Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 161 of 292
Found at i:48012626 original size:40 final size:40
Alignment explanation
Indices: 48012533--48012714 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
48012523 AAATTGAATG
* * * * *
48012533 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
48012572 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
48012612 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
48012652 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
48012692 ATATCCGGG-TAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
48012715 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
39 44 0.36
40 75 0.62
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:48014328 original size:48 final size:48
Alignment explanation
Indices: 48014259--48014446 Score: 313
Period size: 48 Copynumber: 3.9 Consensus size: 48
48014249 TAGGGTTATG
48014259 TGTGATCCCATATAAGACCATGTCTGGGACATGGCATTGGCATCGATA
1 TGTGATCCCATATAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* *
48014307 TGTGATCCCATGTAAGACCATGCCTGGGACATGGCATTGGCATCGATA
1 TGTGATCCCATATAAGACCATGTCTGGGACATGGCATTGGCATCGATA
*
48014355 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
1 TGTGATCCCATATAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* * * *
48014403 TGTGATCCCATATAAGACCATATTTGGGATACGGCATTGGCATC
1 TGTGATCCCATATAAGACCATGTCTGGGACATGGCATTGGCATC
48014447 AAAATGAGAA
Statistics
Matches: 132, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 132 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (48 bp):
TGTGATCCCATATAAGACCATGTCTGGGACATGGCATTGGCATCGATA
Found at i:48014465 original size:96 final size:96
Alignment explanation
Indices: 48014266--48014537 Score: 304
Period size: 96 Copynumber: 2.9 Consensus size: 96
48014256 ATGTGTGATC
* **
48014266 CCATATAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGCC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATATC
* * * * **
48014331 TGGGACATGGCATTGGCATCGATATGTGATC
66 TGGGATATGGCATTGGCATCAAAATGAGAAA
* *
48014362 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATATAAGACCATATT
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATATC
*
48014427 TGGGATACGGCATTGGCATCAAAATGAGAAA
66 TGGGATATGGCATTGGCATCAAAATGAGAAA
*** * * * *
48014458 TTGTGTAAGACCATAG-CTGGG-C-T---ATCGGCTTCGATCTGTGGTCCCATGTAAGACCATAT
1 CCATGTAAGACCAT-GTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATAT
* *
48014517 CAGGGATATGGCACTGGCATC
65 CTGGGATATGGCATTGGCATC
48014538 TTAATATGTG
Statistics
Matches: 151, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
91 48 0.32
94 1 0.01
95 1 0.01
96 100 0.66
97 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (96 bp):
CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATATC
TGGGATATGGCATTGGCATCAAAATGAGAAA
Found at i:48018451 original size:26 final size:26
Alignment explanation
Indices: 48018391--48018496 Score: 128
Period size: 26 Copynumber: 4.2 Consensus size: 26
48018381 GGCCTATCCT
48018391 CTTTT-AAT-AACTGGGGCA-AAGCC
1 CTTTTCAATAAACTGGGGCATAAGCC
* ***
48018414 TTTTTTGGTAAACTGGGGCATAAGCC
1 CTTTTCAATAAACTGGGGCATAAGCC
48018440 CTTTTCAATAAACTGGGGCATAAGCC
1 CTTTTCAATAAACTGGGGCATAAGCC
** *
48018466 CTTTTCGGTAAACTGGGGGATAAGCC
1 CTTTTCAATAAACTGGGGCATAAGCC
48018492 CTTTT
1 CTTTT
48018497 TCACTTCCTC
Statistics
Matches: 70, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
23 4 0.06
24 1 0.01
25 10 0.14
26 55 0.79
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (26 bp):
CTTTTCAATAAACTGGGGCATAAGCC
Found at i:48018476 original size:52 final size:49
Alignment explanation
Indices: 48018391--48018496 Score: 158
Period size: 52 Copynumber: 2.1 Consensus size: 49
48018381 GGCCTATCCT
* *
48018391 CTTTTAATAACTGGGGCAAAGCCTTTTTTGGTAAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCAAAGCCCTTTTCGGTAAACTGGGGCATAAGCC
*
48018440 CTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGGATAAGCC
1 CTTTT-AAT-AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCATAAGCC
48018492 CTTTT
1 CTTTT
48018497 TCACTTCCTC
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
49 5 0.10
50 3 0.06
51 10 0.20
52 33 0.65
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (49 bp):
CTTTTAATAACTGGGGCAAAGCCCTTTTCGGTAAACTGGGGCATAAGCC
Found at i:48018571 original size:20 final size:21
Alignment explanation
Indices: 48018546--48018602 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 21
48018536 TTATGATTAC
* *
48018546 ATCATGTGTATTTCATA-CAT
1 ATCATGTGCATATCATATCAT
48018566 ATCATGTGCATATCATATCAT
1 ATCATGTGCATATCATATCAT
48018587 -TCATGT--ATATCATATC
1 ATCATGTGCATATCATATC
48018603 CCACGTATCA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 10 0.29
20 21 0.62
21 3 0.09
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.42
Consensus pattern (21 bp):
ATCATGTGCATATCATATCAT
Found at i:48018598 original size:18 final size:19
Alignment explanation
Indices: 48018552--48018602 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
48018542 TTACATCATG
*
48018552 TGTATTTCATA-CATATCA
1 TGTATATCATATCATATCA
48018570 TGTGCATATCATATCAT-TCA
1 TGT--ATATCATATCATATCA
48018590 TGTATATCATATC
1 TGTATATCATATC
48018603 CCACGTATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
18 13 0.45
20 13 0.45
21 3 0.10
ACGTcount: A:0.31, C:0.18, G:0.08, T:0.43
Consensus pattern (19 bp):
TGTATATCATATCATATCA
Found at i:48020001 original size:15 final size:17
Alignment explanation
Indices: 48019971--48020002 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
48019961 CAGCACAAGT
48019971 GAAAAGAAAGAAGAGAA
1 GAAAAGAAAGAAGAGAA
48019988 GAAAA-AAA-AAGAGAA
1 GAAAAGAAAGAAGAGAA
48020003 AAATGCTACC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (17 bp):
GAAAAGAAAGAAGAGAA
Found at i:48026680 original size:26 final size:26
Alignment explanation
Indices: 48026635--48026706 Score: 128
Period size: 26 Copynumber: 2.8 Consensus size: 26
48026625 CTCTTTTAAT
48026635 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
48026660 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
48026686 AACTTGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
48026707 GCACTTCCTC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
25 10 0.22
26 35 0.78
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.28
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:48026781 original size:20 final size:21
Alignment explanation
Indices: 48026756--48026812 Score: 77
Period size: 20 Copynumber: 2.9 Consensus size: 21
48026746 TTATGATTAC
*
48026756 ATCATGTGCATTTCATA-CAT
1 ATCATGTGCATATCATATCAT
48026776 ATCATGTGCATATCATATCAT
1 ATCATGTGCATATCATATCAT
48026797 -TCATGT--ATATCATATC
1 ATCATGTGCATATCATATC
48026813 CCACGTATCA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
18 10 0.29
20 22 0.63
21 3 0.09
ACGTcount: A:0.32, C:0.19, G:0.09, T:0.40
Consensus pattern (21 bp):
ATCATGTGCATATCATATCAT
Found at i:48026866 original size:25 final size:25
Alignment explanation
Indices: 48026838--48026885 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
48026828 ATAATTAAAC
* * *
48026838 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATAGTCATTTTTA
48026863 CCTAGGGGCAAAATAGTCATTTT
1 CCTAGGGGCAAAATAGTCATTTT
48026886 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATAGTCATTTTTA
Found at i:48028225 original size:15 final size:17
Alignment explanation
Indices: 48028195--48028226 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
48028185 CGGCACAAGT
48028195 GAAAAGAAAGAAGAGAA
1 GAAAAGAAAGAAGAGAA
48028212 GAAAA-AAA-AAGAGAA
1 GAAAAGAAAGAAGAGAA
48028227 AAATGCCACC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (17 bp):
GAAAAGAAAGAAGAGAA
Found at i:48029401 original size:54 final size:53
Alignment explanation
Indices: 48029291--48029403 Score: 122
Period size: 54 Copynumber: 2.1 Consensus size: 53
48029281 CACATGGGCA
* * * *
48029291 TGTGTGGCAACTCATAGAGTTACACGGCCTAGCACACGGCTTGGCACACAAGCG
1 TGTGTGGCAACTCATAGAGTTACACGG-CTAGCACACAGATTGGAACACAACCG
* *
48029345 TGTGTGGCAACTCAGT-GAGTTACACAGG-TGAGGACACAGATTGGAACACGACCG
1 TGTGTGGCAACTCA-TAGAGTTACAC-GGCT-AGCACACAGATTGGAACACAACCG
48029399 TGTGT
1 TGTGT
48029404 CCCTTGTTTG
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
53 1 0.02
54 46 0.92
55 3 0.06
ACGTcount: A:0.27, C:0.23, G:0.30, T:0.20
Consensus pattern (53 bp):
TGTGTGGCAACTCATAGAGTTACACGGCTAGCACACAGATTGGAACACAACCG
Found at i:48029696 original size:16 final size:17
Alignment explanation
Indices: 48029653--48029696 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
48029643 TAGGAGTGTT
*
48029653 ACAACTATAGACTATGA
1 ACAACTATAGACTAAGA
* *
48029670 AAAAATATAGACTAAG-
1 ACAACTATAGACTAAGA
48029686 ACAACTATAGA
1 ACAACTATAGA
48029697 TTGTGAAAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.55, C:0.14, G:0.11, T:0.20
Consensus pattern (17 bp):
ACAACTATAGACTAAGA
Found at i:48029728 original size:16 final size:16
Alignment explanation
Indices: 48029692--48029731 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
48029682 TAAGACAACT
* *
48029692 ATAGATTGTGAAAATT
1 ATAGATAGTGAAAATG
*
48029708 CTAGATAGTGAAAATG
1 ATAGATAGTGAAAATG
48029724 ATAGATAG
1 ATAGATAG
48029732 AGAGATAAAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.45, C:0.03, G:0.23, T:0.30
Consensus pattern (16 bp):
ATAGATAGTGAAAATG
Found at i:48041998 original size:27 final size:27
Alignment explanation
Indices: 48041968--48042019 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
48041958 TCATACATCT
48041968 CATAGGGGCATAACAGTCATTTTATCA
1 CATAGGGGCATAACAGTCATTTTATCA
*
48041995 CATAGGGGCATAATAGTCATTTTAT
1 CATAGGGGCATAACAGTCATTTTAT
48042020 TGATTAGAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (27 bp):
CATAGGGGCATAACAGTCATTTTATCA
Found at i:48045191 original size:22 final size:22
Alignment explanation
Indices: 48045163--48045207 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
48045153 ATTATGATGA
48045163 TTGATATGT-TGAGATTGATATT
1 TTGATATGTATGAGATT-ATATT
48045185 TTGATATGTATGAGATTATATT
1 TTGATATGTATGAGATTATATT
48045207 T
1 T
48045208 GTAATGATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.29, C:0.00, G:0.20, T:0.51
Consensus pattern (22 bp):
TTGATATGTATGAGATTATATT
Found at i:48046568 original size:17 final size:17
Alignment explanation
Indices: 48046537--48046574 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
48046527 CCATAGAATA
48046537 TTTTTTT-TATTTTTCT
1 TTTTTTTGTATTTTTCT
48046553 TCTTTTTTGTA-TTTTCT
1 T-TTTTTTGTATTTTTCT
48046570 TTTTT
1 TTTTT
48046575 ATGACTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 5 0.25
17 13 0.65
18 2 0.10
ACGTcount: A:0.05, C:0.08, G:0.03, T:0.84
