Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, whole genome shotgun sequence
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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 116 of 160
Found at i:21780300 original size:17 final size:17
Alignment explanation
Indices: 21780278--21780311 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
21780268 TATAATGATA
*
21780278 ATATTATTTTGATAATT
1 ATATTATTATGATAATT
21780295 ATATTATTATGATAATT
1 ATATTATTATGATAATT
21780312 TTATAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (17 bp):
ATATTATTATGATAATT
Found at i:21783890 original size:41 final size:41
Alignment explanation
Indices: 21783845--21783925 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 41
21783835 TTCCATAATT
*
21783845 TTAAC-AAATACTACATTTTTTATATAAAAAAATAGTCTTTA
1 TTAACAAAACACTACA-TTTTTATATAAAAAAATAGTCTTTA
* *
21783886 TTAACAAAACACTACATTTTTATGTAAAAAAGTAGTCTTT
1 TTAACAAAACACTACATTTTTATATAAAAAAATAGTCTTT
21783926 TTTATATTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
41 27 0.75
42 9 0.25
ACGTcount: A:0.44, C:0.11, G:0.05, T:0.40
Consensus pattern (41 bp):
TTAACAAAACACTACATTTTTATATAAAAAAATAGTCTTTA
Found at i:21786322 original size:2 final size:2
Alignment explanation
Indices: 21786315--21786347 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
21786305 TCAATTGGTT
21786315 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
21786348 AGCCTTTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:21790667 original size:7 final size:7
Alignment explanation
Indices: 21790650--21790682 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
21790640 GAAAAAAGGT
21790650 AACAGAGC
1 AACA-AGC
21790658 AACAAGC
1 AACAAGC
21790665 AACAAGC
1 AACAAGC
21790672 AACAAGC
1 AACAAGC
21790679 AACA
1 AACA
21790683 GTAACTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 21 0.84
8 4 0.16
ACGTcount: A:0.58, C:0.27, G:0.15, T:0.00
Consensus pattern (7 bp):
AACAAGC
Found at i:21791612 original size:2 final size:2
Alignment explanation
Indices: 21791567--21791599 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
21791557 TCATAATCTA
21791567 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21791600 TACAACATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:21791695 original size:21 final size:22
Alignment explanation
Indices: 21791671--21791720 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
21791661 ACACATAAGA
21791671 TAATTTAAAAA-AAATAATTTT
1 TAATTTAAAAATAAATAATTTT
* *
21791692 TAA-TTAAAAATTAATTATTTT
1 TAATTTAAAAATAAATAATTTT
21791713 TAAATTTA
1 T-AATTTA
21791721 TTAAAATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 7 0.29
21 12 0.50
22 2 0.08
23 3 0.12
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TAATTTAAAAATAAATAATTTT
Found at i:21791720 original size:27 final size:27
Alignment explanation
Indices: 21791690--21791760 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
21791680 AAAAATAATT
21791690 TTTAATTAAAAATT--AATTATTTTTAAA
1 TTTAATTAAAAATTCAAATTA--TTTAAA
21791717 TTT-ATTAAAATATTCAAATTATTTAAA
1 TTTAATTAAAA-ATTCAAATTATTTAAA
*
21791744 -TTAATTGAAAA-TCAAAT
1 TTTAATTAAAAATTCAAAT
21791761 CAATTCAAAG
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
25 6 0.15
26 10 0.26
27 18 0.46
29 5 0.13
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.46
Consensus pattern (27 bp):
TTTAATTAAAAATTCAAATTATTTAAA
Found at i:21793173 original size:27 final size:27
Alignment explanation
Indices: 21793125--21793186 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
21793115 ATTAATTAAA
**
21793125 ATTAATATAT-TTTTATTTAAAATATAT
1 ATTAATATATATTTTATAAAAAAT-TAT
21793152 ATTAATATATATTTTA-AAAAAATTAT
1 ATTAATATATATTTTATAAAAAATTAT
21793178 -TTAA-ATATA
1 ATTAATATATA
21793187 CAAGATAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 5 0.16
25 4 0.12
26 3 0.09
27 15 0.47
28 5 0.16
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (27 bp):
ATTAATATATATTTTATAAAAAATTAT
Found at i:21793178 original size:24 final size:26
Alignment explanation
Indices: 21793125--21793186 Score: 60
Period size: 25 Copynumber: 2.4 Consensus size: 26
21793115 ATTAATTAAA
*
21793125 ATTAATATAT-TTTTATTTAAAATATAT
1 ATTAATATATATTTTA--TAAAAAATAT
21793152 ATTAATATATATTTTA-AAAAAAT-T
1 ATTAATATATATTTTATAAAAAATAT
21793176 ATTTAA-ATATA
1 A-TTAATATATA
21793187 CAAGATAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
24 7 0.22
25 10 0.31
27 10 0.31
28 5 0.16
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (26 bp):
ATTAATATATATTTTATAAAAAATAT
Found at i:21798838 original size:355 final size:350
Alignment explanation
Indices: 21798385--21799466 Score: 1349
Period size: 355 Copynumber: 3.0 Consensus size: 350
21798375 TATAACAAAT
** * *
21798385 TATTGAAGGTGTTTCATAATAAAAAATGCCTTTAATAATCCTAAAATTTTTTTAAGAAAATTATT
1 TATTGAAGGCATTTTATAATAAAAGATGCCTTTAATAATCCTAAAATTTTTTTAAGAAAATTATT
** * *
21798450 AAAGGCATTATTATCTGTAAACGCATTCACTAATTATCTACAAAATCTAATAGGAATTATTAAAT
66 AAAGGTGTTGTTATCTGTAAACGC-TTCACTAATTATCTACAAAATCTAATAGGAATTATTAAAG
* ** *
21798515 GTGTTTTTCTTGAATATACATATTCAATAATTGTGTTAAAATTTGTGTGACGGTATATTGAAGGT
130 GTATTTTTCTTGAATATACAT-TTCAATAACCGTGTTAAAATTTGTGTGACGGTATATTAAAGGT
*
21798580 ATTTTACAATAGAAAATGCCTTTAATAATTGCCAAAATTTTTCAAGGAAAAATATTGAAGGCGTC
194 ATTTTACAGTAGAAAATGCCTTTAATAATTGCCAAAATTTTT-AAGGAAAAATATTGAAGGCGTC
* * * *
21798645 TGTTATTAACAAACGCCTTTAGTACTAGATTACTGAGTTTAAAGGTATATTGAATGTGCTTTTTT
258 TGTTATTAACAAACGCCTTCAGTAAT-GATTACTAAGTTTAAAGGTATATTGAAGGT-CTTTTTT
* *
21798710 GAATAAACATCTTCTATAACCATTGTGATA
321 GAATAAACACCTTCTATAACCATCGTGATA
* ** *
21798740 TATTGAAGGCATTTTATAATAAAAGATGCCTTTAATAATCTTAAAAAATTTTTATGAAAATTATT
1 TATTGAAGGCATTTTATAATAAAAGATGCCTTTAATAATCCTAAAATTTTTTTAAGAAAATTATT
* *
21798805 GAAGGTGTTGTTATCTGTAAACGCTTGCACTAATTATCTATAAAATCTAATAGGAATTATTAAAG
66 AAAGGTGTTGTTATCTGTAAACGCTT-CACTAATTATCTACAAAATCTAATAGGAATTATTAAAG
* * * *
21798870 GTATTTTTATTGAATATACGCTTTCAATAACCATGTTAAAATTTGTGTGACGATATATTAAAGGT
130 GTATTTTTCTTGAATATAC-ATTTCAATAACCGTGTTAAAATTTGTGTGACGGTATATTAAAGGT
* ** ** * * * *
21798935 ATTTTACAGTAAAAAACACCTTTAATAATTTTCAAAATTTTTAGAGGAGAAATACTGAAGTCGTT
194 ATTTTACAGTAGAAAATGCCTTTAATAATTGCCAAAATTTTTA-AGGAAAAATATTGAAGGCGTC
* * * * * *
21799000 TGTTATTAACAAGCACCTCCAGTAATGGATTACTAAGTTTAAAGGCATATTGTAGGCACTTTTTT
258 TGTTATTAACAAACGCCTTCAGTAAT-GATTACTAAGTTTAAAGGTATATTGAAGG-TCTTTTTT
* * * *
21799065 GAGTAAACACCTTCTATAACCACCATGGTA
321 GAATAAACACCTTCTATAACCATCGTGATA
* * * * *
21799095 TATTAAAGGCATTTTATAATAAAAGACGCTTTTAATAATCCTAAATTTTTTTTAAAAAAAATTAT
1 TATTGAAGGCATTTTATAATAAAAGATGCCTTTAATAATCCTAAAATTTTTTT-AAGAAAATTAT
* *
21799160 TAAAGGTGTTGTTATCTGCAAACGCCTTTACTAATTATCTACAAAATCTAATAGGAATTATTAAA
65 TAAAGGTGTTGTTATCTGTAAACG-CTTCACTAATTATCTACAAAATCTAATAGGAATTATTAAA
* **
21799225 GGCATTTTTCTTGAATATACGCCTTCAATAACCGTGTTAAAATTTGTGTGACGGTATATTAAAGG
129 GGTATTTTTCTTGAATATAC-ATTTCAATAACCGTGTTAAAATTTGTGTGACGGTATATTAAAGG
* * *
21799290 CATTTTGCAGTAGAAAATGCCTTTAATAA-TGCCCAAAATTTTT-AGAGAGAAAATATTAAAGGC
193 TATTTTACAGTAGAAAATGCCTTTAATAATTG-CCAAAATTTTTAAG-GA-AAAATATTGAAGGC
* * * * *
21799353 GTCCGTCATTAACAAATGCCTTCCGTAATGAATTACTAAGTTTAAAGGTATATTGAAGGTATTTT
255 GTCTGTTATTAACAAACGCCTTCAGTAATG-ATTACTAAGTTTAAAGGTATATTGAAGGTCTTTT
* ** *
21799418 TCTAAATAAATGCCTTCTATAACCATCGTGATG
319 T-TGAATAAACACCTTCTATAACCATCGTGATA
*
21799451 TATCGAAGGCATTTTA
1 TATTGAAGGCATTTTA
21799467 CTATAGAAGA
Statistics
Matches: 616, Mismatches: 100, Indels: 21
0.84 0.14 0.03
Matches are distributed among these distances:
354 5 0.01
355 353 0.57
356 255 0.41
357 3 0.00
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (350 bp):
TATTGAAGGCATTTTATAATAAAAGATGCCTTTAATAATCCTAAAATTTTTTTAAGAAAATTATT
AAAGGTGTTGTTATCTGTAAACGCTTCACTAATTATCTACAAAATCTAATAGGAATTATTAAAGG
TATTTTTCTTGAATATACATTTCAATAACCGTGTTAAAATTTGTGTGACGGTATATTAAAGGTAT
TTTACAGTAGAAAATGCCTTTAATAATTGCCAAAATTTTTAAGGAAAAATATTGAAGGCGTCTGT
TATTAACAAACGCCTTCAGTAATGATTACTAAGTTTAAAGGTATATTGAAGGTCTTTTTTGAATA
AACACCTTCTATAACCATCGTGATA
Found at i:21806804 original size:21 final size:21
Alignment explanation
Indices: 21806771--21806823 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
21806761 AAGAGACCAG
* * * *
21806771 GAACGTGCCAAAATTAAGGAA
1 GAACATGCTAAAATGAAGCAA
*
21806792 GAACATGCTAAAATGCAGCAA
1 GAACATGCTAAAATGAAGCAA
*
21806813 GAGCATGCTAA
1 GAACATGCTAA
21806824 TTTCAGTAGT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.15
Consensus pattern (21 bp):
GAACATGCTAAAATGAAGCAA
Found at i:21808598 original size:26 final size:25
Alignment explanation
Indices: 21808543--21808600 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
21808533 AATTTTTCAT
* *
21808543 TAATTTTTTTTAATTGCAATTATAG
1 TAATTTTTTTTAATCGCAATTATAA
*
21808568 TAATTTTTTTTAATCGTAATTATAA
1 TAATTTTTTTTAATCGCAATTATAA
*
21808593 TAAATTTT
1 TAATTTTT
21808601 ATTATTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.57
Consensus pattern (25 bp):
TAATTTTTTTTAATCGCAATTATAA
Found at i:21812196 original size:33 final size:33
Alignment explanation
Indices: 21812154--21812220 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
21812144 GGTTTTATAA
21812154 AAAGAACCAATTGAGGTCTACAAAATTAGATTT
1 AAAGAACCAATTGAGGTCTACAAAATTAGATTT
*
21812187 AAAGAACCAATTGAGGTCTACGAAATTAGATTT
1 AAAGAACCAATTGAGGTCTACAAAATTAGATTT
21812220 A
1 A
21812221 GGGTTCGAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.45, C:0.12, G:0.16, T:0.27
Consensus pattern (33 bp):
AAAGAACCAATTGAGGTCTACAAAATTAGATTT
Found at i:21812752 original size:17 final size:18
Alignment explanation
Indices: 21812717--21812754 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
21812707 ATGAAGAATG
*
21812717 AATGCATGACAATATAAA
1 AATGCATGACAATAGAAA
*
21812735 AATGCATG-TAATAGAAA
1 AATGCATGACAATAGAAA
21812752 AAT
1 AAT
21812755 AAGATGAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.55, C:0.08, G:0.13, T:0.24
Consensus pattern (18 bp):
AATGCATGACAATAGAAA
Found at i:21812890 original size:7 final size:7
Alignment explanation
Indices: 21812878--21812936 Score: 68
Period size: 7 Copynumber: 8.4 Consensus size: 7
21812868 GAGGTCTAGG
21812878 TTAAGGT
1 TTAAGGT
21812885 TTAAGGT
1 TTAAGGT
