Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 365 of 373
Found at i:120783143 original size:18 final size:17
Alignment explanation
Indices: 120783102--120783148 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
120783092 GTACTTCTTC
*
120783102 TTTTTTTCTCTGTTTAA
1 TTTTTTTCTTTGTTTAA
*
120783119 TTCTTTTTCTTTGTTTTAG
1 TT-TTTTTCTTTG-TTTAA
120783138 TTTTTTT-TTTG
1 TTTTTTTCTTTG
120783149 AACTGATTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 6 0.23
18 14 0.54
19 6 0.23
ACGTcount: A:0.06, C:0.09, G:0.09, T:0.77
Consensus pattern (17 bp):
TTTTTTTCTTTGTTTAA
Found at i:120783327 original size:63 final size:63
Alignment explanation
Indices: 120783249--120783448 Score: 373
Period size: 63 Copynumber: 3.2 Consensus size: 63
120783239 ATTGTAGTTT
*
120783249 GAAAGGAAGATCATAAATTTTAGTTGAATTCTGCAAGTATTTACATTTATAATGATGTTGATA
1 GAAAGGAAGATCATAAATTTTAGTTGAATTCTGCAAGTATTTACATTTATAATGTTGTTGATA
*
120783312 GAAAGGAAGATCATAAATTTTAGTTGAATTCTGCCAGTATTTACATTTATAATGTTGTTGATA
1 GAAAGGAAGATCATAAATTTTAGTTGAATTCTGCAAGTATTTACATTTATAATGTTGTTGATA
120783375 GAAAGGAAGATCATAAATTTTAGTTGAATTCTGCAAGTATTTACATTTATAATGTTGTTGATA
1 GAAAGGAAGATCATAAATTTTAGTTGAATTCTGCAAGTATTTACATTTATAATGTTGTTGATA
*
120783438 GGAAGGAAGAT
1 GAAAGGAAGAT
120783449 AATCCCAAAT
Statistics
Matches: 133, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 133 1.00
ACGTcount: A:0.37, C:0.07, G:0.19, T:0.38
Consensus pattern (63 bp):
GAAAGGAAGATCATAAATTTTAGTTGAATTCTGCAAGTATTTACATTTATAATGTTGTTGATA
Found at i:120786952 original size:61 final size:61
Alignment explanation
Indices: 120786878--120786992 Score: 194
Period size: 61 Copynumber: 1.9 Consensus size: 61
120786868 GATAATTTTA
* * *
120786878 AAAAACTTTTATTTTATTAAATGAAATAATATAAAAATAATTTGTATAAAAATATTCAAAG
1 AAAAACTTATATTTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATATTCAAAG
*
120786939 AAAAACTTATATTTTATTAAATGAAACAATATAAAATTAATTTGTACAAAAATA
1 AAAAACTTATATTTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATA
120786993 AATCAATACA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 50 1.00
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.37
Consensus pattern (61 bp):
AAAAACTTATATTTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATATTCAAAG
Found at i:120788914 original size:18 final size:18
Alignment explanation
Indices: 120788891--120788929 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
120788881 ATTATAAAAA
*
120788891 AAATTA-AAAATATTAATT
1 AAATTATAAAA-ATTAAAT
120788909 AAATTATAAAAATTAAAT
1 AAATTATAAAAATTAAAT
120788927 AAA
1 AAA
120788930 AAAATTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AAATTATAAAAATTAAAT
Found at i:120788934 original size:13 final size:13
Alignment explanation
Indices: 120788887--120788941 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
120788877 GGCTATTATA
120788887 AAAAAAATTAAA-
1 AAAAAAATTAAAT
**
120788899 AATATTAATTAAATT
1 AA-AAAAATTAAA-T
*
120788914 ATAAAAATTAAAT
1 AAAAAAATTAAAT
120788927 AAAAAAATTAAAT
1 AAAAAAATTAAAT
120788940 AA
1 AA
120788942 TATTAAAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
12 2 0.06
13 23 0.68
14 8 0.24
15 1 0.03
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
AAAAAAATTAAAT
Found at i:120792605 original size:16 final size:17
Alignment explanation
Indices: 120792574--120792606 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
120792564 TTCATAAGTA
120792574 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
120792591 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
120792607 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:120793257 original size:46 final size:46
Alignment explanation
Indices: 120792892--120793257 Score: 491
Period size: 46 Copynumber: 8.0 Consensus size: 46
120792882 TTTGACATGA
* * * * * *
120792892 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* * ** * *
120792938 TACCAGGGTATCTTTCAACCATGGTCTTATTCGTTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
** *** *
120792984 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
** *
120793030 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
120793076 TGCTATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
120793122 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
120793168 TGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
120793214 TGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
120793258 AGAGCACACT
Statistics
Matches: 291, Mismatches: 28, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
45 4 0.01
46 287 0.99
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:120803453 original size:14 final size:14
Alignment explanation
Indices: 120803434--120803463 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
120803424 CTTGTTTTTC
*
120803434 TTTTTCCTTTTCCT
1 TTTTTCCTTTACCT
120803448 TTTTTCCTTTACCT
1 TTTTTCCTTTACCT
120803462 TT
1 TT
120803464 AATCTTCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.03, C:0.27, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTTTCCTTTACCT
Found at i:120803779 original size:3 final size:3
Alignment explanation
Indices: 120803764--120803819 Score: 85
Period size: 3 Copynumber: 18.7 Consensus size: 3
120803754 AAAACACCAG
* * *
120803764 TCT TCT GCT TCT TCT TCT TCT TCT TCT GCT TCT TCT TCT TCG TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
120803812 TCT TCT TC
1 TCT TCT TC
120803820 CACTATCTGC
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.00, C:0.34, G:0.05, T:0.61
Consensus pattern (3 bp):
TCT
Found at i:120808079 original size:20 final size:18
Alignment explanation
Indices: 120808041--120808084 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 18
120808031 AAGCCCTAAT
120808041 TTTCCC-TTTTCTTTTTC
1 TTTCCCTTTTTCTTTTTC
120808058 TTTCCCTTTTTCCTTCTTTC
1 TTTCCCTTTTT-CTT-TTTC
120808078 TTTCCCT
1 TTTCCCT
120808085 GCTATTCGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.25
18 4 0.17
19 3 0.12
20 11 0.46
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTCCCTTTTTCTTTTTC
Found at i:120810040 original size:10 final size:10
Alignment explanation
Indices: 120809970--120810130 Score: 64
Period size: 10 Copynumber: 16.8 Consensus size: 10
120809960 AAAAAAATCC
*
120809970 AAAATTATCA
1 AAAATTATTA
*
120809980 AAAATGTA-GA
1 AAAAT-TATTA
*
120809990 AAACTT-TTA
1 AAAATTATTA
120809999 AAAATTATT-
1 AAAATTATTA
*
120810008 GAAATT-TTA
1 AAAATTATTA
*
120810017 AAAATTA-AA
1 AAAATTATTA
120810026 GAAAATTATTA
1 -AAAATTATTA
120810037 AAAA-T-TTA
1 AAAATTATTA
**
120810045 TAAAA-TAGAAA
1 -AAAATTA-TTA
120810056 AAAATTCA-TA
1 AAAATT-ATTA
120810066 AAAA-TA-T-
1 AAAATTATTA
120810073 AAAA-TATTTA
1 AAAATTA-TTA
120810083 AAAATTA-TA
1 AAAATTATTA
*
120810092 AAAATATATTT
1 AAAAT-TATTA
120810103 AAAATTATTA
1 AAAATTATTA
*
120810113 TAAAA-TATTT
1 -AAAATTATTA
120810123 AAAATTAT
1 AAAATTAT
120810131 AATAATAGAA
Statistics
Matches: 117, Mismatches: 14, Indels: 40
0.68 0.08 0.23
Matches are distributed among these distances:
7 6 0.05
8 7 0.06
9 37 0.32
10 49 0.42
11 17 0.15
12 1 0.01
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (10 bp):
AAAATTATTA
Found at i:120810045 original size:11 final size:9
Alignment explanation
Indices: 120809970--120810132 Score: 84
Period size: 9 Copynumber: 17.1 Consensus size: 9
120809960 AAAAAAATCC
120809970 AAAATTATCA
1 AAAATTAT-A
*
120809980 AAAATGTAGA
1 AAAAT-TATA
* *
120809990 AAACTTTTA
1 AAAATTATA
*
120809999 AAAATTATT
1 AAAATTATA
* *
120810008 GAAATTTTA
1 AAAATTATA
*
120810017 AAAATTAAA
1 AAAATTATA
120810026 GAAAATTATTA
1 -AAAATTA-TA
120810037 AAAATT-TA
1 AAAATTATA
* *
120810045 TAAAATAGAAA
1 -AAAAT-TATA
120810056 AAAATTCATA
1 AAAATT-ATA
120810066 AAAA-TATA
1 AAAATTATA
120810074 AAATATT-TA
1 AAA-ATTATA
120810083 AAAATTATA
1 AAAATTATA
120810092 AAAATATATTTA
1 AAAAT-TA--TA
120810104 AAATTATTATA
1 AAA--ATTATA
120810115 AAATATT-T-
1 AAA-ATTATA
120810123 AAAATTATA
1 AAAATTATA
120810132 A
1 A
120810133 TAATAGAAAA
Statistics
Matches: 118, Mismatches: 18, Indels: 35
0.69 0.11 0.20
Matches are distributed among these distances:
7 3 0.03
8 15 0.13
9 41 0.35
10 41 0.35
11 9 0.08
12 5 0.04
13 2 0.02
14 2 0.02
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (9 bp):
AAAATTATA
Found at i:120810108 original size:20 final size:20
Alignment explanation
Indices: 120810064--120810137 Score: 82
Period size: 20 Copynumber: 3.8 Consensus size: 20
120810054 AAAAAATTCA
*
120810064 TAAAAATAT-AAAATAT-TT
1 TAAAATTATAAAAATATATT
*
120810082 AAAAATTATAAAAATATATT
1 TAAAATTATAAAAATATATT
*
120810102 TAAAATTATTATAAA-ATATT
1 TAAAATTA-TAAAAATATATT
*
120810122 TAAAATTATAATAATA
1 TAAAATTATAAAAATA
120810138 GAAAAAAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
18 7 0.15
19 11 0.24
20 23 0.50
21 5 0.11
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
TAAAATTATAAAAATATATT
Found at i:120810147 original size:40 final size:41
Alignment explanation
Indices: 120810070--120810150 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 41
120810060 TTCATAAAAA
* ***
120810070 TATAAAATATTTAAAAATTATAAAAATATATTTAAAATTAT
1 TATAAAATATTTAAAAATTATAAAAATAGAAAAAAAATTAT
*
120810111 TATAAAATATTT-AAAATTATAATAATAGAAAAAAAATTAT
1 TATAAAATATTTAAAAATTATAAAAATAGAAAAAAAATTAT
120810151 AATTTATAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
40 23 0.66
41 12 0.34
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.38
Consensus pattern (41 bp):
TATAAAATATTTAAAAATTATAAAAATAGAAAAAAAATTAT
Found at i:120814140 original size:46 final size:46
Alignment explanation
Indices: 120814087--120814430 Score: 383
Period size: 46 Copynumber: 7.7 Consensus size: 46
120814077 AGTGTGCTCT
*
120814087 CTGATATGAAATGTGTAAAACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
120814133 CTGATATGAAATGTGTAAGACCATGGTT----G--A--A----AAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
120814167 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
120814213 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
