Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168015.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_27, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 15675301
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 118000 characters in sequence are not A, C, G, or T
File 77 of 93
Found at i:11379112 original size:29 final size:29
Alignment explanation
Indices: 11379047--11379144 Score: 115
Period size: 29 Copynumber: 3.2 Consensus size: 29
11379037 CAAATAATTT
* *
11379047 TTTAAATATTATGTTAATTAATAATTTTATAA
1 TTTAAATATTATATTAA--AAT-TTTTTATAA
*
11379079 TTTAAATATTATATTAAAATTTTTTAAAA
1 TTTAAATATTATATTAAAATTTTTTATAA
*
11379108 TTTAAATATTACATTAAATATTTTATTATAA
1 TTTAAATATTATATTAAA-ATTTT-TTATAA
11379139 TTTAAA
1 TTTAAA
11379145 AAATATTCGT
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
29 24 0.41
30 8 0.14
31 11 0.19
32 16 0.27
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (29 bp):
TTTAAATATTATATTAAAATTTTTTATAA
Found at i:11379254 original size:7 final size:8
Alignment explanation
Indices: 11379231--11379258 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
11379221 TCATTTGTCG
11379231 AATTAAAA
1 AATTAAAA
11379239 AATTAAAA
1 AATTAAAA
11379247 AATTAAAA
1 AATTAAAA
11379255 AATT
1 AATT
11379259 GCCCGTAGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (8 bp):
AATTAAAA
Found at i:11393581 original size:2 final size:2
Alignment explanation
Indices: 11393576--11393606 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
11393566 ATGTCCACAT
11393576 TA TA TA 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
11393607 GTTTGAGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11395812 original size:24 final size:24
Alignment explanation
Indices: 11395784--11395829 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
11395774 ATAATTAAAA
*
11395784 ATAATT-ATAAAATTAATAATATAT
1 ATAATTAATAAAAATAA-AATATAT
11395808 ATAATTAATAAAAATAAAATAT
1 ATAATTAATAAAAATAAAATAT
11395830 TAATAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (24 bp):
ATAATTAATAAAAATAAAATATAT
Found at i:11395816 original size:16 final size:15
Alignment explanation
Indices: 11395783--11395818 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
11395773 CATAATTAAA
11395783 AATAATTATAAAATT
1 AATAATTATAAAATT
*
11395798 AATAATATATATAATT
1 AATAAT-TATAAAATT
11395814 AATAA
1 AATAA
11395819 AAATAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
AATAATTATAAAATT
Found at i:11395835 original size:24 final size:23
Alignment explanation
Indices: 11395783--11395835 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 23
11395773 CATAATTAAA
*
11395783 AATAATTATAAAATTAATAATAT
1 AATAATTATAAAAATAATAATAT
11395806 ATATAATTAATAAAAATAA-AATATT
1 A-ATAATT-ATAAAAATAATAATA-T
11395831 AATAA
1 AATAA
11395836 AAATGATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 1 0.04
24 14 0.54
25 11 0.42
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (23 bp):
AATAATTATAAAAATAATAATAT
Found at i:11396168 original size:27 final size:27
Alignment explanation
Indices: 11396114--11396169 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
11396104 TTATTATATT
* **
11396114 TATTAAAATTTAAATATTTTTTTCAAA
1 TATTAAAATTAAAATATAATTTTCAAA
11396141 TATTAAAATATAAAATATAATTTT-AAA
1 TATTAAAAT-TAAAATATAATTTTCAAA
11396168 TA
1 TA
11396170 ATTTTATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 14 0.56
28 11 0.44
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (27 bp):
TATTAAAATTAAAATATAATTTTCAAA
Found at i:11398153 original size:3 final size:3
Alignment explanation
Indices: 11398147--11398173 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
11398137 GTAATTTTGA
11398147 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
11398174 GGTTTTCTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:11406263 original size:98 final size:98
Alignment explanation
Indices: 11406094--11406290 Score: 358
Period size: 98 Copynumber: 2.0 Consensus size: 98
11406084 TATCTACAAG
**
11406094 ACAAATCAAAATGGCATTATGACAAATGAGTTTGATCACAGTAAAGGAAAAGATATTCCTACCCC
1 ACAAATCAAAATGGCATTATGACAAATGAGTTCAATCACAGTAAAGGAAAAGATATTCCTACCCC
11406159 AACCATCTTTCCTACACAATTCATGATGCAAAA
66 AACCATCTTTCCTACACAATTCATGATGCAAAA
* *
11406192 ACAAATCAAAATGGCATTATGACAAATGAGTTCAATCACAGTAAAGGAAAATATATTCTTACCCC
1 ACAAATCAAAATGGCATTATGACAAATGAGTTCAATCACAGTAAAGGAAAAGATATTCCTACCCC
11406257 AACCATCTTTCCTACACAATTCATGATGCAAAA
66 AACCATCTTTCCTACACAATTCATGATGCAAAA
11406290 A
1 A
11406291 TATCAAGCTA
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.43, C:0.21, G:0.11, T:0.25
Consensus pattern (98 bp):
ACAAATCAAAATGGCATTATGACAAATGAGTTCAATCACAGTAAAGGAAAAGATATTCCTACCCC
AACCATCTTTCCTACACAATTCATGATGCAAAA
Found at i:11406360 original size:88 final size:88
Alignment explanation
Indices: 11406256--11406428 Score: 303
Period size: 88 Copynumber: 2.0 Consensus size: 88
11406246 ATTCTTACCC
* *
11406256 CAACCATCTTTCCTACACAATTCATGATGCAAAAATATCAAGCTAAACCAAATGTTCTAATTATA
1 CAACCATCTTTCCTACACAATTCATGATGCAAAAATATCAAGCTAAACCAAATATTCTAATTACA
11406321 CACTTTGAGCCAG-ATGGAAACCT
66 CACTTTGAGCC-GTATGGAAACCT
*
11406344 CAACCATCTTTCCTACACAATTCATGATGCAAAAATGTCAAGCTAAACCAAATATTCTAATTACA
1 CAACCATCTTTCCTACACAATTCATGATGCAAAAATATCAAGCTAAACCAAATATTCTAATTACA
11406409 CACTTTGAGCCGTATGGAAA
66 CACTTTGAGCCGTATGGAAA
11406429 ACTTGTATAT
Statistics
Matches: 81, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
87 1 0.01
88 80 0.99
ACGTcount: A:0.39, C:0.24, G:0.10, T:0.27
Consensus pattern (88 bp):
CAACCATCTTTCCTACACAATTCATGATGCAAAAATATCAAGCTAAACCAAATATTCTAATTACA
CACTTTGAGCCGTATGGAAACCT
Found at i:11407145 original size:22 final size:21
Alignment explanation
Indices: 11407120--11407163 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
11407110 GAGAAAGAGA
* *
11407120 TGTAAAGCTTCAAGATTCAATT
1 TGTAAACCTTC-AGAATCAATT
*
11407142 TGTAGACCTTCAGAATCAATT
1 TGTAAACCTTCAGAATCAATT
11407163 T
1 T
11407164 CGTCAAAAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (21 bp):
TGTAAACCTTCAGAATCAATT
Found at i:11408897 original size:6 final size:6
Alignment explanation
Indices: 11408888--11408917 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
11408878 ATGATGATAG
*
11408888 CTCAGA CTCAGA CTCAGA CTCAAA CTCAGA
1 CTCAGA CTCAGA CTCAGA CTCAGA CTCAGA
11408918 TGATTATTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.37, C:0.33, G:0.13, T:0.17
Consensus pattern (6 bp):
CTCAGA
Found at i:11410831 original size:206 final size:206
Alignment explanation
Indices: 11410477--11410891 Score: 812
Period size: 206 Copynumber: 2.0 Consensus size: 206
11410467 CTCTACATTA
11410477 AAAGAGATTTTAGCTGTAAAGTACACTAAAGGGTTACCACTTTCTAGTGGAACTAGATATTAGCT
1 AAAGAGATTTTAGCTGTAAAGTACACTAAAGGGTTACCACTTTCTAGTGGAACTAGATATTAGCT
11410542 TTTGACTGGATACTTATAATTTCATAAAAAACCAGATATCAAATGCACAGTTACTCAAACTTTTT
66 TTTGACTGGATACTTATAATTTCATAAAAAACCAGATATCAAATGCACAGTTACTCAAACTTTTT
*
11410607 CGATAGTTTTCAAAGTACTCTTTCGCCATAACACATATAAAAAGGAAAGGATAATATTCTCCTAC
131 CGATAGTTTTCAAAGTACTCTTTCGCCACAACACATATAAAAAGGAAAGGATAATATTCTCCTAC
11410672 ACATGTTATCC
196 ACATGTTATCC
11410683 AAAGAGATTTTAGCTGTAAAGTACACTAAAGGGTTACCACTTTCTAGTGGAACTAGATATTAGCT
1 AAAGAGATTTTAGCTGTAAAGTACACTAAAGGGTTACCACTTTCTAGTGGAACTAGATATTAGCT
11410748 TTTGACTGGATACTTATAATTTCATAAAAAACCAGATATCAAATGCACAGTTACTCAAACTTTTT
66 TTTGACTGGATACTTATAATTTCATAAAAAACCAGATATCAAATGCACAGTTACTCAAACTTTTT
*
11410813 CGATAGTTTTCAAAGTACTCTTTCGTCACAACACATATAAAAAGGAAAGGATAATATTCTCCTAC
131 CGATAGTTTTCAAAGTACTCTTTCGCCACAACACATATAAAAAGGAAAGGATAATATTCTCCTAC
11410878 ACATGTTATCC
196 ACATGTTATCC
11410889 AAA
1 AAA
11410892 ACTTTTCCTA
Statistics
Matches: 207, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
206 207 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.32
Consensus pattern (206 bp):
AAAGAGATTTTAGCTGTAAAGTACACTAAAGGGTTACCACTTTCTAGTGGAACTAGATATTAGCT
TTTGACTGGATACTTATAATTTCATAAAAAACCAGATATCAAATGCACAGTTACTCAAACTTTTT
CGATAGTTTTCAAAGTACTCTTTCGCCACAACACATATAAAAAGGAAAGGATAATATTCTCCTAC
ACATGTTATCC
Found at i:11412241 original size:14 final size:14
Alignment explanation
Indices: 11412206--11412241 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
11412196 ATATTTACTT
11412206 TTACTTTATTAAAG
1 TTACTTTATTAAAG
*
11412220 TTATTTTATTAAAG
1 TTACTTTATTAAAG
*
11412234 TTGCTTTA
1 TTACTTTA
11412242 AGTCAAGTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.31, C:0.06, G:0.08, T:0.56
Consensus pattern (14 bp):
TTACTTTATTAAAG
Found at i:11414612 original size:2 final size:2
Alignment explanation
Indices: 11414607--11414642 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
11414597 ATGTTATAAA
* *
11414607 AT AT AT AA AT AT AT CT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11414643 TATGTGAGCA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:11415004 original size:16 final size:16
Alignment explanation
Indices: 11414983--11415025 Score: 63
Period size: 14 Copynumber: 2.8 Consensus size: 16
11414973 AACATTTATA
11414983 ACATTTATTATAACAT
1 ACATTTATTATAACAT
11414999 ACA-TT-TTATAACAT
1 ACATTTATTATAACAT
*
11415013 ACATATATTATAA
1 ACATTTATTATAA
11415026 GTGAATATTC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 12 0.50
15 3 0.12
