Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 28 of 141
Found at i:9346256 original size:2 final size:2
Alignment explanation
Indices: 9346244--9346274 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
9346234 GCAAAAATGT
*
9346244 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9346275 TTCTGTGGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:9349541 original size:22 final size:23
Alignment explanation
Indices: 9349496--9349546 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
9349486 TAAATGCCTC
*
9349496 TAAAATAGTAGCAAAATTAATAA
1 TAAAATAGTAACAAAATTAATAA
*
9349519 TAAAATAGTAACAACA-TAATAA
1 TAAAATAGTAACAAAATTAATAA
9349541 TAAAAT
1 TAAAAT
9349547 TATAGCAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 12 0.46
23 14 0.54
ACGTcount: A:0.63, C:0.06, G:0.06, T:0.25
Consensus pattern (23 bp):
TAAAATAGTAACAAAATTAATAA
Found at i:9350327 original size:16 final size:16
Alignment explanation
Indices: 9350306--9350339 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9350296 TGCATATTTA
*
9350306 ATCATTTATATAATAT
1 ATCATTTACATAATAT
*
9350322 ATCATTTACATATTAT
1 ATCATTTACATAATAT
9350338 AT
1 AT
9350340 ATATATATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (16 bp):
ATCATTTACATAATAT
Found at i:9351728 original size:29 final size:29
Alignment explanation
Indices: 9351688--9351745 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
9351678 AAAAATAGAG
9351688 GGAAAAGCAAAAGATA-ATAAAA-AAAAAA
1 GGAAAAGCAAAAGA-ACATAAAAGAAAAAA
*
9351716 GGAAAAGTTAAAAGAACATAAAAGAAAAAA
1 GGAAAAG-CAAAAGAACATAAAAGAAAAAA
9351746 TTAAATTGCT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 8 0.31
29 12 0.46
30 6 0.23
ACGTcount: A:0.72, C:0.03, G:0.16, T:0.09
Consensus pattern (29 bp):
GGAAAAGCAAAAGAACATAAAAGAAAAAA
Found at i:9354325 original size:60 final size:57
Alignment explanation
Indices: 9354192--9354344 Score: 173
Period size: 60 Copynumber: 2.6 Consensus size: 57
9354182 TATACATTTT
* *
9354192 GGTACCTAAACTTGGCTTCAAAGTTCAAATTGGTACTAAGGTTTTTTTGGTCCAATTA
1 GGTACCTAAACTTGGCTT-TAAGTTCAAATTGGTACTAAAGTTTTTTTGGTCCAATTA
* * * *
9354250 AGTACTTGAACTTGGCTTTAAGGTTCAATTTGGTACCTAAAGTTTAGTTTT-GTCCAATTA
1 GGTACCTAAACTTGGCTTTAA-GTTCAAATTGGTA-CTAAAGTTT--TTTTGGTCCAATTA
* *
9354310 GGTACCTAAATTTGGCTTCTTAGTTCAAATTGGTA
1 GGTACCTAAACTTGGCTT-TAAGTTCAAATTGGTA
9354345 GCTGAACTTG
Statistics
Matches: 78, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
57 2 0.03
58 27 0.35
59 8 0.10
60 35 0.45
61 6 0.08
ACGTcount: A:0.27, C:0.14, G:0.19, T:0.40
Consensus pattern (57 bp):
GGTACCTAAACTTGGCTTTAAGTTCAAATTGGTACTAAAGTTTTTTTGGTCCAATTA
Found at i:9377057 original size:16 final size:16
Alignment explanation
Indices: 9377036--9377069 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9377026 ATTTAGTTTA
9377036 CTGTAACGGAATAGAG
1 CTGTAACGGAATAGAG
* *
9377052 CTGTAATGGAATATAG
1 CTGTAACGGAATAGAG
9377068 CT
1 CT
9377070 ATAATCAGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.12, G:0.26, T:0.26
Consensus pattern (16 bp):
CTGTAACGGAATAGAG
Found at i:9379241 original size:18 final size:18
Alignment explanation
Indices: 9379220--9379269 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
9379210 AATTTATACT
9379220 TTTTTATTAATTTATTTA
1 TTTTTATTAATTTATTTA
* *
9379238 TTTTTA-AAGATTTGTTTA
1 TTTTTATTA-ATTTATTTA
*
9379256 ATTTT-TTAATTTAT
1 TTTTTATTAATTTAT
9379270 GCTCGTCACA
Statistics
Matches: 25, Mismatches: 5, Indels: 5
0.71 0.14 0.14
Matches are distributed among these distances:
17 6 0.24
18 19 0.76
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (18 bp):
TTTTTATTAATTTATTTA
Found at i:9380112 original size:29 final size:28
Alignment explanation
Indices: 9380079--9380143 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 28
9380069 TAAATTTCAA
* *
9380079 AATTATAT-ATGAACTTTGATTTAATGTGC
1 AATTATATAATAAACTTTAATTT--TGTGC
9380108 AATTATATACATAAACTTTAATTTTGTGC
1 AATTATATA-ATAAACTTTAATTTTGTGC
9380137 AATTATA
1 AATTATA
9380144 CACTTAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 20 0.62
31 12 0.38
ACGTcount: A:0.38, C:0.08, G:0.09, T:0.45
Consensus pattern (28 bp):
AATTATATAATAAACTTTAATTTTGTGC
Found at i:9380151 original size:29 final size:29
Alignment explanation
Indices: 9380103--9380208 Score: 88
Period size: 31 Copynumber: 3.5 Consensus size: 29
9380093 TTTGATTTAA
* *
9380103 TGTGCAATTATATACATAAACTTTAATTT
1 TGTGCAATTATACACTTAAACTTTAATTT
*
9380132 TGTGCAATTATACACTTAAAATTCTAATTGT
1 TGTGCAATTATACACTTAAACTT-TAATT-T
* * *
9380163 AGTTCAAATT-TATACTTGAAACTTTAATTT
1 TGTGC-AATTATACACTT-AAACTTTAATTT
**
9380193 TGATTTAATTATACAC
1 TG-TGCAATTATACAC
9380209 ATTTAAATAA
Statistics
Matches: 61, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
29 20 0.33
30 11 0.18
31 21 0.34
32 9 0.15
ACGTcount: A:0.37, C:0.11, G:0.08, T:0.44
Consensus pattern (29 bp):
TGTGCAATTATACACTTAAACTTTAATTT
Found at i:9380360 original size:30 final size:29
Alignment explanation
Indices: 9380324--9380389 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
9380314 ATAATTTTCA
* *
9380324 AAAATTGGATCAAATAAAAATTTCATATAT
1 AAAATTGCATAAAAT-AAAATTTCATATAT
* *
9380354 AAAATTGCATAAAATCAAATTTCATGTAT
1 AAAATTGCATAAAATAAAATTTCATATAT
*
9380383 ACAATTG
1 AAAATTG
9380390 AACATTAAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
29 18 0.58
30 13 0.42
ACGTcount: A:0.50, C:0.09, G:0.08, T:0.33
Consensus pattern (29 bp):
AAAATTGCATAAAATAAAATTTCATATAT
Found at i:9389802 original size:13 final size:14
Alignment explanation
Indices: 9389778--9389806 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
9389768 TAATTTTAAA
9389778 AAAATCATTATTTT
1 AAAATCATTATTTT
9389792 AAAAT-ATTATTTT
1 AAAATCATTATTTT
9389805 AA
1 AA
9389807 TTTTTTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (14 bp):
AAAATCATTATTTT
Found at i:9390238 original size:17 final size:16
Alignment explanation
Indices: 9390203--9390241 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
9390193 CAAATATAAT
9390203 AAATATTTTTATTTTA
1 AAATATTTTTATTTTA
9390219 AAATACTTTTT-TTTTA
1 AAATA-TTTTTATTTTA
9390235 AAA-ATTT
1 AAATATTT
9390242 AAANNNNNNN
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 3 0.14
15 1 0.05
16 13 0.59
17 5 0.23
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (16 bp):
AAATATTTTTATTTTA
Found at i:9390389 original size:16 final size:14
Alignment explanation
Indices: 9390346--9390390 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
9390336 TGTTAAAAAA
*
9390346 TTTAATACTGAATT
1 TTTAATACTAAATT
*
9390360 TTTAATATTAAATT
1 TTTAATACTAAATT
9390374 TTATAAGTACTAAATT
1 TT-TAA-TACTAAATT
9390390 T
1 T
9390391 ATATTAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
14 14 0.54
15 3 0.12
16 9 0.35
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.51
Consensus pattern (14 bp):
TTTAATACTAAATT
Found at i:9398803 original size:173 final size:174
Alignment explanation
Indices: 9398501--9398849 Score: 691
Period size: 173 Copynumber: 2.0 Consensus size: 174
9398491 AATGTCACCA
9398501 TTTTAATAGCCTATATCTTTATAATTTTTAAAGGATTAAATCAAATTTTTATATTTTTAGGGATG
1 TTTTAATAGCCTATATCTTTATAATTTTTAAAGGATTAAATCAAATTTTTATATTTTTAGGGATG
9398566 GCCAAAGTGCAATTTTATTTTTACTAATTTATTAAAATTTTAAGGGCCTGAATGAAAATTTTTCC
66 GCCAAAGTGCAATTTTATTTTTACTAATTTATTAAAATTTTAAGGGCCTGAATGAAAATTTTTCC
9398631 ATCTTAAGGGGGACTGGGACCCTATTATATGTGTTTTTGTATTT
131 ATCTTAAGGGGGACTGGGACCCTATTATATGTGTTTTTGTATTT
9398675 TTTTAATAGCCT-TATCTTTATAATTTTTAAAGGATTAAATCAAATTTTTATATTTTTAGGGATG
1 TTTTAATAGCCTATATCTTTATAATTTTTAAAGGATTAAATCAAATTTTTATATTTTTAGGGATG
9398739 GCCAAAGTGCAATTTTATTTTTACTAATTTATTAAAATTTTAAGGGCCTGAATGAAAATTTTTCC
66 GCCAAAGTGCAATTTTATTTTTACTAATTTATTAAAATTTTAAGGGCCTGAATGAAAATTTTTCC
9398804 ATCTTAAGGGGGACTGGGACCCTATTATATGTGTTTTTGTATTT
131 ATCTTAAGGGGGACTGGGACCCTATTATATGTGTTTTTGTATTT
9398848 TT
1 TT
9398850 ATATAAAAAA
Statistics
Matches: 175, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
173 163 0.93
174 12 0.07
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (174 bp):
TTTTAATAGCCTATATCTTTATAATTTTTAAAGGATTAAATCAAATTTTTATATTTTTAGGGATG
GCCAAAGTGCAATTTTATTTTTACTAATTTATTAAAATTTTAAGGGCCTGAATGAAAATTTTTCC
ATCTTAAGGGGGACTGGGACCCTATTATATGTGTTTTTGTATTT
Found at i:9399347 original size:18 final size:19
Alignment explanation
Indices: 9399308--9399348 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
9399298 AATATTTCTC
* *
9399308 AAAAGTACTTTTGGGACAA
1 AAAAATACTTTTGAGACAA
9399327 AAAAATACTTTTGAGACAA
1 AAAAATACTTTTGAGACAA
9399346 AAA
1 AAA
9399349 CATTGTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.51, C:0.10, G:0.15, T:0.24
Consensus pattern (19 bp):
AAAAATACTTTTGAGACAA
Found at i:9409804 original size:33 final size:33
Alignment explanation
Indices: 9409739--9409804 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
9409729 TCAAATACTA
* * *
9409739 TTTAAAAAATCATTAAAAATATTTTTTATTTAT
1 TTTAAAAAATAAATAAAAATATATTTTATTTAT
* * *
9409772 TTTAAAAAATAAATATACATATATTTTCTTTAT
1 TTTAAAAAATAAATAAAAATATATTTTATTTAT
9409805 ATGTTATTTC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (33 bp):
TTTAAAAAATAAATAAAAATATATTTTATTTAT
Found at i:9416492 original size:101 final size:98
Alignment explanation
Indices: 9416313--9416508 Score: 250
Period size: 101 Copynumber: 2.0 Consensus size: 98
9416303 AATAATCATA
* *
9416313 ATTTTTAAAAGAGTAACTAAGTGTATTTCTAAGCACTTTTAAAAAAATTTAAAATATTAACTTTT
1 ATTTTCAAAAGAGTAACTAAGTGTATTTATAAGCACTTTTAAAAAAATTTAAAATATTAACTTTT
* **
9416378 TACTTTTAAAAAAAATTCTTTTATTTTTTTTAT
66 TACTTTTAAAAAACATTAATTTATTTTTTTTAT
* * * **
9416411 ATTTTCAAAAGAGTAATTAAGTGTTATATATATAAGCGCTTTTAAGAAAATTTAAAATATTATTT
1 ATTTTCAAAAGAGTAACTAAGTG-TAT-T-TATAAGCACTTTTAAAAAAATTTAAAATATTAACT
9416476 TATTTGACTTTT-AAAAACATTAATTTATTTTTT
63 T-TTT-ACTTTTAAAAAACATTAATTTATTTTTT
9416509 ATTAATAAAC
Statistics
Matches: 83, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
98 21 0.25
99 3 0.04
100 1 0.01
101 31 0.37
102 21 0.25
103 6 0.07
ACGTcount: A:0.40, C:0.06, G:0.07, T:0.47
Consensus pattern (98 bp):
ATTTTCAAAAGAGTAACTAAGTGTATTTATAAGCACTTTTAAAAAAATTTAAAATATTAACTTTT
TACTTTTAAAAAACATTAATTTATTTTTTTTAT
Found at i:9432652 original size:6 final size:7
Alignment explanation
Indices: 9432626--9432651 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
9432616 AGCATCCATA
9432626 AAAAAAT
1 AAAAAAT
9432633 AAAAAAT
1 AAAAAAT
9432640 AAAAAAT
1 AAAAAAT
9432647 AAAAA
1 AAAAA
9432652 TTTTGGCTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:9436857 original size:31 final size:31
Alignment explanation
Indices: 9436822--9436883 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
9436812 TTGCGCGATC
* * *
9436822 AAAAAATAAAAGAGTCAATGGTTGGGTGACT
1 AAAAAAGAAAAGAGACAATAGTTGGGTGACT
*
9436853 AAAAAAGAAAGGAGACAATAGTTGGGTGACT
1 AAAAAAGAAAAGAGACAATAGTTGGGTGACT
9436884 TGTGGTGTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.47, C:0.06, G:0.27, T:0.19
Consensus pattern (31 bp):
AAAAAAGAAAAGAGACAATAGTTGGGTGACT
Found at i:9442609 original size:16 final size:17
Alignment explanation
Indices: 9442588--9442620 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9442578 TTCCATTTTG
9442588 ATACAAA-ATAAAAATA
1 ATACAAATATAAAAATA
*
9442604 ATACAAATATAAGAATA
1 ATACAAATATAAAAATA
9442621 TCCAAACACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.70, C:0.06, G:0.03, T:0.21
Consensus pattern (17 bp):
ATACAAATATAAAAATA
Found at i:9453884 original size:344 final size:344
Alignment explanation
Indices: 9453257--9453949 Score: 1368
Period size: 344 Copynumber: 2.0 Consensus size: 344
9453247 CCTGATACCT
*
9453257 CAATTTCCAAAACCACCAACTTTAGAACCGATACACCTGTACCTTGTTAAACTTTTTAGATAATT
1 CAATTTCCAAAACCACCAACTTTAGAACCGATACACCTGTACCTTGTTAAACTTTTCAGATAATT
9453322 AAAATTATTAGACCAAACCTCAGTATAATATTGTAATACCCTCGTATATATTAATAAATAATATT
66 AAAATTATTAGACCAAACCTCAGTATAATATTGTAATACCCTCGTATATATTAATAAATAATATT
*
9453387 CACAAATTCTATAATTGGAAAACATCATTTCGAAACCACCATTTTCGACTCTACTGACTTTTGGG
