Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 52 of 235
Found at i:17360673 original size:46 final size:46
Alignment explanation
Indices: 17360498--17360673 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
17360488 TGTAACCCGC
* * *
17360498 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
17360544 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
17360594 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
17360637 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
17360674 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:17366396 original size:21 final size:21
Alignment explanation
Indices: 17366372--17366413 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
17366362 TCATCAGATC
*
17366372 TACACCTTGAGGCATCGGGGG
1 TACACCTTGAGGAATCGGGGG
**
17366393 TACAGGTTGAGGAATCGGGGG
1 TACACCTTGAGGAATCGGGGG
17366414 AGGTGGGGGA
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:0.21, C:0.17, G:0.43, T:0.19
Consensus pattern (21 bp):
TACACCTTGAGGAATCGGGGG
Found at i:17374277 original size:47 final size:46
Alignment explanation
Indices: 17374070--17374376 Score: 225
Period size: 47 Copynumber: 6.5 Consensus size: 46
17374060 TTGCCGATTC
* *
17374070 CATGTCCCAGACATGGTCTTACACTTGCTATCATCATCGAGGCCAATG
1 CATGTCCCAGACAT-GTCTTACACTGGC-ATCATCATCGAGGCCGATG
* * * * **
17374118 CCATGTCCGAGACATGGTCTTACACTAGCTCTCGTAT-ATACG-TGATGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGC-ATC--ATCAT-CGAGGCCGATG
* * ** * *
17374168 CATGTCCCAAACATGTCTTACACTAGCA-CAATTTTC-A-GCCAATA
1 CATGTCCCAGACATGTCTTACACTGGCATC-ATCATCGAGGCCGATG
* * **
17374212 CATGTCCC-GAACAAGTCTTACACTGGCTATCATCGTCGAGGTTGATG
1 CATGTCCCAG-ACATGTCTTACACTGGC-ATCATCATCGAGGCCGATG
* *
17374259 CATGTCCCAGACATGTCTTACACTGGCACTCATC-TCTACGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCA-TCATCATCGAGGCCGATG
* *
17374305 CCATGTCCCAGACATGGTCTTACACTGGCACTCATAAT-GTGGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCA-TCATCATCGAGGCCGATG
17374353 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
17374377 AGCACACAAG
Statistics
Matches: 209, Mismatches: 34, Indels: 33
0.76 0.12 0.12
Matches are distributed among these distances:
44 26 0.12
45 8 0.04
46 23 0.11
47 60 0.29
48 40 0.19
49 42 0.20
50 6 0.03
51 4 0.02
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCATCATCATCGAGGCCGATG
Found at i:17374358 original size:94 final size:94
Alignment explanation
Indices: 17374070--17374381 Score: 291
Period size: 94 Copynumber: 3.3 Consensus size: 94
17374060 TTGCCGATTC
* * * *
17374070 CATGTCCCAGACATGGTCTTACACTTGCTA-TCATCATCGAGGCCAATGCCATGTCCGAGACATG
1 CATGTCCCAGACAT-GTCTTACACTAGC-ACTCATC-TCTACGCCAATGCCATGTCCCAGACATG
* * *
17374134 GTCTTACACTAGCTCTCGTATATACGT-GATGATG
63 GTCTTACACTGGCACTC--ATA-ATGTGGATGATG
* * * * *
17374168 CATGTCCCAAACATGTCTTACACTAGCAC-AAT-T-TTCAGCCAAT-ACATGTCCC-GAACA-AG
1 CATGTCCCAGACATGTCTTACACTAGCACTCATCTCTAC-GCCAATGCCATGTCCCAG-ACATGG
** * *
17374227 TCTTACACTGGCTA-TCATCGTCGAGGTTGATG
64 TCTTACACTGGC-ACTCATAAT-GTGGATGATG
* *
17374259 CATGTCCCAGACATGTCTTACACTGGCACTCATCTCTACGCCGATGCCATGTCCCAGACATGGTC
1 CATGTCCCAGACATGTCTTACACTAGCACTCATCTCTACGCCAATGCCATGTCCCAGACATGGTC
**
17374324 TTACACTGGCACTCATAATGTGGCCGATG
66 TTACACTGGCACTCATAATGTGGATGATG
17374353 CATGTCCCAGACATGTCTTACACTAGCAC
1 CATGTCCCAGACATGTCTTACACTAGCAC
17374382 ACAAGTAATC
Statistics
Matches: 172, Mismatches: 29, Indels: 30
0.74 0.13 0.13
Matches are distributed among these distances:
90 3 0.02
91 33 0.19
92 17 0.10
93 16 0.09
94 56 0.33
95 19 0.11
96 3 0.02
97 12 0.07
98 13 0.08
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (94 bp):
CATGTCCCAGACATGTCTTACACTAGCACTCATCTCTACGCCAATGCCATGTCCCAGACATGGTC
TTACACTGGCACTCATAATGTGGATGATG
Found at i:17375115 original size:12 final size:12
Alignment explanation
Indices: 17375098--17375122 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17375088 CAAAAATGTA
17375098 AAAATCATCAAG
1 AAAATCATCAAG
17375110 AAAATCATCAAG
1 AAAATCATCAAG
17375122 A
1 A
17375123 TCACTTACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATCATCAAG
Found at i:17378470 original size:48 final size:48
Alignment explanation
Indices: 17378349--17378522 Score: 233
Period size: 48 Copynumber: 3.5 Consensus size: 48
17378339 TAAGGTCGCA
* * * * *
17378349 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCA-G
17378400 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCAG
17378448 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTC-G
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCAG
* *
17378495 CATGTGTAGTACTATGTGCACGCTACTA
1 --TGTGTAGTACTAAGTGCAGGCTACTA
17378523 TGCATATCAG
Statistics
Matches: 114, Mismatches: 7, Indels: 6
0.90 0.06 0.05
Matches are distributed among these distances:
47 1 0.01
48 47 0.41
49 29 0.25
50 1 0.01
51 36 0.32
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (48 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCAG
Found at i:17383096 original size:8 final size:9
Alignment explanation
Indices: 17383074--17383103 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
17383064 ACTGAGGAAT
17383074 TGGGGGAGG
1 TGGGGGAGG
17383083 TGGGGGAGG
1 TGGGGGAGG
17383092 TGGGGGAGG
1 TGGGGGAGG
17383101 TGG
1 TGG
17383104 AGTGTTCAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.10, C:0.00, G:0.77, T:0.13
Consensus pattern (9 bp):
TGGGGGAGG
Found at i:17385967 original size:3 final size:3
Alignment explanation
Indices: 17385959--17385984 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
17385949 TTATAACCTC
17385959 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
17385985 TTCCCCAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:17387508 original size:44 final size:43
Alignment explanation
Indices: 17387428--17387524 Score: 126
Period size: 44 Copynumber: 2.3 Consensus size: 43
17387418 TCCCAGACAG
* *
17387428 GGTCTTACAC-TAAATCAAGTATGATGCCAACATCCCAAAGGT
1 GGTCTTACACGTAAATCAAGTACGATGCCAACATCCCAAACGT
* *
17387470 GGTCTTACACGTAAATCATAAGT-CGATGCCAACGTCCCAGACGT
1 GGTCTTACACGTAAATC--AAGTACGATGCCAACATCCCAAACGT
17387514 GGTCTTACACG
1 GGTCTTACACG
17387525 ATAACACATA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
42 10 0.21
43 6 0.12
44 28 0.58
45 4 0.08
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.24
Consensus pattern (43 bp):
GGTCTTACACGTAAATCAAGTACGATGCCAACATCCCAAACGT
Found at i:17389100 original size:27 final size:27
Alignment explanation
Indices: 17389070--17389156 Score: 108
Period size: 27 Copynumber: 3.2 Consensus size: 27
17389060 GTGACGAAGT
17389070 CACCAGATACAAATATTGTGGCAGAGC
1 CACCAGATACAAATATTGTGGCAGAGC
*
17389097 CACCA-AAACAGATATATT-TGGCAGAGC
1 CACCAGATACA-A-ATATTGTGGCAGAGC
*
17389124 CACCAGAT-CAAATAATTGTGGCATAGC
1 CACCAGATACAAAT-ATTGTGGCAGAGC
17389151 CACCAG
1 CACCAG
17389157 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
25 2 0.04
26 8 0.15
27 36 0.69
28 6 0.12
ACGTcount: A:0.38, C:0.24, G:0.20, T:0.18
Consensus pattern (27 bp):
CACCAGATACAAATATTGTGGCAGAGC
Found at i:17393606 original size:27 final size:27
Alignment explanation
Indices: 17393576--17393662 Score: 108
Period size: 27 Copynumber: 3.2 Consensus size: 27
17393566 GTGACGAAGT
17393576 CACCAGATACAAATATTGTGGCAGAGC
1 CACCAGATACAAATATTGTGGCAGAGC
*
17393603 CACCA-AAACAGATATATT-TGGCAGAGC
1 CACCAGATACA-A-ATATTGTGGCAGAGC
*
17393630 CACCAGAT-CAAATAATTGTGGCATAGC
1 CACCAGATACAAAT-ATTGTGGCAGAGC
17393657 CACCAG
1 CACCAG
17393663 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
25 2 0.04
26 8 0.15
27 36 0.69
28 6 0.12
ACGTcount: A:0.38, C:0.24, G:0.20, T:0.18
Consensus pattern (27 bp):
CACCAGATACAAATATTGTGGCAGAGC
Found at i:17394201 original size:118 final size:118
Alignment explanation
Indices: 17394056--17394292 Score: 458
Period size: 118 Copynumber: 2.0 Consensus size: 118
17394046 AAATACCGGC
17394056 TTTTCGGCATTTTGGCTTTTCGACTTGTGCCGATCTAGTCTATAAGAGGGTGTTAGTTACACACC
1 TTTTCGGCATTTTGGCTTTTCGACTTGTGCCGATCTAGTCTATAAGAGGGTGTTAGTTACACACC
17394121 TGTTTGCGACGATATGCTGACGAGATCCACACACGAACCGCCTACAATTGGAT
66 TGTTTGCGACGATATGCTGACGAGATCCACACACGAACCGCCTACAATTGGAT
17394174 TTTTCGGCATTTTGGCTTTTC-AGCTTGTGCCGATCTAGTCTATAAGAGGGTGTTAGTTACACAC
1 TTTTCGGCATTTTGGCTTTTCGA-CTTGTGCCGATCTAGTCTATAAGAGGGTGTTAGTTACACAC
17394238 CTGTTTGCGACGATATGCTGACGAGATCCACACACGAACCGCCTACAATTGGAT
65 CTGTTTGCGACGATATGCTGACGAGATCCACACACGAACCGCCTACAATTGGAT
17394292 T
1 T
17394293 ACTAACACGT
Statistics
Matches: 118, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
117 1 0.01
118 117 0.99
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.32
Consensus pattern (118 bp):
TTTTCGGCATTTTGGCTTTTCGACTTGTGCCGATCTAGTCTATAAGAGGGTGTTAGTTACACACC
TGTTTGCGACGATATGCTGACGAGATCCACACACGAACCGCCTACAATTGGAT
Found at i:17398516 original size:21 final size:22
Alignment explanation
Indices: 17398468--17398526 Score: 63
Period size: 21 Copynumber: 2.8 Consensus size: 22
17398458 ATTAATAAAG
17398468 TAGATTATATATTAT--TTTTA
1 TAGATTATATATTATAATTTTA
*
17398488 TAGTATTATATATTATAATTTTT
1 TAG-ATTATATATTATAATTTTA
*
17398511 TA-ATTA-ATATAATAAT
1 TAGATTATATATTATAAT
17398527 AATTATATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 12 0.35
21 16 0.47
23 6 0.18
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (22 bp):
TAGATTATATATTATAATTTTA
Found at i:17398558 original size:58 final size:57
Alignment explanation
Indices: 17398492--17398656 Score: 190
Period size: 58 Copynumber: 2.9 Consensus size: 57
17398482 TTTTTATAGT
* * *
17398492 ATTATATATTATAATTT-TTTAATTA-ATATAATAATAATTATATTAAGAATTTTATTAA
1 ATTATATATTAT--TTTATTAAATTATATATAATAATAATTATATTAA-AATATGATTAA
* *
17398550 ATTATATATTATTTTATTAAATTATATTTAATAATAATTATGTTAAAATATGATTAA
1 ATTATATATTATTTTATTAAATTATATATAATAATAATTATATTAAAATATGATTAA
* * * **
17398607 ATTATTTATTATTTTTATTAAATTATTTTTAATAATAATCCTATTAAAAT
1 ATTATATATTA-TTTTATTAAATTATATATAATAATAATTATATTAAAAT
17398657 TTAATAACAA
Statistics
Matches: 94, Mismatches: 10, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
56 3 0.03
57 26 0.28
58 65 0.69
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (57 bp):
ATTATATATTATTTTATTAAATTATATATAATAATAATTATATTAAAATATGATTAA
Found at i:17399750 original size:7 final size:8
Alignment explanation
Indices: 17399733--17399759 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
17399723 AAAAGGTGCA
17399733 TTTTTATT
1 TTTTTATT
17399741 TTTTTATT
1 TTTTTATT
17399749 TTTTTATT
1 TTTTTATT
17399757 TTT
1 TTT
17399760 CAAGTGTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTTATT
Found at i:17402482 original size:20 final size:21
Alignment explanation
Indices: 17402449--17402491 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
17402439 GTATCTTCAG
*
17402449 CTTGATTTAGAA-TTAAGATTA
1 CTTGATTTAAAATTTAA-ATTA
17402470 CTTG-TTTAAAATTTAAATTA
1 CTTGATTTAAAATTTAAATTA
17402490 CT
1 CT
17402492 CTTTAAATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.37, C:0.07, G:0.09, T:0.47
Consensus pattern (21 bp):
CTTGATTTAAAATTTAAATTA
Found at i:17404513 original size:20 final size:20
Alignment explanation
Indices: 17404485--17404527 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
17404475 ACATATATTT
* *
17404485 GATGTGATATCTGTTAAGTA
1 GATGCGATATCTGTTAAATA
17404505 GATGCGATATCTGTTAAATA
1 GATGCGATATCTGTTAAATA
17404525 GAT
1 GAT
17404528 ATGTTCTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.37
Consensus pattern (20 bp):
GATGCGATATCTGTTAAATA
Found at i:17404662 original size:2 final size:2
Alignment explanation
Indices: 17404655--17404692 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
17404645 GTGGCTAAGC
17404655 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
17404693 TATATACATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:17408226 original size:45 final size:45
Alignment explanation
Indices: 17408176--17408263 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
17408166 AAACATGTGC
* *
17408176 CACATACATCATGAACTCAGACCACAACTCAATGAGTTTAGATGT
1 CACATACATCAAGAACTCAGACCACAACTCAATGAGTTCAGATGT
*
17408221 CACATATATCAAGAACTCAGACCACAACTCAATGAGTTCAGAT
1 CACATACATCAAGAACTCAGACCACAACTCAATGAGTTCAGAT
