Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 29 of 208
Found at i:11378167 original size:70 final size:64
Alignment explanation
Indices: 11378055--11378200 Score: 220
Period size: 70 Copynumber: 2.2 Consensus size: 64
11378045 ATTATGGTTT
11378055 TGTAAAAAAAAATCAAAAAAAAAATTTTACGGTCTAGGCGCGGACGAAAAGAACGTGAAAGATC
1 TGTAAAAAAAAATCAAAAAAAAAATTTTACGGTCTAGGCGCGGACGAAAAGAACGTGAAAGATC
*
11378119 TGTATAAAAAAATCAAAAAAAAAAAATTTTGCCTACGGTCTAGGCGCGGACGAAAAGAACGTGAA
1 TGTAAAAAAAAATC--AAAAAAAAAA-TTT---TACGGTCTAGGCGCGGACGAAAAGAACGTGAA
11378184 AGATC
60 AGATC
*
11378189 CGTAAAAAAAAA
1 TGTAAAAAAAAA
11378201 GAGTCTGGAA
Statistics
Matches: 73, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
64 13 0.18
66 10 0.14
67 3 0.04
70 47 0.64
ACGTcount: A:0.51, C:0.13, G:0.19, T:0.17
Consensus pattern (64 bp):
TGTAAAAAAAAATCAAAAAAAAAATTTTACGGTCTAGGCGCGGACGAAAAGAACGTGAAAGATC
Found at i:11378360 original size:18 final size:17
Alignment explanation
Indices: 11378337--11378381 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
11378327 ATTCGGTATT
11378337 AAAAAAAAGAGAAATTCA
1 AAAAAAAAGAG-AATTCA
* *
11378355 AAAAAAAATCAGAATTTA
1 AAAAAAAA-GAGAATTCA
11378373 AAAAAAAAG
1 AAAAAAAAG
11378382 TGATTGAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 21 0.91
19 2 0.09
ACGTcount: A:0.73, C:0.04, G:0.09, T:0.13
Consensus pattern (17 bp):
AAAAAAAAGAGAATTCA
Found at i:11383789 original size:45 final size:45
Alignment explanation
Indices: 11383721--11383914 Score: 271
Period size: 45 Copynumber: 4.3 Consensus size: 45
11383711 GAACGGCATG
* **
11383721 AAATTAAGGAAGCATTTGTCCAACATCATGCATAATTTGTGGAAC
1 AAATTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAC
* *
11383766 AAATTAAGGAAGCATTTGACCAACAGCATGCATAATTCATGGAAG
1 AAATTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAC
* * *
11383811 AATTTGAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAG
1 AAATTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAC
* * * *
11383856 AATTTAAGGAAGCATTTGGCCAACATCATGCATAATTTAAGGAAC
1 AAATTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAC
*
11383901 AAATTGAGGAAGCA
1 AAATTAAGGAAGCA
11383915 CCATGGCCGA
Statistics
Matches: 134, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 134 1.00
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (45 bp):
AAATTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAC
Found at i:11396085 original size:6 final size:6
Alignment explanation
Indices: 11396076--11396101 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
11396066 TTTTCTTTTT
11396076 TGAAAA TGAAAA TGAAAA TGAAAA TG
1 TGAAAA TGAAAA TGAAAA TGAAAA TG
11396102 GCTTTTGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.19, T:0.19
Consensus pattern (6 bp):
TGAAAA
Found at i:11409334 original size:18 final size:19
Alignment explanation
Indices: 11409313--11409361 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 19
11409303 TTTATATAAA
11409313 AATAAATTTAAAATATA-T
1 AATAAATTTAAAATATACT
*
11409331 AATACA-TT-AAATATACT
1 AATAAATTTAAAATATACT
11409348 AA-AAATATTAAAAT
1 AATAAAT-TTAAAAT
11409362 TAAATATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
16 9 0.36
17 5 0.20
18 7 0.28
19 4 0.16
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (19 bp):
AATAAATTTAAAATATACT
Found at i:11409503 original size:22 final size:21
Alignment explanation
Indices: 11409456--11409526 Score: 61
Period size: 22 Copynumber: 3.2 Consensus size: 21
11409446 AATACTTCTG
* *
11409456 AAATAATAACAAAATTAACAATA
1 AAATAATAGC-AAA-TAATAATA
*
11409479 AAATAATAGTAATATAATAATA
1 AAATAATAGCAA-ATAATAATA
* * *
11409501 AAATGATAGCAAATAGTAGTA
1 AAATAATAGCAAATAATAATA
11409522 AAATA
1 AAATA
11409527 GTAAAAAACA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
21 11 0.28
22 19 0.49
23 9 0.23
ACGTcount: A:0.63, C:0.04, G:0.07, T:0.25
Consensus pattern (21 bp):
AAATAATAGCAAATAATAATA
Found at i:11413708 original size:7 final size:7
Alignment explanation
Indices: 11413696--11413741 Score: 65
Period size: 7 Copynumber: 6.6 Consensus size: 7
11413686 ATATACCGAA
*
11413696 CTTTTGC
1 CTTTTAC
*
11413703 CTTTTGC
1 CTTTTAC
11413710 CTTTTAC
1 CTTTTAC
11413717 CTTTTAC
1 CTTTTAC
*
11413724 CTTTCAC
1 CTTTTAC
11413731 CTTTTAC
1 CTTTTAC
11413738 CTTT
1 CTTT
11413742 ACTTTTTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.09, C:0.30, G:0.04, T:0.57
Consensus pattern (7 bp):
CTTTTAC
Found at i:11414585 original size:18 final size:18
Alignment explanation
Indices: 11414562--11414615 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
11414552 AAATTCAATT
* * *
11414562 ATTAAAGTGAATATTAAA
1 ATTAAAGTAAACATAAAA
*
11414580 ATTAAATTAAACATAAAA
1 ATTAAAGTAAACATAAAA
*
11414598 ATTAAAGTCACACATAAA
1 ATTAAAGT-AAACATAAA
11414616 TTTAAAAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
18 21 0.72
19 8 0.28
ACGTcount: A:0.59, C:0.07, G:0.06, T:0.28
Consensus pattern (18 bp):
ATTAAAGTAAACATAAAA
Found at i:11420585 original size:2 final size:2
Alignment explanation
Indices: 11420578--11420613 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
11420568 AGAATGCAGT
11420578 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
11420614 TAAAACAGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:11425362 original size:61 final size:60
Alignment explanation
Indices: 11425264--11425386 Score: 153
Period size: 61 Copynumber: 2.0 Consensus size: 60
11425254 GTCATTACAT
11425264 TGAATGCTTTAGCTGTTTTTAGTTTATGATTATGGAGTTGCATT-AAATTTTGAACAAGGA
1 TGAATGCTTTAGCTGTTTTTAGTTTATGATTATGGAGTTGC-TTCAAATTTTGAACAAGGA
* ** *
11425324 TGAATGCTTTAG-TTTTTCTCTAGTTTATTTTTGA-GGAGTTGCTTCAAATTTTGAACGAGGA
1 TGAATGCTTTAGCTGTTT-T-TAGTTTATGATT-ATGGAGTTGCTTCAAATTTTGAACAAGGA
11425385 TG
1 TG
11425387 GACAAGGCTA
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
59 4 0.07
60 15 0.27
61 35 0.64
62 1 0.02
ACGTcount: A:0.25, C:0.08, G:0.22, T:0.45
Consensus pattern (60 bp):
TGAATGCTTTAGCTGTTTTTAGTTTATGATTATGGAGTTGCTTCAAATTTTGAACAAGGA
Found at i:11432459 original size:26 final size:27
Alignment explanation
Indices: 11432409--11432461 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 27
11432399 CCAGAACAAT
*
11432409 AAAGAAAGGTGCCAAAAAACGGCAGAC
1 AAAGAAACGTGCCAAAAAACGGCAGAC
11432436 AAAGAAACGTGCC-AAAAACGGCAGAC
1 AAAGAAACGTGCCAAAAAACGGCAGAC
11432462 TCATTCTACA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 13 0.52
27 12 0.48
ACGTcount: A:0.51, C:0.21, G:0.25, T:0.04
Consensus pattern (27 bp):
AAAGAAACGTGCCAAAAAACGGCAGAC
Found at i:11434908 original size:24 final size:24
Alignment explanation
Indices: 11434881--11434932 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
11434871 TTAGTAAGTC
*
11434881 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
11434905 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
11434929 AAAT
1 AAAT
11434933 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:11436864 original size:24 final size:24
Alignment explanation
Indices: 11436837--11436888 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
11436827 TTAGTAAGTC
*
11436837 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
11436861 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
11436885 AAAT
1 AAAT
11436889 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:11438820 original size:24 final size:24
Alignment explanation
Indices: 11438793--11438844 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
11438783 TTAGTAAGTC
*
11438793 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
11438817 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
11438841 AAAT
1 AAAT
11438845 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:11440835 original size:31 final size:30
Alignment explanation
Indices: 11440778--11440844 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 30
11440768 ATATATATAT
*
11440778 TAATTTGGTGCAATTATACACGTGAAACTC
1 TAATTTGGTGCAAATATACACGTGAAACTC
* * * *
11440808 TAATTGTGGTTCAAATATATACTTGAAACTT
1 TAATT-TGGTGCAAATATACACGTGAAACTC
11440839 TAATTT
1 TAATTT
11440845 TGACTTAATC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 6 0.19
31 25 0.81
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (30 bp):
TAATTTGGTGCAAATATACACGTGAAACTC
Found at i:11442093 original size:29 final size:30
Alignment explanation
Indices: 11442035--11442102 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
11442025 AAAATAATAC
* *
11442035 ATGAACTTTGATTTAATATGCAATTATATAT
1 ATGAATTTTGATTT-ATATGCAATTATATAA
* *
11442066 ATGAATTTTGATTT-TATGTAATTTTATAA
1 ATGAATTTTGATTTATATGCAATTATATAA
11442095 AT-AATTTT
1 ATGAATTTT
11442103 TTATTGATCA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 6 0.18
29 14 0.42
31 13 0.39
ACGTcount: A:0.37, C:0.03, G:0.09, T:0.51
Consensus pattern (30 bp):
ATGAATTTTGATTTATATGCAATTATATAA
Found at i:11442614 original size:25 final size:25
Alignment explanation
Indices: 11442586--11442638 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
11442576 TCTTTTCTTC
*
11442586 TTTTACAAAATTTAATCA-TTTTATT
1 TTTTACAAAAGTTAAT-ATTTTTATT
* *
11442611 TTTTCCATAAGTTAATATTTTTATT
1 TTTTACAAAAGTTAATATTTTTATT
11442636 TTT
1 TTT
11442639 GCGCAACCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 1 0.04
25 23 0.96
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (25 bp):
TTTTACAAAAGTTAATATTTTTATT
Found at i:11442816 original size:21 final size:21
Alignment explanation