131 CACAAATTCTATAATTGGAAAACATCATCTCGAAACCACCATTTTCGACTCTACTGACTTTTGGG
9453452 TTGTTACAGATTGACCAAACAATACCTAGGTAAGAATCCACCTAGAATTCATCTAAAATTCTCAA
196 TTGTTACAGATTGACCAAACAATACCTAGGTAAGAATCCACCTAGAATTCATCTAAAATTCTCAA
9453517 TCTACTTTATGCAATTCATTTCCTTAGTTTCCTTAATCCGTAGAAATCCCTAACTTATACTAATA
261 TCTACTTTATGCAATTCATTTCCTTAGTTTCCTTAATCCGTAGAAATCCCTAACTTATACTAATA
9453582 TCTCTTTCAAGCATAAAAG
326 TCTCTTTCAAGCATAAAAG
9453601 CAATTTCCAAAACCACCAACTTTAGAACCGATACACCTGTACCTTGTTAAACTTTTCAGATAATT
1 CAATTTCCAAAACCACCAACTTTAGAACCGATACACCTGTACCTTGTTAAACTTTTCAGATAATT
9453666 AAAATTATTAGACCAAACCTCAGTATAATATTGTAATACCCTCGTATATATTAATAAATAATATT
66 AAAATTATTAGACCAAACCTCAGTATAATATTGTAATACCCTCGTATATATTAATAAATAATATT
9453731 CACAAATTCTATAATTGGAAAACATCATCTCGAAACCACCATTTTCGACTCTACTGACTTTTGGG
131 CACAAATTCTATAATTGGAAAACATCATCTCGAAACCACCATTTTCGACTCTACTGACTTTTGGG
9453796 TTGTTACAGATTGACCAAACAATACCTAGGTAAGAATCCACCTAGAATTCATCTAAAATTCTCAA
196 TTGTTACAGATTGACCAAACAATACCTAGGTAAGAATCCACCTAGAATTCATCTAAAATTCTCAA
9453861 TCTACTTTATGCAATTCATTTCCTTAGTTTCCTTAATCCGTAGAAATCCCTAACTTATACTAATA
261 TCTACTTTATGCAATTCATTTCCTTAGTTTCCTTAATCCGTAGAAATCCCTAACTTATACTAATA
9453926 TCTCTTTCAAGCATAAAAG
326 TCTCTTTCAAGCATAAAAG
9453945 CAATT
1 CAATT
9453950 AACTCTAGGT
Statistics
Matches: 347, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
344 347 1.00
ACGTcount: A:0.36, C:0.22, G:0.09, T:0.33
Consensus pattern (344 bp):
CAATTTCCAAAACCACCAACTTTAGAACCGATACACCTGTACCTTGTTAAACTTTTCAGATAATT
AAAATTATTAGACCAAACCTCAGTATAATATTGTAATACCCTCGTATATATTAATAAATAATATT
CACAAATTCTATAATTGGAAAACATCATCTCGAAACCACCATTTTCGACTCTACTGACTTTTGGG
TTGTTACAGATTGACCAAACAATACCTAGGTAAGAATCCACCTAGAATTCATCTAAAATTCTCAA
TCTACTTTATGCAATTCATTTCCTTAGTTTCCTTAATCCGTAGAAATCCCTAACTTATACTAATA
TCTCTTTCAAGCATAAAAG
Found at i:9455138 original size:11 final size:11
Alignment explanation
Indices: 9455124--9455148 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
9455114 AAATAAGCTT
9455124 AAAAAATATAA
1 AAAAAATATAA
9455135 AAAAAATATAA
1 AAAAAATATAA
9455146 AAA
1 AAA
9455149 CCGAACTGAA
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAAAATATAA
Found at i:9458796 original size:21 final size:20
Alignment explanation
Indices: 9458766--9458806 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
9458756 TCTAATTCAA
*
9458766 TTTTTTTGGTTCAATTAATC
1 TTTTTTTGGTTCAATCAATC
9458786 TTTTATTTGGTTCAATCAATC
1 TTTT-TTTGGTTCAATCAATC
9458807 CGTACAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.22, C:0.12, G:0.10, T:0.56
Consensus pattern (20 bp):
TTTTTTTGGTTCAATCAATC
Found at i:9470224 original size:113 final size:112
Alignment explanation
Indices: 9470078--9470624 Score: 683
Period size: 112 Copynumber: 4.9 Consensus size: 112
9470068 GAATTAGCGG
*
9470078 TTTTGA-CAAAGCGCCGCAAAAAA-TAAGCCCAACGACGCCGTTTTTTGAGCTTTCGGGGGGTTT
1 TTTTGATC-AAGCGCCGCAAAAAACTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGGGTTT
* * *
9470141 AGCGGCGTTTTTAGTAAAGCGCCGCTAATGCTGAGGGCTTTAGCGACGT
65 AGCGGCGTTTTCAATAAAGCGCCGCTAATGCTG-GGGCTTTAGCGGCGT
9470190 TTTTGATCAAGCGCCGCAAAAAACTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGGGTTTA
1 TTTTGATCAAGCGCCGCAAAAAACTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGGGTTTA
* * * * *
9470255 GCGGCATTTTCAATAACGCGCTGCTAATGCTGGGGATTTAGCGGTGT
66 GCGGCGTTTTCAATAAAGCGCCGCTAATGCTGGGGCTTTAGCGGCGT
* * * * *
9470302 TTTTGGTTAAGCGCCGCAAAAAACTAAGCCTAACGATGCCGTTTTCTGAGCTTCCGGGGGGTTTA
1 TTTTGATCAAGCGCCGCAAAAAACTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGGGTTTA
* *
9470367 GCGGCGTTTTCAATAATGCGCCGCTAATGCTAGGGCTTTAGCGGCGGT
66 GCGGCGTTTTCAATAAAGCGCCGCTAATGCTGGGGCTTTAGCGGC-GT
* * * *
9470415 TTTATGA--AAGCGCCGCAAAAAA-AAATTGAACCCAACGACACCGTTTTCTTAGCTTTC-AGGG
1 TTT-TGATCAAGCGCCGCAAAAAACTAA--G--CCCAACGACGCCGTTTTCTGAGCTTTCGGGGG
* * * * *
9470476 GTTTAGCGGCGTTTTTAGTAAAGCGTCGCTAATGCTGTGGTTTTAGCGGCGT
61 GTTTAGCGGCGTTTTCAATAAAGCGCCGCTAATGCTGGGGCTTTAGCGGCGT
* * * *
9470528 TTTGGATAAAGCGCCGCAAAAAAGCTAAGCCCAACGACGTCATTTTCTGAGCTTTCGGGGGGTTT
1 TTTTGATCAAGCGCCGCAAAAAA-CTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGGGTTT
* * *
9470593 AGTGGCGTTTTCAATAATGTGCCGCTAATGCT
65 AGCGGCGTTTTCAATAAAGCGCCGCTAATGCT
9470625 AAGGCATAAA
Statistics
Matches: 374, Mismatches: 48, Indels: 25
0.84 0.11 0.06
Matches are distributed among these distances:
111 2 0.01
112 172 0.46
113 112 0.30
114 64 0.17
115 22 0.06
116 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (112 bp):
TTTTGATCAAGCGCCGCAAAAAACTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGGGTTTA
GCGGCGTTTTCAATAAAGCGCCGCTAATGCTGGGGCTTTAGCGGCGT
Found at i:9470673 original size:99 final size:98
Alignment explanation
Indices: 9470535--9470723 Score: 252
Period size: 99 Copynumber: 1.9 Consensus size: 98
9470525 CGTTTTGGAT
* * ** * *
9470535 AAAGCGCCGCAAAAAAGCTAAGCCCAACGACGTCATTTTCTGAGCTTTCGGGGGGTTTAGTGGCG
1 AAAGCGCCGCAAAAAAACTAAACCCAACGACACCATTTTCTGAGCTTTCAGGGGGTTTAGCGGCG
* *
9470600 TTTTCAATAATGTGCCGCTAATGCTAAGGCATA
66 TTTTCAATAAAGCGCCGCTAATGCTAAGGCATA
* * * *
9470633 AAAGCGCCGCAAATAAAATTAAACCCAACGACACCGTTTTCTTAGCTTTTAGGGGGTTTAGCGGC
1 AAAGCGCCGCAAA-AAAACTAAACCCAACGACACCATTTTCTGAGCTTTCAGGGGGTTTAGCGGC
*
9470698 GTTTTTAATAAAGCGCCGCTAATGCT
65 GTTTTCAATAAAGCGCCGCTAATGCT
9470724 CAGGGATTTA
Statistics
Matches: 77, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
98 13 0.17
99 64 0.83
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (98 bp):
AAAGCGCCGCAAAAAAACTAAACCCAACGACACCATTTTCTGAGCTTTCAGGGGGTTTAGCGGCG
TTTTCAATAAAGCGCCGCTAATGCTAAGGCATA
Found at i:9470984 original size:21 final size:20
Alignment explanation
Indices: 9470912--9470988 Score: 68
Period size: 21 Copynumber: 3.7 Consensus size: 20
9470902 TGGATTTAGG
*
9470912 GTTTAGGGATTAGGTGTTAT
1 GTTTAGGGGTTAGGTGTTAT
*
9470932 GCTTTTA-GGGTTAGG-GTTTT
1 G--TTTAGGGGTTAGGTGTTAT
*
9470952 GTGGTTAAGGGTTAGGTGTTAT
1 GT--TTAGGGGTTAGGTGTTAT
9470974 GATTTAGGGGTTAGG
1 G-TTTAGGGGTTAGG
9470989 GGGATTTAGG
Statistics
Matches: 46, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
18 1 0.02
20 9 0.20
21 26 0.57
22 9 0.20
23 1 0.02
ACGTcount: A:0.17, C:0.01, G:0.39, T:0.43
Consensus pattern (20 bp):
GTTTAGGGGTTAGGTGTTAT
Found at i:9471088 original size:35 final size:35
Alignment explanation
Indices: 9471049--9471131 Score: 94
Period size: 35 Copynumber: 2.3 Consensus size: 35
9471039 GGTTTTTGCA
* ***
9471049 GTTTAGGGTTTAAGGGTTATGCTTTAAGGTTTATG
1 GTTTAGGGTTTAAGAGTTACAATTTAAGGTTTATG
* *
9471084 GTTTAAGATTTAAGAGTTACAATTTAAGGTTTATG
1 GTTTAGGGTTTAAGAGTTACAATTTAAGGTTTATG
*
9471119 GATTATGGGTTTA
1 GTTTA-GGGTTTA
9471132 GTGATTATGT
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
35 33 0.87
36 5 0.13
ACGTcount: A:0.27, C:0.02, G:0.27, T:0.45
Consensus pattern (35 bp):
GTTTAGGGTTTAAGAGTTACAATTTAAGGTTTATG
Found at i:9471095 original size:14 final size:14
Alignment explanation
Indices: 9471049--9471095 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
9471039 GGTTTTTGCA
*
9471049 GTTTAGGGTTTAAG
1 GTTTATGGTTTAAG
* *
9471063 GGTTATGCTTTAAG
1 GTTTATGGTTTAAG
9471077 GTTTATGGTTTAAG
1 GTTTATGGTTTAAG
*
9471091 ATTTA
1 GTTTA
9471096 AGAGTTACAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.23, C:0.02, G:0.28, T:0.47
Consensus pattern (14 bp):
GTTTATGGTTTAAG
Found at i:9473054 original size:25 final size:25
Alignment explanation
Indices: 9472976--9473054 Score: 61
Period size: 25 Copynumber: 3.1 Consensus size: 25
9472966 TGAAATAAGA
9472976 AAATTCAAATTAGGGTTAAGAAAGT
1 AAATTCAAATTAGGGTTAAGAAAGT
* ** * * **
9473001 AAGA-ACATTTTTAGGTATTAATACGGT
1 AA-ATTCA-AATTAGG-GTTAAGAAAGT
9473028 AAATTCAAATTAGGGTTAAGAAAGT
1 AAATTCAAATTAGGGTTAAGAAAGT
9473053 AA
1 AA
9473055 GAACATTTTT
Statistics
Matches: 36, Mismatches: 14, Indels: 8
0.62 0.24 0.14
Matches are distributed among these distances:
25 13 0.36
26 12 0.33
27 11 0.31
ACGTcount: A:0.46, C:0.05, G:0.19, T:0.30
Consensus pattern (25 bp):
AAATTCAAATTAGGGTTAAGAAAGT
Found at i:9473054 original size:52 final size:52
Alignment explanation
Indices: 9472976--9473074 Score: 189
Period size: 52 Copynumber: 1.9 Consensus size: 52
9472966 TGAAATAAGA
*
9472976 AAATTCAAATTAGGGTTAAGAAAGTAAGAACATTTTTAGGTATTAATACGGT
1 AAATTCAAATTAGGGTTAAGAAAGTAAGAACATTTTTAGGTAATAATACGGT
9473028 AAATTCAAATTAGGGTTAAGAAAGTAAGAACATTTTTAGGTAATAAT
1 AAATTCAAATTAGGGTTAAGAAAGTAAGAACATTTTTAGGTAATAAT
9473075 TTTGCATAAC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.44, C:0.05, G:0.18, T:0.32
Consensus pattern (52 bp):
AAATTCAAATTAGGGTTAAGAAAGTAAGAACATTTTTAGGTAATAATACGGT
Found at i:9473066 original size:26 final size:26
Alignment explanation
Indices: 9472985--9473067 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 26
9472975 AAAATTCAAA
9472985 TTAGGGTTAAGAAAGTAAGAACATTT
1 TTAGGGTTAAGAAAGTAAGAACATTT
* * ** * **
9473011 TTAGGTATTAATACGGTAA-ATTCA-AA
1 TTAGG-GTTAAGAAAGTAAGA-ACATTT
9473037 TTAGGGTTAAGAAAGTAAGAACATTT
1 TTAGGGTTAAGAAAGTAAGAACATTT
9473063 TTAGG
1 TTAGG
9473068 TAATAATTTT
Statistics
Matches: 39, Mismatches: 14, Indels: 8
0.64 0.23 0.13
Matches are distributed among these distances:
25 11 0.28
26 17 0.44
27 11 0.28
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.33
Consensus pattern (26 bp):
TTAGGGTTAAGAAAGTAAGAACATTT
Found at i:9476520 original size:21 final size:21
Alignment explanation
Indices: 9476494--9476562 Score: 93
Period size: 21 Copynumber: 3.3 Consensus size: 21
9476484 CAACAACTTA
* * *
9476494 AAGCAGAGGCGGCAGTGAGGG
1 AAGCAGAGGCCGCAGCGAGAG
**
9476515 AAGCAGAGGCTACAGCGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
9476536 AAGCAGAGGCCGCAGCGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
9476557 AAGCAG
1 AAGCAG
9476563 CGATAGAAGC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.35, C:0.19, G:0.43, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCCGCAGCGAGAG
Found at i:9477062 original size:42 final size:40
Alignment explanation
Indices: 9477003--9477206 Score: 178
Period size: 42 Copynumber: 4.8 Consensus size: 40
9476993 TTTGTGAAAT
*
9477003 AAGCGCTGCTAAAGAACACTACTGTTAGCGGCGTTTTTGAAC-
1 AAGCGCCGCTAAAGAACA-TACT-TTAGCGGCGTTTTT-AACA
* **
9477045 AAGCGCCGCTATAGAACATTACTTTTAGCGGCGTTTTCTTCCA
1 AAGCGCCGCTAAAGAACA-TAC-TTTAGCGGCGTTTT-TAACA
** *
9477088 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCT
1 AAGCGCCGCTAAAGAACAT-A-CTTTAGCGGCGTTTTTAACA
* * *
9477130 AAGCGTCGCTAAAGAACATGATCTTTAGCGGTGTTTTT-TCA
1 AAGCGCCGCTAAAGAACAT-A-CTTTAGCGGCGTTTTTAACA
*
9477171 TAAGTGCCGCTAAAGAACATGATCTTTAGCGGCGTT
1 -AAGCGCCGCTAAAGAACAT-A-CTTTAGCGGCGTT
9477207 CTTTTCTGTA
Statistics
Matches: 142, Mismatches: 14, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
41 1 0.01
42 106 0.75
43 34 0.24
44 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (40 bp):
AAGCGCCGCTAAAGAACATACTTTAGCGGCGTTTTTAACA
Found at i:9477093 original size:85 final size:84
Alignment explanation
Indices: 9477001--9477206 Score: 251
Period size: 85 Copynumber: 2.4 Consensus size: 84
9476991 TGTTTGTGAA
* *
9477001 ATAAGCGCTGCTAAAGAACACT-A-CTGTTAGCGGCGTTTTTGAAC-AAGCGCCGCTATAGAACA
1 ATAAGCGCCGCTAAAGAACA-TGATCT-TTAGCGGCGTTTTT-AACTAAGCGCCGCTAAAGAACA
*
9477063 TTA-CTTTTAGCGGCGTTTTCTTCC
63 TGATC-TTTAGCGGCGTTTT-TT-C
** *
9477087 A-AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCTAAGCGTCGCTAAAGAACATGA
1 ATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTAACTAAGCGCCGCTAAAGAACATGA
*
9477151 TCTTTAGCGGTGTTTTTTC
66 TCTTTAGCGGCGTTTTTTC
*
9477170 ATAAGTGCCGCTAAAGAACATGATCTTTAGCGGCGTT
1 ATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTT
9477207 CTTTTCTGTA
Statistics
Matches: 107, Mismatches: 8, Indels: 12
0.84 0.06 0.09
Matches are distributed among these distances:
83 2 0.02
84 38 0.36
85 63 0.59
86 4 0.04
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (84 bp):
ATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTAACTAAGCGCCGCTAAAGAACATGA
TCTTTAGCGGCGTTTTTTC
Found at i:9477413 original size:21 final size:21
Alignment explanation
