Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 196 of 295
Found at i:62643501 original size:13 final size:13
Alignment explanation
Indices: 62643483--62643538 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
62643473 TAGATTTTTG
62643483 CTAAATATTATCA
1 CTAAATATTATCA
62643496 CTAAATA--ATC-
1 CTAAATATTATCA
62643506 CTAAATATTATCA
1 CTAAATATTATCA
* * * *
62643519 TTGATTATTTTCA
1 CTAAATATTATCA
62643532 CTAAATA
1 CTAAATA
62643539 ATTCAAAATT
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
10 7 0.21
11 3 0.09
12 3 0.09
13 20 0.61
ACGTcount: A:0.43, C:0.14, G:0.02, T:0.41
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:62644503 original size:4 final size:4
Alignment explanation
Indices: 62644494--62644522 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
62644484 CTATTAGCAA
62644494 ATTT ATTT ATTT ATTT ATTT ATTT ATTT A
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT A
62644523 AACGAGTACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (4 bp):
ATTT
Found at i:62649055 original size:48 final size:46
Alignment explanation
Indices: 62648934--62649104 Score: 184
Period size: 46 Copynumber: 3.7 Consensus size: 46
62648924 TCTCGTAGCC
* * *
62648934 GATGCATGTCCCAGACATGTCTTACACTGGCT-TACATCTCGAGGTT
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCT-CATCTCAAGGCT
* *
62648980 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAGGCT
* * ** *
62649026 GATGCCATGTCCCAGGCATGGTCTTACACTAGCTCTCATAGT-GTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCAT-CTCAAGGCT
* *
62649074 GATGCGTGTCCTAGACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
62649105 ACACTAAAAT
Statistics
Matches: 106, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
46 56 0.53
47 25 0.24
48 24 0.23
49 1 0.01
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.29
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAGGCT
Found at i:62656453 original size:20 final size:18
Alignment explanation
Indices: 62656405--62656458 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 18
62656395 AACGAAAAAT
*
62656405 AAAATAAAAATAGATTTG
1 AAAATAAAAATAAATTTG
62656423 AAAATGCAAAAATAAATTTAAG
1 AAAAT--AAAAATAAATTT--G
62656445 AAAAT-AAAATAAAT
1 AAAATAAAAATAAAT
62656459 GGATAAATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
18 5 0.16
19 9 0.29
20 11 0.35
22 6 0.19
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.24
Consensus pattern (18 bp):
AAAATAAAAATAAATTTG
Found at i:62657340 original size:22 final size:21
Alignment explanation
Indices: 62657309--62657365 Score: 53
Period size: 22 Copynumber: 2.5 Consensus size: 21
62657299 TTATTTTTCC
62657309 TAAATATTATCACTAAAT-AATT
1 TAAATATTAT-A-TAAATAAATT
*
62657331 TAAATTTTATATAAATCAAATT
1 TAAATATTATATAAAT-AAATT
62657353 TAAACTAATTATA
1 TAAA-T-ATTATA
62657366 GAGCTGTAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
20 5 0.17
21 1 0.03
22 17 0.59
23 1 0.03
24 5 0.17
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (21 bp):
TAAATATTATATAAATAAATT
Found at i:62658087 original size:24 final size:24
Alignment explanation
Indices: 62658060--62658105 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
62658050 ACCTTCTTAT
* *
62658060 TCCCTACGTTTTATTCTATTTGAG
1 TCCCTACATTTCATTCTATTTGAG
62658084 TCCCTACATTTCATTCTATTTG
1 TCCCTACATTTCATTCTATTTG
62658106 GGCGCCAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.17, C:0.24, G:0.09, T:0.50
Consensus pattern (24 bp):
TCCCTACATTTCATTCTATTTGAG
Found at i:62663536 original size:13 final size:12
Alignment explanation
Indices: 62663500--62663569 Score: 52
Period size: 13 Copynumber: 5.6 Consensus size: 12
62663490 CAAAAAACTT
*
62663500 ATTTTTTTGATAA
1 ATTTTTTT-AAAA
* *
62663513 ATTTATATAAAA
1 ATTTTTTTAAAA
62663525 CATTTTTTTAAAA
1 -ATTTTTTTAAAA
62663538 A-TTTTTTAAAA
1 ATTTTTTTAAAA
**
62663549 ATATTTCATAAAA
1 AT-TTTTTTAAAA
62663562 ATTATTTT
1 ATT-TTTT
62663570 CAATTAAATA
Statistics
Matches: 44, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
11 11 0.25
12 5 0.11
13 28 0.64
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (12 bp):
ATTTTTTTAAAA
Found at i:62674866 original size:9 final size:9
Alignment explanation
Indices: 62674852--62674888 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
62674842 TGAATTTTCG
62674852 AATTCAAAT
1 AATTCAAAT
62674861 AATTCAAAT
1 AATTCAAAT
*
62674870 AATTCAAAC
1 AATTCAAAT
*
62674879 AAATCAAAT
1 AATTCAAAT
62674888 A
1 A
62674889 TCAAACTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.27
Consensus pattern (9 bp):
AATTCAAAT
Found at i:62675109 original size:53 final size:52
Alignment explanation
Indices: 62674920--62675124 Score: 157
Period size: 54 Copynumber: 3.9 Consensus size: 52
62674910 AACCCTCTTT
** *
62674920 CTTTCCCA-AAAAAATTTACTTCTCCCAAACCC-CAAA-TTTTTTTCCTTTTCA
1 CTTTCCCACAAAACTTTTACTTCTCCCAAACCCTAAAACTTTTTTT-CTTTT-A
* * ** * ** * *
62674971 TTTTCCTCTCAAAACTTCCACTTCACTTAAACCCTCAAAACCTTTTTCCTTTTA
1 CTTTCC-CACAAAACTTTTACTTCTCCCAAACCCT-AAAACTTTTTTTCTTTTA
* * *
62675025 CTTTTCCACAAAATTTTTACTTCCTCCCAAACCCCTAAAACTTTTTTTCTTTTG
1 CTTTCCCACAAAACTTTTACTT-CTCCCAAA-CCCTAAAACTTTTTTTCTTTTA
* * *
62675079 CTTTCCCTCAAAACTTTTACTT-TGCTCAAACCCAAAAACTTTTTTT
1 CTTTCCCACAAAACTTTTACTTCT-CCCAAACCCTAAAACTTTTTTT
62675125 TTTCGAATTT
Statistics
Matches: 117, Mismatches: 29, Indels: 15
0.73 0.18 0.09
Matches are distributed among these distances:
51 5 0.04
52 17 0.15
53 34 0.29
54 44 0.38
55 12 0.10
56 5 0.04
ACGTcount: A:0.27, C:0.31, G:0.01, T:0.41
Consensus pattern (52 bp):
CTTTCCCACAAAACTTTTACTTCTCCCAAACCCTAAAACTTTTTTTCTTTTA
Found at i:62678149 original size:32 final size:32
Alignment explanation
Indices: 62678102--62678167 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
62678092 TGACTTCCAA
*
62678102 TAGTTCAAACTGCTTGAAATATCTGAACTAAT
1 TAGTTCAAACAGCTTGAAATATCTGAACTAAT
*
62678134 TAGTTCAAAGAGCTTGAAATATCTGAACTAAT
1 TAGTTCAAACAGCTTGAAATATCTGAACTAAT
62678166 TA
1 TA
62678168 AACATGTATG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (32 bp):
TAGTTCAAACAGCTTGAAATATCTGAACTAAT
Found at i:62680673 original size:19 final size:19
Alignment explanation
Indices: 62680628--62680674 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
62680618 TAAATATTAA
*
62680628 AATAAAAATAAAAATATAG
1 AATAAAAATAAAAATAAAG
* *
62680647 AATCAAAACT-AAAATAAAT
1 AAT-AAAAATAAAAATAAAG
62680666 AATAAAAAT
1 AATAAAAAT
62680675 TAGATTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 5 0.22
19 13 0.57
20 5 0.22
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.21
Consensus pattern (19 bp):
AATAAAAATAAAAATAAAG
Found at i:62685176 original size:14 final size:14
Alignment explanation
Indices: 62685156--62685200 Score: 81
Period size: 14 Copynumber: 3.2 Consensus size: 14
62685146 CACTAAAAAT
62685156 TAAACCCTAAACTA
1 TAAACCCTAAACTA
*
62685170 TACACCCTAAACTA
1 TAAACCCTAAACTA
62685184 TAAACCCTAAACTA
1 TAAACCCTAAACTA
62685198 TAA
1 TAA
62685201 TGATAATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAACCCTAAACTA
Found at i:62685337 original size:22 final size:22
Alignment explanation
Indices: 62685294--62685334 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
62685284 CTATAATTAA
* *
62685294 TTTAAACCTTAAACTCCTAATC
1 TTTAAACCCTAAACTCATAATC
62685316 TTTAAACCCTAAAC-CATAA
1 TTTAAACCCTAAACTCATAA
62685335 ATCCTAAGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.41, C:0.27, G:0.00, T:0.32
Consensus pattern (22 bp):
TTTAAACCCTAAACTCATAATC
Found at i:62685789 original size:21 final size:21
Alignment explanation
Indices: 62685763--62685847 Score: 71
Period size: 21 Copynumber: 3.7 Consensus size: 21
62685753 ACTCTTAAAC
* *
62685763 CTTAAACCCTAAACCGTATAT
1 CTTAAACCATAAACCATATAT
*
62685784 CTTAAACCATAGTTAACTCATAAACCT
1 CTTAAACCATA---AAC-CATATA--T
*
62685811 GCTTAAACCCTAAACCATATAT
1 -CTTAAACCATAAACCATATAT
62685833 CTTAAACCATAAACC
1 CTTAAACCATAAACC
62685848 TTAAACTGTA
Statistics
Matches: 51, Mismatches: 6, Indels: 14
0.72 0.08 0.20
Matches are distributed among these distances:
21 24 0.47
22 1 0.02
24 8 0.16
25 7 0.14
27 1 0.02
28 10 0.20
ACGTcount: A:0.41, C:0.28, G:0.04, T:0.27
Consensus pattern (21 bp):
CTTAAACCATAAACCATATAT
Found at i:62685832 original size:49 final size:46
Alignment explanation
Indices: 62685747--62685843 Score: 149
Period size: 49 Copynumber: 2.0 Consensus size: 46
62685737 CTTCAAATAC
* *
62685747 TAGTTAACTCTTAAACCTTAAACCCTAAACCGTATATCTTAAACCA
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
62685793 TAGTTAACTCATAAACCTGCTTAAACCCTAAACCATATATCTTAAACCA
1 TAGTTAACTCATAAA-C--CTTAAACCCTAAACCATATATCTTAAACCA
62685842 TA
1 TA
62685844 AACCTTAAAC
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
46 14 0.30
47 1 0.02
49 31 0.67
ACGTcount: A:0.40, C:0.26, G:0.04, T:0.30
Consensus pattern (46 bp):
TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
Found at i:62685840 original size:14 final size:14
Alignment explanation
Indices: 62685814--62685853 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
62685804 TAAACCTGCT
*
62685814 TAAACCCTAAACCA
1 TAAACCTTAAACCA
* *
62685828 TATATCTTAAACCA
1 TAAACCTTAAACCA
62685842 TAAACCTTAAAC
1 TAAACCTTAAAC
62685854 TGTAATGATA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (14 bp):
TAAACCTTAAACCA
Found at i:62686107 original size:41 final size:40
Alignment explanation
Indices: 62686014--62686263 Score: 340
Period size: 41 Copynumber: 6.1 Consensus size: 40
62686004 GTTATATGAC
*
62686014 TTTTAGCGGCGTTTTACTAAAAGCGCCGCTAATGCT-TGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT-GT
*
62686054 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAGTGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT-GT
*
62686095 TTTTAACGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT-GT
62686136 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
** * **
62686176 TTTTAGCGGCGTTTTAGTAAAAAACGCCGCTGTTGCTCTGT
1 TTTTAGCGGCGTTTTA-CCAAAAGCGCCGCTAATGCTCTGT
* * *
62686217 TTTTAGCGGTGTTTTTACCAAAAACGCCGCTATTGCTCTGT
1 TTTTAGCGGCG-TTTTACCAAAAGCGCCGCTAATGCTCTGT
62686258 ATTTTA
1 -TTTTA
62686264 AAATTTTTGC
Statistics
Matches: 192, Mismatches: 14, Indels: 6
0.91 0.07 0.03
Matches are distributed among these distances:
40 52 0.27
41 130 0.68
42 10 0.05
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
Found at i:62690582 original size:48 final size:48
Alignment explanation
Indices: 62690459--62690673 Score: 224