Indices: 11442790--11442833 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
11442780 TTCAGGATTT
*
11442790 GGGTTCGAGATTTAAGGTTTA
1 GGGTTCGAGATTCAAGGTTTA
11442811 GGGTTCGAGATTCAAGGTTTA
1 GGGTTCGAGATTCAAGGTTTA
11442832 GG
1 GG
11442834 TCTAGGGTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.07, G:0.36, T:0.34
Consensus pattern (21 bp):
GGGTTCGAGATTCAAGGTTTA
Found at i:11443991 original size:16 final size:17
Alignment explanation
Indices: 11443957--11443998 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
11443947 CAGGCCCAAA
11443957 CCCAAAATAAACAGAGG
1 CCCAAAATAAACAGAGG
* *
11443974 CCCAAAAT-TACAGTGG
1 CCCAAAATAAACAGAGG
11443990 CCCAAAATA
1 CCCAAAATA
11443999 GTTTCAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.48, C:0.26, G:0.14, T:0.12
Consensus pattern (17 bp):
CCCAAAATAAACAGAGG
Found at i:11447069 original size:24 final size:24
Alignment explanation
Indices: 11447042--11447091 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
11447032 TTACCTTTAA
11447042 ATTTCCCTTTAG-ATTCATTTATAT
1 ATTT-CCTTTAGAATTCATTTATAT
* *
11447066 ATTTTCTTTCGAATTCATTTATAT
1 ATTTCCTTTAGAATTCATTTATAT
11447090 AT
1 AT
11447092 ACACATACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.26, C:0.14, G:0.04, T:0.56
Consensus pattern (24 bp):
ATTTCCTTTAGAATTCATTTATAT
Found at i:11451705 original size:31 final size:31
Alignment explanation
Indices: 11451670--11451732 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
11451660 TACGTTTAAT
11451670 GAAGTAACACACACTCATAAGCATACAATAA
1 GAAGTAACACACACTCATAAGCATACAATAA
11451701 GAAGTAACACACACTCATAAGCATACAATAA
1 GAAGTAACACACACTCATAAGCATACAATAA
11451732 G
1 G
11451733 GAAAACAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.51, C:0.22, G:0.11, T:0.16
Consensus pattern (31 bp):
GAAGTAACACACACTCATAAGCATACAATAA
Found at i:11462007 original size:67 final size:67
Alignment explanation
Indices: 11461926--11462060 Score: 270
Period size: 67 Copynumber: 2.0 Consensus size: 67
11461916 AAAACGGCAT
11461926 CTATTTTTATTTATCAGCATGCAGAATGTGCAGTTAATTCATTATGAACTTCAAATAGGATTCGT
1 CTATTTTTATTTATCAGCATGCAGAATGTGCAGTTAATTCATTATGAACTTCAAATAGGATTCGT
11461991 GA
66 GA
11461993 CTATTTTTATTTATCAGCATGCAGAATGTGCAGTTAATTCATTATGAACTTCAAATAGGATTCGT
1 CTATTTTTATTTATCAGCATGCAGAATGTGCAGTTAATTCATTATGAACTTCAAATAGGATTCGT
11462058 GA
66 GA
11462060 C
1 C
11462061 AAATGTACCT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.39
Consensus pattern (67 bp):
CTATTTTTATTTATCAGCATGCAGAATGTGCAGTTAATTCATTATGAACTTCAAATAGGATTCGT
GA
Found at i:11470814 original size:24 final size:28
Alignment explanation
Indices: 11470778--11470833 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
11470768 ATATAATTTC
11470778 TTTTTATATTT-A-A-ATTTATGTTATG
1 TTTTTATATTTAACATATTTATGTTATG
* *
11470803 TTTTTTTATTAAACATATTTATGTTATG
1 TTTTTATATTTAACATATTTATGTTATG
11470831 TTT
1 TTT
11470834 AAATTATCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 9 0.35
26 1 0.04
27 1 0.04
28 15 0.58
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.64
Consensus pattern (28 bp):
TTTTTATATTTAACATATTTATGTTATG
Found at i:11474584 original size:6 final size:6
Alignment explanation
Indices: 11474573--11474597 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
11474563 TTAATATTGA
11474573 AATTTT AATTTT AATTTT AATTTT A
1 AATTTT AATTTT AATTTT AATTTT A
11474598 TAGAATGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
AATTTT
Found at i:11482399 original size:17 final size:16
Alignment explanation
Indices: 11482374--11482410 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
11482364 ATTAATAAGT
*
11482374 TTATTATTATTTAATTA
1 TTATGATTATTT-ATTA
11482391 TTATGATTATTTATTA
1 TTATGATTATTTATTA
11482407 TTAT
1 TTAT
11482411 ATTTCTCTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (16 bp):
TTATGATTATTTATTA
Found at i:11483821 original size:24 final size:23
Alignment explanation
Indices: 11483794--11483839 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
11483784 AAAAGAAAAA
*
11483794 GTCTGTCGTATTGGCATGTTTTTC
1 GTCTG-CGTATTGGCACGTTTTTC
*
11483818 GTCTGCTTATTGGCACGTTTTT
1 GTCTGCGTATTGGCACGTTTTT
11483840 TTTCTTTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.09, C:0.17, G:0.24, T:0.50
Consensus pattern (23 bp):
GTCTGCGTATTGGCACGTTTTTC
Found at i:11502168 original size:132 final size:132
Alignment explanation
Indices: 11500974--11502091 Score: 2146
Period size: 132 Copynumber: 8.5 Consensus size: 132
11500964 TGCCATCGTC
* * * *
11500974 GATCGGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCATCGTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
11501039 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
11501104 AA
131 AA
11501106 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
11501171 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
11501236 AA
131 AA
*
11501238 GATCTGCTTTTTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
11501303 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
11501368 AA
131 AA
*
11501370 GATCTGCTTTCTTCGATCTACTTCGCCACTAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
11501435 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
11501500 AA
131 AA
11501502 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
11501567 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
11501632 AA
131 AA
*
11501634 TATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
11501699 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
11501764 AA
131 AA
*
11501766 TATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
11501831 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
11501896 AA
131 AA
*
11501898 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCAATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
11501963 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
11502028 AA
131 AA
*
11502030 TATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATC
11502092 TATTCCACTG
Statistics
Matches: 973, Mismatches: 13, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
132 973 1.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (132 bp):
GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
AA
Found at i:11502227 original size:134 final size:133
Alignment explanation
Indices: 11502066--11502314 Score: 453
Period size: 134 Copynumber: 1.9 Consensus size: 133
11502056 CACCAATATG
*
11502066 GGAAGACAAGATCTGCATCTTCGATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCT
1 GGAAGACAAGATCTGCATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCT
11502131 TCAATGTACTCCACTATGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAAT
66 TCAATGTACTCCACTATGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAAT
11502196 ACA
131 ACA
* *
11502199 GGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGT
1 GGAAGACAAGATCTGC-ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGC
*
11502264 TTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTTGATCT
65 TTCAATGTACTCCACTATGGTCAGGGAGGTAAAATCTGCCATCTTTGATCT
11502315 TCAATCTATT
Statistics
Matches: 111, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
133 15 0.14
134 96 0.86
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (133 bp):
GGAAGACAAGATCTGCATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCT
TCAATGTACTCCACTATGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAAT
ACA
Found at i:11502322 original size:95 final size:96
Alignment explanation
Indices: 11502216--11502411 Score: 340
Period size: 95 Copynumber: 2.0 Consensus size: 96
11502206 AAGATCTGCA
* *
11502216 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGTTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCAGCTTCAATGTACTCCACTG
* *
11502281 TGGTC-AGGGAGGTAAAATCTGCCATCTTTG
66 TAGTCAAGGGAGGTAAAATCTGCCATCTTCG
11502311 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCAGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCAGCTTCAATGTACTCCACTG
11502376 TAGTCAAAGGGAGGTAAAATCTGCCATCTTCG
66 TAGTC-AAGGGAGGTAAAATCTGCCATCTTCG
11502408 ATCT
1 ATCT
11502412 GCTTCGCTGC
Statistics
Matches: 95, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
95 67 0.71
97 28 0.29
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (96 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCAGCTTCAATGTACTCCACTG
TAGTCAAGGGAGGTAAAATCTGCCATCTTCG
Found at i:11502525 original size:42 final size:42
Alignment explanation
Indices: 11502478--11502611 Score: 98
Period size: 42 Copynumber: 3.1 Consensus size: 42
11502468 AAACTAGAGT
11502478 GGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAA
1 GGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAA
* * * * * * * *
11502520 GGCAAGATCTGCTATCTTCAACCAGC-TCTACT-ACAA---ACGAGA
1 GGCAAGGT-T--TGTCTTCGATCTGCTTC-GCTGTCAATGCAGGA-A
11502562 GTGTCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAA
1 G-G-CAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAA
11502606 GGCAAG
1 GGCAAG
11502612 ATCTGATAAC
Statistics
Matches: 64, Mismatches: 16, Indels: 24
0.62 0.15 0.23
Matches are distributed among these distances:
41 15 0.23
42 18 0.28
43 4 0.06
44 12 0.19
45 15 0.23
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.28
Consensus pattern (42 bp):
GGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAA
Found at i:11502548 original size:86 final size:86
Alignment explanation
Indices: 11502402--11502665 Score: 402
Period size: 86 Copynumber: 3.1 Consensus size: 86
11502392 AAATCTGCCA
