Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009591.1 Hibiscus syriacus cultivar Beakdansim tig00116970_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: 2451160
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 11
Found at i:2316740 original size:21 final size:21
Alignment explanation
Indices: 2316716--2316771 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
2316706 TGTTATATTG
2316716 TAAAGTATCGATACATTTTTA
1 TAAAGTATCGATACATTTTTA
2316737 TAAAGTATCGATACATTTTTA
1 TAAAGTATCGATACATTTTTA
2316758 TAAAGTATCGATAC
1 TAAAGTATCGATAC
2316772 TTTATAGGCG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (21 bp):
TAAAGTATCGATACATTTTTA
Found at i:2320268 original size:16 final size:16
Alignment explanation
Indices: 2320243--2320276 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
2320233 AATTTATTTT
2320243 AAATTTTAAATA-TAA
1 AAATTTTAAATACTAA
2320258 AAATATTTAAATACTAA
1 AAAT-TTTAAATACTAA
2320275 AA
1 AA
2320277 GAAACTATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 8 0.47
17 5 0.29
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (16 bp):
AAATTTTAAATACTAA
Found at i:2321569 original size:16 final size:17
Alignment explanation
Indices: 2321540--2321571 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
2321530 TTATACTATG
2321540 CTAACAACCTTAACTAA
1 CTAACAACCTTAACTAA
2321557 CTAACAA-CTTAACTA
1 CTAACAACCTTAACTA
2321572 CTACTTAGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (17 bp):
CTAACAACCTTAACTAA
Found at i:2326212 original size:22 final size:22
Alignment explanation
Indices: 2326184--2326225 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
2326174 TTCGGGACAT
2326184 AGTGGTCCTACGGGACATATAC
1 AGTGGTCCTACGGGACATATAC
*
2326206 AGTGGTCCTTCGGGACATAT
1 AGTGGTCCTACGGGACATAT
2326226 GGTCCTACGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (22 bp):
AGTGGTCCTACGGGACATATAC
Found at i:2331115 original size:22 final size:18
Alignment explanation
Indices: 2331073--2331141 Score: 84
Period size: 18 Copynumber: 3.6 Consensus size: 18
2331063 TTAAGGAGTA
*
2331073 GTCCTTCGGGACATAGTG
1 GTCCTACGGGACATAGTG
2331091 GTCCTACGGGACATATACAGTG
1 GTCCTACGGGAC--AT--AGTG
*
2331113 GTCCTTCGGGACATAGTG
1 GTCCTACGGGACATAGTG
2331131 GTCCTACGGGA
1 GTCCTACGGGA
2331142 TGAATACTGA
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
18 25 0.57
20 4 0.09
22 15 0.34
ACGTcount: A:0.20, C:0.23, G:0.32, T:0.25
Consensus pattern (18 bp):
GTCCTACGGGACATAGTG
Found at i:2336046 original size:22 final size:18
Alignment explanation
Indices: 2336010--2336073 Score: 83
Period size: 18 Copynumber: 3.3 Consensus size: 18
2336000 AGTAGTCTTT
2336010 CGGGACATAGTGGTCCTA
1 CGGGACATAGTGGTCCTA
*
2336028 CGGGACATATACAGTGGTCCTT
1 CGGGAC--AT--AGTGGTCCTA
2336050 CGGGACATAGTGGTCCTA
1 CGGGACATAGTGGTCCTA
2336068 CGGGAC
1 CGGGAC
2336074 GAATACTGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
18 21 0.52
20 4 0.10
22 15 0.38
ACGTcount: A:0.22, C:0.23, G:0.33, T:0.22
Consensus pattern (18 bp):
CGGGACATAGTGGTCCTA
Found at i:2342808 original size:24 final size:24
Alignment explanation
Indices: 2342772--2342822 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
2342762 TAGCTCTTCC
* * *
2342772 TCATTGGGTGGCTGGTGATCCTCT
1 TCATTGGGTGGCTAGTGAGCATCT
2342796 TCATTGGCG-GGCTAGTGAGCATCT
1 TCATTGG-GTGGCTAGTGAGCATCT
2342820 TCA
1 TCA
2342823 GATGCCTTGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 22 0.96
25 1 0.04
ACGTcount: A:0.14, C:0.22, G:0.31, T:0.33
Consensus pattern (24 bp):
TCATTGGGTGGCTAGTGAGCATCT
Found at i:2343867 original size:18 final size:18
Alignment explanation
Indices: 2343844--2343918 Score: 114
