indels: 28
0.69 0.10 0.21
Matches are distributed among these distances:
17 4 0.04
18 15 0.16
19 2 0.02
20 12 0.13
21 40 0.43
22 16 0.17
23 3 0.03
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (19 bp):
AAAAATATAAAAAATTATT
Found at i:9940336 original size:22 final size:21
Alignment explanation
Indices: 9940306--9940366 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 21
9940296 AAAAAGAATA
9940306 TAAAA-ATATAAGAAAATTATT
1 TAAAATATATAA-AAAATTATT
**
9940327 TAAAATATATACAAATTTTATT
1 TAAAATATATA-AAAAATTATT
*
9940349 AAAAAT-TATAAAAAATTA
1 TAAAATATATAAAAAATTA
9940367 AAAAATTCCT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
20 6 0.18
21 9 0.27
22 17 0.52
23 1 0.03
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (21 bp):
TAAAATATATAAAAAATTATT
Found at i:9940496 original size:17 final size:17
Alignment explanation
Indices: 9940458--9940496 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
9940448 AAGTATAAAA
*
9940458 TTTATTAAAATATTGAT
1 TTTATTAAAATATTAAT
9940475 TTTATTAAAATA-TAAT
1 TTTATTAAAATATTAAT
9940491 TATTAT
1 T-TTAT
9940497 AATTATTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
TTTATTAAAATATTAAT
Found at i:9943706 original size:13 final size:14
Alignment explanation
Indices: 9943680--9943712 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
9943670 CATTAATTAA
9943680 AACTAAAGTTAACT
1 AACTAAAGTTAACT
9943694 AACTAAA-TTAACT
1 AACTAAAGTTAACT
9943707 AACTAA
1 AACTAA
9943713 TGCATTAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.55, C:0.15, G:0.03, T:0.27
Consensus pattern (14 bp):
AACTAAAGTTAACT
Found at i:9945556 original size:20 final size:20
Alignment explanation
Indices: 9945513--9945597 Score: 82
Period size: 20 Copynumber: 4.2 Consensus size: 20
9945503 AATTTGTTTG
*
9945513 AAAATAATTTTGA-TGTATT
1 AAAATAATTTTGACTTTATT
*
9945532 AAAATAATTTTAACTTTATT
1 AAAATAATTTTGACTTTATT
* **
9945552 GAAATAATTTTGACTTGGTT
1 AAAATAATTTTGACTTTATT
* * *
9945572 AAAATCATTTTCACTTGATTT
1 AAAATAATTTTGACTTTA-TT
9945593 AAAAT
1 AAAAT
9945598 TGTTTCAAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
19 12 0.22
20 35 0.65
21 7 0.13
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.46
Consensus pattern (20 bp):
AAAATAATTTTGACTTTATT
Found at i:9946302 original size:92 final size:92
Alignment explanation
Indices: 9946145--9946316 Score: 299
Period size: 92 Copynumber: 1.9 Consensus size: 92
9946135 ATATGACCTG
* * *
9946145 ACGTCATCTTTACCTACGTACAATAATTCAATTATAGAAACGATATTAGTTTTCACCCGATCACA
1 ACGTCATCTTTACCTACATACAATAATTCAAGTATAGAAACGATATTAGTTTTCACCCAATCACA
9946210 TGAAAAACACATAATTAGGATGAACCA
66 TGAAAAACACATAATTAGGATGAACCA
* *
9946237 ACGTCATCTTTAGCTACATACGATAATTCAAGTATAGAAACGATATTAGTTTTCACCCAATCACA
1 ACGTCATCTTTACCTACATACAATAATTCAAGTATAGAAACGATATTAGTTTTCACCCAATCACA
9946302 TGAAAAACACATAAT
66 TGAAAAACACATAAT
9946317 CATGAAAACA
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
92 75 1.00
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.28
Consensus pattern (92 bp):
ACGTCATCTTTACCTACATACAATAATTCAAGTATAGAAACGATATTAGTTTTCACCCAATCACA
TGAAAAACACATAATTAGGATGAACCA
Found at i:9950823 original size:12 final size:12
Alignment explanation
Indices: 9950814--9950838 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9950804 TTCCTCTTTG
9950814 TCATTTTCTTCT
1 TCATTTTCTTCT
9950826 TCATTTTCTTCT
1 TCATTTTCTTCT
9950838 T
1 T
9950839 ATCTCTTCTC
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:0.08, C:0.24, G:0.00, T:0.68
Consensus pattern (12 bp):