Indices: 9477389--9477449 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 21
9477379 ATATTAACAT
9477389 TCAAAATACATTATAAAAAAA
1 TCAAAATACATTATAAAAAAA
** *
9477410 TC---A-ACA-T-TAAATCAT
1 TCAAAATACATTATAAAAAAA
9477425 TCAAAATACATTATAAAAAAA
1 TCAAAATACATTATAAAAAAA
9477446 TCAA
1 TCAA
9477450 CATTAAATCA
Statistics
Matches: 28, Mismatches: 6, Indels: 12
0.61 0.13 0.26
Matches are distributed among these distances:
15 7 0.25
16 1 0.04
17 3 0.11
18 2 0.07
19 3 0.11
20 1 0.04
21 11 0.39
ACGTcount: A:0.61, C:0.13, G:0.00, T:0.26
Consensus pattern (21 bp):
TCAAAATACATTATAAAAAAA
Found at i:9477416 original size:17 final size:17
Alignment explanation
Indices: 9477396--9477454 Score: 52
Period size: 17 Copynumber: 3.4 Consensus size: 17
9477386 CATTCAAAAT
9477396 ACATTATAAAAAAATCA
1 ACATTATAAAAAAATCA
9477413 ACATTA-AATCATTCAAAAT--
1 ACATTATAA--A---AAAATCA
9477432 ACATTATAAAAAAATCA
1 ACATTATAAAAAAATCA
9477449 ACATTA
1 ACATTA
9477455 AATCAATCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 16
0.68 0.00 0.32
Matches are distributed among these distances:
15 5 0.15
16 2 0.06
17 12 0.35
18 2 0.06
19 6 0.18
20 2 0.06
21 5 0.15
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.27
Consensus pattern (17 bp):
ACATTATAAAAAAATCA
Found at i:9477431 original size:36 final size:36
Alignment explanation
Indices: 9477386--9477459 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
9477376 CATATATTAA
9477386 CATTCAAAATACATTATAAAAAAATCAACATTAAAT
1 CATTCAAAATACATTATAAAAAAATCAACATTAAAT
9477422 CATTCAAAATACATTATAAAAAAATCAACATTAAAT
1 CATTCAAAATACATTATAAAAAAATCAACATTAAAT
9477458 CA
1 CA
9477460 ATCATTCAAA
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:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (36 bp):
CATTCAAAATACATTATAAAAAAATCAACATTAAAT
Found at i:9477649 original size:18 final size:18
Alignment explanation
Indices: 9477618--9477652 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
9477608 ATATGTAGAC
9477618 AAATATATAAACTAATAT
1 AAATATATAAACTAATAT
9477636 AAATA-ATAATACTAATA
1 AAATATATAA-ACTAATA
9477653 ATGATGATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (18 bp):
AAATATATAAACTAATAT
Found at i:9479449 original size:12 final size:12
Alignment explanation
Indices: 9479432--9479477 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
9479422 TTTAGTTTCC
9479432 TTACTTTATTTA
1 TTACTTTATTTA
9479444 TTACTTTATTT-
1 TTACTTTATTTA
**
9479455 TTTTTATTATTTA
1 TTACT-TTATTTA
9479468 TTAC-TTATTT
1 TTACTTTATTT
9479478 GGATATTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
11 9 0.32
12 17 0.61
13 2 0.07
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.72
Consensus pattern (12 bp):
TTACTTTATTTA
Found at i:9480518 original size:16 final size:16
Alignment explanation
Indices: 9480499--9480559 Score: 56
Period size: 16 Copynumber: 3.8 Consensus size: 16
9480489 TTCCTAAAGC
9480499 ATAAAAAATATAAATA
1 ATAAAAAATATAAATA
9480515 ATAAATAAATATAAATCA
1 ATAAA-AAATATAAAT-A
*
9480533 A-AATAAATA-AAA-A
1 ATAAAAAATATAAATA
*
9480546 AGAAAAAAATATAA
1 A-TAAAAAATATAA
9480560 TTTGGGGACT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
13 2 0.05
15 10 0.26
16 12 0.32
17 12 0.32
18 2 0.05
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (16 bp):
ATAAAAAATATAAATA
Found at i:9480545 original size:10 final size:10
Alignment explanation
Indices: 9480499--9480545 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
9480489 TTCCTAAAGC
*
9480499 ATAAAAA-AT
1 ATAAAAATAA
9480508 ATAAATAATAA
1 ATAAA-AATAA
*
9480519 ATAAATATAA
1 ATAAAAATAA
*
9480529 ATCAAAATAA
1 ATAAAAATAA
9480539 ATAAAAA
1 ATAAAAA
9480546 AGAAAAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
9 5 0.16
10 20 0.65
11 6 0.19
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (10 bp):
ATAAAAATAA
Found at i:9482565 original size:40 final size:40
Alignment explanation
Indices: 9482516--9482606 Score: 137
Period size: 40 Copynumber: 2.3 Consensus size: 40
9482506 GAGTAAAATC
* * *
9482516 ATAGCTGAAAGATGTTATGGCATCATAAATGAGTAAGACT
1 ATAGTTGAAAGATGTTATGACATCATAAATGAGTAAGACA
*
9482556 ATAGTTGAAAGATGTTATGACATCTTAAATGAGTAAGACA
1 ATAGTTGAAAGATGTTATGACATCATAAATGAGTAAGACA
*
9482596 ATAGTTAAAAG
1 ATAGTTGAAAG
9482607 GCACTATAAC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.43, C:0.08, G:0.21, T:0.29
Consensus pattern (40 bp):
ATAGTTGAAAGATGTTATGACATCATAAATGAGTAAGACA
Found at i:9482619 original size:40 final size:40
Alignment explanation
Indices: 9482536--9482619 Score: 96
Period size: 40 Copynumber: 2.1 Consensus size: 40
9482526 GATGTTATGG
* * *** *
9482536 CATCATAAATGAGTAAGACTATAGTTGAAAGATGTTATGA
1 CATCATAAATGAGTAAGACAATAGTTAAAAGACACTATAA
* *
9482576 CATCTTAAATGAGTAAGACAATAGTTAAAAGGCACTATAA
1 CATCATAAATGAGTAAGACAATAGTTAAAAGACACTATAA
9482616 CATC
1 CATC
9482620 CTTTGATAGT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.44, C:0.12, G:0.17, T:0.27
Consensus pattern (40 bp):
CATCATAAATGAGTAAGACAATAGTTAAAAGACACTATAA
Found at i:9483274 original size:40 final size:40
Alignment explanation
Indices: 9483216--9483320 Score: 113
Period size: 40 Copynumber: 2.6 Consensus size: 40
9483206 GAAAGAAATC
* **
9483216 TAAATGAGTAAGATCATAGATGAAAGATGTTATGGTATCA
1 TAAATGAGTAAGAACATAGATGAAAGATGTTATGACATCA
** *
9483256 TAAATGAGTAAGAACATAGCCGACAGATGTTATGACATCA
1 TAAATGAGTAAGAACATAGATGAAAGATGTTATGACATCA
* * *
9483296 AAAATAAGTAA-AACCATAGTTGAAA
1 TAAATGAGTAAGAA-CATAGATGAAA
9483321 ACCACTATGA
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
39 2 0.04
40 51 0.96
ACGTcount: A:0.47, C:0.10, G:0.19, T:0.25
Consensus pattern (40 bp):
TAAATGAGTAAGAACATAGATGAAAGATGTTATGACATCA
Found at i:9483995 original size:40 final size:40
Alignment explanation
Indices: 9483935--9484037 Score: 161
Period size: 40 Copynumber: 2.6 Consensus size: 40
9483925 AATTTAAATG
** * *
9483935 TGAGTAAGATTATAGTTGAAAGAGGTTATGGCATCATAAA
1 TGAGTAAGACCATAGCTGAAAGAGGTTATGACATCATAAA
*
9483975 TGAGTAAGACCATAGCTGAAAGATGTTATGACATCATAAA
1 TGAGTAAGACCATAGCTGAAAGAGGTTATGACATCATAAA
9484015 TGAGTAAGACCATAGCTGAAAGA
1 TGAGTAAGACCATAGCTGAAAGA
9484038 CACTATAGCA
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.42, C:0.10, G:0.23, T:0.25
Consensus pattern (40 bp):
TGAGTAAGACCATAGCTGAAAGAGGTTATGACATCATAAA
Found at i:9484569 original size:715 final size:717
Alignment explanation
Indices: 9482500--9485385 Score: 3273
Period size: 715 Copynumber: 4.0 Consensus size: 717
9482490 GCTATACACC
* * *
9482500 AAATATGAGTAAAATCATAGCTGAAAGATGTTATGGCATCATAAATGAGTAAGACTATAGTTGAA
1 AAATATGAGTAAGATCATAGCTGAAAGATGTTATGGCATCATAAATGAGTAAGACCATAGCTGAA
* * * * *
9482565 AGATGTTATGACATCTTAAATGAGTAAGACAATAGTTAAAAG-GCACTATA-ACATCCTTTGATA
66 AGATGTTATGACATCATAAATGAGTAAGACCATAGCTGAAAGACCACTATAGACATCCTTTGATA
* * * * * ** * * *
9482628 GTCCGTCGAAAAAGTAAACACCAGATTATATCGTGTAAGACCATAGATGAAAGATACTACAACAT
131 GTCCGTCGAGACAGTAAACACGAGGTTATATCGTGTAAGACCATAGCTGAAAGACGCCATAGCAT
* * * * * * * *
9482693 TGTAGATAGTTCGTCGGGACAACAAACATGGGATATTCCACCAAGATAATAATCACGGGACAATT
196 CGTAGATAGTTCGTCAGGACAACAAACACGGGATAATCCACTAAAACAATAATCACGGGGCAATT
* *
9482758 TGCCAATACAGAAAGCATGGTAACATCCACCAAGACAATTAG-TATGGAAAGAAAGAGTGAAAGA
261 CGCCAAGACAGAAAGCATGGTAACATCCACCAAGACAATTAGCT-TGGAAAGAAAGAGTGAAAGA
* * ** *
9482822 CCATAAATCGGTTATGACATCAAGAAGACTCAATTGATAAGGTAAACATGAGAGTTTAAAAGGTG
325 CCATAAATCGGTTATGAAATCATGAAGACTCAACCGATAAGGTGAACATGAGAGTTTAAAAGGTG
* *
9482887 TAAATTTTGGGCTCGGTGATGGAGGTTGGTAAAGATCAGCGAATGGAGTGAATTCTAAGGCTTAT
390 TAAATTCTGGGCTCGGTGATGGAGGTTGGTAAAGATC-GCGAATGGAGTGGATTCTAAGGCTTAT
* * * * *
9482952 TGAATAAGAGGATGTATTTAATCAAGGATCGGGACTTGAGGGTCTGCAGACAAATGGGGAAATTA
454 TGAACAAGAGGATGTATTTAATTAAGGA-CGAGACTTAAGGGTCCGCAGACAAATGGGGAAATTA
* * *
9483017 AGGGCGATTATGTTCATCGAGGTTATACGGGGCTAAGTCACTCGGGTTGGAAAAAGAATG-AATC
518 AGGGGGATTATGTCCATCGAGGTTATACGGGGCTAAGTCACCCGGGTTGGAAAAAGAA-GAAATC
* * * *
9483081 CGTTAAGGACTAACCTAGGGCGGGCAGTCCACTAGGAAATATGAGGGATAAAAATTTGAAACCTA
582 CGTTAAGGACTAACCTAGGGCGGGTAGTCCACCAAGAAATAAGAGGGATAAAAATTTGAAACCTA
*
9483146 AGGAAATAAATGTCAGACAACCAATGACCGAAATTGGGTCTCCCATTCAAGGTTGTGAGAGAAAG
647 AGGAAATAAATGTCAGACAACCAATGACCGACATTGGGTCTCCCATTCAAGGTTGTGAGAGAAAG
*
9483211 AAATCT
712 AAATTT
* * * * *
9483217 -AA-ATGAGTAAGATCATAGATGAAAGATGTTATGGTATCATAAATGAGTAAGAACATAGCCGAC
1 AAATATGAGTAAGATCATAGCTGAAAGATGTTATGGCATCATAAATGAGTAAGACCATAGCTGAA
* * * * *
9483280 AGATGTTATGACATCAAAAATAAGTAAAACCATAGTTGAAA-ACCACTAT-GACATCCTTTAATA
66 AGATGTTATGACATCATAAATGAGTAAGACCATAGCTGAAAGACCACTATAGACATCCTTTGATA
* * * *
9483343 GTCCGTCGAGACAGTAAACATGAGGTTATATCGTGTAAGACCATAGTTAAAAGATGCCATAGCAT
131 GTCCGTCGAGACAGTAAACACGAGGTTATATCGTGTAAGACCATAGCTGAAAGACGCCATAGCAT
* * * * * *** *
9483408 GGTAGATAGTCCGCCAAGACAACAAACACGGGATAATCTACTGAAAA-AATAATCATAAGGCAAA
196 CGTAGATAGTTCGTCAGGACAACAAACACGGGATAATCCACT-AAAACAATAATCACGGGGCAAT
* * ** * * *
9483472 TCACCAAGACAGAAAGCGTGGTAA-ATTTTACCAATATAATTAGCTTGGAAATAAAGAGTGAAAG
260 TCGCCAAGACAGAAAGCATGGTAACA-TCCACCAAGACAATTAGCTTGGAAAGAAAGAGTGAAAG
* *
9483536 A-CATAAATCGGTTATGAAATCATGAAGACTCAACCGATAAGGTTAACA-AAGAGTTTAAAAGGT
324 ACCATAAATCGGTTATGAAATCATGAAGACTCAACCGATAAGGTGAACATGAGAGTTTAAAAGGT
* ** *
9483599 GTAAATTCTGGGCTCGGTGATGGAGGTTGGTAAAGATTGCTGAATAAAGTGGATTCTAAGGTTTA
389 GTAAATTCTGGGCTCGGTGATGGAGGTTGGTAAAGATCGC-GAATGGAGTGGATTCTAAGGCTTA
*
9483664 TTGAACAAGAGGATGTATTTAATGAAGGACTGAGACTTAAGGGTCCGCAGACAAA-GGAGGAAAT
453 TTGAACAAGAGGATGTATTTAATTAAGGAC-GAGACTTAAGGGTCCGCAGACAAATGG-GGAAAT
* * * * *
9483728 TAAGGGAGATTATGTCCATCGAGGTTATACGGGGATAAGTCACCTGGGTTGGCAAAAGAAGGAAT
516 TAAGGGGGATTATGTCCATCGAGGTTATACGGGGCTAAGTCACCCGGGTTGGAAAAAGAAGAAAT
* * * *
9483793 CCGTTAATGACTAACCT-GAGGCGGGTAGTCCATCAAGAAATAAGGGGGATAAAACTTTGAAACC
581 CCGTTAAGGACTAACCTAG-GGCGGGTAGTCCACCAAGAAATAAGAGGGATAAAAATTTGAAACC
*
9483857 TAAAGAAATAAATGTCAGACAACCAATGACCGACATTGGGTCTCCCATTCAAGGTTGTGAGAGAA
645 TAAGGAAATAAATGTCAGACAACCAATGACCGACATTGGGTCTCCCATTCAAGGTTGTGAGAGAA
9483922 AGAAATTT
710 AGAAATTT
* * * *
9483930 AAATGTGAGTAAGATTATAGTTGAAAGAGGTTATGGCATCATAAATGAGTAAGACCATAGCTGAA
1 AAATATGAGTAAGATCATAGCTGAAAGATGTTATGGCATCATAAATGAGTAAGACCATAGCTGAA
9483995 AGATGTTATGACATCATAAATGAGTAAGACCATAGCTGAAAGA-CACTATAG-CATCCTTTGATA
66 AGATGTTATGACATCATAAATGAGTAAGACCATAGCTGAAAGACCACTATAGACATCCTTTGATA
* *
9484058 GTCCG-CTGAGATAGTAAACACGAGGTTATATCGTGTAAGACCATAGCTGAAAGACGTCATAGCA
131 GTCCGTC-GAGACAGTAAACACGAGGTTATATCGTGTAAGACCATAGCTGAAAGACGCCATAGCA
* * * * *
9484122 TCATAGATAGTTCGTCAGGACAATAAACACGAGATAATCTACTAAAACAATAATCACGGGGTAAT
195 TCGTAGATAGTTCGTCAGGACAACAAACACGGGATAATCCACTAAAACAATAATCACGGGGCAAT
* *
9484187 TCGCCAAGACAGAAAGCGTGGTAACATCTACCAAGACAATTAGCTTGGAAAGAAAGAGTGAAAGA
260 TCGCCAAGACAGAAAGCATGGTAACATCCACCAAGACAATTAGCTTGGAAAGAAAGAGTGAAAGA
*
9484252 CCATAAATCAGTTATGAAATCATGAAGACTCAACCGATAAGGTGAACATGAGAGTTTAAAAGGTG
325 CCATAAATCGGTTATGAAATCATGAAGACTCAACCGATAAGGTGAACATGAGAGTTTAAAAGGTG
* * * * *
9484317 TAAATTCTGGGCTCGATGATGCATGTTGGTAAAGATCGTCAAATGGAGTGGATTCGAAGGCTTAT
390 TAAATTCTGGGCTCGGTGATGGAGGTTGGTAAAGATCG-CGAATGGAGTGGATTCTAAGGCTTAT
* * * *
9484382 TGAACAAGAGGATGTATTTAATTAAGGACAGGGACTTAAGGGTCCACGGACAAA-GGGGCAATTA
454 TGAACAAGAGGATGTATTTAATTAAGGAC-GAGACTTAAGGGTCCGCAGACAAATGGGGAAATTA
* * *
9484446 AGGGGGATTATGTCCATCGAGGTTATACGGGGCTAAGTCACCCAGGTTGGAAAAAGAATAAATTC
518 AGGGGGATTATGTCCATCGAGGTTATACGGGGCTAAGTCACCCGGGTTGGAAAAAGAAGAAATCC
* * *
9484511 GTTAAGAACTAATCTGGGGCGGGTAGTCCACCAAGAAATAAGAGGGAT-AAAATTTGAAACCTAA
583 GTTAAGGACTAACCTAGGGCGGGTAGTCCACCAAGAAATAAGAGGGATAAAAATTTGAAACCTAA
* * *
9484575 GGAAACAAATGTCAGACAACCAATGACCGACATTGGGTCTCCCATTCAATGTTGTGAGAGACAGA
648 GGAAATAAATGTCAGACAACCAATGACCGACATTGGGTCTCCCATTCAAGGTTGTGAGAGAAAGA
9484640 AATTT
713 AATTT
*
9484645 AAATATAAGTAAGATCATAGCTGAAAGATGTTATGGCATCATAAATGAGTAAGACCATAGCTGAA
1 AAATATGAGTAAGATCATAGCTGAAAGATGTTATGGCATCATAAATGAGTAAGACCATAGCTGAA
* *** * *
9484710 AGATGTTATGACATTATAAATGAGTAAGACCATAGCTGAAAGA-TGTTAT-GACATCATAAATGA
66 AGATGTTATGACATCATAAATGAGTAAGACCATAGCTGAAAGACCACTATAGACATCCT--TTGA
