Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000574.1 Hibiscus syriacus cultivar Beakdansim tig00001122_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: 105058
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Found at i:48 original size:21 final size:21
Alignment explanation
Indices: 22--135 Score: 160
Period size: 21 Copynumber: 5.5 Consensus size: 21
12 TATGCCATCT
*
22 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCTAGC
*
43 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCTAGC
*
64 CCGCAGGGTTATATTCCTAGC
1 CCGCAGGGTTACATTCCTAGC
85 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCTAGC
* *
106 CCGCCA-TGTTACA-TGCTAGC
1 CCG-CAGGGTTACATTCCTAGC
126 CCGCAGGGTT
1 CCGCAGGGTT
136 TTATACCATA
Statistics
Matches: 85, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
19 2 0.02
20 12 0.14
21 69 0.81
22 2 0.02
ACGTcount: A:0.18, C:0.32, G:0.26, T:0.23
Consensus pattern (21 bp):
CCGCAGGGTTACATTCCTAGC
Found at i:690 original size:33 final size:34
Alignment explanation
Indices: 640--736 Score: 126
Period size: 33 Copynumber: 2.9 Consensus size: 34
630 ATAAATGTTT
*
640 TAAAATACAAATTATATTATTCGAAATTTAAA-A
1 TAAAATAAAAATTATATTATTCGAAATTTAAATA
* *
673 TAAAATAAAAATAATATTATTC-AAATTTAAATT
1 TAAAATAAAAATTATATTATTCGAAATTTAAATA
* * *
706 TAAAATATAAATTATAGTATTTGAAATTTAA
1 TAAAATAAAAATTATATTATTCGAAATTTAA
737 CATTAAATTT
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
32 9 0.16
33 38 0.69
34 8 0.15
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (34 bp):
TAAAATAAAAATTATATTATTCGAAATTTAAATA
Found at i:1560 original size:126 final size:128
Alignment explanation
Indices: 1129--2108 Score: 1404
Period size: 126 Copynumber: 7.8 Consensus size: 128
1119 TGATTTACTG
1129 ATATCTA-TGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAA
1 ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAA
* * *
1193 ATAATGGAAGGTGCGCCCTCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACCGAT
66 ATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGAT
** * * * *
1256 ATATCGGGTGTCCCCGAGGGACATGAGTGACATAATAAGGCAATGATAACATATTCTATGGCAAA
1 ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAA
****
1321 ATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGT--CCCCTGAGAA-AATAGGTACTGAT
66 ATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGA-AATAATAGGTACTGAT
* *
1382 ATATCTAGTGTCCCTGAGGGACAT--GTGACATAATAGGGCAATGATAACATATTCTCTGATGAA
1 ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAA
* *
1445 ATAATGGAAGGCGCCCCCCCGGGAACGCGCATTCATGTGAATAGTGAAATAATAGGTACTGAT
66 ATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGAT
* * *
1508 ATATC-GGTGTCCCCGAGGGACATGA-TGACATAATAGGGCAATGATAACATATTCTATGGC-AA
1 ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAA
* * *** *
1570 A-AATGGAAGGCACTCCCCCGGGAACGCGCCTTCATGTCCCCT-GAGAAATAATAGGTACTGAT
66 ATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGT-GAATAGTGAAATAATAGGTACTGAT
* *
1632 ATATCTAGTGT-CCCGAGGGATATGAGTGACATAATA-GGCAATGATAACATATTCTCTGATGAA
1 ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAA
1695 ATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGAT
66 ATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGAT
* *
1758 ATATCGAGTGTCCCCGAGGGACATGAGTGACATAATA-GGCAATGATAACATATTCTATGACGAA
1 ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAA
** *
1822 ATAATGGAAGGCGCG-CCCC-GGAACGCGCCTTCATGTCCCCAT-GAGAAATAATAGGTACTGAT
66 ATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGT--GAATAGTGAAATAATAGGTACTGAT
*
1884 ATATCTAGTGT-CCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGATGAA
1 ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAA
*
1948 ATAATGGAA--TGCGCCCCCGGGAACGCGCCTTC-TGTGAATAGTGAAATAATAGGTACTGAT
66 ATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGAT
2008 ATATCTAGTGTCCCCGAGGGAC---A-TGACATAATAGGGCAATGATAACATA-T-TCTGACG-A
1 ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAA
*
2066 ATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATATGAATA
66 ATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATA
2109 ATACTCCGAT
Statistics
Matches: 762, Mismatches: 67, Indels: 54
0.86 0.08 0.06
Matches are distributed among these distances:
118 10 0.01
119 6 0.01
120 23 0.03
121 33 0.04
122 1 0.00
123 2 0.00
124 194 0.25
125 99 0.13
126 232 0.30
127 73 0.10
128 89 0.12
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (128 bp):
ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAA
ATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGAT
Found at i:1692 original size:250 final size:255
Alignment explanation
Indices: 1129--2101 Score: 1605
Period size: 250 Copynumber: 3.9 Consensus size: 255
1119 TGATTTACTG
*
1129 ATATCTA-TGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAA
1 ATATCTAGTGT-CCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGATGAA
* * *
1193 ATAATGGAAGGTGCGCCCTCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACCGATAT
65 ATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATAT
* * *
1258 ATCGGGTGTCCCCGAGGGACATGAGTGACATAATAAGGCAATGATAACATATTCTATGGCAAAAT
130 ATCGGGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTATGACGAAAT
1323 AATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCTGAG-AA-AATAGGTACTGAT
195 AATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCTGAGAAATAATAGGTACTGAT
1382 ATATCTAGTGTCCCTGAGGGACAT--GTGACATAATAGGGCAATGATAACATATTCTCTGATGAA
1 ATATCTAGTGTCCC-GAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGATGAA
* *
1445 ATAATGGAAGGCGCCCCCCCGGGAACGCGCATTCATGTGAATAGTGAAATAATAGGTACTGATAT
65 ATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATAT
*
1510 ATC-GGTGTCCCCGAGGGACATGA-TGACATAATAGGGCAATGATAACATATTCTATGGC-AAA-
130 ATCGGGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTATGACGAAAT
* *
1571 AATGGAAGGCACTCCCCCGGGAACGCGCCTTCATGTCCCCTGAGAAATAATAGGTACTGAT
195 AATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCTGAGAAATAATAGGTACTGAT
*
1632 ATATCTAGTGTCCCGAGGGATATGAGTGACATAATA-GGCAATGATAACATATTCTCTGATGAAA
1 ATATCTAGTGTCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGATGAAA
1696 TAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATA
66 TAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATA
*
1761 TCGAGTGTCCCCGAGGGACATGAGTGACATAATA-GGCAATGATAACATATTCTATGACGAAATA
131 TCGGGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTATGACGAAATA
1825 ATGGAAGGCGCG-CCCC-GGAACGCGCCTTCATGTCCCCATGAGAAATAATAGGTACTGAT
196 ATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCC-TGAGAAATAATAGGTACTGAT
1884 ATATCTAGTGTCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGATGAAA
1 ATATCTAGTGTCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGATGAAA
*
1949 TAATGGAA--TGCGCCCCCGGGAACGCGCCTTC-TGTGAATAGTGAAATAATAGGTACTGATATA
66 TAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATA
**
2011 TCTAGTGTCCCCGAGGGAC---A-TGACATAATAGGGCAATGATAACATATTC--TGACG-AATA
131 TCGGGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTATGACGAAATA
2069 ATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAT
196 ATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAT
2102 ATGAATAATA
Statistics
Matches: 686, Mismatches: 19, Indels: 37
0.92 0.03 0.05
Matches are distributed among these distances:
244 16 0.02
245 9 0.01
246 25 0.04
247 19 0.03
248 42 0.06
249 13 0.02
250 203 0.30
251 116 0.17
252 174 0.25
253 57 0.08
254 12 0.02
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (255 bp):
ATATCTAGTGTCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGATGAAA
TAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATA
TCGGGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTATGACGAAATA
ATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCTGAGAAATAATAGGTACTGAT
Found at i:2191 original size:8 final size:8
Alignment explanation
Indices: 2178--2218 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
2168 TTCACATCTT
2178 TCAAATTC
1 TCAAATTC
2186 TCAAATTC
1 TCAAATTC
* *
2194 CCAAACTC
1 TCAAATTC
2202 T-AAATTC
1 TCAAATTC
2209 TCAAATTC
1 TCAAATTC
2217 TC
1 TC
2219 TGAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:7538 original size:41 final size:41
Alignment explanation
Indices: 7481--7562 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
7471 GACAGAAAGC
7481 ATATCTTCTAGGTATTACTAAATTTATCATTAAAATTTTCT
1 ATATCTTCTAGGTATTACTAAATTTATCATTAAAATTTTCT
*
7522 ATATCTTCTAGGTATTATTAAATTTATCATTAAAATTTTCT
1 ATATCTTCTAGGTATTACTAAATTTATCATTAAAATTTTCT
7563 TAACACTATC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.34, C:0.11, G:0.05, T:0.50
Consensus pattern (41 bp):
ATATCTTCTAGGTATTACTAAATTTATCATTAAAATTTTCT
Found at i:8948 original size:106 final size:107
Alignment explanation
Indices: 8784--9091 Score: 364
Period size: 106 Copynumber: 2.9 Consensus size: 107
8774 CTGATTAGCC
*
8784 TTAGAAATCCGATG--ATAAAAT-AGATTAATTACTTATTTTGTTATTAATATTACCAACATATT
1 TTAGAAATCCGATGATATAAAATAAG-TTAATTACTTATTTTGTTATTAATATTATCAACATATT
*
8846 AGGTAGCGCCTAAAATGTTATCAAAGTTTAAGCTAA-TGAGACT
65 AGGTAGCGCCTAAAATGTTATCAAAGTTTAAGCTAACAG-GACT
8889 TTAGAAATCCGATGATATTAAAATAAGTTAATTA-TT-TTTTGTTATTAATATTATCAACATATT
1 TTAGAAATCCGATGATA-TAAAATAAGTTAATTACTTATTTTGTTATTAATATTATCAACATATT
* * * *
8952 ATGTAACACCTAAAATGTT-TCCAAAGTTTAAGCTAACAGGGCT
65 AGGTAGCGCCTAAAATGTTAT-CAAAGTTTAAGCTAACAGGACT
* * * *
8995 TTAGAAATCTC-ACGATAACAAAATAAGTTAATTACTTACTTTGTTATAAATATTATCAACATAT
1 TTAGAAATC-CGATGAT-ATAAAATAAGTTAATTACTTATTTTGTTATTAATATTATCAACATAT
* * * *
9059 TAGACT-GCGTCTAATATGTTACCAAAGTTTAAG
64 TAG-GTAGCGCCTAAAATGTTATCAAAGTTTAAG
9092 ATGATGAGGC
Statistics
Matches: 174, Mismatches: 17, Indels: 21
0.82 0.08 0.10
Matches are distributed among these distances:
105 15 0.09
106 88 0.51
107 8 0.05
108 60 0.34
109 3 0.02
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (107 bp):
TTAGAAATCCGATGATATAAAATAAGTTAATTACTTATTTTGTTATTAATATTATCAACATATTA
GGTAGCGCCTAAAATGTTATCAAAGTTTAAGCTAACAGGACT
Found at i:9110 original size:108 final size:106
Alignment explanation
Indices: 8800--9133 Score: 340
Period size: 108 Copynumber: 3.1 Consensus size: 106
8790 ATCCGATGAT
* *
8800 AAAAT-AGATTAATTACTTATTTTGTTATTAATATTACCAACATATTAG-GTAGCGCCTAAAATG
1 AAAATAAG-TTAATTACTTATTTTGTTATTAATATTATCAACATATTAGACT-GCG-CTAAAATG
* * * **
8863 TTATCAAAGTTTAAGCTAATGAGACTTTAGAAATC-CGATGATATT
63 TTACCAAAGTTTAAGCT-ATGAGGCTTTAGAAATCTC-ACGATAAC
*
8908 AAAATAAGTTAATTA-TT-TTTTGTTATTAATATTATCAACATATTATGTAAC-AC-CTAAAATG
1 AAAATAAGTTAATTACTTATTTTGTTATTAATATTATCAACATATTA-G--ACTGCGCTAAAATG
* **
8969 TTTCCAAAGTTTAAGCTAACAGGGCTTTAGAAATCTCACGATAAC
63 TTACCAAAGTTTAAGCTATGA-GGCTTTAGAAATCTCACGATAAC
* * *
9014 AAAATAAGTTAATTACTTACTTTGTTATAAATATTATCAACATATTAGACTGCGTCTAATATGTT
1 AAAATAAGTTAATTACTTATTTTGTTATTAATATTATCAACATATTAGACTGCG-CTAAAATGTT
* * * * *
9079 ACCAAAGTTTAAGATGATGAGGCATTCGAAATCTCACAACAAC
65 ACCAAAGTTTAAGCT-ATGAGGCTTTAGAAATCTCACGATAAC
*
9122 AAAATAGGTTAA
1 AAAATAAGTTAA
9134 ATATTTATCT
Statistics
Matches: 189, Mismatches: 24, Indels: 26
0.79 0.10 0.11
Matches are distributed among these distances:
105 4 0.02
106 83 0.44
107 7 0.04
108 91 0.48
109 4 0.02
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (106 bp):
AAAATAAGTTAATTACTTATTTTGTTATTAATATTATCAACATATTAGACTGCGCTAAAATGTTA
CCAAAGTTTAAGCTATGAGGCTTTAGAAATCTCACGATAAC
Found at i:9527 original size:21 final size:20
Alignment explanation
Indices: 9462--9527 Score: 52
Period size: 21 Copynumber: 3.5 Consensus size: 20
9452 TTTGTAAAAA
9462 TATCGATACTTAGTGTAGATG
1 TATCGATACTTAGTGTA-ATG
* *
9483 TAT-GAAAATTA-T-TAA--
1 TATCGATACTTAGTGTAATG
*
9498 TACCGATACTTAGTGTATATG
1 TATCGATACTTAGTGTA-ATG
9519 TATCGATAC
1 TATCGATAC
9528 ATATTTAGGA
Statistics
Matches: 33, Mismatches: 6, Indels: 12
0.65 0.12 0.24
Matches are distributed among these distances:
15 2 0.06
16 6 0.18
17 2 0.06
18 4 0.12
19 2 0.06
20 6 0.18
21 11 0.33
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.38
Consensus pattern (20 bp):
TATCGATACTTAGTGTAATG
Found at i:10153 original size:99 final size:99
Alignment explanation
Indices: 9982--10174 Score: 287
Period size: 99 Copynumber: 1.9 Consensus size: 99
9972 AAAGCAAACG
* * * *
9982 GTTAAGTTGTAAATATTTTATTATTTATATTATTATTATACCTTTAAACAAACCGGTAAATAATT
1 GTTAAGTTGTAAATATTTAACTATTTACATTAATATTATACCTTTAAACAAACCGGTAAATAATT
*
10047 TAATGTAATAGGTAACACCTATTTTATTTAACAT
66 TAATGTAATAAGTAACACCTATTTTATTTAACAT
* * * *
10081 GTTAAGTTGTAAATATTTAACTCTTTGCATTAATATTATACCTTTAAACAAATCGGTAAGTAATT
