Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 122 of 210
Found at i:36895361 original size:13 final size:12
Alignment explanation
Indices: 36895331--36895365 Score: 54
Period size: 11 Copynumber: 2.9 Consensus size: 12
36895321 ACAGTATTGT
36895331 AAAAAAATTC-A
1 AAAAAAATTCAA
36895342 AAAAAAATTCAA
1 AAAAAAATTCAA
36895354 AAAGAAAATTCA
1 AAA-AAAATTCA
36895366 TGAAATCTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 10 0.45
12 4 0.18
13 8 0.36
ACGTcount: A:0.71, C:0.09, G:0.03, T:0.17
Consensus pattern (12 bp):
AAAAAAATTCAA
Found at i:36895423 original size:11 final size:10
Alignment explanation
Indices: 36895406--36895445 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
36895396 ATTTTGTATG
36895406 AAAAAAATTA
1 AAAAAAATTA
*
36895416 ATAAAAAAATA
1 A-AAAAAATTA
*
36895427 AAAAAAATCA
1 AAAAAAATTA
36895437 AAAAAAATT
1 AAAAAAATT
36895446 CATGGAAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (10 bp):
AAAAAAATTA
Found at i:36896031 original size:22 final size:22
Alignment explanation
Indices: 36895979--36896043 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
36895969 TATTTGGGAA
* * *
36895979 TTGGTATGAAACGGTAAGGGAT
1 TTGGTACGAAATGGTAATGGAT
**
36896001 TTGAAACGAAATGGTAATGGAT
1 TTGGTACGAAATGGTAATGGAT
*
36896023 TTGGTACGAAAATGGAAATGG
1 TTGGTACG-AAATGGTAATGG
36896044 TTCAAAAAGG
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
22 23 0.68
23 11 0.32
ACGTcount: A:0.37, C:0.05, G:0.32, T:0.26
Consensus pattern (22 bp):
TTGGTACGAAATGGTAATGGAT
Found at i:36898067 original size:18 final size:18
Alignment explanation
Indices: 36898033--36898070 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
36898023 AAAAGAAAAC
*
36898033 TGAAAAAGAAAGTGATAG
1 TGAAAAAGAAAGCGATAG
36898051 TGAAGAAAGAAA-CGATAG
1 TGAA-AAAGAAAGCGATAG
36898069 TG
1 TG
36898071 TACAAGAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.53, C:0.03, G:0.29, T:0.16
Consensus pattern (18 bp):
TGAAAAAGAAAGCGATAG
Found at i:36903102 original size:46 final size:45
Alignment explanation
Indices: 36903050--36903171 Score: 181
Period size: 46 Copynumber: 2.6 Consensus size: 45
36903040 TCCTGGTATG
*
36903050 GTGCCATAGTGCCTTTCAACTATAGTCTTATTTATTTTCCACTATA
1 GTGCCATAGTGTCTTTCAACTAT-GTCTTATTTATTTTCCACTATA
**
36903096 GTGCCATAGTGTCTTTCAACTATGATCTTATTTATTTTCCTGTATA
1 GTGCCATAGTGTCTTTCAACTATG-TCTTATTTATTTTCCACTATA
*
36903142 GTGTCATAGTGTCTTTCAACTATGGTCTTA
1 GTGCCATAGTGTCTTTCAACTAT-GTCTTA
36903172 ATCATTTCCT
Statistics
Matches: 70, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
45 1 0.01
46 68 0.97
47 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.14, T:0.45
Consensus pattern (45 bp):
GTGCCATAGTGTCTTTCAACTATGTCTTATTTATTTTCCACTATA
Found at i:36903117 original size:24 final size:24
Alignment explanation
Indices: 36903050--36903118 Score: 63
Period size: 22 Copynumber: 3.0 Consensus size: 24
36903040 TCCTGGTATG
*
36903050 GTGCCATAGTGCCTTTCAACTATA
1 GTGCCATAGTGTCTTTCAACTATA
* * * *
36903074 GT--CTTA-TTTATTTTCCACTATA
1 GTGCCATAGTGT-CTTTCAACTATA
36903096 GTGCCATAGTGTCTTTCAACTAT
1 GTGCCATAGTGTCTTTCAACTAT
36903119 GATCTTATTT
Statistics
Matches: 32, Mismatches: 9, Indels: 8
0.65 0.18 0.16
Matches are distributed among these distances:
21 1 0.03
22 15 0.47
24 14 0.44
25 2 0.06
ACGTcount: A:0.23, C:0.22, G:0.13, T:0.42
Consensus pattern (24 bp):
GTGCCATAGTGTCTTTCAACTATA
Found at i:36904853 original size:45 final size:45
Alignment explanation
Indices: 36904802--36904888 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
36904792 TATGCACCGA
* * *
36904802 ACATCATTGATTAGTAAGGCGGTTGCTATGTGCTGATTCCACTAG
1 ACATCATTGATTAATAAGGCGGTTGCTATGTACTGAATCCACTAG
*
36904847 ACATCATTGATTAATAAGGTGGTTGCTATGTACTGAATCCAC
1 ACATCATTGATTAATAAGGCGGTTGCTATGTACTGAATCCAC
36904889 CTAGGATCCG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGCGGTTGCTATGTACTGAATCCACTAG
Found at i:36911832 original size:25 final size:26
Alignment explanation
Indices: 36911777--36911835 Score: 93
Period size: 25 Copynumber: 2.3 Consensus size: 26
36911767 AATATGTGAT
36911777 TTAAATTGGTCTTAGCTTAAGACAAA
1 TTAAATTGGTCTTAGCTTAAGACAAA
* *
36911803 ATAAATTGGTCTTAG-TTTAGACAAA
1 TTAAATTGGTCTTAGCTTAAGACAAA
36911828 TTAAATTG
1 TTAAATTG
36911836 ACGTTAGTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 16 0.53
26 14 0.47
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.37
Consensus pattern (26 bp):
TTAAATTGGTCTTAGCTTAAGACAAA
Found at i:36911842 original size:25 final size:25
Alignment explanation
Indices: 36911778--36911850 Score: 76
Period size: 25 Copynumber: 2.9 Consensus size: 25
36911768 ATATGTGATT
* *
36911778 TAAATTGGTCTTAGCTTAAGACAAAA
1 TAAATTGGACTTAG-TTCAGACAAAA
* * *
36911804 TAAATTGGTCTTAGTTTAGACAAAT
1 TAAATTGGACTTAGTTCAGACAAAA
36911829 TAAATT-GACGTTAGTTCAGACA
1 TAAATTGGAC-TTAGTTCAGACA
36911851 CCTTAATTGT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
24 2 0.05
25 26 0.62
26 14 0.33
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.34
Consensus pattern (25 bp):
TAAATTGGACTTAGTTCAGACAAAA
Found at i:36915129 original size:29 final size:30
Alignment explanation
Indices: 36915093--36915285 Score: 171
Period size: 30 Copynumber: 6.5 Consensus size: 30
36915083 CTATCAAAAT
36915093 AATGAAAAGGGATAGTGACGACCATC-AAC
1 AATGAAAAGGGATAGTGACGACCATCGAAC
* *
36915122 AATGAAAAGGGATGGTGACAACCATCGAAC
1 AATGAAAAGGGATAGTGACGACCATCGAAC
* * * *
36915152 AATGAAAAGGGATAGCT-TCGGCTATCGAAT
1 AATGAAAAGGGATAG-TGACGACCATCGAAC
** * * * *
36915182 TGTGAAAAGGGATAGCT-TCGGCTATC-AAA
1 AATGAAAAGGGATAG-TGACGACCATCGAAC
*
36915211 ATATGAAAAGGGATGGTGACGACCATC-AAC
1 A-ATGAAAAGGGATAGTGACGACCATCGAAC
* * * *
36915241 AATGAAAAGGGATGGTGACAACCATCAAAT
1 AATGAAAAGGGATAGTGACGACCATCGAAC
36915271 AATGAAAAGGGATAG
1 AATGAAAAGGGATAG
36915286 CTTCGGCTAT
Statistics
Matches: 138, Mismatches: 21, Indels: 9
0.82 0.12 0.05
Matches are distributed among these distances:
29 51 0.37
30 86 0.62
31 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.26, T:0.18
Consensus pattern (30 bp):
AATGAAAAGGGATAGTGACGACCATCGAAC
Found at i:36915277 original size:89 final size:89
Alignment explanation
Indices: 36915089--36915295 Score: 249
Period size: 89 Copynumber: 2.3 Consensus size: 89
36915079 TCGGCTATCA
* * * *
36915089 AAATAATGAAAAGGGATAG-TGACGACCATCAACAATGAAAAGGGATGGTGACAACCATCGAACA
1 AAATAATGAAAAGGGATAGCT-TCGGCTATCAAAAATGAAAAGGGATGGTGACAACCATCGAACA
* ** *
36915153 ATGAAAAGGGATAGCTTCGGCTATC
65 ATGAAAAGGGATAGCTACAACCATC
* ** *
36915178 GAATTGTGAAAAGGGATAGCTTCGGCTATCAAAATATGAAAAGGGATGGTGACGACCATC-AACA
1 AAATAATGAAAAGGGATAGCTTCGGCTATCAAAA-ATGAAAAGGGATGGTGACAACCATCGAACA
*
36915242 ATGAAAAGGGAT-GGTGACAACCATC
65 ATGAAAAGGGATAGCT-ACAACCATC
36915267 AAATAATGAAAAGGGATAGCTTCGGCTAT
1 AAATAATGAAAAGGGATAGCTTCGGCTAT
36915296 TGAGCTGCGA
Statistics
Matches: 99, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
88 2 0.02
89 72 0.73
90 25 0.25
ACGTcount: A:0.41, C:0.14, G:0.26, T:0.19
Consensus pattern (89 bp):
AAATAATGAAAAGGGATAGCTTCGGCTATCAAAAATGAAAAGGGATGGTGACAACCATCGAACAA
TGAAAAGGGATAGCTACAACCATC
Found at i:36915308 original size:30 final size:30
Alignment explanation
Indices: 36915274--36915341 Score: 91
Period size: 30 Copynumber: 2.3 Consensus size: 30
36915264 ATCAAATAAT
* * *
36915274 GAAAAGGGATAGCTTCGGCTATTGAGCTGC
1 GAAAAGGGATAGCTTCGACTATCGAGCTAC
* *
36915304 GAAAAGGGATAGCTTTGACTATCGAGCTAT
1 GAAAAGGGATAGCTTCGACTATCGAGCTAC
36915334 GAAAAGGG
1 GAAAAGGG
36915342 TTGGGACAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.32, C:0.13, G:0.32, T:0.22
Consensus pattern (30 bp):
GAAAAGGGATAGCTTCGACTATCGAGCTAC
Found at i:36915308 original size:119 final size:119
Alignment explanation
Indices: 36915079--36915341 Score: 409
Period size: 119 Copynumber: 2.2 Consensus size: 119
36915069 TCCACAATCA
36915079 TCGGCTATCAAAATAATGAAAAGGGATAGTGACGACCATCAACAATGAAAAGGGATGGTGACAAC
1 TCGGCTATCAAAAT-ATGAAAAGGGATAGTGACGACCATCAACAATGAAAAGGGATGGTGACAAC
* * *
36915144 CATCGAACAATGAAAAGGGATAGCTTCGGCTATCGAATTGTGAAAAGGGATAGCT
65 CATCAAACAATGAAAAGGGATAGCTTCGGCTATCGAACTGCGAAAAGGGATAGCT
*
36915199 TCGGCTATCAAAATATGAAAAGGGATGGTGACGACCATCAACAATGAAAAGGGATGGTGACAACC
1 TCGGCTATCAAAATATGAAAAGGGATAGTGACGACCATCAACAATGAAAAGGGATGGTGACAACC
* * *
36915264 ATCAAATAATGAAAAGGGATAGCTTCGGCTATTGAGCTGCGAAAAGGGATAGCT
66 ATCAAACAATGAAAAGGGATAGCTTCGGCTATCGAACTGCGAAAAGGGATAGCT
* * * **
36915318 TTGACTATCGAGCTATGAAAAGGG
1 TCGGCTATCAAAATATGAAAAGGG
36915342 TTGGGACAAA
Statistics
Matches: 131, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
119 117 0.89
120 14 0.11
ACGTcount: A:0.39, C:0.15, G:0.27, T:0.20
Consensus pattern (119 bp):
TCGGCTATCAAAATATGAAAAGGGATAGTGACGACCATCAACAATGAAAAGGGATGGTGACAACC
ATCAAACAATGAAAAGGGATAGCTTCGGCTATCGAACTGCGAAAAGGGATAGCT
Found at i:36916411 original size:12 final size:12
Alignment explanation
Indices: 36916394--36916419 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
36916384 GTAGTTACAT
36916394 GGCCTAGCACAC
1 GGCCTAGCACAC
36916406 GGCCTAGCACAC
1 GGCCTAGCACAC
36916418 GG
1 GG
36916420 GCGTATGGCT
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:0.23, C:0.38, G:0.31, T:0.08
Consensus pattern (12 bp):
GGCCTAGCACAC
Found at i:36928896 original size:20 final size:20
Alignment explanation
Indices: 36928873--36928935 Score: 54
Period size: 22 Copynumber: 3.0 Consensus size: 20
36928863 TACTTCGGTT
36928873 CCTCTGTTTGCACTTTGATG
1 CCTCTGTTTGCACTTTGATG
* * *
36928893 CCTCTTTTTTTGCACTATGGTG
1 CCTC--TGTTTGCACTTTGATG
* * *
36928915 TCTCTGTTAGCATTTTGATG
1 CCTCTGTTTGCACTTTGATG
36928935 C
1 C
36928936 TTTCTGGTGT
Statistics
Matches: 31, Mismatches: 10, Indels: 4
0.69 0.22 0.09
Matches are distributed among these distances:
20 15 0.48
22 16 0.52
ACGTcount: A:0.11, C:0.22, G:0.19, T:0.48
Consensus pattern (20 bp):
CCTCTGTTTGCACTTTGATG
Found at i:36935674 original size:27 final size:27
Alignment explanation
Indices: 36935644--36935706 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
36935634 AATCTTCATT
* *
36935644 TTCTTTTTCTTTTTCATT-TTCAGCAAC
1 TTCTTTTTCTTCTTC-TTCTTCAACAAC
*
36935671 TTCTTCTTCTTCTTCTTCTTCAACAAC
1 TTCTTTTTCTTCTTCTTCTTCAACAAC
*
36935698 TTCCTTTTC
1 TTCTTTTTC
36935707 AACAGCAGTG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
26 2 0.07
27 28 0.93
ACGTcount: A:0.13, C:0.29, G:0.02, T:0.57
Consensus pattern (27 bp):
TTCTTTTTCTTCTTCTTCTTCAACAAC
Found at i:36938908 original size:48 final size:49
Alignment explanation
Indices: 36938855--36938950 Score: 151
Period size: 49 Copynumber: 2.0 Consensus size: 49
36938845 ATGCCGAAAT
*
36938855 TATTTAAGCAACT-AA-AAAATTCAAAACAACTTAATTAATTAAACTAAG
1 TATTTAAGCAACTAAAGAAAATT-AAAACAACTGAATTAATTAAACTAAG
*
36938903 TATTTAAGCAGCTAAAGAAAATTAAAACAACTGAATTAATTAAACTAA
1 TATTTAAGCAACTAAAGAAAATTAAAACAACTGAATTAATTAAACTAA
36938951 ACATATTAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
48 12 0.27
49 26 0.59
50 6 0.14
ACGTcount: A:0.54, C:0.11, G:0.06, T:0.28
Consensus pattern (49 bp):
TATTTAAGCAACTAAAGAAAATTAAAACAACTGAATTAATTAAACTAAG
Found at i:36940972 original size:6 final size:6
Alignment explanation
Indices: 36940963--36941011 Score: 50
Period size: 6 Copynumber: 8.7 Consensus size: 6
36940953 CTCTTCTTCT
* * *
36940963 TTTTCA TTTTCA TTTTC- TTTTC- -TTTCA ATTTCT TTTTCA CTTTCA
1 TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA
36941008 TTTT
1 TTTT
36941012 TCTCTTCTCG
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
4 4 0.11
5 5 0.14
6 27 0.75
ACGTcount: A:0.12, C:0.18, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTTCA
Found at i:36940973 original size:21 final size:21
Alignment explanation
Indices: 36940949--36941036 Score: 60
Period size: 21 Copynumber: 4.3 Consensus size: 21
36940939 TCTCTCTTGC
36940949 TTTCCTCTTCTTCTTTTTCAT
1 TTTCCTCTTCTTCTTTTTCAT
* * *
36940970 TTTCATTTTCTT-TTCTTTCAA
1 TTTCCTCTTCTTCTT-TTTCAT
**
36940991 TTT-CT-TT-TTCACTTTCAT
1 TTTCCTCTTCTTCTTTTTCAT
* *
36941009 TTTTCTCTTC-TCGTTTTTCTT
1 TTTCCTCTTCTTC-TTTTTCAT
36941030 TTTCCTC
1 TTTCCTC
36941037 CCTTGTTTTT
Statistics
Matches: 50, Mismatches: 11, Indels: 12
0.68 0.15 0.16
