Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 172 of 335
Found at i:51283958 original size:40 final size:40
Alignment explanation
Indices: 51283913--51284042 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
51283903 CGGAATACAA
51283913 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
* * *
51283953 CCGGATAGAACGACGCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
* * *
51283993 CCGGATGTAGCCAC-TAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACGT-GCACGAA-TGCCTTCGGGTCTTAGC
51284033 CCGGATATAA
1 CCGGATATAA
51284043 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 2 0.03
40 75 0.97
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
Found at i:51289501 original size:42 final size:43
Alignment explanation
Indices: 51289452--51289554 Score: 109
Period size: 44 Copynumber: 2.4 Consensus size: 43
51289442 TCCCATACAG
* * * *
51289452 GGTCTTACATGAAATCAGATA-TGATGTCGATGTCCAAGACAT
1 GGTCTTACATGAAATCAGAAATTGATGCCAACGTCCAAGACAT
* * * **
51289494 GGTCTTACACGTAAAACAGAAATTGATGCCAACGTCCCAGATGT
1 GGTCTTACATG-AAATCAGAAATTGATGCCAACGTCCAAGACAT
51289538 GGTCTTACATGAAATCA
1 GGTCTTACATGAAATCA
51289555 CATAACGCAA
Statistics
Matches: 48, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
42 10 0.21
43 13 0.27
44 25 0.52
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.26
Consensus pattern (43 bp):
GGTCTTACATGAAATCAGAAATTGATGCCAACGTCCAAGACAT
Found at i:51312448 original size:22 final size:22
Alignment explanation
Indices: 51312408--51312449 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
51312398 GTGAAAATGA
** *
51312408 CACAGAGCCATTTTTAGGTTGG
1 CACAGAGCCATAATCAGGTTGG
51312430 CACAGAGCCATAATCAGGTT
1 CACAGAGCCATAATCAGGTT
51312450 AAGCAGCACT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (22 bp):
CACAGAGCCATAATCAGGTTGG
Found at i:51313018 original size:27 final size:27
Alignment explanation
Indices: 51312842--51313106 Score: 163
Period size: 27 Copynumber: 9.9 Consensus size: 27
51312832 TACACTACAA
51312842 GGGTATTTTAGTAATTTTACAAA-CTGG
1 GGGTATTTTAGTAATTTTACAAATC-GG
*
51312869 AGGTATTTCTA-TAATTTTACAAA-CTGG
1 GGGTATTT-TAGTAATTTTACAAATC-GG
* *
51312896 GGGTATTTCAGTAATTTTAC-AATCTGA
1 GGGTATTTTAGTAATTTTACAAATC-GG
* *
51312923 TGGTATTTTGGTAATTTTACAAAAT-GG
1 GGGTATTTTAGTAATTTTAC-AAATCGG
* * **
51312950 GGGTATTTTAGTAGTTTTACAAGTCAA
1 GGGTATTTTAGTAATTTTACAAATCGG
* * * *
51312977 GAGTGTTGT-GATAATTTCACAAATCGG
1 GGGTATTTTAG-TAATTTTACAAATCGG
* **
51313004 GGGTATTTTAGTAATTTCACAAATCAA
1 GGGTATTTTAGTAATTTTACAAATCGG
* *
51313031 GGGTATTTT-GATAATTTCA-AAAGTC-A
1 GGGTATTTTAG-TAATTTTACAAA-TCGG
* ** * * *
51313057 AGGTATTTCGGTAATTTCACAAGTCAG
1 GGGTATTTTAGTAATTTTACAAATCGG
51313084 GGGTATTTT-GATAATTTTACAAA
1 GGGTATTTTAG-TAATTTTACAAA
51313107 CTGGGGTTCT
Statistics
Matches: 189, Mismatches: 35, Indels: 28
0.75 0.14 0.11
Matches are distributed among these distances:
26 30 0.16
27 153 0.81
28 3 0.02
29 3 0.02
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
GGGTATTTTAGTAATTTTACAAATCGG
Found at i:51313031 original size:54 final size:54
Alignment explanation
Indices: 51312842--51313106 Score: 220
Period size: 54 Copynumber: 4.9 Consensus size: 54
51312832 TACACTACAA
* * ** *
51312842 GGGTATTTTAGTAATTTTACAA-ACTGGAGGTATTTCT-ATAATTTTACAAA-CTGG
1 GGGTATTTTAGTAATTTCACAAGTCAAG-GGTATTT-TGATAATTTCACAAATC-GG
* * * * * *
51312896 GGGTATTTCAGTAATTTTACAA-TCTGATGGTATTTTGGTAATTTTACAAAAT-GG
1 GGGTATTTTAGTAATTTCACAAGTC-AAGGGTATTTTGATAATTTCAC-AAATCGG
* * * * *
51312950 GGGTATTTTAGTAGTTTTACAAGTCAAGAGTGTTGTGATAATTTCACAAATCGG
1 GGGTATTTTAGTAATTTCACAAGTCAAGGGTATTTTGATAATTTCACAAATCGG
* *
51313004 GGGTATTTTAGTAATTTCACAAATCAAGGGTATTTTGATAATTTCA-AAAGTC-A
1 GGGTATTTTAGTAATTTCACAAGTCAAGGGTATTTTGATAATTTCACAAA-TCGG
* ** * *
51313057 AGGTATTTCGGTAATTTCACAAGTCAGGGGTATTTTGATAATTTTACAAA
1 GGGTATTTTAGTAATTTCACAAGTCAAGGGTATTTTGATAATTTCACAAA
51313107 CTGGGGTTCT
Statistics
Matches: 175, Mismatches: 28, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
53 48 0.27
54 122 0.70
55 5 0.03
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (54 bp):
GGGTATTTTAGTAATTTCACAAGTCAAGGGTATTTTGATAATTTCACAAATCGG
Found at i:51315138 original size:42 final size:42
Alignment explanation
Indices: 51315083--51315162 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
51315073 TCTTACATGT
* *
51315083 AATCAAATTCGATGCCATTG-TCCTAGACAGGGTCTTACCCGA
1 AATCAAATACGATGCCAATGTTCC-AGACAGGGTCTTACCCGA
* *
51315125 AATCATATACGATGCCAATGTTCCAGACATGGTCTTAC
1 AATCAAATACGATGCCAATGTTCCAGACAGGGTCTTAC
51315163 ACGTAACTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 30 0.91
43 3 0.09
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (42 bp):
AATCAAATACGATGCCAATGTTCCAGACAGGGTCTTACCCGA
Found at i:51319132 original size:28 final size:29
Alignment explanation
Indices: 51319086--51319146 Score: 106
Period size: 28 Copynumber: 2.1 Consensus size: 29
51319076 TGAGCATGAC
51319086 TATAAATGTGAATTGGGCCTAATGGGCCA
1 TATAAATGTGAATTGGGCCTAATGGGCCA
*
51319115 TATAAATGT-AATTGGGCCTAGTGGGCCA
1 TATAAATGTGAATTGGGCCTAATGGGCCA
51319143 TATA
1 TATA
51319147 CAGGTATGTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 22 0.71
29 9 0.29
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (29 bp):
TATAAATGTGAATTGGGCCTAATGGGCCA
Found at i:51321456 original size:18 final size:17
Alignment explanation
Indices: 51321433--51321466 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
51321423 TGGCTTATTA
51321433 TAGTAACAGTAAACAGTG
1 TAGTAACAGT-AACAGTG
51321451 TAGTAACAGTAACAGT
1 TAGTAACAGTAACAGT
51321467 AAAGATATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.44, C:0.12, G:0.21, T:0.24
Consensus pattern (17 bp):
TAGTAACAGTAACAGTG
Found at i:51321875 original size:27 final size:27
Alignment explanation
Indices: 51321800--51321954 Score: 146
Period size: 27 Copynumber: 6.0 Consensus size: 27
51321790 AAACATACAT
* * ** *
51321800 CACATAGGGGCAAAACAGTCAGCTCAC
1 CACATAAGGGCAAAACAATCATTTTAC
* *
51321827 CATATAAGGGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAATCATTTTAC
* *
51321854 CACATAAGGACAAAACAATCATTTTGC
1 CACATAAGGGCAAAACAATCATTTTAC
* *
51321881 CACATAAGGGAAAAATAATCA--TT--
1 CACATAAGGGCAAAACAATCATTTTAC
*
51321904 ----TAAGGGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAATCATTTTAC
51321927 CACATAAGGGCAAAACAATCATTTTAC
1 CACATAAGGGCAAAACAATCATTTTAC
51321954 C
1 C
51321955 GATTAGGGTC
Statistics
Matches: 104, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
19 14 0.13
21 2 0.02
25 2 0.02
27 86 0.83
ACGTcount: A:0.43, C:0.21, G:0.15, T:0.21
Consensus pattern (27 bp):
CACATAAGGGCAAAACAATCATTTTAC
Found at i:51321921 original size:19 final size:19
Alignment explanation
Indices: 51321885--51321923 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
51321875 TTTTGCCACA
*
51321885 TAAGGGAAAAATAATCATT
1 TAAGGGAAAAACAATCATT
* *
51321904 TAAGGGCAAAACAGTCATT
1 TAAGGGAAAAACAATCATT
51321923 T
1 T
51321924 TACCACATAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.10, G:0.18, T:0.26
Consensus pattern (19 bp):
TAAGGGAAAAACAATCATT
Found at i:51321930 original size:46 final size:46
Alignment explanation
Indices: 51321858--51321950 Score: 141
Period size: 46 Copynumber: 2.0 Consensus size: 46
51321848 TTTTACCACA
* *
51321858 TAAGGACAAAACAATCATTTTGCCACATAAGGGAAAAATAATCATT
1 TAAGGACAAAACAATCATTTTACCACATAAGGGAAAAACAATCATT
* * *
51321904 TAAGGGCAAAACAGTCATTTTACCACATAAGGGCAAAACAATCATT
1 TAAGGACAAAACAATCATTTTACCACATAAGGGAAAAACAATCATT
51321950 T
1 T
51321951 TACCGATTAG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.45, C:0.17, G:0.14, T:0.24
Consensus pattern (46 bp):
TAAGGACAAAACAATCATTTTACCACATAAGGGAAAAACAATCATT
Found at i:51322627 original size:15 final size:15
Alignment explanation
Indices: 51322597--51322629 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
51322587 GCTAACCCAA
51322597 AAAGTGAAAGAGAAG
1 AAAGTGAAAGAGAAG
51322612 AAAGTCGAAAGA-AAG
1 AAAGT-GAAAGAGAAG
51322627 AAA
1 AAA
51322630 TAAGGGGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.64, C:0.03, G:0.27, T:0.06
Consensus pattern (15 bp):
AAAGTGAAAGAGAAG
Found at i:51329268 original size:28 final size:27
Alignment explanation
Indices: 51329226--51329294 Score: 84
Period size: 28 Copynumber: 2.5 Consensus size: 27
51329216 CGCTGTCTTG
*
51329226 CACACTAAGTGCCATACTTAATATCTCA
1 CACACTAAGTGCCATACTCAATAT-TCA
* * * *
51329254 CACACCAAGTTCCATTCTCAATATTCG
1 CACACTAAGTGCCATACTCAATATTCA
51329281 CACACTAAGTGCCA
1 CACACTAAGTGCCA
51329295 CACACACACA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
27 14 0.41
28 20 0.59
ACGTcount: A:0.33, C:0.32, G:0.09, T:0.26
Consensus pattern (27 bp):
CACACTAAGTGCCATACTCAATATTCA
Found at i:51329300 original size:2 final size:2
Alignment explanation
Indices: 51329293--51329340 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
51329283 CACTAAGTGC
*
51329293 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CG CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
51329335 CA CA CA
1 CA CA CA
51329341 TATATATATA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.48, C:0.50, G:0.02, T:0.00
Consensus pattern (2 bp):
CA
Found at i:51333438 original size:42 final size:41
Alignment explanation
Indices: 51333372--51333614 Score: 175
Period size: 42 Copynumber: 5.7 Consensus size: 41
51333362 TCGTTTACTT
*
51333372 GATGCCATAGT-CCA-ACTATGGTCTTACAGGAAGTCTCACATC
1 GATGCCATA-TCCCAGAC-ATGGTCTTACAGGAA-TCTCATATC
* * * * *
51333414 GATGCCATGTCCCAGACATTGTCTTATACGAAATCACATATC
1 GATGCCATATCCCAGACATGGTCTTACA-GGAATCTCATATC
* ** * * *
51333456 AATGCCGCATCCCAGACACGGTCTTACACGAAATCTCATACC
1 GATGCCATATCCCAGACATGGTCTTACA-GGAATCTCATATC
* * * * *
51333498 GAAGCCATATCCCAGATATAGTCTTACATGTAATCTTAAATTGATGCC
1 GATGCCATATCCCAGACATGGTCTTACA-GGAATC-T-CA-T-AT--C
* * *
51333546 GATGCCATATCCTAGATATGGTCTTACAGGGATCTCATATC
1 GATGCCATATCCCAGACATGGTCTTACAGGAATCTCATATC
*
