Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 ID=Chr08-JGI_221_v2.0
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: 57128820
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 677448 characters in sequence are not A, C, G, or T
File 98 of 190
Found at i:29602214 original size:17 final size:17
Alignment explanation
Indices: 29602194--29602232 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
29602184 AAAGAGTCTG
*
29602194 CCAAACCCTAGAGTTCA
1 CCAAAACCTAGAGTTCA
* *
29602211 CCAAAACTTGGAGTTCA
1 CCAAAACCTAGAGTTCA
29602228 CCAAA
1 CCAAA
29602233 TGGCGAATCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.38, C:0.31, G:0.13, T:0.18
Consensus pattern (17 bp):
CCAAAACCTAGAGTTCA
Found at i:29603807 original size:5 final size:5
Alignment explanation
Indices: 29603799--29603856 Score: 62
Period size: 5 Copynumber: 11.6 Consensus size: 5
29603789 TATTTTATTT
* * * ** *
29603799 CATTC CATTC CATCC CATTC CATTC CATAC CATTT CATTC CATAG CATTT
1 CATTC CATTC CATTC CATTC CATTC CATTC CATTC CATTC CATTC CATTC
29603849 CATTC CAT
1 CATTC CAT
29603857 CAAGCATTCA
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
5 42 1.00
ACGTcount: A:0.24, C:0.36, G:0.02, T:0.38
Consensus pattern (5 bp):
CATTC
Found at i:29603819 original size:15 final size:15
Alignment explanation
Indices: 29603799--29603856 Score: 80
Period size: 15 Copynumber: 3.9 Consensus size: 15
29603789 TATTTTATTT
*
29603799 CATTCCATTCCATCC
1 CATTCCATTCCATAC
29603814 CATTCCATTCCATAC
1 CATTCCATTCCATAC
* *
29603829 CATTTCATTCCATAG
1 CATTCCATTCCATAC
*
29603844 CATTTCATTCCAT
1 CATTCCATTCCAT
29603857 CAAGCATTCA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 40 1.00
ACGTcount: A:0.24, C:0.36, G:0.02, T:0.38
Consensus pattern (15 bp):
CATTCCATTCCATAC
Found at i:29606712 original size:6 final size:6
Alignment explanation
Indices: 29606701--29606804 Score: 199
Period size: 6 Copynumber: 17.3 Consensus size: 6
29606691 GGTCGCAACC
29606701 TTTCCT TTTCCT TTTCCT TTTCCT TTTCCT TTTCCT TTTCCT TTTCCT
1 TTTCCT TTTCCT TTTCCT TTTCCT TTTCCT TTTCCT TTTCCT TTTCCT
*
29606749 TTTCCT TTTCCT TTTCCT TTTCCT TTTCTT TTTCCT TTTCCT TTTCCT
1 TTTCCT TTTCCT TTTCCT TTTCCT TTTCCT TTTCCT TTTCCT TTTCCT
29606797 TTTCCT TT
1 TTTCCT TT
29606805 ACATCGTTGC
Statistics
Matches: 96, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 96 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTCCT
Found at i:29609194 original size:12 final size:12
Alignment explanation
Indices: 29609177--29609202 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
29609167 TAAACATTTC
29609177 AAATCATATTAA
1 AAATCATATTAA
29609189 AAATCATATTAA
1 AAATCATATTAA
29609201 AA
1 AA
29609203 CCAATCCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (12 bp):
AAATCATATTAA
Found at i:29621047 original size:16 final size:17
Alignment explanation
Indices: 29621018--29621057 Score: 66
Period size: 16 Copynumber: 2.5 Consensus size: 17
29621008 AATATTGAAA
29621018 TTTTT-TTATAATTATT
1 TTTTTCTTATAATTATT
29621034 TTTTTCTTAT-ATTATT
1 TTTTTCTTATAATTATT
29621050 TTTTTCTT
1 TTTTTCTT
29621058 TGACCAACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 19 0.83
17 4 0.17
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTTCTTATAATTATT
Found at i:29622902 original size:45 final size:45
Alignment explanation
Indices: 29622851--29622941 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 45
29622841 AATCAGATAA
*
29622851 TCTCTTCTATGTTTACTATCCCAGTGGACTATTTCTATTCTATGT
1 TCTCTTCTATATTTACTATCCCAGTGGACTATTTCTATTCTATGT
* *
29622896 TCTCTTCTGTATTTACTATCCCAGTGGATTATTTCTATTCTATGT
1 TCTCTTCTATATTTACTATCCCAGTGGACTATTTCTATTCTATGT
29622941 T
1 T
29622942 TACTATCCCA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.18, C:0.21, G:0.11, T:0.51
Consensus pattern (45 bp):
TCTCTTCTATATTTACTATCCCAGTGGACTATTTCTATTCTATGT
Found at i:29622944 original size:33 final size:33
Alignment explanation
Indices: 29622907--29622985 Score: 106
Period size: 33 Copynumber: 2.4 Consensus size: 33
29622897 CTCTTCTGTA
* *
29622907 TTTACTATCCCAGTGGAT-TATTTCTATTCTATG
1 TTTACTATCCCAAT-GATCTATCTCTATTCTATG
*
29622940 TTTACTATCCCAATGATCTATCTCTGTTCTATG
1 TTTACTATCCCAATGATCTATCTCTATTCTATG
*
29622973 TTTACTGTCCCAA
1 TTTACTATCCCAA
29622986 CAGACTATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
32 3 0.07
33 38 0.93
ACGTcount: A:0.22, C:0.23, G:0.10, T:0.46
Consensus pattern (33 bp):
TTTACTATCCCAATGATCTATCTCTATTCTATG
Found at i:29623496 original size:14 final size:15
Alignment explanation
Indices: 29623462--29623500 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
29623452 GGTTTATATA
29623462 ATAATAAAATAAAAG
1 ATAATAAAATAAAAG
* *
29623477 ATAATAACATAAAGG
1 ATAATAAAATAAAAG
29623492 A-AATAAAAT
1 ATAATAAAAT
29623501 TTCAAAAGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.69, C:0.03, G:0.08, T:0.21
Consensus pattern (15 bp):
ATAATAAAATAAAAG
Found at i:29626064 original size:26 final size:27
Alignment explanation
Indices: 29626008--29626082 Score: 73
Period size: 26 Copynumber: 2.8 Consensus size: 27
29625998 ACTTTCAATG
* * * *
29626008 GGTAAAATGATCGAAATACCCCCATAG
1 GGTAAATTGACCGAAATACCCTCATAA
*
29626035 GGTAGAA-T-ACCGAAATACCCTCGTAA
1 GGTA-AATTGACCGAAATACCCTCATAA
*
29626061 GGTAAATTGACCGTAATACCCT
1 GGTAAATTGACCGAAATACCCT
29626083 TTTCAGGTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
25 2 0.05
26 19 0.47
27 17 0.43
28 2 0.05
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (27 bp):
GGTAAATTGACCGAAATACCCTCATAA
Found at i:29626240 original size:27 final size:27
Alignment explanation
Indices: 29626007--29626241 Score: 217
Period size: 27 Copynumber: 8.7 Consensus size: 27
29625997 TACTTTCAAT
* * * **
29626007 GGGTAAAATGATCGAAATACCCCCATA
1 GGGTAAAATGACCGTAATGCCCCTGTA
* * *
29626034 GGGTAGAAT-ACCGAAAT-ACCCTCGTA
1 GGGTAAAATGACCGTAATGCCCCT-GTA
* * * * *
29626060 AGGTAAATTGACCGTAATACCCTTTTCA
1 GGGTAAAATGACCGTAATGCCCCTGT-A
** *
29626088 -GGTAAAATGACTATAATACCCCTGTCA
1 GGGTAAAATGACCGTAATGCCCCTGT-A
29626115 -GGTAAAATGACCGTAATGCCCCTGTA
1 GGGTAAAATGACCGTAATGCCCCTGTA
* *
29626141 GGGTAAAATGATCGTAATGCCCATGTA
1 GGGTAAAATGACCGTAATGCCCCTGTA
* *
29626168 GGGTAAAATAACCGTAATGCCCCTATA
1 GGGTAAAATGACCGTAATGCCCCTGTA
*
29626195 GGGTAAAATGACCGTAATGCCCCTATA
1 GGGTAAAATGACCGTAATGCCCCTGTA
*
29626222 GGGTAAAATGACCATAATGC
1 GGGTAAAATGACCGTAATGC
29626242 AGTTGTGGTA
Statistics
Matches: 175, Mismatches: 28, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
25 3 0.02
26 16 0.09
27 152 0.87
28 4 0.02
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.23
Consensus pattern (27 bp):
GGGTAAAATGACCGTAATGCCCCTGTA
Found at i:29626571 original size:32 final size:32
Alignment explanation
Indices: 29626530--29626712 Score: 174
Period size: 32 Copynumber: 5.7 Consensus size: 32
29626520 TGCTGCGATG
* *
29626530 TACTGATGGCTTTGTGCCGATCACAGTACAAT
1 TACTGATGGCTTTGTGCCGATCATAGTACAGT
* * * *
29626562 TACTGATGGCTTTGTACTGATTATAGTACCGT
1 TACTGATGGCTTTGTGCCGATCATAGTACAGT
* * *
29626594 TACTGATGGCTTTGTACTGATCATAGTACCGT
1 TACTGATGGCTTTGTGCCGATCATAGTACAGT
* * * *
29626626 TACTGATGGCTGTGTGCTGATCAT-TTCACTGT
1 TACTGATGGCTTTGTGCCGATCATAGT-ACAGT
* *
29626658 TACTGATGG-TTGTGTGCCGATCATA-TCACTGC
1 TACTGATGGCTT-TGTGCCGATCATAGT-ACAGT
*
29626690 TACTGATGGCTTTGTGCCAATCA
1 TACTGATGGCTTTGTGCCGATCA
29626713 CATTACTGTA
Statistics
Matches: 132, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
31 2 0.02
32 128 0.97
33 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.37
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATAGTACAGT
Found at i:29626631 original size:64 final size:64
Alignment explanation
Indices: 29626530--29626704 Score: 194
Period size: 64 Copynumber: 2.7 Consensus size: 64
29626520 TGCTGCGATG
* * *
29626530 TACTGATGGCTTTGTGCCGATCACAGTACAATTACTGATGGCTTTGTACTGATTATAGT-ACCGT
1 TACTGATGGCTTTGTGCCGATCATAGTACAGTTACTGATGGCTTTGTACTGATCAT-GTCACCGT
* * * * * * *
29626594 TACTGATGGCTTTGTACTGATCATAGTACCGTTACTGATGGCTGTGTGCTGATCATTTCACTGT
1 TACTGATGGCTTTGTGCCGATCATAGTACAGTTACTGATGGCTTTGTACTGATCATGTCACCGT
* *
29626658 TACTGATGG-TTGTGTGCCGATCATA-TCACTGCTACTGATGGCTTTGT
1 TACTGATGGCTT-TGTGCCGATCATAGT-ACAGTTACTGATGGCTTTGT
29626705 GCCAATCACA
Statistics
Matches: 93, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
63 4 0.04
64 89 0.96
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (64 bp):
TACTGATGGCTTTGTGCCGATCATAGTACAGTTACTGATGGCTTTGTACTGATCATGTCACCGT
Found at i:29626721 original size:64 final size:65
Alignment explanation
Indices: 29626592--29626734 Score: 152
Period size: 64 Copynumber: 2.2 Consensus size: 65
29626582 TTATAGTACC
* * ** *
29626592 GTTACTGATGGCTT-TGTACTGATCATAGTACCGTTACTGATGGCTGTGTGCTGATCATTTCACT
1 GTTACTGATGGCTTGTGTACCGATCATAGTACCGCTACTGATGGCTGTGTGCCAATCAATTCACT
* * *
29626656 GTTACTGATGG-TTGTGTGCCGATCATA-TCACTGCTACTGATGGCTTTGTGCCAATCACATT-A
1 GTTACTGATGGCTTGTGTACCGATCATAGT-ACCGCTACTGATGGCTGTGTGCCAATCA-ATTCA
29626718 CT
64 CT
*
29626720 G-TACTTATGGCTTGT
1 GTTACTGATGGCTTGT
29626735 AGCCATTCTG
Statistics
Matches: 66, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
63 11 0.17
64 53 0.80
65 2 0.03
ACGTcount: A:0.19, C:0.20, G:0.23, T:0.38
Consensus pattern (65 bp):
GTTACTGATGGCTTGTGTACCGATCATAGTACCGCTACTGATGGCTGTGTGCCAATCAATTCACT
Found at i:29626731 original size:31 final size:33
Alignment explanation
Indices: 29626626--29626734 Score: 109
Period size: 32 Copynumber: 3.4 Consensus size: 33
29626616 ATAGTACCGT
** ** *
29626626 TACTGATGGC-TGTGTGCTGATCATTTCACTGT
1 TACTGATGGCTTGTGTGCCAATCACATCACTGC
* *
29626658 TACTGATGG-TTGTGTGCCGATCATATCACTGC
1 TACTGATGGCTTGTGTGCCAATCACATCACTGC
*
29626690 TACTGATGGCTT-TGTGCCAATCACATTACTG-
1 TACTGATGGCTTGTGTGCCAATCACATCACTGC
*
29626721 TACTTATGGCTTGT
1 TACTGATGGCTTGT
29626735 AGCCATTCTG
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
31 11 0.16
32 54 0.81
33 2 0.03
ACGTcount: A:0.18, C:0.20, G:0.23, T:0.39
Consensus pattern (33 bp):
TACTGATGGCTTGTGTGCCAATCACATCACTGC
Found at i:29626749 original size:22 final size:22
Alignment explanation
Indices: 29626724--29626788 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 22
29626714 ATTACTGTAC
*
29626724 TTATGGCTTGTAGCCATTCTGT
1 TTATGGCTTATAGCCATTCTGT
* * * *
29626746 TTATAGCTTATAACTATCCTGT
1 TTATGGCTTATAGCCATTCTGT
* *
29626768 TTACGGCTTTTAGCCATTCTG
1 TTATGGCTTATAGCCATTCTG
29626789 ACTATTGGTA
Statistics
Matches: 32, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.18, C:0.20, G:0.17, T:0.45
Consensus pattern (22 bp):
TTATGGCTTATAGCCATTCTGT
Found at i:29637555 original size:11 final size:11
Alignment explanation
Indices: 29637541--29637590 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
29637531 AGATAAATAT
29637541 TATTTTATTAA
1 TATTTTATTAA
*
29637552 TATTTTACTAA
1 TATTTTATTAA
* *
29637563 TATTTAATGAGA
1 TATTTTATTA-A
*
29637575 TATTTTATTAT
1 TATTTTATTAA
29637586 TATTT
1 TATTT
29637591 ATTTAGTATA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
