Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003879.1 Hibiscus syriacus cultivar Beakdansim tig00008356_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: 79968
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:5101 original size:99 final size:99
Alignment explanation
Indices: 4930--5603 Score: 915
Period size: 99 Copynumber: 6.7 Consensus size: 99
4920 AAGGGGCTTT
* * *
4930 CCAATTTCATAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGATAGCACAAGCTCAA
1 CCAATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGGACTCAAGACAGCACAAGCTCAA
*
4995 CTTCACAGCGAAGGGGCGATTGACTGTCAACTTC
66 CTTCACAGCGAAGGGGCGACTGACTGTCAACTTC
*
5029 CCAATTTCAGAGCCAATTTTAACTTCACATCGAAGGATATTGGACTCAAGACAGCACAAGCTCAA
1 CCAATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGGACTCAAGACAGCACAAGCTCAA
* *
5094 CTTCACAGTGAAGGGGCGACTGACTTTCAACTTC
66 CTTCACAGCGAAGGGGCGACTGACTGTCAACTTC
*
5128 CCAATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGGACTCAAGATAGCACAAGCTCAA
1 CCAATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGGACTCAAGACAGCACAAGCTCAA
* * *
5193 CTTCATAGCGAAGGAGCGGCTGACTGTCAACTTC
66 CTTCACAGCGAAGGGGCGACTGACTGTCAACTTC
*
5227 CCAATTTCAGAGCCAATTTCAACTTCACAGT-GAAGGATATTGGACTCAAGACAGCACATGCTCA
1 CCAATTTCAGAGCCAATTTCAACTTCACA-TCGAAGGATATTGGACTCAAGACAGCACAAGCTCA
*
5291 ACTTCACAGCGAAGGGGCGGCTGACTGTCAACTTC
65 ACTTCACAGCGAAGGGGCGACTGACTGTCAACTTC
* * * * * *
5326 TCAATTTCAGAGCCAATTTCAACTTCATAACTAAGGATATTGGACCCAAGACAACACAAAGCTCA
1 CCAATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGGACTCAAGACAGCAC-AAGCTCA
* * **
5391 ACTTCAC-GACGAAGGGGCTACTGATTGTCAAC-AA
65 ACTTCACAG-CGAAGGGGCGACTGACTGTCAACTTC
* * * *
5425 ACAACTTTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGGAATCAAGACAGCACAAGCTCA
1 CCAA-TTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGGACTCAAGACAGCACAAGCTCA
* *
5490 ACTTCACTA-TGAAGGGGCGGCTGACTGTCAACAAACAATTCC
65 ACTTCAC-AGCGAAGGGGCGACTGACTGT---C-AAC--TT-C
* * * *
5532 CCAATTTCAGATCCAATTTCAACTTCACATCGAAGGATATTGGACTCGAGACAACACAAGTTCAA
1 CCAATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGGACTCAAGACAGCACAAGCTCAA
5597 CTTCACA
66 CTTCACA
5604 ATGAAGGGAC
Statistics
Matches: 509, Mismatches: 51, Indels: 24
0.87 0.09 0.04
Matches are distributed among these distances:
99 360 0.71
100 81 0.16
102 1 0.00
103 3 0.01
105 1 0.00
106 60 0.12
107 3 0.01
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (99 bp):
CCAATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGGACTCAAGACAGCACAAGCTCAA
CTTCACAGCGAAGGGGCGACTGACTGTCAACTTC
Found at i:5685 original size:106 final size:102
Alignment explanation
Indices: 4930--5684 Score: 855
Period size: 99 Copynumber: 7.5 Consensus size: 102
4920 AAGGGGCTTT
* *
4930 CCAATTTCATAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGATAGCACAAGCTCAA
1 CCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAGCACAAGCTCAA
** *
4995 CTTCACAGCGAAGGGGCGATTGACTGT-CAAC--TTC
66 CTTCACAGCGAAGGGGCGGCTGATTGTACAACAATTC
* *
5029 CCAATTTCAGAGCCAATTTTAACTTCACATCGAAGGATATTGGACTCAAGACAGCACAAGCTCAA
1 CCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAGCACAAGCTCAA
* *
5094 CTTCACAGTGAAGGGGCGACTGACTT-T-CAAC--TTC
66 CTTCACAGCGAAGGGGCGGCTGA-TTGTACAACAATTC
* *
5128 CCAATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGGACTCAAGATAGCACAAGCTCAA
1 CCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAGCACAAGCTCAA
* * *
5193 CTTCATAGCGAAGGAGCGGCTGACTGT-CAAC--TTC
66 CTTCACAGCGAAGGGGCGGCTGATTGTACAACAATTC
* *
5227 CCAATTTCAGAGCCAATTTCAACTTCACAGTGAAGGATATTGGACTCAAGACAGCACATGCTCAA
1 CCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAGCACAAGCTCAA
*
5292 CTTCACAGCGAAGGGGCGGCTGACTGT-CAAC--TTC
66 CTTCACAGCGAAGGGGCGGCTGATTGTACAACAATTC
* * * * * *
5326 TCAATTTCAGAGCCAATTTCAACTTCATAACTAAGGATATTGGACCCAAGACAACACAAAGCTCA
1 CCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAGCAC-AAGCTCA
**
5391 ACTTCAC-GACGAAGGGGCTACTGATTGT-CAACAA---
65 ACTTCACAG-CGAAGGGGCGGCTGATTGTACAACAATTC
* * * *
5425 ACAACTTTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGGAATCAAGACAGCACAAGCTCA
1 CCAA-TTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAGCACAAGCTCA
* *
5490 ACTTCACTA-TGAAGGGGCGGCTGACTGTCAACAAACAATTCC
65 ACTTCAC-AGCGAAGGGGCGGCTGATTGT--AC-AACAATT-C
* * * * *
5532 CCAATTTCAGATCCAATTTCAACTTCACATCGAAGGATATTGGACTCGAGACAACACAAGTTCAA
1 CCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAGCACAAGCTCAA
** * *
5597 CTTCACAATGAAGGGACGGCTGGTTGTCAACAAACAATTTC
66 CTTCACAGCGAAGGGGCGGCTGATTGT--AC-AACAA-TTC
* * * * *
5638 CCAGTTCCAGAACCAATTTCAACTTCACGGCGGAGGATATTGGACTC
1 CCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC
5685 GGAACAATAC
Statistics
Matches: 578, Mismatches: 59, Indels: 31
0.87 0.09 0.05
Matches are distributed among these distances:
98 1 0.00
99 356 0.62
100 81 0.14
102 1 0.00
103 5 0.01
105 1 0.00
106 128 0.22
107 5 0.01
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (102 bp):
CCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAGCACAAGCTCAA
CTTCACAGCGAAGGGGCGGCTGATTGTACAACAATTC
Found at i:6189 original size:21 final size:21
Alignment explanation
Indices: 6152--6231 Score: 82
Period size: 21 Copynumber: 4.0 Consensus size: 21
6142 AATTTAGTCA
6152 AAACAAAGTTTTGTCTCTCTTG
1 AAACAAA-TTTTGTCTCTCTTG
*
6174 AAACAAATTTTATCTCTCTTG
1 AAACAAATTTTGTCTCTCTTG
* *
6195 AGAC--A-GTT-TC-C-CTTG
1 AAACAAATTTTGTCTCTCTTG
6210 AAACAAATTTTGTCTCTCTTG
1 AAACAAATTTTGTCTCTCTTG
6231 A
1 A
6232 GACAGTTTCC
Statistics
Matches: 47, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
