Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 274 of 295
Found at i:87384084 original size:47 final size:47
Alignment explanation
Indices: 87384006--87384434 Score: 698
Period size: 47 Copynumber: 9.1 Consensus size: 47
87383996 CCCTTCGGGA
* * * * * *
87384006 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCC-TCTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCAT-TAGGC
*** *
87384053 CCCGTCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
87384100 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
87384147 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
87384194 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
87384241 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
87384288 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
87384335 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
87384384 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
87384431 CTTA
1 CTTA
87384435 CTATCATTTC
Statistics
Matches: 359, Mismatches: 20, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
47 312 0.87
48 1 0.00
49 46 0.13
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:87387514 original size:24 final size:24
Alignment explanation
Indices: 87387469--87387515 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
87387459 TAAATATTAA
* **
87387469 CAAAGTATCATTAAATTTCCAAGC
1 CAAAATATCATTAAATAACCAAGC
*
87387493 CAAAATATCATTATATAACCAAG
1 CAAAATATCATTAAATAACCAAG
87387516 TAAATTTACA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.47, C:0.19, G:0.06, T:0.28
Consensus pattern (24 bp):
CAAAATATCATTAAATAACCAAGC
Found at i:87387900 original size:41 final size:42
Alignment explanation
Indices: 87387836--87387918 Score: 107
Period size: 41 Copynumber: 2.0 Consensus size: 42
87387826 TCTTACATGT
* *
87387836 AATCACATATCGATGCCACTGTCCCAGACAGGGTCTCACACG
1 AATCAAATATCGATGCCACTGTCCCAAACAGGGTCTCACACG
* *
87387878 AATCAAATA-CGATGCCGA-TGTCCCAAACATGGTCTTACACG
1 AATCAAATATCGATGCC-ACTGTCCCAAACAGGGTCTCACACG
87387919 TAACCATATA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
41 27 0.75
42 9 0.25
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.20
Consensus pattern (42 bp):
AATCAAATATCGATGCCACTGTCCCAAACAGGGTCTCACACG
Found at i:87389451 original size:2 final size:2
Alignment explanation
Indices: 87389444--87389479 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
87389434 ACAATTTAGT
87389444 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
87389480 TTGCAATTCT
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:87400965 original size:26 final size:26
Alignment explanation
Indices: 87400936--87401043 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
87400926 TGGTACAAAT
87400936 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
87400962 TGATAATGGATTAAGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
87400988 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
87401014 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
87401040 TGAT
1 TGAT
87401044 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:87407571 original size:29 final size:28
Alignment explanation
Indices: 87407535--87407612 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
87407525 TGATGAGATT
87407535 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
87407565 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
87407592 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
87407613 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:87407830 original size:174 final size:174
Alignment explanation
Indices: 87407565--87407892 Score: 629
Period size: 174 Copynumber: 1.9 Consensus size: 174
87407555 AAATTGTACA
87407565 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
*
87407630 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
66 TGTACGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
87407695 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
*
87407739 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
*
87407804 TGTACGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTATCGAGTCGA
66 TGTACGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
87407869 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
87407893 ACCTTGAGTT
Statistics
Matches: 151, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 151 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
TGTACGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:87411404 original size:26 final size:26
Alignment explanation
Indices: 87411375--87411482 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
87411365 TGGTACAAAT
87411375 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
87411401 TGATAATGGATTAAGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
87411427 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
87411453 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
87411479 TGAT
1 TGAT
87411483 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:87415006 original size:26 final size:26
Alignment explanation
Indices: 87414977--87415034 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
87414967 CCCGATATAT
87414977 GGCTCTTCATGAGCTTCCCT-ATTAAA
1 GGCTCTTCATGAGCTT-CCTAATTAAA
** *
87415003 GGCTCTTTGTGAGCTTCCTAATTAAT
1 GGCTCTTCATGAGCTTCCTAATTAAA
87415029 GGCTCT
1 GGCTCT
87415035 CTGAAGGTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 3 0.11
26 25 0.89
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.38
Consensus pattern (26 bp):
GGCTCTTCATGAGCTTCCTAATTAAA
Found at i:87417900 original size:46 final size:46
Alignment explanation
Indices: 87417824--87418042 Score: 155
Period size: 46 Copynumber: 4.7 Consensus size: 46
87417814 GGGGTAGGGT
* *
87417824 GCCGATGCCATATCCCAGATATAGTCTTACACTGACTATCATCTCGTA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGACTATCATCTCGTA
* * * *
87417872 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTAT-GTCTTGAA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGAC-TATCATCTCGTA
* * * *
87417918 GCCGACGCATGTCCCGGGCATGTCTTACACT-AGC-ACTCGTCTCG-A
1 GCCGATGCATGTCCCAGACATGTCTTACACTGA-CTA-TCATCTCGTA
* * * *
87417963 TGCCGATTCCATGTCCCAGACATGGTCTTACA-TAGGCTCTCATAAT-GT-
1 -GCCGA-TGCATGTCCCAGACAT-GTCTTACACT-GACTATCAT-CTCGTA
*
87418011 GACCGATGCATGACCCAGACATGTCTTACACT
1 G-CCGATGCATGTCCCAGACATGTCTTACACT
87418043 AGCCCACAAT
Statistics
Matches: 136, Mismatches: 21, Indels: 29
0.73 0.11 0.16
Matches are distributed among these distances:
44 1 0.01
45 2 0.01
46 64 0.47
47 44 0.32
48 24 0.18
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGACTATCATCTCGTA
Found at i:87421971 original size:17 final size:17
Alignment explanation
Indices: 87421921--87421978 Score: 64
Period size: 16 Copynumber: 3.2 Consensus size: 17
87421911 AGGTGAGGAG
87421921 TAAAAGTTTAGGGGGAAAA
1 TAAAAGTTTA-GGGG-AAA
*
87421940 TAAAAAGTTTTGGGG-AA
1 T-AAAAGTTTAGGGGAAA
87421957 TAAAAGTTTGAGGGGAAA
1 TAAAAGTTT-AGGGGAAA
87421975 TAAA
1 TAAA
87421979 TAGGGGGAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
16 8 0.24
17 7 0.21
18 6 0.18
19 5 0.15
20 8 0.24
ACGTcount: A:0.47, C:0.00, G:0.29, T:0.24
Consensus pattern (17 bp):
TAAAAGTTTAGGGGAAA
Found at i:87422411 original size:9 final size:9
Alignment explanation
Indices: 87422397--87422429 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
87422387 GTTCGAGTTG
87422397 ACTCGAATA
1 ACTCGAATA
*
87422406 ACTCGATTA
1 ACTCGAATA
87422415 ACTCGAATA
1 ACTCGAATA
87422424 ACTCGA
1 ACTCGA
87422430 TTCGTTTAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.24
Consensus pattern (9 bp):
ACTCGAATA
Found at i:87422420 original size:18 final size:18
Alignment explanation
Indices: 87422397--87422431 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
87422387 GTTCGAGTTG
87422397 ACTCGAATAACTCGATTA
1 ACTCGAATAACTCGATTA
87422415 ACTCGAATAACTCGATT
1 ACTCGAATAACTCGATT
87422432 CGTTTAACTC
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:0.37, C:0.23, G:0.11, T:0.29
Consensus pattern (18 bp):
ACTCGAATAACTCGATTA
Found at i:87424709 original size:64 final size:64
Alignment explanation
Indices: 87424631--87424781 Score: 185
Period size: 64 Copynumber: 2.4 Consensus size: 64
87424621 ATCCAAGTCG
* * * * *
87424631 TGTGACTCACTGTTTGTGATTTAGAAATCATATAGGCCAAAGACACGGGCATTTGTCTAGGCTA
1 TGTGACTCACTGTTTGTGATTTAGAAATCACACAGGCCAAAGACACAGGCATGTGTCCAGGCTA
* * * * * *
87424695 TGTGACTCACTGTTTGTGATTTAGAGATCACACGGGCCAGAGACACAGGTATGTGTCCAGGTTG
1 TGTGACTCACTGTTTGTGATTTAGAAATCACACAGGCCAAAGACACAGGCATGTGTCCAGGCTA
* *
87424759 TATGACTCACTATTTGTGATTTA
1 TGTGACTCACTGTTTGTGATTTA
87424782 AGACCACATG
Statistics
Matches: 74, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
64 74 1.00
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (64 bp):
TGTGACTCACTGTTTGTGATTTAGAAATCACACAGGCCAAAGACACAGGCATGTGTCCAGGCTA
Found at i:87425231 original size:22 final size:23
Alignment explanation
Indices: 87425195--87425245 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 23
87425185 ACCCTAAATA
87425195 GTGTGTTAGGATGGTCGAAGATG
1 GTGTGTTAGGATGGTCGAAGATG
* *
87425218 GTGTGTT-GGATGGTCGGAGGTG
1 GTGTGTTAGGATGGTCGAAGATG
87425240 GTGTGT
1 GTGTGT
87425246 AGCGGATGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 19 0.73
23 7 0.27
ACGTcount: A:0.14, C:0.04, G:0.49, T:0.33
Consensus pattern (23 bp):
GTGTGTTAGGATGGTCGAAGATG
Found at i:87425252 original size:24 final size:22
Alignment explanation
Indices: 87425203--87425254 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
87425193 TAGTGTGTTA
*
87425203 GGATGGTCGAAGATGGTGTGTT
1 GGATGGTCGAAGATGGTGTGTC
* *
87425225 GGATGGTCGGAGGTGGTGTGTAGC
1 GGATGGTCGAAGATGGTGTGT--C
87425249 GGATGG
1 GGATGG
87425255 GGGTAGGAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 19 0.76
24 6 0.24
ACGTcount: A:0.15, C:0.06, G:0.52, T:0.27
Consensus pattern (22 bp):
GGATGGTCGAAGATGGTGTGTC
Found at i:87426783 original size:19 final size:19
Alignment explanation
Indices: 87426759--87426856 Score: 146
Period size: 19 Copynumber: 5.2 Consensus size: 19
87426749 AATATTTAAG
87426759 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
87426778 GATATGCAATATTAGATAT
1 GATATGCAATCTTAGATAT
87426797 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
87426814 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
87426833 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
87426854 GAT
1 GAT
87426857 CTTGTAATCT
Statistics
Matches: 71, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
17 16 0.23
19 46 0.65
21 9 0.13
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:87426835 original size:36 final size:37
Alignment explanation
Indices: 87426759--87426856 Score: 135
Period size: 36 Copynumber: 2.6 Consensus size: 37
87426749 AATATTTAAG
*
87426759 GATATGCAATCTTAGATATGATATGCAATATTAGATAT
1 GATA-GCAATCTTAGATATGATATGCAATACTAGATAT
*
87426797 GATA-CAATCTTAGATATGATATGCAATCCTAGATAT
1 GATAGCAATCTTAGATATGATATGCAATACTAGATAT
87426833 GATATGCAATCTTGAAGATATGAT
1 GATA-GCAATCTT--AGATATGAT
87426857 CTTGTAATCT
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
36 34 0.63
38 11 0.20
40 9 0.17
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (37 bp):
GATAGCAATCTTAGATATGATATGCAATACTAGATAT
Found at i:87433831 original size:12 final size:12
Alignment explanation
Indices: 87433802--87433839 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
87433792 CTTCTATTTC
87433802 AAAGAAAAAA-A
1 AAAGAAAAAAGA
*
87433813 AAGGAAAAAAGA