11 22 0.71
12 9 0.29
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:29643123 original size:26 final size:26
Alignment explanation
Indices: 29643094--29643144 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
29643084 CGGAGAGCAG
*
29643094 TTAAACAGGATGCTCACAAAGAGCCT
1 TTAAACAGGAAGCTCACAAAGAGCCT
* * *
29643120 TTAATCGGGAAGCTCACGAAGAGCC
1 TTAAACAGGAAGCTCACAAAGAGCC
29643145 ATATAATGGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.18
Consensus pattern (26 bp):
TTAAACAGGAAGCTCACAAAGAGCCT
Found at i:29643155 original size:26 final size:26
Alignment explanation
Indices: 29643105--29643161 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
29643095 TAAACAGGAT
*
29643105 GCTCACAAAGAGCCTTTAATCGGGAA
1 GCTCACAAAGAGCCTATAATCGGGAA
* *
29643131 GCTCACGAAGAGCCATATAAT-GGGAC
1 GCTCACAAAGAGCC-TATAATCGGGAA
29643157 GCTCA
1 GCTCA
29643162 TAAGAGGTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 22 0.81
27 5 0.19
ACGTcount: A:0.33, C:0.25, G:0.25, T:0.18
Consensus pattern (26 bp):
GCTCACAAAGAGCCTATAATCGGGAA
Found at i:29655739 original size:17 final size:17
Alignment explanation
Indices: 29655719--29655755 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
29655709 AATTTTTGAA
29655719 TTAGTGAATTCTGTGAT
1 TTAGTGAATTCTGTGAT
*
29655736 TTAGTGAATTTTGTGAT
1 TTAGTGAATTCTGTGAT
29655753 TTA
1 TTA
29655756 AAAAGAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.24, C:0.03, G:0.22, T:0.51
Consensus pattern (17 bp):
TTAGTGAATTCTGTGAT
Found at i:29657028 original size:46 final size:46
Alignment explanation
Indices: 29656975--29657160 Score: 300
Period size: 46 Copynumber: 4.0 Consensus size: 46
29656965 CCATGGAAAA
* * *
29656975 TTGTGAAAATTAGGTATGATGTTTCAGTGAAGAAAGCCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
*
29657021 TTGTGAAAAGTAGGTATGGTGTTTCAATGAAGAAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
* *
29657067 TTGTGAAAAGTAGGTATGGTGTTTTAGTGAAGAAAACTATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
* *
29657113 TTGTGAAAAGTAGGTATGGTATTTCAGTGAAGGAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
29657159 TT
1 TT
29657161 ATAGCATTGT
Statistics
Matches: 129, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 129 1.00
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.31
Consensus pattern (46 bp):
TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
Found at i:29657611 original size:47 final size:50
Alignment explanation
Indices: 29657540--29657650 Score: 131
Period size: 47 Copynumber: 2.3 Consensus size: 50
29657530 CATGGCAATA
*
29657540 TGTGATATGTGATTTCTATATAAGACCAT-ATCCGGGATATGGCATC-G-G
1 TGTGATATATGATTTCTATATAAGACCATGA-CCGGGATATGGCATCGGTG
* * * * *
29657588 TGTGATATATGCTTTC-ATGTAAGACCATGACTGGGCTATGGCTTCGGTG
1 TGTGATATATGATTTCTATATAAGACCATGACCGGGATATGGCATCGGTG
29657637 TGTGATATATGATT
1 TGTGATATATGATT
29657651 ATGTACAAGA
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
47 23 0.43
48 16 0.30
49 14 0.26
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.36
Consensus pattern (50 bp):
TGTGATATATGATTTCTATATAAGACCATGACCGGGATATGGCATCGGTG
Found at i:29661445 original size:2 final size:2
Alignment explanation
Indices: 29661438--29661463 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
29661428 TCAAATCCAC
29661438 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
29661464 TCATCATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:29661585 original size:48 final size:48
Alignment explanation
Indices: 29661524--29661679 Score: 141
Period size: 48 Copynumber: 3.2 Consensus size: 48
29661514 AAAATAGATT
* *
29661524 TCTCGGTGGCCTACACACAGTCCATACCACCTTTGTGTAATAACAGAA
1 TCTCGGTGGCCTACACACAGTCCATACCACCCTTGTATAATAACAGAA
* * * **
29661572 TCTCGGTGGCCTACACAAAGTCCGTGCCACCCTTGTATCTTAACAGAA
1 TCTCGGTGGCCTACACACAGTCCATACCACCCTTGTATAATAACAGAA
* * * * ** * * **
29661620 TATTGGTGGCCTGCAAACAGTCTGTGCCACCCTTATATCTTAACAGAA
1 TCTCGGTGGCCTACACACAGTCCATACCACCCTTGTATAATAACAGAA
* *
29661668 TATTGGTGGCCT
1 TCTCGGTGGCCT
29661680 GCACTTAGTC
Statistics
Matches: 94, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 94 1.00
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.28
Consensus pattern (48 bp):
TCTCGGTGGCCTACACACAGTCCATACCACCCTTGTATAATAACAGAA
Found at i:29661690 original size:48 final size:48
Alignment explanation
Indices: 29661564--29661692 Score: 179
Period size: 48 Copynumber: 2.7 Consensus size: 48
29661554 CTTTGTGTAA
* * * * *
29661564 TAACAGAATCTCGGTGGCCTACACAAAGTCCGTGCCACCCTTGTATCT
1 TAACAGAATATTGGTGGCCTGCACAAAGTCTGTGCCACCCTTATATCT
29661612 TAACAGAATATTGGTGGCCTGCA-AACAGTCTGTGCCACCCTTATATCT
1 TAACAGAATATTGGTGGCCTGCACAA-AGTCTGTGCCACCCTTATATCT
**
29661660 TAACAGAATATTGGTGGCCTGCACTTAGTCTGT
1 TAACAGAATATTGGTGGCCTGCACAAAGTCTGT
29661693 ACTACACGTG
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
47 2 0.03
48 70 0.97
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.29
Consensus pattern (48 bp):
TAACAGAATATTGGTGGCCTGCACAAAGTCTGTGCCACCCTTATATCT
Found at i:29675221 original size:12 final size:12
Alignment explanation
Indices: 29675203--29675237 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
29675193 TTGAAGGCAT
29675203 CAAAACTCCATA
1 CAAAACTCCATA
* *
29675215 TAAAACTCCAAA
1 CAAAACTCCATA
29675227 CAAAACTCCAT
1 CAAAACTCCAT
29675238 TTCTAATCCC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.51, C:0.31, G:0.00, T:0.17
Consensus pattern (12 bp):
CAAAACTCCATA
Found at i:29678209 original size:14 final size:14
Alignment explanation
Indices: 29678189--29678221 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
29678179 ACAACTAAAA
29678189 CTTTTTTTTC-TTT
1 CTTTTTTTTCTTTT
29678202 CTTTTTTTTCTTTT
1 CTTTTTTTTCTTTT
29678216 CTTTTT
1 CTTTTT
29678222 AAAACAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (14 bp):
CTTTTTTTTCTTTT
Found at i:29678400 original size:33 final size:33
Alignment explanation
Indices: 29678358--29678423 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
29678348 GCAAACACGA
29678358 CTACAACTAACTCAAGATCATGTGTCGGATAAT
1 CTACAACTAACTCAAGATCATGTGTCGGATAAT
*
29678391 CTACAACTAACTCAAGATCATGTGTTGGATAAT
1 CTACAACTAACTCAAGATCATGTGTCGGATAAT
29678424 TTCTTTCATG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (33 bp):
CTACAACTAACTCAAGATCATGTGTCGGATAAT
Found at i:29682947 original size:46 final size:46
Alignment explanation
Indices: 29682815--29682982 Score: 151
Period size: 46 Copynumber: 3.7 Consensus size: 46
29682805 TTAATATTCA
* *
29682815 TGTATTCTCGAGTTCACAACATATGAAGGAACTCGGAACCTAATCC
1 TGTATTCTCGAGTTCACAACATATGCAGGAACTCGAAACCTAATCC
* * ** * * *
29682861 CGTACTCTTTAGTCCACAACATATGCAAGAGCTC-AGAACCTAATCC
1 TGTATTCTCGAGTTCACAACATATGCAGGAACTCGA-AACCTAATCC
* * * *
29682907 TGTATTCTCGAG-TCTGCAACATATGCAGGATCTCGAAACCTATTCT
1 TGTATTCTCGAGTTC-ACAACATATGCAGGAACTCGAAACCTAATCC
* * * *
29682953 TGTATTCTTGGGTTCGCAACATATGTAGGA
1 TGTATTCTCGAGTTCACAACATATGCAGGA
29682983 GCTTAGAACC
Statistics
Matches: 96, Mismatches: 22, Indels: 8
0.76 0.17 0.06
Matches are distributed among these distances:
45 1 0.01
46 92 0.96
47 3 0.03
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (46 bp):
TGTATTCTCGAGTTCACAACATATGCAGGAACTCGAAACCTAATCC
Found at i:29682975 original size:92 final size:92
Alignment explanation
Indices: 29682815--29682993 Score: 207
Period size: 92 Copynumber: 1.9 Consensus size: 92
29682805 TTAATATTCA
* *
29682815 TGTATTCTCGAGTTCACAACATATGAAGGAACTCGGAACCTAATCCCGTACTCTTTAGTCCACAA
1 TGTATTCTCGAGTTCACAACATATGAAGGAACTCGAAACCTAATCCCGTACTCTTGAGTCCACAA
29682880 CATATGCAAGAGCTCAGAACCTAATCC
66 CATATGCAAGAGCTCAGAACCTAATCC
* * * * ** * * * *
29682907 TGTATTCTCGAG-TCTGCAACATATGCAGGATCTCGAAACCTATTCTTGTATTCTTGGGTTCGCA
1 TGTATTCTCGAGTTC-ACAACATATGAAGGAACTCGAAACCTAATCCCGTACTCTTGAGTCCACA
* * *
29682971 ACATATGTAGGAGCTTAGAACCT
65 ACATATGCAAGAGCTCAGAACCT
29682994 GGGCAAACTC
Statistics
Matches: 71, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
91 2 0.03
92 69 0.97
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (92 bp):
TGTATTCTCGAGTTCACAACATATGAAGGAACTCGAAACCTAATCCCGTACTCTTGAGTCCACAA
CATATGCAAGAGCTCAGAACCTAATCC
Found at i:29694289 original size:19 final size:18
Alignment explanation
Indices: 29694236--29694301 Score: 62
Period size: 19 Copynumber: 3.5 Consensus size: 18
29694226 GCAAAGTTGA
29694236 GAAATGAATATGAGATGA-
1 GAAATGAATATGA-ATGAT
29694254 GAAATGAAATATGGAATGAT
1 GAAATG-AATAT-GAATGAT
* **
29694274 GAAATGAGATGTGAATCTT
1 GAAATGA-ATATGAATGAT
29694293 GAAATGAAT
1 GAAATGAAT
29694302 TCAAGTATTG
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
18 8 0.20
19 22 0.54
20 11 0.27
ACGTcount: A:0.47, C:0.02, G:0.26, T:0.26
Consensus pattern (18 bp):
GAAATGAATATGAATGAT
Found at i:29713857 original size:51 final size:49
Alignment explanation
Indices: 29713799--29713985 Score: 232
Period size: 51 Copynumber: 3.7 Consensus size: 49
29713789 TCGGTTCACA
*
29713799 TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATCCG-TACACG
* * * *
29713850 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAACTATCCCGTACACA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCAT-CCGTACACG
* * * *
29713901 TAGTAGCCTGTACATAGTACTACACATGCGACC-TATCATTCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATACCA-TCC-GTACACG
29713951 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
29713986 CATTTTCACT
Statistics
Matches: 115, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
49 4 0.03
50 38 0.33
51 68 0.59
52 5 0.04
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.24
Consensus pattern (49 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATACCATCCGTACACG
Found at i:29713975 original size:101 final size:101
Alignment explanation
Indices: 29713795--29713981 Score: 313
Period size: 101 Copynumber: 1.8 Consensus size: 101
29713785 ATGTTCGGTT
*
29713795 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCGATACACGTAGTAGCCTG
1 CACATAGTAGCCTGCACATAGTACTACACATGCGACCA-TACCATCCGATACACGTAGTAGCCTG
29713860 CACATAGTACTACACACGTGATCGAAACTATCCCGTA
65 CACATAGTACTACACACGTGATCGAAACTATCCCGTA
* * *
29713897 CACATAGTAGCCTGTACATAGTACTACACATGCGACC-TATCATTCCGGTACACGTAGTAGCCTG
1 CACATAGTAGCCTGCACATAGTACTACACATGCGACCATACCA-TCCGATACACGTAGTAGCCTG
29713961 CACATAGTACTACACACGTGA
65 CACATAGTACTACACACGTGA
29713982 CCATCATTTT
Statistics
Matches: 80, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
100 4 0.05
101 41 0.51
102 35 0.44
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.23
Consensus pattern (101 bp):
CACATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATCCGATACACGTAGTAGCCTGC
ACATAGTACTACACACGTGATCGAAACTATCCCGTA
Found at i:29717363 original size:2 final size:2
Alignment explanation
Indices: 29717356--29717384 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
29717346 CAATCTTCAA
29717356 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
29717385 CATCAATAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:29726084 original size:33 final size:33