* * * ** ** * * *
9484773 GTAAGACCATAGCTGAAAGACACTATGTCATC--TTTTGATAGTTCGTCGAGACAGTAAACACGA
129 -T-AGTCCGT--C-G--AGACAGTA-AACA-CGAGGTT-ATA--TCGT-G-TA-AG--ACCA-TA
* * ** ** * * * *
9484836 GGTTATATCATGTAAAACCATAGCTGAAAG-ATGCCATAGCATCGTAGATAGTTCGTCAGGATAA
176 GCTGA-A--A-G--ACGCCATAGC--ATCGTA-G--ATAG-TTCGT---CAG---GACA--ACAA
* ** * * *
9484900 TAAACACGGGATAATCCACCT-AGACAATAATCACGGGGCAGTTCCCCAAGACAGAAAGCATGGT
221 -ACACGGG--ATAATCCA-CTAAAACAATAATCACGGGGCAATTCGCCAAGACAGAAAGCATGGT
* * *
9484964 AACATCCACCAAGACAATTAGCTTGGAAAGAAAGAGTGAAATACCATAAAT-GGTAATGACATCA
282 AACATCCACCAAGACAATTAGCTTGGAAAGAAAGAGTGAAAGACCATAAATCGGTTATGAAATCA
* * *
9485028 TGAAGACTCAACCAATAAGGTGAACGTGAGAGTTTAAAAGGTGTAAATTTTGGGCTCGGTGATGG
347 TGAAGACTCAACCGATAAGGTGAACATGAGAGTTTAAAAGGTGTAAATTCTGGGCTCGGTGATGG
* * * *
9485093 AGGTTGGTAAAGATTGTTGAATGGAGTAGATTTTAAGGCTTATTGAAC-A-A-GATG--------
412 AGGTTGGTAAAGATCG-CGAATGGAGTGGATTCTAAGGCTTATTGAACAAGAGGATGTATTTAAT
* * * * * * * *
9485147 --A--CCGAGACTTAAGGGTCCGCGGAAAAATGGGGTAACTAAGGGCGG-TTATGTTCGTCGAGA
476 TAAGGACGAGACTTAAGGGTCCGCAGACAAATGGGGAAATTAAGGG-GGATTATGTCCATCGAGG
* * *
9485207 TTATACGGGGCTAAGTCACCCGAGTTGGCAAAAGAAGAAATCCGTTAAGGATTAACCTAGGGCGG
540 TTATACGGGGCTAAGTCACCCGGGTTGGAAAAAGAAGAAATCCGTTAAGGACTAACCTAGGGCGG
* *
9485272 GTAGTGCACCAAGAAATAGAGGGGGATAAAAATTTGAAACCTAAGGAAATAAATGTCAGACAACC
605 GTAGTCCACCAAGAAATA-AGAGGGATAAAAATTTGAAACCTAAGGAAATAAATGTCAGACAACC
*
9485337 AATGACCGACATTGGGTCTCCCATTCAAGGTTGTGAGAGAAATAAATTT
669 AATGACCGACATTGGGTCTCCCATTCAAGGTTGTGAGAGAAAGAAATTT
9485386 GGTTGAGGTG
Statistics
Matches: 1859, Mismatches: 240, Indels: 116
0.84 0.11 0.05
Matches are distributed among these distances:
712 7 0.00
713 305 0.16
714 51 0.03
715 717 0.39
716 159 0.09
717 124 0.07
718 2 0.00
719 4 0.00
722 3 0.00
724 8 0.00
725 5 0.00
726 1 0.00
727 4 0.00
728 1 0.00
729 1 0.00
730 2 0.00
732 3 0.00
733 4 0.00
734 1 0.00
736 1 0.00
737 1 0.00
738 21 0.01
739 105 0.06
740 10 0.01
741 85 0.05
743 4 0.00
744 4 0.00
747 2 0.00
750 3 0.00
751 4 0.00
752 5 0.00
753 5 0.00
754 111 0.06
755 94 0.05
756 2 0.00
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.23
Consensus pattern (717 bp):
AAATATGAGTAAGATCATAGCTGAAAGATGTTATGGCATCATAAATGAGTAAGACCATAGCTGAA
AGATGTTATGACATCATAAATGAGTAAGACCATAGCTGAAAGACCACTATAGACATCCTTTGATA
GTCCGTCGAGACAGTAAACACGAGGTTATATCGTGTAAGACCATAGCTGAAAGACGCCATAGCAT
CGTAGATAGTTCGTCAGGACAACAAACACGGGATAATCCACTAAAACAATAATCACGGGGCAATT
CGCCAAGACAGAAAGCATGGTAACATCCACCAAGACAATTAGCTTGGAAAGAAAGAGTGAAAGAC
CATAAATCGGTTATGAAATCATGAAGACTCAACCGATAAGGTGAACATGAGAGTTTAAAAGGTGT
AAATTCTGGGCTCGGTGATGGAGGTTGGTAAAGATCGCGAATGGAGTGGATTCTAAGGCTTATTG
AACAAGAGGATGTATTTAATTAAGGACGAGACTTAAGGGTCCGCAGACAAATGGGGAAATTAAGG
GGGATTATGTCCATCGAGGTTATACGGGGCTAAGTCACCCGGGTTGGAAAAAGAAGAAATCCGTT
AAGGACTAACCTAGGGCGGGTAGTCCACCAAGAAATAAGAGGGATAAAAATTTGAAACCTAAGGA
AATAAATGTCAGACAACCAATGACCGACATTGGGTCTCCCATTCAAGGTTGTGAGAGAAAGAAAT
TT
Found at i:9484704 original size:40 final size:40
Alignment explanation
Indices: 9484652--9484792 Score: 255
Period size: 40 Copynumber: 3.5 Consensus size: 40
9484642 TTTAAATATA
* *
9484652 AGTAAGATCATAGCTGAAAGATGTTATGGCATCATAAATG
1 AGTAAGACCATAGCTGAAAGATGTTATGACATCATAAATG
*
9484692 AGTAAGACCATAGCTGAAAGATGTTATGACATTATAAATG
1 AGTAAGACCATAGCTGAAAGATGTTATGACATCATAAATG
9484732 AGTAAGACCATAGCTGAAAGATGTTATGACATCATAAATG
1 AGTAAGACCATAGCTGAAAGATGTTATGACATCATAAATG
9484772 AGTAAGACCATAGCTGAAAGA
1 AGTAAGACCATAGCTGAAAGA
9484793 CACTATGTCA
Statistics
Matches: 97, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 97 1.00
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.25
Consensus pattern (40 bp):
AGTAAGACCATAGCTGAAAGATGTTATGACATCATAAATG
Found at i:9487398 original size:6 final size:6
Alignment explanation
Indices: 9487389--9487436 Score: 60
Period size: 6 Copynumber: 7.7 Consensus size: 6
9487379 CAAAAATCAA
* *
9487389 AAAAAT AAAAGT AAAAGT AAAAGT AAAAGT AAAAATT AAAAGTT AAAA
1 AAAAGT AAAAGT AAAAGT AAAAGT AAAAGT -AAAAGT AAAAG-T AAAA
9487437 AAATTATTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
6 27 0.73
7 10 0.27
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (6 bp):
AAAAGT
Found at i:9487990 original size:20 final size:20
Alignment explanation
Indices: 9487953--9487990 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
9487943 AGTTAAAACA
* *
9487953 TAAAAAAATTCAATAATTAT
1 TAAAAAAATCCAAAAATTAT
9487973 TAAAAAAATCCAAAAATT
1 TAAAAAAATCCAAAAATT
9487991 TGTTTAAGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (20 bp):
TAAAAAAATCCAAAAATTAT
Found at i:9488045 original size:17 final size:17
Alignment explanation
Indices: 9488025--9488059 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
9488015 AAAATAGAAA
9488025 AATATATTTAAAATTTT
1 AATATATTTAAAATTTT
9488042 AATATATTTAAAATTTT
1 AATATATTTAAAATTTT
9488059 A
1 A
9488060 TAAATCACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
AATATATTTAAAATTTT
Found at i:9489134 original size:42 final size:42
Alignment explanation
Indices: 9489070--9489150 Score: 119
Period size: 42 Copynumber: 1.9 Consensus size: 42
9489060 AGGTACTCAT
*
9489070 CCAACTTCTATAAGTTTGCATTTTAGATACCAAAGTTTAGAC
1 CCAACTTCTATAAGTTTACATTTTAGATACCAAAGTTTAGAC
* *
9489112 CCAACTT-TCATAATTTTACATTTTAGGTACCAAAGTTTA
1 CCAACTTCT-ATAAGTTTACATTTTAGATACCAAAGTTTA
9489151 AATCTGTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
41 1 0.03
42 34 0.97
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.38
Consensus pattern (42 bp):
CCAACTTCTATAAGTTTACATTTTAGATACCAAAGTTTAGAC
Found at i:9494388 original size:19 final size:19
Alignment explanation
Indices: 9494364--9494402 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
9494354 CTAATTTTAC
9494364 TTTTAA-ACAAATTTAATCA
1 TTTTAAGACAAA-TTAATCA
*
9494383 TTTTAAGTCAAATTAATCA
1 TTTTAAGACAAATTAATCA
9494402 T
1 T
9494403 GATTTTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.44, C:0.10, G:0.03, T:0.44
Consensus pattern (19 bp):
TTTTAAGACAAATTAATCA
Found at i:9494926 original size:16 final size:16
Alignment explanation
Indices: 9494901--9494943 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
9494891 ATAATTGTTA
*
9494901 TGTTTAGAACAATTTT
1 TGTTTAGAACAACTTT
*
9494917 TGTTTGGAACAACTTT
1 TGTTTAGAACAACTTT
*
9494933 TATTTAGAACA
1 TGTTTAGAACA
9494944 GTTGTATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.44
Consensus pattern (16 bp):
TGTTTAGAACAACTTT
Found at i:9505400 original size:28 final size:27
Alignment explanation
Indices: 9505362--9505449 Score: 97
Period size: 28 Copynumber: 3.2 Consensus size: 27
9505352 ATTAAATAAA
*
9505362 GGAAAAGGCATTAATACATTAAATGTAG
1 GGAAAAAGCATTAA-ACATTAAATGTAG
* *
9505390 GGAAAAAGCATTAAGATATTAAATGCA-
1 GGAAAAAGCATTAA-ACATTAAATGTAG
* *
9505417 TGAAAAAGTCATTAAGCATTAAATGTAG
1 GGAAAAAG-CATTAAACATTAAATGTAG
9505445 GGAAA
1 GGAAA
9505450 TGACTTATTG
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
27 16 0.33
28 33 0.67
ACGTcount: A:0.49, C:0.07, G:0.20, T:0.24
Consensus pattern (27 bp):
GGAAAAAGCATTAAACATTAAATGTAG
Found at i:9513726 original size:13 final size:14
Alignment explanation
Indices: 9513710--9513740 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
9513700 AATGTTTGAG
9513710 ATTAATTGAA-ATA
1 ATTAATTGAATATA
9513723 ATTAATTGAATATA
1 ATTAATTGAATATA
9513737 ATTA
1 ATTA
9513741 TTTATTTAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (14 bp):
ATTAATTGAATATA
Found at i:9514098 original size:41 final size:41
Alignment explanation
Indices: 9513932--9514116 Score: 203
Period size: 41 Copynumber: 4.5 Consensus size: 41
9513922 ATTATTGTCT
* * *
9513932 AATTGTACATATGTGCCCATGTTTGTACTTCGATACCCCTG
1 AATTGCACATATGTGCCCCTGTTTGTACTTCGGTACCCCTG
* * * *
9513973 AATTGCACGTATGTACTCCTGTTTATACTTCGGTACCCCTG
1 AATTGCACATATGTGCCCCTGTTTGTACTTCGGTACCCCTG
* * *
9514014 AATTGCATATATGTTCCCCTATTTGTACTTCGGTACCCCTG
1 AATTGCACATATGTGCCCCTGTTTGTACTTCGGTACCCCTG
* * * * *
9514055 AATTGCACATACGTGCCTCTGTTTGTACTTCAGTACTCTTG
1 AATTGCACATATGTGCCCCTGTTTGTACTTCGGTACCCCTG
*
9514096 AA-TGCAC-TTTCGTGCCCCTGT
1 AATTGCACATAT-GTGCCCCTGT
9514117 ATTAGACCTG
Statistics
Matches: 119, Mismatches: 24, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 14 0.12
41 104 0.87
ACGTcount: A:0.19, C:0.26, G:0.17, T:0.37
Consensus pattern (41 bp):
AATTGCACATATGTGCCCCTGTTTGTACTTCGGTACCCCTG
Found at i:9523460 original size:16 final size:17
Alignment explanation
Indices: 9523439--9523477 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
9523429 ATTCAGAAAT
*
9523439 ATAAAAGAAAATTAA-A
1 ATAAAAGAAAATAAAGA
*
9523455 ATAAAATAAAATAAAGA
1 ATAAAAGAAAATAAAGA
9523472 ATAAAA
1 ATAAAA
9523478 AATCAATCCG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (17 bp):
ATAAAAGAAAATAAAGA
Found at i:9528514 original size:22 final size:22
Alignment explanation
Indices: 9528472--9528515 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
9528462 AATAAATATT
* *
9528472 AATATATATAGTATTTTAGATC
1 AATATATATAGTATATCAGATC
9528494 AATATGATATAG-ATATCAGATC
1 AATAT-ATATAGTATATCAGATC
9528516 GATTCAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (22 bp):
AATATATATAGTATATCAGATC
Found at i:9529959 original size:21 final size:21
Alignment explanation
Indices: 9529933--9529974 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
9529923 CCAATTATCA
*
9529933 TATTATTAAATTAATATATAT
1 TATTATCAAATTAATATATAT
* *
9529954 TATTATCAAATTTATTTATAT
1 TATTATCAAATTAATATATAT
9529975 AAATTTAAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
TATTATCAAATTAATATATAT
Found at i:9531084 original size:22 final size:22
Alignment explanation
Indices: 9531042--9531085 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
9531032 TAGAAATATT
* *
9531042 AATATATATAGTATTTTAGATC
1 AATATATATAGTATATCAGATC
9531064 AATATGATATAG-ATATCAGATC
1 AATAT-ATATAGTATATCAGATC
9531086 GATTCAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (22 bp):
AATATATATAGTATATCAGATC
Found at i:9532529 original size:21 final size:21
Alignment explanation
Indices: 9532503--9532544 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
9532493 CCAATTATCA
*
9532503 TATTATTAAATTAATATATAT
1 TATTATCAAATTAATATATAT
* *
9532524 TATTATCAAATTTATTTATAT
1 TATTATCAAATTAATATATAT
9532545 AAATTTAAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
TATTATCAAATTAATATATAT
Found at i:9538699 original size:27 final size:26
Alignment explanation
Indices: 9538669--9538762 Score: 71
Period size: 27 Copynumber: 3.5 Consensus size: 26
9538659 AGTTCACTTA
*
9538669 GACAGTAAACACAAGATGGTTCATGGG
1 GACAGTAAACACAAGA-GGTTCATCGG
* * ** *
9538696 GACACTAAACACAGGACGGTTTGTCGA
1 GACAGTAAACACAAGA-GGTTCATCGG
* * *
9538723 GACATTAAACACGAAGAAGTTCATTGG
1 GACAGTAAACAC-AAGAGGTTCATCGG
*
9538750 GATAGTAAACACA
1 GACAGTAAACACA
9538763 GGGCGGTCCG
Statistics
Matches: 50, Mismatches: 16, Indels: 3
0.72 0.23 0.04
Matches are distributed among these distances:
26 1 0.02
27 46 0.92
28 3 0.06
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.19
Consensus pattern (26 bp):
GACAGTAAACACAAGAGGTTCATCGG
Found at i:9538786 original size:54 final size:54
Alignment explanation
Indices: 9538668--9538786 Score: 132
Period size: 54 Copynumber: 2.2 Consensus size: 54
9538658 GAGTTCACTT
* * **
9538668 AGACAGTAAACACAAGATGGTTCATGGGGACACTAAACACAGGACGGTTTGTCG
1 AGACACTAAACACAAGATAGTTCATGGGGACACTAAACACAGGACGGTCCGTCG
* * * * *
9538722 AGACATTAAACACGAAGA-AGTTCATTGGGATAGTAAACACAGGGCGGTCCGTCG
1 AGACACTAAACAC-AAGATAGTTCATGGGGACACTAAACACAGGACGGTCCGTCG
*
9538776 GGACACTAAAC
1 AGACACTAAAC
9538787 TGGGGTAGTT
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
54 50 0.93
55 4 0.07
ACGTcount: A:0.36, C:0.19, G:0.27, T:0.18
Consensus pattern (54 bp):
AGACACTAAACACAAGATAGTTCATGGGGACACTAAACACAGGACGGTCCGTCG
Found at i:9553490 original size:60 final size:59
Alignment explanation
Indices: 9553330--9553498 Score: 193
Period size: 60 Copynumber: 2.8 Consensus size: 59
9553320 TTAATTTATA
*