Period size: 48 Copynumber: 4.5 Consensus size: 48
62690449 GGTAAGATAT
* * *
62690459 CGATGCCATGTCTTAGA-ATGGTCTTACACTGGCTCTCATATC-ATG-C
1 CGATGCCATGTCCTAGACATGGTCTTACACTAGCTCACATATCGA-GAC
** * * *
62690505 TAATGTCATGTTCC-AAACATGGTCTTACACTAGCTCACATATCGAGGC
1 CGATGCCATG-TCCTAGACATGGTCTTACACTAGCTCACATATCGAGAC
* * * * *
62690553 TGATGCCGTGTCCTAGACATGGTCTTACACTAGCTCTCATATCAATAC
1 CGATGCCATGTCCTAGACATGGTCTTACACTAGCTCACATATCGAGAC
* *
62690601 CGATGCCATGTTCC-AAACATGGTCTTACACTAGGTCACATATCGAGAC
1 CGATGCCATG-TCCTAGACATGGTCTTACACTAGCTCACATATCGAGAC
*
62690649 CGGTGCCATGTCCTAGACATGGTCT
1 CGATGCCATGTCCTAGACATGGTCT
62690674 GTAACACCAC
Statistics
Matches: 138, Mismatches: 24, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
46 9 0.07
47 32 0.23
48 94 0.68
49 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (48 bp):
CGATGCCATGTCCTAGACATGGTCTTACACTAGCTCACATATCGAGAC
Found at i:62690639 original size:96 final size:95
Alignment explanation
Indices: 62690459--62690673 Score: 315
Period size: 96 Copynumber: 2.3 Consensus size: 95
62690449 GGTAAGATAT
* * * * *
62690459 CGATGCCATGTCTTAGA-ATGGTCTTACACTGGCTCTCATATCATGCTAATGTCATGTTCCAAAC
1 CGATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCATATCATACCAATGCCATGTTCCAAAC
*
62690523 ATGGTCTTACACTAGCTCACATATCGAGGC
66 ATGGTCTTACACTAGCTCACATATCGAGAC
* * *
62690553 TGATGCCGTGTCCTAGACATGGTCTTACACTAGCTCTCATATCAATACCGATGCCATGTTCCAAA
1 CGATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCATATC-ATACCAATGCCATGTTCCAAA
*
62690618 CATGGTCTTACACTAGGTCACATATCGAGAC
65 CATGGTCTTACACTAGCTCACATATCGAGAC
*
62690649 CGGTGCCATGTCCTAGACATGGTCT
1 CGATGCCATGTCCTAGACATGGTCT
62690674 GTAACACCAC
Statistics
Matches: 106, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
94 14 0.13
95 24 0.23
96 68 0.64
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (95 bp):
CGATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCATATCATACCAATGCCATGTTCCAAAC
ATGGTCTTACACTAGCTCACATATCGAGAC
Found at i:62692041 original size:46 final size:45
Alignment explanation
Indices: 62691974--62692148 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 45
62691964 TGTAACCCGC
* *
62691974 CCATAAGCGAACTCGGACTCAACTCAATGTGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTT-GCAT
* *
62692020 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTGCAT
* *
62692070 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGGCGCTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCG-TTGCAT
* *
62692113 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG
62692149 ATGCCCAAAT
Statistics
Matches: 110, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 1 0.01
43 5 0.05
44 2 0.02
45 3 0.03
46 61 0.55
47 27 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (45 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTGCAT
Found at i:62692103 original size:93 final size:93
Alignment explanation
Indices: 62691981--62692153 Score: 294
Period size: 93 Copynumber: 1.9 Consensus size: 93
62691971 CGCCCATAAG
* *
62691981 CGAACTCGGACTCAACTCAATGTGCTCGGGCG-TTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCGGGCGCTT-GCATCCATAAGTGAACTCGGACTCAACTC
62692045 AACGAGCTCGGATGCCTAGTTACATCTCA
65 AACGAGCTCGGATGCCTAGTTACATCTCA
*
62692074 CGAACTCGGACTCAACTCAACGAGTTCGGGCGCTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGGCGCTTGCATCCATAAGTGAACTCGGACTCAACTCA
*
62692139 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
62692154 CAAATATCCC
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
93 73 0.97
94 2 0.03
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGGCGCTTGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:62692168 original size:46 final size:46
Alignment explanation
Indices: 62692025--62692168 Score: 141
Period size: 46 Copynumber: 3.1 Consensus size: 46
62692015 CGCATCCATA
* * *
62692025 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATCCC
* * * * *
62692073 A-CGAACTCGGACTCAACTCAACGAGTTCGG--GCGCTTGCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCC--C
* *
62692118 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCC
62692164 AGTGA
1 AGTGA
62692169 CATGTCACTT
Statistics
Matches: 76, Mismatches: 15, Indels: 12
0.74 0.15 0.12
Matches are distributed among these distances:
43 5 0.07
45 3 0.04
46 33 0.43
47 27 0.36
48 8 0.11
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCC
Found at i:62696918 original size:24 final size:22
Alignment explanation
Indices: 62696891--62696935 Score: 54
Period size: 24 Copynumber: 2.0 Consensus size: 22
62696881 AGACTTTATT
*
62696891 ATGAGGAATATGAATATTACAACC
1 ATGAAGAAT-TGAAT-TTACAACC
*
62696915 ATGAAGAATTGGATTTACAAC
1 ATGAAGAATTGAATTTACAAC
62696936 TGAAAAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 7 0.37
23 4 0.21
24 8 0.42
ACGTcount: A:0.44, C:0.11, G:0.18, T:0.27
Consensus pattern (22 bp):
ATGAAGAATTGAATTTACAACC
Found at i:62697235 original size:26 final size:26
Alignment explanation
Indices: 62697199--62697248 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
62697189 TCTGAAAATA
*
62697199 AGATTGATTGTAATTGTATATTTTGT
1 AGATTGATTGTAATTGTACATTTTGT
62697225 AGATTGATTGTAATTGTACATTTT
1 AGATTGATTGTAATTGTACATTTT
62697249 ATGAGCACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.28, C:0.02, G:0.18, T:0.52
Consensus pattern (26 bp):
AGATTGATTGTAATTGTACATTTTGT
Found at i:62703574 original size:56 final size:55
Alignment explanation
Indices: 62703488--62703595 Score: 189
Period size: 56 Copynumber: 1.9 Consensus size: 55
62703478 GTGTCCATTG
*
62703488 GATGATAAATCATCACTTTTAATTTGAATAGTACTTATGAATAATTAAGTTTGTAA
1 GATGATAAATCATCACTTTTAATTTGAATAGTACTCATGAATAATTAA-TTTGTAA
*
62703544 GATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATTAATTTG
1 GATGATAAATCATCACTTTTAATTTGAATAGTACTCATGAATAATTAATTTG
62703596 CAAGCTATAA
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
55 4 0.08
56 46 0.92
ACGTcount: A:0.38, C:0.08, G:0.13, T:0.41
Consensus pattern (55 bp):
GATGATAAATCATCACTTTTAATTTGAATAGTACTCATGAATAATTAATTTGTAA
Found at i:62706179 original size:47 final size:47
Alignment explanation
Indices: 62706118--62706655 Score: 896
Period size: 47 Copynumber: 11.4 Consensus size: 47
62706108 CAGCCAAGAC
62706118 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
62706165 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
62706212 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
62706259 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
62706306 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
62706355 AGTGTATATGTGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
62706402 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
62706449 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
62706496 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
62706543 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
62706590 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
62706637 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
62706656 TCCCGAAGGG
Statistics
Matches: 466, Mismatches: 23, Indels: 4
0.95 0.05 0.01
Matches are distributed among these distances:
47 419 0.90
49 47 0.10
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:62706830 original size:37 final size:37
Alignment explanation
Indices: 62706774--62706852 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
62706764 CCGAGCTCTA
* *
62706774 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
62706811 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
62706848 AAGAC
1 AAGAC
62706853 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:62717876 original size:26 final size:25
Alignment explanation
Indices: 62717830--62717878 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
62717820 GGTACAATTT
* *
62717830 AAAATTATTTATTATATATATATGA
1 AAAATTATTTATTAAAAATATATGA
*
62717855 AAAATTTATTTTTTAAAAATATAT
1 AAAA-TTATTTATTAAAAATATAT
62717879 ATTTTTTAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 4 0.20
26 16 0.80
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (25 bp):
AAAATTATTTATTAAAAATATATGA
Found at i:62719459 original size:23 final size:23
Alignment explanation
Indices: 62719433--62719478 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
62719423 AAGCAGTATG
62719433 ATCACTTCATAGCAAGAGGACCC
1 ATCACTTCATAGCAAGAGGACCC
*
62719456 ATCACTTCATAGCACGAGGACCC
1 ATCACTTCATAGCAAGAGGACCC
62719479 GTAATCTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.33, C:0.33, G:0.17, T:0.17
Consensus pattern (23 bp):
ATCACTTCATAGCAAGAGGACCC
Found at i:62721996 original size:46 final size:45
Alignment explanation
Indices: 62721921--62722093 Score: 174
Period size: 46 Copynumber: 3.8 Consensus size: 45
62721911 TGTAACCCGC
* *
62721921 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGTGTT-GCAT
* * *
62721967 CCATGAGTGAACTCGGACTCAACTCAACGAGTTAGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G--T-GTTGCAT
* * * *
62722017 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGATATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGT-GTTGCAT
62722060 CCATAAGTGAACT-GGACTCAACTCAACGAGTTCG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
62722094 AATGCCTAGT
Statistics
Matches: 106, Mismatches: 13, Indels: 17
0.78 0.10 0.12
Matches are distributed among these distances:
43 7 0.07
44 1 0.01
45 23 0.22
46 37 0.35
47 27 0.25
48 3 0.03
49 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGTGTTGCAT
Found at i:62722043 original size:47 final size:47
Alignment explanation
Indices: 62721975--62722145 Score: 226
Period size: 47 Copynumber: 3.7 Consensus size: 47
62721965 ATCCATGAGT
*
62721975 GAACTCGGACTCAACTCAACGAGTTAGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
62722022 GAACTCGGACTCAACTCAACGAGTTCGGA----TATTTGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-TCA-C
*
62722068 GAACT-GGACTCAACTCAACGAGTTCGAATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
62722114 GAACTCGGACTCAACTCAACGAGTTCGGATGC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC
62722146 TCAACCATCC
Statistics
Matches: 105, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
43 7 0.07
44 1 0.01
45 24 0.23
46 10 0.10
47 55 0.52
48 1 0.01
49 7 0.07
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:62722115 original size:92 final size:93
Alignment explanation
Indices: 62721928--62722143 Score: 362
Period size: 92 Copynumber: 2.3 Consensus size: 93