Alignment explanation
Indices: 29726020--29726086 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
29726010 AAGTAGAGAG
* *
29726020 ACTAAATTCTTGAAAATAAAAGTATAGGGACTA
1 ACTAAATTCTTGAAAATAAAAATACAGGGACTA
* *
29726053 ACTAAATT-TTTAAAAGTAAAAATACATGGACTA
1 ACTAAATTCTTGAAAA-TAAAAATACAGGGACTA
29726086 A
1 A
29726087 ATTCTAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 6 0.21
33 23 0.79
ACGTcount: A:0.51, C:0.09, G:0.12, T:0.28
Consensus pattern (33 bp):
ACTAAATTCTTGAAAATAAAAATACAGGGACTA
Found at i:29726360 original size:14 final size:14
Alignment explanation
Indices: 29726322--29726360 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
29726312 AATAATTTAT
29726322 TATATGATTAAATA
1 TATATGATTAAATA
* *
29726336 TAAATAATTAAATA
1 TATATGATTAAATA
*
29726350 TATATGTTTAA
1 TATATGATTAA
29726361 TAATATTTAA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (14 bp):
TATATGATTAAATA
Found at i:29726401 original size:28 final size:28
Alignment explanation
Indices: 29726333--29726401 Score: 69
Period size: 28 Copynumber: 2.6 Consensus size: 28
29726323 ATATGATTAA
*
29726333 ATATAAATA-ATTAAA-TATATATGTTT
1 ATATTAATATATTAAATTATATATGTTT
29726359 A-A-TAATAT-TTAAAATTATAATAT-TTT
1 ATATTAATATATT-AAATTAT-ATATGTTT
29726385 ATATTAATATATTAAAT
1 ATATTAATATATTAAAT
29726402 ATTTTAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
24 6 0.17
25 4 0.11
26 8 0.23
27 5 0.14
28 10 0.29
29 2 0.06
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (28 bp):
ATATTAATATATTAAATTATATATGTTT
Found at i:29729122 original size:43 final size:43
Alignment explanation
Indices: 29729066--29729204 Score: 226
Period size: 43 Copynumber: 3.3 Consensus size: 43
29729056 TTACTTTTGT
* *
29729066 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGTGCTTTTTCCAC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTTCCAC
* *
29729109 AAACGCCGTTAAAGATCATGTTCTTTAGCGGCACTTTTTCCAC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTTCCAC
*
29729152 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGC-TTTTACAC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTTCCAC
29729194 AAACGCCGCTA
1 AAACGCCGCTA
29729205 TTTTGTTTGT
Statistics
Matches: 89, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
42 18 0.20
43 71 0.80
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (43 bp):
AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTTCCAC
Found at i:29729569 original size:21 final size:21
Alignment explanation
Indices: 29729545--29729593 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
29729535 TCTGCTCTGC
*
29729545 TCTGCTTCCCTCGCTGCAGCA
1 TCTGCTTCCCTCGATGCAGCA
* *
29729566 TCTGCTTCTCTCGATGCCGCA
1 TCTGCTTCCCTCGATGCAGCA
29729587 TCTGCTT
1 TCTGCTT
29729594 TAAGTTGTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.08, C:0.39, G:0.18, T:0.35
Consensus pattern (21 bp):
TCTGCTTCCCTCGATGCAGCA
Found at i:29729671 original size:87 final size:87
Alignment explanation
Indices: 29729544--29729720 Score: 273
Period size: 87 Copynumber: 2.0 Consensus size: 87
29729534 TTCTGCTCTG
* *
29729544 CTCTGCTTCCCTCGCTGCAGCATCTGCTTCTCTCGATGCCGCATCTGCTTTAAGTTGTAGCTGGA
1 CTCTACTTCCCTCGCTGCAGCATCTGCTTCCCTCGATGCCGCATCTGCTTTAAGTTGTAGCTGGA
*
29729609 GTTCTTCATATTTCTTTTAAAC
66 GTTCTTCATATTTCCTTTAAAC
* * ** *
29729631 CTCTACTTCTCTCGCTGCAGCCTCTGCTTCCCTCTCTGCCGCCTCTGCTTTAAGTTGTAGCTGGA
1 CTCTACTTCCCTCGCTGCAGCATCTGCTTCCCTCGATGCCGCATCTGCTTTAAGTTGTAGCTGGA
*
29729696 GTTCTTCATATTTCCTTTGAAC
66 GTTCTTCATATTTCCTTTAAAC
29729718 CTC
1 CTC
29729721 AACTGTGGTC
Statistics
Matches: 81, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
87 81 1.00
ACGTcount: A:0.13, C:0.32, G:0.16, T:0.39
Consensus pattern (87 bp):
CTCTACTTCCCTCGCTGCAGCATCTGCTTCCCTCGATGCCGCATCTGCTTTAAGTTGTAGCTGGA
GTTCTTCATATTTCCTTTAAAC
Found at i:29729677 original size:21 final size:21
Alignment explanation
Indices: 29729630--29729680 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
29729620 TTCTTTTAAA
* *
29729630 CCTCTACTTCTCTCGCTGCAG
1 CCTCTGCTTCCCTCGCTGCAG
* *
29729651 CCTCTGCTTCCCTCTCTGCCG
1 CCTCTGCTTCCCTCGCTGCAG
29729672 CCTCTGCTT
1 CCTCTGCTT
29729681 TAAGTTGTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.04, C:0.47, G:0.14, T:0.35
Consensus pattern (21 bp):
CCTCTGCTTCCCTCGCTGCAG
Found at i:29731519 original size:19 final size:19
Alignment explanation
Indices: 29731483--29731520 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
29731473 GGAAAGGGCA
* *
29731483 AAGTTATGTATTATGAAAT
1 AAGTTATGTAATACGAAAT
29731502 AAGTTATGTAATACGAAAT
1 AAGTTATGTAATACGAAAT
29731521 TTTATCTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.45, C:0.03, G:0.16, T:0.37
Consensus pattern (19 bp):
AAGTTATGTAATACGAAAT
Found at i:29731583 original size:37 final size:37
Alignment explanation
Indices: 29731542--29731783 Score: 247
Period size: 37 Copynumber: 6.6 Consensus size: 37
29731532 ATTATATAAC
29731542 TTATCTTAATATTATATAAGTTATGTAATTAGAAATT
1 TTATCTTAATATTATATAAGTTATGTAATTAGAAATT
29731579 TTATCTTAATA-T-TAT---TTATGTAATTAGAAATT
1 TTATCTTAATATTATATAAGTTATGTAATTAGAAATT
29731611 TTATCTTAATATTATATAAGTTATGTAATTAGAAATT
1 TTATCTTAATATTATATAAGTTATGTAATTAGAAATT
* *
29731648 TTATCTTAATATTATATAAGTTATGTAATATTATATAA-G
1 TTATCTTAATATTATATAAGTTATGT-A-ATTAGA-AATT
* * * * * *
29731687 TTAT-GT-A-ATTAGA-AATTTTATCTTAATATTATATAA-G
1 TTATCTTAATATTATATAA-GTTAT-GT-A-ATTAGA-AATT
*
29731724 TTAT-GTAATATTATATAAGTTATGTAATTAGAAATT
1 TTATCTTAATATTATATAAGTTATGTAATTAGAAATT
29731760 TTATCTTAATATTATATAAGTTAT
1 TTATCTTAATATTATATAAGTTAT
29731784 CTTAATATTA
Statistics
Matches: 178, Mismatches: 12, Indels: 30
0.81 0.05 0.14
Matches are distributed among these distances:
32 28 0.16
33 1 0.01
34 3 0.02
35 7 0.04
36 19 0.11
37 94 0.53
38 4 0.02
39 18 0.10
40 4 0.02
ACGTcount: A:0.40, C:0.02, G:0.08, T:0.50
Consensus pattern (37 bp):
TTATCTTAATATTATATAAGTTATGTAATTAGAAATT
Found at i:29731684 original size:56 final size:56
Alignment explanation
Indices: 29731617--29731804 Score: 358
Period size: 56 Copynumber: 3.3 Consensus size: 56
29731607 AATTTTATCT
29731617 TAATATTATATAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATG
1 TAATATTATATAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATG
29731673 TAATATTATATAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATG
1 TAATATTATATAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATG
*
29731729 TAATATTATATAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCT
1 TAATATTATATAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTAT-G
29731786 TAATATTATATAAGTTATG
1 TAATATTATATAAGTTATG
29731805 AAGTGTCCTG
Statistics
Matches: 130, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
56 111 0.85
57 19 0.15
ACGTcount: A:0.41, C:0.02, G:0.09, T:0.48
Consensus pattern (56 bp):
TAATATTATATAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATG
Found at i:29731888 original size:16 final size:16
Alignment explanation
Indices: 29731867--29731945 Score: 59
Period size: 16 Copynumber: 4.7 Consensus size: 16
29731857 TTACTTAAGC
*
29731867 TATGTAAGTTATATAT
1 TATGTAAGTTATAAAT
*
29731883 TATGTAAGTTACATAAAA
1 TATGTAAGTT--ATAAAT
** * *
29731901 TACATAAATTATGAAAGC
1 TATGTAAGTTAT-AAA-T
*
29731919 TATGTAAGTTATATAT
1 TATGTAAGTTATAAAT
29731935 TATGTAAGTTA
1 TATGTAAGTTA
29731946 CATAAAATAC
Statistics
Matches: 48, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
16 23 0.48
17 5 0.10
18 20 0.42
ACGTcount: A:0.43, C:0.04, G:0.13, T:0.41
Consensus pattern (16 bp):
TATGTAAGTTATAAAT
Found at i:29731911 original size:27 final size:27
Alignment explanation
Indices: 29731881--29731965 Score: 93
Period size: 27 Copynumber: 3.2 Consensus size: 27
29731871 TAAGTTATAT
29731881 ATTATGTAAGTTACATAAAATACATAA
1 ATTATGTAAGTTACATAAAATACATAA
* * ** * * *
29731908 ATTATGAAAGCTATGT-AAGT-TATAT
1 ATTATGTAAGTTACATAAAATACATAA
29731933 ATTATGTAAGTTACATAAAATACATAA
1 ATTATGTAAGTTACATAAAATACATAA
29731960 ATTATG
1 ATTATG
29731966 AAATCTGATC
Statistics
Matches: 42, Mismatches: 14, Indels: 4
0.70 0.23 0.07
Matches are distributed among these distances:
25 15 0.36
26 6 0.14
27 21 0.50
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.36
Consensus pattern (27 bp):
ATTATGTAAGTTACATAAAATACATAA
Found at i:29731941 original size:52 final size:52
Alignment explanation
Indices: 29731863--29731968 Score: 212
Period size: 52 Copynumber: 2.0 Consensus size: 52
29731853 ACTGTTACTT
29731863 AAGCTATGTAAGTTATATATTATGTAAGTTACATAAAATACATAAATTATGA
1 AAGCTATGTAAGTTATATATTATGTAAGTTACATAAAATACATAAATTATGA
29731915 AAGCTATGTAAGTTATATATTATGTAAGTTACATAAAATACATAAATTATGA
1 AAGCTATGTAAGTTATATATTATGTAAGTTACATAAAATACATAAATTATGA
29731967 AA
1 AA
29731969 TCTGATCGTA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.36
Consensus pattern (52 bp):
AAGCTATGTAAGTTATATATTATGTAAGTTACATAAAATACATAAATTATGA
Found at i:29732193 original size:30 final size:30
Alignment explanation
Indices: 29732148--29732236 Score: 81
Period size: 30 Copynumber: 3.0 Consensus size: 30
29732138 ATGTTTAACT
* *
29732148 AAATTTTTGTAAGTTATCTAAAATTAAACA
1 AAATTGTTGAAAGTTATCTAAAATTAAACA
* ** * *
29732178 AAATATGTT-AAAGTTATGTAAGTTTTAACT
1 AAAT-TGTTGAAAGTTATCTAAAATTAAACA
* *
29732208 AAATTTTTGTAAGTTATCTAAAATTAAAC
1 AAATTGTTGAAAGTTATCTAAAATTAAAC
29732237 TTAAAAATAA
Statistics
Matches: 44, Mismatches: 13, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
29 3 0.07
30 38 0.86
31 3 0.07
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.42
Consensus pattern (30 bp):
AAATTGTTGAAAGTTATCTAAAATTAAACA
Found at i:29734552 original size:19 final size:19
Alignment explanation
Indices: 29734528--29734564 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
29734518 GGACTACGTT
*
29734528 GGGGAACTGTTAGGGATTA
1 GGGGAAATGTTAGGGATTA
*
29734547 GGGGAAATTTTAGGGATT
1 GGGGAAATGTTAGGGATT
29734565 TGGGAGAGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.27, C:0.03, G:0.41, T:0.30
Consensus pattern (19 bp):
GGGGAAATGTTAGGGATTA
Found at i:29735603 original size:7 final size:7
Alignment explanation
Indices: 29735591--29735701 Score: 80
Period size: 7 Copynumber: 15.9 Consensus size: 7
29735581 CCCCAAATTT
29735591 CCAAACC
1 CCAAACC
29735598 CCAAACC
1 CCAAACC
*
29735605 CCTAACC
1 CCAAACC
* *
29735612 CTAAACA
1 CCAAACC
*
29735619 CTAAACC
1 CCAAACC
*
29735626 CTAAACC
1 CCAAACC
* *
29735633 CTAAACT
1 CCAAACC
* *
29735640 CAAAAAC
1 CCAAACC
*
29735647 CCAAATC
1 CCAAACC
*
29735654 CTAAACC
1 CCAAACC
29735661 CCAAACC
1 CCAAACC
29735668 CCAAACC
1 CCAAACC
*
29735675 CCTAACC
1 CCAAACC
*
29735682 CCGAAA-A
1 CC-AAACC
*
29735689 CTAAACC
1 CCAAACC
29735696 CCAAAC
1 CCAAAC
29735702 TCAAAAACCA
Statistics
Matches: 82, Mismatches: 20, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
6 3 0.04
7 77 0.94
8 2 0.02
ACGTcount: A:0.45, C:0.45, G:0.01, T:0.09
Consensus pattern (7 bp):
CCAAACC
Found at i:29735617 original size:21 final size:21
Alignment explanation
Indices: 29735593--29735683 Score: 94