16 9 0.38
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.42
Consensus pattern (16 bp):
ACATTTATTATAACAT
Found at i:11415424 original size:37 final size:37
Alignment explanation
Indices: 11415357--11415435 Score: 90
Period size: 37 Copynumber: 2.1 Consensus size: 37
11415347 AAAAGAAGTG
* *
11415357 AAAATAAAAAATTTTGTAATCTAATAATTAAACT-AT
1 AAAATAAAAAATATTATAATCTAATAATTAAACTAAT
* *
11415393 AAAATAAAAAATAATTATAAAT-TAATCATTAAATTAAT
1 AAAATAAAAAAT-ATTAT-AATCTAATAATTAAACTAAT
11415431 AAAAT
1 AAAAT
11415436 TTTTTCTTCC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
36 12 0.33
37 14 0.39
38 10 0.28
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.34
Consensus pattern (37 bp):
AAAATAAAAAATATTATAATCTAATAATTAAACTAAT
Found at i:11416676 original size:15 final size:15
Alignment explanation
Indices: 11416656--11416690 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
11416646 ATTTTCTTTC
* *
11416656 ATATTATTAGCATAT
1 ATATTAGTAACATAT
11416671 ATATTAGTAACATAT
1 ATATTAGTAACATAT
11416686 ATATT
1 ATATT
11416691 TTAAAATTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.46
Consensus pattern (15 bp):
ATATTAGTAACATAT
Found at i:11423659 original size:21 final size:21
Alignment explanation
Indices: 11423634--11423678 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
11423624 ATTAAGAAAG
11423634 ATTGTTAACAACAAGAATCAA
1 ATTGTTAACAACAAGAATCAA
* *
11423655 ATTGTTAACAATAAGAATCGA
1 ATTGTTAACAACAAGAATCAA
11423676 ATT
1 ATT
11423679 TAAATTTTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.29
Consensus pattern (21 bp):
ATTGTTAACAACAAGAATCAA
Found at i:11424293 original size:17 final size:19
Alignment explanation
Indices: 11424271--11424313 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
11424261 GTCTTTTAGA
11424271 GATATAA-TTTA-AAATAT
1 GATATAATTTTACAAATAT
*
11424288 GATATAATTTTACGAATAT
1 GATATAATTTTACAAATAT
11424307 GATATAA
1 GATATAA
11424314 AAATAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 4 0.17
19 12 0.52
ACGTcount: A:0.49, C:0.02, G:0.09, T:0.40
Consensus pattern (19 bp):
GATATAATTTTACAAATAT
Found at i:11424442 original size:30 final size:29
Alignment explanation
Indices: 11424374--11424450 Score: 79
Period size: 30 Copynumber: 2.7 Consensus size: 29
11424364 GTTTAATAAA
*
11424374 ATAAAA-AAATTATATATTATATTTTTAT
1 ATAAAACAAATTATATAATATATTTTTAT
* *
11424402 ATCAATACAAATTATGATACATA-ATTTTTGT
1 AT-AAAACAAATTAT-ATA-ATATATTTTTAT
11424433 ATAAAACAAA-TATATAAT
1 ATAAAACAAATTATATAAT
11424451 TTTAATATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
27 2 0.05
28 5 0.12
29 6 0.15
30 14 0.34
31 12 0.29
32 2 0.05
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.42
Consensus pattern (29 bp):
ATAAAACAAATTATATAATATATTTTTAT
Found at i:11427512 original size:14 final size:14
Alignment explanation
Indices: 11427489--11427524 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
11427479 CGACTTGACT
11427489 TAAAGTAACTCTAA
1 TAAAGTAACTCTAA
* *
11427503 TAAGGTAACTTTAA
1 TAAAGTAACTCTAA
11427517 TAAAGTAA
1 TAAAGTAA
11427525 ATGTAAGATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.50, C:0.08, G:0.11, T:0.31
Consensus pattern (14 bp):
TAAAGTAACTCTAA
Found at i:11436516 original size:14 final size:14
Alignment explanation
Indices: 11436497--11436526 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
11436487 ATCTTTACTT
11436497 TTATTTTATTAAAG
1 TTATTTTATTAAAG
11436511 TTATTTTATTAAAG
1 TTATTTTATTAAAG
11436525 TT
1 TT
11436527 GCTTTAAGTC
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:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (14 bp):
TTATTTTATTAAAG
Found at i:11445546 original size:14 final size:14
Alignment explanation
Indices: 11445523--11445558 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
11445513 CGACTTGACT
11445523 TAAAGTAACTCTAA
1 TAAAGTAACTCTAA
* *
11445537 TAAGGTAACTTTAA
1 TAAAGTAACTCTAA
11445551 TAAAGTAA
1 TAAAGTAA
11445559 ATGTAAGATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.50, C:0.08, G:0.11, T:0.31
Consensus pattern (14 bp):
TAAAGTAACTCTAA
Found at i:11454524 original size:14 final size:14
Alignment explanation
Indices: 11454501--11454530 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
11454491 ATCTTTACTT
11454501 TTATTATATTAAAG
1 TTATTATATTAAAG
*
11454515 TTATTTTATTAAAG
1 TTATTATATTAAAG
11454529 TT
1 TT
11454531 GCTGTAAGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (14 bp):
TTATTATATTAAAG
Found at i:11461155 original size:18 final size:18
Alignment explanation
Indices: 11461132--11461188 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
11461122 CAATTAAAAT
11461132 ATAATATAATGAT-ATAAA
1 ATAATATAAT-ATAATAAA
*
11461150 ATAATAGTGATATAATAAA
1 ATAATA-TAATATAATAAA
*
11461169 AT-ATATAA-A-AATAAT
1 ATAATATAATATAATAAA
11461184 ATAAT
1 ATAAT
11461189 TTAAATTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
15 7 0.21
16 3 0.09
17 2 0.06
18 11 0.33
19 10 0.30
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.33
Consensus pattern (18 bp):
ATAATATAATATAATAAA
Found at i:11461601 original size:3 final size:3
Alignment explanation
Indices: 11461593--11461643 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
11461583 AAATAATGTG
11461593 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
11461641 TAT
1 TAT
11461644 GTGATTGAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:11461918 original size:23 final size:23
Alignment explanation
Indices: 11461890--11461948 Score: 91
Period size: 23 Copynumber: 2.5 Consensus size: 23
11461880 ACTAGTTAAA
11461890 TTTTGGAGAAAAGATGAGTGAAT
1 TTTTGGAGAAAAGATGAGTGAAT
* *
11461913 TTTTGGAAAAAAGATGAGTTAAT
1 TTTTGGAGAAAAGATGAGTGAAT
11461936 TTTTAGGAGAAAA
1 TTTT-GGAGAAAA
11461949 TATTTCTGGA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 25 0.78
24 7 0.22
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.32
Consensus pattern (23 bp):
TTTTGGAGAAAAGATGAGTGAAT
Found at i:11462130 original size:39 final size:40
Alignment explanation
Indices: 11462056--11462139 Score: 93
Period size: 40 Copynumber: 2.1 Consensus size: 40
11462046 TGAAAGTCTG
* * *
11462056 GGTTTAAGTTTAAGTTTCTGGGAAATTTTTGAAAAAATCT-
1 GGTTTAAGTTTAAATTTCTGGAAAATTTCTG-AAAAATCTA
*
11462096 GGTTT-AGATTTAAATTTTTGGAAAATTTCT-AAAAATCTA
1 GGTTTAAG-TTTAAATTTCTGGAAAATTTCTGAAAAATCTA
11462135 GGTTT
1 GGTTT
11462140 GGGTTGAATG
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
38 8 0.21
39 7 0.18
40 23 0.61
ACGTcount: A:0.33, C:0.05, G:0.18, T:0.44
Consensus pattern (40 bp):
GGTTTAAGTTTAAATTTCTGGAAAATTTCTGAAAAATCTA
Found at i:11462440 original size:10 final size:10
Alignment explanation
Indices: 11462425--11462450 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
11462415 CATCGTAGGT
11462425 TTTTTTTTTC
1 TTTTTTTTTC
11462435 TTTTTTTTTC
1 TTTTTTTTTC
11462445 TTTTTT
1 TTTTTT
11462451 AAAAGTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:11462467 original size:6 final size:6
Alignment explanation
Indices: 11462458--11462490 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
11462448 TTTAAAAGTT
*
11462458 TTTTTA TTTTTG TTTTTA TTTTTA -TTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
11462491 ACTAATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.12, C:0.00, G:0.03, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:11462473 original size:12 final size:11
Alignment explanation
Indices: 11462456--11462490 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
11462446 TTTTTAAAAG
11462456 TTTTTTTATTT
1 TTTTTTTATTT
11462467 TTGTTTTTATTT
1 TT-TTTTTATTT
*
11462479 TTATTTTATTT
1 TTTTTTTATTT
11462490 T
1 T
11462491 ACTAATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.11, C:0.00, G:0.03, T:0.86
Consensus pattern (11 bp):
TTTTTTTATTT
Found at i:11465554 original size:19 final size:16
Alignment explanation
Indices: 11465514--11465547 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
11465504 TTTCGAAAAC
*
11465514 TTATTTGAAAATATTT
1 TTATTTGAAAAGATTT
11465530 TTATTTGAAAAAGATTT
1 TTATTTG-AAAAGATTT
11465547 T
1 T
11465548 ATTATTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (16 bp):
TTATTTGAAAAGATTT
Found at i:11465558 original size:28 final size:27
Alignment explanation
Indices: 11465527--11465591 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 27
11465517 TTTGAAAATA
11465527 TTTTTATTTGAAAAAGATTTTATTAT-TT
1 TTTTTATTTG-AAAAGATTTT-TTATGTT
* *
11465555 TTTTCATTTGAAAAGATTTTTTTTGTT
1 TTTTTATTTGAAAAGATTTTTTATGTT
11465582 TATTTTATTT
1 T-TTTTATTT
11465592 TCCAGAAAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 3 0.09
27 13 0.41
28 16 0.50
ACGTcount: A:0.26, C:0.02, G:0.08, T:0.65
Consensus pattern (27 bp):
TTTTTATTTGAAAAGATTTTTTATGTT
Found at i:11465646 original size:21 final size:20
Alignment explanation
Indices: 11465622--11465674 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
11465612 ATGAAAACCA
11465622 GAAAAAATAAAATAAAAAACT
1 GAAAAAATAAAAT-AAAAACT
11465643 G--AAAATAAAATAAAAACT
1 GAAAAAATAAAATAAAAACT
*
11465661 TAAGAAAATAAAAT
1 GAA-AAAATAAAAT
11465675 TATAAAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
18 7 0.25
19 10 0.36
21 11 0.39
ACGTcount: A:0.74, C:0.04, G:0.06, T:0.17