**
120814259 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** * * *
120814305 ATGACGGGAAAT-TAATAAGATCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGT-GTAAGACCATGGTTGAAAGATACCATGGCAAC
* * ** * * *
120814351 ATGACATGAAATGAATAAGACCATTGTTGAAAGATACCACGACAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
120814397 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGA
120814431 CACTATGACA
Statistics
Matches: 263, Mismatches: 20, Indels: 30
0.84 0.06 0.10
Matches are distributed among these distances:
34 31 0.12
38 2 0.01
40 2 0.01
42 2 0.01
45 1 0.00
46 225 0.86
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:120814170 original size:34 final size:34
Alignment explanation
Indices: 120814130--120814198 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
120814120 ATACCATGGC
120814130 AACCTGATATGAAATGTGTAAGACCATGGTTGAA
1 AACCTGATATGAAATGTGTAAGACCATGGTTGAA
120814164 AACCTGATATGAAATGTGTAAGACCATGGTTGAA
1 AACCTGATATGAAATGTGTAAGACCATGGTTGAA
120814198 A
1 A
120814199 GATACCATGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.39, C:0.12, G:0.23, T:0.26
Consensus pattern (34 bp):
AACCTGATATGAAATGTGTAAGACCATGGTTGAA
Found at i:120814220 original size:80 final size:80
Alignment explanation
Indices: 120814087--120814244 Score: 307
Period size: 80 Copynumber: 2.0 Consensus size: 80
120814077 AGTGTGCTCT
120814087 CTGATATGAAATGTGTAAAACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
1 CTGATATGAAATGTGTAAAACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
120814152 ACCATGGTTGAAAAC
66 ACCATGGTTGAAAAC
*
120814167 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
1 CTGATATGAAATGTGTAAAACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
120814232 ACCATGGTTGAAA
66 ACCATGGTTGAAA
120814245 GATACCATGG
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 77 1.00
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.25
Consensus pattern (80 bp):
CTGATATGAAATGTGTAAAACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
ACCATGGTTGAAAAC
Found at i:120818576 original size:31 final size:31
Alignment explanation
Indices: 120818538--120818686 Score: 253
Period size: 31 Copynumber: 4.8 Consensus size: 31
120818528 ATCAATGACA
*
120818538 AGTGAAAAGTGGTAGCTTCGGCTACCTAATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
120818569 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
120818600 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
120818631 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
120818662 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
120818687 AAGTGACAAG
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 110 1.00
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:120818782 original size:47 final size:46
Alignment explanation
Indices: 120818713--120818834 Score: 145
Period size: 47 Copynumber: 2.6 Consensus size: 46
120818703 GTGATTTCCG
* * *
120818713 TATAAAACCATATCTGGGATATGGCATCGGTGTGATATATGCTACTA
1 TATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATAC-A
* * * *
120818760 TATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATTCG
1 TATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATACA
* * *
120818806 TGTAAGACCATAGCTGGGCTATGGCATCG
1 TATAAGACCATATCTGGGATATGGCATCG
120818835 ATATATGAAT
Statistics
Matches: 64, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
46 25 0.39
47 39 0.61
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (46 bp):
TATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATACA
Found at i:120818829 original size:46 final size:43
Alignment explanation
Indices: 120818762--120818902 Score: 142
Period size: 42 Copynumber: 3.3 Consensus size: 43
120818752 TGCTACTATA
* * * *
120818762 TAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATTCGTG
1 TAAGACCATAGCTGGGCTATGGCATCA--GAGATATG-AATACGTG
* *
120818808 TAAGACCATAGCTGGGCTATGGCATC-GATATATGAATAGGTG
1 TAAGACCATAGCTGGGCTATGGCATCAGAGATATGAATACGTG
** * * *
120818850 TAAGACCATAGCTGGGCTATGGCATCA-TTATGTGAAGATGTG
1 TAAGACCATAGCTGGGCTATGGCATCAGAGATATGAATACGTG
120818892 TAAGACCATAG
1 TAAGACCATAG
120818903 TTGAACTATG
Statistics
Matches: 84, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
42 53 0.63
43 7 0.08
46 24 0.29
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (43 bp):
TAAGACCATAGCTGGGCTATGGCATCAGAGATATGAATACGTG
Found at i:120818913 original size:42 final size:42
Alignment explanation
Indices: 120818805--120818902 Score: 153
Period size: 42 Copynumber: 2.3 Consensus size: 42
120818795 TATGTGATTC
*
120818805 GTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAATAG
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAAGAG
* *
120818847 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAAGAG
120818889 GTGTAAGACCATAG
1 GTGTAAGACCATAG
120818903 TTGAACTATG
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
41 1 0.02
42 51 0.98
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.27
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAAGAG
Found at i:120821026 original size:15 final size:14
Alignment explanation
Indices: 120821008--120821043 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
120820998 GCTTAAATTT
120821008 AAAAAAAAAATTCAG
1 AAAAAAAAAA-TCAG
*
120821023 AAAAAGAAAATCAG
1 AAAAAAAAAATCAG
120821037 AAAAAAA
1 AAAAAAA
120821044 TAGAAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.78, C:0.06, G:0.08, T:0.08
Consensus pattern (14 bp):
AAAAAAAAAATCAG
Found at i:120825414 original size:10 final size:10
Alignment explanation
Indices: 120825388--120825417 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
120825378 TATATATATA
*
120825388 TATTTATATT
1 TATTTACATT
120825398 TATTTACATT
1 TATTTACATT
120825408 TATTTACATT
1 TATTTACATT
120825418 ATTGTTGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (10 bp):
TATTTACATT
Found at i:120825782 original size:20 final size:22
Alignment explanation
Indices: 120825743--120825784 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
120825733 TATATGAAAA
*
120825743 TTATTTTAAACTCTTTTATTAT
1 TTATTGTAAACTCTTTTATTAT
120825765 TTATTGTAAAC-C-TTTATTAT
1 TTATTGTAAACTCTTTTATTAT
120825785 CATTAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 1 0.05
22 10 0.53
ACGTcount: A:0.29, C:0.10, G:0.02, T:0.60
Consensus pattern (22 bp):
TTATTGTAAACTCTTTTATTAT
Found at i:120825968 original size:7 final size:6
Alignment explanation
Indices: 120825949--120825978 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
120825939 AGTGTTCTTG
120825949 TTATTT TTATTT TTATTT TTATTT TGTATT
1 TTATTT TTATTT TTATTT TTATTT T-TATT
120825979 ATTCATCTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.83
7 4 0.17
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (6 bp):
TTATTT
Found at i:120836321 original size:6 final size:6
Alignment explanation
Indices: 120836310--120836348 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
120836300 TTGTGCTCAT
*
120836310 TTTTTC TTTTTC TTTTTT TTTTTC TGATTTTC TTTTTC T
1 TTTTTC TTTTTC TTTTTC TTTTTC T--TTTTC TTTTTC T
120836349 GAATTTTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 23 0.79
8 6 0.21
ACGTcount: A:0.03, C:0.13, G:0.03, T:0.82
Consensus pattern (6 bp):
TTTTTC
Found at i:120836340 original size:15 final size:16
Alignment explanation
Indices: 120836322--120836363 Score: 52
Period size: 14 Copynumber: 2.7 Consensus size: 16
120836312 TTTCTTTTTC
120836322 TTTTTTTTTTTCTG-A
1 TTTTTTTTTTTCTGAA
*
120836337 -TTTTCTTTTTCTGAA
1 TTTTTTTTTTTCTGAA
120836352 TTTTTATTTTTT
1 TTTTT-TTTTTT
120836364 AAAATTTGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 12 0.55
15 1 0.05
16 4 0.18
17 5 0.23
ACGTcount: A:0.10, C:0.07, G:0.05, T:0.79
Consensus pattern (16 bp):
TTTTTTTTTTTCTGAA
Found at i:120836340 original size:20 final size:18
Alignment explanation
Indices: 120836309--120836346 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 18
120836299 TTTGTGCTCA
120836309 TTTTTTCTTTTTCTTTTT
1 TTTTTTCTTTTTCTTTTT
120836327 TTTTTTCTGATTTTCTTTTT
1 TTTTTTCT--TTTTCTTTTT
120836347 CTGAATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.44
20 10 0.56
ACGTcount: A:0.03, C:0.11, G:0.03, T:0.84
Consensus pattern (18 bp):
TTTTTTCTTTTTCTTTTT
Found at i:120836349 original size:14 final size:14
Alignment explanation
Indices: 120836311--120836355 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
120836301 TGTGCTCATT
120836311 TTTTCTTTTTCT--
1 TTTTCTTTTTCTGA
*
120836323 TTTTTTTTTTCTGA
1 TTTTCTTTTTCTGA
120836337 TTTTCTTTTTCTGAA
1 TTTTCTTTTTCTG-A
120836352 TTTT
1 TTTT
120836356 TATTTTTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 11 0.39
14 12 0.43
15 5 0.18
ACGTcount: A:0.07, C:0.11, G:0.04, T:0.78
Consensus pattern (14 bp):
TTTTCTTTTTCTGA
Found at i:120836724 original size:18 final size:18
Alignment explanation
Indices: 120836691--120836725 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
120836681 GACTTAATCC
120836691 AAATATATTATATTATAA
1 AAATATATTATATTATAA
120836709 AAATCATATTAT-TTATA
1 AAAT-ATATTATATTATA
120836726 CATGTTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
AAATATATTATATTATAA
Found at i:120837773 original size:13 final size:14
Alignment explanation
Indices: 120837740--120837777 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
120837730 ATATTTAAGT
*
120837740 AGAAAATAACTTCG
1 AGAAAATAATTTCG
*
120837754 AGAAAATAATTTTG
1 AGAAAATAATTTCG
120837768 -GAAAATAATT
1 AGAAAATAATT
120837778 GATTTGTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.53, C:0.05, G:0.13, T:0.29
Consensus pattern (14 bp):
AGAAAATAATTTCG
Found at i:120839094 original size:7 final size:8
Alignment explanation
Indices: 120839076--120839118 Score: 50
Period size: 9 Copynumber: 5.0 Consensus size: 8
120839066 AAATAGAAAC
120839076 AAAATATA
1 AAAATATA
120839084 AAAATATAA
1 AAAATAT-A
*
120839093 AAACATTTA
1 AAA-ATATA
120839102 AAAATTATA
1 AAAA-TATA
120839111 AAAATATA
1 AAAATATA