Matches are distributed among these distances:
18 10 0.20
19 4 0.08
20 7 0.14
21 29 0.58
ACGTcount: A:0.07, C:0.25, G:0.01, T:0.67
Consensus pattern (21 bp):
TTTCCTCTTCTTCTTTTTCAT
Found at i:36940979 original size:27 final size:27
Alignment explanation
Indices: 36940949--36941033 Score: 64
Period size: 33 Copynumber: 2.9 Consensus size: 27
36940939 TCTCTCTTGC
36940949 TTTCCTCTTCTTCTTTTTCATTTTCAT
1 TTTCCTCTTCTTCTTTTTCATTTTCAT
* *
36940976 TTTCTTTTCTTTCAATTTCTTTTTCACTTTCAT
1 TTTC--CTC-TTC---TTCTTTTTCATTTTCAT
* *
36941009 TTTTCTCTTC-TCGTTTTTCTTTTTC
1 TTTCCTCTTCTTC-TTTTTCATTTTC
36941034 CTCCCTTGTT
Statistics
Matches: 45, Mismatches: 6, Indels: 14
0.69 0.09 0.22
Matches are distributed among these distances:
26 2 0.04
27 14 0.31
29 2 0.04
30 6 0.13
31 2 0.04
33 19 0.42
ACGTcount: A:0.07, C:0.24, G:0.01, T:0.68
Consensus pattern (27 bp):
TTTCCTCTTCTTCTTTTTCATTTTCAT
Found at i:36941766 original size:101 final size:101
Alignment explanation
Indices: 36941591--36941793 Score: 397
Period size: 101 Copynumber: 2.0 Consensus size: 101
36941581 TCAGCAAATG
36941591 TTAGTAAACAAAAGACAATTAATAGTAAATGATCCTCACCACAAAGCTCACGAATATCTCTCGCA
1 TTAGTAAACAAAAGACAATTAATAGTAAATGATCCTCACCACAAAGCTCACGAATATCTCTCGCA
36941656 AAGAAAATATAAATGACACACCACTCGTGTTTGCAC
66 AAGAAAATATAAATGACACACCACTCGTGTTTGCAC
*
36941692 TTAGTAAACAAAAGACAATTAATAGTAAATGATCCTCACCACAAAGCTCACGGATATCTCTCGCA
1 TTAGTAAACAAAAGACAATTAATAGTAAATGATCCTCACCACAAAGCTCACGAATATCTCTCGCA
36941757 AAGAAAATATAAATGACACACCACTCGTGTTTGCAC
66 AAGAAAATATAAATGACACACCACTCGTGTTTGCAC
36941793 T
1 T
36941794 CACACTCACT
Statistics
Matches: 101, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
101 101 1.00
ACGTcount: A:0.42, C:0.23, G:0.12, T:0.23
Consensus pattern (101 bp):
TTAGTAAACAAAAGACAATTAATAGTAAATGATCCTCACCACAAAGCTCACGAATATCTCTCGCA
AAGAAAATATAAATGACACACCACTCGTGTTTGCAC
Found at i:36942091 original size:16 final size:16
Alignment explanation
Indices: 36942066--36942096 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36942056 TCTGGATTTG
36942066 TAATTACAATTTTTTT
1 TAATTACAATTTTTTT
*
36942082 TAATTTCAATTTTTT
1 TAATTACAATTTTTT
36942097 CGATATTTTT
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:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (16 bp):
TAATTACAATTTTTTT
Found at i:36945709 original size:51 final size:49
Alignment explanation
Indices: 36945588--36945721 Score: 151
Period size: 50 Copynumber: 2.7 Consensus size: 49
36945578 AAAGTGATGG
* * * *
36945588 TCACGTGTGTAATACTATGTGCAGGCTACTACGCGTACCAGAATGATAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACC-GAATGTTTGA
** * * *
36945638 TTGCATGTGTAGTACTATGTGTAGGCTACTATGCGTACCGAATAGTTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCGAAT-GTTT-GA
*
36945689 TCACGTGTGTAGTACTATGTGCAGCCTACTACG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACG
36945722 TGTATCGGCT
Statistics
Matches: 67, Mismatches: 15, Indels: 3
0.79 0.18 0.04
Matches are distributed among these distances:
49 4 0.06
50 35 0.52
51 28 0.42
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (49 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCGAATGTTTGA
Found at i:36945780 original size:102 final size:101
Alignment explanation
Indices: 36945588--36945781 Score: 255
Period size: 102 Copynumber: 1.9 Consensus size: 101
36945578 AAAGTGATGG
* ** *
36945588 TCACGTGTGTAATACTATGTGCAGGCTACTACGCGTACCAGAATGATAGGTTGCATGTGTAGTAC
1 TCACGTGTGTAATACTATGTGCAGCCTACTACGCGTACCAGAATGATAGGTCACATGTATAGTAC
*
36945653 TATGTGTAGGCTACTATGCGTACCGAATAGTTTCGA
66 TATGTGTAGGCTACTATGCGAACCGAATAGTTTCGA
* * * ** *
36945689 TCACGTGTGTAGTACTATGTGCAGCCTACTACGTGTATC-GGCTGGTAATGGTCACATGTATAGT
1 TCACGTGTGTAATACTATGTGCAGCCTACTACGCGTACCAGAATGAT-A-GGTCACATGTATAGT
*
36945753 ACTATGTGTAGGCTACTATGTGAACCGAA
64 ACTATGTGTAGGCTACTATGCGAACCGAA
36945782 CATCATTGAT
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
100 4 0.05
101 36 0.46
102 39 0.49
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (101 bp):
TCACGTGTGTAATACTATGTGCAGCCTACTACGCGTACCAGAATGATAGGTCACATGTATAGTAC
TATGTGTAGGCTACTATGCGAACCGAATAGTTTCGA
Found at i:36947939 original size:27 final size:27
Alignment explanation
Indices: 36947909--36947974 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 27
36947899 TTTAATAGTA
*
36947909 ACAGTACAGTGTGGGCCTTAGCCCAAT
1 ACAGTACAGTGTGGGCCTAAGCCCAAT
* * *
36947936 ACAGAAATAGTGTGGGCCTAAGCCCGAT
1 ACAG-TACAGTGTGGGCCTAAGCCCAAT
36947964 ACAGTATCAGT
1 ACAGTA-CAGT
36947975 ATGGTGCAAG
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
27 5 0.16
28 26 0.84
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.21
Consensus pattern (27 bp):
ACAGTACAGTGTGGGCCTAAGCCCAAT
Found at i:36949295 original size:16 final size:17
Alignment explanation
Indices: 36949263--36949296 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
36949253 ATAAATATAC
36949263 AAAAACAATAATATATT
1 AAAAACAATAATATATT
*
36949280 AAAAA-AATAATTTATT
1 AAAAACAATAATATATT
36949296 A
1 A
36949297 TGAACTATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAAACAATAATATATT
Found at i:36949697 original size:3 final size:3
Alignment explanation
Indices: 36949689--36949725 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
36949679 GATATCGACG
36949689 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
36949726 ATTGATTAAA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:36951584 original size:50 final size:50
Alignment explanation
Indices: 36951445--36951589 Score: 150
Period size: 50 Copynumber: 2.9 Consensus size: 50
36951435 CTTCTGTCTG
* * *
36951445 ACTGCAATGTCTGGGAAACAAGATTTACCG-TCGTAGCTTTAATCTATTTC
1 ACTGCAATGTCTGGGAAGCAAGATTCACCGAT-GTAGCTTTAATCTATTTA
* * * * * * *
36951495 ACTACACTGCCTGGGAAGTAAGATTC-GCTATTGTAGCTTTAATCTTTTTA
1 ACTGCAATGTCTGGGAAGCAAGATTCACCGA-TGTAGCTTTAATCTATTTA
* *
36951545 ACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCT
1 ACTGCAATGTCTGGGAAGCAAGATTCACCGATGTAGCTTTAATCT
36951590 GCTTCACTGT
Statistics
Matches: 74, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
49 1 0.01
50 70 0.95
51 3 0.04
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (50 bp):
ACTGCAATGTCTGGGAAGCAAGATTCACCGATGTAGCTTTAATCTATTTA
Found at i:36951621 original size:100 final size:93
Alignment explanation
Indices: 36951445--36951684 Score: 236
Period size: 100 Copynumber: 2.5 Consensus size: 93
36951435 CTTCTGTCTG
* * * * **
36951445 ACTGCAATGTCTGGGAAACAAGATTTACCG-TCGTAGCTTTAATCTATTTCACTACACTGCCTGG
1 ACTGCAATGTCGGGGAAGCAAGATTCACCGAT-GTGGCTTTAATCTGCTTCACTACACTG-CTGG
* *
36951509 GAAGTAAGATTCGCTATTGTAGCTTTAA-TCTTTTTA
64 GAAGTAAAATTCGC---TGT--C-GTAACT-TTTTTA
36951545 ACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGCTTCACTGTATCAC-G-TG
1 ACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGCTTCAC--TA-CACTGCTG
*
36951608 GGGAGTAAAATTCGCTGTCGTAACTTTTTTA
63 GGAAGTAAAATTCGCTGTCGTAACTTTTTTA
* * *
36951639 ACTGCAATGTTGGGGAAGCGAGATTCACCAATGTGGCTTTAATCTG
1 ACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTG
36951685 TTCTGCTGTA
Statistics
Matches: 123, Mismatches: 12, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
94 52 0.42
95 2 0.02
97 3 0.02
100 59 0.48
101 1 0.01
102 3 0.02
103 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.33
Consensus pattern (93 bp):
ACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGCTTCACTACACTGCTGGGA
AGTAAAATTCGCTGTCGTAACTTTTTTA
Found at i:36951720 original size:44 final size:44
Alignment explanation
Indices: 36951672--36952171 Score: 256
Period size: 44 Copynumber: 11.5 Consensus size: 44
36951662 TTCACCAATG
* * *
36951672 TGGCTTTAATCTGTTCTGCTGTAATCTCAGGGAGATAAGATTTC
1 TGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTC
* *
36951716 TGGCTTCAATCTACTCCGCTGTAACCTCAGGGAGATAAGATTTC
1 TGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTC
* * ** *
36951760 TGGCTTCAATCTGCTCCGCTGTAACCTTAGAAAGATAAGA--CC
1 TGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTC
* * * * ** * *
36951802 T-GATGCGATCTACTCTACTGTAATTTCAGAGAGATAAGATCCTT-
1 TGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT--TTC
** * * * * * * *
36951846 T-ATTTTAATCCGCTCTAG-TGTAATCTTAGGGAAATAGGATTAC
1 TGGCTTCAATCTGCTC-CGCTGTAATCTCAGGGAGATAAGATTTC
*
36951889 TGGCTTCAATCTGCTCCGTTGTAATCTCAGGGAGATAAGATTTC
1 TGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTC
* * * * *
36951933 TTGCTTCAATCTGCTCCACTGTAACCTCAGTGAGATAAGATTTGAAA
1 TGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTT---C
* ** * * * *
36951980 T-TCTTCGCTCTGTTCCACTGTAATCTCAGGGAAATAAGA--CC
1 TGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTC
* * * * * ** * * *
36952021 T-GATGCGATTTACTCTACTGTAATTTCAGAGAGATAAGAACCTTTA
1 TGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAG-A--TTTC
* * * * * *
36952067 T---TTTAATCCGCTCTAG-TGTAATCTCAGGGAAATAGGATTAC
1 TGGCTTCAATCTGCTC-CGCTGTAATCTCAGGGAGATAAGATTTC
* * * *
36952108 TGGCTTTAAT-TCGCTCCGTTGTAATCTCAGGGAAATAAGATTAC
1 TGGCTTCAATCT-GCTCCGCTGTAATCTCAGGGAGATAAGATTTC
36952152 TGGCTTCAATCTGCTCCGCT
1 TGGCTTCAATCTGCTCCGCT
36952172 ACTGCTTAGG
Statistics
Matches: 341, Mismatches: 92, Indels: 46
0.71 0.19 0.10
Matches are distributed among these distances:
41 58 0.17
42 4 0.01
43 4 0.01
44 241 0.71
45 1 0.00
46 32 0.09
47 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.33
Consensus pattern (44 bp):
TGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTC
Found at i:36952074 original size:219 final size:217
Alignment explanation
Indices: 36951672--36952168 Score: 730
Period size: 219 Copynumber: 2.3 Consensus size: 217
36951662 TTCACCAATG
* * * * *
36951672 TGGCTTTAATCTGTTCTGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTACTCCGCTG
1 TGGCTTTAATCTGCTCCGTTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCCACTG
* * *
36951737 TAACCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCCGCTGTAACCTTAGAAAGATAAGACC
66 TAACCTCAGGGAGATAAGATTTATGGCTTCAATCTGCTCCACTGTAACCTCAGAAAGATAAGACC
*
36951802 TGATGCGATCTACTCTACTGTAATTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCTAGTGT
131 TGATGCGATCTACTCTACTGTAATTTCAGAGAGATAAGAACCTTTATTTTAATCCGCTCTAGTGT
*
36951867 AATCTTAGGGAAATAGGATTAC
196 AATCTCAGGGAAATAGGATTAC
* *
36951889 TGGCTTCAATCTGCTCCGTTGTAATCTCAGGGAGATAAGATTTCTTGCTTCAATCTGCTCCACTG
1 TGGCTTTAATCTGCTCCGTTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCCACTG
* * ** * * *
36951954 TAACCTCAGTGAGATAAGATTTGAAAT-TCTTCGCTCTGTTCCACTGTAATCTCAGGGAA-ATAA
66 TAACCTCAGGGAGATAAGATTT---ATGGCTTCAATCTGCTCCACTGTAACCTCA-GAAAGATAA
*
36952017 GACCTGATGCGATTTACTCTACTGTAATTTCAGAGAGATAAGAACCTTTATTTTAATCCGCTCTA
127 GACCTGATGCGATCTACTCTACTGTAATTTCAGAGAGATAAGAACCTTTATTTTAATCCGCTCTA
36952082 GTGTAATCTCAGGGAAATAGGATTAC
192 GTGTAATCTCAGGGAAATAGGATTAC
* *
36952108 TGGCTTTAAT-TCGCTCCGTTGTAATCTCAGGGAAATAAGATTACTGGCTTCAATCTGCTCC
1 TGGCTTTAATCT-GCTCCGTTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCC
36952169 GCTACTGCTT
Statistics
Matches: 251, Mismatches: 24, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
217 79 0.31
218 1 0.00
219 167 0.67
220 4 0.02
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.33
Consensus pattern (217 bp):
TGGCTTTAATCTGCTCCGTTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCCACTG
TAACCTCAGGGAGATAAGATTTATGGCTTCAATCTGCTCCACTGTAACCTCAGAAAGATAAGACC
TGATGCGATCTACTCTACTGTAATTTCAGAGAGATAAGAACCTTTATTTTAATCCGCTCTAGTGT
AATCTCAGGGAAATAGGATTAC
Found at i:36952300 original size:128 final size:128
Alignment explanation
Indices: 36952155--36953895 Score: 2511
Period size: 128 Copynumber: 13.7 Consensus size: 128
36952145 AGATTACTGG
* * *
36952155 CTTCAATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCTACTGCTG
1 CTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTG
* * * *
36952220 ACCAGGGAGATAGGACTTGTGGCTTAAATCTACTTCCTTACACTTGGAGATAAGATTCGCCGT
66 ACCAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCGT
* * *
36952283 CTTCAATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCTAACCTACTCCACTGCTG
1 CTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTG
* * * * *
36952348 ACAAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTGCCAT
66 ACCAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCGT
* *
36952411 CTTCGATCTGCTCCGCTACTGATTAGGGAGACAAGATCTGTAATTTTCAACCTATTCCACTGCTG
1 CTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTG
* * * *
36952476 ACTAGGGACATAGGACTTGTGGCTTAAAACTGCTTCCTTACTTTTGAAGATAGGATTCGCCGT
66 ACCAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCGT
* *
36952539 CTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCTACTGCTG
1 CTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTG
* * * * ** *
36952604 ACCAGAGAGATAGGATTTGTGGCTTAAATCTACTTCCTTAAACTTGAAGATAAGATTCGTCGT
66 ACCAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCGT
* * * * *
36952667 TTTCAATCTGCTCCGTTACTGCTTAGGGAGACAAGATTTGTAATTTCCAACCTATTCCACTGTTG
1 CTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTG
* *
36952732 ACCAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAATATAAGATTCGTCGT
66 ACCAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCGT
** * *
36952795 CTTCGATCTGCTCTACTACTACTCAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTG
1 CTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTG
*
36952860 ACCAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTTGCCG-
66 ACCAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCGT
* * *
36952922 CTTTCGATCTGCTCCGCTACTTCTTAGAGAGACAAGATCTGTAATTTCCCACCTATTCCACTGCT
1 C-TTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCT
*** *
36952987 GGTTAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTTGCCG-
65 GACCAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCGT
* * *
36953050 CTTTCGATCTGCTCCGCTACTGCTCAGGGAGACAAGATCTGTAATTTCCAACCTACTCTACTGCT
1 C-TTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCT
* * * * ** *
36953115 GACTAGAGAGATAGGACTTGTGGCTTAAATCTACTTCCTTAAACTTGAAGATAAGATTCACCGT
65 GACCAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCGT
* * *
36953179 CTTCAATCTGCTCCGTTACTGCTTAGGGAGACAAGATTTGTAATTTCCAACCTATTCCACTGCTG
1 CTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTG
*
36953244 ACCAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGTCGT
66 ACCAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCGT
* * *
36953307 CTTCGATCTGCTCCGCTACTGCTCAGGGAGACAAGATTTGTAATTTCCAATCTATTCCACTGCTG
1 CTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTG
* *
36953372 ACCAGGGACATAGGACTTGTGGCTTAAA---------TTACTTTTGAAGATAGGATTCGCCGT
66 ACCAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCGT
*
36953426 CTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTGCACTGCTG
1 CTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTG
* * * *
36953491 ACTAGGGACATAGAACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTTGCC-A
66 ACCAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCGT
36953553 CTTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCT
1 C-TTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCT
** * * * *
36953618 GGTCAGGGATATAGGACTTGTGGCTTAAATATGCTTCCTTACTCTTGAAGATAAGATTTGCC-A
65 GACCAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCGT
36953681 CTTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCT
1 C-TTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCT
** * * * * **
36953746 GGTCAGGGATATAGGACTTGTGGCTTAAATATGCTTCCTTACTCTCGAAGATAAGGTTTACCG-
65 GACCAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCGT
* *
36953809 CTTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCTAACCTATTCCACTGTT
1 C-TTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCT
** *
36953874 GGTCAGGGATATAGGACTTGTG
65 GACCAGGGACATAGGACTTGTG
36953896 ATTTCAGCGA
Statistics
Matches: 1471, Mismatches: 129, Indels: 26
0.90 0.08 0.02
Matches are distributed among these distances:
119 110 0.07
127 2 0.00
128 1358 0.92
129 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (128 bp):
CTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTG
ACCAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCGT
Found at i:36960925 original size:3 final size:3
Alignment explanation
Indices: 36960917--36960983 Score: 125
Period size: 3 Copynumber: 22.3 Consensus size: 3
36960907 GATATCGATG
36960917 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
36960965 ATA ATA ATA ACA ATA ATA A
1 ATA ATA ATA ATA ATA ATA A
36960984 ATTGATTAAA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:36962437 original size:32 final size:32
Alignment explanation
Indices: 36962369--36962569 Score: 208
Period size: 32 Copynumber: 6.2 Consensus size: 32
36962359 GAATGGCTAC
* *
36962369 AAGCCATAAGT-ACAGTAATGTGATTC-GCACA
1 AAGCCATCAGTAACAGTAATATGA-TCGGCACA
* *
36962400 AAGCCATCAGTAGCAGTGATATGATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* ** * *
36962432 TAGCCATCAGTAATGGTAACATGACCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * *
36962464 CAGCCATCAGTAACAGTGAAATATAATAGGCACA
1 AAGCCATCAGTAACAGT--AATATGATCGGCACA
* **
36962498 AAGCCATCAGTAACAGTACTATGATCAACACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* *
36962530 AAGCCATCAGTAATAGTAATATGATCGACACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
36962562 AAGCCATC
1 AAGCCATC
36962570 GGAAGTATAG
Statistics
Matches: 139, Mismatches: 27, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
31 12 0.09
32 100 0.72
34 27 0.19
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.19
Consensus pattern (32 bp):
AAGCCATCAGTAACAGTAATATGATCGGCACA
Found at i:36962535 original size:66 final size:65
Alignment explanation
Indices: 36962396--36962569 Score: 201
Period size: 66 Copynumber: 2.7 Consensus size: 65
36962386 ATGTGATTCG
* * ** **
36962396 CACAAAGCCATCAGTAGCAGTG-ATATGATCGGCACATAGCCATCAGTAATGGTAACATGACCGG
1 CACAAAGCCATCAGTAACAGTGAATATGATCGGCACAAAGCCATCAGTAACAGTAACATGACCAA
* * * *
36962460 CACACAGCCATCAGTAACAGTGAAATATAATAGGCACAAAGCCATCAGTAACAGT-ACTATGATC
1 CACAAAGCCATCAGTAACAGTG-AATATGATCGGCACAAAGCCATCAGTAACAGTAAC-ATGACC
36962524 AA
64 AA
* *
36962526 CACAAAGCCATCAGTAATAGT-AATATGATCGACACAAAGCCATC
1 CACAAAGCCATCAGTAACAGTGAATATGATCGGCACAAAGCCATC
36962570 GGAAGTATAG
Statistics
Matches: 92, Mismatches: 15, Indels: 6
0.81 0.13 0.05
Matches are distributed among these distances:
64 40 0.43
65 2 0.02
66 50 0.54
ACGTcount: A:0.40, C:0.24, G:0.18, T:0.18
Consensus pattern (65 bp):
CACAAAGCCATCAGTAACAGTGAATATGATCGGCACAAAGCCATCAGTAACAGTAACATGACCAA
Found at i:36962628 original size:26 final size:26
Alignment explanation
Indices: 36962580--36962629 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
36962570 GGAAGTATAG
* *
36962580 CAGCAAAGTTGCCGGCAACAGTATCA
1 CAGCAAAGCTGCCAGCAACAGTATCA
* *
36962606 CAGCAAAGCTGCCAGTAATAGTAT
1 CAGCAAAGCTGCCAGCAACAGTAT
36962630 ATGTGGCCAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.36, C:0.24, G:0.22, T:0.18
Consensus pattern (26 bp):
CAGCAAAGCTGCCAGCAACAGTATCA
Found at i:36962648 original size:27 final size:27
Alignment explanation
Indices: 36962617--36962680 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
36962607 AGCAAAGCTG
*
36962617 CCAGTAATAGT-ATATGTGGCCA-AGCCA
1 CCAGTAACAGTGAT-TGTGG-CAGAGCCA
*
36962644 TCAGTAACAGTGATTGTGGCAGAGCCA
1 CCAGTAACAGTGATTGTGGCAGAGCCA
36962671 CCAGT-ACAGT
1 CCAGTAACAGT
36962681 ACTTCCTCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
26 7 0.22
27 23 0.72
28 2 0.06
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (27 bp):
CCAGTAACAGTGATTGTGGCAGAGCCA
Found at i:36963065 original size:133 final size:133
Alignment explanation
Indices: 36962866--36963257 Score: 500
Period size: 133 Copynumber: 2.9 Consensus size: 133
36962856 CCCACCAGGG
* * ** *
36962866 CATTACGGTCATTTTACCCTATAGGGGCATTAATGTCATTTTACCTTATAGGGGCATTACGGTCA
1 CATTACAGTCATTTTACCCTATAGGGGTATTACGGTCATTTTACCCTATAGGGGCATTACGGTCA
*
36962931 TTTTACCCTACAGGGGCATTATGGTCATTTTACCTATAAGGGCATTACGGTCATTTTACCCGATA
66 TTTTACCCTACAGGGGCATTATGGTCATTTTACCTATAAGGGCATTACGGTCATTTTACCCGACA
*
36962996 GGA
131 CGA
* * *
36962999 CATTACAGTCATTTTACCCTAGAGGGGTATTACGGTCATTTTACCCTACAGGGGCATTACGATCA
1 CATTACAGTCATTTTACCCTATAGGGGTATTACGGTCATTTTACCCTATAGGGGCATTACGGTCA
* * * * *
36963064 TTTTACCCTACAAGGGCATTACGATCATTTTACCCATAAGGGCATTACGGTCATTTTACCCTACA
66 TTTTACCCTACAGGGGCATTATGGTCATTTTACCTATAAGGGCATTACGGTCATTTTACCCGACA
36963129 CGA
131 CGA
* * * * **
36963132 CATTATAGTCATTTTACCCTATAGGGGTATTACGATCATTTTACCCTATGGGGGTATTTTGGT-A
1 CATTACAGTCATTTTACCCTATAGGGGTATTACGGTCATTTTACCCTATAGGGGCATTACGGTCA
* * * * * * *
36963196 TTCTACCCTACGGGGGTATTTTGGTCATTTTACCCTAT-AGGGACATTTCAGTCATCTTACCC
66 TTTTACCCTACAGGGGCATTATGGTCATTTTA-CCTATAAGGG-CATTACGGTCATTTTACCC
36963258 ATCGAGGGTA
Statistics
Matches: 222, Mismatches: 35, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
132 30 0.14
133 192 0.86
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (133 bp):
CATTACAGTCATTTTACCCTATAGGGGTATTACGGTCATTTTACCCTATAGGGGCATTACGGTCA
TTTTACCCTACAGGGGCATTATGGTCATTTTACCTATAAGGGCATTACGGTCATTTTACCCGACA
CGA
Found at i:36963164 original size:53 final size:53
Alignment explanation
Indices: 36962852--36963310 Score: 390
Period size: 53 Copynumber: 8.6 Consensus size: 53
36962842 AAAATAGTAA
**
36962852 TTTACCC-ACCAGGGCATTACGGTCATTTTACCCTATAGGGGCATTAATGTCAT
1 TTTACCCTA-CAGGGCATTACGGTCATTTTACCCTATAGGGGCATTACGGTCAT
* * * *
36962905 TTTACCTTATAGGGGCATTACGGTCATTTTACCCTACAGGGGCATTATGGTCAT
1 TTTACCCTACA-GGGCATTACGGTCATTTTACCCTATAGGGGCATTACGGTCAT
* * * *
36962959 TTTA-CCTATAAGGGCATTACGGTCATTTTACCCGATA-GGACATTACAGTCAT
1 TTTACCCTA-CAGGGCATTACGGTCATTTTACCCTATAGGGGCATTACGGTCAT
* * * *
36963011 TTTACCCTAGAGGGGTATTACGGTCATTTTACCCTACAGGGGCATTACGATCAT
1 TTTACCCTACA-GGGCATTACGGTCATTTTACCCTATAGGGGCATTACGGTCAT
* *
36963065 TTTACCCTACAAGGGCATTACGATCATTTTACCC-ATAAGGGCATTACGGTCAT
1 TTTACCCTAC-AGGGCATTACGGTCATTTTACCCTATAGGGGCATTACGGTCAT
* * ** * *
36963118 TTTACCCTACACGACATTATAGTCATTTTACCCTATAGGGGTATTACGATCAT
1 TTTACCCTACAGGGCATTACGGTCATTTTACCCTATAGGGGCATTACGGTCAT
** * ** * ** * **
36963171 TTTACCCTATGGGGGTATTTTGGT-ATTCTACCCTACGGGGGTATTTTGGTCAT
1 TTTACCCTA-CAGGGCATTACGGTCATTTTACCCTATAGGGGCATTACGGTCAT
* * * * * * *
36963224 TTTACCCTATAGGGACATTTCAGTCATCTTACCC-ATCGAGGGTATTTCGGTCAT
1 TTTACCCTACAGGG-CATTACGGTCATTTTACCCTATAG-GGGCATTACGGTCAT
* * ** *
36963278 TTTACCTTTCGAGGATATTTCGGTCATTTTACC
1 TTTACCCTAC-AGGGCATTACGGTCATTTTACC
36963311 ATTTTGGGGT
Statistics
Matches: 330, Mismatches: 63, Indels: 25
0.79 0.15 0.06
Matches are distributed among these distances:
52 38 0.12
53 152 0.46
54 136 0.41
55 4 0.01
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (53 bp):
TTTACCCTACAGGGCATTACGGTCATTTTACCCTATAGGGGCATTACGGTCAT
Found at i:36963202 original size:26 final size:27
Alignment explanation
Indices: 36962872--36963329 Score: 160
Period size: 27 Copynumber: 17.1 Consensus size: 27
36962862 AGGGCATTAC
* * *
36962872 GGTCATTTTACCCTATAGGGGCATTAAT
1 GGTCATTTTACCCTATGGGGGTATT-TT
* * * **
36962900 -GTCATTTTACCTTATAGGGGCATTAC
1 GGTCATTTTACCCTATGGGGGTATTTT
** * *
36962926 GGTCATTTTACCCTACAGGGGCATTAT
1 GGTCATTTTACCCTATGGGGGTATTTT
** * **
36962953 GGTCATTTTA-CCTATAAGGGCATTAC
1 GGTCATTTTACCCTATGGGGGTATTTT
* * ** **
36962979 GGTCATTTTACCCGAT-AGGACATTAC
1 GGTCATTTTACCCTATGGGGGTATTTT
* **
36963005 AGTCATTTTACCCTA-GAGGGGTATTAC
1 GGTCATTTTACCCTATG-GGGGTATTTT
** * **
36963032 GGTCATTTTACCCTACAGGGGCATTAC
1 GGTCATTTTACCCTATGGGGGTATTTT
* *** * **
36963059 GATCATTTTACCCTACAAGGGCATTAC
1 GGTCATTTTACCCTATGGGGGTATTTT
* ** * **
36963086 GATCATTTTACCC-ATAAGGGCATTAC
1 GGTCATTTTACCCTATGGGGGTATTTT
*** ** *
36963112 GGTCATTTTACCCTA-CACGACATTAT
1 GGTCATTTTACCCTATGGGGGTATTTT
* * **
36963138 AGTCATTTTACCCTATAGGGGTATTAC
1 GGTCATTTTACCCTATGGGGGTATTTT
*
36963165 GATCATTTTACCCTATGGGGGTATTTT
1 GGTCATTTTACCCTATGGGGGTATTTT
* *
36963192 GGT-ATTCTACCCTACGGGGGTATTTT
1 GGTCATTTTACCCTATGGGGGTATTTT
* ** *
36963218 GGTCATTTTACCCTATAGGGACATTTC
1 GGTCATTTTACCCTATGGGGGTATTTT
* * * *
36963245 AGTCATCTTACCC-ATCGAGGGTATTTC
1 GGTCATTTTACCCTAT-GGGGGTATTTT
* * * *
36963272 GGTCATTTTA-CCTTTCGAGGATATTTC
1 GGTCATTTTACCCTAT-GGGGGTATTTT
* * * *
36963299 GGTCATTTTACCATTTTGGGGTATTTC
1 GGTCATTTTACCCTATGGGGGTATTTT
36963326 GGTC
1 GGTC
36963330 CAGATATCGA
Statistics