1 GTTAAGTTGTAAATATTTAACTATTTACATTAATATTATACCTTTAAACAAACCGGTAAATAATT
* *
10146 TAATGTAATAAGTAGCGCCTATTTTATTT
66 TAATGTAATAAGTAACACCTATTTTATTT
10175 TAACCGGTTA
Statistics
Matches: 83, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
99 83 1.00
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.44
Consensus pattern (99 bp):
GTTAAGTTGTAAATATTTAACTATTTACATTAATATTATACCTTTAAACAAACCGGTAAATAATT
TAATGTAATAAGTAACACCTATTTTATTTAACAT
Found at i:17859 original size:19 final size:19
Alignment explanation
Indices: 17835--17874 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
17825 ACATTAATTG
17835 TAAGTGAATTTTAATCCTA
1 TAAGTGAATTTTAATCCTA
17854 TAAGTGAATTTTAATCCTA
1 TAAGTGAATTTTAATCCTA
17873 TA
1 TA
17875 TGTGTGCGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (19 bp):
TAAGTGAATTTTAATCCTA
Found at i:35974 original size:3 final size:3
Alignment explanation
Indices: 35966--35990 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
35956 GGGAACTGTG
35966 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
35991 TTATATAATA
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:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:39360 original size:29 final size:30
Alignment explanation
Indices: 39317--39403 Score: 142
Period size: 29 Copynumber: 3.0 Consensus size: 30
39307 TTGGCCGTAG
39317 GTCGCCATACACTCCGGGCGACCAAGGAGA
1 GTCGCCATACACTCCGGGCGACCAAGGAGA
39347 -TCGCCATACACTCCGGGCGACCAAGGA-A
1 GTCGCCATACACTCCGGGCGACCAAGGAGA
* *
39375 GTCGCCATGCACTCCGGGTGACCAAGGAG
1 GTCGCCATACACTCCGGGCGACCAAGGAG
39404 TTGGTCACCC
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
28 1 0.02
29 52 0.98
ACGTcount: A:0.25, C:0.33, G:0.30, T:0.11
Consensus pattern (30 bp):
GTCGCCATACACTCCGGGCGACCAAGGAGA
Found at i:40250 original size:30 final size:30
Alignment explanation
Indices: 40191--40286 Score: 149
Period size: 30 Copynumber: 3.2 Consensus size: 30
40181 CCCGAAGGAC
* *
40191 CTATCCAGAGGTCACAAAGA-CCCCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
40220 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
40250 CTGTCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
40280 CTGTCCA
1 CTATCCA
40287 TATGTTCCTT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
29 19 0.30
30 44 0.70
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:40317 original size:31 final size:30
Alignment explanation
Indices: 40275--40372 Score: 108
Period size: 31 Copynumber: 3.2 Consensus size: 30
40265 AAAGATCCTC
*
40275 GGTAACTGTCCATATGTTCCTTAGAACATA
1 GGTAACTGTCCATATGTTCCATAGAACATA
* *
40305 GGTATACTGTCCATATGTCTCGAAAG-ACATA
1 GGTA-ACTGTCCATATGT-TCCATAGAACATA
* *
40336 GGTAAAACTGTTCATATGTTCCGTAGAACATA
1 GGT--AACTGTCCATATGTTCCATAGAACATA
40368 GGTAA
1 GGTAA
40373 ACCCTCGACT
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
30 6 0.11
31 25 0.45
32 24 0.43
33 1 0.02
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (30 bp):
GGTAACTGTCCATATGTTCCATAGAACATA
Found at i:40367 original size:32 final size:32
Alignment explanation
Indices: 40278--40373 Score: 117
Period size: 32 Copynumber: 3.0 Consensus size: 32
40268 GATCCTCGGT
*
40278 AACTGTCCATATGTTCCTTAGAACATAGGT-A
1 AACTGTCCATATGTTCCGTAGAACATAGGTAA
* *
40309 TACTGTCCATATG-TCTCG-AAAGACATAGGTAA
1 AACTGTCCATATGTTC-CGTAGA-ACATAGGTAA
*
40341 AACTGTTCATATGTTCCGTAGAACATAGGTAA
1 AACTGTCCATATGTTCCGTAGAACATAGGTAA
40373 A
1 A
40374 CCCTCGACTC
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
30 4 0.07
31 21 0.39
32 25 0.46
33 4 0.07
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (32 bp):
AACTGTCCATATGTTCCGTAGAACATAGGTAA
Found at i:41508 original size:21 final size:21
Alignment explanation
Indices: 41478--41522 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
41468 ATTCTGTCGT
* *
41478 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
41499 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
41520 TTG
1 TTG
41523 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:42364 original size:23 final size:23
Alignment explanation
Indices: 42334--42377 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
42324 GTGCATGCGT
* *
42334 TGCATCCATATCTGGGAGATTCC
1 TGCATCCAAAGCTGGGAGATTCC
42357 TGCATCCAAAGCTGGGAGATT
1 TGCATCCAAAGCTGGGAGATT
42378 GCAGCCAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (23 bp):
TGCATCCAAAGCTGGGAGATTCC
Found at i:42465 original size:83 final size:80
Alignment explanation
Indices: 42302--42453 Score: 223
Period size: 83 Copynumber: 1.9 Consensus size: 80
42292 CACCCGGCGA
* *
42302 CCAAACTTAACCCTACTCCCTCGTGCATGCGTTGCATCCATATCTGGGAGATTCCTGCATCCAAA
1 CCAAACTTAACCCTACTCCCTCATGCATGCGTTGCATCCATAGCTGGGAGATTCCTGCATCCAAA
* *
42367 GCTGGGAGATTGCAG
66 GATGGCAGATTGCAG
*
42382 CCAAACTTTAACCCTCAGTTCCCTCATGCATGCGTTGCATCCATAGCTGGGAGATTCCTGCATCC
1 CCAAAC-TTAACCCT-A-CTCCCTCATGCATGCGTTGCATCCATAGCTGGGAGATTCCTGCATCC
*
42447 ATAGATG
63 AAAGATG
42454 CATTATTGCA
Statistics
Matches: 64, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
80 6 0.09
81 8 0.12
82 1 0.02
83 49 0.77
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (80 bp):
CCAAACTTAACCCTACTCCCTCATGCATGCGTTGCATCCATAGCTGGGAGATTCCTGCATCCAAA
GATGGCAGATTGCAG
Found at i:42840 original size:21 final size:21
Alignment explanation
Indices: 42815--42858 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
42805 AATTTAGTTA
42815 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGTTAGTATAAATT
* *
42836 ATTAGTTTGTTAGTTTAAGTT
1 ATTAGTTTGTTAGTATAAATT
42857 AT
1 AT
42859 ATTATAGTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
ATTAGTTTGTTAGTATAAATT
Found at i:46644 original size:18 final size:19
Alignment explanation
Indices: 46621--46656 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
46611 AACACTTTTT
46621 TGATTTG-TAATAATGATA
1 TGATTTGCTAATAATGATA
*
46639 TGATTTGCTAATCATGAT
1 TGATTTGCTAATAATGAT
46657 TTAATAATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.44
Consensus pattern (19 bp):
TGATTTGCTAATAATGATA
Found at i:46793 original size:49 final size:49
Alignment explanation
Indices: 46695--46911 Score: 362
Period size: 49 Copynumber: 4.3 Consensus size: 49
46685 AATAATTGTT
46695 TAGTAATGATTAGTAATAATGAAATTATTATTATTAATATTTAATGATTTGG