120839119 TTTAAAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
8 12 0.40
9 15 0.50
10 3 0.10
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (8 bp):
AAAATATA
Found at i:120839123 original size:21 final size:20
Alignment explanation
Indices: 120839082--120839136 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 20
120839072 AAACAAAATA
120839082 TAAAAA-TAT-AAAAACATT
1 TAAAAATTATAAAAAACATT
*
120839100 TAAAAATTATAAAAATATATT
1 TAAAAATTATAAAAA-ACATT
120839121 TAAAATTATTATAAAA
1 TAAAA--ATTATAAAA
120839137 TACAAATAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
18 6 0.19
19 3 0.10
20 4 0.13
21 9 0.29
23 9 0.29
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (20 bp):
TAAAAATTATAAAAAACATT
Found at i:120839125 original size:20 final size:19
Alignment explanation
Indices: 120839082--120839129 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
120839072 AAACAAAATA
*
120839082 TAAAAATATAAAAACATTT
1 TAAAATTATAAAAACATTT
* *
120839101 AAAAATTATAAAAATATATT
1 TAAAATTATAAAAACAT-TT
120839121 TAAAATTAT
1 TAAAATTAT
120839130 TATAAAATAC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (19 bp):
TAAAATTATAAAAACATTT
Found at i:120844151 original size:23 final size:22
Alignment explanation
Indices: 120844108--120844151 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
120844098 ATTCATTTCC
**
120844108 ATAAAAAACAATAAATTTTTTT
1 ATAAAAAACAATAAAAATTTTT
*
120844130 ATAAAAACCAAATAAAAATTTT
1 ATAAAAAAC-AATAAAAATTTT
120844152 AATTAAAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (22 bp):
ATAAAAAACAATAAAAATTTTT
Found at i:120852054 original size:24 final size:24
Alignment explanation
Indices: 120852027--120852073 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
120852017 TGAAAATCAT
120852027 ATATATTGTTTTTATTCATTTTCG
1 ATATATTGTTTTTATTCATTTTCG
120852051 ATATATTGTTTTTATTCATTTTC
1 ATATATTGTTTTTATTCATTTTC
120852074 AATACCCGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.21, C:0.09, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATATTGTTTTTATTCATTTTCG
Found at i:120852622 original size:10 final size:10
Alignment explanation
Indices: 120852607--120852637 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
120852597 TAGATACAAA
120852607 AAAAAAAAAG
1 AAAAAAAAAG
120852617 AAAAAAAAAGG
1 AAAAAAAAA-G
120852628 AAAAAAAAAG
1 AAAAAAAAAG
120852638 GAACTCTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:120852637 original size:11 final size:11
Alignment explanation
Indices: 120852606--120852640 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
120852596 GTAGATACAA
*
120852606 AAAAAAAAAAG
1 AAAAAAAAAGG
120852617 AAAAAAAAAGG
1 AAAAAAAAAGG
120852628 AAAAAAAAAGG
1 AAAAAAAAAGG
120852639 AA
1 AA
120852641 CTCTTTTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGG
Found at i:120854527 original size:38 final size:38
Alignment explanation
Indices: 120854482--120854555 Score: 121
Period size: 38 Copynumber: 1.9 Consensus size: 38
120854472 GCAAGTGTTG
** *
120854482 GAGAGAAAATCAAAGATTAAATTGTAAAACATCTTTAT
1 GAGAGAAAATCAAAGACGAAACTGTAAAACATCTTTAT
120854520 GAGAGAAAATCAAAGACGAAACTGTAAAACATCTTT
1 GAGAGAAAATCAAAGACGAAACTGTAAAACATCTTT
120854556 TTGATGTTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.50, C:0.11, G:0.15, T:0.24
Consensus pattern (38 bp):
GAGAGAAAATCAAAGACGAAACTGTAAAACATCTTTAT
Found at i:120855965 original size:42 final size:42
Alignment explanation
Indices: 120855901--120856069 Score: 241
Period size: 42 Copynumber: 4.0 Consensus size: 42
120855891 TCAGGTGCAA
* **
120855901 CTTCGGAAACAGCAGCATCATTGGT-TCCATCAGCTGCCAATT
1 CTTCAGAAACAGCAGCATCATTGGTCT-CATCAGCCACCAATT
* *
120855943 CTTGAGAAACAGCAGCATCATTGGTCTCATCAGCCATCAATT
1 CTTCAGAAACAGCAGCATCATTGGTCTCATCAGCCACCAATT
* *
120855985 CTTCAGAAACAACAGCATCGTTGGTCTCATCAGCCACCAATT
1 CTTCAGAAACAGCAGCATCATTGGTCTCATCAGCCACCAATT
* *
120856027 CTTCAGATACAGCAGCATCATTGGTCTCATCAGCTACCAATT
1 CTTCAGAAACAGCAGCATCATTGGTCTCATCAGCCACCAATT
120856069 C
1 C
120856070 CTCATTTGGT
Statistics
Matches: 113, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
42 112 0.99
43 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (42 bp):
CTTCAGAAACAGCAGCATCATTGGTCTCATCAGCCACCAATT
Found at i:120856371 original size:149 final size:149
Alignment explanation
Indices: 120856101--120856398 Score: 578
Period size: 149 Copynumber: 2.0 Consensus size: 149
120856091 CTCATATAAG
120856101 TCTTCAAAGACAGCATTATCATCACAACCTGAAGTGTGACAACCATTTGCAAAGGGAACAAAATA
1 TCTTCAAAGACAGCATTATCATCACAACCTGAAGTGTGACAACCATTTGCAAAGGGAACAAAATA
120856166 GATGGCTTGAGAAAACAAATTGCACAAATAGGTTGCCATAGTTCAATAAATATTAAAAAAGTTAA
66 GATGGCTTGAGAAAACAAATTGCACAAATAGGTTGCCATAGTTCAATAAATATTAAAAAAGTTAA
120856231 AAACAAATAGCTTCCATAC
131 AAACAAATAGCTTCCATAC
120856250 TCTTCAAAGACAGCATTATCATCACAACCTGAAGTGTGACAACCATTTGCAAAGGGAACAAAATA
1 TCTTCAAAGACAGCATTATCATCACAACCTGAAGTGTGACAACCATTTGCAAAGGGAACAAAATA
* *
120856315 GATGGCTTGAGAAAACAAATTGCACAAATAGGTTGTCATAGTTCAATAAATGTTAAAAAAGTTAA
66 GATGGCTTGAGAAAACAAATTGCACAAATAGGTTGCCATAGTTCAATAAATATTAAAAAAGTTAA
120856380 AAACAAATAGCTTCCATAC
131 AAACAAATAGCTTCCATAC
120856399 CCTTTGGACC
Statistics
Matches: 147, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 147 1.00
ACGTcount: A:0.44, C:0.17, G:0.15, T:0.24
Consensus pattern (149 bp):
TCTTCAAAGACAGCATTATCATCACAACCTGAAGTGTGACAACCATTTGCAAAGGGAACAAAATA
GATGGCTTGAGAAAACAAATTGCACAAATAGGTTGCCATAGTTCAATAAATATTAAAAAAGTTAA
AAACAAATAGCTTCCATAC
Found at i:120866077 original size:3 final size:3
Alignment explanation
Indices: 120866069--120866093 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
120866059 TTAAGACATC
120866069 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
120866094 TATTTAGTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:120869829 original size:13 final size:13
Alignment explanation
Indices: 120869803--120869840 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
120869793 AAAAAATAAG
*
120869803 TATTTTT-TTAAA
1 TATTTTTATTTAA
120869815 TATTTTTATTTAA
1 TATTTTTATTTAA
*
120869828 TATTTATATTTAA
1 TATTTTTATTTAA
120869841 CATAATTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 7 0.30
13 16 0.70
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
TATTTTTATTTAA
Found at i:120871057 original size:14 final size:14
Alignment explanation
Indices: 120871038--120871077 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
120871028 TTGATTGGCA
120871038 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
120871052 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
120871066 GAAAAATGTTTT
1 GTAAAATGTTTT
120871078 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:120871090 original size:34 final size:35
Alignment explanation
Indices: 120871046--120871112 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
120871036 CAGTAAAATG
* *
120871046 TTTTCCGTAAAATGA-TTTCTGAAAAATGTTTTAC
1 TTTTCCGTAAAATGACTTACTGAAAAATATTTTAC
* *
120871080 TTTTCTGTAAAATGACTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGACTTACTGAAAAATATTTT
120871113 CTGGTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 14 0.50
35 14 0.50
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGACTTACTGAAAAATATTTTAC
Found at i:120871099 original size:20 final size:20
Alignment explanation
Indices: 120871061--120871100 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
120871051 CGTAAAATGA
**
120871061 TTTCTGAAAAATGTTTTACT
1 TTTCTGAAAAATGACTTACT
*
120871081 TTTCTGTAAAATGACTTACT
1 TTTCTGAAAAATGACTTACT
120871101 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.47
Consensus pattern (20 bp):
TTTCTGAAAAATGACTTACT
Found at i:120876414 original size:21 final size:21
Alignment explanation
Indices: 120876389--120876491 Score: 93
Period size: 21 Copynumber: 4.8 Consensus size: 21
120876379 ACACATATAT
*
120876389 ATATAAATAATAGTATTAGAA
1 ATATAAATAATAATATTAGAA
120876410 ATATACAAT-ATAATATTAGAA
1 ATATA-AATAATAATATTAGAA
* **
120876431 ATATATATAATAGTATAAAAGAAAA
1 ATATAAATAATA--ATATTAG--AA
*
120876456 ATATAACTAATAATATTA-AA
1 ATATAAATAATAATATTAGAA
*
120876476 ATATATATAATAATAT
1 ATATAAATAATAATAT
120876492 ATGTGAAATA
Statistics
Matches: 66, Mismatches: 10, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
20 18 0.27
21 24 0.36
22 3 0.05
23 9 0.14
25 12 0.18
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (21 bp):
ATATAAATAATAATATTAGAA
Found at i:120876476 original size:20 final size:20
Alignment explanation
Indices: 120876453--120876491 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
120876443 GTATAAAAGA
120876453 AAAATATA-ACTAATAATATT
1 AAAATATATA-TAATAATATT
120876473 AAAATATATATAATAATAT
1 AAAATATATATAATAATAT
120876492 ATGTGAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (20 bp):
AAAATATATATAATAATATT
Found at i:120876500 original size:23 final size:22
Alignment explanation
Indices: 120876385--120876503 Score: 84
Period size: 23 Copynumber: 5.2 Consensus size: 22
120876375 ACATACACAT
120876385 ATATATATAAATAATAGTATTAGAA
1 ATATATAT-AATAATA-TATT-GAA
* *
120876410 ATATACA-ATATAATAT-TAGAA
1 ATATATATA-ATAATATATTGAA
* **
120876431 ATATATATAATAGTATAAAAGAA
1 ATATATATAATAATAT-ATTGAA
*
120876454 A-A-ATATAACTAATAATATTAAA
1 ATATATATAA-TAAT-ATATTGAA
120876476 ATATATATAATAATATATGTGAA
1 ATATATATAATAATATAT-TGAA
120876499 ATATA
1 ATATA
120876504 ATATTAAAAA
Statistics
Matches: 75, Mismatches: 10, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
21 21 0.28
22 14 0.19
23 22 0.29
24 12 0.16
25 6 0.08
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.34
Consensus pattern (22 bp):
ATATATATAATAATATATTGAA
Found at i:120876824 original size:18 final size:20
Alignment explanation
Indices: 120876789--120876830 Score: 61
Period size: 18 Copynumber: 2.1 Consensus size: 20
120876779 AATAGTACCT
120876789 TAAAAATAATTAGTATATTAA
1 TAAAAATAATTAG-ATATTAA
120876810 TAAAAATAA-TA-ATATTAA
1 TAAAAATAATTAGATATTAA
120876828 TAA
1 TAA
120876831 TATGTAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 10 0.48