Period size: 21 Copynumber: 4.3 Consensus size: 21
29735583 CCAAATTTCC
*
29735593 AAACCCCAAACCCCTAACCCT
1 AAACCCCAAACCCCAAACCCT
* * *
29735614 AAACACTAAACCCTAAACCCT
1 AAACCCCAAACCCCAAACCCT
* * * *
29735635 AAACTCAAAAACCCAAATCCT
1 AAACCCCAAACCCCAAACCCT
29735656 AAACCCCAAACCCCAAACCCCT
1 AAACCCCAAACCCCAAA-CCCT
29735678 -AACCCC
1 AAACCCC
29735684 GAAAACTAAA
Statistics
Matches: 56, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
21 53 0.95
22 3 0.05
ACGTcount: A:0.44, C:0.46, G:0.00, T:0.10
Consensus pattern (21 bp):
AAACCCCAAACCCCAAACCCT
Found at i:29736826 original size:114 final size:113
Alignment explanation
Indices: 29736648--29736979 Score: 393
Period size: 114 Copynumber: 2.9 Consensus size: 113
29736638 ATGGCCGGAT
* * * * * *
29736648 CATTAGCGGCGCTTTTCACAAAACGCCGCTAAAGGCCCCAAAACACAGAAAGCGACGTCGTTGGC
1 CATTAGCGGCGCTTTTCAAAAAACGCCGC-AAAGGGCCAAAAACTCAGAAAACGGCGTCGTTGGC
* * *
29736713 CTTAGGTTTTTTTGTGGTGCTTTTCAGAAAACGCCGCTAAAG-ACAAGAG
65 CTTAGG-TTTTTTGCGGCGCTTTTCAGAAATCGCCGCTAAAGCACAAGAG
* *
29736762 CATTAGCGGCGCTTTTCAAAAAATGCCGCAACAGGGACAAAAACTCAGAAAACGGCGTCGTTGGC
1 CATTAGCGGCGCTTTTCAAAAAACGCCGCAA-AGGGCCAAAAACTCAGAAAACGGCGTCGTTGGC
* * **
29736827 CTTAGGTTTTTTGCGGCGCTTTTTAGAAATCGCCGCT-AAGTCCCCCGAG
65 CTTAGGTTTTTTGCGGCGCTTTTCAGAAATCGCCGCTAAAG-CACAAGAG
* * *
29736876 CATTAGCGGCG-TTTTTAGAAAAACGCCGC-TAGAGGCCAAAATACTCAGAAAATGGCGTCGTTG
1 CATTAGCGGCGCTTTTCA-AAAAACGCCGCAAAG-GGCCAAAA-ACTCAGAAAACGGCGTCGTTG
* *
29736939 GCCTTATGTTTTTTGCGGCGCTTTTCATAAATCGCCGCTAA
63 GCCTTAGGTTTTTTGCGGCGCTTTTCAGAAATCGCCGCTAA
29736980 TGCTTATTAT
Statistics
Matches: 188, Mismatches: 23, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
112 5 0.03
113 41 0.22
114 141 0.75
115 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (113 bp):
CATTAGCGGCGCTTTTCAAAAAACGCCGCAAAGGGCCAAAAACTCAGAAAACGGCGTCGTTGGCC
TTAGGTTTTTTGCGGCGCTTTTCAGAAATCGCCGCTAAAGCACAAGAG
Found at i:29739421 original size:16 final size:16
Alignment explanation
Indices: 29739400--29739432 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
29739390 TTCGCTGTAT
29739400 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
29739416 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
29739432 T
1 T
29739433 AGCAAATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.36, T:0.21
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:29743737 original size:23 final size:24
Alignment explanation
Indices: 29743701--29743749 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
29743691 TCAAGTGTTT
*
29743701 AATTAGGTGTGATTTTTGCGAAAA
1 AATTAAGTGTGATTTTTGCGAAAA
**
29743725 AATTAAGT-TGATTTTTTTGAAAA
1 AATTAAGTGTGATTTTTGCGAAAA
29743748 AA
1 AA
29743750 ATCAAAAACT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.39, C:0.02, G:0.18, T:0.41
Consensus pattern (24 bp):
AATTAAGTGTGATTTTTGCGAAAA
Found at i:29751664 original size:41 final size:40
Alignment explanation
Indices: 29751608--29751694 Score: 129
Period size: 41 Copynumber: 2.1 Consensus size: 40
29751598 AGACAAATTA
* *
29751608 AAAGCCTGAGCATTAGCGGCTCTTTTTAAAAAACGCCGCT
1 AAAGCCTGAGCATTAGCGGCGCTTTTTAAAAAACACCGCT
* *
29751648 AAAGCCTTGAGCATTAGCGGCGCTTTTTCAAAAACACCTCT
1 AAAGCC-TGAGCATTAGCGGCGCTTTTTAAAAAACACCGCT
29751689 AAAGCC
1 AAAGCC
29751695 CCAAAAGGTC
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 6 0.14
41 36 0.86
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.24
Consensus pattern (40 bp):
AAAGCCTGAGCATTAGCGGCGCTTTTTAAAAAACACCGCT
Found at i:29772048 original size:26 final size:26
Alignment explanation
Indices: 29772018--29772069 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
29772008 TACACAAATG
29772018 AGTCTTAATGATGTTCCTATCTTCTT
1 AGTCTTAATGATGTTCCTATCTTCTT
29772044 AGTCTTAATGATGTTCCTATCTTCTT
1 AGTCTTAATGATGTTCCTATCTTCTT
29772070 TAAGTAGAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.19, C:0.19, G:0.12, T:0.50
Consensus pattern (26 bp):
AGTCTTAATGATGTTCCTATCTTCTT
Found at i:29772661 original size:27 final size:27
Alignment explanation
Indices: 29772623--29772724 Score: 125
Period size: 27 Copynumber: 3.8 Consensus size: 27
29772613 CACGACAGCG
* *
29772623 AAGAATAGCCTTTGTGGCAAATTCTGA
1 AAGAATAACCTTTGTGGCAAACTCTGA
**
29772650 AAGAATAACCTTTGTGGTGAACTCTGA
1 AAGAATAACCTTTGTGGCAAACTCTGA
*
29772677 AAGAATAACCTTAGTGGCAAACTCTGA
1 AAGAATAACCTTTGTGGCAAACTCTGA
* *
29772704 AACGGAT-GCCTTTGTGGCAAA
1 AA-GAATAACCTTTGTGGCAAA
29772725 TTATGAATGG
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
27 61 0.95
28 3 0.05
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (27 bp):
AAGAATAACCTTTGTGGCAAACTCTGA
Found at i:29772731 original size:27 final size:27
Alignment explanation
Indices: 29772685--29772755 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
29772675 GAAAGAATAA
*
29772685 CCTTAGTGGCAAACTCTGAAACGGA-TG
1 CCTTAGTGGCAAACTATG-AACGGATTG
* * *
29772712 CCTTTGTGGCAAATTATGAATGGATTG
1 CCTTAGTGGCAAACTATGAACGGATTG
*
29772739 CCTTAGTGGCATACTAT
1 CCTTAGTGGCAAACTAT
29772756 ATCTGATTGA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 5 0.14
27 31 0.86
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (27 bp):
CCTTAGTGGCAAACTATGAACGGATTG
Found at i:29778890 original size:3 final size:3
Alignment explanation
Indices: 29778875--29778937 Score: 83
Period size: 3 Copynumber: 20.7 Consensus size: 3
29778865 CAGTCTCTTA
*
29778875 TCT TCT CTCT TCT TCT TCT TTT TCT TCT TCT TCT TCT TCT TCT T-T
1 TCT TCT -TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
*
29778920 ATCT TCA TCT TCT TCT TC
1 -TCT TCT TCT TCT TCT TC
29778938 AGTTATTAGT
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
2 1 0.02
3 48 0.91
4 4 0.08
ACGTcount: A:0.03, C:0.32, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:29783064 original size:26 final size:28
Alignment explanation
Indices: 29783030--29783084 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
29783020 AAACTCTTCT
*
29783030 AAAAG-AAAACT-TAAGAGAAATTCTTA
1 AAAAGAAAAACTCAAAGAGAAATTCTTA
*
29783056 AAAAGAAAAACTCAAAGAGAATTTCTTA
1 AAAAGAAAAACTCAAAGAGAAATTCTTA
29783084 A
1 A
29783085 CTTAAAAGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 5 0.20
27 6 0.24
28 14 0.56
ACGTcount: A:0.58, C:0.09, G:0.11, T:0.22
Consensus pattern (28 bp):
AAAAGAAAAACTCAAAGAGAAATTCTTA
Found at i:29788778 original size:434 final size:434
Alignment explanation
Indices: 29788053--29788928 Score: 1339
Period size: 434 Copynumber: 2.0 Consensus size: 434
29788043 TCAAGCTTTT
* * * *
29788053 ACTTATGTAACATCCAAAAATATCAGGGGTTAGTAGAATCGGGTTTGTGAATCAAGAGAGAGTGG
1 ACTTTTGTAACATCCAAAAATATCAGGGGTCAGTAGAATCGGATTTGTGAATCAAGAAAGAGTGG
* * * * *
29788118 TCATGCCTTAATTTTTTAGTTTATTTATGCATTTTTAGGAAATAAATGAGGTTGGTTTGTTGGTT
66 TCATGCCTTAATTTTTTAGATTATCTATGCATTTTTAAGAAATAAAAGAGGTTGATTTGTTGGTT
* *
29788183 AAGTATTAGTAAAACGTTTCTTGAAACCCAAGTTCAAATCCCTTGTCTCGCATCATTTTTATTAT
131 AAGTATTAGTAAAACGTTTCTTAAAACCCAAGTTCAAATCCCTTCTCTCGCATCATTTTTATTAT
* * *
29788248 TTTGAAAATTTTTCCTTAAAGCCTAGTATGTGACATGCCTTATTTTTAAAATAAATATTGCAAAA
196 TTTGAAAATTTTTCCTTAAACCCTAGTATGTGACATGCCTTATCTTTAAAATAAATATTGAAAAA
29788313 TTATTTCAAGAATGAGGAAAAAGCCTAATGGTTAAAAGAAATATGAGAAAGCATGGAAATTAAAT
261 TTATTTCAAGAATGAGGAAAAAGCCTAATGGTTAAAAGAAATATGAGAAAGCATGGAAATTAAAT
* **
29788378 GAGGTCCCAAGTTTGAATCCTTTCCTTTGTGAAATAATTAAAATTTT-CAAAATCCC-TTG-TTT
326 GAGGTCCCAAGTTTGAATCCTTTCCCTTGCAAAATAATT-AAATTTTGCAAAA-CCCTTTGTTTT
* * *
29788440 TTAATTTGTGTGTCATCCATACCTTTGAAATCTAAGTATAAATACA
389 TTAATGTGTGTGTCATCCATACCCTTGAAACCTAAGTATAAATACA
* * * *
29788486 ACTTTTGTAACATCCCAAAA-ATCGGGGGTCAGTAGAATCGGATTTGTGAATCGAGAAAGAGTTG
1 ACTTTTGTAACATCCAAAAATATCAGGGGTCAGTAGAATCGGATTTGTGAATCAAGAAAGAGTGG
* *
29788550 TCATGCGTTAATTTTTTAGATTATCTATGCATTTTTAAGAAATAAAAGAGGTATTGATTTTTTGG
66 TCATGCCTTAATTTTTTAGATTATCTATGCATTTTTAAGAAATAAAAGAGG--TTGATTTGTTGG
* * *
29788615 TTAAGTGTTAGTGAAACGTTTCTTAAAACCCAAGTTCAAATCCCTTCTCTCGCATGATTTTTATT
129 TTAAGTATTAGTAAAACGTTTCTTAAAACCCAAGTTCAAATCCCTTCTCTCGCATCATTTTTATT
* *
29788680 ATTTTGCAAATTTTGT-CTTAAACCCTAGTATGTGACATGTCTTATCTTTAAAATAAATATTGAA
194 ATTTTGAAAATTTT-TCCTTAAACCCTAGTATGTGACATGCCTTATCTTTAAAATAAATATTGAA
* *
29788744 AAATTATTTCAAGAATGAGGAAAAATCCTAATGGTTAAAAGAAATATGAGAAAGTATGGAAATTA
258 AAATTATTTCAAGAATGAGGAAAAAGCCTAATGGTTAAAAGAAATATGAGAAAGCATGGAAATTA
29788809 AATGAGGTCCCAAGTTTGAATCCTTTCCCTTGCAAAATAATTAAATTTTGCAAAACCCTTTTGTT
323 AATGAGGTCCCAAGTTTGAATCCTTTCCCTTGCAAAATAATTAAATTTTGCAAAACCC-TTTG-T
*
29788874 TTTTTAATGTGTGTGTCATCCATACCCTTGAACCCTAAGTATAAATACA
386 TTTTTAATGTGTGTGTCATCCATACCCTTGAAACCTAAGTATAAATACA
*
29788923 AATTTT
1 ACTTTT
29788929 TATTTTATTT
Statistics
Matches: 400, Mismatches: 35, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
432 84 0.21
433 28 0.07
434 234 0.58
435 4 0.01
437 50 0.12
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (434 bp):
ACTTTTGTAACATCCAAAAATATCAGGGGTCAGTAGAATCGGATTTGTGAATCAAGAAAGAGTGG
TCATGCCTTAATTTTTTAGATTATCTATGCATTTTTAAGAAATAAAAGAGGTTGATTTGTTGGTT
AAGTATTAGTAAAACGTTTCTTAAAACCCAAGTTCAAATCCCTTCTCTCGCATCATTTTTATTAT
TTTGAAAATTTTTCCTTAAACCCTAGTATGTGACATGCCTTATCTTTAAAATAAATATTGAAAAA
TTATTTCAAGAATGAGGAAAAAGCCTAATGGTTAAAAGAAATATGAGAAAGCATGGAAATTAAAT
GAGGTCCCAAGTTTGAATCCTTTCCCTTGCAAAATAATTAAATTTTGCAAAACCCTTTGTTTTTT
AATGTGTGTGTCATCCATACCCTTGAAACCTAAGTATAAATACA
Found at i:29806295 original size:4 final size:4
Alignment explanation
Indices: 29806286--29806327 Score: 84
Period size: 4 Copynumber: 10.5 Consensus size: 4
29806276 GGATAAGTTT
29806286 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
29806328 GAATAATTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:29810120 original size:28 final size:28
Alignment explanation
Indices: 29810088--29810151 Score: 128
Period size: 28 Copynumber: 2.3 Consensus size: 28
29810078 AAAACACATC
29810088 ACTTTTCTACTTCAATAAGAACACCCAA
1 ACTTTTCTACTTCAATAAGAACACCCAA
29810116 ACTTTTCTACTTCAATAAGAACACCCAA
1 ACTTTTCTACTTCAATAAGAACACCCAA
29810144 ACTTTTCT
1 ACTTTTCT
29810152 GGAAAAATCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.36, C:0.28, G:0.03, T:0.33
Consensus pattern (28 bp):
ACTTTTCTACTTCAATAAGAACACCCAA
Found at i:29812874 original size:27 final size:27
Alignment explanation
Indices: 29812844--29813013 Score: 188
Period size: 27 Copynumber: 6.3 Consensus size: 27
29812834 TAAATGATAA
*
29812844 AAATACCCCCATAGGGTAAAATAACTG
1 AAATACCCCCATAGGGTAAAATGACTG
**
29812871 AAATACCCTTA-ATGGGTAAAATGA-TCG
1 AAATACCCCCATA-GGGTAAAATGACT-G
29812898 AAATACCCCCATAGGGTAAAATGA-TCG
1 AAATACCCCCATAGGGTAAAATGACT-G
*
29812925 AAATACCCTCATAGGGTAAAATGACTG
1 AAATACCCCCATAGGGTAAAATGACTG
*** * *
29812952 AAATACCATTATAGGGTAAAATAACCG
1 AAATACCCCCATAGGGTAAAATGACTG
29812979 AAATA-CCCCATAGGGTAAAATGACTG
1 AAATACCCCCATAGGGTAAAATGACTG
29813005 ATAA-ACCCC
1 A-AATACCCC
29813014 TAGGAGATGA
Statistics
Matches: 122, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
26 20 0.16
27 100 0.82
28 2 0.02
ACGTcount: A:0.43, C:0.20, G:0.16, T:0.21
Consensus pattern (27 bp):