51333587 GATGCCATGTCCCAGACATGGTCTTACA
1 GATGCCATATCCCAGACATGGTCTTACA
51333615 CGTATCACAA
Statistics
Matches: 157, Mismatches: 35, Indels: 19
0.74 0.17 0.09
Matches are distributed among these distances:
41 27 0.17
42 86 0.55
43 8 0.05
44 2 0.01
45 2 0.01
46 2 0.01
47 4 0.03
48 26 0.17
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (41 bp):
GATGCCATATCCCAGACATGGTCTTACAGGAATCTCATATC
Found at i:51333674 original size:37 final size:37
Alignment explanation
Indices: 51333586--51333725 Score: 162
Period size: 37 Copynumber: 3.8 Consensus size: 37
51333576 GATCTCATAT
51333586 CGATGCCAT-GTCCCAGAC-ATGGTCTTACACGT-ATCA
1 CGATGCCATAG-CCCAG-CTATGGTCTTACACGTCATCA
* * **
51333622 CAATGCCATAACCCAGCTATGGTCTTACTTGTCATCA
1 CGATGCCATAGCCCAGCTATGGTCTTACACGTCATCA
* *
51333659 CGATGTCATAGCCCAGCTATGGTCTTACACG-CTATTA
1 CGATGCCATAGCCCAGCTATGGTCTTACACGTC-ATCA
*
51333696 CGATGCCATAGCCCAACTATGGTCTTACAC
1 CGATGCCATAGCCCAGCTATGGTCTTACAC
51333726 ATACTCACAT
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
35 1 0.01
36 26 0.30
37 61 0.69
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (37 bp):
CGATGCCATAGCCCAGCTATGGTCTTACACGTCATCA
Found at i:51336338 original size:27 final size:29
Alignment explanation
Indices: 51336273--51336342 Score: 92
Period size: 28 Copynumber: 2.5 Consensus size: 29
51336263 TCGTTGTCTT
* *
51336273 GCACACTAAGGGCC-TTACTTAATATCTC
1 GCACACTAAGTGCCATTACTCAATATCTC
*
51336301 GCACACCAAGTGCCATT-CTCAATAT-TC
1 GCACACTAAGTGCCATTACTCAATATCTC
51336328 GCACACTAAGTGCCA
1 GCACACTAAGTGCCA
51336343 CACACACACA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 16 0.43
28 19 0.51
29 2 0.05
ACGTcount: A:0.30, C:0.31, G:0.14, T:0.24
Consensus pattern (29 bp):
GCACACTAAGTGCCATTACTCAATATCTC
Found at i:51340699 original size:2 final size:2
Alignment explanation
Indices: 51340692--51340720 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
51340682 TTCACTTGGC
51340692 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
51340721 CTCAAAACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:51341986 original size:42 final size:43
Alignment explanation
Indices: 51341886--51342030 Score: 136
Period size: 42 Copynumber: 3.4 Consensus size: 43
51341876 CGCCAACGTA
* * * *
51341886 CCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTGTC
1 CCAGACATGGTCTTACATGAAATCAAATATCGATGCCAATATC
* * *
51341929 CCA-AAAGGGTCTTACATGAAATCATATA-CGATGCCAATATC
1 CCAGACATGGTCTTACATGAAATCAAATATCGATGCCAATATC
* * *
51341970 CCAGACATGGTTTTACACAT-AACTCACAA-ATCGATGCCAACATC
1 CCAGACATGGTCTT--ACATGAAATCA-AATATCGATGCCAATATC
*
51342014 CCAGACGTGGTCTTACA
1 CCAGACATGGTCTTACA
51342031 CTATAACACG
Statistics
Matches: 82, Mismatches: 15, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
41 14 0.17
42 30 0.37
43 9 0.11
44 29 0.35
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (43 bp):
CCAGACATGGTCTTACATGAAATCAAATATCGATGCCAATATC
Found at i:51343613 original size:30 final size:32
Alignment explanation
Indices: 51343552--51343616 Score: 107
Period size: 31 Copynumber: 2.1 Consensus size: 32
51343542 TTCAATCTCA
51343552 ACATATACTGGGCCGAAGCCTCTTCATAATTC
1 ACATATACTGGGCCGAAGCCTCTTCATAATTC
*
51343584 ACAT-TACTGGGCCGAAGCCT-TTTATAATTC
1 ACATATACTGGGCCGAAGCCTCTTCATAATTC
51343614 ACA
1 ACA
51343617 ATTCATATCA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 12 0.38
31 16 0.50
32 4 0.12
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.29
Consensus pattern (32 bp):
ACATATACTGGGCCGAAGCCTCTTCATAATTC
Found at i:51343891 original size:25 final size:25
Alignment explanation
Indices: 51343863--51343932 Score: 131
Period size: 25 Copynumber: 2.8 Consensus size: 25
51343853 CTCTTTTAAT
51343863 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
51343888 AACTAGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
51343913 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
51343933 GCACTTCCTC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:51350009 original size:27 final size:27
Alignment explanation
Indices: 51349952--51350013 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
51349942 CATACATATC
* * * **
51349952 ATAGAGGTATATTAGTCATTTTACCTC
1 ATAGGGGTATAATAGTCATTTCACCAA
*
51349979 ATAGGGGTATAATAGTCATTTCATCAA
1 ATAGGGGTATAATAGTCATTTCACCAA
51350006 ATAGGGGT
1 ATAGGGGT
51350014 TTAGGTATAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.35
Consensus pattern (27 bp):
ATAGGGGTATAATAGTCATTTCACCAA
Found at i:51352955 original size:42 final size:44
Alignment explanation
Indices: 51352909--51353013 Score: 135
Period size: 44 Copynumber: 2.4 Consensus size: 44
51352899 AACACCACTA
* * *
51352909 TCCCAGACAAGGTCTTACACG-AAATCA-AA-TACGATGCCGATG
1 TCCCAGACATGGTCTTACACGTAAATCATAAGT-CGATGACAATG
* *
51352951 TCCCAGACATGGTCTTGCATGTAAATCATAAGTCGATGACAATG
1 TCCCAGACATGGTCTTACACGTAAATCATAAGTCGATGACAATG
51352995 TCCCAGACATGGTCTTACA
1 TCCCAGACATGGTCTTACA
51353014 GGAATACACA
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
42 18 0.33
43 6 0.11
44 29 0.54
45 1 0.02
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (44 bp):
TCCCAGACATGGTCTTACACGTAAATCATAAGTCGATGACAATG
Found at i:51360218 original size:40 final size:39
Alignment explanation
Indices: 51360157--51360412 Score: 161
Period size: 40 Copynumber: 6.5 Consensus size: 39
51360147 GGATGATAAT
51360157 CGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTAATTC
1 CGGGCTAAGTCCCGAAG-GCATTTGAGCTAGT-GCTAATTC
* *
51360197 TGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTG-T-A-TC
1 CGGGCTAAGTCCCGAAGGCATT--T--GAGCTAGTGCTAATTC
* * * *
51360237 CGGGCTAAGTCCCGAAGGCATTCGTGCAAGCTACT-ATATC
1 CGGGCTAAGTCCCGAAGGCATTTGAGCTAG-TGCTAAT-TC
* * * ** * *
51360277 CGGGCTAAGTCCCGAAGGCGTTTGTGCGAGTTATTATAC
1 CGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGCTAATTC
* * * *
51360316 CGGGCTAAGTCTCGAAGGCATTTGTGCAAGTTACCATAA-T-
1 CGGGCTAAGTCCCGAAGGCATTTGAGCTAG-T-GC-TAATTC
51360356 CGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCT-ATATC
1 CGGGCTAAGTCCCGAAGGCATTTGAGCTAGT-GCTAAT-TC
**
51360396 C-GGCTAAACCCCGAAGG
1 CGGGCTAAGTCCCGAAGG
51360413 TACTTGGTTT
Statistics
Matches: 172, Mismatches: 28, Indels: 33
0.74 0.12 0.14
Matches are distributed among these distances:
36 4 0.02
37 2 0.01
38 3 0.02
39 47 0.27
40 101 0.59
41 3 0.02
42 4 0.02
43 1 0.01
44 7 0.04
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (39 bp):
CGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGCTAATTC
Found at i:51360343 original size:79 final size:80
Alignment explanation
Indices: 51360198--51360379 Score: 262
Period size: 79 Copynumber: 2.3 Consensus size: 80
51360188 GGCTAATTCT
*
51360198 GGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTGTATCCGGGCTAAGTCCCGAAGGCATTCGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTGTATCCGGGCTAAGTCCCGAAGGCATTCGTG
*
51360263 CAAGCTACTAT-ATCC
66 CAAGCTACCATAAT-C
* * * *
51360278 GGGCTAAGTCCCGAAGGCGTTTGTGCGAGTTA-T-TATACCGGGCTAAGTCTCGAAGGCATTTGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTGTAT-CCGGGCTAAGTCCCGAAGGCATTCGT
*
51360341 GCAAGTTACCATAATC
65 GCAAGCTACCATAATC
51360357 GGGCTAAGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
51360380 AGCTAGTGGC
Statistics
Matches: 92, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
78 3 0.03
79 58 0.63
80 31 0.34
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.25
Consensus pattern (80 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTGTATCCGGGCTAAGTCCCGAAGGCATTCGTG
CAAGCTACCATAATC
Found at i:51360401 original size:79 final size:79
Alignment explanation
Indices: 51360198--51360412 Score: 256
Period size: 79 Copynumber: 2.7 Consensus size: 79
51360188 GGCTAATTCT
* *
51360198 GGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTGTATCCGGGCTAAGTCCCGAAGGCATTCGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATCCGGGCTAAGTCCCGAAGGCATTCGTG
*
51360263 CAAGCTACTATATCC
65 CAAGCTACCATATCC
* * * *
51360278 GGGCTAAGTCCCGAAGGCGTTTGTGCGAGTTATTATA-CCGGGCTAAGTCTCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATCCGGGCTAAGTCCCGAAGGCATTCGTG
*
51360342 CAAGTTACCATAAT-C
65 CAAGCTACCAT-ATCC
* * * **
51360357 GGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCC-GGCTAAACCCCGAAGG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATATCCGGGCTAAGTCCCGAAGG
51360413 TACTTGGTTT
Statistics
Matches: 115, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
79 78 0.68
80 36 0.31
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (79 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
AAGCTACCATATCC
Found at i:51375930 original size:30 final size:30
Alignment explanation
Indices: 51375896--51375956 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
51375886 TCCTTAACTC
51375896 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
51375926 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
51375956 A
1 A
51375957 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:51378784 original size:27 final size:28
Alignment explanation
Indices: 51378754--51378823 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
51378744 ATAGTGAGTC
* *
51378754 CGCACACCTAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
51378781 CGCACACTTAGTGCTACATGATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
51378809 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
51378824 GTACAAGTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 20 0.51
28 19 0.49
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:51383492 original size:30 final size:30
Alignment explanation
Indices: 51383458--51383518 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
51383448 TCCTTAACTC
51383458 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
51383488 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
51383518 A
1 A
51383519 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:51388173 original size:30 final size:30
Alignment explanation