1 TAGTAATGATTAGTAATAATG-AA--ATTATTATTAATATTTAATGATTTGG
46747 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGG
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGG
46796 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGG
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGG
* * *
46845 TAGTAATGATTAGTAATAATTAAATTATTGTTAATATTTAATGATTTGA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGG
*
46894 TAGTAATAATTTAGTAAT
1 TAGTAATGA-TTAGTAAT
46912 TATTAGTAAT
Statistics
Matches: 160, Mismatches: 4, Indels: 4
0.95 0.02 0.02
Matches are distributed among these distances:
49 129 0.81
50 8 0.05
51 2 0.01
52 21 0.13
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.46
Consensus pattern (49 bp):
TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGG
Found at i:46918 original size:21 final size:21
Alignment explanation
Indices: 46845--46924 Score: 64
Period size: 21 Copynumber: 4.0 Consensus size: 21
46835 AATGATTTGG
*
46845 TAGTAATGATTAGTAATAA-T
1 TAGTAATTATTAGTAATAATT
46865 TA--AATTATT-GTTAAT-ATT
1 TAGTAATTATTAG-TAATAATT
* *
46883 TAATGATT-TGATAGTAATAATT
1 TAGTAATTAT--TAGTAATAATT
46905 TAGTAATTATTAGTAATAAT
1 TAGTAATTATTAGTAATAAT
46925 GAAATTATAA
Statistics
Matches: 47, Mismatches: 4, Indels: 17
0.69 0.06 0.25
Matches are distributed among these distances:
17 2 0.04
18 13 0.28
19 1 0.02
20 5 0.11
21 15 0.32
22 10 0.21
23 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.46
Consensus pattern (21 bp):
TAGTAATTATTAGTAATAATT
Found at i:47796 original size:21 final size:21
Alignment explanation
Indices: 47754--47796 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
47744 TTTCTGTGCT
*
47754 AGGGGAATCCGTACCCATTCA
1 AGGGGAATCCGTACCCACTCA
*
47775 AGGGGAA-CCGATACCCCCTCA
1 AGGGGAATCCG-TACCCACTCA
47796 A
1 A
47797 ATGAACCAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.30, C:0.33, G:0.23, T:0.14
Consensus pattern (21 bp):
AGGGGAATCCGTACCCACTCA
Found at i:47870 original size:24 final size:22
Alignment explanation
Indices: 47825--47870 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
47815 AATGTCATGG
*
47825 GGGAACCGATACCCCCACAGGA
1 GGGAACCGATACCCCCAAAGGA
*
47847 GGGAACCGATTTCCCCCTAAAGGA
1 GGGAACCGA-TACCCCC-AAAGGA
47871 AAGTTGTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 9 0.45
23 6 0.30
24 5 0.25
ACGTcount: A:0.30, C:0.33, G:0.26, T:0.11
Consensus pattern (22 bp):
GGGAACCGATACCCCCAAAGGA
Found at i:49451 original size:23 final size:22
Alignment explanation
Indices: 49425--49492 Score: 57
Period size: 23 Copynumber: 3.0 Consensus size: 22
49415 ATTATTATAT
*
49425 GGCACAATGGTGCAATTGTACGC
1 GGCAC-ATGGTGCAATTATACGC
* *
49448 GGCAC-TCCGGTGCAATTCTACGT
1 GGCACAT--GGTGCAATTATACGC
*
49471 GGCACTTCGGTGCAATTATACG
1 GGCACAT-GGTGCAATTATACG
49493 AGCTGTGGTA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
21 1 0.03
23 37 0.95
24 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.28, T:0.25
Consensus pattern (22 bp):
GGCACATGGTGCAATTATACGC
Found at i:50327 original size:12 final size:11
Alignment explanation
Indices: 50305--50622 Score: 108
Period size: 12 Copynumber: 26.3 Consensus size: 11
50295 TAACCATAAA
50305 AATGATTTAAT
1 AATGATTTAAT
50316 AATGATTT--T
1 AATGATTTAAT
50325 AAT-ATTTAAT
1 AATGATTTAAT
*
50335 GATTTGATGATTTAGT
1 -A----ATGATTTAAT
50351 AATGATTT--T
1 AATGATTTAAT
50360 AAT-ATTTAAT
1 AATGATTTAAT
*
50370 GATTTGATGATTTAGT
1 -A----ATGATTTAAT
50386 AATGATTTTAAT
1 AATGA-TTTAAT
50398 ATTATGATTTAAT
1 A--ATGATTTAAT
50411 AATGATTTAGTAAT
1 AATGA-TT--TAAT
*
50425 AATCATTATAAT
1 AATGATT-TAAT
50437 AATGATTTAAT
1 AATGATTTAAT
50448 AATGACTTTAAT
1 AATGA-TTTAAT
* * * * *
50460 ATTTAATGATTT
1 AATGATTTA-AT
* *
50472 GATGATTTAGT
1 AATGATTTAAT
50483 AATGATTTTATAAT
1 AATGA--TT-TAAT
* *
50497 AATTATTATAGT
1 AATGATT-TAAT
50509 AATGATTTAGTAAT
1 AATGA-TT--TAAT
*
50523 AATCATTATAAT
1 AATGATT-TAAT
*
50535 AATGGTTTAAT
1 AATGATTTAAT
** *
50546 AAAAATGATAAT
1 AATGAT-TTAAT
50558 AATGATTTAATAAT
1 AATGA-TT--TAAT
*
50572 AATCATTATAAT
1 AATGATT-TAAT
*
50584 AATGATTTAGT
1 AATGATTTAAT
50595 AATGATTTTATAAT
1 AATGA--TT-TAAT
50609 AATGATTTAAT
1 AATGATTTAAT
50620 AAT
1 AAT
50623 TATTACTAAT
Statistics
Matches: 232, Mismatches: 39, Indels: 72
0.68 0.11 0.21
Matches are distributed among these distances:
8 8 0.03
9 8 0.03
10 2 0.01
11 63 0.27
12 71 0.31
13 20 0.09
14 42 0.18
15 6 0.03
16 12 0.05
ACGTcount: A:0.42, C:0.01, G:0.10, T:0.47
Consensus pattern (11 bp):
AATGATTTAAT
Found at i:50333 original size:19 final size:18
Alignment explanation
Indices: 50309--50400 Score: 79
Period size: 19 Copynumber: 5.2 Consensus size: 18
50299 CATAAAAATG
50309 ATTTAATAATGATTTTAAT
1 ATTT-ATAATGATTTTAAT
*
50328 A-TT-TAATGA-TTTGAT
1 ATTTATAATGATTTTAAT
50343 GATTTAGTAATGATTTTAAT
1 -ATTTA-TAATGATTTTAAT
*
50363 A-TT-TAATGA-TTTGAT
1 ATTTATAATGATTTTAAT
50378 GATTTAGTAATGATTTTAAT
1 -ATTTA-TAATGATTTTAAT
50398 ATT
1 ATT
50401 ATGATTTAAT
Statistics
Matches: 59, Mismatches: 4, Indels: 20
0.71 0.05 0.24
Matches are distributed among these distances:
15 10 0.17
16 14 0.24
17 4 0.07
18 4 0.07
19 17 0.29
20 10 0.17
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (18 bp):
ATTTATAATGATTTTAAT
Found at i:50336 original size:16 final size:15
Alignment explanation
Indices: 50315--50411 Score: 63
Period size: 16 Copynumber: 5.9 Consensus size: 15
50305 AATGATTTAA
50315 TAATGATTTTAATATT
1 TAATGA-TTTAATATT
*
50331 TAATGATTTGATGATTT
1 TAATGATTTAAT-A-TT
50348 AGTAATGATTTTAATATT
1 --TAATGA-TTTAATATT
*
50366 TAATGATTTGATGATTT
1 TAATGATTTAAT-A-TT
50383 AGTAATGATTTTAATA-T
1 --TAATGA-TTTAATATT
50400 T-ATGATTTAATA
1 TAATGATTTAATA
50412 ATGATTTAGT
Statistics
Matches: 67, Mismatches: 4, Indels: 23
0.71 0.04 0.24
Matches are distributed among these distances:
13 7 0.10
14 4 0.06
15 11 0.16
16 14 0.21
17 5 0.07
18 2 0.03
19 14 0.21
20 10 0.15
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (15 bp):
TAATGATTTAATATT
Found at i:50339 original size:8 final size:8
Alignment explanation
Indices: 50315--50383 Score: 61
Period size: 8 Copynumber: 8.2 Consensus size: 8
50305 AATGATTTAA
50315 TAATGATTT
1 TAATGA-TT
50324 TAAT-ATT
1 TAATGATT
50331 TAATGATT
1 TAATGATT