AAATACCCCCATAGGGTAAAATGACTG
Found at i:29812970 original size:81 final size:80
Alignment explanation
Indices: 29812835--29813001 Score: 246
Period size: 81 Copynumber: 2.1 Consensus size: 80
29812825 AGAGGTCAAT
* * *
29812835 AAATGATAAAAATACCCCCATAGGGTAAAATAACTGAAATACCCTTAATGGGTAAAATGATCGAA
1 AAATGATAAAAATACCCCCATAGGGTAAAATAACTGAAATACCATTAATGGGTAAAATAACCGAA
29812900 ATACCCCCATAGGGTA
66 ATA-CCCCATAGGGTA
** * *
29812916 AAATGATCGAAATACCCTCATAGGGTAAAATGACTGAAATACCATT-ATAGGGTAAAATAACCGA
1 AAATGATAAAAATACCCCCATAGGGTAAAATAACTGAAATACCATTAAT-GGGTAAAATAACCGA
29812980 AATACCCCATAGGGTA
65 AATACCCCATAGGGTA
29812996 AAATGA
1 AAATGA
29813002 CTGATAAACC
Statistics
Matches: 78, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
80 20 0.26
81 58 0.74
ACGTcount: A:0.45, C:0.17, G:0.17, T:0.21
Consensus pattern (80 bp):
AAATGATAAAAATACCCCCATAGGGTAAAATAACTGAAATACCATTAATGGGTAAAATAACCGAA
ATACCCCATAGGGTA
Found at i:29813198 original size:26 final size:26
Alignment explanation
Indices: 29813168--29813236 Score: 120
Period size: 26 Copynumber: 2.7 Consensus size: 26
29813158 GGAAGTATAT
29813168 TGTTACTGGCAGCTTTGTTGCGATAC
1 TGTTACTGGCAGCTTTGTTGCGATAC
*
29813194 TGTTATTGGCAGCTTTGTTGCGATAC
1 TGTTACTGGCAGCTTTGTTGCGATAC
*
29813220 TATTACTGGCAGCTTTG
1 TGTTACTGGCAGCTTTG
29813237 CTACAGTATT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.16, C:0.17, G:0.26, T:0.41
Consensus pattern (26 bp):
TGTTACTGGCAGCTTTGTTGCGATAC
Found at i:29813417 original size:33 final size:28
Alignment explanation
Indices: 29813355--29813412 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
29813345 GTACTGATTT
29813355 TGTATTGGGCTAAGGCCCACACTGTTAC
1 TGTATTGGGCTAAGGCCCACACTGTTAC
*
29813383 TGTATTGGGCTAAGGCCCACATTG-TAC
1 TGTATTGGGCTAAGGCCCACACTGTTAC
29813410 TGT
1 TGT
29813413 TACTGAATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 6 0.21
28 23 0.79
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.31
Consensus pattern (28 bp):
TGTATTGGGCTAAGGCCCACACTGTTAC
Found at i:29819569 original size:17 final size:17
Alignment explanation
Indices: 29819547--29819579 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
29819537 CACTAACATT
29819547 AAAATGCAATGACAATA
1 AAAATGCAATGACAATA
*
29819564 AAAATGTAATGACAAT
1 AAAATGCAATGACAAT
29819580 GTGCACAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.09, G:0.12, T:0.21
Consensus pattern (17 bp):
AAAATGCAATGACAATA
Found at i:29821811 original size:15 final size:15
Alignment explanation
Indices: 29821793--29821836 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
29821783 ATAAACAAAA
29821793 ATAAAATAAAATTAC
1 ATAAAATAAAATTAC
*
29821808 ATAATAAT-AAATTCC
1 ATAA-AATAAAATTAC
29821823 ATAAAATTAAAATT
1 ATAAAA-TAAAATT
29821837 TTTCGACCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 2 0.08
15 15 0.60
16 8 0.32
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (15 bp):
ATAAAATAAAATTAC
Found at i:29827378 original size:17 final size:16
Alignment explanation
Indices: 29827347--29827380 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
29827337 AAATATTATG
29827347 AAATAAAAACAAACAA
1 AAATAAAAACAAACAA
*
29827363 AAATAAACATCAAACAA
1 AAATAAA-AACAAACAA
29827380 A
1 A
29827381 CACCATCCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.76, C:0.15, G:0.00, T:0.09
Consensus pattern (16 bp):
AAATAAAAACAAACAA
Found at i:29832041 original size:25 final size:25
Alignment explanation
Indices: 29832013--29832060 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
29832003 ATTCAAGAAA
29832013 AAAAAAGAAAGAAAAGAAA-ATGAAC
1 AAAAAA-AAAGAAAAGAAATATGAAC
* *
29832038 AAAAAAATAGCAAAGAAATATGA
1 AAAAAAAAAGAAAAGAAATATGA
29832061 TGAAAATAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.73, C:0.04, G:0.15, T:0.08
Consensus pattern (25 bp):
AAAAAAAAAGAAAAGAAATATGAAC
Found at i:29833971 original size:32 final size:31
Alignment explanation
Indices: 29833926--29834021 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
29833916 CTTAGATAAT
29833926 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
29833957 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
29833989 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
29834020 TT
1 TT
29834022 GTAATTTCCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:29834604 original size:19 final size:19
Alignment explanation
Indices: 29834579--29834625 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
29834569 TAAAAGCAAA
*
29834579 AAAAAAACAACAAAAA-CAGC
1 AAAAAAA-AGCAAAAAGC-GC
29834599 AAAAAAAAGCAAAAAGCGC
1 AAAAAAAAGCAAAAAGCGC
29834618 AAAAAAAA
1 AAAAAAAA
29834626 AGTTGCCTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.77, C:0.15, G:0.09, T:0.00
Consensus pattern (19 bp):
AAAAAAAAGCAAAAAGCGC
Found at i:29837275 original size:2 final size:2
Alignment explanation
Indices: 29837270--29837297 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
29837260 TGTGTATGTG
29837270 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
29837298 AAGAAATCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:29837429 original size:28 final size:29
Alignment explanation
Indices: 29837397--29837458 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 29
29837387 AACTAACAGG
29837397 AGTACAACTTGGT-A-AAAAAAATAGTTTA
1 AGTACAACTTGGTGACAAAAAAAT-GTTTA
* *
29837425 AGTACCACTTTGTGACAAAAAAATGTTTA
1 AGTACAACTTGGTGACAAAAAAATGTTTA
*
29837454 GGTAC
1 AGTAC
29837459 TAAAATGAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 11 0.38
29 10 0.34
30 8 0.28
ACGTcount: A:0.44, C:0.11, G:0.16, T:0.29
Consensus pattern (29 bp):
AGTACAACTTGGTGACAAAAAAATGTTTA
Found at i:29837873 original size:16 final size:16
Alignment explanation
Indices: 29837852--29837882 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
29837842 ATTGGGTTGA
*
29837852 GAAAATTATTTAATTG
1 GAAAATTAATTAATTG
29837868 GAAAATTAATTAATT
1 GAAAATTAATTAATT
29837883 TAAATTAAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (16 bp):
GAAAATTAATTAATTG
Found at i:29839398 original size:43 final size:43
Alignment explanation
Indices: 29839294--29839412 Score: 124
Period size: 40 Copynumber: 2.8 Consensus size: 43
29839284 ACATAGGATT
* **
29839294 TCGATATGTT-ATTACGTGTAAGACCATGTCTGGGACATCGGTG
1 TCGATAT-TTGATTACGTGTAAGACCCTGTCTGGGACATCGGCA
*
29839337 TC-ATA--TGATTTCGTGTAAGACCCTGTCTGGGACAGT-GGCA
1 TCGATATTTGATTACGTGTAAGACCCTGTCTGGGACA-TCGGCA
*
29839377 TCGATATTTGATTACATGTAAGACCAC-GTCTGGGAC
1 TCGATATTTGATTACGTGTAAGACC-CTGTCTGGGAC
29839413 GTTAGCATTG
Statistics
Matches: 64, Mismatches: 6, Indels: 12
0.78 0.07 0.15
Matches are distributed among these distances:
39 1 0.02
40 29 0.45
41 4 0.06
42 3 0.05
43 26 0.41
44 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.31
Consensus pattern (43 bp):
TCGATATTTGATTACGTGTAAGACCCTGTCTGGGACATCGGCA
Found at i:29852290 original size:18 final size:17
Alignment explanation
Indices: 29852260--29852295 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
29852250 AACCTACACC
29852260 TTTCCCTTTCTTTCTCT
1 TTTCCCTTTCTTTCTCT
*
29852277 TTTCCCTCTTCTTTTTCT
1 TTTCCCT-TTCTTTCTCT
29852295 T
1 T
29852296 CACCCATCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTCCCTTTCTTTCTCT
Found at i:29855568 original size:29 final size:29
Alignment explanation
Indices: 29855535--29855598 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
29855525 GGGTAGATTG
* *
29855535 AAAGATTGAATAATTGAAGTTGGCTGGAT
1 AAAGATTGAAGAATTGAAATTGGCTGGAT
* *
29855564 AAAGATTGAAGATTTGAAATTGGTTGGAT
1 AAAGATTGAAGAATTGAAATTGGCTGGAT
29855593 AAAGAT
1 AAAGAT
29855599 CAAATTATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.41, C:0.02, G:0.27, T:0.31
Consensus pattern (29 bp):
AAAGATTGAAGAATTGAAATTGGCTGGAT
Found at i:29855654 original size:13 final size:14
Alignment explanation
Indices: 29855636--29855664 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
29855626 TCTGTAATTA
29855636 TTTTAAA-TTTGAT
1 TTTTAAATTTTGAT
29855649 TTTTAAATTTTGAT
1 TTTTAAATTTTGAT
29855663 TT
1 TT
29855665 ATCTAGTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTTAAATTTTGAT
Found at i:29857938 original size:19 final size:19
Alignment explanation
Indices: 29857900--29857938 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
29857890 GGTTTTTATC
*
29857900 TTATTAGGGTTAGAGTTTT
1 TTATTAGGGTTAGAGGTTT
29857919 TTATTAGGGTTTAG-GGTTT
1 TTATTAGGG-TTAGAGGTTT
29857938 T
1 T
29857939 AATGAAGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.18, C:0.00, G:0.28, T:0.54
Consensus pattern (19 bp):
TTATTAGGGTTAGAGGTTT
Found at i:29863600 original size:19 final size:19
Alignment explanation
Indices: 29863576--29863613 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
29863566 CCATGCGCAC
29863576 ATGCAATTGCCACATATGG
1 ATGCAATTGCCACATATGG
29863595 ATGCAATTGCCACATATGG
1 ATGCAATTGCCACATATGG
29863614 GAACATATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (19 bp):
ATGCAATTGCCACATATGG
Found at i:29867146 original size:10 final size:10
Alignment explanation
Indices: 29867124--29867171 Score: 55
Period size: 10 Copynumber: 5.0 Consensus size: 10
29867114 TATTAAAAAC
29867124 GAGAGAG-TT
1 GAGAGAGTTT
29867133 GAGAGAGTTT
1 GAGAGAGTTT
*
29867143 GAGAGAATTT
1 GAGAGAGTTT
*
29867153 GAGAGA-ATT
1 GAGAGAGTTT
*
29867162 GAGAAAGTTT
1 GAGAGAGTTT
29867172 AGATAAGGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
9 14 0.42
10 19 0.58
ACGTcount: A:0.38, C:0.00, G:0.35, T:0.27
Consensus pattern (10 bp):
GAGAGAGTTT
Found at i:29869624 original size:30 final size:32
Alignment explanation
Indices: 29869562--29869624 Score: 76
Period size: 30 Copynumber: 2.0 Consensus size: 32
29869552 TGTAACTTTT
* *
29869562 TATATGTAATTATTTTTTTTTTTAAATCTATA
1 TATATGTAATTATTTTTTTATGTAAATCTATA
* *
29869594 TATATGT-A-TATTTTTTTATGTACATTTATA
1 TATATGTAATTATTTTTTTATGTAAATCTATA
29869624 T
1 T
29869625 TTTTTAAACT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 19 0.70
31 1 0.04
32 7 0.26
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (32 bp):
TATATGTAATTATTTTTTTATGTAAATCTATA
Found at i:29869707 original size:31 final size:29
Alignment explanation
Indices: 29869648--29869708 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 29
29869638 ATTTTTCTCA
* *
29869648 TATTTATATATATACATATTTTTATTAAT
1 TATTTATATATATACATAATTTAATTAAT
*
29869677 TATTTATATATAGTATATAATTTAATTTAAT
1 TATTTATATATA-TACATAATTTAA-TTAAT
29869708 T
1 T
29869709 TTAATTATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 12 0.44
30 9 0.33
31 6 0.22
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (29 bp):
TATTTATATATATACATAATTTAATTAAT
Found at i:29870162 original size:2 final size:2
Alignment explanation
Indices: 29870155--29870205 Score: 59
Period size: 2 Copynumber: 25.5 Consensus size: 2
29870145 ATACATGCAT
* *
29870155 TA TA TA TA TA TA TA T- TC TCA TA TT TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA
*
29870197 TA TA CA TA T
1 TA TA TA TA T
29870206 TTTTTTTATT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