20 2 0.10
21 9 0.43
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (20 bp):
TAAAAATAATTAGATATTAA
Found at i:120876831 original size:21 final size:21
Alignment explanation
Indices: 120876789--120876832 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
120876779 AATAGTACCT
* *
120876789 TAAAAATAATTAGTATATTAA
1 TAAAAATAATTAATATAATAA
120876810 TAAAAATAA-TAATATTAATAA
1 TAAAAATAATTAATA-TAATAA
120876831 TA
1 TA
120876833 TGTAAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (21 bp):
TAAAAATAATTAATATAATAA
Found at i:120880575 original size:11 final size:11
Alignment explanation
Indices: 120880561--120880586 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
120880551 ATCTTTTTGG
120880561 TATTATGTATA
1 TATTATGTATA
120880572 TATTATGTATA
1 TATTATGTATA
120880583 TATT
1 TATT
120880587 TTTAATGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.58
Consensus pattern (11 bp):
TATTATGTATA
Found at i:120880678 original size:15 final size:15
Alignment explanation
Indices: 120880658--120880686 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
120880648 CTTATGTACG
120880658 TATACAAATACTATA
1 TATACAAATACTATA
120880673 TATACAAATACTAT
1 TATACAAATACTAT
120880687 GTTATATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (15 bp):
TATACAAATACTATA
Found at i:120884977 original size:26 final size:26
Alignment explanation
Indices: 120884941--120885050 Score: 202
Period size: 26 Copynumber: 4.2 Consensus size: 26
120884931 CATGAAATTC
120884941 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
120884967 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
120884993 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
120885019 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
120885045 TTATCA
1 TTATCA
120885051 ATTTGTATCA
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
26 83 1.00
ACGTcount: A:0.36, C:0.23, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:120885472 original size:3 final size:3
Alignment explanation
Indices: 120885464--120885526 Score: 51
Period size: 3 Copynumber: 21.7 Consensus size: 3
120885454 ATTAACAATG
* * * *
120885464 ATA ATA ATA ATA ATA GTA ATA ATA TTA A-A ATA CAAA AAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA
*
120885509 A-A A-A ATA ATA AAA ATA AT
1 ATA ATA ATA ATA ATA ATA AT
120885527 GAAGTAATTA
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
2 6 0.12
3 41 0.84
4 2 0.04
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:120889766 original size:23 final size:23
Alignment explanation
Indices: 120889736--120889792 Score: 82
Period size: 21 Copynumber: 2.6 Consensus size: 23
120889726 ATTTTTGGAG
120889736 AGAAGAGATTTTTTTGAGATTCA
1 AGAAGAGATTTTTTTGAGATTCA
120889759 AGAAGAGA--TTTTTGAGATTCA
1 AGAAGAGATTTTTTTGAGATTCA
* *
120889780 AGAGGGGATTTTT
1 AGAAGAGATTTTT
120889793 CTTTTTTCGA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 19 0.63
23 11 0.37
ACGTcount: A:0.33, C:0.04, G:0.26, T:0.37
Consensus pattern (23 bp):
AGAAGAGATTTTTTTGAGATTCA
Found at i:120890400 original size:3 final size:3
Alignment explanation
Indices: 120890392--120890433 Score: 75
Period size: 3 Copynumber: 13.7 Consensus size: 3
120890382 TGTATTTCTA
120890392 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT ATAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TA
120890434 GTGTATATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:120890433 original size:136 final size:136
Alignment explanation
Indices: 120890277--120890542 Score: 523
Period size: 136 Copynumber: 2.0 Consensus size: 136
120890267 ATAATAATAA
*
120890277 TATTATTATTATTATATATTAGTGTGTATTTTTATGTACATATATGTATGTATATACTTTTATAT
1 TATTATTATTATTATATATTAGTGTATATTTTTATGTACATATATGTATGTATATACTTTTATAT
120890342 ATAGTATTGTTTTTTAAATTTAATATTTTTATTTGCTCTTTGTATTTCTATATTATTATTATTAT
66 ATAGTATTGTTTTTTAAATTTAATATTTTTATTTGCTCTTTGTATTTCTATATTATTATTATTAT
120890407 TATTAT
131 TATTAT
120890413 TATTATTATTATTATATATTAGTGTATATTTTTATGTACATATATGTATGTATATACTTTTATAT
1 TATTATTATTATTATATATTAGTGTATATTTTTATGTACATATATGTATGTATATACTTTTATAT
120890478 ATAGTATTGTTTTTTAAATTTAATATTTTTATTTGCTCTTTGTATTTCTATATTATTATTATTAT
66 ATAGTATTGTTTTTTAAATTTAATATTTTTATTTGCTCTTTGTATTTCTATATTATTATTATTAT
120890543 AATATGGTAG
Statistics
Matches: 129, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
136 129 1.00
ACGTcount: A:0.29, C:0.04, G:0.07, T:0.60
Consensus pattern (136 bp):
TATTATTATTATTATATATTAGTGTATATTTTTATGTACATATATGTATGTATATACTTTTATAT
ATAGTATTGTTTTTTAAATTTAATATTTTTATTTGCTCTTTGTATTTCTATATTATTATTATTAT
TATTAT
Found at i:120890804 original size:16 final size:16
Alignment explanation
Indices: 120890783--120890814 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
120890773 CTATTGTTAC
120890783 TGTTATTATCATCACT
1 TGTTATTATCATCACT
*
120890799 TGTTATTCTCATCACT
1 TGTTATTATCATCACT
120890815 ATTATTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.22, G:0.06, T:0.50
Consensus pattern (16 bp):
TGTTATTATCATCACT
Found at i:120891046 original size:22 final size:22
Alignment explanation
Indices: 120891016--120891104 Score: 67
Period size: 22 Copynumber: 4.1 Consensus size: 22
120891006 TTATTATATC
*
120891016 TTTTACTATTATTATTGTTGTA
1 TTTTACTATTATTATTGTTATA
* * *
120891038 TTTTTCTATTATTGTTATTATA
1 TTTTACTATTATTATTGTTATA
* * *
120891060 TTTTCCT-TTATTTTTGTATTTA
1 TTTTACTATTATTATTGT-TATA
*
120891082 CTTATA-TATTATTATT-TTATA
1 -TTTTACTATTATTATTGTTATA
120891103 TT
1 TT
120891105 AACTAATTTG
Statistics
Matches: 52, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
20 2 0.04
21 11 0.21
22 29 0.56
23 10 0.19
ACGTcount: A:0.22, C:0.06, G:0.04, T:0.67
Consensus pattern (22 bp):
TTTTACTATTATTATTGTTATA
Found at i:120903069 original size:205 final size:205
Alignment explanation
Indices: 120902717--120903711 Score: 1514
Period size: 205 Copynumber: 4.9 Consensus size: 205
120902707 GTAATAGGCC
* *
120902717 ACACATAGCAGATCTCGCCTTCAGATGTTTATGCTGAAGCGGATTCAAGATGGTTTGGCATCCTT
1 ACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTT
* * * * *
120902782 GTGGTTACAAGGAGCAAATCAAAGACATAGCTGATTTGGCTTTCACATGATTACGATGAAGCAAA
66 GTGTTTACAAGGAGCAAATCGAAGACATAGTTGATTTGGCTTTCACGTGATTACGATAAAGCAAA
*
120902847 TCTAAGATGATTTGTCGTCTCTGTGTCGTCAGAAAACGAATCGAAGTTTGGCATCTTCACTTTGA
131 TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAAAACGAATCGAAGTTTGGCATCTTCACTTTGA
120902912 TGGAGAGCAG
196 TGGAGAGCAG
* * *
120902922 ACACATAGCAGATCTCACCTTCAGATGATTT-CGCAGAAGCAGATCCAAGATGGTTTGGCATCCT
1 ACACATAGCAGATCTCACCTTCAGATG-TTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCT
* * *
120902986 TGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAA
65 TGTGTTTACAAGGAGCAAATCGAAGACATAGTTGATTTGGCTTTCACGTGATTACGATAAAGCAA
* * *
120903051 ATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATTGAAGTTTGGCATCTTCACTTTG
130 ATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAAAACGAATCGAAGTTTGGCATCTTCACTTTG
120903116 ATGGAGAGCAG
195 ATGGAGAGCAG
* *
120903127 ACACATAGCAGATCTGACCTTCAGATGTTTATGCTGAAACGGATCCAAGATGGTTTGGCATCCTT
1 ACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTT
*
120903192 GTGTTTACAAGGAGCAAGTCGAAGACATAGTTGATTTGGCTTTCACGTGATTACGATAAAGCAAA
66 GTGTTTACAAGGAGCAAATCGAAGACATAGTTGATTTGGCTTTCACGTGATTACGATAAAGCAAA
* * * *
120903257 TATAAGATGATTTGTCGTCTCTGTATTGTCA-AAGAATGAATCGAAGTTTGGCATCTTCATTTTG
131 TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAA-AACGAATCGAAGTTTGGCATCTTCACTTTG
120903321 ATGGAGAGCAG
195 ATGGAGAGCAG
* * * *
120903332 ACACATAGCAGATCTCGCCTTCAGACGATTTCA--CTGAAGCAGATCCAAGATGGTTTGGCATCA
1 ACACATAGCAGATCTCACCTTCAGATG-TTT-ATGCTGAAGCGGATCCAAGATGGTTTGGCATCC
* *
120903395 TTGTGTTTACAAGGAACAAATCGAAGACATAGTTGATTTGGCTTTCACGTGATTACGACAAAGCA
64 TTGTGTTTACAAGGAGCAAATCGAAGACATAGTTGATTTGGCTTTCACGTGATTACGATAAAGCA
* *
120903460 AATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCAAAGTTTGGCATCTTCACTTT
129 AATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAAAACGAATCGAAGTTTGGCATCTTCACTTT
120903525 GATGGAGAGCAG
194 GATGGAGAGCAG
*
120903537 ACACATAGCAGATCTCACCTTCGGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTT
1 ACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTT
* * * * * *
120903602 ATGCTTACAAGGAGCAAATCGAA-TCATAGTTGATTTGGCTTGCACGTGCTTACGTTAAAGCAAA
66 GTGTTTACAAGGAGCAAATCGAAGACATAGTTGATTTGGCTTTCACGTGATTACGATAAAGCAAA
* * * ** *
120903666 TCTAAGATGATTTGGCATCTCTGTATTGTCAGGGAACAAATCGAAG
131 TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAAAACGAATCGAAG
120903712 AAATAGATCT
Statistics
Matches: 721, Mismatches: 61, Indels: 17
0.90 0.08 0.02
Matches are distributed among these distances:
203 1 0.00
204 83 0.12
205 629 0.87
206 7 0.01
207 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (205 bp):
ACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTT
GTGTTTACAAGGAGCAAATCGAAGACATAGTTGATTTGGCTTTCACGTGATTACGATAAAGCAAA
TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAAAACGAATCGAAGTTTGGCATCTTCACTTTGA
TGGAGAGCAG
Found at i:120905062 original size:46 final size:46
Alignment explanation
Indices: 120905012--120905187 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
120905002 TGATTGAGCA
120905012 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
120905058 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
120905103 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
120905151 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
120905188 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 61 0.55
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:120905168 original size:93 final size:93
Alignment explanation
Indices: 120905009--120905180 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
120904999 GGATGATTGA
*
120905009 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
120905074 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
120905102 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