Matches: 358, Mismatches: 61, Indels: 23
0.81 0.14 0.05
Matches are distributed among these distances:
26 119 0.33
27 235 0.66
28 4 0.01
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (27 bp):
GGTCATTTTACCCTATGGGGGTATTTT
Found at i:36963243 original size:27 final size:27
Alignment explanation
Indices: 36962863--36963283 Score: 422
Period size: 27 Copynumber: 15.8 Consensus size: 27
36962853 TTACCCACCA
36962863 GGGCATTACGGTCATTTTACCCTATAG
1 GGGCATTACGGTCATTTTACCCTATAG
** *
36962890 GGGCATTAATGTCATTTTACCTTATAG
1 GGGCATTACGGTCATTTTACCCTATAG
*
36962917 GGGCATTACGGTCATTTTACCCTACAG
1 GGGCATTACGGTCATTTTACCCTATAG
* *
36962944 GGGCATTATGGTCATTTTA-CCTATAA
1 GGGCATTACGGTCATTTTACCCTATAG
*
36962970 GGGCATTACGGTCATTTTACCCGATA-
1 GGGCATTACGGTCATTTTACCCTATAG
* * *
36962996 GGACATTACAGTCATTTTACCCTAGAG
1 GGGCATTACGGTCATTTTACCCTATAG
* *
36963023 GGGTATTACGGTCATTTTACCCTACAG
1 GGGCATTACGGTCATTTTACCCTATAG
* * *
36963050 GGGCATTACGATCATTTTACCCTACAA
1 GGGCATTACGGTCATTTTACCCTATAG
* *
36963077 GGGCATTACGATCATTTTACCC-ATAA
1 GGGCATTACGGTCATTTTACCCTATAG
*
36963103 GGGCATTACGGTCATTTTACCCTACA-
1 GGGCATTACGGTCATTTTACCCTATAG
* * **
36963129 CGACATTATAGTCATTTTACCCTATAG
1 GGGCATTACGGTCATTTTACCCTATAG
* * *
36963156 GGGTATTACGATCATTTTACCCTATGG
1 GGGCATTACGGTCATTTTACCCTATAG
* ** * **
36963183 GGGTATTTTGGT-ATTCTACCCTACGG
1 GGGCATTACGGTCATTTTACCCTATAG
* **
36963209 GGGTATTTTGGTCATTTTACCCTATAG
1 GGGCATTACGGTCATTTTACCCTATAG
* * * * *
36963236 GGACATTTCAGTCATCTTACCC-ATCG
1 GGGCATTACGGTCATTTTACCCTATAG
* *
36963262 AGGGTATTTCGGTCATTTTACC
1 -GGGCATTACGGTCATTTTACC
36963284 TTTCGAGGAT
Statistics
Matches: 332, Mismatches: 56, Indels: 12
0.83 0.14 0.03
Matches are distributed among these distances:
26 117 0.35
27 215 0.65
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.35
Consensus pattern (27 bp):
GGGCATTACGGTCATTTTACCCTATAG
Found at i:36963256 original size:80 final size:81
Alignment explanation
Indices: 36962900--36963310 Score: 258
Period size: 80 Copynumber: 5.1 Consensus size: 81
36962890 GGGCATTAAT
* * * * * *
36962900 GTCATTTTACCTTATAGGGGCATTACGGTCATTTTACCC-TAC-AGGGGCATTAT-GGTCATTTT
1 GTCATTTTACCCTATAGGGACATTACGATCATCTTACCCAT-CGA-GGGTATT-TCGGTCATTCT
** ** *
36962962 A-CCTATAAGGGCATTACG
63 ACCCTACGAGGATATTTCG
* * * * *
36962980 GTCATTTTACCCGATA-GGACATTAC-AGTCATTTTACCC-TAGAGGGGTATTACGGTCATTTTA
1 GTCATTTTACCCTATAGGGACATTACGA-TCATCTTACCCATCGA-GGGTATTTCGGTCATTCTA
** *
36963042 CCCTAC-AGGGGCATTACG
64 CCCTACGA-GGATATTTCG
* * * * * * *
36963060 ATCATTTTACCCTACAAGGG-CATTACGATCATTTTACCCAT-AAGGGCATTACGGTCATTTTAC
1 GTCATTTTACCCTA-TAGGGACATTACGATCATCTTACCCATCGAGGGTATTTCGGTCATTCTAC
* * *
36963123 CCTAC-ACGACATTAT-A
65 CCTACGAGGATATT-TCG
** * * *
36963139 GTCATTTTACCCTATAGGGGTATTACGATCATTTTACCCTAT-GGGGGTATTTTGGT-ATTCTAC
1 GTCATTTTACCCTATAGGGACATTACGATCATCTTACCC-ATCGAGGGTATTTCGGTCATTCTAC
* * *
36963202 CCTACGGGGGTATTTTG
65 CCTACGAGGATATTTCG
* *
36963219 GTCATTTTACCCTATAGGGACATTTC-AGTCATCTTACCCATCGAGGGTATTTCGGTCATTTTAC
1 GTCATTTTACCCTATAGGGACATTACGA-TCATCTTACCCATCGAGGGTATTTCGGTCATTCTAC
* *
36963283 CTTTCGAGGATATTTCG
65 CCTACGAGGATATTTCG
36963300 GTCATTTTACC
1 GTCATTTTACC
36963311 ATTTTGGGGT
Statistics
Matches: 271, Mismatches: 43, Indels: 33
0.78 0.12 0.10
Matches are distributed among these distances:
78 4 0.01
79 90 0.33
80 125 0.46
81 48 0.18
82 4 0.01
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.36
Consensus pattern (81 bp):
GTCATTTTACCCTATAGGGACATTACGATCATCTTACCCATCGAGGGTATTTCGGTCATTCTACC
CTACGAGGATATTTCG
Found at i:36988703 original size:18 final size:18
Alignment explanation
Indices: 36988680--36988718 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
36988670 GTAGAAATTG
36988680 GGTTAATGATCAAAGAGT
1 GGTTAATGATCAAAGAGT
36988698 GGTTAATGATCAAAGAGT
1 GGTTAATGATCAAAGAGT
36988716 GGT
1 GGT
36988719 CATACCTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.36, C:0.05, G:0.31, T:0.28
Consensus pattern (18 bp):
GGTTAATGATCAAAGAGT
Found at i:36989243 original size:22 final size:20
Alignment explanation
Indices: 36989211--36989251 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 20
36989201 TGTTTCATCA
36989211 TTCTCCTCTCCTCTCCTTTC
1 TTCTCCTCTCCTCTCCTTTC
36989231 TTCTCTCTCCTCCTCTCCTTT
1 TTCTC-CT-CTCCTCTCCTTT
36989252 TGCACCACCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 2 0.11
22 12 0.63
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (20 bp):
TTCTCCTCTCCTCTCCTTTC
Found at i:36993439 original size:25 final size:25
Alignment explanation
Indices: 36993386--36993442 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
36993376 ACTGTACTTG
* *
36993386 TATGCTCATACGAGCTATGAATTGG
1 TATGCTCATACGAGCTATGAATCGA
36993411 TATGCTCACT-CGAGCTAT-AGATCGA
1 TATGCTCA-TACGAGCTATGA-ATCGA
36993436 TATGCTC
1 TATGCTC
36993443 TCAAGAGATG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 1 0.04
25 26 0.93
26 1 0.04
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (25 bp):
TATGCTCATACGAGCTATGAATCGA
Found at i:36995785 original size:42 final size:42
Alignment explanation
Indices: 36995739--36995825 Score: 113
Period size: 42 Copynumber: 2.1 Consensus size: 42
36995729 GCCAGGCCAC
* *
36995739 GTGAGTCACAC-GATCAAGAGACACGCCCGTGTCTTAGGCCGT
1 GTGAGTCACACAG-TCAAGAGACACGCCCATGTCTTAGACCGT
* * *
36995781 GTGAGTCATACAGTTAAGAGACATGCCCATGTCTTAGACCGT
1 GTGAGTCACACAGTCAAGAGACACGCCCATGTCTTAGACCGT
36995823 GTG
1 GTG
36995826 GGCAATTGAA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 38 0.97
43 1 0.03
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (42 bp):
GTGAGTCACACAGTCAAGAGACACGCCCATGTCTTAGACCGT
Found at i:36997361 original size:20 final size:20
Alignment explanation
Indices: 36997336--36997416 Score: 81
Period size: 20 Copynumber: 4.0 Consensus size: 20
36997326 ATTAGCCCAA
36997336 CACCTAACCCCGACCCAAAT
1 CACCTAACCCCGACCCAAAT
** ***
36997356 CACCTAAGCCCAAAATAAAAAT
1 CACCTAA-CCC-CGACCCAAAT
*
36997378 CACCTAACCCCGGCCCAAAT
1 CACCTAACCCCGACCCAAAT
*
36997398 CACCTAACCCCGGCCCAAA
1 CACCTAACCCCGACCCAAA
36997417 CACTCGCATT
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
20 30 0.62
21 6 0.12
22 12 0.25
ACGTcount: A:0.38, C:0.44, G:0.07, T:0.10
Consensus pattern (20 bp):
CACCTAACCCCGACCCAAAT
Found at i:37002805 original size:15 final size:15
Alignment explanation
Indices: 37002785--37002827 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
37002775 CTTCGAGTCA
37002785 AAAAAAAGAAAAATG
1 AAAAAAAGAAAAATG
*
37002800 AAAAAAATAAAAATG
1 AAAAAAAGAAAAATG
*
37002815 AAAAAATGAAAAA
1 AAAAAAAGAAAAA
37002828 GTAAAAATGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.81, C:0.00, G:0.09, T:0.09
Consensus pattern (15 bp):
AAAAAAAGAAAAATG
Found at i:37002832 original size:22 final size:23
Alignment explanation
Indices: 37002793--37002836 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
37002783 CAAAAAAAAG
37002793 AAAAATGAAAAAAATAAAAATGA
1 AAAAATGAAAAAAATAAAAATGA
*
37002816 AAAAATG-AAAAAGTAAAAATG
1 AAAAATGAAAAAAATAAAAATG
37002837 GAGAGGCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.75, C:0.00, G:0.11, T:0.14
Consensus pattern (23 bp):
AAAAATGAAAAAAATAAAAATGA
Found at i:37002833 original size:14 final size:15
Alignment explanation
Indices: 37002785--37002836 Score: 63
Period size: 14 Copynumber: 3.5 Consensus size: 15
37002775 CTTCGAGTCA
*
37002785 AAAAAAAGAAAAATG
1 AAAAAATGAAAAATG
37002800 AAAAAAAT-AAAAATG
1 -AAAAAATGAAAAATG
37002815 AAAAAATGAAAAA-G
1 AAAAAATGAAAAATG
*
37002829 TAAAAATG
1 AAAAAATG
37002837 GAGAGGCTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
14 15 0.45
15 12 0.36
16 6 0.18
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.12
Consensus pattern (15 bp):
AAAAAATGAAAAATG
Found at i:37002833 original size:15 final size:15
Alignment explanation
Indices: 37002785--37002834 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
37002775 CTTCGAGTCA
* *
37002785 AAAAAAAGAAAAATGA
1 AAAAAATGAAAAA-GT
37002801 AAAAAAT-AAAAA-T
1 AAAAAATGAAAAAGT
37002814 GAAAAAATGAAAAAGT
1 -AAAAAATGAAAAAGT
37002830 AAAAA
1 AAAAA
37002835 TGGAGAGGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
14 7 0.24
15 15 0.52
16 7 0.24
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (15 bp):
AAAAAATGAAAAAGT
Found at i:37004144 original size:44 final size:44
Alignment explanation
Indices: 37004075--37004201 Score: 200
Period size: 44 Copynumber: 2.9 Consensus size: 44
37004065 GTGAAATCAT
37004075 AAGTCCTAGCTCCCTGACCAGCAGTGGAATAGGTAGAAGATTGC
1 AAGTCCTAGCTCCCTGACCAGCAGTGGAATAGGTAGAAGATTGC
* * *
37004119 AAGTCCTAGCTCCCTAACCAACAGTGGAATAGGTTGAAGATTGC
1 AAGTCCTAGCTCCCTGACCAGCAGTGGAATAGGTAGAAGATTGC
**
37004163 AAAACCTAGCTCCCTGACCAGCAGTGGAATAGGTTAGAA
1 AAGTCCTAGCTCCCTGACCAGCAGTGGAATAGG-TAGAA
37004202 AATTACAGAT
Statistics
Matches: 74, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
44 70 0.95
45 4 0.05
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (44 bp):
AAGTCCTAGCTCCCTGACCAGCAGTGGAATAGGTAGAAGATTGC
Found at i:37004403 original size:129 final size:129
Alignment explanation
Indices: 37004181--37004435 Score: 411
Period size: 129 Copynumber: 2.0 Consensus size: 129
37004171 GCTCCCTGAC
* *
37004181 CAGCAGTGGAATAGGTTAGAAAATTACAGATCTTGTCTCCCTAAGCAATAGCGGAGCAGATCGAG
1 CAGCAGTGGAATAGGGTAGAAAATTACAGATCTTGTCTCCCTAAGCAATAGCGGAGCAGATCGAA
* *
37004246 GACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGGTTTAAGCCACAAGTCCTATATCCCTAGT
66 GACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAATCCTATATCCCTAGT
* * *
37004310 CAGCAGTGGAATAGGGTAGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAA
1 CAGCAGTGGAATAGGGTAGAAAATTACAGATCTTGTCTCCCTAAGCAATAGCGGAGCAGATCGAA
* * * *
37004375 GATGTCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGGCACAAATCCTATCTCCCT
66 GACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAATCCTATATCCCT
37004436 GAAGTTGTAG
Statistics
Matches: 115, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
129 115 1.00
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.25
Consensus pattern (129 bp):
CAGCAGTGGAATAGGGTAGAAAATTACAGATCTTGTCTCCCTAAGCAATAGCGGAGCAGATCGAA
GACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAATCCTATATCCCTAGT
Found at i:37004678 original size:217 final size:218
Alignment explanation
Indices: 37004422--37004819 Score: 654
Period size: 217 Copynumber: 1.8 Consensus size: 218
37004412 TTAAGGCACA
* * * *
37004422 AATCCTATCTCCCTGAAGTTGTAGTGGAGTGGATTAAAGTAATAGATCTTATCTCTCTGAAGTTA
1 AATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAGTAATAAATCTTACCTCTCTGAAGTTA
*
37004487 CAGTAGAGTGGATCGCATTAGGTCTTATCTCCCTGAGGTTGCAGCAGAGCAGACTGAGGAAGCAG
66 CAGTAGAGTGGATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGCAGAGCAGACTGAGGAAGCAG
* * * *
37004552 G-CTTATCCCCTTGAAGTTGTAGTGGGACAGATCGAAGATGGCAAATCTTATCTCCCTAAGGTTC
131 GTCTTATCCCCCTGAAGTTGCAGTCGGACAGATCGAAGATGACAAATCTTATCTCCCTAAGGTTC
37004616 CAGTGGAGCAGATTGAAGCCGAT
196 CAGTGGAGCAGATTGAAGCCGAT
* * *
37004639 AATCCTATCTCTCTAAAGTTGTAGTGGAGCGGTTTAAAGTAATAAATCTTACCTCTCTGAAGTTG
1 AATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAGTAATAAATCTTACCTCTCTGAAGTTA
* * *
37004704 CAGTAGTGTGGATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGCGGAGCAGACTGAGTAAGCAG
66 CAGTAGAGTGGATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGCAGAGCAGACTGAGGAAGCAG
37004769 GTCTTATCCCCCTGAAGTTGCAGTCGGACAGATCGAAGATGACAAATCTTA
131 GTCTTATCCCCCTGAAGTTGCAGTCGGACAGATCGAAGATGACAAATCTTA
37004820 CGATACGAGT
Statistics
Matches: 165, Mismatches: 15, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
217 120 0.73
218 45 0.27
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (218 bp):
AATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAGTAATAAATCTTACCTCTCTGAAGTTA
CAGTAGAGTGGATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGCAGAGCAGACTGAGGAAGCAG
GTCTTATCCCCCTGAAGTTGCAGTCGGACAGATCGAAGATGACAAATCTTATCTCCCTAAGGTTC
CAGTGGAGCAGATTGAAGCCGAT
Found at i:37006221 original size:44 final size:44
Alignment explanation
Indices: 37006125--37006245 Score: 129
Period size: 44 Copynumber: 2.8 Consensus size: 44
37006115 ACCCTCTATC