* * * *
11502402 TCTTCGATCTGCTTCGCTGCCAAATACAGGAATGCAAGATCTGATATCTTTAACCAGCTCTGCTA
1 TCTTCGATCTGCTTCGCTGTC-AATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTGCTA
*
11502467 CAAACTAGAGTGGCAAGGTTTG
65 CAAACGAGAGTGGCAAGGTTTG
* *
11502489 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTGCTAC
*
11502554 AAACGAGAGTGTCAAGGTTTG
66 AAACGAGAGTGGCAAGGTTTG
*
11502575 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATAACTTCAACCAGCTCTGCTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTGCTAC
* * * *
11502640 GACCGAGAGAGGCAAGGTTTA
66 AAACGAGAGTGGCAAGGTTTG
11502661 TCTTC
1 TCTTC
11502666 AATTTTTACT
Statistics
Matches: 161, Mismatches: 16, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
86 141 0.88
87 20 0.12
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (86 bp):
TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTGCTAC
AAACGAGAGTGGCAAGGTTTG
Found at i:11509035 original size:3 final size:3
Alignment explanation
Indices: 11509027--11509065 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
11509017 AAGCATAAAC
11509027 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
11509066 CATTGGAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:11514875 original size:2 final size:2
Alignment explanation
Indices: 11514870--11514894 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11514860 CTCTCTCTCT
11514870 CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA C
11514895 TCACTCACTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:11529842 original size:13 final size:13
Alignment explanation
Indices: 11529826--11529850 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11529816 CAACATTTAA
11529826 ATTTTTTCGTAAT
1 ATTTTTTCGTAAT
11529839 ATTTTTTCGTAA
1 ATTTTTTCGTAA
11529851 CAATATTAAA
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:0.24, C:0.08, G:0.08, T:0.60
Consensus pattern (13 bp):
ATTTTTTCGTAAT
Found at i:11535081 original size:24 final size:24
Alignment explanation
Indices: 11535048--11535131 Score: 73
Period size: 24 Copynumber: 3.4 Consensus size: 24
11535038 GATTAGTTGA
11535048 TAGAAAAAAAGTTCAGTATCAATT
1 TAGAAAAAAAGTTCAGTATCAATT
** * * *
11535072 TAGAACAAAAAAAT--GGATTAGTT
1 TAGAA-AAAAAGTTCAGTATCAATT
11535095 GATAGAAAAAAAGTTCAGTATCAATT
1 --TAGAAAAAAAGTTCAGTATCAATT
11535121 TAGAACAAAAA
1 TAGAA-AAAAA
11535132 AAAGCCTTAA
Statistics
Matches: 44, Mismatches: 10, Indels: 11
0.68 0.15 0.17
Matches are distributed among these distances:
23 6 0.14
24 16 0.36
25 16 0.36
26 6 0.14
ACGTcount: A:0.54, C:0.07, G:0.14, T:0.25
Consensus pattern (24 bp):
TAGAAAAAAAGTTCAGTATCAATT
Found at i:11535091 original size:49 final size:49
Alignment explanation
Indices: 11535034--11535133 Score: 200
Period size: 49 Copynumber: 2.0 Consensus size: 49
11535024 GAATATTTTT
11535034 AATGGATTAGTTGATAGAAAAAAAGTTCAGTATCAATTTAGAACAAAAA
1 AATGGATTAGTTGATAGAAAAAAAGTTCAGTATCAATTTAGAACAAAAA
11535083 AATGGATTAGTTGATAGAAAAAAAGTTCAGTATCAATTTAGAACAAAAA
1 AATGGATTAGTTGATAGAAAAAAAGTTCAGTATCAATTTAGAACAAAAA
11535132 AA
1 AA
11535134 AGCCTTAAGT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.52, C:0.06, G:0.16, T:0.26
Consensus pattern (49 bp):
AATGGATTAGTTGATAGAAAAAAAGTTCAGTATCAATTTAGAACAAAAA
Found at i:11546254 original size:31 final size:31
Alignment explanation
Indices: 11546216--11546288 Score: 146
Period size: 31 Copynumber: 2.4 Consensus size: 31
11546206 CTAACGGCTT
11546216 AGTGACTAAAATGTTACAACGTGATAACATA
1 AGTGACTAAAATGTTACAACGTGATAACATA
11546247 AGTGACTAAAATGTTACAACGTGATAACATA
1 AGTGACTAAAATGTTACAACGTGATAACATA
11546278 AGTGACTAAAA
1 AGTGACTAAAA
11546289 CATAACATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.47, C:0.12, G:0.16, T:0.25
Consensus pattern (31 bp):
AGTGACTAAAATGTTACAACGTGATAACATA
Found at i:11546323 original size:29 final size:31
Alignment explanation
Indices: 11546216--11546323 Score: 130
Period size: 31 Copynumber: 3.5 Consensus size: 31
11546206 CTAACGGCTT
* *
11546216 AGTGACTAAAATGTTACAACGTGATAACATA
1 AGTGACTAAAATGTAACAACGTCATAACATA
* *
11546247 AGTGACTAAAATGTTACAACGTGATAACATA
1 AGTGACTAAAATGTAACAACGTCATAACATA
** **
11546278 AGTGACTAAAACATAAC-ATTTCA-AACATA
1 AGTGACTAAAATGTAACAACGTCATAACATA
11546307 AGTGACTAAAATGTAAC
1 AGTGACTAAAATGTAAC
11546324 CTGAGCCAAA
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
29 21 0.30
30 3 0.04
31 45 0.65
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.25
Consensus pattern (31 bp):
AGTGACTAAAATGTAACAACGTCATAACATA
Found at i:11550301 original size:37 final size:37
Alignment explanation
Indices: 11550244--11550348 Score: 169
Period size: 37 Copynumber: 2.9 Consensus size: 37
11550234 TGTGATCACT
*
11550244 TATCAC-TTGTC-CCTGATCAGATAAGTGTAGCCACC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
* *
11550279 TATCACTTTGTTTCTTGATCAGATAAGTGTAGCCACT
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
11550316 TATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGC
11550349 TAAAGCTATC
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
35 6 0.09
36 4 0.06
37 54 0.84
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (37 bp):
TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
Found at i:11550391 original size:52 final size:52
Alignment explanation
Indices: 11550312--11550528 Score: 284
Period size: 52 Copynumber: 4.2 Consensus size: 52
11550302 TAAGTGTAGC
* * *
11550312 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTAT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
*
11550365 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
* * *
11550417 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
* * *
11550463 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
11550515 CACTTTGTCACTTG
1 CACTTT-TCACTTG
11550529 ATCAGAAGTA
Statistics
Matches: 144, Mismatches: 13, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
46 43 0.30
49 1 0.01
52 85 0.59
53 15 0.10
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
Found at i:11550434 original size:46 final size:46
Alignment explanation
Indices: 11550362--11550534 Score: 231
Period size: 46 Copynumber: 3.7 Consensus size: 46
11550352 AGCTATCACT
*
11550362 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
*
11550407 TATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
* **
11550453 TATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGC
1 TATCACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGC
*
11550505 TACCACTTATCACTTTGTCACTTGATCAGA
1 TATCACTTATCACTTTGTCACTTGATCAGA
11550535 AGTACTCAAA
Statistics
Matches: 113, Mismatches: 8, Indels: 13
0.84 0.06 0.10
Matches are distributed among these distances:
45 12 0.11
46 59 0.52
48 1 0.01
50 1 0.01
52 40 0.35
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (46 bp):
TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
Found at i:11550478 original size:98 final size:98
Alignment explanation
Indices: 11550311--11550534 Score: 367
Period size: 98 Copynumber: 2.3 Consensus size: 98
11550301 ATAAGTGTAG
* * * *
11550311 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACT
*
11550376 TGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
66 TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
* * *
11550409 TCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACT
*
11550474 TGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
66 TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
11550507 CCACTTATCACTTTGTCACTTGATCAGA
1 CCACTTATCACTTTGTCACTTGATCAGA
11550535 AGTACTCAAA
Statistics
Matches: 116, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
98 116 1.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (98 bp):
CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACT
TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
Found at i:11552849 original size:16 final size:16
Alignment explanation
Indices: 11552793--11552861 Score: 54
Period size: 16 Copynumber: 4.4 Consensus size: 16
11552783 ATTTTTAAAT
*
11552793 TAAAA-ATATTTAAT-
1 TAAAATATAATTAATA
* *
11552807 TAAAATGTATTTAATA
1 TAAAATATAATTAATA
*
11552823 TTAAATATAATTACATA
1 TAAAATATAATTA-ATA
*
11552840 TAAAAT-TAATTGATTA
1 TAAAATATAATT-AATA
11552856 TAAAAT
1 TAAAAT
11552862 GATTTTTTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
14 5 0.11
15 8 0.18
16 23 0.51
17 9 0.20
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (16 bp):
TAAAATATAATTAATA
Found at i:11553061 original size:10 final size:9
Alignment explanation
Indices: 11553036--11553060 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
11553026 ACAAAGACAT
11553036 GAAAAAATA
1 GAAAAAATA
11553045 GAAAAAATA
1 GAAAAAATA
11553054 GAAAAAA
1 GAAAAAA
11553061 AATTAAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.08
Consensus pattern (9 bp):
GAAAAAATA
Found at i:11553472 original size:17 final size:18
Alignment explanation
Indices: 11553452--11553492 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
11553442 CATTTTTTAA
11553452 AAAATT-ATT-TATTTTCT
1 AAAATTGATTCTATTTT-T
*
11553469 AAAATTGTTTCTATTTTT
1 AAAATTGATTCTATTTTT
11553487 AAAATT
1 AAAATT
11553493 CTTGCATGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 6 0.29
18 9 0.43
19 6 0.29
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (18 bp):
AAAATTGATTCTATTTTT
Found at i:11554088 original size:29 final size:25
Alignment explanation
Indices: 11554056--11554124 Score: 84
Period size: 25 Copynumber: 2.6 Consensus size: 25