Indices: 51388129--51388217 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
51388119 CAAAGATAAT
51388129 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
51388158 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
51388188 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
51388218 CGATATATGC
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:51388177 original size:15 final size:15
Alignment explanation
Indices: 51388129--51388208 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
51388119 CAAAGATAAT
*
51388129 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
51388143 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
51388158 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
51388173 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
51388188 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
51388203 AAGAAA
1 AAGAAA
51388209 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:51388217 original size:15 final size:15
Alignment explanation
Indices: 51388140--51388217 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
51388130 AGAAAACCGA
51388140 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
51388155 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
51388169 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
51388184 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
51388200 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
51388215 ATA
1 ATA
51388218 CGATATATGC
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:51392212 original size:29 final size:29
Alignment explanation
Indices: 51392179--51392252 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
51392169 CCTTCGAGCT
51392179 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
51392208 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
51392237 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
51392253 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:51392213 original size:58 final size:58
Alignment explanation
Indices: 51392120--51392252 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
51392110 ATACTCGATT
* * * * *
51392120 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
51392178 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
51392236 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
51392253 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:51394336 original size:93 final size:93
Alignment explanation
Indices: 51394227--51394398 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
51394217 GCCCATAAGT
* *
51394227 GAACTCGGACTCAACTCAACGAGCTC-GAGCGTTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGA-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
51394291 ACGAGCTCGGATGCCTAGTTACATCTCTC
65 ACGAGCTCGGATGCCTAGTTACATCTCTC
* *
51394320 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCTATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
51394385 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
51394399 CAAATATCCT
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
93 71 0.97
94 2 0.03
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:51394389 original size:46 final size:46
Alignment explanation
Indices: 51394221--51394394 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
51394211 TAACCCGCCC
* *
51394221 ATAAGTGAACTCGGACTCAACTCAACGAGCTC-GAGCGTTTGCATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGC-ATTGCATCT
*
51394267 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCT
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA-G-C-A-TTGCATCT
* * *
51394317 CT---CGAACTCGGACTCAACTCAACGAGTTCGGA-CATTCGCATCT
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGCATT-GCATCT
*
51394360 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
51394395 TGCCCAAATA
Statistics
Matches: 110, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
42 2 0.02
43 7 0.06
44 1 0.01
46 61 0.55
47 30 0.27
48 1 0.01
49 1 0.01
50 7 0.06
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGCATTGCATCT
Found at i:51398298 original size:49 final size:49
Alignment explanation
Indices: 51398225--51398449 Score: 252
Period size: 49 Copynumber: 4.5 Consensus size: 49
51398215 CTGGTACGCA
* * *
51398225 TAGTAGCCCGCACTTAGTACTACACATGCGACCAATTATCCGATACATG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGATACACG
* * * **
51398274 TAGTAGCCTGCACTTAGAATTACACATGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCTGATACACG
* * * * * * * *
51398324 TAGTAGCCTACACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCTGATACACG
* * *
51398375 TAGTAGCCTACACTTAGTACTACACATCCGACCAATTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGATACACG
51398424 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
51398450 CGTGACCTCA
Statistics
Matches: 146, Mismatches: 27, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
49 65 0.45
50 44 0.30
51 37 0.25
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGATACACG
Found at i:51398441 original size:100 final size:99
Alignment explanation
Indices: 51398211--51398456 Score: 287
Period size: 100 Copynumber: 2.5 Consensus size: 99
51398201 GTAGACAAGG
* * * * * **
51398211 CTATCTGGTACGCATAGTAGCCCGCACTTAGTACTACACATGCGACCAATTATCCGATACATGTA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGATACACATA
* * **
51398276 GTAGCCTGCACTTAGAATTACACATGTGACCTAA
66 GTAGCCTACACTTAGAACTACACATCCGACCTAA
* * * * * * *
51398310 CCATCTGATACACGTAGTAGCCTACACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGATACACA
*
51398375 TAGTAGCCTACACTTAGTACTACACATCCGACC-AA
64 TAGTAGCCTACACTTAGAACTACACATCCGACCTAA
*
51398410 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
51398457 TCACAATAGA
Statistics
Matches: 121, Mismatches: 24, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
99 38 0.31
100 46 0.38
101 37 0.31
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (99 bp):
CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGATACACATA
GTAGCCTACACTTAGAACTACACATCCGACCTAA
Found at i:51398733 original size:27 final size:27
Alignment explanation
Indices: 51398703--51398756 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
51398693 TCATACAACC
* *
51398703 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
51398730 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
51398757 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:51401188 original size:29 final size:29
Alignment explanation
Indices: 51401149--51401223 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
51401139 GGTTGAGAGA
* *
51401149 ATGGCACTAAGTGTGCGGGCTTGAAA-TGC
1 ATGGCACTAAGTGTGCGAG-TTGAAAGTAC
*
51401178 ATGGCACTAAGTGTGCGAGTTTAAAGTAC
1 ATGGCACTAAGTGTGCGAGTTGAAAGTAC
51401207 ATGGCACTAAGTGTGCG
1 ATGGCACTAAGTGTGCG
51401224 TGGTTGATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
28 5 0.12
29 37 0.88
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGTTGAAAGTAC
Found at i:51409016 original size:29 final size:29
Alignment explanation
Indices: 51408977--51409051 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
51408967 GGTTGAGAGA
* *
51408977 ATGGCACTAAGTGTGCGGGCTTGAAA-TGC
1 ATGGCACTAAGTGTGCGAG-TTGAAAGTAC
*
51409006 ATGGCACTAAGTGTGCGAGTTTAAAGTAC
1 ATGGCACTAAGTGTGCGAGTTGAAAGTAC
51409035 ATGGCACTAAGTGTGCG
1 ATGGCACTAAGTGTGCG
51409052 TGGTTGATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
28 5 0.12
29 37 0.88
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGTTGAAAGTAC
Found at i:51417560 original size:46 final size:46
Alignment explanation
Indices: 51417493--51417621 Score: 222
Period size: 46 Copynumber: 2.8 Consensus size: 46
51417483 TGTAACCCGC
* * * *
51417493 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
51417539 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
51417585 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
51417622 TGCCCAAACA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:51417640 original size:46 final size:46
Alignment explanation
Indices: 51417501--51417640 Score: 126
Period size: 46 Copynumber: 3.0 Consensus size: 46
51417491 GCCCATAAGC
* ****
51417501 GAACTCGGACTCAACTCAACGAGCTCGG--GCGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCGCAAACATCC-T-AGT
* ** *
51417547 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGCGCAAACATCCTAGT
*
51417593 GAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCGCAAACATCCTAGT
51417639 GA
1 GA
51417641 CATGTCACTT
Statistics
Matches: 76, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
44 8 0.11
46 63 0.83
50 5 0.07
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.20
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCGCAAACATCCTAGT
Found at i:51421027 original size:27 final size:27
Alignment explanation
Indices: 51420995--51421252 Score: 356
Period size: 27 Copynumber: 9.6 Consensus size: 27
51420985 AAGTACTCCT
51420995 GATTTACAGAATTACCGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
**
51421022 -AGTTTACAGAATTACTATTTTACCCTC
1 GA-TTTACAGAATTACCGTTTTACCCTC
*
51421049 GATTTACAGAATTACCGTTTTACCCCC
1 GATTTACAGAATTACCGTTTTACCCTC
* * * *
51421076 AATTTACATAATTACCATTTTACCCCC
1 GATTTACAGAATTACCGTTTTACCCTC
* *
51421103 GATTTACATAATTATCGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
51421130 GATTTACAGAATTACCGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
*
51421157 GATTTACAGAATTACCATTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
* * *
51421184 GATTTATAGAATTACTGTTTTACCCTT
1 GATTTACAGAATTACCGTTTTACCCTC
**
51421211 GATTTACAGAATTACTATTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
*
51421238 GATTTACAAAATTAC
1 GATTTACAGAATTAC
51421253 TAAAATACCC
Statistics
Matches: 206, Mismatches: 23, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
26 1 0.00
27 204 0.99
28 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (27 bp):
GATTTACAGAATTACCGTTTTACCCTC
Found at i:51421279 original size:54 final size:54