15 7 0.15
16 1 0.02
17 3 0.06
18 4 0.09
19 3 0.06
20 1 0.02
21 21 0.45
22 7 0.15
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.40
Consensus pattern (21 bp):
AAACAAATTTTGTCTCTCTTG
Found at i:6211 original size:36 final size:36
Alignment explanation
Indices: 6170--6250 Score: 153
Period size: 36 Copynumber: 2.2 Consensus size: 36
6160 TTTTGTCTCT
6170 CTTGAAACAAATTTTATCTCTCTTGAGACAGTTTCC
1 CTTGAAACAAATTTTATCTCTCTTGAGACAGTTTCC
*
6206 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCC
1 CTTGAAACAAATTTTATCTCTCTTGAGACAGTTTCC
6242 CTTGAAACA
1 CTTGAAACA
6251 CTAATCTTTG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.37
Consensus pattern (36 bp):
CTTGAAACAAATTTTATCTCTCTTGAGACAGTTTCC
Found at i:6301 original size:67 final size:64
Alignment explanation
Indices: 6200--6345 Score: 184
Period size: 67 Copynumber: 2.2 Consensus size: 64
6190 TCTTGAGACA
* ** * * * **
6200 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACACTAATCTTTGAATT
1 GTTTCTCTTGAAACAAATTTTACCTCCCTTGAGACAGTTTCCCTTGAAA-A-AAACCTTTGAAAA
6265 T
64 T
*
6266 GTTTCTCTTGAAACATAATTTTACCTCCCTTGAGACAGTTTCTCTTGAAAAAAACCTTTGAAAAT
1 GTTTCTCTTGAAACA-AATTTTACCTCCCTTGAGACAGTTTCCCTTGAAAAAAACCTTTGAAAAT
6331 GTTTCTCTTGAAACA
1 GTTTCTCTTGAAACA
6346 CAAAACCTTC
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
65 25 0.36
66 15 0.21
67 30 0.43
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.39
Consensus pattern (64 bp):
GTTTCTCTTGAAACAAATTTTACCTCCCTTGAGACAGTTTCCCTTGAAAAAAACCTTTGAAAAT
Found at i:6498 original size:84 final size:84
Alignment explanation
Indices: 6346--6532 Score: 259
Period size: 84 Copynumber: 2.2 Consensus size: 84
6336 TCTTGAAACA
* *
6346 CAAA-ACCTTCGAGTTCGATTACACTCAGCTCTAAGGCACATCATTTGCAACATAGCTCAAGGCA
1 CAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAACATAGCTCAAGGCA
*
6410 AGAAGGGCTATTTGCCAAC
66 AGAAGGGCTATCTGCCAAC
* * * * * *
6429 CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCGAGGCACATCATTTGCAGCATAGCTTAAGTCG
1 CAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAACATAGCTCAAGGCA
*
6494 AGAAGGGCTATCTGCCAGC
66 AGAAGGGCTATCTGCCAAC
*
6513 CAAAGACCTGACGAGTTCGA
1 CAAAGACCT-TCGAGTTCGA
6533 TTTCATTCAG
Statistics
Matches: 91, Mismatches: 11, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
83 4 0.04
84 78 0.86
85 9 0.10
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.21
Consensus pattern (84 bp):
CAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAACATAGCTCAAGGCA
AGAAGGGCTATCTGCCAAC
Found at i:17195 original size:40 final size:42
Alignment explanation
Indices: 17151--17239 Score: 103
Period size: 42 Copynumber: 2.2 Consensus size: 42
17141 TTTACATTCT
* *
17151 AAACGCCACAAAATG-GTAG-A-TTTAGCGGCGTTTATAAATA
1 AAACGCCACAAAA-GAGTAGTACTTTAGCAGCGTTTATAAACA
* * *
17191 AAACGCCGCGACAGAGTAGTACTTTAGCAGCGTTTATAAACA
1 AAACGCCACAAAAGAGTAGTACTTTAGCAGCGTTTATAAACA
17233 AAACGCC
1 AAACGCC
17240 GCAATTGGTT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
39 1 0.02
40 14 0.34
41 1 0.02
42 25 0.61
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.21
Consensus pattern (42 bp):
AAACGCCACAAAAGAGTAGTACTTTAGCAGCGTTTATAAACA
Found at i:17349 original size:82 final size:81
Alignment explanation
Indices: 17191--17564 Score: 290
Period size: 81 Copynumber: 4.6 Consensus size: 81
17181 TTTATAAATA
* * * * * * *
17191 AAACGCCGCGACAGAGTAGTACTTTAGC-AGCGTTTATAAACAAAACGCCGCAAT-TGGTTCATC
1 AAACGCAGCAACAAAGTAGTACTTTAGCGA-CGTTTTTATAC-AAACGCCGTAATAGGGTTCAT-
* *
17254 CATAGTGACTTTTTTCAAC
63 CATAGTGGCATTTTTCAAC
* ** * * *
17273 AAACGTAGTGACAAAGTAATACTTTAGCG--GTGTTTTATACAAACGCCATAATAGAGTTCATCA
1 AAACGCAGCAACAAAGTAGTACTTTAGCGACGT-TTTTATACAAACGCCGTAATAGGGTTCATC-
* *
17336 ATTGTGGCATTTTTCGAC
64 ATAGTGGCATTTTTCAAC
* ** * * ***
17354 AAATGCAGCAATGAAGTAGTACTTTAGTGATGTTTTTATACAAATATCGTAATAGGGTTCATCTA
1 AAACGCAGCAACAAAGTAGTACTTTAGCGACGTTTTTATACAAACGCCGTAATAGGGTTCATC-A
17419 TAGTGGCATTATTTCAAC
65 TAGTGGCATT-TTTCAAC
* * * * *
17437 AAACACAACAACAAAGTAGTACTTTAGCGGCGTTTTTATACGAACGCTGTAATAGGGTTCATTCA
1 AAACGCAGCAACAAAGTAGTACTTTAGCGACGTTTTTATACAAACGCCGTAATAGGGTTCA-TCA
*
17502 TAGTGCCATTTTTCAA-
65 TAGTGGCATTTTTCAAC
* ** * ** *
17518 GAACGCAGTGACAGAGTTTTACTTTAGCGACGTTTTATTTACAAACG
1 AAACGCAGCAACAAAGTAGTACTTTAGCGACGTTTT-TATACAAACG
17565 ATGCAATAGT
Statistics
Matches: 227, Mismatches: 56, Indels: 18
0.75 0.19 0.06
Matches are distributed among these distances:
80 13 0.06
81 74 0.33
82 72 0.32
83 66 0.29
84 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (81 bp):
AAACGCAGCAACAAAGTAGTACTTTAGCGACGTTTTTATACAAACGCCGTAATAGGGTTCATCAT
AGTGGCATTTTTCAAC
Found at i:17489 original size:83 final size:81
Alignment explanation
Indices: 17246--17517 Score: 242
Period size: 83 Copynumber: 3.3 Consensus size: 81
17236 CGCCGCAATT
* * * ** *** *
17246 GGTTCATCCATAGTGACTTTTTTCAACAAACGTAGTGACAAAGTAATACTTTAGCGGTG-TTTTA
1 GGTTCATCTATAGTGGCATTTTTCAACAAACACAACAACAAAGTAGTACTTTAGCGGTGTTTTTA
**
17310 TACAAACGCCATAATAG
66 TAC-AACGCTGTAATAG
* * * * ** * ** * *
17327 AGTTCATCAATTGTGGCATTTTTCGACAAATGCAGCAATGAAGTAGTACTTTAGTGATGTTTTTA
1 GGTTCATCTATAGTGGCATTTTTCAACAAACACAACAACAAAGTAGTACTTTAGCGGTGTTTTTA
***
17392 TACAAATATCGTAATAG
66 TACAACGCT-GTAATAG
*
17409 GGTTCATCTATAGTGGCATTATTTCAACAAACACAACAACAAAGTAGTACTTTAGCGGCGTTTTT
1 GGTTCATCTATAGTGGCATT-TTTCAACAAACACAACAACAAAGTAGTACTTTAGCGGTGTTTTT
17474 ATACGAACGCTGTAATAG
65 ATAC-AACGCTGTAATAG
*
17492 GGTTCAT-TCATAGTGCCATTTTTCAA
1 GGTTCATCT-ATAGTGGCATTTTTCAA
17518 GAACGCAGTG
Statistics
Matches: 150, Mismatches: 36, Indels: 9