62721918 CGCCCATAAG
* * * *
62721928 CGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATGAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGATATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
62721993 ACGAGTTAGGATGCCTAGTTACATCTCA
66 ACGAGTTAGAATGCCTAGTTACATCTCA
*
62722021 CGAACTCGGACTCAACTCAACGAGTTCGGATATTTGCATCCATAAGTGAACT-GGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGATATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
62722085 ACGAGTTCGAATGCCTAGTTACATCTCA
66 ACGAGTTAGAATGCCTAGTTACATCTCA
62722113 CGAACTCGGACTCAACTCAACGAGTTCGGAT
1 CGAACTCGGACTCAACTCAACGAGTTCGGAT
62722144 GCTCAACCAT
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
92 69 0.59
93 47 0.41
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGATATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTAGAATGCCTAGTTACATCTCA
Found at i:62726056 original size:27 final size:27
Alignment explanation
Indices: 62726025--62726202 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
62726015 TAAATTGTAC
62726025 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
62726052 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
62726078 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
62726106 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * *
62726134 AGCACTAAGTGTGCGATTTTATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
62726161 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
62726188 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
62726203 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:62726166 original size:82 final size:81
Alignment explanation
Indices: 62726026--62726181 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
62726016 AAATTGTACA
* *
62726026 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
62726091 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
** * *
62726107 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTTATTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGT
*
62726171 GTGCGAGTTGA
64 GTGCGAATTGA
62726182 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:62726193 original size:82 final size:81
Alignment explanation
Indices: 62726022--62726202 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
62726012 GATTAAATTG
* *
62726022 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
62726087 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** * *
62726103 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTTATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
62726167 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
62726185 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
62726203 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:62750036 original size:12 final size:12
Alignment explanation
Indices: 62750019--62750044 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
62750009 CATTCCGAAG
62750019 TATATATATACA
1 TATATATATACA
62750031 TATATATATACA
1 TATATATATACA
62750043 TA
1 TA
62750045 AGTATGCCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:62750673 original size:27 final size:28
Alignment explanation
Indices: 62750508--62750660 Score: 274
Period size: 28 Copynumber: 5.5 Consensus size: 28
62750498 TAAATTGTAC
62750508 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
62750536 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
62750564 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
*
62750592 AGCACTAAGTGTGCAAGTTTGATTAT-T
1 AGCACTAAGTGTGCGAGTTTGATTATAT
62750619 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
*
62750646 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
62750661 GACTTAATAT
Statistics
Matches: 121, Mismatches: 3, Indels: 3
0.95 0.02 0.02
Matches are distributed among these distances:
26 8 0.07
27 32 0.26
28 81 0.67
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.34
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:62755547 original size:48 final size:48
Alignment explanation
Indices: 62755442--62755811 Score: 182
Period size: 48 Copynumber: 7.8 Consensus size: 48
62755432 GTGGATGTGT
* * **
62755442 GCTAGTGTAAGA-CATGTCTGGGACAT-GCGTCGGCCA-CATTATAAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATTAAGATAAGA
* * * *
62755488 GGTATTTTAAGACCATGTCTGGGACATGGCATCGGCATTAAGACAAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAAGATAAGA
* * ** *
62755536 GCTAGTGTAAGA-CATGTCTGGAACAT-GCATCGGCCTCGAGATATGCAA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAAGATAAG--A
* * * *
62755584 GCTAGTGTAAGACTTAT-T-TGGGACATGGCATCGGC-TT--GACATGT
1 GCTAGTGTAAGAC-CATGTCTGGGACATGGCATCGGCATTAAGATAAGA
* * ** * *
62755628 G-TCAGTGTAAGGCC-TGTTTGGGACATGGCATCAACATCGATAGATGAGA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-TA-AGATAAGA
* * * *
62755677 GCCAGTGTAAGACC-TGTCTAGGACATGGCATCGGCCTTGATATATGAA-A
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT-A-AGAT-AAGA
* **
62755726 G-TCAGTGTTAAGACC-TGTCTGGGACATGGCATC-G-AATAAGATGTGTGA
1 GCT-AGTG-TAAGACCATGTCTGGGACATGGCATCGGCATTAAGA--TAAGA
* * * *
62755774 GCCAGTGTAAGACCATGTTTGGAACATGGAATCGGCAT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
62755812 CGCACCCTAT
Statistics
Matches: 243, Mismatches: 53, Indels: 52
0.70 0.15 0.15
Matches are distributed among these distances:
42 1 0.00
43 2 0.01
44 25 0.10
45 1 0.00
46 30 0.12
47 37 0.15
48 65 0.27
49 54 0.22
50 28 0.12
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAAGATAAGA
Found at i:62756008 original size:109 final size:109
Alignment explanation
Indices: 62755817--62756015 Score: 344
Period size: 109 Copynumber: 1.8 Consensus size: 109
62755807 GGCATCGCAC
* * *
62755817 CCTATGTTTGAGGCTTAGTGATTATCCTGTGGTAGTCCAAATGGTTCAACGGGAAATTTAAGTTT
1 CCTATGTTTGAGGCTTAGTGATTATCCTGTGGTAGTCCAAATGGTTCAACGAGAAAATTAAGGTT
*
62755882 TAAGTCGCAAAGATAGAATTTATGGCTATGTTGTGAATGAATAT
66 TAAGTCGCAAAGATAGAACTTATGGCTATGTTGTGAATGAATAT
*
62755926 CCTATGTTTGATGCTTAGTGATTATCCTGTGGTAGTCCAAATGGTTCAACGAGAAAATTAAGGTT
1 CCTATGTTTGAGGCTTAGTGATTATCCTGTGGTAGTCCAAATGGTTCAACGAGAAAATTAAGGTT
*
62755991 TAAGTGGCAAAGATAGAACTTATGG
66 TAAGTCGCAAAGATAGAACTTATGG
62756016 TACAGGTATA
Statistics
Matches: 84, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
109 84 1.00
ACGTcount: A:0.30, C:0.12, G:0.24, T:0.34
Consensus pattern (109 bp):
CCTATGTTTGAGGCTTAGTGATTATCCTGTGGTAGTCCAAATGGTTCAACGAGAAAATTAAGGTT
TAAGTCGCAAAGATAGAACTTATGGCTATGTTGTGAATGAATAT
Found at i:62765382 original size:20 final size:21
Alignment explanation
Indices: 62765344--62765382 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
62765334 TGAAGCGAAT
*
62765344 ATTACATTTAATTTTTTGAAA
1 ATTACATTTAATTTATTGAAA
*
62765365 ATTATATTT-ATTTATTGA
1 ATTACATTTAATTTATTGA
62765383 CTTAGTGGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (21 bp):
ATTACATTTAATTTATTGAAA
Found at i:62768546 original size:12 final size:12
Alignment explanation
Indices: 62768529--62768553 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
62768519 GTTTTGTTTT
62768529 ATTTTAATTATC
1 ATTTTAATTATC
62768541 ATTTTAATTATC
1 ATTTTAATTATC
62768553 A
1 A
62768554 ATTACCATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (12 bp):
ATTTTAATTATC
Found at i:62771773 original size:25 final size:25
Alignment explanation
Indices: 62771735--62771811 Score: 136
Period size: 25 Copynumber: 3.1 Consensus size: 25
62771725 ATCCAGGTAT
62771735 TCACGAACTATAGGCACTGATTCAA
1 TCACGAACTATAGGCACTGATTCAA
*
62771760 TCACGAACTGTAGGCACTGATTCAA
1 TCACGAACTATAGGCACTGATTCAA
*
62771785 TCACAAACTATAGGCACTGATTCAA
1 TCACGAACTATAGGCACTGATTCAA
62771810 TC
1 TC
62771812 TTCTTTTCGA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 49 1.00
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.25
Consensus pattern (25 bp):
TCACGAACTATAGGCACTGATTCAA
Found at i:62773135 original size:50 final size:49
Alignment explanation
Indices: 62773058--62773230 Score: 224
Period size: 50 Copynumber: 3.5 Consensus size: 49
62773048 TGAGTACACG
* * *
62773058 TGTGTAGTACTAAGTGCAGGCTGCTACGTGTACCATACTGTTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TGTTAGGTCGCA
* * * *
62773108 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-GTTAGGTCGCA
** *
62773158 TGTGTAGTACTAAGTGCAGGCTACTATTTGTACCGGA-GTT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGTTAGGTCGCA
62773205 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
62773231 TGCGTATCAG
Statistics
Matches: 108, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
47 31 0.29
48 2 0.02
49 1 0.01
50 74 0.69
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGTTAGGTCGCA
Found at i:62773225 original size:97 final size:99
Alignment explanation
Indices: 62773054--62773242 Score: 283
Period size: 97 Copynumber: 1.9 Consensus size: 99
62773044 ATTTTGAGTA
* *
62773054 CACGTGTGTAGTACTAAGTGCAGGCTGCTACGTGTACCATACTGTTAAGTCGCATGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAC-GTTAAGTCGCATGTGTAGTACT
*
62773119 AAGTGCAGGCTACTACGTGTATCAGATGGTGAGGT
65 AAGTGCAGGCTACTACGCGTATCAGATGGTGAGGT
** * *
62773154 CACGTGTGTAGTACTAAGTGCAGGCTACTATTTGTACCGGA-GTT-GGTCGCATGTGTAGTACTA
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACGTTAAGTCGCATGTGTAGTACTA
*
62773217 AGTGCAGGCTACTATGCGTATCAGAT
66 AGTGCAGGCTACTACGCGTATCAGAT
62773243 AGCTTCGGCT
Statistics
Matches: 81, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
97 42 0.52
98 3 0.04
100 36 0.44
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.30
Consensus pattern (99 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACGTTAAGTCGCATGTGTAGTACTA
AGTGCAGGCTACTACGCGTATCAGATGGTGAGGT
Found at i:62776869 original size:26 final size:27
Alignment explanation
Indices: 62776833--62776885 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
62776823 TGTCAGCTAG
* *
62776833 TGAAATTTTAA-TGTTCGAATGTATGC
1 TGAAATTTTAAGTGTCCGAATGCATGC
*
62776859 TGAATTTTTAAGTGTCCGAATGCATGC
1 TGAAATTTTAAGTGTCCGAATGCATGC
62776886 CAGAATTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (27 bp):
TGAAATTTTAAGTGTCCGAATGCATGC
Found at i:62778218 original size:48 final size:48
Alignment explanation
Indices: 62778154--62778301 Score: 224
Period size: 48 Copynumber: 3.1 Consensus size: 48
62778144 TTGATGTACA
*
62778154 AGATATATATATGTGGTAAAGCCGAATGGCTAATGTAAAATATGTATG
1 AGATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* *
62778202 AGATATATATATGTGGTAAAGTCGAAAGGCTAATGTGAAATATGTATG