*
50339 TGATGATTT
1 TAATGA-TT
50348 AGTAATGATTT
1 --TAATGA-TT
50359 TAAT-ATT
1 TAATGATT
50366 TAATGATT
1 TAATGATT
*
50374 TGATGATT
1 TAATGATT
50382 TA
1 TA
50384 GTAATGATTT
Statistics
Matches: 51, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
7 12 0.24
8 21 0.41
9 10 0.20
11 8 0.16
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (8 bp):
TAATGATT
Found at i:50354 original size:35 final size:35
Alignment explanation
Indices: 50306--50492 Score: 207
Period size: 35 Copynumber: 5.6 Consensus size: 35
50296 AACCATAAAA
*
50306 ATGATTTAATAATGATTTTAATATTTAATGATTTG
1 ATGATTTAGTAATGATTTTAATATTTAATGATTTG
50341 ATGATTTAGTAATGATTTTAATATTTAATGATTTG
1 ATGATTTAGTAATGATTTTAATATTTAATGATTTG
*
50376 ATGATTTAGTAATGATTTTAATA-TT-ATGATTTAATA
1 ATGATTTAGTAATGATTTTAATATTTAATGA-TT--TG
* * *
50412 ATGATTTAGTAAT-A--ATCAT-TATAAT-A----
1 ATGATTTAGTAATGATTTTAATATTTAATGATTTG
* *
50438 ATGATTTAATAATGACTTTAATATTTAATGATTTG
1 ATGATTTAGTAATGATTTTAATATTTAATGATTTG
50473 ATGATTTAGTAATGATTTTA
1 ATGATTTAGTAATGATTTTA
50493 TAATAATTAT
Statistics
Matches: 127, Mismatches: 11, Indels: 28
0.77 0.07 0.17
Matches are distributed among these distances:
26 12 0.09
27 1 0.01
29 3 0.02
30 5 0.04
31 1 0.01
33 9 0.07
34 6 0.05
35 76 0.60
36 14 0.11
ACGTcount: A:0.38, C:0.01, G:0.12, T:0.49
Consensus pattern (35 bp):
ATGATTTAGTAATGATTTTAATATTTAATGATTTG
Found at i:50451 original size:97 final size:98
Alignment explanation
Indices: 50341--50547 Score: 337
Period size: 97 Copynumber: 2.1 Consensus size: 98
50331 TAATGATTTG
* * *
50341 ATGATTTAGTAATGATTTTAATATTTAATGATTTGATGATTTAGTAATGATTTTA-ATATTATGA
1 ATGATTTAATAATGACTTTAATATTTAATGATTTGATGATTTAGTAATGATTTTATA-ATAATGA
50405 TT-TAATAATGATTTAGTAATAATCATTATAATA
65 TTATAATAATGATTTAGTAATAATCATTATAATA
*
50438 ATGATTTAATAATGACTTTAATATTTAATGATTTGATGATTTAGTAATGATTTTATAATAATTAT
1 ATGATTTAATAATGACTTTAATATTTAATGATTTGATGATTTAGTAATGATTTTATAATAATGAT
*
50503 TATAGTAATGATTTAGTAATAATCATTATAATA
66 TATAATAATGATTTAGTAATAATCATTATAATA
*
50536 ATGGTTTAATAA
1 ATGATTTAATAA
50548 AAATGATAAT
Statistics
Matches: 102, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
97 60 0.59
98 42 0.41
ACGTcount: A:0.40, C:0.01, G:0.11, T:0.47
Consensus pattern (98 bp):
ATGATTTAATAATGACTTTAATATTTAATGATTTGATGATTTAGTAATGATTTTATAATAATGAT
TATAATAATGATTTAGTAATAATCATTATAATA
Found at i:50489 original size:72 final size:69
Alignment explanation
Indices: 50401--50619 Score: 240
Period size: 72 Copynumber: 3.0 Consensus size: 69
50391 TTTTAATATT
* *
50401 ATGATTTAATAATGATTTAGTAATAATCATTATAATAATGATTTAATAATGACTTTAATATTTAA
1 ATGATTTAATAATGATTTA-TAATAATCATTATAATAATGATTTAGTAATGACTTT-ATA-ATAA
*
50466 TGATTTG
63 TGATTTA
* * * * *
50473 ATGATTTAGTAATGATTTTATAATAATTATTATAGTAATGATTTAGTAATAATCATTATAATAAT
1 ATGATTTAATAATGA-TTTATAATAATCATTATAATAATGATTTAGTAATGA-CTTTATAATAAT
*
50538 GGTTTA
64 GATTTA
* * *
50544 ATAAAAATGATAATAATGATTTAATAATAATCATTATAATAATGATTTAGTAATGATTTTATAAT
1 AT---GAT-TTAATAATGATTT-ATAATAATCATTATAATAATGATTTAGTAATGACTTTATAAT
50609 AATGATTTA
61 AATGATTTA
50618 AT
1 AT
50620 AATTATTACT
Statistics
Matches: 122, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
71 10 0.08
72 45 0.37
73 7 0.06
74 22 0.18
75 38 0.31
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.45
Consensus pattern (69 bp):
ATGATTTAATAATGATTTATAATAATCATTATAATAATGATTTAGTAATGACTTTATAATAATGA
TTTA
Found at i:50508 original size:26 final size:26
Alignment explanation
Indices: 50482--50627 Score: 174
Period size: 26 Copynumber: 5.8 Consensus size: 26
50472 GATGATTTAG
* *
50482 TAATGATTTTATAATAATTATTATAG
1 TAATGATTTAATAATAATTATTATAA
* *
50508 TAATGATTTAGTAATAATCATTATAA
1 TAATGATTTAATAATAATTATTATAA
* *
50534 TAATGGTTTAATAA-AA--ATGATAA
1 TAATGATTTAATAATAATTATTATAA
*
50557 TAATGATTTAATAATAATCATTATAA
1 TAATGATTTAATAATAATTATTATAA
* *
50583 TAATGATTTAGTAATGATT-TTATAA
1 TAATGATTTAATAATAATTATTATAA
*
50608 TAATGATTTAATAATTATTA
1 TAATGATTTAATAATAATTA
50628 CTAATAATTA
Statistics
Matches: 102, Mismatches: 14, Indels: 8
0.82 0.11 0.06
Matches are distributed among these distances:
23 19 0.19
24 2 0.02
25 25 0.25
26 56 0.55
ACGTcount: A:0.46, C:0.01, G:0.08, T:0.45
Consensus pattern (26 bp):
TAATGATTTAATAATAATTATTATAA
Found at i:50569 original size:132 final size:131
Alignment explanation
Indices: 50300--50592 Score: 346
Period size: 132 Copynumber: 2.2 Consensus size: 131
50290 TCAATTAACC
* *
50300 ATAAAAATGATTTAATAATGATTTTAATATTTAATGATTTGATGATTTAGTAATGATTTTAATAT
1 ATAATAATGATTTAATAATGACTTTAATATTTAATGATTTGATGATTTAGTAATGATTTTAATAT
* * * * *
50365 TTAATGATTTGATGATTTAGTAATGATTTTAATATTATGATTTAATAATGATTTAGTAATAATCA
66 ATAATGATTTGATGATTTAGTAATAATTTTAATA-TATGATTTAATAATAAATGAGTAATAATCA
50430 TT
130 TT
50432 ATAATAATGATTTAATAATGACTTTAATATTTAATGATTTGATGATTTAGTAATGATTTT-ATA-
1 ATAATAATGATTTAATAATGACTTTAATATTTAATGATTTGATGATTTAGTAATGATTTTAATAT
* *
50495 ATAATTATTATAGTAATGATTTAGTAATAATCATTATAATA-ATGGTTTAATAA-AAATGA-TAA
66 ATAATGATT-T-G--ATGATTTAGTAATAAT--TT-TAATATATGATTTAATAATAAATGAGTAA
*
50557 TAATGATTT
124 TAATCA-TT
*
50566 AATAATAATCATTATAATAATGA-TTTA
1 -ATAATAATGATT-TAATAATGACTTTA
50593 GTAATGATTT
Statistics
Matches: 140, Mismatches: 11, Indels: 17
0.83 0.07 0.10
Matches are distributed among these distances:
130 7 0.05
131 4 0.03
132 59 0.42
133 8 0.06
134 20 0.14
135 26 0.19
136 11 0.08
137 5 0.04
ACGTcount: A:0.42, C:0.01, G:0.10, T:0.46
Consensus pattern (131 bp):
ATAATAATGATTTAATAATGACTTTAATATTTAATGATTTGATGATTTAGTAATGATTTTAATAT
ATAATGATTTGATGATTTAGTAATAATTTTAATATATGATTTAATAATAAATGAGTAATAATCAT
T
Found at i:50645 original size:75 final size:71
Alignment explanation
Indices: 50421--50648 Score: 208
Period size: 75 Copynumber: 3.1 Consensus size: 71
50411 AATGATTTAG
* * * * *
50421 TAATAATCATTATAATAATGATTTAATAATGACTTTAATATTTAATGATTTGATGAT-TTAGTAA
1 TAATAATCATTATAATAATGATTTAGTAATGA-TTTTATA-ATAATGATTTAATAATATTA-TAA
* *
50485 TGATT-TTA
63 TAATTATAA
* * * * * * *
50493 TAATAATTATTATAGTAATGATTTAGTAATAATCATTATAATAATGGTTTAATAAAAATGATAAT
1 TAATAATCATTATAATAATGATTTAGTAATGAT-TTTATAATAATGATTTAAT-AATATTATAAT
*
50558 AATGATTTAA
64 AAT--TATAA
50568 TAATAATCATTATAATAATGATTTAGTAATGATTTTATAATAATGATTTAATAATTATTACTAAT