Period size: 18 Copynumber: 4.1 Consensus size: 18
2343834 ATTCAGTATT
2343844 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
2343862 TGTCCCGAAGGACCACTGA
1 TGTCCCGAAGGACCACT-A
* *
2343881 TTGTTCCGAAGAACCACTA
1 -TGTCCCGAAGGACCACTA
2343900 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
2343918 T
1 T
2343919 ATATCCCTAG
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
18 34 0.67
19 2 0.04
20 15 0.29
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:2343899 original size:38 final size:38
Alignment explanation
Indices: 2343843--2343916 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
2343833 CATTCAGTAT
*
2343843 TTGTCCCGAAGGACCACTATGTCCCGAAGGACCACTGA
1 TTGTCCCGAAGAACCACTATGTCCCGAAGGACCACTGA
*
2343881 TTGTTCCGAAGAACCACTATGTCCCGAAGGACCACT
1 TTGTCCCGAAGAACCACTATGTCCCGAAGGACCACT
2343917 ATATATCCCT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.20
Consensus pattern (38 bp):
TTGTCCCGAAGAACCACTATGTCCCGAAGGACCACTGA
Found at i:2344561 original size:63 final size:63
Alignment explanation
Indices: 2344480--2344600 Score: 188
Period size: 63 Copynumber: 1.9 Consensus size: 63
2344470 TATTCTTAAT
* *
2344480 GGGTGCATCGATGCACTACTTATGCATCGGTGCACGAATCACATTTGATGTTTTTATTCAATG
1 GGGTGCATCGATGCACTACTTATGCATCGATGCACGAATCACATTCGATGTTTTTATTCAATG
* ** *
2344543 GGGTGCATCGATGCACTACTTATGCATCGATGCACTAATGGCATTCGATTTTTTTATT
1 GGGTGCATCGATGCACTACTTATGCATCGATGCACGAATCACATTCGATGTTTTTATT
2344601 TTATCAGAGT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
63 52 1.00
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.36
Consensus pattern (63 bp):
GGGTGCATCGATGCACTACTTATGCATCGATGCACGAATCACATTCGATGTTTTTATTCAATG
Found at i:2345252 original size:17 final size:18
Alignment explanation
Indices: 2345216--2345250 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
2345206 TACAAATGAC
2345216 CATTTTATCCTTCAATTT
1 CATTTTATCCTTCAATTT
2345234 CATTTT-TCCTTGCAATT
1 CATTTTATCCTT-CAATT
2345251 CAACCCTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.20, C:0.23, G:0.03, T:0.54
Consensus pattern (18 bp):
CATTTTATCCTTCAATTT
Found at i:2350552 original size:18 final size:18
Alignment explanation
Indices: 2350526--2350600 Score: 105
Period size: 18 Copynumber: 4.1 Consensus size: 18
2350516 GTTCAGTATT
*
2350526 TGTCTCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
2350544 TGTCCCGAAGGACCACTGA
1 TGTCCCGAAGGACCACT-A
* *
2350563 TTGTTCCGAAGAACCACTA
1 -TGTCCCGAAGGACCACTA
2350582 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
2350600 T
1 T
2350601 ATATCCCTCG
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
18 33 0.66
19 2 0.04
20 15 0.30
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:2363930 original size:20 final size:20
Alignment explanation
Indices: 2363901--2363939 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2363891 AAAGCTCATA
*
2363901 TAGGATCATATAGATGCATT
1 TAGGAGCATATAGATGCATT
*
2363921 TAGGAGCATATAGTTGCAT
1 TAGGAGCATATAGATGCAT
2363940 ATGGTGGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (20 bp):
TAGGAGCATATAGATGCATT
Found at i:2378879 original size:31 final size:31
Alignment explanation
Indices: 2378840--2378917 Score: 147
Period size: 31 Copynumber: 2.5 Consensus size: 31
2378830 TTCTTCCTTC
2378840 CAAGGGAAGCCAGAGTGTGAAACAAGGTTCT
1 CAAGGGAAGCCAGAGTGTGAAACAAGGTTCT
*
2378871 TAAGGGAAGCCAGAGTGTGAAACAAGGTTCT
1 CAAGGGAAGCCAGAGTGTGAAACAAGGTTCT
2378902 CAAGGGAAGCCAGAGT
1 CAAGGGAAGCCAGAGT
2378918 TTAAGGTGAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.36, C:0.15, G:0.33, T:0.15
Consensus pattern (31 bp):
CAAGGGAAGCCAGAGTGTGAAACAAGGTTCT
Found at i:2380169 original size:13 final size:13