1 AAAGAAAAAAGA
*
87433825 AAAGAAAAAGGA
1 AAAGAAAAAAGA
87433837 AAA
1 AAA
87433840 AAAGAAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (12 bp):
AAAGAAAAAAGA
Found at i:87433834 original size:19 final size:19
Alignment explanation
Indices: 87433802--87433850 Score: 82
Period size: 20 Copynumber: 2.6 Consensus size: 19
87433792 CTTCTATTTC
87433802 AAAGAAAAAAAAAGG-AAA
1 AAAGAAAAAAAAAGGAAAA
87433820 AAAGAAAAGAAAAAGGAAAA
1 AAAGAAAA-AAAAAGGAAAA
87433840 AAAGAAAAAAA
1 AAAGAAAAAAA
87433851 TGGAGAGGCC
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
18 8 0.28
19 10 0.34
20 11 0.38
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (19 bp):
AAAGAAAAAAAAAGGAAAA
Found at i:87434934 original size:84 final size:84
Alignment explanation
Indices: 87434793--87435823 Score: 1546
Period size: 84 Copynumber: 12.3 Consensus size: 84
87434783 CAGAATTCAG
87434793 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
87434858 GTGGAGCAGATCGAAGACT
66 GTGGAGCAGATCGAAGACT
*
87434877 CGCCTTAATCCCTTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
87434942 GTGGAGCAGATCAAAGACT
66 GTGGAGCAGATCGAAGACT
* * * *
87434961 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAATTTTGCAGATGTTATCTCCTTAAGTAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
87435026 GTGGAGCAGATCGAAGACT
66 GTGGAGCAGATCGAAGACT
* * * * *
87435045 CGTCTTAATCCCCTAAGCGGTAAGGTAACAGGTTAAATTTACAGATCTTATCTCCCTAAGCAATA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
87435110 GTGGAGCAGATCGAAGACT
66 GTGGAGCAGATCGAAGACT
* *
87435129 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTT-CA----CAGATCTTATCTCCCTAAGTAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
87435189 GCGGAGCAGATCGACGACGACT
66 GTGGAGCAGATCGA--A-GACT
*
87435211 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTACAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
* *
87435276 GTGGAGCAAATCAAAGACT
66 GTGGAGCAGATCGAAGACT
*
87435295 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAACAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
87435360 GTGGAGCAGATCGAAGACT
66 GTGGAGCAGATCGAAGACT
* *
87435379 CGCCTTAATCCCCTAAACAGTAGGGTAATAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
87435444 GTGGAGCAGATCGAAGACT
66 GTGGAGCAGATCGAAGACT
* ** * *
87435463 CACCTTAATCCCCTAAGTTGTAGGGTAACAGGTTAAATTTGGAGATCTTATCTCCCTAAGTAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
87435528 GTGGAGCAGATCAAAGACT
66 GTGGAGCAGATCGAAGACT
*
87435547 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGG-----TTCGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
** *
87435607 GCAGAGCAGATTGACGACGACT
66 GTGGAGCAGA-T--CGAAGACT
* **
87435629 CACCTTAATCCCCTAAAAAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
87435694 GTGGAGCAGATCGAAGACC
66 GTGGAGCAGATCGAAGACT
* *
87435713 CGCCTTAATCCCCTAAGTAGTAGGGTAACAGGTTAAATTTGTAGATCTTA--TCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
87435776 GCGGAGCAGATCGAAGACGAT
66 GTGGAGCAGATCGAAGAC--T
* *
87435797 GCACCTTAACCCCCTAAGCAGTAGGGT
1 -CGCCTTAATCCCCTAAGCAGTAGGGT
87435824 CCAAGATGAT
Statistics
Matches: 857, Mismatches: 71, Indels: 37
0.89 0.07 0.04
Matches are distributed among these distances:
79 68 0.08
80 1 0.00
81 1 0.00
82 103 0.12
83 2 0.00
84 588 0.69
85 24 0.03
86 1 0.00
87 69 0.08
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.25
Consensus pattern (84 bp):
CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
GTGGAGCAGATCGAAGACT
Found at i:87435488 original size:334 final size:333
Alignment explanation
Indices: 87434795--87435823 Score: 1527
Period size: 334 Copynumber: 3.1 Consensus size: 333
87434785 GAATTCAGCG
*
87434795 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAA--T-CAGATCTTATCTCCCTAAGTAGTAGT
*
87434860 GGAGCAGATCGAAGACTCGCCTTAATCCCTTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCT
63 GGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCT
*
87434925 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAAC
128 TATCTCCCTAAGCAGTAGTGGAGCAAATCAAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAAC
* * * * *
87434990 AGGTTAATTTTGCAGATGTTATCTCCTTAAGTAGTAGTGGAGCAGATCGAAGACTCGTCTTAATC
193 AGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTAATC
* * * *
87435055 CCCTAAGCGGTAAGGTAACAGGTTAAATTTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGA
258 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
*
87435120 TCGAAGACTCG
323 TCGAAGACTCA
* *
87435131 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTT-CA-CAGATCTTATCTCCCTAAGTAGTAGCGGA
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATCAGATCTTATCTCCCTAAGTAGTAGTGGA
*
87435194 GCAGATCGACGACGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTACAGATCT
66 GCAGATCGA--A-GACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCT
87435259 TATCTCCCTAAGCAGTAGTGGAGCAAATCAAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAAC
128 TATCTCCCTAAGCAGTAGTGGAGCAAATCAAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAAC
*
87435324 AGGTTAAATTTGCAGATCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGACTCGCCTTAATC
193 AGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTAATC
* *
87435389 CCCTAAACAGTAGGGTAATAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
258 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
87435454 TCGAAGACTCA
323 TCGAAGACTCA
** *
87435465 CCTTAATCCCCTAAGTTGTAGGGTAACAGGTTAAATTTGGAGATCTTATCTCCCTAAGTAGTAGT
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAA--T-CAGATCTTATCTCCCTAAGTAGTAGT
* *
87435530 GGAGCAGATCAAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGG-----TTCGCAGATCT
63 GGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCT
** * * * * **
87435590 TATCTCCCTAAGCAGTAGCAGAGCAGATTGACGACGACTCACCTTAATCCCCTAAAAAGTAGGGT
128 TATCTCCCTAAGCAGTAGTGGAGCA-AAT--CAAAGACTCGCCTTAATCCCCTAAGCAGTAGGGT
*
87435655 AACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCGCCTTA
190 AACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTA
* * *
87435720 ATCCCCTAAGTAGTAGGGTAACAGGTTAAATTTGTAGATCTTA--TCCCTAAGCAGTAGCGGAGC
255 ATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGC
87435783 AGATCGAAGACGATGCA
320 AGATCGAAGAC--T-CA
*
87435800 CCTTAACCCCCTAAGCAGTAGGGT
1 CCTTAATCCCCTAAGCAGTAGGGT
87435824 CCAAGATGAT
Statistics
Matches: 634, Mismatches: 45, Indels: 29
0.90 0.06 0.04
Matches are distributed among these distances:
331 68 0.11
332 32 0.05
333 1 0.00
334 404 0.64
335 25 0.04
336 68 0.11
337 1 0.00
339 35 0.06
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (333 bp):
CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATCAGATCTTATCTCCCTAAGTAGTAGTGGA
GCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTAT
CTCCCTAAGCAGTAGTGGAGCAAATCAAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGG
TTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTAATCCCC
TAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
AAGACTCA
Found at i:87435570 original size:418 final size:418
Alignment explanation
Indices: 87434793--87435823 Score: 1706
Period size: 418 Copynumber: 2.5 Consensus size: 418
87434783 CAGAATTCAG
87434793 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
87434858 GTGGAGCAGATCGAAGACTCGCCTTAATCCCTTAAGCAGTAGGGTAACAGGTTAAATTTGCAGAT
66 GTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGAT
*
87434923 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTA
131 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTA
* * * * **
87434988 ACAGGTTAATTTTGCAGATGTTATCTCCTTAAGTAGTAGTGGAGCAGATCGAAGACTCGTCTTAA
196 ACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTCACCTTAA
87435053 TCCCCTAAGCGGTAAGGTAACAGGTTAAATTTACAGATCTTATCTCCCTAAGCAATAGTGGAGCA
261 TCCCCTAAGCGGTAAGGTAACAGGTTAAATTTACAGATCTTATCTCCCTAAGCAATAGTGGAGCA
*
87435118 GATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCACAGATCTTATCTCCCTAA
326 GATCAAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCACAGATCTTATCTCCCTAA
* *
87435183 GTAGTAGCGGAGCAGATCGACGACGACT
391 GCAGTAGCAGAGCAGATCGACGACGACT
*
87435211 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTACAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
* *
87435276 GTGGAGCAAATCAAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGAT
66 GTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGAT
* *
87435341 CTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAACAGTAGGGTA
131 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTA
*
87435406 ATAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTCACCTTAA
196 ACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTCACCTTAA
** * ** * *
87435471 TCCCCTAAGTTGTAGGGTAACAGGTTAAATTTGGAGATCTTATCTCCCTAAGTAGTAGTGGAGCA
261 TCCCCTAAGCGGTAAGGTAACAGGTTAAATTTACAGATCTTATCTCCCTAAGCAATAGTGGAGCA
*
87435536 GATCAAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCGCAGATCTTATCTCCCTAA
326 GATCAAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCACAGATCTTATCTCCCTAA
*
87435601 GCAGTAGCAGAGCAGATTGACGACGACT
391 GCAGTAGCAGAGCAGATCGACGACGACT
* **
87435629 CACCTTAATCCCCTAAAAAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
* * *
87435694 GTGGAGCAGATCGAAGACCCGCCTTAATCCCCTAAGTAGTAGGGTAACAGGTTAAATTTGTAGAT
66 GTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGAT
* * *
87435759 CTTA--TCCCTAAGCAGTAGCGGAGCAGATCGAAGACGATGCACCTTAACCCCCTAAGCAGTAGG
131 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAC--T-CGCCTTAATCCCCTAAGCAGTAGG
87435822 GT
193 GT
87435824 CCAAGATGAT
Statistics
Matches: 570, Mismatches: 40, Indels: 5
0.93 0.07 0.01
Matches are distributed among these distances:
416 29 0.05
418 518 0.91
419 23 0.04
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.25
Consensus pattern (418 bp):
CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
GTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGAT
CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTA
ACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTCACCTTAA
TCCCCTAAGCGGTAAGGTAACAGGTTAAATTTACAGATCTTATCTCCCTAAGCAATAGTGGAGCA
GATCAAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCACAGATCTTATCTCCCTAA
GCAGTAGCAGAGCAGATCGACGACGACT
Found at i:87436589 original size:19 final size:19
Alignment explanation
Indices: 87436564--87436642 Score: 90
Period size: 19 Copynumber: 4.2 Consensus size: 19
87436554 AATCTTTAAG
87436564 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* * *
87436583 AATATGCAATATTAAATAT
1 GATATGCAATCTTAGATAT
87436602 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
87436619 GTTATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
87436640 GAT
1 GAT
87436643 CTTGTAATCT
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
17 14 0.29
19 26 0.54
21 8 0.17
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:87436610 original size:36 final size:38
Alignment explanation
Indices: 87436570--87436642 Score: 105
Period size: 36 Copynumber: 2.0 Consensus size: 38
87436560 TAAGGATATG
87436570 CAATCTTAGATATAATATGCAATATT-AA-ATATGATA
1 CAATCTTAGATATAATATGCAATATTGAAGATATGATA
** *
87436606 CAATCTTAGATATGTTATGCAATCTTGAAGATATGAT
1 CAATCTTAGATATAATATGCAATATTGAAGATATGAT
87436643 CTTGTAATCT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
36 23 0.72
37 2 0.06
38 7 0.22
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (38 bp):
CAATCTTAGATATAATATGCAATATTGAAGATATGATA
Found at i:87438471 original size:44 final size:44
Alignment explanation
Indices: 87438407--87438495 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
