Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006592.1 Hibiscus syriacus cultivar Beakdansim tig00016171_pilon, whole genome shotgun sequence
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: 276073
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
File 1 of 2
Found at i:8981 original size:43 final size:43
Alignment explanation
Indices: 8933--9016 Score: 116
Period size: 43 Copynumber: 2.0 Consensus size: 43
8923 AAATGAAGAG
*
8933 GATGCAACCAATAACTCCATATGCAAAGTACAGTT-ACCAGTAA
1 GATGCAACCAATAACTCCATATGAAAAGTACA-TTCACCAGTAA
** *
8976 GATGCAATTAATAACTCCATATTAAAAGTACATTCACCAGT
1 GATGCAACCAATAACTCCATATGAAAAGTACATTCACCAGT
9017 CTCCGGGTAG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
42 2 0.06
43 34 0.94
ACGTcount: A:0.42, C:0.21, G:0.12, T:0.25
Consensus pattern (43 bp):
GATGCAACCAATAACTCCATATGAAAAGTACATTCACCAGTAA
Found at i:10144 original size:63 final size:63
Alignment explanation
Indices: 10045--10211 Score: 264
Period size: 63 Copynumber: 2.7 Consensus size: 63
10035 TAATCACACC
10045 TTTCCTTTAATTCCATAATCGTCCGTCTCCCACATTGATTATCATTCGTCTCTACTATGCGCT
1 TTTCCTTTAATTCCATAATCGTCCGTCTCCCACATTGATTATCATTCGTCTCTACTATGCGCT
* *
10108 TTTCCTTTAATTCCATAATCGTTCGTCTCCCACATTGATTATCATTTGTCTCTACTATGCGCT
1 TTTCCTTTAATTCCATAATCGTCCGTCTCCCACATTGATTATCATTCGTCTCTACTATGCGCT
* * * *
10171 TTTCCTTTAATTCTACAA-CTGTCCGTCTCTCACATTAATTA
1 TTTCCTTTAATTCCATAATC-GTCCGTCTCCCACATTGATTA
10212 CCACACATCT
Statistics
Matches: 96, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
62 1 0.01
63 95 0.99
ACGTcount: A:0.20, C:0.28, G:0.08, T:0.43
Consensus pattern (63 bp):
TTTCCTTTAATTCCATAATCGTCCGTCTCCCACATTGATTATCATTCGTCTCTACTATGCGCT
Found at i:12140 original size:21 final size:21
Alignment explanation
Indices: 12086--12155 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 21
12076 TGTACATTCT
*
12086 GTAGCCGTTTCAGATGGCACC
1 GTAGCCATTTCAGATGGCACC
* * * *
12107 GCAGTCGTATCAGATGGCACC
1 GTAGCCATTTCAGATGGCACC
* *
12128 ATAGCCATTTCAGATGCCACC
1 GTAGCCATTTCAGATGGCACC
12149 GTAGCCA
1 GTAGCCA
12156 GGTCAGACTC
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.21
Consensus pattern (21 bp):
GTAGCCATTTCAGATGGCACC
Found at i:12161 original size:21 final size:21
Alignment explanation
Indices: 12116--12170 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
12106 CGCAGTCGTA
* * **
12116 TCAGATGGCACCATAGCCATT
1 TCAGATGCCACCGTAGCCAGG
12137 TCAGATGCCACCGTAGCCAGG
1 TCAGATGCCACCGTAGCCAGG
12158 TCAGACT-CCACCG
1 TCAGA-TGCCACCG
12171 CTTCCATATC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 28 0.97
22 1 0.03
ACGTcount: A:0.25, C:0.35, G:0.22, T:0.18
Consensus pattern (21 bp):
TCAGATGCCACCGTAGCCAGG
Found at i:15338 original size:15 final size:15
Alignment explanation
Indices: 15314--15344 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
15304 GGTGTCTATT
15314 ACATTAAAGATTTAC
1 ACATTAAAGATTTAC
*
15329 ACATTCAAGATTTAC
1 ACATTAAAGATTTAC
15344 A
1 A
15345 ACCGGTCAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.16, G:0.06, T:0.32
Consensus pattern (15 bp):
ACATTAAAGATTTAC
Found at i:23416 original size:16 final size:17
Alignment explanation
Indices: 23395--23426 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
23385 CATTTCCAAA
23395 ATAAATCTTCA-ATTCC
1 ATAAATCTTCATATTCC
23411 ATAAATCTTCATATTC
1 ATAAATCTTCATATTC
23427 ATCACCAACC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.41
Consensus pattern (17 bp):
ATAAATCTTCATATTCC
Found at i:28183 original size:17 final size:17
Alignment explanation
Indices: 28163--28208 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
28153 TGATATTCTC
28163 TTATTAAACTAATTCAT
1 TTATTAAACTAATTCAT
* * *
28180 TTATCAAAATAGTTCAT
1 TTATTAAACTAATTCAT
28197 TTATTAAACTAA
1 TTATTAAACTAA
28209 CTCTTAATTG
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.43, C:0.11, G:0.02, T:0.43
Consensus pattern (17 bp):
TTATTAAACTAATTCAT
Found at i:33910 original size:14 final size:14
Alignment explanation
Indices: 33893--33922 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
33883 GTTAACAGTC
*
33893 AACGGGTCGGGTCA
1 AACGAGTCGGGTCA
33907 AACGAGTCGGGTCA
1 AACGAGTCGGGTCA
33921 AA
1 AA
33923 ACTGGGTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.20, G:0.37, T:0.13
Consensus pattern (14 bp):
AACGAGTCGGGTCA
Found at i:35902 original size:55 final size:54
Alignment explanation
Indices: 35818--35926 Score: 164
Period size: 55 Copynumber: 2.0 Consensus size: 54
35808 CATAACCATA
* * * * *
35818 CACCCCCTGCACAAGGTAAGGCCTTGAGCACAAAGCCGATGAACCTGCAGATAT
1 CACCCCCTGCACAAAGTAAGGCCCTGAGCACAAAGCCAAGGAACCTACAGATAT
35872 CACCCCCTGCACAACAGTAAGGCCCTGAGCACAAAGCCAAGGAACCTACAGATAT
1 CACCCCCTGCACAA-AGTAAGGCCCTGAGCACAAAGCCAAGGAACCTACAGATAT
35927 AAACTCTCCA
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
54 14 0.29
55 35 0.71
ACGTcount: A:0.34, C:0.33, G:0.20, T:0.13
Consensus pattern (54 bp):
CACCCCCTGCACAAAGTAAGGCCCTGAGCACAAAGCCAAGGAACCTACAGATAT
Found at i:41671 original size:55 final size:55
Alignment explanation
Indices: 41587--41696 Score: 177
Period size: 55 Copynumber: 2.0 Consensus size: 55
41577 CATAACCATA
*
41587 CACCCCCTGCACAACAGTAAGGCCCTGAGCACAGAGCCGAGGAACCT-ACAGATAT
1 CACCCCCTGCACAACAGTAAGGCCCTGAGCACAAAGCCGAGGAACCTGA-AGATAT
* *
41642 CACCCCCTGTACAACAGTAAGGCCCTGAGCACAAAGCTGAGGAACCTGAAGATAT
1 CACCCCCTGCACAACAGTAAGGCCCTGAGCACAAAGCCGAGGAACCTGAAGATAT
41697 AAACCCTCCA
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
55 50 0.98
56 1 0.02
ACGTcount: A:0.34, C:0.32, G:0.22, T:0.13
Consensus pattern (55 bp):
CACCCCCTGCACAACAGTAAGGCCCTGAGCACAAAGCCGAGGAACCTGAAGATAT
Found at i:44254 original size:17 final size:17
Alignment explanation
Indices: 44228--44270 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
44218 AAATTAAACA
*
44228 GTCAAAAGTGGTCAACG
1 GTCAACAGTGGTCAACG
44245 GTCAACAGTGGTCAACG
1 GTCAACAGTGGTCAACG
44262 GTCAACAGT
1 GTCAACAGT
44271 CAATGGGTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.33, C:0.21, G:0.28, T:0.19
Consensus pattern (17 bp):
GTCAACAGTGGTCAACG
Found at i:50593 original size:17 final size:17
Alignment explanation
Indices: 50571--50614 Score: 88
Period size: 17 Copynumber: 2.6 Consensus size: 17
50561 AATCAACGGA
50571 CAACGGTCAATGGTGGT
1 CAACGGTCAATGGTGGT
50588 CAACGGTCAATGGTGGT
1 CAACGGTCAATGGTGGT
50605 CAACGGTCAA
1 CAACGGTCAA
50615 CAATCAACAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.27, C:0.20, G:0.32, T:0.20
Consensus pattern (17 bp):
CAACGGTCAATGGTGGT
Found at i:54958 original size:23 final size:23
Alignment explanation
Indices: 54932--54978 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
54922 AGAACACTTA
54932 TTGTGCTCAATTATATTTATTCT
1 TTGTGCTCAATTATATTTATTCT
54955 TTGTGCTCAATTATATTTATTCT
1 TTGTGCTCAATTATATTTATTCT
54978 T
1 T
54979 GAGTGTTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.21, C:0.13, G:0.09, T:0.57
Consensus pattern (23 bp):
TTGTGCTCAATTATATTTATTCT
Found at i:60452 original size:19 final size:19
Alignment explanation
Indices: 60428--60464 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
60418 TACCCCTTGA
*
60428 AGGGGAACCGATTCCCCCT
1 AGGGGAACCGATACCCCCT
*
60447 AGGGGAATCGATACCCCC
1 AGGGGAACCGATACCCCC
60465 CTGGGGTTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.35, G:0.27, T:0.14
Consensus pattern (19 bp):
AGGGGAACCGATACCCCCT
Found at i:60466 original size:20 final size:19
Alignment explanation
Indices: 60428--60470 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
60418 TACCCCTTGA
*
60428 AGGGGAACCGATTCCCCCT
1 AGGGGAACCGATCCCCCCT
*
60447 AGGGGAATCGATACCCCCCT
1 AGGGGAACCGAT-CCCCCCT
60467 -GGGG
1 AGGGG
60471 TTCTGGTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.21, C:0.33, G:0.33, T:0.14
Consensus pattern (19 bp):
AGGGGAACCGATCCCCCCT
Found at i:68639 original size:54 final size:54
Alignment explanation
Indices: 68581--68875 Score: 236
Period size: 55 Copynumber: 5.4 Consensus size: 54
68571 TGACGCAGCC
* * * ** * *
68581 ATTCATAATCTCATTATAAATTCCGTGAGTTGCACACTTAGTGCCGATACGGAA
1 ATTCATAAACTCATTATGAATTCCGTAAGTTGCACACACAGTGCCAATACAGAA
* *
68635 ATTCATAAACTCATTATGAATTTCTTAAGTTGCACACACAGTGCCAATACAGAA
1 ATTCATAAACTCATTATGAATTCCGTAAGTTGCACACACAGTGCCAATACAGAA
* * * * *
68689 ATTCATAAACTTATTATGAATTTC-TTAGTTTTGCACACACAATGCCTATACAGAA
1 ATTCATAAACTCATTATGAATTCCGTAAG--TTGCACACACAGTGCCAATACAGAA
* * * * * * * *
68744 ATTTATAAACTTATTATGAATTTCTTAAGTTTACACATACAGTTCCCATAC-GAAA
1 ATTCATAAACTCATTATGAATTCCGTAAG-TTGCACACACAGTGCCAATACAG-AA
** * * * * * *
68799 ATTCATTCACTTAGTATGAATTTC-TTAGTTTTGCACACACAATGCCTATACAGAA
1 ATTCATAAACTCATTATGAATTCCGTAAG--TTGCACACACAGTGCCAATACAGAA
*
68854 ATTCATAAACTTATTATGAATT
1 ATTCATAAACTCATTATGAATT
68876 TTTTAAGTTT
Statistics
Matches: 202, Mismatches: 33, Indels: 11
0.82 0.13 0.04
Matches are distributed among these distances:
53 3 0.01
54 72 0.36
55 123 0.61
56 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (54 bp):
ATTCATAAACTCATTATGAATTCCGTAAGTTGCACACACAGTGCCAATACAGAA
Found at i:68752 original size:55 final size:56
Alignment explanation
Indices: 68622--69278 Score: 414
Period size: 55 Copynumber: 11.9 Consensus size: 56
68612 GCACACTTAG
* * * *
68622 TGCCGATACGGAAATTCATAAACTCATTATGAATTTCTTAAG--TTGCACACACAG
1 TGCCTATACAGAAATTCATAAACTTATTATGAATTTCTTAAGTTTTGCACACACAA
*
68676 TGCCAATACAGAAATTCATAAACTTATTATGAATTTCTT-AGTTTTGCACACACAA
1 TGCCTATACAGAAATTCATAAACTTATTATGAATTTCTTAAGTTTTGCACACACAA
* * * *
68731 TGCCTATACAGAAATTTATAAACTTATTATGAATTTCTTAAG-TTTACACATACAG
1 TGCCTATACAGAAATTCATAAACTTATTATGAATTTCTTAAGTTTTGCACACACAA
* * ** *
68786 TTCCCATAC-GAAAATTCATTCACTTAGTATGAATTTCTT-AGTTTTGCACACACAA
1 TGCCTATACAG-AAATTCATAAACTTATTATGAATTTCTTAAGTTTTGCACACACAA
* * * * *
68841 TGCCTATACAGAAATTCATAAACTTATTATGAATTTTTTAAG-TTTACACATATAG
1 TGCCTATACAGAAATTCATAAACTTATTATGAATTTCTTAAGTTTTGCACACACAA
* ** * * * *
68896 TGCCCATAC-GAAAATTCATCCACTTAGTATGAATTTCTTATG-TTTACACATA-AA
1 TGCCTATACAG-AAATTCATAAACTTATTATGAATTTCTTAAGTTTTGCACACACAA
* * ** * * * * * *
68950 GTGCCCATACAAAAATTCATCCACTTAGTATGAGTTTCTTAAG-TTTACACATATAG
1 -TGCCTATACAGAAATTCATAAACTTATTATGAATTTCTTAAGTTTTGCACACACAA
* * * ** * * * * * *
69006 TACCCATACGGAAATTCATCCACTTAGTATGAATTGC-TAAG-TTTACACATATAG
1 TGCCTATACAGAAATTCATAAACTTATTATGAATTTCTTAAGTTTTGCACACACAA
* * ** * ** * * *
69060 TGCCCATACAAAAATTCATCCACTTAGTATGAATTTCTTAAG-TTTAAACATATAG
1 TGCCTATACAGAAATTCATAAACTTATTATGAATTTCTTAAGTTTTGCACACACAA
* ** * * * * * * *
69115 TGCCCATAC-GAAAATTCATCTACATAGTATGGATTTCTTAAG-TTTACACATATAG
1 TGCCTATACAG-AAATTCATAAACTTATTATGAATTTCTTAAGTTTTGCACACACAA
* * ** * * *
69170 TGCCCATACGGAAATTCATCCACTTATTATGAATTTCTTAAG-TTTACAAATA-AA
1 TGCCTATACAGAAATTCATAAACTTATTATGAATTTCTTAAGTTTTGCACACACAA
* * ** *
69224 GTGCCCATACGGAAATTCATAAAACAAATTATGAATTTCTTAACTTTTTGCACAC
1 -TGCCTATACAGAAATTCAT-AAACTTATTATGAATTTCTTAA-GTTTTGCACAC
69279 TCAGTGCCAT
Statistics
Matches: 517, Mismatches: 68, Indels: 32
0.84 0.11 0.05
Matches are distributed among these distances:
53 2 0.00
54 92 0.18
55 392 0.76
56 25 0.05
58 6 0.01
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.35
Consensus pattern (56 bp):
TGCCTATACAGAAATTCATAAACTTATTATGAATTTCTTAAGTTTTGCACACACAA
Found at i:68834 original size:110 final size:110
Alignment explanation
Indices: 68622--69243 Score: 734
Period size: 110 Copynumber: 5.7 Consensus size: 110
68612 GCACACTTAG
* * * * * * *
68622 TGCCGATACGGAAATTCATAAACTCATTATGAATTTCTTAAG-TTGCACACACAGTGCCAATAC-
1 TGCCCATACAGAAATTCATAAACTTATTATGAATTTCTTAAGTTTACACATATAGTGCCCATACG
** * * *
68685 AGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAA
66 A-AAATTCATCCACTTAGTATGAATTTCTTAGTTTTACACATACAA
* * * *
68731 TGCCTATACAGAAATTTATAAACTTATTATGAATTTCTTAAGTTTACACATACAGTTCCCATACG
1 TGCCCATACAGAAATTCATAAACTTATTATGAATTTCTTAAGTTTACACATATAGTGCCCATACG
* * *
68796 AAAATTCATTCACTTAGTATGAATTTCTTAGTTTTGCACACACAA
66 AAAATTCATCCACTTAGTATGAATTTCTTAGTTTTACACATACAA
* *
68841 TGCCTATACAGAAATTCATAAACTTATTATGAATTTTTTAAGTTTACACATATAGTGCCCATACG
1 TGCCCATACAGAAATTCATAAACTTATTATGAATTTCTTAAGTTTACACATATAGTGCCCATACG
68906 AAAATTCATCCACTTAGTATGAATTTCTTA-TGTTTACACATA-AA
66 AAAATTCATCCACTTAGTATGAATTTCTTAGT-TTTACACATACAA
* ** * * *
68950 GTGCCCATACAAAAATTCATCCACTTAGTATGAGTTTCTTAAGTTTACACATATAGTACCCATAC
1 -TGCCCATACAGAAATTCATAAACTTATTATGAATTTCTTAAGTTTACACATATAGTGCCCATAC
* * * * *
69015 GGAAATTCATCCACTTAGTATGAATTGCTAAG-TTTACACATATAG
65 GAAAATTCATCCACTTAGTATGAATTTCTTAGTTTTACACATACAA
* ** * *
69060 TGCCCATACAAAAATTCATCCACTTAGTATGAATTTCTTAAGTTTAAACATATAGTGCCCATACG
1 TGCCCATACAGAAATTCATAAACTTATTATGAATTTCTTAAGTTTACACATATAGTGCCCATACG
* * * * *
69125 AAAATTCATCTACATAGTATGGATTTCTTAAG-TTTACACATATAG
66 AAAATTCATCCACTTAGTATGAATTTCTT-AGTTTTACACATACAA
* ** * *
69170 TGCCCATACGGAAATTCATCCACTTATTATGAATTTCTTAAGTTTACAAATAAAGTGCCCATACG
1 TGCCCATACAGAAATTCATAAACTTATTATGAATTTCTTAAGTTTACACATATAGTGCCCATACG
*
69235 GAAATTCAT
66 AAAATTCAT
69244 AAAACAAATT
Statistics
Matches: 460, Mismatches: 46, Indels: 13
0.89 0.09 0.03
Matches are distributed among these distances:
109 136 0.30
110 323 0.70
111 1 0.00
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.35
Consensus pattern (110 bp):
TGCCCATACAGAAATTCATAAACTTATTATGAATTTCTTAAGTTTACACATATAGTGCCCATACG