Alignment explanation
Indices: 2380153--2380196 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
2380143 AATGTGAGTC
*
2380153 ATAAATGTACGTT
1 ATAAATGTATGTT
* *
2380166 ATAAATGTGTGTC
1 ATAAATGTATGTT
*
2380179 ATAAATGCATGTT
1 ATAAATGTATGTT
2380192 ATAAA
1 ATAAA
2380197 AGGGTGTCAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.41, C:0.07, G:0.16, T:0.36
Consensus pattern (13 bp):
ATAAATGTATGTT
Found at i:2380172 original size:26 final size:26
Alignment explanation
Indices: 2380143--2380196 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
2380133 AATGACGCTC
*
2380143 AATGTGAGTCATAAATGTACGTTATA
1 AATGTGAGTCATAAATGCACGTTATA
* *
2380169 AATGTGTGTCATAAATGCATGTTATA
1 AATGTGAGTCATAAATGCACGTTATA
2380195 AA
1 AA
2380197 AGGGTGTCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.39, C:0.07, G:0.19, T:0.35
Consensus pattern (26 bp):
AATGTGAGTCATAAATGCACGTTATA
Found at i:2380203 original size:26 final size:26
Alignment explanation
Indices: 2380150--2380207 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
2380140 CTCAATGTGA
* * *
2380150 GTCATAAATGTACGTTATAAATGTGT
1 GTCATAAATGCACGTTATAAAAGGGT
*
2380176 GTCATAAATGCATGTTATAAAAGGGT
1 GTCATAAATGCACGTTATAAAAGGGT
2380202 GTCATA
1 GTCATA
2380208 GATTTATGAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.34
Consensus pattern (26 bp):
GTCATAAATGCACGTTATAAAAGGGT
Found at i:2382460 original size:44 final size:44
Alignment explanation
Indices: 2382375--2382471 Score: 121
Period size: 44 Copynumber: 2.2 Consensus size: 44
2382365 TTTTGCATAA
*
2382375 TGCATCGATCACTATGAAAGTGCATCGATGCATCCCTTTGAATG
1 TGCATCGATCACTATGAAAGTGCACCGATGCATCCCTTTGAATG
2382419 TGCATCGAT-ACATCATG-AAGATGCACCGATGCA-CTCC-TTGAATG
1 TGCATCGATCAC-T-ATGAAAG-TGCACCGATGCATC-CCTTTGAATG
2382463 TGCATCGAT
1 TGCATCGAT
2382472 GCCCAAGGCC
Statistics
Matches: 48, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
43 2 0.04
44 30 0.62
45 16 0.33
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (44 bp):
TGCATCGATCACTATGAAAGTGCACCGATGCATCCCTTTGAATG
Found at i:2383564 original size:64 final size:65
Alignment explanation
Indices: 2383442--2383581 Score: 194
Period size: 64 Copynumber: 2.2 Consensus size: 65
2383432 ACCTAATTTT
* * *
2383442 GAATGCATTTTGTGTATCGATGCACAAGGCATGTATCGATGCACTCCTGAATATTTTGAAA-ACC
1 GAATGCATTTTGTGTACCGATGCACAAGGCATGCATCGATGCACTCCAGAATATTTTGAAACACC
** *
2383506 GAATGCATTTTGTGTACCGATGCACAAGGCATGCATCGATGCACTCCAGGCT-TGTTTGAAACAT
1 GAATGCATTTTGTGTACCGATGCACAAGGCATGCATCGATGCACTCCAGAATAT-TTTGAAACAC
2383570 C
65 C
*
2383571 GAATGTATTTT
1 GAATGCATTTT
2383582 ATACATCGAT
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
63 1 0.01
64 54 0.81
65 12 0.18
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.31
Consensus pattern (65 bp):
GAATGCATTTTGTGTACCGATGCACAAGGCATGCATCGATGCACTCCAGAATATTTTGAAACACC
Found at i:2385691 original size:47 final size:47
Alignment explanation
Indices: 2385621--2385715 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
2385611 TTCCTAAGTG
*
2385621 AATCCTATCATTCATTCTCGTAGTAGCTTGTTGTGTGAGGATTATCA
1 AATCCTATCATTCATTCTAGTAGTAGCTTGTTGTGTGAGGATTATCA
2385668 AATCCTATCATTCATTCTAGTAGTAGCTTGTTGTGTGAGGATTATCA
1 AATCCTATCATTCATTCTAGTAGTAGCTTGTTGTGTGAGGATTATCA
2385715 A
1 A
2385716 GTCATTTTAT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.40
Consensus pattern (47 bp):
AATCCTATCATTCATTCTAGTAGTAGCTTGTTGTGTGAGGATTATCA
Found at i:2386462 original size:30 final size:29
Alignment explanation
Indices: 2386406--2386462 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 29
2386396 ATATTGATAG
*
2386406 TCATTAAATTTATATTTGTATTAATCTTT
1 TCATTAAATTTATATTTGTATGAATCTTT