1 AGATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
** ** *
62778250 AGCCATGCATATGTGGTAAAGCCAAATGGCTAATGTGAAATATGTATG
1 AGATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
62778298 AGAT
1 AGAT
62778302 GTGTATATAT
Statistics
Matches: 88, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 88 1.00
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.30
Consensus pattern (48 bp):
AGATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
Found at i:62783599 original size:15 final size:15
Alignment explanation
Indices: 62783570--62783618 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
62783560 ACGGAGAAGC
*
62783570 CCAAAATAAAGAAAT
1 CCAAGATAAAGAAAT
62783585 CCAAGATAAAGAAAT
1 CCAAGATAAAGAAAT
* *
62783600 CCATGATAAGGAAAT
1 CCAAGATAAAGAAAT
62783615 CCAA
1 CCAA
62783619 ATTACAATAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.57, C:0.16, G:0.12, T:0.14
Consensus pattern (15 bp):
CCAAGATAAAGAAAT
Found at i:62786472 original size:16 final size:17
Alignment explanation
Indices: 62786453--62786484 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
62786443 TAAGGATTTC
62786453 ACTCAT-ATTATTTTTA
1 ACTCATAATTATTTTTA
62786469 ACTCATAATTATTTTT
1 ACTCATAATTATTTTT
62786485 TTACAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.31, C:0.12, G:0.00, T:0.56
Consensus pattern (17 bp):
ACTCATAATTATTTTTA
Found at i:62787652 original size:27 final size:27
Alignment explanation
Indices: 62787612--62787665 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
62787602 AGGTACAACC
* *
62787612 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
62787639 CATGTAACAATAATTTTCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
62787666 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:0.06, T:0.41
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:62790067 original size:42 final size:42
Alignment explanation
Indices: 62790013--62790101 Score: 135
Period size: 42 Copynumber: 2.1 Consensus size: 42
62790003 CCCGTGTGGC
* *
62790013 CAGGTCGTGTGTCTCACATGGCTACCAGACA-AGCCCGTGTCA
1 CAGGCCGTGTGTCTCACACGGCTACCAGACACA-CCCGTGTCA
*
62790055 CAGGCCGTGTGTCTCACACGGCTACCAGACACACCTGTGTCA
1 CAGGCCGTGTGTCTCACACGGCTACCAGACACACCCGTGTCA
62790097 CAGGC
1 CAGGC
62790102 TCTATGGACA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
42 42 0.98
43 1 0.02
ACGTcount: A:0.21, C:0.34, G:0.26, T:0.19
Consensus pattern (42 bp):
CAGGCCGTGTGTCTCACACGGCTACCAGACACACCCGTGTCA
Found at i:62791680 original size:39 final size:39
Alignment explanation
Indices: 62791626--62791704 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
62791616 GATCTACCTA
*
62791626 AGGATTACCTACGCAGATAAGCAGAAGGGTGAGTTTATG
1 AGGATTACCTACGCAGATAAGCAGAAAGGTGAGTTTATG
62791665 AGGATTACCTACGCAGATAAGCAGAAAGGTGAGTTTATG
1 AGGATTACCTACGCAGATAAGCAGAAAGGTGAGTTTATG
62791704 A
1 A
62791705 AACTTAGTGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.35, C:0.13, G:0.29, T:0.23
Consensus pattern (39 bp):
AGGATTACCTACGCAGATAAGCAGAAAGGTGAGTTTATG
Found at i:62793390 original size:27 final size:27
Alignment explanation
Indices: 62793344--62793412 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
62793334 ATATGCTAGT
* *
62793344 ATTATTAAAATACCCCTGTAAGG-TAGA
1 ATTACTAAAATACCCATGT-AGGATAGA
* *
62793371 ATTACTGAAATGCCCATGTAGGATAGA
1 ATTACTAAAATACCCATGTAGGATAGA
62793398 ATTACTAAAATACCC
1 ATTACTAAAATACCC
62793413 TTGGTTTACA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
26 3 0.09
27 32 0.91
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (27 bp):
ATTACTAAAATACCCATGTAGGATAGA
Found at i:62793427 original size:27 final size:27
Alignment explanation
Indices: 62793397--62793711 Score: 296
Period size: 27 Copynumber: 11.7 Consensus size: 27
62793387 TGTAGGATAG
* * **
62793397 AATTACTAAAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCTTGATTTGTAA
* *
62793424 AATTACCAAAATACCCTCGATTAGT-A
1 AATTACCAAAATACCCTTGATTTGTAA
* *
62793450 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGATTTGTAA
* * *
62793477 AATTACCAAAATACCCCTAATTTTTAA
1 AATTACCAAAATACCCTTGATTTGTAA
* * *
62793504 AATTACCGAAATACCCTTAACTTGTAA
1 AATTACCAAAATACCCTTGATTTGTAA
* * **
62793531 AATTATCAAATTACCCTCAATTTGTAA
1 AATTACCAAAATACCCTTGATTTGTAA
* *
62793558 AATTACCAAAATACCCCTGATTTGGAA
1 AATTACCAAAATACCCTTGATTTGTAA
* *
62793585 AATTACTAAAATACCCTTGATTTGGAA
1 AATTACCAAAATACCCTTGATTTGTAA
**
62793612 AATTA-CAGAAATACCCTTGATTTACAA
1 AATTACCA-AAATACCCTTGATTTGTAA
* **
62793639 AATTACAAAAATACCCTTGACTTTCAAA
1 AATTACCAAAATACCCTTGA-TTTGTAA
* *
62793667 AATTA-TAGAAATACCCTTGGTTTGT-A
1 AATTACCA-AAATACCCTTGATTTGTAA
* *
62793693 ATTTACCAAAACACCCTTG
1 AATTACCAAAATACCCTTG
62793712 TAGGGTGAAA
Statistics
Matches: 239, Mismatches: 43, Indels: 13
0.81 0.15 0.04
Matches are distributed among these distances:
26 38 0.16
27 179 0.75
28 22 0.09
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGATTTGTAA
Found at i:62793997 original size:41 final size:41
Alignment explanation
Indices: 62793952--62794074 Score: 124
Period size: 41 Copynumber: 3.0 Consensus size: 41
62793942 GGAGGAAGAA
**
62793952 ATTGAGGATCGCACAGTTGCTTGAAGACCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGAAGACCGTGGATCCACCG
* * * *
62793993 ATTGAGAATTGTATGGTTAG-TT-AACAACCGTGGATCCACCG
1 ATTGAGGATCGCATGGTT-GCTTGAA-GACCGTGGATCCACCG
* * * *
62794034 ATTAAGGATCACATGGTTGCTTGACGATCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGAAGACCGTGGATCCACCG
62794075 GTGGCTTTTA
Statistics
Matches: 64, Mismatches: 14, Indels: 8
0.74 0.16 0.09
Matches are distributed among these distances:
40 3 0.05
41 59 0.92
42 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (41 bp):
ATTGAGGATCGCATGGTTGCTTGAAGACCGTGGATCCACCG
Found at i:62794267 original size:22 final size:22
Alignment explanation
Indices: 62794216--62794279 Score: 78
Period size: 22 Copynumber: 2.9 Consensus size: 22
62794206 CCAATTATTT
*
62794216 TGATTATGGCTTTGCGCCAACC
1 TGATTATGGCTTTGTGCCAACC
*
62794238 T-ACATATGGCTTTGTGCCAACC
1 TGA-TTATGGCTTTGTGCCAACC
62794260 TGATTATGG-TTGTGTGCCAA
1 TGATTATGGCTT-TGTGCCAA
62794280 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
21 3 0.08
22 32 0.89
23 1 0.03
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.34
Consensus pattern (22 bp):
TGATTATGGCTTTGTGCCAACC
Found at i:62796680 original size:9 final size:10
Alignment explanation
Indices: 62796646--62796680 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
62796636 TAGGTTGCTT
62796646 TGGGCCATGA
1 TGGGCCATGA
*
62796656 TGGGCCAAGA
1 TGGGCCATGA
62796666 TGGGCCATG-
1 TGGGCCATGA
62796675 TGGGCC
1 TGGGCC
62796681 CATAGGCCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 6 0.26
10 17 0.74
ACGTcount: A:0.17, C:0.23, G:0.43, T:0.17
Consensus pattern (10 bp):
TGGGCCATGA
Found at i:62796844 original size:27 final size:28
Alignment explanation
Indices: 62796814--62796885 Score: 96
Period size: 26 Copynumber: 2.7 Consensus size: 28
62796804 TGTAGGGTAG
62796814 AATTACTGAAATACCCTCT-GTTTACAA
1 AATTACTGAAATACCCTCTGGTTTACAA
*
62796841 AATTACTG-AATA-CCTTTGGTTTACAA
1 AATTACTGAAATACCCTCTGGTTTACAA
**
62796867 AATTACCAAAATACCCTCT
1 AATTACTGAAATACCCTCT
62796886 ATTAGTAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
25 4 0.11
26 18 0.47
27 12 0.32
28 4 0.11
ACGTcount: A:0.38, C:0.22, G:0.07, T:0.33
Consensus pattern (28 bp):
AATTACTGAAATACCCTCTGGTTTACAA
Found at i:62796895 original size:27 final size:28
Alignment explanation
Indices: 62796865--62797154 Score: 172
Period size: 27 Copynumber: 10.7 Consensus size: 28
62796855 TTTGGTTTAC
*
62796865 AAAATTACCAAAATACCCTCT-ATTAGT
1 AAAATTACCAAAATACCCTCTGATTTGT
*
62796892 AAAATTACCAAAATACCC-CTAATTTGT
1 AAAATTACCAAAATACCCTCTGATTTGT
*** ** * *
62796919 GGTATTACTGAAATACCCTC-AACTTGT
1 AAAATTACCAAAATACCCTCTGATTTGT
* *
62796946 AAAATTATCGAAATACCCTC-GATTTGT
1 AAAATTACCAAAATACCCTCTGATTTGT
* *
62796973 AAATTTACCAAAATACCC-CTGATTTGG
1 AAAATTACCAAAATACCCTCTGATTTGT
* * * *
62797000 AAAATTATCGAAATACTCT-TGATTTGG
1 AAAATTACCAAAATACCCTCTGATTTGT
* **
62797027 AAAATTACAAAAATACCC-CTGATTTAA
1 AAAATTACCAAAATACCCTCTGATTTGT
*** *
62797054 AAAATTTTAAAAATACCAT-TGACTTT-T
1 AAAATTACCAAAATACCCTCTGA-TTTGT
** * *
62797081 AAAAATTATAAAAATACCAT-T-AGTTTGC
1 -AAAATTACCAAAATACCCTCTGA-TTTGT
* *
62797109 AAAATTACTAAAATACCCT-TGGTTTGT
1 AAAATTACCAAAATACCCTCTGATTTGT
* * *
62797136 AGATTTACCAAAACACCCT
1 AAAATTACCAAAATACCCT
62797155 TGTAGGGTGA
Statistics
Matches: 209, Mismatches: 44, Indels: 20
0.77 0.16 0.07
Matches are distributed among these distances:
26 3 0.01
27 183 0.88
28 23 0.11
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.32
Consensus pattern (28 bp):
AAAATTACCAAAATACCCTCTGATTTGT
Found at i:62797013 original size:81 final size:81
Alignment explanation
Indices: 62796865--62797044 Score: 202
Period size: 81 Copynumber: 2.2 Consensus size: 81
62796855 TTTGGTTTAC
* **
62796865 AAAATTACCAAAATACCCTCTATTAGTAAAATTACCAAAATACCCCTAATTTGTGGTATTACTGA
1 AAAATTACCAAAATACCCTCGATTAGTAAAATTACCAAAATACCCCTAATTTGTGAAATTACTGA
62796930 AATACCCTCAACTTGT
66 AATACCCTCAACTTGT
* * * * *
62796946 AAAATTATCGAAATACCCTCGATTTGTAAATTTACCAAAATACCCCTGATTTG-GAAAATTA-TC
1 AAAATTACCAAAATACCCTCGATTAGTAAAATTACCAAAATACCCCTAATTTGTG-AAATTACT-
* ** * *
62797009 GAAATACTCTTGATTTGG
64 GAAATACCCTCAACTTGT
*
62797027 AAAATTACAAAAATACCC
1 AAAATTACCAAAATACCC
62797045 CTGATTTAAA
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
80 2 0.02
81 79 0.98
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.31
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTCGATTAGTAAAATTACCAAAATACCCCTAATTTGTGAAATTACTGA
AATACCCTCAACTTGT
Found at i:62797632 original size:22 final size:22
Alignment explanation
Indices: 62797584--62797643 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
62797574 TTATTCTGAT
* *
62797584 TATGGCTTTGCGCCAACCTACA
1 TATGGCTCTGTGCCAACCTACA
*
62797606 TATGGCTCTGTGCCAACCT-TA
1 TATGGCTCTGTGCCAACCTACA
*
62797627 TCATGGCTGTGTGCCAA
1 T-ATGGCTCTGTGCCAA
62797644 ATGTATTTGC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 2 0.06
22 31 0.94
ACGTcount: A:0.20, C:0.28, G:0.22, T:0.30
Consensus pattern (22 bp):
TATGGCTCTGTGCCAACCTACA
Found at i:62806609 original size:34 final size:33
Alignment explanation
Indices: 62806563--62806629 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 33
62806553 TTGAACAATT
62806563 TGGGCTTAAGCCC-ATGTCAGTAGCAATATCAGTA
1 TGGGCTTAAGCCCAAT-TCAGTA-CAATATCAGTA