TCATTTTCTTCT
Found at i:9950838 original size:27 final size:27
Alignment explanation
Indices: 9950803--9950863 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
9950793 TCATCTTCTA
* *
9950803 TTTCCTCTT-TGTCATTTTCTTCTTCAT
1 TTTCCTCTTATCTC-TTCTCTTCTTCAT
* *
9950830 TTTCTTCTTATCTCTTCTCTTCTTCCT
1 TTTCCTCTTATCTCTTCTCTTCTTCAT
9950857 TTTCCTC
1 TTTCCTC
9950864 ACCTCCCGAG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
27 25 0.89
28 3 0.11
ACGTcount: A:0.05, C:0.31, G:0.02, T:0.62
Consensus pattern (27 bp):
TTTCCTCTTATCTCTTCTCTTCTTCAT
Found at i:9965008 original size:14 final size:14
Alignment explanation
Indices: 9964989--9965015 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9964979 CATTTCTTGG
9964989 TCGGTTCAGTTCAC
1 TCGGTTCAGTTCAC
9965003 TCGGTTCAGTTCA
1 TCGGTTCAGTTCA
9965016 ACTGGACCAC
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:0.15, C:0.26, G:0.22, T:0.37
Consensus pattern (14 bp):
TCGGTTCAGTTCAC
Found at i:9966458 original size:28 final size:28
Alignment explanation
Indices: 9966390--9966459 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
9966380 GCATAATCTA
* *
9966390 GTGGAAGTCCTTCAGGACTATCGTATTT
1 GTGGAAGTCCATCAGGACTATCATATTT
* * *
9966418 TTTGAAGTTCATCAGGACTATCATATTT
1 GTGGAAGTCCATCAGGACTATCATATTT
*
9966446 GTGGAAATCCATCA
1 GTGGAAGTCCATCA
9966460 AGACCCTCGT
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (28 bp):
GTGGAAGTCCATCAGGACTATCATATTT
Found at i:9968558 original size:51 final size:50
Alignment explanation
Indices: 9968497--9968608 Score: 152
Period size: 51 Copynumber: 2.2 Consensus size: 50
9968487 ATAACATCCA
* * * * * *
9968497 AGAATACACCTGGGCACTGTGTGCCAAGCCCGTAGGCTATACATCCCTCT
1 AGAACACACCTGAGCACTGAGTGCCAAGCCCGTAGGCTACACATCCCCCC
*
9968547 AGAAACACACCTGAGCACTGAGTGCCAAGCCTGTAGGCTACACATCCCCCC
1 AG-AACACACCTGAGCACTGAGTGCCAAGCCCGTAGGCTACACATCCCCCC
9968598 AGAACACACCT
1 AGAACACACCT
9968609 AAATCTCCGT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 11 0.20
51 43 0.80
ACGTcount: A:0.29, C:0.35, G:0.20, T:0.17
Consensus pattern (50 bp):
AGAACACACCTGAGCACTGAGTGCCAAGCCCGTAGGCTACACATCCCCCC
Found at i:9971776 original size:32 final size:32
Alignment explanation
Indices: 9971739--9971810 Score: 119
Period size: 32 Copynumber: 2.2 Consensus size: 32
9971729 GAACATGATA
9971739 AATTTT-AATTAATTTTATAGTTAATTTTGACT
1 AATTTTGAA-TAATTTTATAGTTAATTTTGACT
*
9971771 AATTTTGAATAATTTTATAGTTAATTTTGATT
1 AATTTTGAATAATTTTATAGTTAATTTTGACT
9971803 AATTTTGA
1 AATTTTGA
9971811 CTATTTTCGA
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
32 36 0.95
33 2 0.05
ACGTcount: A:0.35, C:0.01, G:0.08, T:0.56
Consensus pattern (32 bp):
AATTTTGAATAATTTTATAGTTAATTTTGACT
Found at i:9971809 original size:10 final size:10
Alignment explanation
Indices: 9971734--9971810 Score: 64
Period size: 10 Copynumber: 7.3 Consensus size: 10
9971724 AATATGAACA
*
9971734 TGATAAATTT
1 TGATTAATTT
*
9971744 TAATTAATTT
1 TGATTAATTT
*
9971754 TATAGTTAATTT
1 T-GA-TTAATTT
*
9971766 TGACTAATTT
1 TGATTAATTT
*
9971776 TGAATAATTT
1 TGATTAATTT
*
9971786 TATAGTTAATTT
1 T-GA-TTAATTT
9971798 TGATTAATTT
1 TGATTAATTT
9971808 TGA
1 TGA
9971811 CTATTTTCGA
Statistics
Matches: 54, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
10 35 0.65
11 4 0.07
12 15 0.28
ACGTcount: A:0.35, C:0.01, G:0.09, T:0.55
Consensus pattern (10 bp):
TGATTAATTT
Found at i:9989635 original size:25 final size:25
Alignment explanation
Indices: 9989606--9989685 Score: 92
Period size: 25 Copynumber: 3.2 Consensus size: 25