17408264 CACATGGTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.40, C:0.25, G:0.12, T:0.23
Consensus pattern (45 bp):
CACATACATCAAGAACTCAGACCACAACTCAATGAGTTCAGATGT
Found at i:17408261 original size:21 final size:21
Alignment explanation
Indices: 17408192--17408267 Score: 55
Period size: 21 Copynumber: 3.5 Consensus size: 21
17408182 CATCATGAAC
17408192 TCAGACCACAACTCAATGAGT
1 TCAGACCACAACTCAATGAGT
* * * **
17408213 TTAGATGTCACATATATCAA-GAAC
1 TCAGA--CCACA-A-CTCAATGAGT
17408237 TCAGACCACAACTCAATGAGT
1 TCAGACCACAACTCAATGAGT
*
17408258 TCAGATCACA
1 TCAGACCACA
17408268 TGGTTTCTAG
Statistics
Matches: 39, Mismatches: 11, Indels: 10
0.65 0.18 0.17
Matches are distributed among these distances:
20 4 0.10
21 16 0.41
22 4 0.10
23 4 0.10
24 7 0.18
25 4 0.10
ACGTcount: A:0.39, C:0.25, G:0.13, T:0.22
Consensus pattern (21 bp):
TCAGACCACAACTCAATGAGT
Found at i:17413345 original size:14 final size:15
Alignment explanation
Indices: 17413326--17413358 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
17413316 ATATTTAACT
17413326 TGTTCTTAA-TTATG
1 TGTTCTTAACTTATG
*
17413340 TGTTCTTAACTTTTG
1 TGTTCTTAACTTATG
17413355 TGTT
1 TGTT
17413359 GGTATCCCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.15, C:0.09, G:0.15, T:0.61
Consensus pattern (15 bp):
TGTTCTTAACTTATG
Found at i:17425904 original size:43 final size:43
Alignment explanation
Indices: 17425744--17425914 Score: 134
Period size: 43 Copynumber: 4.0 Consensus size: 43
17425734 ATAGGATTTT
* * * * *
17425744 GATATGTGATTTCATGTAAAACCATGTCTGGGATGTTGGCATC
1 GATATTTGATTACATGTAAGACCACGTCTGGGACGTTGGCATC
* * * * ** *
17425787 GAT-TTGAGATTTACGTGTAAGACCATGTCTGGGACATCCGCACC
1 GATATT-TGA-TTACATGTAAGACCACGTCTGGGACGTTGGCATC
*** *
17425831 G-TATTTGATTTTGTGTAAGACTCTAC--CTGGGACGGTGGCATC
1 GATATTTGATTACATGTAAGAC-C-ACGTCTGGGACGTTGGCATC
17425873 GATATTTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 GATATTTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
17425915 TGTACGGGTT
Statistics
Matches: 97, Mismatches: 23, Indels: 16
0.71 0.17 0.12
Matches are distributed among these distances:
41 2 0.02
42 25 0.26
43 40 0.41
44 30 0.31
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (43 bp):
GATATTTGATTACATGTAAGACCACGTCTGGGACGTTGGCATC
Found at i:17426128 original size:42 final size:43
Alignment explanation
Indices: 17426075--17426163 Score: 162
Period size: 42 Copynumber: 2.1 Consensus size: 43
17426065 AGAAAATATG
17426075 CTATATGTGCAAATGAATTGGGAATATGGGAAATGTATATGAA
1 CTATATGTGCAAATGAATTGGGAATATGGGAAATGTATATGAA
*
17426118 CTATA-GTGCAAATGAATTGGGAATATGTGAAATGTATATGAA
1 CTATATGTGCAAATGAATTGGGAATATGGGAAATGTATATGAA
17426160 CTAT
1 CTAT
17426164 GTGATTTGTG
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
42 40 0.89
43 5 0.11
ACGTcount: A:0.39, C:0.06, G:0.24, T:0.31
Consensus pattern (43 bp):
CTATATGTGCAAATGAATTGGGAATATGGGAAATGTATATGAA
Found at i:17426164 original size:20 final size:20
Alignment explanation
Indices: 17426099--17426167 Score: 70
Period size: 20 Copynumber: 3.4 Consensus size: 20
17426089 GAATTGGGAA
*
17426099 TATGGGAAATGTATATGAAC
1 TATGTGAAATGTATATGAAC
*
17426119 TATAGTGCAAATGAAT-TGGGAA-
1 TAT-GTG-AAATGTATAT--GAAC
17426141 TATGTGAAATGTATATGAAC
1 TATGTGAAATGTATATGAAC
17426161 TATGTGA
1 TATGTGA
17426168 TTTGTGATAG
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
19 3 0.08
20 17 0.43
21 7 0.17
22 10 0.25
23 3 0.08
ACGTcount: A:0.39, C:0.04, G:0.25, T:0.32
Consensus pattern (20 bp):
TATGTGAAATGTATATGAAC
Found at i:17430522 original size:35 final size:35
Alignment explanation
Indices: 17430483--17430603 Score: 145
Period size: 35 Copynumber: 3.5 Consensus size: 35
17430473 TAGGTATGTA
*
17430483 CATATGTGATGTTATATCTAACTTGTATATTTGGC
1 CATATGTGATGATATATCTAACTTGTATATTTGGC
* * *
17430518 CATATGTGATGATGTAT-TGAATTTGTAAATTTGGC
1 CATATGTGATGATATATCT-AACTTGTATATTTGGC
* * * * *
17430553 TACATGTGATGTTCTATCTAACTTGTATATTCGGC
1 CATATGTGATGATATATCTAACTTGTATATTTGGC
17430588 CATATGTGATGATATA
1 CATATGTGATGATATA
17430604 ATGAACCTTA
Statistics
Matches: 69, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
34 1 0.01
35 67 0.97
36 1 0.01
ACGTcount: A:0.27, C:0.11, G:0.19, T:0.43
Consensus pattern (35 bp):
CATATGTGATGATATATCTAACTTGTATATTTGGC
Found at i:17430685 original size:50 final size:50
Alignment explanation
Indices: 17430590--17430691 Score: 114
Period size: 50 Copynumber: 2.0 Consensus size: 50
17430580 TATTCGGCCA
* * * *
17430590 TATGTGATGATATAATGAACCTTATGTATTCAGCCATACATGTAAGTCTT
1 TATGAGATGATATAATGAACCTTATATATTCAGCCATACAGGTAAGTATT
* * * ** *
17430640 TATGAGATGATATATTGGACCTTGTATATTCAGTTATATAGGTAAGTATT
1 TATGAGATGATATAATGAACCTTATATATTCAGCCATACAGGTAAGTATT
17430690 TA
1 TA
17430692 CATGGTGTTA
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (50 bp):
TATGAGATGATATAATGAACCTTATATATTCAGCCATACAGGTAAGTATT
Found at i:17431892 original size:20 final size:18
Alignment explanation
Indices: 17431862--17431904 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
17431852 TTTGTAAAGT
*
17431862 TTGTAAAATAAGTTGTAAA
1 TTGTGAAATAA-TTGTAAA
17431881 TGTGTGAAATAATTG-AAA
1 T-TGTGAAATAATTGTAAA
17431899 TTGTGA
1 TTGTGA
17431905 GTTGTTATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 5 0.23
18 4 0.18
19 4 0.18
20 9 0.41
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.37
Consensus pattern (18 bp):
TTGTGAAATAATTGTAAA
Found at i:17436026 original size:48 final size:48
Alignment explanation
Indices: 17435955--17436068 Score: 165
Period size: 48 Copynumber: 2.4 Consensus size: 48
17435945 GGTGTTACAA
* * *
17435955 TAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAAGCCAGTG
1 TAAGACATGTCTGAGACAAGCATCGGCCTCGAGATACACAAGCCAGTG
* *
17436003 TAAGACATGTTTGAGACAAGCATCGGCCTCGAGATACACAAGCTAGTG
1 TAAGACATGTCTGAGACAAGCATCGGCCTCGAGATACACAAGCCAGTG
* *
17436051 TAAGACCTGTCTGGGACA
1 TAAGACATGTCTGAGACA
17436069 TGACGTCAGC
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 58 1.00
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.21
Consensus pattern (48 bp):
TAAGACATGTCTGAGACAAGCATCGGCCTCGAGATACACAAGCCAGTG
Found at i:17436267 original size:97 final size:97
Alignment explanation
Indices: 17436088--17436267 Score: 211
Period size: 97 Copynumber: 1.9 Consensus size: 97
17436078 CTTGTTGTGT
* * * *
17436088 GTCAGTGTAAGACCTATCTGGGACATGGCATTGACACTGATAGATGAGAGCCAGTGTAAGACTTG
1 GTCAGTGTAAGACCTATCTAGGACATGGCATCGACACTGATAGATGAGAGCCAGCGTAAGACATG
**
17436153 TCTGGGACAGGTGTCGGCCTCGAGATATGAAA
66 TCTGGGACAGGCATCGGCCTCGAGATATGAAA
* ** ** * *
17436185 GTCAGTGTAAGACCTGTCTAGGACATGGCATCGACTTTGAT-G-TGCTAGCTAGCGTAAGCCCAT
1 GTCAGTGTAAGACCTATCTAGGACATGGCATCGACACTGATAGATGAGAGCCAGCGTAAG-ACAT
17436248 GTCTGGGACATGGCATCGGC
65 GTCTGGGACA-GGCATCGGC
17436268 ATTGTATCCC
Statistics
Matches: 68, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
95 12 0.18
96 13 0.19
97 43 0.63
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.24
Consensus pattern (97 bp):
GTCAGTGTAAGACCTATCTAGGACATGGCATCGACACTGATAGATGAGAGCCAGCGTAAGACATG
TCTGGGACAGGCATCGGCCTCGAGATATGAAA
Found at i:17462631 original size:18 final size:18
Alignment explanation
Indices: 17462608--17462647 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
17462598 GGCAATTTTT
17462608 GGGCGTCGTGGG-CCACAC
1 GGGCGT-GTGGGACCACAC
*
17462626 GGGCGTGTGGGACCACAT
1 GGGCGTGTGGGACCACAC
17462644 GGGC
1 GGGC
17462648 CCGTATTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.12, C:0.28, G:0.47, T:0.12
Consensus pattern (18 bp):
GGGCGTGTGGGACCACAC
Found at i:17462789 original size:27 final size:27
Alignment explanation
Indices: 17462751--17462875 Score: 178
Period size: 27 Copynumber: 4.6 Consensus size: 27
17462741 ACGTGCCTGA
* *
17462751 ACCCTCATGTGATAAAATGACAATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
* *
17462778 ACTCTTATGTGATAAAATGATGATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
* *
17462805 GCCCTTATGTGATAAAATAACGATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
17462832 ACCCTTATGTGATAAAATGACGATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
* *
17462859 TCCCTCATGTGATAAAA
1 ACCCTTATGTGATAAAA
17462876 GGATCGAAAT
Statistics
Matches: 86, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 86 1.00
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (27 bp):
ACCCTTATGTGATAAAATGACGATTTT
Found at i:17462907 original size:27 final size:27
Alignment explanation
Indices: 17462871--17462943 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
17462861 CCTCATGTGA
*
17462871 TAAAAGGATCGAAATACCTCC-ATAGGG
1 TAAAATGATCGAAATACC-CCTATAGGG
* * *
17462898 TAGAATGATCAAAATACCCCTGTAGGG
1 TAAAATGATCGAAATACCCCTATAGGG
* *
17462925 TAAAATGATTGTAATACCC
1 TAAAATGATCGAAATACCC
17462944 TGGTAAGGTA
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
26 2 0.05
27 35 0.95
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.23
Consensus pattern (27 bp):
TAAAATGATCGAAATACCCCTATAGGG
Found at i:17484242 original size:109 final size:109
Alignment explanation
Indices: 17484051--17484266 Score: 405
Period size: 109 Copynumber: 2.0 Consensus size: 109
17484041 GCCCCACAGT
17484051 GTCCATTAGCATTTTACACCCATTTAATTCAAGTTTTATGACCAGTTTACCGGTTTAAGCAGTTT
1 GTCCATTAGCATTTTACACCCATTTAATTCAAGTTTTATGACCAGTTTACCGGTTTAAGCAGTTT
* *
17484116 CAATTCTACAGTCTAACAGAACATACTTATTGCCTATTTTTTTA
66 CAATTCTACAATCTAACAGAACATACTTATCGCCTATTTTTTTA
17484160 GTCCATTAGCATTTTACACCCATTTAATTCAAGTTTTATGACCAGTTTACCGGTTTAAGCAGTTT
1 GTCCATTAGCATTTTACACCCATTTAATTCAAGTTTTATGACCAGTTTACCGGTTTAAGCAGTTT
*
17484225 CAATTCTACAATCTAACAGAAGATACTTATCGCCTATTTTTT
66 CAATTCTACAATCTAACAGAACATACTTATCGCCTATTTTTT
17484267 ATATTATAAA
Statistics
Matches: 104, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
109 104 1.00
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.40
Consensus pattern (109 bp):
GTCCATTAGCATTTTACACCCATTTAATTCAAGTTTTATGACCAGTTTACCGGTTTAAGCAGTTT
CAATTCTACAATCTAACAGAACATACTTATCGCCTATTTTTTTA
Found at i:17506714 original size:20 final size:18
Alignment explanation
Indices: 17506684--17506726 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
17506674 TTTGTAAAGT
*
17506684 TTGTAAAATAAGTTGTAAA
1 TTGTGAAATAA-TTGTAAA
17506703 TATGTGAAATAATTG-AAA
1 T-TGTGAAATAATTGTAAA
17506721 TTGTGA
1 TTGTGA
17506727 GTTGCTATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 5 0.23
18 4 0.18
19 4 0.18
20 9 0.41
ACGTcount: A:0.44, C:0.00, G:0.19, T:0.37
Consensus pattern (18 bp):
TTGTGAAATAATTGTAAA
Found at i:17507432 original size:46 final size:48
Alignment explanation
Indices: 17507376--17507639 Score: 206
Period size: 46 Copynumber: 5.6 Consensus size: 48
17507366 TGATATGTGT
*
17507376 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGA-GG
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGATTATGACGA
* * * * * *
17507422 GCCAGTGTAAGACAAGTATGGGACATGCATCGACCTCTAGA-TAT-ACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC--GATTATGACGA
* * * *
17507470 GCTAGTGTAAGACATGTATGGGACATGCATCGG-CATTGA-GACGA-GA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCA-CGATTATGACGA
* * * *
17507516 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTCGAGATAT-ACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGA-TTATGACGA
* * * *
17507564 GCTAGTGTAAGACCTGTCTGGGACATGGCAT-TGACACCGATAGATGA-GA
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCA-CGAT-TATGACGA
* *
17507613 GCCAGTGTAAGACCTGTCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
17507640 GAGTCAGTCT
Statistics
Matches: 174, Mismatches: 30, Indels: 26
0.76 0.13 0.11
Matches are distributed among these distances:
46 69 0.40
47 5 0.03
48 63 0.36
49 36 0.21
50 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGATTATGACGA
Found at i:17507489 original size:48 final size:48
Alignment explanation
Indices: 17507376--17507744 Score: 233
Period size: 48 Copynumber: 7.7 Consensus size: 48
17507366 TGATATGTGT
* * **
17507376 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-A-TTATGA-GG
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCTAGATAT-ACAA
* * * *
17507422 GCCAGTGTAAGACAAGTATGGGACATGCATCGACCTCTAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCTAGATATACAA
* * *
17507470 GCTAGTGTAAGACATGTATGGGACATGCATCGGCAT-T-G--AGACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCTAGATATAC-A-A
* *
17507516 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTCGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCTAGATATACAA
* * * * *
17507564 GCTAGTGTAAGACCTGTCTGGGACATGGCATTGACAC-CGATAGAT-GA-GA
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGC-CTC--TAGATATACAA
* * * * * * *
17507613 GCCAGTGTAAGACCTGTCTGGGACATGGAGTCAGTCTCGAGATATGAAAA
1 GCTAGTGTAAGACATGTCTGGGACATGCA-TCGGCCTCTAGATAT-ACAA
* * * * * * *
17507663 TC-AGTGTAAGACCTGTCTGGGACATGGCATC-GACT-TTGATGTGCTA
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCTAGATATACAA
* *
17507709 GCCAATGTAAGACCATGTCTGGGACATGGCATCGGC
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
17507745 ATCGTATCCC
Statistics
Matches: 256, Mismatches: 45, Indels: 41
0.75 0.13 0.12
Matches are distributed among these distances:
44 3 0.01
45 1 0.00
46 69 0.27
47 19 0.07
48 87 0.34
49 64 0.25
50 9 0.04
51 4 0.02
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCTAGATATACAA
Found at i:17507623 original size:49 final size:50
Alignment explanation
Indices: 17507519--17507740 Score: 199
Period size: 49 Copynumber: 4.6 Consensus size: 50
17507509 GACGAGAGCT
* * * *
17507519 AGTGTAAGACATGTCTGGGACAT-GCATTGGC-CTCGAGATAT-ACAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATTGACTCTCGAGAGATGA-AAGCC
* * *
17507567 AGTGTAAGACCTGTCTGGGACATGGCATTGACAC-CGATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATTGACTCTCGAGAGATGAAAGCC
* * * * **
17507616 AGTGTAAGACCTGTCTGGGACATGG-AGTCAGTCTCGAGATATGAAAATC
1 AGTGTAAGACCTGTCTGGGACATGGCATTGACTCTCGAGAGATGAAAGCC
* * * **
17507665 AGTGTAAGACCTGTCTGGGACATGGCATCGACT-TTGA-TG-TGCTAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATTGACTCTCGAGAGATGAAAGCC
*
17507712 AATGTAAGACCATGTCTGGGACATGGCAT
1 AGTGTAAGACC-TGTCTGGGACATGGCAT
17507741 CGGCATCGTA
Statistics
Matches: 141, Mismatches: 27, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
47 14 0.10
48 43 0.30
49 79 0.56
50 5 0.04
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (50 bp):
AGTGTAAGACCTGTCTGGGACATGGCATTGACTCTCGAGAGATGAAAGCC
Found at i:17507683 original size:98 final size:95
Alignment explanation
Indices: 17507376--17507737 Score: 315
Period size: 94 Copynumber: 3.8 Consensus size: 95
17507366 TGATATGTGT
* * * * **
17507376 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGC-CAC-ATTATGAGGGCCAGTGTAAGACAAG
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CGA-TGTGAGAGCCAGTGTAAGACCTG
* * * *
17507438 TATGGGACATGCATC-GACCTCTAGATATACAA
64 TCTGGGACATGGATCAG-CCTCGAGATATAAAA
* * * ** * * *
17507470 GCTAGTGTAAGACATGTATGGGACAT-GCATCGGCATTGA-GACGAGAGCTAGTGTAAGACATGT
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATG-TGAGAGCCAGTGTAAGACCTGT
* ** *
17507533 CTGGGACATGCATTGGCCTCGAGATATACAA
65 CTGGGACATGGATCAGCCTCGAGATATAAAA
*
17507564 GCTAGTGTAAGACCTGTCTGGGACATGGCATTGACACCGATAGATGAGAGCCAGTGTAAGACCTG
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGACACCGAT-G-TGAGAGCCAGTGTAAGACCTG
*
17507629 TCTGGGACATGGAGTCAGTCTCGAGATATGAAAA
64 TCTGGGACATGGA-TCAGCCTCGAGATAT-AAAA
* *** ** *
17507663 TC-AGTGTAAGACCTGTCTGGGACATGGCATCGACTTTGATGTGCTAGCCAATGTAAGACCATGT
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATGTGAGAGCCAGTGTAAGACC-TGT
17507727 CTGGGACATGG
65 CTGGGACATGG
17507738 CATCGGCATC
Statistics
Matches: 225, Mismatches: 33, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
94 101 0.45
95 11 0.05
96 16 0.07
97 47 0.21
98 46 0.20
99 4 0.02
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (95 bp):
GCTAGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATGTGAGAGCCAGTGTAAGACCTGTC
TGGGACATGGATCAGCCTCGAGATATAAAA
Found at i:17511221 original size:24 final size:24
Alignment explanation
Indices: 17511176--17511222 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
17511166 ATGTGGAGGG
* *
17511176 AATCAAGGAGAGGATTGGGGAGAA
1 AATCAAAGAGAGGATTAGGGAGAA
*
17511200 AATCAAAGAGAGGATTATGGAGA
1 AATCAAAGAGAGGATTAGGGAGA
17511223 GATTTTAGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.45, C:0.04, G:0.36, T:0.15
Consensus pattern (24 bp):
AATCAAAGAGAGGATTAGGGAGAA
Found at i:17517924 original size:21 final size:19
Alignment explanation
Indices: 17517900--17517938 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
17517890 TTATAACCCA
*
17517900 TAATTATTTTCACACAATTTT
1 TAATGATTTTC-CA-AATTTT
17517921 TAATGATTTTCCAAATTT
1 TAATGATTTTCCAAATTT
17517939 AAGACAAGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 2 0.12
21 10 0.59
ACGTcount: A:0.33, C:0.13, G:0.03, T:0.51
Consensus pattern (19 bp):
TAATGATTTTCCAAATTTT
Found at i:17518534 original size:48 final size:48
Alignment explanation
Indices: 17518461--17518840 Score: 373
Period size: 48 Copynumber: 7.9 Consensus size: 48
17518451 AAAAGGGTAA
* * *
17518461 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAAC
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAAT
* * * ** *
17518509 AATGCTGCTGCCATGTTCCAAACATGGTCTTACATTGGCTTGCATATT
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAAT
* * * * * * * *
17518557 GAGGCCGATGCAATGTTCCAAACATGGTCTTACAATAGCTCTCACAAC
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAAT
* *
17518605 AATGCCGATGCCATGTTCCATACATGGTCTTACACTGGCTCACATATT
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAAT
* * * * * * * * *
17518653 GAGGCCGATGTCATATCCCAAACATGGTCTTACACTAGCTCTCGTAAC
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAAT
* * * * * * *
17518701 AATGCTGGTGCCATATTTCAAACATGGTCTTACACTGGCTCCCTTATT
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAAT
* * * * * * * *
17518749 GAGGCCAATGCCATGTCCCAGACAAGGTCTTACACTAGCTCTCATAAT
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAAT
17518797 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACA
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACA
17518841 CAAAACTTTA
Statistics
Matches: 256, Mismatches: 76, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
48 256 1.00
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.28
Consensus pattern (48 bp):
AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAAT
Found at i:17518630 original size:96 final size:96
Alignment explanation
Indices: 17518464--17518840 Score: 520
Period size: 96 Copynumber: 3.9 Consensus size: 96
17518454 AGGGTAAAAT
* * * * *
17518464 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAATGCTGCTGCCATGTTCCA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCA
* **
17518529 AACATGGTCTTACATTGGCTTGCATATTGAG
66 AACATGGTCTTACACTGGCTCACATATTGAG
* * * *
17518560 GCCGATGCAATGTTCCAAACATGGTCTTACAATAGCTCTCACAACAATGCCGATGCCATGTTCCA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCA
*
17518625 TACATGGTCTTACACTGGCTCACATATTGAG
66 AACATGGTCTTACACTGGCTCACATATTGAG
* * * * * * *
17518656 GCCGATGTCATATCCCAAACATGGTCTTACACTAGCTCTCGTAACAATGCTGGTGCCATATTTCA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCA
* *
17518721 AACATGGTCTTACACTGGCTCCCTTATTGAG
66 AACATGGTCTTACACTGGCTCACATATTGAG
* * * *
17518752 GCCAATGCCATGTCCCAGACAAGGTCTTACACTAGCTCTCATAATAATGCCGATGCCATGTTCCA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCA
17518817 AACATGGTCTTACACTGGCTCACA
66 AACATGGTCTTACACTGGCTCACA
17518841 CAAAACTTTA
Statistics
Matches: 241, Mismatches: 40, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
96 241 1.00
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (96 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCA
AACATGGTCTTACACTGGCTCACATATTGAG
Found at i:17518723 original size:144 final size:145
Alignment explanation
Indices: 17518461--17518837 Score: 416
Period size: 144 Copynumber: 2.6 Consensus size: 145
17518451 AAAAGGGTAA
* * *
17518461 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAATGCTGCTGCCATGTT
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATAATGCCGATGCCATGTT
* *** *
17518526 CCAAACATGGTCTTACATTGGCT-TGCATATTGAGGCCGATGCAATGTTCCAAACATGGTCTTAC
66 CCAAACATGGTCTTACACTGGCTCTGCATAACAAGGCCGATGCAATATTCCAAACATGGTCTTAC
*
17518590 AATAGCTCTCACAAC
131 AATAGCTCCCACAAC
* * * * * * * *
17518605 AATGCCGATGCCATGTTCCATACATGGTCTTACACTGGCTCACATATTGAGGCCGATGTCATATC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATAATGCCGATGCCATGTT
* * * * * * *
17518670 CCAAACATGGTCTTACACTAGCTCT-CGTAACAATGCTGGTGCCATATTTCAAACATGGTCTTAC
66 CCAAACATGGTCTTACACTGGCTCTGCATAACAAGGCCGATGCAATATTCCAAACATGGTCTTAC
* * ** **
17518734 ACTGGCTCCCTTATT
131 AATAGCTCCCACAAC
* * * * * *
17518749 GAGGCCAATGCCATGTCCCAGACAAGGTCTTACACTAGCTCTCATAATAATGCCGATGCCATGTT
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATAATGCCGATGCCATGTT
17518814 CCAAACATGGTCTTACACTGGCTC
66 CCAAACATGGTCTTACACTGGCTC
17518838 ACACAAAACT
Statistics
Matches: 187, Mismatches: 45, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
144 186 0.99
145 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (145 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATAATGCCGATGCCATGTT
CCAAACATGGTCTTACACTGGCTCTGCATAACAAGGCCGATGCAATATTCCAAACATGGTCTTAC
AATAGCTCCCACAAC
Found at i:17524089 original size:29 final size:29
Alignment explanation
Indices: 17524056--17524114 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
17524046 GATCTAGAGT
*
17524056 ATGCTCAGGATTTGAAAATCTGTATTACA
1 ATGCTCAGCATTTGAAAATCTGTATTACA
17524085 ATGCTCAGCATTTGAAAATCTGTATTACA
1 ATGCTCAGCATTTGAAAATCTGTATTACA
17524114 A
1 A
17524115 ATGATTTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (29 bp):
ATGCTCAGCATTTGAAAATCTGTATTACA
Found at i:17527998 original size:51 final size:51
Alignment explanation
Indices: 17527922--17528032 Score: 213
Period size: 51 Copynumber: 2.2 Consensus size: 51
17527912 TAATTTTTGT
*
17527922 ACTTTTGGGACCCTTGTAGGAATGGGAGAGTTATTTTTGCAAATGGTTGAA
1 ACTTTAGGGACCCTTGTAGGAATGGGAGAGTTATTTTTGCAAATGGTTGAA
17527973 ACTTTAGGGACCCTTGTAGGAATGGGAGAGTTATTTTTGCAAATGGTTGAA
1 ACTTTAGGGACCCTTGTAGGAATGGGAGAGTTATTTTTGCAAATGGTTGAA
17528024 ACTTTAGGG
1 ACTTTAGGG
17528033 TTTTGCCATG
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.26, C:0.10, G:0.30, T:0.34
Consensus pattern (51 bp):
ACTTTAGGGACCCTTGTAGGAATGGGAGAGTTATTTTTGCAAATGGTTGAA
Found at i:17528724 original size:48 final size:48
Alignment explanation
Indices: 17528666--17528997 Score: 355
Period size: 48 Copynumber: 6.9 Consensus size: 48
17528656 ATATTAGGGT
* * *
17528666 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATCGCATCGGCATTTA
1 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACATTGA
* * * * * *
17528714 TATGAGAGCTAGTGTAAGACCATGTCTAGTACATGGCATCGGCCTTGA
1 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACATTGA
* * * *
17528762 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGACATCGACCTCGA
1 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACATTGA
*
17528810 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACATTTA
1 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACATTGA
* * * * * *
17528858 TATGAGAGCTAGTGTAAGACCATGTCTGGTACATGGGATCGACCTCGA
1 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACATTGA
* * * * *
17528906 TACGTGAGCCAGT-TAAGACCATGTTTGGAACATGACATTGGA-ATTTA
1 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCA-TCGACATTGA
* * * * *
17528953 TAAGAGAGCTAGTGTAAGACTATGTCTAGG-ACATGGCATCAACAT
1 TATGTGAGCTAGTGTAAGACCATGT-TTGGAACATGGCATCGACAT
17528998 CTTGCCCTTT
Statistics
Matches: 234, Mismatches: 46, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
47 34 0.15
48 197 0.84
49 3 0.01
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.28
Consensus pattern (48 bp):
TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACATTGA
Found at i:17531799 original size:49 final size:49
Alignment explanation
Indices: 17531727--17531971 Score: 249
Period size: 49 Copynumber: 4.9 Consensus size: 49
17531717 TACCCAAAGC
* * * *
17531727 TATCTAGTACGCATAGTACCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
* * * * *
17531776 TAT-TCGGTAAACGTAGTAGCCTGCACTTAGTACTACACACGTGGCCTAAC
1 TATCT-GGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC-AAT
* * * * ** *