Consensus pattern (20 bp):
GAAAAAATAAAATAAAAACT
Found at i:11466506 original size:6 final size:6
Alignment explanation
Indices: 11466490--11466528 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
11466480 TCATAGTTCC
* *
11466490 AAAAAT AAAAAAT AAAAAT AAAAGT AATAAT AAAAAT AA
1 AAAAAT -AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AA
11466529 TAGTAGTAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
6 22 0.79
7 6 0.21
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (6 bp):
AAAAAT
Found at i:11466522 original size:3 final size:3
Alignment explanation
Indices: 11466500--11466685 Score: 113
Period size: 3 Copynumber: 63.7 Consensus size: 3
11466490 AAAAATAAAA
* * * * * * *
11466500 AAT AAA AAT AA- AAGT AAT AAT AAA AAT AAT AGT AGT AGT AGT AGT
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
11466545 AGT AGT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT -AT GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
11466592 -AT AAT ACCAT -AT AAT -AT AAT AAT AAT AAT AAT -AT AAT AAT GAT
1 AAT AAT A--AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
11466635 ACT -AT AAT ACAGT AAT AAT AAT ACT -AT AAT -AT AAT -AT AAC AAA
1 AAT AAT AAT A-A-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11466678 AAT AAT AA
1 AAT AAT AA
11466686 AACATGGTCC
Statistics
Matches: 151, Mismatches: 17, Indels: 30
0.76 0.09 0.15
Matches are distributed among these distances:
2 18 0.12
3 125 0.83
4 4 0.03
5 4 0.03
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:11466641 original size:46 final size:44
Alignment explanation
Indices: 11466554--11466673 Score: 138
Period size: 46 Copynumber: 2.6 Consensus size: 44
11466544 TAGTAGTAAT
*
11466554 AATAATAATAATAATAATAATAATAATAGTAATATGATATAATACC
1 AATAATAATAATAATAATAATAAT-ATAATAATATGATATAATA-C
11466600 ATATAAT-ATAATAATAATAATAATATAATAATGAT-ACTATAATAC
1 A-ATAATAATAATAATAATAATAATATAATAAT-ATGA-TATAATAC
*
11466645 AGTAATAATAATACTATAAT-ATAATATAA
1 AATAATAATAATA--ATAATAATAATATAA
11466674 CAAAAATAAT
Statistics
Matches: 66, Mismatches: 2, Indels: 12
0.82 0.03 0.15
Matches are distributed among these distances:
44 4 0.06
45 16 0.24
46 36 0.55
47 10 0.15
ACGTcount: A:0.58, C:0.04, G:0.03, T:0.34
Consensus pattern (44 bp):
AATAATAATAATAATAATAATAATATAATAATATGATATAATAC
Found at i:11473390 original size:28 final size:28
Alignment explanation
Indices: 11473359--11473421 Score: 108
Period size: 28 Copynumber: 2.2 Consensus size: 28
11473349 TATTCCATTC
*
11473359 AAAAAATTACAAAGAAAATATATTGCAA
1 AAAAAATTACAAAGAAAATATATTACAA
*
11473387 AAAAAATTACAAAGAAAATATATTATAA
1 AAAAAATTACAAAGAAAATATATTACAA
11473415 AAAAAAT
1 AAAAAAT
11473422 AGATAACAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.22
Consensus pattern (28 bp):
AAAAAATTACAAAGAAAATATATTACAA
Found at i:11480828 original size:18 final size:17
Alignment explanation
Indices: 11480805--11480844 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
11480795 TCGGAACGTA
11480805 AAATATATAAAAATAAAT
1 AAATATAT-AAAATAAAT
* *
11480823 AAATATATATAATTAAT
1 AAATATATAAAATAAAT
11480840 AAATA
1 AAATA
11480845 ATTGATTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATATATAAAATAAAT
Found at i:11482607 original size:17 final size:18
Alignment explanation
Indices: 11482585--11482618 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11482575 TTGAGGCATT
11482585 AAAAAA-TAAAGATTATA
1 AAAAAATTAAAGATTATA
*
11482602 AAAAAATTAAATATTAT
1 AAAAAATTAAAGATTAT
11482619 TGAGTTTCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (18 bp):
AAAAAATTAAAGATTATA
Found at i:11482801 original size:21 final size:24
Alignment explanation
Indices: 11482763--11482807 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 24
11482753 GTATATGTTC
11482763 TTTTTAATAAAATAATATT-TAAT
1 TTTTTAATAAAATAATATTATAAT
11482786 TTTTTAA-AAAAT-ATATTATAAT
1 TTTTTAATAAAATAATATTATAAT
11482808 AAAGAATAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 5 0.24
22 9 0.43
23 7 0.33
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
TTTTTAATAAAATAATATTATAAT
Found at i:11489219 original size:2 final size:2
Alignment explanation
Indices: 11489212--11489240 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
11489202 GAATTTGTGT
11489212 TA TA 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 T
11489241 TTCTTTGAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11491983 original size:31 final size:31
Alignment explanation
Indices: 11491945--11492007 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 31
11491935 TATTAATAAT
*
11491945 TTATATATT-TATATTGTAT-TTTATATAAAAA
1 TTATATATTATA-ATT-TATATTGATATAAAAA
11491976 TTATATATTATAATTTATATTGATATAAAAA
1 TTATATATTATAATTTATATTGATATAAAAA
11492007 T
1 T
11492008 AAATATATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 3 0.10
31 24 0.83
32 2 0.07
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.52
Consensus pattern (31 bp):
TTATATATTATAATTTATATTGATATAAAAA
Found at i:11492160 original size:17 final size:19
Alignment explanation
Indices: 11492117--11492160 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 19
11492107 TAGATGTTAT
11492117 AATATTTT--TTTTATAAA
1 AATATTTTAATTTTATAAA
11492134 AATATTTTAATTTTA-AAA
1 AATATTTTAATTTTATAAA
11492152 AAT-TTTTAA
1 AATATTTTAA
11492161 ATATTAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 14 0.56
18 6 0.24
19 5 0.20
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
AATATTTTAATTTTATAAA
Found at i:11492167 original size:18 final size:18
Alignment explanation
Indices: 11492131--11492169 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
11492121 TTTTTTTTAT
*
11492131 AAAAATATTTTAATTTTA
1 AAAAATATTTTAATATTA
11492149 AAAAAT-TTTTAAATATTA
1 AAAAATATTTT-AATATTA
11492167 AAA
1 AAA
11492170 TTTAAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AAAAATATTTTAATATTA
Found at i:11493012 original size:3 final size:3
Alignment explanation
Indices: 11493004--11493041 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
11492994 GGTTTGTGCT
11493004 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
11493042 CTTCCTTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:11497693 original size:21 final size:22
Alignment explanation
Indices: 11497660--11497704 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
11497650 TTTTTTATTG
*
11497660 TTTATATATTATTTTAATATAAT
1 TTTATATATTATTTAAATA-AAT
11497683 TTTA-ATA-TATTTAAATAAAT
1 TTTATATATTATTTAAATAAAT
11497703 TT
1 TT
11497705 AGGTATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 3 0.14
23 4 0.19
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
TTTATATATTATTTAAATAAAT
Found at i:11501406 original size:2 final size:2
Alignment explanation
Indices: 11501399--11501433 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
11501389 GCTTTAAATA
11501399 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11501434 AGGATGAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:11506022 original size:14 final size:13
Alignment explanation
Indices: 11505986--11506026 Score: 57
Period size: 14 Copynumber: 3.2 Consensus size: 13
11505976 GAAATTTTTT
11505986 ATTGAAAA-TAAA
1 ATTGAAAATTAAA
*
11505998 ATTAAAAATTAAA
1 ATTGAAAATTAAA
11506011 ATTGATAAATTAAA
1 ATTGA-AAATTAAA
11506025 AT
1 AT
11506027 ATCTTATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 7 0.28
13 8 0.32
14 10 0.40
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (13 bp):
ATTGAAAATTAAA
Found at i:11509265 original size:56 final size:55
Alignment explanation
Indices: 11509109--11509269 Score: 157
Period size: 56 Copynumber: 2.9 Consensus size: 55
11509099 AACTATTTGA
* * * *
11509109 CTGAGGTGACCGAGCTAAGCCTTTATAAAAACATTTTACCTAG-TGAGCACTTTGG
1 CTGAGGTGACCGAGCTAAG-CTTTATAAAAGCATTTTATCTAGATGAGCTCTTAGG
** ** * *
11509164 CCAAGGTGGTCGA-CTTAAGCTTT-TACAAAGGAATTTTATCAAGATGAGCTCTTAGG
1 CTGAGGTGACCGAGC-TAAGCTTTATA-AAA-GCATTTTATCTAGATGAGCTCTTAGG
*
11509220 CTGAGGTAACCGAGCTAAGTCTTTATAAAAGCATTTTATCTAGATGAGCT
1 CTGAGGTGACCGAGCTAAG-CTTTATAAAAGCATTTTATCTAGATGAGCT
11509270 TTGGTCGAGG
Statistics
Matches: 82, Mismatches: 17, Indels: 13
0.73 0.15 0.12
Matches are distributed among these distances:
53 2 0.02
54 8 0.10
55 22 0.27
56 40 0.49
57 8 0.10
58 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.30
Consensus pattern (55 bp):
CTGAGGTGACCGAGCTAAGCTTTATAAAAGCATTTTATCTAGATGAGCTCTTAGG
Found at i:11509717 original size:35 final size:33
Alignment explanation
Indices: 11509670--11509738 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 33
11509660 TTCAAGCTGA
*
11509670 AAGGAAAAGCTT-AGAGATAAGAATGAGAAAGTT
1 AAGGAAAAGCTTAAAAGA-AAGAATGAGAAAGTT
*
11509703 AAGGAAGAGAGCTTAAAAGAAAGAATGAGATAGTT
1 AAGGAA-A-AGCTTAAAAGAAAGAATGAGAAAGTT
11509738 A
1 A
11509739 GAAGGAGAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
33 6 0.19
34 1 0.03
35 20 0.65
36 4 0.13
ACGTcount: A:0.52, C:0.03, G:0.28, T:0.17
Consensus pattern (33 bp):
AAGGAAAAGCTTAAAAGAAAGAATGAGAAAGTT
Found at i:11512225 original size:11 final size:11
Alignment explanation
Indices: 11512209--11512233 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
11512199 ATAAACACAG
11512209 AAATTAGCTTA
1 AAATTAGCTTA
11512220 AAATTAGCTTA
1 AAATTAGCTTA