87438397 CAGTAGTGCC
*
87438407 ATGTATGTCTTCTTATAAAACAAACTAGGTTATCTTTTCCAATA
1 ATGTATGTCTTCTTACAAAACAAACTAGGTTATCTTTTCCAATA
87438451 ATGTATGTCTTCTTACAAAACAAACTAGGTTATCTTTTCCAATA
1 ATGTATGTCTTCTTACAAAACAAACTAGGTTATCTTTTCCAATA
87438495 A
1 A
87438496 GTAAAACTCA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.39
Consensus pattern (44 bp):
ATGTATGTCTTCTTACAAAACAAACTAGGTTATCTTTTCCAATA
Found at i:87441745 original size:16 final size:16
Alignment explanation
Indices: 87441724--87441793 Score: 86
Period size: 16 Copynumber: 4.4 Consensus size: 16
87441714 TTTGGTTCGC
* * *
87441724 TGTATTGGATTAGAGT
1 TGTAATGGAATAGAGG
* *
87441740 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
*
87441756 TGTAATGGAATAGATG
1 TGTAATGGAATAGAGG
87441772 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
87441788 TGTAAT
1 TGTAAT
87441794 AGCAAATCAA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.31, C:0.00, G:0.33, T:0.36
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:87441823 original size:45 final size:44
Alignment explanation
Indices: 87441772--87441866 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
87441762 GGAATAGATG
*
87441772 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
87441817 TGTAATGGAATAGAGGCGTAATAGTAATCCTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
87441861 TGTAAT
1 TGTAAT
87441867 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 22 0.49
45 23 0.51
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:87442047 original size:18 final size:17
Alignment explanation
Indices: 87442026--87442060 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
87442016 TTATTATTAA
*
87442026 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
87442044 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
87442061 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:87442705 original size:6 final size:6
Alignment explanation
Indices: 87442694--87442724 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
87442684 ATTTTCAGGA
87442694 CTGCAT CTGCAT CTGCAT CTGCAT CTGCAT C
1 CTGCAT CTGCAT CTGCAT CTGCAT CTGCAT C
87442725 AATTTCAACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.35, G:0.16, T:0.32
Consensus pattern (6 bp):
CTGCAT
Found at i:87445240 original size:20 final size:20
Alignment explanation
Indices: 87445215--87445258 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
87445205 AAAACATTAC
87445215 AAAAAGAAAATGGAACTCCA
1 AAAAAGAAAATGGAACTCCA
87445235 AAAAAGAAAATGGAACTCCA
1 AAAAAGAAAATGGAACTCCA
87445255 AAAA
1 AAAA
87445259 CACTTAGGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.64, C:0.14, G:0.14, T:0.09
Consensus pattern (20 bp):
AAAAAGAAAATGGAACTCCA
Found at i:87448137 original size:18 final size:18
Alignment explanation
Indices: 87448085--87448138 Score: 54
Period size: 21 Copynumber: 2.8 Consensus size: 18
87448075 ATATAGTTTC
* *
87448085 TAATTTAATTTTAATTAT
1 TAATTAAATTTAAATTAT
*
87448103 TAATTAATGAATGTAAATTAT
1 TAATT-A--AATTTAAATTAT
87448124 TAATTAAATTTAAAT
1 TAATTAAATTTAAAT
87448139 ATTGTGACCA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
18 13 0.45
20 1 0.03
21 15 0.52
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (18 bp):
TAATTAAATTTAAATTAT
Found at i:87449116 original size:7 final size:7
Alignment explanation
Indices: 87449104--87449192 Score: 79
Period size: 7 Copynumber: 12.7 Consensus size: 7
87449094 GTAATATATA
87449104 TAGGGTT
1 TAGGGTT
87449111 TAGGGTT
1 TAGGGTT
* *
87449118 TATGGTG
1 TAGGGTT
**
87449125 TATAGTT
1 TAGGGTT
87449132 TAGGGTT
1 TAGGGTT
*
87449139 TAGGATT
1 TAGGGTT
* *
87449146 TAAGATT
1 TAGGGTT
* *
87449153 TAGTGTA
1 TAGGGTT
**
87449160 TATAGTT
1 TAGGGTT
87449167 TAGGGTT
1 TAGGGTT
87449174 TAGGGTT
1 TAGGGTT
87449181 TAGGGTT
1 TAGGGTT
87449188 TAGGG
1 TAGGG
87449193 ATAAAATTCA
Statistics
Matches: 65, Mismatches: 17, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 65 1.00
ACGTcount: A:0.21, C:0.00, G:0.35, T:0.44
Consensus pattern (7 bp):
TAGGGTT
Found at i:87449190 original size:35 final size:36
Alignment explanation
Indices: 87449104--87449190 Score: 124
Period size: 35 Copynumber: 2.5 Consensus size: 36
87449094 GTAATATATA
*
87449104 TAGGGTTTAGGGTTTA-TGGTGTATAGTTTAGGGTT
1 TAGGGTTTAGGGTTTAGTGGTATATAGTTTAGGGTT
* * *
87449139 TAGGATTTAAGATTTAGT-GTATATAGTTTAGGGTT
1 TAGGGTTTAGGGTTTAGTGGTATATAGTTTAGGGTT
87449174 TAGGGTTTAGGGTTTAG
1 TAGGGTTTAGGGTTTAG
87449191 GGATAAAATT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
35 43 0.98
36 1 0.02
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.45
Consensus pattern (36 bp):
TAGGGTTTAGGGTTTAGTGGTATATAGTTTAGGGTT
Found at i:87449649 original size:124 final size:122
Alignment explanation
Indices: 87449478--87449717 Score: 275
Period size: 124 Copynumber: 1.9 Consensus size: 122
87449468 CGATGCCGTT
* * * * *
87449478 TCTTTAGTGGCATTAGCGGCGCTAGGCAAAAAATGCTGCAATAGATCGAGCATTAACGGCGCT-T
1 TCTTTAATGGCATTAGCGGCGCTAGGCAAAAAACGCCGCAACAGATCGACCATTAACGGCGCTAT
87449542 GGTAAAAAACACCGCAAAAAACAAATTACTTTAAATAAAACAACGCCGTTTTAAGTTGCA
66 -G-AAAAAACACCGCAAAAAACAAATTACTTTAAAT-AAACAACGCCGTTTTAAGTTGCA
* * ** **
87449602 TCTTTAATGGCTTTAGCGGCGCTATGTGAAAAACGCCGCAACAGATCGACCATTAGTGGCGCTAC
1 TCTTTAATGGCATTAGCGGCGCTAGGCAAAAAACGCCGCAACAGATCGACCATTAACGGCGCTA-
** ** * **
87449667 TGAAAAAATGCCGCAAAAAACATTTTACTTTAACTAAATGACGCCGTTTTA
65 TGAAAAAACACCGCAAAAAACAAATTACTTTAAATAAACAACGCCGTTTTA
87449718 GGTAGCGTCC
Statistics
Matches: 96, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
123 14 0.15
124 80 0.83
125 1 0.01
126 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.25
Consensus pattern (122 bp):
TCTTTAATGGCATTAGCGGCGCTAGGCAAAAAACGCCGCAACAGATCGACCATTAACGGCGCTAT
GAAAAAACACCGCAAAAAACAAATTACTTTAAATAAACAACGCCGTTTTAAGTTGCA
Found at i:87452678 original size:25 final size:25
Alignment explanation
Indices: 87452644--87452705 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
87452634 TGAAGTATTA
*
87452644 TTTTG-ATTTGTTGTTTTTCGTTGG
1 TTTTGTATTTGTTGCTTTTCGTTGG
* *
87452668 TTTTGTATTTGCTGCTTTTGGTTGG
1 TTTTGTATTTGTTGCTTTTCGTTGG
*
87452693 ATTTGTATTTGTT
1 TTTTGTATTTGTT
87452706 ATTGTTTTTG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
24 5 0.16
25 27 0.84
ACGTcount: A:0.06, C:0.05, G:0.24, T:0.65
Consensus pattern (25 bp):
TTTTGTATTTGTTGCTTTTCGTTGG
Found at i:87453736 original size:15 final size:17
Alignment explanation
Indices: 87453716--87453752 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
87453706 TATTTATTCC
87453716 TATATT-TA-GCATATA
1 TATATTATATGCATATA
*
87453731 TATATTATATGTATATA
1 TATATTATATGCATATA
87453748 TATAT
1 TATAT
87453753 GATTAGTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 6 0.32
16 2 0.11
17 11 0.58
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (17 bp):
TATATTATATGCATATA
Found at i:87466149 original size:15 final size:15
Alignment explanation
Indices: 87466129--87466169 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
87466119 AGAGACAAAG
87466129 AAAGAAAGAAAAAAA
1 AAAGAAAGAAAAAAA
*
87466144 AAAGAAAGGAAAAAA
1 AAAGAAAGAAAAAAA
*
87466159 AAAGAGAGAAA
1 AAAGAAAGAAA
87466170 TGGAAAAGCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (15 bp):
AAAGAAAGAAAAAAA
Found at i:87466149 original size:19 final size:19
Alignment explanation
Indices: 87466125--87466176 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
87466115 GGAAAGAGAC
87466125 AAAGAAA-GAAAGAAAAAAA
1 AAAGAAAGGAAA-AAAAAAA
*
87466144 AAAGAAAGGAAAAAAAAAG
1 AAAGAAAGGAAAAAAAAAA
*
87466163 AGAGAAATGGAAAA
1 AAAGAAA-GGAAAA
87466177 GCAGGGAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 19 0.66
20 10 0.34
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (19 bp):
AAAGAAAGGAAAAAAAAAA
Found at i:87469483 original size:16 final size:16
Alignment explanation
Indices: 87469462--87469531 Score: 95
Period size: 16 Copynumber: 4.4 Consensus size: 16
87469452 TTTGGTTCAC
* *
87469462 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
* *
87469478 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
*
87469494 TGTAATGGAATAGATG
1 TGTAATGGAATAGAGG
87469510 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
87469526 TGTAAT
1 TGTAAT
87469532 AGCAAATCAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.31, C:0.00, G:0.34, T:0.34
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:87469564 original size:45 final size:44
Alignment explanation
Indices: 87469510--87469604 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
87469500 GGAATAGATG
*
87469510 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
87469555 TGTAATGGAATAGAGGCGTAATAGTAATCCTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
87469599 TGTAAT
1 TGTAAT
87469605 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 22 0.49
45 23 0.51
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:87469785 original size:18 final size:17
Alignment explanation
Indices: 87469764--87469798 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
87469754 TTATTATTAA
*
87469764 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
87469782 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
87469799 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:87470443 original size:6 final size:6
Alignment explanation
Indices: 87470432--87470456 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
87470422 ATTTTCAGGA
87470432 CTGCAT CTGCAT CTGCAT CTGCAT C
1 CTGCAT CTGCAT CTGCAT CTGCAT C
87470457 AATTTCAACC
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:0.16, C:0.36, G:0.16, T:0.32
Consensus pattern (6 bp):
CTGCAT
Found at i:87481501 original size:16 final size:16
Alignment explanation
Indices: 87481470--87481506 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
87481460 ATGTGAAGAA
87481470 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
87481486 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
87481502 TATTA
1 TATTA
87481507 AAAATAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:87481620 original size:14 final size:14
Alignment explanation
Indices: 87481601--87481635 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
87481591 TGGAAGTCAT
87481601 AATTTGAAAAATAA
1 AATTTGAAAAATAA
* *
87481615 AATTTGAAAACTTA
1 AATTTGAAAAATAA
87481629 AATTTGA
1 AATTTGA
87481636 TTTGTTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.54, C:0.03, G:0.09, T:0.34
Consensus pattern (14 bp):
AATTTGAAAAATAA
Found at i:87482077 original size:73 final size:73
Alignment explanation
Indices: 87481923--87482077 Score: 170
Period size: 73 Copynumber: 2.1 Consensus size: 73
87481913 AAGGAATCTT
** * * * * * *
87481923 ACTGTTCATTCTTGGTTGTTTTTTTGCAGGGAATCTCTCTTATTCATTTTGTCTTTGCTCTACAG
1 ACTGTTCATTCTTAATTGTCTTTTGGCAGGAAATCACTCCTATTCATTTTGCCTTTGCTCTACAG
*
87481988 GGAATTTC
66 GGAATTCC
* *
87481996 ACTATTCATTCTTAATTG-CTTTTGGCAGGAAATCACTCCTGTTCATTTTTGCCTTTGCTCTACA
1 ACTGTTCATTCTTAATTGTCTTTTGGCAGGAAATCACTCCTATTCA-TTTTGCCTTTGCTCTACA
87482060 -GGAATCTCC
65 GGGAAT-TCC
*
87482069 CCTGTTCAT
1 ACTGTTCAT
87482078 CTTTTGTTTT
Statistics
Matches: 67, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
72 26 0.39
73 41 0.61
ACGTcount: A:0.17, C:0.22, G:0.15, T:0.45
Consensus pattern (73 bp):
ACTGTTCATTCTTAATTGTCTTTTGGCAGGAAATCACTCCTATTCATTTTGCCTTTGCTCTACAG
GGAATTCC
Found at i:87496466 original size:44 final size:44
Alignment explanation
Indices: 87496371--87496471 Score: 127
Period size: 45 Copynumber: 2.3 Consensus size: 44