*
21812892 TTAGGGT
1 TTAAGGT
21812899 TT-AGAGT
1 TTAAG-GT
21812906 TT-AGGAT
1 TTAAGG-T
21812913 TTAAGGT
1 TTAAGGT
21812920 TTAAGGT
1 TTAAGGT
*
21812927 TTAAGAT
1 TTAAGGT
21812934 TTA
1 TTA
21812937 GTGTTTATAG
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
6 2 0.04
7 41 0.89
8 3 0.07
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (7 bp):
TTAAGGT
Found at i:21812901 original size:14 final size:14
Alignment explanation
Indices: 21812882--21812955 Score: 80
Period size: 14 Copynumber: 5.3 Consensus size: 14
21812872 TCTAGGTTAA
21812882 GGTTTAAGGTTTAG
1 GGTTTAAGGTTTAG
21812896 GGTTT-AGAGTTTAG
1 GGTTTAAG-GTTTAG
* *
21812910 GATTTAAGGTTTAA
1 GGTTTAAGGTTTAG
*
21812924 GGTTTAAGATTTAG
1 GGTTTAAGGTTTAG
*
21812938 TGTTTATA-GTTTAG
1 GGTTTA-AGGTTTAG
21812952 GGTT
1 GGTT
21812956 AAAAATTTAG
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
13 2 0.04
14 44 0.90
15 3 0.06
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (14 bp):
GGTTTAAGGTTTAG
Found at i:21812915 original size:21 final size:20
Alignment explanation
Indices: 21812878--21812952 Score: 71
Period size: 21 Copynumber: 3.5 Consensus size: 20
21812868 GAGGTCTAGG
21812878 TTAAGGTTTAAGG-TTTAGGGT
1 TTAA-GTTT-AGGATTTAGGGT
*
21812899 TTAGAGTTTAGGATTTAAGGT
1 TTA-AGTTTAGGATTTAGGGT
* *
21812920 TTAAGGTTTAAGATTTAGTGT
1 TTAA-GTTTAGGATTTAGGGT
21812941 TTATAGTTTAGG
1 TTA-AGTTTAGG
21812953 GTTAAAAATT
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
20 4 0.09
21 39 0.87
22 2 0.04
ACGTcount: A:0.27, C:0.00, G:0.28, T:0.45
Consensus pattern (20 bp):
TTAAGTTTAGGATTTAGGGT
Found at i:21812971 original size:28 final size:28
Alignment explanation
Indices: 21812884--21812972 Score: 92
Period size: 28 Copynumber: 3.2 Consensus size: 28
21812874 TAGGTTAAGG
* * *
21812884 TTTAAGGTTTAGGGTTTAGAGTTTAGGA
1 TTTAAGGTTTAGGGTTTAAAATTTAGGT
* *
21812912 TTTAAGGTTTAAGGTTTAAGATTTA-GT
1 TTTAAGGTTTAGGGTTTAAAATTTAGGT
*
21812939 GTTTATA-GTTTAGGGTTAAAAATTTAGGT
1 -TTTA-AGGTTTAGGGTTTAAAATTTAGGT
21812968 TTTAA
1 TTTAA
21812973 TGAGAAATGC
Statistics
Matches: 50, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
27 2 0.04
28 45 0.90
29 3 0.06
ACGTcount: A:0.29, C:0.00, G:0.25, T:0.46
Consensus pattern (28 bp):
TTTAAGGTTTAGGGTTTAAAATTTAGGT
Found at i:21816699 original size:199 final size:197
Alignment explanation
Indices: 21816309--21816702 Score: 434
Period size: 199 Copynumber: 2.0 Consensus size: 197
21816299 TCAACCAAAA
* *
21816309 TTTTTTATTTGGAAAAAATATAATTACTTGTATTGAAATTTCATCTAAATCATTCCACAATTTGG
1 TTTTTTATTTGAAAAAAATATAATTACTTGTATTGAAAATTCATCTAAATCATTCCACAATTTGG
*
21816374 ATCAAATTTAAAGAAAATTTCTCACATAGAGATTTCTTAAAAAATTTACCATTTAAAATTTCTAA
66 ATCAAATTTAAAGAAAATTTCTCACATAGAAATTTCTTAAAAAATTTACCATTTAAAATTTCTAA
* * ** *
21816439 GAATCTCATCCTTAGGTAATTTGTATTTAATTCCAAAAATTTTTATATTTTTATATATATTTTTA
131 GAATCTCATCATTAGATAATTAATATTTAATTCCAAAAATTTTTATATTTATATATATATTTTTA
21816504 AT
196 AT
* * *
21816506 TTTTTTGTTTGAAAATAAATATTAATTA-TTGTTATTGAAACATT-ATCTAAATTATTCCACCAT
1 TTTTTTATTTGAAAA-AAATA-TAATTACTTG-TATTGAAA-ATTCATCTAAATCATTCCACAAT
* * *
21816569 TTAGGA-CAAATTTAGACA-AAAATTTCTCACCTAGAAA-TT-TTATAGAAATTTACCATTTGAA
62 TT-GGATCAAATTTA-A-AGAAAATTTCTCACATAGAAATTTCTTA-AAAAATTTACCATTTAAA
*
21816630 ATTTCTATA-AAT-TCCATCATT-GAATAATTAATATTT-ATTATC-AAAATATTTTAT-TTTAT
123 ATTTCTA-AGAATCT-CATCATTAG-ATAATTAATATTTAATT-CCAAAAAT-TTTTATATTTAT
*
21816689 ATTTTATATTTTTA
183 A-TATATATTTTTA
21816703 TAAATTTAAT
Statistics
Matches: 167, Mismatches: 16, Indels: 26
0.80 0.08 0.12
Matches are distributed among these distances:
197 13 0.08
198 26 0.16
199 103 0.62
200 24 0.14
201 1 0.01
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.45
Consensus pattern (197 bp):
TTTTTTATTTGAAAAAAATATAATTACTTGTATTGAAAATTCATCTAAATCATTCCACAATTTGG
ATCAAATTTAAAGAAAATTTCTCACATAGAAATTTCTTAAAAAATTTACCATTTAAAATTTCTAA
GAATCTCATCATTAGATAATTAATATTTAATTCCAAAAATTTTTATATTTATATATATATTTTTA
AT
Found at i:21816766 original size:12 final size:11
Alignment explanation
Indices: 21816728--21816784 Score: 55
Period size: 12 Copynumber: 4.9 Consensus size: 11
21816718 AAGAAAAAGA
21816728 AAAAAAATACT
1 AAAAAAATACT
21816739 AAAAACAAATTACT
1 -AAAA-AAA-TACT
21816753 AAGAAAAATACT
1 AA-AAAAATACT
21816765 AAATAAAATA--
1 AAA-AAAATACT
21816775 AAAAAAATAC
1 AAAAAAATAC
21816785 CAAAGAAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
9 6 0.15
10 3 0.08
11 1 0.03
12 16 0.40
13 8 0.20
14 6 0.15
ACGTcount: A:0.72, C:0.09, G:0.02, T:0.18
Consensus pattern (11 bp):
AAAAAAATACT
Found at i:21817878 original size:41 final size:41
Alignment explanation
Indices: 21817808--21818032 Score: 292
Period size: 41 Copynumber: 5.4 Consensus size: 41
21817798 TAGAGACAAT
*
21817808 AGAACTTTGAAAAAATAAATTGTTTCTCTAAATAAAGGCAAC
1 AGAACTTTG-AAAAATAAATTGTTCCTCTAAATAAAGGCAAC
*
21817850 AGAACTTAGAAAAATAAATTGTTCCTCTAAATAAAGGCAAC
1 AGAACTTTGAAAAATAAATTGTTCCTCTAAATAAAGGCAAC
* * *
21817891 AAAACTTTGAAAAATAAAATTGCTACTCTAAATAAAGGCAAC
1 AGAACTTTGAAAAAT-AAATTGTTCCTCTAAATAAAGGCAAC
* * * * *
21817933 AGAACTTTAGAAAAATAAATTGCTT-ATTTACATAGAGGTAAC
1 AGAACTTT-GAAAAATAAATTG-TTCCTCTAAATAAAGGCAAC
* *
21817975 AGAACTTTGAAAAATAAATTGCTCCTCTAAATAGAGGCAAC
1 AGAACTTTGAAAAATAAATTGTTCCTCTAAATAAAGGCAAC
21818016 AGAACTTTG-AAAATAAA
1 AGAACTTTGAAAAATAAA
21818033 ATCACTCATT
Statistics
Matches: 161, Mismatches: 18, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
40 9 0.06
41 79 0.49
42 65 0.40
43 8 0.05
ACGTcount: A:0.48, C:0.13, G:0.12, T:0.26
Consensus pattern (41 bp):
AGAACTTTGAAAAATAAATTGTTCCTCTAAATAAAGGCAAC
Found at i:21817931 original size:83 final size:83
Alignment explanation
Indices: 21817810--21818032 Score: 292
Period size: 83 Copynumber: 2.7 Consensus size: 83
21817800 GAGACAATAG
* *
21817810 AACTTTGAAAAA-ATAAATTGTTTCTCTAAATAAAGGCAACAGAACTTAGAAAAATAAATTG-TT
1 AACTTTGAAAAATA-AAATTGCTACTCTAAATAAAGGCAACAGAACTTAGAAAAATAAATTGCTT
*
21817873 CCTCTAAATAAAGGCAACAA
65 -ATCTAAATAAAGGCAACAA
21817893 AACTTTGAAAAATAAAATTGCTACTCTAAATAAAGGCAACAGAACTTTAGAAAAATAAATTGCTT
1 AACTTTGAAAAATAAAATTGCTACTCTAAATAAAGGCAACAGAAC-TTAGAAAAATAAATTGCTT
* * * * *
21817958 ATTTACATAGAGGTAACAG
65 ATCTAAATAAAGGCAACAA
* * *
21817977 AACTTTGAAAAAT-AAATTGCTCCTCTAAATAGAGGCAACAGAACTTTG-AAAATAAA
1 AACTTTGAAAAATAAAATTGCTACTCTAAATAAAGGCAACAGAACTTAGAAAAATAAA
21818033 ATCACTCATT
Statistics
Matches: 126, Mismatches: 11, Indels: 8
0.87 0.08 0.06
Matches are distributed among these distances:
81 8 0.06
82 3 0.02
83 70 0.56
84 43 0.34
85 2 0.02
ACGTcount: A:0.48, C:0.13, G:0.12, T:0.26
Consensus pattern (83 bp):
AACTTTGAAAAATAAAATTGCTACTCTAAATAAAGGCAACAGAACTTAGAAAAATAAATTGCTTA
TCTAAATAAAGGCAACAA
Found at i:21818014 original size:125 final size:124
Alignment explanation
Indices: 21817808--21818034 Score: 339
Period size: 125 Copynumber: 1.8 Consensus size: 124
21817798 TAGAGACAAT
* * *
21817808 AGAACTTTGAAAAAATAAATTGTTTCTCTAAATAAAGGCAACAGAACTTAGAAAAATAAATTGTT
1 AGAACTTTGAAAAAATAAATTGCTTATCTAAATAAAGGCAACAGAACTTAGAAAAATAAATTGCT
21817873 CCTCTAAATAAAGGCAACAAAACTTTGAAAAATAAAATTGCTACTCTAAATAAAGGCAAC
66 CCTCTAAATAAAGGCAACAAAACTTTG-AAAATAAAATTGCTACTCTAAATAAAGGCAAC
* * * * *
21817933 AGAACTTT-AGAAAAATAAATTGCTTATTTACATAGAGGTAACAGAACTTTGAAAAATAAATTGC
1 AGAACTTTGA-AAAAATAAATTGCTTATCTAAATAAAGGCAACAGAACTTAGAAAAATAAATTGC
* *
21817997 TCCTCTAAATAGAGGCAACAGAACTTTGAAAATAAAAT
65 TCCTCTAAATAAAGGCAACAAAACTTTGAAAATAAAAT
21818035 CACTCATTGA
Statistics
Matches: 91, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
124 11 0.12
125 80 0.88
ACGTcount: A:0.48, C:0.13, G:0.12, T:0.26
Consensus pattern (124 bp):
AGAACTTTGAAAAAATAAATTGCTTATCTAAATAAAGGCAACAGAACTTAGAAAAATAAATTGCT
CCTCTAAATAAAGGCAACAAAACTTTGAAAATAAAATTGCTACTCTAAATAAAGGCAAC
Found at i:21818368 original size:20 final size:20
Alignment explanation
Indices: 21818343--21818381 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
21818333 ACATATAAAA
21818343 GTTCAAAGCTTCTCATTCAG
1 GTTCAAAGCTTCTCATTCAG
* *
21818363 GTTCAATGGTTCTCATTCA
1 GTTCAAAGCTTCTCATTCA
21818382 ATAAATCTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (20 bp):
GTTCAAAGCTTCTCATTCAG
Found at i:21818485 original size:21 final size:21
Alignment explanation
Indices: 21818432--21818487 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
21818422 AACTTAAAAC
21818432 TCAAAGACTCTTC-TTTGAAAT
1 TCAAAGACTC-TCATTTGAAAT
*
21818453 TCAAAGATTCTCATTTGAAAT
1 TCAAAGACTCTCATTTGAAAT
21818474 TCAAAGACTCTCAT
1 TCAAAGACTCTCAT
21818488 AAAAAAGGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 2 0.06
21 30 0.94
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.36
Consensus pattern (21 bp):
TCAAAGACTCTCATTTGAAAT
Found at i:21819705 original size:8 final size:8
Alignment explanation
Indices: 21819694--21819724 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
21819684 CTCCTTTTCA
21819694 TTTTTTATT
1 TTTTTTA-T
21819703 TTTTTTAT
1 TTTTTTAT
21819711 TTTTTTAT
1 TTTTTTAT
21819719 TTTTTT
1 TTTTTT
21819725 CCTTCATTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 15 0.68
9 7 0.32
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (8 bp):
TTTTTTAT
Found at i:21819708 original size:9 final size:9
Alignment explanation
Indices: 21819694--21819724 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
21819684 CTCCTTTTCA
21819694 TTTTTTATT
1 TTTTTTATT
21819703 TTTTTTA-T
1 TTTTTTATT
21819711 TTTTTTATT
1 TTTTTTATT
21819720 TTTTT
1 TTTTT
21819725 CCTTCATTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (9 bp):
TTTTTTATT
Found at i:21822654 original size:23 final size:23
Alignment explanation
Indices: 21822624--21822743 Score: 142
Period size: 23 Copynumber: 5.4 Consensus size: 23
21822614 AAATGACATA
21822624 AATGATGCATATAATGAAATGAT
1 AATGATGCATATAATGAAATGAT
*
21822647 AATGATGCACATAATG--A--AT
1 AATGATGCATATAATGAAATGAT
*
21822666 -ATGATGCATAGAATGAAATGAT
1 AATGATGCATATAATGAAATGAT
* * *
21822688 AATAATGCATGTAATGAATATGAA
1 AATGATGCATATAATGAA-ATGAT
*
21822712 AATGATGCATAGAATGAAATGAT
1 AATGATGCATATAATGAAATGAT
21822735 AATGATGCA
1 AATGATGCA
21822744 AGTGCAAAAA
Statistics
Matches: 80, Mismatches: 11, Indels: 12
0.78 0.11 0.12
Matches are distributed among these distances:
18 13 0.16
19 2 0.03
20 1 0.01
21 1 0.01
22 2 0.03
23 42 0.52
24 19 0.24
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (23 bp):
AATGATGCATATAATGAAATGAT
Found at i:21822669 original size:18 final size:17
Alignment explanation
Indices: 21822641--21822687 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
21822631 CATATAATGA
*
21822641 AATGATAATGATGCACAT
1 AATGA-AATGATGCACAG
*
21822659 AATGAATATGATGCATAG
1 AATGAA-ATGATGCACAG
21822677 AATGAAATGAT
1 AATGAAATGAT
21822688 AATAATGCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 6 0.23
18 20 0.77
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (17 bp):
AATGAAATGATGCACAG
Found at i:21822675 original size:41 final size:44
Alignment explanation
Indices: 21822623--21822743 Score: 158
Period size: 47 Copynumber: 2.8 Consensus size: 44
21822613 AAAATGACAT
* *
21822623 AAATGATGCATATAATGAAATGATAATGATGCA-CAT-A-ATGA
1 AAATGATGCATAGAATGAAATGATAATGATGCATAATAATATGA
* *
21822664 ATATGATGCATAGAATGAAATGATAATAATGCATGTAATGAATATGA
1 AAATGATGCATAGAATGAAATGATAATGATGCA--TAAT-AATATGA
21822711 AAATGATGCATAGAATGAAATGATAATGATGCA
1 AAATGATGCATAGAATGAAATGATAATGATGCA
21822744 AGTGCAAAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
41 30 0.44
44 2 0.03
46 1 0.01
47 35 0.51
ACGTcount: A:0.48, C:0.06, G:0.19, T:0.27
Consensus pattern (44 bp):
AAATGATGCATAGAATGAAATGATAATGATGCATAATAATATGA
Found at i:21824210 original size:8 final size:8
Alignment explanation
Indices: 21824197--21824234 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
21824187 AATTCCAAAA
21824197 ATTTTTAT
1 ATTTTTAT
21824205 ATTTTTAT
1 ATTTTTAT
*
21824213 GTTTTTTAT
1 -ATTTTTAT
21824222 ATTTTT-T
1 ATTTTTAT
21824229 ATTTTT
1 ATTTTT
21824235 TTTGGTTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
7 7 0.26
8 13 0.48
9 7 0.26
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (8 bp):
ATTTTTAT
Found at i:21824220 original size:17 final size:17
Alignment explanation
Indices: 21824198--21824236 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
21824188 ATTCCAAAAA
21824198 TTTTTATA-TTTTTATGT
1 TTTTTATATTTTTTAT-T
21824215 TTTTTATATTTTTTATT
1 TTTTTATATTTTTTATT
21824232 TTTTT
1 TTTTT
21824237 TGGTTTGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (17 bp):
TTTTTATATTTTTTATT
Found at i:21824237 original size:9 final size:9
Alignment explanation
Indices: 21824198--21824236 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
21824188 ATTCCAAAAA
21824198 TTTTTATA-
1 TTTTTATAT
*
21824206 TTTTTATGT
1 TTTTTATAT
21824215 TTTTTATAT
1 TTTTTATAT
21824224 TTTTTAT-T
1 TTTTTATAT
21824232 TTTTT
1 TTTTT
21824237 TGGTTTGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 13 0.46
9 15 0.54
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (9 bp):
TTTTTATAT
Found at i:21824481 original size:20 final size:19
Alignment explanation
Indices: 21824455--21824498 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
21824445 AAAGAAAAAG
* *
21824455 AAAAAAAATACTAAATAAA
1 AAAAAAAATACCAAAGAAA
21824474 ATAAAAAAATACCAAAGAAA
1 A-AAAAAAATACCAAAGAAA
21824494 AAAAA
1 AAAAA
21824499 TGACTCGGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.80, C:0.07, G:0.02, T:0.11
Consensus pattern (19 bp):
AAAAAAAATACCAAAGAAA
Found at i:21830078 original size:10 final size:11
Alignment explanation
Indices: 21830040--21830078 Score: 55
Period size: 10 Copynumber: 3.6 Consensus size: 11
21830030 TCTAAATGTG
21830040 AATTTTATATAA
1 AATTTTATAT-A
21830052 AATTTT-TATA
1 AATTTTATATA
21830062 AATTTTATAT-
1 AATTTTATATA
21830072 AATTTTA
1 AATTTTA
21830079 AATTATAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 14 0.54
11 6 0.23
12 6 0.23
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
AATTTTATATA
Found at i:21836156 original size:3 final size:3
Alignment explanation
Indices: 21836150--21836274 Score: 105
Period size: 3 Copynumber: 41.0 Consensus size: 3
21836140 GATTTTCATC
* * *
21836150 ATT ATT ATT ACT ATT ATTT ATT ATT ATT ATT AGT ATT ATT ATTT GTT
1 ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT A-TT ATT
* * *
21836197 ATT ATT AAT ACT A-T AGTT AGT ATGCT ATT -TT A-T ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT A-TT ATT AT--T ATT ATT ATT ATT ATT ATT ATT
*
21836242 ATT ATT ATT ATT ACTT -TT ACT ATT ATT ATT ATT
1 ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT
21836275 TTCTTTCTTT
Statistics
Matches: 100, Mismatches: 12, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
2 8 0.08
3 80 0.80
4 9 0.09
5 3 0.03
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:21837117 original size:26 final size:25
Alignment explanation
Indices: 21837070--21837124 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
21837060 AATCGCAGGT
*
21837070 TTTTCTTTTTCTATTTCTATTTT-A
1 TTTTCTTTTTATATTTCTATTTTGA
*
21837094 TTTTCTTTTTATATATTTTGATTTTGA
1 TTTTCTTTTTATAT-TTCT-ATTTTGA
21837121 TTTT
1 TTTT
21837125 TAGTTTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 13 0.50
25 3 0.12
26 5 0.19
27 5 0.19
ACGTcount: A:0.15, C:0.07, G:0.04, T:0.75
Consensus pattern (25 bp):
TTTTCTTTTTATATTTCTATTTTGA
Found at i:21837381 original size:22 final size:21
Alignment explanation
Indices: 21837353--21837395 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
21837343 CAAACTATTG
*
21837353 AAAAATTTCATAAATAAATTTC
1 AAAAATTTCAAAAAT-AATTTC
21837375 AAAAATTTCAAAAATAATTTC
1 AAAAATTTCAAAAATAATTTC
21837396 TATCTTCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (21 bp):
AAAAATTTCAAAAATAATTTC
Found at i:21837573 original size:37 final size:37
Alignment explanation
Indices: 21837518--21837602 Score: 143
Period size: 37 Copynumber: 2.3 Consensus size: 37
21837508 ATAAAATCTC
* *
21837518 ACCAAACTATTGAGAGATTTACTTTAAAGTAAGTTCT
1 ACCAAACTATTAAAAGATTTACTTTAAAGTAAGTTCT
*
21837555 ACCAAACTATTAAAAGATTTGCTTTAAAGTAAGTTCT
1 ACCAAACTATTAAAAGATTTACTTTAAAGTAAGTTCT
21837592 ACCAAACTATT
1 ACCAAACTATT
21837603 GGGAGTCTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (37 bp):
ACCAAACTATTAAAAGATTTACTTTAAAGTAAGTTCT
Found at i:21841886 original size:13 final size:11
Alignment explanation
Indices: 21841866--21841988 Score: 84
Period size: 11 Copynumber: 11.3 Consensus size: 11
21841856 AAGAAAAGAG
21841866 AAATGAAAAGAA
1 AAATGAAAA-AA
21841878 AAGATGAAAAAA
1 AA-ATGAAAAAA
21841890 ATATATG-AAAAA
1 A-A-ATGAAAAAA
21841902 AAAT-AAAAATA
1 AAATGAAAAA-A
*
21841913 AAA-AATAAAAA
1 AAATGA-AAAAA
21841924 AAAT--AAAAA
1 AAATGAAAAAA
21841933 AAAT-AAAAAA
1 AAATGAAAAAA
21841943 AAA-GAAACAAA
1 AAATGAAA-AAA
*
21841954 AAA-GAGAAAA
1 AAATGAAAAAA
21841964 AAA-GTAAAAAA
1 AAATG-AAAAAA
*
21841975 AAAAGAAAAAA
1 AAATGAAAAAA
21841986 AAA
1 AAA
21841989 AGACTTAAAC
Statistics
Matches: 96, Mismatches: 3, Indels: 25
0.77 0.02 0.20
Matches are distributed among these distances:
9 9 0.09
10 24 0.25
11 36 0.38
12 16 0.17
13 11 0.11
ACGTcount: A:0.82, C:0.01, G:0.08, T:0.09
Consensus pattern (11 bp):
AAATGAAAAAA
Found at i:21841901 original size:1 final size:1
Alignment explanation
Indices: 21841897--21841989 Score: 78
Period size: 1 Copynumber: 93.0 Consensus size: 1
21841887 AAAATATATG
* * * * * * * * *
21841897 AAAAAAAATAAAAATAAAAAATAAAAAAAATAAAAAAAATAAAAAAAAAGAAACAAAAAAGAGAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
** *
21841962 AAAAAGTAAAAAAAAAAGAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
21841990 GACTTAAACT
Statistics
Matches: 69, Mismatches: 23, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 69 1.00
ACGTcount: A:0.87, C:0.01, G:0.05, T:0.06
Consensus pattern (1 bp):
A
Found at i:21841909 original size:22 final size:20
Alignment explanation
Indices: 21841884--21841987 Score: 95
Period size: 21 Copynumber: 5.0 Consensus size: 20
21841874 AGAAAAGATG
21841884 AAAAAAATATATGAAAAAAAAT
1 AAAAAAA-ATA-GAAAAAAAAT
* *
21841906 AAAAATAAAAAATAAAAAAAAT
1 -AAAA-AAAATAGAAAAAAAAT
*
21841928 AAAAAAAATA-AAAAAAAAG
1 AAAAAAAATAGAAAAAAAAT
21841947 AAACAAAAA-AGAGAAAAAAAGT
1 AAA-AAAAATAGA-AAAAAAA-T
*
21841969 AAAAAAAAAAGAAAAAAAA
1 AAAAAAAATAGAAAAAAAA
21841988 AAGACTTAAA
Statistics
Matches: 70, Mismatches: 5, Indels: 14
0.79 0.06 0.16
Matches are distributed among these distances:
19 12 0.17
20 11 0.16
21 23 0.33
22 15 0.21
23 6 0.09
24 3 0.04
ACGTcount: A:0.85, C:0.01, G:0.06, T:0.09
Consensus pattern (20 bp):
AAAAAAAATAGAAAAAAAAT
Found at i:21841963 original size:20 final size:20
Alignment explanation
Indices: 21841896--21841986 Score: 96
Period size: 20 Copynumber: 4.4 Consensus size: 20
21841886 AAAAATATAT
*
21841896 GAAAAAAAATAAAAATAAAAAA
1 GAAAAAAAGT-AAAA-AAAAAA
* *
21841918 TAAAAAAAATAAAAAAAATAA
1 GAAAAAAAGTAAAAAAAA-AA
21841939 -AAAAAAAG-AAACAAAAAAGA
1 GAAAAAAAGTAAA-AAAAAA-A
21841959 GAAAAAAAGTAAAAAAAAAA
1 GAAAAAAAGTAAAAAAAAAA
21841979 GAAAAAAA
1 GAAAAAAA
21841987 AAAGACTTAA
Statistics
Matches: 62, Mismatches: 2, Indels: 12
0.82 0.03 0.16
Matches are distributed among these distances:
19 4 0.06
20 26 0.42
21 20 0.32
22 12 0.19
ACGTcount: A:0.86, C:0.01, G:0.07, T:0.07
Consensus pattern (20 bp):
GAAAAAAAGTAAAAAAAAAA
Found at i:21841988 original size:22 final size:21
Alignment explanation
Indices: 21841897--21841988 Score: 100
Period size: 22 Copynumber: 4.4 Consensus size: 21
21841887 AAAATATATG
21841897 AAAAAAAATAAAAATAAAAA-A
1 AAAAAAAATAAAAA-AAAAAGA
*
21841918 TAAAAAAAAT--AAAAAAAATA
1 -AAAAAAAATAAAAAAAAAAGA
* *
21841938 AAAAAAAAGAAACAAAAAAGA
1 AAAAAAAATAAAAAAAAAAGA
*
21841959 GAAAAAAAGTAAAAAAAAAAGA
1 -AAAAAAAATAAAAAAAAAAGA
21841981 AAAAAAAA
1 AAAAAAAA
21841989 AGACTTAAAC
Statistics
Matches: 59, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
19 13 0.22
20 4 0.07
21 15 0.25
22 27 0.46
ACGTcount: A:0.87, C:0.01, G:0.05, T:0.07
Consensus pattern (21 bp):
AAAAAAAATAAAAAAAAAAGA
Found at i:21843302 original size:3 final size:3
Alignment explanation
Indices: 21843296--21843497 Score: 113
Period size: 3 Copynumber: 69.0 Consensus size: 3
21843286 GATTTTCATC
** *
21843296 ATT ATT ATT ACA ATT ATT -TT ATT ATT ATT ATT AGT ATT ATT ATCT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T
* * * * * * *
21843341 GTT ATT ATG AAT ACT ATA ATAT AAT ATT -CT ATT -TT A-T ATT ATT