0.77 0.18 0.05
Matches are distributed among these distances:
81 46 0.31
82 38 0.25
83 63 0.42
84 3 0.02
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (81 bp):
GGTTCATCTATAGTGGCATTTTTCAACAAACACAACAACAAAGTAGTACTTTAGCGGTGTTTTTA
TACAACGCTGTAATAG
Found at i:18844 original size:17 final size:17
Alignment explanation
Indices: 18822--18861 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
18812 TTGACCGGTT
18822 TTGACCCGACCCGACCG
1 TTGACCCGACCCGACCG
18839 TTGACCCGACCCGACCG
1 TTGACCCGACCCGACCG
18856 TTGACC
1 TTGACC
18862 GTTGACCGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.17, C:0.45, G:0.23, T:0.15
Consensus pattern (17 bp):
TTGACCCGACCCGACCG
Found at i:18913 original size:29 final size:30
Alignment explanation
Indices: 18869--18949 Score: 121
Period size: 29 Copynumber: 2.8 Consensus size: 30
18859 ACCGTTGACC
*
18869 GGTGATATTCTAGGAATTAATTCA-ATTTT
1 GGTGATATTCTGGGAATTAATTCAGATTTT
18898 GGTGATATTCTGGGAATTAATT-AGATTTT
1 GGTGATATTCTGGGAATTAATTCAGATTTT
* *
18927 GGTGATATTTTGGGAATTTATTC
1 GGTGATATTCTGGGAATTAATTC
18950 GGGAAAAAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
28 1 0.02
29 46 0.98
ACGTcount: A:0.27, C:0.05, G:0.22, T:0.46
Consensus pattern (30 bp):
GGTGATATTCTGGGAATTAATTCAGATTTT
Found at i:18997 original size:30 final size:29
Alignment explanation
Indices: 18961--19027 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
18951 GGAAAAAAAA
*
18961 TGCTATTTTGGGAATTTAATTCAGAAAA-GG
1 TGCTATTTTGAGAA-TTAATTCA-AAAAGGG
* *
18991 TGCTATTTTGAGAATTATTTTAAAAAGGG
1 TGCTATTTTGAGAATTAATTCAAAAAGGG
19020 TGCTATTT
1 TGCTATTT
19028 CTGTAAAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 4 0.12
29 16 0.48
30 13 0.39
ACGTcount: A:0.31, C:0.06, G:0.21, T:0.42
Consensus pattern (29 bp):
TGCTATTTTGAGAATTAATTCAAAAAGGG
Found at i:25823 original size:24 final size:24
Alignment explanation
Indices: 25791--25846 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
25781 CTATTCTTTC
25791 GCTTCAATTGAGCTCAAATTTTAG
1 GCTTCAATTGAGCTCAAATTTTAG
25815 GCTTCAATTGAGCTCAAATTTTAG
1 GCTTCAATTGAGCTCAAATTTTAG
25839 GCTTCAAT
1 GCTTCAAT
25847 CGAACTTCTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.38
Consensus pattern (24 bp):
GCTTCAATTGAGCTCAAATTTTAG
Found at i:26102 original size:11 final size:10
Alignment explanation
Indices: 26078--26123 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
26068 ACGGTTCAAA
26078 CCGG-TTTTG
1 CCGGTTTTTG
26087 CCGGTTTTTAG
1 CCGGTTTTT-G
*
26098 CCGG-TTTTC
1 CCGGTTTTTG
26107 CCGGTTTTTAG
1 CCGGTTTTT-G
26118 CCGGTT
1 CCGGTT
26124 CACCCCGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
9 8 0.26
10 12 0.39
11 11 0.35
ACGTcount: A:0.04, C:0.24, G:0.28, T:0.43
Consensus pattern (10 bp):
CCGGTTTTTG
Found at i:26103 original size:20 final size:20
Alignment explanation
Indices: 26078--26123 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
26068 ACGGTTCAAA
*
26078 CCGGTTTTGCCGGTTTTTAG
1 CCGGTTTTCCCGGTTTTTAG
26098 CCGGTTTTCCCGGTTTTTAG
1 CCGGTTTTCCCGGTTTTTAG
26118 CCGGTT
1 CCGGTT
26124 CACCCCGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.04, C:0.24, G:0.28, T:0.43
Consensus pattern (20 bp):
CCGGTTTTCCCGGTTTTTAG
Found at i:26138 original size:30 final size:30
Alignment explanation
Indices: 26102--26184 Score: 130
Period size: 30 Copynumber: 2.8 Consensus size: 30
26092 TTTTAGCCGG
*
26102 TTTTCCCGGTTTTTAGCCGGTTCACCCCGA
1 TTTTCCCGGTTTTCAGCCGGTTCACCCCGA
* * *
26132 TTTTCCCAGTTTTCAGTCGGTTCACCCCGG
1 TTTTCCCGGTTTTCAGCCGGTTCACCCCGA
26162 TTTTCCCGGTTTTCAGCCGGTTC
1 TTTTCCCGGTTTTCAGCCGGTTC
26185 TTTCGGTTCT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.08, C:0.33, G:0.20, T:0.39
Consensus pattern (30 bp):
TTTTCCCGGTTTTCAGCCGGTTCACCCCGA
Found at i:26183 original size:20 final size:20
Alignment explanation
Indices: 26078--26183 Score: 67
Period size: 20 Copynumber: 5.3 Consensus size: 20
26068 ACGGTTCAAA
* *
26078 CCGGTTTTGCCGGTTTTTAG
1 CCGGTTTTCCCGGTTTTCAG
*
26098 CCGGTTTTCCCGGTTTTTAG
1 CCGGTTTTCCCGGTTTTCAG
** *
26118 CCGGTTCACCCCGATTTTC--
1 CCGGTT-TTCCCGGTTTTCAG
* * *
26137 CCAGTTTTCAGTCGG--TTCACC
1 CCGGTTTTC--CCGGTTTTCA-G
26158 CCGGTTTTCCCGGTTTTCAG
1 CCGGTTTTCCCGGTTTTCAG
26178 CCGGTT
1 CCGGTT
26184 CTTTCGGTTC
Statistics
Matches: 65, Mismatches: 13, Indels: 16
0.69 0.14 0.17
Matches are distributed among these distances:
18 4 0.06
19 8 0.12
20 33 0.51
21 20 0.31
ACGTcount: A:0.08, C:0.30, G:0.24, T:0.39
Consensus pattern (20 bp):
CCGGTTTTCCCGGTTTTCAG
Found at i:26191 original size:20 final size:20
Alignment explanation
Indices: 26168--26205 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
26158 CCGGTTTTCC
26168 CGGTT-TTCAGCCGGTTCTTT
1 CGGTTCTTCA-CCGGTTCTTT
*
26188 CGGTTCTTTACCGGTTCT
1 CGGTTCTTCACCGGTTCT
26206 GTGCTAATCC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.05, C:0.26, G:0.24, T:0.45
Consensus pattern (20 bp):
CGGTTCTTCACCGGTTCTTT
Found at i:26954 original size:21 final size:22
Alignment explanation
Indices: 26915--26960 Score: 76
Period size: 21 Copynumber: 2.1 Consensus size: 22
26905 ATCGGTTTTA
26915 ACCCGACCTGACCGTTGACCCG
1 ACCCGACCTGACCGTTGACCCG
*
26937 ACCCGACC-GACTGTTGACCCG
1 ACCCGACCTGACCGTTGACCCG
26958 ACC
1 ACC
26961 GCTGACCGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.20, C:0.46, G:0.22, T:0.13
Consensus pattern (22 bp):
ACCCGACCTGACCGTTGACCCG
Found at i:27010 original size:29 final size:30
Alignment explanation
Indices: 26968--27049 Score: 130
Period size: 29 Copynumber: 2.8 Consensus size: 30
26958 ACCGCTGACC