11554046 AAAAATAAAA
11554056 ATTTACCAAAATACTACAAGTTTTTTTTT
1 ATTTACCAAAATA-TACAA---TTTTTTT
* *
11554085 ATTTACTAAAATATATAATTTTTTT
1 ATTTACCAAAATATACAATTTTTTT
11554110 ATTTACCAAAATATA
1 ATTTACCAAAATATA
11554125 TCAAAAAAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
25 21 0.57
28 4 0.11
29 12 0.32
ACGTcount: A:0.41, C:0.10, G:0.01, T:0.48
Consensus pattern (25 bp):
ATTTACCAAAATATACAATTTTTTT
Found at i:11554106 original size:25 final size:25
Alignment explanation
Indices: 11554078--11554125 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
11554068 ACTACAAGTT
*
11554078 TTTTTTTATTTACTAAAATATATAA
1 TTTTTTTATTTACCAAAATATATAA
11554103 TTTTTTTATTTACCAAAATATAT
1 TTTTTTTATTTACCAAAATATAT
11554126 CAAAAAAACC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (25 bp):
TTTTTTTATTTACCAAAATATATAA
Found at i:11554293 original size:22 final size:20
Alignment explanation
Indices: 11554253--11554297 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 20
11554243 GTGGGGGCAG
*
11554253 AAGGAGAGAAAGAAGAAAGA
1 AAGGAGAGAAAAAAGAAAGA
11554273 AAGGAGAGGAAATAAAGAAAGA
1 AAGGAGA-GAAA-AAAGAAAGA
11554295 AAG
1 AAG
11554298 AAAGGGGAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.32
21 4 0.18
22 11 0.50
ACGTcount: A:0.64, C:0.00, G:0.33, T:0.02
Consensus pattern (20 bp):
AAGGAGAGAAAAAAGAAAGA
Found at i:11554300 original size:26 final size:25
Alignment explanation
Indices: 11554261--11554310 Score: 82
Period size: 26 Copynumber: 2.0 Consensus size: 25
11554251 AGAAGGAGAG
11554261 AAAGAAGAAAGAAAGGAGAGGAAAT
1 AAAGAAGAAAGAAAGGAGAGGAAAT
*
11554286 AAAGAAAGAAAGAAAGGGGAGGAAA
1 AAAG-AAGAAAGAAAGGAGAGGAAA
11554311 GAAATAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.64, C:0.00, G:0.34, T:0.02
Consensus pattern (25 bp):
AAAGAAGAAAGAAAGGAGAGGAAAT
Found at i:11554311 original size:22 final size:22
Alignment explanation
Indices: 11554255--11554314 Score: 59
Period size: 26 Copynumber: 2.5 Consensus size: 22
11554245 GGGGGCAGAA
11554255 GGAGAGAAAG-AAGAAAGAAAGG
1 GGAG-GAAAGAAAGAAAGAAAGG
*
11554277 AGAGGAAATAAAGAAAGAAAGAAAGG
1 GGAGG----AAAGAAAGAAAGAAAGG
11554303 GGAGGAAAGAAA
1 GGAGGAAAGAAA
11554315 TAAATTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
21 1 0.03
22 10 0.32
25 4 0.13
26 16 0.52
ACGTcount: A:0.62, C:0.00, G:0.37, T:0.02
Consensus pattern (22 bp):
GGAGGAAAGAAAGAAAGAAAGG
Found at i:11555257 original size:27 final size:27
Alignment explanation
Indices: 11555225--11555300 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
11555215 TAACACCAAC
11555225 TGGTGCCGCCAATGGCATTGGCACCAT
1 TGGTGCCGCCAATGGCATTGGCACCAT
** *
11555252 TGGTGCCGCCAATGGTTTTGGCACCTT
1 TGGTGCCGCCAATGGCATTGGCACCAT
**
11555279 TGGTGCCGCCAATACCATTGGC
1 TGGTGCCGCCAATGGCATTGGC
11555301 GTGACCAGTG
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.26
Consensus pattern (27 bp):
TGGTGCCGCCAATGGCATTGGCACCAT
Found at i:11555362 original size:17 final size:19
Alignment explanation
Indices: 11555342--11555380 Score: 64
Period size: 17 Copynumber: 2.2 Consensus size: 19
11555332 TTTTTTGTCA
11555342 GGTTTTTTTTA-A-ATTTT
1 GGTTTTTTTTATATATTTT
11555359 GGTTTTTTTTATATATTTT
1 GGTTTTTTTTATATATTTT
11555378 GGT
1 GGT
11555381 AAATAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 11 0.55
18 1 0.05
19 8 0.40
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.69
Consensus pattern (19 bp):
GGTTTTTTTTATATATTTT
Found at i:11555368 original size:19 final size:19
Alignment explanation
Indices: 11555344--11555380 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
11555334 TTTTGTCAGG
11555344 TTTTTTT-TAAATTTTGGT
1 TTTTTTTATAAATTTTGGT
*
11555362 TTTTTTTATATATTTTGGT
1 TTTTTTTATAAATTTTGGT
11555381 AAATAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.16, C:0.00, G:0.11, T:0.73
Consensus pattern (19 bp):
TTTTTTTATAAATTTTGGT
Found at i:11555395 original size:26 final size:27
Alignment explanation
Indices: 11555366--11555438 Score: 112
Period size: 26 Copynumber: 2.7 Consensus size: 27
11555356 TTTGGTTTTT
11555366 TTTATATATTTTGGTAAAT-AAAAAAA
1 TTTATATATTTTGGTAAATAAAAAAAA
11555392 TTTATATATTTTGGTAAATAAAAAAAA
1 TTTATATATTTTGGTAAATAAAAAAAA
* *
11555419 CTTGTAGTATTTTGGTAAAT
1 TTTATA-TATTTTGGTAAAT
11555439 TTTTGTTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
26 19 0.44
27 11 0.26
28 13 0.30
ACGTcount: A:0.44, C:0.01, G:0.11, T:0.44
Consensus pattern (27 bp):
TTTATATATTTTGGTAAATAAAAAAAA
Found at i:11556146 original size:58 final size:60
Alignment explanation
Indices: 11556006--11556151 Score: 181
Period size: 58 Copynumber: 2.5 Consensus size: 60
11555996 ATGTGCTACG
* * * * *
11556006 TAACAATCGATTTAAACATATAAACAATTGATTCAAAAGAAGAAAAAGCAGTATTCTACTA
1 TAACAATTGATTTAAACATATAAACAATTGATTC-AAAGAACAAAAAGCAATATTCCACCA
* * *
11556067 TAAC-ATTCGATTTAAATATATAAACAATTTATTC-AA-AACAATAAGCAATATTCCACCA
1 TAACAATT-GATTTAAACATATAAACAATTGATTCAAAGAACAAAAAGCAATATTCCACCA
11556125 TAACAATTGATTTAAACATATAAACAA
1 TAACAATTGATTTAAACATATAAACAA
11556152 CAAATTCGAA
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
58 39 0.53
59 5 0.07
60 2 0.03
61 28 0.38
ACGTcount: A:0.51, C:0.14, G:0.06, T:0.29
Consensus pattern (60 bp):
TAACAATTGATTTAAACATATAAACAATTGATTCAAAGAACAAAAAGCAATATTCCACCA
Found at i:11558097 original size:14 final size:14
Alignment explanation
Indices: 11558078--11558110 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
11558068 ATTGTTATAT
11558078 AAATTCATTT-AATA
1 AAATTC-TTTCAATA
11558092 AAATTCTTTCAATA
1 AAATTCTTTCAATA
11558106 AAATT
1 AAATT
11558111 AAATTATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 3 0.17
14 15 0.83
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.42
Consensus pattern (14 bp):
AAATTCTTTCAATA
Found at i:11566823 original size:3 final size:3
Alignment explanation
Indices: 11566815--11566843 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
11566805 CTACATACAA
11566815 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
11566844 AGAAAGAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:11573074 original size:20 final size:17
Alignment explanation
Indices: 11573039--11573083 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 17
11573029 ATTTGTATGG
11573039 TTTTATGATTTTTAATAAT
1 TTTTAT-ATTTTTAAT-AT
11573058 TATTTATATTTTGTAATAT
1 T-TTTATATTTT-TAATAT
11573077 TTTTATA
1 TTTTATA
11573084 ATACTTTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 6 0.25
19 9 0.38
20 9 0.38
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.64
Consensus pattern (17 bp):
TTTTATATTTTTAATAT
Found at i:11576911 original size:20 final size:22
Alignment explanation
Indices: 11576882--11576922 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
11576872 AACAATATAT
11576882 TAAAAATA-T-TTTTTAAAATA
1 TAAAAATATTGTTTTTAAAATA
*
11576902 TAAAATTATTGTTTTTAAAAT
1 TAAAAATATTGTTTTTAAAAT
11576923 TTATTATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 1 0.06
22 10 0.56
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
TAAAAATATTGTTTTTAAAATA
Found at i:11595159 original size:16 final size:16
Alignment explanation
Indices: 11595119--11595162 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
11595109 AAAACACGCA
11595119 TATTTAAAATAACAAT
1 TATTTAAAATAACAAT
* *
11595135 T-TTAAAAAATAACCAT
1 TATT-TAAAATAACAAT
11595151 TATTTAAAATAA
1 TATTTAAAATAA
11595163 GCGCTTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 2 0.09
16 19 0.83
17 2 0.09
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (16 bp):
TATTTAAAATAACAAT
Found at i:11596111 original size:36 final size:36
Alignment explanation
Indices: 11596064--11596150 Score: 156
Period size: 36 Copynumber: 2.4 Consensus size: 36
11596054 CGTTTACGAA
*
11596064 ACTATTCACGTATACGGCACTATTCACGTATATAGT
1 ACTATTCACGTATACGGCACTATTCACGTATACAGT
11596100 ACTATTCACGTATACGGCACTATTCACGTATACAGT
1 ACTATTCACGTATACGGCACTATTCACGTATACAGT
*
11596136 ACTGTTCACGTATAC
1 ACTATTCACGTATAC
11596151 AGTAGTTGAG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 49 1.00
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (36 bp):
ACTATTCACGTATACGGCACTATTCACGTATACAGT
Found at i:11596153 original size:18 final size:18
Alignment explanation
Indices: 11596064--11596154 Score: 128
Period size: 18 Copynumber: 5.1 Consensus size: 18
11596054 CGTTTACGAA
* *
11596064 ACTATTCACGTATACGGC
1 ACTATTCACGTATACAGT
*
11596082 ACTATTCACGTATATAGT
1 ACTATTCACGTATACAGT
* *
11596100 ACTATTCACGTATACGGC
1 ACTATTCACGTATACAGT
11596118 ACTATTCACGTATACAGT
1 ACTATTCACGTATACAGT
*
11596136 ACTGTTCACGTATACAGT
1 ACTATTCACGTATACAGT
11596154 A
1 A
11596155 GTTGAGACTG
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 64 1.00
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.32
Consensus pattern (18 bp):
ACTATTCACGTATACAGT
Found at i:11604484 original size:2 final size:2
Alignment explanation
Indices: 11604477--11604505 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
11604467 CCTACTGTTT
11604477 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
11604506 TATTATCTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:11613096 original size:19 final size:18
Alignment explanation
Indices: 11613072--11613110 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
11613062 CTATTATAGC
11613072 TTTCTA-GGTACTTTGTCTT
1 TTTCTATGGTA-TTTGT-TT
11613091 TTTCTATGGTATTTGTTT
1 TTTCTATGGTATTTGTTT
11613109 TT
1 TT
11613111 CAGTTACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.21