* * * *
37006125 ATCTTATCACCCTGAGGTTGCAGTAGAGCAGATTGAAGCCGATA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCCAATA
* * *
37006169 ATCCTATCTCCCTGAAGTTGCAG-AGGAGCGGATTAAAG-TAATA
1 ATCTTATCTCCCTGAAGTTGCAGTA-GAGCAGATTAAAGCCAATA
* *
37006212 GATCTTATCTCTCTGAAGTTGCAGTAGAGTAGAT
1 -ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGAT
37006246 CGCATCAGGT
Statistics
Matches: 63, Mismatches: 11, Indels: 6
0.79 0.14 0.08
Matches are distributed among these distances:
43 4 0.06
44 58 0.92
45 1 0.02
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (44 bp):
ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCCAATA
Found at i:37006306 original size:44 final size:42
Alignment explanation
Indices: 37006255--37006457 Score: 142
Period size: 44 Copynumber: 4.7 Consensus size: 42
37006245 TCGCATCAGG
* *
37006255 TCTTATCTCCCTAAGGTTGCAGTGGAGCAGCCTGAGTAAGTAGA
1 TCTTATCTCCCTAA-GTTGTAGTGGAGCAGACTGAGTAA-TAGA
* ** * *
37006299 TCTTATCTCCTTAAGCAGTAGTGGAGCAGATTAAAGTAATAGA
1 TCTTATCTCCCTAAGTTGTAGTGGAGCAGACT-GAGTAATAGA
* * ** * * *
37006342 TCTTATCTCTCTAAAGTTGTAGTAGAGTGGA-TCACATCA-AG-
1 TCTTATCTCCCT-AAGTTGTAGTGGAGCAGACTGA-GTAATAGA
* *
37006383 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAGTAAGCAGG
1 TCTTATCTCCCT-AAGTTGTAGTGGAGCAGACTGAGTAA-TAGA
* * *
37006427 TCTTATCCCCCTAAAGTTGCAGTGGGGCAGA
1 TCTTATCTCCCT-AAGTTGTAGTGGAGCAGA
37006458 TCGAAGATGG
Statistics
Matches: 123, Mismatches: 29, Indels: 14
0.74 0.17 0.08
Matches are distributed among these distances:
41 28 0.23
42 5 0.04
43 32 0.26
44 58 0.47
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.29
Consensus pattern (42 bp):
TCTTATCTCCCTAAGTTGTAGTGGAGCAGACTGAGTAATAGA
Found at i:37006359 original size:128 final size:128
Alignment explanation
Indices: 37006193--37006433 Score: 376
Period size: 128 Copynumber: 1.9 Consensus size: 128
37006183 AAGTTGCAGA
* * * *
37006193 GGAGCGGATTAAAGTAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGTCT
1 GGAGCAGATTAAAGTAATAGATCTTATCTCTCTAAAGTTGCAGTAGAGTAGATCACATCAAGTCT
* *
37006258 TATCTCCCT-AAGGTTGCAGTGGAGCAGCCTGAGTAAGTAGATCTTATCTCCTTAAGCAGTAGT
66 TATCTCCCTGAA-GTTGCAGTGGAGCAGACTGAGTAAGCAGATCTTATCTCCTTAAGCAGTAGT
* *
37006321 GGAGCAGATTAAAGTAATAGATCTTATCTCTCTAAAGTTGTAGTAGAGTGGATCACATCAAGTCT
1 GGAGCAGATTAAAGTAATAGATCTTATCTCTCTAAAGTTGCAGTAGAGTAGATCACATCAAGTCT
* *
37006386 TATCTCCCTGAAGTTGTAGTGGAGCAGACTGAGTAAGCAGGTCTTATC
66 TATCTCCCTGAAGTTGCAGTGGAGCAGACTGAGTAAGCAGATCTTATC
37006434 CCCCTAAAGT
Statistics
Matches: 102, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
128 100 0.98
129 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (128 bp):
GGAGCAGATTAAAGTAATAGATCTTATCTCTCTAAAGTTGCAGTAGAGTAGATCACATCAAGTCT
TATCTCCCTGAAGTTGCAGTGGAGCAGACTGAGTAAGCAGATCTTATCTCCTTAAGCAGTAGT
Found at i:37007859 original size:5 final size:6
Alignment explanation
Indices: 37007808--37007864 Score: 53
Period size: 6 Copynumber: 9.2 Consensus size: 6
37007798 ACCAATTTAG
* * *
37007808 TTTATC TTTATT TTTCA-T TTTATT TCTATT TGTAGTGT TTTATT TTTATT
1 TTTATT TTTATT TTT-ATT TTTATT TTTATT TTTA-T-T TTTATT TTTATT
37007858 TTTATT T
1 TTTATT T
37007865 GTTTTTTGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
5 1 0.02
6 35 0.81
7 3 0.07
8 4 0.09
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.74
Consensus pattern (6 bp):
TTTATT
Found at i:37007870 original size:11 final size:12
Alignment explanation
Indices: 37007816--37007871 Score: 53
Period size: 12 Copynumber: 4.6 Consensus size: 12
37007806 AGTTTATCTT
37007816 TATTTTTCATTT-
1 TATTTTT-ATTTG
*
37007828 TATTTCTATTTG
1 TATTTTTATTTG
*
37007840 TAGTGTTTTATTTT
1 TA-T-TTTTATTTG
37007854 TATTTTTATTTG
1 TATTTTTATTTG
37007866 T-TTTTT
1 TATTTTT
37007872 GAATTCCAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
11 9 0.24
12 17 0.46
13 2 0.05
14 9 0.24
ACGTcount: A:0.14, C:0.04, G:0.07, T:0.75
Consensus pattern (12 bp):
TATTTTTATTTG
Found at i:37008078 original size:23 final size:22
Alignment explanation
Indices: 37008051--37008110 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 22
37008041 TGACATTACC
37008051 TTTAAACTTATTATTAATATAAT
1 TTTAAA-TTATTATTAATATAAT
* * *
37008074 TTTAAAATGTAATA-TACTATTAT
1 TTT-AAAT-TATTATTAATATAAT
37008097 TTTAAATTATTATT
1 TTTAAATTATTATT
37008111 GACATGTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
21 4 0.13
22 5 0.17
23 14 0.47
24 7 0.23
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (22 bp):
TTTAAATTATTATTAATATAAT
Found at i:37011437 original size:96 final size:95
Alignment explanation
Indices: 37011262--37011458 Score: 308
Period size: 96 Copynumber: 2.1 Consensus size: 95
37011252 TACTTTCTTT
* *
37011262 TCTAGTTGGATATTTAATTGGACATTGGAAACCCTTATGATCTTTTGAACTACACCAATAACATT
1 TCTATTTGGATATTTAATTGGACATTGGAAACCCTTATGATCTTTTGAACTACACCAATAACACT
*
37011327 GCACAAAAAATGATAGCTCAATCATATTCTC
66 ACACAAAAAATGATAGCTCAATCATATTC-C
37011358 TCTATTTGGATATTTAATTGCG-CATTGGAAACCCTTATGATCTTTTGAACTACACCAATAACAC
1 TCTATTTGGATATTTAATTG-GACATTGGAAACCCTTATGATCTTTTGAACTACACCAATAACAC
** *
37011422 TACACAAAAGGTGATAGCTCAATCGTATTCC
65 TACACAAAAAATGATAGCTCAATCATATTCC
37011453 TC-ATTT
1 TCTATTT
37011459 CATTTGGTCA
Statistics
Matches: 94, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
94 4 0.04
95 3 0.03
96 86 0.91
97 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.34
Consensus pattern (95 bp):
TCTATTTGGATATTTAATTGGACATTGGAAACCCTTATGATCTTTTGAACTACACCAATAACACT
ACACAAAAAATGATAGCTCAATCATATTCC
Found at i:37015673 original size:13 final size:14
Alignment explanation
Indices: 37015655--37015683 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
37015645 AAAATTGCTT
37015655 AAAAATCAAG-CAA
1 AAAAATCAAGTCAA
37015668 AAAAATCAAGTCAA
1 AAAAATCAAGTCAA
37015682 AA
1 AA
37015684 GCCACTAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.69, C:0.14, G:0.07, T:0.10
Consensus pattern (14 bp):
AAAAATCAAGTCAA
Found at i:37018350 original size:90 final size:86
Alignment explanation
Indices: 37018238--37018457 Score: 235
Period size: 89 Copynumber: 2.5 Consensus size: 86
37018228 TTAATGTTGT
* * *
37018238 AAAAAGCTCTCAAATTTTTTCAAAAATAGAATTTAAGCCCCT-CTGTTTTTTTTACACTCAATTG
1 AAAAAGCCCTCAAA-ATTTTCAAAAATAGAA-TTAAGCCCCTGCT-TTTTCTTT-CACTCAATTG
** *
37018302 AGCACTTGTACTTTCAAAATATATA
62 AGCACTTAAACTTTCAAAATACATA
* * *
37018327 AAAAATGCCCTCAAACTTCTTCAAAAAAAGCAATTAAGCCCCTGCTTTTTCTTTCACTCAATTGG
1 AAAAA-GCCCTCAAAATT-TTCAAAAATAG-AATTAAGCCCCTGCTTTTTCTTTCACTCAATTGA
* *
37018392 GTACTTAAACTTTCAAAATGCATA
63 GCACTTAAACTTTCAAAATACATA
* *
37018416 AAAAAGACCCTCCAAAATTTTCGAAAATACAATTAAGCCCCT
1 AAAAAG-CCCT-CAAAATTTTCAAAAATAGAATTAAGCCCCT
37018458 ACTCTTATTA
Statistics
Matches: 111, Mismatches: 14, Indels: 13
0.80 0.10 0.09
Matches are distributed among these distances:
88 13 0.12
89 53 0.48
90 41 0.37
91 4 0.04
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.32
Consensus pattern (86 bp):
AAAAAGCCCTCAAAATTTTCAAAAATAGAATTAAGCCCCTGCTTTTTCTTTCACTCAATTGAGCA
CTTAAACTTTCAAAATACATA
Found at i:37018538 original size:19 final size:18
Alignment explanation
Indices: 37018495--37018557 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 18
37018485 TATAGAAAAA
37018495 TAAAAAA-TAATAAATTT
1 TAAAAAATTAATAAATTT
37018512 TAGAAAAATTAATAAATTT
1 TA-AAAAATTAATAAATTT
37018531 TAATAAAAATTTAA-AAATTAT
1 T-A-AAAAA-TTAATAAATT-T
37018552 TAAAAA
1 TAAAAA
37018558 TTATAATTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
17 2 0.05
18 5 0.12
19 15 0.38
20 12 0.30
21 6 0.15
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (18 bp):
TAAAAAATTAATAAATTT
Found at i:37018621 original size:35 final size:36
Alignment explanation
Indices: 37018515--37018621 Score: 87
Period size: 35 Copynumber: 2.9 Consensus size: 36
37018505 TAAATTTTAG
*
37018515 AAAAATTA-ATAAATTTTAATAAAAAT-TTAAAAATTATT
1 AAAAATTATA-AAATTTT-ATAAAAATCATAAAAA--ATT
** * *
37018553 AAAAATTATAATTTTTTATAAAAAAGCGT-AAAAA-T
1 AAAAATTATAAAATTTTAT-AAAAATCATAAAAAATT
*
37018588 AAAAATTGTAAAATTTTATAAAAATCATAAAAAA
1 AAAAATTATAAAATTTTATAAAAATCATAAAAAA
37018622 AATTTAACGA
Statistics
Matches: 56, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
34 7 0.12
35 22 0.39
36 1 0.02
37 2 0.04
38 22 0.39
39 2 0.04
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.35
Consensus pattern (36 bp):
AAAAATTATAAAATTTTATAAAAATCATAAAAAATT
Found at i:37018869 original size:28 final size:28
Alignment explanation
Indices: 37018822--37018892 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 28
37018812 TTCTTACGAC
* *
37018822 TTTATAATTTTTTTATATTTCTAT-ATAT
1 TTTATAA-TTTTTTAGATTTCTATAAAAT
*
37018850 TTTATAATTTTTTACGATTTTTATAAAAT
1 TTTATAATTTTTTA-GATTTCTATAAAAT
* *
37018879 TTTACAAATTTTTA
1 TTTATAATTTTTTA
37018893 TATAGTTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
27 7 0.19
28 14 0.39
29 15 0.42
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.62
Consensus pattern (28 bp):
TTTATAATTTTTTAGATTTCTATAAAAT
Found at i:37018871 original size:19 final size:19
Alignment explanation
Indices: 37018849--37018920 Score: 65
Period size: 20 Copynumber: 3.7 Consensus size: 19
37018839 TTTCTATATA
37018849 TTTTATAATTTTTTACGAT
1 TTTTATAATTTTTTACGAT
** *
37018868 TTTTATAAAATTTTACAAAT
1 TTTTATAATTTTTTAC-GAT
*
37018888 TTTTATATAGTTTTTACGAT
1 TTTTATA-ATTTTTTACGAT
* *
37018908 GTTGAT-ATTTTTT
1 TTTTATAATTTTTT
37018921 TTTCTAATTT
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
18 6 0.14
19 14 0.33
20 15 0.36
21 7 0.17
ACGTcount: A:0.29, C:0.04, G:0.07, T:0.60
Consensus pattern (19 bp):
TTTTATAATTTTTTACGAT
Found at i:37019185 original size:88 final size:87
Alignment explanation
Indices: 37019028--37019187 Score: 203
Period size: 88 Copynumber: 1.8 Consensus size: 87
37019018 AATTTTTAAT
* * * *** * *
37019028 AAAAGTAGGGGCTTATTTGCCTTTTTTGAAAAAGTTTGAGGGTTTTTTTGATACATTTTGAAAGG
1 AAAAGTAGGAGCTTAATTGCCTTTTTTGAAAAAGTTTGAAGACCTTTTTGATACATGTTAAAAGG
37019093 TTAAGTACCCAATTAGTGCAAA
66 TTAAGTACCCAATTAGTGCAAA
* * *
37019115 AAAAGTAGGAGCTTAATTGCTTTTCTTTTAAAAGGTTTGAAGACCTTTTTGATACATGTTAAAAG
1 AAAAGTAGGAGCTTAATTGCCTTT-TTTGAAAAAGTTTGAAGACCTTTTTGATACATGTTAAAAG
*
37019180 TTTAAGTA
65 GTTAAGTA
37019188 TCCAGATAAG
Statistics
Matches: 60, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
87 21 0.35
88 39 0.65
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.39
Consensus pattern (87 bp):
AAAAGTAGGAGCTTAATTGCCTTTTTTGAAAAAGTTTGAAGACCTTTTTGATACATGTTAAAAGG
TTAAGTACCCAATTAGTGCAAA
Found at i:37019204 original size:88 final size:87
Alignment explanation
Indices: 37019028--37019207 Score: 198
Period size: 88 Copynumber: 2.0 Consensus size: 87
37019018 AATTTTTAAT
* * * *** * *
37019028 AAAAGTAGGGGCTTATTTGCCTTTTTTGAAAAAGTTTGAGGGTTTTTTTGATACATTTTGAAAGG
1 AAAAGTAGGAGCTTAATTGCCTTTTTTGAAAAAGTTTGAAGACCTTTTTGATACATGTTAAAAGG
* *
37019093 TTAAGTACCCAATTAGTGCAAA
66 TTAAGTACCCAATAAGTGAAAA
* * *
37019115 AAAAGTAGGAGCTTAATTGCTTTTCTTTTAAAAGGTTTGAAGACCTTTTTGATACATGTTAAAAG
1 AAAAGTAGGAGCTTAATTGCCTTT-TTTGAAAAAGTTTGAAGACCTTTTTGATACATGTTAAAAG
* * *
37019180 TTTAAGTATCCAGATAAGTAAAAA
65 GTTAAGTACCCA-ATAAGTGAAAA
37019204 AAAA
1 AAAA
37019208 AAAGGACTTA
Statistics
Matches: 75, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
87 21 0.28
88 42 0.56
89 12 0.16
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (87 bp):
AAAAGTAGGAGCTTAATTGCCTTTTTTGAAAAAGTTTGAAGACCTTTTTGATACATGTTAAAAGG
TTAAGTACCCAATAAGTGAAAA
Found at i:37022148 original size:22 final size:22
Alignment explanation
Indices: 37022088--37022145 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 22
37022078 AATCTTCAAG
37022088 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
37022107 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
37022129 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
37022146 GATTTAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.39
22 8 0.24
23 12 0.36
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:37027459 original size:22 final size:22
Alignment explanation
Indices: 37027431--37027534 Score: 136
Period size: 22 Copynumber: 4.7 Consensus size: 22
37027421 TTTATTGTTC
*