26968 GGTGATATTCTGGGAATTAATTCGA-TTTT
1 GGTGATATTCTGGGAATTAATTCGATTTTT
*
26997 GGTGATATTCTGGGAATTAAATCGATTTTT
1 GGTGATATTCTGGGAATTAATTCGATTTTT
* *
27027 GGTGATATTTTGGGAATTTATTC
1 GGTGATATTCTGGGAATTAATTC
27050 TAAAAATGTG
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
29 24 0.50
30 24 0.50
ACGTcount: A:0.24, C:0.06, G:0.24, T:0.45
Consensus pattern (30 bp):
GGTGATATTCTGGGAATTAATTCGATTTTT
Found at i:27088 original size:30 final size:29
Alignment explanation
Indices: 27032--27160 Score: 190
Period size: 29 Copynumber: 4.4 Consensus size: 29
27022 TTTTTGGTGA
*
27032 TATTTTGGGAATTT-ATTCTAAAAATGTGC
1 TATTTTGGGAATTTAATTC-GAAAATGTGC
*
27061 TATTTTGAGAATTTAATTCAGAAAATGTGC
1 TATTTTGGGAATTTAATTC-GAAAATGTGC
27091 TATTTTGGGAATTTAATTCGAAAA-GTGC
1 TATTTTGGGAATTTAATTCGAAAATGTGC
*
27119 TGTTTTGGGAATTTAATTCGAAAATGTGC
1 TATTTTGGGAATTTAATTCGAAAATGTGC
*
27148 TATTTTGGTAATT
1 TATTTTGGGAATT
27161 ATTTTAAAAA
Statistics
Matches: 91, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
28 27 0.30
29 33 0.36
30 31 0.34
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.43
Consensus pattern (29 bp):
TATTTTGGGAATTTAATTCGAAAATGTGC
Found at i:27905 original size:24 final size:24
Alignment explanation
Indices: 27879--27956 Score: 86
Period size: 24 Copynumber: 3.3 Consensus size: 24
27869 TATCTGATTT
*
27879 TTGACCTGGATTCTGATATGATAT
1 TTGACCTGGATTCTGATATGATAC
* * *
27903 TTGACCTGAATTTTTATATGATAC
1 TTGACCTGGATTCTGATATGATAC
* * *
27927 TTGACATGGACTCTGATTTG-TAC
1 TTGACCTGGATTCTGATATGATAC
27950 TTGACCT
1 TTGACCT
27957 TAATTATGTT
Statistics
Matches: 43, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
23 9 0.21
24 34 0.79
ACGTcount: A:0.24, C:0.15, G:0.18, T:0.42
Consensus pattern (24 bp):
TTGACCTGGATTCTGATATGATAC
Found at i:28476 original size:17 final size:19
Alignment explanation
Indices: 28449--28487 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
28439 ATATTTGTAT
28449 TATTAATATTT-TGTTCTA
1 TATTAATATTTATGTTCTA
28467 TATT-ATATTTAATGTTCTA
1 TATTAATATTT-ATGTTCTA
28486 TA
1 TA
28488 AATTATATAT
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:30620 original size:43 final size:42
Alignment explanation
Indices: 30531--30669 Score: 118
Period size: 43 Copynumber: 3.3 Consensus size: 42
30521 GTTTTGTATT
* * * * * *
30531 AAAAACGCCAATAAAAAAATAGAATTAGTGGTGTTTGGGGCAC
1 AAAAACGCCACTAAAAAAAGAGAATTAGCGGCGTTTGTGAC-C
*
30574 AAAAACGCCACTAAAAACAAGAGAATTAGCGGCGTTTGTGTCC
1 AAAAACGCCACTAAAAA-AAGAGAATTAGCGGCGTTTGTGACC
* * * * * * *
30617 AAAAATGTCACTAATGATAGGATAATTAGCGGCGTTTGTGAAC
1 AAAAACGCCACTAA-AAAAAGAGAATTAGCGGCGTTTGTGACC
30660 -AAAACGCCAC
1 AAAAACGCCAC
30670 AATAAATCAC
Statistics
Matches: 78, Mismatches: 16, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
42 8 0.10
43 50 0.64
44 20 0.26
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.21
Consensus pattern (42 bp):
AAAAACGCCACTAAAAAAAGAGAATTAGCGGCGTTTGTGACC
Found at i:31686 original size:14 final size:14
Alignment explanation
Indices: 31667--31716 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 14
31657 CAAAACTAAG
31667 TAACAATATACATA
1 TAACAATATACATA
*
31681 TAACAAAATA-ACTAA
1 TAACAATATACA-T-A
31696 GTAACAATATACATA
1 -TAACAATATACATA
31711 TAACAA
1 TAACAA
31717 AATAATAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
13 1 0.03
14 16 0.53
15 2 0.07
16 10 0.33
17 1 0.03
ACGTcount: A:0.60, C:0.14, G:0.02, T:0.24
Consensus pattern (14 bp):
TAACAATATACATA
Found at i:31695 original size:30 final size:30
Alignment explanation
Indices: 31660--31721 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
31650 CAAAAACCAA
31660 AACTAAGTAACAATATACATATAACAAAAT
1 AACTAAGTAACAATATACATATAACAAAAT
31690 AACTAAGTAACAATATACATATAACAAAAT
1 AACTAAGTAACAATATACATATAACAAAAT
31720 AA
1 AA
31722 TAACATACTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.61, C:0.13, G:0.03, T:0.23
Consensus pattern (30 bp):
AACTAAGTAACAATATACATATAACAAAAT
Found at i:31720 original size:16 final size:16
Alignment explanation
Indices: 31671--31720 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
31661 ACTAAGTAAC
31671 AATATACATATAACAA
1 AATATACATATAACAA
31687 AATA-AC-TAAGTAAC--
1 AATATACAT-A-TAACAA
31701 AATATACATATAACAA
1 AATATACATATAACAA
31717 AATA
1 AATA
31721 ATAACATACT
Statistics
Matches: 28, Mismatches: 0, Indels: 12
0.70 0.00 0.30
Matches are distributed among these distances:
14 9 0.32
15 6 0.21
16 13 0.46
ACGTcount: A:0.62, C:0.12, G:0.02, T:0.24
Consensus pattern (16 bp):
AATATACATATAACAA
Found at i:34533 original size:35 final size:36
Alignment explanation
Indices: 34487--34563 Score: 120
Period size: 35 Copynumber: 2.2 Consensus size: 36
34477 AAAACAGTCC
* *
34487 TCAATTTCATTCTAAACCCCAATTTCC-AAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAAATAAT
*
34522 TCAATTTCATTCTAAACCCTAAATTCCAAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAAATAAT
34558 TCAATT
1 TCAATT
34564 AAATTCAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
35 25 0.66
36 13 0.34
ACGTcount: A:0.40, C:0.23, G:0.01, T:0.35
Consensus pattern (36 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAAATAAT
Found at i:35107 original size:130 final size:130
Alignment explanation
Indices: 34961--35208 Score: 415
Period size: 130 Copynumber: 1.9 Consensus size: 130
34951 TATTTATATA
* ** *
34961 ATCAATTTGGTCCTAAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATATG
* *
35026 TTAGCACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
66 TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