*
62806597 TGGGCCTT-AGCCCAATTCAGTACAGTATCAGTA
1 TGGG-CTTAAGCCCAATTCAGTACAATATCAGTA
62806630 ATGCATAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
33 10 0.33
34 15 0.50
35 5 0.17
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.27
Consensus pattern (33 bp):
TGGGCTTAAGCCCAATTCAGTACAATATCAGTA
Found at i:62810349 original size:20 final size:20
Alignment explanation
Indices: 62810324--62810396 Score: 58
Period size: 20 Copynumber: 3.3 Consensus size: 20
62810314 AATCTTGAAA
62810324 ACTCCCAATTCGGCTCTAAC
1 ACTCCCAATTCGGCTCTAAC
*
62810344 ACTCCCTCAACTTCAAAGGGTGCCT-AC
1 ACT-CC-CAA-TTC---GGCT--CTAAC
62810371 ACTCCCAATTCGGCTCTAAC
1 ACTCCCAATTCGGCTCTAAC
62810391 ACTCCC
1 ACTCCC
62810397 TCAACTTCAC
Statistics
Matches: 42, Mismatches: 2, Indels: 18
0.68 0.03 0.29
Matches are distributed among these distances:
19 2 0.05
20 11 0.26
21 5 0.12
22 3 0.07
23 3 0.07
24 3 0.07
25 3 0.07
26 5 0.12
27 5 0.12
28 2 0.05
ACGTcount: A:0.25, C:0.41, G:0.11, T:0.23
Consensus pattern (20 bp):
ACTCCCAATTCGGCTCTAAC
Found at i:62813943 original size:39 final size:39
Alignment explanation
Indices: 62813887--62814049 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
62813877 CAGTGATATT
*
62813887 TATCCGGACTTAAGGTCCGCAGGCTATGTACTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
*
62813926 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
62813965 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
* * * *
62814004 TAACCGGACTTAAGGTTCGCAGGCTACGTGCTGGAAATA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
*
62814043 TGTCCGG
1 TATCCGG
62814050 GCTAAAGTCC
Statistics
Matches: 115, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 115 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (39 bp):
TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
Found at i:62814076 original size:78 final size:78
Alignment explanation
Indices: 62813887--62814087 Score: 230
Period size: 78 Copynumber: 2.6 Consensus size: 78
62813877 CAGTGATATT
* * * *
62813887 TATCCGGACTTAAGGTCCGCAGGCTATGTA-CTGGAATTATATCCGGACTTAGGGTCCGCAGGCT
1 TATCCGGACTTAAAGTCCACAGGCTATG-AGCTGGAATTATAACCGGACTTAAGGTCCGCAGGCT
* *
62813951 ATGTGCTGGAATTA
65 ACGTGCTGGAAATA
* * * *
62813965 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTATAACCGGACTTAAGGTTCGCAGGCTA
1 TATCCGGACTTAAAGTCCACAGGCTATGAGCTGGAATTATAACCGGACTTAAGGTCCGCAGGCTA
62814030 CGTGCTGGAAATA
66 CGTGCTGGAAATA
* * *
62814043 TGTCCGGGC-TAAAGTCCCACAGGCT-TCGAGCTGGTATTAT-ACCGG
1 TATCCGGACTTAAAGT-CCACAGGCTAT-GAGCTGGAATTATAACCGG
62814088 GTTTAAATTT
Statistics
Matches: 108, Mismatches: 12, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
77 11 0.10
78 97 0.90
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (78 bp):
TATCCGGACTTAAAGTCCACAGGCTATGAGCTGGAATTATAACCGGACTTAAGGTCCGCAGGCTA
CGTGCTGGAAATA
Found at i:62820366 original size:23 final size:23
Alignment explanation
Indices: 62820336--62820382 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
62820326 AAAAGAAAAA
62820336 CAAAATGTTGGTTTCATCTTCTT
1 CAAAATGTTGGTTTCATCTTCTT
62820359 CAAAATGTTGGTTTCATCTTCTT
1 CAAAATGTTGGTTTCATCTTCTT
62820382 C
1 C
62820383 CTTAGTAGCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.47
Consensus pattern (23 bp):
CAAAATGTTGGTTTCATCTTCTT
Found at i:62822250 original size:39 final size:39
Alignment explanation
Indices: 62822102--62822244 Score: 223
Period size: 39 Copynumber: 3.7 Consensus size: 39
62822092 CAGTGATGTT
*
62822102 TATCCGGACTTAGGGTCCGCAGGCTATGTACTGGAATTA
1 TATCCGGACTTATGGTCCGCAGGCTATGTACTGGAATTA
62822141 TATCCGGACTTATGGTCCGCAGGCTATGTACTGGAATTA
1 TATCCGGACTTATGGTCCGCAGGCTATGTACTGGAATTA
* * * *
62822180 TATTCGGACTTAAGGTCCACAGGCTATGTGCTGGAATTA
1 TATCCGGACTTATGGTCCGCAGGCTATGTACTGGAATTA
* *
62822219 TAACCGGACTTATGGTCTGCAGGCTA
1 TATCCGGACTTATGGTCCGCAGGCTA
62822245 CGTGCTAGAA
Statistics
Matches: 94, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 94 1.00
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (39 bp):
TATCCGGACTTATGGTCCGCAGGCTATGTACTGGAATTA
Found at i:62822291 original size:78 final size:78
Alignment explanation
Indices: 62822102--62822274 Score: 197
Period size: 78 Copynumber: 2.2 Consensus size: 78
62822092 CAGTGATGTT
** * *
62822102 TATCCGGACTTAGGGTCCGCAGGCTATGTA-CTGGAATTATATCCGGACTTATGGTCCGCAGGCT
1 TATCCGGACTTAAAGTCCACAGGCTATG-AGCTGGAATTATAACCGGACTTATGGTCCGCAGGCT
* * *
62822166 ATGTACTGGAATTA
65 ACGTACTAGAAATA
* * * *
62822180 TATTCGGACTTAAGGTCCACAGGCTATGTGCTGGAATTATAACCGGACTTATGGTCTGCAGGCTA
1 TATCCGGACTTAAAGTCCACAGGCTATGAGCTGGAATTATAACCGGACTTATGGTCCGCAGGCTA
*
62822245 CGTGCTAGAAATA
66 CGTACTAGAAATA
* *
62822258 TGTCCGGGC-TAAAGTCC
1 TATCCGGACTTAAAGTCC
62822275 CGCAGTCTTC
Statistics
Matches: 80, Mismatches: 14, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
77 7 0.09
78 73 0.91
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (78 bp):
TATCCGGACTTAAAGTCCACAGGCTATGAGCTGGAATTATAACCGGACTTATGGTCCGCAGGCTA
CGTACTAGAAATA
Found at i:62831437 original size:27 final size:27
Alignment explanation
Indices: 62831376--62831453 Score: 113
Period size: 27 Copynumber: 2.9 Consensus size: 27
62831366 CAAAAATATT
*
62831376 ATCAGGTGGGCCTTAA-CCCATTAACAGA
1 ATCAGGTGGGCC-TAAGCCCAAT-ACAGA
62831404 ATCAGGTGGGCCTAAGCCCAATACAGA
1 ATCAGGTGGGCCTAAGCCCAATACAGA
*
62831431 ATTAGGTGGGCCTAAGCCCAATA
1 ATCAGGTGGGCCTAAGCCCAATA
62831454 TAATTTCACT
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
27 30 0.64
28 17 0.36
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.19
Consensus pattern (27 bp):
ATCAGGTGGGCCTAAGCCCAATACAGA
Found at i:62837408 original size:55 final size:56
Alignment explanation
Indices: 62837321--62837483 Score: 208
Period size: 55 Copynumber: 2.9 Consensus size: 56
62837311 ATTAGGGTTT
62837321 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC-
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCA
* * * *
62837376 AAGGATATCATGTAAGACCATGTCAAGACATGGC-ATTGATAA-GTTTCTATAAGGCA
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC--TAAGGCA
* * * *
62837432 AAGGCT-CCATGTAAGACCACGCCACGGCATGGTAATTGGTAAGGTTTCTAAG
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAG
62837484 ACCATTTTAT
Statistics
Matches: 91, Mismatches: 12, Indels: 10
0.81 0.11 0.09
Matches are distributed among these distances:
53 5 0.05
54 7 0.08
55 62 0.68
56 12 0.13
57 5 0.05
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (56 bp):
AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCA
Found at i:62842111 original size:24 final size:24
Alignment explanation
Indices: 62842079--62842155 Score: 136
Period size: 24 Copynumber: 3.2 Consensus size: 24
62842069 AAGTCTGTCA
62842079 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
62842103 GGAGAGGATTTAGGAGCGGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
62842127 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
62842151 GGAGA
1 GGAGA
62842156 ACAGTGTTGG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.32, C:0.04, G:0.44, T:0.19
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:62842118 original size:12 final size:12
Alignment explanation
Indices: 62842078--62842142 Score: 53
Period size: 12 Copynumber: 5.4 Consensus size: 12
62842068 AAAGTCTGTC
62842078 AGGAGAGGATTT
1 AGGAGAGGATTT
** *
62842090 AGGAGCTGA-TA
1 AGGAGAGGATTT
62842101 AGGGAGAGGATTT
1 A-GGAGAGGATTT
* *
62842114 AGGAGCGGA-TA
1 AGGAGAGGATTT
62842125 AGGGAGAGGATTT
1 A-GGAGAGGATTT
62842138 AGGAG
1 AGGAG
62842143 CTGATTAGGG
Statistics
Matches: 39, Mismatches: 10, Indels: 8
0.68 0.18 0.14
Matches are distributed among these distances:
11 4 0.10
12 31 0.79
13 4 0.10
ACGTcount: A:0.34, C:0.03, G:0.45, T:0.18
Consensus pattern (12 bp):
AGGAGAGGATTT
Found at i:62843669 original size:26 final size:26
Alignment explanation
Indices: 62843562--62843672 Score: 150
Period size: 27 Copynumber: 4.2 Consensus size: 26
62843552 TGGAAGCGTC
* * *
62843562 CTGGTGGCTATGCCATTATTATCTGAT
1 CTGGTGGCTCTGCCA-CATTATCTGTT
62843589 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
62843616 CTGGTGGCTCTGCCACGATTATCTGTT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
* *
62843643 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
62843669 CTGG
1 CTGG
62843673 CAGCCATGCT
Statistics
Matches: 77, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
26 16 0.21
27 59 0.77
28 2 0.03
ACGTcount: A:0.14, C:0.23, G:0.23, T:0.39
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:62844845 original size:16 final size:16
Alignment explanation
Indices: 62844824--62844854 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
62844814 ATAAATTTGA
62844824 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
62844840 TTAAGTAAGTTAGTA
1 TTAAGTAAGTAAGTA
62844855 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.39
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:62848744 original size:14 final size:15
Alignment explanation
Indices: 62848727--62848755 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
62848717 GCATGAAAAT
62848727 TTCACACA-AATAAA
1 TTCACACATAATAAA
62848741 TTCACACATAATAAA
1 TTCACACATAATAAA
62848756 CATAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:62851037 original size:43 final size:43
Alignment explanation
Indices: 62850976--62851062 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
62850966 TAGTCAGATC
*
62850976 AACCCAAATACCCGATGCTGAAACAACATGGCCCAGAAAACTG
1 AACCCAAATACCCGATGCTAAAACAACATGGCCCAGAAAACTG
*
62851019 AACCCGAATACCCGATGCTAAAACAACATGGCCCAGAAAACTG
1 AACCCAAATACCCGATGCTAAAACAACATGGCCCAGAAAACTG
62851062 A
1 A
62851063 CTTCACATAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.43, C:0.30, G:0.16, T:0.11
Consensus pattern (43 bp):
AACCCAAATACCCGATGCTAAAACAACATGGCCCAGAAAACTG
Found at i:62856707 original size:14 final size:15
Alignment explanation
Indices: 62856690--62856718 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
62856680 GCATGAAAAT
62856690 TTCACACA-AATAAA
1 TTCACACATAATAAA
62856704 TTCACACATAATAAA
1 TTCACACATAATAAA
62856719 CACAGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:62858094 original size:42 final size:43
Alignment explanation
Indices: 62858017--62858099 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 43
62858007 CCCAAACATT
* *
62858017 GTCTTACATGTAATCAAATATCGATGCCACTGTCCTAGACAGG
1 GTCTTACACGAAATCAAATATCGATGCCACTGTCCTAGACAGG
*
62858060 GTCTTACACGAAATCATATA-CGATGCCGA-TGTCCTAGACA