2386435 TCATTAAAATTTATAATTTGT-TGAATCT
1 TCATT-AAATTTAT-ATTTGTATGAATCT
2386463 AATACTATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 5 0.20
30 14 0.56
31 6 0.24
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.54
Consensus pattern (29 bp):
TCATTAAATTTATATTTGTATGAATCTTT
Found at i:2390005 original size:2 final size:2
Alignment explanation
Indices: 2389995--2390031 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
2389985 AAAGGAAAAA
2389995 AT AT A- 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
2390032 CAAAGTATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2390964 original size:37 final size:37
Alignment explanation
Indices: 2390914--2391017 Score: 129
Period size: 37 Copynumber: 2.8 Consensus size: 37
2390904 GTGCTTGTGG
* * * *
2390914 ATCCTATCTTTAGGAATTTAAATCTTAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
* * * *
2390951 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
2390988 AT-CTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
2391018 GACGAAAATG
Statistics
Matches: 57, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
36 26 0.46
37 31 0.54
ACGTcount: A:0.30, C:0.13, G:0.14, T:0.42
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
Found at i:2391862 original size:105 final size:105
Alignment explanation
Indices: 2391560--2392218 Score: 850
Period size: 105 Copynumber: 6.3 Consensus size: 105
2391550 GCATTGTTCC
* * * * ** *
2391560 GAGTCCAATATCCTCCGTCGTGAAATTGAAATTGGCTCTAAAACCGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAA
* * * * * *
2391625 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTCTCTC
65 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
** * *
2391666 GAGTCCAATATCCTTCACTGTGAAGTTGAAATTGACTCTG-AA-T--GAAATT-TTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAG
*
2391726 CAGCGGTCCCTTCGTCGTGGAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
2391766 GAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAG
*
2391831 CAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
2391871 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAG
* * *
2391936 CAGCAGTCCTTTCGTCGTGAAGTTGAACTTACGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
2391976 AAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA---GTTATTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAG
*
2392038 CAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
2392078 AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAA
* * * *
2392143 CCAGTC-ATCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
65 GCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT-G
* * *
2392185 AGTGTCACAATATCCTCCGTTGTGGAGTTGAAAT
1 -GAGTC-CAATATCCTTCGTTGTGAAGTTGAAAT
2392219 CGCGGATGTT
Statistics
Matches: 494, Mismatches: 46, Indels: 23
0.88 0.08 0.04
Matches are distributed among these distances:
100 82 0.17
101 1 0.00
102 103 0.21
104 5 0.01
105 198 0.40
106 76 0.15
107 1 0.00
108 3 0.01
109 25 0.05
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAG
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:2392113 original size:207 final size:205
Alignment explanation
Indices: 2391561--2392218 Score: 813
Period size: 207 Copynumber: 3.2 Consensus size: 205
2391551 CATTGTTCCG
* * * * ** * * *
2391561 AGTCCAATATCCTCCGTCGTGAAATTGAAATTGGCTCTAAAACCGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG-AA-TG-TTATTGACAAG
* * * * **
2391626 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTCTCTCGAGTCCAATATCCTTCACTGTGAAG
63 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT-GAGTCCAATATCCTTCGTTGTGAAG
* * * *
2391691 TTGAAATTGACTCTGAA-T-GAAATT-TTGTTGACAAGCAGCGGTCCCTTCGTCGTGGAGTTGAA