1 1 0.02
2 40 0.95
3 1 0.02
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:29870661 original size:13 final size:14
Alignment explanation
Indices: 29870627--29870664 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
29870617 CTTTCTTATG
29870627 TATATTAGTTTCGTT
1 TATATTA-TTTCGTT
29870642 TAT-TTATTT-GTT
1 TATATTATTTCGTT
29870654 TATATTATTTC
1 TATATTATTTC
29870665 TATGCCATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.29
13 9 0.43
14 3 0.14
15 3 0.14
ACGTcount: A:0.21, C:0.05, G:0.08, T:0.66
Consensus pattern (14 bp):
TATATTATTTCGTT
Found at i:29875639 original size:18 final size:18
Alignment explanation
Indices: 29875616--29875656 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
29875606 GATTCAATAA
*
29875616 AAAAAGAAGAA-AAAGGAG
1 AAAAAGAA-AAGAAAAGAG
29875634 AAAAAGAAAAGAAAAGAG
1 AAAAAGAAAAGAAAAGAG
29875652 AAAAA
1 AAAAA
29875657 ATAAAACAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 2 0.10
18 19 0.90
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAAGAAAAGAG
Found at i:29875657 original size:19 final size:17
Alignment explanation
Indices: 29875615--29875662 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 17
29875605 AGATTCAATA
*
29875615 AAAAAAGAAGAAAAAGG
1 AAAAAAGAAAAAAAAGG
29875632 AGAAAAAGAAAAGAAAAGAG
1 A-AAAAAGAAAA-AAAAG-G
*
29875652 AAAAAATAAAA
1 AAAAAAGAAAA
29875663 CAAATCAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 1 0.04
18 9 0.35
19 14 0.54
20 2 0.08
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (17 bp):
AAAAAAGAAAAAAAAGG
Found at i:29878014 original size:44 final size:44
Alignment explanation
Indices: 29877966--29878191 Score: 147
Period size: 44 Copynumber: 5.1 Consensus size: 44
29877956 ATATCAGATG
29877966 TTGCCTTTCTGTACTGACAGCGAAGCAGATCAAAGACACTAGCC
1 TTGCCTTTCTGTACTGACAGCGAAGCAGATCAAAGACACTAGCC
** * * * * * * *
29878010 TTGCCTCCCT-CAGTGGCAGCGAAGCAGGTTAAAGATAGC-AGATC
1 TTGCCTTTCTGTACTGACAGCGAAGCAGATCAAAGACA-CTAG-CC
* * *
29878054 TTGCCTTTCTGTACCGGCAGCGAAGCAGATCAAAGACACCAGCC
1 TTGCCTTTCTGTACTGACAGCGAAGCAGATCAAAGACACTAGCC
* *** * * * * * *
29878098 TTGCCTCTCTGGGTTG-CAGCGGAGTAGGTTGAAA-ATAGCT-GATC
1 TTGCCTTTCTGTACTGACAGCGAAGCA-GATCAAAGACA-CTAG-CC
* * *
29878142 TTGCCTTCCTGTATTGACAGCGAAGCAGATCGAAGACACTAGCC
1 TTGCCTTTCTGTACTGACAGCGAAGCAGATCAAAGACACTAGCC
29878186 TTGCCT
1 TTGCCT
29878192 CCCTCAGTGG
Statistics
Matches: 131, Mismatches: 41, Indels: 20
0.68 0.21 0.10
Matches are distributed among these distances:
43 34 0.26
44 63 0.48
45 34 0.26
ACGTcount: A:0.26, C:0.26, G:0.25, T:0.23
Consensus pattern (44 bp):
TTGCCTTTCTGTACTGACAGCGAAGCAGATCAAAGACACTAGCC
Found at i:29878029 original size:88 final size:88
Alignment explanation
Indices: 29877863--29878398 Score: 637
Period size: 88 Copynumber: 6.1 Consensus size: 88
29877853 AACAAATCAG
* * * *
29877863 TGAAGATAGCAGATCTTGCCTTCCTGTACCGGCAGCGAAGCATATCAAAGACACCAGCCTTGCCT
1 TGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCT
** * *
29877928 CCCTGGGTTGCAGCGGAGCAAGT
66 CCCTCAGTGGCAGCGGAGCAGGT
* * * *
29877951 TGAAAATATCAGATGTTGCCTTTCTGTACTGACAGCGAAGCAGATCAAAGACACTAGCCTTGCCT
1 TGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCT
*
29878016 CCCTCAGTGGCAGCGAAGCAGGT
66 CCCTCAGTGGCAGCGGAGCAGGT
* * *
29878039 T-AAAGATAGCAGATCTTGCCTTTCTGTACCGGCAGCGAAGCAGATCAAAGACACCAGCCTTGCC
1 TGAAA-ATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCAAAGACACCAGCCTTGCC
* ** * *
29878103 TCTCTGGGTTGCAGCGGAGTAGGT
65 TCCCTCAGTGGCAGCGGAGCAGGT
* * * *
29878127 TGAAAATAGCTGATCTTGCCTTCCTGTATTGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCT
1 TGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCT
* *
29878192 CCCTCAGTGGCAGTGGAGTAGGT
66 CCCTCAGTGGCAGCGGAGCAGGT
* * * * *
29878215 TGAAGATTGTAGATCTTGCCTTCCTATAC-CAGCAGCGAAGCAGATCAAAGACACCAGCCTTGCC
1 TGAAAATAGCAGATCTTGCCTTCCTGTACTGA-CAGCGAAGCAGATCAAAGACACCAGCCTTGCC
29878279 TCCCTCAGTGGCAGCGGAGCAGGT
65 TCCCTCAGTGGCAGCGGAGCAGGT
* * ** * *
29878303 T-AAAGATAGCAAATCTTGCCTTCCTGTACTGGCAATGAAGCAGATCAAAGACCCCAGCCTTGTC
1 TGAAA-ATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCAAAGACACCAGCCTTGCC
* ** * *
29878367 TCCCTGAGCAGCAGTGGAGTAGGT
65 TCCCTCAGTGGCAGCGGAGCAGGT
29878391 TGAAAATA
1 TGAAAATA
29878399 AAATATCTTA
Statistics
Matches: 379, Mismatches: 63, Indels: 12
0.83 0.14 0.03
Matches are distributed among these distances:
87 6 0.02
88 367 0.97
89 6 0.02
ACGTcount: A:0.27, C:0.26, G:0.25, T:0.22
Consensus pattern (88 bp):
TGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCT
CCCTCAGTGGCAGCGGAGCAGGT
Found at i:29878321 original size:44 final size:44
Alignment explanation
Indices: 29878009--29878323 Score: 116
Period size: 44 Copynumber: 7.2 Consensus size: 44
29877999 AGACACTAGC
*
29878009 CTTGCCTCCCTCAGTGGCAGCGAAGCAGGTTAAAGATAGCAGAT
1 CTTGCCTCCCTCAGTGGCAGCGAAGCAGGTTAAAGATAGCAAAT
** * ** * * * * **
29878053 CTTGCCTTTCTGTACCGGCAGCGAAGCAGATCAAAGACA-CCAGC
1 CTTGCCTCCCT-CAGTGGCAGCGAAGCAGGTTAAAGATAGCAAAT
* ** * * * **
29878097 CTTGCCTCTCTGGGTTGCAGCGGAGTAGGTTGAAA-ATAGCTGAT
1 CTTGCCTCCCTCAGTGGCAGCGAAGCAGGTT-AAAGATAGCAAAT
* * * * * ** * * **
29878141 CTTGCCTTCCTGTATTGACAGCGAAGCAGATCGAAGACA-CTAGC
1 CTTGCCTCCCT-CAGTGGCAGCGAAGCAGGTTAAAGATAGCAAAT
* * * * * * *
29878185 CTTGCCTCCCTCAGTGGCAGTGGAGTAGGTTGAAGATTGTAGAT
1 CTTGCCTCCCTCAGTGGCAGCGAAGCAGGTTAAAGATAGCAAAT
* * *** * * * * **
29878229 CTTGCCTTCCTATACCAGCAGCGAAGCAGATCAAAGACA-CCAGC
1 CTTGCCTCCCT-CAGTGGCAGCGAAGCAGGTTAAAGATAGCAAAT
*
29878273 CTTGCCTCCCTCAGTGGCAGCGGAGCAGGTTAAAGATAGCAAAT
1 CTTGCCTCCCTCAGTGGCAGCGAAGCAGGTTAAAGATAGCAAAT
29878317 CTTGCCT
1 CTTGCCT
29878324 TCCTGTACTG
Statistics
Matches: 174, Mismatches: 89, Indels: 16
0.62 0.32 0.06
Matches are distributed among these distances:
43 49 0.28
44 76 0.44
45 49 0.28
ACGTcount: A:0.25, C:0.26, G:0.26, T:0.23
Consensus pattern (44 bp):
CTTGCCTCCCTCAGTGGCAGCGAAGCAGGTTAAAGATAGCAAAT
Found at i:29878345 original size:264 final size:264
Alignment explanation
Indices: 29877863--29878398 Score: 734
Period size: 264 Copynumber: 2.0 Consensus size: 264
29877853 AACAAATCAG
* * *
29877863 TGAAGATAGCAGATCTTGCCTTCCTGTACCGGCAGCGAAGCATATCAAAGACACCAGCCTTGCCT
1 TGAAAATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCT
** * * * * *
29877928 CCCTGGGTTGCAGCGGAGCAAGTTGAAAATATCAGATGTTGCCTTTCTGTACTGACAGCGAAGCA
66 CCCTCAGTGGCAGCGGAGCAAGTTGAAAATATCAGATCTTGCCTTCCTATACAGACAGCGAAGCA
* *
29877993 GATCAAAGACACTAGCCTTGCCTCCCTCAGTGGCAGCGAAGCAGGTTAAAGATAGCAGATCTTGC
131 GATCAAAGACACCAGCCTTGCCTCCCTCAGTGGCAGCGAAGCAGGTTAAAGATAGCAAATCTTGC
* * * * **
29878058 CTTTCTGTACCGGCAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCTCTGGGTTGCAGCGGAGT
196 CTTCCTGTACCGGCAACGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTGAGCAGCAGCGGAGT
29878123 AGGT
261 AGGT
* ** * *
29878127 TGAAAATAGCTGATCTTGCCTTCCTGTATTGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCT
1 TGAAAATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCT
* * * * *
29878192 CCCTCAGTGGCAGTGGAGTAGGTTGAAGAT-TGTAGATCTTGCCTTCCTATACCAG-CAGCGAAG
66 CCCTCAGTGGCAGCGGAGCAAGTTGAAAATAT-CAGATCTTGCCTTCCTATA-CAGACAGCGAAG
*
29878255 CAGATCAAAGACACCAGCCTTGCCTCCCTCAGTGGCAGCGGAGCAGGTTAAAGATAGCAAATCTT
129 CAGATCAAAGACACCAGCCTTGCCTCCCTCAGTGGCAGCGAAGCAGGTTAAAGATAGCAAATCTT
* * * * *
29878320 GCCTTCCTGTACTGGCAATGAAGCAGATCAAAGACCCCAGCCTTGTCTCCCTGAGCAGCAGTGGA
194 GCCTTCCTGTACCGGCAACGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTGAGCAGCAGCGGA
29878385 GTAGGT
259 GTAGGT
29878391 TGAAAATA
1 TGAAAATA
29878399 AAATATCTTA
Statistics
Matches: 236, Mismatches: 34, Indels: 4
0.86 0.12 0.01
Matches are distributed among these distances:
263 1 0.00
264 233 0.99
265 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.25, T:0.22
Consensus pattern (264 bp):
TGAAAATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCT
CCCTCAGTGGCAGCGGAGCAAGTTGAAAATATCAGATCTTGCCTTCCTATACAGACAGCGAAGCA
GATCAAAGACACCAGCCTTGCCTCCCTCAGTGGCAGCGAAGCAGGTTAAAGATAGCAAATCTTGC
CTTCCTGTACCGGCAACGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTGAGCAGCAGCGGAGT
AGGT
Found at i:29878383 original size:176 final size:176
Alignment explanation
Indices: 29877863--29878394 Score: 760
Period size: 176 Copynumber: 3.0 Consensus size: 176
29877853 AACAAATCAG
*
29877863 TGAAGATAGCAGATCTTGCCTTCCTGTACCGGCAGCGAAGCATATCAAAGACACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACCGGCAGCGAAGCAGATCAAAGACACCAGCCTTGCCT
* * * *
29877928 CCCTGGGTTGCAGCGGAGCAAGTTGAAAATATCAGATGTTGCCTTTCTGTACTGACAGCGAAGCA
66 CCCTGGGTTGCAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCA
* * *
29877993 GATCAAAGACACTAGCCTTGCCTCCCTCAGTGGCAGCGAAGCAGGT
131 GATCAAAGACACTAGCCTTGCCTCCCTCAGTGGCAGTGGAGTAGGT
* *
29878039 TAAAGATAGCAGATCTTGCCTTTCTGTACCGGCAGCGAAGCAGATCAAAGACACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACCGGCAGCGAAGCAGATCAAAGACACCAGCCTTGCCT
* * * *
29878104 CTCTGGGTTGCAGCGGAGTAGGTTGAAAATAGCTGATCTTGCCTTCCTGTATTGACAGCGAAGCA
66 CCCTGGGTTGCAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCA
*
29878169 GATCGAAGACACTAGCCTTGCCTCCCTCAGTGGCAGTGGAGTAGGT
131 GATCAAAGACACTAGCCTTGCCTCCCTCAGTGGCAGTGGAGTAGGT
* * * *
29878215 TGAAGATTGTAGATCTTGCCTTCCTATACCAGCAGCGAAGCAGATCAAAGACACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACCGGCAGCGAAGCAGATCAAAGACACCAGCCTTGCCT
** * * * **
29878280 CCCTCAGTGGCAGCGGAGCAGGTT-AAAGATAGCAAATCTTGCCTTCCTGTACTGGCAATGAAGC
66 CCCTGGGTTGCAGCGGAGCAGGTTGAAA-ATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGC
* * * * **
29878344 AGATCAAAGACCCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGT
130 AGATCAAAGACACTAGCCTTGCCTCCCTCAGTGGCAGTGGAGTAGGT
29878391 TGAA
1 TGAA
29878395 AATAAAATAT
Statistics
Matches: 316, Mismatches: 39, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
175 3 0.01
176 313 0.99
ACGTcount: A:0.27, C:0.26, G:0.25, T:0.22
Consensus pattern (176 bp):
TGAAGATAGCAGATCTTGCCTTCCTGTACCGGCAGCGAAGCAGATCAAAGACACCAGCCTTGCCT
CCCTGGGTTGCAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCA
GATCAAAGACACTAGCCTTGCCTCCCTCAGTGGCAGTGGAGTAGGT
Found at i:29878548 original size:44 final size:43
Alignment explanation
Indices: 29878445--29878781 Score: 234
Period size: 44 Copynumber: 7.7 Consensus size: 43
29878435 TCGCATCAGG
* * *
29878445 TCTTATCTCCCTGAGCAGCAGCGGAGCAGACCGAAGAACTACAGA
1 TCTTATCTCCCTAAGCAGCAGTGGAGCAGATCGAAG-A-TACAGA
* *
29878490 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGA
1 TCTTATCTCCCTAAGCAGCAGTGGAGCAGATCGAAGAT-ACAGA
* * * * * *
29878534 TCTTATCTCCCTAAGCAGTAGTAGAGCAGATTGAGGCTAGTA-A
1 TCTTATCTCCCTAAGCAGCAGTGGAGCAGATCGAAGATA-CAGA
* ** ** * * *
29878577 TCCTATCTCCCTGAAGTTGCAGTGGAGTGGAT-TAAAATAAAAGA
1 TCTTATCTCCCT-AAGCAGCAGTGGAGCAGATCGAAGAT-ACAGA
* ** * * * * *
29878621 TCTTATCTCTCTAAAGTTGCAGTAGAGTAGATCG--CAT-TAGG
1 TCTTATCTCCCT-AAGCAGCAGTGGAGCAGATCGAAGATACAGA
* * * * *
29878662 TCTTATCTCCCTGAGCAGCAGCGGAGTAGACCGGAGAACTACAGA
1 TCTTATCTCCCTAAGCAGCAGTGGAGCAGATCGAAG-A-TACAGA
* *
