Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 266 of 333
Found at i:87972085 original size:39 final size:39
Alignment explanation
Indices: 87972031--87972108 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
87972021 GAAGCAAAAG
* *
87972031 TTAGTGCGTTGGTTGTACGACTTCTGCAATATGTACTGT
1 TTAGTGCATTAGTTGTACGACTTCTGCAATATGTACTGT
87972070 TTAGTGCATTAGTTGTACGACTTCTGCAATATGTACTGT
1 TTAGTGCATTAGTTGTACGACTTCTGCAATATGTACTGT
87972109 CATTCACAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.21, C:0.15, G:0.23, T:0.41
Consensus pattern (39 bp):
TTAGTGCATTAGTTGTACGACTTCTGCAATATGTACTGT
Found at i:87974780 original size:33 final size:33
Alignment explanation
Indices: 87974738--87974818 Score: 117
Period size: 33 Copynumber: 2.5 Consensus size: 33
87974728 TGTATTTTGC
* *
87974738 ACTGTACTGAGATTGGATAGGGCTTTGGCCCAA
1 ACTGTACTGATATTGAATAGGGCTTTGGCCCAA
* *
87974771 ACTGTACTGATACTGAATAGGGCTTTGGCCCAG
1 ACTGTACTGATATTGAATAGGGCTTTGGCCCAA
*
87974804 ACTATACTGATATTG
1 ACTGTACTGATATTG
87974819 TGTTATTCAC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (33 bp):
ACTGTACTGATATTGAATAGGGCTTTGGCCCAA
Found at i:87995827 original size:27 final size:28
Alignment explanation
Indices: 87995750--87995876 Score: 138
Period size: 27 Copynumber: 4.7 Consensus size: 28
87995740 CGTACCTGAA
*
87995750 CCCTTATGAGACAAAATGACTG-TTTTG
1 CCCTTATGAGATAAAATGACTGATTTTG
* *
87995777 CCCTTATGGGGT-AAATGACT-ATTTTG
1 CCCTTATGAGATAAAATGACTGATTTTG
* *
87995803 CCCTTATGCGATAAAATGA-TGATTTTA
1 CCCTTATGAGATAAAATGACTGATTTTG
* * * *
87995830 CCCCTATGCGATAAAATAAC-GATTTTT
1 CCCTTATGAGATAAAATGACTGATTTTG
87995857 CCCTTATGAGATAAAATGAC
1 CCCTTATGAGATAAAATGAC
87995877 CGAAATACTT
Statistics
Matches: 84, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
26 24 0.29
27 60 0.71
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (28 bp):
CCCTTATGAGATAAAATGACTGATTTTG
Found at i:87995934 original size:52 final size:53
Alignment explanation
Indices: 87995868--87995985 Score: 132
Period size: 52 Copynumber: 2.2 Consensus size: 53
87995858 CCTTATGAGA
* * *
87995868 TAAAATGACCGAAATA-CTTTCATAGGGTAAAATAACCGAAATACCCC-TATGG
1 TAAAATGACTGAAATACCCTT-ATAGGGTAAAATAACCGAAATACCCCGTAAGG
* * * *
87995920 TAAAATGACTGAAATACCCTTATATGGTAAAATGACTGTAATACCCCTGTAAGG
1 TAAAATGACTGAAATACCCTTATAGGGTAAAATAACCGAAATACCCC-GTAAGG
*
87995974 TAAAATAACTGA
1 TAAAATGACTGA
87995986 TTTGCCCTAT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
52 37 0.67
53 3 0.05
54 15 0.27
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.25
Consensus pattern (53 bp):
TAAAATGACTGAAATACCCTTATAGGGTAAAATAACCGAAATACCCCGTAAGG
Found at i:87995956 original size:27 final size:27
Alignment explanation
Indices: 87995868--87995985 Score: 107
Period size: 27 Copynumber: 4.4 Consensus size: 27
87995858 CCTTATGAGA
* * *
87995868 TAAAATGACCGAAATA-CTTTCATAGGG
1 TAAAATGACTGAAATACCCTT-ATATGG
* * *
87995895 TAAAATAACCGAAATACCC--CTATGG
1 TAAAATGACTGAAATACCCTTATATGG
87995920 TAAAATGACTGAAATACCCTTATATGG
1 TAAAATGACTGAAATACCCTTATATGG
* * * *
87995947 TAAAATGACTGTAATACCCCTGTAAGG
1 TAAAATGACTGAAATACCCTTATATGG
*
87995974 TAAAATAACTGA
1 TAAAATGACTGA
87995986 TTTGCCCTAT
Statistics
Matches: 75, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
25 21 0.28
27 53 0.71
28 1 0.01
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.25
Consensus pattern (27 bp):
TAAAATGACTGAAATACCCTTATATGG
Found at i:88009891 original size:50 final size:50
Alignment explanation
Indices: 88009832--88009931 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
88009822 GACTTTTCCT
88009832 GTAGAGTCTACTAAATTTGTAATTAGAGTATTGAACCCCTTAGGAAAGTA
1 GTAGAGTCTACTAAATTTGTAATTAGAGTATTGAACCCCTTAGGAAAGTA
88009882 GTAGAGTCTACTAAATTTGTAATTAGAGTATTGAACCCCTTAGGAAAGTA
1 GTAGAGTCTACTAAATTTGTAATTAGAGTATTGAACCCCTTAGGAAAGTA
88009932 TGTGTTGGTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (50 bp):
GTAGAGTCTACTAAATTTGTAATTAGAGTATTGAACCCCTTAGGAAAGTA
Found at i:88013653 original size:20 final size:19
Alignment explanation
Indices: 88013628--88013669 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
88013618 AGCTCAATAA
88013628 TGATTAAATTGAATTAATTT
1 TGATTAAA-TGAATTAATTT
**
88013648 TGATTAAATGGGTTAATTT
1 TGATTAAATGAATTAATTT
88013667 TGA
1 TGA
88013670 ATACATATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.48
Consensus pattern (19 bp):
TGATTAAATGAATTAATTT
Found at i:88013951 original size:40 final size:41
Alignment explanation
Indices: 88013878--88013972 Score: 104
Period size: 40 Copynumber: 2.4 Consensus size: 41
88013868 ACTATGTTTG
* * *
88013878 GCACTTAGTGTGCG-ATTCGAGATAGCTTGGGCTATATAAA
1 GCACTTAGTGTGTGAATTCGAGATAACTTCGGCTATATAAA
* ***
88013918 GCACTTAGTGTGTGAATTGGA-ATAACTTCGGCTATATGTG
1 GCACTTAGTGTGTGAATTCGAGATAACTTCGGCTATATAAA
*
88013958 GCACTAAGTGTGTGA
1 GCACTTAGTGTGTGA
88013973 TACCGAGATA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
40 41 0.89
41 5 0.11
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.32
Consensus pattern (41 bp):
GCACTTAGTGTGTGAATTCGAGATAACTTCGGCTATATAAA
Found at i:88017922 original size:13 final size:13
Alignment explanation
Indices: 88017904--88017928 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
88017894 TCAAGCTTGT
88017904 TTTTATTTTTTTA
1 TTTTATTTTTTTA
88017917 TTTTATTTTTTT
1 TTTTATTTTTTT
88017929 GCAGAATAAT
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:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTATTTTTTTA
Found at i:88021931 original size:20 final size:19
Alignment explanation
Indices: 88021893--88021935 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
88021883 TATTAATTAC
88021893 TAAACTAAATGAAACACAT
1 TAAACTAAATGAAACACAT
* *
88021912 TAAATTAAATTAAGACACAT
1 TAAACTAAATGAA-ACACAT
88021932 TAAA
1 TAAA
88021936 GACTTAAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.58, C:0.12, G:0.05, T:0.26
Consensus pattern (19 bp):
TAAACTAAATGAAACACAT
Found at i:88023975 original size:24 final size:23
Alignment explanation
Indices: 88023933--88023978 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
88023923 AGAACTTTTA
* *
88023933 ATCAGGAAGCTCACGAAGAGCCT
1 ATCAAGAAGCTCACAAAGAGCCT
88023956 ATCAAGAATGCTCACAAAGAGCC
1 ATCAAGAA-GCTCACAAAGAGCC
88023979 ATGTAACAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.39, C:0.26, G:0.22, T:0.13
Consensus pattern (23 bp):
ATCAAGAAGCTCACAAAGAGCCT
Found at i:88037555 original size:42 final size:42
Alignment explanation
Indices: 88037490--88037586 Score: 158
Period size: 42 Copynumber: 2.3 Consensus size: 42
88037480 AGAATTGGGC
* *
88037490 ACACGGCTGTGTGCCTCAACCGTGTGTGCCACACGGCCTAGA
1 ACACGGGTGTGTGCCTCAACCGTGTGTACCACACGGCCTAGA
*
88037532 ACATGGGTGTGTGCCTCAACCGTGTGTACCACACGGCCTAGA
1 ACACGGGTGTGTGCCTCAACCGTGTGTACCACACGGCCTAGA
*
88037574 ACACGGGCGTGTG
1 ACACGGGTGTGTG
88037587 TCTTGGCCAT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.20, C:0.30, G:0.31, T:0.20
Consensus pattern (42 bp):
ACACGGGTGTGTGCCTCAACCGTGTGTACCACACGGCCTAGA
Found at i:88044090 original size:29 final size:31
Alignment explanation
Indices: 88044030--88044090 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
88044020 GTGTTTTTAT
* * *
88044030 TATGGTACTTGTACTTTTATAAAATATTCAA
1 TATGATACGTGTACTTTTATAAAATATCCAA
88044061 TATGATACGTGTAC-TTTA-AAAATATCCAA
1 TATGATACGTGTACTTTTATAAAATATCCAA
88044090 T
1 T
88044091 GTGGTACCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 11 0.41
30 4 0.15
31 12 0.44
ACGTcount: A:0.38, C:0.11, G:0.10, T:0.41
Consensus pattern (31 bp):
TATGATACGTGTACTTTTATAAAATATCCAA
Found at i:88044398 original size:21 final size:21
Alignment explanation
Indices: 88044359--88044398 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
88044349 CATTCTAGAC
* *
88044359 TTAACTTTTAAATGGTTTTTA
1 TTAAATTTTAAATGCTTTTTA
*
88044380 TTAAATTTTAATTGCTTTT
1 TTAAATTTTAAATGCTTTT
88044399 GAACTTTATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.05, G:0.07, T:0.60
Consensus pattern (21 bp):
TTAAATTTTAAATGCTTTTTA
Found at i:88065796 original size:20 final size:20
Alignment explanation
Indices: 88065771--88065810 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
88065761 AAGTATGGTT
88065771 TTCCATTAAGAAGATAGCCC
1 TTCCATTAAGAAGATAGCCC
*
88065791 TTCCATTAAGAATATAGCCC
1 TTCCATTAAGAAGATAGCCC
88065811 CCTAGTGAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.35, C:0.25, G:0.12, T:0.28
Consensus pattern (20 bp):
TTCCATTAAGAAGATAGCCC
Found at i:88068598 original size:12 final size:12
Alignment explanation
Indices: 88068570--88068605 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
88068560 GAAAATGAAT
*
88068570 CATTTCTCATTTT
1 CATTTC-CATTTC
88068583 CATTTCCATTTC
1 CATTTCCATTTC
88068595 CATTTCCATTT
1 CATTTCCATTT
88068606 TGAGAAAACC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 16 0.73
13 6 0.27
ACGTcount: A:0.17, C:0.28, G:0.00, T:0.56
Consensus pattern (12 bp):
CATTTCCATTTC
Found at i:88068604 original size:18 final size:19
Alignment explanation
Indices: 88068570--88068605 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
88068560 GAAAATGAAT
*
88068570 CATTTCTCATTTTCATTTC
1 CATTTCTCATTTCCATTTC
88068589 CATTTC-CATTTCCATTT
1 CATTTCTCATTTCCATTT
88068606 TGAGAAAACC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.17, C:0.28, G:0.00, T:0.56
Consensus pattern (19 bp):
CATTTCTCATTTCCATTTC
Found at i:88069624 original size:7 final size:7
Alignment explanation
Indices: 88069612--88069638 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
88069602 TTTTAATCCT
88069612 TTAACCG
1 TTAACCG
88069619 TTAACCG
1 TTAACCG
88069626 TTAACCG
1 TTAACCG
88069633 TTAACC
1 TTAACC
88069639 AAACCAAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.30, G:0.11, T:0.30
Consensus pattern (7 bp):
TTAACCG
Found at i:88069814 original size:9 final size:9
Alignment explanation
Indices: 88069802--88069835 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