Consensus pattern (17 bp):
TTTTTTTGTATTTTTCT
Found at i:48046848 original size:50 final size:50
Alignment explanation
Indices: 48046773--48046877 Score: 201
Period size: 50 Copynumber: 2.1 Consensus size: 50
48046763 CACAAAAAAA
48046773 GAACATAAAACGCTCAAATATAATACCAAATAATAACAATGAGTGTGGAT
1 GAACATAAAACGCTCAAATATAATACCAAATAATAACAATGAGTGTGGAT
*
48046823 GAACATAAAACGCTCAAATATAATACCAAATAATACCAATGAGTGTGGAT
1 GAACATAAAACGCTCAAATATAATACCAAATAATAACAATGAGTGTGGAT
48046873 GAACA
1 GAACA
48046878 CAGAAGCAGA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.50, C:0.15, G:0.14, T:0.21
Consensus pattern (50 bp):
GAACATAAAACGCTCAAATATAATACCAAATAATAACAATGAGTGTGGAT
Found at i:48055040 original size:42 final size:42
Alignment explanation
Indices: 48054993--48055077 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
48054983 TGATTAAGAC
48054993 AATACCTAAGGAAAAATCAACCTAGACTTCACTTGTTATTTG
1 AATACCTAAGGAAAAATCAACCTAGACTTCACTTGTTATTTG
48055035 AATACCTAAGGAAAAATCAACCTAGACTTCACTTGTTATTTG
1 AATACCTAAGGAAAAATCAACCTAGACTTCACTTGTTATTTG
48055077 A
1 A
48055078 CTCTAAACTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.31
Consensus pattern (42 bp):
AATACCTAAGGAAAAATCAACCTAGACTTCACTTGTTATTTG
Found at i:48057144 original size:39 final size:40
Alignment explanation
Indices: 48056949--48057162 Score: 247
Period size: 40 Copynumber: 5.4 Consensus size: 40
48056939 TCGAATGATG
* * *
48056949 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
48056990 TCCGGG-TCAA-TTCCGAAGGCATTTGTGCGAGTTACCAAA
1 TCCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
48057029 ACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
48057069 ACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
48057109 TCCGGGCTAATTCCC-AAGGCAATTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
48057149 -CCGGGCTATGTCCC
1 TCCGGGCTAAGTCCC
48057163 AAGACAATCG
Statistics
Matches: 154, Mismatches: 15, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
39 47 0.31
40 99 0.64
41 8 0.05
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:48065432 original size:30 final size:30
Alignment explanation
Indices: 48065396--48065526 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
48065386 GACAAGATTG
* * * * *
48065396 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
48065426 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
48065454 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
48065484 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
48065513 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
48065527 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:48065487 original size:58 final size:58
Alignment explanation
Indices: 48065396--48065526 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
48065386 GACAAGATTG
* * * * * *
48065396 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
48065454 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
48065513 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
48065527 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:48073384 original size:30 final size:30
Alignment explanation
Indices: 48073348--48073478 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
48073338 GACAAGATTG
* * * * *
48073348 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
48073378 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
48073406 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
48073436 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
48073465 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
48073479 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:48073439 original size:58 final size:58
Alignment explanation
Indices: 48073348--48073478 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
48073338 GACAAGATTG
* * * * * *
48073348 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
48073406 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
48073465 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
48073479 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:48075439 original size:2 final size:2
Alignment explanation
Indices: 48075432--48075457 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
48075422 CGGCTCTAGC
48075432 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
48075458 GTTTGCACAT
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:48076263 original size:40 final size:40
Alignment explanation
Indices: 48076167--48076381 Score: 252
Period size: 40 Copynumber: 5.3 Consensus size: 40
48076157 CGAATGATGT
* * * *
48076167 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* *
48076208 CCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* *
48076248 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* *
48076288 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * * *
48076328 CCGGGCTAATTTCCAAAGGCAATTGTGCGAATTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
48076368 CCGGGCTATGTCCC
1 CCGGGCTAAGTCCC
48076382 AAAGACAATC
Statistics
Matches: 152, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
40 127 0.84
41 25 0.16
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:48087477 original size:49 final size:49
Alignment explanation
Indices: 48087341--48087747 Score: 731
Period size: 49 Copynumber: 8.5 Consensus size: 49
48087331 GATTTTATGC
48087341 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT-GCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
48087389 GATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
48087436 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
*
48087485 GATGAA--TGAAAGTGTATATATATGTGATAAGGCCAAATGGCCG-TGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
48087531 GATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
48087578 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
48087627 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
* *
48087676 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCAAATGGCCAATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
48087725 GATGAATGTGAAAGTGTATATAT
1 GATGAATGTGAAAGTGTATATAT
48087748 GTATAAAGCC
Statistics
Matches: 347, Mismatches: 4, Indels: 15
0.95 0.01 0.04
Matches are distributed among these distances:
46 57 0.16
47 79 0.23
48 24 0.07
49 187 0.54
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (49 bp):
GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
Found at i:48087518 original size:142 final size:144
Alignment explanation
Indices: 48087341--48087747 Score: 730
Period size: 142 Copynumber: 2.8 Consensus size: 144
48087331 GATTTTATGC
48087341 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTG
1 GATGAA-GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
48087405 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
65 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
48087470 CCTAATGGCCGATGT
130 CCTAATGGCCGATGT
*
48087485 GATGAA-TGAAAGTGTATATATATGTGATAAGGCCAAATGGCCG-TGTGATGAATGTGAAAGTGT
1 GATGAAGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
48087548 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
66 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
48087613 CTAATGGCCGATGT
131 CTAATGGCCGATGT
48087627 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 GATGAA-GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
48087692 TATATATATGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
65 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
48087748 GTATAAAGCC
Statistics
Matches: 253, Mismatches: 4, Indels: 9
0.95 0.02 0.03
Matches are distributed among these distances:
142 136 0.54
143 4 0.02
144 42 0.17
145 19 0.08
147 52 0.21
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (144 bp):
GATGAAGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
CTAATGGCCGATGT
Found at i:48087794 original size:98 final size:97
Alignment explanation
Indices: 48087341--48087764 Score: 713
Period size: 95 Copynumber: 4.4 Consensus size: 97
48087331 GATTTTATGC
48087341 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTG
1 GATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
48087405 --TATATATGTGATAAGGCCTAATGGCCGATGT
65 TATATATATGTGATAAGGCCAAATGGCCGATGT
48087436 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA--TGAAAGTG
1 GATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
48087499 TATATATATGTGATAAGGCCAAATGGCCG-TGT
65 TATATATATGTGATAAGGCCAAATGGCCGATGT
48087531 GATGAATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 GATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
*
48087595 ATATATATGTGATAAGGCCTAATGGCCGATGT
66 ATATATATGTGATAAGGCCAAATGGCCGATGT
48087627 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 GATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
48087692 TATATATATGTGATAAGGCCAAATGGCCAATGT
65 TATATATATGTGATAAGGCCAAATGGCCGATGT
* *
48087725 GATGAATGTGAAAGTG-TATATATGT-ATAAAGCCGAATGGC
1 GATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGC
48087765 TAATGTGAAA
Statistics
Matches: 315, Mismatches: 6, Indels: 16
0.93 0.02 0.05
Matches are distributed among these distances:
93 37 0.12
94 8 0.03
95 108 0.34
96 68 0.22
98 94 0.30
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (97 bp):
GATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
ATATATATGTGATAAGGCCAAATGGCCGATGT
Found at i:48087806 original size:48 final size:48
Alignment explanation
Indices: 48087743--48087917 Score: 246
Period size: 48 Copynumber: 3.7 Consensus size: 48
48087733 TGAAAGTGTA
* * *
48087743 TATATGT-ATAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
48087790 TATATGTGGTAAAGCCGAATGG-TGAATGTGAAATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTGAAATATATATGAGATATG
* * * *
48087838 TATATGTCGTAAAGTCGAATGGCGAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
* *
48087886 AATATGTGGTAAAGCCGTATGGCTAATGTGAA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAA
48087918 TGTTGTAACA
Statistics
Matches: 113, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
47 8 0.07
48 105 0.93
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
Found at i:48088768 original size:17 final size:17
Alignment explanation
Indices: 48088737--48088774 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
48088727 CCATAGAATA
48088737 TTTTTTT-TATTTTTCT
1 TTTTTTTGTATTTTTCT
48088753 TCTTTTTTGTA-TTTTCT
1 T-TTTTTTGTATTTTTCT
48088770 TTTTT
1 TTTTT
48088775 ATGACTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 5 0.25
17 13 0.65
18 2 0.10
ACGTcount: A:0.05, C:0.08, G:0.03, T:0.84
Consensus pattern (17 bp):
TTTTTTTGTATTTTTCT
Found at i:48089048 original size:50 final size:50