1 GTCTTACACGAAATCAAATATCGATGCC-ACTGTCCTAGACA
62858100 TGGTTTTGCA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
42 18 0.50
43 18 0.50
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (43 bp):
GTCTTACACGAAATCAAATATCGATGCCACTGTCCTAGACAGG
Found at i:62860828 original size:22 final size:23
Alignment explanation
Indices: 62860784--62860829 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
62860774 TTTTTTCCAT
62860784 GACACAAGGTCACACGCCCGTGTG
1 GACACAAGG-CACACGCCCGTGTG
* *
62860808 GACACAAGG-ACACTCCTGTGTG
1 GACACAAGGCACACGCCCGTGTG
62860830 CCTTCTGCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 11 0.55
24 9 0.45
ACGTcount: A:0.26, C:0.30, G:0.28, T:0.15
Consensus pattern (23 bp):
GACACAAGGCACACGCCCGTGTG
Found at i:62862107 original size:37 final size:37
Alignment explanation
Indices: 62862051--62862152 Score: 177
Period size: 37 Copynumber: 2.8 Consensus size: 37
62862041 CAAATAGTCC
* *
62862051 CCACACGTAGTTATTGGGTCTTACCCGGGCAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGGCAAAATCT
*
62862088 CCACACGTAGTCATCGGGTCTTACCCGGGCATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGGCAAAATCT
62862125 CCACACGTAGTCATCGGGTCTTACCCGG
1 CCACACGTAGTCATCGGGTCTTACCCGG
62862153 AATATATTTC
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.22, C:0.31, G:0.23, T:0.25
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGGCAAAATCT
Found at i:62862344 original size:48 final size:48
Alignment explanation
Indices: 62862279--62862731 Score: 690
Period size: 48 Copynumber: 9.3 Consensus size: 48
62862269 GGTCATTCGG
* * * *
62862279 CCACAATATACACATCTCCTACATATTTCATACTAGCCATTCGGCTTTA
1 CCAC-ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
*
62862328 CCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
* * *
62862376 CCACATATACATATCTTATATATATATTTCACACTAGCCATTCGGCTTTA
1 CCACATATACATATC-T-CATACATATTTCACATTAGCCATTCGGCTTTA
62862426 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
*
62862474 CCACATATACATATCTCATATATATATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTC----ATACATATTTCACATTAGCCATTCGGCTTTA
*
62862526 CCACATATACATATCTCATACATATTTCACATTAGCCATTCAGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
*
62862574 CCACATATACATATCTCATACATGTTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
* *
62862622 CCACATATACATATGTCATACATATTCCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
* * * *
62862670 CCGCATATACATATCTCATACATATTCCACATTAGCCATTCAGTTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
62862718 CCACATATACATAT
1 CCACATATACATAT
62862732 ATATTTATCT
Statistics
Matches: 377, Mismatches: 21, Indels: 13
0.92 0.05 0.03
Matches are distributed among these distances:
48 279 0.74
49 6 0.02
50 45 0.12
52 47 0.12
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
Found at i:62880229 original size:16 final size:16
Alignment explanation
Indices: 62880208--62880239 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
62880198 AATTAATTTA
62880208 AATTAAATAATTTTCT
1 AATTAAATAATTTTCT
62880224 AATTAAATAATTTTCT
1 AATTAAATAATTTTCT
62880240 CAACCTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (16 bp):
AATTAAATAATTTTCT
Found at i:62885705 original size:38 final size:38
Alignment explanation
Indices: 62885653--62885830 Score: 180
Period size: 38 Copynumber: 4.7 Consensus size: 38
62885643 TGAATTATAT
62885653 TGTTATTCTA-GCTTTGTGCCTAGCAGGCTTAGTGCC-A
1 TGTTATTC-AGGCTTTGTGCCTAGCAGGCTTAGTGCCGA
* *
62885690 GTGTTATTCGGGCTTTGTGCCTAGCAGGCTTAATGCCGA
1 -TGTTATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCCGA
* * * *
62885729 CGTTAATCAGGCTTTGTGCCTACCAGGCTTAGTGTCGA
1 TGTTATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCCGA
* * * * * * *
62885767 TGTTACTCAAGCTTTTTTCCTAGCGGGCTTAGTGTCGG
1 TGTTATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCCGA
** *
62885805 TGTTATTCAGTATTTGTACCTAGCAG
1 TGTTATTCAGGCTTTGTGCCTAGCAG
62885831 ATTTATTGCT
Statistics
Matches: 115, Mismatches: 23, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
38 114 0.99
39 1 0.01
ACGTcount: A:0.17, C:0.21, G:0.26, T:0.37
Consensus pattern (38 bp):
TGTTATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCCGA
Found at i:62892922 original size:39 final size:39
Alignment explanation
Indices: 62892847--62893043 Score: 223
Period size: 39 Copynumber: 5.0 Consensus size: 39
62892837 GAATTCAATC
* * * * * *
62892847 ACCAACACAAAGCCTACGGGACTTTAAGCCCGGATATAGT
1 ACCAGCACGAAGCCTGC-GGACCTTAAGTCCGGATATAAT
* * *
62892887 ACCAGTACGAAGCCTGCGGACCTTAAGTCCAGATATAGT
1 ACCAGCACGAAGCCTGCGGACCTTAAGTCCGGATATAAT
*
62892926 ACCAGCACGAAGCCTGCGGATCTTAAGTCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGACCTTAAGTCCGGATATAAT
* * *
62892965 TCCAGCACGAAGCCTGCAGACCTTAAGTCCGGATACAAT
1 ACCAGCACGAAGCCTGCGGACCTTAAGTCCGGATATAAT
* * * *
62893004 TCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATATAAT
1 ACCAGCACGAAGCCTGC-GGACCTTAAGTCCGGATATAAT
62893044 TCTAGCATAT
Statistics
Matches: 136, Mismatches: 20, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
39 106 0.78
40 30 0.22
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.20
Consensus pattern (39 bp):
ACCAGCACGAAGCCTGCGGACCTTAAGTCCGGATATAAT
Found at i:62892962 original size:78 final size:79
Alignment explanation
Indices: 62892842--62893043 Score: 255
Period size: 78 Copynumber: 2.6 Consensus size: 79
62892832 ACCCCGAATT
* * * * * *
62892842 CAATCACCAACACAAAGCCTACGGGA-CTTTAAGCCCGGATATAGTACCAGTACGAAGCCTGCGG
1 CAAT-ACCAGCACGAAGCCTGC-GGATCTTTAAGCCCGGATATAATACCAGCACGAAGCCTGCAG
62892906 ACCTTAAGTCCAGATA
64 ACCTTAAGTCCAGATA
* * * *
62892922 TAGTACCAGCACGAAGCCTGCGGATC-TTAAGTCCGGATATAATTCCAGCACGAAGCCTGCAGAC
1 CAATACCAGCACGAAGCCTGCGGATCTTTAAGCCCGGATATAATACCAGCACGAAGCCTGCAGAC
*
62892986 CTTAAGTCCGGATA
66 CTTAAGTCCAGATA
* *
62893000 CAATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATATAAT
1 CAATACCAGCACGAAGCCTGCGGATCTTTAAGCCCGGATATAAT
62893044 TCTAGCATAT
Statistics
Matches: 104, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
78 71 0.68
79 31 0.30
80 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.22, T:0.20
Consensus pattern (79 bp):
CAATACCAGCACGAAGCCTGCGGATCTTTAAGCCCGGATATAATACCAGCACGAAGCCTGCAGAC
CTTAAGTCCAGATA
Found at i:62907488 original size:36 final size:36
Alignment explanation
Indices: 62907447--62907518 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
62907437 CGAATAGTTT
*
62907447 GCCTAGCCTAATCACAGTATTCTTGTCATAGTTGAA
1 GCCTAGCCTAATCACAATATTCTTGTCATAGTTGAA
62907483 GCCTAGCCTAATCACAATATTCTTGTCATAGTTGAA
1 GCCTAGCCTAATCACAATATTCTTGTCATAGTTGAA
62907519 CACGTCGCTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.33
Consensus pattern (36 bp):
GCCTAGCCTAATCACAATATTCTTGTCATAGTTGAA
Found at i:62908194 original size:27 final size:28
Alignment explanation
Indices: 62908150--62908244 Score: 97
Period size: 28 Copynumber: 3.4 Consensus size: 28
62908140 TTTAGATGAT
*
62908150 GCCACAAAGGCATTCCTT-TTCAGAGATA
1 GCCACAAAGGC-TTCCTTATCCAGAGATA
* * * *
62908178 GCTATAAAGGTTTCCTTATCCAGAGATT
1 GCCACAAAGGCTTCCTTATCCAGAGATA
62908206 GCCACAAAGGCTTCCTTA-CCTAGAGATTA
1 GCCACAAAGGCTTCCTTATCC-AGAGA-TA
62908235 -CCACAAAGGC
1 GCCACAAAGGC
62908245 ATCATTTTTA
Statistics
Matches: 55, Mismatches: 9, Indels: 6
0.79 0.13 0.09
Matches are distributed among these distances:
27 8 0.15
28 46 0.84
29 1 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (28 bp):
GCCACAAAGGCTTCCTTATCCAGAGATA
Found at i:62908310 original size:27 final size:29
Alignment explanation
Indices: 62908262--62908324 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 29
62908252 TTATTAAGTA
* * *
62908262 CTCACCACTAAGGCTTTCCTTTTAGA-GT
1 CTCATCACAAAGGCTTTCCTTTAAGAGGT
62908290 CTCATCACAAAGG-TTTCCTTTAAGAGGT
1 CTCATCACAAAGGCTTTCCTTTAAGAGGT
62908318 -TCATCAC
1 CTCATCAC
62908325 GAGGGCTTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 18 0.58
28 13 0.42
ACGTcount: A:0.25, C:0.27, G:0.14, T:0.33
Consensus pattern (29 bp):
CTCATCACAAAGGCTTTCCTTTAAGAGGT
Found at i:62908482 original size:29 final size:28
Alignment explanation
Indices: 62908328--62908483 Score: 97
Period size: 29 Copynumber: 5.5 Consensus size: 28
62908318 TCATCACGAG
*
62908328 GGCTTACCCTTCTAGAGTTTTGCCACAAA
1 GGCTTACCTTTC-AGAGTTTTGCCACAAA
* * *
62908357 GG-TTGTCCTTTAACA-TGTTTGCCACAAA
1 GGCTT-ACCTTTCAGAGT-TTTGCCACAAA
* *
62908385 GGCTTACCTTTCCAGAGTTTTTCCATAAA
1 GGCTTACCTTT-CAGAGTTTTGCCACAAA
** * *
62908414 GGCGTT-TGTTTCAGAGGTTCT-CGACAAA
1 GGC-TTACCTTTCAGA-GTTTTGCCACAAA
* *
62908442 GGCTTACATTTCTAGAGTTTTGCTACAAA
1 GGCTTACCTTTC-AGAGTTTTGCCACAAA
62908471 GGCGTT-CCTTTCA
1 GGC-TTACCTTTCA
62908484 CTAGTTTTTT
Statistics
Matches: 97, Mismatches: 19, Indels: 23
0.70 0.14 0.17
Matches are distributed among these distances:
27 3 0.03
28 43 0.44
29 46 0.47
30 5 0.05
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.35
Consensus pattern (28 bp):
GGCTTACCTTTCAGAGTTTTGCCACAAA
Found at i:62908483 original size:57 final size:55
Alignment explanation
Indices: 62908295--62908481 Score: 169
Period size: 57 Copynumber: 3.3 Consensus size: 55
62908285 AGAGTCTCAT
* * * *
62908295 CACAAAGGTTTCCTTTAAGAGGTTCATCACGAGGGCTTACCCTTCTAGAGTTTTGC
1 CACAAAGGGTTCCTTTAAGAGGTTC-TCACAAAGGCTTACCTTTCTAGAGTTTTGC
* * * * *
62908351 CACAAAGGTTGTCCTTTAACATGTT-TGCCACAAAGGCTTACCTTTCCAGAGTTTTTC
1 CACAAAGGGT-TCCTTTAAGAGGTTCT--CACAAAGGCTTACCTTTCTAGAGTTTTGC
* ** * *
62908408 CATAAAGGCGTTTGTTTCAGAGGTTCTCGACAAAGGCTTACATTTCTAGAGTTTTGC
1 CACAAAGG-GTTCCTTTAAGAGGTTCTC-ACAAAGGCTTACCTTTCTAGAGTTTTGC
*
62908465 TACAAAGGCGTTCCTTT
1 CACAAAGG-GTTCCTTT
62908482 CACTAGTTTT
Statistics
Matches: 104, Mismatches: 21, Indels: 11
0.76 0.15 0.08
Matches are distributed among these distances:
55 1 0.01
56 11 0.11
57 90 0.87
58 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (55 bp):
CACAAAGGGTTCCTTTAAGAGGTTCTCACAAAGGCTTACCTTTCTAGAGTTTTGC
Found at i:62908690 original size:53 final size:49
Alignment explanation
Indices: 62908594--62908692 Score: 119
Period size: 53 Copynumber: 1.9 Consensus size: 49
62908584 TCCTTTAGTT
* *
62908594 TTTCCATATGATGCCATAGCCAACTATCGTCTTACACGATATGGTTTTC
1 TTTCCATATGATGCCATACCCAACTATCGTATTACACGATATGGTTTTC
*
62908643 TTTCCATATGATGCCATAACCCACTAACTAT-GATATTACATGATATGGTT
1 TTTCCATATGATGCCAT-A-CC-C-AACTATCG-TATTACACGATATGGTT
62908693 CTTCAGCGCC
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
49 17 0.40
50 1 0.02
51 1 0.02