127 TTGAAATTGGCTCTGAATTGGAAGTTGTTGTTGACAAGCAGCAGTCCCTTCGTCGTGAAGTTGAA
*
2391753 CTTGCGTTGTCTGG
192 CTTGCGTTGTCTGA
* * * *
2391767 AGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA--TGTTATTGACAAGC
*
2391832 AGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
64 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT-GAGTCCAATATCCTTCGTTGTGAAGT
*
2391897 TGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGCAGCAGTCCTTTCGTCGTGAAGTTGA
128 TGAAATTGGCTCTGA-ATT-GGAAGTTGTTGTTGACAAGCAGCAGTCCCTTCGTCGTGAAGTTGA
*
2391962 ACTTACGTTGTCTGA
191 ACTTGCGTTGTCTGA
*
2391977 AGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-GTTATTGACAAGCAG
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATGTTATTGACAAGCAG
*
2392041 TGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGTTGTGAAGTTG
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG-AGTCCAATATCCTTCGTTGTGAAGTTG
* *
2392106 AAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGTCA-TCCCTTCGTTGTGAAGTTGA
130 AAATTGGCTCTG-AATTG-GAAGTTG-TTGTTGACAAGCAG-CAGTCCCTTCGTCGTGAAGTTGA
*
2392170 ACTTGTGTTGTCTCGA
191 ACTTGCGTTGTCT-GA
* * *
2392186 GTGTCACAATATCCTCCGTTGTGGAGTTGAAAT
1 -AGTC-CAATATCCTTCGTTGTGAAGTTGAAAT
2392219 CGCGGATGTT
Statistics
Matches: 398, Mismatches: 40, Indels: 23
0.86 0.09 0.05
Matches are distributed among these distances:
205 84 0.21
206 45 0.11
207 98 0.25
208 43 0.11
209 9 0.02
210 95 0.24
211 24 0.06
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (205 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATGTTATTGACAAGCAG
CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAGTCCAATATCCTTCGTTGTGAAGTTGA
AATTGGCTCTGAATTGGAAGTTGTTGTTGACAAGCAGCAGTCCCTTCGTCGTGAAGTTGAACTTG
CGTTGTCTGA
Found at i:2392460 original size:35 final size:35
Alignment explanation
Indices: 2392387--2392457 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
2392377 TGTTTGGAGA
* * **
2392387 GAAACTGTCTCAAGGGAGACAAAATTGTTTCAAGG
1 GAAACTATCTCAAGCGAGACAAAATTAATTCAAGG
*
2392422 GAAACTATCTCAAGCGAGATAAAATTCAATTCAAGG
1 GAAACTATCTCAAGCGAGACAAAATT-AATTCAAGG
2392458 AAAATGTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
35 23 0.77
36 7 0.23
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.23
Consensus pattern (35 bp):
GAAACTATCTCAAGCGAGACAAAATTAATTCAAGG
Found at i:2392585 original size:105 final size:103
Alignment explanation
Indices: 2392362--2392679 Score: 471
Period size: 105 Copynumber: 3.1 Consensus size: 103
2392352 TTCGTTAAAT
* ** *
2392362 TGTTTTCAAAGTTTATGTTTGGAGAGAAACTGTCTCAAGGGAGACAAAA--TT-GTTTCAAGGGA
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCGTTTCGAGGGA
* * * *
2392424 AACTATCTCAAGCGAGATAAAATTCAATTCAAGGAAAA
66 AACTATCTCAAGAGAGAAAAAATTCATTTCAAGGGAAA
2392462 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCCGTTTCGAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT-CGTTTCGAGGG
*
2392527 AAACTATCTCAAGAGAGAAAAAAAATCATTTCAAGGGAAA
65 AAACTATCTCAAGAGAG-AAAAAATTCATTTCAAGGGAAA
* *
2392567 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTTGAGGT
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTC-GTTTCGAGGG
* *
2392632 AAACTATCTCAGGAGAGAAAAAATTAATTTCAAGGGAAA
65 AAACTATCTCAAGAGAGAAAAAATTCATTTCAAGGGAAA
2392671 TGTTTTCAA
1 TGTTTTCAA
2392680 GAGAAACTGT
Statistics
Matches: 198, Mismatches: 14, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
100 46 0.23
102 2 0.01
104 55 0.28
105 95 0.48
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (103 bp):
TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCGTTTCGAGGGA
AACTATCTCAAGAGAGAAAAAATTCATTTCAAGGGAAA
Found at i:2392834 original size:36 final size:36
Alignment explanation