Alignment explanation
Indices: 48088973--48089077 Score: 201
Period size: 50 Copynumber: 2.1 Consensus size: 50
48088963 CACAAAAAAA
48088973 GAACATAAAACGCTCAAATATAATACCAAATAATAACAATGAGTGTGGAT
1 GAACATAAAACGCTCAAATATAATACCAAATAATAACAATGAGTGTGGAT
*
48089023 GAACATAAAACGCTCAAATATAATACCAAATAATACCAATGAGTGTGGAT
1 GAACATAAAACGCTCAAATATAATACCAAATAATAACAATGAGTGTGGAT
48089073 GAACA
1 GAACA
48089078 CAGAAGCAGA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.50, C:0.15, G:0.14, T:0.21
Consensus pattern (50 bp):
GAACATAAAACGCTCAAATATAATACCAAATAATAACAATGAGTGTGGAT
Found at i:48089210 original size:13 final size:13
Alignment explanation
Indices: 48089192--48089238 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
48089182 AAGTCAGATA
*
48089192 AAATAATTAAAAT
1 AAATAAATAAAAT
* *
48089205 AAATAACTAAGAT
1 AAATAAATAAAAT
48089218 AAATAAAATAAAAT
1 AAAT-AAATAAAAT
48089232 -AATAAAT
1 AAATAAAT
48089239 CAAGGACTAG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
12 4 0.14
13 18 0.62
14 7 0.24
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (13 bp):
AAATAAATAAAAT
Found at i:48107027 original size:49 final size:49
Alignment explanation
Indices: 48106974--48107450 Score: 851
Period size: 49 Copynumber: 9.9 Consensus size: 49
48106964 GATTTTATGC
48106974 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
48107023 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT-GCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
48107071 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
48107120 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
*
48107169 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCAAATGGCCG--GT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
*
48107216 GATAAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
48107263 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
48107312 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
* *
48107361 GATGAATGTGAAAGTGTATATATATATGATAAGGCCTAATGGCCAATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
* *
48107410 GATGAATGTGAAAGTG--TATATATGTGATAAAGCCGAATGGC
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
48107451 TAATGTGAAA
Statistics
Matches: 414, Mismatches: 9, Indels: 12
0.95 0.02 0.03
Matches are distributed among these distances:
45 26 0.06
47 56 0.14
48 48 0.12
49 284 0.69
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (49 bp):
GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
Found at i:48107305 original size:192 final size:192
Alignment explanation
Indices: 48106974--48107450 Score: 839
Period size: 192 Copynumber: 2.5 Consensus size: 192
48106964 GATTTTATGC
48106974 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG--GTGATGAATGTGAAAGTG
48107039 TATATATATGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAA
64 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAA
48107103 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATG
127 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATG
48107168 T
192 T
* *
48107169 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCAAATGGCCGGTGATAAATGTGAAAGTGTA
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGGTGATGAATGTGAAAGTGTA
48107234 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
66 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
48107299 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
131 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
* *
48107361 GATGAATGTGAAAGTGTATATATATATGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC--GGTGATGAATGTGAAAGTG
* *
48107426 TATATATGTGATAAAGCCGAATGGC
64 TATATATGTGATAAGGCCTAATGGC
48107451 TAATGTGAAA
Statistics
Matches: 271, Mismatches: 8, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
191 22 0.08
192 148 0.55
193 17 0.06
194 40 0.15
195 44 0.16
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (192 bp):
GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGGTGATGAATGTGAAAGTGTA
TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
Found at i:48107489 original size:48 final size:48
Alignment explanation
Indices: 48107428--48107603 Score: 255
Period size: 48 Copynumber: 3.7 Consensus size: 48
48107418 TGAAAGTGTA
* * *
48107428 TATATGTGATAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
48107476 TATATGTGGTAAAGCCGAATGG-TGAATGTGAAATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTGAAATATATATGAGATATG
* * * *
48107524 TATATGTCGTAAAGTCGAATGGCGAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
* *
48107572 AATATGTGGTAAAGCCGTATGGCTAATGTGAA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAA
48107604 TGTTGTAACA
Statistics
Matches: 114, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
47 1 0.01
48 113 0.99
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
Found at i:48107734 original size:37 final size:37
Alignment explanation
Indices: 48107637--48107734 Score: 178
Period size: 37 Copynumber: 2.6 Consensus size: 37
48107627 ACATGAAACT
*
48107637 TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
1 TGGAGATTATGTCCGGGTAAGACTCGATGACTACGTG
*
48107674 TGGAGATTATGTCTGGGTAAGACTCGATGACTACGTG
1 TGGAGATTATGTCCGGGTAAGACTCGATGACTACGTG
48107711 TGGAGATTATGTCCGGGTAAGACT
1 TGGAGATTATGTCCGGGTAAGACT
48107735 TCGTAATAAG
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.24, C:0.15, G:0.33, T:0.28
Consensus pattern (37 bp):
TGGAGATTATGTCCGGGTAAGACTCGATGACTACGTG
Found at i:48117218 original size:26 final size:26
Alignment explanation
Indices: 48117189--48117239 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
48117179 CAATTGGGCG
*
48117189 ACTTTCTCCTTTAGGCTTTATATTAC
1 ACTTTCTCCTTCAGGCTTTATATTAC
48117215 ACTTTCTCCTTCAGGCTTTATATTA
1 ACTTTCTCCTTCAGGCTTTATATTA
48117240 ATTTTTAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.20, C:0.24, G:0.08, T:0.49
Consensus pattern (26 bp):
ACTTTCTCCTTCAGGCTTTATATTAC
Found at i:48118929 original size:10 final size:10
Alignment explanation
Indices: 48118904--48118937 Score: 59
Period size: 10 Copynumber: 3.3 Consensus size: 10
48118894 AACAACCTAC
48118904 AAAATTAAAA
1 AAAATTAAAA
48118914 AGAAATTAAAA
1 A-AAATTAAAA
48118925 AAAATTAAAA
1 AAAATTAAAA
48118935 AAA
1 AAA
48118938 TCGTATCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 13 0.57
11 10 0.43
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (10 bp):
AAAATTAAAA
Found at i:48120438 original size:71 final size:71
Alignment explanation
Indices: 48120354--48120517 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
48120344 CGATTTGTCT
48120354 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
48120419 CTTTCA
66 CTTTCA
* *
48120425 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
48120490 CTTTCA
66 CTTTCA
48120496 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
48120518 GATACATCTC
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
CTTTCA
Found at i:48120555 original size:71 final size:70
Alignment explanation
Indices: 48120354--48120551 Score: 249
Period size: 71 Copynumber: 2.8 Consensus size: 70
48120344 CGATTTGTCT
* * * * *
48120354 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
48120419 CTTTCA
65 CTTTCA
* * * *
48120425 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
48120490 CTTTCA
65 CTTTCA
* *
48120496 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
48120552 TACAGGGTGT
Statistics
Matches: 118, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 1 0.01
71 94 0.80
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:48127581 original size:40 final size:40
Alignment explanation
Indices: 48127496--48127646 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
48127486 AATTGAATGA
* * *
48127496 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
48127536 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
48127577 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
48127616 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
48127647 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:48127660 original size:40 final size:40
Alignment explanation
Indices: 48127533--48127662 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
48127523 ATGCTGGAAA
* * * *
48127533 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
48127573 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
48127613 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
48127653 TTATATCCGG
1 TTATATCCGG
48127663 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:48135577 original size:40 final size:40
Alignment explanation
Indices: 48135492--48135642 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
48135482 AATTGAATGA
* * *
48135492 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
48135532 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
48135573 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
48135612 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
48135643 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:48135656 original size:40 final size:40
Alignment explanation
Indices: 48135529--48135658 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
48135519 ATGCTGGAAA
* * * *
48135529 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
48135569 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
48135609 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
48135649 TTATATCCGG
1 TTATATCCGG
48135659 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:48142559 original size:47 final size:47
Alignment explanation
Indices: 48142505--48142697 Score: 255
Period size: 47 Copynumber: 4.1 Consensus size: 47
48142495 TTAGGATTTT
** * *
48142505 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
48142552 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
48142599 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
48142646 ATGTGGTGAATATGAGATATG--TATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGA-ACATGCATATATGTGATAAGGCCGAATGGCCA
48142692 ATGTGA
1 ATGTGA
48142698 AATATGTATG
Statistics
Matches: 130, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
46 26 0.20
47 101 0.78
48 3 0.02
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:48142605 original size:22 final size:22
Alignment explanation
Indices: 48142534--48142605 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
48142524 GTATATATGA
48142534 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
48142556 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
48142581 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
48142603 GAT
1 GAT
48142606 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:48142606 original size:94 final size:93