19 11 0.58
20 4 0.21
ACGTcount: A:0.10, C:0.10, G:0.15, T:0.64
Consensus pattern (18 bp):
TTTCTATGGTATTTGTTT
Found at i:11614808 original size:26 final size:26
Alignment explanation
Indices: 11614779--11614831 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
11614769 CATTCTAGGA
11614779 ACCAAAACATGGCTGCCAACTAAACT
1 ACCAAAACATGGCTGCCAACTAAACT
11614805 ACCAAAACATGGCTGCCAACTAAACT
1 ACCAAAACATGGCTGCCAACTAAACT
11614831 A
1 A
11614832 AGCATAATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.43, C:0.30, G:0.11, T:0.15
Consensus pattern (26 bp):
ACCAAAACATGGCTGCCAACTAAACT
Found at i:11629972 original size:5 final size:5
Alignment explanation
Indices: 11629962--11629987 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
11629952 AAAGAAAGTG
11629962 AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT A
11629988 TTGAATTGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:11644262 original size:42 final size:43
Alignment explanation
Indices: 11644203--11644288 Score: 156
Period size: 42 Copynumber: 2.0 Consensus size: 43
11644193 TTGATTTTCT
11644203 CCGTATTTGATACAATGTGCGTG-TGTTAAAAAGGGGAAAAGA
1 CCGTATTTGATACAATGTGCGTGTTGTTAAAAAGGGGAAAAGA
11644245 CCGTATTTGATACAATGTGCGTGTTTGTTAAAAAGGGGAAAAGA
1 CCGTATTTGATACAATGTGCGTG-TTGTTAAAAAGGGGAAAAGA
11644289 GCCCCTTTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
42 23 0.55
44 19 0.45
ACGTcount: A:0.35, C:0.09, G:0.28, T:0.28
Consensus pattern (43 bp):
CCGTATTTGATACAATGTGCGTGTTGTTAAAAAGGGGAAAAGA
Found at i:11652925 original size:18 final size:18
Alignment explanation
Indices: 11652886--11652929 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
11652876 ATCTATTCTT
* *
11652886 AAAAATAATATATTTTAG
1 AAAAATAATATATTCTAA
11652904 AAAAATAATAT-TATCTAA
1 AAAAATAATATAT-TCTAA
11652922 AAAAATAA
1 AAAAATAA
11652930 AGTAAATTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 1 0.04
18 22 0.96
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (18 bp):
AAAAATAATATATTCTAA
Found at i:11680340 original size:81 final size:81
Alignment explanation
Indices: 11680205--11680364 Score: 295
Period size: 81 Copynumber: 2.0 Consensus size: 81
11680195 AAAATCTGAT
*
11680205 TTGTCATTTTCCTATTGAGAAGGGATAGGGATGATGTGGAATCACAATTTCATACAATTCCTTCT
1 TTGTCATTTTCCTATTGAGAAGGGATAGGGATGATGTGGAATCACAATTTCATACAATCCCTTCT
11680270 CTTTTGACATAATGAG
66 CTTTTGACATAATGAG
11680286 TTGTCATTTTCCTATTGA-ATAGGGATAGGGATGATGTGGAATCACAATTTCATACAATCCCTTC
1 TTGTCATTTTCCTATTGAGA-AGGGATAGGGATGATGTGGAATCACAATTTCATACAATCCCTTC
11680350 TCTTTTGACATAATG
65 TCTTTTGACATAATG
11680365 CCTAGAACTA
Statistics
Matches: 77, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
80 1 0.01
81 76 0.99
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.38
Consensus pattern (81 bp):
TTGTCATTTTCCTATTGAGAAGGGATAGGGATGATGTGGAATCACAATTTCATACAATCCCTTCT
CTTTTGACATAATGAG
Found at i:11685694 original size:4 final size:4
Alignment explanation
Indices: 11685685--11685710 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
11685675 ATCTCCAATT
11685685 TTTC TTTC TTTC TTTC TTTC TTTC TT
1 TTTC TTTC TTTC TTTC TTTC TTTC TT
11685711 CTATTCGTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTC
Found at i:11696870 original size:82 final size:82
Alignment explanation
Indices: 11696733--11696894 Score: 324
Period size: 82 Copynumber: 2.0 Consensus size: 82
11696723 AATTTGAAAA
11696733 AATAATTTATCATTTGTTTATGTATAGATATCAAGCAAGCTTTCTGGTTCTAGATAGTAATCTAT
1 AATAATTTATCATTTGTTTATGTATAGATATCAAGCAAGCTTTCTGGTTCTAGATAGTAATCTAT
11696798 ATATACATATCCTAGCT
66 ATATACATATCCTAGCT
11696815 AATAATTTATCATTTGTTTATGTATAGATATCAAGCAAGCTTTCTGGTTCTAGATAGTAATCTAT
1 AATAATTTATCATTTGTTTATGTATAGATATCAAGCAAGCTTTCTGGTTCTAGATAGTAATCTAT
11696880 ATATACATATCCTAG
66 ATATACATATCCTAG
11696895 AAGAGAAAAC
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 80 1.00
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.41
Consensus pattern (82 bp):
AATAATTTATCATTTGTTTATGTATAGATATCAAGCAAGCTTTCTGGTTCTAGATAGTAATCTAT
ATATACATATCCTAGCT
Found at i:11698767 original size:23 final size:21
Alignment explanation
Indices: 11698717--11698767 Score: 50
Period size: 23 Copynumber: 2.3 Consensus size: 21
11698707 ATAAACGTCT
11698717 TAAAATTTCTAAAATTTCGAA
1 TAAAATTTCTAAAATTTCGAA
*
11698738 AATAAATTTCTTAAAATATTAC-AA
1 TA-AAATTTC-TAAAAT-TT-CGAA
11698762 TAAAAT
1 TAAAAT
11698768 AATTCAGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
21 1 0.04
22 7 0.29
23 10 0.42
24 5 0.21
25 1 0.04
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.37
Consensus pattern (21 bp):
TAAAATTTCTAAAATTTCGAA
Found at i:11711113 original size:24 final size:24
Alignment explanation
Indices: 11711086--11711132 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
11711076 TTCATGTGAA
11711086 CATAGACTCATTCAGATT-TAATTT
1 CATA-ACTCATTCAGATTCTAATTT
* *
11711110 CATATCTCATTCAGCTTCTAATT
1 CATAACTCATTCAGATTCTAATT
11711133 CAATTTATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.30, C:0.21, G:0.06, T:0.43
Consensus pattern (24 bp):
CATAACTCATTCAGATTCTAATTT
Found at i:11711941 original size:46 final size:46
Alignment explanation
Indices: 11711863--11712047 Score: 280
Period size: 46 Copynumber: 4.0 Consensus size: 46
11711853 ACATTGCTAT
* ** *
11711863 AACTTAGTATGATTTTCTTCAAGGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGATTTTCTTCACCGAAACACCATACCTACTTTTCAC
* * *
11711909 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAT
1 AACTCAGTATGATTTTCTTCACCGAAACACCATACCTACTTTTCAC
*
11711955 AACTCAGTATGATTTTATTCACCGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGATTTTCTTCACCGAAACACCATACCTACTTTTCAC
* *
11712001 AACTCAGTATGGTTTTTTTCACCGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGATTTTCTTCACCGAAACACCATACCTACTTTTCAC
11712047 A
1 A
11712048 CTTTGCCATG
Statistics
Matches: 127, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 127 1.00
ACGTcount: A:0.31, C:0.26, G:0.08, T:0.35
Consensus pattern (46 bp):
AACTCAGTATGATTTTCTTCACCGAAACACCATACCTACTTTTCAC
Found at i:11713319 original size:16 final size:17
Alignment explanation
Indices: 11713273--11713320 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
11713263 AAATTCTTTT
*
11713273 TAAACCACAAAATTCAA
1 TAAATCACAAAATTCAA
*
11713290 TAAATCACAAAATTCAC
1 TAAATCACAAAATTCAA
*
11713307 TAATTCA-AAAATTC
1 TAAATCACAAAATTC
11713321 TTCTAAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 7 0.25
17 21 0.75
ACGTcount: A:0.54, C:0.21, G:0.00, T:0.25
Consensus pattern (17 bp):
TAAATCACAAAATTCAA
Found at i:11730962 original size:39 final size:39
Alignment explanation
Indices: 11730910--11730988 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
11730900 GTTCAGAGAA
11730910 AAACAAATTAGAGAACACAGTAGTAACCCTTACCAACAC
1 AAACAAATTAGAGAACACAGTAGTAACCCTTACCAACAC
11730949 AAACAAATTAGAGAACACAGTAGTAACCCTTACCAACAC
1 AAACAAATTAGAGAACACAGTAGTAACCCTTACCAACAC
11730988 A
1 A
11730989 TAAACTATAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.49, C:0.25, G:0.10, T:0.15
Consensus pattern (39 bp):
AAACAAATTAGAGAACACAGTAGTAACCCTTACCAACAC
Found at i:11738831 original size:37 final size:37
Alignment explanation
Indices: 11738770--11738989 Score: 372
Period size: 37 Copynumber: 6.0 Consensus size: 37
11738760 TACGTATGAT
* *
11738770 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
11738805 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
11738842 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
11738879 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
11738916 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
* *
11738953 CACTTATCACTCTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
11738990 TAAAGCTATC
Statistics
Matches: 175, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
35 9 0.05
36 3 0.02
37 163 0.93
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:11739032 original size:52 final size:52
Alignment explanation
Indices: 11738953--11739417 Score: 570
Period size: 52 Copynumber: 9.2 Consensus size: 52
11738943 TAAGTGTAGC
* * **
11738953 CACTTATCACTCTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTAT
1 CACTTTTCACT-TGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
11739006 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* * *
11739058 CAC---T---TTGTCATTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* ** *
11739104 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* *
11739156 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
** *
11739202 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* *
11739254 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* * *
11739300 CACTTTCCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
** *
11739352 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
11739404 CACTTTGTCACTTG
1 CACTTT-TCACTTG
11739418 ATCAGAAGTA
Statistics
Matches: 356, Mismatches: 37, Indels: 38
0.83 0.09 0.09
Matches are distributed among these distances:
46 122 0.34
49 3 0.01
52 214 0.60
53 17 0.05
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (52 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
Found at i:11739094 original size:98 final size:98
Alignment explanation
Indices: 11738952--11739417 Score: 671
Period size: 98 Copynumber: 4.7 Consensus size: 98
11738942 ATAAGTGTAG
* * * ** *
11738952 CCACTTATCACTCTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTTCACT
*