1 ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT
* *
21843384 ATT ATT ATT ATT ATT ATT A-T AGT A-T AGCTT ATT ATT A-T AGT A-T
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A--TT ATT ATT ATT ATT ATT
* * * *
21843427 AGCTT ATT ATT A-T AGT A-T AGT ATT ATGT GTT ATT A-T ATT GTT ATT
1 A--TT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT
21843472 ATT ATT ATT ATT ATT ATT ATT -TT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
21843498 TTCTTTCTTT
Statistics
Matches: 156, Mismatches: 24, Indels: 38
0.72 0.11 0.17
Matches are distributed among these distances:
2 23 0.15
3 124 0.79
4 5 0.03
5 4 0.03
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:21844429 original size:25 final size:26
Alignment explanation
Indices: 21844375--21844433 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 26
21844365 ATTTTCAGTT
**
21844375 TTTATTTA-TTTTATTAGTTTTGTTA
1 TTTATTTATTTTTATTAGTAATGTTA
21844400 TTTATTTATTTTTATTAAGTAAT-TTA
1 TTTATTTATTTTTATT-AGTAATGTTA
21844426 -TTATTTAT
1 TTTATTTAT
21844434 GAAATATTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 16 0.53
26 10 0.33
27 4 0.13
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.69
Consensus pattern (26 bp):
TTTATTTATTTTTATTAGTAATGTTA
Found at i:21844429 original size:29 final size:25
Alignment explanation
Indices: 21844375--21844433 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 25
21844365 ATTTTCAGTT
*
21844375 TTTATTTATTTTATTAGTTTTGTTA
1 TTTATTTATTTTATTAGTTTTATTA
21844400 TTTATTTATTTTTATTAAGTAATTTATTA
1 TTTATTTA-TTTTATT-AGT--TTTATTA
21844429 TTTAT
1 TTTAT
21844434 GAAATATTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 8 0.28
26 7 0.24
27 3 0.10
29 11 0.38
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.69
Consensus pattern (25 bp):
TTTATTTATTTTATTAGTTTTATTA
Found at i:21845361 original size:15 final size:13
Alignment explanation
Indices: 21845343--21845394 Score: 59
Period size: 14 Copynumber: 3.8 Consensus size: 13
21845333 TTATTTTCCA
*
21845343 CATTTATTTTTTTCT
1 CATTT-TTTTATT-T
21845358 CATTTTTTTATTT
1 CATTTTTTTATTT
*
21845371 CATTTTTTCATTTT
1 CATTTTTTTA-TTT
21845385 CATTTTTTTA
1 CATTTTTTTA
21845395 ATGAAATGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
13 10 0.30
14 18 0.55
15 5 0.15
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.73
Consensus pattern (13 bp):
CATTTTTTTATTT
Found at i:21847865 original size:29 final size:28
Alignment explanation
Indices: 21847785--21847934 Score: 103
Period size: 30 Copynumber: 5.1 Consensus size: 28
21847775 TAAGGCTAAT
*
21847785 GTTTCGAGTTTCAGAGTTTG-GGGTTTAGG
1 GTTTCGA-TTTTA-AGTTTGAGGGTTTAGG
* *
21847814 ACTTTCG-TTTAAGAGTTTAGAGGGTTTAGG
1 -GTTTCGATTTTA-AGTTT-GAGGGTTTAGG
21847844 GTTTCGATTTTGAAGTTTGA-GGTTT-GG
1 GTTTCGATTTT-AAGTTTGAGGGTTTAGG
* * *
21847871 GATTTCAATTTTAGGATTTG-GAGATTTAGG
1 G-TTTCGATTTTAAG-TTTGAG-GGTTTAGG
*
21847901 GTTTCGATTTTAAGGTTTGTAGGGTTAAGG
1 GTTTCGATTTTAA-GTTTG-AGGGTTTAGG
21847931 GTTT
1 GTTT
21847935 AGTTTTAGGG
Statistics
Matches: 97, Mismatches: 11, Indels: 24
0.73 0.08 0.18
Matches are distributed among these distances:
27 5 0.05
28 28 0.29
29 26 0.27
30 36 0.37
31 2 0.02
ACGTcount: A:0.19, C:0.05, G:0.32, T:0.44
Consensus pattern (28 bp):
GTTTCGATTTTAAGTTTGAGGGTTTAGG
Found at i:21847876 original size:28 final size:30
Alignment explanation
Indices: 21847827--21847934 Score: 77
Period size: 29 Copynumber: 3.7 Consensus size: 30
21847817 TTCGTTTAAG
*
21847827 AGTTTAGAGGGTTTAGGGTTTCGATTTTGA
1 AGTTTAGAGGGTTTAGGGTTTCAATTTTGA
21847857 AGTTT-GA-GGTTT-GGGATTTCAATTTT-A
1 AGTTTAGAGGGTTTAGGG-TTTCAATTTTGA
* * * *
21847884 GGATTTGGA-GATTTAGGGTTTCGATTTT-A
1 AG-TTTAGAGGGTTTAGGGTTTCAATTTTGA
*
21847913 AGGTTT-GTAGGGTTAAGGGTTT
1 A-GTTTAG-AGGGTTTAGGGTTT
21847935 AGTTTTAGGG
Statistics
Matches: 64, Mismatches: 7, Indels: 14
0.75 0.08 0.16
Matches are distributed among these distances:
27 5 0.08
28 18 0.28
29 22 0.34
30 19 0.30
ACGTcount: A:0.20, C:0.03, G:0.32, T:0.44
Consensus pattern (30 bp):
AGTTTAGAGGGTTTAGGGTTTCAATTTTGA
Found at i:21848249 original size:19 final size:20
Alignment explanation
Indices: 21848225--21848262 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
21848215 TTATTATTCT
21848225 ATTTTTATTATT-CTTTTTA
1 ATTTTTATTATTACTTTTTA
21848244 ATTTTTATTATTACTTTTT
1 ATTTTTATTATTACTTTTT
21848263 TATTGTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (20 bp):
ATTTTTATTATTACTTTTTA
Found at i:21848932 original size:14 final size:14
Alignment explanation
Indices: 21848899--21848931 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
21848889 AGAGCTTAAA
21848899 TTTTTTGTCTTCTT
1 TTTTTTGTCTTCTT
*
21848913 TTTTTTTTCTT-TT
1 TTTTTTGTCTTCTT
21848926 TTTTTT
1 TTTTTT
21848932 TACTTGTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.88
Consensus pattern (14 bp):
TTTTTTGTCTTCTT
Found at i:21855304 original size:17 final size:17
Alignment explanation
Indices: 21855263--21855310 Score: 71
Period size: 17 Copynumber: 2.8 Consensus size: 17
21855253 TGCATGACTA
21855263 ATATTATATTTGCATAAT
1 ATATT-TATTTGCATAAT
*
21855281 A-ATTTATTTGCCTAAT
1 ATATTTATTTGCATAAT
21855297 ATATTTATTTGCAT
1 ATATTTATTTGCAT
21855311 GATTACCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 12 0.44
17 14 0.52
18 1 0.04
ACGTcount: A:0.33, C:0.08, G:0.06, T:0.52
Consensus pattern (17 bp):
ATATTTATTTGCATAAT
Found at i:21855435 original size:24 final size:24
Alignment explanation
Indices: 21855353--21855515 Score: 139
Period size: 24 Copynumber: 7.1 Consensus size: 24
21855343 TGTGTGTGTG
21855353 TAATTGCTTGATTATTAATATATT
1 TAATTGCTTGATTATTAATATATT
* *
21855377 TATTTG-TATGATTA-T-ATTTAATT
1 TAATTGCT-TGATTATTAATAT-ATT
* * *
21855400 TGATTACATGATTATTAATATATT
1 TAATTGCTTGATTATTAATATATT
21855424 TAATTGCTTGATTATTAATATATT
1 TAATTGCTTGATTATTAATATATT
* *
21855448 T--TT--TT-A-TATGATTATATT
1 TAATTGCTTGATTATTAATATATT
*
21855466 CT-ATTGCATGATTATTAATATATT
1 -TAATTGCTTGATTATTAATATATT
* *
21855490 TAATTGCATGATTATTAATTTATT
1 TAATTGCTTGATTATTAATATATT
21855514 TA
1 TA
21855516 TTTGTGTCAT
Statistics
Matches: 111, Mismatches: 16, Indels: 24
0.74 0.11 0.16
Matches are distributed among these distances:
18 10 0.09
19 2 0.02
20 4 0.04
22 6 0.05
23 16 0.14
24 70 0.63
25 3 0.03
ACGTcount: A:0.33, C:0.04, G:0.08, T:0.55
Consensus pattern (24 bp):
TAATTGCTTGATTATTAATATATT
Found at i:21855440 original size:71 final size:65
Alignment explanation
Indices: 21855353--21855543 Score: 256
Period size: 66 Copynumber: 2.8 Consensus size: 65
21855343 TGTGTGTGTG
21855353 TAATTGCTTGATTATTAATATATTTATTTGTATGATTATATTTAATTTGATTACATGATTATTAA
1 TAATTGCTTGATTATTAATATATTTATTTGTATGATTATATTT-A-TTG----CATGATTATTAA
21855418 TATATT
60 TATATT
* *
21855424 TAATTGCTTGATTATTAATATATTTTTTTATATGATTATATTCTATTGCATGATTATTAATATAT
1 TAATTGCTTGATTATTAATATATTTATTTGTATGATTATATT-TATTGCATGATTATTAATATAT
21855489 T
65 T
* * * *
21855490 TAATTGCATGATTATTAATTTATTTATTTGTGTCATTATATTTGATTGCATGAT
1 TAATTGCTTGATTATTAATATATTTATTTGTATGATTATATTT-ATTGCATGAT
21855544 AATTTTTGCA
Statistics
Matches: 110, Mismatches: 8, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
65 1 0.01
66 64 0.58
70 3 0.03
71 41 0.37
72 1 0.01
ACGTcount: A:0.31, C:0.04, G:0.09, T:0.55
Consensus pattern (65 bp):
TAATTGCTTGATTATTAATATATTTATTTGTATGATTATATTTATTGCATGATTATTAATATATT
Found at i:21855501 original size:42 final size:42
Alignment explanation
Indices: 21855418--21855504 Score: 113
Period size: 42 Copynumber: 2.1 Consensus size: 42
21855408 TGATTATTAA
* ** *
21855418 TATATTTAATTGCTTGATTATTAATATATTTTTTTATATGAT
1 TATATTTAATTGCATGATTATTAATATATTTAATTACATGAT
*
21855460 TATATTCT-ATTGCATGATTATTAATATATTTAATTGCATGAT
1 TATATT-TAATTGCATGATTATTAATATATTTAATTACATGAT
21855502 TAT
1 TAT
21855505 TAATTTATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 38 0.97
43 1 0.03
ACGTcount: A:0.32, C:0.05, G:0.08, T:0.55
Consensus pattern (42 bp):
TATATTTAATTGCATGATTATTAATATATTTAATTACATGAT
Found at i:21855596 original size:35 final size:35
Alignment explanation
Indices: 21855535--21855647 Score: 131
Period size: 35 Copynumber: 3.2 Consensus size: 35
21855525 TTATATTTGA
*
21855535 TTGCATGATAATTTTTGCATGGTATGATTTTATATAT
1 TTGCATGAT--TTATTGCATGGTATGATTTTATATAT
* *
21855572 TTGCATGATTTATTGAATGGTATGATTTGATAT-T
1 TTGCATGATTTATTGCATGGTATGATTTTATATAT
* * *
21855606 ATTACATGATTTATTGCATGATATGATTTTATTTA-
1 -TTGCATGATTTATTGCATGGTATGATTTTATATAT
21855641 TTGCATG
1 TTGCATG
21855648 GTATGATTTA
Statistics
Matches: 65, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
34 7 0.11
35 49 0.75
37 9 0.14
ACGTcount: A:0.27, C:0.05, G:0.17, T:0.50
Consensus pattern (35 bp):
TTGCATGATTTATTGCATGGTATGATTTTATATAT
Found at i:21855641 original size:22 final size:23
Alignment explanation
Indices: 21855614--21855673 Score: 86
Period size: 22 Copynumber: 2.6 Consensus size: 23
21855604 TTATTACATG
21855614 ATTTATTGCATGATATGATTT-T
1 ATTTATTGCATGATATGATTTAT
*
21855636 ATTTATTGCATGGTATGATTTAAT
1 ATTTATTGCATGATATGATTT-AT
*
21855660 ATTTATTACATGAT
1 ATTTATTGCATGAT
21855674 TGCTTGATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
22 20 0.61
24 13 0.39
ACGTcount: A:0.30, C:0.05, G:0.13, T:0.52
Consensus pattern (23 bp):
ATTTATTGCATGATATGATTTAT
Found at i:21856176 original size:10 final size:10
Alignment explanation
Indices: 21856161--21856192 Score: 64
Period size: 10 Copynumber: 3.2 Consensus size: 10
21856151 ATCGTGATTA
21856161 TGCAAAAATG
1 TGCAAAAATG
21856171 TGCAAAAATG
1 TGCAAAAATG
21856181 TGCAAAAATG
1 TGCAAAAATG
21856191 TG
1 TG
21856193 ATACATGGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.47, C:0.09, G:0.22, T:0.22
Consensus pattern (10 bp):
TGCAAAAATG
Found at i:21859896 original size:50 final size:51
Alignment explanation
Indices: 21859821--21859923 Score: 129
Period size: 50 Copynumber: 2.0 Consensus size: 51
21859811 TTTTTTAGGG
* *
21859821 TTATTGAAGGCATTTCTAGCTAAAAATACCTT-AATAATCC-CTTTCAATTT
1 TTATTGAAGGCATTTCTAGCTAAAAACACCTTGAATAA-CCTCATTCAATTT
* * * *
21859871 TTATTGAAGTCATTTTTAGGTAAAAACGCCTTGAATAACCTCATTCAATTT
1 TTATTGAAGGCATTTCTAGCTAAAAACACCTTGAATAACCTCATTCAATTT
21859922 TT
1 TT