9553330 ATATAATTTATTTCAATTATTAGCCTCAATTTTTATATTCTATTCAATTAGATTAAATTC
1 ATATAATTTATTTCAATTATTAGCCTCAA-TTTTATATTCTATTCAATTAAATTAAATTC
* * * *
9553390 ATATAA-TTCTTT-AAGTGTATT--CATATAATTCATATAATTCTATTCAATTAAATTAAATTC
1 ATATAATTTATTTCAA-T-TATTAGCCT-CAATT-TTAT-ATTCTATTCAATTAAATTAAATTC
*
9553450 ATATAATTTATTTCGATTATTAGCCTCAATTTTCATATTCTATTCAATT
1 ATATAATTTATTTCAATTATTAGCCTCAATTTT-ATATTCTATTCAATT
9553499 CCCCCCACAT
Statistics
Matches: 89, Mismatches: 10, Indels: 20
0.75 0.08 0.17
Matches are distributed among these distances:
58 6 0.07
59 11 0.12
60 57 0.64
61 12 0.13
62 3 0.03
ACGTcount: A:0.36, C:0.12, G:0.04, T:0.49
Consensus pattern (59 bp):
ATATAATTTATTTCAATTATTAGCCTCAATTTTATATTCTATTCAATTAAATTAAATTC
Found at i:9559654 original size:39 final size:39
Alignment explanation
Indices: 9559589--9559682 Score: 107
Period size: 39 Copynumber: 2.4 Consensus size: 39
9559579 AACATGTTTT
* * *
9559589 TGAGTATTGTGACATATACTTGAATGTTATACGATTATA
1 TGAGTATTGTGATATACACTTAAATGTTATACGATTATA
* **
9559628 TGAGTATTGTGATATACGCTTAAATGTTATGTGATTATA
1 TGAGTATTGTGATATACACTTAAATGTTATACGATTATA
* * *
9559667 TGTGTAATGTGGTATA
1 TGAGTATTGTGATATA
9559683 TGTTTAAAAG
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.43
Consensus pattern (39 bp):
TGAGTATTGTGATATACACTTAAATGTTATACGATTATA
Found at i:9565887 original size:510 final size:509
Alignment explanation
Indices: 9564680--9566216 Score: 2772
Period size: 510 Copynumber: 3.0 Consensus size: 509
9564670 TCAGTAGTAT
*
9564680 CCTCATCTATTCGGATCAGGTAAATTTCAAGGCCGAAATTTCTTTTAGGGGGTAGAGTTGTGATA
1 CCTCTTCTATTCGGATCAGGTAAATTTCAAGGCCGAAATTTCTTTTAGGGGGTAGAGTTGTGATA
9564745 CCCTAAGTAACTTATTTCTGTTTTTGTGAAATCAGACACAAGTGTGTATCTGCTTCAATGGTTAA
66 CCCTAAGTAACTTATTTCTGTTTTTGTGAAATCAGACACAAGTGTGTATCTGCTTCAATGGTTAA
* * * * *
9564810 GTGTTCTGGTATGGGTAAGGGGTCTTGGGTTCAACTTCCACTTTCGGTAAAACTTTTTTATTTTA
131 GTGTTCTGGTATGGGTAAGAGGTCTTGGGTTCAACTCCCACTTTTGGCAAAACTTTGTTATTTTA
9564875 GATCCAAGCTTTACTCTTATTGAGTGGGCTTATATTAAATTGTTTGTTAATCCAAATCAGAATGA
196 GATCCAAGCTTTACTCTTATTGAGTGGGCTTATATTAAATTGTTTGTTAATCCAAATCAGAATGA
* *
9564940 GTCTGCTGGTTCGAGTGGTAAGGAGTTAGTGTGTTGGAGTTCTTGTGTTCGAGCCCTTGCGTGAG
261 GTCTGCTGGTTCGAGTGGTAAGGAGTTAGTGTGTTGGAGTTCCTATGTTCGAGCCCTTGCGTGAG
*
9565005 TGTCAATGTTAATTTTTACTCGGTTGTCTGATAGAGTTTCGGTAGAGCTAAAATTCTGAAATAGT
326 TGTCGATGTTAATTTTTACTCGGTTGTCTGATAGAGTTTCGGTAGAGCTAAAATTCTGAAATAGT
*
9565070 TGTGAATTAGTGGGTCAGTAGGAGAAAAATAGGGGATACGTTGTCATATCTTTTATTTTTCTTAT
391 TGTGAGTTAGTGGGTCAGTAGGAGAAAAATAGGGGATACGTTGTCATA--TTTTATTTTTCTTAT
9565135 TTTTTTCAAATTTTTATTTTCTTCCCCAATTTCTAACGTCAATTTTTTTCTCTTTTC
454 TTTTTTCAAATTTTTATTTTCTT-CCCAATTTCTAACGTCAATTTTTTTCTCTTTTC
* *
9565192 CCTCTTCTATTCGGATCACGTAAATTTCAAGGCTGAAATTTCTTTTAGGGGGTAGAGTTGTGATA
1 CCTCTTCTATTCGGATCAGGTAAATTTCAAGGCCGAAATTTCTTTTAGGGGGTAGAGTTGTGATA
9565257 CCCTAAGTAACTTATTTCTGTTTTTGTGAAATCAGACACAAGTGTGTATCTGCTTCAATGGTTAA
66 CCCTAAGTAACTTATTTCTGTTTTTGTGAAATCAGACACAAGTGTGTATCTGCTTCAATGGTTAA
9565322 GTGTTCTGGTATGGGTAAGAGGTCTTGGGTTCAACTCCCACTTTTGGCAAAACTTTGTTATTTTA
131 GTGTTCTGGTATGGGTAAGAGGTCTTGGGTTCAACTCCCACTTTTGGCAAAACTTTGTTATTTTA
*
9565387 GATCCAAGCTTTACTCTTATTGAGTGGGCTTATATTAAATTGTTTGTTAATCCAAATCATAATGA
196 GATCCAAGCTTTACTCTTATTGAGTGGGCTTATATTAAATTGTTTGTTAATCCAAATCAGAATGA
*
9565452 GTCTGCTGGTTCGAGTGGTAAGGAGTTAGTGTGTTGGAGTTCCTATGTTTGAGCCCTTGCGTGAG
261 GTCTGCTGGTTCGAGTGGTAAGGAGTTAGTGTGTTGGAGTTCCTATGTTCGAGCCCTTGCGTGAG
* * *
9565517 TGTCGATGTTAATTTTTACTCGGTTGTTTGGTAGAGTTTCGGTAGAGCTAAAATTCTAAAATAGT
326 TGTCGATGTTAATTTTTACTCGGTTGTCTGATAGAGTTTCGGTAGAGCTAAAATTCTGAAATAGT
9565582 TGTGAGTTAGTGGGTCAGTAGGAGAAAAATAGGGGATACGTTGTCATATTTTATTTTTCTTATTT
391 TGTGAGTTAGTGGGTCAGTAGGAGAAAAATAGGGGATACGTTGTCATATTTTATTTTTCTTATTT
9565647 TTTTCAAATTTTTATTTTCTTCCCTAATTTCTAACGTCAATTTTTTTCTCTTTTC
456 TTTTCAAATTTTTATTTTCTTCCC-AATTTCTAACGTCAATTTTTTTCTCTTTTC
*
9565702 CCTCTTCTATTTGGATCAGGTAAATTTCAAGGCCGAAATTTCTTTTAGGGGGTAGAGTTGTGATA
1 CCTCTTCTATTCGGATCAGGTAAATTTCAAGGCCGAAATTTCTTTTAGGGGGTAGAGTTGTGATA
* * *
9565767 CCCTAAGTAACTTATTTCTGTTTTTGTGAAATCAAACACAAGTATGTATCTGTTTCAATGGTTAA
66 CCCTAAGTAACTTATTTCTGTTTTTGTGAAATCAGACACAAGTGTGTATCTGCTTCAATGGTTAA
*
9565832 GTGTTCTGATATGGGTAAGAGGTCTTGGGTTCAACTCCCACTTTTGGCAAAACTTTGTTATTTTA
131 GTGTTCTGGTATGGGTAAGAGGTCTTGGGTTCAACTCCCACTTTTGGCAAAACTTTGTTATTTTA
* *
9565897 GATCCAAGCTTTACTCTTATTGAGTGGGCTTATATTAAACTGTTTGTTAATCTAAATCAGAATGA
196 GATCCAAGCTTTACTCTTATTGAGTGGGCTTATATTAAATTGTTTGTTAATCCAAATCAGAATGA
*
9565962 GTCTGCTGGTTTGAGTGGTAAGGAGTTAGTGTGTTGGAGTTCCTATGTTCGAGCCCTTGCGTGAG
261 GTCTGCTGGTTCGAGTGGTAAGGAGTTAGTGTGTTGGAGTTCCTATGTTCGAGCCCTTGCGTGAG
*
9566027 AGTCGATGTTAATTTTTACTCGGTTGTCTGATAGAGTTTCGGTAGAGCTAAAATTCTGAAATAGT
326 TGTCGATGTTAATTTTTACTCGGTTGTCTGATAGAGTTTCGGTAGAGCTAAAATTCTGAAATAGT
*
9566092 TATGAGTTAGTGGGTCAGTAGGAGAAAAATAGGGGATACGTTGTCATATTTTATTTTTCTTATTT
391 TGTGAGTTAGTGGGTCAGTAGGAGAAAAATAGGGGATACGTTGTCATATTTTATTTTTCTTATTT
*
9566157 TTTTCAAATTTTTATTTTC--CCCAATTTCTAACGTCAAATTTTTTCTCTTTTC
456 TTTTCAAATTTTTATTTTCTTCCCAATTTCTAACGTCAATTTTTTTCTCTTTTC
9566209 CCTCTTCT
1 CCTCTTCT
9566217 GATATTTTTC
Statistics
Matches: 989, Mismatches: 35, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
507 37 0.04
508 3 0.00
509 3 0.00
510 525 0.53
512 421 0.43
ACGTcount: A:0.24, C:0.14, G:0.21, T:0.41
Consensus pattern (509 bp):
CCTCTTCTATTCGGATCAGGTAAATTTCAAGGCCGAAATTTCTTTTAGGGGGTAGAGTTGTGATA
CCCTAAGTAACTTATTTCTGTTTTTGTGAAATCAGACACAAGTGTGTATCTGCTTCAATGGTTAA
GTGTTCTGGTATGGGTAAGAGGTCTTGGGTTCAACTCCCACTTTTGGCAAAACTTTGTTATTTTA
GATCCAAGCTTTACTCTTATTGAGTGGGCTTATATTAAATTGTTTGTTAATCCAAATCAGAATGA
GTCTGCTGGTTCGAGTGGTAAGGAGTTAGTGTGTTGGAGTTCCTATGTTCGAGCCCTTGCGTGAG
TGTCGATGTTAATTTTTACTCGGTTGTCTGATAGAGTTTCGGTAGAGCTAAAATTCTGAAATAGT
TGTGAGTTAGTGGGTCAGTAGGAGAAAAATAGGGGATACGTTGTCATATTTTATTTTTCTTATTT
TTTTCAAATTTTTATTTTCTTCCCAATTTCTAACGTCAATTTTTTTCTCTTTTC
Found at i:9572214 original size:21 final size:21
Alignment explanation
Indices: 9572188--9572229 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
9572178 AGGATTTCGG
9572188 TATGTGATTTCGTGTAAGACC
1 TATGTGATTTCGTGTAAGACC
9572209 TATGTGATTTCGTGTAAGACC
1 TATGTGATTTCGTGTAAGACC
9572230 ACGTCTGGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.24, T:0.38
Consensus pattern (21 bp):
TATGTGATTTCGTGTAAGACC
Found at i:9572280 original size:44 final size:43
Alignment explanation
Indices: 9572213--9572377 Score: 167
Period size: 43 Copynumber: 3.8 Consensus size: 43
9572203 AAGACCTATG
9572213 TGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGAT-TT
1 TGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATT
* * ** *
9572255 GAGATTTACGTGTAAGACCATGTCTGGGAAATTGGCATCG-TGTT
1 -TGATTT-CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATT
* *
9572299 TGACTTCGTGTAATACC-CTGTCTGGGACAG-TGGCATCGATATT
1 TGATTTCGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATT
* * * *
9572342 TGATTACATGTAAGACCACGTCTAGGACGATGGCAT
1 TGATTTCGTGTAAGACCACGTCTGGGACGTTGGCAT
9572378 TGTGCGAGCT
Statistics
Matches: 99, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
42 27 0.27
43 40 0.40
44 32 0.32
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (43 bp):
TGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATT
Found at i:9574626 original size:13 final size:13
Alignment explanation
Indices: 9574610--9574653 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
9574600 TCGTAGGTCA
9574610 AATAAATTATACT
1 AATAAATTATACT
*
9574623 AATAAATGATA--
1 AATAAATTATACT
*
9574634 AATATATTATACT
1 AATAAATTATACT
9574647 AATAAAT
1 AATAAAT
9574654 ACTAAATCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
11 9 0.36
13 16 0.64
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (13 bp):
AATAAATTATACT
Found at i:9577422 original size:9 final size:9
Alignment explanation
Indices: 9577405--9577441 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
9577395 TGAGTTTTCG
9577405 AATTCGAAT
1 AATTCGAAT
*
9577414 AACTCGAAT
1 AATTCGAAT
9577423 AATTCGAAT
1 AATTCGAAT
9577432 AATTCGAAT
1 AATTCGAAT
9577441 A
1 A
9577442 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:9577747 original size:7 final size:7
Alignment explanation
Indices: 9577712--9577745 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
9577702 ATTCTCTTCT
9577712 CCTCCCA
1 CCTCCCA
*
9577719 CCTCCTA
1 CCTCCCA
9577726 CCTCCCA
1 CCTCCCA
*
9577733 CCTCCCC
1 CCTCCCA
9577740 CCTCCC
1 CCTCCC
9577746 CCAAACTCTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.09, C:0.74, G:0.00, T:0.18
Consensus pattern (7 bp):
CCTCCCA
Found at i:9578937 original size:17 final size:17
Alignment explanation
Indices: 9578915--9578947 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
9578905 TTTCAACTTG
9578915 CTTCTATAATTTACTCA
1 CTTCTATAATTTACTCA
9578932 CTTCTATAATTTACTC
1 CTTCTATAATTTACTC
9578948 TGACTTGCGT
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:0.27, C:0.24, G:0.00, T:0.48
Consensus pattern (17 bp):
CTTCTATAATTTACTCA
Found at i:9581373 original size:20 final size:20
Alignment explanation
Indices: 9581328--9581373 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
9581318 GGTAAGATTT
9581328 TATA-ATTTTATTATTTTAA
1 TATATATTTTATTATTTTAA
9581347 -ATAATATTTTATTATTTTAA
1 TAT-ATATTTTATTATTTTAA
9581367 TATATAT
1 TATATAT
9581374 GATAATTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 2 0.08
19 1 0.04
20 19 0.79
21 2 0.08
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TATATATTTTATTATTTTAA
Found at i:9587088 original size:18 final size:18
Alignment explanation
Indices: 9587065--9587110 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
9587055 CTTATCCTAT
* *
9587065 ACCCAATACCAACCCAAA
1 ACCCAAAACAAACCCAAA
*
9587083 ACCCAAAACAAACCCAATT
1 ACCCAAAACAAACCCAA-A
9587102 ACCCAAAAC
1 ACCCAAAAC
9587111 CCAAACAAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.52, C:0.41, G:0.00, T:0.07
Consensus pattern (18 bp):
ACCCAAAACAAACCCAAA
Found at i:9587123 original size:25 final size:26
Alignment explanation
Indices: 9587076--9587124 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
9587066 CCCAATACCA
9587076 ACCCAAAACCCAAAACAAACCCAATT
1 ACCCAAAACCCAAAACAAACCCAATT
*
9587102 ACCCAAAACCC-AAACAAGCCCAA
1 ACCCAAAACCCAAAACAAACCCAA
9587125 CTAAACCCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.53, C:0.41, G:0.02, T:0.04
Consensus pattern (26 bp):
ACCCAAAACCCAAAACAAACCCAATT
Found at i:9592970 original size:14 final size:14
Alignment explanation
Indices: 9592951--9592980 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
9592941 ATGAAGGGGG
9592951 ATATGAAGTGTTGC
1 ATATGAAGTGTTGC
9592965 ATATGAAGTGTTGC
1 ATATGAAGTGTTGC
9592979 AT
1 AT
9592981 TAACATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (14 bp):
ATATGAAGTGTTGC
Found at i:9594615 original size:8 final size:7
Alignment explanation
Indices: 9594593--9594621 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
9594583 TCCAAATTTC
9594593 ATAAAAT
1 ATAAAAT
9594600 ATAAAAT
1 ATAAAAT
9594607 ATAAAA-
1 ATAAAAT
9594613 ATAAAAT
1 ATAAAAT
9594620 AT
1 AT
9594622 TTTTAACATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
ATAAAAT
Found at i:9594618 original size:13 final size:14
Alignment explanation
Indices: 9594593--9594621 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
9594583 TCCAAATTTC
9594593 ATAAAATATAAAAT
1 ATAAAATATAAAAT
9594607 ATAAAA-ATAAAAT
1 ATAAAATATAAAAT
9594620 AT
1 AT
9594622 TTTTAACATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (14 bp):
ATAAAATATAAAAT
Found at i:9595154 original size:114 final size:113
Alignment explanation
Indices: 9594969--9596007 Score: 1499
Period size: 114 Copynumber: 9.1 Consensus size: 113
9594959 AAAATAAGCA
*** * * *** *
9594969 TTAGCGGCGTTTTCCAGAAAGCGCCGC-AAAGTACCTAATCCCAACGATGTCATTTT-TCGAGCT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAATACCTAAGCCCAACGACACCGTTTTCT-GAGCT
* * * * *
9595032 TTCAGGGATTTAGCGGCGTTTTTAA-TAAATCGCTGCTAATGCTGAGGCCT
65 TTCGGGGATTTAGTGGCGTTTTTAAGT-AAGCGCCGCTAATGCTCAGG-CT