17531826 CATCTGATACACGTAGTAGCCTACACTTAGTACTACACACATGATCGAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-T
* ** * *
17531877 TATCGGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACTAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
*
17531926 TATCTGGTACACATAGTAGCCTGTACTTAGTACTACACATGTGACC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC
17531972 TCAAAATAGA
Statistics
Matches: 157, Mismatches: 34, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
48 1 0.01
49 77 0.49
50 43 0.27
51 36 0.23
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
Found at i:17536952 original size:49 final size:49
Alignment explanation
Indices: 17536894--17537132 Score: 309
Period size: 49 Copynumber: 4.8 Consensus size: 49
17536884 TAGCCAATGC
* * *
17536894 TATCTGGTACGCATAGTAGCCTGCACTTAGTAGTACACAAGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * *
17536943 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AAT
* * * *
17536993 CATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
* *
17537044 TATCGGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* *
17537093 TAT-TCGGTACACGTAGTAGCCTGCAGTTAGTACTACACAC
1 TATCT-GGTACACATAGTAGCCTGCACTTAGTACTACACAC
17537133 ATGACCTCAC
Statistics
Matches: 165, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
49 77 0.47
50 48 0.29
51 40 0.24
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:17537076 original size:101 final size:98
Alignment explanation
Indices: 17536895--17537132 Score: 307
Period size: 101 Copynumber: 2.4 Consensus size: 98
17536885 AGCCAATGCT
* * * * *
17536895 ATCTGGTACGCATAGTAGCCTGCACTTAGTAGTACACAAGCGACCAATTATCTGGTACACGTAGT
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCGGGTACACATAGT
*
17536960 AGCCTGCACTTAGTACTACACACGTGACCTAACC
66 AGCCTGCACTTAGTACTACACACGCGACC-AACC
* * *
17536994 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACACATA
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCGGGTACACATA
* **
17537059 GTAGCCTGCACTTAGTACTACACATGCGACCAATT
64 GTAGCCTGCACTTAGTACTACACACGCGACCAACC
* *
17537094 AT-TCGGTACACGTAGTAGCCTGCAGTTAGTACTACACAC
1 ATCT-GGTACACATAGTAGCCTGCACTTAGTACTACACAC
17537133 ATGACCTCAC
Statistics
Matches: 121, Mismatches: 15, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
99 39 0.32
100 39 0.32
101 43 0.36
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (98 bp):
ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCGGGTACACATAGT
AGCCTGCACTTAGTACTACACACGCGACCAACC
Found at i:17540866 original size:27 final size:26
Alignment explanation
Indices: 17540818--17540877 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
17540808 GCGAGGCTGC
* *
17540818 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCA-AAA
* * *
17540845 CAGATATTGTGGCTAGGCCACCAAAA
1 CAGATATTGTGACGAAGCCACCAAAA
17540871 CAGATAT
1 CAGATAT
17540878 ATATATATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 9 0.32
27 19 0.68
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAAAA
Found at i:17540966 original size:27 final size:26
Alignment explanation
Indices: 17540918--17540969 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
17540908 GCGAGGCTGC
*
17540918 CAGATATTGTGACAAAGTCACCAGAA
1 CAGATATTGTGACAAAGCCACCAGAA
* *
17540944 CAGATATATGTGGCAAGGCCACCAGA
1 CAGATAT-TGTGACAAAGCCACCAGA
17540970 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACAAAGCCACCAGAA
Found at i:17548429 original size:27 final size:26
Alignment explanation
Indices: 17548382--17548432 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
17548372 CGAGGCTGCT
*
17548382 AGATATTGTGACGAAGTCACCAGAAC
1 AGATATTGTGACGAAGCCACCAGAAC
* *
17548408 AGATATATGTGGCGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
17548433 TTGTAGCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.35, C:0.20, G:0.27, T:0.18
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAC
Found at i:17555659 original size:43 final size:43
Alignment explanation
Indices: 17555612--17555706 Score: 113
Period size: 43 Copynumber: 2.2 Consensus size: 43
17555602 TCCCAGATGT
* *
17555612 GGTCTTACATGTAAA-GAAATATCGATGCC-ACTGTCCTAAACAA
1 GGTCTTACATGAAAATCAAATA-CGATGCCGA-TGTCCTAAACAA
* *
17555655 GGTCTTACATGAAAATCAAATACGATGCCGATGTCCTAGACAT
1 GGTCTTACATGAAAATCAAATACGATGCCGATGTCCTAAACAA
*
17555698 GTTCTTACA
1 GGTCTTACA
17555707 CATAAATCAT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
43 39 0.87
44 6 0.13
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (43 bp):
GGTCTTACATGAAAATCAAATACGATGCCGATGTCCTAAACAA
Found at i:17555714 original size:43 final size:42
Alignment explanation
Indices: 17555611--17555751 Score: 110
Period size: 43 Copynumber: 3.3 Consensus size: 42
17555601 GTCCCAGATG
** * *
17555611 TGGTCTTACATGTAAA-GAAATATCGATGCCACTGTCCTAAACA
1 TGGTCTTACATCAAAATCAAATA-CGATGCCA-TGTCCTAGACA
* *
17555654 AGGTCTTACATGAAAATCAAATACGATGCCGATGTCCTAGACA
1 TGGTCTTACATCAAAATCAAATACGATGCC-ATGTCCTAGACA
* *
17555697 TGTTCTTACA-CATAAATCATAAGT-CGATGCCAATGTTCC-AGACG
1 TGGTCTTACATCA-AAATCA-AA-TACGATGCC-ATG-TCCTAGACA
17555741 TGGTCTTACAT
1 TGGTCTTACAT
17555752 GAAAGCACAT
Statistics
Matches: 81, Mismatches: 10, Indels: 12
0.79 0.10 0.12
Matches are distributed among these distances:
42 1 0.01
43 45 0.56
44 31 0.38
45 4 0.05
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.28
Consensus pattern (42 bp):
TGGTCTTACATCAAAATCAAATACGATGCCATGTCCTAGACA
Found at i:17561165 original size:35 final size:35
Alignment explanation
Indices: 17561115--17561275 Score: 137
Period size: 35 Copynumber: 4.6 Consensus size: 35
17561105 CATAGGTAAG
* *
17561115 TACATGTAAGCTTATATTGAACTTGTATATTCGGC
1 TACATGTGAGGTTATATTGAACTTGTATATTCGGC
* * * **
17561150 TGCATGTGAGGTTATATTGAATTTGAATATTCGAT
1 TACATGTGAGGTTATATTGAACTTGTATATTCGGC
* * *
17561185 TACATGTGAGTTTATATTGAATTTGTGTATTCGG-
1 TACATGTGAGGTTATATTGAACTTGTATATTCGGC
* * * *
17561219 TCATATGTAAGGTTA-ACTTGAACGTGCATATTCGGC
1 T-ACATGTGAGGTTATA-TTGAACTTGTATATTCGGC
* * *
17561255 TATATGTGATGTTCTATTGAA
1 TACATGTGAGGTTATATTGAA
17561276 TTTGAACTAT
Statistics
Matches: 100, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
34 2 0.02
35 96 0.96
36 2 0.02
ACGTcount: A:0.27, C:0.10, G:0.21, T:0.42
Consensus pattern (35 bp):
TACATGTGAGGTTATATTGAACTTGTATATTCGGC
Found at i:17561250 original size:70 final size:69
Alignment explanation
Indices: 17561115--17561279 Score: 156
Period size: 70 Copynumber: 2.4 Consensus size: 69
17561105 CATAGGTAAG
* * * * **
17561115 TACATGTAAGCTTATATTGAACTTGTATATTCGGCTGCATGTGAGGTTATATTGAATTTGAATAT
1 TACATGTGAGTTTATATTGAATTTGTATATTCGGCT-CATGTAAGGTTATATTGAACGTGAATAT
*
17561180 TCGAT
65 TCGAC
* *
17561185 TACATGTGAGTTTATATTGAATTTGTGTATTCGG-TCATATGTAAGGTTA-ACTTGAACGTGCAT
1 TACATGTGAGTTTATATTGAATTTGTATATTCGGCTC--ATGTAAGGTTATA-TTGAACGTGAAT
*
17561248 ATTCGGC
63 ATTCGAC
* *
17561255 TATATGTGA-TGTTCTATTGAATTTG
1 TACATGTGAGT-TTATATTGAATTTG
17561280 AACTATAGGT
Statistics
Matches: 79, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
68 1 0.01
69 3 0.04
70 75 0.95
ACGTcount: A:0.27, C:0.10, G:0.21, T:0.42
Consensus pattern (69 bp):
TACATGTGAGTTTATATTGAATTTGTATATTCGGCTCATGTAAGGTTATATTGAACGTGAATATT
CGAC
Found at i:17565833 original size:85 final size:85
Alignment explanation
Indices: 17565690--17565852 Score: 204
Period size: 85 Copynumber: 1.9 Consensus size: 85
17565680 CATAAACAAG
* * * * * *
17565690 TACAATGCTGACGTCCCGGACGTGGTCTTACATGTAATTCAATATCGATGCCTCTGTCCCAGATA
1 TACAATGCTGACGCCCCAGACATGGTCTTACACGTAATTCAATATCGAGGCCTCTGTCCCAGACA
17565755 GGGTCTTACACGAAATCAGA
66 GGGTCTTACACGAAATCAGA
* * *
17565775 TACAATGCTGATGCCCCAGACATGGTCTTATACGTAAGTCTC-A-ATCGAGGCCTGTGTCCCAGA
1 TACAATGCTGACGCCCCAGACATGGTCTTACACGTAA-T-TCAATATCGAGGCCTCTGTCCCAGA
*
17565838 CATGGTCTTACACGA
64 CAGGGTCTTACACGA
17565853 TGTCTTAGAC
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
85 62 0.94
86 2 0.03
87 2 0.03
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (85 bp):
TACAATGCTGACGCCCCAGACATGGTCTTACACGTAATTCAATATCGAGGCCTCTGTCCCAGACA
GGGTCTTACACGAAATCAGA
Found at i:17567137 original size:15 final size:15
Alignment explanation
Indices: 17567114--17567143 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17567104 GACAGAAATC
*
17567114 CTACGCAGATTTGAA
1 CTACACAGATTTGAA
17567129 CTACACAGATTTGAA
1 CTACACAGATTTGAA
17567144 ACAAAAAGAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.27
Consensus pattern (15 bp):
CTACACAGATTTGAA
Found at i:17571731 original size:48 final size:48
Alignment explanation
Indices: 17571673--17572005 Score: 393
Period size: 48 Copynumber: 6.9 Consensus size: 48
17571663 AGGGTGATGT
*
17571673 GAGCCTGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGA
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGA
** * *
17571721 GAGCCAGTGTAAGACCATGTCAAGG-ACATGGCATCTG-ACTTTATATGT
1 GAGCCAGTGTAAGACCATGT-TTGGAACATGGCATCGGCA-TTTATATGA
* * * ** *
17571769 GAGCCAATATAAGACCATGTTTGGAACATGGCATCGGCCTCGATATGT
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGA
*
17571817 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTTATATGA
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGA
** * * * ** *
17571865 GAGTTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGT
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGA
* *
17571913 GAGCCAATGTAAGACCATGTTTGGAACATGGCATAGGCATTTATATGA
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGA
* *
17571961 GAGCCAGTGTAAGACCATGTCTAGG-ACATGGCATCGACATCTTAT
1 GAGCCAGTGTAAGACCATGT-TTGGAACATGGCATCGGCAT-TTAT
17572006 CCTTTTGTAT
Statistics
Matches: 236, Mismatches: 43, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
47 3 0.01
48 224 0.95
49 9 0.04
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (48 bp):
GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGA
Found at i:17571833 original size:96 final size:96
Alignment explanation
Indices: 17571673--17571996 Score: 438
Period size: 96 Copynumber: 3.4 Consensus size: 96
17571663 AGGGTGATGT
* * ** *
17571673 GAGCCTGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCCAGTGTAAGACCA
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCCTCGATATGTGAGCCAGTGTAAGACCA
** *
17571738 TGTCAAGG-ACATGGCATCTGAC-TTTATATGT
66 TGT-TTGGAACATGGCATC-GACATTTATATGA
* *
17571769 GAGCCAATATAAGACCATGTTTGGAACATGGCATCGGCCTCGATATGTGAGCCAGTGTAAGACCA
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCCTCGATATGTGAGCCAGTGTAAGACCA
17571834 TGTTTGGAACATGGCATCGACATTTATATGA
66 TGTTTGGAACATGGCATCGACATTTATATGA
** * * *
17571865 GAGTTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGTGAGCCAATGTAAGACCA
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCCTCGATATGTGAGCCAGTGTAAGACCA
* *
17571930 TGTTTGGAACATGGCATAGGCATTTATATGA
66 TGTTTGGAACATGGCATCGACATTTATATGA
*
17571961 GAGCCAGTGTAAGACCATGTCTAGG-ACATGGCATCG
1 GAGCCAGTGTAAGACCATGT-TTGGAACATGGCATCG
17571997 ACATCTTATC
Statistics
Matches: 202, Mismatches: 23, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
95 5 0.02
96 195 0.97
97 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (96 bp):
GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCCTCGATATGTGAGCCAGTGTAAGACCA
TGTTTGGAACATGGCATCGACATTTATATGA
Found at i:17571929 original size:144 final size:144
Alignment explanation
Indices: 17571669--17572005 Score: 496
Period size: 144 Copynumber: 2.3 Consensus size: 144
17571659 TGCTAGGGTG
* *
17571669 ATGTGAGCCTGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCCAGTGTAAG
1 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTTATATGAGAGCCAGTGTAAG
* **
17571734 ACCATGTCAAGGACATGGCATCTGACTTTATATGTGAGCCAATATAAGACCATGTTTGGAACATG
66 ACCATGTCAAGGACATGGCATCGGACTCGATATGTGAGCCAATATAAGACCATGTTTGGAACATG
* *
17571799 GCATCGGCCTCGAT
131 GCATAGGCATCGAT
**
17571813 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTTATATGAGAGTTAGTGTAAG
1 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTTATATGAGAGCCAGTGTAAG
** * *
17571878 ACCATGTCTGGGACATGGCATCGGCCTCGATATGTGAGCCAATGTAAGACCATGTTTGGAACATG
66 ACCATGTCAAGGACATGGCATCGGACTCGATATGTGAGCCAATATAAGACCATGTTTGGAACATG
**
17571943 GCATAGGCATTTAT
131 GCATAGGCATCGAT
* *
17571957 ATGAGAGCCAGTGTAAGACCATGTCTAGG-ACATGGCATCGACATCTTAT