21859924 TAAAAGGGAT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
50 29 0.64
51 16 0.36
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.41
Consensus pattern (51 bp):
TTATTGAAGGCATTTCTAGCTAAAAACACCTTGAATAACCTCATTCAATTT
Found at i:21860759 original size:29 final size:31
Alignment explanation
Indices: 21860727--21860799 Score: 82
Period size: 34 Copynumber: 2.4 Consensus size: 31
21860717 CAAGTTAGCT
21860727 TTCTTGTATTT-TT-GGTCAAATC-CTTAAAC
1 TTCTTGTATTTATTGGGTCAAATCTC-TAAAC
21860756 TTCTTGTCTGATTTATTGGGTCAAATCTCTAAAC
1 TTCTTG--T-ATTTATTGGGTCAAATCTCTAAAC
21860790 TTCTT-TATTT
1 TTCTTGTATTT
21860800 GATTTATTGC
Statistics
Matches: 38, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
29 6 0.16
30 4 0.11
31 2 0.05
32 4 0.11
33 2 0.05
34 19 0.50
35 1 0.03
ACGTcount: A:0.22, C:0.16, G:0.11, T:0.51
Consensus pattern (31 bp):
TTCTTGTATTTATTGGGTCAAATCTCTAAAC
Found at i:21860779 original size:34 final size:35
Alignment explanation
Indices: 21860740--21860808 Score: 97
Period size: 34 Copynumber: 2.0 Consensus size: 35
21860730 TTGTATTTTT
*
21860740 GGTCAAATC-CTTAAACTTC-TTGTCTGATTTATTG
1 GGTCAAATCTC-TAAACTTCTTTATCTGATTTATTG
*
21860774 GGTCAAATCTCTAAACTTCTTTATTTGATTTATTG
1 GGTCAAATCTCTAAACTTCTTTATCTGATTTATTG
21860809 CATTTCTATC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
34 17 0.55
35 14 0.45
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.46
Consensus pattern (35 bp):
GGTCAAATCTCTAAACTTCTTTATCTGATTTATTG
Found at i:21865902 original size:3 final size:3
Alignment explanation
Indices: 21865886--21865929 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
21865876 TTGTTTTTTA
* * *
21865886 AAC AAC AAT GAC AAC AAC AAC AAC AAC AAC AAC AAC AAT AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
21865930 TAATAATAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.27, G:0.02, T:0.05
Consensus pattern (3 bp):
AAC
Found at i:21870952 original size:7 final size:7
Alignment explanation
Indices: 21870942--21870972 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
21870932 ACCAAAAAAT
21870942 AAAAGCA
1 AAAAGCA
21870949 AAAAGCA
1 AAAAGCA
21870956 AAAAGC-
1 AAAAGCA
21870962 AAAAGCA
1 AAAAGCA
21870969 AAAA
1 AAAA
21870973 ATAATTGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.74, C:0.13, G:0.13, T:0.00
Consensus pattern (7 bp):
AAAAGCA
Found at i:21870952 original size:20 final size:20
Alignment explanation
Indices: 21870929--21870972 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
21870919 AGTAAAATAC
*
21870929 AAAACCAAAAAATAAAAGCA
1 AAAACCAAAAAACAAAAGCA
* *
21870949 AAAAGCAAAAAGCAAAAGCA
1 AAAACCAAAAAACAAAAGCA
21870969 AAAA
1 AAAA
21870973 ATAATTGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.75, C:0.14, G:0.09, T:0.02
Consensus pattern (20 bp):
AAAACCAAAAAACAAAAGCA
Found at i:21870973 original size:14 final size:14
Alignment explanation
Indices: 21870942--21870972 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
21870932 ACCAAAAAAT
21870942 AAAAGCAAAAAGCA
1 AAAAGCAAAAAGCA
21870956 AAAAGC-AAAAGCA
1 AAAAGCAAAAAGCA
21870969 AAAA
1 AAAA
21870973 ATAATTGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.74, C:0.13, G:0.13, T:0.00
Consensus pattern (14 bp):
AAAAGCAAAAAGCA
Found at i:21875574 original size:18 final size:18
Alignment explanation
Indices: 21875551--21875597 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
21875541 CAACATATAG
21875551 AAAAAAGCAAAAAA-AAAA
1 AAAAAAG-AAAAAAGAAAA
21875569 AAAAAAGAAAAAAGAAAA
1 AAAAAAGAAAAAAGAAAA
* *
21875587 ACAACAGAAAA
1 AAAAAAGAAAA
21875598 GCCAACGAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 6 0.23
18 20 0.77
ACGTcount: A:0.85, C:0.06, G:0.09, T:0.00
Consensus pattern (18 bp):
AAAAAAGAAAAAAGAAAA
Found at i:21876531 original size:23 final size:25
Alignment explanation
Indices: 21876499--21876545 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 25
21876489 TTCTTTGCAA
*
21876499 AAAAGTAAAAAATTA-ATT-TTTAT
1 AAAAGAAAAAAATTATATTATTTAT
21876522 AAAAGAAAAAAATTATATTATTTA
1 AAAAGAAAAAAATTATATTATTTA
21876546 AATTGAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 14 0.67
24 3 0.14
25 4 0.19
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (25 bp):
AAAAGAAAAAAATTATATTATTTAT
Found at i:21881609 original size:10 final size:9
Alignment explanation
Indices: 21881590--21881649 Score: 57
Period size: 10 Copynumber: 6.3 Consensus size: 9
21881580 ATTTGGATAA
*
21881590 TTAATTATG
1 TTAATCATG
21881599 TCTAATCATG
1 T-TAATCATG
* *
21881609 TTATTCATA
1 TTAATCATG
21881618 TATAATCATG
1 T-TAATCATG
21881628 TTAATCATG
1 TTAATCATG
*
21881637 TCATATCATG
1 TTA-ATCATG
21881647 TTA
1 TTA
21881650 GTTGGATATA
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
9 18 0.44
10 23 0.56
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.47
Consensus pattern (9 bp):
TTAATCATG
Found at i:21881625 original size:19 final size:20
Alignment explanation
Indices: 21881601--21881649 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
21881591 TAATTATGTC
*
21881601 TAATCATGTTATTCATAT-A
1 TAATCATGTTAATCATATCA
*
21881620 TAATCATGTTAATCATGTCA
1 TAATCATGTTAATCATATCA
21881640 T-ATCATGTTA
1 TAATCATGTTA
21881650 GTTGGATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 25 0.93
20 2 0.07
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (20 bp):
TAATCATGTTAATCATATCA
Found at i:21887322 original size:21 final size:21
Alignment explanation
Indices: 21887297--21887336 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
21887287 AACCCTAATT
21887297 TTAGG-TTCTAATATCACATAA
1 TTAGGCTT-TAATATCACATAA
*
21887318 TTAGGCTTTGATATCACAT
1 TTAGGCTTTAATATCACAT
21887337 GTAAGTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (21 bp):
TTAGGCTTTAATATCACATAA
Found at i:21888478 original size:17 final size:18
Alignment explanation
Indices: 21888456--21888498 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
21888446 TATGTTTGTT
21888456 TTTTTATATTATTT-TCA
1 TTTTTATATTATTTATCA
*
21888473 TTTTTATA-TATTTATTA
1 TTTTTATATTATTTATCA
21888490 TTTTT-TATT
1 TTTTTATATT
21888499 TAAAAATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 7 0.30
17 16 0.70
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTATATTATTTATCA
Found at i:21888629 original size:18 final size:17
Alignment explanation
Indices: 21888606--21888641 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
21888596 ATTTACTTTT
21888606 TCTTTAAATATTTATAAA
1 TCTTTAAAT-TTTATAAA
*
21888624 TCTTTAAATTTTTTAAA
1 TCTTTAAATTTTATAAA
21888641 T
1 T
21888642 TTTTTTAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.56
Consensus pattern (17 bp):
TCTTTAAATTTTATAAA
Found at i:21888818 original size:23 final size:20
Alignment explanation
Indices: 21888770--21888807 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
21888760 GGCAACTCAA
21888770 TTTCTTTTTCTTTTTTGTCT
1 TTTCTTTTTCTTTTTTGTCT
21888790 TTTCTTTTTCTTTTTTGT
1 TTTCTTTTTCTTTTTTGT
21888808 TGTTTTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.00, C:0.13, G:0.05, T:0.82
Consensus pattern (20 bp):
TTTCTTTTTCTTTTTTGTCT
Found at i:21888826 original size:23 final size:22
Alignment explanation
Indices: 21888771--21888828 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
21888761 GCAACTCAAT
*
21888771 TTCTTTTTCTTTTTTGTCTTTTC
1 TTCTTTTT-TTTGTTGTCTTTTC
* *
21888794 TTTTTCTTTTTTGTTGTTTTTTC
1 TTCTT-TTTTTTGTTGTCTTTTC
21888817 TTGCTTTTTTTT
1 TT-CTTTTTTTT
21888829 AATTAGAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 24 0.83
24 5 0.17
ACGTcount: A:0.00, C:0.12, G:0.07, T:0.81
Consensus pattern (22 bp):
TTCTTTTTTTTGTTGTCTTTTC
Found at i:21893343 original size:14 final size:15
Alignment explanation
Indices: 21893313--21893355 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
21893303 TTCTATTTAG
*
21893313 TTTATATATATTATT
1 TTTATATTTATTATT
21893328 TTTATATTTA-TATT
1 TTTATATTTATTATT
* *
21893342 TTAATATTTGTTAT
1 TTTATATTTATTAT
21893356 GTTTGTTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (15 bp):
TTTATATTTATTATT
Found at i:21893559 original size:17 final size:18
Alignment explanation
Indices: 21893523--21893560 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
21893513 ATATTGCATA
*
21893523 ATTGCACGATTATATTTT
1 ATTGCACGATAATATTTT
*
21893541 ATTGCATGATAAT-TTTT
1 ATTGCACGATAATATTTT
21893558 ATT
1 ATT
21893561 TATTTTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.29, C:0.08, G:0.11, T:0.53
Consensus pattern (18 bp):
ATTGCACGATAATATTTT
Found at i:21894730 original size:52 final size:53
Alignment explanation
Indices: 21894642--21894750 Score: 186
Period size: 52 Copynumber: 2.1 Consensus size: 53
21894632 CATTATTTGA
*
21894642 AATATGAAACTATGAAAAAATATATAAAAGTGATGGAATGAACA-AAAAAATGT
1 AATATGAAACTATGAAAAAATATATAAAAGTAATGGAATGAA-AGAAAAAATGT
21894695 AATATGAAACTATGAAAAAA-ATATAAAAGTAATGGAATGAAAGAAAAAATGT
1 AATATGAAACTATGAAAAAATATATAAAAGTAATGGAATGAAAGAAAAAATGT
21894747 AATA
1 AATA
21894751 ACAATGCATC
Statistics
Matches: 54, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
51 1 0.02
52 33 0.61
53 20 0.37
ACGTcount: A:0.61, C:0.03, G:0.15, T:0.22
Consensus pattern (53 bp):
AATATGAAACTATGAAAAAATATATAAAAGTAATGGAATGAAAGAAAAAATGT
Found at i:21897876 original size:24 final size:24
Alignment explanation
Indices: 21897838--21897883 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
21897828 CATAGACAAA
21897838 ATCATTAAAACATCATAAAAATAAT
1 ATCATTAAAACATCA-AAAAATAAT
*
21897863 ATCA-TAAAATATCAAAAAATA
1 ATCATTAAAACATCAAAAAATA
21897884 TCATGCAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 7 0.35
24 9 0.45
25 4 0.20
ACGTcount: A:0.63, C:0.11, G:0.00, T:0.26
Consensus pattern (24 bp):
ATCATTAAAACATCAAAAAATAAT
Found at i:21897941 original size:27 final size:26
Alignment explanation
Indices: 21897909--21898006 Score: 91
Period size: 23 Copynumber: 3.8 Consensus size: 26
21897899 ACAACGAATA
*
21897909 TCATGCAATAGTATCATAAAAAAAAAT
1 TCATGCAATA-TATCATAATAAAAAAT
21897936 TCATGCAATA-A--ATAATAAAAAAT
1 TCATGCAATATATCATAATAAAAAAT
*
21897959 TCATGCAAAAATATCATAAT--AAAA-
1 TCATGC-AATATATCATAATAAAAAAT
*
21897983 TCATGCAAAAATTATCATAATAAA
1 TCATGC-AATA-TATCATAATAAA
21898007 TATCATGCAA