* * * *
9595082 TTAGCGGCGTTTTTGAGAAAGCGCCACAAAAAAACCTAATCCCAACGACACCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAATACCTAAGCCCAACGACACCGTTTTCTGAGCTT
* *
9595147 TCGGGGATTTAGTGGCATTTTTAAGCAAGCGCCGCTAATGCTCAGGGCT
66 TCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTAATGCTCA-GGCT
*
9595196 TTCGCGGCGTTTTTGGGAAAGCGCCGCAAAAATACCTAAGCCCAACGACACCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAATACCTAAGCCCAACGACACCGTTTTCTGAGCTT
9595261 TCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTAATGCTCATGGCT
66 TCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTAATGCTCA-GGCT
* *
9595310 TTAGCGGCGTCTTTGGGAAAGCGCCGCAAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAATACCTAAGCCCAACGACACCGTTTTCTGAGCTT
* *
9595375 TCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTAATGTTTAAGGCT
66 TCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTAATG-CTCAGGCT
*
9595424 TTAGCGGCATTTTTGGGAAAGCGCCGCAAAAATACCTAAGCCCAACGACACCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAATACCTAAGCCCAACGACACCGTTTTCTGAGCTT
*
9595489 TCGGGGATTTTGTGGCGTTTTTAAGTAAGCGCCGCTAATGCTCATGGCT
66 TCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTAATGCTCA-GGCT
* ** *
9595538 TTAGCGGCGTTTTTGGGAAAGCACCGCAAAAATATTTAAGCCCAACGACACCGTTTTCTAAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAATACCTAAGCCCAACGACACCGTTTTCTGAGCTT
* * * *
9595603 TCGGGGATTTAGTGACATTTTTAAATAAGCACCGCTAATGCTCAGGGCT
66 TCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTAATGCTCA-GGCT
* * *
9595652 TTAGCGGTGTTTTTGGGAAAGCGCCGCAAAAATACCTAAGCCCAACGACGCTGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAATACCTAAGCCCAACGACACCGTTTTCTGAGCTT
*
9595717 TCGGGAATTTAGTGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
66 TCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTAATGCTCA-GGCT
* * *
9595766 TTAGTGGCGTTTTTGGGAAAGCGCCGCAAAAATACCTAAGCCCAACGACGCTGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAATACCTAAGCCCAACGACACCGTTTTCTGAGCTT
* * *
9595831 TCGGGAATTTAGTGGCGTTTTTAAGTAAACGTCGCTAATGCTCAGTGCT
66 TCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAG-GCT
* * **
9595880 TTAGCGGCGTTTTTGGGAAATCGCCGCAAAAATACCTAAGCCCAACAACACAATTTTCTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAATACCTAAGCCCAACGACACCGTTTTCTGAGCTT
* *
9595945 TCGGGAATTTAGTGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGAT
66 TCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTAATGCTCA-GGCT
9595994 TTAGCGGCGTTTTT
1 TTAGCGGCGTTTTT
9596008 TAATAGAAAA
Statistics
Matches: 847, Mismatches: 71, Indels: 15
0.91 0.08 0.02
Matches are distributed among these distances:
113 27 0.03
114 814 0.96
115 6 0.01
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (113 bp):
TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAATACCTAAGCCCAACGACACCGTTTTCTGAGCTT
TCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGCT
Found at i:9596612 original size:82 final size:83
Alignment explanation
Indices: 9596442--9596660 Score: 242
Period size: 89 Copynumber: 2.6 Consensus size: 83
9596432 TTAGGTTAGA
* *
9596442 GTTTAGGGTTTAGATTAATTAGTGTGTTTTAA-TTATATATTAAATAAGGTTTAGGGGTTAGGGA
1 GTTTAGGGTTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAAGTTTAGGGGTTAGGGA
* **
9596506 TTCGGGGTCGAGTTTAAG
66 TTAGGGGTCGAGGGTAAG
* *
9596524 GTTTAGGGTTTAGATCAATTAGTGTTTTTTAATTTATATATTAAATAAAGTTTAGGGGTTAGGGG
1 GTTTAGGGTTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAAGTTTAGGGGTTAGGGA
* * * *
9596589 TTAGGGATTTGGGGTCGTGTTAGG
66 TTAGGG--GTCGAG--G-G-TAAG
* * **
9596613 GTTTAAGATTTAGATTAATTAGTACTTTTTAATTTATATATTAAATAA
1 GTTTAGGGTTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAA
9596661 GTTCTTTATA
Statistics
Matches: 114, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
82 30 0.26
83 35 0.31
85 3 0.03
89 46 0.40
ACGTcount: A:0.29, C:0.02, G:0.25, T:0.44
Consensus pattern (83 bp):
GTTTAGGGTTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAAGTTTAGGGGTTAGGGA
TTAGGGGTCGAGGGTAAG
Found at i:9596647 original size:89 final size:90
Alignment explanation
Indices: 9596492--9596660 Score: 259
Period size: 89 Copynumber: 1.9 Consensus size: 90
9596482 TAAATAAGGT
* * **
9596492 TTAGGGGTTAGGGATTCGGGGTCGAGTTTAAGGTTTAGGGTTTAGATCAATTAGTGTTTTTTAAT
1 TTAGGGGTTAGGGATTCGGGGTCGAGTTTAAGGTTTAAGATTTAGATCAATTAGTACTTTTTAAT
9596557 TTATATATTAAATAAAGTTTAGGGG
66 TTATATATTAAATAAAGTTTAGGGG
* * * *
9596582 TTAGGGGTTAGGGATTTGGGGTCGTG-TTAGGGTTTAAGATTTAGATTAATTAGTACTTTTTAAT
1 TTAGGGGTTAGGGATTCGGGGTCGAGTTTAAGGTTTAAGATTTAGATCAATTAGTACTTTTTAAT
9596646 TTATATATTAAATAA
66 TTATATATTAAATAA
9596661 GTTCTTTATA
Statistics
Matches: 71, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
89 47 0.66
90 24 0.34
ACGTcount: A:0.28, C:0.03, G:0.27, T:0.43
Consensus pattern (90 bp):
TTAGGGGTTAGGGATTCGGGGTCGAGTTTAAGGTTTAAGATTTAGATCAATTAGTACTTTTTAAT
TTATATATTAAATAAAGTTTAGGGG
Found at i:9596740 original size:21 final size:21
Alignment explanation
Indices: 9596687--9596740 Score: 51
Period size: 21 Copynumber: 2.6 Consensus size: 21
9596677 TAAAGATTAT
9596687 TAATTTAAAA-TTGATATGCAA
1 TAATTTAAAATTTGATAT-CAA
*
9596708 T-ATATAATAATTTGAATAT-AA
1 TAATTTAA-AATTTG-ATATCAA
9596729 TAATTTAAAATT
1 TAATTTAAAATT
9596741 GTAAAAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
20 5 0.19
21 10 0.37
22 8 0.30
23 4 0.15
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.43
Consensus pattern (21 bp):
TAATTTAAAATTTGATATCAA
Found at i:9596755 original size:8 final size:8
Alignment explanation
Indices: 9596730--9596773 Score: 54
Period size: 8 Copynumber: 5.2 Consensus size: 8
9596720 TGAATATAAT
9596730 AATT-TAA
1 AATTGTAA
9596737 AATTGTAAA
1 AATTGT-AA
9596746 AATTGTAA
1 AATTGTAA
9596754 AATTGTAAAA
1 AATTGT--AA
9596764 AATTGTAA
1 AATTGTAA
9596772 AA
1 AA
9596774 ATTATAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
7 4 0.12
8 13 0.39
9 8 0.24
10 8 0.24
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (8 bp):
AATTGTAA
Found at i:9596767 original size:10 final size:9
Alignment explanation
Indices: 9596735--9596783 Score: 73
Period size: 9 Copynumber: 5.4 Consensus size: 9
9596725 ATAATAATTT
9596735 AAAATTGTA
1 AAAATTGTA
9596744 AAAATTGT-
1 AAAATTGTA
9596752 AAAATTGTAA
1 AAAATTGT-A
9596762 AAAATTGTA
1 AAAATTGTA
*
9596771 AAAATTATA
1 AAAATTGTA
9596780 AAAA
1 AAAA
9596784 AATAAAATTA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
8 8 0.22
9 21 0.57
10 8 0.22
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.31
Consensus pattern (9 bp):
AAAATTGTA
Found at i:9596789 original size:27 final size:27
Alignment explanation
Indices: 9596735--9596790 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
9596725 ATAATAATTT
* ***
9596735 AAAATTGTAAAAATTGTAAAATTGTAA
1 AAAATTGTAAAAATTATAAAAAAATAA
9596762 AAAATTGTAAAAATTATAAAAAAATAA
1 AAAATTGTAAAAATTATAAAAAAATAA
9596789 AA
1 AA
9596791 TTAAAATAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (27 bp):
AAAATTGTAAAAATTATAAAAAAATAA
Found at i:9596886 original size:47 final size:47
Alignment explanation
Indices: 9596815--9596912 Score: 142
Period size: 47 Copynumber: 2.1 Consensus size: 47
9596805 GAAAAAGAAA
* ** * *
9596815 TAAAACACTAAAATTTTTATTTTTACCTAATTTTTATAAATATTACT
1 TAAAAAACTAAAATTGATAATTTTACCTAATTTTTATAAATATTACC
*
9596862 TAAAAAACTAAAATTGATAATTTTATCTAATTTTTATAAATATTACC
1 TAAAAAACTAAAATTGATAATTTTACCTAATTTTTATAAATATTACC
9596909 TAAA
1 TAAA
9596913 CAAAACTATG
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.45, C:0.09, G:0.01, T:0.45
Consensus pattern (47 bp):
TAAAAAACTAAAATTGATAATTTTACCTAATTTTTATAAATATTACC
Found at i:9598203 original size:21 final size:21
Alignment explanation
Indices: 9598160--9598206 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
9598150 TTAAATTTGA
* *
9598160 AATTTTACAATTTAATCATCT
1 AATTTTACAATATAATCAACT
* *
9598181 AATTTTACAATATCATTAACT
1 AATTTTACAATATAATCAACT
9598202 AATTT
1 AATTT
9598207 AAATAGTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (21 bp):
AATTTTACAATATAATCAACT
Found at i:9599006 original size:58 final size:58
Alignment explanation
Indices: 9598937--9599138 Score: 404
Period size: 58 Copynumber: 3.5 Consensus size: 58
9598927 AATAAAATTA
9598937 TGGTTTAAAGATATTTTTAAGTTAAAATTTTGAGAAATCATTATTAAAATTATGGTTT
1 TGGTTTAAAGATATTTTTAAGTTAAAATTTTGAGAAATCATTATTAAAATTATGGTTT
9598995 TGGTTTAAAGATATTTTTAAGTTAAAATTTTGAGAAATCATTATTAAAATTATGGTTT
1 TGGTTTAAAGATATTTTTAAGTTAAAATTTTGAGAAATCATTATTAAAATTATGGTTT
9599053 TGGTTTAAAGATATTTTTAAGTTAAAATTTTGAGAAATCATTATTAAAATTATGGTTT
1 TGGTTTAAAGATATTTTTAAGTTAAAATTTTGAGAAATCATTATTAAAATTATGGTTT
9599111 TGGTTTAAAGATATTTTTAAGTTAAAAT
1 TGGTTTAAAGATATTTTTAAGTTAAAAT
9599139 CTCACTATTT
Statistics
Matches: 144, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 144 1.00
ACGTcount: A:0.38, C:0.01, G:0.14, T:0.47
Consensus pattern (58 bp):
TGGTTTAAAGATATTTTTAAGTTAAAATTTTGAGAAATCATTATTAAAATTATGGTTT
Found at i:9600040 original size:43 final size:43
Alignment explanation
Indices: 9599974--9600122 Score: 217
Period size: 43 Copynumber: 3.5 Consensus size: 43
9599964 CACCAAACAA
* * *
9599974 TAGCGGCGTTTGTGGGAAAAGCGCCGTTAAAGAACATGGCCTT
1 TAGCAGCGTTTGTGGAAAAAGCGCCGCTAAAGAACATGGCCTT
*
9600017 TAGCAGCATTTGTGGAAAAAGCGCCGCTAAAGAACATGGCCTT
1 TAGCAGCGTTTGTGGAAAAAGCGCCGCTAAAGAACATGGCCTT
* * * *
9600060 TAGCGGCGTTTGTGGGAAAAGCACCGCTAATGAACATGGCCTT
1 TAGCAGCGTTTGTGGAAAAAGCGCCGCTAAAGAACATGGCCTT
*
9600103 TAGCAGCGTTTGTAGAAAAA
1 TAGCAGCGTTTGTGGAAAAA
9600123 AATGCCGCAA
Statistics
Matches: 94, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 94 1.00
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.23
Consensus pattern (43 bp):
TAGCAGCGTTTGTGGAAAAAGCGCCGCTAAAGAACATGGCCTT
Found at i:9602729 original size:104 final size:105
Alignment explanation
Indices: 9602599--9602810 Score: 417
Period size: 104 Copynumber: 2.0 Consensus size: 105
9602589 ATAATTAAAT
9602599 AAATATTTAAAAATATTAATATATATATATATATATATAACTGGTACTGCCATTTTTTGTCTCGA
1 AAATATTTAAAAATATTAATATATATATATATATATATAACTGGTACTGCCATTTTTTGTCTCGA
9602664 TTTCTAATTTTTTTTTACCAATTTCGAGTAGTTCAGTTAA
66 TTTCTAATTTTTTTTTACCAATTTCGAGTAGTTCAGTTAA
9602704 AAATATTTAAAAA-ATTAATATATATATATATATATATAACTGGTACTGCCATTTTTTGTCTCGA
1 AAATATTTAAAAATATTAATATATATATATATATATATAACTGGTACTGCCATTTTTTGTCTCGA
9602768 TTTCTAATTTTTTTTTACCAATTTCGAGTAGTTCAGTTAA
66 TTTCTAATTTTTTTTTACCAATTTCGAGTAGTTCAGTTAA
9602808 AAA
1 AAA
9602811 GTAGTTCAAC
Statistics
Matches: 107, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
104 94 0.88
105 13 0.12
ACGTcount: A:0.35, C:0.10, G:0.08, T:0.46
Consensus pattern (105 bp):
AAATATTTAAAAATATTAATATATATATATATATATATAACTGGTACTGCCATTTTTTGTCTCGA
TTTCTAATTTTTTTTTACCAATTTCGAGTAGTTCAGTTAA
Found at i:9611813 original size:23 final size:22
Alignment explanation
Indices: 9611787--9611831 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
9611777 AAGTAAATAT
9611787 ACTAAATTCCTTAAA-ATAAAAAA
1 ACTAAATT--TTAAATATAAAAAA
*
9611810 ACTAAGTTTTAAATATAAAAAA
1 ACTAAATTTTAAATATAAAAAA
9611832 TACACGAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 8 0.40
23 7 0.35
ACGTcount: A:0.60, C:0.09, G:0.02, T:0.29
Consensus pattern (22 bp):
ACTAAATTTTAAATATAAAAAA
Found at i:9612377 original size:20 final size:20
Alignment explanation
Indices: 9612339--9612376 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9612329 TCAATTAAGT
*
9612339 TAAATTTAAATAGTTTTTTA
1 TAAATTAAAATAGTTTTTTA
9612359 TAAATTAAAATA-TTTTTT
1 TAAATTAAAATAGTTTTTT
9612377 TGTTATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (20 bp):
TAAATTAAAATAGTTTTTTA
Found at i:9621715 original size:28 final size:28
Alignment explanation
Indices: 9621671--9621724 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
9621661 TTGATTTTTA
* * *
9621671 ATTTTTTATTTTCAATTGTCAATTCTCG
1 ATTTTTTATTCTAAATTGTAAATTCTCG
*
9621699 ATTTTTTATTCTAAATTTTAAATTCT
1 ATTTTTTATTCTAAATTGTAAATTCT
9621725 AAAATCTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.26, C:0.11, G:0.04, T:0.59