AAAATTCATCCACTTAGTATGAATTTCTTAGTTTTACACATACAA
Found at i:68855 original size:165 final size:165
Alignment explanation
Indices: 68620--69266 Score: 714
Period size: 165 Copynumber: 3.9 Consensus size: 165
68610 TTGCACACTT
* * ** * * * *
68620 AGTGCCGATACGGAAATTCATAAACTCATTATGAATTTCTTAAG-TTGCACACACAGTGCCAATA
1 AGTGCCCATACGAAAATTCATTCACTTAGTATGAATTTCTTAAGTTTACACACACAGTGCCCATA
* * * * *
68684 CAGAAATTCATAAACTTATTATGAATTTCTT-AGTTTTGCACACACAATGCCTATACAGAAATTT
66 CAGAAATTCATAAACTTATTATGAATTTCTTAAG-TTTACACATATAATGCCCATACAGAAATTC
* *
68748 ATAAACTTATTATGAATTTCTTAAGTTTACACATAC
130 ATAAACTTAGTATGAATTTCTTAAGTTTACACATAA
* * * *
68784 AGTTCCCATACGAAAATTCATTCACTTAGTATGAATTTCTT-AGTTTTGCACACACAATGCCTAT
1 AGTGCCCATACGAAAATTCATTCACTTAGTATGAATTTCTTAAG-TTTACACACACAGTGCCCAT
* *
68848 ACAGAAATTCATAAACTTATTATGAATTTTTTAAGTTTACACATATAGTGCCCATAC-GAAAATT
65 ACAGAAATTCATAAACTTATTATGAATTTCTTAAGTTTACACATATAATGCCCATACAG-AAATT
** *
68912 CATCCACTTAGTATGAATTTCTTATGTTTACACATAA
129 CATAAACTTAGTATGAATTTCTTAAGTTTACACATAA
* * * * * *
68949 AGTGCCCATACAAAAATTCATCCACTTAGTATGAGTTTCTTAAGTTTACACATATAGTACCCATA
1 AGTGCCCATACGAAAATTCATTCACTTAGTATGAATTTCTTAAGTTTACACACACAGTGCCCATA
* ** * * * *
69014 CGGAAATTCATCCACTTAGTATGAATTGC-TAAGTTTACACATATAGTGCCCATACAAAAATTCA
66 CAGAAATTCATAAACTTATTATGAATTTCTTAAGTTTACACATATAATGCCCATACAGAAATTCA
** * *
69078 TCCACTTAGTATGAATTTCTTAAGTTTAAACATAT
131 TAAACTTAGTATGAATTTCTTAAGTTTACACATAA
* * * *
69113 AGTGCCCATACGAAAATTCA-TCTACATAGTATGGATTTCTTAAGTTTACACATATAGTGCCCAT
1 AGTGCCCATACGAAAATTCATTC-ACTTAGTATGAATTTCTTAAGTTTACACACACAGTGCCCAT
* ** * *
69177 ACGGAAATTCATCCACTTATTATGAATTTCTTAAGTTTACAAATA-AAGTGCCCATACGGAAATT
65 ACAGAAATTCATAAACTTATTATGAATTTCTTAAGTTTACACATATAA-TGCCCATACAGAAATT
** *
69241 CATAAAACAAATTATGAATTTCTTAA
129 CAT-AAACTTAGTATGAATTTCTTAA
69267 CTTTTTGCAC
Statistics
Matches: 415, Mismatches: 58, Indels: 18
0.85 0.12 0.04
Matches are distributed among these distances:
163 3 0.01
164 185 0.45
165 206 0.50
166 21 0.05
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.34
Consensus pattern (165 bp):
AGTGCCCATACGAAAATTCATTCACTTAGTATGAATTTCTTAAGTTTACACACACAGTGCCCATA
CAGAAATTCATAAACTTATTATGAATTTCTTAAGTTTACACATATAATGCCCATACAGAAATTCA
TAAACTTAGTATGAATTTCTTAAGTTTACACATAA
Found at i:69153 original size:219 final size:220
Alignment explanation
Indices: 68633--69243 Score: 737
Period size: 219 Copynumber: 2.8 Consensus size: 220
68623 GCCGATACGG
* * ** * * * *
68633 AAATTCATAAACTCATTATGAATTTCTTAAG-TTGCACACACAGTGCCAATAC-AGAAATTCATA
1 AAATTCATAAACTTAGTATGAATTTCTTAAGTTTAAACATATAGTGCCCATACGA-AAATTCATC
* * * * * * * * **
68696 AACTTATTATGAATTTCTT-AGTTTTGCACACACAA-TGCCTATACAGAAATTTATAAACTTATT
65 CACATAGTATGAATTTCTTAAG-TTTACACATA-AAGTGCCCATACAAAAATTCATCCACTTATT
* * * * *
68759 ATGAATTTCTTAAGTTTACACATACAGTTCCCATACGAAAATTCATTCACTTAGTATGAATTTCT
128 ATGAATTTCTTAAGTTTACACATAAAGTACCCATACGGAAATTCATCCACTTAGTATGAATTGCT
* * * *
68824 TAGTTTTGCACACACAATGCCTATACAG
193 AAGTTTTACACACACAATGCCCATACAA
* * *
68852 AAATTCATAAACTTATTATGAATTTTTTAAGTTTACACATATAGTGCCCATACGAAAATTCATCC
1 AAATTCATAAACTTAGTATGAATTTCTTAAGTTTAAACATATAGTGCCCATACGAAAATTCATCC
* * *
68917 ACTTAGTATGAATTTCTTATGTTTACACATAAAGTGCCCATACAAAAATTCATCCACTTAGTATG
66 ACATAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACAAAAATTCATCCACTTATTATG
* *
68982 AGTTTCTTAAGTTTACACATATAGTACCCATACGGAAATTCATCCACTTAGTATGAATTGCTAAG
131 AATTTCTTAAGTTTACACATAAAGTACCCATACGGAAATTCATCCACTTAGTATGAATTGCTAAG
* * *
69047 -TTTACACATATAGTGCCCATACAA
196 TTTTACACACACAATGCCCATACAA
** *
69071 AAATTCATCCACTTAGTATGAATTTCTTAAGTTTAAACATATAGTGCCCATACGAAAATTCATCT
1 AAATTCATAAACTTAGTATGAATTTCTTAAGTTTAAACATATAGTGCCCATACGAAAATTCATCC
* * **
69136 ACATAGTATGGATTTCTTAAGTTTACACATATAGTGCCCATACGGAAATTCATCCACTTATTATG
66 ACATAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACAAAAATTCATCCACTTATTATG
* *
69201 AATTTCTTAAGTTTACAAATAAAGTGCCCATACGGAAATTCAT
131 AATTTCTTAAGTTTACACATAAAGTACCCATACGGAAATTCAT
69244 AAAACAAATT
Statistics
Matches: 340, Mismatches: 48, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
219 205 0.60
220 133 0.39
221 2 0.01
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.35
Consensus pattern (220 bp):
AAATTCATAAACTTAGTATGAATTTCTTAAGTTTAAACATATAGTGCCCATACGAAAATTCATCC
ACATAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACAAAAATTCATCCACTTATTATG
AATTTCTTAAGTTTACACATAAAGTACCCATACGGAAATTCATCCACTTAGTATGAATTGCTAAG
TTTTACACACACAATGCCCATACAA
Found at i:69669 original size:19 final size:19
Alignment explanation
Indices: 69642--69682 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
69632 GTATCAATAC
69642 TACTATATTATGGTACCGA
1 TACTATATTATGGTACCGA
* * *
69661 TACTCTATTGTGGTATCGA
1 TACTATATTATGGTACCGA
69680 TAC
1 TAC
69683 CATTTTTGCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (19 bp):
TACTATATTATGGTACCGA
Found at i:74939 original size:55 final size:55
Alignment explanation
Indices: 74867--75297 Score: 266
Period size: 55 Copynumber: 7.8 Consensus size: 55
74857 CTTAAGTTGC
* * *
74867 ATGCCAATATGGAAATTCATAAACTTATTATAAAATTCTTAGTTTTGCACACACA
1 ATGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACA
* * *
74922 ATTCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAGA
1 ATGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACA
* * * * *
74977 GTGCCTATACGGAAATTCATAAACTTATTATGAATTTCTTAAG-TTTACACATATA
1 ATGCCAATACGGAAATTCATAAACTTATTATGAATTTCTT-AGTTTTGCACACACA
* ** * * * * *
75032 GTGCTC-ATACGGAAATTCATCCACGTAGTATGAATTTCTTTAG-ATTACACATA-A
1 ATGC-CAATACGGAAATTCATAAACTTATTATGAATTTC-TTAGTTTTGCACACACA
* * ** * * * * *
75086 AGTGCCCATACGAAAATTCATCCACTTAGTATAAATTTCTTAAG-TTTACACATATA
1 A-TGCCAATACGGAAATTCATAAACTTATTATGAATTTCTT-AGTTTTGCACACACA
* ** * * * * *
75142 GTG-CACATACGGAAATTCATCCATTTAGTATGAATTTCTTAAG-TTTACACATATA
1 ATGCCA-ATACGGAAATTCATAAACTTATTATGAATTTCTT-AGTTTTGCACACACA
* * * ** * * * * *
75197 GTGCCCATACGAAAATTCATCCACTTAGTATGAATTTCTCAAG-TTTACACATATA
1 ATGCCAATACGGAAATTCATAAACTTATTATGAATTTCT-TAGTTTTGCACACACA
* * ** *
75252 GTGCCCATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTT
1 ATGCCAATACGGAAATTCATAAACTTATTATGAATTTCTT-AGTTT
75298 ACACAGTATG
Statistics
Matches: 330, Mismatches: 34, Indels: 23
0.85 0.09 0.06
Matches are distributed among these distances:
54 5 0.02
55 316 0.96
56 9 0.03
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.35
Consensus pattern (55 bp):
ATGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACA
Found at i:75070 original size:110 final size:109
Alignment explanation
Indices: 74879--75302 Score: 519
Period size: 110 Copynumber: 3.9 Consensus size: 109
74869 GCCAATATGG
* * * * * * * * *
74879 AAATTCATAAACTTATTATAAAATTCTT-AGTTTTGCACACACAATTCCAATACGAAAATTCATA
1 AAATTCATAAACTTAGTATAAATTTCTTAAG-TTTACACATATAGTGCC-ATACGGAAATTCATC
* * * * * * *
74943 AACTTATTATGAATTTCTT-AGTTTTGCACACAGAGTGCCTATACGG
64 CACTTAGTATGAATTTCTTAAG-TTTACACATAAAGTGCCCATACGA
* *
74989 AAATTCATAAACTTATTATGAATTTCTTAAGTTTACACATATAGTGCTCATACGGAAATTCATCC
1 AAATTCATAAACTTAGTATAAATTTCTTAAGTTTACACATATAGTGC-CATACGGAAATTCATCC
* * *
75054 ACGTAGTATGAATTTCTTTAGATTACACATAAAGTGCCCATACGA
65 ACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGA
**
75099 AAATTCATCCACTTAGTATAAATTTCTTAAGTTTACACATATAGTGCACATACGGAAATTCATCC
1 AAATTCATAAACTTAGTATAAATTTCTTAAGTTTACACATATAGTGC-CATACGGAAATTCATCC
* *
75164 ATTTAGTATGAATTTCTTAAGTTTACACATATAGTGCCCATACGA
65 ACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGA
** * *
75209 AAATTCATCCACTTAGTATGAATTTCTCAAGTTTACACATATAGTGCCCATACGGAAATTCATCC
1 AAATTCATAAACTTAGTATAAATTTCTTAAGTTTACACATATAGTG-CCATACGGAAATTCATCC
75274 ACTTAGTATGAATTTCTTAAGTTTACACA
65 ACTTAGTATGAATTTCTTAAGTTTACACA
75303 GTATGAATTT
Statistics
Matches: 279, Mismatches: 31, Indels: 8
0.88 0.10 0.03
Matches are distributed among these distances:
110 273 0.98
111 6 0.02
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (109 bp):
AAATTCATAAACTTAGTATAAATTTCTTAAGTTTACACATATAGTGCCATACGGAAATTCATCCA
CTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGA
Found at i:75298 original size:55 final size:55
Alignment explanation
Indices: 74928--75302 Score: 536
Period size: 55 Copynumber: 6.8 Consensus size: 55
74918 CACAATTCCA
* ** * * * * *
74928 ATACGAAAATTCATAAACTTATTATGAATTTCTT-AGTTTTGCACACAGAGTGCCT
1 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAG-TTTACACATATAGTGCCC
** * *
74983 ATACGGAAATTCATAAACTTATTATGAATTTCTTAAGTTTACACATATAGTGCTC
1 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATATAGTGCCC
* * * *
75038 ATACGGAAATTCATCCACGTAGTATGAATTTCTTTAGATTACACATAAAGTGCCC
1 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATATAGTGCCC
* * *
75093 ATACGAAAATTCATCCACTTAGTATAAATTTCTTAAGTTTACACATATAGTGCAC
1 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATATAGTGCCC
*
75148 ATACGGAAATTCATCCATTTAGTATGAATTTCTTAAGTTTACACATATAGTGCCC
1 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATATAGTGCCC
* *
75203 ATACGAAAATTCATCCACTTAGTATGAATTTCTCAAGTTTACACATATAGTGCCC
1 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATATAGTGCCC
75258 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACA
1 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACA
75303 GTATGAATTT
Statistics
Matches: 289, Mismatches: 30, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
55 287 0.99
56 2 0.01
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (55 bp):
ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATATAGTGCCC
Found at i:75305 original size:24 final size:24
Alignment explanation
Indices: 75278--75326 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
75268 TCATCCACTT
75278 AGTATGAATTTCTTAAGTTTACAC
1 AGTATGAATTTCTTAAGTTTACAC
75302 AGTATGAATTTCTTAAGTTTACAC
1 AGTATGAATTTCTTAAGTTTACAC
75326 A
1 A
75327 TATAGTGCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (24 bp):
AGTATGAATTTCTTAAGTTTACAC
Found at i:75354 original size:79 final size:79
Alignment explanation
Indices: 75223--75381 Score: 282
Period size: 79 Copynumber: 2.0 Consensus size: 79
75213 TCATCCACTT
*
75223 AGTATGAATTTCTCAAGTTTACACATATAGTGCCCATACGGAAATTCATCCACTTAGTATGAATT
1 AGTATGAATTTCTCAAGTTTACACATATAGTGCACATACGGAAATTCATCCACTTAGTATGAATT
*
75288 TCTTAAGTTTACAC
66 TATTAAGTTTACAC
*
75302 AGTATGAATTTCTTAAGTTTACACATATAGTGCACATACGGAAATTCATCCACTTAGTATGAATT
1 AGTATGAATTTCTCAAGTTTACACATATAGTGCACATACGGAAATTCATCCACTTAGTATGAATT
*
75367 TATTAAGTTTGCAC
66 TATTAAGTTTACAC
75381 A
1 A
75382 TATAGTGCCC
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
79 76 1.00
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (79 bp):
AGTATGAATTTCTCAAGTTTACACATATAGTGCACATACGGAAATTCATCCACTTAGTATGAATT
TATTAAGTTTACAC
Found at i:75408 original size:134 final size:134
Alignment explanation
Indices: 75168--75436 Score: 484
Period size: 134 Copynumber: 2.0 Consensus size: 134
75158 TCATCCATTT
*
75168 AGTATGAATTTCTTAAGTTTACACATATAGTGCCCATACGAAAATTCATCCACTTAGTATGAATT
1 AGTATGAATTTCTTAAGTTTACACATATAGTGCACATACGAAAATTCATCCACTTAGTATGAATT
*
75233 TCTCAAGTTTACACATATAGTGCCCATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTT
66 TATCAAGTTTACACATATAGTGCCCATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTT
75298 ACAC
131 ACAC
*
75302 AGTATGAATTTCTTAAGTTTACACATATAGTGCACATACGGAAATTCATCCACTTAGTATGAATT
1 AGTATGAATTTCTTAAGTTTACACATATAGTGCACATACGAAAATTCATCCACTTAGTATGAATT
* * *
75367 TATTAAGTTTGCACATATAGTGCCCATACGGAAATTCATCCACTTATTATGAATTTCTTAAGTTT
66 TATCAAGTTTACACATATAGTGCCCATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTT
75432 ACAC
131 ACAC
75436 A
1 A
75437 TAAAGTGCCC
Statistics
Matches: 129, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
134 129 1.00
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36
Consensus pattern (134 bp):
AGTATGAATTTCTTAAGTTTACACATATAGTGCACATACGAAAATTCATCCACTTAGTATGAATT
TATCAAGTTTACACATATAGTGCCCATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTT
ACAC
Found at i:75446 original size:189 final size:189
Alignment explanation
Indices: 75113--75460 Score: 615
Period size: 189 Copynumber: 1.8 Consensus size: 189
75103 TCATCCACTT
*
75113 AGTATAAATTTCTTAAGTTTACACATATAGTGCACATACGGAAATTCATCCATTTAGTATGAATT
1 AGTATAAATTTCTTAAGTTTACACATATAGTGCACATACGGAAATTCATCCACTTAGTATGAATT
*
75178 TCTTAAGTTTACACATATAGTGCCCATACGAAAATTCATCCACTTAGTATGAATTTCTCAAGTTT
66 TATTAAGTTTACACATATAGTGCCCATACGAAAATTCATCCACTTAGTATGAATTTCTCAAGTTT
* *
75243 ACACATATAGTGCCCATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACAC
131 ACACATAAAGTGCCCATACGAAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACAC
*
75302 AGTATGAATTTCTTAAGTTTACACATATAGTGCACATACGGAAATTCATCCACTTAGTATGAATT
1 AGTATAAATTTCTTAAGTTTACACATATAGTGCACATACGGAAATTCATCCACTTAGTATGAATT
* * * *
75367 TATTAAGTTTGCACATATAGTGCCCATACGGAAATTCATCCACTTATTATGAATTTCTTAAGTTT
66 TATTAAGTTTACACATATAGTGCCCATACGAAAATTCATCCACTTAGTATGAATTTCTCAAGTTT
75432 ACACATAAAGTGCCCATACGAAAATTCAT
131 ACACATAAAGTGCCCATACGAAAATTCAT
75461 AAACAAATTA
Statistics
Matches: 150, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
189 150 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (189 bp):
AGTATAAATTTCTTAAGTTTACACATATAGTGCACATACGGAAATTCATCCACTTAGTATGAATT
TATTAAGTTTACACATATAGTGCCCATACGAAAATTCATCCACTTAGTATGAATTTCTCAAGTTT
ACACATAAAGTGCCCATACGAAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACAC
Found at i:75471 original size:55 final size:55
Alignment explanation
Indices: 75304--75482 Score: 268
Period size: 55 Copynumber: 3.3 Consensus size: 55
75294 GTTTACACAG
* *
75304 TATGAATTTCTTAAGTTTACACATATAGTGCACATACGGAAATTCATCCACTTAG
1 TATGAATTTCTTAAGTTTACACATATAGTGCCCATACGGAAATTCATCCACTTAT
* *
75359 TATGAATTTATTAAGTTTGCACATATAGTGCCCATACGGAAATTCATCCACTTAT
1 TATGAATTTCTTAAGTTTACACATATAGTGCCCATACGGAAATTCATCCACTTAT
* * ** **
75414 TATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGAAAATTCATAAACAAAT
1 TATGAATTTCTTAAGTTTACACATATAGTGCCCATACGGAAATTCATCCACTTAT
75469 TATGAATTTCTTAA
1 TATGAATTTCTTAA
75483 CTTTCTGCAC
Statistics
Matches: 112, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 112 1.00
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (55 bp):
TATGAATTTCTTAAGTTTACACATATAGTGCCCATACGGAAATTCATCCACTTAT
Found at i:75538 original size:19 final size:18
Alignment explanation
Indices: 75510--75547 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
75500 GTCATTTGGT
75510 AATCACCATACATATATG
1 AATCACCATACATATATG
*
75528 AATCAACCATACATCTATG
1 AATC-ACCATACATATATG
75547 A
1 A
75548 CTACCGTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.45, C:0.24, G:0.05, T:0.26
Consensus pattern (18 bp):
AATCACCATACATATATG
Found at i:75866 original size:22 final size:20
Alignment explanation
Indices: 75825--75881 Score: 78
Period size: 22 Copynumber: 2.7 Consensus size: 20
75815 TGGCTCCTCA
*
75825 GTATCGATACCTCTACCATG
1 GTATCGATACCTATACCATG
75845 GTATCGATACAACTATACCATG
1 GTATCGATAC--CTATACCATG
75867 GTATCGATACTCTAT
1 GTATCGATAC-CTAT
75882 TATGGTATTG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
20 10 0.30
21 4 0.12
22 19 0.58
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.32
Consensus pattern (20 bp):
GTATCGATACCTATACCATG
Found at i:75888 original size:19 final size:19
Alignment explanation
Indices: 75825--75896 Score: 72
Period size: 19 Copynumber: 3.6 Consensus size: 19
75815 TGGCTCCTCA
*
75825 GTATCGATACCTCTACCATG
1 GTATCGATA-CTCTATCATG
*
75845 GTATCGATACAACTATACCATG
1 GTATCGATAC-TCTAT--CATG
*
75867 GTATCGATACTCTATTATG
1 GTATCGATACTCTATCATG
*
75886 GTATTGATACT
1 GTATCGATACT
75897 ATTTTTGCAT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
19 14 0.32
20 12 0.27
21 4 0.09
22 14 0.32
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (19 bp):
GTATCGATACTCTATCATG
Found at i:77760 original size:19 final size:19
Alignment explanation
Indices: 77736--77794 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
77726 AACCGAGCCA
77736 TTAACCAAGTCGAGCTGAG
1 TTAACCAAGTCGAGCTGAG
**
77755 TTAACCAAG-CTGATTTGAG
1 TTAACCAAGTC-GAGCTGAG
* *
77774 TTAACCAAGTTGAGCCGAG
1 TTAACCAAGTCGAGCTGAG
77793 TT
1 TT
77795 GATCGAGTCG
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
18 1 0.03
19 31 0.97
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (19 bp):
TTAACCAAGTCGAGCTGAG
Found at i:78077 original size:2 final size:2
Alignment explanation
Indices: 78062--78398 Score: 171
Period size: 2 Copynumber: 187.0 Consensus size: 2
78052 AATAGTATTG
*
78062 TA TA TA TG TA -A TA TA TA TA TA TA TA TA -A TA TA -A TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
78100 TA TA T- TA TA T- TA GA TA TA TG T- TA TA T- TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
78137 T- TA CA TA T- TG TA TA T- TA TA T- TA TA TCA TA T- TA TA T- TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA
* * * *
78174 TA TA T- TT TA TA T- TA TA TA T- TT TA TA TA TCA TA TA TG T- TG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA
* *
78213 TA TA TA T- TA T- TA TA CTA TA CA T- TA TA T- TA TA TA GTA AA TA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA
* *
78253 T- TA TA TA TA T- TA TA T- TA CA TA GA -A TA T- TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
78290 TA TA TA TA TA -A TA T- TA TA -A TA CA T- TA AA TA T- TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
78326 TA TA TA TA T- TA T- TA TA T- TA TA TA T- TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
78363 TT TA TA TA T- TA TA TA TG T- TA TA TA TG TG TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
78399 ATAGTAAAAA
Statistics
Matches: 261, Mismatches: 29, Indels: 90
0.69 0.08 0.24
Matches are distributed among these distances:
1 41 0.16
2 212 0.81
3 8 0.03
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:78109 original size:5 final size:5
Alignment explanation
Indices: 78073--78385 Score: 141
Period size: 5 Copynumber: 61.0 Consensus size: 5
78063 ATATATGTAA
* * * * *
78073 TATAT ATATAT ATATAA TATAA TATAA TATAT TATAT TAGAT ATATGT
1 TATAT -TATAT -TATAT TATAT TATAT TATAT TATAT TATAT -TATAT
* *
78121 TATAT TATAT TATA- TAT-T ACATATT GTATAT TATAT TATAT CATAT
1 TATAT TATAT TATAT TATAT -TATA-T -TATAT TATAT TATAT TATAT
* * * * *
78167 TATAT TTTA- TATTT TATAT TATA- TATTT TATA- TATCAT ATATGT TGTAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TAT-AT -TATAT TATAT
* *
78216 ATATTAT TATACT ATACAT TATAT TATA- TAGTA- AATAT TATA- TATAT
1 -TA-TAT TATA-T -TATAT TATAT TATAT TA-TAT TATAT TATAT TATAT
* * * *
78263 TATAT TACATAG AATAT TATA- TATA- TATAT ATATAT AATAT TATAA
1 TATAT T--ATAT TATAT TATAT TATAT TATAT -TATAT TATAT TATAT
*
78309 TACAT TAAATAT TATAT TATAT ATATTAT TATAT TATA- TAT-T ATATAT
1 TATAT T--ATAT TATAT TATAT -TA-TAT TATAT TATAT TATAT -TATAT
* *
78357 TATA- TATTT ATATAT TATA- TATGT TATAT
1 TATAT TATAT -TATAT TATAT TATAT TATAT
78386 ATGTGTATAT
Statistics
Matches: 237, Mismatches: 39, Indels: 63
0.70 0.12 0.19
Matches are distributed among these distances:
4 36 0.15
5 144 0.61
6 34 0.14
7 23 0.10
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (5 bp):
TATAT
Found at i:78385 original size:7 final size:7
Alignment explanation
Indices: 78062--78378 Score: 197
Period size: 7 Copynumber: 46.0 Consensus size: 7
78052 AATAGTATTG
78062 TATATAT
1 TATATAT
78069 GTA-ATA-
1 -TATATAT
78075 TATATAT
1 TATATAT
*
78082 ATATATAA
1 -TATATAT
78090 TATAATAT
1 TAT-ATAT
*
78098 AATATAT
1 TATATAT
78105 TATAT-T
1 TATATAT
*
78111 AGATATAT
1 -TATATAT
78119 GT-TATA-
1 -TATATAT
78125 T-TATAT
1 TATATAT
78131 TATATAT
1 TATATAT
*
78138 TACATAT
1 TATATAT
*
78145 TGTATAT
1 TATATAT
78152 TATAT-T
1 TATATAT
78158 ATATCATAT
1 -TAT-ATAT
78167 TATAT-T
1 TATATAT
78173 T-TATAT
1 TATATAT
*
78179 TTTATAT
1 TATATAT
78186 TATATAT
1 TATATAT
*
78193 TTTATA-
1 TATATAT
78199 TATCATA-
1 TAT-ATAT
*
78206 TATGT-T
1 TATATAT
78212 GTATATAT
1 -TATATAT
*
78220 TATTATAC
1 TA-TATAT
*
78228 TATACA-
1 TATATAT
78234 T-TATAT
1 TATATAT
*
78240 TATATAG
1 TATATAT
*
78247 TAAATAT
1 TATATAT
78254 TATATA-
1 TATATAT
78260 TATTATAT
1 TA-TATAT
*
78268 TACATA-
1 TATATAT
*
78274 GA-ATAT
1 TATATAT
78280 TATATA-
1 TATATAT
78286 TATATA-
1 TATATAT
78292 TATATAT
1 TATATAT
*
78299 AATATTAT
1 TATA-TAT
* *
78307 AATACAT
1 TATATAT
*
78314 TAAATAT
1 TATATAT
78321 TATAT-T
1 TATATAT
78327 ATATATAT
1 -TATATAT
78335 TATTATAT
1 TA-TATAT
78343 TATATAT
1 TATATAT
78350 TATATAT
1 TATATAT
78357 TATATATT
1 TATATA-T
78365 TATATAT
1 TATATAT
78372 TATATAT
1 TATATAT
78379 GTTATATATG
Statistics
Matches: 247, Mismatches: 32, Indels: 61
0.73 0.09 0.18
Matches are distributed among these distances:
5 16 0.06
6 32 0.13
7 148 0.60
8 50 0.20
9 1 0.00
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (7 bp):
TATATAT
Found at i:83855 original size:20 final size:21
Alignment explanation
Indices: 83820--83862 Score: 70
Period size: 20 Copynumber: 2.0 Consensus size: 21
83810 ACATTGTATT
83820 ATGTAAACTAAATGTCTCTCAC
1 ATGTAAAC-AAATGTCTCTCAC
83842 ATGTAAAC-AATGTCTCTCAC
1 ATGTAAACAAATGTCTCTCAC
83862 A
1 A
83863 GCTGGAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 13 0.62
22 8 0.38
ACGTcount: A:0.37, C:0.23, G:0.09, T:0.30
Consensus pattern (21 bp):
ATGTAAACAAATGTCTCTCAC
Found at i:90172 original size:15 final size:17
Alignment explanation
Indices: 90149--90182 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
90139 TTAAGACATG
90149 TTTAGTTTATTA-TTAT
1 TTTAGTTTATTAGTTAT
90165 TTTA-TTTATTAGTTAT
1 TTTAGTTTATTAGTTAT
90181 TT
1 TT
90183 CGGACCTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (17 bp):
TTTAGTTTATTAGTTAT
Found at i:93910 original size:18 final size:18
Alignment explanation
Indices: 93887--93924 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
93877 TCGTTCACTA
93887 GAACGTAAGATTATCGGT
1 GAACGTAAGATTATCGGT
*
93905 GAACGTAAGATTATTGGT
1 GAACGTAAGATTATCGGT
93923 GA
1 GA
93925 GAAAATGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (18 bp):
GAACGTAAGATTATCGGT
Found at i:94967 original size:31 final size:29
Alignment explanation
Indices: 94853--94968 Score: 80
Period size: 28 Copynumber: 3.9 Consensus size: 29
94843 TAAAAATTAT
*
94853 TTAATACAAATATTAAAATAATT-TA-TTTA
1 TTAATAAAAATATT--AATAATTATATTTTA
* **
94882 TT-ATTAAAATATT-ATTTTTATAATTTTA
1 TTAATAAAAATATTAATAATTAT-ATTTTA
*
94910 TTAATAAAAATATTAATATTGGTATATTTTA
1 TTAATAAAAATATTAATAAT--TATATTTTA
94941 TTGAAATAAAAATATT-ATAAATTATATT
1 TT--AATAAAAATATTAAT-AATTATATT
94969 AATTATTTAT
Statistics
Matches: 70, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
25 4 0.06
26 1 0.01
27 1 0.01
28 15 0.21
29 12 0.17
30 4 0.06
31 14 0.20
32 5 0.07
33 14 0.20
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (29 bp):
TTAATAAAAATATTAATAATTATATTTTA
Found at i:95105 original size:19 final size:20
Alignment explanation
Indices: 95037--95119 Score: 66
Period size: 19 Copynumber: 4.2 Consensus size: 20
95027 TTAAATATCT
*
95037 TTATTAA-AATATTATTAGA
1 TTATTAATAATATTATTAAA
* *
95056 TTATT-ATATTAGTATTAAA
1 TTATTAATAATATTATTAAA
* *
95075 TATATAAATAATATTATT-CA
1 T-TATTAATAATATTATTAAA
*
95095 TTATTAATAAT-TTAATAATA
1 TTATTAATAATATTATTAA-A
95115 TTATT
1 TTATT
95120 TCTATGAAAG
Statistics
Matches: 49, Mismatches: 10, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
18 5 0.10
19 24 0.49
20 11 0.22
21 9 0.18
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (20 bp):
TTATTAATAATATTATTAAA
Found at i:95178 original size:26 final size:24
Alignment explanation
Indices: 95132--95185 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 24
95122 TATGAAAGTA
95132 ATAAATAATATAAATTTTATTAAT
1 ATAAATAATATAAATTTTATTAAT
*
95156 ATAAA-AATATAATATCTTATATTATT
1 ATAAATAATATAA-AT-TT-TATTAAT
95182 ATAA
1 ATAA
95186 TATTAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 7 0.27
24 7 0.27
25 2 0.08
26 10 0.38
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (24 bp):
ATAAATAATATAAATTTTATTAAT
Found at i:95195 original size:32 final size:31
Alignment explanation
Indices: 95136--95230 Score: 108
Period size: 32 Copynumber: 3.1 Consensus size: 31
95126 AAAGTAATAA
* *
95136 ATAATA-TAAATT-TTATTAATA-TAAAAAT
1 ATAATATTATATTATTAGTAATATTAAAAAT
95164 ATAATATCTTATATTATTA-TAATATTAAAAAT
1 ATAATA--TTATATTATTAGTAATATTAAAAAT
*
95196 ATAATATTATATTATTAGAAATATTAATAAAT
1 ATAATATTATATTATTAGTAATATTAA-AAAT
95228 ATA
1 ATA
95231 TTTTAAATAT
Statistics
Matches: 58, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
28 6 0.10
30 11 0.19
31 18 0.31
32 23 0.40
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (31 bp):
ATAATATTATATTATTAGTAATATTAAAAAT
Found at i:95203 original size:22 final size:22
Alignment explanation
Indices: 95173--95224 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
95163 TATAATATCT
*
95173 TATATTATTATAATATTAAAAA
1 TATAATATTATAATATTAAAAA
* *
95195 TATAATATTATATTATTAGAAA
1 TATAATATTATAATATTAAAAA
95217 TATTAATA
1 TA-TAATA
95225 AATATATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 21 0.81
23 5 0.19
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (22 bp):
TATAATATTATAATATTAAAAA
Found at i:95229 original size:22 final size:22
Alignment explanation
Indices: 95186--95229 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
95176 ATTATTATAA
*
95186 TATTAAAAATATAATATTATAT
1 TATTAAAAATATAATATAATAT
*
95208 TATTAGAAATATTAATA-AATAT
1 TATTAAAAATA-TAATATAATAT
95230 ATTTTAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
TATTAAAAATATAATATAATAT
Found at i:98279 original size:17 final size:17
Alignment explanation
Indices: 98259--98364 Score: 70
Period size: 17 Copynumber: 6.1 Consensus size: 17
98249 TTTAACTAAG
98259 TAGTTCATTCATCAAAC
1 TAGTTCATTCATCAAAC
* ** *
98276 TAGTTTATTCAAGATTAC
1 TAGTTCATTCATCA-AAC
* * *
98294 AAGTTCATTGAAT-AAAGT
1 TAGTTCATT-CATCAAA-C
* * *
98312 TAGTCCATTAATTAAAC
1 TAGTTCATTCATCAAAC
98329 TAGTTCATTCATCAAAC
1 TAGTTCATTCATCAAAC
* *
98346 TAGTTCATTTATTAAAC
1 TAGTTCATTCATCAAAC
98363 TA
1 TA
98365 ACTCTTAATT
Statistics
Matches: 67, Mismatches: 18, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
17 46 0.69
18 20 0.30
19 1 0.01
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.39
Consensus pattern (17 bp):
TAGTTCATTCATCAAAC
Found at i:99489 original size:14 final size:14
Alignment explanation
Indices: 99470--99509 Score: 80
Period size: 14 Copynumber: 2.9 Consensus size: 14
99460 CATTACTTTC
99470 ATATACATATTTAT
1 ATATACATATTTAT
99484 ATATACATATTTAT
1 ATATACATATTTAT
99498 ATATACATATTT
1 ATATACATATTT
99510 CCCTTCTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.50