37027431 AAACATGAGAGCTTAGTACGTG
1 AAACATGAGAGCTTAGTACGTT
37027453 AAACATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
**
37027475 AGCCATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
** * * *
37027497 AGCCATGAGGGTTTAGTTCGTT
1 AAACATGAGAGCTTAGTACGTT
37027519 AAACATGAGAGCTTAG
1 AAACATGAGAGCTTAG
37027535 GGGCAATACC
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 72 1.00
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (22 bp):
AAACATGAGAGCTTAGTACGTT
Found at i:37027798 original size:14 final size:15
Alignment explanation
Indices: 37027772--37027804 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
37027762 TCTCAAGCTG
37027772 GGAAGGACCTTATGT
1 GGAAGGACCTTATGT
*
37027787 GGAAGG-CCTTATTT
1 GGAAGGACCTTATGT
37027801 GGAA
1 GGAA
37027805 AAGCGTCGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.12, G:0.33, T:0.27
Consensus pattern (15 bp):
GGAAGGACCTTATGT
Found at i:37029205 original size:15 final size:15
Alignment explanation
Indices: 37029185--37029214 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
37029175 CTTGCCTCCC
37029185 TGGGTTGTAGCGGAG
1 TGGGTTGTAGCGGAG
37029200 TGGGTTGTAGCGGAG
1 TGGGTTGTAGCGGAG
37029215 CAGGTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.07, G:0.53, T:0.27
Consensus pattern (15 bp):
TGGGTTGTAGCGGAG
Found at i:37029220 original size:15 final size:15
Alignment explanation
Indices: 37029187--37029220 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
37029177 TGCCTCCCTG
**
37029187 GGTTGTAGCGGAGTG
1 GGTTGTAGCGGAGCA
37029202 GGTTGTAGCGGAGCA
1 GGTTGTAGCGGAGCA
37029217 GGTT
1 GGTT
37029221 AAAAATAGCA
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:0.15, C:0.09, G:0.50, T:0.26
Consensus pattern (15 bp):
GGTTGTAGCGGAGCA
Found at i:37029836 original size:88 final size:88
Alignment explanation
Indices: 37029200--37029795 Score: 949
Period size: 88 Copynumber: 6.8 Consensus size: 88
37029190 TGTAGCGGAG
* * ** * *
37029200 TGGGTTGTAGCGGAGCAGGTTAAAAATAGCAGATCTTGTCTTCCTGTGCCGAAAGTGAAGCAGAT
1 TGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGAT
*
37029265 CGAAGACACTAGCCTTGCCTCCC
66 CGAAGACACCAGCCTTGCCTCCC
*
37029288 TGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGATAGCGAAGCAGAT
1 TGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGAT
*
37029353 TGAAGACACCAGCCTTGCCTCCC
66 CGAAGACACCAGCCTTGCCTCCC
*
37029376 TGGGTTGCAGCGGAGCAGGTTAAAAATTGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGAT
1 TGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGAT
* * *
37029441 CAAATACACCAGCCTTGCCTCCT
66 CGAAGACACCAGCCTTGCCTCCC
* * *
37029464 TGGGTTGCAGCAGAGCAGGTTAAAAATTGCAAATCTTGCCTTCCTGCACCGACAGCGAAGCAGAT
1 TGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGAT
*
37029529 CGAAGACACCAACCTTGCCTCCC
66 CGAAGACACCAGCCTTGCCTCCC
* * * *
37029552 TGGGTTGTAGTGGAGTAGGTTAAAAATAGCAGATCTTACCTTCCTGCACCGACAGCGAAGCAGAT
1 TGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGAT
* *
37029617 CGAAGACACCAGTCTTGCCTCCT
66 CGAAGACACCAGCCTTGCCTCCC
* *
37029640 TGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTACCTTCCTGCACCGACAGCGAAACAGAT
1 TGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGAT
*
37029705 CGAAGACACCAGTCTTGCCTCCC
66 CGAAGACACCAGCCTTGCCTCCC
*
37029728 TGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTACCTTCCTGCACCGACAGCGAAGCAGAT
1 TGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGAT
37029793 CGA
66 CGA
37029796 TGACCCTAGC
Statistics
Matches: 472, Mismatches: 36, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 472 1.00
ACGTcount: A:0.27, C:0.26, G:0.25, T:0.21
Consensus pattern (88 bp):
TGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGAT
CGAAGACACCAGCCTTGCCTCCC
Found at i:37029855 original size:44 final size:44
Alignment explanation
Indices: 37029806--37029905 Score: 157
Period size: 44 Copynumber: 2.3 Consensus size: 44
37029796 TGACCCTAGC
*
37029806 CCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGT-AAGT
1 CCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATGGTGAA-T
*
37029850 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATGGTGAAT
1 CCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATGGTGAAT
*
37029894 CTTATCTCCCTG
1 CCTATCTCCCTG
37029906 AAGTTATAGT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
44 50 0.96
45 2 0.04
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (44 bp):
CCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATGGTGAAT
Found at i:37030082 original size:45 final size:45
Alignment explanation
Indices: 37030018--37030125 Score: 135
Period size: 45 Copynumber: 2.4 Consensus size: 45
37030008 AGATCGCATT
* *
37030018 GGGTCTTATCTCCTTGAAGTTGCAGTAGAATAGACCCAAGAAAGC
1 GGGTCTTATCTCCCTGAAGTTGCAGTAGAACAGACCCAAGAAAGC
* * * *
37030063 GGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAATC
1 GGGTCTTATCTCCCTGAAGTTGCAGTAGAACAGACCCAAGAAAGC
** *
37030108 AAGTCTTATCCCCCTGAA
1 GGGTCTTATCTCCCTGAA
37030126 ATTGTAGTGG
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 54 1.00
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (45 bp):
GGGTCTTATCTCCCTGAAGTTGCAGTAGAACAGACCCAAGAAAGC
Found at i:37030687 original size:19 final size:19
Alignment explanation
Indices: 37030663--37030716 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
37030653 TATCTACAAG
37030663 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
37030682 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
37030701 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
37030717 AGATATGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:37030714 original size:38 final size:40
Alignment explanation
Indices: 37030663--37030739 Score: 113
Period size: 38 Copynumber: 1.9 Consensus size: 40
37030653 TATCTACAAG
37030663 GATATGCAATCTT-AGATATGA-TATGTAATCTTAGATAT
1 GATATGCAATCTTAAGATATGATTATGTAATCTTAGATAT
*
37030701 GATATGCAATCTTAGAAGATATGATTTTGTAATCTTAGA
1 GATATGCAATCTT--AAGATATGATTATGTAATCTTAGA
37030740 GATTTAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
38 13 0.38
41 8 0.24
42 13 0.38
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.39
Consensus pattern (40 bp):
GATATGCAATCTTAAGATATGATTATGTAATCTTAGATAT
Found at i:37042145 original size:54 final size:56
Alignment explanation
Indices: 37042025--37042146 Score: 133
Period size: 54 Copynumber: 2.2 Consensus size: 56
37042015 CTCAATCTTT
* * * ** *
37042025 GACTGGTGAAC-CTCTAGTTTGTAACTTAATCTGGTGAACGTTAGCTCGCCAAACA
1 GACTGGTGAACTCTCTAGCTTGCAACTTAATCTGGCGAACACTAGCTCACCAAACA
* * *
37042080 GACTAGCGAACTCT-TAGCTTGCAACTT-ATCTGGCGAACACTAGCTCACCAAATA
1 GACTGGTGAACTCTCTAGCTTGCAACTTAATCTGGCGAACACTAGCTCACCAAACA
*
37042134 GAGTGGTGAACTC
1 GACTGGTGAACTC
37042147 ACTTTGTAAT
Statistics
Matches: 54, Mismatches: 12, Indels: 3
0.78 0.17 0.04
Matches are distributed among these distances:
54 32 0.59
55 20 0.37
56 2 0.04
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (56 bp):
GACTGGTGAACTCTCTAGCTTGCAACTTAATCTGGCGAACACTAGCTCACCAAACA
Found at i:37045637 original size:18 final size:17
Alignment explanation
Indices: 37045611--37045658 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 17
37045601 AAAATAAAAA
37045611 AATATTTTGAAATTGAAT
1 AATATTTTGAAA-TGAAT
37045629 AATGA-TTTGTAAATGAAT
1 AAT-ATTTTG-AAATGAAT
37045647 AATATTTTGAAA
1 AATATTTTGAAA
37045659 ACGAACAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
17 4 0.15
18 19 0.70
19 4 0.15
ACGTcount: A:0.46, C:0.00, G:0.12, T:0.42
Consensus pattern (17 bp):
AATATTTTGAAATGAAT
Found at i:37046050 original size:27 final size:25
Alignment explanation
Indices: 37045990--37046052 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
37045980 AATTGTCCTT
* * *
37045990 GATAATATATCCTGAAACTGCTGTA
1 GATAGTATATACTGAAACTGCTATA
*
37046015 GATAGTATATACTGAGACTGCTATA
1 GATAGTATATACTGAAACTGCTATA
37046040 GATAG-ACTATACT
1 GATAGTA-TATACT
37046053 AAAAACACTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 1 0.03
25 32 0.97
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (25 bp):
GATAGTATATACTGAAACTGCTATA
Found at i:37060720 original size:12 final size:13
Alignment explanation
Indices: 37060702--37060732 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
37060692 ATGTTGAAAT
37060702 TTAATTAATTTTA
1 TTAATTAATTTTA
37060715 -TAATTAATTTTA
1 TTAATTAATTTTA
37060727 TTAATT
1 TTAATT
37060733 TTGATTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
TTAATTAATTTTA
Found at i:37075359 original size:120 final size:121
Alignment explanation
Indices: 37075146--37075391 Score: 395
Period size: 120 Copynumber: 2.0 Consensus size: 121
37075136 ATTTTGACAA
* *
37075146 TAAATTATATTTTATAGTATCATATATTATGATTTTAATAAATTCATATAAGAATATTGATTATT
1 TAAATTATATTTTATAGTATCATATATTATGATTTGAATAAATTCATATAAGAATATTAATTATT
37075211 AAGAATTTTACTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG-T
66 AAGAATTTTACTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
* * *
37075266 TAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAATTTCATATAAGAATATTAATTATT
1 TAAATTATATTTTATAGTATCATATATTATGATTTGAATAAATTCATATAAGAATATTAATTATT
** * * *
37075331 CGGAATTTTATTAAATTATTTATTTTAATTATAATATATTTAATAATAATTATGTT
66 AAGAATTTTACTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
37075387 TAAAT
1 TAAAT
37075392 ATGATTAAAT
Statistics
Matches: 115, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
120 109 0.95
121 6 0.05
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.50
Consensus pattern (121 bp):
TAAATTATATTTTATAGTATCATATATTATGATTTGAATAAATTCATATAAGAATATTAATTATT
AAGAATTTTACTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
Found at i:37075540 original size:16 final size:16
Alignment explanation
Indices: 37075501--37075546 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
37075491 AATTTTATTA
37075501 AATTAAACATA-ATTATT
1 AATTAAA-ATATATT-TT
37075518 -ATT-AAATATATTTT
1 AATTAAAATATATTTT
37075532 AATTAAAATATATTT
1 AATTAAAATATATTT
37075547 AATAATAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
14 5 0.19
15 8 0.31
16 13 0.50
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (16 bp):
AATTAAAATATATTTT
Found at i:37075544 original size:175 final size:176
Alignment explanation
Indices: 37075334--37075657 Score: 580
Period size: 175 Copynumber: 1.8 Consensus size: 176
37075324 AATTATTCGG
*
37075334 AATTTTATTAAATTATTTATTTTAATTATAATATATTTAATAATAATTATGTTTAAATATGATTA
1 AATTTTATTAAATTA-TTATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTA
*
37075399 AATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTAC
65 AATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTAC
*
37075464 CAAAACAAATTTCTGCTAATTATTAAGAATTTTATTAAATTAAACAT
130 CAAAACAAATTTATGCTAATTATTAAGAATTTTATTAAATTAAACAT
37075511 AATTATTATTAAA-TA-TATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTA
1 AATT-TTATTAAATTATTATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTA
*
37075574 AATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAATCATTTAC
65 AATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTAC
37075639 CAAAACAAATTTATGCTAA
130 CAAAACAAATTTATGCTAA
37075658 GGGTATTCTA
Statistics
Matches: 142, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
175 128 0.90
177 6 0.04
178 8 0.06
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (176 bp):
AATTTTATTAAATTATTATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAA
ATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTACC
AAAACAAATTTATGCTAATTATTAAGAATTTTATTAAATTAAACAT
Found at i:37075735 original size:39 final size:40
Alignment explanation
Indices: 37075692--37075796 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
37075682 TTCCATTATG
37075692 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
37075731 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
37075776 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
37075797 ACACCTCTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 17 0.31
45 17 0.31
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:37075790 original size:45 final size:44
Alignment explanation