120905166 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
120905181 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:120912256 original size:41 final size:41
Alignment explanation
Indices: 120912101--120912246 Score: 226
Period size: 41 Copynumber: 3.6 Consensus size: 41
120912091 TGATTCAGTA
120912101 CACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCA-TTAAGCCTGCTAGACATATAGTCTGAAATGTAT
120912142 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
* *
120912183 CACCGGCATTAAGCCTGCTAGACTTAAAGTCTG-AAT-TACTT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTA--T
120912224 CACCGGCATTAAGCCTGCTAGAC
1 CACCGGCATTAAGCCTGCTAGAC
120912247 GTAACGTCTG
Statistics
Matches: 100, Mismatches: 2, Indels: 6
0.93 0.02 0.06
Matches are distributed among these distances:
39 2 0.02
40 5 0.05
41 93 0.93
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.26
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
Found at i:120912262 original size:41 final size:40
Alignment explanation
Indices: 120912101--120912267 Score: 182
Period size: 41 Copynumber: 4.0 Consensus size: 40
120912091 TGATTCAGTA
120912101 CACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATGTA--T
1 CACCGGCA-TTAAGCCTGCTAGACATA-AGTCTG-AAT-TACTT
120912142 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTA--T
1 CACCGGCATTAAGCCTGCTAGACATA-AGTCTG-AAT-TACTT
*
120912183 CACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAATTACTT
1 CACCGGCATTAAGCCTGCTAGACAT-AAGTCTGAATTACTT
* *
120912224 CACCGGCATTAAGCCTGCTAGACGTAACGTCTGTATTACATT
1 CACCGGCATTAAGCCTGCTAGACATAA-GTCTGAATTAC-TT
120912266 CA
1 CA
120912268 ATCACTTTAT
Statistics
Matches: 117, Mismatches: 3, Indels: 11
0.89 0.02 0.08
Matches are distributed among these distances:
39 2 0.02
40 7 0.06
41 103 0.88
42 5 0.04
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (40 bp):
CACCGGCATTAAGCCTGCTAGACATAAGTCTGAATTACTT
Found at i:120915336 original size:46 final size:46
Alignment explanation
Indices: 120915286--120915457 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
120915276 TTGAGCATCC
120915286 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* * *
120915332 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCCG
*
120915379 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC-G
* *
120915425 AGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
120915458 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 9, Indels: 20
0.79 0.07 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 57 0.53
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
Found at i:120915445 original size:93 final size:92
Alignment explanation
Indices: 120915280--120915450 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 92
120915270 GGATGATTGA
*
120915280 GCATCCAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 GCATCCAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTT
120915345 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
*
120915372 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCC-AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
120915436 TTGAGTCCGAGTTCG
64 TTGAGTCCGAGTTCG
120915451 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
92 8 0.11
93 67 0.89
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (92 bp):
GCATCCAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:120917325 original size:23 final size:21
Alignment explanation
Indices: 120917299--120917345 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 21
120917289 ATTTTTGGAG
120917299 AGAAAAGATTTTTTTGAGATTCA
1 AGAAAAGA--TTTTTGAGATTCA
*
120917322 AGAAGAGATTTTTGAGATTCA
1 AGAAAAGATTTTTGAGATTCA
120917343 AGA
1 AGA
120917346 GGGGATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 16 0.70
23 7 0.30
ACGTcount: A:0.40, C:0.04, G:0.21, T:0.34
Consensus pattern (21 bp):
AGAAAAGATTTTTGAGATTCA
Found at i:120917333 original size:21 final size:21
Alignment explanation
Indices: 120917309--120917355 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
120917299 AGAAAAGATT
120917309 TTTTTGAGATTCAAGAAGAGA
1 TTTTTGAGATTCAAGAAGAGA
* *
120917330 TTTTTGAGATTCAAGAGGGGA
1 TTTTTGAGATTCAAGAAGAGA
120917351 TTTTT
1 TTTTT
120917356 CTTTTTTCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.30, C:0.04, G:0.26, T:0.40
Consensus pattern (21 bp):
TTTTTGAGATTCAAGAAGAGA
Found at i:120917964 original size:3 final size:3
Alignment explanation
Indices: 120917956--120917985 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
120917946 TGTATTTCTA
120917956 TAT TAT TAT TAT TAT TAT TAT TAT ATAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TA
120917986 GTGTATATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:120917985 original size:125 final size:124
Alignment explanation
Indices: 120917840--120918088 Score: 480
Period size: 125 Copynumber: 2.0 Consensus size: 124
120917830 ATAATAATAA
*
120917840 TATTATTATTATTATATATTAGTGTGTATTTTTATGTACATATATGTATGTATATACTTTTATAT
1 TATTATTATTATTATATATTAGTGTATATTTTTATGTACATATATGTATGTATATACTTTTATAT
120917905 ATAGTATTGTTTTTTTAAATTTAATATTTTTATTTGCTCTTTGTATTTCTATATTATTAT
66 ATAGTATTG-TTTTTTAAATTTAATATTTTTATTTGCTCTTTGTATTTCTATATTATTAT
120917965 TATTATTATTATTATATATTAGTGTATATTTTTATGTACATATATGTATGTATATACTTTTATAT
1 TATTATTATTATTATATATTAGTGTATATTTTTATGTACATATATGTATGTATATACTTTTATAT
120918030 ATAGTATTGTTTTTTAAATTTAATATTTTTATTTGCTCTTTGTATTTCTATATTATTAT
66 ATAGTATTGTTTTTTAAATTTAATATTTTTATTTGCTCTTTGTATTTCTATATTATTAT
120918089 AATATGGTAG
Statistics
Matches: 123, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
124 50 0.41
125 73 0.59
ACGTcount: A:0.29, C:0.04, G:0.08, T:0.60
Consensus pattern (124 bp):
TATTATTATTATTATATATTAGTGTATATTTTTATGTACATATATGTATGTATATACTTTTATAT
ATAGTATTGTTTTTTAAATTTAATATTTTTATTTGCTCTTTGTATTTCTATATTATTAT
Found at i:120918352 original size:16 final size:16
Alignment explanation
Indices: 120918331--120918362 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
120918321 CTATTGTTAC
120918331 TGTTATTATCATCACT
1 TGTTATTATCATCACT
*
120918347 TGTTATTCTCATCACT
1 TGTTATTATCATCACT
120918363 ATTATTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.22, G:0.06, T:0.50
Consensus pattern (16 bp):
TGTTATTATCATCACT
Found at i:120918459 original size:3 final size:3
Alignment explanation
Indices: 120918451--120918487 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
120918441 AACTTAATAG
120918451 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
120918488 GCACTACTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:120918609 original size:22 final size:22
Alignment explanation
Indices: 120918579--120918667 Score: 67
Period size: 22 Copynumber: 4.1 Consensus size: 22
120918569 TTATTATATC
*
120918579 TTTTACTATTATTATTGTTGTA
1 TTTTACTATTATTATTGTTATA
* * *
120918601 TTTTTCTATTATTGTTATTATA
1 TTTTACTATTATTATTGTTATA
* * *
120918623 TTTTCCT-TTATTTTTGTATTTA
1 TTTTACTATTATTATTGT-TATA
*
120918645 CTTATA-TATTATTATT-TTATA
1 -TTTTACTATTATTATTGTTATA
120918666 TT
1 TT
120918668 AACTAATTTG
Statistics
Matches: 52, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
20 2 0.04
21 11 0.21
22 29 0.56
23 10 0.19
ACGTcount: A:0.22, C:0.06, G:0.04, T:0.67
Consensus pattern (22 bp):
TTTTACTATTATTATTGTTATA
Found at i:120924449 original size:10 final size:9
Alignment explanation
Indices: 120924433--120924483 Score: 52
Period size: 10 Copynumber: 5.6 Consensus size: 9
120924423 ACCAAACTCC
120924433 TAAACCCAT
1 TAAACCCAT
120924442 TAAAACCC-T
1 T-AAACCCAT
120924451 T-AACCCAT
1 TAAACCCAT
*
120924459 TAGACCCACT
1 TAAACCCA-T
120924469 TAAACCCACT
1 TAAACCCA-T
120924479 TAAAC
1 TAAAC
120924484 AAATATATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
7 5 0.14
8 2 0.06
9 8 0.22
10 21 0.58
ACGTcount: A:0.41, C:0.35, G:0.02, T:0.22
Consensus pattern (9 bp):
TAAACCCAT
Found at i:120928005 original size:21 final size:21
Alignment explanation
Indices: 120927981--120928020 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
120927971 GTATATATTA
* *
120927981 TGTATATTTCTAATACTATAG
1 TGTACATTTCTAACACTATAG
120928002 TGTACATTTCTAACACTAT
1 TGTACATTTCTAACACTAT
120928021 TATTATTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.15, G:0.07, T:0.45
Consensus pattern (21 bp):
TGTACATTTCTAACACTATAG
Found at i:120928412 original size:26 final size:26
Alignment explanation
Indices: 120928374--120928481 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
120928364 TGATACAAAT
* *
120928374 TGATAATGAGTTAGGTAAATGTTCCG
1 TGATAATGGGTTAGGTAAATGTTCCA
*
120928400 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
120928426 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
120928452 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
120928478 TGAT
1 TGAT
120928482 GGGAATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:120931193 original size:23 final size:23
Alignment explanation
Indices: 120931141--120931247 Score: 75
Period size: 23 Copynumber: 4.7 Consensus size: 23
120931131 GGGGTGTTAC
120931141 ATATATA-T-TGTATATA-TTTT
1 ATATATATTATGTATATATTTTT
120931161 ATATATATTATGTATATATTTTT
1 ATATATATTATGTATATATTTTT
*
120931184 A-ATGTCATTA-GTTATATATTTCTT
1 ATATAT-ATTATG-TATATATTT-TT
* *
120931208 ATACTAT-TCCATGTATGTATTTTT
1 ATA-TATAT-TATGTATATATTTTT
*
120931232 -TATTATCTTATGTATA
1 ATA-TATATTATGTATA
120931248 CATTCTTAAA
Statistics
Matches: 69, Mismatches: 7, Indels: 19
0.73 0.07 0.20
Matches are distributed among these distances:
20 7 0.10
21 1 0.01
22 12 0.17
23 29 0.42
24 7 0.10
25 10 0.14
26 3 0.04
ACGTcount: A:0.31, C:0.06, G:0.07, T:0.57
Consensus pattern (23 bp):
ATATATATTATGTATATATTTTT
Found at i:120931297 original size:29 final size:30
Alignment explanation
Indices: 120931241--120931297 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
120931231 TTATTATCTT
* *
120931241 ATGTATACATTCTTAAATACTATGTTATAC
1 ATGTATACATTCTTAAATACCATATTATAC
* *
120931271 ATGTATATATT-TTTAATACCATATTAT
1 ATGTATACATTCTTAAATACCATATTAT