9989596 ATAACACACA
*
9989606 ACAAAGGTTTTCCAAAGAATTCTCC
1 ACAAAGGTTTTCCAGAGAATTCTCC
* * *
9989631 ACAAAGGTGTTCCAGAGGATTCGCC
1 ACAAAGGTTTTCCAGAGAATTCTCC
9989656 ACAAAGGCTTTT-CAGAGAATT-TGCC
1 ACAAAGG-TTTTCCAGAGAATTCT-CC
9989681 ACAAA
1 ACAAA
9989686 TGCGTTTACT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
25 43 0.93
26 3 0.07
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.24
Consensus pattern (25 bp):
ACAAAGGTTTTCCAGAGAATTCTCC
Found at i:10002637 original size:37 final size:37
Alignment explanation
Indices: 10002596--10002708 Score: 87
Period size: 37 Copynumber: 3.1 Consensus size: 37
10002586 ATTGTCGTTT
10002596 TAAAGGTTTAGGTTGGATTGGTAACCTTACATGTATA
1 TAAAGGTTTAGGTTGGATTGGTAACCTTACATGTATA
* * * * *
10002633 TAAAGATTT-GG-T-CA-AGCT-A-TTTA-ATGTGCCAATA
1 TAAAGGTTTAGGTTGGATTGGTAACCTTACATGT----ATA
*
10002667 TAAAGGTTTAGCTTGGATTGGTAACCTTACATGTATA
1 TAAAGGTTTAGGTTGGATTGGTAACCTTACATGTATA
10002704 TAAAG
1 TAAAG
10002709 ATTTGGCCAA
Statistics
Matches: 54, Mismatches: 11, Indels: 22
0.62 0.13 0.25
Matches are distributed among these distances:
30 4 0.07
31 3 0.06
32 1 0.02
33 2 0.04
34 12 0.22
35 2 0.04
36 3 0.06
37 17 0.31
38 2 0.04
39 1 0.02
40 3 0.06
41 4 0.07
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (37 bp):
TAAAGGTTTAGGTTGGATTGGTAACCTTACATGTATA
Found at i:10002675 original size:71 final size:71
Alignment explanation
Indices: 10002596--10002776 Score: 299
Period size: 71 Copynumber: 2.5 Consensus size: 71
10002586 ATTGTCGTTT
* *
10002596 TAAAGGTTTAGGTTGGATTGGTAACCTTACATGTATATAAAGATTTGGTCAAGCTATTTAATGTG
1 TAAAGGTTTAGCTTGGATTGGTAACCTTACATGTATATAAAGATTTGGCCAAGCTATTTAATGTG
10002661 CCAATA
66 CCAATA
10002667 TAAAGGTTTAGCTTGGATTGGTAACCTTACATGTATATAAAGATTTGGCCAAGCTATTTAATGTG
1 TAAAGGTTTAGCTTGGATTGGTAACCTTACATGTATATAAAGATTTGGCCAAGCTATTTAATGTG
10002732 CCAATA
66 CCAATA
* ** * *
10002738 CAAAGGTTTAGCTTGGACAGGTAACCTGACATGAATATA
1 TAAAGGTTTAGCTTGGATTGGTAACCTTACATGTATATA
10002777 TGATCAGCTC
Statistics
Matches: 103, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 103 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.34
Consensus pattern (71 bp):
TAAAGGTTTAGCTTGGATTGGTAACCTTACATGTATATAAAGATTTGGCCAAGCTATTTAATGTG
CCAATA
Found at i:10005485 original size:21 final size:21
Alignment explanation
Indices: 10005445--10005495 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
10005435 TTTAACAACT
10005445 TTAATT-AATCAATTTATTTAA
1 TTAATTAAATCAATTTATTT-A
10005466 TTAATTAAATCCAA-TT-TTTA
1 TTAATTAAAT-CAATTTATTTA
*
10005486 TTAATGAAAT
1 TTAATTAAAT
10005496 ATTTAAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 10 0.37
21 9 0.33
22 5 0.19
23 3 0.11
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (21 bp):
TTAATTAAATCAATTTATTTA
Found at i:10008949 original size:19 final size:21
Alignment explanation
Indices: 10008911--10008952 Score: 61
Period size: 19 Copynumber: 2.0 Consensus size: 21
10008901 TTTTCATGGC
10008911 ATAAATTTTAAAATTAAAATTA
1 ATAAATTTT-AAATTAAAATTA
10008933 ATAAATTTT-AA-TAAAATTA
1 ATAAATTTTAAATTAAAATTA
10008952 A
1 A
10008953 ATATTTCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 9 0.45
20 2 0.10
22 9 0.45
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
ATAAATTTTAAATTAAAATTA
Found at i:10010080 original size:22 final size:22
Alignment explanation
Indices: 10010055--10010109 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
10010045 ATTTTATTCT
10010055 AATTGTGATTCGTTATATGATA
1 AATTGTGATTCGTTATATGATA
10010077 AATTGTGATTCGTTATATGATA