Statistics
Matches: 62, Mismatches: 2, Indels: 14
0.79 0.03 0.18
Matches are distributed among these distances:
23 17 0.27
24 14 0.23
25 15 0.24
27 16 0.26
ACGTcount: A:0.57, C:0.11, G:0.05, T:0.27
Consensus pattern (26 bp):
TCATGCAATATATCATAATAAAAAAT
Found at i:21897971 original size:26 final size:24
Alignment explanation
Indices: 21897924--21898024 Score: 107
Period size: 23 Copynumber: 4.2 Consensus size: 24
21897914 CAATAGTATC
* *
21897924 ATAAAAAAAAATTCATGCAATAA-
1 ATAATAAAAAATTCATGCAAAAAT
21897947 ATAATAAAAAATTCATGCAAAAAT
1 ATAATAAAAAATTCATGCAAAAAT
*
21897971 ATCATAATAAAA-TCATGCAAAAATT
1 ATAATAA-AAAATTCATGCAAAAA-T
* * *
21897996 ATCATAATAAATATCATGCAAAAAG
1 ATAATAAAAAAT-TCATGCAAAAAT
21898021 ATAA
1 ATAA
21898025 AAATTCAATC
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
23 21 0.31
24 20 0.30
25 15 0.22
26 11 0.16
ACGTcount: A:0.60, C:0.10, G:0.05, T:0.25
Consensus pattern (24 bp):
ATAATAAAAAATTCATGCAAAAAT
Found at i:21897993 original size:25 final size:24
Alignment explanation
Indices: 21897868--21898019 Score: 109
Period size: 25 Copynumber: 6.1 Consensus size: 24
21897858 ATAATATCAT
21897868 AAAATATCA-AAAAATATCATGCAA
1 AAAATATCATAAAAA-ATCATGCAA
* *
21897892 AAAA-ATCACAACGAATATCATGC-A
1 AAAATATCATAA--AAAATCATGCAA
* *
21897916 ATAGTATCATAAAAAAAAATTCATGCAA
1 AAAATATCAT---AAAAAA-TCATGCAA
*
21897944 TAAATA--ATAAAAAATTCATGC-A
1 AAAATATCATAAAAAA-TCATGCAA
21897966 AAAATATCATAATAAAATCATGCAA
1 AAAATATCATAA-AAAATCATGCAA
*
21897991 AAATTATCATAATAAATATCATGCAA
1 AAAATATCATAA-AAA-ATCATGCAA
21898017 AAA
1 AAA
21898020 GATAAAAATT
Statistics
Matches: 104, Mismatches: 10, Indels: 26
0.74 0.07 0.19
Matches are distributed among these distances:
22 6 0.06
23 17 0.16
24 19 0.18
25 31 0.30
26 19 0.18
27 6 0.06
28 6 0.06
ACGTcount: A:0.59, C:0.12, G:0.05, T:0.24
Consensus pattern (24 bp):
AAAATATCATAAAAAATCATGCAA
Found at i:21898012 original size:12 final size:12
Alignment explanation
Indices: 21897967--21898012 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
21897957 ATTCATGCAA
21897967 AAATATCATAAT
1 AAATATCATAAT
21897979 AAA-ATCATGCAA-
1 AAATATCAT--AAT
21897991 AAATTATCATAAT
1 AAA-TATCATAAT
21898004 AAATATCAT
1 AAATATCAT
21898013 GCAAAAAGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
11 5 0.17
12 14 0.48
13 5 0.17
14 5 0.17
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.30
Consensus pattern (12 bp):
AAATATCATAAT
Found at i:21898013 original size:50 final size:48
Alignment explanation
Indices: 21897877--21898019 Score: 121
Period size: 50 Copynumber: 2.9 Consensus size: 48
21897867 TAAAATATCA
* * * * *
21897877 AAAAATATCATGCAAAAAAATCACAACGAATATCATGCAATAGTATCATAA
1 AAAAATATCATGCAAAAATATCATAA--AAAATCATGCAAAAATATCAT-A
*
21897928 AAAAAAATTCATGCAATAAATA--ATAAAAAATTCATGCAAAAATATCATA
1 AAAAATA-TCATGCAA-AAATATCATAAAAAA-TCATGCAAAAATATCATA
*
21897977 ATAAA-ATCATGCAAAAATTATCATAATAAATATCATGCAAAAA
1 AAAAATATCATGCAAAAA-TATCATAA-AAA-ATCATGCAAAAA
21898020 GATAAAAATT
Statistics
Matches: 77, Mismatches: 7, Indels: 17
0.76 0.07 0.17
Matches are distributed among these distances:
46 3 0.04
47 10 0.13
48 1 0.01
49 12 0.16
50 29 0.38
51 10 0.13
52 8 0.10
53 4 0.05
ACGTcount: A:0.58, C:0.13, G:0.06, T:0.24
Consensus pattern (48 bp):
AAAAATATCATGCAAAAATATCATAAAAAATCATGCAAAAATATCATA
Found at i:21898216 original size:15 final size:14
Alignment explanation
Indices: 21898198--21898469 Score: 152
Period size: 14 Copynumber: 19.3 Consensus size: 14
21898188 CAAAAAATTG
*
21898198 AAAACGGAAATTTAA
1 AAAACAGAAA-TTAA
*
21898213 AAAAC---AATTAG
1 AAAACAGAAATTAA
*
21898224 AAAATAGAAATTTAA
1 AAAACAGAAA-TTAA
**
21898239 AAAATGGAAATT-A
1 AAAACAGAAATTAA
* * *
21898252 AATATAGAAATAAA
1 AAAACAGAAATTAA
*
21898266 AAAACAGATATTAA
1 AAAACAGAAATTAA
21898280 AAAA-ATGGAAATTAAA
1 AAAACA--GAAATT-AA
*
21898296 AAAACAGAAACTAA
1 AAAACAGAAATTAA
21898310 AAAACA-AGAATTAA
1 AAAACAGA-AATTAA
*
21898324 AAAACAGTAATT-A
1 AAAACAGAAATTAA
* *
21898337 AAAATAGAAATCAA
1 AAAACAGAAATTAA
** *
21898351 CAAATTA-AAATTAT
1 -AAAACAGAAATTAA
*
21898365 AAAA-GGAAATTAAA
1 AAAACAGAAATT-AA
*
21898379 AAAACA-AAATAAA
1 AAAACAGAAATTAA
*
21898392 AAAACTGAAATTAA
1 AAAACAGAAATTAA
21898406 AAAACAAGAAATT-A
1 AAAAC-AGAAATTAA
*
21898420 AAAAGAGAAATTAAAA
1 AAAACAGAAATT--AA
*
21898436 AAATACAGGAATTAA
1 AAA-ACAGAAATTAA
*
21898451 AAACCCAGAAATTAA
1 AAA-ACAGAAATTAA
21898466 AAAA
1 AAAA
21898470 TATTGAAACA
Statistics
Matches: 199, Mismatches: 36, Indels: 45
0.71 0.13 0.16
Matches are distributed among these distances:
11 7 0.04
12 2 0.01
13 44 0.22
14 73 0.37
15 55 0.28
16 10 0.05
17 8 0.04
ACGTcount: A:0.68, C:0.06, G:0.08, T:0.18
Consensus pattern (14 bp):
AAAACAGAAATTAA
Found at i:21898241 original size:14 final size:14
Alignment explanation
Indices: 21898218--21898471 Score: 137
Period size: 15 Copynumber: 17.9 Consensus size: 14
21898208 TTTAAAAAAC
*
21898218 AATTAGAAAATAGA
1 AATTAAAAAATAGA
*
21898232 AATTTAAAAAATGGA
1 AA-TTAAAAAATAGA
*
21898247 AATT-AAATATAGA
1 AATTAAAAAATAGA
* *
21898260 AATAAAAAAACAGA
1 AATTAAAAAATAGA
* *
21898274 TATTAAAAAAATGGA
1 AATT-AAAAAATAGA
*
21898289 AATTAAAAAAACAGA
1 AATT-AAAAAATAGA
* *
21898304 AACTAAAAAACA-A
1 AATTAAAAAATAGA
* *
21898317 GAATTAAAAAACAGT
1 -AATTAAAAAATAGA
21898332 AATT-AAAAATAGA
1 AATTAAAAAATAGA
* *
21898345 AATCAACAAATTA-A
1 AATTAA-AAAATAGA
* *
21898359 AATTATAAAA-GGA
1 AATTAAAAAATAGA
*
21898372 AATTAAAAAA-ACA
1 AATTAAAAAATAGA
*
21898385 AAATAAAAAA-ACTGA
1 AATTAAAAAATA--GA
*
21898400 AATTAAAAAACAAGA
1 AATTAAAAAA-TAGA
*
21898415 AATT-AAAAAGAGA
1 AATTAAAAAATAGA
*
21898428 AATTAAAAAAATACAGG
1 AATT-AAAAAAT--AGA
**
21898445 AATTAAAAACCCAGA
1 AATTAAAAA-ATAGA
21898460 AATTAAAAAATA
1 AATTAAAAAATA
21898472 TTGAAACAAG
Statistics
Matches: 184, Mismatches: 39, Indels: 34
0.72 0.15 0.13
Matches are distributed among these distances:
13 52 0.28
14 48 0.26
15 72 0.39
16 5 0.03
17 7 0.04
ACGTcount: A:0.68, C:0.06, G:0.08, T:0.19
Consensus pattern (14 bp):
AATTAAAAAATAGA
Found at i:21898311 original size:28 final size:28
Alignment explanation
Indices: 21898171--21898469 Score: 170
Period size: 28 Copynumber: 10.5 Consensus size: 28
21898161 ACTTAAACAT
* *
21898171 TAGAAATTATAAAAAAACAAAAAATTGAAAA
1 TAGAAA-T-TAAAAAAAC-AGAAATTAAAAA
** *
21898202 CGGAAATTTAAAAAAC---AATTAGAAAA
1 TAGAAATTAAAAAAACAGAAATTA-AAAA
* ** *
21898228 TAGAAATTTAAAAAATGGAAATTAAATA
1 TAGAAATTAAAAAAACAGAAATTAAAAA
*
21898256 TAGAAA-TAAAAAAACAGATATTAAAAAAA
1 TAGAAATTAAAAAAACAGAAATT--AAAAA
* *
21898285 TGGAAATTAAAAAAACAGAAACTAAAAA
1 TAGAAATTAAAAAAACAGAAATTAAAAA
* *
21898313 -ACAAGAATT-AAAAAACAGTAATTAAAAA
1 TA-GA-AATTAAAAAAACAGAAATTAAAAA
* * **
21898341 TAGAAATCAACAAATTA-AAATTATAAAA
1 TAGAAATTAAAAAAACAGAAATTA-AAAA
*
21898369 -GGAAATTAAAAAAACA-AAA-TAAAAA
1 TAGAAATTAAAAAAACAGAAATTAAAAA
*
21898394 AACTGAAATT-AAAAAACAAGAAATTAAAAA
1 TA--GAAATTAAAAAAAC-AGAAATTAAAAA
* *
21898424 GAGAAATTAAAAAAATACAGGAATTAAAAA
1 TAGAAATT-AAAAAA-ACAGAAATTAAAAA
*
21898454 CCCAGAAATTAAAAAA
1 --TAGAAATTAAAAAA
21898470 TATTGAAACA
Statistics
Matches: 210, Mismatches: 35, Indels: 46
0.72 0.12 0.16
Matches are distributed among these distances:
25 8 0.04
26 19 0.09
27 41 0.20
28 55 0.26
29 30 0.14
30 38 0.18
31 12 0.06
32 7 0.03
ACGTcount: A:0.68, C:0.06, G:0.08, T:0.18
Consensus pattern (28 bp):
TAGAAATTAAAAAAACAGAAATTAAAAA
Found at i:21898471 original size:31 final size:28
Alignment explanation
Indices: 21898218--21898471 Score: 132
Period size: 27 Copynumber: 8.9 Consensus size: 28
21898208 TTTAAAAAAC
* *
21898218 AATTAGAAAATAGAAATTTAAAAAAT-GGA
1 AATTA-AAAACAGAAA-TTAAAAAATAAGA
* *
21898247 AATTAAATATAGAAA-TAAAAAA-ACAGA
1 AATTAAAAACAGAAATTAAAAAATA-AGA
* *
21898274 TATTAAAAAAATGGAAATTAAAAAA-ACAGA
1 AATTAAAAACA--GAAATTAAAAAATA-AGA
* * *
21898304 AACTAAAAAACA-AGAATTAAAAAA-CAGT
1 AA-TTAAAAACAGA-AATTAAAAAATAAGA
* * * *
21898332 AATTAAAAATAGAAATCAACAAATTA-A
1 AATTAAAAACAGAAATTAAAAAATAAGA
*
21898359 AATTATAAAA-GGAAATTAAAAAA-ACA-A
1 AATTA-AAAACAGAAATTAAAAAATA-AGA
* * *
21898386 AATAAAAAAACTGAAATTAAAAAACAAGA
1 AAT-TAAAAACAGAAATTAAAAAATAAGA
* *
21898415 AATTAAAAAGAGAAATTAAAAAAATACAGG
1 AATTAAAAACAGAAATT-AAAAAATA-AGA
21898445 AATTAAAAACCCAGAAATTAAAAAATA
1 AATTAAAAA--CAGAAATTAAAAAATA
21898472 TTGAAACAAG
Statistics
Matches: 178, Mismatches: 28, Indels: 36
0.74 0.12 0.15
Matches are distributed among these distances:
26 7 0.04
27 49 0.28
28 45 0.25
29 31 0.17
30 24 0.13
31 15 0.08
32 7 0.04
ACGTcount: A:0.68, C:0.06, G:0.08, T:0.19
Consensus pattern (28 bp):
AATTAAAAACAGAAATTAAAAAATAAGA
Found at i:21902195 original size:2 final size:2
Alignment explanation
Indices: 21902188--21902213 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
21902178 CCAATTAAAG
21902188 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
21902214 TCGAAACGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:21903770 original size:20 final size:20
Alignment explanation
Indices: 21903731--21903771 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
21903721 TTTATATTTC
*
21903731 AAATAATTATATTTGAATAA
1 AAATAATTATATATGAATAA
21903751 AAATAATTAATATATG-ATAA
1 AAATAATT-ATATATGAATAA
21903771 A
1 A
21903772 TGGTTATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.37
Consensus pattern (20 bp):
AAATAATTATATATGAATAA
Found at i:21905438 original size:116 final size:114
Alignment explanation
Indices: 21905258--21905488 Score: 372
Period size: 116 Copynumber: 2.0 Consensus size: 114
21905248 TTTTATTTAC
*
21905258 AATTCAAACAATTATTGGCACAAACTATATCTTTCAATATTGTCTTATTTCTTACTTTTATTTTT
1 AATTCAAACAATTATTGGCACAAACTACATCTTTCAATATTGTCTTATTTCTTAC-TTTATTTTT
* * *
21905323 TGAGTTTAAATTAAAAAATGGTGAGAATACAAATATATATTTATATATATG
65 T-AGTTTAAATAAAAAAATGATGAGAATACAAATATATATTTACATATATG
* * * *
21905374 AATTCAAACAATTATTGGCATAAACTACATCTTTTAATATTGTCTTATTTTTTACTTTTTTTTTT
1 AATTCAAACAATTATTGGCACAAACTACATCTTTCAATATTGTCTTATTTCTTACTTTATTTTTT
21905439 AGTTTAAATAAAAAAATGATGAGAATACAAATATATATTTACATATATG
66 AGTTTAAATAAAAAAATGATGAGAATACAAATATATATTTACATATATG
21905488 A
1 A
21905489 TTATTGGAGG
Statistics
Matches: 107, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
114 47 0.44
115 9 0.08