87496361 TTTAGCCACC
*
87496371 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCA
1 AGTCTTATCTCCCTGAAGTTGCA-TGGAGCAGACTGAAAATAGCA
*
87496416 AGTCTTATCTTCCTGAAGTTGC-TGGAAGCAGACTGAAAATTA-C-
1 AGTCTTATCTCCCTGAAGTTGCATGG-AGCAGACTGAAAA-TAGCA
87496459 AGATCTTATCTCC
1 AG-TCTTATCTCC
87496472 ATGTATCGGC
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
43 5 0.10
44 22 0.44
45 23 0.46
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.29
Consensus pattern (44 bp):
AGTCTTATCTCCCTGAAGTTGCATGGAGCAGACTGAAAATAGCA
Found at i:87496486 original size:178 final size:177
Alignment explanation
Indices: 87496095--87496628 Score: 725
Period size: 178 Copynumber: 3.0 Consensus size: 177
87496085 GTAACATCAG
*
87496095 TGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCGGATCGAAGATGGCGAGTCTTATC
1 TGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAGATGGCGAGTCTTATC
* * * * * *
87496160 TCCATGTATCAGCTATGGAGTAAATTTTAGCCACTAACCTTATCTCTCTG-AGTTTGCAG-AGAG
66 TCCATGTATCGGCTATGGAGCAGATTTTAGCCACTAGCCTTATCTCCCTGAAG-TTGCAGTGGAG
* * * * * *
87496223 CAGGTTGAAGATACAGGTCTTATTTTCCTGAAGTTGCAGAAAGCAAAC
130 CAGGCTGAAGATACAAGTCTTATCTTCCTGAAGTTGCTGGAAGCAGAC
* * * * *
87496271 TGAAAGTTACAGATCTTATCTCCATGTATCAGCTATGGAGTAGATCGAAAATGGTGAGTCTTATC
1 TGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAGATGGCGAGTCTTATC
* *
87496336 TCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGTCTTATCTCCCTGAAGTTGCAGTGGAGC
66 TCCATGTATCGGCTATGGAGCAGATTTTAGCCACTAGCCTTATCTCCCTGAAGTTGCAGTGGAGC
*
87496401 AGACTGAAGATAGCAAGTCTTATCTTCCTGAAGTTGCTGGAAGCAGAC
131 AGGCTGAAGATA-CAAGTCTTATCTTCCTGAAGTTGCTGGAAGCAGAC
*
87496449 TGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAGATGGCGAATCTTATC
1 TGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAGATGGCGAGTCTTATC
* *
87496514 TCCATGTATCGG-TAATGGAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAAGTTGCAATGGAG
66 TCCATGTATCGGCT-ATGGAGCAGATTTTAGCCACTAGCCTTATCTCCCTGAAGTTGCAGTGGAG
* * * * *
87496578 CAGGCTCAAAATTACAAATTTTATCTTCCCGAAGTTGCAAT-GAAGCAGAC
130 CAGGCTGAAGA-TACAAGTCTTATCTTCCTGAAGTTGC--TGGAAGCAGAC
87496628 T
1 T
87496629 AAGGATATGG
Statistics
Matches: 314, Mismatches: 37, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
176 108 0.34
177 17 0.05
178 176 0.56
179 12 0.04
180 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (177 bp):
TGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAGATGGCGAGTCTTATC
TCCATGTATCGGCTATGGAGCAGATTTTAGCCACTAGCCTTATCTCCCTGAAGTTGCAGTGGAGC
AGGCTGAAGATACAAGTCTTATCTTCCTGAAGTTGCTGGAAGCAGAC
Found at i:87496576 original size:89 final size:87
Alignment explanation
Indices: 87496305--87496580 Score: 222
Period size: 89 Copynumber: 3.1 Consensus size: 87
87496295 TGTATCAGCT
* * * * *
87496305 ATGGAGTAGATCGAAAATGGTGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCAC
1 ATGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGG-TATGGAGCAGATTTAAGCCA-
87496370 CAGTCTTATCTCCCTGAAGTTGCA
64 CAGTCTTATCTCCCTGAAGTTGCA
* * * * * **
87496394 GTGGAGCAGA-CTGAAGATAGC-AAGTCTTATCTTCC-TG-A-AGTTGCTGGAAGCAGACTGAAA
1 ATGGAGCAGATC-GAAGATGGCGAA-TCTTATC-TCCATGTATCGGT-ATGG-AGCAGA-TTTAA
*** * * * *
87496454 ATTACAGATCTTATCTCCATGTA-TCGGCT
60 GCCACAG-TCTTATCTCCCTGAAGT-TGCA
87496483 ATGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGGTAATGGAGCAGATTTAAGCCAC
1 ATGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGGT-ATGGAGCAGATTTAAGCCAC
*
87496548 TAGCCTTATCTCCCTGAAGTTGCA
65 -AGTCTTATCTCCCTGAAGTTGCA
87496572 ATGGAGCAG
1 ATGGAGCAG
87496581 GCTCAAAATT
Statistics
Matches: 137, Mismatches: 35, Indels: 30
0.68 0.17 0.15
Matches are distributed among these distances:
86 1 0.01
87 4 0.03
88 16 0.12
89 95 0.69
90 16 0.12
91 5 0.04
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (87 bp):
ATGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGGTATGGAGCAGATTTAAGCCACA
GTCTTATCTCCCTGAAGTTGCA
Found at i:87505400 original size:17 final size:17
Alignment explanation
Indices: 87505378--87505425 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
87505368 CCCGGCCCGA
87505378 TTTTAATATTAAATTAT
1 TTTTAATATTAAATTAT
* ***
87505395 TTTTAAAATTTTTTTAT
1 TTTTAATATTAAATTAT
*
87505412 TTTTAATTTTAAAT
1 TTTTAATATTAAAT
87505426 AACTTTAGTA
Statistics
Matches: 22, Mismatches: 9, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTAATATTAAATTAT
Found at i:87505646 original size:19 final size:20
Alignment explanation
Indices: 87505618--87505656 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
87505608 TCCCATTTTT
87505618 TATTTATTTTT-TGTTTTAA
1 TATTTATTTTTATGTTTTAA
*
87505637 TATTTGTTTTTATGTTTTAA
1 TATTTATTTTTATGTTTTAA
87505657 ATGTATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.72
Consensus pattern (20 bp):
TATTTATTTTTATGTTTTAA
Found at i:87505674 original size:25 final size:23
Alignment explanation
Indices: 87505637--87505682 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
87505627 TTTGTTTTAA
*
87505637 TATTTGTTTTTATGTTTTAAATG
1 TATTTGTTTTTATATTTTAAATG
87505660 TATTTGATTTATTATATTTTAAA
1 TATTTG-TTT-TTATATTTTAAA
87505683 GTTTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (23 bp):
TATTTGTTTTTATATTTTAAATG
Found at i:87509255 original size:21 final size:24
Alignment explanation
Indices: 87509215--87509257 Score: 65
Period size: 21 Copynumber: 1.9 Consensus size: 24
87509205 GAGAGGTCCA
87509215 TTCTACTTAAAGTAGAATATTATT
1 TTCTACTTAAAGTAGAATATTATT
87509239 TTCTA-TTAAA-TA-AATATTA
1 TTCTACTTAAAGTAGAATATTA
87509258 CTTGTGTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.37
22 2 0.11
23 5 0.26
24 5 0.26
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.47
Consensus pattern (24 bp):
TTCTACTTAAAGTAGAATATTATT
Found at i:87509574 original size:40 final size:40
Alignment explanation
Indices: 87509518--87509604 Score: 129
Period size: 40 Copynumber: 2.1 Consensus size: 40
87509508 TAAACTTTAA
*
87509518 TTTATTTAAACTCATCTTAGTTAATAATTGAGTTGCTGGAC
1 TTTA-TTAAACTCATCTTAGTTAATAATTGAGTTGCTAGAC
* * *
87509559 TTTATTAAACTCATCTTAGTTAATTATTGATTTGTTAGAC
1 TTTATTAAACTCATCTTAGTTAATAATTGAGTTGCTAGAC
87509599 TTTATT
1 TTTATT
87509605 TTTATTAAAC
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 38 0.90
41 4 0.10
ACGTcount: A:0.29, C:0.10, G:0.11, T:0.49
Consensus pattern (40 bp):
TTTATTAAACTCATCTTAGTTAATAATTGAGTTGCTAGAC
Found at i:87509927 original size:21 final size:23
Alignment explanation
Indices: 87509868--87509935 Score: 61
Period size: 23 Copynumber: 3.0 Consensus size: 23
87509858 GTTAATGCGA
*
87509868 CTGTTACATTACTTAAAGAAGAG
1 CTGTTACATTAATTAAAGAAGAG
* *
87509891 CAT-ATACATCAATTAAAG-A-AG
1 C-TGTTACATTAATTAAAGAAGAG
* *
87509912 CTGTTACATTATTTAAAGGAGAG
1 CTGTTACATTAATTAAAGAAGAG
87509935 C
1 C
87509936 ATTATATGTC
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
20 1 0.03
21 15 0.43
22 2 0.06
23 16 0.46
24 1 0.03
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.29
Consensus pattern (23 bp):
CTGTTACATTAATTAAAGAAGAG
Found at i:87518251 original size:16 final size:16
Alignment explanation
Indices: 87518230--87518297 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
87518220 TTTGGTTCGC
*
87518230 TGTATTGGATTAAAGG
1 TGTATTGGATTAGAGG
87518246 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
87518262 TGTAATGGATTAGAGG
1 TGTATTGGATTAGAGG
*
87518278 TGTATTGGAATAGAGG
1 TGTATTGGATTAGAGG
87518294 TGTA
1 TGTA
87518298 ATAGCAAATC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.29, C:0.00, G:0.35, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:87518334 original size:45 final size:44
Alignment explanation
Indices: 87518278--87518368 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
87518268 GGATTAGAGG
* *
87518278 TGTATTGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
87518323 TGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
87518367 TG
1 TG
87518369 GAATAGAGAT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 18 0.45
45 22 0.55
ACGTcount: A:0.31, C:0.05, G:0.29, T:0.35
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:87518554 original size:18 final size:17
Alignment explanation
Indices: 87518533--87518567 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
87518523 TTATTATTAA
*
87518533 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
87518551 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
87518568 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:87518621 original size:157 final size:158
Alignment explanation
Indices: 87518427--87518734 Score: 546
Period size: 157 Copynumber: 2.0 Consensus size: 158
87518417 CCCTTAGTAT
* *
87518427 AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTATCAA
1 AAATTTGTTTTGATAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
* *
87518492 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAA-ATATATA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATCAAATATATTATAATTAAATATATATA
87518556 ATTTAATAAAATTCTTAATAATTAGCAG
131 ATTTAATAAAATTCTTAATAATTAGCAG
* *
87518584 AAATTTGTTTTGATAAATTATTATTGTTATTGTTATTTAATTTTTAATAAGATTATTAATATCAA
1 AAATTTGTTTTGATAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
*
87518649 TAATAAATAATTTAATCATATTTAAATATAATTATTATCAAATATATTATAATTAAATATATATA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATCAAATATATTATAATTAAATATATATA
87518714 ATTTAATAAAATTCTTAATAA
131 ATTTAATAAAATTCTTAATAA
87518735 CTAATATTCT
Statistics
Matches: 143, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
157 115 0.80
158 28 0.20
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.48
Consensus pattern (158 bp):
AAATTTGTTTTGATAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
TAATAAATAATTTAATCATATTTAAACATAATTATTATCAAATATATTATAATTAAATATATATA
ATTTAATAAAATTCTTAATAATTAGCAG
Found at i:87518715 original size:14 final size:15
Alignment explanation
Indices: 87518670--87518721 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
87518660 TTAATCATAT
*
87518670 TTAAATATAATTATTA
1 TTAAATAT-ATTATAA
*
87518686 TCAAATATATTATAA
1 TTAAATATATTATAA
87518701 TTAAATATA-TATAA
1 TTAAATATATTATAA
*
87518715 TTTAATA
1 TTAAATA
87518722 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
14 11 0.34
15 14 0.44
16 7 0.22
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (15 bp):
TTAAATATATTATAA
Found at i:87519169 original size:13 final size:13
Alignment explanation
Indices: 87519151--87519175 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
87519141 GCCTTAACAA
87519151 GAGCAGCACTCAT
1 GAGCAGCACTCAT
87519164 GAGCAGCACTCA
1 GAGCAGCACTCA
87519176 AAACAAATTT
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:0.32, G:0.24, T:0.12
Consensus pattern (13 bp):
GAGCAGCACTCAT
Found at i:87524719 original size:68 final size:68
Alignment explanation
Indices: 87524629--87524892 Score: 402
Period size: 68 Copynumber: 3.9 Consensus size: 68
87524619 CTAACAGATC
*
87524629 TCCTAAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCGGATCTCT
1 TCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCGGATCTCT
87524694 TCT
66 TCT
** **
87524697 TTTTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAATGGATCTCT
1 TCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCGGATCTCT
87524762 TCT
66 TCT
* *
87524765 TCCTGAAGTGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGATCTCT
1 TCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCGGATCTCT
*
87524830 TAT
66 TCT
* * * * * *
87524833 CCCTAAAATGGCGTTGGAACGGCTAAAAGTCACAGCATATTTCCTTGAAGTTTCAGCGGA