1 AATTGTGATTCGTTATATGATA
10010099 AATTGTGATTC
1 AATTGTGATTC
10010110 TAAATGACTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.31, C:0.05, G:0.18, T:0.45
Consensus pattern (22 bp):
AATTGTGATTCGTTATATGATA
Found at i:10012286 original size:30 final size:30
Alignment explanation
Indices: 10012252--10012314 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
10012242 ACTTATTTTA
10012252 TTGTTAAATTTGTTATTATTTTAAAGACAT
1 TTGTTAAATTTGTTATTATTTTAAAGACAT
* * * *
10012282 TTGTTAATTTTGTTCTTATTTTAGAGGCAT
1 TTGTTAAATTTGTTATTATTTTAAAGACAT
10012312 TTG
1 TTG
10012315 CTTGTTAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.25, C:0.05, G:0.14, T:0.56
Consensus pattern (30 bp):
TTGTTAAATTTGTTATTATTTTAAAGACAT
Found at i:10018619 original size:17 final size:17
Alignment explanation
Indices: 10018565--10018623 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
10018555 TTATATCTAA
*
10018565 TATTTATATTATTAAAT
1 TATTTATATTATTGAAT
* *
10018582 TAAATTTCAAATT-TTGTAT
1 T--ATTT-ATATTATTGAAT
10018601 TATTTATATTATTGAAT
1 TATTTATATTATTGAAT
10018618 TATTTA
1 TATTTA
10018624 ATCATATTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
16 4 0.12
17 16 0.48
19 9 0.27
20 4 0.12
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (17 bp):
TATTTATATTATTGAAT
Found at i:10019176 original size:23 final size:22
Alignment explanation
Indices: 10019124--10019178 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 22
10019114 CACCCCTAAT
10019124 TATTATATATAAGTAAATTACGA
1 TATTATA-ATAAGTAAATTACGA
* *
10019147 -ATGTATAATAATTACAATTATGA
1 TAT-TATAATAAGTA-AATTACGA
10019170 TATTATAAT
1 TATTATAAT
10019179 GTACTTTCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
22 8 0.30
23 17 0.63
24 2 0.07
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.42
Consensus pattern (22 bp):
TATTATAATAAGTAAATTACGA
Found at i:10024412 original size:29 final size:29
Alignment explanation
Indices: 10024375--10024435 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
10024365 ACGGCTTGGG
*
10024375 ACACAGGCTGTCACACGGCCGTGTCTCAC
1 ACACAGGCTGTCACACGGCCATGTCTCAC
* * * *
10024404 ACACGGGCTGTTACACGGTCATGTGTCAC
1 ACACAGGCTGTCACACGGCCATGTCTCAC
10024433 ACA
1 ACA
10024436 TGGGTAGCCC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.23, C:0.33, G:0.25, T:0.20
Consensus pattern (29 bp):
ACACAGGCTGTCACACGGCCATGTCTCAC
Found at i:10024643 original size:19 final size:19
Alignment explanation
Indices: 10024579--10024647 Score: 61
Period size: 19 Copynumber: 3.6 Consensus size: 19
10024569 GCGTGTGAGG
* *
10024579 TAGCCACACAGGTGTGGGA
1 TAGCCACACAAGTATGGGA
**
10024598 TAGCCACACAACCATGTTTGG-
1 TAGCCACACAAGTATG---GGA
10024619 -AGCCACACAAGTATGGGA
1 TAGCCACACAAGTATGGGA
10024637 TAGCCACACAA
1 TAGCCACACAA
10024648 CCAAGTATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
17 2 0.05
19 22 0.56
20 13 0.33
22 2 0.05
ACGTcount: A:0.33, C:0.26, G:0.25, T:0.16
Consensus pattern (19 bp):
TAGCCACACAAGTATGGGA
Found at i:10029922 original size:16 final size:15
Alignment explanation
Indices: 10029899--10029932 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
10029889 GTAAATGTCA
10029899 AAATAGTAATTAAAC
1 AAATAGTAATTAAAC
10029914 AAATAAGTAATTAAAC
1 AAAT-AGTAATTAAAC
10029930 AAA
1 AAA
10029933 AAGATAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.24
Consensus pattern (15 bp):
AAATAGTAATTAAAC
Found at i:10032870 original size:27 final size:26
Alignment explanation
Indices: 10032839--10033016 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 26