Consensus pattern (14 bp):
ATATACATATTTAT
Found at i:107392 original size:8 final size:8
Alignment explanation
Indices: 107379--107405 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
107369 AATTATATAT
107379 ATATGTAC
1 ATATGTAC
107387 ATATGTAC
1 ATATGTAC
107395 ATATGTAC
1 ATATGTAC
107403 ATA
1 ATA
107406 AGTATATAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.37
Consensus pattern (8 bp):
ATATGTAC
Found at i:107833 original size:14 final size:14
Alignment explanation
Indices: 107814--107892 Score: 70
Period size: 14 Copynumber: 5.6 Consensus size: 14
107804 CATCAATATA
107814 TAAACCCTAAATCT
1 TAAACCCTAAATCT
* *
107828 TAAACCATAAATCA
1 TAAACCCTAAATCT
* * *
107842 TAAACCCCAAGTCA
1 TAAACCCTAAATCT
* *
107856 TAAACCATAAAACT
1 TAAACCCTAAATCT
*
107870 TAAA-ACTAAAATCT
1 TAAACCCT-AAATCT
107884 TAAACCCTA
1 TAAACCCTA
107893 GATCGTAAAT
Statistics
Matches: 49, Mismatches: 14, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
13 1 0.02
14 46 0.94
15 2 0.04
ACGTcount: A:0.51, C:0.25, G:0.01, T:0.23
Consensus pattern (14 bp):
TAAACCCTAAATCT
Found at i:107859 original size:28 final size:28
Alignment explanation
Indices: 107813--107866 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
107803 ACATCAATAT
* *
107813 ATAAACCCTAAATCTTAAACCATAAATC
1 ATAAACCCCAAATCATAAACCATAAATC
*
107841 ATAAACCCCAAGTCATAAACCATAAA
1 ATAAACCCCAAATCATAAACCATAAA
107867 ACTTAAAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.52, C:0.26, G:0.02, T:0.20
Consensus pattern (28 bp):
ATAAACCCCAAATCATAAACCATAAATC
Found at i:108777 original size:15 final size:15
Alignment explanation
Indices: 108757--108787 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
108747 TACATCATCC
108757 AGTGGTATTAAAATG
1 AGTGGTATTAAAATG
108772 AGTGGTATTAAAATG
1 AGTGGTATTAAAATG
108787 A
1 A
108788 TGTAAAACTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.26, T:0.32
Consensus pattern (15 bp):
AGTGGTATTAAAATG
Found at i:111660 original size:20 final size:20
Alignment explanation
Indices: 111635--111674 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
111625 AAATGTATAC
111635 TTGTTCATCCAGTATCGATA
1 TTGTTCATCCAGTATCGATA
*
111655 TTGTTCCTCCAGTATCGATA
1 TTGTTCATCCAGTATCGATA
111675 CTCGAACCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.40
Consensus pattern (20 bp):
TTGTTCATCCAGTATCGATA
Found at i:114374 original size:20 final size:19
Alignment explanation
Indices: 114349--114397 Score: 66
Period size: 17 Copynumber: 2.6 Consensus size: 19
114339 AACTTTTCAT
114349 TCTTCTACTTCTTCTCATTA
1 TCTTCT-CTTCTTCTCATTA
114369 TC-T-TCTTCTTCTCATTA
1 TCTTCTCTTCTTCTCATTA
114386 TCTTCTTCTTCT
1 TCTTC-TCTTCT
114398 CCTCCTTCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 15 0.58
18 2 0.08
19 1 0.04
20 8 0.31
ACGTcount: A:0.10, C:0.31, G:0.00, T:0.59
Consensus pattern (19 bp):
TCTTCTCTTCTTCTCATTA
Found at i:114378 original size:17 final size:17
Alignment explanation
Indices: 114356--114398 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
114346 CATTCTTCTA
114356 CTTCTTCTCATTATCTT
1 CTTCTTCTCATTATCTT
114373 CTTCTTCTCATTATCTT
1 CTTCTTCTCATTATCTT
114390 CTTCTTCTC
1 CTTCTTCTC
114399 CTCCTTCTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.09, C:0.33, G:0.00, T:0.58
Consensus pattern (17 bp):
CTTCTTCTCATTATCTT
Found at i:116854 original size:18 final size:21
Alignment explanation
Indices: 116808--116858 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 21
116798 CTCTAGGGTA
116808 AGTATCGATACTCTGGTGCTGG
1 AGTATCGATACTCTGGT-CTGG
*
116830 GGTATCGATACT-TGGT-T-G
1 AGTATCGATACTCTGGTCTGG
116848 AGTATCGATAC
1 AGTATCGATAC
116859 CAAATTTTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 11 0.41
19 1 0.04
21 4 0.15
22 11 0.41
ACGTcount: A:0.22, C:0.16, G:0.29, T:0.33
Consensus pattern (21 bp):
AGTATCGATACTCTGGTCTGG
Found at i:119225 original size:3 final size:3
Alignment explanation
Indices: 119217--119241 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
119207 TTTCTTTTCT
119217 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
119242 CATAATTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:119736 original size:16 final size:16
Alignment explanation
Indices: 119717--119749 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
119707 ATAAATTAAA
*
119717 TTAATAATATTCATCG
1 TTAATAATAATCATCG
119733 TTAATAATAATCATCG
1 TTAATAATAATCATCG
119749 T
1 T
119750 GTTAATATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.42
Consensus pattern (16 bp):
TTAATAATAATCATCG
Found at i:122922 original size:2 final size:2
Alignment explanation
Indices: 122915--122973 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
122905 TACCTATAAT
122915 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
122957 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
122974 GTGTGTGAGA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:122985 original size:2 final size:2
Alignment explanation
Indices: 122980--123043 Score: 65
Period size: 2 Copynumber: 32.0 Consensus size: 2
122970 ATATGTGTGT
* * * * * * *
122980 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GT GT GT GT GT GT GT
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
123022 GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA
123044 AATATAATTT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.39, C:0.00, G:0.50, T:0.11
Consensus pattern (2 bp):
GA
Found at i:124341 original size:182 final size:181
Alignment explanation
Indices: 123839--124329 Score: 770
Period size: 182 Copynumber: 2.7 Consensus size: 181
123829 TTGTCGGTTT
* *
123839 GTGTCGATACTTTATAAAAATATATTGATCCATAACAATATAACAAGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAAC-AGTAAAAAAATGACAAAACC
* * *
123904 GGTCTATAAATGACAAAACAGGTAAAGCGCTATCGGATATGTTGATAGTGTCGATACTTTATTAT
65 GGTCTATAAATGACAAAACATGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACTTTATTAT
* **
123969 AAGTATCGACACTTTTGGAATTTAAAAGATAAGAAGTTATAGCGCTGATAAA
130 AAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCAATAAA
*
124021 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGATAAAAATATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAG-TAAAAAAATGACAAAACC
** * * *
124086 GGTCTCGAAATGAC-AAA-ATCGATAAAGAGCTACCAGATATGTTGAAAATGTCGATACTTTATT
65 GGTCTATAAATGACAAAACAT-G-TAAAGCGCTACCGGATATGTTGAAAGTGTCGATACTTTATT
124149 ATAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCAATAAA
128 ATAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCAATAAA
* *
124203 GTGTCGATACTTTATAAAAATGTATCGATCTATAACAATATAACATGTAAAAAAATGACAAAACT
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACA-GTAAAAAAATGACAAAACC
*
124268 GGTCTATAAATGACAAAACATGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTAT
65 GGTCTATAAATGACAAAACATGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACTTTAT
124330 AAAATGTATC
Statistics
Matches: 280, Mismatches: 23, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
180 1 0.00
181 6 0.02
182 266 0.95
183 5 0.02
184 2 0.01
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.28
Consensus pattern (181 bp):
GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGTAAAAAAATGACAAAACCG
GTCTATAAATGACAAAACATGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACTTTATTATA
AGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCAATAAA
Found at i:124404 original size:110 final size:112
Alignment explanation
Indices: 124200--124439 Score: 396
Period size: 110 Copynumber: 2.2 Consensus size: 112
124190 TAGCGCCAAT
* *
124200 AAAGTGTCGATACTTTATAAAAATGTATCGATCTATAACAATATAACATGTAAAAAAATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAA
*
124265 ACTGGTCTATAAATGACAAAACATGTAAAGCGCTACCGGATATATTG
66 ACTGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTG
*
124312 AAAGTGTCGATACTTTAT-AAAATGTATCGATCCATAACAATATAACAGGT-AAAAAATGACCAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAA
*
124375 A-TCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATGTTG
66 ACT-GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTG
*
124422 ATAGTGTCGATACTTTAT
1 AAAGTGTCGATACTTTAT
124440 TATAAGTATC
Statistics
Matches: 121, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
109 1 0.01
110 72 0.60
111 30 0.25
112 18 0.15
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (112 bp):
AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAA
ACTGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTG
Found at i:124440 original size:292 final size:294
Alignment explanation
Indices: 124018--124621 Score: 944
Period size: 292 Copynumber: 2.1 Consensus size: 294
124008 TAGCGCTGAT
124018 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGATAAAAATATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGATAAAAATATGACAAA
*
124083 ACCGGTCTCGAAATGACAAAATCGATAAAGAGCTACCAGATATGTTGAAAATGTCGATACTTTAT
66 ACCGGTCTAGAAATGACAAAATCGATAAAGAGCTACCAGATATGTTGAAAATGTCGATACTTTAT
*
124148 TATAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCAATAAAGTGTCGATAC
131 TATAAGTATCGACACTTTTGAAATTTAAAAGAAAAGAAGTTATAGCGCCAATAAAGTGTCGATAC
* * * * *
124213 TTTATAAAAATGTATCGATCTATAACAATATAACATGTAAAAAAATGACAAAACTGGTCTATAAA
196 TTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACCGATCTAGAAA
* * *
124278 TGACAAAACATGTAAAGCGCTACCGGATATATTG
261 TGACAAAACAGGTAAAGAGCTACCGAATATATTG
* *
124312 AAAGTGTCGATACTTTAT-AAAATGTATCGATCCATAACAATATAACAGGTAAAAA-ATGACCAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGATAAAAATATGACAAA
* * * * * * *
124375 ATCGGTCTATAAATGACAAAA-CAGGTAAAGCGCTACCGGATATGTTGATAGTGTCGATACTTTA
66 ACCGGTCTAGAAATGACAAAATC-GATAAAGAGCTACCAGATATGTTGAAAATGTCGATACTTTA
* *
124439 TTATAAGTATCGACACTTTTGAAATTTAAAAGAGAAGAAGTTATAGCGCTAATAAAGTGTCGATA
130 TTATAAGTATCGACACTTTTGAAATTTAAAAGAAAAGAAGTTATAGCGCCAATAAAGTGTCGATA
* * *
124504 CTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAGATATGACAAAACCGATCTCGAA
195 CTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACCGATCTAGAA
* *
124569 ATGACAAAACCGGTAAAGAGCTACCGAATATGTTG
260 ATGACAAAACAGGTAAAGAGCTACCGAATATATTG
124604 AAAGTGTCGATACTTTAT
1 AAAGTGTCGATACTTTAT
124622 TATAAGTATT
Statistics
Matches: 283, Mismatches: 26, Indels: 4
0.90 0.08 0.01
Matches are distributed among these distances:
291 1 0.00
292 228 0.81
293 36 0.13
294 18 0.06
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (294 bp):
AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGATAAAAATATGACAAA
ACCGGTCTAGAAATGACAAAATCGATAAAGAGCTACCAGATATGTTGAAAATGTCGATACTTTAT
TATAAGTATCGACACTTTTGAAATTTAAAAGAAAAGAAGTTATAGCGCCAATAAAGTGTCGATAC
TTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACCGATCTAGAAA
TGACAAAACAGGTAAAGAGCTACCGAATATATTG
Found at i:124617 original size:182 final size:181
Alignment explanation
Indices: 124312--124765 Score: 748
Period size: 182 Copynumber: 2.5 Consensus size: 181
124302 GGATATATTG
* *
124312 AAAGTGTCGATACTTTAT-AAAATGTATCGATCCATAACAATATAACAGGTAAAAAATGACCAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAATATGACAAAA
** * * * *
124376 TCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATGTTGATAGTGTCGATACTTTATT
66 TCGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGAATATGTTGAAAGTGTCGATACTTTATT
* *
124441 ATAAGTATCGACACTTTTGAAATTTAAAAGAGAAGAAGTTATAGCGCTAAT
131 ATAAGTATCGACACTTTTGAAATTTAAAAGAAAAGAAGTTATAGCGCCAAT
124492 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAGATATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAA-ATATGACAAA
* *
124557 ACCGATCTCGAAATGACAAAACCGGTAAAGAGCTACCGAATATGTTGAAAGTGTCGATACTTTAT
65 ATCGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGAATATGTTGAAAGTGTCGATACTTTAT
*
124622 TATAAGTATTGACACTTTTGAAATTTAAAAGAAAAGAAGTTATAGCGCCAAT
130 TATAAGTATCGACACTTTTGAAATTTAAAAGAAAAGAAGTTATAGCGCCAAT
*
124674 AAAATGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGT-AAAATATGACAAA
*
124739 ATCGGTCTCGAAATGACAAAATCGGTA
65 ATCGGTCTCGAAATGACAAAACCGGTA
124766 GTAAAAATGT
Statistics
Matches: 254, Mismatches: 17, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
180 18 0.07
181 35 0.14
182 198 0.78
183 3 0.01
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (181 bp):
AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAATATGACAAAA
TCGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGAATATGTTGAAAGTGTCGATACTTTATT
ATAAGTATCGACACTTTTGAAATTTAAAAGAAAAGAAGTTATAGCGCCAAT
Found at i:125225 original size:23 final size:23
Alignment explanation
Indices: 125196--125243 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
125186 AAATAGGTCA
*
125196 ATATAAAC-TCTACCTATTACATT
1 ATATAAACAT-TACCTAATACATT
*
125219 ATATAAACATTACCTAATATATT
1 ATATAAACATTACCTAATACATT
125242 AT
1 AT
125244 TGTACCTGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 21 0.95
24 1 0.05
ACGTcount: A:0.44, C:0.17, G:0.00, T:0.40
Consensus pattern (23 bp):
ATATAAACATTACCTAATACATT
Found at i:130823 original size:2 final size:2
Alignment explanation
Indices: 130816--130857 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
130806 GTTTAATAGA
*
130816 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
130858 TGAAACAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:134591 original size:20 final size:20