Alignment explanation
Indices: 51420975--51421265 Score: 237
Period size: 54 Copynumber: 5.4 Consensus size: 54
51420965 CTCGACTTGT
*
51420975 AAAATTAC-AAAAGTACTCC-TGATTTACAGAATTACCGTTTTACCCTC-AGTTTAC
1 AAAATTACTAAAA-TAC-CCTTGATTTACAGAATTACCATTTTACCCTCGA-TTTAC
* *** * * * *
51421029 AGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCCCAATTTAC
1 AAAATTACTAAAATACCCTTGATTTACAGAATTACCATTTTACCCTCGATTTAC
* * *** ** * * *
51421083 ATAATTACCATTTTACCCCCGATTTACATAATTATCGTTTTACCCTCGATTTAC
1 AAAATTACTAAAATACCCTTGATTTACAGAATTACCATTTTACCCTCGATTTAC
* ***** * *
51421137 AGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTAT
1 AAAATTACTAAAATACCCTTGATTTACAGAATTACCATTTTACCCTCGATTTAC
* **** *
51421191 AGAATTACTGTTTTACCCTTGATTTACAGAATTACTATTTTACCCTCGATTTAC
1 AAAATTACTAAAATACCCTTGATTTACAGAATTACCATTTTACCCTCGATTTAC
51421245 AAAATTACTAAAATACCCTTG
1 AAAATTACTAAAATACCCTTG
51421266 GTTTGTGAAA
Statistics
Matches: 205, Mismatches: 29, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
53 2 0.01
54 201 0.98
55 2 0.01
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (54 bp):
AAAATTACTAAAATACCCTTGATTTACAGAATTACCATTTTACCCTCGATTTAC
Found at i:51421289 original size:81 final size:81
Alignment explanation
Indices: 51421042--51421296 Score: 224
Period size: 81 Copynumber: 3.1 Consensus size: 81
51421032 ATTACTATTT
* * * * *** *
51421042 TACCCTCGATTTACAGAATTACCGTTTTACCCCCAATTTACATAATTACCATTTTACCCCCGATT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATT
* * * ***
51421107 TACATAATTATCGTTT
66 TATAGAATTACCGCAA
* * ***
51421123 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATT
* ***
51421188 TATAGAATTACTGTTT
66 TATAGAATTACCGCAA
* * * * *
51421204 TACCCTTGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATT
*
51421269 TGT-GAAATTACCGCAA
66 TATAG-AATTACCGCAA
*
51421285 TACCCTCAATTT
1 TACCCTCGATTT
51421297 GTAAAACTAC
Statistics
Matches: 148, Mismatches: 25, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
80 1 0.01
81 147 0.99
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.38
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATT
TATAGAATTACCGCAA
Found at i:51422598 original size:20 final size:20
Alignment explanation
Indices: 51422573--51422616 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
51422563 ATTTTGATAA
51422573 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
51422593 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
51422613 ACAT
1 ACAT
51422617 TAGGTGTACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:51422773 original size:25 final size:24
Alignment explanation
Indices: 51422668--51422773 Score: 142
Period size: 24 Copynumber: 4.4 Consensus size: 24
51422658 GAGGAAGTGC
51422668 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
51422692 -AAAGGGCTTATGCCCCAGTGATC
1 AAAAGGGCTTATGCCCCAGTTATT
**
51422715 AAAAGGGCTTATGCCCCAGTTACA
1 AAAAGGGCTTATGCCCCAGTTATT
*
51422739 AAAATGGGCTTTTGCCCCAGTTATT
1 AAAA-GGGCTTATGCCCCAGTTATT
51422764 AAAAGAGGCT
1 AAAAG-GGCT
51422774 AGGCCTCCAG
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
23 21 0.30
24 25 0.35
25 25 0.35
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:51423013 original size:31 final size:31
Alignment explanation
Indices: 51422978--51423072 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
51422968 CGTTTACAGT
51422978 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
51423009 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
51423040 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
51423071 AA
1 AA
51423073 TATGAAAAGG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:51426091 original size:133 final size:135
Alignment explanation
Indices: 51425907--51426162 Score: 392
Period size: 133 Copynumber: 1.9 Consensus size: 135
51425897 AAAGTACTCC
*
51425907 CGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCAATTTACAGA
1 CGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACCATTTTACCCTCAATTTACAGA
* *
51425972 ATTACCGTTTTACCC-CAATTTACATAATTACCATTTTACCC-CGATTTACATAATTATCGTTTT
66 ATTACCGTTTTACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTATCGTTTT
51426035 ACCCT
131 ACCCT
* *
51426040 CGATTTACAGAATTACCGTTTTACCCTC-GATTTACAGAATTACCATTTTACCCTCGATTTATAG
1 CGATTTACAGAATTACCGTTTTACCCTCAG-TTTACAGAATTACCATTTTACCCTCAATTTACAG
* ** **
51426104 AATTACTGTTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTA
65 AATTACCGTTTTACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTA
51426163 CTAAAATACC
Statistics
Matches: 110, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
132 1 0.01
133 74 0.67
134 21 0.19
135 14 0.13
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.39
Consensus pattern (135 bp):
CGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACCATTTTACCCTCAATTTACAGA
ATTACCGTTTTACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTATCGTTTT
ACCCT
Found at i:51426164 original size:27 final size:27
Alignment explanation
Indices: 51425907--51426163 Score: 358
Period size: 27 Copynumber: 9.6 Consensus size: 27
51425897 AAAGTACTCC
51425907 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
51425934 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
51425961 CAATTTACAGAATTACCGTTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
51425987 CAATTTACATAATTACCATTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* *
51426013 CGATTTACATAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
51426040 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
51426067 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
51426094 CGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
51426121 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
51426148 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
51426164 TAAAATACCC
Statistics
Matches: 208, Mismatches: 19, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
26 48 0.23
27 159 0.76
28 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.39
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:51426200 original size:81 final size:81
Alignment explanation
Indices: 51425955--51426207 Score: 233
Period size: 81 Copynumber: 3.1 Consensus size: 81
51425945 ATTACTATTT
* * * ***
51425955 TACCCTCAATTTACAGAATTACCGTTTTACCC-CAATTTACATAATTACCATTTTACCC-CGATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATT
* * * ***
51426018 TACATAATTATCGTTT
66 TATAGAATTACCGCAA
* ***
51426034 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATT
* ***
51426099 TATAGAATTACTGTTT
66 TATAGAATTACCGCAA
* * * * *
51426115 TACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATT
*
51426180 TGT-GAAATTACCGCAA
66 TATAG-AATTACCGCAA
*
51426196 TACCCTCAATTT
1 TACCCTCGATTT
51426208 GTAAAACTAC
Statistics
Matches: 148, Mismatches: 23, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
79 31 0.21
80 25 0.17
81 92 0.62
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.38
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATT
TATAGAATTACCGCAA
Found at i:51427517 original size:20 final size:20
Alignment explanation
Indices: 51427492--51427535 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
51427482 ATTTTGATAA
51427492 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
51427512 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
51427532 ACAT
1 ACAT
51427536 TAGGTGTGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:51427713 original size:24 final size:23
Alignment explanation
Indices: 51427588--51427713 Score: 164
Period size: 23 Copynumber: 5.4 Consensus size: 23
51427578 GAGGAAGTGC
51427588 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
51427611 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
* *
51427634 TAAAGGGCTTATG-CCCAGTGAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
51427656 CAAAAGGGCTTATGCCCCAGTTACA
1 -AAAAGGGCTTATGCCCCAGTTA-T
*
51427681 AAAAGGGCTTTTGCCCCAGTTACT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
51427705 AAAAAGGCT
1 AAAAGGGCT
51427714 AGGCCTCCAG
Statistics
Matches: 92, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
22 8 0.09
23 47 0.51
24 37 0.40
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.25
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:51427954 original size:31 final size:31
Alignment explanation
Indices: 51427919--51428013 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
51427909 CGTTTACAGT
51427919 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
51427950 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
51427981 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
51428012 AA
1 AA
51428014 TATGAAAAGG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:51433872 original size:93 final size:93
Alignment explanation
Indices: 51433764--51433936 Score: 319
Period size: 93 Copynumber: 1.9 Consensus size: 93
51433754 CGCCCATAAG
* *
51433764 CGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
51433829 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
51433857 CGAACTCGGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
51433922 ACGAGTTCGGATGCC
66 ACGAGTTCGGATGCC
51433937 CAAACATCCT
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 77 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:51433932 original size:46 final size:46
Alignment explanation
Indices: 51433757--51433932 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
51433747 TGTAACCCGC
* *
51433757 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
51433803 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
51433853 -C-TCA-CGAACTCGGACTCAACTCAATGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
51433896 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
51433933 TGCCCAAACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 28 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:51436951 original size:49 final size:49