1 ATGTGAGCCAGTGTAAGACCATGT-TTGGAACATGGCATCGACAT-TTAT
17572006 CCTTTTGTAT
Statistics
Matches: 174, Mismatches: 17, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
144 167 0.96
145 7 0.04
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (144 bp):
ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTTATATGAGAGCCAGTGTAAG
ACCATGTCAAGGACATGGCATCGGACTCGATATGTGAGCCAATATAAGACCATGTTTGGAACATG
GCATAGGCATCGAT
Found at i:17575778 original size:20 final size:21
Alignment explanation
Indices: 17575739--17575778 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
17575729 GTTAAGAAGA
*
17575739 CACACGGGCGTGTCGCCCTTC
1 CACACGGGCATGTCGCCCTTC
*
17575760 CACATGGGCATGT-GCCCTT
1 CACACGGGCATGTCGCCCTT
17575779 ATCTGCTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.12, C:0.38, G:0.28, T:0.23
Consensus pattern (21 bp):
CACACGGGCATGTCGCCCTTC
Found at i:17576884 original size:42 final size:43
Alignment explanation
Indices: 17576837--17576950 Score: 151
Period size: 43 Copynumber: 2.7 Consensus size: 43
17576827 GTGTGTTTTT
*
17576837 GTGTAAGACCACGTCTGGGACGTTGGCATC-ATATTTGATTTC
1 GTGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTAC
* ** *
17576879 GTGTAAGACC-CTTTCTGGGACAATAGCATCGATATTTGATTAC
1 GTGTAAGACCAC-GTCTGGGACGTTGGCATCGATATTTGATTAC
*
17576922 ATGTAAGACCACGTCTGGGACGTTGGCAT
1 GTGTAAGACCACGTCTGGGACGTTGGCAT
17576951 TGTACAAGCT
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
41 1 0.02
42 24 0.41
43 33 0.56
44 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (43 bp):
GTGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTAC
Found at i:17577846 original size:43 final size:43
Alignment explanation
Indices: 17577691--17577847 Score: 135
Period size: 43 Copynumber: 3.7 Consensus size: 43
17577681 TGTGTTATCG
* * *
17577691 TGTAAGACCACATCTGGGACGTTGGCATCTGCTTATGTT--TTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATC-G-GTAT-TTGATTACA
* * * * * *
17577735 TGTAAGACCATGTTTGGGACATTGGTAT-TGTATTTGATTTCA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGGTATTTGATTACA
*
17577777 TGTAAGACTC-TGTCTGGGACAG-TGGCATCGGTATTTGATTACA
1 TGTAAGAC-CACGTCTGGGAC-GTTGGCATCGGTATTTGATTACA
*
17577820 TGTAAGACCACGTCTGGGATGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
17577848 TGTACGAGCT
Statistics
Matches: 90, Mismatches: 16, Indels: 15
0.74 0.13 0.12
Matches are distributed among these distances:
40 2 0.02
41 3 0.03
42 27 0.30
43 35 0.39
44 23 0.26
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.35
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGGTATTTGATTACA
Found at i:17582646 original size:47 final size:45
Alignment explanation
Indices: 17582536--17582660 Score: 133
Period size: 47 Copynumber: 2.7 Consensus size: 45
17582526 TGATTTGTGC
* **
17582536 GCCAGTGTAAGACATGTCTGGGACATGCTATGACCACATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGC-ATCACCACAAAATGAGA
* * * *
17582582 GCCAGTGTAAGCCCATGTCTGGGACATGGCATCAGCATAGAAATGAGT
1 GCCAGTGTAAG-ACATGTCTGGGACAT-GCATCACCACA-AAATGAGA
* *
17582630 GCCAGAGTAAGACATGTTTGGGACATGCATC
1 GCCAGTGTAAGACATGTCTGGGACATGCATC
17582661 GGCCTCGACA
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
46 16 0.24
47 33 0.50
48 17 0.26
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCACCACAAAATGAGA
Found at i:17586377 original size:38 final size:38
Alignment explanation
Indices: 17586334--17586410 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
17586324 TTTCAAATTA
17586334 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
* *
17586372 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
17586410 A
1 A
17586411 ATAAATCAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (38 bp):
ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
Found at i:17586433 original size:85 final size:85
Alignment explanation
Indices: 17586341--17586557 Score: 299
Period size: 95 Copynumber: 2.4 Consensus size: 85
17586331 TTAACATGTA
*
17586341 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGATATATCCACTTAGCACCA
*
17586406 CGTTAATAAATCAATATATG
66 CATTAATAAATCAATATATG
*
17586426 TAACCGTGGCATATCCACTTAGCACCACTTAGCACCACGTTGCATGTTTAACCGTGATATATCCA
1 TAACCGTGGC--AT--A--T----CCACTTAGCACCACGTTACATGTTTAACCGTGATATATCCA
*
17586491 CTTAGCACCACATTAATGAATCAATATATG
56 CTTAGCACCACATTAATAAATCAATATATG
*
17586521 TAACCGTGGCATATCCACTTAGCACCATGTTACATGT
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGT
17586558 ATCATTATGT
Statistics
Matches: 116, Mismatches: 6, Indels: 20
0.82 0.04 0.14
Matches are distributed among these distances:
85 31 0.27
87 2 0.02
89 2 0.02
91 2 0.02
93 2 0.02
95 77 0.66
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (85 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGATATATCCACTTAGCACCA
CATTAATAAATCAATATATG
Found at i:17586518 original size:95 final size:95
Alignment explanation
Indices: 17586355--17586547 Score: 350
Period size: 95 Copynumber: 2.0 Consensus size: 95
17586345 CGTGGCATAT
* *
17586355 CCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCACGTTAATAAATCAA
1 CCACTTAGCACCACGTTACATGTTTAACCGTGATATATCCACTTAGCACCACATTAATAAATCAA
17586420 TATATGTAACCGTGGCATATCCACTTAGCA
66 TATATGTAACCGTGGCATATCCACTTAGCA
* *
17586450 CCACTTAGCACCACGTTGCATGTTTAACCGTGATATATCCACTTAGCACCACATTAATGAATCAA
1 CCACTTAGCACCACGTTACATGTTTAACCGTGATATATCCACTTAGCACCACATTAATAAATCAA
17586515 TATATGTAACCGTGGCATATCCACTTAGCA
66 TATATGTAACCGTGGCATATCCACTTAGCA
17586545 CCA
1 CCA
17586548 TGTTACATGT
Statistics
Matches: 94, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
95 94 1.00
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.28
Consensus pattern (95 bp):
CCACTTAGCACCACGTTACATGTTTAACCGTGATATATCCACTTAGCACCACATTAATAAATCAA
TATATGTAACCGTGGCATATCCACTTAGCA
Found at i:17586585 original size:48 final size:48
Alignment explanation
Indices: 17586374--17586602 Score: 243
Period size: 48 Copynumber: 4.8 Consensus size: 48
17586364 ACCACGTTAC
* *
17586374 ATGTTTAACCGTGGTATATCCACTTAGCACCACGTTA-ATAAATCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAAT
* * ** **
17586421 ATATGTAACCGTGGCATATCCACTTAGCACCAC-TTAGCA-CCA-CGTT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTA-CATGAATCAAT
* * *
17586467 GCATGTTTAACCGTGATATATCCACTTAGCACCACATTA-ATGAATCAAT
1 --ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAAT
* * * * *
17586516 ATATGTAACCGTGGCATATCCACTTAGCACCATGTTACATGTATCATT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAAT
*
17586564 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTACA
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACA
17586603 CGTATAACCG
Statistics
Matches: 147, Mismatches: 27, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
46 5 0.03
47 63 0.43
48 74 0.50
49 5 0.03
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (48 bp):
ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAAT
Found at i:17590207 original size:12 final size:12
Alignment explanation
Indices: 17590190--17590217 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
17590180 ACAGGTTTGG
17590190 CACGACCTAGCA
1 CACGACCTAGCA
17590202 CACGACCTAGCA
1 CACGACCTAGCA
17590214 CACG
1 CACG
17590218 GGCGTGTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.43, G:0.18, T:0.07
Consensus pattern (12 bp):
CACGACCTAGCA
Found at i:17591111 original size:24 final size:24
Alignment explanation
Indices: 17591073--17591165 Score: 82
Period size: 24 Copynumber: 3.8 Consensus size: 24
17591063 TACCGATATA
* * *
17591073 TCAGCTCATAAGAGCTTAGTGTTC
1 TCAGCTCGTACGAGCTTACTGTTC
17591097 TCAGCTCGTACGAGCTTACTGTT-
1 TCAGCTCGTACGAGCTTACTGTTC
* *
17591120 TCAGATCGT-CAGAGCTTACTGTCC
1 TCAGCTCGTAC-GAGCTTACTGTTC
* *
17591144 ATCAGCTCAGGAGGAGCTTACT
1 -TCAGCTC-GTACGAGCTTACT
17591166 ATTCATAGCT
Statistics
Matches: 56, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
22 1 0.02
23 19 0.34
24 20 0.36
25 6 0.11
26 10 0.18
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.30
Consensus pattern (24 bp):
TCAGCTCGTACGAGCTTACTGTTC
Found at i:17591128 original size:23 final size:24
Alignment explanation
Indices: 17591083--17591141 Score: 77
Period size: 23 Copynumber: 2.5 Consensus size: 24
17591073 TCAGCTCATA
* *
17591083 AGAGCTTAGTGTTCTCAGCTCGT-
1 AGAGCTTACTGTTCTCAGATCGTC
17591106 ACGAGCTTACTGTT-TCAGATCGTC
1 A-GAGCTTACTGTTCTCAGATCGTC
17591130 AGAGCTTACTGT
1 AGAGCTTACTGT
17591142 CCATCAGCTC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 20 0.62
24 12 0.38
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.34
Consensus pattern (24 bp):
AGAGCTTACTGTTCTCAGATCGTC
Found at i:17593618 original size:26 final size:29
Alignment explanation
Indices: 17593574--17593630 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 29
17593564 ACGATTGTTA
*
17593574 AAATTCTTCTAAAAG-AAAACTCA-AGAG
1 AAATTCTTCGAAAAGAAAAACTCATAGAG
17593601 AAATTCTT-GAAAAGAAAAACTCATAGAG
1 AAATTCTTCGAAAAGAAAAACTCATAGAG
17593629 AA
1 AA
17593631 TTTATTAACT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 5 0.19
27 16 0.59
28 6 0.22
ACGTcount: A:0.54, C:0.12, G:0.12, T:0.21
Consensus pattern (29 bp):
AAATTCTTCGAAAAGAAAAACTCATAGAG
Found at i:17596953 original size:13 final size:13
Alignment explanation
Indices: 17596935--17596959 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17596925 TAATGGTATA
17596935 TTGAATCCATGAC
1 TTGAATCCATGAC
17596948 TTGAATCCATGA
1 TTGAATCCATGA
17596960 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:17597541 original size:27 final size:27
Alignment explanation
Indices: 17597507--17597684 Score: 173
Period size: 27 Copynumber: 6.6 Consensus size: 27
17597497 TAAATTGTAC
17597507 AGCACTAAGTGTGCGATATGACTATGT
1 AGCACTAAGTGTGCGATATGACTATGT
* * *
17597534 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATATGACTATGT
* *
17597560 ATGCACTAAGTGTGCGA-ATTGACCATGC
1 A-GCACTAAGTGTGCGATA-TGACTATGT
* *
17597588 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGA-TATGACTATGT
* * *
17597616 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATATGACTATGT
* * *
17597643 AGCACTAAGTGTGCGAGT-TTATTATAT
1 AGCACTAAGTGTGCGA-TATGACTATGT
*
17597670 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
17597685 GGCTCAATAT
Statistics
Matches: 127, Mismatches: 18, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
26 1 0.01
27 103 0.81
28 23 0.18
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATATGACTATGT
Found at i:17597622 original size:82 final size:81
Alignment explanation
Indices: 17597508--17597658 Score: 223
Period size: 82 Copynumber: 1.9 Consensus size: 81
17597498 AAATTGTACA
* *
17597508 GCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
17597572 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
17597589 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
17597654 TGCGA
65 TGCGA
17597659 GTTTATTATA
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
81 15 0.24
82 46 0.74
83 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:17597695 original size:27 final size:27
Alignment explanation
Indices: 17597589--17597695 Score: 79
Period size: 27 Copynumber: 3.9 Consensus size: 27
17597579 TGACCATGCG
* * *
17597589 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
17597617 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
17597644 GCACTAAGTGTGCGAGTTTATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
17597671 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
17597696 CATTCGTGAA
Statistics
Matches: 66, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
27 51 0.77
28 15 0.23
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:17598328 original size:55 final size:55
Alignment explanation
Indices: 17598253--17598356 Score: 190
Period size: 55 Copynumber: 1.9 Consensus size: 55
17598243 CTTAGTTGGC
*
17598253 TTAGAAGAACATTTTGGCATGTATAAGCTATTACGTTGTGTTTGAATTAGTGTGT
1 TTAGAAGAACATTTTGGCATGTATAAGCTAGTACGTTGTGTTTGAATTAGTGTGT
*
17598308 TTAGAAGATCATTTTGGCATGTATAAGCTAGTACGTTGTGTTTGAATTA
1 TTAGAAGAACATTTTGGCATGTATAAGCTAGTACGTTGTGTTTGAATTA
17598357 TGGCATGTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 47 1.00
ACGTcount: A:0.28, C:0.08, G:0.23, T:0.41