11512231 AAA
1 AAA
11512234 CTTCATTAAT
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:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (11 bp):
AAATTAGCTTA
Found at i:11522426 original size:23 final size:21
Alignment explanation
Indices: 11522395--11522447 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 21
11522385 TTCGAAAATT
11522395 TTTTAAAAATACA-AAAAATAAA
1 TTTTAAAAAT-CATAAAAA-AAA
*
11522417 TGTTTAAAAATCATTAAAAAAA
1 T-TTTAAAAATCATAAAAAAAA
11522439 TTTTAAAAA
1 TTTTAAAAA
11522448 ATATTTTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 8 0.29
22 7 0.25
23 13 0.46
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (21 bp):
TTTTAAAAATCATAAAAAAAA
Found at i:11522444 original size:11 final size:11
Alignment explanation
Indices: 11522430--11522478 Score: 66
Period size: 11 Copynumber: 4.5 Consensus size: 11
11522420 TTAAAAATCA
11522430 TTAAAAAAATT
1 TTAAAAAAATT
11522441 TTAAAAAATATT
1 TTAAAAAA-ATT
*
11522453 TT-TAAAAATT
1 TTAAAAAAATT
11522463 TT-AAAAAATT
1 TTAAAAAAATT
11522473 TTAAAA
1 TTAAAA
11522479 GATAAATATC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
10 14 0.41
11 15 0.44
12 5 0.15
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
TTAAAAAAATT
Found at i:11522446 original size:10 final size:10
Alignment explanation
Indices: 11522433--11522478 Score: 65
Period size: 10 Copynumber: 4.4 Consensus size: 10
11522423 AAAATCATTA
11522433 AAAAAATTTT
1 AAAAAATTTT
11522443 AAAAAATATTTT
1 -AAAAA-ATTTT
*
11522455 TAAAAATTTT
1 AAAAAATTTT
11522465 AAAAAATTTT
1 AAAAAATTTT
11522475 AAAA
1 AAAA
11522479 GATAAATATC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
10 18 0.56
11 9 0.28
12 5 0.16
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (10 bp):
AAAAAATTTT
Found at i:11522448 original size:22 final size:22
Alignment explanation
Indices: 11522409--11522478 Score: 74
Period size: 22 Copynumber: 3.2 Consensus size: 22
11522399 AAAAATACAA
11522409 AAAATAAATGTTT-AAAAATCA-TT
1 AAAA-AAAT-TTTAAAAAAT-ATTT
11522432 AAAAAAATTTTAAAAAATATTT
1 AAAAAAATTTTAAAAAATATTT
**
11522454 TTAAAAATTTTAAAAAAT-TTT
1 AAAAAAATTTTAAAAAATATTT
11522475 AAAA
1 AAAA
11522479 GATAAATATC
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
21 9 0.22
22 28 0.68
23 4 0.10
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (22 bp):
AAAAAAATTTTAAAAAATATTT
Found at i:11522493 original size:34 final size:34
Alignment explanation
Indices: 11522433--11522519 Score: 97
Period size: 35 Copynumber: 2.6 Consensus size: 34
11522423 AAAATCATTA
* * *
11522433 AAAAAATTTTAAAAA-ATATTTTTAAAA-ATTTT
1 AAAAAATTTTAAAAATAAATATCTAAAAGATTTT
*
11522465 AAAAAATTTTAAAAGATAAATATCTAAAAGCTTTT
1 AAAAAATTTTAAAA-ATAAATATCTAAAAGATTTT
* *
11522500 AAGATATTTTAAAAATAAAT
1 AAAAAATTTTAAAAATAAAT
11522520 TTTCGATACG
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
32 14 0.30
33 1 0.02
34 15 0.33
35 16 0.35
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.38
Consensus pattern (34 bp):
AAAAAATTTTAAAAATAAATATCTAAAAGATTTT
Found at i:11524590 original size:30 final size:31
Alignment explanation
Indices: 11524543--11524601 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
11524533 AGTTTGTCAG
*
11524543 TATTGTGAAAACATAACAGGGTGGATGAAAT
1 TATTGTGAAAACATAACAGAGTGGATGAAAT
*
11524574 TATTGTG-AAGCATAACAGAGTGGATGAA
1 TATTGTGAAAACATAACAGAGTGGATGAA
11524602 GTTTTGTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 19 0.73
31 7 0.27
ACGTcount: A:0.41, C:0.07, G:0.27, T:0.25
Consensus pattern (31 bp):
TATTGTGAAAACATAACAGAGTGGATGAAAT
Found at i:11528449 original size:25 final size:25
Alignment explanation
Indices: 11528419--11528470 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
11528409 CATGAGTGCA
*
11528419 TAATGCGTATCATCATGATATGTCT
1 TAATGCGTATCATCATGACATGTCT
11528444 TAATGCGTATCATCATGACATGTCT
1 TAATGCGTATCATCATGACATGTCT
11528469 TA
1 TA
11528471 TTTTGCTTCC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.38
Consensus pattern (25 bp):
TAATGCGTATCATCATGACATGTCT
Found at i:11532403 original size:24 final size:24
Alignment explanation
Indices: 11532358--11532405 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
11532348 ATAATTTTAA
**
11532358 TATAATAAAAAATATTTTTATAAT
1 TATAATAAAAAATATTAATATAAT
11532382 TATAATAGAAAAATA-TAATATAAT
1 TATAATA-AAAAATATTAATATAAT
11532406 AATTTTAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (24 bp):
TATAATAAAAAATATTAATATAAT
Found at i:11533137 original size:24 final size:24
Alignment explanation
Indices: 11533109--11533163 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 24
11533099 AAATAATAAT
11533109 AAAATTATTATAATTACAATTAAA
1 AAAATTATTATAATTACAATTAAA
**
11533133 AAAATTATTATAATTATGATTAAA
1 AAAATTATTATAATTACAATTAAA
11533157 ATAAATT
1 A-AAATT
11533164 TAATAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
24 23 0.82
25 5 0.18
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (24 bp):
AAAATTATTATAATTACAATTAAA
Found at i:11540930 original size:14 final size:14
Alignment explanation
Indices: 11540908--11540962 Score: 56
Period size: 14 Copynumber: 3.7 Consensus size: 14
11540898 AAACCTTCAA
11540908 ATTTATTAAATATT
1 ATTTATTAAATATT
* *
11540922 ATTTTTTAAAATTTT
1 ATTTATT-AAATATT
11540937 AAATTTATTAAATATT
1 --ATTTATTAAATATT
*
11540953 ATTTTTTAAA
1 ATTTATTAAA
11540963 AATAATTATA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
14 15 0.45
15 6 0.18
16 6 0.18
17 6 0.18
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
ATTTATTAAATATT
Found at i:11540931 original size:31 final size:31
Alignment explanation
Indices: 11540896--11540963 Score: 109
Period size: 31 Copynumber: 2.2 Consensus size: 31
11540886 ACAATTCTAG
*
11540896 TTAAACCTTCAAATTTATTAAATATTATTTT
1 TTAAAACTTCAAATTTATTAAATATTATTTT
* *
11540927 TTAAAATTTTAAATTTATTAAATATTATTTT
1 TTAAAACTTCAAATTTATTAAATATTATTTT
11540958 TTAAAA
1 TTAAAA
11540964 ATAATTATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (31 bp):
TTAAAACTTCAAATTTATTAAATATTATTTT
Found at i:11547053 original size:62 final size:62
Alignment explanation
Indices: 11546979--11547103 Score: 214
Period size: 62 Copynumber: 2.0 Consensus size: 62
11546969 CCGTTAAGCA
* * *
11546979 AACAAATAACTCTCAAAAACCGTTATCTATAAACAAACATAACTTCAAATGTTTTTTGCTTC
1 AACAAATAACTCTCAAAAACAGTTATCTATAAACAAACATAACTTCAAATGCTTTTCGCTTC
*
11547041 AACAAATAACTCTCAAAAACAGTTATCTATAATCAAACATAACTTCAAATGCTTTTCGCTTC
1 AACAAATAACTCTCAAAAACAGTTATCTATAAACAAACATAACTTCAAATGCTTTTCGCTTC
11547103 A
1 A
11547104 TATTAGCTAT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.42, C:0.22, G:0.05, T:0.31
Consensus pattern (62 bp):
AACAAATAACTCTCAAAAACAGTTATCTATAAACAAACATAACTTCAAATGCTTTTCGCTTC
Found at i:11549114 original size:55 final size:55
Alignment explanation
Indices: 11549051--11549157 Score: 189
Period size: 55 Copynumber: 1.9 Consensus size: 55
11549041 GTAATCATAT
11549051 GCTTAAGATACGATATTATTCGTAACATAAAAAAAATTAAAAATTATT-TTAACAC
1 GCTTAAGATACGATATTATTCGTAACATAAAAAAAATT-AAAATTATTATTAACAC
*
11549106 GCTTAAGATACGATATTATTCGTAACGTAAAAAAAATTAAAATTATTATTAA
1 GCTTAAGATACGATATTATTCGTAACATAAAAAAAATTAAAATTATTATTAA
11549158 TTTATTTAAA
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
54 9 0.18
55 41 0.82
ACGTcount: A:0.49, C:0.09, G:0.08, T:0.34
Consensus pattern (55 bp):
GCTTAAGATACGATATTATTCGTAACATAAAAAAAATTAAAATTATTATTAACAC
Found at i:11549220 original size:19 final size:18
Alignment explanation
Indices: 11549204--11549239 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
11549194 ATCATTTTGG
11549204 TATTTAAATAAATTTTTAA
1 TATTTAAAT-AATTTTTAA
*
11549223 TTTTTAAATAATTTTTA
1 TATTTAAATAATTTTTA
11549240 TTTAAATACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TATTTAAATAATTTTTAA
Found at i:11552934 original size:26 final size:26
Alignment explanation
Indices: 11552897--11552950 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
11552887 AAAAATCAAC
11552897 AACTTATCCTCTGACTTTTGCTTTCA
1 AACTTATCCTCTGACTTTTGCTTTCA
*
11552923 AACTTATTCTCTGACTTTTGCTTTCA
1 AACTTATCCTCTGACTTTTGCTTTCA
11552949 AA
1 AA
11552951 TTCATTTGCC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.22, C:0.24, G:0.07, T:0.46
Consensus pattern (26 bp):
AACTTATCCTCTGACTTTTGCTTTCA
Found at i:11556276 original size:20 final size:20
Alignment explanation
Indices: 11556253--11556292 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
11556243 TTCTTTATCC
* *
11556253 AATTTTTTTCTTGATAAATT
1 AATTTTTTTATAGATAAATT
11556273 AATTTTTTTATAGATAAATT
1 AATTTTTTTATAGATAAATT
11556293 CAGTTTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (20 bp):
AATTTTTTTATAGATAAATT
Found at i:11556881 original size:17 final size:17
Alignment explanation
Indices: 11556861--11556924 Score: 55
Period size: 17 Copynumber: 4.0 Consensus size: 17
11556851 TATAATATTA
* * *
11556861 AATTTAAGTTTGAGTTT
1 AATTTAAATTTAAATTT
11556878 AATTTAAATTTAAATTT
1 AATTTAAATTTAAATTT
* *
11556895 AA-TTGAATTT-TATTT
1 AATTTAAATTTAAATTT
11556910 --TTTAAATTTAAATTT
1 AATTTAAATTTAAATTT
11556925 GATTCGAAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
14 7 0.18
15 8 0.21
16 7 0.18
17 16 0.42
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (17 bp):
AATTTAAATTTAAATTT
Found at i:11557083 original size:112 final size:112