Alignment explanation
Indices: 51436892--51437131 Score: 264
Period size: 49 Copynumber: 4.8 Consensus size: 49
51436882 AAGGCTATTT
* * *
51436892 GGTACGCATAGTAGCCTGCACCTAGTACTACACATGCGACCAATTATCC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCC
* * ** *
51436941 GGTACACATAGTAGCCTGCACTTAGTACTACGCACGTGACCTAACCATCT
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCC
* * * * *
51436991 GATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCG
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCC
* * *
51437042 GGTACACATAGTAGCCTGCACTCAGTACAACACATGCGACCAATTATCC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCC
** * * *
51437091 AATACACGTAGTAACCTGCACTTAGTACTACACACGTGACC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
51437132 TCACAATAGA
Statistics
Matches: 157, Mismatches: 31, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
49 74 0.47
50 46 0.29
51 37 0.24
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (49 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCC
Found at i:51437124 original size:100 final size:99
Alignment explanation
Indices: 51436900--51437131 Score: 304
Period size: 100 Copynumber: 2.3 Consensus size: 99
51436890 TTGGTACGCA
* * * *
51436900 TAGTAGCCTGCACCTAGTACTACACATGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGTAGCCTGCACTCA
* * * **
51436965 GTACTACGCACGTGACCTAACCATCTGATACACG
66 GTACAACACACGCGACCTAACCATCCAATACACG
* *
51436999 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACACATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACACATAGTAGCCTGCACT
* **
51437064 CAGTACAACACATGCGACC-AATTATCCAATACACG
64 CAGTACAACACACGCGACCTAACCATCCAATACACG
*
51437099 TAGTAACCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
51437132 TCACAATAGA
Statistics
Matches: 115, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
99 29 0.25
100 45 0.39
101 41 0.36
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGTAGCCTGCACTCA
GTACAACACACGCGACCTAACCATCCAATACACG
Found at i:51444254 original size:15 final size:16
Alignment explanation
Indices: 51444234--51444264 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
51444224 ATTTTCCTCC
51444234 TAGTTTTGA-AGTTTT
1 TAGTTTTGAGAGTTTT
51444249 TAGTTTTGAGAGTTTT
1 TAGTTTTGAGAGTTTT
51444265 CTCTCTACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.19, C:0.00, G:0.23, T:0.58
Consensus pattern (16 bp):
TAGTTTTGAGAGTTTT
Found at i:51445598 original size:27 final size:27
Alignment explanation
Indices: 51445567--51445620 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
51445557 TAAAAGTTTA
* *
51445567 TTTTGCCTTTATGA-GGTAAAATGACTG
1 TTTTGCCCTTAT-ATGGTAAAATAACTG
51445594 TTTTGCCCTTATATGGTAAAATAACTG
1 TTTTGCCCTTATATGGTAAAATAACTG
51445621 AAATGCCCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 1 0.04
27 23 0.96
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.41
Consensus pattern (27 bp):
TTTTGCCCTTATATGGTAAAATAACTG
Found at i:51451387 original size:43 final size:43
Alignment explanation
Indices: 51451329--51451444 Score: 130
Period size: 43 Copynumber: 2.7 Consensus size: 43
51451319 TTTCACATAT
* * * *
51451329 CGATGCCACTATCCCAAACAGGGTCTTATACGA-AATCAT-ATAA
1 CGATGCCAATGTCCCAAACATGGTCTTACAC-ATAATCATAAT-A
51451372 CGATGCCAATGTCCCAGAA-ATGGTCTTACACATAATCATAATA
1 CGATGCCAATGTCCCA-AACATGGTCTTACACATAATCATAATA
* *
51451415 CAATGCCAATGTCCCAGACATGGTCTTACA
1 CGATGCCAATGTCCCAAACATGGTCTTACA
51451445 TGTAATCACA
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
42 2 0.03
43 57 0.90
44 4 0.06
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (43 bp):
CGATGCCAATGTCCCAAACATGGTCTTACACATAATCATAATA
Found at i:51453137 original size:22 final size:22
Alignment explanation
Indices: 51453112--51453156 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
51453102 GAAGAAAGTT
51453112 GGGGAGAATTTTCAAGATTTAG
1 GGGGAGAATTTTCAAGATTTAG
51453134 GGGGAGAATTTTCAAGATTTAG
1 GGGGAGAATTTTCAAGATTTAG
51453156 G
1 G
51453157 ATGGCTAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.04, G:0.33, T:0.31
Consensus pattern (22 bp):
GGGGAGAATTTTCAAGATTTAG
Found at i:51453514 original size:20 final size:20
Alignment explanation
Indices: 51453486--51453524 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
51453476 ACCCCCTTAT
*
51453486 TAAACATAAACAA-TTCAAAC
1 TAAAAATAAA-AATTTCAAAC
51453506 TAAAAATAAAAATTTCAAA
1 TAAAAATAAAAATTTCAAA
51453525 ATTAATTAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.64, C:0.13, G:0.00, T:0.23
Consensus pattern (20 bp):
TAAAAATAAAAATTTCAAAC
Found at i:51461734 original size:47 final size:47
Alignment explanation
Indices: 51461661--51461884 Score: 147
Period size: 46 Copynumber: 4.8 Consensus size: 47
51461651 TGGGTAACGT
*
51461661 GTCGATGCCATGTCCCAGACACGGTCTTACACTGGCTCACATCTCAA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAA
* * *
51461708 GTCGATGCCATGTCCCAGACATGGTCTTACA-TTGAT-ATCATCTCGTA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCA-CATCTC-AA
* * * * ** *
51461755 G-CTGATG-CATGTCCTAAACAT-GTCTTTCACTGGCTTACGCCTCGA
1 GTC-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAA
* * * * * * * * * *
51461800 GGCTGATG-CTTGTCCCGGACAT-GCCTTACAGTAGCACTCGTCTCATT
1 GTC-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCA-A
* *
51461847 GTAGATGCCATGTCCCAGAAATGGTCTTACACTGGCTC
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC
51461885 CTATAATGTG
Statistics
Matches: 133, Mismatches: 35, Indels: 17
0.72 0.19 0.09
Matches are distributed among these distances:
45 10 0.08
46 63 0.47
47 49 0.37
48 11 0.08
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (47 bp):
GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAA
Found at i:51464548 original size:46 final size:45
Alignment explanation
Indices: 51464498--51464669 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 45
51464488 TGGTTGAGCA
51464498 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAATG
* * * *
51464544 TCCGAACTCGTTGAGTTGAGCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAA-T--G
*
51464588 CATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAATG
* * *
51464635 -CCCAGCTCGTTGAGTTGAGTCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGG
51464670 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 12, Indels: 20
0.77 0.09 0.15
Matches are distributed among these distances:
41 2 0.02
42 5 0.05
44 35 0.33
45 7 0.07
46 47 0.45
47 3 0.03
49 4 0.04
50 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAATG
Found at i:51472056 original size:46 final size:46
Alignment explanation
Indices: 51472006--51472181 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
51471996 TGGTTGAGCA
51472006 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
51472052 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
51472097 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
51472145 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
51472182 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:51472162 original size:93 final size:93
Alignment explanation
Indices: 51472003--51472174 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
51471993 GGATGGTTGA
* *
51472003 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
51472068 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
51472096 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
51472161 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
51472175 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:51477846 original size:6 final size:6
Alignment explanation
Indices: 51477811--51477845 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
51477801 TTAAATCTGC
51477811 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA -AAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
51477846 AGTAGTTTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.17
6 24 0.83
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
TAAAAA
Found at i:51484141 original size:9 final size:9
Alignment explanation
Indices: 51484116--51484147 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
51484106 AAGAAAAAGT
51484116 AAATTAAT-
1 AAATTAATA
51484124 AAA-TAATA
1 AAATTAATA
51484132 AAATTAATA
1 AAATTAATA
51484141 AAATTAA
1 AAATTAA
51484148 ATTAAATTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
7 4 0.18
8 6 0.27
9 12 0.55
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
AAATTAATA
Found at i:51489734 original size:364 final size:364
Alignment explanation
Indices: 51489055--51489783 Score: 1363
Period size: 364 Copynumber: 2.0 Consensus size: 364
51489045 AACCCGTACC
51489055 GGGGTAGATTACAAGGCATTACCTAACTTGATCTCATGCATACACCCAATCTCAAATTACCGAGA
1 GGGGTAGATTACAAGGCATTACCTAACTTGATCTCATGCATACACCCAATCTCAAATTACCGAGA
51489120 CTCGATCCAAATTAAAACTTTTTCAATTCTACTTTAATCTTCTTATTATGGACTTACGAGTCCCA
66 CTCGATCCAAATTAAAACTTTTTCAATTCTACTTTAATCTTCTTATTATGGACTTACGAGTCCCA
*
51489185 AATCGATCGTTGATAACTATTCAGAACCATTCTTGGTCTTTAAACCAACCTTAAGAAATTACCTT
131 AATCGATCGTTG--AACTATTCAGAACCATTCTTGGTCCTTAAACCAACCTTAAGAAATTACCTT
*
51489250 TAAAACAGGGCACATGCCTGTATGGAAGGGTAACACGCCCGTGTGACCATTTCGACATGGTCGTG
194 TAAAACAGGGCACATGCCCGTATGGAAGGGTAACACGCCCGTGTGACCATTTCGACATGGTCGTG
51489315 CCAATGGCTCGTGTGGCTCACATGACCTAAGCACACTGGGACACGCCCTTGTCCCACACCCGTGT
259 CCAATGGCTCGTGTGGCTCACATGACCTAAGCACACTGGGACACGCCCTTGTCCCACACCCGTGT
51489380 ATAATTAATTTCTAATTGACACCTATAGAGGTTTTCACACA
324 ATAATTAATTTCTAATTGACACCTATAGAGGTTTTCACACA
*
51489421 GGGGTAGATTATAAGGCATTACCTAACTTGATCTCATGCATACACCCAATCTCAAATTACCGAGA
1 GGGGTAGATTACAAGGCATTACCTAACTTGATCTCATGCATACACCCAATCTCAAATTACCGAGA
51489486 CTCGATCCAAATTAAAACTTTTTCAATTTCTACTTTAATCTTCTTATTATGGACTTACGAGTCCC
66 CTCGATCCAAATTAAAACTTTTTCAA-TTCTACTTTAATCTTCTTATTATGGACTTACGAGTCCC
*
51489551 AAATCGATCGTTG-ACTATTCGGAACCATTCTTGGTCCTTAAACCAACCTTAAGAAATTACCTTT
130 AAATCGATCGTTGAACTATTCAGAACCATTCTTGGTCCTTAAACCAACCTTAAGAAATTACCTTT