Alignment explanation
Indices: 134564--134607 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
134554 TAGATAAACT
134564 TTTGTATAT-GTATCAATAC
1 TTTGTATATCGTATCAATAC
*
134583 TTTGTTATATCGGTCTCAATAC
1 TTTG-TATATC-GTATCAATAC
134605 TTT
1 TTT
134608 AATTCCACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 4 0.19
20 5 0.24
22 12 0.57
ACGTcount: A:0.25, C:0.14, G:0.11, T:0.50
Consensus pattern (20 bp):
TTTGTATATCGTATCAATAC
Found at i:135483 original size:226 final size:224
Alignment explanation
Indices: 135096--135784 Score: 997
Period size: 226 Copynumber: 3.1 Consensus size: 224
135086 AATTAATCAA
* *
135096 TTATGTTATCGTCGAATTTCTAAGGCTCAATCAGATTAAACTTTGTTAACATTTTAGGTGTTACC
1 TTATGTTATCGTCGAATTTCTAAGGCTCCATCAGATTAAACTTTGGTAACATTTTAGGTGTTACC
*
135161 TAATATGTTGATAATACTGATAACAAATTAAGTAATTAACTTATTTTGTTATCT-TCAGATTTCT
66 TAATATGTTGATAATACTGATAACAAATTAAGTAATTAACATATTTTGTTAT-TGTC-GATTTCT
* * * *
135225 AAGGCCCCATCAGCTTTAATAATGTACTACCTATTACGTTACATGACCGCTACCTAATATGATAT
129 AAGGCCCCATCAGC-TTAAAAATGTGCTACCTATTACGTTACATAAGCGCTACCTAATATGATAT
135290 TATGCTTGATAATGTTTCCAGTAATTAACCGG
193 TATGCTTGATAATGTTTCCAGTAATTAACCGG
*
135322 TTATGTTATCGTCGAATTTCTAAGACTCCATCAGATTAAACTTTGGTAACATTTTAGGTGTTACC
1 TTATGTTATCGTCGAATTTCTAAGGCTCCATCAGATTAAACTTTGGTAACATTTTAGGTGTTACC
* * * *
135387 TAATATGTCGATAATACTAATAACAAATTAAGTAATTAACCTATTTTGTTATTGTCGGATTTCAA
66 TAATATGTTGATAATACTGATAACAAATTAAGTAATTAACATATTTTGTTATTGTC-GATTTCTA
* * * * * * * *
135452 AAGCCCCTTCATCTTGAAAAAGGCGCTACCTATTATGTTACATAAGCGCTACTTAATATGTTATT
130 AGGCCCCATCAGCTT-AAAAATGTGCTACCTATTACGTTACATAAGCGCTACCTAATATGATATT
*
135517 ATGTTTGATAATGTTTCCAGTAATTAACCGG
194 ATGCTTGATAATGTTTCCAGTAATTAACCGG
* * * * * *
135548 TTATGTTATTGTCGGATTCCTAAGGCTCCATCA-ACTTAAAATTTGGTAACATTTTGGGCGTTAC
1 TTATGTTATCGTCGAATTTCTAAGGCTCCATCAGA-TTAAACTTTGGTAACATTTTAGGTGTTAC
* *
135612 CTAATATGTTGATAATACTGATAACAAATTAAATAATTAACATATTTTGTTATCGTTCGATTTCT
65 CTAATATGTTGATAATACTGATAACAAATTAAGTAATTAACATATTTTGTTATTG-TCGATTTCT
*
135677 AAGGCCCCATCAGCTTTAAAATGTGCTACCTATTACGTTACATAAGCGCTACCTAATAT-ATTAT
129 AAGGCCCCATCAGCTTAAAAATGTGCTACCTATTACGTTACATAAGCGCTACCTAATATGA-TAT
* *
135741 TATGCTTGATAATGTTTCCAATAATTAATCGG
193 TATGCTTGATAATGTTTCCAGTAATTAACCGG
135773 TTATGTTATCGT
1 TTATGTTATCGT
135785 TAACATTTTT
Statistics
Matches: 411, Mismatches: 47, Indels: 11
0.88 0.10 0.02
Matches are distributed among these distances:
225 85 0.21
226 324 0.79
227 2 0.00
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (224 bp):
TTATGTTATCGTCGAATTTCTAAGGCTCCATCAGATTAAACTTTGGTAACATTTTAGGTGTTACC
TAATATGTTGATAATACTGATAACAAATTAAGTAATTAACATATTTTGTTATTGTCGATTTCTAA
GGCCCCATCAGCTTAAAAATGTGCTACCTATTACGTTACATAAGCGCTACCTAATATGATATTAT
GCTTGATAATGTTTCCAGTAATTAACCGG
Found at i:136358 original size:18 final size:19
Alignment explanation
Indices: 136335--136370 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
136325 ACAGAAATAT
136335 ATAATATTAAAC-TAAAAC
1 ATAATATTAAACATAAAAC
136353 ATAATATTAAACATAAAA
1 ATAATATTAAACATAAAA
136371 ACTAGAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (19 bp):
ATAATATTAAACATAAAAC
Found at i:138706 original size:30 final size:30
Alignment explanation
Indices: 138671--138727 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
138661 TGATAGTAAA
* *
138671 TTTAGATATTTTAATTTAGAACAATATAAG
1 TTTAGATATTTCAATATAGAACAATATAAG
*
138701 TTTAGATATTTCAATATATAACAATAT
1 TTTAGATATTTCAATATAGAACAATAT
138728 TATAAAAAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (30 bp):
TTTAGATATTTCAATATAGAACAATATAAG
Found at i:142131 original size:166 final size:167
Alignment explanation
Indices: 141741--142194 Score: 518
Period size: 167 Copynumber: 2.7 Consensus size: 167
141731 AATGAATAAA
* * * **** * * * *
141741 AGAAACATATATGCACACATAATGTTCCCCTTCGGGGAACGATTCATCCCAAAAACTCTCATATT
1 AGAAACATATTTGTA-ATATAATGTTCCCCTTCAATAAACTATTCATCCCAACAACTCTCATGTC
* * * *
141806 TGATAGGATGAGACACTATGACATGGTAGAGATTCCCTACATAAGGTGAAATGCTTCTTATGAAA
65 TGATGGGATGAGACACTATGACATGGTAGAGATTCCTTGCATAAGGTGAAATGCTACTTATGAAA
* ** * *
141871 AGAGTATTATATTTTTGTAGAGATTCTCTGCATATTCC
130 AAACCATTATATTTTTATAGAGATTCTCTACATATTCC
*
141909 AGAAACATATTTGTAATATAATGTTCCCCTTCAATGAACTATTCATCCCAACAACTCTCATGTCT
1 AGAAACATATTTGTAATATAATGTTCCCCTTCAATAAACTATTCATCCCAACAACTCTCATGTCT
* * * * * *
141974 GATGGGGTGAGACACTATGAAATGGAAGAGATTCATTGCATAAGATGAAA-GC-ACTTGTGAAAA
66 GATGGGATGAGACACTATGACATGGTAGAGATTCCTTGCATAAGGTGAAATGCTACTTATGAAAA
* * * *
142037 AACCCTTCTTTTTTTATAGAGATTCTCTACATATTCT
131 AACCATTATATTTTTATAGAGATTCTCTACATATTCC
* ** *
142074 AGAAACATATTTGTATATATAATGTTCCCTTTTGATAAACTATTCATCCCAACAACTCCCATG-C
1 AGAAACATATTTGTA-ATATAATGTTCCCCTTCAATAAACTATTCATCCCAACAACTCTCATGTC
* *
142138 TTGATGGGATGAGACACTGTGACATGGTAGAGATTCCTTGCAAAAGGTGAAAATGCT
65 -TGATGGGATGAGACACTATGACATGGTAGAGATTCCTTGCATAAGGTG-AAATGCT
142195 TATTGTAAAA
Statistics
Matches: 240, Mismatches: 41, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
165 53 0.22
166 85 0.35
167 87 0.36
168 15 0.06
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.31
Consensus pattern (167 bp):
AGAAACATATTTGTAATATAATGTTCCCCTTCAATAAACTATTCATCCCAACAACTCTCATGTCT
GATGGGATGAGACACTATGACATGGTAGAGATTCCTTGCATAAGGTGAAATGCTACTTATGAAAA
AACCATTATATTTTTATAGAGATTCTCTACATATTCC
Found at i:143167 original size:26 final size:25
Alignment explanation
Indices: 143119--143168 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
143109 CTACATAGTA
*
143119 ATTTAAGGGTTGTAATGTGTAATAC
1 ATTTAAGGGGTGTAATGTGTAATAC
* *
143144 ATTTAAGGAGGTGTATTGTTTAATA
1 ATTTAAGG-GGTGTAATGTGTAATA
143169 TCTATGTTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.32, C:0.02, G:0.24, T:0.42
Consensus pattern (25 bp):
ATTTAAGGGGTGTAATGTGTAATAC
Found at i:145286 original size:34 final size:36
Alignment explanation
Indices: 145242--145343 Score: 172
Period size: 34 Copynumber: 2.9 Consensus size: 36
145232 TTTCGTCCTA
145242 CTAGGATTCAAACTCCTAAAAATAGGATAGAA-TTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
*
145277 -TAGGATTCAAACTCCTAAAAATAGGATAAAATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
145312 GCTAGGATTCAAACTCCTAAAAATAGGATAGA
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGA
145344 GTTATACTAT
Statistics
Matches: 62, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
34 30 0.48
35 3 0.05
37 29 0.47
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (36 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
Found at i:145761 original size:17 final size:18
Alignment explanation
Indices: 145735--145774 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
145725 ATTATATGGA
145735 TATT-TTATTCAT-TTAT
1 TATTATTATTCATGTTAT
*
145751 TTTTATTATTCATGTTAT
1 TATTATTATTCATGTTAT
145769 TATTAT
1 TATTAT
145775 GTATATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 3 0.15
17 8 0.40
18 9 0.45
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.68
Consensus pattern (18 bp):
TATTATTATTCATGTTAT
Found at i:149977 original size:7 final size:7
Alignment explanation
Indices: 149965--150045 Score: 65
Period size: 7 Copynumber: 10.7 Consensus size: 7
149955 TCCAATCAAG
149965 AAGAAAA
1 AAGAAAA
149972 AAGAAAA
1 AAGAAAA
149979 GAAGCAAAA
1 -AAG-AAAA
*
149988 AAAAAACA
1 AAGAAA-A
149996 AAGAAAA
1 AAGAAAA
150003 AAGAGAAA
1 AAGA-AAA
*
150011 CACGAACAA
1 -AAGAA-AA
150020 AAGGAAAA
1 AA-GAAAA
150028 AAGAAAA
1 AAGAAAA
*
150035 AA-AAAC
1 AAGAAAA
150041 AAGAA
1 AAGAA
150046 TCAAAAAGAA
Statistics
Matches: 61, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
6 5 0.08
7 24 0.39
8 20 0.33
9 12 0.20
ACGTcount: A:0.78, C:0.07, G:0.15, T:0.00
Consensus pattern (7 bp):
AAGAAAA
Found at i:150715 original size:22 final size:22
Alignment explanation
Indices: 150687--150739 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
150677 GCTATCCCAT
150687 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
*
150709 CAAACCTTTTAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
150731 CAAACCTTT
1 CAAACCTTT
150740 CACCAAACAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.36, C:0.28, G:0.09, T:0.26
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:151179 original size:18 final size:18
Alignment explanation
Indices: 151156--151191 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
151146 TCAACATCAA
* *
151156 ATATTGGGGCATTTTTGG
1 ATATTGAGGCATCTTTGG
151174 ATATTGAGGCATCTTTGG
1 ATATTGAGGCATCTTTGG
151192 GGATTCAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.08, G:0.31, T:0.42
Consensus pattern (18 bp):
ATATTGAGGCATCTTTGG
Found at i:151703 original size:71 final size:73
Alignment explanation
Indices: 151628--151951 Score: 257
Period size: 72 Copynumber: 4.6 Consensus size: 73
151618 TGTTTTTTTA
* * * * * *
151628 AAACAAGA-TTTGTCTCGCTTGAGACCGTTTTCACTAG-AA-GAGTTTTGTCTCTCTTGAGACAG
1 AAACAA-ATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAACAAATTTCGTCTATCTTGAGACAG
151690 TTTCCCTTG
65 TTTCCCTTG
* *
151699 AAACAAATTTTGTCTCTCTTGAGACAG-TTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAGT
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAACAAATTTCGTCTATCTTGAGACAGT
151763 TTCCCTTG
66 TTCCCTTG
* * * *
151771 AAATAAATTTTGTCTCTCTTGAGACAGTTTTC-CTTGAAACAAA------ATAT-TTGA-ATATG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAACAAATTTCGTCTATCTTGAGACA-G
* *
151827 TTTTCTTTG
65 TTTCCCTTG
* * ** * * * * *
151836 AAACAAATTTCGTCTCCCTTGAGACAG-TTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAAC-AAATTTCGTCTATCTTGAGACAG
*
151900 TTTCTCTTG
65 TTTCCCTTG
* * *
151909 AAAC-AATTTTCGTCTATCTTGAGACAG-TTTCCCTTGAAACAAA
1 AAACAAATTTT-GTCTCTCTTGAGACAGTTTTCACTAGAAACAAA
151952 ATCTTTGAAT
Statistics
Matches: 205, Mismatches: 32, Indels: 31
0.76 0.12 0.12
Matches are distributed among these distances:
64 6 0.03
65 42 0.20
66 5 0.02
70 8 0.04
71 25 0.12
72 74 0.36
73 43 0.21
74 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (73 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAACAAATTTCGTCTATCTTGAGACAGT
TTCCCTTG
Found at i:151713 original size:36 final size:36
Alignment explanation
Indices: 151670--151951 Score: 312
Period size: 36 Copynumber: 8.0 Consensus size: 36
151660 ACTAGAAGAG
151670 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
*
151706 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
* * *
151742 TTTCGTCTATCTTGAGACAGTTTCCCTTGAAATAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
*
151778 TTTTGTCTCTCTTGAGACAGTTTTCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
* * * * *
151814 ------ATAT-TTGA-ATATGTTTTCTTTGAAACAAA
1 TTTTGTCTCTCTTGAGACA-GTTTCCCTTGAAACAAA
* * ** * *
151843 TTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAG
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAA
*
151880 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC-AA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
*
151915 TTTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTT-GTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
151952 ATCTTTGAAT
Statistics
Matches: 206, Mismatches: 28, Indels: 23
0.80 0.11 0.09
Matches are distributed among these distances:
28 2 0.01
29 20 0.10
30 2 0.01
35 6 0.03
36 141 0.68
37 35 0.17
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (36 bp):
TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
Found at i:151909 original size:102 final size:102
Alignment explanation
Indices: 151726--151914 Score: 292
Period size: 102 Copynumber: 1.9 Consensus size: 102
151716 CTTGAGACAG
*
151726 TTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTT
1 TTTCTCTTGAAACAAATTTCGTCTACCTTGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTT
151791 GAGACAGTTTTCCTTGAAACAAAATATTTGAATATGT
66 GAGACAGTTTTCCTTGAAACAAAATATTTGAATATGT
* ** * *
151828 TTTCT-TTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCT
1 TTTCTCTTGAAACAAATTTCGTCTACCTTGAGACAGTTTCCCTT-GAAATAAATTTTGTCTCTCT
151892 TGAGACAG-TTTCTCTTGAAACAA
65 TGAGACAGTTTTC-CTTGAAACAA
151915 TTTTCGTCTA
Statistics
Matches: 79, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
101 38 0.48
102 41 0.52
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (102 bp):
TTTCTCTTGAAACAAATTTCGTCTACCTTGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTT
GAGACAGTTTTCCTTGAAACAAAATATTTGAATATGT
Found at i:151947 original size:138 final size:137
Alignment explanation
Indices: 151690--152014 Score: 445
Period size: 138 Copynumber: 2.4 Consensus size: 137
151680 CTTGAGACAG
*
151690 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCTT
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCTT
* *
151755 GAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTTCCTTGAAACAAAATATTT
66 GAGACAGTTTCCCTTGAAATAAATTTTGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATATTT
*
151820 GAATATG
131 GAATATA
* * * * * * * *
151827 TTTTCTTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCT
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAC-AAATTTCGTCTATCT
* * *
151892 TGAGACAGTTTCTCTTGAAA-CAATTTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATCT
65 TGAGACAGTTTCCCTTGAAATAAATTTT-GTCTATCTTGAGACAGTTTCCCTTGAAACAAAATAT
*
151956 TTGAATTTA
129 TTGAATATA
* * * *
151965 TTTCCCCTAAAACAAATTTTGTCTCCCTTGAGACAATTACTCTTGAAACA