1 TCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCGGA
87524893 AGAAGATCAA
Statistics
Matches: 178, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
68 178 1.00
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (68 bp):
TCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCGGATCTCT
TCT
Found at i:87525100 original size:23 final size:23
Alignment explanation
Indices: 87525072--87525117 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
87525062 AAGTTGCAGT
87525072 AAAGCAGATCAAAACAGATCTTA
1 AAAGCAGATCAAAACAGATCTTA
87525095 AAAGCAGATCAAAACAGATCTTA
1 AAAGCAGATCAAAACAGATCTTA
87525118 TCTCTCTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.52, C:0.17, G:0.13, T:0.17
Consensus pattern (23 bp):
AAAGCAGATCAAAACAGATCTTA
Found at i:87525104 original size:13 final size:10
Alignment explanation
Indices: 87525076--87525114 Score: 51
Period size: 10 Copynumber: 3.6 Consensus size: 10
87525066 TGCAGTAAAG
87525076 CAGATCAAAA
1 CAGATCAAAA
87525086 CAGATCTTAAAA
1 CAGATC--AAAA
87525098 GCAGATCAAAA
1 -CAGATCAAAA
87525109 CAGATC
1 CAGATC
87525115 TTATCTCTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 12 0.46
11 4 0.15
12 4 0.15
13 6 0.23
ACGTcount: A:0.51, C:0.21, G:0.13, T:0.15
Consensus pattern (10 bp):
CAGATCAAAA
Found at i:87525218 original size:45 final size:45
Alignment explanation
Indices: 87525161--87525283 Score: 156
Period size: 45 Copynumber: 2.7 Consensus size: 45
87525151 TACAAGTCTT
* * *
87525161 ATCTCCTTGAAGTTACAGTGGAGCAGACTGAAGATAACAAACCTC
1 ATCTCCCTGAAGTTACAGTGGAACAGAATGAAGATAACAAACCTC
* ** * *
87525206 ATCTCCCTGAAGTTGCAGTGGAACAGAATGAAGATAGGAAATCTT
1 ATCTCCCTGAAGTTACAGTGGAACAGAATGAAGATAACAAACCTC
* *
87525251 ATTTCCCTGAAGTTACAGTGGAACAGATTGAAG
1 ATCTCCCTGAAGTTACAGTGGAACAGAATGAAG
87525284 CTAAATTACA
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24
Consensus pattern (45 bp):
ATCTCCCTGAAGTTACAGTGGAACAGAATGAAGATAACAAACCTC
Found at i:87526497 original size:59 final size:59
Alignment explanation
Indices: 87526405--87526522 Score: 227
Period size: 59 Copynumber: 2.0 Consensus size: 59
87526395 CAAAACGACG
87526405 TCGTTTTGGCCAACCCAATTGGTGACCCGACCCGTGCAGCTAGGATCCACGTGTTTTCA
1 TCGTTTTGGCCAACCCAATTGGTGACCCGACCCGTGCAGCTAGGATCCACGTGTTTTCA
*
87526464 TCGTTTTGGCCAACCCAATTGGTGACCCGACCCGTGCAGCTAGGATCCGCGTGTTTTCA
1 TCGTTTTGGCCAACCCAATTGGTGACCCGACCCGTGCAGCTAGGATCCACGTGTTTTCA
87526523 GGCGTATGGG
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.18, C:0.31, G:0.25, T:0.27
Consensus pattern (59 bp):
TCGTTTTGGCCAACCCAATTGGTGACCCGACCCGTGCAGCTAGGATCCACGTGTTTTCA
Found at i:87526873 original size:3 final size:3
Alignment explanation
Indices: 87526865--87527097 Score: 64
Period size: 3 Copynumber: 77.3 Consensus size: 3
87526855 TAGTCTAAGA
* * * * * * *
87526865 TAT TAT TAT TAT TAT TAT TAT CAT CAT TGT TAC TGT TTT TAT TTT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
87526913 TAT CAT TGT TAA TAT TAT TTT TCAT GTAT ATAT TAT TAT TA- TGT TAT
1 TAT TAT TAT TAT TAT TAT TAT T-AT -TAT -TAT TAT TAT TAT TAT TAT
* * * * * * *
87526960 TGT TAT TATT TACA TGT TAT TCT CTCT CT-T TCT T-T TAT TA- CAT TAT
1 TAT TAT TA-T TA-T TAT TAT TAT -TAT -TAT TAT TAT TAT TAT TAT TAT
* * ** * * **
87527006 TAT TAT TAT TAT TAC TAT TTT TAT TGC TAG TAT CAT GGT TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
87527053 TAT CAT TAT TAT TTT TGT AAT TAT TAT TAC TAT TA- TAT TTT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
87527098 TAACATACTA
Statistics
Matches: 163, Mismatches: 57, Indels: 20
0.68 0.24 0.08
Matches are distributed among these distances:
2 9 0.06
3 138 0.85
4 15 0.09
5 1 0.01
ACGTcount: A:0.26, C:0.07, G:0.05, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:87527370 original size:3 final size:3
Alignment explanation
Indices: 87527362--87527463 Score: 82
Period size: 3 Copynumber: 33.7 Consensus size: 3
87527352 TTTACTTAAC
* * *
87527362 TAT TAT TAT TAT TAA TAT TAT TAC TAT TAT TAT CAT TAT TAT TAT TATT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
* * * * *
87527411 TGT TAGT TA- TAT TAC TAT TAT TGT TA- TATT TAT TCT TAC TAT TAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
*
87527456 TAC TAT TA
1 TAT TAT TA
87527464 CCGCTACTAT
Statistics
Matches: 76, Mismatches: 18, Indels: 10
0.73 0.17 0.10
Matches are distributed among these distances:
2 4 0.05
3 65 0.86
4 7 0.09
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:87527609 original size:14 final size:12
Alignment explanation
Indices: 87527589--87527625 Score: 56
Period size: 14 Copynumber: 2.9 Consensus size: 12
87527579 TTCACTTTTA
87527589 TTATTATTATTG
1 TTATTATTATTG
87527601 CTATATTATTATTG
1 -T-TATTATTATTG
87527615 TTATTATTATT
1 TTATTATTATT
87527626 TTCCATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 10 0.43
13 2 0.09
14 11 0.48
ACGTcount: A:0.27, C:0.03, G:0.05, T:0.65
Consensus pattern (12 bp):
TTATTATTATTG
Found at i:87531886 original size:12 final size:12
Alignment explanation
Indices: 87531869--87531893 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
87531859 ATTTTTCAAA
87531869 TATTTGATTTAT
1 TATTTGATTTAT
87531881 TATTTGATTTAT
1 TATTTGATTTAT
87531893 T
1 T
87531894 TATCTTAGTT
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:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (12 bp):
TATTTGATTTAT
Found at i:87532072 original size:85 final size:85
Alignment explanation
Indices: 87531929--87532101 Score: 337
Period size: 85 Copynumber: 2.0 Consensus size: 85
87531919 AATCTGTGAC
87531929 TTGAACAAATTTTATGATCTGCTTCTGCATTCATCCGCACTCATCTTTATCAATATCCCTACCTC
1 TTGAACAAATTTTATGATCTGCTTCTGCATTCATCCGCACTCATCTTTATCAATATCCCTACCTC
87531994 AAACTCGGTTAGACTCTTCA
66 AAACTCGGTTAGACTCTTCA
87532014 TTGAACAAATTTTATGATCTGCTTCTGCATTCATCCGCACTCATCTTTATCAATATCCCTACCTC
1 TTGAACAAATTTTATGATCTGCTTCTGCATTCATCCGCACTCATCTTTATCAATATCCCTACCTC
*
87532079 AAACTCGGTTGGACTCTTCA
66 AAACTCGGTTAGACTCTTCA
87532099 TTG
1 TTG
87532102 GACCACCTAG
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 87 1.00
ACGTcount: A:0.25, C:0.28, G:0.10, T:0.37
Consensus pattern (85 bp):
TTGAACAAATTTTATGATCTGCTTCTGCATTCATCCGCACTCATCTTTATCAATATCCCTACCTC
AAACTCGGTTAGACTCTTCA
Found at i:87532959 original size:25 final size:25
Alignment explanation
Indices: 87532912--87532960 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
87532902 CTTTTCCACA
*
87532912 TATTATATTTCTTCACCTCCATTTT
1 TATTATATTTCTTCAACTCCATTTT
* * *
87532937 TATTATTTTTCTTGAACTGCATTT
1 TATTATATTTCTTCAACTCCATTT
87532961 ACTCCAATAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.20, C:0.18, G:0.04, T:0.57
Consensus pattern (25 bp):
TATTATATTTCTTCAACTCCATTTT
Found at i:87534022 original size:14 final size:15
Alignment explanation
Indices: 87534003--87534031 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
87533993 TAATATTGAA
87534003 AATTTAAA-AATATT
1 AATTTAAATAATATT
87534017 AATTTAAATAATATT
1 AATTTAAATAATATT
87534032 TAAATAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTTAAATAATATT
Found at i:87534373 original size:13 final size:13
Alignment explanation
Indices: 87534330--87534376 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
87534320 AAAAAAATTA
*
87534330 AAATATAATTATT
1 AAATTTAATTATT
87534343 AAA-TTAATTTATT
1 AAATTTAA-TTATT
* *
87534356 GAATTTAATTAAT
1 AAATTTAATTATT
87534369 AAATTTAA
1 AAATTTAA
87534377 AATTTATATT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
12 3 0.11
13 21 0.75
14 4 0.14
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (13 bp):
AAATTTAATTATT
Found at i:87539157 original size:165 final size:165
Alignment explanation
Indices: 87538959--87539279 Score: 509
Period size: 165 Copynumber: 1.9 Consensus size: 165
87538949 CAATTTTATA
* * * * *
87538959 TTTAAAACCATGTTTCATGCATATTTAAGCATAATCATAAGTTTGTTTAGTTTCAAACGTTTTTG
1 TTTAAAACCAGGTTTCATGCATATTTAAGCATAACCATAAATTTGTTCAATTTCAAACGTTTTTG
*
87539024 CATGTAATGCAAACTAAAATCAACCA-AAAATAACCCATGCCACAACCCAAATAAATTATTACAA
66 CATGTAATGCAAACTAAAACCAA-CAGAAAATAACCCATGCCACAACCCAAATAAATTATTACAA
* *
87539088 TCCCCAAATAGAAATTGTTAAATTAAATTTTTGATT
130 CCCCCAAATAGAAATTGATAAATTAAATTTTTGATT
87539124 TTTAAAACCAGGTTTCATGCATATTTAAGCATAACCATAAATTTGTTCAATTTCAAACGTTTTTG
1 TTTAAAACCAGGTTTCATGCATATTTAAGCATAACCATAAATTTGTTCAATTTCAAACGTTTTTG
* * * *
87539189 CATGTAATGTAAACTAAAACCAACAGAAAATAACTCATGCCACAATCCAAATAAATTATTACAGC
66 CATGTAATGCAAACTAAAACCAACAGAAAATAACCCATGCCACAACCCAAATAAATTATTACAAC
*
87539254 CCCCAAATAGGAATTGATAAATTAAA
131 CCCCAAATAGAAATTGATAAATTAAA
87539280 GTAAAAATAC
Statistics
Matches: 142, Mismatches: 13, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
164 2 0.01
165 140 0.99
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.32
Consensus pattern (165 bp):
TTTAAAACCAGGTTTCATGCATATTTAAGCATAACCATAAATTTGTTCAATTTCAAACGTTTTTG
CATGTAATGCAAACTAAAACCAACAGAAAATAACCCATGCCACAACCCAAATAAATTATTACAAC
CCCCAAATAGAAATTGATAAATTAAATTTTTGATT
Found at i:87540132 original size:34 final size:34
Alignment explanation
Indices: 87540069--87540138 Score: 81
Period size: 34 Copynumber: 2.1 Consensus size: 34
87540059 AATGTCACTA
*
87540069 CAAAATATTTATTAATAATATACAAATATCATAT
1 CAAAATATTTATTAATAATATACAAATATCAAAT
* *
87540103 CAAAATATTGTATTACTAGA-A-ACATATATCAAAT
1 CAAAATATT-TATTAATA-ATATACAAATATCAAAT
87540137 CA
1 CA
87540139 TTATGTCATA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
34 22 0.71
35 8 0.26
36 1 0.03
ACGTcount: A:0.51, C:0.11, G:0.03, T:0.34
Consensus pattern (34 bp):
CAAAATATTTATTAATAATATACAAATATCAAAT
Found at i:87542264 original size:27 final size:27
Alignment explanation
Indices: 87542222--87542354 Score: 164
Period size: 27 Copynumber: 5.0 Consensus size: 27
87542212 GTCACTAGAT
87542222 ACAGATAT-TGTGGCAGAGCCACCAGA
1 ACAGATATATGTGGCAGAGCCACCAGA
87542248 ACAGATATATGTGGCAGAGCCACCAGA
1 ACAGATATATGTGGCAGAGCCACCAGA
* * * *
87542275 TCAAATA-ATTGTGGCATAGCCACCAGG
1 ACAGATATA-TGTGGCAGAGCCACCAGA
*
87542302 ATAGATATATGTGGCAGAGCCACCAGA
1 ACAGATATATGTGGCAGAGCCACCAGA
* *
87542329 TCAGATA-ATTGTGGCATAGCCACCAG
1 ACAGATATA-TGTGGCAGAGCCACCAG
87542355 GACGCTTCCT
Statistics
Matches: 91, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
26 10 0.11
27 80 0.88
28 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.19
Consensus pattern (27 bp):
ACAGATATATGTGGCAGAGCCACCAGA
Found at i:87542355 original size:54 final size:54
Alignment explanation
Indices: 87542218--87542357 Score: 228
Period size: 54 Copynumber: 2.6 Consensus size: 54
87542208 CGAAGTCACT
* *
87542218 AGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGCCACC
1 AGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGCCACC
* *
87542272 AGATCAAATAATTGTGGCATAGCCACCAGGATAGATATATGTGGCAGAGCCACC
1 AGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGCCACC
87542326 AGATCAGATAATTGTGGCATAGCCACCAGGAC
1 AGATCAGATAATTGTGGCATAGCCACCAGGAC
87542358 GCTTCCTCCA
Statistics
Matches: 79, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 4 0.05
54 75 0.95
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (54 bp):
AGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGCCACC
Found at i:87545517 original size:3 final size:3
Alignment explanation
Indices: 87545511--87545688 Score: 91
Period size: 3 Copynumber: 59.0 Consensus size: 3
87545501 ACATTTCTAA
* * * *
87545511 TAT TAT TAA TAT TAT TAT T-T AAAT TAT TGT TAT TAT TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * * *
87545556 TAA TAT TCT TTT TAT TAA CAT TCT TTT TAT TCCT T-T TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT
* *
87545601 T-T T-T TCAT TAA TA- TAG TAT TAT TAT TAT TAT TAT TAT TAT T-T
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
87545643 TAAT GTAT TAT TAT TAC TAGT TAT TATT TAT T-T CTAG TAT TAT TAT
1 T-AT -TAT TAT TAT TAT TA-T TAT TA-T TAT TAT -TAT TAT TAT TAT
87545689 ATATAATATT
Statistics
Matches: 134, Mismatches: 27, Indels: 28
0.71 0.14 0.15
Matches are distributed among these distances:
2 12 0.09
3 108 0.81
4 13 0.10
5 1 0.01
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:87545522 original size:9 final size:9
Alignment explanation
Indices: 87545493--87545562 Score: 52
Period size: 9 Copynumber: 7.4 Consensus size: 9
87545483 TATTAAATAT
87545493 TATTATTAA
1 TATTATTAA
*
87545502 CATT-TCTAA
1 TATTAT-TAA
87545511 TATTATTAA
1 TATTATTAA
87545520 TATTATTATTTA
1 TATTATTA---A
* **
87545532 AATTATTGT
1 TATTATTAA
*
87545541 TATTATTAC
1 TATTATTAA
87545550 TATTATTAA
1 TATTATTAA
87545559 TATT
1 TATT
87545563 CTTTTTATTA
Statistics
Matches: 47, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
8 1 0.02
9 38 0.81
10 1 0.02
12 7 0.15
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.57
Consensus pattern (9 bp):
TATTATTAA
Found at i:87545634 original size:34 final size:33
Alignment explanation
Indices: 87545591--87545677 Score: 95
Period size: 34 Copynumber: 2.5 Consensus size: 33
87545581 TTTATTCCTT
87545591 TTATTATTATTTTTTCATTAATATAGTATTATTA
1 TTATTATTATTTTTTC-TTAATATAGTATTATTA
* *
87545625 TTATTATTATTATTATT-TTAATGTATTATTATTA
1 TTATTATTATT-TT-TTCTTAATATAGTATTATTA
*
87545659 CTAGTTATTATTTATTTCT
1 TTA-TTATTATTT-TTTCT
87545678 AGTATTATTA
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
34 31 0.69
35 12 0.27
36 2 0.04
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.63
Consensus pattern (33 bp):
TTATTATTATTTTTTCTTAATATAGTATTATTA
Found at i:87545667 original size:16 final size:16
Alignment explanation
Indices: 87545617--87545688 Score: 69
Period size: 16 Copynumber: 4.6 Consensus size: 16
87545607 ATTAATATAG
*
87545617 TATTATTATTATTA-T
1 TATTATTATTACTAGT
* *
87545632 TATTATTATT-TTAAT
1 TATTATTATTACTAGT
87545647 GTATTATTATTACTAGT
1 -TATTATTATTACTAGT
*
87545664 TATTATTTATTTCTAG-
1 TATTA-TTATTACTAGT
87545680 TATTATTAT
1 TATTATTAT
87545689 ATATAATATT
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
14 3 0.06
15 15 0.30
16 20 0.40
17 12 0.24
ACGTcount: A:0.31, C:0.03, G:0.04, T:0.62
Consensus pattern (16 bp):
TATTATTATTACTAGT
Found at i:87545967 original size:139 final size:140
Alignment explanation
Indices: 87545680--87545956 Score: 302
Period size: 145 Copynumber: 2.0 Consensus size: 140
87545670 TTATTTCTAG
* * *
87545680 TATTATTATATATAATATTAGTGTATGTTTTATTATATATGTATATATATTTTTATACATAGTTT
1 TATTATTATATATAATAGTAGTATATGTTTTATTATATATGTATATATATTTTTATACATAGTAT
* * * **
87545745 TATTTTTAATTACTTTATTTTAATATATTTATTACATTATATTTGCTTTTTGTTATTAATATTAT
66 TATTTTTAATTACTTTATTTTAATATATTTATTACATTATATTTAC--TATGATATTAATAGCAT
87545810 TACTATATTTAT
129 TACTATATTTAT
* *
87545822 TATTATTA-ATAATAATAGT-GTATATTTTTTATTATATATGTATATGTATATATTTTTGTACAT
1 TATTATTATAT-ATAATAGTAGTATATGTTTTATTATATATG--TA--TATATATTTTTATACAT
* *
87545885 AGTATTATTTTCTAATTACTTTA-TTTAATAT-TTTATTATATTATGTTTAC-AT-ATA-T-ATA
61 AGTATTATTTT-TAATTACTTTATTTTAATATATTTATTACATTATATTTACTATGATATTAATA
*
87545944 GCGTTACTA-ATTT
125 GCATTACTATATTT
87545957 TCTTTATTAT
Statistics
Matches: 116, Mismatches: 13, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
137 4 0.03
138 9 0.08
139 1 0.01
140 2 0.02
141 22 0.19
142 15 0.13
143 2 0.02
144 16 0.14
145 34 0.29
146 11 0.09
ACGTcount: A:0.32, C:0.04, G:0.06, T:0.58
Consensus pattern (140 bp):
TATTATTATATATAATAGTAGTATATGTTTTATTATATATGTATATATATTTTTATACATAGTAT
TATTTTTAATTACTTTATTTTAATATATTTATTACATTATATTTACTATGATATTAATAGCATTA
CTATATTTAT
Found at i:87546173 original size:25 final size:27
Alignment explanation
Indices: 87546123--87546173 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 27
87546113 ACTAAATTTT
*
87546123 TTAATACCATATATATTGTGTATATTC
1 TTAATACCATATATATTGTATATATTC
*
87546150 TTAATA-C-TATATATTGTATGTATT
1 TTAATACCATATATATTGTATATATT
87546174 TTTTATTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 15 0.68
26 1 0.05
27 6 0.27
ACGTcount: A:0.33, C:0.08, G:0.08, T:0.51
Consensus pattern (27 bp):
TTAATACCATATATATTGTATATATTC
Found at i:87546480 original size:25 final size:25
Alignment explanation
Indices: 87546410--87546480 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 25
87546400 CTTATGAATA
87546410 TATATTATTTTTAATAACTATATTATG
1 TATA-TATTTTTAAT-ACTATATTATG
* * **
87546437 CATGTATTTTTAACGCTATATTATG
1 TATATATTTTTAATACTATATTATG
87546462 TATATATTTTTAATACTAT
1 TATATATTTTTAATACTAT
87546481 GTATACACTT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
25 25 0.69
26 9 0.25
27 2 0.06
ACGTcount: A:0.34, C:0.07, G:0.06, T:0.54
Consensus pattern (25 bp):
TATATATTTTTAATACTATATTATG
Found at i:87547555 original size:25 final size:24
Alignment explanation
Indices: 87547527--87547594 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 24
87547517 ATAAATGGGG
87547527 TTTAAAATAAGGTATATAAAAT-AA
1 TTTAAAATAA-GTATATAAAATCAA
*
87547551 TTTTAAAATAAGTAATATATAAGTCAA
1 -TTTAAAATAAGT-ATATA-AAATCAA
87547578 TTTAAAATAA-TATATAA
1 TTTAAAATAAGTATATAA
87547595 CAAGTTTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
23 1 0.03
24 7 0.18
25 16 0.41
26 13 0.33
27 2 0.05
ACGTcount: A:0.56, C:0.01, G:0.06, T:0.37
Consensus pattern (24 bp):
TTTAAAATAAGTATATAAAATCAA
Found at i:87547579 original size:27 final size:24
Alignment explanation
Indices: 87547527--87547607 Score: 71
Period size: 25 Copynumber: 3.4 Consensus size: 24
87547517 ATAAATGGGG
87547527 TTTAAAATAAGGTATATAAAATAA
1 TTTAAAATAAGGTATATAAAATAA
*
87547551 TTTTAAAATAA-GTAATATATAAGTCAA
1 -TTTAAAATAAGGT-ATATA-AAAT-AA
* *
87547578 TTTAAAATAA--TATATAACA-AG
1 TTTAAAATAAGGTATATAAAATAA
87547599 TTTAAAATA
1 TTTAAAATA
87547608 TATAATATGT
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
21 10 0.20
23 1 0.02
24 7 0.14
25 16 0.33
26 13 0.27
27 2 0.04
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.36
Consensus pattern (24 bp):
TTTAAAATAAGGTATATAAAATAA
Found at i:87547610 original size:20 final size:21
Alignment explanation
Indices: 87547563--87547611 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
87547553 TTAAAATAAG
87547563 TAATATATAAGTCAATTTAAAA
1 TAATATATAAG-CAATTTAAAA
87547585 TAATATATAA-CAAGTTTAAAA
1 TAATATATAAGCAA-TTTAAAA
87547606 T-ATATA
1 TAATATA
87547612 ATATGTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 8 0.31
21 8 0.31
22 10 0.38
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.37
Consensus pattern (21 bp):
TAATATATAAGCAATTTAAAA
Found at i:87547923 original size:19 final size:19
Alignment explanation
Indices: 87547901--87547964 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
87547891 AGCAAGTTAA
87547901 AATAAATAATAATAATTTG
1 AATAAATAATAATAATTTG
* ***
87547920 AATAAACAATAAATTAA-AAA
1 AATAAATAAT-AA-TAATTTG
87547940 AATAAATAATAATAATTTG
1 AATAAATAATAATAATTTG
87547959 AATAAA
1 AATAAA
87547965 CAGTAAATTA
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
18 3 0.09
19 17 0.50
20 11 0.32
21 3 0.09
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.30
Consensus pattern (19 bp):
AATAAATAATAATAATTTG
Found at i:87547943 original size:39 final size:39
Alignment explanation
Indices: 87547899--87547977 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
87547889 AAAGCAAGTT
87547899 AAAATAAATAATAATAATTTGAATAAACAATAAATTAAA
1 AAAATAAATAATAATAATTTGAATAAACAATAAATTAAA
*
87547938 AAAATAAATAATAATAATTTGAATAAACAGTAAATTAAA
1 AAAATAAATAATAATAATTTGAATAAACAATAAATTAAA
87547977 A
1 A
87547978 TAAGTTAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.66, C:0.03, G:0.04, T:0.28
Consensus pattern (39 bp):
AAAATAAATAATAATAATTTGAATAAACAATAAATTAAA
Found at i:87549244 original size:11 final size:12
Alignment explanation
Indices: 87549223--87549256 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
87549213 TTTGGACTTT
87549223 TTGGTTTATTTA
1 TTGGTTTATTTA
87549235 TTGG-TTATTTA
1 TTGGTTTATTTA
*
87549246 TTGTTTTATTT
1 TTGGTTTATTT
87549257 GGGATAGGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.71
Consensus pattern (12 bp):
TTGGTTTATTTA
Found at i:87549534 original size:44 final size:44
Alignment explanation
Indices: 87549470--87550106 Score: 553
Period size: 44 Copynumber: 14.4 Consensus size: 44
87549460 CCAATATAAT
* ** *
87549470 TTCAGGGAGA-AGAGACTTGTAGCTTGGATCTACTCCACTGCAAC
1 TTCAGGGAGATA-AGATTTGTAGCTTCAATCTGCTCCACTGCAAC
* * * ** * *
87549514 TTCAGTGAGATGAGATTTGTA-TTTACAATCTTTTTCTCTGCAAC
1 TTCAGGGAGATAAGATTTGTAGCTT-CAATCTGCTCCACTGCAAC
* * * * *
87549558 TTCAGGAAAATAAGATTTGCTATCTTCAGTCTACTCCACTGCAAC
1 TTCAGGGAGATAAGATTTG-TAGCTTCAATCTGCTCCACTGCAAC
* * ** * * *
87549603 TTCAGGGAGATGAGACTAATGGTTTCTATCTGCTCCACTGCAAC
1 TTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAAC
* * * * *
87549647 TTCAGGGAGATAAGATTCGTAACTTCAACCTACTCCACTGTAAC
1 TTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAAC
* * * *
87549691 TTCAGGAAGTTAAGGTTTGTGGCTTCAATCTGCTCCACTGCAAC
1 TTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAAC
* * * * * *
87549735 TTCAGGGAGATACGGTTTATGGCTTCAATCTACTCCACTGTAAC
1 TTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAAC
** * *
87549779 TTCAGGGAGATAAGATTTGTAATTTTAACCTGCTCCACTGCAAC
1 TTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAAC
* * * * *
87549823 TTTAGGGAGATAAGATTTGTAACTTCAACCTGCTCTATTGCAAC
1 TTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAAC
* * * * * *
87549867 TTCAGAGAGATGAGGTTTGTGGCTTCAGTCTACTCCACTGCAAC
1 TTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAAC
** *
87549911 TTCAGGGAGATAAGATTTGTAATTTCAACCTGCTCCACTGCAAC
1 TTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAAC
* * * *
87549955 TTCAGGGAGATAAGGTTTGTGGCTTCAATCTGCTCCACTACAAT
1 TTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAAC
* * *
87549999 TTTAGGGAGATAAGATTTGTAACTTCAA-CATGCTCCACTGTAAC
1 TTCAGGGAGATAAGATTTGTAGCTTCAATC-TGCTCCACTGCAAC
* * ** * *
87550043 TTCAAGGAGATAATG-TTTGTGGTTTCTTTGATCTACTTCACTGCAAC
1 TTCAGGGAGATAA-GATTTGTAG---CTTCAATCTGCTCCACTGCAAC
87550090 TTCAGGGAGATAAGATT
1 TTCAGGGAGATAAGATT
87550107 CACCATGAAA
Statistics
Matches: 465, Mismatches: 117, Indels: 19
0.77 0.19 0.03
Matches are distributed among these distances:
43 3 0.01
44 399 0.86
45 30 0.06
46 3 0.01
47 29 0.06
48 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (44 bp):
TTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAAC
Found at i:87549722 original size:88 final size:88
Alignment explanation
Indices: 87549499--87550106 Score: 624
Period size: 88 Copynumber: 6.9 Consensus size: 88
87549489 TAGCTTGGAT
* * * ** ** * *
87549499 CTACTCCACTGCAACTTCAGTGAGATGAGATTTGT-ATTTACAATCTTTTTCTCTGCAACTTCAG
1 CTACTCCACTGCAACTTCAGGGAGATAAGGTTTGTGGCTT-CAATCTGCTCCACTGCAACTTCAG
* * * **
87549563 GAAAATAAGATTTGCTATCTTCAGT
65 GGAGATAAGATTTG-TAACTTCAAC
* ** ** * *
87549588 CTACTCCACTGCAACTTCAGGGAGATGAGACTAATGGTTTCTATCTGCTCCACTGCAACTTCAGG
1 CTACTCCACTGCAACTTCAGGGAGATAAGGTTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGG
*
87549653 GAGATAAGATTCGTAACTTCAAC
66 GAGATAAGATTTGTAACTTCAAC
* * *
87549676 CTACTCCACTGTAACTTCAGGAAGTTAAGGTTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGG
1 CTACTCCACTGCAACTTCAGGGAGATAAGGTTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGG
* * * ** *
87549741 GAGATACGGTTTATGGCTTCAAT
66 GAGATAAGATTTGTAACTTCAAC
* * *** * * *
87549764 CTACTCCACTGTAACTTCAGGGAGATAAGATTTGTAATTTTAACCTGCTCCACTGCAACTTTAGG
1 CTACTCCACTGCAACTTCAGGGAGATAAGGTTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGG
87549829 GAGATAAGATTTGTAACTTCAAC
66 GAGATAAGATTTGTAACTTCAAC
* * * * * * *
87549852 CTGCTCTATTGCAACTTCAGAGAGATGAGGTTTGTGGCTTCAGTCTACTCCACTGCAACTTCAGG
1 CTACTCCACTGCAACTTCAGGGAGATAAGGTTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGG
*
87549917 GAGATAAGATTTGTAATTTCAAC
66 GAGATAAGATTTGTAACTTCAAC
* * * *
87549940 CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGGCTTCAATCTGCTCCACTACAATTTTAGG
1 CTACTCCACTGCAACTTCAGGGAGATAAGGTTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGG
87550005 GAGATAAGATTTGTAACTTCAAC
66 GAGATAAGATTTGTAACTTCAAC
* * * * * ** * *
87550028 ATGCTCCACTGTAACTTCAAGGAGATAATGTTTGTGGTTTCTTTGATCTACTTCACTGCAACTTC
1 CTACTCCACTGCAACTTCAGGGAGATAAGGTTTGTGG---CTTCAATCTGCTCCACTGCAACTTC
87550093 AGGGAGATAAGATT
63 AGGGAGATAAGATT
87550107 CACCATGAAA
Statistics
Matches: 430, Mismatches: 85, Indels: 6
0.83 0.16 0.01
Matches are distributed among these distances:
88 334 0.78
89 61 0.14
90 3 0.01
91 32 0.07
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.32
Consensus pattern (88 bp):
CTACTCCACTGCAACTTCAGGGAGATAAGGTTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGG
GAGATAAGATTTGTAACTTCAAC
Found at i:87549780 original size:132 final size:132
Alignment explanation
Indices: 87549470--87550055 Score: 620
Period size: 132 Copynumber: 4.4 Consensus size: 132
87549460 CCAATATAAT
* * * * ** * *
87549470 TTCAGGGAGAAGAGACTTGTAGCTTGGATCTACTCCACTGCAACTTCAGTGAGATGAGATTTGT-
1 TTCAGGGAGATGAGATTTATGGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTA
* ** * * * * * ** * *
87549534 ATTTACAATCTTTTTCTCTGCAACTTCAGGAAAATAAGATTTGCTATCTTCAGTCTACTCCACTG
66 ATTT-CAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTG-TGGCTTCAATCTGCTCCACTG
87549599 CAAC
129 CAAC
* * * * * *
87549603 TTCAGGGAGATGAGACTAATGGTTTCTATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGTA
1 TTCAGGGAGATGAGATTTATGGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTA
* * * * *
87549668 ACTTCAACCTACTCCACTGTAACTTCAGGAAGTTAAGGTTTGTGGCTTCAATCTGCTCCACTGCA
66 ATTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGGCTTCAATCTGCTCCACTGCA
87549733 AC
131 AC
* *
87549735 TTCAGGGAGAT-ACGGTTTATGGCTTCAATCTACTCCACTGTAACTTCAGGGAGATAAGATTTGT
1 TTCAGGGAGATGA-GATTTATGGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGT
* * * ** * * *
87549799 AATTTTAACCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGTAACTTCAACCTGCTCTATTGC
65 AATTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGGCTTCAATCTGCTCCACTGC
87549864 AAC
130 AAC
* * * *
87549867 TTCAGAGAGATGAGGTTTGTGGCTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTA
1 TTCAGGGAGATGAGATTTATGGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTA
*
87549932 ATTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGGCTTCAATCTGCTCCACTACA
66 ATTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGGCTTCAATCTGCTCCACTGCA
*
87549997 AT
131 AC
* * * ** * * *
87549999 TTTAGGGAGATAAGATTTGTAACTTCAA-CATGCTCCACTGTAACTTCAAGGAGATAA
1 TTCAGGGAGATGAGATTTATGGCTTCAATC-TACTCCACTGCAACTTCAGGGAGATAA
87550056 TGTTTGTGGT
Statistics
Matches: 379, Mismatches: 70, Indels: 9
0.83 0.15 0.02
Matches are distributed among these distances:
131 2 0.01
132 291 0.77
133 83 0.22
134 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (132 bp):
TTCAGGGAGATGAGATTTATGGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTA
ATTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGGCTTCAATCTGCTCCACTGCA
AC
Found at i:87555913 original size:13 final size:13
Alignment explanation
Indices: 87555895--87555921 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
87555885 ACTATGCTTT
87555895 AAAATTTTCAGGA
1 AAAATTTTCAGGA
87555908 AAAATTTTCAGGA
1 AAAATTTTCAGGA
87555921 A
1 A
87555922 TTCCCTAGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.07, G:0.15, T:0.30
Consensus pattern (13 bp):
AAAATTTTCAGGA
Found at i:87556944 original size:39 final size:39
Alignment explanation
Indices: 87556882--87557009 Score: 184
Period size: 39 Copynumber: 3.3 Consensus size: 39
87556872 GGTCTTTAAC
* * *
87556882 CCGGATATTTTTCCAGCACATAGCCCGCGGACCTCAAGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
* * *
87556921 CCGGATATATTTCTAGCATATAGCCTGCGGATCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
**
87556960 TTGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
87556999 CCGGATATTTT
1 CCGGATATTTT
87557010 CAATCTCATA
Statistics
Matches: 76, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 76 1.00
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (39 bp):
CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
Found at i:87565381 original size:25 final size:24
Alignment explanation
Indices: 87565353--87565420 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 24
87565343 ATAAATGGGG
87565353 TTTAAAATAAGGTATATAAAAT-AA
1 TTTAAAATAA-GTATATAAAATCAA
*
87565377 TTTTAAAATAAGTAATATATAAGTCAA
1 -TTTAAAATAAGT-ATATA-AAATCAA
87565404 TTTAAAATAA-TATATAA
1 TTTAAAATAAGTATATAA
87565421 CAAGTTTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
23 1 0.03
24 7 0.18
25 16 0.41
26 13 0.33
27 2 0.05
ACGTcount: A:0.56, C:0.01, G:0.06, T:0.37
Consensus pattern (24 bp):
TTTAAAATAAGTATATAAAATCAA
Found at i:87565436 original size:20 final size:21
Alignment explanation
Indices: 87565389--87565431 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
87565379 TTAAAATAAG
87565389 TAATATATAAGTCAATTTAAAA
1 TAATATATAAG-CAATTTAAAA
87565411 TAATATATAA-CAAGTTTAAAA
1 TAATATATAAGCAA-TTTAAAA
87565432 CATATAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 3 0.15
21 7 0.35
22 10 0.50
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.35
Consensus pattern (21 bp):
TAATATATAAGCAATTTAAAA
Found at i:87565556 original size:25 final size:24
Alignment explanation
Indices: 87565528--87565582 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 24
87565518 TGAAATACGT
*
87565528 AATATACAATAACTTAAAAATAAAC
1 AATATAAAATAA-TTAAAAATAAAC
**
87565553 AATATAAAATAATTTGAAATAAAC
1 AATATAAAATAATTAAAAATAAAC
87565577 -ATATAA
1 AATATAA
87565583 CAAAACGGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 6 0.22
24 10 0.37
25 11 0.41
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.27
Consensus pattern (24 bp):
AATATAAAATAATTAAAAATAAAC
Found at i:87567608 original size:13 final size:13
Alignment explanation
Indices: 87567590--87567615 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
87567580 GAAGATATGA
87567590 TTTTTATTTTATT
1 TTTTTATTTTATT
87567603 TTTTTATTTTATT
1 TTTTTATTTTATT
87567616 ATTAAATTAT
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:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTATTTTATT
Found at i:87567755 original size:36 final size:33
Alignment explanation
Indices: 87567715--87567786 Score: 99
Period size: 35 Copynumber: 2.1 Consensus size: 33
87567705 ACTTTTGGTA
87567715 TTCCTACTTCAATTTGGAATTGAATTATTTACTCTT
1 TTCCTACTTCAA-TTGGAATTGAATTATTT--TCTT
* *
87567751 TTCCTATTTCCATTGGAATTGAATTATTTTCTT
1 TTCCTACTTCAATTGGAATTGAATTATTTTCTT
87567784 TTC
1 TTC
87567787 TCTTTCAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
33 7 0.21
35 17 0.50
36 10 0.29
ACGTcount: A:0.22, C:0.17, G:0.08, T:0.53
Consensus pattern (33 bp):
TTCCTACTTCAATTGGAATTGAATTATTTTCTT
Found at i:87568240 original size:21 final size:21
Alignment explanation
Indices: 87568199--87568246 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
87568189 ATACTATTAT
*
87568199 TATTTA-TCTATTTATAGTTC
1 TATTTATTATATTTATAGTTC
* *
87568219 TATTTATTATATTTTTATTTC
1 TATTTATTATATTTATAGTTC
87568240 TATTTAT
1 TATTTAT
87568247 ATACTAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67
Consensus pattern (21 bp):
TATTTATTATATTTATAGTTC
Found at i:87568272 original size:35 final size:33
Alignment explanation
Indices: 87568193--87568273 Score: 83
Period size: 35 Copynumber: 2.3 Consensus size: 33
87568183 ATTCTAATAC
*
87568193 TATTATTATTTATCTATTTATAGTTCTATTTATTA
1 TATTATTA-TT-TCTATTTATAGTACTATTTATTA
* *
87568228 TATTTTTATTTCTATTTATA-TACTAATATTATTT
1 TATTATTATTTCTATTTATAGTACT-AT-TTATTA
87568262 TCATTATTATTT
1 T-ATTATTATTT
87568274 TTCTTATATA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
32 3 0.08
33 12 0.31
34 8 0.21
35 16 0.41
ACGTcount: A:0.28, C:0.06, G:0.01, T:0.64
Consensus pattern (33 bp):
TATTATTATTTCTATTTATAGTACTATTTATTA
Found at i:87568486 original size:22 final size:21
Alignment explanation
Indices: 87568446--87568500 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
87568436 TTTTACACAT
* **
87568446 TATATATTTTGAATTGTTTATA
1 TATATATTTTAAAGAGTTT-TA
87568468 TATATATTTTAAAGAGTTTTA
1 TATATATTTTAAAGAGTTTTA
*
87568489 TCTATTATTTTA
1 TATA-TATTTTA
87568501 TCTGGAATGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 5 0.18
22 23 0.82
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.58
Consensus pattern (21 bp):
TATATATTTTAAAGAGTTTTA
Found at i:87568731 original size:28 final size:28
Alignment explanation
Indices: 87568700--87568756 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
87568690 GTCCATGTTT
87568700 TCTTAAATTAAAATGAGACAATATTTTG
1 TCTTAAATTAAAATGAGACAATATTTTG
*
87568728 TCTTAAATTAAAATGAGGCAATATTTTG
1 TCTTAAATTAAAATGAGACAATATTTTG
87568756 T
1 T
87568757 GTTTGGGAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.40
Consensus pattern (28 bp):
TCTTAAATTAAAATGAGACAATATTTTG
Found at i:87570277 original size:20 final size:19
Alignment explanation
Indices: 87570234--87570271 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
87570224 CCGCATATGT
*
87570234 AATTTGTTTTATGTAAAGG
1 AATTTGTTTTATGAAAAGG
87570253 AATTTGTTTTATAGAAAAG
1 AATTTGTTTTAT-GAAAAG
87570272 TTATTTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.37, C:0.00, G:0.18, T:0.45
Consensus pattern (19 bp):
AATTTGTTTTATGAAAAGG
Found at i:87573136 original size:15 final size:14
Alignment explanation
Indices: 87573118--87573171 Score: 58
Period size: 14 Copynumber: 3.8 Consensus size: 14
87573108 AAAAGTAGCG
*
87573118 AAAAAGAAAGAAAC
1 AAAAAAAAAGAAAC
87573132 AAAAAAGAAAGAAA-
1 AAAAAA-AAAGAAAC
87573146 AAACAAAAAA-AAAC
1 AAA-AAAAAAGAAAC
87573160 AACAAAAAAAGA
1 AA-AAAAAAAGA
87573172 TTGTGGAAGG
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
13 3 0.09
14 19 0.56
15 12 0.35
ACGTcount: A:0.83, C:0.07, G:0.09, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAGAAAC
Found at i:87573166 original size:18 final size:18
Alignment explanation
Indices: 87573128--87573166 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
87573118 AAAAAGAAAG
*
87573128 AAACAAAAAAGAAAGAAA
1 AAACAAAAAAGAAACAAA
87573146 AAACAAAAAA-AAACAACA
1 AAACAAAAAAGAAACAA-A
87573164 AAA
1 AAA
87573167 AAAGATTGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.85, C:0.10, G:0.05, T:0.00
Consensus pattern (18 bp):
AAACAAAAAAGAAACAAA
Found at i:87574844 original size:64 final size:65
Alignment explanation
Indices: 87574765--87574893 Score: 206
Period size: 64 Copynumber: 2.0 Consensus size: 65
87574755 CATATAATAA
* * *
87574765 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTT-GACATAAGCAT
1 CACATCTAGTTAGGAGCATTTAATTCATCTCGATCATAGCATCCCAATTATTTGGACATAAGCAT
* *
87574829 CACATCTAGTTAGGAGCATTTAATTCATCTCGATCATAGGATCCCAATTATTTGGGCATAAGCAT