35091 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATATG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATATG
* * *
35156 TTAACACATGATCATGATATATGTTATTGGTGACACATGTCACCACCTAATTA
66 TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTA
35209 GAAGAAAATT
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 109 1.00
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.35
Consensus pattern (130 bp):
ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATATG
TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
Found at i:35181 original size:23 final size:21
Alignment explanation
Indices: 35135--35181 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 21
35125 AATTAATCAT
35135 TTAACCAGGATCTGACATATG
1 TTAACCAGGATCTGACATATG
* *
35156 TTAACACATGATCATGATATATG
1 TTAAC-CAGGATC-TGACATATG
35179 TTA
1 TTA
35182 TTGGTGACAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 5 0.23
22 6 0.27
23 11 0.50
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (21 bp):
TTAACCAGGATCTGACATATG
Found at i:35239 original size:130 final size:129
Alignment explanation
Indices: 34975--35239 Score: 300
Period size: 130 Copynumber: 2.0 Consensus size: 129
34965 ATTTGGTCCT
* ** * *
34975 AAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTGTTAGCACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATATGTTAACACATGATCA
* *** * * **** *
35040 TGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCTATCAATTTGGTCCT
66 TGACACATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGT-CA
35105 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATATGTTAACACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATATGTTAACACATGATCA
* * * *
35170 TGATATATGTTATTGGTGACACATGTCACCACCTAATTAGAAGAAAATTAAGTTA-CAAAGAAGT
66 TGACACATGTCATTGGTGACACATGTCACCACCTAATT--AAGAAAA-TAAGCTATCAAAGAAGT
35234 -A
128 CA
35235 AAATT
1 AAATT
35240 TGGGTCTTCG
Statistics
Matches: 112, Mismatches: 20, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
130 99 0.88
132 8 0.07
133 5 0.04
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.34
Consensus pattern (129 bp):
AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATATGTTAACACATGATCA
TGACACATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGTCA
Found at i:35695 original size:15 final size:17
Alignment explanation
Indices: 35675--35706 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
35665 ATTTCTTATT
35675 AAAATA-AAAT-ATTCA
1 AAAATATAAATGATTCA
35690 AAAATATAAATGATTCA
1 AAAATATAAATGATTCA
35707 TACATTAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.62, C:0.06, G:0.03, T:0.28
Consensus pattern (17 bp):
AAAATATAAATGATTCA
Found at i:39354 original size:23 final size:23
Alignment explanation
Indices: 39328--39395 Score: 100
Period size: 23 Copynumber: 3.0 Consensus size: 23
39318 ATTATTATAT
39328 GGCACTTCGGTGCATTTCTACGC
1 GGCACTTCGGTGCATTTCTACGC
* * *
39351 GGCACTACGGTGCAATTCTACGT
1 GGCACTTCGGTGCATTTCTACGC
*
39374 GGCACTTCGGTGCATTTATACG
1 GGCACTTCGGTGCATTTCTACG
39396 AGCTGTGGTG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.18, C:0.26, G:0.26, T:0.29
Consensus pattern (23 bp):
GGCACTTCGGTGCATTTCTACGC
Found at i:42092 original size:16 final size:16
Alignment explanation
Indices: 42071--42113 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
42061 GGTAATTAAA
42071 GATTGATAAGGAATTT
1 GATTGATAAGGAATTT
* *
42087 GATTGATTAATGATTTT
1 GATTGA-TAAGGAATTT
*
42104 GAGTGATAAG
1 GATTGATAAG
42114 AACTGATGAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.35, C:0.00, G:0.26, T:0.40
Consensus pattern (16 bp):
GATTGATAAGGAATTT
Found at i:44493 original size:23 final size:23
Alignment explanation
Indices: 44467--44534 Score: 100
Period size: 23 Copynumber: 3.0 Consensus size: 23
44457 ATTATTATAT
44467 GGCACTTCGGTGCATTTCTACGC
1 GGCACTTCGGTGCATTTCTACGC
* * *
44490 GGCACTACGGTGCAATTCTACGT
1 GGCACTTCGGTGCATTTCTACGC
*
44513 GGCACTTCGGTGCATTTATACG
1 GGCACTTCGGTGCATTTCTACG
44535 AGCTGTGGTG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.18, C:0.26, G:0.26, T:0.29
Consensus pattern (23 bp):
GGCACTTCGGTGCATTTCTACGC
Found at i:46235 original size:17 final size:17
Alignment explanation
Indices: 46213--46245 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
46203 CCTAAACAAA
46213 AAAGAA-AAAGAATAAAT
1 AAAGAATAAA-AATAAAT
46230 AAAGAATAAAAATAAA
1 AAAGAATAAAAATAAA
46246 GAAATAAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (17 bp):
AAAGAATAAAAATAAAT
Found at i:46304 original size:4 final size:4
Alignment explanation
Indices: 46223--46291 Score: 50
Period size: 4 Copynumber: 17.0 Consensus size: 4
46213 AAAGAAAAAG
* * * * * *
46223 AATA AATA AAGA ATAAA AATA AAGA AATA AACAA AATA ATTA ATTA AATA
1 AATA AATA AATA A-ATA AATA AATA AATA AA-TA AATA AATA AATA AATA
*
46273 AATA AA-A AAGA AATA AATA
1 AATA AATA AATA AATA AATA
46292 TAATGTAAAT
Statistics
Matches: 52, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
3 3 0.06
4 43 0.83
5 6 0.12
ACGTcount: A:0.74, C:0.01, G:0.04, T:0.20
Consensus pattern (4 bp):
AATA
Found at i:46387 original size:37 final size:36
Alignment explanation
Indices: 46340--46659 Score: 340
Period size: 37 Copynumber: 8.7 Consensus size: 36
46330 AAAATATTTT
*
46340 TTTTAAAAACTA-ATATTATATATATTTCCGAAAAATG
1 TTTTCAAAACTATATATTATATATATTT-C-AAAAATG
46377 TTTTCAAAACTATATATTATATATATTTTCAAAAATG
1 TTTTCAAAACTATATATTATATATA-TTTCAAAAATG
* *
46414 TTTTCTAAACTATATATTATACATATTTTCAAAAAAAATG
1 TTTTCAAAACTATATATTATATATA-TTTC---AAAAATG
*
46454 TTTTCCAAACTATATA-T-TATATA--T-----A--