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
152015 CAAAATCTTC
Statistics
Matches: 161, Mismatches: 25, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
137 50 0.31
138 111 0.69
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.40
Consensus pattern (137 bp):
TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCTT
GAGACAGTTTCCCTTGAAATAAATTTTGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATATTT
GAATATA
Found at i:152013 original size:65 final size:67
Alignment explanation
Indices: 151909--152066 Score: 196
Period size: 67 Copynumber: 2.4 Consensus size: 67
151899 GTTTCTCTTG
** * * **
151909 AAAC-AATTTTCGTCTATCTTGAGACAGTTTCCCTTG-AA-ACAAAATCTTTGAATTTATTTCCC
1 AAACAAATTTT-GTCTCCCTTGAGACAATTACCCTTGAAACACAAAATCTTCAAATTTATTTCCC
151971 CTA
65 CTA
* *
151974 AAACAAATTTTGTCTCCCTTGAGACAATTACTCTTGAAACACAAAATCTTCAAATTTATTTCCCT
1 AAACAAATTTTGTCTCCCTTGAGACAATTACCCTTGAAACACAAAATCTTCAAATTTATTTCCCC
152039 TA
66 TA
*
152041 AAACATAATTTTGTTTCCCTTGAGAC
1 AAACA-AATTTTGTCTCCCTTGAGAC
152067 CGTTTCTCAT
Statistics
Matches: 80, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
65 24 0.30
66 8 0.10
67 29 0.36
68 19 0.24
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.37
Consensus pattern (67 bp):
AAACAAATTTTGTCTCCCTTGAGACAATTACCCTTGAAACACAAAATCTTCAAATTTATTTCCCC
TA
Found at i:152043 original size:67 final size:65
Alignment explanation
Indices: 151900--152066 Score: 192
Period size: 65 Copynumber: 2.5 Consensus size: 65
151890 CTTGAGACAG
* * ** * * **
151900 TTTCTCTTGAAAC-AATTTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATTT
1 TTTCCCTTAAAACAAATTTT-GTCTCCCTTGAGACAATTACCCTTGAAACAAAATCTTCAAATTT
151964 A
65 A
* *
151965 TTTCCCCTAAAACAAATTTTGTCTCCCTTGAGACAATTACTCTTGAAACACAAAATCTTCAAATT
1 TTTCCCTTAAAACAAATTTTGTCTCCCTTGAGACAATTACCCTTG-AA-ACAAAATCTTCAAATT
152030 TA
64 TA
*
152032 TTTCCCTTAAAACATAATTTTGTTTCCCTTGAGAC
1 TTTCCCTTAAAACA-AATTTTGTCTCCCTTGAGAC
152067 CGTTTCTCAT
Statistics
Matches: 86, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
65 30 0.35
66 8 0.09
67 29 0.34
68 19 0.22
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (65 bp):
TTTCCCTTAAAACAAATTTTGTCTCCCTTGAGACAATTACCCTTGAAACAAAATCTTCAAATTTA
Found at i:152908 original size:105 final size:105
Alignment explanation
Indices: 152683--153448 Score: 1044
Period size: 105 Copynumber: 7.3 Consensus size: 105
152673 GCCATCTGCG
* * * * *
152683 ATTTCAACTCCA-AGACGGAGGATATCGTGGCACTCGAGACAACACAAGTTCAACTTCACAACGA
1 ATTTCAACTTCACA-ACGAAGGATAT--TGG-ACTCCAGACAACGCAAGTTCAACTTCACGACGA
* *
152747 AGGGA-CGACTGGTTGTTAACAAACAACTTCTCAATTTCAGAGCCA
62 AGGGACCG-CTGCTTGTCAAC-AACAACTTCTCAATTTCAGAGCCA
* * *
152792 ATTTCAACTTCACAACGAAGAATATTGGACTCCAGACAACTCAAGTTCAACTTCACGGCGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
152857 ACCGCTGCCTGTCAACAACAACTTCTCAATTTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
152897 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
152962 ACCGCTGCTTGTCAACAACAACTTCTTAATTTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
* *
153002 ATTTCAACTTCACAACAAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * * *
153067 ACCGTTGCTTGTCAACAACAACTTCCCAATCTCAGAACCA
66 ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
* *
153107 ATTTCAACTTCACAACGAAGGATATTGGACTCCATACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
153172 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
* *
153212 ATTTCAATTTCACAACGAAGGATATTGGATTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
**
153277 ACCGCTGCTTGTCAACAA-AA-TT-TC-A-TTCAGATTCA
66 ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
* * * * *
153312 ATTTCAACTTCACAACGAAGGATATTGGACTCTAGACAACACAAGTTGAATTTCACAACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * * ** *
153377 A-CGACTGGTTGTCAACAAACAATTTCCCGGTTCCAGAGCCA
66 ACCG-CTGCTTGTCAAC-AACAACTTCTCAATTTCAGAGCCA
* * *
153418 ATTTCAACTTCACGACGGAGGATATTAGACT
1 ATTTCAACTTCACAACGAAGGATATTGGACT
153449 TGGAACAATG
Statistics
Matches: 596, Mismatches: 52, Indels: 21
0.89 0.08 0.03
Matches are distributed among these distances:
99 2 0.00
100 77 0.13
101 3 0.01
102 3 0.01
103 4 0.01
104 3 0.01
105 400 0.67
106 78 0.13
107 5 0.01
109 20 0.03
110 1 0.00
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (105 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
Found at i:154026 original size:34 final size:36
Alignment explanation
Indices: 153982--154083 Score: 172
Period size: 34 Copynumber: 2.9 Consensus size: 36
153972 TTTCGTCCTA
153982 CTAGGATTCAAACTCCTAAAAATAGGATAGAA-TTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
*
154017 -TAGGATTCAAACTCCTAAAAATAGGATAAAATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
154052 GCTAGGATTCAAACTCCTAAAAATAGGATAGA
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGA
154084 GTTATACTAT
Statistics
Matches: 62, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
34 30 0.48
35 3 0.05
37 29 0.47
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (36 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
Found at i:154518 original size:2 final size:2
Alignment explanation
Indices: 154505--154538 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
154495 TTCATGTTAT
*
154505 TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
154539 AATTATTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:154816 original size:25 final size:25
Alignment explanation
Indices: 154770--154817 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
154760 ACTTTATATA
* * *
154770 TATTTTTTATTATTTTCGTTTTTTT
1 TATTTATTATTATATTAGTTTTTTT
154795 TATTTATTATTATATTA-TTTTTT
1 TATTTATTATTATATTAGTTTTTT
154818 AAAAAACCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (25 bp):
TATTTATTATTATATTAGTTTTTTT
Found at i:155006 original size:2 final size:2
Alignment explanation
Indices: 154999--155028 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
154989 TAATACTTTG
154999 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
155029 TTCCTTTTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:156540 original size:34 final size:34
Alignment explanation
Indices: 156479--156543 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
156469 CCTTTACAAC
* * *
156479 TCCCTAGTTTTTCACGGGCTAAACTAGAACCTTA
1 TCCCTAGCTTTTAACAGGCTAAACTAGAACCTTA
* *
156513 TCCCTAGCTTTTAACAGGCTCACCTAGAACC
1 TCCCTAGCTTTTAACAGGCTAAACTAGAACC
156544 AAAACCCCTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.29
Consensus pattern (34 bp):
TCCCTAGCTTTTAACAGGCTAAACTAGAACCTTA
Found at i:156975 original size:20 final size:20
Alignment explanation
Indices: 156947--156995 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
156937 TATTGTTCAT
*
156947 TACTGTTCACACAGTATCGG
1 TACTATTCACACAGTATCGG
*
156967 TACTATTCATACAGTATCGG
1 TACTATTCACACAGTATCGG
*
156987 TACCATTCA
1 TACTATTCA
156996 TATAGTACAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (20 bp):
TACTATTCACACAGTATCGG
Found at i:156996 original size:20 final size:20
Alignment explanation
Indices: 156952--157002 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
156942 TTCATTACTG
* *
156952 TTCACACAGTATCGGTACTA
1 TTCATACAGTATCGGTACCA
156972 TTCATACAGTATCGGTACCA
1 TTCATACAGTATCGGTACCA
*
156992 TTCATATAGTA
1 TTCATACAGTA
157003 CAATACTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (20 bp):
TTCATACAGTATCGGTACCA
Found at i:157015 original size:19 final size:20
Alignment explanation
Indices: 156947--157016 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 20
156937 TATTGTTCAT
* * **
156947 TACTGTTCACACAGTATCGG
1 TACTATTCATACAGTATCAA
**
156967 TACTATTCATACAGTATCGG
1 TACTATTCATACAGTATCAA
* *
156987 TACCATTCATATAGTA-CAA
1 TACTATTCATACAGTATCAA
157006 TACTATTCATA
1 TACTATTCATA
157017 AAAAAATTTG
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
19 11 0.26
20 32 0.74
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
TACTATTCATACAGTATCAA
Found at i:159224 original size:34 final size:34
Alignment explanation
Indices: 159163--159227 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
159153 CCTTTACAAC
* * *
159163 TCCCTAGTTTTTCACGGGCTAAACTAGAACCTTA
1 TCCCTAGCTTTTAACAGGCTAAACTAGAACCTTA
* *
159197 TCCCTAGCTTTTAACAGGCTCACCTAGAACC
1 TCCCTAGCTTTTAACAGGCTAAACTAGAACC
159228 AAAACCCCTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.29
Consensus pattern (34 bp):
TCCCTAGCTTTTAACAGGCTAAACTAGAACCTTA
Found at i:159659 original size:20 final size:20
Alignment explanation
Indices: 159631--159679 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
159621 TATTGTTCAT
*
159631 TACTGTTCACACAGTATCGG
1 TACTATTCACACAGTATCGG
*
159651 TACTATTCATACAGTATCGG
1 TACTATTCACACAGTATCGG
*
159671 TACCATTCA
1 TACTATTCA
159680 TATAGTACAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (20 bp):
TACTATTCACACAGTATCGG
Found at i:159680 original size:20 final size:20
Alignment explanation
Indices: 159636--159686 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
159626 TTCATTACTG
* *
159636 TTCACACAGTATCGGTACTA
1 TTCATACAGTATCGGTACCA
159656 TTCATACAGTATCGGTACCA
1 TTCATACAGTATCGGTACCA
*
159676 TTCATATAGTA
1 TTCATACAGTA
159687 CAATACTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (20 bp):
TTCATACAGTATCGGTACCA
Found at i:159699 original size:19 final size:20
Alignment explanation
Indices: 159631--159700 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 20
159621 TATTGTTCAT
* * **
159631 TACTGTTCACACAGTATCGG
1 TACTATTCATACAGTATCAA
**
159651 TACTATTCATACAGTATCGG
1 TACTATTCATACAGTATCAA
* *
159671 TACCATTCATATAGTA-CAA
1 TACTATTCATACAGTATCAA
159690 TACTATTCATA
1 TACTATTCATA
159701 AAAAAATTTG
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
19 11 0.26
20 32 0.74
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
TACTATTCATACAGTATCAA
Found at i:161908 original size:34 final size:34
Alignment explanation
Indices: 161849--161913 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
161839 CCTTTACAAC
* * *
161849 TCCCTAGTTTTTCACGGGCTAAACTAGAACCTTA
1 TCCCTAGCTTTTAACAGGCTAAACTAGAACCTTA
*
161883 TCCCTAGCTTTTAACAGGCTCAACTAGAACC
1 TCCCTAGCTTTTAACAGGCTAAACTAGAACC
161914 AAAACCCCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.29
Consensus pattern (34 bp):
TCCCTAGCTTTTAACAGGCTAAACTAGAACCTTA
Found at i:162305 original size:20 final size:20
Alignment explanation
Indices: 162277--162322 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
162267 TGTTGAGCTT
*
162277 GATATTACTGTAGCAGTATC
1 GATACTACTGTAGCAGTATC
162297 GATACTACTGTAGCAGTATC
1 GATACTACTGTAGCAGTATC
*
162317 GGTACT
1 GATACT
162323 CATTTTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (20 bp):
GATACTACTGTAGCAGTATC
Found at i:165494 original size:182 final size:181
Alignment explanation
Indices: 165181--165635 Score: 709
Period size: 182 Copynumber: 2.5 Consensus size: 181
165171 CACTTTTTTA
* * *
165181 TTACCAGTTTTGTCATTTCGAGATCGATTTTTTCATATTTTTATCTGTTATATTGTTATGGATCG
1 TTACCAGTTTTGTCATTTTGAGATCG-TTTTGTCATATTTTTACCTGTTATATTGTTATGGATCG
*
165246 ATACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTTTCTTTTAAATTCCAAAA
65 ATACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAA
*
165311 GTATCGATACTTATAATAAAGTATCGACACTATCAACATATCCGGTATC-TCT
130 GTATCGATACTTATAATAAAGTATCGACACTATCAACATATCCGGTAGCGT-T
* *
165363 TTACCGGTTTTGTCATTTTGAGACCAGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCG
1 TTACCAGTTTTGTCATTTTGAGATC-GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCG
165428 ATACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAA
65 ATACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAA
* *
165493 GTGTCGATACTTATAATAAAGTATCGACACTATCAACATATCTGGTAGCGTT
130 GTATCGATACTTATAATAAAGTATCGACACTATCAACATATCCGGTAGCGTT
* * * * *
165545 TTACCTG-TTTGTCATTTAT-AGATCGGTTTTGTCATTTTTTTTACCTGTTTTATTGTTCTAGAT
1 TTACCAGTTTTGTCATTT-TGAGATC-GTTTTGTCA-TATTTTTACCTGTTATATTGTTATGGAT
165608 CGATACATTTTTATAAAGTATCGACACT
63 CGATACATTTTTATAAAGTATCGACACT
165636 ATCAACATAT
Statistics
Matches: 253, Mismatches: 16, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
181 23 0.09
182 228 0.90
183 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.44
Consensus pattern (181 bp):
TTACCAGTTTTGTCATTTTGAGATCGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
TACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAG
TATCGATACTTATAATAAAGTATCGACACTATCAACATATCCGGTAGCGTT
Found at i:168788 original size:199 final size:199
Alignment explanation
Indices: 168440--170683 Score: 3348
Period size: 199 Copynumber: 11.3 Consensus size: 199
168430 AGACATTTGG
* * * * *
168440 TTATAATTATGTTTTTTGATATTTTTGGGATCGACAATTGTTATAAATGTATCGAAACTTTGTT-
1 TTATAATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTT-TTA
* * *
168504 GTGCACTTGGTTATGAAATACATTCTGGACAAAAAGTATCGACACTTATTCT-ATTTGTGTCGAT
65 GTGCACTTGGTTTTGAAATACATTCTGGACCAAAAGTATCGACACTTGTT-TGATTTGTGTCGAT
* * * * * *
168568 ACTGTTTGTACACCTGTTTTCTCAAAAACTGGCATATTTAGACCGGTTATATTTCTAATTTATCT
129 ACTTTTTTTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTATATTGCTAATTTACCT
168633 ATTACA
194 ATTACA
* *
168639 TTATAATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATTGACACTTTTTAA
1 TTATAATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAG
*
168704 TGCACTTGGTTTTGAAATACATTTTGGACCAAAAGTATCGACACTTGTTTGATTTGTGTCGATAC
66 TGCACTTGGTTTTGAAATACATTCTGGACCAAAAGTATCGACACTTGTTTGATTTGTGTCGATAC
* * * * *
168769 TTTTTTTACACCCGTTTTCTCAAAAATCGGTATATTTAGACCGTTTACA-TGAATAATTTACCTA
131 TTTTTTTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTATATTG-CTAATTTACCTA
168833 TTACA
195 TTACA
* * * * *
168838 TTATAATTATGTTTTTCAAT-TTTTCGGGATCGACACTTTTTTTAAATGTATCGACAC-TTTTAT
1 TTATAATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTA-
*
168901 GTGCACTTGGTTCTGAAATACATTCTGGACCAAAAGTATCGACACTTGTTCT-ATTTGTGTCGAT
65 GTGCACTTGGTTTTGAAATACATTCTGGACCAAAAGTATCGACACTTGTT-TGATTTGTGTCGAT
* * * * * *
168965 ACTGTTTGTACACCTGTTTTCTCAAAAACTGATATATTTAGACCGGTTATATTTCTAATCTACCT
129 ACTTTTTTTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTATATTGCTAATTTACCT
169030 ATTACA
194 ATTACA
*
169036 TTATAATTATGATTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAG
1 TTATAATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAG
* * * *
169101 TGCACTTGATTTTGAAATACATTTTGGACCAAAAGTATCGACACTTGTTTGATGTATGTCGATAC
66 TGCACTTGGTTTTGAAATACATTCTGGACCAAAAGTATCGACACTTGTTTGATTTGTGTCGATAC
* * *
169166 TTTTTTTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGTTTACA-TGAATAATTTACCTA
131 TTTTTTTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTATATTG-CTAATTTACCTA
169230 TTACA
195 TTACA
* *
169235 TTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAG
1 TTATAATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAG
169300 TGCACTTGGTTCTT-AAATACATTCTGGACCAAAAGTATCGACACTTGTTCT-ATTTGTGTCGAT
66 TGCACTTGGTT-TTGAAATACATTCTGGACCAAAAGTATCGACACTTGTT-TGATTTGTGTCGAT
* * * * *
169363 ACTTTTTTTACACCTATTTTCTCAAAAACCGGTATATTAAGACCGTTTACA-TGAATAATTTACC
129 ACTTTTTTTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTATATTG-CTAATTTACC
169427 TATTACA
193 TATTACA
* * *
169434 TTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAATGTATCGACAC-TTTTAT
1 TTATAATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTA-
* * *
169498 GTGCACTTGGTTCTGAAATACATTCTGGAACAAAAGTATCGACACTTGTTCT-ATTTGTGTTGAT
65 GTGCACTTGGTTTTGAAATACATTCTGGACCAAAAGTATCGACACTTGTT-TGATTTGTGTCGAT
* * *
169562 ACTGTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTATATTTCTAATTTACCT
129 ACTTTTTTTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTATATTGCTAATTTACCT
169627 ATTACA
194 ATTACA
*
169633 TTATAATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAG
1 TTATAATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAG
* **
169698 GGCACTTGGTTTTGAAATACATTCTGGAGAAAAAGTATCGACACTTGTTTGATTTGTGTCGATAC
66 TGCACTTGGTTTTGAAATACATTCTGGACCAAAAGTATCGACACTTGTTTGATTTGTGTCGATAC
* * * * * *
169763 TGTTTGTACATCTATTTTCTCAAAAACCGGTATATTTAGACCGGTTATATTGCTAATCTATCTAT
131 TTTTTTTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTATATTGCTAATTTACCTAT
169828 TACA
196 TACA
* * *
169832 TTATAATTATGGTTTTCGATGTTTTTGGGAACGACACTTGTTACAAATGTATCGACACATTTTAG
1 TTATAATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAG
* *
169897 TGCACTTGGTTTTGAAATACATTCTGGACAAAAAGTATCGAAACTTGTTTGATTTGTGTCGATAC
66 TGCACTTGGTTTTGAAATACATTCTGGACCAAAAGTATCGACACTTGTTTGATTTGTGTCGATAC
* * *
169962 TTTTTTTACACCTGTTTTCTAAAAAATCGGTATATTTAGACCGGTTATATTGCTAATCTACCTAT
131 TTTTTTTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTATATTGCTAATTTACCTAT
170027 TACA
196 TACA
* * *
170031 TTATAATTATAGTTTTTGATGTTTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAG
1 TTATAATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAG
*
170096 TGCACTTGGTTTTGAAATACATTCTGGACCAAAAGTATCGACACTTGTTCGATTTGTGTCGATAC
66 TGCACTTGGTTTTGAAATACATTCTGGACCAAAAGTATCGACACTTGTTTGATTTGTGTCGATAC
* * * *
170161 TTTTTTTACACATGTTTTCTCAAAGAA-TGGTATATTTAGACCAGTTATATTGCTAATCTACCTA
131 TTTTTTTACACCTGTTTTCTCAAA-AACCGGTATATTTAGACCGGTTATATTGCTAATTTACCTA
170225 TTACA
195 TTACA
* * * *
170230 TTATAATTATAGTTTTCGATGTTTTTGGGATCGACACTTATTACAAATGTATCAACACTTTTTAG
1 TTATAATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAG
* *
170295 GGCACTTGGTTTTGAAATACATTCTGGACTAAAAGTATCGACACTTGTTTGATTTGTGTCGATA-
66 TGCACTTGGTTTTGAAATACATTCTGGACCAAAAGTATCGACACTTGTTTGATTTGTGTCGATAC
* * * * *
170359 GTTTTTTACATCTATTTTCTCAAAAACCGGTATATTTAGACCAGTTATATTGCTAATCTACCTAT
131 TTTTTTTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTATATTGCTAATTTACCTAT
170424 TACA
196 TACA
* * * *
170428 TTATAATTATAGTTTTTGAT-TTTTTGGGATCGATACTTGTTACAAATGTATCGACACTTTTTAG
1 TTATAATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAG
170492 TGCACTTGGTTTTGAAATACATTCTGGACCAAAAGTATCGACACTTGTTTGATTTGTGTCGATAC
66 TGCACTTGGTTTTGAAATACATTCTGGACCAAAAGTATCGACACTTGTTTGATTTGTGTCGATAC
* *
170557 TTTTTTTACACCCGTTTTCTCAAAAACCGGTATATTTAGACCGATTATATTGCTAATTTACCTAT
131 TTTTTTTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTATATTGCTAATTTACCTAT
170622 TACA
196 TACA
* *
170626 TTATAATTATGGTTTTCGATATTTTTGCGATCGACACTTGTTATAAATGTATCGACAC
1 TTATAATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACAC
170684 ATAAGTTTAT
Statistics
Matches: 1877, Mismatches: 147, Indels: 42
0.91 0.07 0.02
Matches are distributed among these distances:
197 110 0.06
198 341 0.18
199 1410 0.75
200 16 0.01
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (199 bp):
TTATAATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAG
TGCACTTGGTTTTGAAATACATTCTGGACCAAAAGTATCGACACTTGTTTGATTTGTGTCGATAC
TTTTTTTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTATATTGCTAATTTACCTAT
TACA
Found at i:171038 original size:18 final size:18
Alignment explanation
Indices: 171011--171076 Score: 71
Period size: 18 Copynumber: 3.7 Consensus size: 18
171001 TTCCCATCTC
* * *
171011 ATACATAATTACATTCAT
1 ATACAAAATTAAAATCAT
*
171029 ATACAAAATTATAAATCGT
1 ATACAAAATTA-AAATCAT
*
171048 ATACAAAATTAAAATCTT
1 ATACAAAATTAAAATCAT
171066 ATAC-AAATTAA
1 ATACAAAATTAA
171077 CCATGCATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
17 7 0.17
18 20 0.48
19 15 0.36
ACGTcount: A:0.53, C:0.12, G:0.02, T:0.33
Consensus pattern (18 bp):
ATACAAAATTAAAATCAT
Found at i:171073 original size:17 final size:18
Alignment explanation
Indices: 171028--171076 Score: 73
Period size: 19 Copynumber: 2.7 Consensus size: 18
171018 ATTACATTCA
171028 TATACAAAATTATAAATCG
1 TATACAAAATTA-AAATCG
*
171047 TATACAAAATTAAAATCT
1 TATACAAAATTAAAATCG
171065 TATAC-AAATTAA
1 TATACAAAATTAA
171077 CCATGCATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 7 0.24
18 10 0.34
19 12 0.41
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (18 bp):
TATACAAAATTAAAATCG
Found at i:172134 original size:21 final size:18
Alignment explanation
Indices: 172096--172134 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
172086 TTCTCCTCAT
172096 TTCCTCCATCTTTTCTTC
1 TTCCTCCATCTTTTCTTC
*
172114 TTCCTCCATCTTCTCTTC
1 TTCCTCCATCTTTTCTTC
172132 TTC
1 TTC
172135 AATTTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.05, C:0.41, G:0.00, T:0.54
Consensus pattern (18 bp):
TTCCTCCATCTTTTCTTC
Found at i:173812 original size:18 final size:18
Alignment explanation
Indices: 173789--173827 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
173779 TACTATCAAC
173789 ATTTAAAATTTGTAATC-A
1 ATTTAAAATTT-TAATCTA
*
173807 ATTTAAAGTTTTAATCTA
1 ATTTAAAATTTTAATCTA
173825 ATT
1 ATT
173828 ACCATTTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (18 bp):
ATTTAAAATTTTAATCTA
Found at i:174125 original size:19 final size:20
Alignment explanation
Indices: 174078--174126 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
174068 CATTTATACA
174078 ACCTA-AAATATCATTTTCT
1 ACCTATAAATATCATTTTCT
174097 ACCTAT-AATATCATTTT-T
1 ACCTATAAATATCATTTTCT
174115 ACCTATAAATAT
1 ACCTATAAATAT
174127 TAACTAAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.25
19 21 0.75
ACGTcount: A:0.39, C:0.18, G:0.00, T:0.43
Consensus pattern (20 bp):
ACCTATAAATATCATTTTCT
Found at i:174752 original size:182 final size:182
Alignment explanation
Indices: 174510--175716 Score: 1728
Period size: 182 Copynumber: 6.6 Consensus size: 182
174500 TACGCGTACT
* *
174510 TATTAAAGTATCGACACTTTCAACATATCCGGTATCTATTTACCGGTTTTGTCA-TTTTGAGACC
1 TATTAAATTATCGACACTTTCAACATATCCGGTAACT-TTTACCGGTTTTGTCATTTTTGAGACC
* * * *
174574 GGTTTTATCATATTTTTACCTTTTATATTGTTCTGGATCGATACATTTTCATAAAGTGTCGACAA
65 TGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACAC
*
174639 TTTTTAAGCGATATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTA
130 TTTTTAAGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTA
* * *
174692 TATTAAATTATCGACACTTTCAACATATCCGGTAACTTTTTCCGGTTTTTTCATTTTTGAGACAT
1 TATTAAATTATCGACACTTTCAACATATCCGGTAACTTTTACCGGTTTTGTCATTTTTGAGACCT
* * *
174757 GTTTTATCATATTTTTACATGTTATATTGGTAAGGATCGATACATTTTCATAAAGTGTCGACACT
66 GTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACT
*
174822 TTTTAAGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGCCGATA-TTAA
131 TTTTAAGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTT-A
* * * * * *
174874 TATTAAATTATCGACACTTTCAATATATCCGGTAGCGTTTTACTGATTTTGTCAATTTTGAGACA
1 TATTAAATTATCGACACTTTCAACATATCCGGTAAC-TTTTACCGGTTTTGTCATTTTTGAGACC
*
174939 TGTTTTATTATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACAC
65 TGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACAC
* * *
175004 TTTTTAGGCTCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATATTTA
130 TTTTTAAGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTA
* *
175057 TATTAAATTATCGACACTTTTAACATATCCGGTAACTTTTTCCGGTTTTGTCATTTTTGAGACCT
1 TATTAAATTATCGACACTTTCAACATATCCGGTAACTTTTACCGGTTTTGTCATTTTTGAGACCT
* * * ** *
175122 GTTTTATCATATTTTTACCTGTTATATTGGTAAGGATCGATATATTTTTTTAAAGTATCGACACT
66 GTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACT
* * * *
175187 TTATAAGCGCTATAACTTATTCTCTTTTAAATTCAGAAAGTTTCGATACTTG
131 TTTTAAGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTA
* * * * *
175239 TATTAAATTATCGACACTTTCAATATATCCGGTAGCGTTTTACTGGTTTTGTCAATTTTGAGACA
1 TATTAAATTATCGACACTTTCAACATATCCGGTAAC-TTTTACCGGTTTTGTCATTTTTGAGACC
* *
175304 TGTTTTATCATATTTTTACATGTTATATTGTTATGGATCGATATATTTTCATAAAGTGTCGACAC
65 TGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACAC
* * * *
175369 TTTTTAAGTGCAATAACTTTTTCTCTTTTAAATTCAGAAAGTGTCGATATTTA
130 TTTTTAAGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTA
* *
175422 TATTAAATTATCGACACTTTTAACATATCCGATAACGTTTT-CCGGTTTTGTCATTTTTGAGACC
1 TATTAAATTATCGACACTTTCAACATATCCGGTAAC-TTTTACCGGTTTTGTCATTTTTGAGACC
* * *
175486 TGTTTTATCATATTTTTACCTATTATATTGTTAAGGATCAATACATTTTCATAAAGTGTCGACAC
65 TGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACAC
*
175551 TTTTT-AGACGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTTTCGATACTTA
130 TTTTTAAG-CGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTA
*
175604 TATTAAATTATCGACAC--TCGACACATATCCGGTAGTA-TTTTACCGGTTTTGTCA-TTTTGGG
1 TATTAAATTATCGACACTTTC-A-ACATATCCGGTA--ACTTTTACCGGTTTTGTCATTTTTGAG
* * * * * *
175665 ACCGGTTTTGTCATATTTGTACCTGTAATATTGCTATGGATCGATCCATTTT
62 ACCTGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTT
175717 TCATTTGTAT
Statistics
Matches: 915, Mismatches: 99, Indels: 22
0.88 0.10 0.02
Matches are distributed among these distances:
180 1 0.00
181 19 0.02
182 550 0.60
183 342 0.37
184 3 0.00
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (182 bp):
TATTAAATTATCGACACTTTCAACATATCCGGTAACTTTTACCGGTTTTGTCATTTTTGAGACCT
GTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACT
TTTTAAGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTA
Found at i:175245 original size:365 final size:363
Alignment explanation
Indices: 174510--175716 Score: 1848
Period size: 365 Copynumber: 3.3 Consensus size: 363
174500 TACGCGTACT
* * *
174510 TATTAAAGTATCGACACTTTCAACATATCCGGTATC-TATTTACCGGTTTTGTCATTTTGAGACC
1 TATTAAATTATCGACACTTTCAACATATCCGGTAGCGT-TTTACCGGTTTTGTCATTTTGAGACA
* * *
174574 GGTTTTATCATATTTTTACCTTTTATATTGTTCTGGATCGATACATTTTCATAAAGTGTCGACAA
65 GGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACAC
** *
174639 TTTTTAAGCGATATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATC
130 TTTTTAAGCTCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATATTTATATTAAATTATC
* * *
174704 GACACTTTCAACATATCCGGTAACTTTTTCCGGTTTTTTCATTTTTGAGACATGTTTTATCATAT
195 GACACTTTTAACATATCCGGTAACTTTTTCCGGTTTTGTCATTTTTGAGACCTGTTTTATCATAT
*
174769 TTTTACATGTTATATTGGTAAGGATCGATACATTTTCATAAAGTGTCGACACTTTTTAAGCGCTA
260 TTTTACCTGTTATATTGGTAAGGATCGATACATTTTCATAAAGTGTCGACAC-TTTTAAGCGCTA
**
174834 TAACTTCTTCTCTTTTAAATTCAGAAAGTGCCGATA-TTAA
324 TAACTTCTTCTCTTTTAAATTCAGAAAGTTTCGATACTT-A
* * *
174874 TATTAAATTATCGACACTTTCAATATATCCGGTAGCGTTTTACTGATTTTGTCAATTTTGAGACA
1 TATTAAATTATCGACACTTTCAACATATCCGGTAGCGTTTTACCGGTTTTGTC-ATTTTGAGACA
* *
174939 TGTTTTATTATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACAC
65 GGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACAC
*
175004 TTTTTAGGCTCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATATTTATATTAAATTATC
130 TTTTTAAGCTCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATATTTATATTAAATTATC
175069 GACACTTTTAACATATCCGGTAACTTTTTCCGGTTTTGTCATTTTTGAGACCTGTTTTATCATAT
195 GACACTTTTAACATATCCGGTAACTTTTTCCGGTTTTGTCATTTTTGAGACCTGTTTTATCATAT
* ** *