51489615 AAAACAGGGCACATGCCCGTATGGAAGGGTAACACGCCCGTGTGACCATTTCGACATGGTCGTGC
195 AAAACAGGGCACATGCCCGTATGGAAGGGTAACACGCCCGTGTGACCATTTCGACATGGTCGTGC
51489680 CAATGGCTCGTGTGGCTCACATGACCTAAGCACACTGGGACACG-CCTGTGTCCCACACCCGTGT
260 CAATGGCTCGTGTGGCTCACATGACCTAAGCACACTGGGACACGCCCT-TGTCCCACACCCGTGT
*
51489744 ATAATTAATTTCTAATTTACACCTATAGAGGTTTTCACAC
324 ATAATTAATTTCTAATTGACACCTATAGAGGTTTTCACAC
51489784 TGCCAGACAC
Statistics
Matches: 356, Mismatches: 5, Indels: 6
0.97 0.01 0.02
Matches are distributed among these distances:
363 3 0.01
364 212 0.60
366 90 0.25
367 51 0.14
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (364 bp):
GGGGTAGATTACAAGGCATTACCTAACTTGATCTCATGCATACACCCAATCTCAAATTACCGAGA
CTCGATCCAAATTAAAACTTTTTCAATTCTACTTTAATCTTCTTATTATGGACTTACGAGTCCCA
AATCGATCGTTGAACTATTCAGAACCATTCTTGGTCCTTAAACCAACCTTAAGAAATTACCTTTA
AAACAGGGCACATGCCCGTATGGAAGGGTAACACGCCCGTGTGACCATTTCGACATGGTCGTGCC
AATGGCTCGTGTGGCTCACATGACCTAAGCACACTGGGACACGCCCTTGTCCCACACCCGTGTAT
AATTAATTTCTAATTGACACCTATAGAGGTTTTCACACA
Found at i:51496209 original size:29 final size:29
Alignment explanation
Indices: 51496167--51496298 Score: 228
Period size: 29 Copynumber: 4.5 Consensus size: 29
51496157 AAAATTGTAC
*
51496167 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
*
51496196 AGCACTAAGTGTGCGAGCTGAAAATACAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
*
51496225 AGCACTAAGTGTGCGCGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
51496255 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
51496284 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
51496299 GATTCACTAT
Statistics
Matches: 97, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
29 70 0.72
30 27 0.28
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.23
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:51496263 original size:59 final size:58
Alignment explanation
Indices: 51496167--51496298 Score: 228
Period size: 59 Copynumber: 2.3 Consensus size: 58
51496157 AAAATTGTAC
51496167 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATACAT
1 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATACAT
** *
51496225 AGCACTAAGTGTGCGCGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAA-TATATAGCACTAAGTGTGCGAGCTGAAAATACAT
51496284 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
51496299 GATTCACTAT
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
58 22 0.31
59 48 0.69
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.23
Consensus pattern (58 bp):
AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATACAT
Found at i:51496287 original size:88 final size:89
Alignment explanation
Indices: 51496137--51496298 Score: 263
Period size: 88 Copynumber: 1.8 Consensus size: 89
51496127 GACAAGATTG
* * *
51496137 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
1 GCACTAAGTGTGCGCGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
51496202 AAGTGTGCGAGCTGAAAATACATA
66 AAGTGTGCGAGCTGAAAATACATA
* * *
51496226 GCACTAAGTGTGCGCG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATAGCACT
1 GCACTAAGTGTGCGCGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
51496290 AAGTGTGCG
66 AAGTGTGCG
51496299 GATTCACTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
88 52 0.78
89 15 0.22
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (89 bp):
GCACTAAGTGTGCGCGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
AAGTGTGCGAGCTGAAAATACATA
Found at i:51503632 original size:18 final size:18
Alignment explanation
Indices: 51503609--51503647 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
51503599 AATTCAATTC
51503609 CATACCCAACAAGCATTA
1 CATACCCAACAAGCATTA
51503627 CATACCCAACAAGCATTA
1 CATACCCAACAAGCATTA
51503645 CAT
1 CAT
51503648 TGAGACTAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.44, C:0.33, G:0.05, T:0.18
Consensus pattern (18 bp):
CATACCCAACAAGCATTA
Found at i:51515830 original size:15 final size:15
Alignment explanation
Indices: 51515810--51515840 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
51515800 ATAGATGAAA
51515810 GATATGTTTTGAATT
1 GATATGTTTTGAATT
*
51515825 GATATGTTTTGTATT
1 GATATGTTTTGAATT
51515840 G
1 G
51515841 GAATTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.55
Consensus pattern (15 bp):
GATATGTTTTGAATT
Found at i:51516483 original size:45 final size:41
Alignment explanation
Indices: 51516433--51516552 Score: 102
Period size: 41 Copynumber: 2.8 Consensus size: 41
51516423 TGTGTTCTCA
*
51516433 TGTAAGACCTCATCTGGGACGTTGGCATCGATATATGTAGTTATG
1 TGTAAGACCT-ATCTGGGACGTTGGCATCGATATATG-A-TT-CG
* * *
51516478 TGTAAGA-CTATGTCTGGGACATTGACATCG-TATTTGATTCG
1 TGTAAGACCTA--TCTGGGACGTTGGCATCGATATATGATTCG
*
51516519 TGTAAGACCTTGTCTGGGACAG-TGGCATCGATAT
1 TGTAAGACC-TATCTGGGAC-GTTGGCATCGATAT
51516553 GAGATAGCAC
Statistics
Matches: 62, Mismatches: 7, Indels: 15
0.74 0.08 0.18
Matches are distributed among these distances:
41 23 0.37
42 6 0.10
43 3 0.05
44 7 0.11
45 23 0.37
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (41 bp):
TGTAAGACCTATCTGGGACGTTGGCATCGATATATGATTCG
Found at i:51517843 original size:20 final size:19
Alignment explanation
Indices: 51517809--51517847 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
51517799 AATATTTTGA
51517809 TATGATATTTATGTATATGT
1 TATGATATTTATGTA-ATGT
51517829 TATGATATATT-TGTAATGT
1 TATGATAT-TTATGTAATGT
51517848 ATTTGATTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 12 0.67
21 2 0.11
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (19 bp):
TATGATATTTATGTAATGT
Found at i:51520250 original size:27 final size:26
Alignment explanation
Indices: 51520194--51520338 Score: 175
Period size: 27 Copynumber: 5.4 Consensus size: 26
51520184 CCCCAAAATT
51520194 GGTAAAATGACTGTAATG-CCCTGTAG
1 GGTAAAATGAC-GTAATGCCCCTGTAG
51520220 GGTAAAATGATCGTAATGCCCCTGTAG
1 GGTAAAATGA-CGTAATGCCCCTGTAG
* *
51520247 GGTAAAATGACTGTAATACCCCTATAG
1 GGTAAAATGAC-GTAATGCCCCTGTAG
* *
51520274 GGTAAAATGACCGTAATGTCCCTATAG
1 GGTAAAATGA-CGTAATGCCCCTGTAG
* *
51520301 GGTAAAATGACCGTAATACCCCTGTAT
1 GGTAAAATGA-CGTAATGCCCCTGTAG
*
51520328 AGTAAAATGAC
1 GGTAAAATGAC
51520339 AATTATGCCC
Statistics
Matches: 106, Mismatches: 9, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
26 18 0.17
27 87 0.82
28 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (26 bp):
GGTAAAATGACGTAATGCCCCTGTAG
Found at i:51520289 original size:54 final size:54
Alignment explanation
Indices: 51520194--51520338 Score: 211
Period size: 54 Copynumber: 2.7 Consensus size: 54
51520184 CCCCAAAATT
* * *
51520194 GGTAAAATGACTGTAAT-GCCCTGTAGGGTAAAATGATCGTAATGCCCCTGTAG
1 GGTAAAATGACTGTAATACCCCTGTAGGGTAAAATGACCGTAATGCCCCTATAG
* *
51520247 GGTAAAATGACTGTAATACCCCTATAGGGTAAAATGACCGTAATGTCCCTATAG
1 GGTAAAATGACTGTAATACCCCTGTAGGGTAAAATGACCGTAATGCCCCTATAG
* **
51520301 GGTAAAATGACCGTAATACCCCTGTATAGTAAAATGAC
1 GGTAAAATGACTGTAATACCCCTGTAGGGTAAAATGAC
51520339 AATTATGCCC
Statistics
Matches: 82, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
53 17 0.21
54 65 0.79
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (54 bp):
GGTAAAATGACTGTAATACCCCTGTAGGGTAAAATGACCGTAATGCCCCTATAG
Found at i:51522759 original size:55 final size:55
Alignment explanation
Indices: 51522670--51522781 Score: 197
Period size: 55 Copynumber: 2.0 Consensus size: 55
51522660 AGCTTACTTA
*
51522670 AAGCTACTTATAATATTCATGTCATTAACCAAATATAGATATATACCCACAACAC
1 AAGCTACTTATAATATTCATGTCATTAACCAAATATAGATATATACCCAAAACAC
* *
51522725 AAGCTATTTATAATATTCATGTCATTAACTAAATATAGATATATACCCAAAACAC
1 AAGCTACTTATAATATTCATGTCATTAACCAAATATAGATATATACCCAAAACAC
51522780 AA
1 AA
51522782 ATCTTACACA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.46, C:0.19, G:0.05, T:0.30
Consensus pattern (55 bp):
AAGCTACTTATAATATTCATGTCATTAACCAAATATAGATATATACCCAAAACAC
Found at i:51523976 original size:56 final size:56
Alignment explanation
Indices: 51523916--51524050 Score: 211
Period size: 54 Copynumber: 2.4 Consensus size: 56
51523906 TCCCAGATAG
* *
51523916 GGTCTTACTCGCACACATATATCGAAACCACATATCGATGCCAATGTATTAAACGT
1 GGTCTTACTCGCACACATATATCGAAACCACATACCGATGCCAACGTATTAAACGT
* *
51523972 GGTCTTACTCG--CACATATATCAAAATCACATACCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACATATATCGAAACCACATACCGATGCCAACGTATTAAACGT
*
51524026 AGTCTTACTCGCACACATATATCGA
1 GGTCTTACTCGCACACATATATCGA
51524051 TGCCATGGTC
Statistics
Matches: 71, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
54 49 0.69
56 22 0.31
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.27
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGAAACCACATACCGATGCCAACGTATTAAACGT
Found at i:51524213 original size:2 final size:2
Alignment explanation
Indices: 51524206--51524235 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
51524196 TTCAATTTTC
51524206 AT AT 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 AT AT
51524236 TATCACATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:51526518 original size:27 final size:27
Alignment explanation
Indices: 51526488--51526604 Score: 155
Period size: 27 Copynumber: 4.4 Consensus size: 27
51526478 ATGCCTGGAC
* *
51526488 CCCTTATGTGGTAAAATGACTATTTTT
1 CCCTTATGTGGTAAAATGACTGTTTTG
*
51526515 CCCTTATGTGGTAAAATGATTGTTTTG
1 CCCTTATGTGGTAAAATGACTGTTTTG
* *
51526542 CCCTTATGTGGTAAGATGATTGTTTTG
1 CCCTTATGTGGTAAAATGACTGTTTTG
* * *
51526569 CGCTTATATGGTAAGATGACTGTTTTG
1 CCCTTATGTGGTAAAATGACTGTTTTG
51526596 CCC-TATGTG
1 CCCTTATGTG
51526605 ATGTATATAT
Statistics
Matches: 81, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
26 5 0.06
27 76 0.94
ACGTcount: A:0.21, C:0.14, G:0.22, T:0.43
Consensus pattern (27 bp):
CCCTTATGTGGTAAAATGACTGTTTTG
Found at i:51528115 original size:3 final size:3
Alignment explanation
Indices: 51528107--51528164 Score: 98
Period size: 3 Copynumber: 19.3 Consensus size: 3
51528097 TAATATAAAG
51528107 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
51528155 GTT ATA ATA A
1 ATA ATA ATA A