88069792 CAAATTATCT
88069802 GAATTAATC
1 GAATTAATC
88069811 GAATTAATC
1 GAATTAATC
88069820 GAATTAA-C
1 GAATTAATC
88069828 TGAATTAA
1 -GAATTAA
88069836 AACTACATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 1 0.04
9 23 0.96
ACGTcount: A:0.47, C:0.09, G:0.12, T:0.32
Consensus pattern (9 bp):
GAATTAATC
Found at i:88070616 original size:17 final size:18
Alignment explanation
Indices: 88070584--88070618 Score: 54
Period size: 17 Copynumber: 1.9 Consensus size: 18
88070574 CCAAATGAAC
88070584 AAAAATGGATAGAAATGAT
1 AAAAATGGA-AGAAATGAT
88070603 AAAAATGG-AGAAATGA
1 AAAAATGGAAGAAATGA
88070619 GAAACACATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
19 8 0.50
ACGTcount: A:0.60, C:0.00, G:0.23, T:0.17
Consensus pattern (18 bp):
AAAAATGGAAGAAATGAT
Found at i:88070933 original size:14 final size:14
Alignment explanation
Indices: 88070916--88070942 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
88070906 TATAAAGTAC
88070916 TGGGTTAAAAGTCT
1 TGGGTTAAAAGTCT
88070930 TGGGTTAAAAGTC
1 TGGGTTAAAAGTC
88070943 GAGGAAGTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.07, G:0.30, T:0.33
Consensus pattern (14 bp):
TGGGTTAAAAGTCT
Found at i:88075420 original size:49 final size:49
Alignment explanation
Indices: 88075363--88075466 Score: 181
Period size: 49 Copynumber: 2.1 Consensus size: 49
88075353 TCAATAAGAG
*
88075363 ATGATTTTGCTTCTATAGTTACTAACACGTCACACTTAATTATCTTTAC
1 ATGATTTTGCTTCTATAGTTACTAACACATCACACTTAATTATCTTTAC
*
88075412 ATGATTTTGCTTCTATAGTTACTAACACATCACATTTAATTATCTTTAC
1 ATGATTTTGCTTCTATAGTTACTAACACATCACACTTAATTATCTTTAC
*
88075461 ACGATT
1 ATGATT
88075467 ACCACAACTA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 52 1.00
ACGTcount: A:0.30, C:0.19, G:0.08, T:0.43
Consensus pattern (49 bp):
ATGATTTTGCTTCTATAGTTACTAACACATCACACTTAATTATCTTTAC
Found at i:88098233 original size:22 final size:21
Alignment explanation
Indices: 88098185--88098249 Score: 64
Period size: 22 Copynumber: 3.1 Consensus size: 21
88098175 ACCTAAGAAG
*
88098185 AATAATAAA-AAGAAAAAAAT-
1 AATAATAAATAA-AATAAAATA
*
88098205 AACAATAACA-AAAATAATAATA
1 AATAATAA-ATAAAATAA-AATA
88098227 AATAATAAATAAAATAAAATA
1 AATAATAAATAAAATAAAATA
88098248 AA
1 AA
88098250 ATAAAAGAGG
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
20 11 0.29
21 13 0.34
22 14 0.37
ACGTcount: A:0.77, C:0.03, G:0.02, T:0.18
Consensus pattern (21 bp):
AATAATAAATAAAATAAAATA
Found at i:88098250 original size:10 final size:10
Alignment explanation
Indices: 88098188--88098255 Score: 54
Period size: 10 Copynumber: 6.7 Consensus size: 10
88098178 TAAGAAGAAT
88098188 AATAAAA-AGA
1 AATAAAATA-A
88098198 AA-AAAATAA
1 AATAAAATAA
*
88098207 CAATAACA-AA
1 -AATAAAATAA
88098217 AATAATAAT-A
1 AATAA-AATAA
88098227 AATAATAAATAA
1 AAT-A-AAATAA
88098239 AATAAAATAA
1 AATAAAATAA
88098249 AATAAAA
1 AATAAAA
88098256 GAGGGGAGCC
Statistics
Matches: 48, Mismatches: 2, Indels: 16
0.73 0.03 0.24
Matches are distributed among these distances:
9 10 0.21
10 25 0.52
11 8 0.17
12 5 0.10
ACGTcount: A:0.78, C:0.03, G:0.01, T:0.18
Consensus pattern (10 bp):
AATAAAATAA
Found at i:88101257 original size:16 final size:16
Alignment explanation
Indices: 88101238--88101272 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
88101228 TATGGACTGA
88101238 ATTGAATAATAAAAGT
1 ATTGAATAATAAAAGT
88101254 ATTGAATAATAAAAGT
1 ATTGAATAATAAAAGT
88101270 ATT
1 ATT
88101273 AAATGGATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.11, T:0.34
Consensus pattern (16 bp):
ATTGAATAATAAAAGT
Found at i:88104386 original size:35 final size:35
Alignment explanation
Indices: 88104310--88104440 Score: 108
Period size: 35 Copynumber: 3.7 Consensus size: 35
88104300 ATAGGTAAGT
* * * *
88104310 ATATGTGAGCTTATATTGAACTTGAATATTCGATT
1 ATATGTGAGTTTATATTGAATTTGAATATTCGGTC
* **
88104345 ACATGTGAGTTTATATTGAATTTGTGTATTCGGTC
1 ATATGTGAGTTTATATTGAATTTGAATATTCGGTC
* *
88104380 ATATGTGAAG-TTA-ACTTGAATGTGCATATTCGG-C
1 ATATGTG-AGTTTATA-TTGAATTTGAATATTCGGTC
*
88104414 TATATGTGA-TGTTCTATTGAATTTGAA
1 -ATATGTGAGT-TTATATTGAATTTGAA
88104441 CTATAGGTTA
Statistics
Matches: 76, Mismatches: 14, Indels: 12
0.75 0.14 0.12
Matches are distributed among these distances:
34 3 0.04
35 70 0.92
36 3 0.04
ACGTcount: A:0.28, C:0.08, G:0.21, T:0.43
Consensus pattern (35 bp):
ATATGTGAGTTTATATTGAATTTGAATATTCGGTC
Found at i:88111540 original size:42 final size:42
Alignment explanation
Indices: 88111451--88111568 Score: 132
Period size: 42 Copynumber: 2.8 Consensus size: 42
88111441 AGGTTATTAG
* **
88111451 GATTTCGTATAAGACCATATCTGA-GATATGGCCTCGGTATGT
1 GATTTCGTATAAGACCATATC-GAGGATATGGCATCAATATGT
* *
88111493 GATTTCGTATAAGACCATGTCGAGGACATGGCATCAATATGAT
1 GATTTCGTATAAGACCATATCGAGGATATGGCATCAATATG-T
* * *
88111536 -ATTTCATGTAAGACCATATCGGGGATATGGCAT
1 GATTTCGTATAAGACCATATCGAGGATATGGCAT
88111569 TGAAACAATA
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
41 2 0.03
42 61 0.95
43 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.31
Consensus pattern (42 bp):
GATTTCGTATAAGACCATATCGAGGATATGGCATCAATATGT
Found at i:88114078 original size:20 final size:20
Alignment explanation
Indices: 88114038--88114078 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
88114028 AAACAAAAAT
*
88114038 ATTAAAAATATAAAAATTAA
1 ATTAAAAATATAAAAAATAA
88114058 ATTAAAAATA-AATAAAATAA
1 ATTAAAAATATAA-AAAATAA
88114078 A
1 A
88114079 AAATAGCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (20 bp):
ATTAAAAATATAAAAAATAA
Found at i:88116048 original size:19 final size:21
Alignment explanation
Indices: 88116017--88116056 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
88116007 ATTATTTCTC
88116017 ATTTATCTAAAATAA-AATTT
1 ATTTATCTAAAATAATAATTT
88116037 ATTTAT-TAAAATAATAATTT
1 ATTTATCTAAAATAATAATTT
88116057 TATAAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (21 bp):
ATTTATCTAAAATAATAATTT
Found at i:88128485 original size:7 final size:7
Alignment explanation
Indices: 88128473--88128498 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
88128463 TAGTCGATTC
88128473 GTATTTA
1 GTATTTA
88128480 GTATTTA
1 GTATTTA
88128487 GTATTTA
1 GTATTTA
88128494 GTATT
1 GTATT
88128499 ATGTATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:88129035 original size:30 final size:30
Alignment explanation
Indices: 88128995--88129092 Score: 115
Period size: 30 Copynumber: 3.3 Consensus size: 30
88128985 GATGACGACG
*
88128995 CGGGCTCATCAACAGTACCCACACAATCAC
1 CGGGCCCATCAACAGTACCCACACAATCAC
** *
88129025 CGGGCCCATCAACAGCGCCCATACAATCAC
1 CGGGCCCATCAACAGTACCCACACAATCAC
*** * *
88129055 CAAACCCATCAACAGTTCCCACACAGTCAC
1 CGGGCCCATCAACAGTACCCACACAATCAC
88129085 CGGGCCCA
1 CGGGCCCA
88129093 ACACTTCAAC
Statistics
Matches: 54, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
30 54 1.00
ACGTcount: A:0.32, C:0.43, G:0.14, T:0.11
Consensus pattern (30 bp):
CGGGCCCATCAACAGTACCCACACAATCAC
Found at i:88129168 original size:18 final size:18
Alignment explanation
Indices: 88129145--88129188 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
88129135 ATGCTAGTTG
* *
88129145 TGTATCCTAGCCCTTTTA
1 TGTATCCTAACCCTTATA
88129163 TGTATCCTAACCCTTATA
1 TGTATCCTAACCCTTATA
*
88129181 TGTTTCCT
1 TGTATCCT
88129189 TGTCCCAGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.18, C:0.27, G:0.09, T:0.45
Consensus pattern (18 bp):
TGTATCCTAACCCTTATA
Found at i:88132129 original size:24 final size:24
Alignment explanation
Indices: 88132101--88132150 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
88132091 CCACTAGAAG
*
88132101 TTGATGTCATTTTCC-ATTACGTAT
1 TTGATGTCA-TTTCCTAGTACGTAT
88132125 TTGATGTCATTTCCTAGTACGTAT
1 TTGATGTCATTTCCTAGTACGTAT
88132149 TT
1 TT
88132151 CAGCATCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.50
Consensus pattern (24 bp):
TTGATGTCATTTCCTAGTACGTAT
Found at i:88132999 original size:126 final size:126
Alignment explanation
Indices: 88132774--88133045 Score: 400
Period size: 126 Copynumber: 2.2 Consensus size: 126
88132764 AATAGGAACT
* * *
88132774 ACTGTAGTAAAAGAGCGTCCACGTAGGAGCTTTTTTCAGTACATTTGCTGACAGTGCATCCTACT
1 ACTGTAGAAAAAAAGCGTCCACATAGGAGCTTTTTTCAGTACATTTGCTGACAGTGCATCCTACT
* *
88132839 TGAAGCAATTTTGAAACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTTAGAAACG
66 TGAAACAATTTTGAAACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGAAACG
* * * * *
88132900 ACTGTAGAAAAAAAGTGTCCACATGGGAGCTTTTTTTAGTACGTTTGCTGACAGTGCATCCTGCT
1 ACTGTAGAAAAAAAGCGTCCACATAGGAGCTTTTTTCAGTACATTTGCTGACAGTGCATCCTACT
** * *
88132965 TGAAACGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGAAACT
66 TGAAACAATTTTGAAACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGAAACG
* *
88133026 ACTATAGAAAAAGAGCGTCC
1 ACTGTAGAAAAAAAGCGTCC
88133046 TGAAAAACTA
Statistics
Matches: 129, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
126 129 1.00
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (126 bp):
ACTGTAGAAAAAAAGCGTCCACATAGGAGCTTTTTTCAGTACATTTGCTGACAGTGCATCCTACT
TGAAACAATTTTGAAACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGAAACG
Found at i:88133102 original size:154 final size:155
Alignment explanation
Indices: 88132895--88133196 Score: 498
Period size: 154 Copynumber: 2.0 Consensus size: 155
88132885 ATTTTTTTAG
* * *
88132895 AAACGACTGTAGAAAAAAAGTGTCCACATGGGAGCTTTTTTTAGTACGTTTGCTGACAGTGCATC
1 AAACGACTATAGAAAAAAAGCGTCCACATGGGAGCTTTTTTCAGTACGTTTGCTGACAGTGCATC
*
88132960 CTGCTTGAAACGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGAAAC
66 CTACTTGAAACGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGAAAC
88133025 TACTATAGAAAAAGAGCGTCCTGAA
131 TACTATAGAAAAAGAGCGTCCTGAA
* * * *
88133050 AAACTACTATAGAAAAAGAGCGTCCACGTGGGAGC-TTTTTCAGTACTTTTGCTGACAGTGCATC
1 AAACGACTATAGAAAAAAAGCGTCCACATGGGAGCTTTTTTCAGTACGTTTGCTGACAGTGCATC
* *
88133114 CTACTTGAAGCGTTTTTGACACTATTTGTTTAGAAACATCTTCTCAAAATTATTTTTTCAGAAAC