Alignment explanation
Indices: 11556900--11557118 Score: 366
Period size: 112 Copynumber: 2.0 Consensus size: 112
11556890 AATTTAATTG
* * * *
11556900 AATTTTATTTTTTAAATTTAAATTTGATTCGAAATAAAAATTAAATTATTCAAATTCGTTCGATT
1 AATTTTATTTTTTAAATTTAAATTTAACTAGAAATAAAAATTAAATTATTCAAATTCATTCGATT
*
11556965 AAGTTTGATTAATGTATAAAAATAAGTTTATTTTTTAAATTCGATCA
66 AAGTTTGATTAATATATAAAAATAAGTTTATTTTTTAAATTCGATCA
*
11557012 AATTTTATTTTTTAAATTTAAATTTAACTAGAAATAAAAATTAAATTATTTAAATTCATTCGATT
1 AATTTTATTTTTTAAATTTAAATTTAACTAGAAATAAAAATTAAATTATTCAAATTCATTCGATT
* *
11557077 AAGTTTGATTAATATGTAAAAATAAGTTTATTTTTTATATTC
66 AAGTTTGATTAATATATAAAAATAAGTTTATTTTTTAAATTC
11557119 AATAAAAACT
Statistics
Matches: 99, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
112 99 1.00
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.47
Consensus pattern (112 bp):
AATTTTATTTTTTAAATTTAAATTTAACTAGAAATAAAAATTAAATTATTCAAATTCATTCGATT
AAGTTTGATTAATATATAAAAATAAGTTTATTTTTTAAATTCGATCA
Found at i:11558780 original size:118 final size:116
Alignment explanation
Indices: 11558559--11558913 Score: 552
Period size: 118 Copynumber: 3.0 Consensus size: 116
11558549 AAATTATTGC
* *
11558559 ACCTACTATGGAAGGTAA--TGTTATTATTATAACTTTAATTGCAAAATTAAATGGGAAAAAAAT
1 ACCTACTATGGAAGGTAAGTTATTATTATTATAACTTTAATTGCAAAATTAAATGGGAAAAAAAC
*
11558622 AAAATTTATTTATTAGTCATTGAGTATGGTACATTCTTTATCCAAACTTCA
66 AAAATTTATTTATTAGTCATTGAATATGGTACATTCTTTATCCAAACTTCA
11558673 ACCTACTATGGAAGGTAAGGTTATTATTATTATAACTTTAATTGCAAAATTAAATGGGAAAAATA
1 ACCTACTATGGAAGGTAA-GTTATTATTATTATAACTTTAATTGCAAAATTAAATGGGAAAAA-A
11558738 ACAAAATTTATTTATTAGTCATTGAATATGGTACATTCTTTATCCAAACTTCA
64 ACAAAATTTATTTATTAGTCATTGAATATGGTACATTCTTTATCCAAACTTCA
*
11558791 ACCTACTATAGAAGGTAAGATTATTATTTTATTATTATAACTTTAATTGCAAAATTAAATGGGTA
1 ACCTACTATGGAAGGTAAG----TTA--TTATTATTATAACTTTAATTGCAAAATTAAATGGG--
*
11558856 AAAAAAAACAAAATTTATTTATTAGTCATTGAATATGATACATTCTTTATCCAAACTT
58 -AAAAAAACAAAATTTATTTATTAGTCATTGAATATGGTACATTCTTTATCCAAACTT
11558914 TACCCTAACA
Statistics
Matches: 223, Mismatches: 5, Indels: 15
0.92 0.02 0.06
Matches are distributed among these distances:
114 18 0.08
117 42 0.19
118 69 0.31
121 3 0.01
123 35 0.16
125 51 0.23
126 5 0.02
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.38
Consensus pattern (116 bp):
ACCTACTATGGAAGGTAAGTTATTATTATTATAACTTTAATTGCAAAATTAAATGGGAAAAAAAC
AAAATTTATTTATTAGTCATTGAATATGGTACATTCTTTATCCAAACTTCA
Found at i:11564574 original size:30 final size:30
Alignment explanation
Indices: 11564507--11564566 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
11564497 TGCAAAGTGA
11564507 AAAATCAAGATCTTGGATTGTTGATTTAGG
1 AAAATCAAGATCTTGGATTGTTGATTTAGG
11564537 AAAATCAAGATCTTGGATTGTTGATTTAGG
1 AAAATCAAGATCTTGGATTGTTGATTTAGG
11564567 TGCATCAAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.37
Consensus pattern (30 bp):
AAAATCAAGATCTTGGATTGTTGATTTAGG
Found at i:11568087 original size:2 final size:2
Alignment explanation
Indices: 11568082--11568115 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
11568072 TGTGTGTGTT
11568082 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11568116 CACACTTGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11571245 original size:29 final size:31
Alignment explanation
Indices: 11571196--11571273 Score: 96
Period size: 29 Copynumber: 2.7 Consensus size: 31
11571186 CTTTATTATT
11571196 ATAATA-ATTTATTTTTT-ATTT-ATTAA-CA
1 ATAATATATTTATTTTTTAATTTGA-TAAGCA
*
11571224 ATAATATATTT-TTTTTTAATTTGATAAGCG
1 ATAATATATTTATTTTTTAATTTGATAAGCA
11571254 A-AATATATTTATTTTTTAAT
1 ATAATATATTTATTTTTTAAT
11571274 ATTTTCTAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
28 12 0.27
29 20 0.45
30 12 0.27
ACGTcount: A:0.37, C:0.03, G:0.04, T:0.56
Consensus pattern (31 bp):
ATAATATATTTATTTTTTAATTTGATAAGCA
Found at i:11580824 original size:62 final size:63
Alignment explanation
Indices: 11580673--11580838 Score: 164
Period size: 62 Copynumber: 2.7 Consensus size: 63
11580663 TTTTTTTAAA
11580673 GATTATTCAAGTCGTTTCTGACCAA-AAAAGCTTTGAATAA-TCCTAAAAAAAATAAAAAAAGG
1 GATTATTCAAGTCGTTTCTGA-CAAGAAAAGCTTTGAATAATTCCTAAAAAAAATAAAAAAAGG
* * * * * ** **
11580735 GATCATTCAAGAT-GTTTTTTGTC-AGAAAATGCTTTAAATAATTCCTTAAAAAAATTCAATGA-
1 GATTATTCAAG-TCG-TTTCTGACAAGAAAA-GCTTTGAATAATTCCTAAAAAAAATAAAAAAAG
11580797 G
63 G
*
11580798 G-TTATTCAAGTCGTTTCTGACAAGAAACGCTTTGAATAATT
1 GATTATTCAAGTCGTTTCTGACAAGAAAAGCTTTGAATAATT
11580839 TTTTTTCCAT
Statistics
Matches: 83, Mismatches: 14, Indels: 15
0.74 0.12 0.13
Matches are distributed among these distances:
61 20 0.24
62 30 0.36
63 18 0.22
64 15 0.18
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.33
Consensus pattern (63 bp):
GATTATTCAAGTCGTTTCTGACAAGAAAAGCTTTGAATAATTCCTAAAAAAAATAAAAAAAGG
Found at i:11583273 original size:22 final size:23
Alignment explanation
Indices: 11583229--11583273 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
11583219 ATTGAAATTT
* *
11583229 AATAACTTTAAAATGAATATAAA
1 AATAAATTAAAAATGAATATAAA
*
11583252 AATAAATTAAAAAT-AATTTAAA
1 AATAAATTAAAAATGAATATAAA
11583274 GTAACGAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (23 bp):
AATAAATTAAAAATGAATATAAA
Found at i:11584438 original size:23 final size:25
Alignment explanation
Indices: 11584386--11584443 Score: 68
Period size: 23 Copynumber: 2.4 Consensus size: 25
11584376 ATAATTAATT
*
11584386 TTTAAAAATAATAAATTCAATTTTAA
1 TTTAAAAA-AATAAAATCAATTTTAA
11584412 -TTAAAAAAATAAAAT-AA-TTTAA
1 TTTAAAAAAATAAAATCAATTTTAA
*
11584434 TTTAACAAAA
1 TTTAAAAAAA
11584444 CCCTAAACCA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
22 5 0.17
23 10 0.34
24 7 0.24
25 7 0.24
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.36
Consensus pattern (25 bp):
TTTAAAAAAATAAAATCAATTTTAA
Found at i:11586851 original size:19 final size:19
Alignment explanation
Indices: 11586827--11586880 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
11586817 TTTCATCTTA
*
11586827 ATTATTATTTAATTTTATT
1 ATTATTATTTAATTTTAAT
** **
11586846 ATTATTAAATAATAATAAT
1 ATTATTATTTAATTTTAAT
*
11586865 ATTATTATTTAGTTTT
1 ATTATTATTTAATTTT
11586881 TAGAAAGAGA
Statistics
Matches: 25, Mismatches: 10, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (19 bp):
ATTATTATTTAATTTTAAT
Found at i:11597280 original size:67 final size:68
Alignment explanation
Indices: 11597157--11597290 Score: 216
Period size: 67 Copynumber: 2.0 Consensus size: 68
11597147 TCGGCATCTG
*
11597157 CTGGGTTTTATATTTAAGAATGTAAGACACAATAAACCGGTGATCATATTAGATATCAATTCCAT
1 CTGGGTTTTATATTTAAGAATGT-AGACACAATAAACCAGTGATCATATTAGATATCAATTCCAT
11597222 GCTA
65 GCTA
* * *
11597226 CTGGGTTTTATATTTGAGAATGT-GAGACAATAAACTAGTGATCATATTAGATATCAATTCCATG
1 CTGGGTTTTATATTTAAGAATGTAGACACAATAAACCAGTGATCATATTAGATATCAATTCCATG
11597290 C
66 C
11597291 ATTTTCATAA
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
67 39 0.64
69 22 0.36
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.34
Consensus pattern (68 bp):
CTGGGTTTTATATTTAAGAATGTAGACACAATAAACCAGTGATCATATTAGATATCAATTCCATG
CTA
Found at i:11604594 original size:22 final size:24
Alignment explanation
Indices: 11604556--11604602 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 24
11604546 TTTAATTTAA
*
11604556 TTTAAAATTAATAAAATATTATTT
1 TTTAAAATTAATAAAATAATATTT
11604580 TTTAAAA-T-ATAAAATAATATTT
1 TTTAAAATTAATAAAATAATATTT
11604602 T
1 T
11604603 AAATATAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 14 0.64
23 1 0.05
24 7 0.32
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
TTTAAAATTAATAAAATAATATTT
Found at i:11604602 original size:20 final size:20
Alignment explanation
Indices: 11604556--11604616 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 20
11604546 TTTAATTTAA
*
11604556 TTTAAAATTAATAAAATATTATTT
1 TTTAAAA-T-ATAAAATA--ATAT
11604580 TTTAAAATATAAAATAATAT
1 TTTAAAATATAAAATAATAT
11604600 TTT-AAATATAAATATAA
1 TTTAAAATATAAA-ATAA
11604617 AATTAAATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
19 9 0.26
20 10 0.29
22 8 0.23
23 1 0.03
24 7 0.20
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
TTTAAAATATAAAATAATAT
Found at i:11604630 original size:26 final size:26
Alignment explanation
Indices: 11604584--11604656 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 26
11604574 TTATTTTTTA
*
11604584 AAATATAAAA-T-AATATTTTAAATAT
1 AAATATAAAATTAAATA-ATTAAATAT
11604609 AAATATAAAATTAAATAATTAAATAT
1 AAATATAAAATTAAATAATTAAATAT
* *
11604635 ATATA-AAAATAAAATAAATTAA
1 AAATATAAAATTAAAT-AATTAA
11604657 TTAATTAATA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
25 19 0.45
26 19 0.45
27 4 0.10
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (26 bp):
AAATATAAAATTAAATAATTAAATAT
Found at i:11609109 original size:4 final size:4
Alignment explanation
Indices: 11609100--11609124 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
11609090 ACACGAGATT
11609100 ATTA ATTA ATTA ATTA ATTA ATTA A
1 ATTA ATTA ATTA ATTA ATTA ATTA A
11609125 CTATCTAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
ATTA
Found at i:11610268 original size:22 final size:22
Alignment explanation
Indices: 11610243--11610290 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
11610233 AAAAAATAAA