10032829 TAAATTGTAC
10032839 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
10032866 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
10032892 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
10032920 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* *
10032948 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
10032975 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
10033002 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
10033017 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.01
27 103 0.80
28 25 0.19
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:10032955 original size:82 final size:81
Alignment explanation
Indices: 10032840--10032995 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
10032830 AAATTGTACA
* *
10032840 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
10032904 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
10032921 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
10032986 TGCGAGTTGA
65 TGCGAATTGA
10032996 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:10033007 original size:82 final size:81
Alignment explanation
Indices: 10032836--10033016 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
10032826 GATTAAATTG
* *
10032836 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
10032901 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
10032917 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
10032981 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
10032999 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
10033017 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:10033027 original size:27 final size:27
Alignment explanation
Indices: 10032921--10033027 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
10032911 TGACCATGCG
* * * *
10032921 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
10032949 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
10032976 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
10033003 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
10033028 CATTCGTGGA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:10034488 original size:23 final size:21
Alignment explanation
Indices: 10034470--10034535 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
10034460 CAGTTTCTCC
10034470 CCCTCGTTCTTGCTGGTTTCT
1 CCCTCGTTCTTGCTGGTTTCT
* * *
10034491 CCCTTGTTCTTGCTGGCTTGT
1 CCCTCGTTCTTGCTGGTTTCT
* * * *
10034512 CCATCATTTTTGCTAGTTTCT
1 CCCTCGTTCTTGCTGGTTTCT
10034533 CCC
1 CCC
10034536 CTCTTTTTTG
Statistics
Matches: 34, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.05, C:0.32, G:0.17, T:0.47
Consensus pattern (21 bp):
CCCTCGTTCTTGCTGGTTTCT
Found at i:10037694 original size:30 final size:30
Alignment explanation
Indices: 10037658--10038560 Score: 1535
Period size: 30 Copynumber: 30.2 Consensus size: 30
10037648 CATTGTATTT
*
10037658 GTGTATTTT-AAAATAAAAAATATATATCTA
1 GTGTATTTTAAAAATAAAAAA-ATATATGTA
10037688 GTGTATTTTAAAAAT-AAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
*
10037717 GTGTATTTTATAAATAAAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
10037747 GTGTATTTTAAAAAT-AAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
10037776 GTGTATTTTAAAAATAAAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
*
10037806 GTGTATTTTAAAAATAAAGAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
10037836 GTGTATTTTAAAAAT-AAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