Indices: 37075690--37075799 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
37075680 TTTTCCATTA
37075690 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
37075729 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
37075774 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
37075800 CCTCTAATCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 25 0.43
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:37075799 original size:16 final size:16
Alignment explanation
Indices: 37075778--37075815 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
37075768 TTGATTTGCT
*
37075778 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
37075794 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
37075810 AATACA
1 ATTACA
37075816 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:37084739 original size:25 final size:25
Alignment explanation
Indices: 37084679--37084739 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
37084669 CTCTTAAATT
*
37084679 TTAATTTAATTATCTAATTTTTCAA
1 TTAATTAAATTATCTAATTTTTCAA
* *
37084704 TTTATTGAATTAT-TAATATTTT-ATA
1 TTAATTAAATTATCTAAT-TTTTCA-A
37084729 TTAATTAAATT
1 TTAATTAAATT
37084740 TTTGAGAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
24 5 0.17
25 25 0.83
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (25 bp):
TTAATTAAATTATCTAATTTTTCAA
Found at i:37095186 original size:44 final size:44
Alignment explanation
Indices: 37094902--37095586 Score: 247
Period size: 44 Copynumber: 15.8 Consensus size: 44
37094892 AATTCTTCGG
* * * *
37094902 TCTATTCCACTGTAATCTCAAGGAGATAAGACCTGAT-A---CGA
1 TCTACTCCACTGTAATCTCAGGGAGATAAGATCT-ATCATTTCAA
* * * *
37094943 TCTGCTCTACTGTAA-CTTCA--GAGATAAGATACT-TTATTTTAA
1 TCTACTCCACTGTAATC-TCAGGGAGATAAGAT-CTATCATTTCAA
** * * *
37094985 TCCGCTCCACTGTAATCTCAGGGAGATAGGAT-TACCAGCTTCAA
1 TCTACTCCACTGTAATCTCAGGGAGATAAGATCTATCA-TTTCAA
* * * * **
37095029 TCTGCTCCGCTGTAATCTCAAGGAGATAAGATCTGA-AATTCTTCGG
1 TCTACTCCACTGTAATCTCAGGGAGATAAGATCT-ATCA-T-TTCAA
* * * * *
37095075 TCTATTCCACTGTAATCTCTGGGAGATAAGACCTA--A-TGCGA
1 TCTACTCCACTGTAATCTCAGGGAGATAAGATCTATCATTTCAA
* * * * * *
37095116 TCTACTCTACTGTCA-CTTCAGAGAGATAAGATCTTTTATTTTAA
1 TCTACTCCACTGTAATC-TCAGGGAGATAAGATCTATCATTTCAA
* * * * *
37095160 TCTGCTGCACTGTAATCTCAGGGAGATAGGAT-TACCAGCTTCAA
1 TCTACTCCACTGTAATCTCAGGGAGATAAGATCTATCA-TTTCAA
* * * * * *
37095204 TCTGCTTCGCTGTAATCTCAGGGATATAAGATCTGA-AATTCTTCAG
1 TCTACTCCACTGTAATCTCAGGGAGATAAGATCT-ATCA-T-TTCAA
* * * * * * * *
37095250 TCTATTCCACTGTAACCTTAGTGAGATAAGA-C-CTGA-TGCGA
1 TCTACTCCACTGTAATCTCAGGGAGATAAGATCTATCATTTCAA
* * * * * *
37095291 TCTACTCTACTGTAACCGCAGAGAGATAAGATCCT-TTATTTTAA
1 TCTACTCCACTGTAATCTCAGGGAGATAAGAT-CTATCATTTCAA
** * * *
37095335 TCCGCTCCACTGTAATCTCAGGGAGATAGGAT-TACCAGCTTCAA
1 TCTACTCCACTGTAATCTCAGGGAGATAAGATCTATCA-TTTCAA
* * * * **
37095379 TCTGCTCCGCTGTAATCTCAAGGAGATAAGATCTGA-AATTCTTCGG
1 TCTACTCCACTGTAATCTCAGGGAGATAAGATCT-ATCA-T-TTCAA
* * * * * *
37095425 TCTATTCCATTGTAATCTCAGGGAGATAAGA-C-CTGA-TGCGA
1 TCTACTCCACTGTAATCTCAGGGAGATAAGATCTATCATTTCAA
* * * *
37095466 TCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCT-TTATTTTAA
1 TCTACTCCACTGTAATC-TCAGGGAGATAAGAT-CTATCATTTCAA
* * * *
37095510 TCCACTCCACTGTAATCTCAGGGAGATAGGAT-TACCAGCTTCAA
1 TCTACTCCACTGTAATCTCAGGGAGATAAGATCTATCA-TTTCAA
* **
37095554 TCTGCTCTGCTGTAATCTCAGGGAGATAAGATC
1 TCTACTCCACTGTAATCTCAGGGAGATAAGATC
37095587 CACCATCTTT
Statistics
Matches: 470, Mismatches: 131, Indels: 82
0.69 0.19 0.12
Matches are distributed among these distances:
38 1 0.00
39 10 0.02
40 5 0.01
41 100 0.21
42 20 0.04
43 13 0.03
44 220 0.47
45 11 0.02
46 90 0.19
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (44 bp):
TCTACTCCACTGTAATCTCAGGGAGATAAGATCTATCATTTCAA
Found at i:37095217 original size:175 final size:175
Alignment explanation
Indices: 37094883--37095586 Score: 1178
Period size: 175 Copynumber: 4.0 Consensus size: 175
37094873 TTAGGGAGGC
* * * *
37094883 AAGATCTGTAATTCTTCGGTCTATTCCACTGTAATCTCAAGGAGATAAGACCTGATACGATCTGC
1 AAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTAC
*
37094948 TCTACTGTAACTTC--AGAGATAAGATACTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGA
66 TCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGA
37095011 TAGGATTACCAGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGAT
131 TAGGATTACCAGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGAT
* *
37095056 AAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCTGGGAGATAAGACCTAATGCGATCTAC
1 AAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTAC
* * * *
37095121 TCTACTGTCACTTCAGAGAGATAAGATCTTTTATTTTAATCTGCTGCACTGTAATCTCAGGGAGA
66 TCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGA
* * *
37095186 TAGGATTACCAGCTTCAATCTGCTTCGCTGTAATCTCAGGGATAT
131 TAGGATTACCAGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGAT
* * * *
37095231 AAGATCTGAAATTCTTCAGTCTATTCCACTGTAACCTTAGTGAGATAAGACCTGATGCGATCTAC
1 AAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTAC
**
37095296 TCTACTGTAACCGCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGA
66 TCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGA
37095361 TAGGATTACCAGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGAT
131 TAGGATTACCAGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGAT
*
37095406 AAGATCTGAAATTCTTCGGTCTATTCCATTGTAATCTCAGGGAGATAAGACCTGATGCGATCTAC
1 AAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTAC
*
37095471 TCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTCAGGGAGA
66 TCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGA
* *
37095536 TAGGATTACCAGCTTCAATCTGCTCTGCTGTAATCTCAGGGAGAT
131 TAGGATTACCAGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGAT
37095581 AAGATC
1 AAGATC
37095587 CACCATCTTT
Statistics
Matches: 490, Mismatches: 39, Indels: 2
0.92 0.07 0.00
Matches are distributed among these distances:
173 72 0.15
175 418 0.85
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (175 bp):
AAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTAC
TCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGA
TAGGATTACCAGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGAT
Found at i:37105896 original size:19 final size:19
Alignment explanation
Indices: 37105872--37105909 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
37105862 ACAGTGCAGT
37105872 AAAGTTGTATACTCCTCCA
1 AAAGTTGTATACTCCTCCA
*
37105891 AAAGTTGTATATTCCTCCA
1 AAAGTTGTATACTCCTCCA
37105910 CTGTAGGCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (19 bp):
AAAGTTGTATACTCCTCCA
Found at i:37107941 original size:13 final size:14
Alignment explanation
Indices: 37107917--37107946 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
37107907 AATTTACCTT
37107917 AAATAACACATATA
1 AAATAACACATATA
37107931 AAATAAC-CATATA
1 AAATAACACATATA
37107944 AAA
1 AAA
37107947 GTCTTAATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.67, C:0.13, G:0.00, T:0.20
Consensus pattern (14 bp):
AAATAACACATATA
Found at i:37116651 original size:47 final size:47
Alignment explanation
Indices: 37116587--37116743 Score: 224
Period size: 47 Copynumber: 3.3 Consensus size: 47
37116577 ACAGTAATGT
*
37116587 AGATAAACTGCCACTTAATAAAATTGTGGACAAGCCACCACTTTTGC
1 AGATAAACTGCCACTTAATAAAACTGTGGACAAGCCACCACTTTTGC
* * * *
37116634 AAATAAGCTACCACTTAATAAAACTGTGGACAAACCACCACTTTTGC
1 AGATAAACTGCCACTTAATAAAACTGTGGACAAGCCACCACTTTTGC
* * * * *
37116681 AGATAAACTGTCACTTTATCATACTGTGGACAAGCCACCACTTTCGC
1 AGATAAACTGCCACTTAATAAAACTGTGGACAAGCCACCACTTTTGC
37116728 AGATAAACTGCCACTT
1 AGATAAACTGCCACTT
37116744 CTTCCTCCTT
Statistics
Matches: 95, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 95 1.00
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.25
Consensus pattern (47 bp):
AGATAAACTGCCACTTAATAAAACTGTGGACAAGCCACCACTTTTGC
Found at i:37116821 original size:19 final size:20
Alignment explanation
Indices: 37116789--37116827 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
37116779 ATATGGCCAC
*
37116789 AAAAATCACTTTTTCACTTT
1 AAAAATCACATTTTCACTTT
37116809 AAAAATCA-ATTTTCACTTT
1 AAAAATCACATTTTCACTTT
37116828 GTCATGTGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.38, C:0.18, G:0.00, T:0.44
Consensus pattern (20 bp):
AAAAATCACATTTTCACTTT
Found at i:37121357 original size:24 final size:25
Alignment explanation
Indices: 37121321--37121374 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
37121311 GTAAAACCGA
* *
37121321 AAAAATTATTGGAA-TGGGAT-GTG
1 AAAAATTAATGGAATTGAGATAGTG
37121344 AAAAATTCAATGGAATTGAGATAGTG
1 AAAAATT-AATGGAATTGAGATAGTG
37121370 AAAAA
1 AAAAA
37121375 GTGAAATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 7 0.27
24 6 0.23
25 5 0.19
26 8 0.31
ACGTcount: A:0.48, C:0.02, G:0.24, T:0.26
Consensus pattern (25 bp):
AAAAATTAATGGAATTGAGATAGTG
Found at i:37125025 original size:16 final size:16
Alignment explanation
Indices: 37124992--37125021 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
37124982 CAATCAGGAA
37124992 CATTTGAATATTATAT
1 CATTTGAATATTATAT
37125008 CATTT-AATATTATA
1 CATTTGAATATTATA
37125022 ATCACATCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (16 bp):
CATTTGAATATTATAT
Found at i:37125362 original size:17 final size:17
Alignment explanation
Indices: 37125340--37125378 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
37125330 CATCAGATGA
*
37125340 CACACGACCGTGTGCCT
1 CACACGACCATGTGCCT
37125357 CACACGACCATGTGCCT
1 CACACGACCATGTGCCT
37125374 CACAC
1 CACAC
37125379 AGCTGAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.23, C:0.44, G:0.18, T:0.15
Consensus pattern (17 bp):
CACACGACCATGTGCCT
Found at i:37130501 original size:10 final size:9
Alignment explanation
Indices: 37130488--37130513 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
37130478 AAAAAACCTC
37130488 AAAAAAAGA
1 AAAAAAAGA
37130497 AAAAAAAGA
1 AAAAAAAGA
37130506 AAAAAAAG
1 AAAAAAAG
37130514 GGATCGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:37132426 original size:44 final size:41
Alignment explanation
Indices: 37132378--37132486 Score: 98
Period size: 44 Copynumber: 2.6 Consensus size: 41
37132368 AGTATTATAT
37132378 ATTATGATTTTAGTAAATTCATATAAGAATAAGAATT-TTATTAA
1 ATTAT-ATTTTAGTAAATT-ATAT-AGAATAAGAATTATT-TTAA
* ** *
37132422 ATTATATATTATTATTAAATTATATTTAATAATAATTATTTTAA
1 A-T-TATATT-TTAGTAAATTATATAGAATAAGAATTATTTTAA
37132466 ATTATATTTTAGT--ATTATATA
1 ATTATATTTTAGTAAATTATATA
37132487 TTATGATTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
39 7 0.13
41 4 0.07
42 6 0.11
43 1 0.02
44 15 0.27
45 10 0.18
46 12 0.22
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.50
Consensus pattern (41 bp):
ATTATATTTTAGTAAATTATATAGAATAAGAATTATTTTAA
Found at i:37132465 original size:26 final size:28
Alignment explanation
Indices: 37132411--37132474 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 28
37132401 TAAGAATAAG
* * *
37132411 AATTTTATTAAATTATATATTATTATTA
1 AATTATATTTAATAATATATTATTATTA
37132439 AATTATATTTAATAATA-ATTATT-TTA
1 AATTATATTTAATAATATATTATTATTA
37132465 AATTATATTT
1 AATTATATTT
37132475 TAGTATTATA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 13 0.39
27 6 0.18
28 14 0.42
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (28 bp):
AATTATATTTAATAATATATTATTATTA
Found at i:37132544 original size:108 final size:106
Alignment explanation
Indices: 37132324--37132527 Score: 310
Period size: 109 Copynumber: 1.9 Consensus size: 106
37132314 AATAAAGTAG
37132324 ATTA-TAAATTATATTTAATAATAATTATTTAAATTATATTTTATAGTATTATATATTATGATTT
1 ATTATTAAATTATATTTAATAATAATTATTTAAATTATATTTTATAGTATTATATATTATGATTT
37132388 TAGTAAATTCATATAAGAATAAGAATTTTATTAAATTATATATT
66 TAGTAAATTCATATAAGAAT---AATTTTATTAAATTATATATT
37132432 ATTATTAAATTATATTTAATAATAATTATTTTAAATTATA-TTT-TAGTATTATATATTATGATT
1 ATTATTAAATTATATTTAATAATAATTA-TTTAAATTATATTTTATAGTATTATATATTATGA--
37132495 TTATTAGTAAATTCATATAAGAAT-A-TTTATTAA
63 TT-TTAGTAAATTCATATAAGAATAATTTTATTAA
37132528 CAATTTTATT
Statistics
Matches: 91, Mismatches: 0, Indels: 12
0.88 0.00 0.12
Matches are distributed among these distances:
106 8 0.09
107 1 0.01
108 22 0.24
109 26 0.29