*
11610243 AAAAATAATTTA-AAATTTTAAT
1 AAAAATAATATATAAA-TTTAAT
*
11610265 AAAAATTATATATAAATTTAAT
1 AAAAATAATATATAAATTTAAT
11610287 AAAA
1 AAAA
11610291 TTAAAACATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
AAAAATAATATATAAATTTAAT
Found at i:11612297 original size:15 final size:16
Alignment explanation
Indices: 11612277--11612312 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
11612267 GTATTTTAAT
11612277 ATTTTA-TATAATAAA
1 ATTTTAGTATAATAAA
11612292 ATTTTATGTATAATAAA
1 ATTTTA-GTATAATAAA
11612309 ATTT
1 ATTT
11612313 AAGTTTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.32
17 13 0.68
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (16 bp):
ATTTTAGTATAATAAA
Found at i:11613290 original size:148 final size:147
Alignment explanation
Indices: 11613028--11613297 Score: 332
Period size: 148 Copynumber: 1.8 Consensus size: 147
11613018 TACTTTTTTT
* * **
11613028 AAATGCAGAAATTGATTGGCTTCAAAATATTAAAAAAGTTAGTTTGAATGATGATAATAAGAATG
1 AAATGCAGAAATTGATTGGCTTCAAAATATAAAAAAAGCTACATTGAATGATGATAATAAGAATG
* * * * *
11613093 AAGCAATACTTAAAAATATACTTTTTTTTCGTTTAGCAAAAGAAATTTTTTATGAAGATTGCGAA
66 AAGCAACAATTAAAAATATACATATTTTTCATTTAGCAAAAG-AATTTTTTATGAAGATTGCGAA
11613158 ATATTCTTTGCACTTTCC
130 ATATTCTTTGCACTTTCC
* * *
11613176 AAATGGAGAACTTGATTGG-TATCAAAATATAAAAAAAGCTACATTGAATGATGGTAATAAGAAT
1 AAATGCAGAAATTGATTGGCT-TCAAAATATAAAAAAAGCTACATTGAATGATGATAATAAGAAT
* * *
11613240 GACGTAACAATTAAAAATATACCATATTTTT-ATTTAAG-AGAAA-ATTTTTTTATGAAGA
65 GAAGCAACAATTAAAAATATA-CATATTTTTCATTT-AGCA-AAAGAATTTTTTATGAAGA
11613298 ATGCAAAGGT
Statistics
Matches: 103, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
147 15 0.15
148 76 0.74
149 12 0.12
ACGTcount: A:0.43, C:0.08, G:0.14, T:0.34
Consensus pattern (147 bp):
AAATGCAGAAATTGATTGGCTTCAAAATATAAAAAAAGCTACATTGAATGATGATAATAAGAATG
AAGCAACAATTAAAAATATACATATTTTTCATTTAGCAAAAGAATTTTTTATGAAGATTGCGAAA
TATTCTTTGCACTTTCC
Found at i:11613922 original size:125 final size:127
Alignment explanation
Indices: 11613787--11614038 Score: 366
Period size: 128 Copynumber: 2.0 Consensus size: 127
11613777 TTTAAACTTA
* *
11613787 AATTTTTTCTTCTTTATTTCTCTACCTTATAAATTACATAATTTAACATACATTGT-ATTTAC-C
1 AATTTTTTCTTCTTGATTGCTCTACCTTATAAATTACATAATTTAACATACATTGTAATTT-CTC
* * *
11613850 T-TTTTTGGATATACATAAATTAATGATAACATAGTAATAGATAATTAATAATTTAGTAATTT
65 TATTTTTGGACATACACAAATTAATGATAACATAGTAATAGATAATTAATAACTTAGTAATTT
* * *
11613912 AATTTTTTCTTGTTGCTTGCTCTACCTTATAAATTACATAATTTAACATACATTGTAATTTCTTT
1 AATTTTTTCTTCTTGATTGCTCTACCTTATAAATTACATAATTTAACATACATTGTAATTTC-TC
* * *
11613977 TATTTTTGGACATACACAAGTTAATGATAGCATAGTAATAGGTAATTAATAACTTAGTAATT
65 TATTTTTGGACATACACAAATTAATGATAACATAGTAATAGATAATTAATAACTTAGTAATT
11614039 AATCAATGAA
Statistics
Matches: 112, Mismatches: 11, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
125 53 0.47
126 4 0.04
127 1 0.01
128 54 0.48
ACGTcount: A:0.35, C:0.11, G:0.08, T:0.46
Consensus pattern (127 bp):
AATTTTTTCTTCTTGATTGCTCTACCTTATAAATTACATAATTTAACATACATTGTAATTTCTCT
ATTTTTGGACATACACAAATTAATGATAACATAGTAATAGATAATTAATAACTTAGTAATTT
Found at i:11614117 original size:22 final size:22
Alignment explanation
Indices: 11614086--11614393 Score: 92
Period size: 22 Copynumber: 14.0 Consensus size: 22
11614076 TAGTAATCAT
* *
11614086 TGATAGCTTAATAATAAATTAG
1 TGATAACTTAATAGTAAATTAG
* *
11614108 TGATAACTTAATAGTAAATGAA
1 TGATAACTTAATAGTAAATTAG
* * * * *
11614130 TGATAATTTAGTAATAAATAAC
1 TGATAACTTAATAGTAAATTAG
* * **
11614152 TAATAATTTTTTAGTAAATTAG
1 TGATAACTTAATAGTAAATTAG
* * * * *
11614174 TAATAA-TATAACAATATATGA-
1 TGATAACT-TAATAGTAAATTAG
* * * *
11614195 TAATAACTTAATGGTAAATCAA
1 TGATAACTTAATAGTAAATTAG
* * *
11614217 TTATAA-TATAGTTGTAAATGTA-
1 TGATAACT-TAATAGTAAAT-TAG
* * * *
11614239 TAATAACATAATACTAAATCAAG
1 TGATAACTTAATAGTAAAT-TAG
* * *
11614262 -GATAAAC-TAACA-AAAACTAAG
1 TGAT-AACTTAATAGTAAATTA-G
* * * *
11614283 TGATAATTTAATAGTCAACTAT
1 TGATAACTTAATAGTAAATTAG
* * *
11614305 TGATAACTTAGTAAT-AATTCAA
1 TGATAACTTAATAGTAAATT-AG
* * *
11614327 TGATAACTTAGTAATAAATTAA
1 TGATAACTTAATAGTAAATTAG
*
11614349 TGATAATTTAATAGTAAATTAG
1 TGATAACTTAATAGTAAATTAG
* *
11614371 TAATAATTTAATAGTAAATTAG
1 TGATAACTTAATAGTAAATTAG
11614393 T
1 T
11614394 TTCAATTTAA
Statistics
Matches: 215, Mismatches: 57, Indels: 28
0.72 0.19 0.09
Matches are distributed among these distances:
20 1 0.00
21 25 0.12
22 176 0.82
23 13 0.06
ACGTcount: A:0.49, C:0.06, G:0.10, T:0.36
Consensus pattern (22 bp):
TGATAACTTAATAGTAAATTAG
Found at i:11614343 original size:11 final size:11
Alignment explanation
Indices: 11614316--11614391 Score: 55
Period size: 11 Copynumber: 6.9 Consensus size: 11
11614306 GATAACTTAG
11614316 TAAT-AATTCAA
1 TAATAAATT-AA
* * *
11614327 TGATAACTTAG
1 TAATAAATTAA
11614338 TAATAAATTAA
1 TAATAAATTAA
* *
11614349 TGATAATTTAA
1 TAATAAATTAA
* *
11614360 TAGTAAATTAG
1 TAATAAATTAA
*
11614371 TAATAATTTAA
1 TAATAAATTAA
*
11614382 TAGTAAATTA
1 TAATAAATTA
11614392 GTTTCAATTT
Statistics
Matches: 47, Mismatches: 17, Indels: 2
0.71 0.26 0.03
Matches are distributed among these distances:
11 44 0.94
12 3 0.06
ACGTcount: A:0.50, C:0.03, G:0.08, T:0.39
Consensus pattern (11 bp):
TAATAAATTAA
Found at i:11614355 original size:33 final size:33
Alignment explanation
Indices: 11614318--11614382 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
11614308 TAACTTAGTA
*
11614318 ATAATTCAAT-GATAACTTAGTAATAAATTAATG
1 ATAATTCAATAG-TAAATTAGTAATAAATTAATG
* *
11614351 ATAATTTAATAGTAAATTAGTAATAATTTAAT
1 ATAATTCAATAGTAAATTAGTAATAAATTAAT
11614383 AGTAAATTAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.40
Consensus pattern (33 bp):
ATAATTCAATAGTAAATTAGTAATAAATTAATG
Found at i:11614390 original size:44 final size:44
Alignment explanation
Indices: 11614093--11614391 Score: 165
Period size: 44 Copynumber: 6.8 Consensus size: 44
11614083 CATTGATAGC
* *
11614093 TTAATAATAAATTAGTGATAACTTAATAGTAAATGAATGATAAT
1 TTAATAATAAATTAGTAATAACTTAATAGTAAATTAATGATAAT
* * * * ** * *
11614137 TTAGTAATAAATAACTAATAATTTTTTAGTAAATTAGTAATAAT
1 TTAATAATAAATTAGTAATAACTTAATAGTAAATTAATGATAAT
* * * * * * *
11614181 ATAACAATATATGA-TAATAACTTAATGGTAAATCAATTATAAT
1 TTAATAATAAATTAGTAATAACTTAATAGTAAATTAATGATAAT
* * ** * * * * *
11614224 ATAGTTGTAAATGTA-TAATAACATAATACTAAATCAAGGATAAA
1 TTAATAATAAAT-TAGTAATAACTTAATAGTAAATTAATGATAAT
* * * * * * * * *
11614268 CTAACAA-AAACTAAGTGATAATTTAATAGTCAACTATTGATAAC
1 TTAATAATAAA-TTAGTAATAACTTAATAGTAAATTAATGATAAT
* * * * *
11614312 TTAGTAAT-AATTCAATGATAACTTAGTAATAAATTAATGATAAT
1 TTAATAATAAATT-AGTAATAACTTAATAGTAAATTAATGATAAT
* *
11614356 TTAATAGTAAATTAGTAATAATTTAATAGTAAATTA
1 TTAATAATAAATTAGTAATAACTTAATAGTAAATTA
11614392 GTTTCAATTT
Statistics
Matches: 180, Mismatches: 69, Indels: 12
0.69 0.26 0.05
Matches are distributed among these distances:
43 34 0.19
44 142 0.79
45 4 0.02
ACGTcount: A:0.49, C:0.05, G:0.09, T:0.36
Consensus pattern (44 bp):
TTAATAATAAATTAGTAATAACTTAATAGTAAATTAATGATAAT
Found at i:11614400 original size:22 final size:22
Alignment explanation
Indices: 11614341--11614409 Score: 95
Period size: 22 Copynumber: 3.1 Consensus size: 22
11614331 AACTTAGTAA
* *
11614341 TAAATTAATGATAATTTAATAG
1 TAAATTAGTAATAATTTAATAG
11614363 TAAATTAGTAATAATTTAATAG
1 TAAATTAGTAATAATTTAATAG
*
11614385 TAAATTAGT-TTCAATTTAATAG
1 TAAATTAGTAAT-AATTTAATAG
11614407 TAA
1 TAA
11614410 TTAATTGATA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
21 1 0.02
22 42 0.98
ACGTcount: A:0.48, C:0.01, G:0.09, T:0.42
Consensus pattern (22 bp):
TAAATTAGTAATAATTTAATAG
Found at i:11614560 original size:43 final size:43
Alignment explanation
Indices: 11614479--11614560 Score: 101
Period size: 43 Copynumber: 1.9 Consensus size: 43
11614469 AATAATTAAC
* * *
11614479 AATTTAGTTGTTAATAATTGAAAACTTAAAAGTAAATCAATAT
1 AATTTAGTAGTAAATAATTGAAAACATAAAAGTAAATCAATAT
* * * *
11614522 AATTTAGTAGTAAATAATTTATAACATAATAGTTAATCA
1 AATTTAGTAGTAAATAATTGAAAACATAAAAGTAAATCA
11614561 GTGATAATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 32 1.00
ACGTcount: A:0.49, C:0.05, G:0.09, T:0.38
Consensus pattern (43 bp):
AATTTAGTAGTAAATAATTGAAAACATAAAAGTAAATCAATAT
Found at i:11614684 original size:44 final size:44
Alignment explanation
Indices: 11614634--11614746 Score: 131
Period size: 44 Copynumber: 2.6 Consensus size: 44
11614624 ATTTAATGGT
*
11614634 AATCAATGATAATTTTATAGTAAATA-ATTAAAAAT-TAAATAGCA
1 AATCAATGATAATTTAATAGTAAATATA-TAAAAATAT-AATAGCA
* ** *
11614678 AATCAATTATAACCTAATAGTAAATATATAAAAATATAATAGTA
1 AATCAATGATAATTTAATAGTAAATATATAAAAATATAATAGCA
* *
11614722 AATTATTGATAATTTAATAGTAAAT
1 AATCAATGATAATTTAATAGTAAAT
11614747 TAATAACTTA
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
44 55 0.96
45 2 0.04
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.35
Consensus pattern (44 bp):
AATCAATGATAATTTAATAGTAAATATATAAAAATATAATAGCA
Found at i:11614747 original size:22 final size:22
Alignment explanation
Indices: 11614613--11614748 Score: 89
Period size: 22 Copynumber: 6.2 Consensus size: 22
11614603 CTTGATCATG
* *
11614613 AATTATAGATAATTTAATGGT-
1 AATTATTGATAATTTAATAGTA
* * *
11614634 AATCAATGATAATTTTATAGTA
1 AATTATTGATAATTTAATAGTA
* * * * *
11614656 AATAATTAAAAATTAAATAGCA