52 2 0.05
53 21 0.50
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.36
Consensus pattern (49 bp):
TTTCCATATGATGCCATACCCAACTATCGTATTACACGATATGGTTTTC
Found at i:62912629 original size:11 final size:11
Alignment explanation
Indices: 62912613--62912652 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
62912603 TTATTTATAA
62912613 TAAAATATTAT
1 TAAAATATTAT
62912624 TAAAATATCTTAT
1 TAAAATA--TTAT
*
62912637 TAAAATATTAA
1 TAAAATATTAT
62912648 TAAAA
1 TAAAA
62912653 CAATATTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
11 15 0.58
13 11 0.42
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (11 bp):
TAAAATATTAT
Found at i:62915991 original size:2 final size:2
Alignment explanation
Indices: 62915986--62916065 Score: 133
Period size: 2 Copynumber: 40.0 Consensus size: 2
62915976 TATATATATA
* * *
62915986 TG TG TG TG TG TG TG CG CG TG TG TG TG TA TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
62916028 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
62916066 ATTTCAGAAT
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 74 1.00
ACGTcount: A:0.01, C:0.03, G:0.49, T:0.47
Consensus pattern (2 bp):
TG
Found at i:62918351 original size:40 final size:40
Alignment explanation
Indices: 62918255--62918479 Score: 280
Period size: 40 Copynumber: 5.7 Consensus size: 40
62918245 TTGAATGCTG
* *
62918255 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
*
62918294 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
62918334 TCCGGGTTAAGTCCCGAAGGTATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
62918374 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
62918414 TTCGGGTTAAGTCCCGAAGGCATTTCTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
62918455 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
62918480 AACGAGGAGC
Statistics
Matches: 166, Mismatches: 14, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
39 19 0.11
40 137 0.83
41 10 0.06
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:62926346 original size:40 final size:40
Alignment explanation
Indices: 62926250--62926394 Score: 165
Period size: 40 Copynumber: 3.6 Consensus size: 40
62926240 TTGAATGCTG
* *
62926250 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
*
62926289 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
62926329 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
62926370 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
62926395 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
39 19 0.21
40 63 0.68
41 10 0.11
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:62926413 original size:80 final size:79
Alignment explanation
Indices: 62926250--62926427 Score: 175
Period size: 80 Copynumber: 2.3 Consensus size: 79
62926240 TTGAATGCTG
* * *
62926250 TCCGGGCTAAGTCCCGAAGGCTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCTTGTGCGAAGTGACAATAACCGGACTAAGATCCGAAGGCATTTG
** *
62926315 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
* * * *
62926329 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAA-TTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC--TTGTGCGAAGTGACAATAACCGGACTAAGAT-CCGAAGGCAT
*
62926392 TTGAACGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
62926409 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
62926428 TACGTGATTT
Statistics
Matches: 82, Mismatches: 13, Indels: 8
0.80 0.13 0.08
Matches are distributed among these distances:
79 36 0.44
80 38 0.46
81 8 0.10
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCTTGTGCGAAGTGACAATAACCGGACTAAGATCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:62930936 original size:46 final size:47
Alignment explanation
Indices: 62930801--62931021 Score: 211
Period size: 47 Copynumber: 4.7 Consensus size: 47
62930791 GTAAGGTGCT
* *
62930801 GATGCAATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAA-GTC
1 GATGC-ATGTCCCAGACATGGTCTTACACTGGCTTACATCTCAAGGCC
* * * *
62930848 AATGCCATATCCCAGACATGGTCTTACACTGAC-TATCATCTCGTA-GCC
1 GATG-CATGTCCCAGACATGGTCTTACACTGGCTTA-CATCTC-AAGGCC
* ** *
62930896 GATGCATGTCCCAGACAT-GTGTTACACTGGCTTATGTCTCGAGGCC
1 GATGCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCAAGGCC
* * * **
62930942 GATGCATGTCCCAGACAT-GTCTTACACTAGCTCT-CGTCTCAATGTT
1 GATGCATGTCCCAGACATGGTCTTACACTGGCT-TACATCTCAAGGCC
62930988 GATGCCATGTCCCAGACATGGTCTTACACTGGCT
1 GATG-CATGTCCCAGACATGGTCTTACACTGGCT
62931022 CTCATAATGT
Statistics
Matches: 145, Mismatches: 21, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
45 1 0.01
46 60 0.41
47 64 0.44
48 20 0.14
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCAAGGCC
Found at i:62931044 original size:47 final size:45
Alignment explanation
Indices: 62930801--62931063 Score: 210
Period size: 47 Copynumber: 5.6 Consensus size: 45
62930791 GTAAGGTGCT
* **
62930801 GATGCAATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAAGTC
1 GATGC-ATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTGTAGTC
* * * * *
62930848 AATGCCATATCCCAGACATGGTCTTACACTGACTATCATCTCGTAGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCT-GTAGTC
* *
62930896 GATGCATGTCCCAGACATGTGTTACACTGGCT-T-ATGTCTCG-AGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCA--TCT-GTA-GTC
* * ** *
62930942 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGTT
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTGTA-GTC
* *
62930988 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGTC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CTGTAGTC
*
62931036 GATGCATGTCTC-GAACATGTCTTACACT
1 GATGCATGTCCCAG-ACATGTCTTACACT
62931064 AGCCAACAAT
Statistics
Matches: 177, Mismatches: 27, Indels: 25
0.77 0.12 0.11
Matches are distributed among these distances:
44 1 0.01
45 2 0.01
46 70 0.40
47 73 0.41
48 30 0.17
49 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTGTAGTC
Found at i:62931061 original size:140 final size:141
Alignment explanation
Indices: 62930801--62931063 Score: 354
Period size: 140 Copynumber: 1.9 Consensus size: 141
62930791 GTAAGGTGCT
*
62930801 GATGCAATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAAGTCAATGCCATATCCCAGACA
1 GATGCAATGTCCCAGACATGGTCTTACACTAGCTCACATCTCAAGTCAATGCCATATCCCAGACA
* *
62930866 TGGTCTTACACTGACTATCATCTCGTAGCCGATGCATGTCCCAGACATGTGTTACACTGGCTTAT
66 TGGTCTTACACTGACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTAT
62930931 GTCTCGAGGCC
131 GTCTCGAGGCC
* * ** *
62930942 GATGC-ATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTCAATGTTGATGCCATGTCCCAGAC
1 GATGCAATGTCCCAGACATGGTCTTACACTAGCTCACATCTCAA-GTCAATGCCATATCCCAGAC
* * * * *
62931005 ATGGTCTTACACTGGCTCTCATAAT-GTGGTCGATGCATGTCTC-GAACATGTCTTACACT
65 ATGGTCTTACACTGACTATCAT-ATCGTAGCCGATGCATGTCCCAG-ACATGTCTTACACT
62931064 AGCCAACAAT
Statistics
Matches: 106, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
139 22 0.21
140 78 0.74
141 6 0.06
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (141 bp):
GATGCAATGTCCCAGACATGGTCTTACACTAGCTCACATCTCAAGTCAATGCCATATCCCAGACA
TGGTCTTACACTGACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTAT
GTCTCGAGGCC
Found at i:62932640 original size:19 final size:19
Alignment explanation
Indices: 62932616--62932654 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
62932606 TCGTTTTCCC
62932616 TAAACGCAAACGATTTTCT
1 TAAACGCAAACGATTTTCT
* *
62932635 TAAACGCGAATGATTTTCT
1 TAAACGCAAACGATTTTCT
62932654 T
1 T
62932655 TAAATATCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (19 bp):
TAAACGCAAACGATTTTCT
Found at i:62933942 original size:21 final size:21
Alignment explanation
Indices: 62933916--62933962 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
62933906 ATTGAACTCC
62933916 CATTATTTTATATATACATTT
1 CATTATTTTATATATACATTT
62933937 CATTATTTTATATATACATTT
1 CATTATTTTATATATACATTT
62933958 -ATTAT
1 CATTAT
62933963 ATAACAAGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 5 0.19
21 21 0.81
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (21 bp):
CATTATTTTATATATACATTT
Found at i:62939460 original size:22 final size:22
Alignment explanation
Indices: 62939429--62939471 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
62939419 TCCCCACAGG
*
62939429 AAGTGTAGGGATGGACGGAGGC
1 AAGTGCAGGGATGGACGGAGGC
* *
62939451 AAGTGCAGGGTTGGATGGAGG
1 AAGTGCAGGGATGGACGGAGG
62939472 TTATCATGCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.26, C:0.07, G:0.51, T:0.16
Consensus pattern (22 bp):
AAGTGCAGGGATGGACGGAGGC
Found at i:62939548 original size:20 final size:21
Alignment explanation
Indices: 62939505--62939550 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
62939495 ACTGTTTTGT
62939505 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
62939525 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
62939544 TATGGGC
1 TATGGGC
62939551 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:62941174 original size:41 final size:41
Alignment explanation
Indices: 62941058--62941206 Score: 122
Period size: 41 Copynumber: 3.6 Consensus size: 41
62941048 AATACTTGAT
* * * * * **
62941058 ATCTCGCACACAAAGTGCCAAAGCATAACTGAAGCTATTAAA
1 ATCTCGCACACTAAGTGCCATA-TATAGCCGAAGCTATTTCA
* * * *
62941100 ATCTCGCACACTAAGTGTC-TTTCATATCTGAAGCTATTTCA
1 ATCTCGCACACTAAGTGCCATAT-ATAGCCGAAGCTATTTCA
* *
62941141 ATCTCACACACTAAGTGCCATATATAGCCGAAGCTATTTCG
1 ATCTCGCACACTAAGTGCCATATATAGCCGAAGCTATTTCA
** *
62941182 A-GACGCACACTAAGTGCCACATATA
1 ATCTCGCACACTAAGTGCCATATATA
62941207 TTCGATTCAT
Statistics
Matches: 87, Mismatches: 18, Indels: 6
0.78 0.16 0.05
Matches are distributed among these distances:
40 20 0.23
41 48 0.55
42 19 0.22
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.26
Consensus pattern (41 bp):
ATCTCGCACACTAAGTGCCATATATAGCCGAAGCTATTTCA
Found at i:62950008 original size:22 final size:22
Alignment explanation
Indices: 62949980--62950021 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
62949970 CTCACACAAG
62949980 CTGTGAAATAAGTCTACTCATA
1 CTGTGAAATAAGTCTACTCATA
* *
62950002 CTGTGAAATAGGTCTGCTCA
1 CTGTGAAATAAGTCTACTCA
62950022 CACGAGCTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (22 bp):
CTGTGAAATAAGTCTACTCATA
Found at i:62956625 original size:26 final size:26
Alignment explanation
Indices: 62956605--62956675 Score: 92
Period size: 26 Copynumber: 2.8 Consensus size: 26
62956595 CCCGATATAC
*
62956605 GGCTCTTTGTGAGCTTCCCGATTAAA
1 GGCTCTTCGTGAGCTTCCCGATTAAA
* *
62956631 GGCTCTTCGTGAGCTTCCTGATTAAT