66 CTACTTGAAACGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGAAAC
*
88133179 TACTGTAGAAAAAGAGCG
131 TACTATAGAAAAAGAGCG
88133197 CCCATGTAGG
Statistics
Matches: 136, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
154 106 0.78
155 30 0.22
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (155 bp):
AAACGACTATAGAAAAAAAGCGTCCACATGGGAGCTTTTTTCAGTACGTTTGCTGACAGTGCATC
CTACTTGAAACGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGAAAC
TACTATAGAAAAAGAGCGTCCTGAA
Found at i:88133393 original size:124 final size:125
Alignment explanation
Indices: 88133050--88133470 Score: 589
Period size: 125 Copynumber: 3.4 Consensus size: 125
88133040 GCGTCCTGAA
* *
88133050 AAACTACTATAGAAAAAGAGCGTCCACGTGGGAGC-TTTTTCAGTACTTTTGCTGACAGTGCATC
1 AAACTACTGTAGAAAAAGAGCGTCCACGTAGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATC
*
88133114 CTACTTGAAGCGTTTTTGACACTATTTGTTTAGAAACATCTTCTCAAAATTATTTTTTCAG
66 CTACTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTT-AG
* * *
88133175 AAACTACTGTAGAAAAAGAGCGCCCATGTAGGAGTTTTTTTCAGTACTTTTGCTGACAGTGC-TC
1 AAACTACTGTAGAAAAAGAGCGTCCACGTAGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATC
* *
88133239 CTGCTTAAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTAG
66 CTACTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTAG
**
88133299 AAACTACTGTAGAAAAA-AAAGTCCACGCT-GGAGCTTTTTTCAGTACTTTTGCTGACAGTGCAT
1 AAACTACTGTAGAAAAAGAGCGTCCACG-TAGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCAT
** * * * * *
88133362 CCTACTTGAAGCAATTCTGAAACTATTTGTTCAAAAATATCTTCTCAAAAATATTTTTTTAG
65 CCTACTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTA-TTTTTTAG
* * * * *
88133424 AAACGACTGTAGAAAAAGAGTGTCCACATGGGAGCTTTTTTAAGTAC
1 AAACTACTGTAGAAAAAGAGCGTCCACGTAGGAGCTTTTTTCAGTAC
88133471 GTAAGCGTTT
Statistics
Matches: 263, Mismatches: 27, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
123 37 0.14
124 65 0.25
125 112 0.43
126 49 0.19
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.35
Consensus pattern (125 bp):
AAACTACTGTAGAAAAAGAGCGTCCACGTAGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATC
CTACTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTAG
Found at i:88133561 original size:102 final size:103
Alignment explanation
Indices: 88133383--88133572 Score: 265
Period size: 102 Copynumber: 1.9 Consensus size: 103
88133373 CAATTCTGAA
* * * **
88133383 ACTATTTGTTCAAAAATATCTTCTCAAAAATATTTTTTTAGAAACGACTGTAGAAAAAGAGTGTC
1 ACTATTTGTTCAAAAACATCTTCTCAAAAATATTTTTTCAAAAACGACTGTAGAAAAAGAGCATC
*
88133448 CACATGGGAGCTTTTTTAAGTACGTAAGCGTTTTTGAC
66 CACATGAGAGCTTTTTTAAGTACGTAAGCGTTTTTGAC
* * **
88133486 ACTATTTGTTCAGAAACATCTTCTCAAAATTA-TTTTTCAAAAATTACTGTAGAAAAAGAGCATC
1 ACTATTTGTTCAAAAACATCTTCTCAAAAATATTTTTTCAAAAACGACTGTAGAAAAAGAGCATC
* *
88133550 CACGTGAGAGCTTTTTTTAGTAC
66 CACATGAGAGCTTTTTTAAGTAC
88133573 TTTTGTTGAT
Statistics
Matches: 75, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
102 46 0.61
103 29 0.39
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.36
Consensus pattern (103 bp):
ACTATTTGTTCAAAAACATCTTCTCAAAAATATTTTTTCAAAAACGACTGTAGAAAAAGAGCATC
CACATGAGAGCTTTTTTAAGTACGTAAGCGTTTTTGAC
Found at i:88133690 original size:228 final size:227
Alignment explanation
Indices: 88133246--88133698 Score: 635
Period size: 228 Copynumber: 2.0 Consensus size: 227
88133236 CTCCTGCTTA
* *
88133246 AAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTAGAAACTACTGTAG
1 AAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTCAAAAACTACTGTAG
* *
88133311 AAAAAAAAGTCCACGCTGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCCTACTTGAAGCAA
66 AAAAAAAAGTCCACGCTGGAGCTTTTTTCAGTACTTTTGCTGACAGTACATCCTACTTAAAGCAA
* *
88133376 TTCTGAAACTATTTGTTCAAAAATATCTTCTCAAAAATATTTTTTTAGAAACGACTGTAGAAAAA
131 TTCTGAAACTATTTGTTCAAAAATATCTTCTCAAAAATATTTTTTTAAAAACGACTATAGAAAAA
* *
88133441 GAGTGTCCACATGGGAGCTTTTTTAAGTACGT
196 GAGCGTCCACATGGAAGCTTTTTTAAGTACGT
*
88133473 AAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTCAAAAATTACTGTAG
1 AAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTCAAAAACTACTGTAG
* * * * *
88133538 -AAAAAGAGCATCCACG-TGAGAGCTTTTTTTAGTACTTTTGTTGATAGTACATCCTGCTTAAAG
66 AAAAAAAAG--TCCACGCTG-GAGCTTTTTTCAGTACTTTTGCTGACAGTACATCCTACTTAAAG
** * * * * *
88133601 CGTTTTTGACACTATTTGTTTAAAAATATCTTCTCAAAATTATTTTTTTCAAAAACTACTATAGA
128 CAATTCTGAAACTATTTGTTCAAAAATATCTTCTCAAAAATATTTTTTT-AAAAACGACTATAGA
*
88133666 AAAA-AGCGTCCA-AGTGGAAGCTTTTTTTAGTAC
192 AAAAGAGCGTCCACA-TGGAAGCTTTTTTAAGTAC
88133699 TTTTGCTGAC
Statistics
Matches: 199, Mismatches: 22, Indels: 9
0.87 0.10 0.04
Matches are distributed among these distances:
226 7 0.04
227 65 0.33
228 111 0.56
229 16 0.08
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (227 bp):
AAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTCAAAAACTACTGTAG
AAAAAAAAGTCCACGCTGGAGCTTTTTTCAGTACTTTTGCTGACAGTACATCCTACTTAAAGCAA
TTCTGAAACTATTTGTTCAAAAATATCTTCTCAAAAATATTTTTTTAAAAACGACTATAGAAAAA
GAGCGTCCACATGGAAGCTTTTTTAAGTACGT
Found at i:88133745 original size:126 final size:127
Alignment explanation
Indices: 88133473--88133774 Score: 441
Period size: 126 Copynumber: 2.4 Consensus size: 127
88133463 TTAAGTACGT
* *
88133473 AAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTA--TTTTTCAAAAATTACTGT
1 AAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTTCAAAAACTACTAT
* * *
88133536 AGAAAAAGAGCATCCACGTGAGAGCTTTTTTTAGTACTTTTGTTGATAGTACATCCTGCTTA
66 AGAAAAAGAGCATCCAAGTGAGAGCTTTTTTTAGTACTTTTGCTGACAGTACATCCTGCTTA
* * *
88133598 AAGCGTTTTTGACACTATTTGTTTAAAAATATCTTCTCAAAATTATTTTTTTCAAAAACTACTAT
1 AAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTTCAAAAACTACTAT
* * * * *
88133663 AGAAAAA-AGCGTCCAAGTG-GAAGCTTTTTTTAGTACTTTTGCTGACAGTGCATCTTGGTTG
66 AGAAAAAGAGCATCCAAGTGAG-AGCTTTTTTTAGTACTTTTGCTGACAGTACATCCTGCTTA
*
88133724 AAGCGTTTTTGACACTATTTGTTCAGAAACATCTTTTCAAAATTATTTTTT
1 AAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTT
88133775 CAGATACATC
Statistics
Matches: 157, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
125 43 0.27
126 91 0.58
127 23 0.15
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (127 bp):
AAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTTCAAAAACTACTAT
AGAAAAAGAGCATCCAAGTGAGAGCTTTTTTTAGTACTTTTGCTGACAGTACATCCTGCTTA
Found at i:88133806 original size:27 final size:28
Alignment explanation
Indices: 88133739--88133808 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
88133729 TTTTTGACAC
* * *
88133739 TATTTGTTCAGAAACATCTTTTCAAAAT
1 TATTTTTTCAGATACATCTTCTCAAAAT
* *
88133767 TATTTTTTCAGATACATCTTCTCTAATT
1 TATTTTTTCAGATACATCTTCTCAAAAT
88133795 TATTTTTT-AGATAC
1 TATTTTTTCAGATAC
88133809 TGTAGAAATT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 6 0.16
28 31 0.84
ACGTcount: A:0.30, C:0.14, G:0.06, T:0.50
Consensus pattern (28 bp):
TATTTTTTCAGATACATCTTCTCAAAAT
Found at i:88135044 original size:13 final size:12
Alignment explanation
Indices: 88135021--88135045 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
88135011 AATCATAAAA
88135021 GGTAATTTTTTT
1 GGTAATTTTTTT
88135033 GGTAATTTTTTT
1 GGTAATTTTTTT
88135045 G
1 G
88135046 TTATAAATAA
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:0.16, C:0.00, G:0.20, T:0.64
Consensus pattern (12 bp):
GGTAATTTTTTT
Found at i:88135175 original size:17 final size:17
Alignment explanation
Indices: 88135153--88135189 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
88135143 GCTATTGAGG
88135153 TATGTTTGTATTTATTT
1 TATGTTTGTATTTATTT
88135170 TATGTTTGTATTTATTT
1 TATGTTTGTATTTATTT
88135187 TAT
1 TAT
88135190 ATTTTCATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.19, C:0.00, G:0.11, T:0.70
Consensus pattern (17 bp):
TATGTTTGTATTTATTT
Found at i:88139389 original size:16 final size:17
Alignment explanation
Indices: 88139353--88139391 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
88139343 TTTTAAAAGG
88139353 AAAACAAATGAATCTTA
1 AAAACAAATGAATCTTA
*
88139370 AAAACAATTGAATCTTA
1 AAAACAAATGAATCTTA
88139387 AAAAC
1 AAAAC
88139392 TTAATGAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.59, C:0.13, G:0.05, T:0.23
Consensus pattern (17 bp):
AAAACAAATGAATCTTA
Found at i:88154116 original size:15 final size:15
Alignment explanation
Indices: 88154098--88154126 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
88154088 ATGTTATTAA
88154098 ATTAAATTATATTTT
1 ATTAAATTATATTTT
88154113 ATTAAATTATATTT
1 ATTAAATTATATTT
88154127 AATAATAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTAAATTATATTTT
Found at i:88154135 original size:58 final size:58
Alignment explanation
Indices: 88154068--88154204 Score: 161
Period size: 58 Copynumber: 2.4 Consensus size: 58
88154058 TTAATTCATA
* * * *
88154068 TAATAATAATTATATTAAGAATGTTATTAAATTAA--ATTATATTTTATTAAATTATATT
1 TAATAATAATTATATTAA-AATATCATTAAATTAATTATTAT-TTTTAATAAAATATATT
* * *
88154126 TAATAATAATTATGTTAAAATATCGTTAAATTATTTATTATTTTTAATAAAATATATT
1 TAATAATAATTATATTAAAATATCATTAAATTAATTATTATTTTTAATAAAATATATT
* *
88154184 TAACAATAATTTTATTAAAAT
1 TAATAATAATTATATTAAAAT
88154205 TTAATAACAA
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
57 12 0.18
58 50 0.75
59 5 0.07
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (58 bp):
TAATAATAATTATATTAAAATATCATTAAATTAATTATTATTTTTAATAAAATATATT
Found at i:88154202 original size:26 final size:25
Alignment explanation
Indices: 88154167--88154217 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
88154157 TATTTATTAT
*
88154167 TTTTAATAAAATATATTTAACAATAA
1 TTTTAATAAAATATA-ATAACAATAA
* *
88154193 TTTTATTAAAATTTAATAACAATAA
1 TTTTAATAAAATATAATAACAATAA
88154218 CAATAATCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (25 bp):
TTTTAATAAAATATAATAACAATAA
Found at i:88154350 original size:44 final size:46
Alignment explanation
Indices: 88154299--88154385 Score: 135
Period size: 44 Copynumber: 1.9 Consensus size: 46