Consensus pattern (55 bp):
TTAGAAGAACATTTTGGCATGTATAAGCTAGTACGTTGTGTTTGAATTAGTGTGT
Found at i:17599270 original size:60 final size:60
Alignment explanation
Indices: 17599172--17599293 Score: 208
Period size: 60 Copynumber: 2.0 Consensus size: 60
17599162 CCGAATGTTA
*
17599172 ATGTCTAAATGTGTGATGACTTCCGACGGTTGAAATGTTTTTGTTTTGATAAGTAAATGG
1 ATGTCTAAATGTGTGATGACTTCCGACGGTTGAAATGTTTTTGTCTTGATAAGTAAATGG
* * *
17599232 ATGTTTAAATGTGTGATGACTTCTGACGGTTGAAATGTTTTTGTCTTGATTAGTAAATGG
1 ATGTCTAAATGTGTGATGACTTCCGACGGTTGAAATGTTTTTGTCTTGATAAGTAAATGG
17599292 AT
1 AT
17599294 CCCGGTGAGG
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.26, C:0.07, G:0.25, T:0.42
Consensus pattern (60 bp):
ATGTCTAAATGTGTGATGACTTCCGACGGTTGAAATGTTTTTGTCTTGATAAGTAAATGG
Found at i:17604276 original size:13 final size:13
Alignment explanation
Indices: 17604258--17604282 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17604248 TAATGGTATA
17604258 TTGAATCCATGAC
1 TTGAATCCATGAC
17604271 TTGAATCCATGA
1 TTGAATCCATGA
17604283 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:17604862 original size:27 final size:27
Alignment explanation
Indices: 17604831--17605008 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
17604821 TAAATTGTAC
17604831 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
17604858 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
17604884 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
17604912 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
17604940 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
17604967 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
17604994 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
17605009 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:17604945 original size:82 final size:81
Alignment explanation
Indices: 17604832--17604987 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
17604822 AAATTGTACA
* *
17604832 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
17604896 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
17604913 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
17604978 TGCGAGTTGA
65 TGCGAATTGA
17604988 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:17604999 original size:82 final size:81
Alignment explanation
Indices: 17604828--17605008 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
17604818 GATTAAATTG
* *
17604828 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
17604893 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
17604909 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
17604973 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
17604991 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
17605009 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:17607995 original size:12 final size:12
Alignment explanation
Indices: 17607978--17608002 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17607968 CCTAGACACA
17607978 CGCCCGTGTGTC
1 CGCCCGTGTGTC
17607990 CGCCCGTGTGTC
1 CGCCCGTGTGTC
17608002 C
1 C
17608003 AACCGTGTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.44, G:0.32, T:0.24
Consensus pattern (12 bp):
CGCCCGTGTGTC
Found at i:17608841 original size:42 final size:40
Alignment explanation
Indices: 17608795--17608947 Score: 130
Period size: 42 Copynumber: 3.7 Consensus size: 40
17608785 AATCATACCA
*
17608795 ATGCCATATCCCAGATATGATCTTACATGGGATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACAT--GATCTCATATCG
* *
17608837 ATGCCAATAGCCCAGCTATGGTCTTACACT-ATTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACA-TGA-TCTCATATCG
* * * *
17608879 ATTCCATGTCCCAAACATGGTCTTACATGAAATCTCATAAT-G
1 ATGCCATATCCCAGATATGGTCTTACATG--ATCTCAT-ATCG
** *
17608921 ATGCCATATCCTGGATATAGTCTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
17608948 CGTAAACTCA
Statistics
Matches: 88, Mismatches: 16, Indels: 14
0.75 0.14 0.12
Matches are distributed among these distances:
40 1 0.01
41 18 0.20
42 46 0.52
43 22 0.25
44 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.31
Consensus pattern (40 bp):
ATGCCATATCCCAGATATGGTCTTACATGATCTCATATCG
Found at i:17613283 original size:93 final size:93
Alignment explanation
Indices: 17613173--17613343 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
17613163 GCCCCTAAGT
* * *
17613173 GAACTCAGACTCAACTCAACAAGCTCGGGCGTTCGCATCCATAAATGAACTCGTACTCAACTCAA
1 GAACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
17613238 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
17613266 GAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
17613331 CGAGTTCGGATGC
66 CGAGTTCGGATGC
17613344 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:17613333 original size:46 final size:46
Alignment explanation
Indices: 17613168--17613340 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
17613158 AACCCGCCCC
* * * * *
17613168 TAAGTGAACTCAGACTCAACTCAACAAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
17613214 TAAATGAACTC-GTACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCAG-ACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
17613262 TCA-CGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCA
*
17613307 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
17613341 TGCTCAACCA
Statistics
Matches: 103, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 3 0.03
46 56 0.54
47 27 0.26
48 3 0.03
49 2 0.02
50 4 0.04
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:17613359 original size:46 final size:45
Alignment explanation
Indices: 17613218--17613359 Score: 114
Period size: 46 Copynumber: 3.1 Consensus size: 45
17613208 CATCCATAAA
*
17613218 TGAACTCGTACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTCA-
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT-AG
* * * * *
17613265 CGAACTCAGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-AAG
1 TGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCTAG
17613311 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CTAG
17613357 TGA
1 TGA
17613360 CATGTCACTT
Statistics
Matches: 75, Mismatches: 11, Indels: 19
0.71 0.10 0.18
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 32 0.43
47 29 0.39
49 3 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCTAG
Found at i:17616332 original size:26 final size:26
Alignment explanation
Indices: 17616284--17616337 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
17616274 AATCTCATAT
* ** *
17616284 CTGTAGGCTAGCATTACTGAAATGCC
1 CTGTAGGCTAGAATTACCAAAATACC
*
17616310 CTGTAGGGTAGAATTACCAAAATACC
1 CTGTAGGCTAGAATTACCAAAATACC
17616336 CT
1 CT
17616338 TGGTTTATAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.26
Consensus pattern (26 bp):
CTGTAGGCTAGAATTACCAAAATACC
Found at i:17616355 original size:27 final size:27
Alignment explanation
Indices: 17616321--17616478 Score: 142
Period size: 27 Copynumber: 5.9 Consensus size: 27
17616311 TGTAGGGTAG
* *
17616321 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGATTTGTAA
*
17616348 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATACCCTTGA-TTTGTAA
* *
17616375 AATTATCAAAATA-CCTCTGATTTGTGA
1 AATTACCAAAATACCCT-TGATTTGTAA
** * **
17616402 AATTACTGAAATACCCTCGACCTGTAA
1 AATTACCAAAATACCCTTGATTTGTAA
* * *
17616429 AATTACTAAAATACCCTCGACTTGTAA
1 AATTACCAAAATACCCTTGATTTGTAA
*
17616456 AATTACCAAAGTA-CCTTCGATTT
1 AATTACCAAAATACCCTT-GATTT
17616479 ACAGAATTAT
Statistics
Matches: 107, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
26 5 0.05
27 98 0.92
28 4 0.04
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.32
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGATTTGTAA
Found at i:17616497 original size:27 final size:26
Alignment explanation
Indices: 17616467--17616849 Score: 388
Period size: 27 Copynumber: 14.2 Consensus size: 26
17616457 ATTACCAAAG
* *
17616467 TACCTTCGATTTACAGAATTATCATTT
1 TACCCTCGATTTACAAAATTA-CATTT
* * *
17616494 TACCCTCAATTTATAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTAC-ATTT
*
17616521 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTA-CATTT
17616548 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTAC-ATTT
* *
17616575 TACCCTCGATTTACAAAATTGCCGTTT
1 TACCCTCGATTTACAAAATT-ACATTT
* * * * * *
17616602 TAGCGTTGATTTATAGAATTATCGTTT
1 TACCCTCGATTTACAAAATTA-CATTT
17616629 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTAC-ATTT
17616656 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTAC-ATTT
*
17616683 TACCCTCAATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTAC-ATTT
* *
17616710 TACCCTCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAAAATTA-CATTT
*
17616737 TACCCTCAATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTAC-ATTT
* * * *
17616764 TATCTTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTA-CATTT
* * * *
17616791 TACCCTCGATTTATAGAATAACCGTTT
1 TACCCTCGATTTACAAAATTA-CATTT
* *
17616818 TACCCTCAATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTA-CATTT
17616845 TACCC
1 TACCC
17616850 CTAGGTGTTA
Statistics
Matches: 305, Mismatches: 42, Indels: 18
0.84 0.12 0.05
Matches are distributed among these distances:
26 4 0.01
27 297 0.97
28 4 0.01
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.41
Consensus pattern (26 bp):
TACCCTCGATTTACAAAATTACATTT
Found at i:17616525 original size:81 final size:80
Alignment explanation
Indices: 17616440--17616849 Score: 442
Period size: 81 Copynumber: 5.1 Consensus size: 80
17616430 ATTACTAAAA
* * **** *
17616440 TACCCTCGACTTGTAAAATTACCAAAGTACCTTCGATTTACAGAATTATCATTTTACCCTCAATT
1 TACCCTCGATTTATAAAATTACCGTTTTACCCTCGATTTACAGAATTA-CATTTTACCCTCAATT
* *
17616505 TATAAAATTACTGTTT
65 TACAAAATTACTATTT
* * * *
17616521 TACCCTCGATTTACAAAATTATCGTTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATT
1 TACCCTCGATTTATAAAATTACCGTTTTACCCTCGATTTACAGAATTAC-ATTTTACCCTCAATT
* **
17616586 TACAAAATTGCCGTTT
65 TACAAAATTACTATTT
* * * * * * *
17616602 TAGCGTTGATTTATAGAATTATCGTTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATT
1 TACCCTCGATTTATAAAATTACCGTTTTACCCTCGATTTACAGAATTAC-ATTTTACCCTCAATT
17616667 TACAAAATTACTATTT
65 TACAAAATTACTATTT
* * ** *
17616683 TACCCTCAATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCAATT
1 TACCCTCGATTTATAAAATTACCGTTTTACCCTCGATTTACAGAATTA-CATTTTACCCTCAATT
17616748 TACAAAATTACTATTT
65 TACAAAATTACTATTT
* * * * * * *
17616764 TATCTTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATAACCGTTTTACCCTCAATT
1 TACCCTCGATTTATAAAATTACCGTTTTACCCTCGATTTACAGAATTA-CATTTTACCCTCAATT
* *
17616829 TATAAAATTACCATTT
65 TACAAAATTACTATTT
17616845 TACCC
1 TACCC
17616850 CTAGGTGTTA
Statistics
Matches: 280, Mismatches: 47, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
80 1 0.00
81 278 0.99
82 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.40
Consensus pattern (80 bp):
TACCCTCGATTTATAAAATTACCGTTTTACCCTCGATTTACAGAATTACATTTTACCCTCAATTT
ACAAAATTACTATTT
Found at i:17617363 original size:6 final size:6
Alignment explanation
Indices: 17617354--17617497 Score: 127
Period size: 6 Copynumber: 23.8 Consensus size: 6
17617344 TTACATTCAC
* * * *
17617354 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTA ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
17617403 -TTACTA ATACTA ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG
17617451 ATAT-TG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
17617498 CATTTTGGTT
Statistics
Matches: 115, Mismatches: 12, Indels: 22
0.77 0.08 0.15
Matches are distributed among these distances:
5 8 0.07
6 99 0.86
7 6 0.05
8 2 0.02
ACGTcount: A:0.22, C:0.17, G:0.12, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:17617482 original size:42 final size:42
Alignment explanation
Indices: 17617379--17617486 Score: 164
Period size: 42 Copynumber: 2.6 Consensus size: 42
17617369 CTGTCACGTA
* *
17617379 ATTCTAATTCTGATTCTAATTCTGTTACTAATACTAATTCTG
1 ATTCTGATTCTGATTCTGATTCTGTTACTAATACTAATTCTG
* *
17617421 ATTCTGATTCTGATTCTGATTCTGTTACTAATATTGATTCTG
1 ATTCTGATTCTGATTCTGATTCTGTTACTAATACTAATTCTG
17617463 ATTCTGATTCTG-TTACTGATTCTG
1 ATTCTGATTCTGATT-CTGATTCTG
17617487 ATTCTGATTC
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