1 AATTATTGATAATTTAATAGTA
* **
11614678 AATCAATT-ATAACCTAATAGTA
1 AAT-TATTGATAATTTAATAGTA
* * *
11614700 AA-TATATAAAAATATAATAGTA
1 AATTAT-TGATAATTTAATAGTA
11614722 AATTATTGATAATTTAATAGTA
1 AATTATTGATAATTTAATAGTA
11614744 AATTA
1 AATTA
11614749 ATAACTTAAC
Statistics
Matches: 86, Mismatches: 24, Indels: 9
0.72 0.20 0.08
Matches are distributed among these distances:
20 2 0.02
21 17 0.20
22 60 0.70
23 7 0.08
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.37
Consensus pattern (22 bp):
AATTATTGATAATTTAATAGTA
Found at i:11614802 original size:22 final size:21
Alignment explanation
Indices: 11614686--11614802 Score: 87
Period size: 22 Copynumber: 5.5 Consensus size: 21
11614676 CAAATCAATT
*
11614686 ATAACCTAATAGTAAATATATA
1 ATAACTTAATAGTAAAT-TATA
* *
11614708 A-AAATATAATAGTAAATTATTG
1 ATAACT-TAATAGTAAATTA-TA
*
11614730 ATAATTTAATAGTAAA-T-TA
1 ATAACTTAATAGTAAATTATA
* * *
11614749 ATAACTTAACAATAAATCACTA
1 ATAACTTAATAGTAAATTA-TA
**
11614771 ATAAGATAATAGTAAATTACTA
1 ATAACTTAATAGTAAATTA-TA
11614793 ATAACTTAAT
1 ATAACTTAAT
11614803 TATATATCAA
Statistics
Matches: 73, Mismatches: 16, Indels: 12
0.72 0.16 0.12
Matches are distributed among these distances:
19 14 0.19
21 5 0.07
22 51 0.70
23 3 0.04
ACGTcount: A:0.54, C:0.07, G:0.05, T:0.34
Consensus pattern (21 bp):
ATAACTTAATAGTAAATTATA
Found at i:11614817 original size:44 final size:41
Alignment explanation
Indices: 11614736--11614818 Score: 103
Period size: 44 Copynumber: 2.0 Consensus size: 41
11614726 ATTGATAATT
*
11614736 TAATAGTAAATTAATAACTTAACAATAAATCACTAATAAGA
1 TAATAGTAAATTAATAACTTAACAATAAATCAATAATAAGA
** *
11614777 TAATAGTAAATTACTAATAACTTAATTATATATCAATAATAA
1 TAATAGTAAA-T--TAATAACTTAACAATAAATCAATAATAA
11614819 TTTAGTAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
41 10 0.29
42 1 0.03
44 24 0.69
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.34
Consensus pattern (41 bp):
TAATAGTAAATTAATAACTTAACAATAAATCAATAATAAGA
Found at i:11614831 original size:44 final size:44
Alignment explanation
Indices: 11614747--11614833 Score: 102
Period size: 44 Copynumber: 2.0 Consensus size: 44
11614737 AATAGTAAAT
* *
11614747 TAATAACTTAACAATAAATCACTAATAAGATAATAGTAAATTAC
1 TAATAACTTAACAATAAATCAATAATAAGATAATAATAAATTAC
** * ** *
11614791 TAATAACTTAATTATATATCAATAATAATTTAGTAATAAATTA
1 TAATAACTTAACAATAAATCAATAATAAGATAATAATAAATTA
11614834 GTTAATCATT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.53, C:0.08, G:0.03, T:0.36
Consensus pattern (44 bp):
TAATAACTTAACAATAAATCAATAATAAGATAATAATAAATTAC
Found at i:11614974 original size:22 final size:22
Alignment explanation
Indices: 11614944--11614985 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
11614934 AATTTAATAG
* *
11614944 AAATTATTCATAACTTAATGAT
1 AAATAATTCAAAACTTAATGAT
11614966 AAATAATTCAAAACTTAATG
1 AAATAATTCAAAACTTAATG
11614986 GCAAATCACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.50, C:0.10, G:0.05, T:0.36
Consensus pattern (22 bp):
AAATAATTCAAAACTTAATGAT
Found at i:11614991 original size:22 final size:22
Alignment explanation
Indices: 11614944--11614991 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
11614934 AATTTAATAG
* * *
11614944 AAATTATTCATAACTTAATGAT
1 AAATAATTCAAAACTTAATGAC
*
11614966 AAATAATTCAAAACTTAATGGC
1 AAATAATTCAAAACTTAATGAC
11614988 AAAT
1 AAAT
11614992 CACTTATAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.10, G:0.06, T:0.33
Consensus pattern (22 bp):
AAATAATTCAAAACTTAATGAC
Found at i:11615427 original size:44 final size:44
Alignment explanation
Indices: 11615318--11615441 Score: 101
Period size: 44 Copynumber: 2.8 Consensus size: 44
11615308 TTTTAAATGC
* *
11615318 ATAATAACATATTAGTAAATTAATGATAGATTAATAAAAAACAA
1 ATAATAACTTAATAGTAAATTAATGATAGATTAATAAAAAACAA
* * * * * * * *
11615362 ATGATAATTTAGTTGTTAATTATTGATA-ACTTTATAATAAATC-A
1 ATAATAACTTAATAGTAAATTAATGATAGA-TTAATAA-AAAACAA
*
11615406 ATAATAACTTAATAGTAAATTAAAGATA-ATTGAATA
1 ATAATAACTTAATAGTAAATTAATGATAGATT-AATA
11615442 GTAAATCAAT
Statistics
Matches: 60, Mismatches: 17, Indels: 6
0.72 0.20 0.07
Matches are distributed among these distances:
43 3 0.05
44 53 0.88
45 4 0.07
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.36
Consensus pattern (44 bp):
ATAATAACTTAATAGTAAATTAATGATAGATTAATAAAAAACAA
Found at i:11615523 original size:22 final size:22
Alignment explanation
Indices: 11615363--11615822 Score: 98
Period size: 22 Copynumber: 20.9 Consensus size: 22
11615353 AAAAAACAAA
* * *
11615363 TGATAATTTAGTTGTTAATTAT
1 TGATAATTTAGTAGTAAATCAT
* *
11615385 TGATAACTTTA-TAATAAATCAA
1 TGATAA-TTTAGTAGTAAATCAT
* * * * *
11615407 TAATAACTTAATAGTAAATTAA
1 TGATAATTTAGTAGTAAATCAT
* * *
11615429 AGATAATTGAATAGTAAATCAAT
1 TGATAATTTAGTAGTAAATC-AT
* * * *
11615452 T-CTAGTTTAGTAGTAATTAAT
1 TGATAATTTAGTAGTAAATCAT
* *
11615473 TGATAACCTTAGTAG-AAAACTAT
1 TGATAA-TTTAGTAGTAAATC-AT
**
11615496 AAATAATTTAGTAGTAAATCAT
1 TGATAATTTAGTAGTAAATCAT
* * *
11615518 TGATAATTTAATAGTTAATTAT
1 TGATAATTTAGTAGTAAATCAT
* * *
11615540 TGA-AACTTAGAAGTAAATCAA
1 TGATAATTTAGTAGTAAATCAT
* *
11615561 T-ATAGCTTAGTAGTAGTTAATCAT
1 TGATA-ATT--TAGTAGTAAATCAT
** * * *
11615585 CAATAACTTAATAGTAACTTC-T
1 TGATAATTTAGTAGTAA-ATCAT
* * * * *
11615607 AGATAATTTAAT-CTAAATTAA
1 TGATAATTTAGTAGTAAATCAT
* * * *
11615628 TGATAACTT-GATAATGAATTAT
1 TGATAATTTAG-TAGTAAATCAT
* *
11615650 GGTTAATTTAGTAGTAAAT--T
1 TGATAATTTAGTAGTAAATCAT
* * *
11615670 TGTAATGATTTGGTAGTAAATAAT
1 TG--ATAATTTAGTAGTAAATCAT
** * * * * *
11615694 CAACAACTAAATAGTAAATCAA
1 TGATAATTTAGTAGTAAATCAT
* * *
11615716 TGACAATATAATAGTAAATGCAT
1 TGATAATTTAGTAGTAAAT-CAT
* ** *
11615739 AG-TAACATAATAGTAAATCAT
1 TGATAATTTAGTAGTAAATCAT
* *
11615760 TAATAATTTA-TATGTAAATTAT
1 TGATAATTTAGTA-GTAAATCAT
* *
11615782 TGATAATTTAATAGTAAATCAG
1 TGATAATTTAGTAGTAAATCAT
* * *
11615804 TAATAACTCAGTAGTAAAT
1 TGATAATTTAGTAGTAAAT
11615823 TAGTTAAACA
Statistics
Matches: 306, Mismatches: 107, Indels: 50
0.66 0.23 0.11
Matches are distributed among these distances:
20 4 0.01
21 36 0.12
22 220 0.72
23 30 0.10
24 13 0.04
25 3 0.01
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.37
Consensus pattern (22 bp):
TGATAATTTAGTAGTAAATCAT
Found at i:11615821 original size:44 final size:44
Alignment explanation
Indices: 11615365--11616051 Score: 241
Period size: 44 Copynumber: 15.4 Consensus size: 44
11615355 AAAACAAATG
* * * * * *
11615365 ATAATTTAGTTGTTAATTATTGATAACTTT-ATAATAAATCAATA
1 ATAACTTAGTAGTAAATCATTGATAA-TTTAATAGTAAATCATTA
* * ** *
11615409 ATAACTTAATAGTAAATTAAAGATAATTGAATAGTAAATCAATT-
1 ATAACTTAGTAGTAAATCATTGATAATTTAATAGTAAATC-ATTA
* ** * * * * * *
11615453 CTAGTTTAGTAGTAATTAATTGATAACCTTAGTAG-AAAACTATAA
1 ATAACTTAGTAGTAAATCATTGATAA-TTTAATAGTAAATC-ATTA
* * * *
11615498 ATAATTTAGTAGTAAATCATTGATAATTTAATAGTTAATTATTG
1 ATAACTTAGTAGTAAATCATTGATAATTTAATAGTAAATCATTA
* * * * * *
11615542 A-AACTTAGAAGTAAATCAAT-ATAGCTTAGTAGTAGTTAATCATCA
1 ATAACTTAGTAGTAAATCATTGATA-ATT--TAATAGTAAATCATTA
* * * * * * *
11615587 ATAACTTAATAGTAACTTC-TAGATAATTTAAT-CTAAATTAATG
1 ATAACTTAGTAGTAA-ATCATTGATAATTTAATAGTAAATCATTA
* * * * * * *
11615630 ATAACTT-GATAATGAATTATGGTTAATTTAGTAGTAAAT-TTGTA
1 ATAACTTAG-TAGTAAATCATTGATAATTTAATAGTAAATCAT-TA
* * * * ** * * * * *
11615674 ATGATTTGGTAGTAAATAATCAACAACTAAATAGTAAATCAATG
1 ATAACTTAGTAGTAAATCATTGATAATTTAATAGTAAATCATTA
* * * **
11615718 ACAA-TATAATAGTAAATGCATAG-TAACATAATAGTAAATCATTA
1 ATAACT-TAGTAGTAAAT-CATTGATAATTTAATAGTAAATCATTA
* * *
11615762 ATAATTTA-TATGTAAATTATTGATAATTTAATAGTAAATCAGTA
1 ATAACTTAGTA-GTAAATCATTGATAATTTAATAGTAAATCATTA
* * * * *
11615806 ATAACTCAGTAGTAAATTAGTTAAACATTTATAGTTTTATAGTAAATCATTG
1 ATAACTTAGTAGT-AA--A--T---CATTGATAATTTAATAGTAAATCATTA
* * * * * *
11615858 ATAAATCAATAATAAATCAGTT-ATAATTTTATAATAAATC-TTCA
1 ATAACTTAGTAGTAAATCA-TTGATAATTTAATAGTAAATCATT-A
* * *
11615902 GTAACTTAGTAGTAAATCATTAATAATTTAATAGTAAATTATTA
1 ATAACTTAGTAGTAAATCATTGATAATTTAATAGTAAATCATTA
* * * * * * *
11615946 ATAACTTAGTAATAAATTATTTATAAATTAATAGTAAATTAATG
1 ATAACTTAGTAGTAAATCATTGATAATTTAATAGTAAATCATTA
* * * * * *
11615990 CTAATTTAGTTGTAAATCATTGATAATTTAATAATATATCATTG
1 ATAACTTAGTAGTAAATCATTGATAATTTAATAGTAAATCATTA
* *
11616034 ATAAGTTAGTGGTAAATC
1 ATAACTTAGTAGTAAATC
11616052 GCTTATTAGA
Statistics
Matches: 465, Mismatches: 143, Indels: 70
0.69 0.21 0.10
Matches are distributed among these distances:
42 4 0.01
43 56 0.12
44 294 0.63
45 56 0.12
46 13 0.03
47 7 0.02
49 2 0.00
51 2 0.00
52 31 0.07
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.39
Consensus pattern (44 bp):
ATAACTTAGTAGTAAATCATTGATAATTTAATAGTAAATCATTA
Found at i:11615873 original size:22 final size:22
Alignment explanation
Indices: 11615848--11616037 Score: 132
Period size: 22 Copynumber: 8.6 Consensus size: 22
11615838 AGTTTTATAG
* *
11615848 TAAATCATTGATAAATCAATAA
1 TAAATCATTGATAATTTAATAA
*
11615870 TAAATCAGTT-ATAATTTTATAA
1 TAAATCA-TTGATAATTTAATAA
* * * *
11615892 TAAATC-TTCAGTAACTTAGTAG
1 TAAATCATTGA-TAATTTAATAA
* *
11615914 TAAATCATTAATAATTTAATAG
1 TAAATCATTGATAATTTAATAA
* * * *
11615936 TAAATTATTAATAACTTAGTAA
1 TAAATCATTGATAATTTAATAA
* * * *
11615958 TAAATTATTTATAAATTAATAG
1 TAAATCATTGATAATTTAATAA
* * * * **
11615980 TAAATTAATGCTAATTTAGTTG
1 TAAATCATTGATAATTTAATAA