1 CACATCTAGTTAGGAGCATTTAATTCATCTCGATCATAGCATCCCAATTATTTGGACATAAGCAT
87574894 AAATACATGA
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
64 49 0.83
65 10 0.17
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (65 bp):
CACATCTAGTTAGGAGCATTTAATTCATCTCGATCATAGCATCCCAATTATTTGGACATAAGCAT
Found at i:87575196 original size:41 final size:40
Alignment explanation
Indices: 87575150--87575459 Score: 155
Period size: 41 Copynumber: 7.3 Consensus size: 40
87575140 AGCCTTAACC
*
87575150 CCCTAAGGAGTAGGGTAACAGGCTAAAAATACAGATCTTAT
1 CCCTAAGCAGTAGGGTAACAGGCT-AAAATACAGATCTTAT
* * ** * *
87575191 CCCTAAACAGTAGTGG-AACA-GATCGAATACAGGGAGCCTTAACC
1 CCCTAAGCAGTAG-GGTAACAGGCTAAAATACA--GA-TCTT-A-T
87575235 CCCTAAGCAGTAGGGTAACAGGCTGAAAATACAGATCTTAT
1 CCCTAAGCAGTAGGGTAACAGGCT-AAAATACAGATCTTAT
* * ** * * *
87575276 CCCTAAACAGTAGTGG-AACA-GATCGAAGACAGTGAGCCTTAAC
1 CCCTAAGCAGTAG-GGTAACAGGCTAAAATACA--GA-TCTT-AT
87575319 CCCATAAGCAGTAGGGTAACAGGCTAGAAATACAGATCTTAT
1 CCC-TAAGCAGTAGGGTAACAGGCTA-AAATACAGATCTTAT
* * * ** * * *
87575361 CCCTAAACAGTAGTGG-AGCA-GATCGAAGACAGCAAGCCTTAAC
1 CCCTAAGCAGTAG-GGTAACAGGCTAAAATACAG--A-TCTT-AT
*
87575404 CCCTTAAGCAGTAGGGTAACAGGTTGGAAAATACAGATCTTAT
1 CCC-TAAGCAGTAGGGTAACAGGCT--AAAATACAGATCTTAT
*
87575447 CCCTAAACAGTAG
1 CCCTAAGCAGTAG
87575460 TGGAGCAGAT
Statistics
Matches: 197, Mismatches: 44, Indels: 55
0.67 0.15 0.19
Matches are distributed among these distances:
39 17 0.09
40 6 0.03
41 48 0.24
42 29 0.15
43 25 0.13
44 48 0.24
45 7 0.04
46 11 0.06
47 6 0.03
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.19
Consensus pattern (40 bp):
CCCTAAGCAGTAGGGTAACAGGCTAAAATACAGATCTTAT
Found at i:87575476 original size:86 final size:85
Alignment explanation
Indices: 87575139--87575830 Score: 994
Period size: 85 Copynumber: 8.1 Consensus size: 85
87575129 CTGAAGATAC
* *
87575139 GAGCCTTAACCCCCTAAGGAGTAGGGTAACAGGCTAAAAATACAGATCTTATCCCTAAACAGTAG
1 GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATACAGATCTTATCCCTAAACAGTAG
* * *
87575204 TGGAACAGATCGAATACAGG
66 TGGAGCAGATCGAAGACAGT
87575224 GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATACAGATCTTATCCCTAAACAGTAG
1 GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATACAGATCTTATCCCTAAACAGTAG
*
87575289 TGGAACAGATCGAAGACAGT
66 TGGAGCAGATCGAAGACAGT
*
87575309 GAGCCTTAACCCCATAAGCAGTAGGGTAACAGGCT-AGAAATACAGATCTTATCCCTAAACAGTA
1 GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGA-AAATACAGATCTTATCCCTAAACAGTA
*
87575373 GTGGAGCAGATCGAAGACAGC
65 GTGGAGCAGATCGAAGACAGT
* * *
87575394 AAGCCTTAACCCCTTAAGCAGTAGGGTAACAGGTTGGAAAATACAGATCTTATCCCTAAACAGTA
1 GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCT-GAAAATACAGATCTTATCCCTAAACAGTA
*
87575459 GTGGAGCAGATCGAAGACAGC
65 GTGGAGCAGATCGAAGACAGT
* * *
87575480 GAGCCTTAACCCCCAAAGTAGTAGGGTAAAAGGCTAGAAAATACAGATCTTATCCCTAAACAGTA
1 GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCT-GAAAATACAGATCTTATCCCTAAACAGTA
* * *
87575545 GCGGAGTAGATCGAAGACGGT
65 GTGGAGCAGATCGAAGACAGT
* * *
87575566 GAGCCTTAACCCCCTAAGCAATAGGGTAACAGGCAGGAAAATATAGAT-TTATCCCTAAACAGTA
1 GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGC-TGAAAATACAGATCTTATCCCTAAACAGTA
* * *
87575630 GTGGAACAGATCAAAGATAGT
65 GTGGAGCAGATCGAAGACAGT
* *
87575651 GAGCCTTAACCCCCTAAGTAGCAGGGTAACAGGCTGAAAATACAGATCTTATCCCTAAACAGTAG
1 GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATACAGATCTTATCCCTAAACAGTAG
* *
87575716 TGGAGAAGATCGAAAACAGT
66 TGGAGCAGATCGAAGACAGT
* * ** *
87575736 GAGCCTTAACCCCTTAAGCAGTTGGGTAACAGGCTG-AGTTACAGATCTTATCTCCCTAAGCAGT
1 GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATACAGATCTTA--TCCCTAAACAGT
* *
87575800 AGTAGAGCAGATCGAGGACAGT
64 AGTGGAGCAGATCGAAGACAGT
87575822 GAGCCTTAA
1 GAGCCTTAA
87575831 TAGTAGGGTA
Statistics
Matches: 546, Mismatches: 54, Indels: 13
0.89 0.09 0.02
Matches are distributed among these distances:
84 24 0.04
85 319 0.58
86 202 0.37
87 1 0.00
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (85 bp):
GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATACAGATCTTATCCCTAAACAGTAG
TGGAGCAGATCGAAGACAGT
Found at i:87575802 original size:342 final size:341
Alignment explanation
Indices: 87575138--87575830 Score: 1054
Period size: 342 Copynumber: 2.0 Consensus size: 341
87575128 GCTGAAGATA
* *
87575138 CGAGCCTTAACCCCCTAAGGAGTAGGGTAACAGGCTAAAAATACAGATCTTATCCCTAAACAGTA
1 CGAGCCTTAACCCCCAAAGGAGTAGGGTAAAAGGCTAAAAATACAGATCTTATCCCTAAACAGTA
* * * *
87575203 GTGGAACAGATCGAATACAGGGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATACA
66 GCGGAACAGATCGAAGACAGGGAGCCTTAACCCCCTAAGCAATAGGGTAACAGGCGGAAAATACA
* *
87575268 GATCTTATCCCTAAACAGTAGTGGAACAGATCGAAGACAGTGAGCCTTAACCCCATAAGCAGTAG
131 GATCTTATCCCTAAACAGTAGTGGAACAGATCAAAGACAGTGAGCCTTAACCCCATAAGCAGCAG
* *
87575333 GGTAACAGGCTAGAAATACAGATCTTATCCCTAAACAGTAGTGGAGCAGATCGAAGACAGCAAGC
196 GGTAACAGGCTAGAAATACAGATCTTATCCCTAAACAGTAGTGGAGAAGATCGAAAACAGCAAGC
* *
87575398 CTTAACCCCTTAAGCAGTAGGGTAACAGGTTGGAAAATACAGATCTTATCCCTAAACAGTAGTGG
261 CTTAACCCCTTAAGCAGTAGGGTAACAGGCTGGAAAATACAGATCTTATCCCTAAACAGTAGTAG
87575463 AGCAGATCGAAGACAG
326 AGCAGATCGAAGACAG
*
87575479 CGAGCCTTAACCCCCAAAGTAGTAGGGTAAAAGGCTAGAAAATACAGATCTTATCCCTAAACAGT
1 CGAGCCTTAACCCCCAAAGGAGTAGGGTAAAAGGCTA-AAAATACAGATCTTATCCCTAAACAGT
**
87575544 AGCGGAGTAGATCGAAGAC-GGTGAGCCTTAACCCCCTAAGCAATAGGGTAACAGGCAGGAAAAT
65 AGCGGAACAGATCGAAGACAGG-GAGCCTTAACCCCCTAAGCAATAGGGTAACAGGC-GGAAAAT
* * * *
87575608 ATAGAT-TTATCCCTAAACAGTAGTGGAACAGATCAAAGATAGTGAGCCTTAACCCCCTAAGTAG
128 ACAGATCTTATCCCTAAACAGTAGTGGAACAGATCAAAGACAGTGAGCCTTAACCCCATAAGCAG
*
87575672 CAGGGTAACAGGCT-GAAAATACAGATCTTATCCCTAAACAGTAGTGGAGAAGATCGAAAACAGT
193 CAGGGTAACAGGCTAG-AAATACAGATCTTATCCCTAAACAGTAGTGGAGAAGATCGAAAACAGC
* * ** *
87575736 GAGCCTTAACCCCTTAAGCAGTTGGGTAACAGGCT-G-AGTTACAGATCTTATCTCCCTAAGCAG
257 AAGCCTTAACCCCTTAAGCAGTAGGGTAACAGGCTGGAAAATACAGATCTTA--TCCCTAAACAG
*
87575799 TAGTAGAGCAGATCGAGGACAG
320 TAGTAGAGCAGATCGAAGACAG
*
87575821 TGAGCCTTAA
1 CGAGCCTTAA
87575831 TAGTAGGGTA
Statistics
Matches: 319, Mismatches: 27, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
340 12 0.04
341 38 0.12
342 258 0.81
343 11 0.03
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.19
Consensus pattern (341 bp):
CGAGCCTTAACCCCCAAAGGAGTAGGGTAAAAGGCTAAAAATACAGATCTTATCCCTAAACAGTA
GCGGAACAGATCGAAGACAGGGAGCCTTAACCCCCTAAGCAATAGGGTAACAGGCGGAAAATACA
GATCTTATCCCTAAACAGTAGTGGAACAGATCAAAGACAGTGAGCCTTAACCCCATAAGCAGCAG
GGTAACAGGCTAGAAATACAGATCTTATCCCTAAACAGTAGTGGAGAAGATCGAAAACAGCAAGC
CTTAACCCCTTAAGCAGTAGGGTAACAGGCTGGAAAATACAGATCTTATCCCTAAACAGTAGTAG
AGCAGATCGAAGACAG
Found at i:87575911 original size:44 final size:44
Alignment explanation
Indices: 87575842--87575932 Score: 128
Period size: 44 Copynumber: 2.1 Consensus size: 44
87575832 AGTAGGGTAA
* * * * *
87575842 CAGGTTGAAGGTTGCAGATCTTATCTCCCTGAGCAGCAGTGGAG
1 CAGGATGAAGATTACAGATCATATCTCCCTAAGCAGCAGTGGAG
*
87575886 CAGGATGAAGATTACAGATCATATCTCCCTAAGCAGTAGTGGAG
1 CAGGATGAAGATTACAGATCATATCTCCCTAAGCAGCAGTGGAG
87575930 CAG
1 CAG
87575933 ATCGAAACGA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (44 bp):
CAGGATGAAGATTACAGATCATATCTCCCTAAGCAGCAGTGGAG
Found at i:87576901 original size:14 final size:13
Alignment explanation
Indices: 87576884--87576982 Score: 53
Period size: 15 Copynumber: 7.0 Consensus size: 13
87576874 TATTCTAATA
87576884 CTATTATTATTTAT
1 CTATTATTATTT-T
87576898 CTATT-TATATTTCT
1 CTATTAT-TATTT-T
87576912 ACTATTATTATATTT
1 -CTATTATTAT-TTT
87576927 CTATTTATTATATTT
1 CTA-TTATTAT-TTT
87576942 -TATT-TCTATTTATAT
1 CTATTAT-TA-TT-T-T
*
87576957 ACTAATATTATTTT
1 -CTATTATTATTTT
87576971 C-ATTATTATTTT
1 CTATTATTATTTT
87576983 TCTTATATAT
Statistics
Matches: 70, Mismatches: 3, Indels: 26
0.71 0.03 0.26
Matches are distributed among these distances:
12 11 0.16
13 7 0.10
14 19 0.27
15 22 0.31
16 5 0.07
17 5 0.07
18 1 0.01
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (13 bp):
CTATTATTATTTT
Found at i:87576905 original size:29 final size:28
Alignment explanation
Indices: 87576873--87576935 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
87576863 ATTTATTTTG
87576873 TTATTCTAATACTATTATTAT-TTATCTAT
1 TTATT-TAATACTATTATTATATT-TCTAT
**
87576902 TTATATTTCTACTATTATTATATTTCTAT
1 TTAT-TTAATACTATTATTATATTTCTAT
87576931 TTATT
1 TTATT
87576936 ATATTTTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
28 1 0.03
29 26 0.87
30 3 0.10
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.62
Consensus pattern (28 bp):
TTATTTAATACTATTATTATATTTCTAT
Found at i:87576934 original size:15 final size:15
Alignment explanation
Indices: 87576902--87576946 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
87576892 ATTTATCTAT
87576902 TTATATTTCTACTATTA
1 TTATATTTCTA-T-TTA
87576919 TTATATTTCTATTTA
1 TTATATTTCTATTTA
87576934 TTATATTT-TATTT
1 TTATATTTCTATTT
87576947 CTATTTATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.18
15 11 0.39
16 1 0.04
17 11 0.39
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATATTTCTATTTA
Found at i:87576945 original size:20 final size:20
Alignment explanation
Indices: 87576891--87576954 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
87576881 ATACTATTAT
87576891 TATTTATCTAT-TTATATTTC
1 TATTTAT-TATATTATATTTC
*
87576911 TA-CTA-T-TATTATATTTC
1 TATTTATTATATTATATTTC
*
87576928 TATTTATTATATTTTATTTC
1 TATTTATTATATTATATTTC
87576948 TATTTAT
1 TATTTAT
87576955 ATACTAATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
16 1 0.03
17 12 0.32
18 2 0.05
19 3 0.08
20 19 0.51
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.66
Consensus pattern (20 bp):
TATTTATTATATTATATTTC
Found at i:87576956 original size:17 final size:16
Alignment explanation
Indices: 87576902--87576956 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 16
87576892 ATTTATCTAT
*
87576902 TTATATTTCTACTATTA
1 TTATATTTCTA-TTTTA
87576919 TTATATTTCTA-TTTA
1 TTATATTTCTATTTTA
87576934 TTATATTT-TATTTCTA
1 TTATATTTCTATTT-TA
87576950 TTTATAT
1 -TTATAT
87576957 ACTAATATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
14 2 0.06
15 13 0.38
16 2 0.06
17 17 0.50
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.65
Consensus pattern (16 bp):
TTATATTTCTATTTTA
Found at i:87576965 original size:20 final size:20
Alignment explanation
Indices: 87576891--87576965 Score: 61
Period size: 20 Copynumber: 3.9 Consensus size: 20
87576881 ATACTATTAT
*
87576891 TATTTATCTAT-TTATATTTC
1 TATTTAT-TATATAATATTTC
*
87576911 TA-CTATTAT-T-ATATTTC
1 TATTTATTATATAATATTTC
**
87576928 TATTTATTATATTTTATTTC
1 TATTTATTATATAATATTTC
87576948 TATTTA-TATACTAATATT
1 TATTTATTATA-TAATATT
87576966 ATTTTCATTA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
17 9 0.20
18 10 0.22
19 8 0.17
20 19 0.41
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (20 bp):
TATTTATTATATAATATTTC
Found at i:87576969 original size:37 final size:39
Alignment explanation
Indices: 87576881--87576969 Score: 91
Period size: 37 Copynumber: 2.4 Consensus size: 39
87576871 TGTTATTCTA
*
87576881 ATACTATTATTATTTATCTATTTATATTTCTACTATTAT
1 ATACTAATATTATTTATCTATTTATATTTCTACTATTAT
* *
87576920 -TA-T-ATTTCTATTTAT-TATATTTTATTTCTA-T-TTAT
1 ATACTAATAT-TATTTATCTAT-TTATATTTCTACTATTAT
87576955 ATACTAATATTATTT
1 ATACTAATATTATTT
87576970 TCATTATTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
35 4 0.10
36 8 0.20
37 24 0.59
38 5 0.12
ACGTcount: A:0.30, C:0.08, G:0.00, T:0.62
Consensus pattern (39 bp):
ATACTAATATTATTTATCTATTTATATTTCTACTATTAT
Done.