51528165 AAGAAAAAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:51528520 original size:25 final size:25
Alignment explanation
Indices: 51528472--51528520 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
51528462 CATAATTGAA
* *
51528472 ATGAAATAGATTGATTTTGTATATT
1 ATGAAATAGATTGATTATGAATATT
*
51528497 ATGAAATATATTGATTATGAATAT
1 ATGAAATAGATTGATTATGAATAT
51528521 ATGTGTATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (25 bp):
ATGAAATAGATTGATTATGAATATT
Found at i:51530293 original size:68 final size:65
Alignment explanation
Indices: 51530079--51530300 Score: 209
Period size: 64 Copynumber: 3.4 Consensus size: 65
51530069 CATAATTTTG
* * * *
51530079 GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGTGACCTAGCCA-CTTTA-TCTCGTA
1 GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACCTCTATTCTCATA
** * * * * * * * *
51530142 GCTCTCTTGTTTACATGGTGTCCTTCACCTGGAACCACACATGCAACCTAGCTACGTCTA-TCTC
1 GCTCTCTTGTACACATGGTG---TACACATAGTATCACCCATGCGACCTAGCTACCTCTATTCTC
51530206 ATA
63 ATA
51530209 GCTCTCTTGT-CTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACCTCATAATGTCT
1 GCTCTCTTGTAC-ACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACCTC-T-AT-TCT
51530273 CATA
62 CATA
* *
51530277 GCTCTCTTCTACACATGGTATACA
1 GCTCTCTTGTACACATGGTGTACA
51530301 TCCCGTATTA
Statistics
Matches: 124, Mismatches: 25, Indels: 15
0.76 0.15 0.09
Matches are distributed among these distances:
63 18 0.15
64 27 0.22
65 1 0.01
66 23 0.19
67 27 0.22
68 27 0.22
69 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.32
Consensus pattern (65 bp):
GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACCTCTATTCTCATA
Found at i:51530322 original size:68 final size:68
Alignment explanation
Indices: 51530177--51530328 Score: 163
Period size: 68 Copynumber: 2.3 Consensus size: 68
51530167 CACCTGGAAC
* * * * *
51530177 CACACATGCAACCTAGCTACGTC-T-A--TCTCATAGCTCTCTTGTCTACATGGTGTACACATAG
1 CACACATGCGACCTAGCTACCTCATAATGTCTCATAGCTCTCTTCTCTACATGGTATACACACAG
51530238 TAT
66 TAT
*
51530241 CACCCATGCGACCTAGCTACCTCATAATGTCTCATAGCTCTCTTCTAC-ACATGGTATACATC-C
1 CACACATGCGACCTAGCTACCTCATAATGTCTCATAGCTCTCTTCT-CTACATGGTATACA-CAC
*
51530304 CGTAT
64 AGTAT
* *
51530309 TACACATGTGACCTAGCTAC
1 CACACATGCGACCTAGCTAC
51530329 ATACCATCTG
Statistics
Matches: 72, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
64 20 0.28
65 1 0.01
66 1 0.01
68 48 0.67
69 2 0.03
ACGTcount: A:0.26, C:0.31, G:0.13, T:0.30
Consensus pattern (68 bp):
CACACATGCGACCTAGCTACCTCATAATGTCTCATAGCTCTCTTCTCTACATGGTATACACACAG
TAT
Found at i:51532794 original size:18 final size:18
Alignment explanation
Indices: 51532759--51532797 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
51532749 AATAAGACCC
*
51532759 CATCCATCATTCACTCAT
1 CATCCATCACTCACTCAT
* *
51532777 CATCCCTCACTCATTCAT
1 CATCCATCACTCACTCAT
51532795 CAT
1 CAT
51532798 TCTCTCCTCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.26, C:0.41, G:0.00, T:0.33
Consensus pattern (18 bp):
CATCCATCACTCACTCAT
Found at i:51533220 original size:20 final size:20
Alignment explanation
Indices: 51533195--51533232 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
51533185 GTTTATTCGT
*
51533195 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
51533215 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
51533233 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:51534892 original size:28 final size:28
Alignment explanation
Indices: 51534860--51534928 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
51534850 GCGTAGATCA
51534860 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
51534888 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
51534916 CGATA-TACCCCTA
1 CGAAATTACCCCTA
51534929 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:51541227 original size:20 final size:20
Alignment explanation
Indices: 51541202--51541239 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
51541192 GTTTATTCGC
*
51541202 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
51541222 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
51541240 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:51542898 original size:28 final size:28
Alignment explanation
Indices: 51542866--51542934 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
51542856 GCGTAGATCA
51542866 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
51542894 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
51542922 CGATA-TACCCCTA
1 CGAAATTACCCCTA
51542935 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:51551285 original size:39 final size:40
Alignment explanation
Indices: 51551242--51551447 Score: 278
Period size: 39 Copynumber: 5.2 Consensus size: 40
51551232 CGGGATTTAA
* * * * *
51551242 CCGGATATAGCGACTCGCACGATTGCCTTC-GGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * *
51551281 CCGGATTTGGT-GACTTGCAC-AAAGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
51551320 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
51551360 CCGGATATATCAACTCGCACGAATGCCTTC-GGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
51551399 CCGGATATATCAACTCGCACGAATGCC-TCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
51551438 CCGGATATAT
1 CCGGATATAT
51551448 TTCCAATGTT
Statistics
Matches: 149, Mismatches: 13, Indels: 10
0.87 0.08 0.06
Matches are distributed among these distances:
38 10 0.07
39 91 0.61
40 48 0.32
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:51551406 original size:79 final size:78
Alignment explanation
Indices: 51551242--51551447 Score: 274
Period size: 79 Copynumber: 2.6 Consensus size: 78
51551232 CGGGATTTAA
* * * * * * * * *
51551242 CCGGATATAGCGACTCGCACGATTGCCTTC-GGTCATAACCCGGATTTGGTGACTTGCACAAAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATAT-ATAACTCGCACAAAGC
51551306 CTTCGGGTCTTAGC
65 CTTCGGGTCTTAGC
*
51551320 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATG
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAT-AACTCGCAC-AAAG
51551385 CCTTC-GGTCTTAGC
64 CCTTCGGGTCTTAGC
51551399 CCGGATATATCAACTCGCACGAATGCC-TCGGGTCTTAGCCCGGATATAT
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAT
51551448 TTCCAATGTT
Statistics
Matches: 115, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
78 50 0.43
79 57 0.50
80 8 0.07
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.25
Consensus pattern (78 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATAACTCGCACAAAGCC
TTCGGGTCTTAGC
Found at i:51554352 original size:43 final size:43
Alignment explanation
Indices: 51554287--51554370 Score: 141
Period size: 43 Copynumber: 2.0 Consensus size: 43
51554277 AGTGATTGAT
*
51554287 ATTGAAATGACAAAGATGAGAAATGAATATGAGATGAGAAAAC
1 ATTGAAATGACAAAGATAAGAAATGAATATGAGATGAGAAAAC
* *
51554330 ATTGAAATGACAAATATAAGAAATGATTATGAGATGAGAAA
1 ATTGAAATGACAAAGATAAGAAATGAATATGAGATGAGAAA
51554371 TGAGATATGA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.54, C:0.04, G:0.21, T:0.21
Consensus pattern (43 bp):
ATTGAAATGACAAAGATAAGAAATGAATATGAGATGAGAAAAC
Found at i:51565709 original size:34 final size:33
Alignment explanation
Indices: 51565656--51565733 Score: 95
Period size: 33 Copynumber: 2.3 Consensus size: 33
51565646 TTGCATTCTG
*
51565656 CACTAATACTGTTACTGAATTGGGCTAAGGCCCA
1 CACTAATACTGTTACTGAA-TAGGCTAAGGCCCA
* * *
51565690 CACTGATATTGTTATTGAATAGGCTAAGGCCCTA
1 CACTAATACTGTTACTGAATAGGCTAAGGCCC-A
51565724 -ACTAATACTG
1 CACTAATACTG
51565734 GACTGTTACT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
33 20 0.54
34 17 0.46
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (33 bp):
CACTAATACTGTTACTGAATAGGCTAAGGCCCA
Found at i:51566758 original size:44 final size:42
Alignment explanation
Indices: 51566695--51566850 Score: 149
Period size: 44 Copynumber: 3.7 Consensus size: 42
51566685 TGTGCTTTCG
*
51566695 TGTAAGGCCATGTCTGGGACATTGGCATCGACTTATGATTTACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGA-TT-TGATTTACA
* *
51566739 TGTAAGACCATGTCTGGGACATCGGCATCGTATTTGATTT-CG
1 TGTAAGACCATGTCTGGGACATTGGCATCG-ATTTGATTTACA
* * * * *
51566781 TGTAA-AACACT-ACTGGGATAGTGGCACCGATATTTGA-TTACA
1 TGTAAGACCA-TGTCTGGGACATTGGCATCG--ATTTGATTTACA
*
51566823 TGTAAGACCATGTCTGGGACGTTGGCAT
1 TGTAAGACCATGTCTGGGACATTGGCAT
51566851 TGTATGATCT
Statistics
Matches: 90, Mismatches: 16, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
41 18 0.20
42 21 0.23
43 20 0.22
44 30 0.33
45 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGATTTGATTTACA
Found at i:51568125 original size:27 final size:27
Alignment explanation
Indices: 51568049--51568137 Score: 90
Period size: 27 Copynumber: 3.3 Consensus size: 27
51568039 AATACGAATC
*
51568049 AGTCATTTTACGTTATAGGGGTAATAT
1 AGTCATTTTACCTTATAGGGGTAATAT
* * * *
51568076 AATCATTTTACCCTAT-GGTGGTATTTT
1 AGTCATTTTACCTTATAGG-GGTAATAT
* * *
51568103 GGTCATTTTACCTTATAAGGGTAAAAT
1 AGTCATTTTACCTTATAGGGGTAATAT
51568130 AGTCATTT
1 AGTCATTT
51568138 CAATACATTA
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
26 2 0.04
27 44 0.94
28 1 0.02
ACGTcount: A:0.28, C:0.11, G:0.18, T:0.43
Consensus pattern (27 bp):
AGTCATTTTACCTTATAGGGGTAATAT
Found at i:51579261 original size:46 final size:46
Alignment explanation
Indices: 51579211--51579386 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
51579201 TGGTTGAGCA
51579211 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
51579257 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
51579302 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
51579350 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
51579387 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:51579367 original size:93 final size:93
Alignment explanation
Indices: 51579208--51579379 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
51579198 GGATGGTTGA
* *
51579208 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
51579273 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