Consensus pattern (28 bp):
ATTTTTTATTCTAAATTGTAAATTCTCG
Found at i:9621722 original size:7 final size:7
Alignment explanation
Indices: 9621706--9621750 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
9621696 TCGATTTTTT
9621706 ATTCTAA
1 ATTCTAA
*
9621713 ATTTTAA
1 ATTCTAA
9621720 ATTCTAA
1 ATTCTAA
*
9621727 AATCTAA
1 ATTCTAA
*
9621734 AATCTAA
1 ATTCTAA
9621741 ATTCTCAA
1 ATTCT-AA
9621749 AT
1 AT
9621751 CTTTTCTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
7 29 0.88
8 4 0.12
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (7 bp):
ATTCTAA
Found at i:9621732 original size:21 final size:21
Alignment explanation
Indices: 9621708--9621752 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
9621698 GATTTTTTAT
* *
9621708 TCTAAATTTTAAATTCTAAAA
1 TCTAAAATCTAAATTCTAAAA
*
9621729 TCTAAAATCTAAATTCTCAAA
1 TCTAAAATCTAAATTCTAAAA
9621750 TCT
1 TCT
9621753 TTTCTTTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (21 bp):
TCTAAAATCTAAATTCTAAAA
Found at i:9621914 original size:51 final size:52
Alignment explanation
Indices: 9621853--9621952 Score: 159
Period size: 51 Copynumber: 1.9 Consensus size: 52
9621843 AAATGGTAAT
*
9621853 AAAATATTATTAAATTATTAAAT-TATAATTAGTTAATTATTATGTTGTTAAG
1 AAAATATTATTAAATTATTAAATCT-TAAATAGTTAATTATTATGTTGTTAAG
*
9621905 AAAAT-TTATTAAATTATTTAATCTTAAATAGTTAATTATTATGTTGTT
1 AAAATATTATTAAATTATTAAATCTTAAATAGTTAATTATTATGTTGTT
9621953 TAGATTATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
51 39 0.87
52 6 0.13
ACGTcount: A:0.42, C:0.01, G:0.07, T:0.50
Consensus pattern (52 bp):
AAAATATTATTAAATTATTAAATCTTAAATAGTTAATTATTATGTTGTTAAG
Found at i:9631906 original size:28 final size:28
Alignment explanation
Indices: 9631862--9631983 Score: 172
Period size: 28 Copynumber: 4.4 Consensus size: 28
9631852 CAGTACAGTA
9631862 TGGGCCTTAGCCCAATACAACAACAATG
1 TGGGCCTTAGCCCAATACAACAACAATG
* *
9631890 TGGGTCTTAGCCGAATACAACAACAATG
1 TGGGCCTTAGCCCAATACAACAACAATG
**
9631918 TGGGCCTTAGCCCAATACAGTAACAATG
1 TGGGCCTTAGCCCAATACAACAACAATG
* * **
9631946 TGGGCCTTAGCCTAAAACATTAACAATG
1 TGGGCCTTAGCCCAATACAACAACAATG
9631974 TGGGCCTTAG
1 TGGGCCTTAG
9631984 GCCTAAGCAG
Statistics
Matches: 85, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 85 1.00
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.22
Consensus pattern (28 bp):
TGGGCCTTAGCCCAATACAACAACAATG
Found at i:9632144 original size:26 final size:26
Alignment explanation
Indices: 9632103--9632179 Score: 93
Period size: 26 Copynumber: 3.0 Consensus size: 26
9632093 AATACACCAA
*
9632103 TATCTCAGCAAAGCTGCTAGTAACAG
1 TATCGCAGCAAAGCTGCTAGTAACAG
* *
9632129 TATTGCAGCAAAGCTGCCAGTAACAG
1 TATCGCAGCAAAGCTGCTAGTAACAG
* *
9632155 TATCGCAACAAAACTG-TCAGTAACA
1 TATCGCAGCAAAGCTGCT-AGTAACA
9632180 ATATACTTCA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.21
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCTAGTAACAG
Found at i:9632351 original size:27 final size:28
Alignment explanation
Indices: 9632302--9632406 Score: 99
Period size: 27 Copynumber: 3.9 Consensus size: 28
9632292 AAAGCCATAT
* * * *
9632302 AGTCATTTCATCTTCTAGTGGTATAAT-
1 AGTCATTTTATCCTATAGGGGTATAATC
*
9632329 AGTCATTTTATCCTATAGGGGTAT-TTC
1 AGTCATTTTATCCTATAGGGGTATAATC
* * *
9632356 GGTCATTTTACCCTATAGGGGTA-ATTC
1 AGTCATTTTATCCTATAGGGGTATAATC
* *
9632383 AGTCATTTTAACCTATAGAGGTAT
1 AGTCATTTTATCCTATAGGGGTAT
9632407 TTCGATCATT
Statistics
Matches: 65, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
26 1 0.02
27 64 0.98
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.41
Consensus pattern (28 bp):
AGTCATTTTATCCTATAGGGGTATAATC
Found at i:9632391 original size:54 final size:53
Alignment explanation
Indices: 9632329--9632870 Score: 336
Period size: 54 Copynumber: 10.2 Consensus size: 53
9632319 GTGGTATAAT
*
9632329 AGTCATTTTATCCTATAGGGGTATTTCGGTCATTTTACCCTATAG-GGGTAATTC
1 AGTCATTTTA-CCTATAGGGGTATTTCGGTCATTTTACCCT-TAGAGGGTATTTC
* *
9632383 AGTCATTTTAACCTATAGAGGTATTTCGATCA-TTT---C----A-GGTATTTC
1 AGTCATTTT-ACCTATAGGGGTATTTCGGTCATTTTACCCTTAGAGGGTATTTC
* * * **
9632428 -GATCATTTTACCTTTTA-GAGTATTTTGGTCATTTTACCC-TATGAGGGTAACTC
1 AG-TCATTTTACC-TATAGGGGTATTTCGGTCATTTTACCCTTA-GAGGGTATTTC
* * * * *
9632481 GGTCATTTTACCATATGGGGGTATTTTGGTCATTTTTA-CCTTCGGGGGTATTTC
1 AGTCATTTTACC-TATAGGGGTATTTCGGTCA-TTTTACCCTTAGAGGGTATTTC
* * * * * * *
9632535 AGTTATTTCACCCTTTGGGGGTATTTCGGTTATTTTACCCTTTGGGGGTATTTC
1 AGTCATTTTA-CCTATAGGGGTATTTCGGTCATTTTACCCTTAGAGGGTATTTC
* * * * * *
9632589 -GATCATTTTACCCATCGAGGGTATTTTGGTTATTTTACCCTTTGAGGGTATTTT
1 AG-TCATTTTACCTATAG-GGGTATTTCGGTCATTTTACCCTTAGAGGGTATTTC
* * * * *
9632643 AGTCATTTTACCCAGTAGGGGTATTTTGATTATTTTACCCTTTGAGGGTATTTC
1 AGTCATTTTACCTA-TAGGGGTATTTCGGTCATTTTACCCTTAGAGGGTATTTC
* * *
9632697 -GCTCATTTTACCCT-TCAAGGGTATTTTAGGTCATTTTACCCTTCGAGGGTATTTC
1 AG-TCATTTTA-CCTAT-AGGGGTA-TTTCGGTCATTTTACCCTTAGAGGGTATTTC
* * * *
9632752 -GATTATTTTATCCT-TCGAGGGTATTTCGGTTATTTTACCCTTCGAGGGTATTTC
1 AG-TCATTTTA-CCTATAG-GGGTATTTCGGTCATTTTACCCTTAGAGGGTATTTC
* * * **
9632806 TA-TCATTTTACCCT-TCGAAGGCATTTCGGTCATTTTACCCTCCGAGGGTATTTC
1 -AGTCATTTTA-CCTATAG-GGGTATTTCGGTCATTTTACCCTTAGAGGGTATTTC
9632860 -GATCATTTTAC
1 AG-TCATTTTAC
9632871 TCGTCAGGGG
Statistics
Matches: 401, Mismatches: 55, Indels: 65
0.77 0.11 0.12
Matches are distributed among these distances:
44 14 0.03
45 20 0.05
48 1 0.00
50 1 0.00
52 1 0.00
53 34 0.08
54 272 0.68
55 58 0.14
ACGTcount: A:0.19, C:0.18, G:0.20, T:0.44
Consensus pattern (53 bp):
AGTCATTTTACCTATAGGGGTATTTCGGTCATTTTACCCTTAGAGGGTATTTC
Found at i:9632415 original size:27 final size:26
Alignment explanation
Indices: 9632331--9632870 Score: 246
Period size: 27 Copynumber: 20.3 Consensus size: 26
9632321 GGTATAATAG
* * *
9632331 TCATTTTATCCTATAGGGGTATTTCGG
1 TCATTTTACCCT-TAGAGGTATTTCGA
* *
9632358 TCATTTTACCCTATAGGGGTAATTC-A
1 TCATTTTACCCT-TAGAGGTATTTCGA
*
9632384 GTCATTTTAACCTATAGAGGTATTTCGA
1 -TCATTTTACCCT-TAGAGGTATTTCGA
9632412 TCA-TTT---C----AGGTATTTCGA
1 TCATTTTACCCTTAGAGGTATTTCGA
* * *
9632430 TCATTTTACCTTTTAGA-GTATTTTGG
1 TCATTTTACC-CTTAGAGGTATTTCGA
** *
9632456 TCATTTTACCC-TATGAGGGTAACTCGG
1 TCATTTTACCCTTA-GA-GGTATTTCGA
* * * * *
9632483 TCATTTTACCATATGGGGGTATTTTGG
1 TCATTTTACCCT-TAGAGGTATTTCGA
* *
9632510 TCATTTTTA-CCTTCGGGGGTATTTC-A
1 TCA-TTTTACCCTT-AGAGGTATTTCGA
* * * * *
9632536 GTTATTTCACCCTTTGGGGGTATTTCGG
1 -TCATTTTACCC-TTAGAGGTATTTCGA
* * *
9632564 TTATTTTACCCTTTGGGGGTATTTCGA
1 TCATTTTACCC-TTAGAGGTATTTCGA
* * * *
9632591 TCATTTTACCCATCGAGGGTATTTTGG
1 TCATTTTACCCTTAGA-GGTATTTCGA
* * *
9632618 TTATTTTACCCTTTGAGGGTATTT-TA
1 TCATTTTACCCTTAGA-GGTATTTCGA
* * *
9632644 GTCATTTTACCCAGTAGGGGTATTTTGA
1 -TCATTTTACCC-TTAGAGGTATTTCGA
* * *
9632672 TTATTTTACCCTTTGAGGGTATTTCGC
1 TCATTTTACCCTTAGA-GGTATTTCGA
* *
9632699 TCATTTTACCCTTCA-AGGGTATTTTAGG
1 TCATTTTACCCTT-AGA-GGTA-TTTCGA
*
9632727 TCATTTTACCCTTCGAGGGTATTTCGA
1 TCATTTTACCCTTAGA-GGTATTTCGA
* * * *
9632754 TTATTTTATCCTTCGAGGGTATTTCGG
1 TCATTTTACCCTTAGA-GGTATTTCGA
* * *
9632781 TTATTTTACCCTTCGAGGGTATTTCTA
1 TCATTTTACCCTTAGA-GGTATTTCGA
* * *
9632808 TCATTTTACCCTTCGAAGGCATTTCGG
1 TCATTTTACCCTTAG-AGGTATTTCGA
**
9632835 TCATTTTACCCTCCGAGGGTATTTCGA
1 TCATTTTACCCTTAGA-GGTATTTCGA
9632862 TCATTTTAC
1 TCATTTTAC
9632871 TCGTCAGGGG
Statistics
Matches: 412, Mismatches: 69, Indels: 64
0.76 0.13 0.12
Matches are distributed among these distances:
18 14 0.03
19 3 0.01
23 1 0.00
24 2 0.00
25 2 0.00
26 30 0.07
27 323 0.78
28 36 0.09
29 1 0.00
ACGTcount: A:0.19, C:0.18, G:0.20, T:0.44
Consensus pattern (26 bp):
TCATTTTACCCTTAGAGGTATTTCGA
Found at i:9632422 original size:18 final size:18
Alignment explanation
Indices: 9632401--9632435 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
9632391 TAACCTATAG
9632401 AGGTATTTCGATCATTTC
1 AGGTATTTCGATCATTTC
9632419 AGGTATTTCGATCATTT
1 AGGTATTTCGATCATTT
9632436 TACCTTTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.23, C:0.14, G:0.17, T:0.46
Consensus pattern (18 bp):
AGGTATTTCGATCATTTC
Found at i:9632487 original size:71 final size:72
Alignment explanation
Indices: 9632348--9632488 Score: 160
Period size: 71 Copynumber: 2.0 Consensus size: 72
9632338 ATCCTATAGG
* * **
9632348 GGTATTTCGGTCATTTTACCCTATAGGGGTAATTCAGTCATTTTAACCTATAGAGGTATTTCGAT
1 GGTATTTCGATCATTTTACCCTATAGGAGTAATTCAGTCATTTTAACCTATAGAGGTAACTCGAT
9632413 CATTTCA
66 CATTTCA
* * * ** * *
9632420 GGTATTTCGATCATTTTACCTTTTA-GAGTATTTTGGTCATTTTACCCTAT-GAGGGTAACTCGG
1 GGTATTTCGATCATTTTACCCTATAGGAGTAATTCAGTCATTTTAACCTATAGA-GGTAACTCGA
9632483 TCATTT
65 TCATTT
9632489 TACCATATGG
Statistics
Matches: 57, Mismatches: 11, Indels: 3
0.80 0.15 0.04
Matches are distributed among these distances:
70 2 0.04
71 33 0.58
72 22 0.39
ACGTcount: A:0.23, C:0.16, G:0.18, T:0.43
Consensus pattern (72 bp):
GGTATTTCGATCATTTTACCCTATAGGAGTAATTCAGTCATTTTAACCTATAGAGGTAACTCGAT
CATTTCA
Found at i:9632860 original size:81 final size:81
Alignment explanation
Indices: 9632420--9632895 Score: 444
Period size: 81 Copynumber: 5.9 Consensus size: 81
9632410 GATCATTTCA
** * * * ** **
9632420 GGTATTTCGATCATTTTA-CCTTTTAGAGTATTTTGGTCATTTTACCCTAT-GAGGGTAACTCGG
1 GGTATTTCGATCATTTTACCCTTCGAGGGTATTTCGGTTATTTTACCCT-TCGAGGGTATTTTAG
* *
9632483 TCATTTTACCATAT-GGG
65 TCATTTTACCCT-TCGAG
* * * * * * * **
9632500 GGTATTTTGGTCATTTTTA-CCTTCGGGGGTATTTCAGTTATTTCACCCTTTGGGGGTATTTCGG
1 GGTATTTCGATCA-TTTTACCCTTCGAGGGTATTTCGGTTATTTTACCCTTCGAGGGTATTTTAG
* * *
9632564 TTATTTTACCCTTTGGG
65 TCATTTTACCCTTCGAG
* * *
9632581 GGTATTTCGATCATTTTACCCATCGAGGGTATTTTGGTTATTTTACCCTTTGAGGGTATTTTAGT
1 GGTATTTCGATCATTTTACCCTTCGAGGGTATTTCGGTTATTTTACCCTTCGAGGGTATTTTAGT
* *
9632646 CATTTTACCCAGTAG-G
66 CATTTTACCC-TTCGAG
* * * * * *
9632662 GGTATTTTGATTATTTTACCCTTTGAGGGTATTTCGCTCATTTTACCCTTCAAGGGTATTTTAGG
1 GGTATTTCGATCATTTTACCCTTCGAGGGTATTTCGGTTATTTTACCCTTCGAGGGTATTTTA-G
9632727 TCATTTTACCCTTCGAG
65 TCATTTTACCCTTCGAG
* *
9632744 GGTATTTCGATTATTTTATCCTTCGAGGGTATTTCGGTTATTTTACCCTTCGAGGGTATTTCTA-
1 GGTATTTCGATCATTTTACCCTTCGAGGGTATTTCGGTTATTTTACCCTTCGAGGGTATTT-TAG
*
9632808 TCATTTTACCCTTCGAA
65 TCATTTTACCCTTCGAG
* * * * * * *
9632825 GGCATTTCGGTCATTTTACCCTCCGAGGGTATTTCGATCATTTTACTCGTC-AGGGGTATTTTAG
1 GGTATTTCGATCATTTTACCCTTCGAGGGTATTTCGGTTATTTTACCCTTCGA-GGGTATTTTAG
9632889 TCATTTT
65 TCATTTT
9632896 CCCACAAATC
Statistics
Matches: 331, Mismatches: 55, Indels: 19
0.82 0.14 0.05
Matches are distributed among these distances:
80 21 0.06
81 238 0.72
82 70 0.21
83 2 0.01
ACGTcount: A:0.18, C:0.17, G:0.20, T:0.44
Consensus pattern (81 bp):
GGTATTTCGATCATTTTACCCTTCGAGGGTATTTCGGTTATTTTACCCTTCGAGGGTATTTTAGT
CATTTTACCCTTCGAG
Found at i:9632885 original size:27 final size:27
Alignment explanation
Indices: 9632420--9632870 Score: 385
Period size: 27 Copynumber: 16.7 Consensus size: 27
9632410 GATCATTTCA
**
9632420 GGTATTTCGATCATTTTA-CCTTTTAG
1 GGTATTTCGATCATTTTACCCTTCGAG
* * *
9632446 AGTATTTTGGTCATTTTACCCTAT-GAG
1 GGTATTTCGATCATTTTACCCT-TCGAG
** * * *
9632473 GGTAACTCGGTCATTTTACCATAT-GGG
1 GGTATTTCGATCATTTTACCCT-TCGAG
* * *
9632500 GGTATTTTGGTCATTTTTA-CCTTCGGG
1 GGTATTTCGATCA-TTTTACCCTTCGAG
* * * *
9632527 GGTATTTC-AGTTATTTCACCCTTTGGG
1 GGTATTTCGA-TCATTTTACCCTTCGAG
* * * *
9632554 GGTATTTCGGTTATTTTACCCTTTGGG
1 GGTATTTCGATCATTTTACCCTTCGAG
*
9632581 GGTATTTCGATCATTTTACCCATCGAG
1 GGTATTTCGATCATTTTACCCTTCGAG
* * * *
9632608 GGTATTTTGGTTATTTTACCCTTTGAG
1 GGTATTTCGATCATTTTACCCTTCGAG
* * *
9632635 GGTATTT-TAGTCATTTTACCCAGTAG-G
1 GGTATTTCGA-TCATTTTACCC-TTCGAG
* * *
9632662 GGTATTTTGATTATTTTACCCTTTGAG
1 GGTATTTCGATCATTTTACCCTTCGAG
* *
9632689 GGTATTTCGCTCATTTTACCCTTCAAG
1 GGTATTTCGATCATTTTACCCTTCGAG
* *
9632716 GGTATTTTAGGTCATTTTACCCTTCGAG
1 GGTA-TTTCGATCATTTTACCCTTCGAG
* *
9632744 GGTATTTCGATTATTTTATCCTTCGAG
1 GGTATTTCGATCATTTTACCCTTCGAG
* *
9632771 GGTATTTCGGTTATTTTACCCTTCGAG
1 GGTATTTCGATCATTTTACCCTTCGAG
* *
9632798 GGTATTTCTATCATTTTACCCTTCGAA
1 GGTATTTCGATCATTTTACCCTTCGAG
* * *
9632825 GGCATTTCGGTCATTTTACCCTCCGAG