1 GGCTCTTCGTGAGCTTCCCGATTAAA
62956657 GGCTC-TC-TGAAGCTTCCCG
1 GGCTCTTCGTG-AGCTTCCCG
62956676 CTATTGGATC
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
24 2 0.05
25 10 0.25
26 28 0.70
ACGTcount: A:0.15, C:0.27, G:0.24, T:0.34
Consensus pattern (26 bp):
GGCTCTTCGTGAGCTTCCCGATTAAA
Found at i:62960185 original size:14 final size:15
Alignment explanation
Indices: 62960149--62960190 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
62960139 CATTAGTTTC
*
62960149 TTTGTTTTATTTGTT
1 TTTGCTTTATTTGTT
62960164 TTTGCTTTATTTGTT
1 TTTGCTTTATTTGTT
62960179 TTT-CTTTATTTG
1 TTTGCTTTATTTG
62960191 ATTGGGATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 9 0.35
15 17 0.65
ACGTcount: A:0.07, C:0.05, G:0.12, T:0.76
Consensus pattern (15 bp):
TTTGCTTTATTTGTT
Found at i:62962104 original size:39 final size:39
Alignment explanation
Indices: 62962042--62962116 Score: 96
Period size: 39 Copynumber: 1.9 Consensus size: 39
62962032 CATATTACAT
*
62962042 ATATAATCACCTAACATACAAGCATATATCACAATATTC
1 ATATAATCACATAACATACAAGCATATATCACAATATTC
* ** * *
62962081 ATATAATCACATAGCATTTAAGCATATGTCATAATA
1 ATATAATCACATAACATACAAGCATATATCACAATA
62962117 CTTGAAAACA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 30 1.00
ACGTcount: A:0.45, C:0.19, G:0.05, T:0.31
Consensus pattern (39 bp):
ATATAATCACATAACATACAAGCATATATCACAATATTC
Found at i:62965581 original size:33 final size:33
Alignment explanation
Indices: 62965544--62965609 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
62965534 GCCATTTCCA
*
62965544 AAGTACTTTTACGAGAGCTATGCTTTTATTTCT
1 AAGTACTTTCACGAGAGCTATGCTTTTATTTCT
62965577 AAGTACTTTCACGAGAGCTATGCTTTTATTTCT
1 AAGTACTTTCACGAGAGCTATGCTTTTATTTCT
62965610 CAACTGTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.24, C:0.17, G:0.15, T:0.44
Consensus pattern (33 bp):
AAGTACTTTCACGAGAGCTATGCTTTTATTTCT
Found at i:62970250 original size:15 final size:15
Alignment explanation
Indices: 62970230--62970277 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
62970220 TTTTTAATGT
62970230 ATTAGTAAAGGTTAA
1 ATTAGTAAAGGTTAA
* *
62970245 ATTAGTGAAATGTAAA
1 ATTAGT-AAAGGTTAA
* *
62970261 ATAAGTAAAGATTAA
1 ATTAGTAAAGGTTAA
62970276 AT
1 AT
62970278 AAAGCAAAAG
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
15 14 0.54
16 12 0.46
ACGTcount: A:0.52, C:0.00, G:0.17, T:0.31
Consensus pattern (15 bp):
ATTAGTAAAGGTTAA
Found at i:62971238 original size:23 final size:23
Alignment explanation
Indices: 62971188--62971324 Score: 120
Period size: 23 Copynumber: 5.8 Consensus size: 23
62971178 CCGATATATT
*
62971188 AGCTC-GTAAGAGCTTACTATTTTC
1 AGCTCAGT-AGAGCTTACT-GTTTC
*
62971212 AGCTCATTAGAGCTTACTGTTTC
1 AGCTCAGTAGAGCTTACTGTTTC
*
62971235 AGCTC-GTATGAGCTTACCG-TTC
1 AGCTCAGTA-GAGCTTACTGTTTC
* *
62971257 AGCTC-GATAGAGCTTACCGTTTT
1 AGCTCAG-TAGAGCTTACTGTTTC
*
62971280 AGCTCAATAGAGCTTACTGTTCATC
1 AGCTCAGTAGAGCTTACTGTT--TC
*
62971305 AGCTCAGGAAGAGCTTACTG
1 AGCTCA-GTAGAGCTTACTG
62971325 ATCATGGCTC
Statistics
Matches: 95, Mismatches: 10, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
22 21 0.22
23 40 0.42
24 15 0.16
25 8 0.08
26 11 0.12
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (23 bp):
AGCTCAGTAGAGCTTACTGTTTC
Found at i:62971260 original size:22 final size:22
Alignment explanation
Indices: 62971161--62971277 Score: 85
Period size: 22 Copynumber: 5.0 Consensus size: 22
62971151 GGACTCACCA
62971161 CAGCTCGTATGAGCTTACCGATATAT
1 CAGCTCGTATGAGCTTACCG---T-T
* * **
62971187 TAGCTCGTAAGAGCTTACTATTTT
1 CAGCTCGTATGAGCTTAC--CGTT
* *
62971211 CAGCTCAT-TAGAGCTTACTGTTT
1 CAGCTCGTAT-GAGCTTACCG-TT
62971234 CAGCTCGTATGAGCTTACCGTT
1 CAGCTCGTATGAGCTTACCGTT
62971256 CAGCTCG-ATAGAGCTTACCGTT
1 CAGCTCGTAT-GAGCTTACCGTT
62971278 TTAGCTCAAT
Statistics
Matches: 75, Mismatches: 10, Indels: 16
0.74 0.10 0.16
Matches are distributed among these distances:
21 2 0.03
22 22 0.29
23 18 0.24
24 16 0.21
25 1 0.01
26 16 0.21
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (22 bp):
CAGCTCGTATGAGCTTACCGTT
Found at i:62971271 original size:45 final size:45
Alignment explanation
Indices: 62971209--62971302 Score: 120
Period size: 45 Copynumber: 2.1 Consensus size: 45
62971199 GCTTACTATT
* *
62971209 TTCAGCTCATTAGAGCTTACTGTTTCAGCTC-GTATGAGCTTACCG
1 TTCAGCTCATTAGAGCTTACCGTTTCAGCTCAATA-GAGCTTACCG
* *
62971254 TTCAGCTCGA-TAGAGCTTACCGTTTTAGCTCAATAGAGCTTACTG
1 TTCAGCTC-ATTAGAGCTTACCGTTTCAGCTCAATAGAGCTTACCG
62971299 TTCA
1 TTCA
62971303 TCAGCTCAGG
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
45 40 0.93
46 3 0.07
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.35
Consensus pattern (45 bp):
TTCAGCTCATTAGAGCTTACCGTTTCAGCTCAATAGAGCTTACCG
Found at i:62971300 original size:68 final size:72
Alignment explanation
Indices: 62971161--62971309 Score: 191
Period size: 68 Copynumber: 2.1 Consensus size: 72
62971151 GGACTCACCA
* * *
62971161 CAGCTCGTATGAGCTTACCGATATATTAGCTCGTAAGAGCTTACTATTTTCAGCTCATTAGAGCT
1 CAGCTCGTATGAGCTTACCG--ATATCAGCTCGTAAGAGCTTACCATTTTCAGCTCAATAGAGCT
62971226 TACTGTT-T
64 TACTGTTAT
*
62971234 CAGCTCGTATGAGCTTACCG-T-TCAGCTCG-ATAGAGCTTACCGTTTT-AGCTCAATAGAGCTT
1 CAGCTCGTATGAGCTTACCGATATCAGCTCGTA-AGAGCTTACCATTTTCAGCTCAATAGAGCTT
62971295 ACTGTTCAT
65 ACTGTT-AT
62971304 CAGCTC
1 CAGCTC
62971310 AGGAAGAGCT
Statistics
Matches: 69, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
68 21 0.30
69 20 0.29
70 8 0.12
73 20 0.29
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.34
Consensus pattern (72 bp):
CAGCTCGTATGAGCTTACCGATATCAGCTCGTAAGAGCTTACCATTTTCAGCTCAATAGAGCTTA
CTGTTAT
Found at i:62978886 original size:19 final size:19
Alignment explanation
Indices: 62978853--62978889 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
62978843 GTTTTATCTG
**
62978853 TGTTTATTTTTGTTTTTAA
1 TGTTTATTTCAGTTTTTAA
62978872 TGTTTATTTCAGTTTTTA
1 TGTTTATTTCAGTTTTTA
62978890 TGCCTTTTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.16, C:0.03, G:0.11, T:0.70
Consensus pattern (19 bp):
TGTTTATTTCAGTTTTTAA
Found at i:62979548 original size:18 final size:19
Alignment explanation
Indices: 62979526--62979575 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
62979516 TTAAAATCAT
62979526 TAAAAATTATAAAAATATA
1 TAAAAATTATAAAAATATA
** *
62979545 -AAAAATCGTAAAACTATA
1 TAAAAATTATAAAAATATA
62979563 TAAAAATTA-AAAA
1 TAAAAATTATAAAA
62979576 TTTTAAAACA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
18 19 0.76
19 6 0.24
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (19 bp):
TAAAAATTATAAAAATATA
Found at i:62979582 original size:26 final size:28
Alignment explanation
Indices: 62979518--62979588 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 28
62979508 TTTTATATTT
*
62979518 AAAATCATTAAAAAT-TATAAAAATATAA
1 AAAATC-TTAAAACTATATAAAAATATAA
*
62979546 AAAATCGTAAAACTATATAAAAAT-T-A
1 AAAATCTTAAAACTATATAAAAATATAA
*
62979572 AAAATTTTAAAAC-ATAT
1 AAAATCTTAAAACTATAT
62979589 TGAAGTGCAA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
25 4 0.11
26 12 0.32
27 7 0.18
28 15 0.39
ACGTcount: A:0.63, C:0.06, G:0.01, T:0.30
Consensus pattern (28 bp):
AAAATCTTAAAACTATATAAAAATATAA
Found at i:62979662 original size:17 final size:17
Alignment explanation
Indices: 62979603--62979663 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
62979593 GTGCAAAAGG
* *
62979603 TATAAAAATATAGAAATT
1 TATAAAAATATATAAA-C
62979621 TATTAAAAATAT-TATAAC
1 TA-TAAAAATATATA-AAC
**
62979639 TGGAAAAATATATAAAC
1 TATAAAAATATATAAAC
62979656 TATAAAAA
1 TATAAAAA
62979664 AATAATTCAA
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
17 17 0.50
18 6 0.18
19 11 0.32
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (17 bp):
TATAAAAATATATAAAC
Found at i:62980267 original size:19 final size:19
Alignment explanation
Indices: 62980245--62980286 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
62980235 TATTTTATTT
62980245 TTTATAAT-TTATATAATTA
1 TTTATAATGTTA-ATAATTA
* *
62980264 TTTATTATGTTAATAATTT
1 TTTATAATGTTAATAATTA
62980283 TTTA
1 TTTA
62980287 ATATTTTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (19 bp):
TTTATAATGTTAATAATTA
Found at i:62980310 original size:33 final size:30
Alignment explanation
Indices: 62980273--62980333 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 30
62980263 ATTTATTATG
62980273 TTAATAATTTTTTAATATTTTTCTGTAATTTTT
1 TTAATAA-TTTTTAA-ATTTTT-TGTAATTTTT
*
62980306 TTAATAATTTTTAAATTTTTTGTCATTT
1 TTAATAATTTTTAAATTTTTTGTAATTT
62980334 ATATTAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 7 0.26
31 6 0.22
32 7 0.26
33 7 0.26
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (30 bp):
TTAATAATTTTTAAATTTTTTGTAATTTTT
Found at i:62980428 original size:9 final size:9
Alignment explanation
Indices: 62980092--62980435 Score: 91
Period size: 9 Copynumber: 36.8 Consensus size: 9
62980082 AATTGTAAAA
*
62980092 AATTCTTAT
1 AATTTTTAT
62980101 -ATTTTTAT
1 AATTTTTAT
* *
62980109 -ATTTGTGT
1 AATTTTTAT
62980117 AATTTTATATT
1 AATTTT-TA-T
*
62980128 ATTTTTTGAAT
1 AATTTTT--AT
*
62980139 AATTTTATTT
1 AATTTT-TAT
62980149 AATTTTTAT
1 AATTTTTAT
* **
62980158 ATTTTTTGC
1 AATTTTTAT
*
62980167 ACTTTTCTAT
1 AATTTT-TAT
62980177 -ATTTTTAT
1 AATTTTTAT
*
62980185 AATATTTAT
1 AATTTTTAT
62980194 AATATTTTAT
1 AAT-TTTTAT
*
62980204 ATATCTTTA-
1 A-ATTTTTAT
*
62980213 CATTTTTCAT
1 AATTTTT-AT
* *
62980223 AAATTTTAC
1 AATTTTTAT
62980232 AATTATTT-T
1 AATT-TTTAT
*
62980241 ATTTTTTAT
1 AATTTTTAT
*
62980250 AATTTATAT
1 AATTTTTAT
62980259 AATTATTTAT
1 AATT-TTTAT
* * *
62980269 TATGTTAAT
1 AATTTTTAT
62980278 AATTTTTTAAT
1 AA-TTTTT-AT
* *
62980289 ATTTTTCTGT
1 AATTTT-TAT
62980299 AATTTTTTTAAT
1 AA--TTTTT-AT
62980311 AATTTTTA-
1 AATTTTTAT
*
62980319 AATTTTTTGT
1 AA-TTTTTAT
* *
62980329 CATTTATATT
1 AATTTTTA-T
* *
62980339 AAATATTAT
1 AATTTTTAT
62980348 AATTTTCTAT
1 AATTTT-TAT
62980358 -A-TTTTAT
1 AATTTTTAT
62980365 AAATTTTT-T
1 -AATTTTTAT
* * *
62980374 CACTTTAAT
1 AATTTTTAT
62980383 -ATTTTTAT
1 AATTTTTAT
*
62980391 --TTTTTGT
1 AATTTTTAT
*
62980398 AATTTTTAAAAA
1 AATTTTT---AT
62980410 AATATTTTAT
1 AAT-TTTTAT
62980420 AATTTTTAT
1 AATTTTTAT
*
62980429 GATTTTT
1 AATTTTT
62980436 TATATTAATT
Statistics
Matches: 240, Mismatches: 60, Indels: 70
0.65 0.16 0.19
Matches are distributed among these distances:
7 9 0.04
8 39 0.16
9 92 0.38
10 65 0.27
11 19 0.08
12 12 0.05
13 4 0.02
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (9 bp):
AATTTTTAT
Done.