88154289 TACAACATTT
88154299 ATTCCATTCAACCAAACACA-AGAATT-CT-ATTACAGCTCTATCCC
1 ATTCCATTCAACCAAACA-ATAGAATTACTAATTACAGCTCTATCCC
*
88154343 ATTCCATTCAACCAAACAATTGAATTACTAATTACAGCTCTAT
1 ATTCCATTCAACCAAACAATAGAATTACTAATTACAGCTCTAT
88154386 TCAATTACAG
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
43 1 0.03
44 23 0.59
45 2 0.05
46 13 0.33
ACGTcount: A:0.38, C:0.28, G:0.05, T:0.30
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAATAGAATTACTAATTACAGCTCTATCCC
Found at i:88154393 original size:16 final size:16
Alignment explanation
Indices: 88154372--88154411 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
88154362 TTGAATTACT
*
88154372 AATTACAGCTCTATTC
1 AATTACAGATCTATTC
*
88154388 AATTACAGATTTATTC
1 AATTACAGATCTATTC
88154404 AATTACAG
1 AATTACAG
88154412 TGAACCAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.38, C:0.17, G:0.07, T:0.38
Consensus pattern (16 bp):
AATTACAGATCTATTC
Found at i:88157058 original size:33 final size:33
Alignment explanation
Indices: 88156954--88157049 Score: 120
Period size: 33 Copynumber: 2.9 Consensus size: 33
88156944 CAGTCCAGTA
* *
88156954 CCATCGCAGTACAACACTCCTCCCGGCCCGTAT
1 CCATCGCAGTACAACACTCCTCCCAGCTCGTAT
* ** *
88156987 CCATCGCATTACTTCACTCCTCCCAGGTCGTAT
1 CCATCGCAGTACAACACTCCTCCCAGCTCGTAT
* *
88157020 CCATCGCAGTACAGCACTCCTCCTAGCTCG
1 CCATCGCAGTACAACACTCCTCCCAGCTCG
88157050 AGTTCATCGA
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 52 1.00
ACGTcount: A:0.20, C:0.43, G:0.15, T:0.23
Consensus pattern (33 bp):
CCATCGCAGTACAACACTCCTCCCAGCTCGTAT
Found at i:88158608 original size:20 final size:20
Alignment explanation
Indices: 88158561--88158618 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
88158551 AGATAGGGGC
* * *
88158561 ACATGCCCGTATGGCCTAGC
1 ACATGCCCGTGTGGCCTGGA
*
88158581 ACACGCCCGTGTGGCCTGGA
1 ACATGCCCGTGTGGCCTGGA
*
88158601 ACATGCCCATGTGGCCTG
1 ACATGCCCGTGTGGCCTG
88158619 CCCATGGGCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.17, C:0.34, G:0.29, T:0.19
Consensus pattern (20 bp):
ACATGCCCGTGTGGCCTGGA
Found at i:88159126 original size:13 final size:13
Alignment explanation
Indices: 88159108--88159144 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
88159098 AGATAATTAG
88159108 CAAATCATACATA
1 CAAATCATACATA
88159121 CAAATCATACATA
1 CAAATCATACATA
*
88159134 TAAATTCATAC
1 CAAA-TCATAC
88159145 CAAACTATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 16 0.73
14 6 0.27
ACGTcount: A:0.51, C:0.22, G:0.00, T:0.27
Consensus pattern (13 bp):
CAAATCATACATA
Found at i:88160735 original size:3 final size:3
Alignment explanation
Indices: 88160721--88160757 Score: 65
Period size: 3 Copynumber: 12.0 Consensus size: 3
88160711 CTATCTCAAT
88160721 TAA TAGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
88160758 GTAAATATCT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:88161030 original size:13 final size:13
Alignment explanation
Indices: 88161012--88161037 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
88161002 TATAACTAAC
88161012 TTAATAAATATTT
1 TTAATAAATATTT
88161025 TTAATAAATATTT
1 TTAATAAATATTT
88161038 ACGGACTCGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TTAATAAATATTT
Found at i:88166684 original size:13 final size:13
Alignment explanation
Indices: 88166666--88166702 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
88166656 AGATAATATG
88166666 CAAATCATACATA
1 CAAATCATACATA
88166679 CAAATCATACATA
1 CAAATCATACATA
*
88166692 TAAATTCATAC
1 CAAA-TCATAC
88166703 CAAACTATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 16 0.73
14 6 0.27
ACGTcount: A:0.51, C:0.22, G:0.00, T:0.27
Consensus pattern (13 bp):
CAAATCATACATA
Found at i:88168156 original size:20 final size:21
Alignment explanation
Indices: 88168131--88168171 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
88168121 TTTCTTGTTT
* *
88168131 TTCTTTCTTTC-TTTTTTTTA
1 TTCTTTATTTCATTTTATTTA
88168151 TTCTTTATTTCATTTTATTTA
1 TTCTTTATTTCATTTTATTTA
88168172 CTTAACTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (21 bp):
TTCTTTATTTCATTTTATTTA
Found at i:88168591 original size:13 final size:13
Alignment explanation
Indices: 88168573--88168598 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
88168563 CATAACTAAC
88168573 TTAATAAATATTT
1 TTAATAAATATTT
88168586 TTAATAAATATTT
1 TTAATAAATATTT
88168599 ACGGACTCGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TTAATAAATATTT
Found at i:88170718 original size:85 final size:85
Alignment explanation
Indices: 88170602--88170784 Score: 271
Period size: 85 Copynumber: 2.2 Consensus size: 85
88170592 ATACAGGGGT
* *
88170602 CACATGCCCGTGTGGGTAAGTCGTGTGACTCAGACGATCAAATGACACGCTC-GTGTCCTAGG-C
1 CACATGCCCGTGTGGGTAAGCCGTGTGACTCACACGATCAAATGACACG-TCAGTGTCCTAGGTC
88170665 TGTGTGGGCATTCGATGTAAGG
65 -GTGTGGGCATTCGATGTAAGG
* * * *
88170687 CACATGGCTGTGTGGGTAGGCCGTGTGACTCACACGGTCAAATGACACGTCAGTGTCCTAGGTCG
1 CACATGCCCGTGTGGGTAAGCCGTGTGACTCACACGATCAAATGACACGTCAGTGTCCTAGGTCG
88170752 TGTGGGCATTCGATGTAAGG
66 TGTGGGCATTCGATGTAAGG
*
88170772 CACATGACCGTGT
1 CACATGCCCGTGT
88170785 CCCAGCCTGT
Statistics
Matches: 88, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
84 2 0.02
85 85 0.97
86 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.32, T:0.25
Consensus pattern (85 bp):
CACATGCCCGTGTGGGTAAGCCGTGTGACTCACACGATCAAATGACACGTCAGTGTCCTAGGTCG
TGTGGGCATTCGATGTAAGG
Found at i:88172018 original size:23 final size:24
Alignment explanation
Indices: 88171963--88172018 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
88171953 AGCCTTACTA
*
88171963 TGGGAAGTTCACAAAGAACCATAT
1 TGGGAAGCTCACAAAGAACCATAT
* * *
88171987 GGGGAAGCTCATAAAGAGCC-TAT
1 TGGGAAGCTCACAAAGAACCATAT
88172010 TGGGAAGCT
1 TGGGAAGCT
88172019 TATCCAGGCT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 11 0.41
24 16 0.59
ACGTcount: A:0.36, C:0.16, G:0.29, T:0.20
Consensus pattern (24 bp):
TGGGAAGCTCACAAAGAACCATAT
Found at i:88172090 original size:48 final size:47
Alignment explanation
Indices: 88171965--88172101 Score: 127
Period size: 48 Copynumber: 2.9 Consensus size: 47
88171955 CCTTACTATG
* * *
88171965 GGAAGTTCACAAAGAACCATATGGGGAAGCTCATAAAGAGCCTATTG
1 GGAAGTTTACAAAGAACCATATCGGGAAGCTCATAAAGAGCCTATTA
* * * * *
88172012 GGAAGCTTATC-CAG-GCTATATAACGAGAAGCTCAT-AAGAGCCATAATTA
1 GGAAGTTTA-CAAAGAACCATAT--CGGGAAGCTCATAAAGAGCC-T-ATTA
*
88172061 GGAAGTTTACAAAGAACCATATCGGGAAGCTCACAAAGAGC
1 GGAAGTTTACAAAGAACCATATCGGGAAGCTCATAAAGAGC
88172102 AATATAACGG
Statistics
Matches: 68, Mismatches: 14, Indels: 14
0.71 0.15 0.15
Matches are distributed among these distances:
46 5 0.07
47 16 0.24
48 23 0.34
49 19 0.28
50 5 0.07
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.19
Consensus pattern (47 bp):
GGAAGTTTACAAAGAACCATATCGGGAAGCTCATAAAGAGCCTATTA
Found at i:88174703 original size:4 final size:4
Alignment explanation
Indices: 88174694--88174729 Score: 54
Period size: 4 Copynumber: 8.5 Consensus size: 4
88174684 AAAAATACCT
88174694 TTTC TTTC TTTC TTTC TTCTC TTTTC TTTC TTTC TT
1 TTTC TTTC TTTC TTTC TT-TC -TTTC TTTC TTTC TT
88174730 CTCCCTCTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 24 0.80
5 4 0.13
6 2 0.07
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTC
Found at i:88174721 original size:18 final size:18
Alignment explanation
Indices: 88174698--88174732 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
88174688 ATACCTTTTC
88174698 TTTCTTTCTTTCTTCTCT
1 TTTCTTTCTTTCTTCTCT
88174716 TTTCTTTCTTTCTTCTC
1 TTTCTTTCTTTCTTCTC
88174733 CCTCTCTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTCTTTCTTTCTTCTCT
Found at i:88174737 original size:22 final size:22
Alignment explanation
Indices: 88174692--88174744 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
88174682 ATAAAAATAC
*
88174692 CTTTTCTTTCTTTCTTTCTTCT
1 CTTTTCTTTCTTTCTTTCTCCT
88174714 CTTTTCTTTCTTTC-TTCTCCCT
1 CTTTTCTTTCTTTCTTTCT-CCT
*
88174736 CTCTTCTTT
1 CTTTTCTTT
88174745 GTTATGTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 4 0.14
22 24 0.86
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (22 bp):
CTTTTCTTTCTTTCTTTCTCCT
Found at i:88174742 original size:18 final size:18
Alignment explanation
Indices: 88174700--88174744 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
88174690 ACCTTTTCTT
* *
88174700 TCTTTCTTTCTTCTCTTT
1 TCTTTCTTTCTTCTCCTC
88174718 TCTTTCTTTCTTCTCC-C
1 TCTTTCTTTCTTCTCCTC
88174735 TCTCTTCTTT
1 TCT-TTCTTT
88174745 GTTATGTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 3 0.12
18 21 0.88
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (18 bp):
TCTTTCTTTCTTCTCCTC
Found at i:88179132 original size:24 final size:25
Alignment explanation
Indices: 88179082--88179132 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
88179072 AATAAATTTA
* **
88179082 AATTAATATTAATATTAAATAGTAT
1 AATTAATACTAATATTAAATAAAAT
88179107 AATT-ATACTAATATTAAATAAAAT
1 AATTAATACTAATATTAAATAAAAT
88179131 AA
1 AA
88179133 AAAAATCTCC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (25 bp):
AATTAATACTAATATTAAATAAAAT
Found at i:88184889 original size:17 final size:19
Alignment explanation
Indices: 88184869--88184908 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
88184859 ATAATAATAT
88184869 ATAG-ATAAAAAA-ACATA
1 ATAGTATAAAAAAGACATA
88184886 ATAGTATAAAAAATGACATA
1 ATAGTATAAAAAA-GACATA
88184906 ATA
1 ATA
88184909 TAAAATAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 4 0.20
18 8 0.40
20 8 0.40
ACGTcount: A:0.65, C:0.05, G:0.07, T:0.23
Consensus pattern (19 bp):
ATAGTATAAAAAAGACATA
Found at i:88184929 original size:23 final size:23
Alignment explanation
Indices: 88184903--88184982 Score: 67
Period size: 23 Copynumber: 3.3 Consensus size: 23
88184893 AAAAAATGAC
88184903 ATAATATAAAATAATTATAATAT
1 ATAATATAAAATAATTATAATAT
88184926 ATAATATGAAAGTATATATGTAT-ATA-
1 ATAATAT-AAA--ATA-AT-TATAATAT