11739017 TGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
66 TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
* * *
11739050 TCACTTATCACTTTGTCATTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTTCACT
*
11739115 TGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
66 TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
11739148 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTTCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTTCACT
*
11739213 TGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
66 TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
*
11739246 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTTCACT
* *
11739311 TGTCACTTGATCAGATAAGTATAGCCGAAGCTA
66 TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
** * ** **
11739344 TTACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTT
1 CCACTTATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTT
11739409 TGTCACTTG
60 T-TCACTTG
11739418 ATCAGAAGTA
Statistics
Matches: 335, Mismatches: 26, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
98 285 0.85
101 1 0.00
104 43 0.13
105 6 0.02
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTTCACT
TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
Found at i:11742601 original size:49 final size:50
Alignment explanation
Indices: 11742546--11742749 Score: 232
Period size: 49 Copynumber: 4.0 Consensus size: 50
11742536 TTCGTTTTCT
*
11742546 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACA-AATCACATAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
* * *
11742595 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACA-TATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
* *
11742644 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCACACATATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACAC-G--T---A-ATCACACA-ATCACATAC
* * * *
11742702 CGATGCGATAGCCCAGCTATGGTCTTACACGGAATCACATAATCACAT
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACAT
11742750 GTTCACATGT
Statistics
Matches: 135, Mismatches: 11, Indels: 17
0.83 0.07 0.10
Matches are distributed among these distances:
49 74 0.55
50 7 0.05
51 7 0.05
52 1 0.01
55 1 0.01
56 6 0.04
57 1 0.01
58 38 0.28
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.24
Consensus pattern (50 bp):
CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
Found at i:11742716 original size:58 final size:59
Alignment explanation
Indices: 11742630--11742748 Score: 222
Period size: 58 Copynumber: 2.0 Consensus size: 59
11742620 TACACGAAAT
11742630 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAT-ATCA
1 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
*
11742688 CACATATCACTTACCGATGCGATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
1 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
11742747 CA
1 CA
11742749 TGTTCACATG
Statistics
Matches: 59, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
58 53 0.90
59 6 0.10
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.24
Consensus pattern (59 bp):
CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
Found at i:11744063 original size:37 final size:37
Alignment explanation
Indices: 11744002--11744221 Score: 372
Period size: 37 Copynumber: 6.0 Consensus size: 37
11743992 TACGTATGAT
* *
11744002 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
11744037 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
11744074 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
11744111 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
11744148 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
* *
11744185 CACTTATCACTCTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
11744222 TAAAGCTATC
Statistics
Matches: 175, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
35 9 0.05
36 3 0.02
37 163 0.93
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:11744264 original size:52 final size:52
Alignment explanation
Indices: 11744185--11744649 Score: 579
Period size: 52 Copynumber: 9.2 Consensus size: 52
11744175 TAAGTGTAGC
* * **
11744185 CACTTATCACTCTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTAT
1 CACTTTTCACT-TGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
11744238 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* *
11744290 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* ** *
11744336 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* *
11744388 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
** *
11744434 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* *
11744486 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* * *
11744532 CACTTTCCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
** *
11744584 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
11744636 CACTTTGTCACTTG
1 CACTTT-TCACTTG
11744650 ATCAGAAGTA
Statistics
Matches: 358, Mismatches: 35, Indels: 38
0.83 0.08 0.09
Matches are distributed among these distances:
46 123 0.34
49 3 0.01
52 215 0.60
53 17 0.05
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (52 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
Found at i:11744326 original size:98 final size:98
Alignment explanation
Indices: 11744184--11744649 Score: 680
Period size: 98 Copynumber: 4.7 Consensus size: 98
11744174 ATAAGTGTAG
* * * ** *
11744184 CCACTTATCACTCTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTTCACT
*
11744249 TGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
66 TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
* *
11744282 TCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTTCACT
*
11744347 TGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
66 TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
11744380 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTTCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTTCACT
*
11744445 TGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
66 TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
*
11744478 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTTCACT
* *
11744543 TGTCACTTGATCAGATAAGTATAGCCGAAGCTA
66 TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
** * ** **
11744576 TTACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTT
1 CCACTTATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTT
11744641 TGTCACTTG
60 T-TCACTTG
11744650 ATCAGAAGTA
Statistics
Matches: 337, Mismatches: 24, Indels: 7
0.92 0.07 0.02
Matches are distributed among these distances:
98 287 0.85
101 1 0.00
104 43 0.13
105 6 0.02
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.35
Consensus pattern (98 bp):
CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTTCACT
TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
Found at i:11749736 original size:13 final size:13
Alignment explanation
Indices: 11749718--11749742 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11749708 TAATTTATAT
11749718 GTGTGAAAATTTC
1 GTGTGAAAATTTC
11749731 GTGTGAAAATTT
1 GTGTGAAAATTT
11749743 TATCGTTGGT
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:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:11751661 original size:41 final size:41
Alignment explanation
Indices: 11751532--11751642 Score: 195
Period size: 41 Copynumber: 2.7 Consensus size: 41
11751522 GACTATATGT
* *
11751532 CTAGCAGACTAAGTGCCGGTGAACCGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAGC
11751573 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAGC
*
11751614 CTAGCAGGCTAAGTGCCAGTGAACTGAAT
1 CTAGCAGGCTAAGTGCCGGTGAACTGAAT
11751643 TAGATTTTAA
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 67 1.00
ACGTcount: A:0.31, C:0.23, G:0.28, T:0.19
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAGC
Found at i:11751669 original size:41 final size:41
Alignment explanation
Indices: 11751504--11751677 Score: 145
Period size: 41 Copynumber: 4.2 Consensus size: 41
11751494 TCGGACTTAT
* * * ***
11751504 TGCCAGTGAAATTATTCAGACTATATGTCTAGCA-GACTAAG
1 TGCCAGTGAACTGAATCAGACTATAAACCTAGCAGGA-TAAG
* * * * *
11751545 TGCCGGTGAACCGAATCAGGCTATAAGCCTAGCAGGCTAAG
1 TGCCAGTGAACTGAATCAGACTATAAACCTAGCAGGATAAG
* * * *
11751586 TGCCGGTGAACTGAATCAGGCTATAAGCCTAGCAGGCTAAG
1 TGCCAGTGAACTGAATCAGACTATAAACCTAGCAGGATAAG
* * *
11751627 TGCCAGTGAACTGAATTAGATTTTAAACCTAGCA-GATGAAG
1 TGCCAGTGAACTGAATCAGACTATAAACCTAGCAGGAT-AAG
*
11751668 TGCTAGTGAA
1 TGCCAGTGAA
11751678 TCTGTTTAAA
Statistics
Matches: 113, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
40 2 0.02
41 110 0.97
42 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (41 bp):
TGCCAGTGAACTGAATCAGACTATAAACCTAGCAGGATAAG
Found at i:11756809 original size:20 final size:20
Alignment explanation
Indices: 11756768--11756827 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 20
11756758 AATTTTAAAA
* *
11756768 TTTTAAAAATAAAAAAAATAT
1 TTTTAAAAAT-TAAAAATTAT
11756789 TTTTAAAAATTAAAAATTA-
1 TTTTAAAAATTAAAAATTAT
*
11756808 -TTTAAAGTATTAAAAATTAT
1 TTTTAAA-AATTAAAAATTAT
11756828 AAAAAATATT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
18 6 0.18
19 11 0.32
20 7 0.21
21 10 0.29
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (20 bp):
TTTTAAAAATTAAAAATTAT
Found at i:11756818 original size:29 final size:27
Alignment explanation
Indices: 11756783--11756868 Score: 70
Period size: 28 Copynumber: 3.1 Consensus size: 27
11756773 AAAATAAAAA
11756783 AAATATTTTTAAAAATTAAAAATTATTT