120931298 GTATATATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 13 0.57
30 10 0.43
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.47
Consensus pattern (30 bp):
ATGTATACATTCTTAAATACCATATTATAC
Found at i:120931592 original size:27 final size:26
Alignment explanation
Indices: 120931547--120931631 Score: 66
Period size: 27 Copynumber: 3.2 Consensus size: 26
120931537 TTTATAATAC
*
120931547 TATATTTTTAATACCATATGTATTG-TG
1 TATATTCTTAATACCATA--TATTGATG
**
120931574 TATATTCTTAATATTATATATTGTATG
1 TATATTCTTAATACCATATATTG-ATG
* * *
120931601 TATTTTCTTAATAAC-TATATTATATG
1 TATATTCTTAATACCATATATT-GATG
120931627 TATAT
1 TATAT
120931632 ATATAGTATG
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
25 5 0.11
26 13 0.28
27 29 0.62
ACGTcount: A:0.33, C:0.06, G:0.07, T:0.54
Consensus pattern (26 bp):
TATATTCTTAATACCATATATTGATG
Found at i:120931626 original size:26 final size:26
Alignment explanation
Indices: 120931572--120931631 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
120931562 ATATGTATTG
*
120931572 TGTATATTCTTAATATTATATATTGTA
1 TGTATATTCTTAATA-TATATATTATA
*
120931599 TGTATTTTCTTAATA-ACTATATTATA
1 TGTATATTCTTAATATA-TATATTATA
120931625 TGTATAT
1 TGTATAT
120931632 ATATAGTATG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 1 0.03
26 14 0.48
27 14 0.48
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (26 bp):
TGTATATTCTTAATATATATATTATA
Found at i:120931689 original size:12 final size:11
Alignment explanation
Indices: 120931657--120931714 Score: 52
Period size: 10 Copynumber: 5.5 Consensus size: 11
120931647 ATTTTAATAT
120931657 TATTATGTAT-
1 TATTATGTATA
* *
120931667 TTTTATATATA
1 TATTATGTATA
120931678 TA-TATGTATA
1 TATTATGTATA
*
120931688 TATGTGTGTATA
1 TAT-TATGTATA
120931700 T-TTATGTA-A
1 TATTATGTATA
120931709 TATTAT
1 TATTAT
120931715 TAATAATTGT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 2 0.05
10 26 0.68
11 2 0.05
12 8 0.21
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (11 bp):
TATTATGTATA
Found at i:120931941 original size:26 final size:25
Alignment explanation
Indices: 120931912--120932005 Score: 115
Period size: 25 Copynumber: 3.8 Consensus size: 25
120931902 CATACGTATA
120931912 TATATATTTTTAATAGCTATATTATG
1 TATATATTTTTAATA-CTATATTATG
120931938 TATATATTTTTAATACTATATTATG
1 TATATATTTTTAATACTATATTATG
* *
120931963 TACATACTTTTAATA-T-TATTATG
1 TATATATTTTTAATACTATATTATG
*
120931986 TAT-TTTATTTTAATA-TATAT
1 TATATAT-TTTTAATACTATAT
120932006 GTACATATTT
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
22 1 0.02
23 18 0.30
24 4 0.07
25 23 0.38
26 15 0.25
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.56
Consensus pattern (25 bp):
TATATATTTTTAATACTATATTATG
Found at i:120931986 original size:23 final size:22
Alignment explanation
Indices: 120931931--120932015 Score: 84
Period size: 25 Copynumber: 3.7 Consensus size: 22
120931921 TTAATAGCTA
*
120931931 TATTATGTATATATTTTTAATACT
1 TATTATGTACATA-TTTTAATA-T
120931955 ATATTATGTACATACTTTTAATAT
1 -TATTATGTACATA-TTTTAATAT
**
120931979 TATTATGTATTTTATTTTAATA-
1 TATTATGTA-CATATTTTAATAT
120932001 TA-TATGTACATATTT
1 TATTATGTACATATTT
120932016 ATGTAGCATT
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
20 5 0.09
21 6 0.11
22 2 0.04
23 17 0.32
24 3 0.06
25 20 0.38
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.56
Consensus pattern (22 bp):
TATTATGTACATATTTTAATAT
Found at i:120932014 original size:25 final size:23
Alignment explanation
Indices: 120931970--120932015 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
120931960 ATGTACATAC
**
120931970 TTTTAATATTATTATGTATTTTA
1 TTTTAATATTATTACATATTTTA
120931993 TTTTAATATATATGTACATATTT
1 TTTTAATAT-TAT-TACATATTT
120932016 ATGTAGCATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 9 0.47
24 3 0.16
25 7 0.37
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (23 bp):
TTTTAATATTATTACATATTTTA
Found at i:120932085 original size:21 final size:22
Alignment explanation
Indices: 120932049--120932090 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
120932039 GTATATGTTC
*
120932049 ATTTGATATATATTATGTATAT
1 ATTTAATATATATTATGTATAT
120932071 ATTTAATAT-TATTATGTATA
1 ATTTAATATATATTATGTATA
120932091 CACTTTTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (22 bp):
ATTTAATATATATTATGTATAT
Found at i:120938514 original size:15 final size:15
Alignment explanation
Indices: 120938490--120938523 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
120938480 AAAAGTTGAC
*
120938490 ATATATTTTTTTAAT
1 ATATAATTTTTTAAT
*
120938505 ATATAATTTTTTTAT
1 ATATAATTTTTTAAT
120938520 ATAT
1 ATAT
120938524 TTTAAGACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
ATATAATTTTTTAAT
Found at i:120940820 original size:18 final size:18
Alignment explanation
Indices: 120940797--120940832 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
120940787 TTAAAATTAG
120940797 TCATTTTACAACTAAATT
1 TCATTTTACAACTAAATT
*
120940815 TCATTTTACGACTAAATT
1 TCATTTTACAACTAAATT
120940833 AAAAAGTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.17, G:0.03, T:0.44
Consensus pattern (18 bp):
TCATTTTACAACTAAATT
Found at i:120942956 original size:22 final size:24
Alignment explanation
Indices: 120942908--120942953 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
120942898 GTAAGGCCCC
*
120942908 TTCTCTTGCTGCTGTTCAATTTCCG
1 TTCTCTTGCTGCTGGT-AATTTCCG
120942933 TTCTCTTGCTGCTGGT-ATTTC
1 TTCTCTTGCTGCTGGTAATTTC
120942954 GTTTCCTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 5 0.25
25 15 0.75
ACGTcount: A:0.07, C:0.26, G:0.17, T:0.50
Consensus pattern (24 bp):
TTCTCTTGCTGCTGGTAATTTCCG
Found at i:120944932 original size:22 final size:22
Alignment explanation
Indices: 120944908--120944951 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 22
120944898 TAATTTAAAA
*
120944908 TATAAAAATTTATT-AT-TATG
1 TATATAAATTTATTAATATATG
120944928 TATATAAATTTATTAATATATG
1 TATATAAATTTATTAATATATG
120944950 TA
1 TA
120944952 AAAACAACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.62
21 2 0.10
22 6 0.29
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (22 bp):
TATATAAATTTATTAATATATG
Found at i:120945038 original size:20 final size:19
Alignment explanation
Indices: 120945013--120945050 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
120945003 ATATTTTCAG
120945013 TAAATCATTTTCCAGAAAAA
1 TAAATCATTTTCCA-AAAAA
120945033 TAAATCATTTTCCAAAAA
1 TAAATCATTTTCCAAAAA
120945051 TCATTTTCCG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.50, C:0.16, G:0.03, T:0.32
Consensus pattern (19 bp):
TAAATCATTTTCCAAAAAA
Found at i:120945053 original size:14 final size:15
Alignment explanation
Indices: 120945034--120945071 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
120945024 CCAGAAAAAT
120945034 AAATCATTTTCC-AA
1 AAATCATTTTCCGAA
120945048 AAATCATTTTCCGAA
1 AAATCATTTTCCGAA
120945063 AAAT-ATTTT
1 AAATCATTTT
120945072 ACTGGCAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 17 0.74
15 6 0.26
ACGTcount: A:0.42, C:0.16, G:0.03, T:0.39
Consensus pattern (15 bp):
AAATCATTTTCCGAA
Found at i:120947533 original size:17 final size:17
Alignment explanation
Indices: 120947513--120947548 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
120947503 ATTTAATTTT
120947513 AATTTTAAAAAATATAA
1 AATTTTAAAAAATATAA
* *
120947530 AATTTTAGAAAATTTAA
1 AATTTTAAAAAATATAA
120947547 AA
1 AA
120947549 ATAAATTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (17 bp):
AATTTTAAAAAATATAA
Found at i:120957039 original size:25 final size:25
Alignment explanation
Indices: 120957011--120957063 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
120957001 ACACGTTATA
120957011 CATGATTGGAATTGAAGACATATCT
1 CATGATTGGAATTGAAGACATATCT
120957036 CATGATTGGAATTGAAGACATATCT
1 CATGATTGGAATTGAAGACATATCT
120957061 CAT
1 CAT
120957064 AATATATAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (25 bp):
CATGATTGGAATTGAAGACATATCT
Found at i:120957780 original size:26 final size:26
Alignment explanation
Indices: 120957740--120957793 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
120957730 TAACTCGAAT
* *
120957740 AATTTTATTTGATTCAACTCAATTCG
1 AATTTCATTTCATTCAACTCAATTCG
*
120957766 AATTTCATTTCATTCTACTCAATTCG
1 AATTTCATTTCATTCAACTCAATTCG
120957792 AA
1 AA
120957794 AAAAAAATCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.31, C:0.19, G:0.06, T:0.44
Consensus pattern (26 bp):
AATTTCATTTCATTCAACTCAATTCG
Found at i:120959563 original size:118 final size:122
Alignment explanation
Indices: 120959348--120959594 Score: 412
Period size: 127 Copynumber: 2.0 Consensus size: 122
120959338 GCTGACATGG
120959348 AATGATATCTCATTTATGCTTTTGTTGATGTGGCATTATAAAAAAATATAAATTCTAAAATTTAT
1 AATGATATCTCATTTATGCTTTTGTTGATGTGGCATTATAAAAAAATATAAATTCTAAAA-TTAT
120959413 TAAAAATTAAAAAAATAAAAAAAATTAAAATTATGATACTTTTTTAAAAATACCAATCATTT
65 T---AATT-AAAAAATAAAAAAAATTAAAATTATGATACTTTTTTAAAAATACCAATCATTT
120959475 AATGATATCTCATTTATGCTTTTGTTGATGTGGCATTATAAAAAAATATAAATTCTAAAA-T-TT
1 AATGATATCTCATTTATGCTTTTGTTGATGTGGCATTATAAAAAAATATAAATTCTAAAATTATT
*
120959538 -ATT-AAAAATGAAAAAAATTAAAATTATGATACTTTTTTAAAAATACCAATCATTT
66 AATTAAAAAATAAAAAAAATTAAAATTATGATACTTTTTTAAAAATACCAATCATTT
120959593 AA
1 AA
120959595 AAAACTTAAA
Statistics
Matches: 119, Mismatches: 1, Indels: 9
0.92 0.01 0.07
Matches are distributed among these distances:
118 53 0.45
120 3 0.03
124 2 0.02
125 1 0.01
127 60 0.50
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.39
Consensus pattern (122 bp):
AATGATATCTCATTTATGCTTTTGTTGATGTGGCATTATAAAAAAATATAAATTCTAAAATTATT
AATTAAAAAATAAAAAAAATTAAAATTATGATACTTTTTTAAAAATACCAATCATTT
Found at i:120963154 original size:17 final size:17
Alignment explanation
Indices: 120963117--120963155 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
120963107 CCATATTATT
* *
120963117 TCTTTTGTTTCTTTTCC
1 TCTTTTGTTTCTTCTCA
*
120963134 TCTTTTGTTTCTTCTGA
1 TCTTTTGTTTCTTCTCA
120963151 TCTTT
1 TCTTT