1 TAATAATCATTATAATAATGATTTAGTAATGATTTTATAATAATGATTTAATAA-TATTA-TAAT
50633 AATTATAGAA
64 AATTAT--AA
50643 TAATAA
1 TAATAA
50649 CAAATGAGTG
Statistics
Matches: 124, Mismatches: 22, Indels: 17
0.76 0.13 0.10
Matches are distributed among these distances:
71 11 0.09
72 39 0.31
73 6 0.05
74 21 0.17
75 47 0.38
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.44
Consensus pattern (71 bp):
TAATAATCATTATAATAATGATTTAGTAATGATTTTATAATAATGATTTAATAATATTATAATAA
TTATAA
Found at i:50790 original size:17 final size:16
Alignment explanation
Indices: 50750--50791 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 16
50740 AATGATTTAC
50750 TAATTATTATTAATAA
1 TAATTATTATTAATAA
*
50766 TAATTTATTATTAATATT
1 TAA-TTATTATTAATA-A
50784 TAATTATT
1 TAATTATT
50792 TGATACTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 3 0.13
17 17 0.74
18 3 0.13
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TAATTATTATTAATAA
Found at i:52901 original size:11 final size:11
Alignment explanation
Indices: 52887--52925 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
52877 ATAAACTATT
52887 CTTTAATATAA
1 CTTTAATATAA
*
52898 CTTTAACTAT-T
1 CTTTAA-TATAA
52909 CTTTAATATAA
1 CTTTAATATAA
52920 CTTTAA
1 CTTTAA
52926 CTAATAAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
10 3 0.12
11 18 0.75
12 3 0.12
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.49
Consensus pattern (11 bp):
CTTTAATATAA
Found at i:52905 original size:22 final size:22
Alignment explanation
Indices: 52880--52928 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
52870 ACAACTAATA
52880 AACTATTCTTTAATATAACTTT
1 AACTATTCTTTAATATAACTTT
52902 AACTATTCTTTAATATAACTTT
1 AACTATTCTTTAATATAACTTT
52924 AACTA
1 AACTA
52929 ATAAACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.39, C:0.14, G:0.00, T:0.47
Consensus pattern (22 bp):
AACTATTCTTTAATATAACTTT
Found at i:52906 original size:30 final size:30
Alignment explanation
Indices: 52872--52992 Score: 118
Period size: 30 Copynumber: 4.3 Consensus size: 30
52862 TCCCTTAAAC
52872 AACTAATAAACTATTCTTTAATATAAC--T
1 AACTAATAAACTATTCTTTAATATAACTTT
52900 ---T--T-AACTATTCTTTAATATAACTTT
1 AACTAATAAACTATTCTTTAATATAACTTT
* *
52924 AACTAATAAACTATTATTTAATATAACTTA
1 AACTAATAAACTATTCTTTAATATAACTTT
* *
52954 AACTAATAAACGATTTTTTAATTATAA-TTT
1 AACTAATAAACTATTCTTTAA-TATAACTTT
*
52984 -ACTATTAAA
1 AACTAATAAA
52993 AACTAATTAA
Statistics
Matches: 78, Mismatches: 6, Indels: 17
0.77 0.06 0.17
Matches are distributed among these distances:
22 19 0.24
23 1 0.01
24 1 0.01
25 1 0.01
27 1 0.01
29 9 0.12
30 41 0.53
31 5 0.06
ACGTcount: A:0.45, C:0.11, G:0.01, T:0.44
Consensus pattern (30 bp):
AACTAATAAACTATTCTTTAATATAACTTT
Found at i:52945 original size:15 final size:16
Alignment explanation
Indices: 52901--52951 Score: 61
Period size: 15 Copynumber: 3.3 Consensus size: 16
52891 AATATAACTT
*
52901 TAACTATTCTTTAATA
1 TAACTATTATTTAATA
**
52917 TAACT-TTAACTAATA
1 TAACTATTATTTAATA
52932 -AACTATTATTTAATA
1 TAACTATTATTTAATA
52947 TAACT
1 TAACT
52952 TAAACTAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
14 4 0.14
15 15 0.54
16 9 0.32
ACGTcount: A:0.43, C:0.12, G:0.00, T:0.45
Consensus pattern (16 bp):
TAACTATTATTTAATA
Found at i:52960 original size:15 final size:15
Alignment explanation
Indices: 52912--52961 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
52902 AACTATTCTT
52912 TAATATAACTTTAAC
1 TAATATAACTTTAAC
**
52927 TAATA-AACTATTATT
1 TAATATAACT-TTAAC
*
52942 TAATATAACTTAAAC
1 TAATATAACTTTAAC
52957 TAATA
1 TAATA
52962 AACGATTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
14 4 0.14
15 20 0.71
16 4 0.14
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (15 bp):
TAATATAACTTTAAC
Found at i:53201 original size:21 final size:21
Alignment explanation
Indices: 53177--53216 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
53167 TTTCTATATG
53177 ATATAACTTAAACTAACAATA
1 ATATAACTTAAACTAACAATA
*
53198 ATATAATTTAAACTAACAA
1 ATATAACTTAAACTAACAA
53217 ACTCATTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.30
Consensus pattern (21 bp):
ATATAACTTAAACTAACAATA
Found at i:53297 original size:18 final size:18
Alignment explanation
Indices: 53244--53298 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
53234 TTGTTTTACC
*
53244 CTAATTTATAATAATAAA
1 CTAATTTATAACAATAAA
53262 CTAA--T-TAAC--T-AA
1 CTAATTTATAACAATAAA
53274 -TAATTTATAACAATAAA
1 CTAATTTATAACAATAAA
53291 CTAATTTA
1 CTAATTTA
53299 AATAATTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 14
0.66 0.02 0.32
Matches are distributed among these distances:
11 3 0.10
12 2 0.07
13 2 0.07
14 4 0.14
15 3 0.10
16 2 0.07
17 2 0.07
18 11 0.38
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (18 bp):
CTAATTTATAACAATAAA
Found at i:53357 original size:30 final size:28
Alignment explanation
Indices: 53305--53364 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 28
53295 TTTAAATAAT
*
53305 TATTCTTTTATATAACTTAAACTAATAAAC
1 TATTCTTTTATATAACTAAAACT--TAAAC
*
53335 TATTTTTTTATTATAA-TAAAACTTAAAC
1 TATTCTTTTA-TATAACTAAAACTTAAAC
53363 TA
1 TA
53365 CTAATAAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 7 0.26
30 15 0.56
31 5 0.19
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.47
Consensus pattern (28 bp):
TATTCTTTTATATAACTAAAACTTAAAC
Found at i:53463 original size:27 final size:29
Alignment explanation
Indices: 53428--53492 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 29
53418 TATATATAAC
*
53428 TTAACTATTTA-ACTAACT-ACAAACTAA
1 TTAAATATTTAGACTAACTAACAAACTAA
*
53455 TTAAATA-TTAGACTAACTAACACACTAA
1 TTAAATATTTAGACTAACTAACAAACTAA
*
53483 TTAATTATTT
1 TTAAATATTT
53493 TTTTAATATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 3 0.09
27 13 0.41
28 14 0.44
29 2 0.06
ACGTcount: A:0.46, C:0.15, G:0.02, T:0.37
Consensus pattern (29 bp):
TTAAATATTTAGACTAACTAACAAACTAA
Found at i:54665 original size:2 final size:2
Alignment explanation
Indices: 54660--54740 Score: 162
Period size: 2 Copynumber: 40.5 Consensus size: 2
54650 ACACACACAC
54660 AT AT AT AT AT AT 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 AT AT AT AT AT AT
54702 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
54741 AACCTTTTAT