88184952 AT-ATATATAAATAATTAATAAATAT
1 ATAATATA-AAATAATT-AT-AATAT
88184977 ATAATA
1 ATAATA
88184983 CAAGTAAAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 19
0.71 0.00 0.29
Matches are distributed among these distances:
21 1 0.02
22 4 0.09
23 10 0.22
24 7 0.15
25 8 0.17
26 8 0.17
27 5 0.11
28 3 0.07
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (23 bp):
ATAATATAAAATAATTATAATAT
Found at i:88185004 original size:11 final size:11
Alignment explanation
Indices: 88184903--88185005 Score: 52
Period size: 13 Copynumber: 8.6 Consensus size: 11
88184893 AAAAAATGAC
88184903 ATAATATAA-A
1 ATAATATAATA
88184913 ATAATTATAATA
1 ATAA-TATAATA
88184925 TATAATATGAA-A
1 -ATAATAT-AATA
*
88184937 GTATATATGTATATA
1 --ATA-ATATA-ATA
88184952 ATATATATAAATA
1 ATA-ATAT-AATA
88184965 ATTAATA-AATA
1 A-TAATATAATA
*
88184976 TATAATACAAGTA
1 -ATAATATAA-TA
88184989 A-AATATAATA
1 ATAATATAATA
88184999 ATAATAT
1 ATAATAT
88185006 GTAAATAAAA
Statistics
Matches: 76, Mismatches: 3, Indels: 27
0.72 0.03 0.25
Matches are distributed among these distances:
10 7 0.09
11 25 0.33
12 9 0.12
13 27 0.36
14 7 0.09
15 1 0.01
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.37
Consensus pattern (11 bp):
ATAATATAATA
Found at i:88185079 original size:12 final size:12
Alignment explanation
Indices: 88185050--88185089 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
88185040 AAAGTAATAT
*
88185050 ATAATAAATAACA
1 ATAATATATAA-A
88185063 ATAATATATAAA
1 ATAATATATAAA
*
88185075 ATAATATATATA
1 ATAATATATAAA
88185087 ATA
1 ATA
88185090 TAAAAATAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (12 bp):
ATAATATATAAA
Found at i:88185081 original size:32 final size:32
Alignment explanation
Indices: 88185039--88185106 Score: 86
Period size: 32 Copynumber: 2.1 Consensus size: 32
88185029 ATGTTTTGTG
* *
88185039 AAAAGTAATATATAATAA-ATAACAATAATATAT
1 AAAAGTAATATAT-ATAATATAAAAATAAGAT-T
88185072 AAAA-TAATATATATAATATAAAAATAAGATT
1 AAAAGTAATATATATAATATAAAAATAAGATT
88185103 AAAA
1 AAAA
88185107 ATAAAACAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
31 9 0.28
32 19 0.59
33 4 0.12
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.29
Consensus pattern (32 bp):
AAAAGTAATATATATAATATAAAAATAAGATT
Found at i:88189424 original size:46 final size:46
Alignment explanation
Indices: 88189357--88189531 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
88189347 TGTAACCCGC
*
88189357 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* * *
88189403 CCATAAGTGAGCTTGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* ** *
88189453 -C-TCA-TGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* *
88189496 CCATAAGTGAACTCAGACTCAACTCAACAAGCTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
88189532 ATGCCCAAAT
Statistics
Matches: 105, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 59 0.56
47 26 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:88189472 original size:93 final size:93
Alignment explanation
Indices: 88189365--88189536 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
88189355 GCCCATAAGC
** * * **
88189365 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAGCTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
88189430 CGAGCTCGGATGCCTAGTTACATCTCAT
66 CAAGCTCGGATGCCTAGTTACATCTCAT
88189458 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
88189523 CAAGCTCGGATGCC
66 CAAGCTCGGATGCC
88189537 CAAATATCCT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CAAGCTCGGATGCCTAGTTACATCTCAT
Found at i:88192501 original size:31 final size:31
Alignment explanation
Indices: 88192466--88192529 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
88192456 AATTAGGTGA
**
88192466 TTGAACTT-AGCTTGTTGGTTTAAATTGGTAC
1 TTGAACTTGA-CTTGTTGGTCCAAATTGGTAC
*
88192497 TTGAACTTGACTTTTTGGTCCAAATTGGTAC
1 TTGAACTTGACTTGTTGGTCCAAATTGGTAC
88192528 TT
1 TT
88192530 ATGGTAAATG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 28 0.97
32 1 0.03
ACGTcount: A:0.22, C:0.12, G:0.20, T:0.45
Consensus pattern (31 bp):
TTGAACTTGACTTGTTGGTCCAAATTGGTAC
Found at i:88213442 original size:24 final size:24
Alignment explanation
Indices: 88213407--88213464 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 24
88213397 GGCGCGACCC
88213407 ATTTTTTT--AATAATATAATTTT
1 ATTTTTTTAAAATAATATAATTTT
* *
88213429 ATTTTTTTAAAATATTATTATTTT
1 ATTTTTTTAAAATAATATAATTTT
88213453 ATTATATTTTAA
1 ATT-T-TTTTAA
88213465 TAATTTTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 8 0.27
24 15 0.50
25 1 0.03
26 6 0.20
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (24 bp):
ATTTTTTTAAAATAATATAATTTT
Found at i:88213466 original size:24 final size:22
Alignment explanation
Indices: 88213407--88213468 Score: 72
Period size: 22 Copynumber: 2.6 Consensus size: 22
88213397 GGCGCGACCC
88213407 ATTTTTTTAATAATATAATTTT
1 ATTTTTTTAATAATATAATTTT
88213429 ATTTTTTTAA-AATATTATTATTTT
1 ATTTTTTTAATAATA-TA--ATTTT
88213453 ATTATATTTTAATAAT
1 ATT-T-TTTTAATAAT
88213469 TTTTAAATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
21 4 0.12
22 12 0.35
24 8 0.24
25 1 0.03
26 6 0.18
27 3 0.09
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
ATTTTTTTAATAATATAATTTT
Found at i:88213705 original size:3 final size:3
Alignment explanation
Indices: 88213690--88213740 Score: 86
Period size: 3 Copynumber: 17.0 Consensus size: 3
88213680 TGCAGCAGCA
88213690 AAG AGAG AA- AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG A-AG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
88213735 AAG AAG
1 AAG AAG
88213741 GAGGAGGAGG
Statistics
Matches: 46, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 2 0.04
3 41 0.89
4 3 0.07
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:88214866 original size:5 final size:5
Alignment explanation
Indices: 88214856--88214887 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
88214846 TTGTGTGTTC
88214856 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
88214888 TCACAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:88214870 original size:9 final size:9
Alignment explanation
Indices: 88214856--88214886 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
88214846 TTGTGTGTTC
88214856 TTTATTTTA
1 TTTATTTTA
88214865 TTTATTTTA
1 TTTATTTTA
88214874 TTTTATTTTA
1 -TTTATTTTA
88214884 TTT
1 TTT
88214887 TTCACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:88219917 original size:52 final size:48
Alignment explanation
Indices: 88219898--88220100 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
88219888 TGACAAGTGG
* *
88219898 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
88219944 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
88219996 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
88220042 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
88220088 AAAGTGATAAGTG
1 AAAGTGATAAGTG
88220101 GCTACACTTA
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:88219952 original size:98 final size:98
Alignment explanation
Indices: 88219832--88220100 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
88219822 TTTGAGTACT
*
88219832 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
88219897 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
88219930 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
88219995 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
88220028 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
88220093 GATAAGTG
65 GAAAAGTG
88220101 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:88220108 original size:37 final size:37
Alignment explanation
Indices: 88220064--88220172 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
88220054 GATAGCTTTA
88220064 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
88220101 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
88220138 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
88220173 ATTATACGTA
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
35 11 0.16
36 4 0.06
37 52 0.78
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:88222272 original size:5 final size:5
Alignment explanation
Indices: 88222262--88222313 Score: 97
Period size: 5 Copynumber: 10.6 Consensus size: 5
88222252 TTGTGTGTTC
88222262 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
88222311 TTT
1 TTT
88222314 TCACAAATAG
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.09
5 42 0.91
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:88222638 original size:11 final size:11
Alignment explanation
Indices: 88222603--88222630 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
88222593 GAGAGTAAGA
88222603 AATTTTAATGT
1 AATTTTAATGT
88222614 AATTTTAATGT
1 AATTTTAATGT
88222625 AATTTT
1 AATTTT
88222631 GATATAATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (11 bp):
AATTTTAATGT
Found at i:88223357 original size:23 final size:22
Alignment explanation
Indices: 88223305--88223365 Score: 70
Period size: 23 Copynumber: 2.6 Consensus size: 22
88223295 AAATTTAAAA
88223305 ATTATTAAAATATAATAAAATAAT
1 ATTATTAAAA-A-AATAAAATAAT
*
88223329 AATATTTAAAAAAATAAAACT-AT
1 ATTA-TTAAAAAAATAAAA-TAAT
88223352 ATTATTAAAAAAAT
1 ATTATTAAAAAAAT
88223366 GAGTCGCGCC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
22 10 0.30
23 12 0.36
24 5 0.15
25 6 0.18
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (22 bp):
ATTATTAAAAAAATAAAATAAT
Found at i:88224370 original size:17 final size:18
Alignment explanation
Indices: 88224345--88224379 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
88224335 ATATAATAAA
*
88224345 AAATTATAATT-TAAAAT
1 AAATAATAATTATAAAAT
88224362 AAATAATAATTATAAAAT
1 AAATAATAATTATAAAAT
88224380 TAGAAACAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
AAATAATAATTATAAAAT
Found at i:88229992 original size:126 final size:126
Alignment explanation
Indices: 88229833--88230076 Score: 425