1 TTTTCAAAACTATATATTATATATATTTCAAAAATG
46479 TTTTCAAAACTATATATTATATATATTTTCAAAAATG
1 TTTTCAAAACTATATATTATATATA-TTTCAAAAATG
46516 TTTTCAAAACTATATTATATATATATATATTCAAAAATG
1 TTTTCAAAACTATA-TAT-TATATATAT-TTCAAAAATG
46555 TTTTCAAAACTATATTATATATATATATATTCAAAAAATG
1 TTTTCAAAACTATA-TAT-TATATATAT-TTC-AAAAATG
* *
46595 TTCTCAAAATTATATATTATATATATTTCGAAAAATG
1 TTTTCAAAACTATATATTATATATATTTC-AAAAATG
46632 TTTTCAAAACTATATTATATATATATAT
1 TTTTCAAAACTATA-TAT-TATATATAT
46660 ATATATATAT
Statistics
Matches: 249, Mismatches: 11, Indels: 44
0.82 0.04 0.14
Matches are distributed among these distances:
25 15 0.06
26 1 0.00
27 7 0.03
30 1 0.00
35 2 0.01
37 82 0.33
38 34 0.14
39 66 0.27
40 41 0.16
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.44
Consensus pattern (36 bp):
TTTTCAAAACTATATATTATATATATTTCAAAAATG
Found at i:46466 original size:77 final size:74
Alignment explanation
Indices: 46346--46655 Score: 301
Period size: 77 Copynumber: 4.3 Consensus size: 74
46336 TTTTTTTTAA
* **
46346 AAACTAATATTATATATATTTCCGAAAAATGTTTTCAAAACTATATATTATATATATTTTCAAAA
1 AAACTAATATTATACATATTTCAAAAAAATGTTTTCAAAACTATATATTATATATATTTTCAAAA
46411 ATGTTTTCT
66 ATGTTTTCT
*
46420 AAACTATATATTATACATATTTTCAAAAAAAATGTTTTCCAAACTATATATTATATATATTTTC-
1 AAACTA-ATATTATACATA-TTTC-AAAAAAATGTTTTCAAAACTATATATTATATATATTTTCA
46484 AAAA------CT
63 AAAATGTTTTCT
* *
46490 --A-T-ATATTATATATATTTTC--AAAAATGTTTTCAAAACTATATTATATATATATATATTCA
1 AAACTAATATTATACATA-TTTCAAAAAAATGTTTTCAAAACTATA-TAT-TATATATATTTTCA
*
46549 AAAATGTTTTCA
63 AAAATGTTTTCT
* * *
46561 AAACTATATTATATATATATATATTC-AAAAAATGTTCTCAAAATTATATATTATATATA-TTTC
1 AAACTA-A-TAT-TATACATAT-TTCAAAAAAATGTTTTCAAAACTATATATTATATATATTTTC
*
46624 GAAAAATGTTTTCA
62 -AAAAATGTTTTCT
*
46638 AAACT-ATATTATATATAT
1 AAACTAATATTATACATAT
46656 ATATATATAT
Statistics
Matches: 203, Mismatches: 11, Indels: 45
0.78 0.04 0.17
Matches are distributed among these distances:
62 20 0.10
63 3 0.01
64 12 0.06
65 20 0.10
67 1 0.00
68 1 0.00
70 2 0.01
71 1 0.00
73 10 0.05
74 10 0.05
75 12 0.06
76 12 0.06
77 66 0.33
78 14 0.07
79 19 0.09
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.44
Consensus pattern (74 bp):
AAACTAATATTATACATATTTCAAAAAAATGTTTTCAAAACTATATATTATATATATTTTCAAAA
ATGTTTTCT
Found at i:46494 original size:65 final size:64
Alignment explanation
Indices: 46414--46551 Score: 199
Period size: 65 Copynumber: 2.1 Consensus size: 64
46404 TTCAAAAATG
* *
46414 TTTTCTAAACTATATATTATACATATTTTCAAAAAAAATGTTTTCCAAACTATA-TAT-TATATA
1 TTTTCAAAACTATATATTATACATATTTTC---AAAAATGTTTTCAAAACTATATTATATATATA
46477 TA
63 TA
*
46479 TTTTCAAAACTATATATTATATATATTTTCAAAAATGTTTTCAAAACTATATTATATATATATA
1 TTTTCAAAACTATATATTATACATATTTTCAAAAATGTTTTCAAAACTATATTATATATATATA
*
46543 TATTCAAAA
1 TTTTCAAAA
46552 ATGTTTTCAA
Statistics
Matches: 67, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
62 20 0.30
63 3 0.04
64 16 0.24
65 28 0.42
ACGTcount: A:0.44, C:0.09, G:0.01, T:0.45
Consensus pattern (64 bp):
TTTTCAAAACTATATATTATACATATTTTCAAAAATGTTTTCAAAACTATATTATATATATATA
Found at i:46499 original size:23 final size:25
Alignment explanation
Indices: 46454--46512 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
46444 AAAAAAAATG
*
46454 TTTTCCAAACTATATATTATATATA
1 TTTTCAAAACTATATATTATATATA
46479 TTTTCAAAACTATATATTATATATA
1 TTTTCAAAACTATATATTATATATA
46504 TTTTCAAAA
1 TTTTCAAAA
46513 ATGTTTTCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.47
Consensus pattern (25 bp):
TTTTCAAAACTATATATTATATATA
Found at i:46549 original size:39 final size:40
Alignment explanation
Indices: 46479--46661 Score: 281
Period size: 39 Copynumber: 4.8 Consensus size: 40
46469 ATTATATATA
*
46479 TTTTCAAAACTATA-TAT-TATATATATTTTC-AAAAATG
1 TTTTCAAAACTATATTATATATATATATATTCAAAAAATG
46516 TTTTCAAAACTATATTATATATATATATATTC-AAAAATG
1 TTTTCAAAACTATATTATATATATATATATTCAAAAAATG
46555 TTTTCAAAACTATATTATATATATATATATTCAAAAAATG
1 TTTTCAAAACTATATTATATATATATATATTCAAAAAATG
* * *
46595 TTCTCAAAATTATA-TAT-TATATATAT-TTCGAAAAATG
1 TTTTCAAAACTATATTATATATATATATATTCAAAAAATG
46632 TTTTCAAAACTATATTATATATATATATAT
1 TTTTCAAAACTATATTATATATATATATAT
46662 ATATATATAT
Statistics
Matches: 134, Mismatches: 6, Indels: 9
0.90 0.04 0.06
Matches are distributed among these distances:
37 36 0.27
38 15 0.11
39 63 0.47
40 20 0.15
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.45
Consensus pattern (40 bp):
TTTTCAAAACTATATTATATATATATATATTCAAAAAATG
Found at i:46685 original size:116 final size:117
Alignment explanation
Indices: 46482--46703 Score: 319
Period size: 116 Copynumber: 1.9 Consensus size: 117
46472 ATATATATTT
46482 TCAAAACTATATATTATATATATTTTCAAAAATGTTTTCAAAACTATATTATATATATATATATT
1 TCAAAACTATATATTATATATATTTTCAAAAATGTTTTCAAAACTATATTATATATATATATATT
* *
46547 CAAAAATGTTTTCAAAACTATAT-TATATATATATATATTCAAAAAATGTTC
66 CAAAAATATTATCAAAACTATATATATATATATATATATTCAAAAAATGTTC
*
46598 TCAAAATTATATATTATATATA-TTTCGAAAAATGTTTTCAAAACTATATTATATATATATATAT
1 TCAAAACTATATATTATATATATTTTC-AAAAATGTTTTCAAAACTATATTATATATATATATAT
* * *
46662 AT-ATATATATATAT-ATATA-TATATATATATATATATATATTC
65 -TCAAAAATAT-TATCA-AAACTATATATATATATATATATATTC
46704 TCAAAATTAT
Statistics
Matches: 95, Mismatches: 6, Indels: 9
0.86 0.05 0.08
Matches are distributed among these distances:
115 4 0.04
116 69 0.73
117 22 0.23
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.45
Consensus pattern (117 bp):
TCAAAACTATATATTATATATATTTTCAAAAATGTTTTCAAAACTATATTATATATATATATATT
CAAAAATATTATCAAAACTATATATATATATATATATATTCAAAAAATGTTC