Alignment explanation
Indices: 48142505--48142883 Score: 261
Period size: 96 Copynumber: 4.0 Consensus size: 93
48142495 TTAGGATTTT
** * *
48142505 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGA-AC
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATATGAGAC
*
48142569 ATGCATATATGTGATAAGGCCGAATGGCCA
66 ATG--TATATGTGATAAAGCCGAATGGCCA
* * * * *
48142599 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAGAT
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATATGAGAC
* *
48142664 ATGTATATGTGGTAAAGCCGAATGGCTA
66 ATGTATATGTGATAAAGCCGAATGGCCA
* ** * * * * *
48142692 ATGTGA-AATATGTATGAGGTATG--TATATGTGGTAAAGCCGAATGGCTAATGTGAAAT-ATGT
1 ATGTGATGA-ATG--TGA-ACATGCATATATGAGATAAGGCCGAATGGCCAATGTG--ATGA-AT
* * *
48142753 ATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
59 ATGAGACATGTATATGTGATAAAGCCGAATGGCCA
* * * * * * *
48142788 ATGTGA-GATATGTATGAGATATGCATATGTG-G-TAAAGCTGAATAGTCAATGTGAAATATATA
1 ATGTGATGA-ATG--TGA-ACATGCATATATGAGATAAGGCCGAATGGCCAATGTG--AT-GA-A
* *
48142850 TATGAGATATGTATATGTGGTAAAGCCGAATGGC
58 TATGAGACATGTATATGTGATAAAGCCGAATGGC
48142884 TAGTGTGAAA
Statistics
Matches: 245, Mismatches: 28, Indels: 20
0.84 0.10 0.07
Matches are distributed among these distances:
92 1 0.00
93 31 0.13
94 80 0.33
95 8 0.03
96 83 0.34
97 1 0.00
98 41 0.17
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.29
Consensus pattern (93 bp):
ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATATGAGAC
ATGTATATGTGATAAAGCCGAATGGCCA
Found at i:48142654 original size:25 final size:25
Alignment explanation
Indices: 48142579--48142654 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
48142569 ATGCATATAT
48142579 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
48142604 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
48142626 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
48142651 GTGA
1 GTGA
48142655 ATATGAGATA
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:48142715 original size:48 final size:48
Alignment explanation
Indices: 48142656--48142899 Score: 391
Period size: 48 Copynumber: 5.0 Consensus size: 48
48142646 ATGTGGTGAA
48142656 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
*
48142704 TATGAGGTATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
*
48142752 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAGATATG
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
* * * *
48142800 TATGAGATATGCATATGTGGTAAAGCTGAATAG-TCAATGTGAAATATATA
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATG
*
48142850 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATG
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
48142898 TA
1 TA
48142900 GGCGATGTGC
Statistics
Matches: 179, Mismatches: 13, Indels: 8
0.89 0.06 0.04
Matches are distributed among these distances:
47 1 0.01
48 135 0.75
49 3 0.02
50 39 0.22
51 1 0.01
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.32
Consensus pattern (48 bp):
TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
Found at i:48142891 original size:98 final size:96
Alignment explanation
Indices: 48142574--48142899 Score: 398
Period size: 96 Copynumber: 3.4 Consensus size: 96
48142564 TGAACATGCA
* * * * * *
48142574 TATATGTGATAAGGCCGAATGGCCAATGTGATGA-ATG--TGAG-CATGCATATGTGTGATAAGG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGA-AATATGTATGAGATATGCATATGTG-G-TAAAG
* *
48142635 CCGAATGGCCAATGTG--GTGA-ATATGAGATATG
63 CCGAATGGCTAATGTGAAAT-ATATATGAGATATG
* *
48142667 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGGTATGTATATGTGGTAAAGCCG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCG
*
48142732 AATGGCTAATGTGAAATATGTATGAGATATG
66 AATGGCTAATGTGAAATATATATGAGATATG
* *
48142763 TATATGTGGTAAAGCCGAATGGCTAATGTGAGATATGTATGAGATATGCATATGTGGTAAAGCTG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCG
*
48142828 AATAG-TCAATGTGAAATATATATATGAGATATG
66 AATGGCT-AATGTG-AA-ATATATATGAGATATG
*
48142861 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
48142900 GGCGATGTGC
Statistics
Matches: 205, Mismatches: 18, Indels: 15
0.86 0.08 0.06
Matches are distributed among these distances:
92 1 0.00
93 31 0.15
94 19 0.09
95 7 0.03
96 93 0.45
97 2 0.01
98 52 0.25
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (96 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCG
AATGGCTAATGTGAAATATATATGAGATATG
Found at i:48142948 original size:146 final size:143
Alignment explanation
Indices: 48142656--48142937 Score: 365
Period size: 146 Copynumber: 2.0 Consensus size: 143
48142646 ATGTGGTGAA
* * *
48142656 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGGTATGTATATG
1 TATGAGATATGCATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
* * *
48142721 TGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGC
66 TGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAGATATGTATATGTGGT-AAGCCGAACGAC
*
48142786 TAATGTGAGATATG
130 CAATGTGAGATATG
* *
48142800 TATGAGATATGCATATGTGGTAAAGCTGAATAG-TCAATGTGAAATATATATATGAGATATGTAT
1 TATGAGATATGCATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATATATGAGATATGTAT
* * * *
48142864 ATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGCGATGTGCGTATAT-T-GT-GGCCGAA
63 ATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAGATAT--GTATATGTGGTAAGCCGAA
48142926 CGACCAATGTGA
126 CGACCAATGTGA
48142938 AAGGTGTGTA
Statistics
Matches: 120, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
143 1 0.01
144 51 0.43
145 2 0.02
146 59 0.49
147 1 0.01
148 6 0.05
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (143 bp):
TATGAGATATGCATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
TGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAGATATGTATATGTGGTAAGCCGAACGACC
AATGTGAGATATG
Found at i:48143100 original size:37 final size:37
Alignment explanation
Indices: 48143045--48143224 Score: 306
Period size: 37 Copynumber: 4.9 Consensus size: 37
48143035 GGAAATATAT
* *
48143045 TCCGAGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
48143082 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
48143119 TCCAGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
48143156 TCCAGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
48143193 TCCGGGTAAGACCCGATAACTTCGTGTGGAGA
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGA
48143225 CTTCGCCTGA
Statistics
Matches: 137, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 137 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:48144372 original size:80 final size:80
Alignment explanation
Indices: 48144239--48144547 Score: 471
Period size: 79 Copynumber: 3.9 Consensus size: 80
48144229 GAGAATTGAG
*
48144239 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
48144304 AAGAGCATTCGTGCT
66 AAGAGCATTCGTGCT
*
48144319 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCG
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
48144384 AAGAGCATTCGT-CT
66 AAGAGCATTCGTGCT
* * * * *
48144398 AGTGATGTATTCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTAT-CGGACTAAGTCCCG
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
48144462 AAGAGCATTCGTGCT
66 AAGAGCATTCGTGCT
* * * * * * *
48144477 AGTGATGTA-CCGGACTAAGTTCTGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAGGTCCCG
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
48144541 AAGAGCA
66 AAGAGCA
48144548 ATCATGCTGG
Statistics
Matches: 211, Mismatches: 16, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
78 57 0.27
79 79 0.37
80 75 0.36
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
AAGAGCATTCGTGCT
Found at i:48144559 original size:40 final size:40
Alignment explanation
Indices: 48144239--48144547 Score: 471
Period size: 40 Copynumber: 7.8 Consensus size: 40
48144229 GAGAATTGAG
48144239 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
48144279 AGTGATATATCCGGGCTAAGTCCCAAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
48144319 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
48144359 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGT-CT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
48144398 AGTGATGTATTCGGGCTAAGTCCCGAAGAGCATTCATGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
48144438 AGTGATGTAT-CGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
48144477 AGTGATGTA-CCGGACTAAGTTCTGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
48144516 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
48144548 ATCATGCTGG
Statistics
Matches: 250, Mismatches: 16, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
39 106 0.42
40 144 0.58
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:48148686 original size:47 final size:47
Alignment explanation
Indices: 48148632--48148824 Score: 246
Period size: 47 Copynumber: 4.1 Consensus size: 47
48148622 TTAGGATTTT
** * *
48148632 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
48148679 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
48148726 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * * *
48148773 ATGTGGTGAATATGAGATATG--TATATGTGGTAAAGTCGAATGGCTA
1 ATGTGATGAATGTGA-ACATGCATATATGTGATAAGGCCGAATGGCCA
48148819 ATGTGA
1 ATGTGA
48148825 AATATGTATG
Statistics
Matches: 129, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
46 25 0.19
47 101 0.78
48 3 0.02
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:48148730 original size:94 final size:93
Alignment explanation
Indices: 48148632--48149010 Score: 252
Period size: 96 Copynumber: 4.0 Consensus size: 93
48148622 TTAGGATTTT
** * *
48148632 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGA-AC
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATATGAGAC
*
48148696 ATGCATATATGTGATAAGGCCGAATGGCCA
66 ATG--TATATGTGATAAAGCCGAATGGCCA
* * * * *
48148726 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAGAT
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATATGAGAC
* * *
48148791 ATGTATATGTGGTAAAGTCGAATGGCTA
66 ATGTATATGTGATAAAGCCGAATGGCCA
* ** * * * * *
48148819 ATGTGA-AATATGTATGAGGTATG--TATATGTGGTAAAGCCGAATGGCTAATGTGAAAT-ATGT
1 ATGTGATGA-ATG--TGA-ACATGCATATATGAGATAAGGCCGAATGGCCAATGTG--ATGA-AT
* * *
48148880 ATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
59 ATGAGACATGTATATGTGATAAAGCCGAATGGCCA
* * * * * * *
48148915 ATGTGA-GATATGTATGAGATATGC--ATATGCGGTAAAGCTGAATGGTCAATGTGAAATATATA
1 ATGTGATGA-ATG--TGA-ACATGCATATATGAGATAAGGCCGAATGGCCAATGTG--AT-GA-A
* *
48148977 TATGAGATATGTATATGTGGTAAAGCCGAATGGC
58 TATGAGACATGTATATGTGATAAAGCCGAATGGC
48149011 TAGTGTGAAA
Statistics
Matches: 245, Mismatches: 29, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
92 1 0.00