41 2 0.03
42 59 0.97
ACGTcount: A:0.23, C:0.16, G:0.12, T:0.49
Consensus pattern (42 bp):
ATTCTGATTCTGATTCTGATTCTGTTACTAATACTAATTCTG
Found at i:17619193 original size:54 final size:53
Alignment explanation
Indices: 17619109--17619251 Score: 153
Period size: 54 Copynumber: 2.6 Consensus size: 53
17619099 TGAAGGGTAG
* * ***
17619109 AATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCC-CTAGTTTGTAA
1 AATTACCAAAATACCC-TGATTTGTAAAATTACCAAAATACCCTC-AACCTGTAA
* **
17619163 AATTACCAAAATACCTCTGATTTGTGAAATTATTAAAATACCCTCAACCTGTAA
1 AATTACCAAAATACC-CTGATTTGTAAAATTACCAAAATACCCTCAACCTGTAA
* *
17619217 AATTACTAAAATACCCTCGACTTGTAAAATTACCA
1 AATTACCAAAATACCCT-GATTTGTAAAATTACCA
17619252 CAGTACCTTC
Statistics
Matches: 73, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
53 2 0.03
54 69 0.95
55 2 0.03
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (53 bp):
AATTACCAAAATACCCTGATTTGTAAAATTACCAAAATACCCTCAACCTGTAA
Found at i:17619263 original size:27 final size:27
Alignment explanation
Indices: 17619109--17619251 Score: 137
Period size: 27 Copynumber: 5.3 Consensus size: 27
17619099 TGAAGGGTAG
* ** *
17619109 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTCGACTTGTAA
* *
17619136 AATTACCAAAATACCC-CTAGTTTGTAA
1 AATTACCAAAATACCCTCGA-CTTGTAA
* *
17619163 AATTACCAAAATA-CCTCTGATTTGTGA
1 AATTACCAAAATACCCTC-GACTTGTAA
** * *
17619190 AATTATTAAAATACCCTCAACCTGTAA
1 AATTACCAAAATACCCTCGACTTGTAA
*
17619217 AATTACTAAAATACCCTCGACTTGTAA
1 AATTACCAAAATACCCTCGACTTGTAA
17619244 AATTACCA
1 AATTACCA
17619252 CAGTACCTTC
Statistics
Matches: 96, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
26 2 0.02
27 89 0.93
28 5 0.05
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTCGACTTGTAA
Found at i:17619285 original size:27 final size:27
Alignment explanation
Indices: 17619255--17620393 Score: 1901
Period size: 27 Copynumber: 42.2 Consensus size: 27
17619245 ATTACCACAG
*
17619255 TACCTTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTATCGTTT
* *
17619282 TACCCTCAATTTATAAAATTA-CTGTTT
1 TACCCTCGATTTACAAAATTATC-GTTT
17619309 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTATCGTTT
17619336 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTATCGTTT
17619363 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTATCGTTT
17619390 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTATCGTTT
17619417 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTATCGTTT
17619444 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTATCGTTT
17619471 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTATCGTTT
17619498 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTATCGTTT
17619525 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTATCGTTT
17619552 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTATCGTTT
17619579 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTATCGTTT
17619606 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTATCGTTT
17619633 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTATCGTTT
17619660 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTATCGTTT
17619687 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTATCGTTT
17619714 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTATCGTTT
17619741 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTATCGTTT
17619768 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTATCGTTT
17619795 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTATCGTTT
17619822 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTATCGTTT
17619849 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTATCGTTT
17619876 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTATCGTTT
17619903 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTATCGTTT
17619930 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTATCGTTT
17619957 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTATCGTTT
17619984 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTATCGTTT
17620011 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTATCGTTT
17620038 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTATCGTTT
17620065 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTATCGTTT
*
17620092 TACCCTCGATTTACAAAATTA-CTATTT
1 TACCCTCGATTTACAAAATTATC-GTTT
** *
17620119 TACCCTCGATTTACAAAATTGCCATTT
1 TACCCTCGATTTACAAAATTATCGTTT
* * * *
17620146 TATCATCGATTTATAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTATCGTTT
* *
17620173 TACCCTCAATTTACAAAATTA-CTATTT
1 TACCCTCGATTTACAAAATTATC-GTTT
*
17620200 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTATCGTTT
* *
17620227 TACCCTCAATTTACAAAATTA-CTATTT
1 TACCCTCGATTTACAAAATTATC-GTTT
* * *
17620254 TACCCTCAATTTATAGAATTATCGTTT
1 TACCCTCGATTTACAAAATTATCGTTT
* * *
17620281 TACCTTCAATTTACAAAATTA-CTATTT
1 TACCCTCGATTTACAAAATTATC-GTTT
* * * *
17620308 TATCTTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTATCGTTT
* * * *
17620335 TACCCTCGATTTATAGAATAACCGTTT
1 TACCCTCGATTTACAAAATTATCGTTT
* * *
17620362 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTATCGTTT
17620389 TACCC
1 TACCC
17620394 CTAGGTGTTA
Statistics
Matches: 1063, Mismatches: 39, Indels: 20
0.95 0.03 0.02
Matches are distributed among these distances:
26 5 0.00
27 1053 0.99
28 5 0.00
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTATCGTTT
Found at i:17620667 original size:27 final size:26
Alignment explanation
Indices: 17620627--17620678 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
17620617 CTCGTTGCAA
*
17620627 TCTGGTGGCCTCGCCACATATATCTGC
1 TCTGGTGACCTCGCCACA-ATATCTGC
*
17620654 TCTGGTGACTTCGCCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
17620679 GCAGCCTCGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.17, C:0.31, G:0.21, T:0.31
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGC
Found at i:17620709 original size:40 final size:40
Alignment explanation
Indices: 17620654--17620787 Score: 110
Period size: 40 Copynumber: 3.6 Consensus size: 40
17620644 ATATATCTGC
* *
17620654 TCTGGTGACTTCGCCACA-ATATCTGGCAGCCTCGCTGCAA
1 TCTGGTGGCCTCGCCACATATATCTGGCAGCCTCGCT-CAA
* *
17620694 TCTGGTGGCCTCGCCACATATATAT---A---T--CT-AT
1 TCTGGTGGCCTCGCCACATATATCTGGCAGCCTCGCTCAA
* **
17620725 TCTAGTGGCCTAACCACA-ATATCTGGCAGCCTCGCTACAA
1 TCTGGTGGCCTCGCCACATATATCTGGCAGCCTCGCT-CAA
17620765 TCTGGTGGCCTCGCCACATATAT
1 TCTGGTGGCCTCGCCACATATAT
17620788 ATATCTGTTC
Statistics
Matches: 70, Mismatches: 12, Indels: 23
0.67 0.11 0.22
Matches are distributed among these distances:
30 5 0.07
31 16 0.23
33 3 0.04
35 1 0.01
36 1 0.01
38 3 0.04
40 32 0.46
41 9 0.13
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.28
Consensus pattern (40 bp):
TCTGGTGGCCTCGCCACATATATCTGGCAGCCTCGCTCAA
Found at i:17620757 original size:71 final size:71
Alignment explanation
Indices: 17620608--17620836 Score: 349
Period size: 71 Copynumber: 3.3 Consensus size: 71
17620598 GAGGAAGCAT
* * * * * **
17620608 TCTGGCAGCCTCGTTGCAATCTGGTGGCCTCGCCAC----ATATATCTGCTCTGGTGACTTCGCC
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATATATCTGTTCTAGTGGCCTAACC
17620669 ACAATA
66 ACAATA
*
17620675 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATATATCTATTCTAGTGGCCTAACC
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATATATCTGTTCTAGTGGCCTAACC
17620740 ACAATA
66 ACAATA
*
17620746 TCTGGCAGCCTCGCTACAATCTGGTGGCCTCGCCACATATATATATCTGTTCTAGTGGCCTAACC
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATATATCTGTTCTAGTGGCCTAACC
17620811 ACAATA
66 ACAATA
17620817 TCTGGCAGCCTCGCTGCAAT
1 TCTGGCAGCCTCGCTGCAAT
17620837 TTCTGTGGTG
Statistics
Matches: 147, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
67 35 0.24
71 112 0.76
ACGTcount: A:0.21, C:0.31, G:0.20, T:0.28
Consensus pattern (71 bp):
TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATATATCTGTTCTAGTGGCCTAACC
ACAATA
Found at i:17620948 original size:6 final size:6
Alignment explanation
Indices: 17620939--17621094 Score: 155
Period size: 6 Copynumber: 25.8 Consensus size: 6
17620929 TTGCATTCAC
* *
17620939 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG
*
17620988 ATTCTG -TTACTA ATAT-TG ATTCTG ATTCTG ATTCT- ATTACTG ATTCTG
1 ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG
*
17621036 ATTCTG ATTCTG -TTACTA ATAT-TG ATTCTG ATTCTG -TTACTG ATTCTG
1 ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG ATT-CTG ATTCTG
17621084 ATTCTG ATTCT
1 ATTCTG ATTCT
17621095 CATTTTGGTT
Statistics
Matches: 127, Mismatches: 8, Indels: 30
0.77 0.05 0.18
Matches are distributed among these distances:
5 12 0.09
6 103 0.81
7 9 0.07
8 3 0.02
ACGTcount: A:0.21, C:0.16, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:17621031 original size:54 final size:54
Alignment explanation
Indices: 17620964--17621094 Score: 230
Period size: 54 Copynumber: 2.4 Consensus size: 54
17620954 CTGTCACGTA
17620964 ATTCTGATTCTGATTCTGATTCTGATTCTGTTACTAATATTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTGATTCTGATTCTGTTACTAATATTGATTCTGATTCTG
17621018 ATTCT-ATTACTGATTCTGATTCTGATTCTGTTACTAATATTGATTCTGATTCTG
1 ATTCTGATT-CTGATTCTGATTCTGATTCTGTTACTAATATTGATTCTGATTCTG
17621072 -TTACTGATTCTGATTCTGATTCT
1 ATT-CTGATTCTGATTCTGATTCT
17621095 CATTTTGGTT
Statistics
Matches: 74, Mismatches: 0, Indels: 6
0.93 0.00 0.08
Matches are distributed among these distances:
53 5 0.07
54 66 0.89
55 3 0.04
ACGTcount: A:0.21, C:0.15, G:0.14, T:0.50
Consensus pattern (54 bp):
ATTCTGATTCTGATTCTGATTCTGATTCTGTTACTAATATTGATTCTGATTCTG
Found at i:17621320 original size:49 final size:49
Alignment explanation
Indices: 17621263--17621360 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
17621253 TTATAGTAGG
17621263 GGATTTCACACTGAGTTTTCGTAAACTCACCACGTTTATTAACCTTTCA
1 GGATTTCACACTGAGTTTTCGTAAACTCACCACGTTTATTAACCTTTCA
*
17621312 GGATTTCACACTGAGTTTTCGTAAACTCACCCCGTTTATTAACCTTTCA
1 GGATTTCACACTGAGTTTTCGTAAACTCACCACGTTTATTAACCTTTCA
17621361 AGTAATTTCC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.37
Consensus pattern (49 bp):
GGATTTCACACTGAGTTTTCGTAAACTCACCACGTTTATTAACCTTTCA
Found at i:17638446 original size:27 final size:28
Alignment explanation
Indices: 17638416--17638469 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
17638406 ATTGTTAAAA
17638416 TTCTTCCAAAA-GAAAACTC-AAGAGAAC
1 TTCTT-CAAAAGGAAAACTCAAAGAGAAC
*
17638443 TTCTTGAAAAGGAAAACTCAAAGAGAA
1 TTCTTCAAAAGGAAAACTCAAAGAGAA
17638470 TTTATTAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 4 0.17
27 13 0.54
28 7 0.29
ACGTcount: A:0.50, C:0.17, G:0.15, T:0.19
Consensus pattern (28 bp):
TTCTTCAAAAGGAAAACTCAAAGAGAAC
Found at i:17640756 original size:20 final size:20
Alignment explanation
Indices: 17640712--17640750 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
17640702 TATAGGATTA
*
17640712 CACTTCGGTGCTTCCGTTTG
1 CACTTCAGTGCTTCCGTTTG
*
17640732 CACTTCAGTGCTTCTGTTT
1 CACTTCAGTGCTTCCGTTT
17640751 AGACTTTGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.08, C:0.28, G:0.21, T:0.44
Consensus pattern (20 bp):
CACTTCAGTGCTTCCGTTTG
Found at i:17641459 original size:100 final size:100
Alignment explanation
Indices: 17641269--17641461 Score: 280
Period size: 101 Copynumber: 1.9 Consensus size: 100
17641259 TAACGAGACA
* * * * *
17641269 GATTGATTAGAAGCTTACACTATTCAGCCATTTTGGTAGTTTTCATATATTTTTTTTGGGTTGTG
1 GATTGACTAGAAGCTCACACTATCCAGCAATTTTGGTAGTTTT-ATATATTTTTTTTGGGATGTG
*
17641334 GCATGTATATAGCTGTTTTGTTGTAAATGTGTGATG
65 GCATGTATATAGCTGTTTTATTGTAAATGTGTGATG
* *
17641370 GATTGACTAGAAGCTCACACTATCCAGTAATTTTGGTAGTTTT-TGTATTTTGTTTTGGGATGTG
1 GATTGACTAGAAGCTCACACTATCCAGCAATTTTGGTAGTTTTATATATTTT-TTTTGGGATGTG
*
17641434 GCATGTATATAGGTGTTTTATTGTAAAT
65 GCATGTATATAGCTGTTTTATTGTAAAT
17641462 ATGGAAATGT
Statistics
Matches: 82, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
99 7 0.09
100 37 0.45
101 38 0.46
ACGTcount: A:0.23, C:0.09, G:0.23, T:0.46
Consensus pattern (100 bp):
GATTGACTAGAAGCTCACACTATCCAGCAATTTTGGTAGTTTTATATATTTTTTTTGGGATGTGG
CATGTATATAGCTGTTTTATTGTAAATGTGTGATG
Found at i:17645707 original size:46 final size:47
Alignment explanation
Indices: 17645625--17645736 Score: 163