116 51 0.48
ACGTcount: A:0.39, C:0.09, G:0.08, T:0.44
Consensus pattern (114 bp):
AATTCAAACAATTATTGGCACAAACTACATCTTTCAATATTGTCTTATTTCTTACTTTATTTTTT
AGTTTAAATAAAAAAATGATGAGAATACAAATATATATTTACATATATG
Found at i:21911353 original size:23 final size:23
Alignment explanation
Indices: 21911327--21911374 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
21911317 CCATCATATG
21911327 TCTAAGTTCCCCATTTATAGCTA
1 TCTAAGTTCCCCATTTATAGCTA
*
21911350 TCTAAGTTCCCTATTTATAGCTA
1 TCTAAGTTCCCCATTTATAGCTA
21911373 TC
1 TC
21911375 ATTCTTGTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.25, C:0.25, G:0.08, T:0.42
Consensus pattern (23 bp):
TCTAAGTTCCCCATTTATAGCTA
Found at i:21917863 original size:42 final size:42
Alignment explanation
Indices: 21917790--21917871 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
21917780 GAATAGTATA
* *
21917790 TATTATTTTAATAATAAATATTAGCACATATAATAATATTTT
1 TATTATTTTAATAATAAATATTAGAAAATATAATAATATTTT
* *
21917832 TATTATTTTAATAATTAATGTTA-AATAATATAATAATATT
1 TATTATTTTAATAATAAATATTAGAA-AATATAATAATATT
21917872 ATTTTCTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 1 0.03
42 34 0.97
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (42 bp):
TATTATTTTAATAATAAATATTAGAAAATATAATAATATTTT
Found at i:21917865 original size:39 final size:41
Alignment explanation
Indices: 21917775--21917891 Score: 100
Period size: 42 Copynumber: 2.9 Consensus size: 41
21917765 TAATATTTCA
* *
21917775 ATAATGAATAGTATATATTATTTTAATAATAAATATTAGCACAT
1 ATAAT-AATAATAT-TATTATTTTAATAATAAATGTTA-CACAT
* * *
21917819 ATAATAATATTTTTATTATTTTAATAATTAATGTTA-A-AT
1 ATAATAATAATATTATTATTTTAATAATAAATGTTACACAT
*
21917858 A-ATATAATAATATTATT-TTCTTAAT-ATGAATGTT
1 ATA-ATAATAATATTATTATT-TTAATAATAAATGTT
21917892 TTTAATAATT
Statistics
Matches: 64, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
38 11 0.17
39 20 0.31
40 1 0.02
42 21 0.33
43 6 0.09
44 5 0.08
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (41 bp):
ATAATAATAATATTATTATTTTAATAATAAATGTTACACAT
Found at i:21918059 original size:17 final size:17
Alignment explanation
Indices: 21918037--21918069 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
21918027 CAATATAAAA
21918037 TATAAATATTTTAATAG
1 TATAAATATTTTAATAG
21918054 TATAAATATTTTAATA
1 TATAAATATTTTAATA
21918070 AGAAATAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (17 bp):
TATAAATATTTTAATAG
Found at i:21918257 original size:16 final size:15
Alignment explanation
Indices: 21918239--21918279 Score: 64
Period size: 16 Copynumber: 2.7 Consensus size: 15
21918229 TATAATTATT
*
21918239 TTTTAATATTAATAA
1 TTTTAATATAAATAA
21918254 TTTTAATAATAAATAA
1 TTTTAAT-ATAAATAA
21918270 TTTTAATATA
1 TTTTAATATA
21918280 CTTTAATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TTTTAATATAAATAA
Found at i:21918275 original size:25 final size:25
Alignment explanation
Indices: 21918242--21918312 Score: 90
Period size: 25 Copynumber: 2.8 Consensus size: 25
21918232 AATTATTTTT
*
21918242 TAATATTAATAATTTTAATAATAAA
1 TAATTTTAATAATTTTAATAATAAA
* *
21918267 TAATTTTAATATACTTTAATTATAAA
1 TAATTTTAATA-ATTTTAATAATAAA
21918293 TAATTTTTAAT-ATTTTAATA
1 TAA-TTTTAATAATTTTAATA
21918313 GTTATATTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
25 17 0.44
26 15 0.38
27 7 0.18
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (25 bp):
TAATTTTAATAATTTTAATAATAAA
Found at i:21920325 original size:11 final size:10
Alignment explanation
Indices: 21920290--21920372 Score: 51
Period size: 11 Copynumber: 7.4 Consensus size: 10
21920280 TTTTTCCTAA
21920290 AAAAATAATCAT
1 AAAAATAA--AT
*
21920302 ACAAAATATAT
1 A-AAAATAAAT
21920313 AACAAATAAAT
1 AA-AAATAAAT
21920324 AAATAATAAATT
1 AAA-AATAAA-T
21920336 AAAAAGTAAAT
1 AAAAA-TAAAT
*
21920347 AAAATTCAGAA-
1 AAAAAT-A-AAT
21920358 AAGAAATAAAT
1 AA-AAATAAAT
21920369 AAAA
1 AAAA
21920373 CAAAAAAGTG
Statistics
Matches: 58, Mismatches: 4, Indels: 20
0.71 0.05 0.24
Matches are distributed among these distances:
10 7 0.12
11 31 0.53
12 14 0.24
13 6 0.10
ACGTcount: A:0.70, C:0.05, G:0.04, T:0.22
Consensus pattern (10 bp):
AAAAATAAAT
Found at i:21922270 original size:20 final size:19
Alignment explanation
Indices: 21922237--21922274 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
21922227 AAAATAAAAT
*
21922237 TTTTCTTTTTTTTTCTCTA
1 TTTTCTTTTCTTTTCTCTA
21922256 TTTTCTTTCTCTTTTCTCT
1 TTTTCTTT-TCTTTTCTCT
21922275 CTTTAGAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTCTTTTCTTTTCTCTA
Found at i:21925621 original size:20 final size:20
Alignment explanation
Indices: 21925573--21925621 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
21925563 AATTAAAAAT
* *
21925573 TAAAAATTAAAAAAATTAAG
1 TAAAAATTTAAAAAATAAAG
* *
21925593 TTAAAATTTAAAATATAAAG
1 TAAAAATTTAAAAAATAAAG
21925613 TAAAAATTT
1 TAAAAATTT
21925622 TCACAAATAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (20 bp):
TAAAAATTTAAAAAATAAAG
Found at i:21925946 original size:24 final size:25
Alignment explanation
Indices: 21925918--21926044 Score: 99
Period size: 24 Copynumber: 5.3 Consensus size: 25
21925908 AACCCTTTTC
*
21925918 AAAACCCTAAAACATTAAAA-CACT
1 AAAACCCTAAAACACTAAAAGCACT
* *
21925942 AAAACCTTAAAACCCTAAAAGC-CT
1 AAAACCCTAAAACACTAAAAGCACT
* * * *
21925966 AAAACCCTGAAGCACCAAAATCA-T
1 AAAACCCTAAAACACTAAAAGCACT
* *
21925990 GAAACCCTAAAAC-CTAAAA-CAAT
1 AAAACCCTAAAACACTAAAAGCACT
21926013 AAAACCCTAAAA-ACCTAAAA-C-CTT
1 AAAACCCTAAAACA-CTAAAAGCAC-T
21926037 AAAACCCT
1 AAAACCCT
21926045 CTTTTTTACA
Statistics
Matches: 82, Mismatches: 15, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
22 2 0.02
23 17 0.21
24 62 0.76
25 1 0.01
ACGTcount: A:0.54, C:0.28, G:0.03, T:0.15
Consensus pattern (25 bp):
AAAACCCTAAAACACTAAAAGCACT
Found at i:21926027 original size:9 final size:7
Alignment explanation
Indices: 21925918--21926042 Score: 63
Period size: 8 Copynumber: 15.9 Consensus size: 7
21925908 AACCCTTTTC
21925918 AAAACCCT
1 AAAA-CCT
*
21925926 AAAACATT
1 AAAAC-CT
21925934 AAAACACT
1 AAAAC-CT
21925942 AAAACCTT
1 AAAACC-T
21925950 AAAACCCT
1 AAAA-CCT
21925958 AAAAGCCT
1 AAAA-CCT
21925966 AAAACCCT
1 AAAA-CCT
*
21925974 GAAGCACC-
1 -AA-AACCT
*
21925982 AAAATCAT
1 AAAA-CCT
*
21925990 GAAACCCT
1 -AAAACCT
21925998 AAAACCT
1 AAAACCT
*
21926005 AAAACAAT
1 AAAAC-CT
21926013 AAAACCCT
1 AAAA-CCT
21926021 AAAAACCT
1 -AAAACCT
21926029 AAAACCTT
1 AAAACC-T
21926037 AAAACC
1 AAAACC
21926043 CTCTTTTTTA
Statistics
Matches: 93, Mismatches: 12, Indels: 24
0.72 0.09 0.19
Matches are distributed among these distances:
6 1 0.01
7 22 0.24
8 55 0.59
9 14 0.15
10 1 0.01
ACGTcount: A:0.54, C:0.28, G:0.03, T:0.14
Consensus pattern (7 bp):
AAAACCT
Found at i:21926031 original size:16 final size:16
Alignment explanation
Indices: 21925918--21926040 Score: 76
Period size: 16 Copynumber: 7.8 Consensus size: 16
21925908 AACCCTTTTC
*
21925918 AAAACCCT-AAAACATT
1 AAAACCCTAAAAAC-CT
*
21925934 AAAACACT-AAAACCTT
1 AAAACCCTAAAAACC-T
*
21925950 AAAACCCTAAAAGCCT
1 AAAACCCTAAAAACCT
**
21925966 AAAACCCTGAAGCACC-
1 AAAACCCT-AAAAACCT
* * * *
21925982 AAAATCATGAAACCCT
1 AAAACCCTAAAAACCT
*
21925998 AAAA-CCT-AAAACAAT
1 AAAACCCTAAAAAC-CT
21926013 AAAACCCTAAAAACCT
1 AAAACCCTAAAAACCT
*
21926029 AAAACCTTAAAA
1 AAAACCCTAAAA
21926041 CCCTCTTTTT
Statistics
Matches: 82, Mismatches: 18, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
14 4 0.05
15 10 0.12
16 54 0.66
17 14 0.17
ACGTcount: A:0.55, C:0.27, G:0.03, T:0.15
Consensus pattern (16 bp):
AAAACCCTAAAAACCT
Found at i:21930797 original size:18 final size:18
Alignment explanation
Indices: 21930776--21930819 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
21930766 AGGCAAGAGA
21930776 AAAAAAAAAAAACAAAGC
1 AAAAAAAAAAAACAAAGC
** *
21930794 AAAATTAAAAAACAAAGT
1 AAAAAAAAAAAACAAAGC
21930812 AAAAAAAA
1 AAAAAAAA
21930820 TGATTAAATG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.82, C:0.07, G:0.05, T:0.07
Consensus pattern (18 bp):
AAAAAAAAAAAACAAAGC
Found at i:21931169 original size:11 final size:11
Alignment explanation
Indices: 21931153--21931177 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
21931143 GATCAACAAG
21931153 AAGAAAAAAAA
1 AAGAAAAAAAA
21931164 AAGAAAAAAAA
1 AAGAAAAAAAA
21931175 AAG
1 AAG
21931178 GGGCTCTAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (11 bp):
AAGAAAAAAAA
Found at i:21932804 original size:13 final size:13
Alignment explanation
Indices: 21932786--21932815 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
21932776 GAAAAATAAT
*
21932786 AAAAAATAGCAAA
1 AAAAAAGAGCAAA
21932799 AAAAAAGAGCAAA
1 AAAAAAGAGCAAA
21932812 AAAA
1 AAAA
21932816 GAGAATGATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.80, C:0.07, G:0.10, T:0.03
Consensus pattern (13 bp):
AAAAAAGAGCAAA
Found at i:21933385 original size:24 final size:23
Alignment explanation
Indices: 21933354--21933398 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
21933344 ATTTACATAT
21933354 TTTCTTAGTGATGATATCTGAGA
1 TTTCTTAGTGATGATATCTGAGA
* *
21933377 TTTCTTTAGTGGTTATATCTGA
1 TTTC-TTAGTGATGATATCTGA
21933399 AGTCATCTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.22, C:0.09, G:0.20, T:0.49
Consensus pattern (23 bp):
TTTCTTAGTGATGATATCTGAGA
Found at i:21933625 original size:48 final size:46
Alignment explanation
Indices: 21933519--21933632 Score: 113
Period size: 48 Copynumber: 2.4 Consensus size: 46
21933509 TAGGATATTT
* *
21933519 TAAATCTTTAAAA-TTCAATACCTCTAATTAGATAACCTTTTTCAAA
1 TAAATC-TTAAAATTTCAATACCTCTAATTAGAGAACCTTTATCAAA
* * * *
21933565 TAAGATTTTTAAAATTTCAATCCCTCTAATTAGAGGAGCCTTTATCAGA
1 TAA-A-TCTTAAAATTTCAATACCTCTAATTAGA-GAACCTTTATCAAA
*
21933614 TGAAATCTTAAAGTTTCAA
1 T-AAATCTTAAAATTTCAA
21933633 AGTTTTTGTT
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
46 3 0.05
47 7 0.13
48 31 0.56
49 12 0.22
50 2 0.04
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.38
Consensus pattern (46 bp):
TAAATCTTAAAATTTCAATACCTCTAATTAGAGAACCTTTATCAAA
Found at i:21934528 original size:35 final size:35
Alignment explanation
Indices: 21934433--21934557 Score: 112
Period size: 35 Copynumber: 3.6 Consensus size: 35
21934423 AAGCACCTAA
* * * *