Period size: 126 Copynumber: 1.9 Consensus size: 126
88229823 GTTTAAGCCT
88229833 TAAGAGAATATTCAAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGAAT
1 TAAGAGAATATTCAAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGAAT
* *
88229898 CTTCGAATTCTTTAAATACTGAAAATTGCCTTTATTTTGAAAATTTTTTAGAGTGAACTGG
66 CTTCGAATTCTTTAAATACCGAAAATTGCCTTTATTTTGAAAATTTTTGAGAGTGAACTGG
* * * *
88229959 TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
1 TAAGAGAATATTCAAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGAAT
*
88230024 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAATTTTTGAGAG
66 CTTCGAATTCTTTAAATACCGAAAATTGCCTTTATTTTGAAAATTTTTGAGAG
88230077 AAAATCAATG
Statistics
Matches: 111, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
126 111 1.00
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (126 bp):
TAAGAGAATATTCAAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGAAT
CTTCGAATTCTTTAAATACCGAAAATTGCCTTTATTTTGAAAATTTTTGAGAGTGAACTGG
Found at i:88230210 original size:13 final size:12
Alignment explanation
Indices: 88230178--88230227 Score: 52
Period size: 13 Copynumber: 4.2 Consensus size: 12
88230168 AACCATGTAT
88230178 AAATAA-TAA-A
1 AAATAATTAATA
88230188 AAATAA-TAATA
1 AAATAATTAATA
*
88230199 ATAGTAATTAATA
1 A-AATAATTAATA
88230212 GAAATAATTAATA
1 -AAATAATTAATA
88230225 AAA
1 AAA
88230228 CAACAGTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
10 9 0.26
11 2 0.06
12 7 0.21
13 15 0.44
14 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (12 bp):
AAATAATTAATA
Found at i:88230558 original size:14 final size:14
Alignment explanation
Indices: 88230539--88230569 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
88230529 ATATATTTAC
*
88230539 ATAATAAATATATA
1 ATAATAAATAAATA
88230553 ATAATAAATAAATA
1 ATAATAAATAAATA
88230567 ATA
1 ATA
88230570 TAATAATATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAATAAATAAATA
Found at i:88230570 original size:19 final size:18
Alignment explanation
Indices: 88230541--88230577 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
88230531 ATATTTACAT
88230541 AATAAATATATAATAATA
1 AATAAATATATAATAATA
88230559 AATAAATAATATAATAATA
1 AATAAAT-ATATAATAATA
88230578 TGAAACATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AATAAATATATAATAATA
Found at i:88230629 original size:63 final size:63
Alignment explanation
Indices: 88230552--88230685 Score: 152
Period size: 60 Copynumber: 2.2 Consensus size: 63
88230542 ATAAATATAT
* * * *
88230552 AATAATAAATAAA-TAATATAATAAT-ATGAAACAT-AA-CTCAAATTAATTAAATTAATAG-AA
1 AATAATAAA-AAACAAATATAAAAATAATGAAA-ATAAAGATCAAATTAATTAAATTAACAGTAA
* *
88230612 AATAATAAAAAACAAATATAAAAATAATGAGAATAAAGATCAAATTAATTAATTTAACAGTAA
1 AATAATAAAAAACAAATATAAAAATAATGAAAATAAAGATCAAATTAATTAAATTAACAGTAA
*
88230675 AATAACAAAAA
1 AATAATAAAAA
88230686 TAAAAAAGGA
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
59 3 0.05
60 21 0.34
61 7 0.11
62 19 0.31
63 12 0.19
ACGTcount: A:0.64, C:0.05, G:0.04, T:0.26
Consensus pattern (63 bp):
AATAATAAAAAACAAATATAAAAATAATGAAAATAAAGATCAAATTAATTAAATTAACAGTAA
Found at i:88230985 original size:18 final size:18
Alignment explanation
Indices: 88230962--88230997 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
88230952 ATAACAAGTA
* *
88230962 GGGTGATGGAGTTAGTGG
1 GGGTGATGAAGGTAGTGG
88230980 GGGTGATGAAGGTAGTGG
1 GGGTGATGAAGGTAGTGG
88230998 ATGGTTTAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.56, T:0.25
Consensus pattern (18 bp):
GGGTGATGAAGGTAGTGG
Found at i:88231030 original size:37 final size:37
Alignment explanation
Indices: 88230976--88231050 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
88230966 GATGGAGTTA
88230976 GTGGGGGTGATGAAGGTAGTGGATGGTTTAGTAGGGT
1 GTGGGGGTGATGAAGGTAGTGGATGGTTTAGTAGGGT
*
88231013 GTGGGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGT
1 GTGGGGGTGATGAAGGTAGTGGATGGTTTAGTAGGGT
88231050 G
1 G
88231051 ATGGAGTTAG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.17, C:0.00, G:0.53, T:0.29
Consensus pattern (37 bp):
GTGGGGGTGATGAAGGTAGTGGATGGTTTAGTAGGGT
Found at i:88231050 original size:29 final size:29
Alignment explanation
Indices: 88231017--88231079 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
88231007 TAGGGTGTGG
*
88231017 GGGTGATGGAGGTAGTGGAT-GGTTTAGTA
1 GGGTGATGGAGGTAGAGG-TCGGTTTAGTA
* *
88231046 GGGTGATGGAGTTAGAGGTCGGTTTAGTG
1 GGGTGATGGAGGTAGAGGTCGGTTTAGTA
88231075 GGGTG
1 GGGTG
88231080 TTTAATTTGG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 1 0.03
29 29 0.97
ACGTcount: A:0.17, C:0.02, G:0.51, T:0.30
Consensus pattern (29 bp):
GGGTGATGGAGGTAGAGGTCGGTTTAGTA
Found at i:88231670 original size:87 final size:85
Alignment explanation
Indices: 88231317--88231727 Score: 513
Period size: 85 Copynumber: 4.8 Consensus size: 85
88231307 AACGAAAATA
* * *
88231317 AGATCTGT-AATTTTAGCCTATTACCCTACTACTTAGGGGGTTAAGGCAAGTCTTTGACCTACTC
1 AGATCTGTAAATTTTAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCGAGTCTTTGACCTGCTC
* *
88231381 CACCACTGCTCGGAGAGCCA
66 CACCACTGCTCGGCGAGCCC
* * *
88231401 AGATCTGTAAATTTTAGCATGTTACCCTACTGCTTAGGGGGCTAAGGCGAGTCTTTGACCTGCTC
1 AGATCTGTAAATTTTAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCGAGTCTTTGACCTGCTC
88231466 CACCACTGCTCGGCGAGCCC
66 CACCACTGCTCGGCGAGCCC
* * * * ** *
88231486 A-AGTCTGTAAACTTTAGCCTGTTACCCTACTGCTTACGGGGTTAAAGCGAGTCTTCAACCTACT
1 AGA-TCTGTAAATTTTAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCGAGTCTTTGACCTGCT
* * *
88231550 CCGCCACTGCTCGGTGAGTCC
65 CCACCACTGCTCGGCGAGCCC
* * *
88231571 AGATCTGTAAATTTTAGCCTGTTACCCTACTATTTAAGGGGTTAAGGCGTCTA-TCTTTGATCTG
1 AGATCTGTAAATTTTAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCG---AGTCTTTGACCTG
**
88231635 CTCTGCCACTGCTCGGCGAGCCC
63 CTCCACCACTGCTCGGCGAGCCC
* * *
88231658 AGATCTGTAAATTTTAGCCTGTTACCCTACTACTTAGGGGGTGAAGGCGTGTATCTTTGATCTGC
1 AGATCTGTAAATTTTAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCGAG--TCTTTGACCTGC
88231723 TCCAC
64 TCCAC
88231728 TATTACTTAG
Statistics
Matches: 281, Mismatches: 37, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
84 9 0.03
85 182 0.65
86 1 0.00
87 88 0.31
88 1 0.00
ACGTcount: A:0.21, C:0.26, G:0.22, T:0.30
Consensus pattern (85 bp):
AGATCTGTAAATTTTAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCGAGTCTTTGACCTGCTC
CACCACTGCTCGGCGAGCCC
Found at i:88231749 original size:87 final size:85
Alignment explanation
Indices: 88231316--88231877 Score: 513
Period size: 87 Copynumber: 6.6 Consensus size: 85
88231306 TAACGAAAAT
* * * *
88231316 AAGATCTGT-AATTTTAGCCTATTACCCTACTACTTAGGGGGTTAAGGCAAGTCTTTGACCTACT
1 AAGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTTGACCTGCT
* *
88231380 CCACCACTGCTCGGAGAGCC
66 CCACCACTGCTCGGCGAGAC
* *
88231400 AAGATCTGTAAATTTTAGCATGTTACCCTACTGCTTAGGGGGCTAAGGCGAGTCTTTGACCTGCT
1 AAGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTTGACCTGCT
*
88231465 CCACCACTGCTCGGCGAGCCC
66 CCACCACTGCTCGGCGAG-AC
* * * ** *
88231486 AAG-TCTGTAAACTTTAGCCTGTTACCCTACTGCTTACGGGGTTAAAGCGAGTCTTCAACCTACT
1 AAGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTTGACCTGCT
* * *
88231550 CCGCCACTGCTCGGTGAGTC
66 CCACCACTGCTCGGCGAGAC
* ** * *
88231570 CAGATCTGTAAATTTTAGCCTGTTACCCTACTATTTAAGGGGTTAAGGCGTCTA-TCTTTGATCT
1 AAGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCG---AGTCTTTGACCT
** *
88231634 GCTCTGCCACTGCTCGGCGAGCC
63 GCTCCACCACTGCTCGGCGAGAC
* * * * *
88231657 CAGATCTGTAAATTTTAGCCTGTTACCCTACTACTTAGGGGGTGAAGGCGTGTATCTTTGATCTG
1 AAGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAG--TCTTTGACCTG
* * * * *
88231722 CTCCACTATTACTTAGG-GAGAT
64 CTCCACCACTGC-TCGGCGAGAC
* * * * * * * * *
88231744 AAGATCTAT-AATCTTCAGCTTGTTACTCTATTGCTTAGGGAGTTAAAGCGTGTATCTTTGATCT
1 AAGATCTGTAAAT-TTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAG--TCTTTGACCT
* * ****
88231808 GCTCCACTACCGCTTAATGAGAC
63 GCTCCACCACTGCTCGGCGAGAC
* **
88231831 AATATCTGTAGTTTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAG
1 AAGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAG
88231878 ACTGGTGGTT
Statistics
Matches: 395, Mismatches: 70, Indels: 23
0.81 0.14 0.05
Matches are distributed among these distances:
84 12 0.03
85 176 0.45
86 9 0.02
87 193 0.49
88 5 0.01
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.32
Consensus pattern (85 bp):
AAGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTTGACCTGCT
CCACCACTGCTCGGCGAGAC
Found at i:88232079 original size:132 final size:132
Alignment explanation
Indices: 88231844--88232351 Score: 569
Period size: 132 Copynumber: 3.8 Consensus size: 132
88231834 ATCTGTAGTT
* * * * * * * * *
88231844 TTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGACTGGTGGTTTG-AATTTGCTCCATTACCGA
1 TTTAGCCTGTTACACTCCTGCTCAGTGGGATAAGGCTGGTGG-CTGAAATCTGCTCCATTGCCGA
* * *
88231908 TACATGGAGATAAGATCCGCTGAAATTTGATATGTTCCACTCCTGCTAGTGGGATGAGATCTGCT
65 TACATGGAGATAAGATCCGCTAAAATTTGATCTGATCCACTCCTGCTAGTGGGATGAGATCTGCT
88231973 ATA
130 ATA
* * * *
88231976 TTTAGCCTATTACACTCCTGCTCAGTGGGATAATGCTGGTGGTTTG-AATCTGCTCCATTGCTGA
1 TTTAGCCTGTTACACTCCTGCTCAGTGGGATAAGGCTGGTGG-CTGAAATCTGCTCCATTGCCGA
* * * * *
88232040 TACATGGAGATAAGATTCGTTAAAATTTGATCTGATCCACTCCTGCTCAGCGAAGATAAGATCTA
65 TACATGGAGATAAGATCCGCTAAAATTTGATCTGATCCACTCCTGCT-AGTG-GGATGAGATCT-
*
88232105 G--A-G
127 GCTATA
* * * *
88232108 TTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGATCCATTGCCGA
1 TTTAGCCTGTTACACTCCTGCTCAGTG-GGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGA
* * * *
88232173 TACATGGAGACAAGATCCGCTGAAATTTGATCTGTTCCACTCCTGCCAGTGGGATGAGATCTGCT
65 TACATGGAGATAAGATCCGCTAAAATTTGATCTGATCCACTCCTGCTAGTGGGATGAGATCTGCT
88232238 ATA
130 ATA
* * *
88232241 TTTAGCCTGTTCCACTCCTGCTTAGTGGGATAAGGCTTGTGGCTGAAATCTGCTCCATTGCCGAT
1 TTTAGCCTGTTACACTCCTGCTCAGTGGGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGAT
* * * * *