10037865 GTGTATTTTAAAAAT-AAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
10037894 GTGTATTTTAAAAATAAAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
10037924 GTGTATTTTAAAAATAAAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
10037954 GTGTATTTTAAAAAT-AAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
10037983 GTGTATTTTAAAAATAAAAAAA-ATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
*
10038012 GTGTATTTTAAAAATAAAAAATATATGCATTATA
1 GTGTATTTTAAAAATAAAAAA-ATAT--A-TGTA
10038046 TTTGTGTATTTTAAAAATAAAAAAAATATATGTA
1 ---GTGTATTTTAAAAAT-AAAAAAATATATGTA
*
10038080 GTGTATTTTAAAAATAAAAAAATTTATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
10038110 GTGTATTTTAAAAATAAAAAAA-ATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
10038139 GTGTATTTTAAAAATAAAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
*
10038169 GTGTATTTTAAAAATAAAAAAA-ACATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
*
10038198 GTGTATTTTAAAAATAAAGAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
10038228 GTGTATTTTAAAAATAAAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
10038258 GTGTATTTTAAAAAT-AAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
10038287 GTGTATTTTAAAAAT-AAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
10038316 GTGTATTTTAAAAATAAAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
*
10038346 GTGTATTTTAAAAATAAAAAAATATATTTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
10038376 GTGTATTTTAAAAAT-AAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
*
10038405 GTGTATTTTAAAAATAAAAATATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
* *
10038435 GTGTGTTTTAAAAAT-AAAAAATATATGTG
1 GTGTATTTTAAAAATAAAAAAATATATGTA
10038464 GTGTATTTTAAAAATAAAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
10038494 GTGTATTTTAAAAATAAAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
10038524 GTGTATTTTAAAAATAAAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
10038554 GTGTATT
1 GTGTATT
10038561 CGATTTATTC
Statistics
Matches: 833, Mismatches: 21, Indels: 38
0.93 0.02 0.04
Matches are distributed among these distances:
29 332 0.40
30 446 0.54
31 22 0.03
33 1 0.00
34 6 0.01
35 1 0.00
37 19 0.02
38 6 0.01
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (30 bp):
GTGTATTTTAAAAATAAAAAAATATATGTA
Found at i:10037750 original size:59 final size:59
Alignment explanation
Indices: 10037658--10038560 Score: 1503
Period size: 59 Copynumber: 15.1 Consensus size: 59
10037648 CATTGTATTT
*
10037658 GTGTATTTT-AAAATAAAAAATATATATCTAGTGTATTTTAAAAATAAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAA-ATATATGTAGTGTATTTTAAAAATAAAAAATATATGTA
*
10037717 GTGTATTTTATAAATAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAATATATGTA
10037776 GTGTATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAATAAAGAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAATAAA-AAATATATGTA
10037836 GTGTATTTTAAAAAT-AAAAAATATATGTAGTGTATTTTAAAAATAAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAATATATGTA
10037894 GTGTATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAAT-AAAAAATATATGTA
*
10037954 GTGTATTTTAAAAAT-AAAAAATATATGTAGTGTATTTTAAAAATAAAAAAAATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAATATATGTA
*
10038012 GTGTATTTTAAAAATAAAAAATATATGCATTATATTTGTGTATTTTAAAAATAAAAAAAATATAT
1 GTGTATTTTAAAAATAAAAAA-ATAT--A-TGTA---GTGTATTTTAAAAAT--AAAAAATATAT
10038077 GTA
57 GTA
* *
10038080 GTGTATTTTAAAAATAAAAAAATTTATGTAGTGTATTTTAAAAATAAAAAAAATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAATATATGTA
* *
10038139 GTGTATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAAACATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAATATATGTA
*
10038198 GTGTATTTTAAAAATAAAGAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAAT-AAAAAATATATGTA
10038258 GTGTATTTTAAAAAT-AAAAAATATATGTAGTGTATTTTAAAAATAAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAATATATGTA
*
10038316 GTGTATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATTTA
1 GTGTATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAAT-AAAAAATATATGTA
10038376 GTGTATTTTAAAAAT-AAAAAATATATGTAGTGTATTTTAAAAATAAAAATATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAATAAAAA-ATATATGTA
* *
10038435 GTGTGTTTTAAAAAT-AAAAAATATATGTGGTGTATTTTAAAAATAAAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAAT-AAAAAATATATGTA
10038494 GTGTATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAAT-AAAAAATATATGTA
10038554 GTGTATT
1 GTGTATT
10038561 CGATTTATTC
Statistics
Matches: 803, Mismatches: 21, Indels: 39
0.93 0.02 0.05
Matches are distributed among these distances:
58 88 0.11
59 461 0.57
60 179 0.22
61 15 0.02
62 1 0.00
63 3 0.00
64 3 0.00
65 1 0.00
66 15 0.02
67 3 0.00
68 34 0.04
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (59 bp):
GTGTATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAATATATGTA
Found at i:10038912 original size:39 final size:39
Alignment explanation
Indices: 10038869--10038949 Score: 162
Period size: 39 Copynumber: 2.1 Consensus size: 39
10038859 ACTAAAGTGA
10038869 AAAGAAAACAATAGTTCAAGTAAAGCTTTAAAGATGAAC
1 AAAGAAAACAATAGTTCAAGTAAAGCTTTAAAGATGAAC
10038908 AAAGAAAACAATAGTTCAAGTAAAGCTTTAAAGATGAAC
1 AAAGAAAACAATAGTTCAAGTAAAGCTTTAAAGATGAAC
10038947 AAA
1 AAA
10038950 TCGATTGAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.20
Consensus pattern (39 bp):
AAAGAAAACAATAGTTCAAGTAAAGCTTTAAAGATGAAC
Found at i:10042430 original size:21 final size:21
Alignment explanation
Indices: 10042406--10042458 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
10042396 CATTGTTTCT
*
10042406 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
10042427 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
10042448 AATCTCACCGC
1 AATCTCACCGC
10042459 CACCACTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.38, G:0.09, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:10043410 original size:29 final size:29
Alignment explanation
Indices: 10043377--10043442 Score: 114
Period size: 29 Copynumber: 2.3 Consensus size: 29
10043367 ACAACCTGGG
10043377 ACACGGGCTGTCACACGACCATGTATCAC
1 ACACGGGCTGTCACACGACCATGTATCAC
* *
10043406 ACACGGGCTGTCACACGACCGTGTGTCAC
1 ACACGGGCTGTCACACGACCATGTATCAC
10043435 ACACGGGC
1 ACACGGGC
10043443 ATGTGCGCTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.24, C:0.35, G:0.26, T:0.15
Consensus pattern (29 bp):
ACACGGGCTGTCACACGACCATGTATCAC
Found at i:10043434 original size:15 final size:15
Alignment explanation
Indices: 10043385--10043436 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
10043375 GGACACGGGC
*
10043385 TGTCACACGACCATG
1 TGTCACACGACCGTG
* *
10043400 TATCACAC-A-CGGG
1 TGTCACACGACCGTG
10043413 CTGTCACACGACCGTG
1 -TGTCACACGACCGTG
10043429 TGTCACAC
1 TGTCACAC
10043437 ACGGGCATGT
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
13 2 0.07
14 8 0.28
15 16 0.55
16 3 0.10
ACGTcount: A:0.25, C:0.35, G:0.21, T:0.19
Consensus pattern (15 bp):
TGTCACACGACCGTG
Found at i:10059051 original size:3 final size:3