120963156 GGTTCCCCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.03, C:0.21, G:0.08, T:0.69
Consensus pattern (17 bp):
TCTTTTGTTTCTTCTCA
Found at i:120963175 original size:11 final size:12
Alignment explanation
Indices: 120963158--120963207 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
120963148 TGATCTTTGG
*
120963158 TTCCCCTTCTTC
1 TTCCCCTTCTCC
120963170 -TCCCCTTTCTCC
1 TTCCCC-TTCTCC
120963182 TTCCCCTTC-CC
1 TTCCCCTTCTCC
*
120963193 TTTCCCCTTCCCC
1 -TTCCCCTTCTCC
120963206 TT
1 TT
120963208 GGTTTGCTCT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
11 7 0.21
12 19 0.58
13 7 0.21
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (12 bp):
TTCCCCTTCTCC
Found at i:120963193 original size:18 final size:18
Alignment explanation
Indices: 120963158--120963207 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
120963148 TGATCTTTGG
** *
120963158 TTCCCCTTCTTCTCCCCT
1 TTCCCCTTCCCCTTCCCT
*
120963176 TTCTCCTTCCCCTTCCCT
1 TTCCCCTTCCCCTTCCCT
120963194 TTCCCCTTCCCCTT
1 TTCCCCTTCCCCTT
120963208 GGTTTGCTCT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (18 bp):
TTCCCCTTCCCCTTCCCT
Found at i:120966288 original size:20 final size:20
Alignment explanation
Indices: 120966259--120966297 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
120966249 ATATTTTCTG
*
120966259 GTAAATCATTTTACAGAAAA
1 GTAAAACATTTTACAGAAAA
*
120966279 GTAAAACATTTTCCAGAAA
1 GTAAAACATTTTACAGAAA
120966298 TCATTTTACG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.13, G:0.10, T:0.28
Consensus pattern (20 bp):
GTAAAACATTTTACAGAAAA
Found at i:120966562 original size:19 final size:16
Alignment explanation
Indices: 120966540--120966593 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 16
120966530 CTGTGATTGA
120966540 ATTTTTGTAAATTCAATAT
1 ATTTTT-TAAATT--ATAT
120966559 ATTTTATTAAATTATAT
1 ATTTT-TTAAATTATAT
120966576 ATTTTTATTAAATTATAT
1 A-TTTT-TTAAATTATAT
120966594 TTAATAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.15
18 16 0.48
19 11 0.33
20 1 0.03
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (16 bp):
ATTTTTTAAATTATAT
Found at i:120966581 original size:18 final size:17
Alignment explanation
Indices: 120966555--120966593 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 17
120966545 TGTAAATTCA
120966555 ATATATTTTATTAAATT
1 ATATATTTTATTAAATT
120966572 ATATATTTTTATTAAATT
1 ATATA-TTTTATTAAATT
120966590 ATAT
1 ATAT
120966594 TTAATAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATATATTTTATTAAATT
Found at i:120966774 original size:21 final size:21
Alignment explanation
Indices: 120966746--120966800 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
120966736 ACTGCTATTT
* *
120966746 CTAATCTCACTGCTACATTATC
1 CTAATCTCACCGCTACAGTA-C
120966768 C-AATCTCACCGCTACAGTAC
1 CTAATCTCACCGCTACAGTAC
120966788 CTAATCTCACCGC
1 CTAATCTCACCGC
120966801 CACCGCTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 2 0.07
21 27 0.90
22 1 0.03
ACGTcount: A:0.27, C:0.38, G:0.07, T:0.27
Consensus pattern (21 bp):
CTAATCTCACCGCTACAGTAC
Found at i:120967077 original size:15 final size:15
Alignment explanation
Indices: 120967053--120967089 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
120967043 TGATAAACTC
*
120967053 GAAAACTTATGTATT
1 GAAAATTTATGTATT
120967068 GAAAATTTATGTATT
1 GAAAATTTATGTATT
120967083 GAAAATT
1 GAAAATT
120967090 AAACATTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.43, C:0.03, G:0.14, T:0.41
Consensus pattern (15 bp):
GAAAATTTATGTATT
Found at i:120970674 original size:124 final size:125
Alignment explanation
Indices: 120970224--120970691 Score: 391
Period size: 124 Copynumber: 3.8 Consensus size: 125
120970214 TAAAAAGGAA
* * * * ** * ** *
120970224 CATAAAACTTAGCTTCAATGCATGTAGTCCTTTGAATCTTG-AAATATCGAATGTTACGATCATA
1 CATACAACTTAGCTTCGATGCCTGCAGTCAGTTGAATCTCGAAAATATCGAACATTTCGATCATA
* * * * *
120970288 TAAACATCTACTATTTACTTGGGAAGCAAGAAACAATCAGACATCAATCTAAGAAACCAG
66 TCAACATATACTATTTACTTGGGAAACAAGAAACAATCAGACATCGATCTAAGAAACTAG
* * * * *
120970348 CATACAACTTGGCTTCAATGCCTGCAATCAGTTGATTCTCG-AAATATCGAACATTTCGATCACA
1 CATACAACTTAGCTTCGATGCCTGCAGTCAGTTGAATCTCGAAAATATCGAACATTTCGATCATA
* ** *
120970412 TCAAC--AT-CT-CTTACTTGCTAAACAAGCAAGCATCAATCA-ACCAT-GAATC-AGAAAAACT
66 TCAACATATACTATTTACTTGGGAAACAAG-AA--A-CAATCAGA-CATCG-ATCTA-AGAAACT
*
120970470 CG
124 AG
* * * * * *
120970472 CATACAGCTTAGCTTCGGTGCATGCAGTCAGTTGAATCT-TAAAATATCAAACATTTTGATCATA
1 CATACAACTTAGCTTCGATGCCTGCAGTCAGTTGAATCTCGAAAATATCGAACATTTCGATCATA
* * * * * *
120970536 TTAGCATCTGCTATTTACTTGGGAAACAAGAAACCATCAGACATCGATCTAAGAAAGTAG
66 TCAACATATACTATTTACTTGGGAAACAAGAAACAATCAGACATCGATCTAAGAAACTAG
* * * * *
120970596 CATACAACCTAGCTTCGATGCCTGCTGTCAGTTAAATCTCGAAAAT-TTGAACATTTCAATCATA
1 CATACAACTTAGCTTCGATGCCTGCAGTCAGTTGAATCTCGAAAATATCGAACATTTCGATCATA
* * *
120970660 TCAACAAATACTATTTACTTTGGAAGCAAGAA
66 TCAACATATACTATTTACTTGGGAAACAAGAA
120970692 TCAGCATTAA
Statistics
Matches: 266, Mismatches: 62, Indels: 32
0.74 0.17 0.09
Matches are distributed among these distances:
120 13 0.05
121 4 0.02
122 1 0.00
123 3 0.01
124 217 0.82
125 9 0.03
126 1 0.00
127 4 0.02
128 14 0.05
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28
Consensus pattern (125 bp):
CATACAACTTAGCTTCGATGCCTGCAGTCAGTTGAATCTCGAAAATATCGAACATTTCGATCATA
TCAACATATACTATTTACTTGGGAAACAAGAAACAATCAGACATCGATCTAAGAAACTAG
Found at i:120977356 original size:215 final size:216
Alignment explanation
Indices: 120976961--120977487 Score: 648
Period size: 215 Copynumber: 2.4 Consensus size: 216
120976951 ATAAATTCGT
* * * * *
120976961 TTGAAGCAGTCGATAATCATCAATATTCGCTTTCTGGGTAATTATTATTCACCCATAATCATTGA
1 TTGAAGCACTTGATAATCATCAATTTTCGCTTTCTGGGTAATTATTATTTA-CCATAATTATTGA
* * * * * *
120977026 TTTTTAGTGTGCAAAACTGAAAATTTTGTTCTTGTACTTATTGTTTGAAGTCAGTTATTTACTGA
65 TTTTTAGTGTTCAAAACTGAAAATTCTGTTCTTCTACTTATTGTTCGAAGTCAATTACTTACTGA
** * * **
120977091 ATAATTGAATGAGTAAAATTATATATTTTGCTATCTCTTAGTTGAA-TTTTTGTTCTTCATCGAA
130 ATAATTGAATGAGTAAAACGATACATTGTGCTATCTCAAAGTTGAATTTTTTGTTCTTCATCGAA
*
120977155 TTATGTATAAATAGTTT-AGGC
195 TTATGTATAAATACTTTAAGGC
*
120977176 TTGAAGCACTTGATAATCATCAATTTTCGCTTTCTGAGTAATTATTATTTACTCATAATTATTGA
1 TTGAAGCACTTGATAATCATCAATTTTCGCTTTCTGGGTAATTATTATTTAC-CATAATTATTGA
* *
120977241 TTTTTAGTGTTCAAAACTGAGAATTCTGTT-TATCTAGTTATTGTTCGAAGTCAATTACTTACTG
65 TTTTTAGTGTTCAAAACTGAAAATTCTGTTCT-TCTACTTATTGTTCGAAGTCAATTACTTACTG
* * * *
120977305 AATAATTGAATTAGTAAACCGATACATTGTGCTGTCTCAAAAGTT-AATTTTTTTTGTTTTTCAT
129 AATAATTGAATGAGTAAAACGATACATTGTGCTATCTC-AAAGTTGAA--TTTTTTGTTCTTCAT
* *
120977369 CGAATTGTGTCTAAATACTTTAAGGC
191 CGAATTATGTATAAATACTTTAAGGC
* ** * *
120977395 TTGAAGCACTTGATAACCATCCGTTTTCGCTTTCTGGGTAATTATTATTTACCATCATTGTTGAT
1 TTGAAGCACTTGATAATCATCAATTTTCGCTTTCTGGGTAATTATTATTTACCATAATTATTGAT
* * *
120977460 TTTTTGTGCTCAAAAACTGAAAAATCTG
66 TTTTAGTGTTC-AAAACTGAAAATTCTG
120977488 CTTATTTTAC
Statistics
Matches: 267, Mismatches: 37, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
214 2 0.01
215 144 0.54
216 4 0.01
218 51 0.19
219 66 0.25
ACGTcount: A:0.29, C:0.13, G:0.14, T:0.43
Consensus pattern (216 bp):
TTGAAGCACTTGATAATCATCAATTTTCGCTTTCTGGGTAATTATTATTTACCATAATTATTGAT
TTTTAGTGTTCAAAACTGAAAATTCTGTTCTTCTACTTATTGTTCGAAGTCAATTACTTACTGAA
TAATTGAATGAGTAAAACGATACATTGTGCTATCTCAAAGTTGAATTTTTTGTTCTTCATCGAAT
TATGTATAAATACTTTAAGGC
Found at i:120982474 original size:19 final size:19
Alignment explanation
Indices: 120982450--120982487 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
120982440 CTTGAAAAAA
120982450 AATCAACTCCAATTATGTC
1 AATCAACTCCAATTATGTC
120982469 AATCAACTCCAATTATGTC
1 AATCAACTCCAATTATGTC
120982488 TTTTCACGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.26, G:0.05, T:0.32
Consensus pattern (19 bp):
AATCAACTCCAATTATGTC
Found at i:120994100 original size:90 final size:90
Alignment explanation
Indices: 120993947--120994127 Score: 362
Period size: 90 Copynumber: 2.0 Consensus size: 90
120993937 ACAAAAGCTC
120993947 TGAAGAACATAATCCAAGCAACTAGCTAATATTATGTGCAGAGATAATGACATTCCATCAGGTCC
1 TGAAGAACATAATCCAAGCAACTAGCTAATATTATGTGCAGAGATAATGACATTCCATCAGGTCC
120994012 ATGAATTACAAAAGAAGACTTTTGT
66 ATGAATTACAAAAGAAGACTTTTGT
120994037 TGAAGAACATAATCCAAGCAACTAGCTAATATTATGTGCAGAGATAATGACATTCCATCAGGTCC
1 TGAAGAACATAATCCAAGCAACTAGCTAATATTATGTGCAGAGATAATGACATTCCATCAGGTCC
120994102 ATGAATTACAAAAGAAGACTTTTGT
66 ATGAATTACAAAAGAAGACTTTTGT
120994127 T
1 T
120994128 CAGAAGGGTA
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 91 1.00
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.27
Consensus pattern (90 bp):
TGAAGAACATAATCCAAGCAACTAGCTAATATTATGTGCAGAGATAATGACATTCCATCAGGTCC
ATGAATTACAAAAGAAGACTTTTGT
Found at i:120996793 original size:15 final size:15
Alignment explanation
Indices: 120996754--120996796 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
120996744 GATAAACTTA
120996754 TAATATT-AAA-TTG
1 TAATATTAAAATTTG
*
120996767 TATTATTAAAAATTTG
1 TAATATT-AAAATTTG
120996783 TAATATTAAAATTT
1 TAATATTAAAATTT
120996797 AAAACTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
13 6 0.24
15 10 0.40
16 9 0.36
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.49
Consensus pattern (15 bp):
TAATATTAAAATTTG
Found at i:120999056 original size:16 final size:16
Alignment explanation
Indices: 120998993--120999056 Score: 56
Period size: 17 Copynumber: 3.8 Consensus size: 16
120998983 TCGAAATTCT
*
120998993 AAATTACTAATAAATAA
1 AAATTAATAATAAA-AA
* *
120999010 ATATTAAAATATAAAATA
1 AAATTAATA-ATAAAA-A
* *
120999028 AAATAAATTATAAAAA
1 AAATTAATAATAAAAA
120999044 AAATTAATAATAA
1 AAATTAATAATAA
120999057 TCAACCCTGT
Statistics
Matches: 36, Mismatches: 9, Indels: 5
0.72 0.18 0.10
Matches are distributed among these distances:
16 12 0.33
17 13 0.36
18 11 0.31
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.30
Consensus pattern (16 bp):
AAATTAATAATAAAAA
Found at i:120999589 original size:55 final size:54
Alignment explanation