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 79 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:57781 original size:25 final size:26
Alignment explanation
Indices: 57747--57797 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 26
57737 GGTATTGGCC
*
57747 CCCGTCCCCGTTTAAAAAATC-CGTA
1 CCCGTCCCCGCTTAAAAAATCACGTA
57772 CCCGTCCCCGCTTAAAAAATCACGTA
1 CCCGTCCCCGCTTAAAAAATCACGTA
57798 GATTTAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 20 0.83
26 4 0.17
ACGTcount: A:0.29, C:0.37, G:0.12, T:0.22
Consensus pattern (26 bp):
CCCGTCCCCGCTTAAAAAATCACGTA
Found at i:57973 original size:2 final size:2
Alignment explanation
Indices: 57962--57991 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
57952 AAATTTATTA
57962 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
57992 ATTATTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:58050 original size:13 final size:12
Alignment explanation
Indices: 58007--58055 Score: 62
Period size: 12 Copynumber: 4.0 Consensus size: 12
57997 TTTTAATATT
*
58007 TATCGTGCCGGG
1 TATCGGGCCGGG
58019 TATCGGGCCGGG
1 TATCGGGCCGGG
*
58031 TATCGGGCTGGG
1 TATCGGGCCGGG
*
58043 TAATCGGGGCGGG
1 T-ATCGGGCCGGG
58056 GATTACTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
12 23 0.72
13 9 0.28
ACGTcount: A:0.10, C:0.20, G:0.49, T:0.20
Consensus pattern (12 bp):
TATCGGGCCGGG
Found at i:58911 original size:15 final size:15
Alignment explanation
Indices: 58893--58925 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
58883 ATCAACATAT
58893 ATAATTTTTATATAA
1 ATAATTTTTATATAA
*
58908 ATAATTTTTATTTAA
1 ATAATTTTTATATAA
58923 ATA
1 ATA
58926 TTTAGAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATAATTTTTATATAA
Found at i:63825 original size:30 final size:32
Alignment explanation
Indices: 63779--63856 Score: 88
Period size: 30 Copynumber: 2.4 Consensus size: 32
63769 TTTAAATAGT
*
63779 TATTATATTTTATATTAATATAAT-TATATA-AA
1 TATTAT-TTTT-TATTAAAATAATATATATATAA
*
63811 TATTATTTTTTATTAAAATAATATTTATATAA
1 TATTATTTTTTATTAAAATAATATATATATAA
63843 TCATTATTTATTTA
1 T-ATTATTT-TTTA
63857 AATTTATTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
30 11 0.28
31 9 0.22
32 9 0.22
33 7 0.17
34 4 0.10
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.56
Consensus pattern (32 bp):
TATTATTTTTTATTAAAATAATATATATATAA
Found at i:63889 original size:20 final size:20
Alignment explanation
Indices: 63864--63901 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
63854 TTAAATTTAT
63864 TAATTAATTATTTTTTGTGC
1 TAATTAATTATTTTTTGTGC
* *
63884 TAATTATTTTTTTTTTGT
1 TAATTAATTATTTTTTGT
63902 CTACAGTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.03, G:0.08, T:0.68
Consensus pattern (20 bp):
TAATTAATTATTTTTTGTGC
Found at i:65674 original size:42 final size:42
Alignment explanation
Indices: 65584--65683 Score: 103
Period size: 42 Copynumber: 2.4 Consensus size: 42
65574 ATGCCACAAT
* * * *
65584 GGTACATGCCCAGCCCTCCACTTCAGATGCCATCTCCTCAAG
1 GGTATATGCCAAGCCCACCACTTCAGATGCCATCTCCGCAAG
* * *
65626 GGTATATGCCAAGCCCACCAGTTCATATGTCATCTCCGC-AG
1 GGTATATGCCAAGCCCACCACTTCAGATGCCATCTCCGCAAG
* *
65667 GGTTATATTCCTAGCCC
1 GG-TATATGCCAAGCCC
65684 GCATGGTTAC
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
41 4 0.08
42 44 0.92
ACGTcount: A:0.22, C:0.35, G:0.18, T:0.25
Consensus pattern (42 bp):
GGTATATGCCAAGCCCACCACTTCAGATGCCATCTCCGCAAG
Found at i:65685 original size:21 final size:21
Alignment explanation
Indices: 65661--65733 Score: 94
Period size: 21 Copynumber: 3.5 Consensus size: 21
65651 TATGTCATCT
65661 CCGCAGGGTTATATTCCTAGC
1 CCGCAGGGTTATATTCCTAGC
* *
65682 CCGCATGGTTACATTCCTAGC
1 CCGCAGGGTTATATTCCTAGC
* *
65703 CCGCCA-GATTATATGCCTAGC
1 CCG-CAGGGTTATATTCCTAGC
65724 CCGCAGGGTT
1 CCGCAGGGTT
65734 TTATACCATA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
20 2 0.05
21 40 0.91
22 2 0.05
ACGTcount: A:0.19, C:0.32, G:0.23, T:0.26
Consensus pattern (21 bp):
CCGCAGGGTTATATTCCTAGC
Found at i:66293 original size:34 final size:34
Alignment explanation
Indices: 66250--66356 Score: 160
Period size: 34 Copynumber: 3.1 Consensus size: 34
66240 ATAAATGTTT
*
66250 TTAAAATACAAATTATAGTATTCGAAATTTAAAA
1 TTAAAATACAAATTATAGTATTCAAAATTTAAAA
* * *
66284 TTAAAATACAAATAATATTATTCAAAATTTAAAT
1 TTAAAATACAAATTATAGTATTCAAAATTTAAAA
* *
66318 TTAAAATATAAATTATAGTATTCAAAATTTAACA
1 TTAAAATACAAATTATAGTATTCAAAATTTAAAA
66352 TTAAA
1 TTAAA
66357 TTCAAGTTAA
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 64 1.00
ACGTcount: A:0.54, C:0.06, G:0.03, T:0.37
Consensus pattern (34 bp):
TTAAAATACAAATTATAGTATTCAAAATTTAAAA
Found at i:66999 original size:124 final size:127
Alignment explanation
Indices: 66790--67154 Score: 585
Period size: 127 Copynumber: 2.9 Consensus size: 127
66780 TCCCCTGATG
66790 AATAATAGGTATTGACATGAATAGTTCCCGGGGGACATAAGTGACATAATAGGGTAATGATAACA
1 AATAATAGGTATTGACATGAATAGTTCCCGGGGGACATAAGTGACATAATAGGGTAATGATAACA
*
66855 TATTCTCTGACAAAATAATGGAA-G-GC-CCCCCGGGAACGCGCCTTCACT-GTCCCCTAAGA
66 TATTCTCTGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCA-TGGTCCCATAAGA
* *
66914 AATAATAGGTATTGATATGAATAGTTCTCGGGGGACATAAGTGACATAATAGGGTAATGATAACA
1 AATAATAGGTATTGACATGAATAGTTCCCGGGGGACATAAGTGACATAATAGGGTAATGATAACA
* * *
66979 TATTCTCTGACAAAATAATGGAAGGTGCGCCCCTGGGAACGCGCCTTCATGGTCCCATAAGG
66 TATTCTCTGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGGTCCCATAAGA
** * *
67041 AATAATAGGTATTGACATGAATAGTTCCCAAGGGACATAAGTGACATAATAGGGCAATAATAACA
1 AATAATAGGTATTGACATGAATAGTTCCCGGGGGACATAAGTGACATAATAGGGTAATGATAACA
* *
67106 TATTCTCTAACAAAATAATGGAATGCGCGCCCCCGGGAACGCGCCTTCA
66 TATTCTCTGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCA
67155 AGTGAATAGT
Statistics
Matches: 222, Mismatches: 15, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
124 86 0.39
125 1 0.00
126 3 0.01
127 132 0.59
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (127 bp):
AATAATAGGTATTGACATGAATAGTTCCCGGGGGACATAAGTGACATAATAGGGTAATGATAACA
TATTCTCTGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGGTCCCATAAGA
Found at i:76114 original size:14 final size:15
Alignment explanation
Indices: 76090--76162 Score: 58
Period size: 15 Copynumber: 4.7 Consensus size: 15
76080 AAATAGTTAT