93 30 0.12
94 80 0.33
95 8 0.03
96 90 0.37
98 36 0.15
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (93 bp):
ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATATGAGAC
ATGTATATGTGATAAAGCCGAATGGCCA
Found at i:48148732 original size:22 final size:22
Alignment explanation
Indices: 48148661--48148732 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
48148651 GTATATATGA
48148661 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
48148683 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
48148708 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
48148730 GAT
1 GAT
48148733 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:48148781 original size:25 final size:25
Alignment explanation
Indices: 48148706--48148781 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
48148696 ATGCATATAT
48148706 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
48148731 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
48148753 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
48148778 GTGA
1 GTGA
48148782 ATATGAGATA
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:48148842 original size:48 final size:48
Alignment explanation
Indices: 48148783--48149026 Score: 382
Period size: 48 Copynumber: 5.0 Consensus size: 48
48148773 ATGTGGTGAA
*
48148783 TATGAGATATGTATATGTGGTAAAGTCGAATGGCTAATGTGAAATATG
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
*
48148831 TATGAGGTATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
*
48148879 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAGATATG
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
* * * *
48148927 TATGAGATATGCATATGCGGTAAAGCTGAATGG-TCAATGTGAAATATATA
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATG
*
48148977 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATG
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
48149025 TA
1 TA
48149027 GGCGATGTGC
Statistics
Matches: 178, Mismatches: 14, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
47 1 0.01
48 134 0.75
49 3 0.02
50 39 0.22
51 1 0.01
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.32
Consensus pattern (48 bp):
TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
Found at i:48149224 original size:37 final size:37
Alignment explanation
Indices: 48149174--48149314 Score: 246
Period size: 37 Copynumber: 3.8 Consensus size: 37
48149164 AAATATATTT
*
48149174 CGGGTAAGACCCGATGACTACGTGTGGAGATTATGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
48149211 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
*
48149248 CAGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
* *
48149285 CGGGTAAGACCCGATAACTCCGTGTGGAGA
1 CGGGTAAGACCCGATGACTACGTGTGGAGA
48149315 CTTCGCCTGA
Statistics
Matches: 99, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 99 1.00
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (37 bp):
CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
Found at i:48155407 original size:40 final size:40
Alignment explanation
Indices: 48155363--48155472 Score: 143
Period size: 40 Copynumber: 2.8 Consensus size: 40
48155353 ATAATCACGT
* *
48155363 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACAACTA
* * *
48155403 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACAACTA
*
48155443 GCAC-AATTGCCTTCGGGT-TTAACCCGGATA
1 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATA
48155473 TAATTTCCAG
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
39 13 0.21
40 50 0.79
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.24
Consensus pattern (40 bp):
GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACAACTA
Found at i:48155490 original size:39 final size:39
Alignment explanation
Indices: 48155347--48155513 Score: 124
Period size: 40 Copynumber: 4.2 Consensus size: 39
48155337 TGGAATATAA
* **
48155347 CCGGATATAATCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACCACCAGCAC-AATTGCCTTCGGGT-TTAGC
* **
48155387 CCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-CAGCAC-AATTGCCTTCGGGT-TTAGC
* * *
48155427 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTTTAAC
1 CCGGATATAACCACCAGCACAATTGCCTTCGGGTTTAGC
*** * * *
48155466 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACCAGCACAATTGCCTTC-GGGTTTAGC
48155506 CCGGATAT
1 CCGGATAT
48155514 CATTCAATTT
Statistics
Matches: 105, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 29 0.28
40 76 0.72
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACCAGCACAATTGCCTTCGGGTTTAGC
Found at i:48159853 original size:68 final size:68
Alignment explanation
Indices: 48159686--48159861 Score: 166
Period size: 68 Copynumber: 2.6 Consensus size: 68
48159676 TAGTACCACT
* * * * *
48159686 CATGCGACCTAGC--CA-ATTTATCTCGTAGCTCTCTTGTCTACATGGTATCCTTCACTTGGAAT
1 CATGCGACCTAGCTACATATATATCTCGTAGCTCTCTTGTCTACATGGGATACATCAC-TCGAAT
*
48159748 CACT
65 CACA
* * *
48159752 CATGCGACCTAGCTACATTTATCTCTTACGTAGCTCTCTTGTCTACATGGGATACATC-C-CGTA
1 CATGCGACCTAGCTACATATATATC-T-CGTAGCTCTCTTGTCTACATGGGATACATCACTCGAA
48159815 TCACA
64 TCACA
*
48159820 CATGTGACCTAGCTACTATATAGTATCTCGTAGC-CTTCTTGT
1 CATGCGACCTAGCTAC-ATATA-TATCTCGTAGCTC-TCTTGT
48159862 GCACATGATG
Statistics
Matches: 90, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
66 13 0.14
67 1 0.01
68 35 0.39
69 9 0.10
70 5 0.06
71 27 0.30
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCTACATATATATCTCGTAGCTCTCTTGTCTACATGGGATACATCACTCGAATC
ACA
Found at i:48171288 original size:47 final size:47
Alignment explanation
Indices: 48171215--48171309 Score: 172
Period size: 47 Copynumber: 2.0 Consensus size: 47
48171205 AGCATAGGAG
* *
48171215 AGTAAAAAGAGCGAGAAATGAGCCGAAAATGGAGAAAATGGACCCAC
1 AGTAAAAAGAGCGAGAAACGAACCGAAAATGGAGAAAATGGACCCAC
48171262 AGTAAAAAGAGCGAGAAACGAACCGAAAATGGAGAAAATGGACCCAC
1 AGTAAAAAGAGCGAGAAACGAACCGAAAATGGAGAAAATGGACCCAC
48171309 A
1 A
48171310 TGGGAAATCA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.51, C:0.16, G:0.26, T:0.07
Consensus pattern (47 bp):
AGTAAAAAGAGCGAGAAACGAACCGAAAATGGAGAAAATGGACCCAC
Found at i:48171871 original size:12 final size:13
Alignment explanation
Indices: 48171835--48171872 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
48171825 AAATATTTGA
48171835 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
48171848 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
48171862 CTTG-TCTTAAT
1 CTTGTTCTTAAT
48171873 ATTCCAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:48177319 original size:40 final size:39
Alignment explanation
Indices: 48177275--48177404 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 39
48177265 GACTCACTCA
* *
48177275 AATGCCTTCGGGACGAAGCCCGGTTATAGTGACTCGCACG
1 AATGCCTTCGGGACTAAGCCCGGTT-TAGTAACTCGCACG
* *
48177315 AATGCCTTCGGGACTTAA-CCCAGGTTTAGTAACTTGCACA
1 AATGCCTTCGGGAC-TAAGCCC-GGTTTAGTAACTCGCACG
* *
48177355 AATGCCTTC-GGACTTAGCCCGGATTTATTAACTCGCACG
1 AATGCCTTCGGGACTAAGCCCGG-TTTAGTAACTCGCACG
48177394 AATGCCTTCGG
1 AATGCCTTCGG
48177405 ATCCTAGTCC
Statistics
Matches: 77, Mismatches: 8, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
38 4 0.05
39 29 0.38
40 38 0.49
41 6 0.08
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTAAGCCCGGTTTAGTAACTCGCACG
Found at i:48177374 original size:79 final size:81
Alignment explanation
Indices: 48177273--48177457 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 81
48177263 ACGACTCACT
** * *
48177273 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
*
48177336 AGG-TTTAGTAACTT-GCA
64 -GGATATAGTAACTTAGCA
* **
48177353 CAAATGCCTTC-GGACTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
48177417 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
48177433 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
48177458 CATCATTCGA
Statistics
Matches: 91, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
78 5 0.05
79 52 0.57
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:48177441 original size:40 final size:38
Alignment explanation
Indices: 48177273--48177457 Score: 120
Period size: 40 Copynumber: 4.6 Consensus size: 38
48177263 ACGACTCACT
** * * *
48177273 CAAATGCCTTCGGGACGAAGCCCGGTTATAGTGACTCGCA
1 CAAA-GCCTTC-GGACCTAGCCCGGATATAGTAACTTGCA
* * * *
48177313 CGAATGCCTTCGGGACTTAACCCAGG-TTTAGTAACTTGCA
1 C-AAAGCCTTC-GGACCTAGCCC-GGATATAGTAACTTGCA
* * * *
48177353 CAAATGCCTTCGGACTTAGCCCGGATTTATTAACTCGCA
1 CAAA-GCCTTCGGACCTAGCCCGGATATAGTAACTTGCA
* * *
48177392 CGAATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCA
1 C-AAAGCCTTCGGA-CCTAGCCCGGATATAGTAACTT-GCA
*
48177433 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTC-GGACCTAGCCCGGA
48177458 CATCATTCGA
Statistics
Matches: 116, Mismatches: 21, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
38 2 0.02
39 34 0.29
40 69 0.59
41 11 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (38 bp):
CAAAGCCTTCGGACCTAGCCCGGATATAGTAACTTGCA
Found at i:48195489 original size:25 final size:25
Alignment explanation
Indices: 48195460--48195510 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
48195450 GGTTTGGTTG
48195460 TTAAAATAGGATTCATCAACTTGAC
1 TTAAAATAGGATTCATCAACTTGAC
48195485 TTAAAATAGGATTCATCAACTTGAC
1 TTAAAATAGGATTCATCAACTTGAC
48195510 T
1 T
48195511 AACTCGAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33
Consensus pattern (25 bp):
TTAAAATAGGATTCATCAACTTGAC
Found at i:48195528 original size:18 final size:18
Alignment explanation
Indices: 48195505--48195542 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
48195495 ATTCATCAAC
48195505 TTGACTAACTCGAAATTT
1 TTGACTAACTCGAAATTT
48195523 TTGACTAACTCGAAATTT
1 TTGACTAACTCGAAATTT
48195541 TT
1 TT
48195543 TTACTCGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.42
Consensus pattern (18 bp):
TTGACTAACTCGAAATTT
Found at i:48195873 original size:13 final size:13
Alignment explanation
Indices: 48195855--48195881 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
48195845 GTTTAAATAC
48195855 TTTTAAAAAGTGT
1 TTTTAAAAAGTGT
48195868 TTTTAAAAAGTGT
1 TTTTAAAAAGTGT
48195881 T
1 T
48195882 GTGGAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (13 bp):
TTTTAAAAAGTGT
Found at i:48196131 original size:24 final size:24
Alignment explanation
Indices: 48196069--48196131 Score: 99
Period size: 24 Copynumber: 2.6 Consensus size: 24
48196059 GAATATAGAA
* * *
48196069 AATAATTTATTATAACTTGTTGTT
1 AATATTTTAATATATCTTGTTGTT
48196093 AATATTTTAATATATCTTGTTGTT
1 AATATTTTAATATATCTTGTTGTT
48196117 AATATTTTAATATAT
1 AATATTTTAATATAT
48196132 GAAATATAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (24 bp):
AATATTTTAATATATCTTGTTGTT
Found at i:48196743 original size:7 final size:7