Indices: 2392794--2392906 Score: 104
Period size: 36 Copynumber: 3.2 Consensus size: 36
2392784 CTTTCGAGTG
* *
2392794 AAAACGGTCTCAAGCGAGACAAATCTTGTTTTAAGA
1 AAAACAGTCTCAAGTGAGACAAATCTTGTTTTAAGA
* ** * * * **
2392830 AAAACAATCTTGAGTGAAATAAATCTTCTTTCGAG-
1 AAAACAGTCTCAAGTGAGACAAATCTTGTTTTAAGA
*
2392865 AAAACAGTCTCAAGTGAGACAAAGT-ATGTTTTAAGA
1 AAAACAGTCTCAAGTGAGACAAA-TCTTGTTTTAAGA
2392901 AAAACA
1 AAAACA
2392907 AATTTGAGTG
Statistics
Matches: 56, Mismatches: 19, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
35 24 0.43
36 32 0.57
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.26
Consensus pattern (36 bp):
AAAACAGTCTCAAGTGAGACAAATCTTGTTTTAAGA
Found at i:2392877 original size:71 final size:73
Alignment explanation
Indices: 2392749--2392922 Score: 214
Period size: 71 Copynumber: 2.4 Consensus size: 73
2392739 TAAAATCTTC
** *
2392749 TTAA-AAAAACAGCCTTGAGTGAAATGAAATGTCTTCTTTCGAGTGAAAACGGTCTCAAGCGAGA
1 TTAAGAAAAACAATCTTGAGTGAAAT-AAA-GTCTTCTTTCGAG-GAAAACAGTCTCAAGCGAGA
*
2392813 CAAA-TCTTGTT
63 CAAAGT-ATGTT
*
2392824 TTAAGAAAAACAATCTTGAGTGAAATAAA-TCTTCTTTCGA-GAAAACAGTCTCAAGTGAGACAA
1 TTAAGAAAAACAATCTTGAGTGAAATAAAGTCTTCTTTCGAGGAAAACAGTCTCAAGCGAGACAA
2392887 AGTATGTT
66 AGTATGTT
*
2392895 TTAAGAAAAACAAAT-TTGAGTGAGATAA
1 TTAAGAAAAAC-AATCTTGAGTGAAATAA
2392923 TCATCTGCAT
Statistics
Matches: 90, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
71 49 0.54
72 4 0.04
73 11 0.12
75 7 0.08
76 19 0.21
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (73 bp):
TTAAGAAAAACAATCTTGAGTGAAATAAAGTCTTCTTTCGAGGAAAACAGTCTCAAGCGAGACAA
AGTATGTT
Found at i:2392881 original size:35 final size:35
Alignment explanation
Indices: 2392766--2392881 Score: 88
Period size: 36 Copynumber: 3.1 Consensus size: 35
2392756 AACAGCCTTG
*
2392766 AGTGAAATGAAATGTCTTCTTTCGAGTGAAAACGGTCTCA
1 AGTGAAAT-AAA--TCTTCTTTCGA--GAAAACAGTCTCA
* * * * ** * **
2392806 AGCGAGACAAATCTTGTTTTAAGAAAAACAATCTTG
1 AGTGAAATAAATCTTCTTTCGAG-AAAACAGTCTCA
2392842 AGTGAAATAAATCTTCTTTCGAGAAAACAGTCTCA
1 AGTGAAATAAATCTTCTTTCGAGAAAACAGTCTCA
2392877 AGTGA
1 AGTGA
2392882 GACAAAGTAT
Statistics
Matches: 56, Mismatches: 19, Indels: 7
0.68 0.23 0.09
Matches are distributed among these distances:
35 15 0.27
36 25 0.45
37 8 0.14
39 3 0.05
40 5 0.09
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (35 bp):
AGTGAAATAAATCTTCTTTCGAGAAAACAGTCTCA
Found at i:2394373 original size:183 final size:183
Alignment explanation
Indices: 2394065--2394416 Score: 652
Period size: 183 Copynumber: 1.9 Consensus size: 183
2394055 CAGGTTTAAC
2394065 TGAAGGGTTCATCTCATCACAAAGTCTTTGACCTGACAAAAGCAGTGGAGCAAACACCGAATTGC
1 TGAAGGGTTCATCTCATCACAAAGTCTTTGACCTGACAAAAGCAGTGGAGCAAACACCGAATTGC
**
2394130 CAAGTGTCCGAGCAATGTCATGATTTGAATGTAATCTATTCATAAAGCCAGGGCTTTCGAGTTTC
66 CAAGTGTCCGAGCAATGTCATGATTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTTTC
2394195 CTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATCAT
131 CTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATCAT
*
2394248 TGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATTGC
1 TGAAGGGTTCATCTCATCACAAAGTCTTTGACCTGACAAAAGCAGTGGAGCAAACACCGAATTGC
*
2394313 CAAGTGTCCGAGCAGTGTCAT-AGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTTT
66 CAAGTGTCCGAGCAATGTCATGA-TTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTTT
2394377 CCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
130 CCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
2394417 CGGATTTAAT
Statistics
Matches: 164, Mismatches: 4, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
182 1 0.01
183 163 0.99
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (183 bp):