175134 TTTTACCTGTTATATTGGTAAGGATCGATATATTTTTTTAAAGTATCGACACTTTATAAGCGCTA
260 TTTTACCTGTTATATTGGTAAGGATCGATACATTTTCATAAAGTGTCGACACTTT-TAAGCGCTA
* *
175199 TAACTTATTCTCTTTTAAATTCAGAAAGTTTCGATACTTG
324 TAACTTCTTCTCTTTTAAATTCAGAAAGTTTCGATACTTA
* *
175239 TATTAAATTATCGACACTTTCAATATATCCGGTAGCGTTTTACTGGTTTTGTCAATTTTGAGACA
1 TATTAAATTATCGACACTTTCAACATATCCGGTAGCGTTTTACCGGTTTTGTC-ATTTTGAGACA
* * *
175304 TGTTTTATCATATTTTTACATGTTATATTGTTATGGATCGATATATTTTCATAAAGTGTCGACAC
65 GGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACAC
* *
175369 TTTTTAAG-TGCAATAACTTTTTCTCTTTTAAATTCAGAAAGTGTCGATATTTATATTAAATTAT
130 TTTTTAAGCT-CTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATATTTATATTAAATTAT
* *
175433 CGACACTTTTAACATATCCGATAACGTTTTCCGGTTTTGTCATTTTTGAGACCTGTTTTATCATA
194 CGACACTTTTAACATATCCGGTAACTTTTTCCGGTTTTGTCATTTTTGAGACCTGTTTTATCATA
* * * *
175498 TTTTTACCTATTATATTGTTAAGGATCAATACATTTTCATAAAGTGTCGACACTTTTTAGACGCT
259 TTTTTACCTGTTATATTGGTAAGGATCGATACATTTTCATAAAGTGTCGACACTTTTAAG-CGCT
175563 ATAACTTCTTCTCTTTTAAATTCAGAAAGTTTCGATACTTA
323 ATAACTTCTTCTCTTTTAAATTCAGAAAGTTTCGATACTTA
** *
175604 TATTAAATTATCGACAC--TCGACACATATCCGGTAGTATTTTACCGGTTTTGTCATTTTGGGAC
1 TATTAAATTATCGACACTTTC-A-ACATATCCGGTAGCGTTTTACCGGTTTTGTCATTTTGAGAC
* * * * * *
175667 CGGTTTTGTCATATTTGTACCTGTAATATTGCTATGGATCGATCCATTTT
64 AGGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTT
175717 TCATTTGTAT
Statistics
Matches: 775, Mismatches: 60, Indels: 16
0.91 0.07 0.02
Matches are distributed among these distances:
363 2 0.00
364 104 0.13
365 667 0.86
366 2 0.00
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (363 bp):
TATTAAATTATCGACACTTTCAACATATCCGGTAGCGTTTTACCGGTTTTGTCATTTTGAGACAG
GTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACT
TTTTAAGCTCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATATTTATATTAAATTATCG
ACACTTTTAACATATCCGGTAACTTTTTCCGGTTTTGTCATTTTTGAGACCTGTTTTATCATATT
TTTACCTGTTATATTGGTAAGGATCGATACATTTTCATAAAGTGTCGACACTTTTAAGCGCTATA
ACTTCTTCTCTTTTAAATTCAGAAAGTTTCGATACTTA
Found at i:175544 original size:547 final size:546
Alignment explanation
Indices: 174510--175716 Score: 1828
Period size: 547 Copynumber: 2.2 Consensus size: 546
174500 TACGCGTACT
* *
174510 TATTAAAGTATCGACACTTTCAACATATCCGGTATCTATTTACCGGTTTTGTCATTTTGAGACCG
1 TATTAAATTATCGACACTTTCAACATATCCGGTAACT-TTTACCGGTTTTGTCATTTTGAGACCG
* * * *
174575 GTTTTATCATATTTTTACCTTTTATATTGTTCTGGATCGATACATTTTCATAAAGTGTCGACAAT
65 GTTTTATCATATTTTTACCTGTTATATTGCTATGGATCGATACATTTTCATAAAGTATCGACAAT
* *
174640 TTTTAAGCGATATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCG
130 TTATAAGCGATATAACTTATTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCG
* * *
174705 ACACTTTCAACATATCCGGTAACTTTTTCCGGTTTTTTCATTTTTGAGACATGTTTTATCATATT
195 ACACTTTCAACATATCCGGTAACTTTTACCGGTTTTGTCAATTTTGAGACATGTTTTATCATATT
*
174770 TTTACATGTTATATTGGTAAGGATCGATACATTTTCATAAAGTGTCGACACTTTTTAAGCGCTAT
260 TTTACATGTTATATTGGTAAGGATCGATACATTTTCATAAAGTGTCGACACTTTTTAAGCGCAAT
*
174835 AACTTCTTCTCTTTTAAATTCAGAAAGTGCCGATATTAATATTAAATTATCGACACTTTCAATAT
325 AACTTCTTCTCTTTTAAATTCAGAAAGTGCCGATATTAATATTAAATTATCGACACTTTCAACAT
* * * * *
174900 ATCCGGTAGCGTTTTACTGATTTTGTCAATTTTGAGACATGTTTTATTATATTTTTACCTGTTAT
390 ATCCGATAACGTTTTACCGATTTTGTCAATTTTGAGACATGTTTTATCATATTTTTACCTATTAT
* * * *
174965 ATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACTTTTTAGGCTCTATAACTTCTTCTCT
455 ATTGTTAAGGATCAATACATTTTCATAAAGTGTCGACACTTTTTAGACGCTATAACTTCTTCTCT
*
175030 TTTAAATTCAGAAAGTGTCGATATTTA
520 TTTAAATTCAGAAAGTGTCGATACTTA
* * *
175057 TATTAAATTATCGACACTTTTAACATATCCGGTAACTTTTTCCGGTTTTGTCATTTTTGAGACCT
1 TATTAAATTATCGACACTTTCAACATATCCGGTAACTTTTACCGGTTTTGTCA-TTTTGAGACCG
* * * ** *
175122 GTTTTATCATATTTTTACCTGTTATATTGGTAAGGATCGATATATTTTTTTAAAGTATCGACACT
65 GTTTTATCATATTTTTACCTGTTATATTGCTATGGATCGATACATTTTCATAAAGTATCGACAAT
* * *
175187 TTATAAGCGCTATAACTTATTCTCTTTTAAATTCAGAAAGTTTCGATACTTGTATTAAATTATCG
130 TTATAAGCGATATAACTTATTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCG
* * *
175252 ACACTTTCAATATATCCGGTAGCGTTTTACTGGTTTTGTCAATTTTGAGACATGTTTTATCATAT
195 ACACTTTCAACATATCCGGTAAC-TTTTACCGGTTTTGTCAATTTTGAGACATGTTTTATCATAT
* * * *
175317 TTTTACATGTTATATTGTTATGGATCGATATATTTTCATAAAGTGTCGACACTTTTTAAGTGCAA
259 TTTTACATGTTATATTGGTAAGGATCGATACATTTTCATAAAGTGTCGACACTTTTTAAGCGCAA
* * * *
175382 TAACTTTTTCTCTTTTAAATTCAGAAAGTGTCGATATTTATATTAAATTATCGACACTTTTAACA
324 TAACTTCTTCTCTTTTAAATTCAGAAAGTGCCGATATTAATATTAAATTATCGACACTTTCAACA
* * *
175447 TATCCGATAACGTTTT-CCGGTTTTGTCATTTTTGAGACCTGTTTTATCATATTTTTACCTATTA
389 TATCCGATAACGTTTTACCGATTTTGTCAATTTTGAGACATGTTTTATCATATTTTTACCTATTA
175511 TATTGTTAAGGATCAATACATTTTCATAAAGTGTCGACACTTTTTAGACGCTATAACTTCTTCTC
454 TATTGTTAAGGATCAATACATTTTCATAAAGTGTCGACACTTTTTAGACGCTATAACTTCTTCTC
*
175576 TTTTAAATTCAGAAAGTTTCGATACTTA
519 TTTTAAATTCAGAAAGTGTCGATACTTA
*
175604 TATTAAATTATCGACAC--TCGACACATATCCGGTAGTA-TTTTACCGGTTTTGTCATTTTGGGA
1 TATTAAATTATCGACACTTTC-A-ACATATCCGGTA--ACTTTTACCGGTTTTGTCATTTTGAGA
* * * *
175666 CCGGTTTTGTCATATTTGTACCTGTAATATTGCTATGGATCGATCCATTTT
62 CCGGTTTTATCATATTTTTACCTGTTATATTGCTATGGATCGATACATTTT
175717 TCATTTGTAT
Statistics
Matches: 594, Mismatches: 60, Indels: 12
0.89 0.09 0.02
Matches are distributed among these distances:
545 1 0.00
546 16 0.03
547 389 0.65
548 187 0.31
549 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (546 bp):
TATTAAATTATCGACACTTTCAACATATCCGGTAACTTTTACCGGTTTTGTCATTTTGAGACCGG
TTTTATCATATTTTTACCTGTTATATTGCTATGGATCGATACATTTTCATAAAGTATCGACAATT
TATAAGCGATATAACTTATTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGA
CACTTTCAACATATCCGGTAACTTTTACCGGTTTTGTCAATTTTGAGACATGTTTTATCATATTT
TTACATGTTATATTGGTAAGGATCGATACATTTTCATAAAGTGTCGACACTTTTTAAGCGCAATA
ACTTCTTCTCTTTTAAATTCAGAAAGTGCCGATATTAATATTAAATTATCGACACTTTCAACATA
TCCGATAACGTTTTACCGATTTTGTCAATTTTGAGACATGTTTTATCATATTTTTACCTATTATA
TTGTTAAGGATCAATACATTTTCATAAAGTGTCGACACTTTTTAGACGCTATAACTTCTTCTCTT
TTAAATTCAGAAAGTGTCGATACTTA
Found at i:175670 original size:20 final size:21
Alignment explanation
Indices: 175645--175683 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
175635 GTAGTATTTT
175645 ACCGGTTTTGTCAT-TTTGGG
1 ACCGGTTTTGTCATATTTGGG
175665 ACCGGTTTTGTCATATTTG
1 ACCGGTTTTGTCATATTTG
175684 TACCTGTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.13, C:0.15, G:0.26, T:0.46
Consensus pattern (21 bp):
ACCGGTTTTGTCATATTTGGG
Found at i:181482 original size:17 final size:17
Alignment explanation
Indices: 181446--181479 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
181436 GGAGAATGAT
181446 ATAAATAATAATAATAA
1 ATAAATAATAATAATAA
*
181463 ATAAAT-ATAATTATAA
1 ATAAATAATAATAATAA
181479 A
1 A
181480 ATATCAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
ATAAATAATAATAATAA
Found at i:186229 original size:17 final size:19
Alignment explanation
Indices: 186204--186242 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
186194 ATATCTGTAT
186204 TATTAATATTT-TGTTCTA
1 TATTAATATTTATGTTCTA
186222 TATT-ATATTTAATGTTCTA
1 TATTAATATTT-ATGTTCTA
186241 TA
1 TA
186243 AGTTGTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 4 0.21
19 9 0.47
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (19 bp):
TATTAATATTTATGTTCTA
Found at i:192198 original size:6 final size:6
Alignment explanation
Indices: 192187--192211 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
192177 CAGTCAAACC
192187 CTTTGA CTTTGA CTTTGA CTTTGA C
1 CTTTGA CTTTGA CTTTGA CTTTGA C
192212 CAAGAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.20, G:0.16, T:0.48
Consensus pattern (6 bp):
CTTTGA
Found at i:193352 original size:17 final size:19
Alignment explanation
Indices: 193327--193365 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
193317 ATATCTGTAT
193327 TATTAATATTT-TGTTCTA
1 TATTAATATTTATGTTCTA
193345 TATT-ATATTTAATGTTCTA
1 TATTAATATTT-ATGTTCTA
193364 TA
1 TA
193366 AGTTGTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 4 0.21
19 9 0.47
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (19 bp):
TATTAATATTTATGTTCTA
Found at i:194634 original size:16 final size:16
Alignment explanation
Indices: 194610--194655 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
194600 TTAAAGTTTA
194610 AAATA-TTATTATTAT
1 AAATATTTATTATTAT
194625 AAATATTTATTATTCA-
1 AAATATTTATTATT-AT
*
194641 ATATATTT-TTATTAT
1 AAATATTTATTATTAT
194656 TTTATGTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 1 0.04
15 10 0.37
16 15 0.56
17 1 0.04
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (16 bp):
AAATATTTATTATTAT
Found at i:199953 original size:1 final size:1
Alignment explanation
Indices: 199949--200028 Score: 70
Period size: 1 Copynumber: 80.0 Consensus size: 1
199939 GAAAAAGAAG
* * * * * * * *
199949 AAAAAAGAAAAAGAAAAAAAAGAAGAAAAAGAAAAAAAAGAAAAAAAAGAAAAAAAGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
200014 GAAAAAAGAAAAAAA
1 AAAAAAAAAAAAAAA
200029 GAATGAATAA
Statistics
Matches: 59, Mismatches: 20, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 59 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (1 bp):
A
Found at i:199953 original size:9 final size:9
Alignment explanation
Indices: 199932--200051 Score: 117
Period size: 9 Copynumber: 13.7 Consensus size: 9
199922 TACTACACTC
199932 AAAGAAGGAA
1 AAAGAA-GAA
199942 AAAGAAG-A
1 AAAGAAGAA
199950 AAA-AAGAA
1 AAAGAAGAA
*
199958 AAAGAAAAA
1 AAAGAAGAA
199967 AAAGAAGAA
1 AAAGAAGAA
*
199976 AAAGAAAAA
1 AAAGAAGAA
*
199985 AAAGAAAAA
1 AAAGAAGAA
199994 AAAGAA-AA
1 AAAGAAGAA
*
200002 AAAGAAAAA
1 AAAGAAGAA
200011 AAAG-A-AA
1 AAAGAAGAA
200018 AAAGAA-AA
1 AAAGAAGAA
200026 AAAGAATGAA
1 AAAGAA-GAA
* *
200036 TAAGTAATAA
1 AAAG-AAGAA
200046 AAAGAA
1 AAAGAA
200052 TGAGGAAGAT
Statistics
Matches: 97, Mismatches: 6, Indels: 15
0.82 0.05 0.13
Matches are distributed among these distances:
7 9 0.09
8 26 0.27
9 44 0.45
10 16 0.16
11 2 0.02
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (9 bp):
AAAGAAGAA
Found at i:199977 original size:24 final size:23
Alignment explanation
Indices: 199939--200031 Score: 98
Period size: 24 Copynumber: 3.9 Consensus size: 23
199929 CTCAAAGAAG
*
199939 GAAAAAGAAG-AAAAAAGAAAAAGA
1 GAAAAAAAAGAAAAAAAG-AAAA-A
* *
199963 AAAAAAAGAAGAAAAAGAAAAAAAA
1 GAAAAAA-AAGAAAAA-AAGAAAAA
199988 GAAAAAAAAGAAAAAAAGAAAAA
1 GAAAAAAAAGAAAAAAAGAAAAA
*
200011 AAAGAAAAAAGAAAAAAAGAA
1 GAA-AAAAAAGAAAAAAAGAA
200032 TGAATAAGTA
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
23 9 0.15
24 30 0.51
25 10 0.17
26 8 0.14
27 2 0.03
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (23 bp):
GAAAAAAAAGAAAAAAAGAAAAA
Found at i:200051 original size:35 final size:31
Alignment explanation
Indices: 199939--200031 Score: 116
Period size: 33 Copynumber: 2.9 Consensus size: 31
199929 CTCAAAGAAG
*
199939 GAAAAAGAAGAAAAAAGAAAAAGAA-AAAAAA
1 GAAAAAAAAGAAAAAAGAAAAA-AAGAAAAAA
*
199970 GAAGAAAAAGAAAAAAAAGAAAAAAAAGAAAAAAA
1 GAA-AAAAA-AGAAAAAAG-AAAAAAAG-AAAAAA
200005 GAAAAAAAAGAAAAAAGAAAAAAAGAA
1 GAAAAAAAAGAAAAAAGAAAAAAAGAA
200032 TGAATAAGTA
Statistics
Matches: 54, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
31 5 0.09
32 12 0.22
33 18 0.33
34 10 0.19
35 9 0.17
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (31 bp):
GAAAAAAAAGAAAAAAGAAAAAAAGAAAAAA
Found at i:201196 original size:52 final size:52
Alignment explanation
Indices: 201084--201226 Score: 175
Period size: 52 Copynumber: 2.8 Consensus size: 52
201074 GGTCTATATT
* * * * *
201084 ATCCATGT-GGGTATCTTGAAGGCTCACATAAACATG-AAAAGATAGAAGTA
1 ATCCATGTGGGGCATCTTGAAGGCTCACATCAGCATGAAAAAGACAAAAGTA
*
201134 ATCTATGTGGGGCATAC-TGAAGGCTCACATCAGCATGAAAAAGACAAAAGTA
1 ATCCATGTGGGGCAT-CTTGAAGGCTCACATCAGCATGAAAAAGACAAAAGTA
* * *
201186 ATCCATGTGGGGCATCTTAAAGGCTCACACCAGCAAGAAAA
1 ATCCATGTGGGGCATCTTGAAGGCTCACATCAGCATGAAAA
201227 GGTTGGATAT
Statistics
Matches: 79, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
50 7 0.09
51 24 0.30
52 48 0.61
ACGTcount: A:0.39, C:0.18, G:0.22, T:0.20
Consensus pattern (52 bp):
ATCCATGTGGGGCATCTTGAAGGCTCACATCAGCATGAAAAAGACAAAAGTA
Found at i:203133 original size:19 final size:18
Alignment explanation
Indices: 203109--203160 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 18
203099 AATAGAGAGT
203109 TCATAATGAGAAGAACTC
1 TCATAATGAGAAGAACTC
*
203127 ATCATAAAAGAGAA-AA--C
1 -TCAT-AATGAGAAGAACTC
203144 TCATAATGAGAAGAACT
1 TCATAATGAGAAGAACT
203161 TGTTCCTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 9
0.71 0.05 0.24
Matches are distributed among these distances:
15 7 0.26
16 6 0.22
17 1 0.04
19 6 0.22
20 7 0.26
ACGTcount: A:0.52, C:0.13, G:0.15, T:0.19
Consensus pattern (18 bp):
TCATAATGAGAAGAACTC
Found at i:203160 original size:16 final size:16
Alignment explanation
Indices: 203109--203160 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
203099 AATAGAGAGT
203109 TCATAATGAGAAGAACTC
1 TCATAATGAGAAGAA--C
*
203127 ATCATAAAAGAGAA-AAC
1 -TCAT-AATGAGAAGAAC
203144 TCATAATGAGAAGAAC
1 TCATAATGAGAAGAAC
203160 T
1 T
203161 TGTTCCTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
15 7 0.24
16 8 0.28
17 1 0.03
19 6 0.21
20 7 0.24
ACGTcount: A:0.52, C:0.13, G:0.15, T:0.19
Consensus pattern (16 bp):
TCATAATGAGAAGAAC
Done.