29878707 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGA
1 TCTTATCTCCCTAAGCAGCAGTGGAGCAGATCGAAGAT-ACAGA
*
29878751 TCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
1 TCTTATCTCCCTAAGCAGCAGTGGAGCAGAT
29878782 TGAGGCCAGT
Statistics
Matches: 231, Mismatches: 49, Indels: 25
0.76 0.16 0.08
Matches are distributed among these distances:
40 15 0.06
41 13 0.06
43 20 0.09
44 119 0.52
45 64 0.28
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (43 bp):
TCTTATCTCCCTAAGCAGCAGTGGAGCAGATCGAAGATACAGA
Found at i:29878716 original size:217 final size:217
Alignment explanation
Indices: 29878377--29878911 Score: 919
Period size: 217 Copynumber: 2.5 Consensus size: 217
29878367 TCCCTGAGCA
*
29878377 GCAGTGGAGTAGG-TTGAAAATAAAATATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCAT
1 GCAGTGGAGT-GGATT-AAAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCAT
*
29878441 CAGGTCTTATCTCCCTGAGCAGCAGCGGAGCAGACCGAAGAACTACAGATCTTATCTCCCTAAGC
64 TAGGTCTTATCTCCCTGAGCAGCAGCGGAGCAGACCGAAGAACTACAGATCTTATCTCCCTAAGC
29878506 AGTAGTGGAGCAGATCGAAGATGGCAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATTGAGGC
129 AGTAGTGGAGCAGATCGAAGATGGCAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATTGAGGC
*
29878571 TAGTAATCCTATCTCCCTGAAGTT
194 CAGTAATCCTATCTCCCTGAAGTT
*
29878595 GCAGTGGAGTGGATTAAAATAAAAGATCTTATCTCTCTAAAGTTGCAGTAGAGTAGATCGCATTA
1 GCAGTGGAGTGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATTA
* *
29878660 GGTCTTATCTCCCTGAGCAGCAGCGGAGTAGACCGGAGAACTACAGATCTTATCTCCCTAAGCAG
66 GGTCTTATCTCCCTGAGCAGCAGCGGAGCAGACCGAAGAACTACAGATCTTATCTCCCTAAGCAG
*
29878725 TAGTGGAGCAGATCGAAGATGGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAGGCCA
131 TAGTGGAGCAGATCGAAGATGGCAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATTGAGGCCA
* *
29878790 GTAATTCTATCTCCTTGAAGTT
196 GTAATCCTATCTCCCTGAAGTT
*
29878812 GCAGTGGAGTGGATTAAAATAAAAGATCTTATCTCTCTGAAGCTGCAGTAGAGTAGATCGCATTA
1 GCAGTGGAGTGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATTA
** *
29878877 GGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACC
66 GGTCTTATCTCCCTGA-GCAGCAGCGGAGCAGACC
29878912 AAAGCCAATA
Statistics
Matches: 300, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
217 274 0.91
218 26 0.09
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (217 bp):
GCAGTGGAGTGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATTA
GGTCTTATCTCCCTGAGCAGCAGCGGAGCAGACCGAAGAACTACAGATCTTATCTCCCTAAGCAG
TAGTGGAGCAGATCGAAGATGGCAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATTGAGGCCA
GTAATCCTATCTCCCTGAAGTT
Found at i:29878998 original size:44 final size:44
Alignment explanation
Indices: 29878580--29879198 Score: 153
Period size: 44 Copynumber: 14.3 Consensus size: 44
29878570 CTAGTAATCC
** *
29878580 TATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAATAAAAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATAATAGATCT
* * * * *** *
29878624 TATCTCTCTAAAGTTGCAGTAGAGTAGA-TCGCAT--TAGGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATAATAGATCT
** * * ** * *
29878665 TATCTCCCTG-AGCAGCAGCGGAGTAGACCGGAGAACT-ACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA--TTA-AAATAATAGATCT
** * * * ***
29878710 TATCTCCCT-AAGCAGTAGTGGAGCAGATCGAAGATGGCAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGAT-TAAAATAATAGATCT
** * **** *
29878754 TATCTCCCT-AAGCAGTAGTGGAGCAGATTGAGGCCAGTA-AT-T
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAATAATAGATCT
* ** *
29878796 CTATCTCCTTGAAGTTGCAGTGGAGTGGATTAAAATAAAAGATCT
1 -TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATAATAGATCT
* * * * *** *
29878841 TATCTCTCTGAAGCTGCAGTAGAGTAGA-TCGCAT--TAGGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATAATAGATCT
* ** ** *
29878882 TATCTCCCTGAGGTTGCAGTGGAGCAGACCAAAGCCAATA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA-ATAATAGATCT
* * * *
29878926 TATCTCCCT-AAGGTTACAGCGGAACAGATTAAAATAACAGATCT
1 TATCTCCCTGAA-GTTGCAGTGGAGCAGATTAAAATAATAGATCT
* * *** *
29878970 TATCTCTCTGAAGTTGCAGTAGAGCAGA-TCGCATCA-AG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATAATAGATCT
* * * * * * * * * *
29879011 TATCCCCCTGAGGTTACGGTAGAGCAGACT-GAGTAAGCAGGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATAA-TAGATCT
* * * * * *** *
29879055 TATCCCCCTGAAATAGCAGTGG-GCAGACTGAAGATGGCAAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAAATAATAGATCT
* ** * **
29879099 CATCTCCCTGGGGTTACAGTGGAGCAGATTAAAGCCAATA-ATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA-ATAATAGATCT
* * * * *
29879143 TATCTCCCTGAGGTTACAGCGGAGCGGATTAAAATAACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATAATAGATCT
*
29879187 TATCTCTCTGAA
1 TATCTCCCTGAA
29879199 ATTACAGTAA
Statistics
Matches: 411, Mismatches: 135, Indels: 58
0.68 0.22 0.10
Matches are distributed among these distances:
40 13 0.03
41 70 0.17
42 4 0.01
43 39 0.09
44 245 0.60
45 40 0.10
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATAATAGATCT
Found at i:29879190 original size:346 final size:344
Alignment explanation
Indices: 29878574--29879198 Score: 762
Period size: 346 Copynumber: 1.8 Consensus size: 344
29878564 TTGAGGCTAG
* * ***
29878574 TAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAATAAAAGATCTTATCTCTCTAAAGTT
1 TAATCCTATCTCCCTGAAGTTACAGCGGAACAGATTAAAATAAAAGATCTTATCTCTCTAAAGTT
* * * * * *
29878639 GCAGTAGAGTAGATCGCATTAGGTCTTATCTCCCTGAGCAGCAGCGGAGTAGACCGGAGAACTAC
66 GCAGTAGAGCAGATCGCATCAAGTCTTATCCCCCTGAGCAGCAGCAGAGCAGACCGGAGAAC-AC
* * * * *
29878704 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATCTTATCTCCCTAAGCAG
130 AGATCTTATCCCCCTAAACAGCAGTGGAGCAGATCGAAGATGGCAAATCTCATCTCCCT-AGCAG
* * * * * * *
29878769 TAGTGGAGCAGATTGAGGCCAGTAATTCTATCTCCTTGAAGTTGCAGTGGAGTGGATTAAAATAA
194 TAGTGGAGCAGATTAAAGCCAATAATTCTATCTCCCTGAAGTTACAGCGGAGCGGATTAAAATAA
29878834 AAGATCTTATCTCTCTGAAGCTGCAGTAGAGTAGATCGCATTAGGTCTTATCTCCCTGAGGTTGC
259 AAGATCTTATCTCTCTGAAGCTGCAGTAGAGTAGATCGCATTAGGTCTTATCTCCCTGAGGTTGC
29878899 AGTGGAGCAGACCAAAGCCAA
324 AGTGGAGCAGACCAAAGCCAA
* *
29878920 TAATCCTATCTCCCT-AAGGTTACAGCGGAACAGATTAAAATAACAGATCTTATCTCTCTGAAGT
1 TAATCCTATCTCCCTGAA-GTTACAGCGGAACAGATTAAAATAAAAGATCTTATCTCTCTAAAGT
* * * *
29878984 TGCAGTAGAGCAGATCGCATCAAGTCTTATCCCCCTGAGGTTA-CGGTAGAGCAGA-CTGAGTAA
65 TGCAGTAGAGCAGATCGCATCAAGTCTTATCCCCCTGA-G-CAGCAGCAGAGCAGACCGGAG-AA
* * *
29879047 -GCAGGTCTTATCCCCCTGAAATAGCAGTGG-GCAGA-CTGAAGATGGCAAATCTCATCTCCCT-
127 CACAGATCTTATCCCCCT-AAACAGCAGTGGAGCAGATC-GAAGATGGCAAATCTCATCTCCCTA
** *
29879108 GGGGTTACAGTGGAGCAGATTAAAGCCAATAA-TCTTATCTCCCTGAGGTTACAGCGGAGCGGAT
190 GCAG-T--AGTGGAGCAGATTAAAGCCAATAATTC-TATCTCCCTGAAGTTACAGCGGAGCGGAT
*
29879172 TAAAATAACAGATCTTATCTCTCTGAA
251 TAAAATAAAAGATCTTATCTCTCTGAA
29879199 ATTACAGTAA
Statistics
Matches: 233, Mismatches: 36, Indels: 20
0.81 0.12 0.07
Matches are distributed among these distances:
343 2 0.01
344 2 0.01
345 45 0.19
346 172 0.74
347 11 0.05
348 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (344 bp):
TAATCCTATCTCCCTGAAGTTACAGCGGAACAGATTAAAATAAAAGATCTTATCTCTCTAAAGTT
GCAGTAGAGCAGATCGCATCAAGTCTTATCCCCCTGAGCAGCAGCAGAGCAGACCGGAGAACACA
GATCTTATCCCCCTAAACAGCAGTGGAGCAGATCGAAGATGGCAAATCTCATCTCCCTAGCAGTA
GTGGAGCAGATTAAAGCCAATAATTCTATCTCCCTGAAGTTACAGCGGAGCGGATTAAAATAAAA
GATCTTATCTCTCTGAAGCTGCAGTAGAGTAGATCGCATTAGGTCTTATCTCCCTGAGGTTGCAG
TGGAGCAGACCAAAGCCAA
Found at i:29880850 original size:25 final size:27
Alignment explanation
Indices: 29880793--29880851 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 27
29880783 TCTGTAACTT
*
29880793 TTTATATGTAATTATTTTTTAAATATA
1 TTTATATGTAATTATTTTTTAAATACA
* **
29880820 TATATATGT-A-TATTTTTTATGTACA
1 TTTATATGTAATTATTTTTTAAATACA
29880845 TTTATAT
1 TTTATAT
29880852 TTTTTAAAAC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 18 0.67
26 1 0.04
27 8 0.30
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (27 bp):
TTTATATGTAATTATTTTTTAAATACA
Found at i:29881362 original size:13 final size:14
Alignment explanation
Indices: 29881328--29881365 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
29881318 CTTTCTTATG
29881328 TATATTAGTTTCGTT
1 TATATTA-TTTCGTT
29881343 TAT-TTATTT-GTT
1 TATATTATTTCGTT
29881355 TATATTATTTC
1 TATATTATTTC
29881366 TATGCCATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.29
13 9 0.43
14 3 0.14
15 3 0.14
ACGTcount: A:0.21, C:0.05, G:0.08, T:0.66
Consensus pattern (14 bp):
TATATTATTTCGTT
Found at i:29882935 original size:118 final size:108
Alignment explanation
Indices: 29882872--29883068 Score: 286
Period size: 108 Copynumber: 1.8 Consensus size: 108
29882862 GCAAAAGCGC
* *
29882872 AGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGTTAGAAGTGATTTTATATTATTTGCT
1 AGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAGAAGCGATTTTATATTATTTGCT
* *
29882937 CAGAAACGTCAGCCCGAAATTATTTCTTCCAGGACCGTCCACG
66 CAGAAACGTCAACCCGAAATTATTTCTTCCAGGACCGTCAACG
* * * * * * *
29882980 AGGCCGTGATTTCACAAATTCTTATCAAACAGCATTCGGCTAGAAGCGATTTTATACTATTTGCT
1 AGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAGAAGCGATTTTATATTATTTGCT
*
29883045 CAGAAACGTCAACTCGAAATTATT
66 CAGAAACGTCAACCCGAAATTATT
29883069 GTAGAATCCT
Statistics
Matches: 78, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
108 78 1.00
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (108 bp):
AGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAGAAGCGATTTTATATTATTTGCT
CAGAAACGTCAACCCGAAATTATTTCTTCCAGGACCGTCAACG
Found at i:29883093 original size:7 final size:7
Alignment explanation
Indices: 29883081--29883111 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
29883071 AGAATCCTAA
29883081 AAACCCT
1 AAACCCT
29883088 AAACCCT
1 AAACCCT
29883095 AAACCCT
1 AAACCCT
29883102 AAACCCT
1 AAACCCT
29883109 AAA
1 AAA
29883112 ATCCAAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.48, C:0.39, G:0.00, T:0.13
Consensus pattern (7 bp):
AAACCCT
Found at i:29889046 original size:40 final size:40
Alignment explanation
Indices: 29888997--29889085 Score: 169
Period size: 40 Copynumber: 2.2 Consensus size: 40
29888987 TTAGGGATAT
29888997 TTTGATCTTAACTATTGATTATTAGGAATTATTTCAGATCA
1 TTTG-TCTTAACTATTGATTATTAGGAATTATTTCAGATCA
29889038 TTTGTCTTAACTATTGATTATTAGGAATTATTTCAGATCA
1 TTTGTCTTAACTATTGATTATTAGGAATTATTTCAGATCA
29889078 TTTGTCTT
1 TTTGTCTT
29889086 TCTTGTTTCC
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 44 0.92
41 4 0.08
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.49
Consensus pattern (40 bp):
TTTGTCTTAACTATTGATTATTAGGAATTATTTCAGATCA
Found at i:29891663 original size:37 final size:37
Alignment explanation
Indices: 29891608--29891688 Score: 126
Period size: 37 Copynumber: 2.2 Consensus size: 37
29891598 TATACTATGA
* * * *
29891608 CAACAAGGGTGCTGTAAGCATAGCTCAAAATCCCATC
1 CAACACGGGTGCTATAAGCATAGCCCAAAATCCAATC
29891645 CAACACGGGTGCTATAAGCATAGCCCAAAATCCAATC
1 CAACACGGGTGCTATAAGCATAGCCCAAAATCCAATC
29891682 CAACACG
1 CAACACG
29891689 ATTGAACAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.37, C:0.30, G:0.17, T:0.16