88232306 ACATGGAGGTAAGATTCGCCAAAATTTAATCT-ACTCCGCTCCTGCT
66 ACATGGAGATAAGATCCGCTAAAATTTGATCTGA-TCCACTCCTGCT
88232352 CAGCGAAGAT
Statistics
Matches: 315, Mismatches: 52, Indels: 18
0.82 0.14 0.05
Matches are distributed among these distances:
130 1 0.00
131 9 0.03
132 196 0.62
133 99 0.31
134 9 0.03
135 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (132 bp):
TTTAGCCTGTTACACTCCTGCTCAGTGGGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGAT
ACATGGAGATAAGATCCGCTAAAATTTGATCTGATCCACTCCTGCTAGTGGGATGAGATCTGCTA
TA
Found at i:88232402 original size:178 final size:178
Alignment explanation
Indices: 88232194--88232634 Score: 751
Period size: 177 Copynumber: 2.5 Consensus size: 178
88232184 AAGATCCGCT
*
88232194 GAAATTTGATCTGTTCCACTCCTGCCAGTGGGATGAGATCTGCTATATTTAGCCTGTTCCACTCC
1 GAAATTTGATCTATTCCACTCCTGCCAGTGGGATGAGATCTGCTATATTTAGCCTGTTCCACTCC
* * *
88232259 TGCTTAGTGGGATAAGGCTTGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGGTAAGATTCG
66 TGCTCAGTGGAATAAGGCTTGTCGCTGAAATCTGCTCCATTGCCGATACATGGAGGTAAGATTCG
*
88232324 CCAAAATTTAATCTACTCCGCTCCTGCTCAGCGAAGATAAGATCTGTC
131 CCAAAATTTAATCTACTCCGCTCCTGATCAGCGAAGATAAGATCTGTC
* *
88232372 GAAATTTGATCTATTCCACTCCAGCCAGTGGGATGAGATCTACTATATTTAGCCTGCTT-CACTC
1 GAAATTTGATCTATTCCACTCCTGCCAGTGGGATGAGATCTGCTATATTTAGCCTG-TTCCACTC
* *
88232436 CTGCTCAGT-GAAGAAGGCTGGTCGCTGAAATCTGCTCCATTGCCGATACATGGAGGTAAGATTC
65 CTGCTCAGTGGAATAAGGCTTGTCGCTGAAATCTGCTCCATTGCCGATACATGGAGGTAAGATTC
* *
88232500 GCCAAAATTTGATCTGCTCCGCTCCTGATCAGCGAAGATAAGATCTGTC
130 GCCAAAATTTAATCTACTCCGCTCCTGATCAGCGAAGATAAGATCTGTC
*
88232549 GAAATTTGATCTATTCCACTCCTGCCAGTAGGATGAGATCTGCTATATTTAGCCTGTTCCACTCC
1 GAAATTTGATCTATTCCACTCCTGCCAGTGGGATGAGATCTGCTATATTTAGCCTGTTCCACTCC
88232614 TGCTCAGTGGAATAAGGCTTG
66 TGCTCAGTGGAATAAGGCTTG
88232635 CCGAAATCTG
Statistics
Matches: 244, Mismatches: 16, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
176 2 0.01
177 164 0.67
178 76 0.31
179 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (178 bp):
GAAATTTGATCTATTCCACTCCTGCCAGTGGGATGAGATCTGCTATATTTAGCCTGTTCCACTCC
TGCTCAGTGGAATAAGGCTTGTCGCTGAAATCTGCTCCATTGCCGATACATGGAGGTAAGATTCG
CCAAAATTTAATCTACTCCGCTCCTGATCAGCGAAGATAAGATCTGTC
Found at i:88233899 original size:5 final size:5
Alignment explanation
Indices: 88233886--88233963 Score: 58
Period size: 5 Copynumber: 16.0 Consensus size: 5
88233876 TTGGCCTCTC
* *
88233886 CTTTG CTTTT CTTTT CTTTCT CTTTT -TTGT -TTTT CTTTT CTTTTT CCTTTT
1 CTTTT CTTTT CTTTT CTTT-T CTTTT CTTTT CTTTT CTTTT C-TTTT -CTTTT
* *
88233937 TTTTT C-TTT CCTTT -TTTT CTTTT -TTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT
88233964 TTTGAAAATG
Statistics
Matches: 61, Mismatches: 6, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
4 17 0.28
5 30 0.49
6 13 0.21
7 1 0.02
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (5 bp):
CTTTT
Found at i:88233908 original size:24 final size:24
Alignment explanation
Indices: 88233881--88233950 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 24
88233871 TCGCCTTGGC
*
88233881 CTCTCCTTTGCTTTTCTTTTCTTT
1 CTCTCCTTTGTTTTTCTTTTCTTT
**
88233905 CTCTTTTTTGTTTTTCTTTTCTTT
1 CTCTCCTTTGTTTTTCTTTTCTTT
* *
88233929 -T-TCCTTTTTTTTTCTTTCCTTT
1 CTCTCCTTTGTTTTTCTTTTCTTT
88233951 TTTTCTTTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
22 17 0.44
23 1 0.03
24 21 0.54
ACGTcount: A:0.00, C:0.23, G:0.03, T:0.74
Consensus pattern (24 bp):
CTCTCCTTTGTTTTTCTTTTCTTT
Found at i:88233918 original size:6 final size:6
Alignment explanation
Indices: 88233892--88233965 Score: 59
Period size: 6 Copynumber: 12.7 Consensus size: 6
88233882 TCTCCTTTGC
* * *
88233892 TTTTC- TTTTCT TTCTCTT TTTTGT TTTTC- TTTTCT TTTTCC TTTT-T
1 TTTTCT TTTTCT TTTTC-T TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
88233938 TTTTCT TTCCTT-T TTTTCT TTTT-T TTTT
1 TTTTCT TT--TTCT TTTTCT TTTTCT TTTT
88233966 TGAAAATGAA
Statistics
Matches: 56, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
5 21 0.38
6 26 0.46
7 7 0.12
8 2 0.04
ACGTcount: A:0.00, C:0.16, G:0.01, T:0.82
Consensus pattern (6 bp):
TTTTCT
Found at i:88233918 original size:18 final size:18
Alignment explanation
Indices: 88233892--88233965 Score: 75
Period size: 18 Copynumber: 4.2 Consensus size: 18
88233882 TCTCCTTTGC
88233892 TTTTC-TTTTCTTTCTCTT
1 TTTTCTTTTTCTTT-TCTT
*
88233910 TTTTGTTTTTCTTTTCTT
1 TTTTCTTTTTCTTTTCTT
*
88233928 TTTCCTTTTT-TTTTCTT
1 TTTTCTTTTTCTTTTCTT
*
88233945 TCCTT-TTTTTCTTTT-TT
1 T-TTTCTTTTTCTTTTCTT
88233962 TTTT
1 TTTT
88233966 TGAAAATGAA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
16 2 0.04
17 16 0.34
18 21 0.45
19 8 0.17
ACGTcount: A:0.00, C:0.16, G:0.01, T:0.82
Consensus pattern (18 bp):
TTTTCTTTTTCTTTTCTT
Found at i:88233939 original size:15 final size:15
Alignment explanation
Indices: 88233921--88233960 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
88233911 TTTGTTTTTC
88233921 TTTTCTTTTTCCTTT
1 TTTTCTTTTTCCTTT
88233936 TTTT-TTCTTTCCTTT
1 TTTTCTT-TTTCCTTT
88233951 TTTTCTTTTT
1 TTTTCTTTTT
88233961 TTTTTTGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 2 0.09
15 19 0.83
16 2 0.09
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTCTTTTTCCTTT
Found at i:88233945 original size:35 final size:35
Alignment explanation
Indices: 88233892--88233965 Score: 89
Period size: 35 Copynumber: 2.1 Consensus size: 35
88233882 TCTCCTTTGC
*
88233892 TTTTCTTTTCTTTCTCTTT-TTTGTTTTTCTTTTCT
1 TTTTCTTTTCTTTCTCTTTCCTT-TTTTTCTTTTCT
* *
88233927 TTTTCCTTTT-TTTTTCTTTCCTTTTTTTCTTTTTT
1 TTTT-CTTTTCTTTCTCTTTCCTTTTTTTCTTTTCT
88233962 TTTT
1 TTTT
88233966 TGAAAATGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
35 27 0.79
36 7 0.21
ACGTcount: A:0.00, C:0.16, G:0.01, T:0.82
Consensus pattern (35 bp):
TTTTCTTTTCTTTCTCTTTCCTTTTTTTCTTTTCT
Found at i:88233953 original size:23 final size:22
Alignment explanation
Indices: 88233892--88233964 Score: 74
Period size: 23 Copynumber: 3.2 Consensus size: 22
88233882 TCTCCTTTGC
* * *
88233892 TTTTCTTTTCTTTCTCTTTTTTGT
1 TTTTCTTTCCTTTTTC-CTTTT-T
*
88233916 TTTTCTTTTCTTTTTCCTTTTT
1 TTTTCTTTCCTTTTTCCTTTTT
*
88233938 TTTTCTTTCCTTTTTTTCTTTTT
1 TTTTCTTTCC-TTTTTCCTTTTT
88233961 TTTT
1 TTTT
88233965 TTGAAAATGA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
22 10 0.23
23 19 0.43
24 15 0.34
ACGTcount: A:0.00, C:0.16, G:0.01, T:0.82
Consensus pattern (22 bp):
TTTTCTTTCCTTTTTCCTTTTT
Found at i:88236888 original size:461 final size:461
Alignment explanation
Indices: 88236026--88236951 Score: 1744
Period size: 461 Copynumber: 2.0 Consensus size: 461
88236016 AGGGCAGCTA
*
88236026 GTTCCATTATATCTTTCAAGTTCTGGCATCTTGAACTTCGAAGGAAGTACTAAGTCTGGGACTAA
1 GTTCCATTATATCTTTCAAATTCTGGCATCTTGAACTTCGAAGGAAGTACTAAGTCTGGGACTAA
88236091 ACTGAGTTCCTTTGCGTCAACTCCGCAGTAATGATCAGCACTTTCTAGCTCATTGAACTTCTCCT
66 ACTGAGTTCCTTTGCGTCAACTCCGCAGTAATGATCAGCACTTTCTAGCTCATTGAACTTCTCCT
*
88236156 CTATCCATTTGCACTGATCCTCGAGCTGTTTTGGGAGCTCTGCCTTTACTTTTTCCCCTTCAACC
131 CTATCCATTTGCACTGATCCTCGAGCTGTTTTGGGAGCTCTGCCTTTACTTTGTCCCCTTCAACC
*
88236221 TCATTGAAATCAGGGATCATAGGATTTGCTATATTGTCTCCAAGGTTAGAGCACGAGCCCGTTGG
196 TCATTGAAATCAGGGATCATAGGATTTGCTATATTGTCTCCAAGGTTAGAGCACGAGCCCGATGG
88236286 GAAGTTTACAGGTGCCGAAGTGCCAGCTTGATATAGAGGTTTAACATTAACAGACACCCTTGGTG
261 GAAGTTTACAGGTGCCGAAGTGCCAGCTTGATATAGAGGTTTAACATTAACAGACACCCTTGGTG
88236351 GCTGTGTTTGAATGTTTATTGGGGCAAAGCTTGTAGGACAAGCAGAGTCATCATTGTCATTCCCA
326 GCTGTGTTTGAATGTTTATTGGGGCAAAGCTTGTAGGACAAGCAGAGTCATCATTGTCATTCCCA
* *
88236416 GTATCACCCATAGGGCCCTTTCCTTTGTCAGACCCTCCCTTCAGCAGCTGTGTCAGCTGGCTCAT
391 CTATCACCCATAGGGCCCTTTCCTTTGTCAGACCCTCCATTCAGCAGCTGTGTCAGCTGGCTCAT
88236481 CATGTT
456 CATGTT
88236487 GTTCCATTATATCTTTCAAATTCTGGCATCTTGAACTTCGAAGGAAGTACTAAGTCTGGGACTAA
1 GTTCCATTATATCTTTCAAATTCTGGCATCTTGAACTTCGAAGGAAGTACTAAGTCTGGGACTAA
*
88236552 ACTGAGTTCCTTTGCGTCAACTCCGCAGTAATGATCAGTACTTTCTAGCTCATTGAACTTCTCCT
66 ACTGAGTTCCTTTGCGTCAACTCCGCAGTAATGATCAGCACTTTCTAGCTCATTGAACTTCTCCT
*
88236617 CTATCCATTTGTACTGATCCTCGAGCTGTTTTGGGAGCTCTGCCTTTACTTTGTCCCCTTCAACC
131 CTATCCATTTGCACTGATCCTCGAGCTGTTTTGGGAGCTCTGCCTTTACTTTGTCCCCTTCAACC
* *
88236682 TCATTGAAATCAGGGATCGTAGGATTTGTTATATTGTCTCCAAGGTTAGAGCACGAGCCCGATGG
196 TCATTGAAATCAGGGATCATAGGATTTGCTATATTGTCTCCAAGGTTAGAGCACGAGCCCGATGG
88236747 GAAGTTTACAGGTGCCGAAGTGCCAGCTTGATATAGAGGTTTAACATTAACAGACACCCTTGGTG
261 GAAGTTTACAGGTGCCGAAGTGCCAGCTTGATATAGAGGTTTAACATTAACAGACACCCTTGGTG
* *
88236812 GCTGTGTTTGAATGTTTATTGGGGCAAAGCTTGTAGGACAAGCAGAGTCATCGTTGTCATTTCCA
326 GCTGTGTTTGAATGTTTATTGGGGCAAAGCTTGTAGGACAAGCAGAGTCATCATTGTCATTCCCA
*
88236877 CTATCACCCATAGGGCCTTTTCCTTTGTCAGACCCTCCATTCAGCAGCTGTGTCAGCTGGCTCAT
391 CTATCACCCATAGGGCCCTTTCCTTTGTCAGACCCTCCATTCAGCAGCTGTGTCAGCTGGCTCAT
88236942 CATGTT
456 CATGTT
88236948 GTTC
1 GTTC
88236952 TGTGACTCCA
Statistics
Matches: 453, Mismatches: 12, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
461 453 1.00
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.33
Consensus pattern (461 bp):
GTTCCATTATATCTTTCAAATTCTGGCATCTTGAACTTCGAAGGAAGTACTAAGTCTGGGACTAA
ACTGAGTTCCTTTGCGTCAACTCCGCAGTAATGATCAGCACTTTCTAGCTCATTGAACTTCTCCT
CTATCCATTTGCACTGATCCTCGAGCTGTTTTGGGAGCTCTGCCTTTACTTTGTCCCCTTCAACC
TCATTGAAATCAGGGATCATAGGATTTGCTATATTGTCTCCAAGGTTAGAGCACGAGCCCGATGG
GAAGTTTACAGGTGCCGAAGTGCCAGCTTGATATAGAGGTTTAACATTAACAGACACCCTTGGTG
GCTGTGTTTGAATGTTTATTGGGGCAAAGCTTGTAGGACAAGCAGAGTCATCATTGTCATTCCCA
CTATCACCCATAGGGCCCTTTCCTTTGTCAGACCCTCCATTCAGCAGCTGTGTCAGCTGGCTCAT
CATGTT
Found at i:88236968 original size:21 final size:21
Alignment explanation
Indices: 88236942--88236986 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
88236932 GCTGGCTCAT
* *
88236942 CATGTTGTTCTGTGACTCCAG
1 CATGTTGTTCCGGGACTCCAG
*
88236963 CATGTTTTTCCGGGACTCCAG
1 CATGTTGTTCCGGGACTCCAG
88236984 CAT
1 CAT
88236987 TTGATCCCTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.27, G:0.22, T:0.36
Consensus pattern (21 bp):