1 AAATA-TTTTAAAAATTAAAAATTATTT
*
11756811 AAAGTA--TTAAAAATTATAAAAAATATTT
1 AAA-TATTTTAAAAA-T-TAAAAATTATTT
* *
11756839 -TATACTTTTAAAATATTAAAAATTAATT
1 AAATA-TTTTAAAA-ATTAAAAATTATTT
11756867 AA
1 AA
11756869 TTACCAACGT
Statistics
Matches: 45, Mismatches: 5, Indels: 15
0.69 0.08 0.23
Matches are distributed among these distances:
26 9 0.20
27 2 0.04
28 24 0.53
29 9 0.20
30 1 0.02
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (27 bp):
AAATATTTTAAAAATTAAAAATTATTT
Found at i:11756837 original size:19 final size:19
Alignment explanation
Indices: 11756793--11756837 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
11756783 AAATATTTTT
**
11756793 AAAA-ATTAAAAATTATTT
1 AAAATATTAAAAATTATAA
*
11756811 AAAGTATTAAAAATTATAA
1 AAAATATTAAAAATTATAA
11756830 AAAATATT
1 AAAATATT
11756838 TTATACTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (19 bp):
AAAATATTAAAAATTATAA
Found at i:11759094 original size:12 final size:12
Alignment explanation
Indices: 11759070--11759107 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
11759060 TAAAAGAAAT
11759070 AAAAA-AGAAGG
1 AAAAACAGAAGG
*
11759081 AAAAACAGAGGG
1 AAAAACAGAAGG
11759093 AAAAACAGAA-G
1 AAAAACAGAAGG
11759104 AAAA
1 AAAA
11759108 TGAAAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 10 0.42
12 14 0.58
ACGTcount: A:0.71, C:0.05, G:0.24, T:0.00
Consensus pattern (12 bp):
AAAAACAGAAGG
Found at i:11759608 original size:24 final size:25
Alignment explanation
Indices: 11759548--11759609 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 25
11759538 CTGTTAGCTT
11759548 ATTATTTTTAATTCATAAATTTAAAA
1 ATTATTTTTAA-TCATAAATTTAAAA
** *
11759574 AACATTATTAAT-AT-AATTTAAACA
1 ATTATTTTTAATCATAAATTTAAA-A
11759598 ATTATTTTTAAT
1 ATTATTTTTAAT
11759610 TTATTGTATA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
23 8 0.28
24 12 0.41
25 1 0.03
26 8 0.28
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.48
Consensus pattern (25 bp):
ATTATTTTTAATCATAAATTTAAAA
Found at i:11764042 original size:5 final size:5
Alignment explanation
Indices: 11764034--11764059 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
11764024 GACAAGACTT
11764034 TCTAA TCTAA TCTAA TCTAA TCTAA T
1 TCTAA TCTAA TCTAA TCTAA TCTAA T
11764060 TCCATTTAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.42
Consensus pattern (5 bp):
TCTAA
Found at i:11778345 original size:37 final size:37
Alignment explanation
Indices: 11778304--11778479 Score: 298
Period size: 37 Copynumber: 4.8 Consensus size: 37
11778294 TTTGAGTACG
11778304 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
11778341 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
11778378 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
11778415 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
** *
11778452 TCTGATCAAGTGATAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGG
11778480 TAGCTTCAGC
Statistics
Matches: 134, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 134 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:11778495 original size:46 final size:44
Alignment explanation
Indices: 11778442--11778565 Score: 178
Period size: 46 Copynumber: 2.8 Consensus size: 44
11778432 GTGATAAGTG
*
11778442 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGA-AAAGTGATAAGTGGTAGCCT-A
*
11778488 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCTA
1 GCTACACTTATCTGATCAAGT-GAAAAGTGATAAGTGGTAGCCTA
* *
11778533 GCTGCACTTATCTGATCAAG-GACAAGTGATAAG
1 GCTACACTTATCTGATCAAGTGAAAAGTGATAAG
11778566 AGGTCATATG
Statistics
Matches: 72, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
43 11 0.15
45 20 0.28
46 40 0.56
47 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.27
Consensus pattern (44 bp):
GCTACACTTATCTGATCAAGTGAAAAGTGATAAGTGGTAGCCTA
Found at i:11780798 original size:21 final size:21
Alignment explanation
Indices: 11780766--11780806 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
11780756 AGGCTCGAGG
11780766 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
11780787 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
11780807 CCAAATGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:11790987 original size:18 final size:19
Alignment explanation
Indices: 11790964--11791001 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
11790954 GGAAGCAGGC
*
11790964 AATGATTGAAGA-AATCAG
1 AATGATTGAAAAGAATCAG
11790982 AATGATTGAAAAGAATCAG
1 AATGATTGAAAAGAATCAG
11791001 A
1 A
11791002 CCTATAGTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.53, C:0.05, G:0.21, T:0.21
Consensus pattern (19 bp):
AATGATTGAAAAGAATCAG
Found at i:11799392 original size:21 final size:21
Alignment explanation
Indices: 11799363--11799406 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
11799353 AATTGCAGTG
*
11799363 GCTGCTGCCACCGCAGCTGCA
1 GCTGATGCCACCGCAGCTGCA
* **
11799384 GCTGATGCCGCCGTGGCTGCA
1 GCTGATGCCACCGCAGCTGCA
11799405 GC
1 GC
11799407 AAAGGCGGCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.11, C:0.39, G:0.34, T:0.16
Consensus pattern (21 bp):
GCTGATGCCACCGCAGCTGCA
Found at i:11814028 original size:50 final size:55
Alignment explanation
Indices: 11813948--11814083 Score: 174
Period size: 56 Copynumber: 2.5 Consensus size: 55
11813938 CCCTATACAT
* **
11813948 GCCATGTCCTAGACATGGTCTTACGGGGGACCTCTC-T-CCTC-A-G-TGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATACCTCAATGATGCCAAC
* *
11813998 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAGTCTCAATGATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA-CCTCAATGATGCCAAC
*
11814054 GCCATGTCCCAGATATGGTCTTACATGGGA
1 GCCATGTCCCAGACATGGTCTTACATGGGA
11814084 TCTCATCACC
Statistics
Matches: 74, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
50 33 0.45
51 1 0.01
53 3 0.04
54 1 0.01
55 1 0.01
56 35 0.47
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.26
Consensus pattern (55 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATACCTCAATGATGCCAAC
Found at i:11816467 original size:24 final size:24
Alignment explanation
Indices: 11816421--11816465 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
11816411 AAAGAAATAT
*
11816421 AAAAAATGCTTTACAATTATTTAA
1 AAAAAATGCTTGACAATTATTTAA
*
11816445 AAAAAATTCTTGAC-ATTATTT
1 AAAAAATGCTTGACAATTATTT
11816466 TATTAAAGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (24 bp):
AAAAAATGCTTGACAATTATTTAA
Found at i:11830329 original size:14 final size:14
Alignment explanation
Indices: 11830310--11830347 Score: 76
Period size: 14 Copynumber: 2.7 Consensus size: 14
11830300 TGGGTGGCAC
11830310 TTGAAGAAAATTTT
1 TTGAAGAAAATTTT
11830324 TTGAAGAAAATTTT
1 TTGAAGAAAATTTT
11830338 TTGAAGAAAA
1 TTGAAGAAAA
11830348 ACAGTCAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.47, C:0.00, G:0.16, T:0.37
Consensus pattern (14 bp):
TTGAAGAAAATTTT
Found at i:11832214 original size:21 final size:21
Alignment explanation
Indices: 11832188--11832228 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11832178 AGACGAGCAA
* *
11832188 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
11832209 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
11832229 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:11837466 original size:17 final size:19
Alignment explanation
Indices: 11837444--11837480 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
11837434 ACAAGTAAGA
11837444 TTTAAATATT-TC-TTTTT
1 TTTAAATATTATCATTTTT
11837461 TTTAAATATTATCATTTTT
1 TTTAAATATTATCATTTTT
11837480 T
1 T
11837481 AATTTTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.56
18 2 0.11
19 6 0.33
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTAAATATTATCATTTTT
Found at i:11841033 original size:20 final size:19
Alignment explanation
Indices: 11840984--11841033 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
11840974 TCTAGGCACC
11840984 TTTTATATAA-TTCTATGAT
1 TTTTATA-AATTTCTATGAT
* *
11841003 TTTAATTAATTTCTAATGAT
1 TTTTATAAATTTCT-ATGAT
11841023 TTTTATAAATT
1 TTTTATAAATT
11841034 ATTTTATTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
18 2 0.08
19 9 0.36
20 14 0.56
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (19 bp):
TTTTATAAATTTCTATGAT
Found at i:11849800 original size:12 final size:11
Alignment explanation
Indices: 11849779--11849818 Score: 62
Period size: 12 Copynumber: 3.5 Consensus size: 11
11849769 TTAATACATG
11849779 ATATAAAAATA
1 ATATAAAAATA
11849790 ATATCAAAAATA
1 ATAT-AAAAATA
11849802 ATATGAAAAATA
1 ATAT-AAAAATA
11849814 ATATA
1 ATATA
11849819 TTTTAATTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 5 0.19
12 22 0.81
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.28
Consensus pattern (11 bp):
ATATAAAAATA
Found at i:11849843 original size:18 final size:16
Alignment explanation
Indices: 11849811--11849856 Score: 60
Period size: 15 Copynumber: 3.0 Consensus size: 16
11849801 AATATGAAAA
11849811 ATAATATATTTTAATT
1 ATAATATATTTTAATT
*
11849827 ATAATATA-TTTAATA
1 ATAATATATTTTAATT
*
11849842 ATAAT-TATGTTAATT
1 ATAATATATTTTAATT
11849857 TATATTTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 2 0.08
15 16 0.62
16 8 0.31
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATAATATATTTTAATT
Found at i:11849955 original size:16 final size:16
Alignment explanation
Indices: 11849934--11849976 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
11849924 TTATTAAATT
11849934 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