Period size: 46 Copynumber: 2.4 Consensus size: 47
17645615 ATAAGTACCT
* *
17645625 CCATAGCCAAATCAAGGTAACTTATCCCAGAGTACCTATACCATGGC
1 CCATAGCCAAATCAAGGTAACTCATCCCAGAATACCTATACCATGGC
* * * *
17645672 CCGT-GCCAAATCAAGGTAACTCCTCTCTGAATACCTATACCATGGC
1 CCATAGCCAAATCAAGGTAACTCATCCCAGAATACCTATACCATGGC
17645718 CCATAGCCAAATCAAGGTA
1 CCATAGCCAAATCAAGGTA
17645737 TTATTCACAC
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
46 40 0.70
47 17 0.30
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.21
Consensus pattern (47 bp):
CCATAGCCAAATCAAGGTAACTCATCCCAGAATACCTATACCATGGC
Found at i:17648650 original size:40 final size:40
Alignment explanation
Indices: 17648595--17648675 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
17648585 GTGCTTTACC
17648595 TAGTGATATGGAGAATCCGAGGAATCTAGGAAAAGAGCAT
1 TAGTGATATGGAGAATCCGAGGAATCTAGGAAAAGAGCAT
17648635 TAGTGATATGGAGAATCCGAGGAATCTAGGAAAAGAGCAT
1 TAGTGATATGGAGAATCCGAGGAATCTAGGAAAAGAGCAT
17648675 T
1 T
17648676 GTAAAGCATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.40, C:0.10, G:0.30, T:0.21
Consensus pattern (40 bp):
TAGTGATATGGAGAATCCGAGGAATCTAGGAAAAGAGCAT
Found at i:17669791 original size:40 final size:40
Alignment explanation
Indices: 17669742--17669969 Score: 343
Period size: 40 Copynumber: 5.7 Consensus size: 40
17669732 CCTACTTGCT
*
17669742 CAAATGCCTTCGGGACTTAGCCCAGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
17669782 CAAATGCCTTCAGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
17669822 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
17669862 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
** * *
17669902 CAAATGCCTTCGGG-CTTAGCCC-GAAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * *
17669941 CAAATACCTTCGGGACTTAACCTGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
17669970 CATCCGAATA
Statistics
Matches: 173, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
38 3 0.02
39 31 0.18
40 137 0.79
41 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:17682367 original size:43 final size:43
Alignment explanation
Indices: 17682263--17682367 Score: 113
Period size: 43 Copynumber: 2.4 Consensus size: 43
17682253 TGAGATTACG
* * * ** *
17682263 TGTAAGACCATGTCTAGGACATTGGCATCGTTAATCGATTTCG
1 TGTAAGACCATGTCTGGGACAGTGGCATCATTAATCGATAACA
* *
17682306 TGTAAGACCCTGTATGGGACAGTGGCATCATTATAT-GATAACA
1 TGTAAGACCATGTCTGGGACAGTGGCATCATTA-ATCGATAACA
*
17682349 TGTAAGACCATATCTGGGA
1 TGTAAGACCATGTCTGGGA
17682368 TATGGCGTTG
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
43 48 0.96
44 2 0.04
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.30
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACAGTGGCATCATTAATCGATAACA
Found at i:17690788 original size:19 final size:19
Alignment explanation
Indices: 17690761--17690797 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
17690751 TTACACAGCT
*
17690761 AGAGGACACGAGCGTGTTG
1 AGAGCACACGAGCGTGTTG
17690780 AGAGCACACGAGCGTGTT
1 AGAGCACACGAGCGTGTT
17690798 CCTTGTCTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.19, G:0.38, T:0.16
Consensus pattern (19 bp):
AGAGCACACGAGCGTGTTG
Found at i:17691699 original size:46 final size:46
Alignment explanation
Indices: 17691589--17691710 Score: 138
Period size: 46 Copynumber: 2.7 Consensus size: 46
17691579 CAACTCGTAT
* * ** * *
17691589 GAGCTTACTGATTTAGCTCGTAAGAGCTTACTATTTCAACTCATTG
1 GAGCTTACCGATTCAGCTCAAAAGAGCTTACTATTTCAACTCAATA
* *
17691635 GAGCTTACCGATTCAGCTCAAAAGAGCTTACTA-TTCAGCTTAATA
1 GAGCTTACCGATTCAGCTCAAAAGAGCTTACTATTTCAACTCAATA
* *
17691680 GAGCTTACCGTTTCTAGCTCAATAGAGCTTA
1 GAGCTTACCGATTC-AGCTCAAAAGAGCTTA
17691711 TTGTTTATCA
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
45 21 0.32
46 44 0.68
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (46 bp):
GAGCTTACCGATTCAGCTCAAAAGAGCTTACTATTTCAACTCAATA
Found at i:17691703 original size:24 final size:23
Alignment explanation
Indices: 17691611--17691710 Score: 96
Period size: 23 Copynumber: 4.3 Consensus size: 23
17691601 TTAGCTCGTA
** * *
17691611 AGAGCTTACTATTTCAACTCATT
1 AGAGCTTACCGTTTCAGCTCAAT
* * *
17691634 GGAGCTTACCGATTCAGCTCAAA
1 AGAGCTTACCGTTTCAGCTCAAT
*
17691657 AGAGCTTA-C-TATTCAGCTTAAT
1 AGAGCTTACCGT-TTCAGCTCAAT
17691679 AGAGCTTACCGTTTCTAGCTCAAT
1 AGAGCTTACCGTTTC-AGCTCAAT
17691703 AGAGCTTA
1 AGAGCTTA
17691711 TTGTTTATCA
Statistics
Matches: 61, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
22 18 0.30
23 27 0.44
24 16 0.26
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (23 bp):
AGAGCTTACCGTTTCAGCTCAAT
Found at i:17691716 original size:24 final size:24
Alignment explanation
Indices: 17691589--17691725 Score: 88
Period size: 23 Copynumber: 5.9 Consensus size: 24
17691579 CAACTCGTAT
* *
17691589 GAGCTTACTGATT-TAGCTC-GTAA
1 GAGCTTACTGTTTCTAGCTCAAT-A
* * * *
17691612 GAGCTTACTATTTC-AACTCATTG
1 GAGCTTACTGTTTCTAGCTCAATA
* * *
17691635 GAGCTTACCGATTC-AGCTCAAAA
1 GAGCTTACTGTTTCTAGCTCAATA
* *
17691658 GAGCTTACT-ATTC-AGCTTAATA
1 GAGCTTACTGTTTCTAGCTCAATA
*
17691680 GAGCTTACCGTTTCTAGCTCAATA
1 GAGCTTACTGTTTCTAGCTCAATA
* *
17691704 GAGCTTATTGTTTATCAGCTCA
1 GAGCTTACTGTTTCT-AGCTCA
17691726 GGAGGAGCTT
Statistics
Matches: 88, Mismatches: 21, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
22 19 0.22
23 42 0.48
24 21 0.24
25 6 0.07
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (24 bp):
GAGCTTACTGTTTCTAGCTCAATA
Found at i:17694162 original size:40 final size:40
Alignment explanation
Indices: 17694107--17694188 Score: 123
Period size: 40 Copynumber: 2.0 Consensus size: 40
17694097 CGGATGATAA
*
17694107 CCGGGCTAAGTCCCGAAGGCA-TTGTTGCGAGTTA-CTATAT
1 CCGGGCTAAGTCCCGAAGGCAGTTG-AGCGAG-TAGCTATAT
17694147 CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAGTAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAGTAGCTATAT
17694187 CC
1 CC
17694189 AGCTAAATCA
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
39 2 0.05
40 34 0.87
41 3 0.08
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAGTAGCTATAT
Found at i:17695615 original size:69 final size:69
Alignment explanation
Indices: 17695528--17695665 Score: 267
Period size: 69 Copynumber: 2.0 Consensus size: 69
17695518 TTCGACTCCG
*
17695528 GCAACGGTCTTGGGTACGGGGTGTTACAATTTTATTGGTATCAGAGCTACGGTTTAGTCGATTCT
1 GCAACGGTCTCGGGTACGGGGTGTTACAATTTTATTGGTATCAGAGCTACGGTTTAGTCGATTCT
17695593 AGGA
66 AGGA
17695597 GCAACGGTCTCGGGTACGGGGTGTTACAATTTTATTGGTATCAGAGCTACGGTTTAGTCGATTCT
1 GCAACGGTCTCGGGTACGGGGTGTTACAATTTTATTGGTATCAGAGCTACGGTTTAGTCGATTCT
17695662 AGGA
66 AGGA
17695666 CTACCGTAAT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.22, C:0.15, G:0.30, T:0.33
Consensus pattern (69 bp):
GCAACGGTCTCGGGTACGGGGTGTTACAATTTTATTGGTATCAGAGCTACGGTTTAGTCGATTCT
AGGA
Found at i:17696162 original size:297 final size:297
Alignment explanation
Indices: 17695628--17696219 Score: 1166
Period size: 297 Copynumber: 2.0 Consensus size: 297
17695618 TGTTACAATT
17695628 TTATTGGTATCAGAGCTACGGTTTAGTCGATTCTAGGACTACCGTAATACGTTTGGGTCTAGCTA
1 TTATTGGTATCAGAGCTACGGTTTAGTCGATTCTAGGACTACCGTAATACGTTTGGGTCTAGCTA
17695693 TACATGCCATTATGTGATTATTTGATAGTGTGGTGATTTCTGACAATTGAAAATGTGTTTAGTTA
66 TACATGCCATTATGTGATTATTTGATAGTGTGGTGATTTCTGACAATTGAAAATGTGTTTAGTTA
17695758 TAGTAATGGATCCCGATCCCAACCGAGCGGTAGCTGATGATCTTGAGAGTGTAGCGCCTGGTCCC
131 TAGTAATGGATCCCGATCCCAACCGAGCGGTAGCTGATGATCTTGAGAGTGTAGCGCCTGGTCCC
17695823 GCATAAGGGACAGCGCCAGCGGACTCTCAACCTATTGCTAGTAATCCGAATGATGAAGCTAGACA
196 GCATAAGGGACAGCGCCAGCGGACTCTCAACCTATTGCTAGTAATCCGAATGATGAAGCTAGACA
17695888 AGCTTGCATGCCTGCAGGTCGACTCTAGAGGATCCCC
261 AGCTTGCATGCCTGCAGGTCGACTCTAGAGGATCCCC
17695925 TTATTGGTATCAGAGCTACGGTTTAGTCGATTCTAGGACTACCGTAATACGTTTGGGTCTAGCTA
1 TTATTGGTATCAGAGCTACGGTTTAGTCGATTCTAGGACTACCGTAATACGTTTGGGTCTAGCTA
*
17695990 TACATGCCATTATGTGATTATTTGATAGTGTGGTGATTTCTGACAATTGAAAATGTGTTTATTTA
66 TACATGCCATTATGTGATTATTTGATAGTGTGGTGATTTCTGACAATTGAAAATGTGTTTAGTTA
*
17696055 TAGTAATGGATCCTGATCCCAACCGAGCGGTAGCTGATGATCTTGAGAGTGTAGCGCCTGGTCCC
131 TAGTAATGGATCCCGATCCCAACCGAGCGGTAGCTGATGATCTTGAGAGTGTAGCGCCTGGTCCC
17696120 GCATAAGGGACAGCGCCAGCGGACTCTCAACCTATTGCTAGTAATCCGAATGATGAAGCTAGACA
196 GCATAAGGGACAGCGCCAGCGGACTCTCAACCTATTGCTAGTAATCCGAATGATGAAGCTAGACA
17696185 AGCTTGCATGCCTGCAGGTCGACTCTAGAGGATCC
261 AGCTTGCATGCCTGCAGGTCGACTCTAGAGGATCC
17696220 AGTTATAGTA
Statistics
Matches: 293, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
297 293 1.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.29
Consensus pattern (297 bp):
TTATTGGTATCAGAGCTACGGTTTAGTCGATTCTAGGACTACCGTAATACGTTTGGGTCTAGCTA
TACATGCCATTATGTGATTATTTGATAGTGTGGTGATTTCTGACAATTGAAAATGTGTTTAGTTA
TAGTAATGGATCCCGATCCCAACCGAGCGGTAGCTGATGATCTTGAGAGTGTAGCGCCTGGTCCC
GCATAAGGGACAGCGCCAGCGGACTCTCAACCTATTGCTAGTAATCCGAATGATGAAGCTAGACA
AGCTTGCATGCCTGCAGGTCGACTCTAGAGGATCCCC
Found at i:17696334 original size:170 final size:170
Alignment explanation
Indices: 17696052--17696359 Score: 544
Period size: 170 Copynumber: 1.8 Consensus size: 170
17696042 ATGTGTTTAT
* *
17696052 TTATAGTAATGGATCCTGATCCCAACCGAGCGGTAGCTGATGATCTTGAGAGTGTAGCGCCTGGT
1 TTATAGTAATGGATCCCGATCCCAACCGAGCGGTAGCTGATGATCTTGAGAGTGTAGCGCCTGCT
* * *
17696117 CCCGCATAAGGGACAGCGCCAGCGGACTCTCAACCTATTGCTAGTAATCCGAATGATGAAGCTAG
66 CCCGCACAAGGAACAGCACCAGCGGACTCTCAACCTATTGCTAGTAATCCGAATGATGAAGCTAG
17696182 ACAAGCTTGCATGCCTGCAGGTCGACTCTAGAGGATCCAG
131 ACAAGCTTGCATGCCTGCAGGTCGACTCTAGAGGATCCAG
17696222 TTATAGTAATGGATCCCGATCCCAACCGAGCGGTAGCTGATGATCTTGAGAGTGTAGCGCCTGCT
1 TTATAGTAATGGATCCCGATCCCAACCGAGCGGTAGCTGATGATCTTGAGAGTGTAGCGCCTGCT
* * *
17696287 CCCGCACAAGGAACAGCACCGGCGGACTCTCAAGCTATTGCTAGTAATTCGAATGATGAAGCTAG
66 CCCGCACAAGGAACAGCACCAGCGGACTCTCAACCTATTGCTAGTAATCCGAATGATGAAGCTAG
17696352 ACAAGCTT
131 ACAAGCTT
17696360 TTTATAGCGT
Statistics
Matches: 130, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
170 130 1.00
ACGTcount: A:0.27, C:0.25, G:0.26, T:0.22
Consensus pattern (170 bp):
TTATAGTAATGGATCCCGATCCCAACCGAGCGGTAGCTGATGATCTTGAGAGTGTAGCGCCTGCT
CCCGCACAAGGAACAGCACCAGCGGACTCTCAACCTATTGCTAGTAATCCGAATGATGAAGCTAG
ACAAGCTTGCATGCCTGCAGGTCGACTCTAGAGGATCCAG
Found at i:17702853 original size:40 final size:40
Alignment explanation
Indices: 17702612--17702839 Score: 361
Period size: 40 Copynumber: 5.7 Consensus size: 40
17702602 TATTCGGATG
* *
17702612 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
17702652 A-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
17702691 ATATCCGGGCTAAGTCCCGAAGGCATTTGTACGATTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
17702731 ATAACCGGGCTAAGTCCCGAAGGTATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
17702771 ATAACCGGGCTAAGTCCCGAAGGCACTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
17702811 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
17702840 AGCAAGTAGC
Statistics
Matches: 173, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
39 36 0.21
40 137 0.79
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:17702853 original size:80 final size:80
Alignment explanation
Indices: 17702612--17702878 Score: 353
Period size: 80 Copynumber: 3.4 Consensus size: 80
17702602 TATTCGGATG
* * * *
17702612 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAG-CCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCACTTGTGCGAGTTACTATA-ACCGGGCTAAGTCCCGAAGGC
17702675 ATTTGTGCGAGTTACT
65 ATTTGTGCGAGTTACT
* * * * *
17702691 ATATCCGGGCTAAGTCCCGAAGGCATTTGTACGATTTACTATAACCGGGCTAAGTCCCGAAGGTA
1 ATAACCGGGCTAAGTCCCGAAGGCACTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCA
17702756 TTTGTGCGAGTTACT
66 TTTGTGCGAGTTACT
17702771 ATAACCGGGCTAAGTCCCGAAGGCACTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCACTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCA
* *
17702836 TTTGAGCAAG-TAGCT
66 TTTGTGCGAGTTA-CT
* * * *
17702851 ATATCC-GGCTAAATTCCGAAGGTACTTG
1 ATAACCGGGCTAAGTCCCGAAGGCACTTG
17702879 GTTTGGGAAT
Statistics
Matches: 167, Mismatches: 18, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
79 67 0.40
80 100 0.60
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCACTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCA
TTTGTGCGAGTTACT
Done.