11616002 TAAATCATTGATAATTTAATAA
1 TAAATCATTGATAATTTAATAA
*
11616024 TATATCATTGATAA
1 TAAATCATTGATAA
11616038 GTTAGTGGTA
Statistics
Matches: 133, Mismatches: 31, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
20 2 0.02
21 1 0.01
22 125 0.94
23 5 0.04
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.41
Consensus pattern (22 bp):
TAAATCATTGATAATTTAATAA
Found at i:11615960 original size:11 final size:11
Alignment explanation
Indices: 11615907--11615986 Score: 52
Period size: 11 Copynumber: 7.3 Consensus size: 11
11615897 CTTCAGTAAC
*
11615907 TTAGTAGTAAA
1 TTAGTAATAAA
* * *
11615918 TCATTAATAAT
1 TTAGTAATAAA
* *
11615929 TTAATAGTAAA
1 TTAGTAATAAA
* *
11615940 TTATTAATAAC
1 TTAGTAATAAA
11615951 TTAGTAATAAA
1 TTAGTAATAAA
* *
11615962 TTATTTATAAA
1 TTAGTAATAAA
* *
11615973 TTAATAGTAAA
1 TTAGTAATAAA
11615984 TTA
1 TTA
11615987 ATGCTAATTT
Statistics
Matches: 51, Mismatches: 18, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
11 51 1.00
ACGTcount: A:0.49, C:0.03, G:0.06, T:0.42
Consensus pattern (11 bp):
TTAGTAATAAA
Found at i:11616439 original size:27 final size:27
Alignment explanation
Indices: 11616397--11616448 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
11616387 TGAAATTTTC
* * *
11616397 TAAAATTTTATCAAAAGTTATCAAAAT
1 TAAAATTATATAAAAAATTATCAAAAT
11616424 TAAAATTATATAAAAAATTATCAAA
1 TAAAATTATATAAAAAATTATCAAA
11616449 TTTTACTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.35
Consensus pattern (27 bp):
TAAAATTATATAAAAAATTATCAAAAT
Found at i:11632661 original size:42 final size:42
Alignment explanation
Indices: 11632596--11632682 Score: 106
Period size: 42 Copynumber: 2.1 Consensus size: 42
11632586 GATGAAATGG
*
11632596 GCTGTTGTTACAATGATGAAAGCTGGAACAG-AAAGGAATGAA
1 GCTGCTGTTACAATGATGAAAGCTGGAACAGCAAA-GAATGAA
* * *
11632638 GCTGCTGTTACAGTGAT-AGAAGCTGGCATAGCAAAGAATGAA
1 GCTGCTGTTACAATGATGA-AAGCTGGAACAGCAAAGAATGAA
11632680 GCT
1 GCT
11632683 CAAGGGCTGG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
41 1 0.03
42 35 0.90
43 3 0.08
ACGTcount: A:0.37, C:0.13, G:0.29, T:0.22
Consensus pattern (42 bp):
GCTGCTGTTACAATGATGAAAGCTGGAACAGCAAAGAATGAA
Found at i:11633799 original size:10 final size:10
Alignment explanation
Indices: 11633780--11633853 Score: 51
Period size: 10 Copynumber: 7.1 Consensus size: 10
11633770 TTATAAATTA
11633780 TAAATTTAAT
1 TAAATTTAAT
*
11633790 TAATTTTAAT
1 TAAATTTAAT
11633800 TAAATTT-AT
1 TAAATTTAAT
* *
11633809 GAATTATTTGAGTT
1 TAA--ATTT-A-AT
11633823 TAAATTTAAT
1 TAAATTTAAT
* *
11633833 TTAATTTTAT
1 TAAATTTAAT
*
11633843 TAAATATAAT
1 TAAATTTAAT
11633853 T
1 T
11633854 TAAAATTAAA
Statistics
Matches: 48, Mismatches: 11, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
9 4 0.08
10 32 0.67
11 5 0.10
12 4 0.08
14 3 0.06
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (10 bp):
TAAATTTAAT
Found at i:11633813 original size:23 final size:21
Alignment explanation
Indices: 11633780--11633856 Score: 61
Period size: 20 Copynumber: 3.7 Consensus size: 21
11633770 TTATAAATTA
11633780 TAAATTT-AATTAATTTTAAT
1 TAAATTTAAATTAATTTTAAT
* *
11633800 TAAATTTATGAATT-ATTTGAGTT
1 TAAATTTA--AATTAATTTTA-AT
*
11633823 TAAATTTAATTTAATTTT-AT
1 TAAATTTAAATTAATTTTAAT
* *
11633843 TAAATATAATTTAA
1 TAAATTTAAATTAA
11633857 AATTAAATTA
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
20 21 0.46
21 3 0.07
22 9 0.20
23 13 0.28
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (21 bp):
TAAATTTAAATTAATTTTAAT
Found at i:11633919 original size:26 final size:29
Alignment explanation
Indices: 11633878--11633939 Score: 78
Period size: 26 Copynumber: 2.3 Consensus size: 29
11633868 TATTTCACAT
*
11633878 AAAA-AAATAAATTTTAT-C-TAATA-AA
1 AAAATAAATAAACTTTATCCATAATATAA
*
11633903 AAAATAAATAAACTTTATCCATATTATAA
1 AAAATAAATAAACTTTATCCATAATATAA
11633932 AAAATAAA
1 AAAATAAA
11633940 ACAAGTAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 4 0.13
26 12 0.39
27 1 0.03
28 4 0.13
29 10 0.32
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (29 bp):
AAAATAAATAAACTTTATCCATAATATAA
Found at i:11635103 original size:14 final size:14
Alignment explanation
Indices: 11635084--11635111 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
11635074 AAGGGTCCAA
11635084 TTGAAAACTTCAAT
1 TTGAAAACTTCAAT
11635098 TTGAAAACTTCAAT
1 TTGAAAACTTCAAT
11635112 ATGATACTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (14 bp):
TTGAAAACTTCAAT
Found at i:11635976 original size:17 final size:17
Alignment explanation
Indices: 11635954--11636008 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
11635944 TATTTTTTAA
11635954 TTTAATAGATATAAAAT
1 TTTAATAGATATAAAAT
* *
11635971 TTTAATAAATTATATAA-
1 TTTAATAGA-TATAAAAT
*
11635988 TTT-ATAGGATATAAATT
1 TTTAATA-GATATAAAAT
11636005 TTTA
1 TTTA
11636009 TTAAATTATA
Statistics
Matches: 29, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
16 8 0.28
17 15 0.52
18 6 0.21
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (17 bp):
TTTAATAGATATAAAAT
Found at i:11635989 original size:18 final size:17
Alignment explanation
Indices: 11635954--11636038 Score: 52
Period size: 18 Copynumber: 4.9 Consensus size: 17
11635944 TATTTTTTAA
* *
11635954 TTTAATAGATATAAAAT
1 TTTAATAAATATATAAT
11635971 TTTAATAAATTATATAA-
1 TTTAATAAA-TATATAAT
*
11635988 TTT-ATAGGATATA-AATT
1 TTTAATA-AATATATAA-T
*
11636005 TTTATTAAATTATATAATT
1 TTTAATAAA-TATATAA-T
11636024 TTTCAA-AAATATATA
1 TTT-AATAAATATATA
11636039 TGGTTAGAAT
Statistics
Matches: 54, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
15 2 0.04
16 7 0.13
17 16 0.30
18 18 0.33
19 10 0.19
20 1 0.02
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (17 bp):
TTTAATAAATATATAAT
Found at i:11635999 original size:34 final size:34
Alignment explanation
Indices: 11635951--11636024 Score: 114
Period size: 34 Copynumber: 2.2 Consensus size: 34
11635941 AGATATTTTT
11635951 TAATTTAATAGATATAAAATTTTAATAAATTATA
1 TAATTTAATAGATATAAAATTTTAATAAATTATA
* *
11635985 TAATTT-ATAGGATATAAATTTTTATTAAATTATA
1 TAATTTAATA-GATATAAAATTTTAATAAATTATA
11636019 TAATTT
1 TAATTT
11636025 TTCAAAAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
33 3 0.08
34 34 0.92
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (34 bp):
TAATTTAATAGATATAAAATTTTAATAAATTATA
Found at i:11636154 original size:2 final size:2
Alignment explanation
Indices: 11636149--11636175 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11636139 AAATCGGTAC
11636149 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
11636176 AAGGCATGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11641603 original size:29 final size:29
Alignment explanation
Indices: 11641542--11641604 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
11641532 TTAGGGTATA
* *
11641542 ATAAA-ATATTTAATGTAATATTTAAATT
1 ATAAATATATTTAATGTAATAGTTAAACT
* *
11641570 TTAAATATTTTTAATGTAATAGTTAAACT
1 ATAAATATATTTAATGTAATAGTTAAACT
11641599 ATAAAT
1 ATAAAT
11641605 TGATTAATTA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 4 0.14
29 25 0.86
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.46
Consensus pattern (29 bp):
ATAAATATATTTAATGTAATAGTTAAACT
Found at i:11644250 original size:2 final size:2
Alignment explanation
Indices: 11644243--11644314 Score: 50
Period size: 2 Copynumber: 38.5 Consensus size: 2
11644233 TTTGCTAATC
* * *
11644243 AT AT AT AT -T AT AT AT AT AT AC AT A- AT TT GCT A- AT CAT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT -AT AT AT
11644284 AT AT AT AT AT AT A- AT AT -T AT AT -T AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11644315 CATAGTTATC
Statistics
Matches: 56, Mismatches: 5, Indels: 18
0.71 0.06 0.23
Matches are distributed among these distances:
1 7 0.12
2 46 0.82
3 3 0.05
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.47
Consensus pattern (2 bp):
AT
Found at i:11644264 original size:35 final size:34
Alignment explanation
Indices: 11644217--11644296 Score: 137
Period size: 35 Copynumber: 2.4 Consensus size: 34
11644207 TGAAATTACC
11644217 ATATAT-TA-ATACATAATTTGCTAATCATATAT
1 ATATATATATATACATAATTTGCTAATCATATAT
11644249 ATTATATATATATACATAATTTGCTAATCATATAT
1 A-TATATATATATACATAATTTGCTAATCATATAT
11644284 ATATATATATATA
1 ATATATATATATA
11644297 ATATTATATT
Statistics
Matches: 45, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
32 1 0.02
33 5 0.11
34 14 0.31
35 25 0.56
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (34 bp):
ATATATATATATACATAATTTGCTAATCATATAT
Found at i:11644314 original size:30 final size:31
Alignment explanation
Indices: 11644217--11644314 Score: 80
Period size: 30 Copynumber: 3.2 Consensus size: 31
11644207 TGAAATTACC
*
11644217 ATATAT-TA-ATACATAATTTGCTAATCATATA
1 ATATATATATATACATAATTTGATAAT--TATA
* *
11644248 TATTATATATATATACATAATTTGCTAATCAT-
1 -A-TATATATATATACATAATTTGATAATTATA
*
11644280 ATATATATATATATATAATATT-AT-ATTATA
1 ATATATATATATACATAAT-TTGATAATTATA
11644310 ATATA
1 ATATA
11644315 CATAGTTATC
Statistics
Matches: 57, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
29 4 0.07
30 23 0.40
31 3 0.05
32 1 0.02
33 7 0.12
34 2 0.04
35 17 0.30
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (31 bp):
ATATATATATATACATAATTTGATAATTATA
Done.