51579301 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
51579366 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
51579380 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:51586839 original size:46 final size:46
Alignment explanation
Indices: 51586789--51586964 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
51586779 TGGTTGAGCA
51586789 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
51586835 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
51586880 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
51586928 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
51586965 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:51586945 original size:93 final size:93
Alignment explanation
Indices: 51586786--51586957 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
51586776 GGATGGTTGA
* *
51586786 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
51586851 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
51586879 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
51586944 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
51586958 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:51595995 original size:28 final size:28
Alignment explanation
Indices: 51595963--51596026 Score: 110
Period size: 28 Copynumber: 2.3 Consensus size: 28
51595953 ATTTACTAGA
*
51595963 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
51595991 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
51596019 ATACCCCT
1 ATACCCCT
51596027 GGGGTTAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.33, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:51596174 original size:28 final size:27
Alignment explanation
Indices: 51596133--51596222 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
51596123 AGGAACCGTC
51596133 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* ***
51596161 CTGGTGGCCCTGCCATGTATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
51596188 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
51596217 CTGGTG
1 CTGGTG
51596223 ACTCTGTCAC
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
27 22 0.43
28 22 0.43
29 7 0.14
ACGTcount: A:0.19, C:0.23, G:0.24, T:0.33
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:51596233 original size:29 final size:28
Alignment explanation
Indices: 51596143--51596233 Score: 85
Period size: 27 Copynumber: 3.2 Consensus size: 28
51596133 CTGGTGGCTA
* * *
51596143 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*** *
51596171 TGCCA-TGTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
51596198 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
51596227 TGTCACA
1 TGCCACA
51596234 TTTTCTGTAT
Statistics
Matches: 50, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
27 22 0.44
28 13 0.26
29 15 0.30
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:51596709 original size:19 final size:19
Alignment explanation
Indices: 51596685--51596723 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
51596675 TTTTAATTAT
* *
51596685 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
51596704 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
51596723 T
1 T
51596724 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:51602715 original size:12 final size:13
Alignment explanation
Indices: 51602687--51602719 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
51602677 TTATTTCTTT
51602687 TTCTCCATCTACC
1 TTCTCCATCTACC
*
51602700 TTCTCC-TCTTCC
1 TTCTCCATCTACC
51602712 TTCTCCAT
1 TTCTCCAT
51602720 AGCCGAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.45, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCTCCATCTACC
Found at i:51603810 original size:28 final size:28
Alignment explanation
Indices: 51603778--51603842 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
51603768 ATTTACTAGA
*
51603778 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
51603806 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
51603834 ATACCCCTA
1 ATACCCCTA
51603843 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:51604005 original size:27 final size:28
Alignment explanation
Indices: 51603947--51604036 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 28
51603937 AGGAAGCGTC
*
51603947 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* **
51603975 CTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
51604002 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
51604031 CTGGTG
1 CTGGTG
51604037 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:51604047 original size:29 final size:28
Alignment explanation
Indices: 51603957--51604047 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
51603947 CTGGTGGCTA
* * *
51603957 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
** *
51603985 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
51604012 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
51604041 TGTCACA
1 TGCCACA
51604048 TTTTCTGTAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
27 23 0.44
28 14 0.27
29 15 0.29
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:51604055 original size:55 final size:56
Alignment explanation
Indices: 51603947--51604061 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
51603937 AGGAAGCGTC
* * *
51603947 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACGTATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
51604002 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
51604058 CTGG
1 CTGG
51604062 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.59
56 20 0.39
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:51604520 original size:18 final size:19
Alignment explanation
Indices: 51604499--51604536 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
51604489 TTTTAATTAT
*
51604499 TTTTATGGTTTT-TTTTAC
1 TTTTATGATTTTATTTTAC
*
51604517 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
51604536 T
1 T
51604537 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.74
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:51611779 original size:19 final size:19
Alignment explanation
Indices: 51611755--51611801 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
51611745 AGAATTTTAC
51611755 TTTATTTTCAATTT-AAATT
1 TTTATTTT-AATTTCAAATT
* *
51611774 TTTATTTTATTTTCTAATT
1 TTTATTTTAATTTCAAATT
51611793 TTTATTTTA
1 TTTATTTTA
51611802 TCTGTTCCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTATTTTAATTTCAAATT
Found at i:51611800 original size:24 final size:23
Alignment explanation
Indices: 51611742--51611802 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 23
51611732 TTTTAATTAC
*
51611742 TTTAGAATTTTACTTTATTTTCAA
1 TTTA-AATTTTATTTTATTTTCAA
51611766 TTTAAATTTTTATTTTATTTTCTAA
1 TTTAAA-TTTTATTTTATTTTC-AA
**
51611791 TTTTTATTTTAT
1 TTTAAATTTTAT
51611803 CTGTTCCTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 2 0.06
24 24 0.75
25 6 0.19
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (23 bp):
TTTAAATTTTATTTTATTTTCAA
Found at i:51626356 original size:14 final size:13
Alignment explanation
Indices: 51626336--51626367 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
51626326 AATATTTGAC
51626336 TTGTTCTTAATTA
1 TTGTTCTTAATTA
51626349 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
51626363 TTGTT
1 TTGTT
51626368 TTGATATCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:51633260 original size:28 final size:28
Alignment explanation
Indices: 51633191--51633291 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
51633181 GACAAGATTG
* * * *
51633191 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
51633221 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
51633249 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
51633278 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
51633292 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:51641212 original size:28 final size:28
Alignment explanation
Indices: 51641143--51641243 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
51641133 GACAAGATTG
* * * *
51641143 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
51641173 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
51641201 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
51641230 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
51641244 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:51644342 original size:38 final size:38
Alignment explanation
Indices: 51644299--51644404 Score: 126
Period size: 38 Copynumber: 2.8 Consensus size: 38
51644289 GCTGGATTAT
* *
51644299 ATCCGGGTTAAGACCC-AAGGCAATTGTGCTAGTGGCTA
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GCTA
** *
51644337 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTTTT
1 ATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGCTA
*
51644375 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGC
51644405 ACGTGATTAT
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
38 45 0.76
39 14 0.24
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.24
Consensus pattern (38 bp):
ATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGCTA
Found at i:51652281 original size:40 final size:40
Alignment explanation
Indices: 51652215--51652357 Score: 121
Period size: 40 Copynumber: 3.6 Consensus size: 40
51652205 AAATTGAATG
* ** *
51652215 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGAAACT
* * ***
51652254 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGAAACT
* * ** *
51652294 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-ATGCAAGAAACT
*
51652334 CTATCCGGGCTAAGA-CCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
51652358 TTTGTGCACA
Statistics
Matches: 86, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
39 24 0.28
40 62 0.72
ACGTcount: A:0.29, C:0.23, G:0.27, T:0.21
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGAAACT
Done.