Indices: 120999461--120999781 Score: 204
Period size: 58 Copynumber: 5.7 Consensus size: 54
120999451 TAATTTCTGT
* * * *
120999461 TATTTTGTGGGTTTTTTTTTCTTGTCTTTTGACTTGATGGGTAGATTTAAT-T-TTTGG
1 TATTTTGTGGG---TTTTTTCTTGCCCTTTGGCTTGAT--GTAGTTTTAATATCTTTGG
* * * * *
120999518 TTATTTTGTGGATTTTTTCCTTGCCCTTCGGCTTGATGCAGTGTTAATTTCTTTGG
1 -TATTTTGTGGGTTTTTT-CTTGCCCTTTGGCTTGATGTAGTTTTAATATCTTTGG
* * *
120999574 TATTTTGCGGG-TTTTTCTTGCCTTTTGGCTTGATGGGTAGTTTTAATATC-TTGTT
1 TATTTTGTGGGTTTTTTCTTGCCCTTTGGCTTGAT--GTAGTTTTAATATCTTTG-G
* * *
120999629 TAGTTTGTGGGTTTTTCTTCTTGCCGTTTGGCTTGATGTGTAGTTTTAATATCTTTGT
1 TATTTTGTGGG-TTTT-TTCTTGCCCTTTGGCTTGA--TGTAGTTTTAATATCTTTGG
* ** * * *
120999687 TATTTTGTGGGTTTTTTTTTTCTTGCCTTTTGATTTGATGTGTAATTTTAATTTCTTTGT
1 TATTTTGTGGG----TTTTTTCTTGCCCTTTGGCTTGA--TGTAGTTTTAATATCTTTGG
* *
120999747 TAGTTTGTAGGG-TTTTT-TTGCCTTTTGGCTTGATG
1 TATTTTGT-GGGTTTTTTCTTGCCCTTTGGCTTGATG
120999782 GGTACTTTTA
Statistics
Matches: 219, Mismatches: 28, Indels: 37
0.77 0.10 0.13
Matches are distributed among these distances:
53 18 0.08
54 16 0.07
55 50 0.23
56 24 0.11
57 3 0.01
58 53 0.24
59 3 0.01
60 44 0.20
61 8 0.04
ACGTcount: A:0.11, C:0.10, G:0.22, T:0.57
Consensus pattern (54 bp):
TATTTTGTGGGTTTTTTCTTGCCCTTTGGCTTGATGTAGTTTTAATATCTTTGG
Found at i:120999613 original size:109 final size:112
Alignment explanation
Indices: 120999476--120999763 Score: 296
Period size: 118 Copynumber: 2.5 Consensus size: 112
120999466 TGTGGGTTTT
* * *
120999476 TTTTTCTTGTCTTTTGACTTGATGGGTAGATTTAAT-TTTTGGTTATTTTGTGGATTTTT-TCCT
1 TTTTTCTTGCCTTTTGACTTGATGGGTAGATTTAATATCTTGGTTAGTTTGTGGATTTTTCTCCT
*
120999539 TGCCCTTCGGCTTGA-TGCAGTGTTAATTTCTTTGGTATTTTGCGGG
66 TGCCCTTCGGCTTGAGTGCAGTGTTAATATCTTTGGTATTTTGCGGG
* * * * *
120999585 TTTTTCTTGCCTTTTGGCTTGATGGGTAGTTTTAATATCTTGTTTAGTTTGTGGGTTTTTCTTCT
1 TTTTTCTTGCCTTTTGACTTGATGGGTAGATTTAATATCTTGGTTAGTTTGTGGATTTTTCTCCT
* * * * * *
120999650 TGCCGTTTGGCTTGATGTGTAGTTTTAATATCTTTGTTATTTTGTGGG
66 TGCCCTTCGGCTTGA-GTGCAGTGTTAATATCTTTGGTATTTTGCGGG
* * * * *
120999698 TTTTTTTTTTCTTGCCTTTTGATTTGATGTGTA-ATTTTAATTTCTTTGTTAGTTTGTAGGGTTT
1 -----TTTTTCTTGCCTTTTGACTTGATGGGTAGA-TTTAATATCTTGGTTAGTTTGT-GGATTT
120999762 TT
59 TT
120999764 TTGCCTTTTG
Statistics
Matches: 146, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
109 33 0.23
110 19 0.13
111 16 0.11
113 26 0.18
118 44 0.30
119 8 0.05
ACGTcount: A:0.11, C:0.10, G:0.22, T:0.57
Consensus pattern (112 bp):
TTTTTCTTGCCTTTTGACTTGATGGGTAGATTTAATATCTTGGTTAGTTTGTGGATTTTTCTCCT
TGCCCTTCGGCTTGAGTGCAGTGTTAATATCTTTGGTATTTTGCGGG
Found at i:120999626 original size:33 final size:32
Alignment explanation
Indices: 120999589--120999683 Score: 87
Period size: 29 Copynumber: 3.1 Consensus size: 32
120999579 TGCGGGTTTT
120999589 TCTTGCCTTTTGGCTTGATGGGTAGTTTTAATA
1 TCTTGCC-TTTGGCTTGATGGGTAGTTTTAATA
* * *
120999622 TCTTG--TTTAGTTTG-TGGGT--TTTT-CT-
1 TCTTGCCTTTGGCTTGATGGGTAGTTTTAATA
*
120999647 TCTTGCCGTTTGGCTTGATGTGTAGTTTTAATA
1 TCTTGCC-TTTGGCTTGATGGGTAGTTTTAATA
120999680 TCTT
1 TCTT
120999684 TGTTATTTTG
Statistics
Matches: 47, Mismatches: 7, Indels: 16
0.67 0.10 0.23
Matches are distributed among these distances:
25 5 0.11
26 1 0.02
27 4 0.09
28 7 0.15
29 9 0.19
30 7 0.15
31 4 0.09
32 1 0.02
33 9 0.19
ACGTcount: A:0.12, C:0.12, G:0.23, T:0.54
Consensus pattern (32 bp):
TCTTGCCTTTGGCTTGATGGGTAGTTTTAATA
Found at i:120999662 original size:58 final size:57
Alignment explanation
Indices: 120999419--120999798 Score: 368
Period size: 55 Copynumber: 6.7 Consensus size: 57
120999409 CTTTTTTGAG
* * *
120999419 TTTTTGTTGCCTTTTGACTTGATGGGTACTTTTAATTTC--TGTTATTTTGTGGGTTTT
1 TTTTTCTTGCCTTTTGGCTTGATGGGTAGTTTTAATTTCTTTGTTATTTTGTGGG--TT
* * * * *
120999476 TTTTTCTTGTCTTTTGACTTGATGGGTAGATTTAATTT-TTGGTTATTTTGTGGATT
1 TTTTTCTTGCCTTTTGGCTTGATGGGTAGTTTTAATTTCTTTGTTATTTTGTGGGTT
* * * * * * *
120999532 TTTTCCTTGCCCTTCGGCTTGAT--GCAGTGTTAATTTCTTTGGTATTTTGCGGG--
1 TTTTTCTTGCCTTTTGGCTTGATGGGTAGTTTTAATTTCTTTGTTATTTTGTGGGTT
* *
120999585 TTTTTCTTGCCTTTTGGCTTGATGGGTAGTTTTAATATC-TTGTTTAGTTTGTGGGTT
1 TTTTTCTTGCCTTTTGGCTTGATGGGTAGTTTTAATTTCTTTG-TTATTTTGTGGGTT
* * *
120999642 TTTCTTCTTGCCGTTTGGCTTGATGTGTAGTTTTAATATCTTTGTTATTTTGTGGGTTTTT
1 TTT-TTCTTGCCTTTTGGCTTGATGGGTAGTTTTAATTTCTTTGTTATTTTGTGGG---TT
** * * *
120999703 TTTTTCTTGCCTTTTGATTTGATGTGTAATTTTAATTTCTTTGTTAGTTTGTAGGG--
1 TTTTTCTTGCCTTTTGGCTTGATGGGTAGTTTTAATTTCTTTGTTATTTTGT-GGGTT
* *
120999759 TTTTT-TTGCCTTTTGGCTTGATGGGTACTTTTAGTTTCTT
1 TTTTTCTTGCCTTTTGGCTTGATGGGTAGTTTTAATTTCTT
120999799 ATTTAATTTG
Statistics
Matches: 268, Mismatches: 41, Indels: 30
0.79 0.12 0.09
Matches are distributed among these distances:
53 20 0.07
54 13 0.05
55 62 0.23
56 25 0.09
57 37 0.14
58 57 0.21
59 3 0.01
60 43 0.16
61 8 0.03
ACGTcount: A:0.11, C:0.10, G:0.22, T:0.57
Consensus pattern (57 bp):
TTTTTCTTGCCTTTTGGCTTGATGGGTAGTTTTAATTTCTTTGTTATTTTGTGGGTT
Found at i:120999780 original size:60 final size:58
Alignment explanation
Indices: 120999561--120999780 Score: 168
Period size: 60 Copynumber: 3.8 Consensus size: 58
120999551 TGATGCAGTG
* * * *
120999561 TTAATTTCTTTGGTATTTTGCGGGTTTTTCTTGCCTTTTGGCTTGA--TG--G-GTAGTT
1 TTAATATCTTTGTTAGTTTGTGGGTTTTTCTT--CTTTTGGCTTGATTTGATGTGTAGTT
*** * **
120999616 TTAATATC-TTGTTTAGTTTGTGGGTTTTTCTTCTTGCCGTTTGGCTTGATGTGTAGTT
1 TTAATATCTTTG-TTAGTTTGTGGGTTTTTCTTCTTTTGGCTTGATTTGATGTGTAGTT
* * * *
120999674 TTAATATCTTTGTTATTTTGTGGGTTTTT-TTTTTCTTGCCTTTTGATTTGATGTGTAATT
1 TTAATATCTTTGTTAGTTTGTGGGTTTTTCTTCTT-TTGGC--TTGATTTGATGTGTAGTT
*
120999734 TTAATTTCTTTGTTAGTTTGTAGGGTTTTT-TTGCCTTTTGGCTTGAT
1 TTAATATCTTTGTTAGTTTGT-GGGTTTTTCTT--CTTTTGGCTTGAT
120999781 GGGTACTTTT
Statistics
Matches: 129, Mismatches: 23, Indels: 21
0.75 0.13 0.12
Matches are distributed among these distances:
53 7 0.05
54 3 0.02
55 26 0.20
57 5 0.04
58 30 0.23
59 3 0.02
60 39 0.30
61 10 0.08
62 4 0.03
63 2 0.02
ACGTcount: A:0.11, C:0.09, G:0.22, T:0.58
Consensus pattern (58 bp):
TTAATATCTTTGTTAGTTTGTGGGTTTTTCTTCTTTTGGCTTGATTTGATGTGTAGTT
Found at i:121004443 original size:28 final size:23
Alignment explanation
Indices: 121004392--121004437 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
121004382 TCTTATGAAA
121004392 AAAATTAAATGTTCATAAGTTTT
1 AAAATTAAATGTTCATAAGTTTT
121004415 AAAATTAAATGTTCATAAGTTTT
1 AAAATTAAATGTTCATAAGTTTT
121004438 CTTTTACAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.43
Consensus pattern (23 bp):
AAAATTAAATGTTCATAAGTTTT
Found at i:121010804 original size:218 final size:217
Alignment explanation
Indices: 121010393--121010952 Score: 807
Period size: 218 Copynumber: 2.6 Consensus size: 217
121010383 TCCTTGTATT
* *
121010393 ACAACTTTACGCAAAAGAATTACAAAAAGCAAACCCTCCAAGGCCGAGGAGCTTACACTAGTTTA
1 ACAACTTTACGCAAAAGAATTACAAAAAGCAAACCCT-CAAGGCCAAGGAGCTTACACTAGTTTG
* *
121010458 CAGTTCTTTTGTGACATAAAACACACTATCCCTACATATAAAATGTACAAGTCATGATGCATTCA
65 CAGGTCTTTTGTGACATAAAACACACTATCCCTACATATAAAATGTACAAATCATGATGCATTCA
* ** * * *
121010523 GCTGGGGATGAAGACGAGATACATGAATGGCGGCTTTTTCCTTTGTAAAATGTTTCAAATGCAAC
130 ACAAGGGATGAAGACGAGATACATGAATGACGGCTTTCTCCTTTATAAAATGTTTCAAATGCAAC
* *
121010588 TACCATCCATATCGAAGACAAAA
195 TACCATCCACATCGAAAACAAAA
** * * *
121010611 ACAACTTTGTGCAAAAGAATTACAAAAAACAAACCCTGCGAGGCCAAGGAGCTTACACTAATTTG
1 ACAACTTTACGCAAAAGAATTACAAAAAGCAAACCCT-CAAGGCCAAGGAGCTTACACTAGTTTG
* *
121010676 CAGGTCTATTGTGACATAAAACATACTATCCCTACATATAAAATGTACAAATCATGATGCATTCA
65 CAGGTCTTTTGTGACATAAAACACACTATCCCTACATATAAAATGTACAAATCATGATGCATTCA
* * *
121010741 ACAAGGGATGAAGACGAGATACATGAATGATGGCCTTTCTCC-TTATAAAGTGTTTCGAATGCAA
130 ACAAGGGATGAAGACGAGATACATGAATGACGG-CTTTCTCCTTTATAAAATGTTTCAAATGCAA
121010805 CTACCATCCACATCGAAAACAAAA
194 CTACCATCCACATCGAAAACAAAA
* * * * *
121010829 ACAACTTTACACAAAAAAAATACAAAAAGCAAACCCTCCAGGGCCAAGGAGCTTAAACTAGTTTG
1 ACAACTTTACGCAAAAGAATTACAAAAAGCAAACCCT-CAAGGCCAAGGAGCTTACACTAGTTTG
* *
121010894 CACGTCTTTTTATGACATAAAACACACTATCCCTACATATAAAATGTACAAATCATGAT
65 CAGGTC-TTTTGTGACATAAAACACACTATCCCTACATATAAAATGTACAAATCATGAT
121010953 CCACCATGCT
Statistics
Matches: 302, Mismatches: 38, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
218 246 0.81
219 56 0.19
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.24
Consensus pattern (217 bp):
ACAACTTTACGCAAAAGAATTACAAAAAGCAAACCCTCAAGGCCAAGGAGCTTACACTAGTTTGC
AGGTCTTTTGTGACATAAAACACACTATCCCTACATATAAAATGTACAAATCATGATGCATTCAA
CAAGGGATGAAGACGAGATACATGAATGACGGCTTTCTCCTTTATAAAATGTTTCAAATGCAACT
ACCATCCACATCGAAAACAAAA
Found at i:121012394 original size:35 final size:35
Alignment explanation
Indices: 121012348--121012418 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
121012338 ACTTCACTAT
*
121012348 ACAAAGCAACCATAAAAATCTCTATATAGTTCAGA
1 ACAAAGCAACCATAAAAATCTCGATATAGTTCAGA
*
121012383 ACAAAGCAACCATAAGAATCTCGATATAGTTCAGA
1 ACAAAGCAACCATAAAAATCTCGATATAGTTCAGA
121012418 A
1 A
121012419 ATTTTTCCCT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.48, C:0.20, G:0.11, T:0.21
Consensus pattern (35 bp):
ACAAAGCAACCATAAAAATCTCGATATAGTTCAGA
Found at i:121017001 original size:20 final size:20
Alignment explanation
Indices: 121016978--121017020 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
121016968 AATAAACAGT
121016978 AAAT-CAAATAAACGTAAAAA
1 AAATCCAAA-AAACGTAAAAA
*
121016998 AAATCCAAAAAATGTAAAAA
1 AAATCCAAAAAACGTAAAAA
121017018 AAA
1 AAA
121017021 AACCATAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.72, C:0.09, G:0.05, T:0.14
Consensus pattern (20 bp):
AAATCCAAAAAACGTAAAAA
Found at i:121017079 original size:25 final size:24
Alignment explanation
Indices: 121017045--121017092 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
121017035 ATAATCAGCA
* *
121017045 CAATTGGAATCATCTCCGGAAACAT
1 CAATGGGAAT-ATCGCCGGAAACAT
*
121017070 CAATGGGAATATCGCGGGAAACA
1 CAATGGGAATATCGCCGGAAACA
121017093 ACGTTAGTGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.19
Consensus pattern (24 bp):
CAATGGGAATATCGCCGGAAACAT
Done.