Consensus pattern (37 bp):
CAACACGGGTGCTATAAGCATAGCCCAAAATCCAATC
Found at i:29897681 original size:2 final size:2
Alignment explanation
Indices: 29897674--29897702 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
29897664 AAGGTAACAT
29897674 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
29897703 GAAGGGAGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:29900187 original size:36 final size:36
Alignment explanation
Indices: 29900147--29900219 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
29900137 AGGCGCAAAT
29900147 GAACCCCTTCTGGTGAGTTTAAAGTTGATGTGACAC
1 GAACCCCTTCTGGTGAGTTTAAAGTTGATGTGACAC
29900183 GAACCCCTTCTGGTGAGTTTAAAGTTGATGTGACAC
1 GAACCCCTTCTGGTGAGTTTAAAGTTGATGTGACAC
29900219 G
1 G
29900220 CATGCACTCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (36 bp):
GAACCCCTTCTGGTGAGTTTAAAGTTGATGTGACAC
Found at i:29904381 original size:2 final size:2
Alignment explanation
Indices: 29904374--29904404 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
29904364 TCATAAACAA
29904374 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
29904405 GTCTCCATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:29906241 original size:34 final size:35
Alignment explanation
Indices: 29906197--29906263 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
29906187 CAGTAAAATA
29906197 TTTTCCGTAAAATGATTT-CTGGAAAATATTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
29906231 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
29906264 CTGGTGTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 17 0.55
35 14 0.45
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:29917262 original size:26 final size:26
Alignment explanation
Indices: 29917233--29917282 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
29917223 TCTCATCCCT
*
29917233 ATTTTA-CCCTTAGTAAAATTTTGACA
1 ATTTTATCCC-TAGTAAAAATTTGACA
*
29917259 ATTTTATCCCTGGTAAAAATTTGA
1 ATTTTATCCCTAGTAAAAATTTGA
29917283 GAAAATATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 18 0.86
27 3 0.14
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.42
Consensus pattern (26 bp):
ATTTTATCCCTAGTAAAAATTTGACA
Found at i:29917544 original size:9 final size:10
Alignment explanation
Indices: 29917517--29917557 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
29917507 CTTAATGTTT
*
29917517 TTCATTTCTC
1 TTCATTTCTA
29917527 TT--TTTCTA
1 TTCATTTCTA
29917535 TTCA-TTCTA
1 TTCATTTCTA
29917544 TTCATTTCTA
1 TTCATTTCTA
29917554 TTCA
1 TTCA
29917558 AACACGTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
8 7 0.26
9 9 0.33
10 11 0.41
ACGTcount: A:0.17, C:0.22, G:0.00, T:0.61
Consensus pattern (10 bp):
TTCATTTCTA
Found at i:29919533 original size:104 final size:104
Alignment explanation
Indices: 29919362--29919618 Score: 480
Period size: 104 Copynumber: 2.5 Consensus size: 104
29919352 TGGTGGATCC
*
29919362 CGCACTTAGCACCACCACTG-AATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCAC
1 CGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCAC
29919426 ATAGCAACCCCCTTTTCATTTCAAAGATATCGTGGATAT
66 ATAGCAACCCCCTTTTCATTTCAAAGATATCGTGGATAT
29919465 CGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCAC
1 CGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCAC
*
29919530 ATAGCAACCCCCTTTTCATTTCAAAGATATGGTGGATAT
66 ATAGCAACCCCCTTTTCATTTCAAAGATATCGTGGATAT
*
29919569 CGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACATAGCAACCCCT
1 CGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCT
29919619 NNNNNNNNNN
Statistics
Matches: 150, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
103 19 0.13
104 131 0.87
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.20
Consensus pattern (104 bp):
CGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCAC
ATAGCAACCCCCTTTTCATTTCAAAGATATCGTGGATAT
Found at i:29920084 original size:29 final size:29
Alignment explanation
Indices: 29920051--29920114 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
29920041 TAATCCACCA
29920051 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
29920080 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
29920110 CCCAA
1 CCCAA
29920115 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:29920088 original size:30 final size:30
Alignment explanation
Indices: 29920058--29920114 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
29920048 CCACCCAACT
29920058 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
29920087 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
29920115 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:29922503 original size:27 final size:27
Alignment explanation
Indices: 29922460--29922794 Score: 329
Period size: 27 Copynumber: 12.4 Consensus size: 27
29922450 TGCCATTCGT
*
29922460 GGGT-AAATGACCAAAATACCCTCGAA
1 GGGTAAAATGACCGAAATACCCTCGAA
* **
29922486 GGGTAAAATAATTGAAATA-CCTCCGAA
1 GGGTAAAATGACCGAAATACCCT-CGAA
* **
29922513 GGGTAAAATGACCAAAATACCCTTAAA
1 GGGTAAAATGACCGAAATACCCTCGAA
* *
29922540 GGGTAAAATGACCAAAATACCCCCGAA
1 GGGTAAAATGACCGAAATACCCTCGAA
* * *
29922567 AGGTAAAATAATCGAAATACCCTCGAA
1 GGGTAAAATGACCGAAATACCCTCGAA
* * * * *
29922594 AGGTAAAATTATCGAAATACCCCCAAA
1 GGGTAAAATGACCGAAATACCCTCGAA
* *
29922621 GGGTAAAATGACCAAAATACCCTCTAA
1 GGGTAAAATGACCGAAATACCCTCGAA
* *
29922648 GGGTAAAATAACTGAAATACCCTCGAA
1 GGGTAAAATGACCGAAATACCCTCGAA
*
29922675 GGGTAAAATGACCGAAATTCCCTCGAA
1 GGGTAAAATGACCGAAATACCCTCGAA
* *
29922702 GGGTAAAATGATCGAAATAGCCC-CAAA
1 GGGTAAAATGACCGAAATA-CCCTCGAA
* * * *
29922729 CGGTAAAATGATCGAAATTCCCCCGAA
1 GGGTAAAATGACCGAAATACCCTCGAA
* *
29922756 GGGTAAAATGACAC-AAAAACCC-CTATA
1 GGGTAAAATGAC-CGAAATACCCTCGA-A
29922783 GGGTAAAATGAC
1 GGGTAAAATGAC
29922795 TGTTATACCC
Statistics
Matches: 257, Mismatches: 45, Indels: 13
0.82 0.14 0.04
Matches are distributed among these distances:
26 12 0.05
27 238 0.93
28 7 0.03
ACGTcount: A:0.44, C:0.21, G:0.18, T:0.17
Consensus pattern (27 bp):
GGGTAAAATGACCGAAATACCCTCGAA
Found at i:29922599 original size:81 final size:81
Alignment explanation
Indices: 29922460--29922794 Score: 383
Period size: 81 Copynumber: 4.1 Consensus size: 81
29922450 TGCCATTCGT
* * *
29922460 GGGT-AAATGACCAAAATACCCTCGAAGGGTAAAATAATTGAAATA-CCTCCGAAGGGTAAAATG
1 GGGTAAAATGACCAAAATACCCCCGAAAGGTAAAATAATCGAAATACCCT-CGAAGGGTAAAATG
**
29922523 ACCAAAATACCCTTAAA
65 ACCAAAATACCCCCAAA
* *
29922540 GGGTAAAATGACCAAAATACCCCCGAAAGGTAAAATAATCGAAATACCCTCGAAAGGTAAAATTA
1 GGGTAAAATGACCAAAATACCCCCGAAAGGTAAAATAATCGAAATACCCTCGAAGGGTAAAATGA
* *
29922605 TCGAAATACCCCCAAA
66 CCAAAATACCCCCAAA
* * *
29922621 GGGTAAAATGACCAAAATACCCTCTAAGGGTAAAATAA-CTGAAATACCCTCGAAGGGTAAAATG
1 GGGTAAAATGACCAAAATACCCCCGAAAGGTAAAATAATC-GAAATACCCTCGAAGGGTAAAATG
* * * *
29922685 ACCGAAATTCCCTCGAA
65 ACCAAAATACCCCCAAA
* * * * * *
29922702 GGGTAAAATGATCGAAATAGCCCC-AAACGGTAAAATGATCGAAATTCCCCCGAAGGGTAAAATG
1 GGGTAAAATGACCAAAATACCCCCGAAA-GGTAAAATAATCGAAATACCCTCGAAGGGTAAAATG
* *
29922766 ACACAAAA-ACCCCTATA
65 AC-CAAAATACCCCCAAA
29922783 GGGTAAAATGAC
1 GGGTAAAATGAC
29922795 TGTTATACCC
Statistics
Matches: 216, Mismatches: 33, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
80 7 0.03
81 201 0.93
82 8 0.04
ACGTcount: A:0.44, C:0.21, G:0.18, T:0.17
Consensus pattern (81 bp):
GGGTAAAATGACCAAAATACCCCCGAAAGGTAAAATAATCGAAATACCCTCGAAGGGTAAAATGA
CCAAAATACCCCCAAA
Found at i:29923151 original size:28 final size:28
Alignment explanation
Indices: 29923110--29923191 Score: 128
Period size: 28 Copynumber: 2.9 Consensus size: 28
29923100 CATTGTACTA
*
29923110 ATTACTGTATTGGGATAAGGCCCACATT
1 ATTACTGTATTGGGCTAAGGCCCACATT
* *
29923138 GTTACTATATTGGGCTAAGGCCCACATT
1 ATTACTGTATTGGGCTAAGGCCCACATT
*
29923166 ATTACTGTAATGGGCTAAGGCCCACA
1 ATTACTGTATTGGGCTAAGGCCCACA
29923192 CTGTACTGAT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 48 1.00
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (28 bp):
ATTACTGTATTGGGCTAAGGCCCACATT
Found at i:29923214 original size:33 final size:28
Alignment explanation
Indices: 29923110--29923222 Score: 111
Period size: 28 Copynumber: 3.9 Consensus size: 28
29923100 CATTGTACTA
* *
29923110 ATTACTGTATTGGGATAAGGCCCACATT
1 ATTACTGTATAGGGCTAAGGCCCACATT
* * *
29923138 GTTACTATATTGGGCTAAGGCCCACATT
1 ATTACTGTATAGGGCTAAGGCCCACATT
29923166 ATTACTGTA-ATGGGCTAAGGCCCACACTGT
1 ATTACTGTATA-GGGCTAAGGCCCACA-T-T
*
29923196 ACTGATACTGTATAGGGCTTAGGCCCA
1 A-T--TACTGTATAGGGCTAAGGCCCA
29923223 GATTGATTCT
Statistics
Matches: 71, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
28 47 0.66
29 1 0.01
30 2 0.03
31 1 0.01
33 19 0.27
34 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (28 bp):
ATTACTGTATAGGGCTAAGGCCCACATT
Found at i:29929176 original size:21 final size:20
Alignment explanation
Indices: 29929150--29929189 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
29929140 TTAACTGGAC
*
29929150 TGATAAGTAGCAAGAAAGTTT
1 TGATAAATAG-AAGAAAGTTT
*
29929171 TGATAAATTGAAGAAAGTT
1 TGATAAATAGAAGAAAGTT
29929190 CTGACTGAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.45, C:0.03, G:0.23, T:0.30
Consensus pattern (20 bp):
TGATAAATAGAAGAAAGTTT
Found at i:29932696 original size:27 final size:27
Alignment explanation
Indices: 29932666--29932941 Score: 290
Period size: 27 Copynumber: 10.2 Consensus size: 27
29932656 ATTCGTGGCC
*
29932666 AAATGACCAAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * *
29932693 AAATGACTGAAATACCCCCAAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * *
29932720 AAATAAACGAAATACCCTTGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * * *
29932747 AAATGACTGAAATACCCCCAAAAGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * **
29932774 AAATGATCGAAATACCCTTGAATTGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
29932801 AAATGACCAAAATACCC-CTGAAGGGTA
1 AAATGACCGAAATACCCTC-GAAGGGTA
*
29932828 AAATGACCGAAATACTCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
29932855 AAATGATCGAAATACACC-CGAAGGGTA
1 AAATGACCGAAATAC-CCTCGAAGGGTA
* *
29932882 AAATAACCGAAATA-CCTCCGAAAGGTA
1 AAATGACCGAAATACCCT-CGAAGGGTA
* *
29932909 AAATGCCCGAAATACCC-CTATAGGGTA
1 AAATGACCGAAATACCCTCGA-AGGGTA
29932936 AAATGA
1 AAATGA
29932942 TCGTTATACC
Statistics
Matches: 201, Mismatches: 41, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
25 2 0.01
26 2 0.01
27 193 0.96
28 4 0.02
ACGTcount: A:0.45, C:0.20, G:0.18, T:0.17
Consensus pattern (27 bp):
AAATGACCGAAATACCCTCGAAGGGTA
Found at i:29933207 original size:26 final size:26
Alignment explanation
Indices: 29933136--29933212 Score: 109
Period size: 26 Copynumber: 3.0 Consensus size: 26
29933126 ACATATACTG
* * *
29933136 TTACTGGCAGCTTTACTGCATTACTA
1 TTACTGGCAGCTTTGCTGCGTTATTA
*
29933162 TTACTGGCAGCTTTGCTGCGTTATTC
1 TTACTGGCAGCTTTGCTGCGTTATTA
*
29933188 TTACTGGCAGCTTTGCTGCGATATT
1 TTACTGGCAGCTTTGCTGCGTTATT
29933213 GGTGTGTTGG
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.17, C:0.22, G:0.21, T:0.40
Consensus pattern (26 bp):
TTACTGGCAGCTTTGCTGCGTTATTA
Done.