Alignment explanation
Indices: 10059043--10059115 Score: 87
Period size: 3 Copynumber: 24.3 Consensus size: 3
10059033 ACATGTGTAT
*
10059043 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GGA GAA GAA GAA GAA GATA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA-A
* *
10059092 -AA GGA -AA GAAA GAA GAT GAA GAA G
1 GAA GAA GAA G-AA GAA GAA GAA GAA G
10059116 GAAAATAAGG
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
2 2 0.03
3 54 0.90
4 4 0.07
ACGTcount: A:0.63, C:0.00, G:0.34, T:0.03
Consensus pattern (3 bp):
GAA
Found at i:10059116 original size:21 final size:20
Alignment explanation
Indices: 10059043--10059119 Score: 97
Period size: 21 Copynumber: 3.9 Consensus size: 20
10059033 ACATGTGTAT
10059043 GAAGAAGAAGAA-G-AAGAA
1 GAAGAAGAAGAAGGAAAGAA
10059061 GAAGAAGAAGAAGGAGAAGAA
1 GAAGAAGAAGAAGGA-AAGAA
10059082 GAAGAAGATA-AAGGAAAGAAA
1 GAAGAAGA-AGAAGGAAAG-AA
*
10059103 GAAGATGAAGAAGGAAA
1 GAAGAAGAAGAAGGAAA
10059120 ATAAGGAAAA
Statistics
Matches: 52, Mismatches: 1, Indels: 9
0.84 0.02 0.15
Matches are distributed among these distances:
18 12 0.23
19 1 0.02
20 4 0.08
21 34 0.65
22 1 0.02
ACGTcount: A:0.64, C:0.00, G:0.34, T:0.03
Consensus pattern (20 bp):
GAAGAAGAAGAAGGAAAGAA
Found at i:10064711 original size:25 final size:26
Alignment explanation
Indices: 10064663--10064716 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
10064653 CATAATTGAA
* * *
10064663 ATGAAATGGATTGATTTTGTATAT-T
1 ATGAAATAGATTGATTATGAATATAT
*
10064688 ATGAAATATATTGATTATGAATATAT
1 ATGAAATAGATTGATTATGAATATAT
10064714 ATG
1 ATG
10064717 TATTAAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 20 0.83
26 4 0.17
ACGTcount: A:0.39, C:0.00, G:0.17, T:0.44
Consensus pattern (26 bp):
ATGAAATAGATTGATTATGAATATAT
Found at i:10064721 original size:17 final size:15
Alignment explanation
Indices: 10064684--10064726 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
10064674 TGATTTTGTA
10064684 TATTATGAAATATAT
1 TATTATGAAATATAT
10064699 TGATTATGAATATATAT
1 T-ATTATGAA-ATATAT
*
10064716 GTATTAAGAAA
1 -TATTATGAAA
10064727 AATGTGATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
15 1 0.04
16 9 0.38
17 13 0.54
18 1 0.04
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.42
Consensus pattern (15 bp):
TATTATGAAATATAT
Found at i:10068267 original size:43 final size:41
Alignment explanation
Indices: 10068205--10068286 Score: 119
Period size: 43 Copynumber: 2.0 Consensus size: 41
10068195 TTTATCCTAG
* *
10068205 AAAAAAATTAAAAAGAGGAGAAGATAATCTTGGGTTGTTCA
1 AAAAAAATTAAAAAGAGGAGAAGATAAACATGGGTTGTTCA
*
10068246 AAAAAGAATTTAAAAATAGGAGAAGATAAACATGGGTTGTT
1 AAAAA-AA-TTAAAAAGAGGAGAAGATAAACATGGGTTGTT
10068287 GGATATACCT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
41 5 0.14
42 2 0.06
43 29 0.81
ACGTcount: A:0.50, C:0.04, G:0.22, T:0.24
Consensus pattern (41 bp):
AAAAAAATTAAAAAGAGGAGAAGATAAACATGGGTTGTTCA
Found at i:10073983 original size:43 final size:42
Alignment explanation
Indices: 10073901--10073984 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 42
10073891 TTTATCCTAG
* * *
10073901 AAAAAATAATTTAAAAAGAGGAGAAGATAATCTTGGTTGTTC
1 AAAAAAGAATTTAAAAAGAGGAGAAGATAAACTGGGTTGTTC
*
10073943 AAAAAAGAATTTAAAAAGAGGAGAATATAAACATGGGTTGTT
1 AAAAAAGAATTTAAAAAGAGGAGAAGATAAAC-TGGGTTGTT
10073985 GGATTTACCC
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 29 0.78
43 8 0.22
ACGTcount: A:0.50, C:0.04, G:0.20, T:0.26
Consensus pattern (42 bp):
AAAAAAGAATTTAAAAAGAGGAGAAGATAAACTGGGTTGTTC
Done.