Alignment explanation
Indices: 48196720--48196753 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
48196710 ATACCTATGT
48196720 TTATATC
1 TTATATC
*
48196727 CTATTATC
1 TTA-TATC
48196735 TTATATC
1 TTATATC
48196742 TTATATC
1 TTATATC
48196749 TTATA
1 TTATA
48196754 CTATCTACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.29, C:0.15, G:0.00, T:0.56
Consensus pattern (7 bp):
TTATATC
Found at i:48198085 original size:27 final size:26
Alignment explanation
Indices: 48198055--48198128 Score: 94
Period size: 26 Copynumber: 2.7 Consensus size: 26
48198045 CCAAAAAAAA
*
48198055 AACTTTCTTTTTTTTTATTTCATTACC
1 AACTTTC-CTTTTTTTATTTCATTACC
* *
48198082 AACTTTCCCTTTTTTATTCCATTACC
1 AACTTTCCTTTTTTTATTTCATTACC
48198108 AACTTTCCCCTTTTTTTATTT
1 AACTTT--CCTTTTTTTATTT
48198129 TTTATTTTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
26 22 0.55
27 7 0.17
28 11 0.28
ACGTcount: A:0.18, C:0.24, G:0.00, T:0.58
Consensus pattern (26 bp):
AACTTTCCTTTTTTTATTTCATTACC
Found at i:48198104 original size:26 final size:27
Alignment explanation
Indices: 48198065--48198123 Score: 102
Period size: 26 Copynumber: 2.2 Consensus size: 27
48198055 AACTTTCTTT
*
48198065 TTTTTTATTTCATTACCAACTTT-CCC
1 TTTTTTATTCCATTACCAACTTTCCCC
48198091 TTTTTTATTCCATTACCAACTTTCCCC
1 TTTTTTATTCCATTACCAACTTTCCCC
48198118 TTTTTT
1 TTTTTT
48198124 TATTTTTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 22 0.71
27 9 0.29
ACGTcount: A:0.17, C:0.27, G:0.00, T:0.56
Consensus pattern (27 bp):
TTTTTTATTCCATTACCAACTTTCCCC
Found at i:48199483 original size:89 final size:89
Alignment explanation
Indices: 48199368--48199542 Score: 298
Period size: 89 Copynumber: 2.0 Consensus size: 89
48199358 AAGACTAGTG
* *
48199368 ATTTTCAGCCTATTACCCTATCGCTTAGGGGGTTAAGGCTTAGTGGCTTGAATCTGCTTCATTGC
1 ATTTTCAGCCTATTACCCTATCGCTTAGGGGATTAAGGCTTAGTGGCTTGAATCTGCTTCACTGC
48199433 AACTTCAGGAAGGCAAGATTTGTA
66 AACTTCAGGAAGGCAAGATTTGTA
* *
48199457 ATTTTCAGCCTATTACCCTA-CTGCTTAGGGGATTAAGGCTTGGTGGCTTGAATCTGTTTCACTG
1 ATTTTCAGCCTATTACCCTATC-GCTTAGGGGATTAAGGCTTAGTGGCTTGAATCTGCTTCACTG
48199521 CAACTTCAGGAAGGCAAGATTT
65 CAACTTCAGGAAGGCAAGATTT
48199543 ACCGGCTTCG
Statistics
Matches: 81, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
88 1 0.01
89 80 0.99
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.34
Consensus pattern (89 bp):
ATTTTCAGCCTATTACCCTATCGCTTAGGGGATTAAGGCTTAGTGGCTTGAATCTGCTTCACTGC
AACTTCAGGAAGGCAAGATTTGTA
Found at i:48199609 original size:41 final size:41
Alignment explanation
Indices: 48199552--48199630 Score: 115
Period size: 41 Copynumber: 1.9 Consensus size: 41
48199542 TACCGGCTTC
*
48199552 GATCTGTTCCACTGCAACTTCA-AGGAGACAAGATCTGTTTT
1 GATCTGCTCCACTGCAACTTCAGA-GAGACAAGATCTGTTTT
* *
48199593 GATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGT
1 GATCTGCTCCACTGCAACTTCAGAGAGACAAGATCTGT
48199631 AATTTAGCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
41 33 0.97
42 1 0.03
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (41 bp):
GATCTGCTCCACTGCAACTTCAGAGAGACAAGATCTGTTTT
Found at i:48201829 original size:26 final size:26
Alignment explanation
Indices: 48201798--48201850 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
48201788 ACAACATCTA
48201798 CACATCTTAGTAGCACTTGATCCTTT
1 CACATCTTAGTAGCACTTGATCCTTT
48201824 CACATCTTAGTAGCACTTGATCCTTT
1 CACATCTTAGTAGCACTTGATCCTTT
48201850 C
1 C
48201851 TTCTTTTGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.23, C:0.28, G:0.11, T:0.38
Consensus pattern (26 bp):
CACATCTTAGTAGCACTTGATCCTTT
Found at i:48211646 original size:132 final size:132
Alignment explanation
Indices: 48211407--48211646 Score: 345
Period size: 132 Copynumber: 1.8 Consensus size: 132
48211397 TCTCGCTTTG
* * * * * * *
48211407 GAAAACGTGAATGAAATTCCAAAGGGATATTTGATTATTTTGCACAAACGAGAAATTGCAACCTA
1 GAAAACATGAACGAAATTCCAAAGAGACATCTGATTATTTTGCACAAACAAGAAATTGCAACCCA
* * *
48211472 GCACGATAGGGCACGATTCCTCGAATTGCCGAACGTCAAACATTTCCTTCGTTTTAAATTTTTTT
66 GCACGATAGGGCACGATTCCCCGAATTGCCAAACATCAAACATTTCCTTCGTTTTAAATTTTTTT
48211537 TA
131 TA
* **
48211539 GAAAACATGAACGAAATTCTAAAGAGACATCTGATTATTTTGGGCAAACAAGAAATTGCAACCCA
1 GAAAACATGAACGAAATTCCAAAGAGACATCTGATTATTTTGCACAAACAAGAAATTGCAACCCA
* *
48211604 GCACGATAGGGCACGATTCCCCGAATTGCTAAACATCGAACAT
66 GCACGATAGGGCACGATTCCCCGAATTGCCAAACATCAAACAT
48211647 CGTCTCCGTT
Statistics
Matches: 93, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
132 93 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (132 bp):
GAAAACATGAACGAAATTCCAAAGAGACATCTGATTATTTTGCACAAACAAGAAATTGCAACCCA
GCACGATAGGGCACGATTCCCCGAATTGCCAAACATCAAACATTTCCTTCGTTTTAAATTTTTTT
TA
Found at i:48211960 original size:3 final size:3
Alignment explanation
Indices: 48211952--48211994 Score: 77
Period size: 3 Copynumber: 14.0 Consensus size: 3
48211942 AATGATAAAA
48211952 AAT AAT AAT AAT AAT AAT AAT AAT AATT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT
48211995 GCAATGATAG
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:48212636 original size:3 final size:3
Alignment explanation
Indices: 48212628--48212679 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
48212618 ATATATTAGG
48212628 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
48212676 AAT A
1 AAT A
48212680 GTAAAATCGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:48213658 original size:27 final size:27
Alignment explanation
Indices: 48213601--48213663 Score: 119
Period size: 26 Copynumber: 2.4 Consensus size: 27
48213591 AAATTTCCTT
48213601 TTTTTTTATTCCATTACCAACTTTCCC
1 TTTTTTTATTCCATTACCAACTTTCCC
48213628 -TTTTTTATTCCATTACCAACTTTCCC
1 TTTTTTTATTCCATTACCAACTTTCCC
48213654 TTTTTTTATT
1 TTTTTTTATT
48213664 TTTTATTTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
26 26 0.74
27 9 0.26
ACGTcount: A:0.17, C:0.25, G:0.00, T:0.57
Consensus pattern (27 bp):
TTTTTTTATTCCATTACCAACTTTCCC
Found at i:48215052 original size:30 final size:29
Alignment explanation
Indices: 48215012--48215069 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
48215002 TATCCATTTC
*
48215012 TCTTAAATTGATATTTTTAAATTTTTTTTA
1 TCTTAAATTGATA-TTTGAAATTTTTTTTA
*
48215042 TCTTATATTGATATTTGAAATTTTTTTT
1 TCTTAAATTGATATTTGAAATTTTTTTT
48215070 CATTAATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 14 0.54
30 12 0.46
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.64
Consensus pattern (29 bp):
TCTTAAATTGATATTTGAAATTTTTTTTA
Found at i:48215950 original size:31 final size:30
Alignment explanation
Indices: 48215893--48215950 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
48215883 TAGGATTGAT
* * *
48215893 GGGTTTTGTTTGTTATGTTAATTTTTTTTA
1 GGGTTCTGTTTGTGATGTAAATTTTTTTTA
48215923 GGGTTCTGTTTGTGATGCTAAATTTTTT
1 GGGTTCTGTTTGTGATG-TAAATTTTTT
48215951 AATGAATTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 15 0.62
31 9 0.38
ACGTcount: A:0.14, C:0.03, G:0.22, T:0.60
Consensus pattern (30 bp):
GGGTTCTGTTTGTGATGTAAATTTTTTTTA
Found at i:48221827 original size:55 final size:54
Alignment explanation
Indices: 48221760--48222224 Score: 343
Period size: 55 Copynumber: 8.7 Consensus size: 54
48221750 TTACGTGGTA
* *
48221760 TAACTTACCAATGCCATGCCTTGGCATGCTCTTACATGAGACCTTTGCCTTATAG
1 TAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGAGACC-TTGCCTTATAG
* * * **
48221815 TAACTCACCAATGTCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATA-
1 TAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGA-GACCTTGCCTTATAG
* * * * * * *
48221869 AAACTTATCAATGCCATGCCTAGGCATGGTCTTACATGATA---T-CCGTAT-C
1 TAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGAGACCTTGCCTTATAG
* *** *
48221918 TTAC-CA--AATGCCATGTTCC-AAACATGGTCTTACATG-GTATCCTTGTCTTAT-G
1 TAACTCACCAATGCCATG--CCTTGGCATGGTCTTACATGAG-A-CCTTGCCTTATAG
* *
48221970 -AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACTTTTGCCTTATAG
1 TAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGAGAC-CTTGCCTTATAG
* * * * **
48222024 TAACTCATCAATCCCATGTCTTGACATGGTCTTATGTG-GTATCCTTGCCTTAT-G
1 TAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGAG-A-CCTTGCCTTATAG
* * *** *
48222078 -AACTTACTAATGCCATGCCTTGGCATGAAATTACATGGGACCTTTGCCTTATAG
1 TAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGAGACC-TTGCCTTATAG
* * * **
48222132 TAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATA-
1 TAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGA-GACCTTGCCTTATAG
* * *
48222186 AAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGA
1 TAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGA
48222225 TATCCTTATC
Statistics
Matches: 321, Mismatches: 64, Indels: 51
0.74 0.15 0.12
Matches are distributed among these distances:
46 9 0.03
47 16 0.05
48 3 0.01
49 7 0.02
50 1 0.00
51 3 0.01
52 11 0.03
53 60 0.19
54 82 0.26
55 124 0.39
56 5 0.02
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (54 bp):
TAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGAGACCTTGCCTTATAG
Found at i:48222128 original size:108 final size:108
Alignment explanation
Indices: 48221939--48222213 Score: 408
Period size: 108 Copynumber: 2.5 Consensus size: 108
48221929 CATGTTCCAA
* * * ***
48221939 ACATGGTCTTACATGGTATCCTTGTCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTAC
1 ACATGGTCTTACATGGTATCCTTGCCTTATGAACTTACTAATGCCATGCCTTGGCATGAAATTAC
*
48222004 ATGGGACTTTTGCCTTATAGTAACTCATCAATCCCATGTCTTG
66 ATGGGACCTTTGCCTTATAGTAACTCATCAATCCCATGTCTTG
**
48222047 ACATGGTCTTATGTGGTATCCTTGCCTTATGAACTTACTAATGCCATGCCTTGGCATGAAATTAC
1 ACATGGTCTTACATGGTATCCTTGCCTTATGAACTTACTAATGCCATGCCTTGGCATGAAATTAC
*
48222112 ATGGGACCTTTGCCTTATAGTAACTCATCAATGCCATGTCTTG
66 ATGGGACCTTTGCCTTATAGTAACTCATCAATCCCATGTCTTG
* * *
48222155 ACATGGTCTTACATGATTTCCTTGCCTTATAAAACTTA-TCAATGCCATGCCTTGGCATG
1 ACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTTACT-AATGCCATGCCTTGGCATG
48222214 GTCTTACATG
Statistics
Matches: 150, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
108 125 0.83
109 25 0.17
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (108 bp):
ACATGGTCTTACATGGTATCCTTGCCTTATGAACTTACTAATGCCATGCCTTGGCATGAAATTAC
ATGGGACCTTTGCCTTATAGTAACTCATCAATCCCATGTCTTG
Found at i:48222265 original size:47 final size:47
Alignment explanation
Indices: 48222210--48222372 Score: 299
Period size: 47 Copynumber: 3.5 Consensus size: 47
48222200 CATGCCTTGG
*
48222210 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
48222257 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
* *
48222304 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATATTCTAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
48222351 CATGGTCTTACATGGTATCCTT
1 CATGGTCTTACATGGTATCCTT
48222373 GTTTTATGAA