Found at i:46693 original size:77 final size:74
Alignment explanation
Indices: 46526--46697 Score: 208
Period size: 77 Copynumber: 2.3 Consensus size: 74
46516 TTTTCAAAAC
46526 TATAT-TATATATATATATA-TTCAAAAATGTTTTCAAAACTATATTATATATATATATATTCAA
1 TATATATATATATATATATATTTCAAAAATGTTTTCAAAACTATATTATATATATATATATTCAA
* *
46589 AAAATGTTC
66 AAAATATTA
*
46598 TCA-AAATTATATATTATATATATTTCGAAAAATGTTTTCAAAACTATATTATATATATATATAT
1 T-ATATA-TATATA-TATATATATTTC-AAAAATGTTTTCAAAACTATATTATATATATATATAT
* *
46662 AT-ATATATATATATA
62 -TCA-AAAAATAT-TA
46677 TATATATATATATATATATAT
1 TATATATATATATATATATAT
46698 ATATTCTCAA
Statistics
Matches: 84, Mismatches: 6, Indels: 15
0.80 0.06 0.14
Matches are distributed among these distances:
72 2 0.02
73 1 0.01
74 6 0.07
75 8 0.10
76 3 0.04
77 47 0.56
78 13 0.15
79 4 0.05
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.46
Consensus pattern (74 bp):
TATATATATATATATATATATTTCAAAAATGTTTTCAAAACTATATTATATATATATATATTCAA
AAAATATTA
Found at i:46717 original size:2 final size:2
Alignment explanation
Indices: 46642--46701 Score: 113
Period size: 2 Copynumber: 30.5 Consensus size: 2
46632 TTTTCAAAAC
46642 TA TA T- 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
46683 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
46702 TCTCAAAATT
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 56 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:57406 original size:15 final size:15
Alignment explanation
Indices: 57388--57427 Score: 62
Period size: 16 Copynumber: 2.6 Consensus size: 15
57378 ATTAGAAAAG
57388 TAAAAAAATGTTTTT
1 TAAAAAAATGTTTTT
57403 TAAAAAAAATGTTTTT
1 T-AAAAAAATGTTTTT
*
57419 AAAAAAAAT
1 TAAAAAAAT
57428 AGAAAAAGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (15 bp):
TAAAAAAATGTTTTT
Found at i:57408 original size:16 final size:15
Alignment explanation
Indices: 57389--57427 Score: 69
Period size: 15 Copynumber: 2.5 Consensus size: 15
57379 TTAGAAAAGT
57389 AAAAAAATGTTTTTTA
1 AAAAAAATG-TTTTTA
57405 AAAAAAATGTTTTTA
1 AAAAAAATGTTTTTA
57420 AAAAAAAT
1 AAAAAAAT
57428 AGAAAAAGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 14 0.61
16 9 0.39
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (15 bp):
AAAAAAATGTTTTTA
Found at i:58597 original size:17 final size:18
Alignment explanation
Indices: 58571--58648 Score: 67
Period size: 20 Copynumber: 4.4 Consensus size: 18
58561 GGCCTAAACG
*
58571 AAAAAGAAAAAAAT-AAT
1 AAAAATAAAAAAATAAAT
58588 AAAAAT--AAAAAT-AAT
1 AAAAATAAAAAAATAAAT
*
58603 -GAAATAAACAAAATAAAT
1 AAAAATAAA-AAAATAAAT
58621 AATTAAATAAAAAAATAAAT
1 AA--AAATAAAAAAATAAAT
*
58641 AAATATAA
1 AAAAATAA
58649 TGTAAATAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
14 4 0.08
15 9 0.18
16 1 0.02
17 10 0.20
18 8 0.16
20 11 0.22
21 7 0.14
ACGTcount: A:0.77, C:0.01, G:0.03, T:0.19
Consensus pattern (18 bp):
AAAAATAAAAAAATAAAT
Found at i:58754 original size:38 final size:38
Alignment explanation
Indices: 58699--59025 Score: 363
Period size: 38 Copynumber: 8.4 Consensus size: 38
58689 ATTTTTTAAA
*
58699 AAAACTA-ATATTGTATATATTTTCAAAAAATGTTTTC
1 AAAACTATATATTATATATATTTTCAAAAAATGTTTTC
*
58736 AAAACTATATATTATATATATTTT-TAAAAATGTTTTC
1 AAAACTATATATTATATATATTTTCAAAAAATGTTTTC
* *
58773 TAAACTATATATTATATATATTTTCAAAAAAATGTTTTT
1 AAAACTATATATTATATATATTTTC-AAAAAATGTTTTC
* *
58812 AAAACTATATTATATATATATATATT-GAAAAATGTTTTC
1 AAAACTATA-TAT-TATATATATTTTCAAAAAATGTTTTC
* * *
58851 AAAATTATATATTATATATATTTTTTTCAAAAAAAAATATTCTC
1 AAAACTATATATTATATATA---TTTTC---AAAAAATGTTTTC
* *
58895 AAAATTATATATTATATATATTTTCGAAAAATGTTTTC
1 AAAACTATATATTATATATATTTTCAAAAAATGTTTTC
* * * *
58933 AAAATTATATATTATATATATTTTCGAAAAATATTTTT
1 AAAACTATATATTATATATATTTTCAAAAAATGTTTTC
* * *
58971 AAAACTATATATTATATATTTTTTTCAGAAAAATATTCTC
1 AAAACTATATATTATATA-TATTTTCA-AAAAATGTTTTC
*
59011 AAAATTATATATTAT
1 AAAACTATATATTAT
59026 GTACGTTATA
Statistics
Matches: 251, Mismatches: 25, Indels: 25
0.83 0.08 0.08
Matches are distributed among these distances:
37 50 0.20
38 81 0.32
39 44 0.18
40 30 0.12
41 16 0.06
44 30 0.12
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.46
Consensus pattern (38 bp):
AAAACTATATATTATATATATTTTCAAAAAATGTTTTC
Found at i:59013 original size:78 final size:77
Alignment explanation
Indices: 58706--59025 Score: 380
Period size: 78 Copynumber: 4.1 Consensus size: 77
58696 AAAAAAACTA
* * *
58706 ATATTGTATATATTTTC-AAAAAATGTTTTCAAAACTATATATTATATA-TATTTTTAAAAATGT
1 ATATTATATATATTTTCAAAAAAATATTTTCAAAACTATATATTATATATTATTTTGAAAAATGT
* *
58769 TTTCTAAACTAT
66 TTTCAAAATTAT
* * *
58781 ATATTATATATATTTTCAAAAAAATGTTTTTAAAACTATAT-TATATATATATATATTGAAAAAT
1 ATATTATATATATTTTCAAAAAAATATTTTCAAAACTATATAT-TATATAT-TATTTTGAAAAAT
58845 GTTTTCAAAATTAT
64 GTTTTCAAAATTAT
* *
58859 ATATTATATATATTTTTTTCAAAAAAAAATATTCTCAAAATTATATATTATATA-TATTTTCGAA
1 ATATTATATATA---TTTTC--AAAAAAATATTTTCAAAACTATATATTATATATTATTTT-GAA
58923 AAATGTTTTCAAAATTAT
60 AAATGTTTTCAAAATTAT
* * *
58941 ATATTATATATATTTTC-GAAAAATATTTTTAAAACTATATATTATATATTTTTTTCAGAAAAAT
1 ATATTATATATATTTTCAAAAAAATATTTTCAAAACTATATATTATATATTATTTT--GAAAAAT
* *
59005 ATTCTCAAAATTAT
64 GTTTTCAAAATTAT
59019 ATATTAT
1 ATATTAT
59026 GTACGTTATA
Statistics
Matches: 213, Mismatches: 19, Indels: 23
0.84 0.07 0.09
Matches are distributed among these distances:
75 17 0.08
76 55 0.26
77 5 0.02
78 61 0.29
79 5 0.02
81 10 0.05
82 33 0.15
83 26 0.12
84 1 0.00
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (77 bp):
ATATTATATATATTTTCAAAAAAATATTTTCAAAACTATATATTATATATTATTTTGAAAAATGT
TTTCAAAATTAT