* *
76090 TATTTTTTATATTAA
1 TATTATTTATATAAA
76105 TA-TATTTATATAAA
1 TATTATTTATATAAA
*
76119 TATTATTTTTTTATTAAAA
1 TATTA--TTTATA-T-AAA
* *
76138 TAATATTTATATAAT
1 TATTATTTATATAAA
76153 TATTATTTAT
1 TATTATTTAT
76163 TTAGAATTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
14 12 0.26
15 15 0.33
16 1 0.02
17 10 0.22
18 1 0.02
19 7 0.15
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TATTATTTATATAAA
Found at i:76142 original size:36 final size:34
Alignment explanation
Indices: 76087--76165 Score: 110
Period size: 34 Copynumber: 2.4 Consensus size: 34
76077 TTTAAATAGT
76087 TATTATTTTTTATATT--AAT-ATATTTATATAAA
1 TATTATTTTTT-TATTAAAATAATATTTATATAAA
*
76119 TATTATTTTTTTATTAAAATAATATTTATATAAT
1 TATTATTTTTTTATTAAAATAATATTTATATAAA
*
76153 TATTATTTATTTA
1 TATTATTTTTTTA
76166 GAATTATTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
31 4 0.10
32 11 0.26
33 3 0.07
34 24 0.57
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (34 bp):
TATTATTTTTTTATTAAAATAATATTTATATAAA
Found at i:76327 original size:17 final size:17
Alignment explanation
Indices: 76305--76358 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
76295 AATGTTAATA
76305 TTTAAATTTATTTTTAT
1 TTTAAATTTATTTTTAT
* * * *
76322 TTTAAAGTTATTATGAA
1 TTTAAATTTATTTTTAT
* *
76339 TTTATATTAATTTTTAT
1 TTTAAATTTATTTTTAT
76356 TTT
1 TTT
76359 TTATAATGTA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTAAATTTATTTTTAT
Found at i:77920 original size:21 final size:21
Alignment explanation
Indices: 77890--77937 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
77880 GCAGGGGTAC
* *
77890 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
* *
77911 ATGCCAAGCCCACCAGTTTAT
1 ATGCCAAGCCCACCACTTCAT
77932 ATGCCA
1 ATGCCA
77938 TCTCCGCAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.40, G:0.12, T:0.23
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:77967 original size:21 final size:21
Alignment explanation
Indices: 77941--78034 Score: 118
Period size: 21 Copynumber: 4.5 Consensus size: 21
77931 TATGCCATCT
77941 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCGAGC
*
77962 CCGCAGGGTTACATTCCGATC
1 CCGCAGGGTTACATTCCGAGC
* *
77983 CCGCATGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCGAGC
* * *
78004 CCGCCA-GGTTGCATGCCTAGC
1 CCG-CAGGGTTACATTCCGAGC
78025 CCGCAGGGTT
1 CCGCAGGGTT
78035 TTATACCATA
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
20 2 0.03
21 61 0.94
22 2 0.03
ACGTcount: A:0.17, C:0.34, G:0.27, T:0.22
Consensus pattern (21 bp):
CCGCAGGGTTACATTCCGAGC
Found at i:78710 original size:128 final size:128
Alignment explanation
Indices: 78482--79238 Score: 1336
Period size: 128 Copynumber: 5.9 Consensus size: 128
78472 TTACCTGATT
78482 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* *
78547 TGATGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTAAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
78610 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
78675 TGATGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
* *
78738 TATTGATATATCTAGTGTCCCCAAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* * *
78803 TGATGAAATAATGGAAGGCGCGCCCTCGGGAACGCGCCTTCATATGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
78866 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* ** * *
78931 TGACGAAATAATGGAAGGCGCACCCCCGGGAACGCGCCTTCATGT-CCTCTGAGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAAT-AGTGAAATAATAGG
78994 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
** *
79059 TGACGAAATAATGGAAGGCGCGCCCCCATGAACGCACCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
79122 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* *
79187 TGACGAAATAATGGAAGGCGCACCCCCGGGAACGCGCCTTCATATGAATAGT
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGT
79239 ACTCCGATTA
Statistics
Matches: 599, Mismatches: 28, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
127 1 0.00
128 597 1.00
129 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (128 bp):
TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
Found at i:79322 original size:8 final size:8
Alignment explanation
Indices: 79309--79349 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
79299 TCACAATCTT
79309 TCAAATTC
1 TCAAATTC
79317 TCAAATTC
1 TCAAATTC
* *
79325 CCAAACTC
1 TCAAATTC
79333 T-AAATTC
1 TCAAATTC
79340 TCAAATTC
1 TCAAATTC
79348 TC
1 TC
79350 TGAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:82365 original size:12 final size:12
Alignment explanation
Indices: 82348--82386 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
82338 TACATAAATA
82348 TATTTAATATAT
1 TATTTAATATAT
*
82360 TATTTAATATAA
1 TATTTAATATAT
*
82372 TAATTAATATTAT
1 TATTTAATA-TAT
82385 TA
1 TA
82387 GTTATAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
12 19 0.83
13 4 0.17
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
TATTTAATATAT
Found at i:83229 original size:21 final size:21
Alignment explanation
Indices: 83190--83229 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
83180 TATAGTGCAA
* *
83190 ATGTATTAGTTTTTGATATAC
1 ATGTATTAGTTTGTCATATAC
83211 ATGTATTAGTTTGTCATAT
1 ATGTATTAGTTTGTCATAT
83230 GATAAGTGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.05, G:0.15, T:0.53
Consensus pattern (21 bp):
ATGTATTAGTTTGTCATATAC
Found at i:87526 original size:60 final size:60
Alignment explanation
Indices: 87462--87644 Score: 242
Period size: 60 Copynumber: 3.0 Consensus size: 60
87452 TTAGGATGAA
* * * *
87462 TTTGGGGATGAAATTGGAATATTTAAAAGTTTAGGGATCAATTTAGAATGAGACTCATAG
1 TTTGGGGATGAAATTAGAATGTTTAAAAGTTTAAGGATCAATTTAGAATGAGAGTCATAG
* * * * *
87522 TTTGGAGATGAAATTAGAATGTTCAAAATTTTAAGGATTAATTTAGAATGAGAGTCAAAG
1 TTTGGGGATGAAATTAGAATGTTTAAAAGTTTAAGGATCAATTTAGAATGAGAGTCATAG
* * *
87582 CTTGGGGATGAAATTATAATGTTTAAAAGTTCAAGGATCAATTTA-AAGTGAGAGTCATAG
1 TTTGGGGATGAAATTAGAATGTTTAAAAGTTTAAGGATCAATTTAGAA-TGAGAGTCATAG
87642 TTT
1 TTT
87645 AAGGATATAT
Statistics
Matches: 104, Mismatches: 18, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
59 2 0.02
60 102 0.98
ACGTcount: A:0.38, C:0.05, G:0.23, T:0.34
Consensus pattern (60 bp):
TTTGGGGATGAAATTAGAATGTTTAAAAGTTTAAGGATCAATTTAGAATGAGAGTCATAG
Done.