CATGTTGTTCCGGGACTCCAG
Found at i:88240629 original size:126 final size:126
Alignment explanation
Indices: 88240469--88240697 Score: 431
Period size: 126 Copynumber: 1.8 Consensus size: 126
88240459 GTTTTAGCCT
88240469 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
1 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
*
88240534 CTTCAAATTCTTTAAATACTGAACATTGCCTTTATTTTAAATTTTTTTTAGAGTGAACTGG
66 CTTCAAATTCTTTAAATACCGAACATTGCCTTTATTTTAAATTTTTTTTAGAGTGAACTGG
*
88240595 TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
1 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
*
88240660 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTT
66 CTTCAAATTCTTTAAATACCGAACATTGCCTTTATTTT
88240698 GAAAAATTTT
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
126 100 1.00
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (126 bp):
TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
CTTCAAATTCTTTAAATACCGAACATTGCCTTTATTTTAAATTTTTTTTAGAGTGAACTGG
Found at i:88240845 original size:13 final size:12
Alignment explanation
Indices: 88240813--88240862 Score: 52
Period size: 13 Copynumber: 4.2 Consensus size: 12
88240803 AACCATGTAT
88240813 AAATAA-TAA-A
1 AAATAATTAATA
88240823 AAATAA-TAATA
1 AAATAATTAATA
*
88240834 ATAGTAATTAATA
1 A-AATAATTAATA
88240847 GAAATAATTAATA
1 -AAATAATTAATA
88240860 AAA
1 AAA
88240863 CAACAGTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
10 9 0.26
11 2 0.06
12 7 0.21
13 15 0.44
14 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (12 bp):
AAATAATTAATA
Found at i:88241210 original size:15 final size:14
Alignment explanation
Indices: 88241157--88241217 Score: 59
Period size: 15 Copynumber: 4.1 Consensus size: 14
88241147 CTTCGCTTAA
88241157 AAATATATATATATAT
1 AAATATATA-ATA-AT
* *
88241173 ATATATTTACATAAT
1 AAATATATA-ATAAT
88241188 AAATATATAATAAT
1 AAATATATAATAAT
*
88241202 AAATAATATAACAAT
1 AAAT-ATATAATAAT
88241217 A
1 A
88241218 TGAAACATAA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
14 9 0.24
15 19 0.50
16 10 0.26
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (14 bp):
AAATATATAATAAT
Found at i:88241291 original size:59 final size:59
Alignment explanation
Indices: 88241194--88241325 Score: 162
Period size: 59 Copynumber: 2.2 Consensus size: 59
88241184 TAATAAATAT
* *
88241194 ATAATAATAAATAATATAACAATATGAAACATAACTCAAATTAATTAAATTAATAG-AAA
1 ATAATAA-AAATAATATAAAAATATGAAACATAACTCAAATTAATTAAATTAACAGTAAA
* *
88241253 ATAATAAAAA-AATATAAAAATAATGAGA-ATAAAGCTCAAATTAATTAATTTAACAGTAAA
1 ATAATAAAAATAATATAAAAAT-ATGAAACAT-AA-CTCAAATTAATTAAATTAACAGTAAA
*
88241313 ATAACAAAAATAA
1 ATAATAAAAATAA
88241326 AAAAGGGGTT
Statistics
Matches: 63, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
57 12 0.19
58 10 0.16
59 27 0.43
60 12 0.19
61 2 0.03
ACGTcount: A:0.63, C:0.06, G:0.05, T:0.27
Consensus pattern (59 bp):
ATAATAAAAATAATATAAAAATATGAAACATAACTCAAATTAATTAAATTAACAGTAAA
Found at i:88241623 original size:18 final size:18
Alignment explanation
Indices: 88241600--88241671 Score: 67
Period size: 18 Copynumber: 3.9 Consensus size: 18
88241590 TAACAAGTAA
*
88241600 GGTGATGGAGTTAGTGGG
1 GGTGATGGAGGTAGTGGG
*
88241618 GGTGATGGAGGTAGTGGAT
1 GGTGATGGAGGTAGTGG-G
* *
88241637 GGT-TTAGTAGGGTA-TGGG
1 GGTGAT-GGA-GGTAGTGGG
88241655 GGTGATGGAGGTAGTGG
1 GGTGATGGAGGTAGTGG
88241672 ATGGTTTAGT
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
17 4 0.10
18 25 0.60
19 9 0.21
20 4 0.10
ACGTcount: A:0.18, C:0.00, G:0.54, T:0.28
Consensus pattern (18 bp):
GGTGATGGAGGTAGTGGG
Found at i:88241664 original size:37 final size:38
Alignment explanation
Indices: 88241614--88241691 Score: 149
Period size: 37 Copynumber: 2.1 Consensus size: 38
88241604 ATGGAGTTAG
88241614 TGGGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGT-A
1 TGGGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGTGA
88241651 TGGGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGTGA
1 TGGGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGTGA
88241689 TGG
1 TGG
88241692 AGTTAGTGGT
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
37 36 0.90
38 4 0.10
ACGTcount: A:0.18, C:0.00, G:0.53, T:0.29
Consensus pattern (38 bp):
TGGGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGTGA
Found at i:88241687 original size:29 final size:29
Alignment explanation
Indices: 88241654--88241710 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
88241644 TAGGGTATGG
88241654 GGGTGATGGAGGTAGTGGATGGTTTAGTA
1 GGGTGATGGAGGTAGTGGATGGTTTAGTA
* *
88241683 GGGTGATGGAGTTAGTGGTTGGTTTAGT
1 GGGTGATGGAGGTAGTGGATGGTTTAGT
88241711 GGGATGTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.18, C:0.00, G:0.47, T:0.35
Consensus pattern (29 bp):
GGGTGATGGAGGTAGTGGATGGTTTAGTA
Found at i:88242383 original size:33 final size:33
Alignment explanation
Indices: 88242313--88242385 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 33
88242303 GATAGTTTGT
* * * *
88242313 TAGGACAATAAACATAGAACATAGAAAATTCAT
1 TAGGACAATAAACACAGAACAGAGAAAATCCAC
* * *
88242346 TAGGACAATAAACACAGAATAGAGATAATCCGC
1 TAGGACAATAAACACAGAACAGAGAAAATCCAC
88242379 TAGGACA
1 TAGGACA
88242386 GTTAACATGG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.51, C:0.15, G:0.16, T:0.18
Consensus pattern (33 bp):
TAGGACAATAAACACAGAACAGAGAAAATCCAC
Found at i:88243867 original size:22 final size:22
Alignment explanation
Indices: 88243815--88243867 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
88243805 AAACATTTTA
88243815 TTTTTTTAAATTTTTATAACAT
1 TTTTTTTAAATTTTTATAACAT
* * * *
88243837 TTCTATTAAATTTTTATCACCT
1 TTTTTTTAAATTTTTATAACAT
88243859 TTTTTTTAA
1 TTTTTTTAA
88243868 TGGATACCTT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTTTTTAAATTTTTATAACAT
Found at i:88244584 original size:20 final size:19
Alignment explanation
Indices: 88244561--88244598 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
88244551 AAAATGTATT
88244561 ATTTTAAATATATTTTTATC
1 ATTTTAAATAT-TTTTTATC
*
88244581 ATTTTATATATTTTTTAT
1 ATTTTAAATATTTTTTAT
88244599 GGAAAATAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (19 bp):
ATTTTAAATATTTTTTATC
Found at i:88245887 original size:42 final size:40
Alignment explanation
Indices: 88245813--88245900 Score: 104
Period size: 41 Copynumber: 2.1 Consensus size: 40
88245803 TTTATTATTC
* *
88245813 TAAAAATTTTAGATTAAATAACGTTAATAACAATAAAACTA
1 TAAAAAGTTTAGATTAAATAACGTTAATAACAA-AAAAATA
* ** *
88245854 TTAAAAGTTTAGATTAAATAAATTTTATTAACAAAAAAATA
1 TAAAAAGTTTAGATTAAAT-AACGTTAATAACAAAAAAATA
88245895 TAAAAA
1 TAAAAA
88245901 TTGAAAATTA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
41 28 0.72
42 11 0.28
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.33
Consensus pattern (40 bp):
TAAAAAGTTTAGATTAAATAACGTTAATAACAAAAAAATA
Found at i:88246464 original size:5 final size:5
Alignment explanation
Indices: 88246454--88246479 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
88246444 CCTTACTTAT
88246454 TTTTA TTTTA TTTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA T
88246480 GAACTGCTGT
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:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:88258246 original size:21 final size:21
Alignment explanation
Indices: 88258222--88258375 Score: 78
Period size: 21 Copynumber: 7.3 Consensus size: 21
88258212 TCTTACAAGC
*
88258222 TTCTGTTTAACCCTTATGGGT
1 TTCTGTTTAACCCTTATGAGT
* * * * * *
88258243 TTCTATATAGCTCTTTTGAGC
1 TTCTGTTTAACCCTTATGAGT
88258264 TTCTGTTTAACCCTTATGAGT
1 TTCTGTTTAACCCTTATGAGT
* *** * * *
88258285 TT-TCGTTCAGTTCTTTTAAGC
1 TTCT-GTTTAACCCTTATGAGT
* *
88258306 TTCTATTTAACCCTTATGGGAT
1 TTCTGTTTAACCCTTATGAG-T
* * * *
88258328 TT-TGTTTAGCTCTTACGAGC
1 TTCTGTTTAACCCTTATGAGT
* *
88258348 TTCTGTTCAACCCTTATGGGT
1 TTCTGTTTAACCCTTATGAGT
88258369 TTCTGTT
1 TTCTGTT
88258376 AAGTTCTCAT
Statistics
Matches: 88, Mismatches: 41, Indels: 8
0.64 0.30 0.06
Matches are distributed among these distances:
20 3 0.03
21 82 0.93
22 3 0.03
ACGTcount: A:0.16, C:0.19, G:0.16, T:0.48
Consensus pattern (21 bp):
TTCTGTTTAACCCTTATGAGT
Found at i:88258381 original size:84 final size:84
Alignment explanation
Indices: 88258218--88258382 Score: 226
Period size: 84 Copynumber: 2.0 Consensus size: 84
88258208 TAGCTCTTAC
* ** *
88258218 AAGCTTCTGTTTAACCCTTATGGGTTTCTATATAGCTCTTTTGAGCTTCTGTTTAACCCTTATGA
1 AAGCTTCTATTTAACCCTTATGGGTTTCTATATAGCTCTTACGAGCTTCTGTTCAACCCTTATGA
*
88258283 GTTTTCGTTCAGTTCTTTT
66 GTTTTCGTTAAGTTCTTTT
* *
88258302 AAGCTTCTATTTAACCCTTATGGGATTT-TGTTTAGCTCTTACGAGCTTCTGTTCAACCCTTATG
1 AAGCTTCTATTTAACCCTTATGGG-TTTCTATATAGCTCTTACGAGCTTCTGTTCAACCCTTATG
*
88258366 -GGTTTCTGTTAAGTTCT
65 AGTTTTC-GTTAAGTTCT
88258383 CATGAGCTTT
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
83 5 0.07
84 63 0.89
85 3 0.04
ACGTcount: A:0.18, C:0.19, G:0.16, T:0.47
Consensus pattern (84 bp):
AAGCTTCTATTTAACCCTTATGGGTTTCTATATAGCTCTTACGAGCTTCTGTTCAACCCTTATGA
GTTTTCGTTAAGTTCTTTT
Found at i:88258390 original size:42 final size:41
Alignment explanation
Indices: 88258209--88258398 Score: 184
Period size: 42 Copynumber: 4.5 Consensus size: 41
88258199 CTTTCCGTTT
** *
88258209 AGCTCTTACAAGCTTCTGTTTAACCCTTATGGGTTTCT-ATA
1 AGCTCTTATGAGCTTCTGTTTAACCCTTATGGGTTT-TGTTA
* * *
88258250 TAGCTCTTTTGAGCTTCTGTTTAACCCTTATGAGTTTTCGTTC
1 -AGCTCTTATGAGCTTCTGTTTAACCCTTATGGGTTTT-GTTA
* * * * *
88258293 AGTTCTTTTAAGCTTCTATTTAACCCTTATGGGATTTTGTTT
1 AGCTCTTATGAGCTTCTGTTTAACCCTTATGGG-TTTTGTTA
* *
88258335 AGCTCTTACGAGCTTCTGTTCAACCCTTATGGGTTTCTGTTA
1 AGCTCTTATGAGCTTCTGTTTAACCCTTATGGGTTT-TGTTA
* * *
88258377 AGTTCTCATGAGCTTTTGTTTA
1 AGCTCTTATGAGCTTCTGTTTA
88258399 GCTTTCGAGC
Statistics
Matches: 121, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
41 4 0.03
42 112 0.93
43 5 0.04
ACGTcount: A:0.18, C:0.19, G:0.16, T:0.46
Consensus pattern (41 bp):
AGCTCTTATGAGCTTCTGTTTAACCCTTATGGGTTTTGTTA
Done.