Statistics
Matches: 113, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 113 1.00
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.36
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
Found at i:48222525 original size:44 final size:44
Alignment explanation
Indices: 48222476--48222559 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
48222466 TCCTTAATCG
* *
48222476 TCAATTCCTCCTTAAATGCCATGTTATGAA-CATGGACTTTTTCT
1 TCAATTCCTCCTTAAATGCCATGGTA-CAACCATGGACTTTTTCT
* *
48222520 TCAATTCTTCCTTAATTGCCATGGTACAACCATGGACTTT
1 TCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTT
48222560 GAGATATCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 2 0.06
44 33 0.94
ACGTcount: A:0.25, C:0.24, G:0.12, T:0.39
Consensus pattern (44 bp):
TCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTTTTCT
Found at i:48227190 original size:40 final size:40
Alignment explanation
Indices: 48227132--48227299 Score: 277
Period size: 40 Copynumber: 4.2 Consensus size: 40
48227122 GGATTGATAC
*
48227132 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
48227172 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
48227212 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
48227252 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
48227292 CC-GGCTAA
1 CCGGGCTAA
48227300 ACTCCGAAGG
Statistics
Matches: 122, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 8 0.07
40 114 0.93
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:48229406 original size:41 final size:41
Alignment explanation
Indices: 48229361--48229440 Score: 133
Period size: 41 Copynumber: 2.0 Consensus size: 41
48229351 GTTCCAATGT
*
48229361 ATATATAGCCAAAGCTATCTCAATCTCGCACACTAAGTGTA
1 ATATATAACCAAAGCTATCTCAATCTCGCACACTAAGTGTA
* *
48229402 ATATATAACCAAAGCTATCTCGATTTCGCACACTAAGTG
1 ATATATAACCAAAGCTATCTCAATCTCGCACACTAAGTG
48229441 CTCATAATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.28
Consensus pattern (41 bp):
ATATATAACCAAAGCTATCTCAATCTCGCACACTAAGTGTA
Found at i:48232290 original size:29 final size:28
Alignment explanation
Indices: 48232235--48232290 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
48232225 TATTAAGTAC
* *
48232235 TTTTCAACGTAAAAATGATGTCGCCAAA
1 TTTTCAACGTAAAAATAATGTAGCCAAA
* *
48232263 TTTTCAATGTGAAAATAATAGTAGCCAA
1 TTTTCAACGTAAAAATAAT-GTAGCCAA
48232291 CTCTAAATCA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 16 0.70
29 7 0.30
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.30
Consensus pattern (28 bp):
TTTTCAACGTAAAAATAATGTAGCCAAA
Found at i:48234277 original size:40 final size:39
Alignment explanation
Indices: 48234233--48234451 Score: 226
Period size: 40 Copynumber: 5.5 Consensus size: 39
48234223 GCTCGATTGT
* *
48234233 CTTCGGGACATAGCCCGGTTATAGTAATTCGCACAATTGC
1 CTTCGGGACATAGCCCGGTT-TAGTAACTCGCACAAATGC
*
48234273 CTTCGGGA-ATTAGCCCGGATTTAGTAACACGCACAAATGC
1 CTTCGGGACA-TAGCCCGG-TTTAGTAACTCGCACAAATGC
* * *
48234313 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCGG-TTTAGTAACTCGCACAAATGC
* * *
48234353 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCGG-TTTAGTAACTCGCACAAATGC
* * * *
48234393 CTTCGGGA-ATTGACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACATAG-CCCGG-TTTAGTAAC-TCGCACAAATGC
*
48234434 CTTCGGGACTTAGCCCGG
1 CTTCGGGACATAGCCCGG
48234452 ATACCATTCG
Statistics
Matches: 155, Mismatches: 18, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
39 2 0.01
40 126 0.81
41 25 0.16
42 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CTTCGGGACATAGCCCGGTTTAGTAACTCGCACAAATGC
Found at i:48234331 original size:80 final size:79
Alignment explanation
Indices: 48234233--48234453 Score: 271
Period size: 80 Copynumber: 2.7 Consensus size: 79
48234223 GCTCGATTGT
* * * *
48234233 CTTCGGGACATAGCCCGGTTATAGTAATTCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGT
1 CTTCGGGACTTAACCCGGTT-TAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGT
48234298 AACACGCACAAATGC
65 AACACGCACAAATGC
* * * * *
48234313 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGT
1 CTTCGGGACTTAACCCGG-TTTAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGT
*
48234378 AACTCGCACAAATGC
65 AACACGCACAAATGC
* * * * *
48234393 CTTCGGGAATTGACCCGGATTTAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGAT
1 CTTCGGGACTTAACCCGG-TTTAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
48234454 ACCATTCGAA
Statistics
Matches: 119, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
80 88 0.74
81 31 0.26
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (79 bp):
CTTCGGGACTTAACCCGGTTTAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
ACACGCACAAATGC
Found at i:48239203 original size:15 final size:15
Alignment explanation
Indices: 48239183--48239214 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
48239173 CACAACCATC
48239183 ATGCACGGTCAACCA
1 ATGCACGGTCAACCA
48239198 ATGCACGGTCAACCA
1 ATGCACGGTCAACCA
48239213 AT
1 AT
48239215 CCAAACCAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.31, G:0.19, T:0.16
Consensus pattern (15 bp):
ATGCACGGTCAACCA
Found at i:48242374 original size:40 final size:40
Alignment explanation
Indices: 48242292--48242505 Score: 214
Period size: 40 Copynumber: 5.5 Consensus size: 40
48242282 GCTCGATTGT
* *
48242292 CTTCGGGACA-TAGCCCGG-TTATAGT-ATTCGCACAATTGC
1 CTTCGGGA-ATTAGCCCGGATT-TAGTAACTCGCACAAATGC
48242331 CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGC
* * * *
48242371 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGC
* *
48242411 CTTCGGGACTTAACCCGG---T--TAACT-GCACAAATGC
1 CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGC
* * *
48242445 CTTCGGGAATT-GACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGAATTAG-CCCGGATTTAGTAAC-TCGCACAAATGC
*
48242486 CTTCGGGACTTAGCCCGGAT
1 CTTCGGGAATTAGCCCGGAT
48242506 ACCATTCGAA
Statistics
Matches: 152, Mismatches: 11, Indels: 22
0.82 0.06 0.12
Matches are distributed among these distances:
34 25 0.16
35 5 0.03
37 2 0.01
38 1 0.01
39 23 0.15
40 69 0.45
41 26 0.17
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGC
Found at i:48242462 original size:74 final size:78
Alignment explanation
Indices: 48242318--48242503 Score: 227
Period size: 74 Copynumber: 2.4 Consensus size: 78
48242308 GGTTATAGTA
* * *
48242318 TTCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTA
1 TTCGCACAAATGCCTTCGGGACTTAGCCCGG--TTA-TAACTCGCACAAATGCCTTCGGGAATTA
* *
48242383 ACCCGGTTTTGGTAAC
63 ACCCGGATTTAGTAAC
* *
48242399 -TCGCACAAATGCCTTCGGGACTTAACCCGG-T-TAACT-GCACAAATGCCTTCGGGAATTGACC
1 TTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAACTCGCACAAATGCCTTCGGGAATTAACC
*
48242460 CGGATTTAGTCAC
66 CGGATTTAGTAAC
* *
48242473 TTAGCACAAAAGCCTTCGGGACTTAGCCCGG
1 TTCGCACAAATGCCTTCGGGACTTAGCCCGG
48242504 ATACCATTCG
Statistics
Matches: 93, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
74 33 0.35
75 32 0.34
77 1 0.01
80 27 0.29
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (78 bp):
TTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAACTCGCACAAATGCCTTCGGGAATTAACC
CGGATTTAGTAAC
Found at i:48244180 original size:20 final size:20
Alignment explanation
Indices: 48244155--48244195 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
48244145 CGGTCCCGAA
48244155 ACCACTTCCCGACTAGGGTC
1 ACCACTTCCCGACTAGGGTC
48244175 ACCACTTCCCGACTAGGGTC
1 ACCACTTCCCGACTAGGGTC
48244195 A
1 A
48244196 ATTTTGGGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.22, C:0.39, G:0.20, T:0.20
Consensus pattern (20 bp):
ACCACTTCCCGACTAGGGTC
Found at i:48246405 original size:39 final size:40
Alignment explanation
Indices: 48246264--48246478 Score: 240
Period size: 40 Copynumber: 5.5 Consensus size: 40
48246254 GCTCGATTGT
* * * * *
48246264 CTTCGGGACATAGCCCGGTTATAGTAATTCGCACAATTGC
1 CTTCGGGACTTAACCCGGTTTTAGTAACTCGCACAAATGC
* * *
48246304 CTTCGGGAATTAGCCCGGATTTAGTAA--CGCACAAATGC
1 CTTCGGGACTTAACCCGGTTTTAGTAACTCGCACAAATGC
*
48246342 CTTCGGGAC-TAACCCGGTTTTGGTAACTCGCA-AAATGC
1 CTTCGGGACTTAACCCGGTTTTAGTAACTCGCACAAATGC
*
48246380 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAACCCGGTTTTAGTAACTCGCACAAATGC
* * * * * *
48246420 CTTCGGGAATTGACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACTTAACCCGGTTTTAGTAAC-TCGCACAAATGC
*
48246461 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAACCCGG
48246479 ATACATTCGA
Statistics
Matches: 151, Mismatches: 19, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
37 14 0.09
38 33 0.22
39 27 0.18
40 52 0.34
41 25 0.17
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAACCCGGTTTTAGTAACTCGCACAAATGC
Found at i:48254401 original size:40 final size:39
Alignment explanation
Indices: 48254357--48254575 Score: 208
Period size: 40 Copynumber: 5.5 Consensus size: 39
48254347 GCTCGATTGT
* *
48254357 CTTCGGGACATAGCCCGGTTATAGTAATTCGCACAATTGC
1 CTTCGGGACATAGCCCGGTT-TAGTAACTCGCACAAATGC
*
48254397 CTTCGGGA-ATTAGCCCGGATTTAGTAACTCGCACAAATAC
1 CTTCGGGACA-TAGCCCGG-TTTAGTAACTCGCACAAATGC
* * * *
48254437 CTTCGGGACTTAACCCGATTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCG-GTTTAGTAACTCGCACAAATGC
* * * *
48254477 CTTCGGGACTTAACCCGGTTTTGGTAACTGGCACAAATGC
1 CTTCGGGACATAGCCCGG-TTTAGTAACTCGCACAAATGC
* * * *
48254517 CTTCGGGA-ATTGACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACATAG-CCCGG-TTTAGTAAC-TCGCACAAATGC
*
48254558 CTTCGGGACTTAGCCCGG
1 CTTCGGGACATAGCCCGG
48254576 ATACCATTCG
Statistics
Matches: 151, Mismatches: 20, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
39 2 0.01
40 122 0.81
41 25 0.17
42 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CTTCGGGACATAGCCCGGTTTAGTAACTCGCACAAATGC
Found at i:48254469 original size:80 final size:80
Alignment explanation
Indices: 48254357--48254577 Score: 255
Period size: 80 Copynumber: 2.8 Consensus size: 80
48254347 GCTCGATTGT
* * * * * * *
48254357 CTTCGGGACATAGCCCGGTTATAGTAATTCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGT
1 CTTCGGGACTTAACCCGATTTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGT
48254422 AACTCGCACAAATAC
66 AACTCGCACAAATAC
* * * *
48254437 CTTCGGGACTTAACCCGATTTTGGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGT
1 CTTCGGGACTTAACCCGATTTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGT
* *
48254502 AACTGGCACAAATGC
66 AACTCGCACAAATAC
* * * * *
48254517 CTTCGGGAATTGACCCGGA-TTTAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGAT
1 CTTCGGGACTTAACCC-GATTTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCGGAT
48254578 ACCATTCGAA
Statistics
Matches: 118, Mismatches: 21, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
80 88 0.75
81 30 0.25
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (80 bp):
CTTCGGGACTTAACCCGATTTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGT
AACTCGCACAAATAC
Found at i:48254527 original size:120 final size:121
Alignment explanation
Indices: 48254357--48254574 Score: 307
Period size: 120 Copynumber: 1.8 Consensus size: 121
48254347 GCTCGATTGT
* * *
48254357 CTTCGGGACATAGCCCGGTTATAGTAATTCGCACAATTGCCTTCGGGAATT-AGCCCGGATTTAG
1 CTTCGGGACATAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGA-CCCGGATTTAG
*
48254421 TAAC-TCGCACAAATA-CCTTCGGGACTTAACCCGATTTTGGTAACTCGCACAAATGC
65 TAACTTAGCACAAA-AGCCTTCGGGACTTAACCCGATTTTGGTAACTCGCACAAATGC
* * * *
48254477 CTTCGGGACTTAACCCGGTTTTGGTAACTGGCACAAATGCCTTCGGGAATTGACCCGGATTTAGT
1 CTTCGGGACATAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGT
* *
48254542 CACTTAGCACAAAAGCCTTCGGGACTTAGCCCG
66 AACTTAGCACAAAAGCCTTCGGGACTTAACCCG
48254575 GATACCATTC
Statistics
Matches: 85, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
120 59 0.69
121 26 0.31
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (121 bp):
CTTCGGGACATAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGT
AACTTAGCACAAAAGCCTTCGGGACTTAACCCGATTTTGGTAACTCGCACAAATGC
Found at i:48261825 original size:42 final size:42
Alignment explanation
Indices: 48261718--48261879 Score: 146
Period size: 43 Copynumber: 3.8 Consensus size: 42
48261708 TCGTACAATA
* * * * * *
48261718 CCAACGTCCTAGACTTGGTCTTACATGTAACCAAATATCGATG
1 CCAATGTCCCAGACATGGTCTTACAAGAAATCAAATA-CGATG
* * *
48261761 CCACTGTCCCAGACAGGGTCTTACAAGAAATCAAATACGATT
1 CCAATGTCCCAGACATGGTCTTACAAGAAATCAAATACGATG
* *
48261803 CCAATGCCCCAGACATGGTCTTACACATAAATTTCAAAT-CGATG
1 CCAATGTCCCAGACATGGTCTTACA-AGAAA--TCAAATACGATG
** * *
48261847 CCAACATCCCAGACGTGGTCTTACACGAAATCA
1 CCAATGTCCCAGACATGGTCTTACAAGAAATCA
48261880 CATATCGAAA
Statistics
Matches: 96, Mismatches: 20, Indels: 8
0.77 0.16 0.06
Matches are distributed among these distances:
41 3 0.03
42 26 0.27
43 36 0.38
44 25 0.26
45 6 0.06
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.23
Consensus pattern (42 bp):
CCAATGTCCCAGACATGGTCTTACAAGAAATCAAATACGATG
Found at i:48267514 original size:12 final size:12
Alignment explanation
Indices: 48267495--48267524 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
48267485 GAATTGGTAA
48267495 GAGGAGAGATTT
1 GAGGAGAGATTT
*
48267507 GGGGAGAGATTT
1 GAGGAGAGATTT
48267519 GAGGAG
1 GAGGAG
48267525 TGGATCAAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.50, T:0.20
Consensus pattern (12 bp):
GAGGAGAGATTT
Found at i:48269117 original size:22 final size:23
Alignment explanation
Indices: 48269089--48269131 Score: 79
Period size: 22 Copynumber: 1.9 Consensus size: 23
48269079 TATCCTCGCA
48269089 TGGAGTGTAG-GGATGGATGGAG
1 TGGAGTGTAGAGGATGGATGGAG
48269111 TGGAGTGTAGAGGATGGATGG
1 TGGAGTGTAGAGGATGGATGG
48269132 GTAGGATTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.23, C:0.00, G:0.53, T:0.23
Consensus pattern (23 bp):
TGGAGTGTAGAGGATGGATGGAG
Found at i:48275117 original size:12 final size:12
Alignment explanation
Indices: 48275098--48275127 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
48275088 GAATTTGTTA
48275098 GAGGAGAGATTT
1 GAGGAGAGATTT
*
48275110 GGGGAGAGATTT
1 GAGGAGAGATTT
48275122 GAGGAG
1 GAGGAG
48275128 TGGGTCAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.50, T:0.20
Consensus pattern (12 bp):
GAGGAGAGATTT
Found at i:48277576 original size:40 final size:40
Alignment explanation
Indices: 48277473--48277627 Score: 179
Period size: 40 Copynumber: 3.9 Consensus size: 40
48277463 TTCGAATGAT
* * * *
48277473 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA
*
48277514 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
* *
48277554 ATTCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* * *
48277595 A-CCGGGCTATGTCCCAAAGGCATTTGAGCGAGT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
48277628 AGCTATATCC
Statistics
Matches: 98, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
39 1 0.01
40 68 0.69
41 28 0.29
42 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:48277626 original size:80 final size:81
Alignment explanation
Indices: 48277476--48277627 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 81
48277466 GAATGATATC
* * *
48277476 CGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTATAACCGGACTAAGATCCAAAGGCATTTG
*
48277541 TGCGAGTTACTAAATT
66 AGCGAGTTACTAAATT
* * * * *
48277557 CGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCAAAGGCATTT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTATAACCGGACTAAGAT-CCAAAGGCATTT
48277620 GAGCGAGT
65 GAGCGAGT
48277628 AGCTATATCC
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
79 1 0.02
80 35 0.57
81 25 0.41
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (81 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTATAACCGGACTAAGATCCAAAGGCATTTG
AGCGAGTTACTAAATT
Found at i:48279825 original size:12 final size:12
Alignment explanation
Indices: 48279808--48279836 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
48279798 GAGATGTCTG
48279808 TGGACCTAATGT
1 TGGACCTAATGT
48279820 TGGACCTAATGT
1 TGGACCTAATGT
48279832 TGGAC
1 TGGAC
48279837 TGATAAAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (12 bp):
TGGACCTAATGT
Found at i:48292846 original size:16 final size:16
Alignment explanation
Indices: 48292825--48292855 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
48292815 TTCACTATTT
48292825 TGTCTTTTGTATTTTC
1 TGTCTTTTGTATTTTC
48292841 TGTCTTTTGTATTTT
1 TGTCTTTTGTATTTT
48292856 TCATGCATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.10, G:0.13, T:0.71
Consensus pattern (16 bp):
TGTCTTTTGTATTTTC
Found at i:48298652 original size:40 final size:39
Alignment explanation
Indices: 48298569--48298757 Score: 136
Period size: 39 Copynumber: 4.8 Consensus size: 39
48298559 TTGAATGATG
* * * * *
48298569 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTCGTGC-GAGTTAATAAA
* *
48298609 TCCGGACTAAGATCCGAAGGCGTTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCGAAGGCATTCGTGCGAGTTAATAAA
* * *
48298649 TCCGGGCTAAG-CCTGAAGGCATTTGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCC-GAAGGCATTCGTGCGAGTTAATAAA
* * *
48298688 CCCGGGTTAAGTCCCGAAGG-ATTCGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTCGTGCGAGTTAATA-AA
** * *
48298728 T-CGGGCTTTGT-CGAAGGCATTTGAGCGAGT
1 TCCGGGCTAAGTCCGAAGGCATTCGTGCGAGT
48298758 CGTTATATCC
Statistics
Matches: 121, Mismatches: 21, Indels: 16
0.77 0.13 0.10
Matches are distributed among these distances:
37 6 0.05
38 12 0.10
39 52 0.43
40 42 0.35
41 9 0.07
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTCGTGCGAGTTAATAAA
Found at i:48298681 original size:39 final size:40
Alignment explanation
Indices: 48298569--48298734 Score: 162
Period size: 39 Copynumber: 4.2 Consensus size: 40
48298559 TTGAATGATG
* * * *
48298569 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
* * *
48298609 TCCGGACTAAGAT-CCGAAGGCGTTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
48298649 TCCGGGCTAAG-CCTGAAGGCATTTGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
48298688 CCCGGGTTAAGTCCCGAAGG-ATTCGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTA-AA
48298728 T-CGGGCT
1 TCCGGGCT
48298735 TTGTCGAAGG
Statistics
Matches: 102, Mismatches: 19, Indels: 11
0.77 0.14 0.08
Matches are distributed among these distances:
39 51 0.50
40 44 0.43
41 7 0.07
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:48304679 original size:30 final size:31
Alignment explanation
Indices: 48304623--48304681 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
48304613 CCTTTTCATG
48304623 TTTCATATTCCATAACACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
* **
48304654 TTTCATATTTCATATTACT-GGCCGAAGC
1 TTTCATATTCCATAACACTGGGCCGAAGC
48304682 TTTACTGTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 9 0.36
31 16 0.64
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.34
Consensus pattern (31 bp):
TTTCATATTCCATAACACTGGGCCGAAGCCT
Found at i:48304927 original size:24 final size:24
Alignment explanation
Indices: 48304876--48305018 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
48304866 GCTTTATCAT
*
48304876 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
48304901 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
48304925 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
48304948 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
48304972 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
48304996 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
48305019 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:48304955 original size:47 final size:48
Alignment explanation
Indices: 48304876--48305017 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
48304866 GCTTTATCAT
* *
48304876 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
48304925 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
48304972 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
48305018 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:48304976 original size:71 final size:72
Alignment explanation
Indices: 48304875--48305018 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
48304865 TGCTTTATCA
*
48304875 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
48304940 GCCCTTT
66 GCCCTTT
* * **
48304947 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
48305010 AGCCCTTT
65 AGCCCTTT
48305018 T
1 T
48305019 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:48305093 original size:20 final size:20
Alignment explanation
Indices: 48305068--48305128 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
48305058 TTATGATTAC
48305068 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
48305088 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
48305108 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
48305128 A
1 A
48305129 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:48305203 original size:25 final size:25
Alignment explanation
Indices: 48305171--48305218 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
48305161 ATACATAAAC
* * *
48305171 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
48305196 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
48305219 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:48307992 original size:5 final size:5
Alignment explanation
Indices: 48307982--48308007 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
48307972 GAACAAATAT
48307982 ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG A
48308008 ATTCCATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (5 bp):
ATTCG
Done.