1 GGTATTTCGATCATTTTACCCTTCGAG
9632852 GGTATTTCGATCATTTTAC
1 GGTATTTCGATCATTTTAC
9632871 TCGTCAGGGG
Statistics
Matches: 348, Mismatches: 65, Indels: 23
0.80 0.15 0.05
Matches are distributed among these distances:
26 22 0.06
27 293 0.84
28 33 0.09
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.44
Consensus pattern (27 bp):
GGTATTTCGATCATTTTACCCTTCGAG
Found at i:9632892 original size:54 final size:54
Alignment explanation
Indices: 9632420--9632895 Score: 441
Period size: 54 Copynumber: 8.8 Consensus size: 54
9632410 GATCATTTCA
* * *
9632420 GGTATTTCGATCATTTTACCTTTTA-GAGTATTTTGGTCATTTTACCCTAT-GAG
1 GGTATTTCGATCATTTTACCCTTCAGGGGTATTTTGGTCATTTTACCCT-TCGAG
** * * * *
9632473 GGTAACTCGGTCATTTTACCATAT-GGGGGTATTTTGGTCATTTTTA-CCTTCGGG
1 GGTATTTCGATCATTTTACCCT-TCAGGGGTATTTTGGTCA-TTTTACCCTTCGAG
* * ** * * * *
9632527 GGTATTTC-AGTTATTTCACCCTTTGGGGGTATTTCGGTTATTTTACCCTTTGGG
1 GGTATTTCGA-TCATTTTACCCTTCAGGGGTATTTTGGTCATTTTACCCTTCGAG
* * *
9632581 GGTATTTCGATCATTTTACCCATC-GAGGGTATTTTGGTTATTTTACCCTTTGAG
1 GGTATTTCGATCATTTTACCCTTCAG-GGGTATTTTGGTCATTTTACCCTTCGAG
* * * * *
9632635 GGTATTT-TAGTCATTTTACCCAGT-AGGGGTATTTTGATTATTTTACCCTTTGAG
1 GGTATTTCGA-TCATTTTACCC-TTCAGGGGTATTTTGGTCATTTTACCCTTCGAG
* *
9632689 GGTATTTCGCTCATTTTACCCTTCAAGGGTATTTTAGGTCATTTTACCCTTCGAG
1 GGTATTTCGATCATTTTACCCTTCAGGGGTATTTT-GGTCATTTTACCCTTCGAG
* * * *
9632744 GGTATTTCGATTATTTTATCCTTC-GAGGGTATTTCGGTTATTTTACCCTTCGAG
1 GGTATTTCGATCATTTTACCCTTCAG-GGGTATTTTGGTCATTTTACCCTTCGAG
* * * * *
9632798 GGTATTTCTATCATTTTACCCTTC-GAAGGCATTTCGGTCATTTTACCCTCCGAG
1 GGTATTTCGATCATTTTACCCTTCAG-GGGTATTTTGGTCATTTTACCCTTCGAG
* * *
9632852 GGTATTTCGATCATTTTACTCGTCAGGGGTATTTTAGTCATTTT
1 GGTATTTCGATCATTTTACCCTTCAGGGGTATTTTGGTCATTTT
9632896 CCCACAAATC
Statistics
Matches: 354, Mismatches: 52, Indels: 33
0.81 0.12 0.08
Matches are distributed among these distances:
53 28 0.08
54 272 0.77
55 54 0.15
ACGTcount: A:0.18, C:0.17, G:0.20, T:0.44
Consensus pattern (54 bp):
GGTATTTCGATCATTTTACCCTTCAGGGGTATTTTGGTCATTTTACCCTTCGAG
Found at i:9633815 original size:68 final size:68
Alignment explanation
Indices: 9633727--9633861 Score: 234
Period size: 68 Copynumber: 2.0 Consensus size: 68
9633717 TCAACTCCCT
*
9633727 CTATGACCAGCTCAAACTCCATTTAACAGTGTTCTATTCCAACTCTACCACCTACCCAGCTCAAG
1 CTATGACCAGCTCAAACTCCATTTAACAGTGTTCTATTCCAACTCCACCACCTACCCAGCTCAAG
9633792 CAA
66 CAA
* * *
9633795 CTATGACCGGTTCAAACTCCATTTAACAGTGTTCTATTCCAACTCCACCATCTACCCAGCTCAAG
1 CTATGACCAGCTCAAACTCCATTTAACAGTGTTCTATTCCAACTCCACCACCTACCCAGCTCAAG
9633860 CA
66 CA
9633862 GCAAAATAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
68 63 1.00
ACGTcount: A:0.30, C:0.35, G:0.10, T:0.26
Consensus pattern (68 bp):
CTATGACCAGCTCAAACTCCATTTAACAGTGTTCTATTCCAACTCCACCACCTACCCAGCTCAAG
CAA
Found at i:9635261 original size:28 final size:28
Alignment explanation
Indices: 9635212--9635375 Score: 222
Period size: 28 Copynumber: 5.9 Consensus size: 28
9635202 CTATTCAGTA
* *
9635212 ACAGT-ACAGTGTGGACCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
* * *
9635239 ATAGCAACAATGTGAGCCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
**
9635267 ACAACAACAATGTGGGCCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
* * *
9635295 ACAGTAACAATGTGGGTCTTATCCTAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
*
9635323 ATAGTAACAATGTGGGCCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
9635351 ACAGTAACAATGTGGGCCTTAGCCC
1 ACAGTAACAATGTGGGCCTTAGCCC
9635376 TAAACAATAT
Statistics
Matches: 118, Mismatches: 18, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
27 3 0.03
28 115 0.97
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.23
Consensus pattern (28 bp):
ACAGTAACAATGTGGGCCTTAGCCCAAT
Found at i:9635525 original size:26 final size:26
Alignment explanation
Indices: 9635496--9635598 Score: 154
Period size: 26 Copynumber: 4.0 Consensus size: 26
9635486 CACCAATATT
* *
9635496 GCAGCAAAGCTGTCAGTAATAGAATC
1 GCAGCAAAGCTGTCAGTAACAGTATC
9635522 GCAGCAAAGCTG-CTAGTAACAGTATC
1 GCAGCAAAGCTGTC-AGTAACAGTATC
*
9635548 GCAGCAAAGTTGTCAGTAACAGTATC
1 GCAGCAAAGCTGTCAGTAACAGTATC
*
9635574 GCAGCAAAGCTGCCAGTAACAGTAT
1 GCAGCAAAGCTGTCAGTAACAGTAT
9635599 ACTTCCTCCA
Statistics
Matches: 70, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
25 1 0.01
26 68 0.97
27 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.19
Consensus pattern (26 bp):
GCAGCAAAGCTGTCAGTAACAGTATC
Found at i:9635553 original size:52 final size:52
Alignment explanation
Indices: 9635496--9635598 Score: 170
Period size: 52 Copynumber: 2.0 Consensus size: 52
9635486 CACCAATATT
* *
9635496 GCAGCAAAGCTGTCAGTAATAGAATCGCAGCAAAGCTGCTAGTAACAGTATC
1 GCAGCAAAGCTGTCAGTAACAGAATCGCAGCAAAGCTGCCAGTAACAGTATC
* *
9635548 GCAGCAAAGTTGTCAGTAACAGTATCGCAGCAAAGCTGCCAGTAACAGTAT
1 GCAGCAAAGCTGTCAGTAACAGAATCGCAGCAAAGCTGCCAGTAACAGTAT
9635599 ACTTCCTCCA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.19
Consensus pattern (52 bp):
GCAGCAAAGCTGTCAGTAACAGAATCGCAGCAAAGCTGCCAGTAACAGTATC
Found at i:9636248 original size:27 final size:26
Alignment explanation
Indices: 9635743--9636261 Score: 359
Period size: 27 Copynumber: 19.3 Consensus size: 26
9635733 GGGGTATAAA
* * *
9635743 GTCATTTTATCCTATGGGGGTATTTTG
1 GTCATTTTACCCT-TCGGGGTATTTCG
* * * *
9635770 ATCATTTTATCCTAT-GGGGTAATTCA
1 GTCATTTTACCCT-TCGGGGTATTTCG
**
9635796 GTCATTTTACCCTAT-GAGGGTATTTTA
1 GTCATTTTACCCT-TCG-GGGTATTTCG
*
9635823 GTCATTTTACCCTTTGGGGTATTTCG
1 GTCATTTTACCCTTCGGGGTATTTCG
* * *
9635849 ATCATTTCACCCTTCGGGGTATTTTG
1 GTCATTTTACCCTTCGGGGTATTTCG
9635875 GTCATTTTACCCTAT-GGGAGTAATTT-G
1 GTCATTTTACCCT-TCGGG-GT-ATTTCG
* *
9635902 GTCATTTGACCCTATGGGGGTATTTCG
1 GTCATTTTACCCT-TCGGGGTATTTCG
*
9635929 GTCATTTCTTA--CTTCAAGGGTATTTCG
1 GTCA-TT-TTACCCTTC-GGGGTATTTCG
* * * *
9635956 GTTATTTCACCTTTTGGGGGTATTTCG
1 GTCATTTTACC-CTTCGGGGTATTTCG
* *
9635983 ATCATTTTA-CCTATCGAGGGTATTTTG
1 GTCATTTTACCCT-TCG-GGGTATTTCG
* *
9636010 GTCATTTTACCCTTTGAGGGTATTTCA
1 GTCATTTTACCCTTCG-GGGTATTTCG
* *
9636037 GTCACTTTACCCTGTAGGGGTATTTCG
1 GTCATTTTACCCT-TCGGGGTATTTCG
* ** *
9636064 ATTGTTTTACCCTTCGAGGGTATTTTTG
1 GTCATTTTACCCTTCG-GGGTA-TTTCG
* * *
9636092 GTTATTTTACCCTTTGAGGGCATTTCG
1 GTCATTTTACCCTTCG-GGGTATTTCG
* *
9636119 GTCATTTTTCCCTTCGAGGGTATTTTTG
1 GTCATTTTACCCTTCG-GGGTA-TTTCG
* * *
9636147 ATCATTTTACCTTTCGAGGGTATTTTG
1 GTCATTTTACCCTTCG-GGGTATTTCG
* * * *
9636174 ATCATTTTACCCTTCGAAGGCATTTCA
1 GTCATTTTACCCTTCG-GGGTATTTCG
*
9636201 GTCATTTTACCCTCCGAGGGTATTTCG
1 GTCATTTTACCCTTCG-GGGTATTTCG
* *
9636228 GTCATTTTACCCTGTAGGGGTATTTCA
1 GTCATTTTACCCT-TCGGGGTATTTCG
9636255 GTCATTT
1 GTCATTT
9636262 GCCCACAAAT
Statistics
Matches: 401, Mismatches: 70, Indels: 42
0.78 0.14 0.08
Matches are distributed among these distances:
25 3 0.01
26 79 0.20
27 255 0.64
28 62 0.15
29 2 0.00
ACGTcount: A:0.17, C:0.18, G:0.21, T:0.44
Consensus pattern (26 bp):
GTCATTTTACCCTTCGGGGTATTTCG
Found at i:9646002 original size:5 final size:5
Alignment explanation
Indices: 9645992--9646035 Score: 61
Period size: 5 Copynumber: 8.6 Consensus size: 5
9645982 GATAGAAGAA
* *
9645992 AAAAG AAAAG AGAAG AAAAG AAAAG AAAAG AAAATG CAAAG AAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAA-G AAAAG AAA
9646036 GGGGAGAGGA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
5 30 0.88
6 4 0.12
ACGTcount: A:0.75, C:0.02, G:0.20, T:0.02
Consensus pattern (5 bp):
AAAAG
Found at i:9646012 original size:15 final size:15
Alignment explanation
Indices: 9645988--9646025 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
9645978 ACAGGATAGA
9645988 AGAA-AAAAGAAAAG
1 AGAAGAAAAGAAAAG
9646002 AGAAGAAAAGAAAAG
1 AGAAGAAAAGAAAAG
*
9646017 AAAAGAAAA
1 AGAAGAAAA
9646026 TGCAAAGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 4 0.18
15 18 0.82
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (15 bp):
AGAAGAAAAGAAAAG
Found at i:9646112 original size:10 final size:11
Alignment explanation
Indices: 9646075--9646110 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
9646065 TTATAGGGAA
9646075 AAATAAAAATG
1 AAATAAAAATG
9646086 AAATAAAAATG
1 AAATAAAAATG
*
9646097 AAATTAAAA-G
1 AAATAAAAATG
9646107 AAAT
1 AAAT
9646111 TATCCTAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 5 0.21
11 19 0.79
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.19
Consensus pattern (11 bp):
AAATAAAAATG
Found at i:9646775 original size:27 final size:29
Alignment explanation
Indices: 9646734--9646810 Score: 76
Period size: 27 Copynumber: 2.8 Consensus size: 29
9646724 TAAAAATTCT
*
9646734 TAAAATTTA-AAAAAAACTA-AAATATTA
1 TAAAATTTATATAAAAACTATAAATATTA
*
9646761 -AAAATTTATAT-AAAATTATAAATATTA
1 TAAAATTTATATAAAAACTATAAATATTA
*
9646788 TAAAA-ATATAT-AAAACTTATAAA
1 TAAAATTTATATAAAAAC-TATAAA
9646811 AAAATTCATA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
26 14 0.33
27 18 0.43
28 10 0.24
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.34
Consensus pattern (29 bp):
TAAAATTTATATAAAAACTATAAATATTA
Found at i:9646777 original size:11 final size:9
Alignment explanation
Indices: 9646698--9646844 Score: 75
Period size: 10 Copynumber: 15.6 Consensus size: 9
9646688 TTTTCTCATA
*
9646698 AAAAATCAT
1 AAAAATTAT
*
9646707 AAAAAGTATT
1 AAAAATTA-T
*
9646717 AAAAA-AAT
1 AAAAATTAT
*
9646725 AAAAATTCT
1 AAAAATTAT
*
9646734 TAAAATT-T
1 AAAAATTAT
**
9646742 AAAAAAAACT
1 AAAAATTA-T
9646752 AAAATATTA-
1 AAAA-ATTAT
*
9646761 AAAATTTAT
1 AAAAATTAT
9646770 ATAAAATTAT
1 A-AAAATTAT
*
9646780 AAATATTAT
1 AAAAATTAT
9646789 AAAAATATAT
1 AAAAAT-TAT
*
9646799 AAAACTTAT
1 AAAAATTAT
9646808 AAAAAAATTCAT
1 --AAAAATT-AT
* *
9646820 AATAAGTTCT
1 AA-AAATTAT
9646830 AATAAATTAT
1 AA-AAATTAT
9646840 AAAAA
1 AAAAA
9646845 AATTATAATT
Statistics
Matches: 105, Mismatches: 21, Indels: 24
0.70 0.14 0.16
Matches are distributed among these distances:
8 14 0.13
9 37 0.35
10 40 0.38
11 12 0.11
12 2 0.02
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:9646799 original size:19 final size:19
Alignment explanation
Indices: 9646752--9646812 Score: 65
Period size: 19 Copynumber: 3.2 Consensus size: 19
9646742 AAAAAAAACT
*
9646752 AAAATAT-TAAAAATTTATA
1 AAAATATAT-AAAACTTATA
9646771 TAAAAT-TATAAATA-TTATA
1 -AAAATATATAAA-ACTTATA
9646790 AAAATATATAAAACTTATA
1 AAAATATATAAAACTTATA
9646809 AAAA
1 AAAA
9646813 AATTCATAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
18 6 0.16
19 24 0.65
20 7 0.19
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAATATATAAAACTTATA
Found at i:9646808 original size:9 final size:8
Alignment explanation
Indices: 9646769--9646811 Score: 50
Period size: 9 Copynumber: 4.9 Consensus size: 8
9646759 TAAAAATTTA
9646769 TATAAAAT
1 TATAAAAT
9646777 TATAAATAT
1 TATAAA-AT
9646786 TATAAAAAT
1 TAT-AAAAT
9646795 ATATAAAACT
1 -TATAAAA-T
9646805 TATAAAA
1 TATAAAA
9646812 AAATTCATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
8 6 0.19
9 18 0.58
10 7 0.23
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (8 bp):
TATAAAAT
Found at i:9646861 original size:28 final size:31
Alignment explanation
Indices: 9646797--9646872 Score: 95
Period size: 32 Copynumber: 2.5 Consensus size: 31
9646787 ATAAAAATAT
9646797 ATAAAACTTATAAAAAAATTCATAATAAGTTCTA
1 ATAAAA-TTATAAAAAAATTCATAAT-A-TTCTA
*
9646831 AT-AAATTATAAAAAAATT-ATAAT-TTTTA
1 ATAAAATTATAAAAAAATTCATAATATTCTA
9646859 ATAAAATTATAAAA
1 ATAAAATTATAAAA
9646873 CATTATCGAT
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
28 6 0.15
29 11 0.28
31 5 0.12
32 13 0.32
33 3 0.08
34 2 0.05
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (31 bp):
ATAAAATTATAAAAAAATTCATAATATTCTA
Found at i:9647607 original size:18 final size:18
Alignment explanation
Indices: 9647584--9647618 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
9647574 GGTTTGAATT
9647584 TTTTTTTATAAATTTTAA
1 TTTTTTTATAAATTTTAA
*
9647602 TTTTTTTATAATTTTTA
1 TTTTTTTATAAATTTTA
9647619 TGAATTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTTTTATAAATTTTAA
Done.