11849950 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
11849965 AT-TATGTTAATT
1 ATATATTTTAATT
11849977 TATATTTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 2 0.09
15 16 0.70
16 5 0.22
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:11850040 original size:104 final size:105
Alignment explanation
Indices: 11849916--11850138 Score: 423
Period size: 104 Copynumber: 2.1 Consensus size: 105
11849906 TATTAATTAT
*
11849916 TAAGAATTTTA-TTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTAT
1 TAAGAATATTATTTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTAT
11849980 A-TTTATAGTATCATATATTATGATTTCAGTAAATTCATA
66 ATTTTATAGTATCATATATTATGATTTCAGTAAATTCATA
11850019 TAAGAATATTATTTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTAT
1 TAAGAATATTATTTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTAT
11850084 ATTTTATAGTATCATATATTATGATTTCAGTAAATTCATA
66 ATTTTATAGTATCATATATTATGATTTCAGTAAATTCATA
11850124 TAAGAATATTATTTA
1 TAAGAATATTATTTA
11850139 TTAAGAATTT
Statistics
Matches: 117, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
103 10 0.09
104 54 0.46
105 53 0.45
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (105 bp):
TAAGAATATTATTTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTAT
ATTTTATAGTATCATATATTATGATTTCAGTAAATTCATA
Found at i:11850047 original size:14 final size:16
Alignment explanation
Indices: 11850023--11850084 Score: 53
Period size: 15 Copynumber: 4.1 Consensus size: 16
11850013 TTCATATAAG
11850023 AATATTATTTAAATTAT
1 AATA-TATTTAAATTAT
11850040 -ATAT-TTT-AATTAT
1 AATATATTTAAATTAT
*
11850053 AATATATTT-AATAAT
1 AATATATTTAAATTAT
*
11850068 AAT-TATGTTAATTTAT
1 AATATAT-TTAAATTAT
11850084 A
1 A
11850085 TTTTATAGTA
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
13 6 0.16
14 10 0.26
15 14 0.37
16 8 0.21
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
AATATATTTAAATTAT
Found at i:11850057 original size:16 final size:16
Alignment explanation
Indices: 11850038--11850080 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
11850028 TATTTAAATT
11850038 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
11850054 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
11850069 AT-TATGTTAATT
1 ATATATTTTAATT
11850081 TATATTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 2 0.09
15 16 0.70
16 5 0.22
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:11850058 original size:120 final size:119
Alignment explanation
Indices: 11849810--11850079 Score: 397
Period size: 119 Copynumber: 2.3 Consensus size: 119
11849800 TAATATGAAA
11849810 AATAATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCAT
1 AATAATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCAT
* *
11849875 ATATTATTATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATT
66 ATATTATGATTTCAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATT
*
11849929 AAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATA-TTTATAGTATCA
1 -AATAATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCA
* *
11849993 TATATTATGATTTCAGTAAATTCATATAAGAATATTATTTAAATTATA-TATTTTAATT
65 TATATTATGATTTCAGTAAATTCATATAAGAATATTAATT--ATTA-AGAATTTT-ATT
*
11850051 -ATAATATA-TTTAATAATAAT-TATGTTAAT
1 AATAATATATTTTAATTATAATATAT-TTAAT
11850080 TTATATTTTA
Statistics
Matches: 138, Mismatches: 7, Indels: 11
0.88 0.04 0.07
Matches are distributed among these distances:
118 3 0.02
119 65 0.47
120 57 0.41
121 9 0.07
122 4 0.03
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.50
Consensus pattern (119 bp):
AATAATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCAT
ATATTATGATTTCAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATT
Found at i:11850168 original size:105 final size:103
Alignment explanation
Indices: 11849916--11850184 Score: 393
Period size: 105 Copynumber: 2.6 Consensus size: 103
11849906 TATTAATTAT
* * *
11849916 TAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATA
1 TAAGAATATTATTTAATTAAATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATA
11849981 TTTATAGTATCATATATTATGATTTCAGTAAATTCATA
66 TTTATAGTATCATATATTATGATTTCAGTAAATTCATA
*
11850019 TAAGAATATTATTTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTAT
1 TAAGAATATTATTT-AATTAAATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTAT
11850084 ATTTTATAGTATCATATATTATGATTTCAGTAAATTCATA
65 A-TTTATAGTATCATATATTATGATTTCAGTAAATTCATA
* *
11850124 TAAGAATATTATTT-ATTAAGA-ATTTT-ATTAAATTATATATTTTAATTATAATATAT-TTAAT
1 TAAGAATATTATTTAATTAA-ATATTTTAATT--ATAATATA-TTTAATAATAAT-TATGTTAAT
11850185 AATAATTATG
Statistics
Matches: 154, Mismatches: 5, Indels: 12
0.90 0.03 0.07
Matches are distributed among these distances:
102 3 0.02
103 21 0.14
104 59 0.38
105 68 0.44
106 3 0.02
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.51
Consensus pattern (103 bp):
TAAGAATATTATTTAATTAAATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATA
TTTATAGTATCATATATTATGATTTCAGTAAATTCATA
Found at i:11850179 original size:16 final size:16
Alignment explanation
Indices: 11850158--11850199 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
11850148 TTATTAAATT
*
11850158 ATATATTTTAATTATA
1 ATATATTTTAATAATA
11850174 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
11850189 AT-TATGTTTAA
1 ATATAT-TTTAA
11850200 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:11850184 original size:15 final size:15
Alignment explanation
Indices: 11850149--11850190 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
11850139 TTAAGAATTT
*
11850149 TATTAAATTAT-ATA
1 TATTTAATTATAATA
11850163 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
11850177 TATTTAATAATAAT
1 TATTTAATTATAAT
11850191 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:11850437 original size:16 final size:16
Alignment explanation
Indices: 11850416--11850483 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
11850406 GATTTGCTAT
11850416 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
11850432 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
* *
11850448 TACATCTCTAATCAAA
1 TACACCTCTAATCCAA
*
11850464 TACACTTCTAATCCAA
1 TACACCTCTAATCCAA
11850480 TACA
1 TACA
11850484 GCGAACCAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.40, C:0.32, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:11861053 original size:18 final size:17
Alignment explanation
Indices: 11861030--11861063 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
11861020 TTTTAATTGA
*
11861030 TTATTTGTAATTTGTAAT
1 TTATTTATAA-TTGTAAT
11861048 TTATTTATAATTGTAA
1 TTATTTATAATTGTAA
11861064 CTCTAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.59
Consensus pattern (17 bp):
TTATTTATAATTGTAAT
Found at i:11868619 original size:78 final size:78
Alignment explanation
Indices: 11868526--11868682 Score: 296
Period size: 78 Copynumber: 2.0 Consensus size: 78
11868516 ATCTAAAGCA
*
11868526 AGCAAAGTTCGAGGAAAAACAAAGGCAAACACTATCAAAGCTAAAAAGTAAAACCCCAAACGGAT
1 AGCAAAGTTCGAGGAAAAACAAAGGCAAACACTACCAAAGCTAAAAAGTAAAACCCCAAACGGAT
11868591 ACTCAACATTTCC
66 ACTCAACATTTCC
*
11868604 AGCAAAGTTCGAGGAAAAACTAAGGCAAACACTACCAAAGCTAAAAAGTAAAACCCCAAACGGAT
1 AGCAAAGTTCGAGGAAAAACAAAGGCAAACACTACCAAAGCTAAAAAGTAAAACCCCAAACGGAT
11868669 ACTCAACATTTCC
66 ACTCAACATTTCC
11868682 A
1 A
11868683 TCCAAACCAA
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
78 77 1.00
ACGTcount: A:0.48, C:0.24, G:0.14, T:0.14
Consensus pattern (78 bp):
AGCAAAGTTCGAGGAAAAACAAAGGCAAACACTACCAAAGCTAAAAAGTAAAACCCCAAACGGAT
ACTCAACATTTCC
Found at i:11873463 original size:11 final size:11
Alignment explanation
Indices: 11873449--11873528 Score: 62
Period size: 11 Copynumber: 7.6 Consensus size: 11
11873439 AAAATTAAAA
11873449 AAAATTATTTT
1 AAAATTATTTT
*
11873460 AAAAATATTTT
1 AAAATTATTTT
11873471 AAAATTA----
1 AAAATTATTTT
* * *
11873478 AAAA-AAATTA
1 AAAATTATTTT
11873488 AAAATGTATTTT
1 AAAAT-TATTTT
*
11873500 AAAAATATTTT
1 AAAATTATTTT
*
11873511 AAAAATATTTT
1 AAAATTATTTT
11873522 AAAATTA
1 AAAATTA
11873529 AAAAAATTAA
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
6 1 0.02
7 4 0.07
10 4 0.07
11 39 0.71
12 7 0.13
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.41
Consensus pattern (11 bp):
AAAATTATTTT
Found at i:11873516 original size:51 final size:52
Alignment explanation
Indices: 11873448--11873555 Score: 175
Period size: 51 Copynumber: 2.1 Consensus size: 52
11873438 AAAAATTAAA
*
11873448 AAAAATTATTTTAAAAATATTTTAAAATTAAAAAAAATT-AAAAATGTATTTT
1 AAAAATTATTTTAAAAATATTTTAAAATT-AAAAAAATTAAAAAAAGTATTTT
11873500 AAAAA-TATTTTAAAAATATTTTAAAATTAAAAAAATTAAAAAAAAGTATTTT
1 AAAAATTATTTTAAAAATATTTTAAAATTAAAAAAATT-AAAAAAAGTATTTT
11873552 AAAA
1 AAAA
11873556 TTAAAAAAAT
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
50 9 0.17
51 23 0.43
52 21 0.40
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (52 bp):
AAAAATTATTTTAAAAATATTTTAAAATTAAAAAAATTAAAAAAAGTATTTT
Found at i:11873578 original size:29 final size:30
Alignment explanation
Indices: 11873511--11873570 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
11873501 AAAATATTTT
11873511 AAAAA-TATTTTAAAATTAAAAAAATTAAA
1 AAAAAGTATTTTAAAATTAAAAAAATTAAA
11873540 AAAAAGTATTTTAAAATTAAAAAAA-TAAA
1 AAAAAGTATTTTAAAATTAAAAAAATTAAA
11873569 AA
1 AA
11873571 TATTTATTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.37
30 19 0.63
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (30 bp):
AAAAAGTATTTTAAAATTAAAAAAATTAAA
Done.