Found at i:61766 original size:73 final size:73
Alignment explanation
Indices: 61642--61782 Score: 264
Period size: 73 Copynumber: 1.9 Consensus size: 73
61632 TTAAGGACAA
61642 GCTTCTCCTGAAAGTTCAAATTATTTTTGTATTGTTAAGAACAATACGAGCAAACACCTATCGAA
1 GCTTCTCCTGAAAGTTCAAATTATTTTTGTATTGTTAAGAACAATACGAGCAAACACCTATCGAA
61707 TGTAACAG
66 TGTAACAG
* *
61715 GCTTCTCCTGAAAGTTCAAATTATTTTTTTATTGTTAAGAACAATAGGAGCAAACACCTATCGAA
1 GCTTCTCCTGAAAGTTCAAATTATTTTTGTATTGTTAAGAACAATACGAGCAAACACCTATCGAA
61780 TGT
66 TGT
61783 TGCATATCAA
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 66 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (73 bp):
GCTTCTCCTGAAAGTTCAAATTATTTTTGTATTGTTAAGAACAATACGAGCAAACACCTATCGAA
TGTAACAG
Found at i:71246 original size:10 final size:10
Alignment explanation
Indices: 71219--71260 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
71209 TAATGGTCTG
71219 CATATCTCAA
1 CATATCTCAA
*
71229 -ATGGTCTCAA
1 CAT-ATCTCAA
71239 CATATCTCAA
1 CATATCTCAA
*
71249 CATATTTCAA
1 CATATCTCAA
71259 CA
1 CA
71261 ACATATCTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
9 2 0.07
10 23 0.85
11 2 0.07
ACGTcount: A:0.38, C:0.26, G:0.05, T:0.31
Consensus pattern (10 bp):
CATATCTCAA
Found at i:73117 original size:15 final size:15
Alignment explanation
Indices: 73099--73257 Score: 97
Period size: 15 Copynumber: 10.6 Consensus size: 15
73089 TTATTATCCC
73099 TTTCAACATTACCCA
1 TTTCAACATTACCCA
* *
73114 TTTCAGCATTATCCA
1 TTTCAACATTACCCA
* ** *
73129 TTTCTACACCA-ACA
1 TTTCAACATTACCCA
*
73143 CTTTCAACATTGTCCC-
1 -TTTCAACATT-ACCCA
* *
73159 TTTCAACACTACTCA
1 TTTCAACATTACCCA
* **
73174 TTTCAGCATTGTCCA
1 TTTCAACATTACCCA
* *
73189 TTTCTACACTACCCA
1 TTTCAACATTACCCA
* *
73204 TTTCAGCATTATCCA
1 TTTCAACATTACCCA
* *
73219 TTTCTACACTACCCA
1 TTTCAACATTACCCA
* *
73234 TTTCAGCATTATCCA
1 TTTCAACATTACCCA
*
73249 TTTCTACAT
1 TTTCAACAT
73258 CAGCACTTTC
Statistics
Matches: 101, Mismatches: 39, Indels: 8
0.68 0.26 0.05
Matches are distributed among these distances:
14 4 0.04
15 96 0.95
17 1 0.01
ACGTcount: A:0.27, C:0.32, G:0.04, T:0.37
Consensus pattern (15 bp):
TTTCAACATTACCCA
Found at i:73125 original size:30 final size:30
Alignment explanation
Indices: 73091--73407 Score: 338
Period size: 30 Copynumber: 10.6 Consensus size: 30
73081 TGTCTTTCTT
* * *
73091 ATTATCCCTTTCAACATTACCCATTTCAGC
1 ATTATCCATTTCTACACTACCCATTTCAGC
* * *
73121 ATTATCCATTTCTACACCA-ACACTTTCAAC
1 ATTATCCATTTCTACACTACCCA-TTTCAGC
* * * *
73151 ATTGTCCCTTTCAACACTACTCATTTCAGC
1 ATTATCCATTTCTACACTACCCATTTCAGC
*
73181 ATTGTCCATTTCTACACTACCCATTTCAGC
1 ATTATCCATTTCTACACTACCCATTTCAGC
73211 ATTATCCATTTCTACACTACCCATTTCAGC
1 ATTATCCATTTCTACACTACCCATTTCAGC
*
73241 ATTATCCATTTCTACA-T-CAGCACTTTCAGC
1 ATTATCCATTTCTACACTAC-CCA-TTTCAGC
* * *
73271 ACTATCCATTTCTACACCA-CCACTTTCAGT
1 ATTATCCATTTCTACACTACCCA-TTTCAGC
* * *
73301 ATTGTCCCTTTCAACACTACCCATTTCAGC
1 ATTATCCATTTCTACACTACCCATTTCAGC
* * *
73331 ATTGTCCCTTTCTACACTACCCATTTCAGT
1 ATTATCCATTTCTACACTACCCATTTCAGC
* *
73361 AGTATCCATTTCTACACCA-CCACTTTCAGC
1 ATTATCCATTTCTACACTACCCA-TTTCAGC
*
73391 ATTATCCACTTCTACAC
1 ATTATCCATTTCTACAC
73408 CACCACTTTC
Statistics
Matches: 243, Mismatches: 36, Indels: 16
0.82 0.12 0.05
Matches are distributed among these distances:
28 1 0.00
29 8 0.03
30 229 0.94
31 5 0.02
ACGTcount: A:0.26, C:0.34, G:0.05, T:0.35
Consensus pattern (30 bp):
ATTATCCATTTCTACACTACCCATTTCAGC
Found at i:73305 original size:120 final size:120
Alignment explanation
Indices: 73091--73418 Score: 469
Period size: 120 Copynumber: 2.7 Consensus size: 120
73081 TGTCTTTCTT
* * * *
73091 ATTATCCCTTTCAACATTACCCATTTCAGCATTATCCATTTCTACACCAACACTTTCAACATTGT
1 ATTATCCCTTTCTACACTACCCATTTCAGCATTATCCATTTCTACACCAACACTTTCAGCATTAT
* * * *
73156 CCCTTTCAACACTACTCA-TTTCAGCATTGTCCATTTCTACACTACCCATTTCAGC
66 CCATTTCTACACCAC-CACTTTCAGCATTGTCCATTTCAACACTACCCATTTCAGC
* * * *
73211 ATTATCCATTTCTACACTACCCATTTCAGCATTATCCATTTCTACATCAGCACTTTCAGCACTAT
1 ATTATCCCTTTCTACACTACCCATTTCAGCATTATCCATTTCTACACCAACACTTTCAGCATTAT
* *
73276 CCATTTCTACACCACCACTTTCAGTATTGTCCCTTTCAACACTACCCATTTCAGC
66 CCATTTCTACACCACCACTTTCAGCATTGTCCATTTCAACACTACCCATTTCAGC
* * * *
73331 ATTGTCCCTTTCTACACTACCCATTTCAGTAGTATCCATTTCTACACCACCACTTTCAGCATTAT
1 ATTATCCCTTTCTACACTACCCATTTCAGCATTATCCATTTCTACACCAACACTTTCAGCATTAT
*
73396 CCACTTCTACACCACCACTTTCA
66 CCATTTCTACACCACCACTTTCA
73419 TAACAACCAC
Statistics
Matches: 185, Mismatches: 22, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
119 2 0.01
120 183 0.99
ACGTcount: A:0.26, C:0.34, G:0.05, T:0.35
Consensus pattern (120 bp):
ATTATCCCTTTCTACACTACCCATTTCAGCATTATCCATTTCTACACCAACACTTTCAGCATTAT
CCATTTCTACACCACCACTTTCAGCATTGTCCATTTCAACACTACCCATTTCAGC
Found at i:75124 original size:20 final size:20
Alignment explanation
Indices: 75099--75143 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
75089 TATCCGGAAA
75099 AAAAATCCGGTCTGGGGTTT
1 AAAAATCCGGTCTGGGGTTT
*
75119 AAAAATCCTGTCTGGGGTTT
1 AAAAATCCGGTCTGGGGTTT
75139 AAAAA
1 AAAAA
75144 ATTGGATGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.29
Consensus pattern (20 bp):
AAAAATCCGGTCTGGGGTTT
Found at i:75348 original size:22 final size:21
Alignment explanation
Indices: 75309--75349 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
75299 GGTGAAAAAA
**
75309 CCGGATCGATTTTTATCCGAT
1 CCGGATCGATTTAAATCCGAT
75330 CCGGATCGGATTTAAATCCG
1 CCGGATC-GATTTAAATCCG
75350 GCTATGTGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.32
Consensus pattern (21 bp):
CCGGATCGATTTAAATCCGAT
Done.