110 13 0.14
111 21 0.23
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (106 bp):
ATTATTAAATTATATTTAATAATAATTATTTAAATTATATTTTATAGTATTATATATTATGATTT
TAGTAAATTCATATAAGAATAATTTTATTAAATTATATATT
Found at i:37132550 original size:17 final size:17
Alignment explanation
Indices: 37132530--37132563 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
37132520 TTTATTAACA
37132530 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
37132547 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
37132564 TCTATAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:37132755 original size:39 final size:41
Alignment explanation
Indices: 37132710--37132815 Score: 117
Period size: 44 Copynumber: 2.5 Consensus size: 41
37132700 TTTCCTTGTA
* * *
37132710 CTATTACACCTCTATTCCATTCAACTAAACACAAGAA-TAC
1 CTATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTAC
*
37132750 C-ATTACGCATCTATTTCATTACATTCAACCAAACAAAAGAATTAC
1 CTATTACGCCTCTA-TTC----CATTCAACCAAACAAAAGAATTAC
37132795 CTATTACGCCTCTATTCCATT
1 CTATTACGCCTCTATTCCATT
37132816 ACGCTTCTAT
Statistics
Matches: 54, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
39 10 0.19
40 4 0.07
41 4 0.07
44 18 0.33
45 7 0.13
46 11 0.20
ACGTcount: A:0.37, C:0.28, G:0.04, T:0.31
Consensus pattern (41 bp):
CTATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTAC
Found at i:37132790 original size:44 final size:46
Alignment explanation
Indices: 37132727--37132817 Score: 132
Period size: 46 Copynumber: 2.0 Consensus size: 46
37132717 ACCTCTATTC
* * *
37132727 CATTCAACTAAACACAAGAA-TACC-ATTACGCATCTATTTCATTA
1 CATTCAACCAAACAAAAGAATTACCTATTACGCATCTATTCCATTA
*
37132771 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACAAAAGAATTACCTATTACGCATCTATTCCATTA
37132817 C
1 C
37132818 GCTTCTATTC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 18 0.44
45 4 0.10
46 19 0.46
ACGTcount: A:0.40, C:0.27, G:0.04, T:0.29
Consensus pattern (46 bp):
CATTCAACCAAACAAAAGAATTACCTATTACGCATCTATTCCATTA
Found at i:37132818 original size:16 final size:16
Alignment explanation
Indices: 37132797--37132833 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
37132787 AGAATTACCT
37132797 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
37132813 ATTACGCTTCTATTCC
1 ATTACGCCTCTATTCC
37132829 ATTAC
1 ATTAC
37132834 AGCGAACCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.22, C:0.32, G:0.05, T:0.41
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:37137842 original size:18 final size:18
Alignment explanation
Indices: 37137808--37137869 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
37137798 GAACTTAATA
*
37137808 AATTTGTATAT-TTTTTTG
1 AATTT-TATATATATTTTG
*
37137826 AATTTTTTATATATTTTAG
1 AATTTTATATATATTTT-G
* *
37137845 ATATTATATATATTTTTTG
1 A-ATTTTATATATATTTTG
37137864 AATTTT
1 AATTTT
37137870 GAGTAGTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
17 4 0.11
18 14 0.40
19 4 0.11
20 13 0.37
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
AATTTTATATATATTTTG
Found at i:37151806 original size:20 final size:20
Alignment explanation
Indices: 37151781--37151866 Score: 113
Period size: 20 Copynumber: 4.3 Consensus size: 20
37151771 GTTCATTAGG
* *
37151781 TGGAAAGTGGTTATATGAAA
1 TGGAAATTGGATATATGAAA
37151801 TGGAAATTGGATATATGAAA
1 TGGAAATTGGATATATGAAA
* *
37151821 TGGGAATTTGATATATGAAA
1 TGGAAATTGGATATATGAAA
37151841 TGGAAATTGG-T-TATCGAAA
1 TGGAAATTGGATATAT-GAAA
37151860 TGGAAAT
1 TGGAAAT
37151867 GACATTTGAT
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
18 3 0.05
19 12 0.20
20 44 0.75
ACGTcount: A:0.41, C:0.01, G:0.27, T:0.31
Consensus pattern (20 bp):
TGGAAATTGGATATATGAAA
Found at i:37153851 original size:4 final size:4
Alignment explanation
Indices: 37153842--37153866 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
37153832 AACTTAAGCC
37153842 AACA AACA AACA AACA AACA AACA A
1 AACA AACA AACA AACA AACA AACA A
37153867 CTAATCACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.24, G:0.00, T:0.00
Consensus pattern (4 bp):
AACA
Found at i:37158709 original size:27 final size:27
Alignment explanation
Indices: 37158679--37159025 Score: 435
Period size: 27 Copynumber: 12.9 Consensus size: 27
37158669 GGTATTTAAA
*
37158679 TAATTTTACCCTTCGAGGGTATTTTGG
1 TAATTTTACCCTTCGAGGGTATTTCGG
* **
37158706 TAATTTTATCCTTCGAGGGTATTTTAG
1 TAATTTTACCCTTCGAGGGTATTTCGG
*
37158733 TAATTTTACCCTTCGAGGGTATTTCAG
1 TAATTTTACCCTTCGAGGGTATTTCGG
* *
37158760 TAATTTTACCCTTC-AAGGTGTTTCGG
1 TAATTTTACCCTTCGAGGGTATTTCGG
* *
37158786 TAATTTTACCCTTCAAGGGTATTTCAG
1 TAATTTTACCCTTCGAGGGTATTTCGG
* * * *
37158813 TAATTTTTCCTTTTGAGGGTATTTCAG
1 TAATTTTACCCTTCGAGGGTATTTCGG
* * * *
37158840 TGATTTAACCCTTTGAGGGTATTTTGG
1 TAATTTTACCCTTCGAGGGTATTTCGG
37158867 TAATTTTACCCTTCGAGGGTATTTCGG
1 TAATTTTACCCTTCGAGGGTATTTCGG
* * * *
37158894 TAATTTTTCCCTTTGAGGGTATTTTGA
1 TAATTTTACCCTTCGAGGGTATTTCGG
* *
37158921 TAATTTAACCCTTCGAGGGTATTTTGG
1 TAATTTTACCCTTCGAGGGTATTTCGG
* * *
37158948 TAATTTTACTCTTTGAGGGTATTTCGA
1 TAATTTTACCCTTCGAGGGTATTTCGG
37158975 TAATTTTACCCTTCGAGGGTATTTCGG
1 TAATTTTACCCTTCGAGGGTATTTCGG
* *
37159002 TTATTTTACCCATCGAGGGTATTT
1 TAATTTTACCCTTCGAGGGTATTT
37159026 TAGTCATTTT
Statistics
Matches: 277, Mismatches: 42, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
26 23 0.08
27 254 0.92
ACGTcount: A:0.20, C:0.15, G:0.20, T:0.45
Consensus pattern (27 bp):
TAATTTTACCCTTCGAGGGTATTTCGG
Found at i:37163544 original size:19 final size:19
Alignment explanation
Indices: 37163522--37163559 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
37163512 TCCCTTATCC
37163522 CTCATCGCATCATT-TCTCA
1 CTCAT-GCATCATTCTCTCA
*
37163541 CTCATTCATCATTCTCTCA
1 CTCATGCATCATTCTCTCA
37163560 ACTCTTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.21, C:0.37, G:0.03, T:0.39
Consensus pattern (19 bp):
CTCATGCATCATTCTCTCA
Found at i:37180349 original size:371 final size:371
Alignment explanation
Indices: 37179666--37180411 Score: 1375
Period size: 371 Copynumber: 2.0 Consensus size: 371
37179656 TTTCAAAATG
*
37179666 TTTGTATATGAGTTACTTGTTAATAAAGAAGGTCTATGAGCATGAATTTATTGATGCATGATTAT
1 TTTGTATATGAGTTACTTGTTAATAAAGAAGGTCTATGAGCATGAATTTATTGACGCATGATTAT
* * *
37179731 GAGACAAATATTGATTCTACTTATACTCTTAGCATAATTTGCCTTTGCAAGACCTTGTGCTATGC
66 GAGACAAAGATTGATTCTACTTATACTCTTAGCAAAATTTGCCTTAGCAAGACCTTGTGCTATGC
*
37179796 ATGAACATTACTCAGGACGAGCACTGATTTAAGTTTGGGGGTGTGTAAACTGAAAAATATATAGG
131 ATGAACATTACTCAGGACGAGCAATGATTTAAGTTTGGGGGTGTGTAAACTGAAAAATATATAGG
37179861 ATTTTTCCTACATAATTCATCACCTTTTTACTTAAATTTGTTGTTAAAACCAAGTAATTGTTTAA
196 ATTTTTCCTACATAATTCATCACCTTTTTACTTAAATTTGTTGTTAAAACCAAGTAATTGTTTAA
* * *
37179926 TAAATTAATGAAATATGCGAAAATATGAAATTAGGACATAGAAATTATTAAAATGTGATTTTAAA
261 AAAATTAATGAAATATGCGAAAATATGAAATTAGGACATAAAAATTATTAAAATGTGATTTCAAA
37179991 CTTTATTATATAGTTTTCATGCATAAAATGACTTATTTTATATTAA
326 CTTTATTATATAGTTTTCATGCATAAAATGACTTATTTTATATTAA
37180037 TTTGTATATGAGTTACTTGTTAATAAAGAAGGTCTATGAGCATGAATTTATTGACGCATGATTAT
1 TTTGTATATGAGTTACTTGTTAATAAAGAAGGTCTATGAGCATGAATTTATTGACGCATGATTAT
*
37180102 GAGACAAAGATTGATTCTACTTATACTCTTAGCAAAATTTGCCTTAGCAAGACCTTGTGCTGTGC
66 GAGACAAAGATTGATTCTACTTATACTCTTAGCAAAATTTGCCTTAGCAAGACCTTGTGCTATGC
37180167 ATGAACATTACTCAGGACGAGCAATGATTTAAGTTTGGGGGTGTGTAAACTGAAAAATATATAGG
131 ATGAACATTACTCAGGACGAGCAATGATTTAAGTTTGGGGGTGTGTAAACTGAAAAATATATAGG
* *
37180232 ATTTTTCTTATATAATTCATCACCTTTTTACTTAAATTTGTTGTTAAAACCAAGTAATTGTTTAA
196 ATTTTTCCTACATAATTCATCACCTTTTTACTTAAATTTGTTGTTAAAACCAAGTAATTGTTTAA
* *
37180297 AAAATTAATGAAATATGCGAAAATATGAAATTAGGATATAAAAATTATTAAAATGTGATTTCATA
261 AAAATTAATGAAATATGCGAAAATATGAAATTAGGACATAAAAATTATTAAAATGTGATTTCAAA
37180362 CTTTATTATATAGTTTTCATGCATAAAATGACTTATTTTATATTAA
326 CTTTATTATATAGTTTTCATGCATAAAATGACTTATTTTATATTAA
37180408 TTTG
1 TTTG
37180412 AGCATATTAT
Statistics
Matches: 362, Mismatches: 13, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
371 362 1.00
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.38
Consensus pattern (371 bp):
TTTGTATATGAGTTACTTGTTAATAAAGAAGGTCTATGAGCATGAATTTATTGACGCATGATTAT
GAGACAAAGATTGATTCTACTTATACTCTTAGCAAAATTTGCCTTAGCAAGACCTTGTGCTATGC
ATGAACATTACTCAGGACGAGCAATGATTTAAGTTTGGGGGTGTGTAAACTGAAAAATATATAGG
ATTTTTCCTACATAATTCATCACCTTTTTACTTAAATTTGTTGTTAAAACCAAGTAATTGTTTAA
AAAATTAATGAAATATGCGAAAATATGAAATTAGGACATAAAAATTATTAAAATGTGATTTCAAA
CTTTATTATATAGTTTTCATGCATAAAATGACTTATTTTATATTAA
Found at i:37189950 original size:52 final size:52
Alignment explanation
Indices: 37189872--37189972 Score: 175
Period size: 52 Copynumber: 1.9 Consensus size: 52
37189862 CATGCACATA
* *
37189872 TTTGAGCTTCAACCGAGCTAGAAATGAGGTCTTAAGCTACTGTCTATTATTG
1 TTTGAGCTTCAACCGAGCTAGAAATGAGATCTTAAGCTACTGTCCATTATTG
*
37189924 TTTGAGCTTCAACCGAGCTAGAAATGAGATCTTAAGCTGCTGTCCATTA
1 TTTGAGCTTCAACCGAGCTAGAAATGAGATCTTAAGCTACTGTCCATTA
37189973 CGTTTCCTTA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.33
Consensus pattern (52 bp):
TTTGAGCTTCAACCGAGCTAGAAATGAGATCTTAAGCTACTGTCCATTATTG
Found at i:37191827 original size:21 final size:21
Alignment explanation
Indices: 37191788--37191849 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
37191778 GAAGTGCAGG
* * *
37191788 CAGAGGCATCGAAGAGCAATA
1 CAGAGGCACCAAAGTGCAATA
* *
37191809 TAGAGGCACCAGAGTGCAATA
1 CAGAGGCACCAAAGTGCAATA
37191830 CAGAGGCACCAAAGTGCAAT
1 CAGAGGCACCAAAGTGCAAT
37191850 CTTGTACAAG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.40, C:0.21, G:0.27, T:0.11
Consensus pattern (21 bp):
CAGAGGCACCAAAGTGCAATA
Found at i:37195654 original size:18 final size:18
Alignment explanation
Indices: 37195631--37195668 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
37195621 CGTACACCTT
37195631 TAGTACGATAGTCAACCA
1 TAGTACGATAGTCAACCA
37195649 TAGTACGATAGTCAACCA
1 TAGTACGATAGTCAACCA
37195667 TA
1 TA
37195669 ACATTATGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.24
Consensus pattern (18 bp):
TAGTACGATAGTCAACCA
Found at i:37200388 original size:36 final size:36
Alignment explanation
Indices: 37200320--37200388 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
37200310 TGAATGATTA
*
37200320 GAAAAGAGTAAGTTAATATGATATTTTTTATGTATG
1 GAAAAGAGTAAGTTAATATGATATTTTATATGTATG
*
37200356 GAAAAGAGTAAGTTACTATGACT-TTTTATATGT
1 GAAAAGAGTAAGTTAATATGA-TATTTTATATGT
37200389 TATATATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
36 29 0.97
37 1 0.03
ACGTcount: A:0.38, C:0.03, G:0.19, T:0.41
Consensus pattern (36 bp):
GAAAAGAGTAAGTTAATATGATATTTTATATGTATG
Found at i:37206115 original size:53 final size:53
Alignment explanation
Indices: 37206051--37206163 Score: 174
Period size: 53 Copynumber: 2.1 Consensus size: 53
37206041 GAAATAGAGA
* *
37206051 CACACAGTCGTGTC-CTAGCCTGTGTCCATGCTCGTGTAGCTCTCTAACTTGGT
1 CACACGGTCGTGTCGC-AGCCTGTGTCCATGCTCGTGTAACTCTCTAACTTGGT
**
37206104 CACACGGTCGTGTCGCAGTTTGTGTCCATGCTCGTGTAACTCTCTAACTTGGT
1 CACACGGTCGTGTCGCAGCCTGTGTCCATGCTCGTGTAACTCTCTAACTTGGT
37206157 CACACGG
1 CACACGG
37206164 CCAAGTCACA
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
53 54 0.98
54 1 0.02
ACGTcount: A:0.16, C:0.29, G:0.24, T:0.31
Consensus pattern (53 bp):
CACACGGTCGTGTCGCAGCCTGTGTCCATGCTCGTGTAACTCTCTAACTTGGT
Found at i:37207991 original size:25 final size:25
Alignment explanation
Indices: 37207922--37207980 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
37207912 AGTTGTAAAT
37207922 GGTAAGCTCATACAAGCTGAATATC
1 GGTAAGCTCATACAAGCTGAATATC
*
37207947 GGTAAGCTCATACAAGCTGAATATT
1 GGTAAGCTCATACAAGCTGAATATC
37207972 GGTAAGCTC
1 GGTAAGCTC
37207981 TCTCGAGCTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (25 bp):
GGTAAGCTCATACAAGCTGAATATC
Found at i:37209462 original size:25 final size:25
Alignment explanation
Indices: 37209404--37209454 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
37209394 GGGTTACCGG
* * *
37209404 TTCATAACTCATAAGAGCATTCCGA
1 TTCATAGCTCATAAGAGCATACCAA
37209429 TTCATAGCTCATAAGAGCATACCAA
1 TTCATAGCTCATAAGAGCATACCAA
37209454 T
1 T
37209455 CTTTAGCTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.27
Consensus pattern (25 bp):
TTCATAGCTCATAAGAGCATACCAA
Done.