21934433 TCATTTTTATTTCTTGACTTGTGGCTCAATCTTAG
1 TCATTTTTATTTTTTGACTTATAGCTCAATCTGAG
* * ** **
21934468 TCA-TTCT-TTTCTCAACTTACGGCTCAATCATGA-
1 TCATTTTTATTTTTTGACTTATAGCTCAATC-TGAG
*
21934501 TCATTTTTATTTTTTGACTTATAGCTCAATCTTAG
1 TCATTTTTATTTTTTGACTTATAGCTCAATCTGAG
*
21934536 TTATTTTTATTTTTTGACTTAT
1 TCATTTTTATTTTTTGACTTAT
21934558 GATTCAATCT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
33 21 0.29
34 10 0.14
35 41 0.57
ACGTcount: A:0.21, C:0.17, G:0.10, T:0.53
Consensus pattern (35 bp):
TCATTTTTATTTTTTGACTTATAGCTCAATCTGAG
Found at i:21934565 original size:35 final size:36
Alignment explanation
Indices: 21934501--21934805 Score: 153
Period size: 35 Copynumber: 8.7 Consensus size: 36
21934491 TCAATCATGA
* * *
21934501 TCATTTTTATTTTTTGACTTAT-AGCTCAATCT-TAG
1 TCATTCTTATTTTTTGACTTATGA-TTCAATCTCCAG
* * *
21934536 TTATTTTTATTTTTTGACTTATGATTCAATCT-CGG
1 TCATTCTTATTTTTTGACTTATGATTCAATCTCCAG
* * *** * *
21934571 TTATTCTTATTTTTAGACTTGCAATTCACTCTCTA-
1 TCATTCTTATTTTTTGACTTATGATTCAATCTCCAG
* * *
21934606 TCATTCTTATTTTTTGACTTGTGACTCAGT-TCCAG
1 TCATTCTTATTTTTTGACTTATGATTCAATCTCCAG
* * *
21934641 TCATTCTTATTTTTCGACTTATGATTCAGTC-CAAG
1 TCATTCTTATTTTTTGACTTATGATTCAATCTCCAG
* * * * * * *
21934676 CCATTCTTATTTCTCGACTTACGAATCGATCT-CGG
1 TCATTCTTATTTTTTGACTTATGATTCAATCTCCAG
* ** * * * * *
21934711 TCATTCTTATTTCTCAATTTATAACTCAGTC-CCGG
1 TCATTCTTATTTTTTGACTTATGATTCAATCTCCAG
** * * * *
21934746 TCATTCTTATTTCGTGACTTGTGA-TCAGTC-CTAA
1 TCATTCTTATTTTTTGACTTATGATTCAATCTCCAG
* *
21934780 TCATTTTTATTTTTTAACTTATGATT
1 TCATTCTTATTTTTTGACTTATGATT
21934806 TAGCTCCGAT
Statistics
Matches: 210, Mismatches: 53, Indels: 14
0.76 0.19 0.05
Matches are distributed among these distances:
34 29 0.14
35 180 0.86
36 1 0.00
ACGTcount: A:0.21, C:0.19, G:0.10, T:0.49
Consensus pattern (36 bp):
TCATTCTTATTTTTTGACTTATGATTCAATCTCCAG
Found at i:21934616 original size:70 final size:70
Alignment explanation
Indices: 21934542--21934722 Score: 177
Period size: 70 Copynumber: 2.6 Consensus size: 70
21934532 TTAGTTATTT
* * * *
21934542 TTATTTTTTGACTTATGATTCAATCTCGGTTATTCTTATTTTTAGACTTGCAATTCACTCTCTA-
1 TTATTTTTTGACTTATGAATCAATCTCGGTCATTCTTATTTTTAGACTTACAATTCACTC-CAAG
*
21934606 TCATTC
65 CCATTC
* * * * * ** *
21934612 TTATTTTTTGACTTGTGACTCAGT-TCCAGTCATTCTTATTTTTCGACTTATGATTCAGTCCAAG
1 TTATTTTTTGACTTATGAATCAATCT-CGGTCATTCTTATTTTTAGACTTACAATTCACTCCAAG
21934676 CCATTC
65 CCATTC
* * * *
21934682 TTATTTCTCGACTTACGAATCGATCTCGGTCATTCTTATTT
1 TTATTTTTTGACTTATGAATCAATCTCGGTCATTCTTATTT
21934723 CTCAATTTAT
Statistics
Matches: 88, Mismatches: 20, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
69 3 0.03
70 84 0.95
71 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.11, T:0.48
Consensus pattern (70 bp):
TTATTTTTTGACTTATGAATCAATCTCGGTCATTCTTATTTTTAGACTTACAATTCACTCCAAGC
CATTC
Found at i:21934881 original size:35 final size:35
Alignment explanation
Indices: 21934840--21935009 Score: 94
Period size: 35 Copynumber: 4.9 Consensus size: 35
21934830 GACTTGCAGC
* *
21934840 TCAGTCCCTATCATTCTTATTTCTTGACTTGTGAA
1 TCAGTCCCTATCATTCTTATTTCTTAACTTATGAA
* * * **
21934875 TTAGT-CCTAGTCATTCTAATTTTTTAACTTATGGC
1 TCAGTCCCTA-TCATTCTTATTTCTTAACTTATGAA
* * * * * **
21934910 TCAGTCTCGATCATTCTTATTTCTCAATTTACGGC
1 TCAGTCCCTATCATTCTTATTTCTTAACTTATGAA
* * * * * *
21934945 TCAATCCTTGTCA-TCTTTATTTCCTAACTTGTGAT
1 TCAGTCCCTATCATTC-TTATTTCTTAACTTATGAA
* *
21934980 TCAGTCCATATCATCCTTATTT-TTAGACTT
1 TCAGTCCCTATCATTCTTATTTCTTA-ACTT
21935010 GCAACTTGGT
Statistics
Matches: 98, Mismatches: 32, Indels: 10
0.70 0.23 0.07
Matches are distributed among these distances:
34 8 0.08
35 87 0.89
36 3 0.03
ACGTcount: A:0.21, C:0.22, G:0.10, T:0.46
Consensus pattern (35 bp):
TCAGTCCCTATCATTCTTATTTCTTAACTTATGAA
Found at i:21934947 original size:105 final size:103
Alignment explanation
Indices: 21934630--21935003 Score: 283
Period size: 105 Copynumber: 3.6 Consensus size: 103
21934620 TGACTTGTGA
* * * * * * * **
21934630 CTCAGTTCCAGTCATTCTTATTT-TTCGACTTATGATTCAGTCCAAGCCATTCTTATTTCTCGAC
1 CTCAGTCCCTGTCATTCTTATTTCCT-GACTTGTGATT-AGTCCTA-TCATTCTTATTTTTTAAC
* * * * *
21934694 TTACGAATC-GATCTCGGTCATTCTTATTTCTCAATTTATAA
63 TTATGACTCAG-TCTCGATCATTCTTATTTCTCAATTTACAG
* * * *
21934735 CTCAGTCCCGGTCATTCTTATTTCGTGACTTGTGATCAGTCCTAATCATTTTTATTTTTTAACTT
1 CTCAGTCCCTGTCATTCTTATTTCCTGACTTGTGATTAGTCCT-ATCATTCTTATTTTTTAACTT
* * * * * * *
21934800 ATGATTTAG-CTCCGATTA-ACTTTATTT-TTAGACTTGCAG
65 ATGACTCAGTCT-CGATCATTC-TTATTTCTCA-ATTTACAG
* * *
21934839 CTCAGTCCCTATCATTCTTATTTCTTGACTTGTGAATTAGTCCTAGTCATTCTAATTTTTTAACT
1 CTCAGTCCCTGTCATTCTTATTTCCTGACTTGTG-ATTAGTCCTA-TCATTCTTATTTTTTAACT
* *
21934904 TATGGCTCAGTCTCGATCATTCTTATTTCTCAATTTACGG
64 TATGACTCAGTCTCGATCATTCTTATTTCTCAATTTACAG
* * * *
21934944 CTCAATCCTTGTCA-TCTTTATTTCCTAACTTGTGATTCAGTCCATATCATCCTTATTTTT
1 CTCAGTCCCTGTCATTC-TTATTTCCTGACTTGTGATT-AGTCC-TATCATTCTTATTTTT
21935004 AGACTTGCAA
Statistics
Matches: 211, Mismatches: 44, Indels: 28
0.75 0.16 0.10
Matches are distributed among these distances:
103 5 0.02
104 75 0.36
105 123 0.58
106 8 0.04
ACGTcount: A:0.21, C:0.22, G:0.11, T:0.45
Consensus pattern (103 bp):
CTCAGTCCCTGTCATTCTTATTTCCTGACTTGTGATTAGTCCTATCATTCTTATTTTTTAACTTA
TGACTCAGTCTCGATCATTCTTATTTCTCAATTTACAG
Found at i:21935010 original size:35 final size:35
Alignment explanation
Indices: 21934971--21935162 Score: 117
Period size: 35 Copynumber: 5.5 Consensus size: 35
21934961 TTATTTCCTA
21934971 ACTTGTGA-TTCAGTCC-ATATCATCCTTATTTTTAG
1 ACTTGTGACTT-AGTCCTA-ATCATCCTTATTTTTAG
** * *
21935006 ACTTGCAACTTGGTCCTAATCATGCTTATTTTTAG
1 ACTTGTGACTTAGTCCTAATCATCCTTATTTTTAG
* * * *
21935041 ACTTGTGGCTTAG--CTCAATCAACTTTATTTCTCA-
1 ACTTGTGACTTAGTCCT-AATCATCCTTATTT-TTAG
** ** * * * *
21935075 ACCGGTGGTTTAGTCTTGATCATCTTTATTTTTAA
1 ACTTGTGACTTAGTCCTAATCATCCTTATTTTTAG
* * * *
21935110 ACTTGCGACTCAGTCCTAATTATTCTTATTTCTT-G
1 ACTTGTGACTTAGTCCTAATCATCCTTATTT-TTAG
21935145 ACTTGTGACTTAGTCCTA
1 ACTTGTGACTTAGTCCTA
21935163 GTTATTCTTA
Statistics
Matches: 116, Mismatches: 33, Indels: 16
0.70 0.20 0.10
Matches are distributed among these distances:
33 2 0.02
34 23 0.20
35 85 0.73
36 6 0.05
ACGTcount: A:0.22, C:0.20, G:0.14, T:0.44
Consensus pattern (35 bp):
ACTTGTGACTTAGTCCTAATCATCCTTATTTTTAG
Found at i:21935173 original size:139 final size:139
Alignment explanation
Indices: 21934819--21935175 Score: 343
Period size: 139 Copynumber: 2.6 Consensus size: 139
21934809 CTCCGATTAA
* *
21934819 CTTTATTTTTAGACTTGC-AGCTCAGTCCCT-ATCATTCTTATTTCTTGACTTGTGAATTAGTCC
1 CTTTATTTTTAAACTTGCGA-CTCAGT-CCTAATCATTCTTATTTCTTGACTTGTGACTTAGTCC
* * * ***
21934882 TAGTCATTCTAATTTTTTAACTTATGGCTCAGTCTCGATCATTCTTATTTCTCAATTTACGGCTC
64 TAGTCATTCTTA-TTTTTAACTTATGGCTCAGTCTCAATCACTCTTATTTCTCAACCGACGGCTC
21934947 AATCCTTGTCAT
128 AATCCTTGTCAT
* * * * ** *
21934959 CTTTATTTCCT-AACTTGTGATTCAGTCC-ATATCATCCTTATTT-TTAGACTTGCAACTTGGTC
1 CTTTATTT-TTAAACTTGCGACTCAGTCCTA-ATCATTCTTATTTCTT-GACTTGTGACTTAGTC
* * * * ** *
21935021 CTAATCATGCTTATTTTTAGACTTGTGGCTTAG-CTCAATCAACT-TTATTTCTCAACCGGTGGT
63 CTAGTCATTCTTATTTTTA-ACTTATGGCTCAGTCTCAATC-ACTCTTATTTCTCAACCGACGGC
* *
21935084 TTAGT-CTTGATCAT
126 TCAATCCTTG-TCAT
*
21935098 CTTTATTTTTAAACTTGCGACTCAGTCCTAATTATTCTTATTTCTTGACTTGTGACTTAGTCCTA
1 CTTTATTTTTAAACTTGCGACTCAGTCCTAATCATTCTTATTTCTTGACTTGTGACTTAGTCCTA
*
21935163 GTTATTCTTATTT
66 GTCATTCTTATTT
21935176 GTCGATTGAT
Statistics
Matches: 171, Mismatches: 35, Indels: 23
0.75 0.15 0.10
Matches are distributed among these distances:
138 5 0.03
139 96 0.56
140 68 0.40
141 2 0.01
ACGTcount: A:0.21, C:0.21, G:0.12, T:0.46
Consensus pattern (139 bp):
CTTTATTTTTAAACTTGCGACTCAGTCCTAATCATTCTTATTTCTTGACTTGTGACTTAGTCCTA
GTCATTCTTATTTTTAACTTATGGCTCAGTCTCAATCACTCTTATTTCTCAACCGACGGCTCAAT
CCTTGTCAT
Found at i:21935189 original size:35 final size:35
Alignment explanation
Indices: 21935110--21935191 Score: 103
Period size: 35 Copynumber: 2.3 Consensus size: 35
21935100 TTATTTTTAA
* *
21935110 ACTTGCGACTCAGTCCTAATTATTCTTATTTCTTG
1 ACTTGTGACTCAGTCCTAATTATTCTTATTTCTCG
* * *
21935145 ACTTGTGACTTAGTCCTAGTTATTCTTATTTGTCG
1 ACTTGTGACTCAGTCCTAATTATTCTTATTTCTCG
21935180 A-TTGATGACTCA
1 ACTTG-TGACTCA
21935192 ATCCCAGTCA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
34 3 0.08
35 37 0.93
ACGTcount: A:0.21, C:0.20, G:0.15, T:0.45
Consensus pattern (35 bp):
ACTTGTGACTCAGTCCTAATTATTCTTATTTCTCG
Found at i:21935218 original size:35 final size:34
Alignment explanation
Indices: 21935131--21935218 Score: 88
Period size: 35 Copynumber: 2.5 Consensus size: 34
21935121 AGTCCTAATT
* * * *
21935131 ATTCTTATTTCTTGACTTGTGACTTAGTCCTAGTT
1 ATTCTTATTTCTTGA-TTGTGACTCAATCCCAGTC
* *
21935166 ATTCTTATTTGTCGATTGATGACTCAATCCCAGTC
1 ATTCTTATTTCTTGATTG-TGACTCAATCCCAGTC
21935201 A-TCTTTATTTCTTGATTG
1 ATTC-TTATTTCTTGATTG
21935219 CGATTTAGTC
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
34 5 0.12
35 38 0.88
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.49
Consensus pattern (34 bp):
ATTCTTATTTCTTGATTGTGACTCAATCCCAGTC
Found at i:21938015 original size:16 final size:16
Alignment explanation
Indices: 21937996--21938041 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 16
21937986 GAAAAAACCC
21937996 TAAAACCCTAAAACTT
1 TAAAACCCTAAAACTT
* *
21938012 TAAAACCTTAAAATTT
1 TAAAACCCTAAAACTT
*
21938028 TGAAACCCTAAAAC
1 TAAAACCCTAAAAC
21938042 CAAGCCCCAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.50, C:0.22, G:0.02, T:0.26
Consensus pattern (16 bp):
TAAAACCCTAAAACTT
Found at i:21939970 original size:1 final size:1
Alignment explanation
Indices: 21939964--21939989 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
21939954 TTGTAAAATT
21939964 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
21939990 CTCCATTGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:21940118 original size:3 final size:3
Alignment explanation
Indices: 21940110--21940146 Score: 65
Period size: 3 Copynumber: 12.0 Consensus size: 3
21940100 TAAAAAGTGT
21940110 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC -TTC TTC
21940147 GTCCTTTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Done.