TGAAGGGTTCATCTCATCACAAAGTCTTTGACCTGACAAAAGCAGTGGAGCAAACACCGAATTGC
CAAGTGTCCGAGCAATGTCATGATTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTTTC
CTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATCAT
Found at i:2398499 original size:2 final size:2
Alignment explanation
Indices: 2398488--2398531 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
2398478 AAAGGAAAAA
*
2398488 AT AT AA 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
2398530 AT
1 AT
2398532 CAAAGTATTA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2398777 original size:14 final size:14
Alignment explanation
Indices: 2398727--2398778 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
2398717 TTTTTTAAAT
* *
2398727 AATAATATAATAAT
1 AATAATATAAAAAA
2398741 AATGAATA-AAAAAA
1 AAT-AATATAAAAAA
*
2398755 AA-AAAATAAAAAA
1 AATAATATAAAAAA
2398768 AATAATATAAA
1 AATAATATAAA
2398779 TATATAAAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
12 3 0.10
13 8 0.26
14 16 0.52
15 4 0.13
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (14 bp):
AATAATATAAAAAA
Found at i:2403102 original size:59 final size:55
Alignment explanation
Indices: 2402956--2403109 Score: 159
Period size: 55 Copynumber: 2.7 Consensus size: 55
2402946 ATTCATTTTA
* * * *
2402956 AAATTAATCCTTAAACTTTGAAATATTATAATTTCATTCTCAAACTATGAATTCT
1 AAATTAGTCCTCAAACTTTTAAATATTATAATTTCATCCTCAAACTATGAATTCT
* * * * *
2403011 TAATTAGTCCTTAAAATTTTAAATATTCTAATTTTATCCTCAAACTATGATCCTCATTCT
1 AAATTAGTCCTCAAACTTTTAAATATTATAATTTCATCCTCAAACTATGA-----ATTCT
2403071 AAATT-GATCC-CAAACTTTTAAATATTATAATTTCATCCT
1 AAATTAG-TCCTCAAACTTTTAAATATTATAATTTCATCCT
2403110 TAAATTCATC
Statistics
Matches: 81, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
55 43 0.53
59 26 0.32
60 12 0.15
ACGTcount: A:0.37, C:0.17, G:0.03, T:0.43
Consensus pattern (55 bp):
AAATTAGTCCTCAAACTTTTAAATATTATAATTTCATCCTCAAACTATGAATTCT
Found at i:2409511 original size:22 final size:21
Alignment explanation
Indices: 2409480--2409520 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
2409470 ATGACTAACT
2409480 ATATAATTATTATTTTTATAAA
1 ATATAATTA-TATTTTTATAAA
*
2409502 ATATACTTATATTTTTATA
1 ATATAATTATATTTTTATA
2409521 CAATTATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
ATATAATTATATTTTTATAAA
Found at i:2409532 original size:21 final size:20
Alignment explanation
Indices: 2409480--2409532 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
2409470 ATGACTAACT
2409480 ATATAATTATTATTTTTATAAA
1 ATAT-ATTA-TATTTTTATAAA
2409502 ATATACTTATATTTTTATACAA
1 ATATA-TTATATTTTTATA-AA
*
2409524 TTATATTAT
1 ATATATTAT
2409533 GATACAAAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 15 0.54
22 13 0.46
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (20 bp):
ATATATTATATTTTTATAAA
Found at i:2415578 original size:46 final size:45
Alignment explanation
Indices: 2415513--2415668 Score: 224
Period size: 47 Copynumber: 3.4 Consensus size: 45
2415503 TGGTATATGG
*
2415513 TTATGGAAT-AATGGTAAGTATATTGGTAAAGTAAGCTTACGAGC
1 TTATGGAATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
* *
2415557 TTATGGAAATAAATGGTAAGTATATTGATAAAATAAGGTTACGAGC
1 TTATGG-AATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
* *
2415603 TTATGAAATTTAAATGGTAAGTATTTTGGTAAAATAAGCTTACGAGC
1 TTATGGAA--TAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
*
2415650 TTATGGGATAAATGGTAAG
1 TTATGGAATAAATGGTAAG
2415669 AGATTTTATA
Statistics
Matches: 99, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
44 6 0.06
45 16 0.16
46 37 0.37
47 40 0.40
ACGTcount: A:0.39, C:0.05, G:0.23, T:0.33
Consensus pattern (45 bp):
TTATGGAATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
Found at i:2424449 original size:14 final size:14
Alignment explanation
Indices: 2424413--2424451 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
2424403 CGTTTCTGTC
2424413 TATATGCAGAGATT
1 TATATGCAGAGATT
* * *
2424427 TTTACGCAGGGATT
1 TATATGCAGAGATT
2424441 TATATGCAGAG
1 TATATGCAGAG
2424452 TTGACTTCCC
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.31, C:0.10, G:0.26, T:0.33
Consensus pattern (14 bp):
TATATGCAGAGATT
Found at i:2424669 original size:3 final size:3
Alignment explanation
Indices: 2424661--2424686 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2424651 GAATAGGGTT
2424661 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
2424687 TTTTTTAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:2425320 original size:44 final size:45
Alignment explanation
Indices: 2425213--2425322 Score: 152
Period size: 45 Copynumber: 2.5 Consensus size: 45
2425203 ATTTATTAAT
*
2425213 CATAAGCTCGTAAGCTTATTTTACCAAAATATTTACCATTTGTAC
1 CATAAGCTCGTAAGCTTATTTTACCAAAATACTTACCATTTGTAC
* * * *
2425258 CATAAGCTCGTAAGCTTATTTTACCCATATACTTGCCCTTAT-T-C
1 CATAAGCTCGTAAGCTTATTTTACCAAAATACTTACCATT-TGTAC
2425302 CATAAGCTCGTAAGCTTATTT
1 CATAAGCTCGTAAGCTTATTT
2425323 GCATGCTTAC
Statistics
Matches: 59, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
44 22 0.37
45 36 0.61
46 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.10, T:0.38
Consensus pattern (45 bp):
CATAAGCTCGTAAGCTTATTTTACCAAAATACTTACCATTTGTAC
Found at i:2425485 original size:40 final size:40
Alignment explanation
Indices: 2425427--2425628 Score: 350
Period size: 40 Copynumber: 5.0 Consensus size: 40
2425417 AACGTAGTGC
**
2425427 TACACATAAGGTTATGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
2425467 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
* *
2425507 TATACATAAGGTTGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
2425547 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
* *
2425587 TACACATAAGGTCCTGCCCACCATATACACCTAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
2425627 TA
1 TA
2425629 TAAACCTGCA
Statistics
Matches: 154, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 154 1.00
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:2428219 original size:47 final size:45
Alignment explanation
Indices: 2428111--2428251 Score: 228
Period size: 47 Copynumber: 3.1 Consensus size: 45
2428101 GAATAATAAC
2428111 AAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAAATAAATGGT
1 AAGTATATTGGTAAAATAAGCTTACGAGCTTAT-GAAATAAATGGT
*
2428157 AAGTATATTGATAAAATAAGCTTACGAGCTTATGAAATTTAAATGGT
1 AAGTATATTGGTAAAATAAGCTTACGAGCTTATGAAA--TAAATGGT
* *
2428204 AAGTATTTTGGTAAAATAAGCTTACGAGCTTATGAGATAAATGGT
1 AAGTATATTGGTAAAATAAGCTTACGAGCTTATGAAATAAATGGT
2428249 AAG
1 AAG
2428252 AGATTTTATA
Statistics
Matches: 89, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
45 15 0.17
46 32 0.36
47 42 0.47
ACGTcount: A:0.41, C:0.06, G:0.21, T:0.32
Consensus pattern (45 bp):
AAGTATATTGGTAAAATAAGCTTACGAGCTTATGAAATAAATGGT
Found at i:2429264 original size:24 final size:24
Alignment explanation
Indices: 2429204--2429281 Score: 75
Period size: 24 Copynumber: 3.2 Consensus size: 24
2429194 TGAATTATGA
*
2429204 TATGATAATTGACATGGATTCTGT
1 TATGATAATTGACCTGGATTCTGT
* * **
2429228 TCTAATACCTGACCTGGATTCTGT
1 TATGATAATTGACCTGGATTCTGT
* * *
2429252 TATGATATTTGACCTGAATTATGT
1 TATGATAATTGACCTGGATTCTGT
*
2429276 TTTGAT
1 TATGAT
2429282 TTCTGATATA
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.44
Consensus pattern (24 bp):
TATGATAATTGACCTGGATTCTGT
Found at i:2431295 original size:15 final size:15
Alignment explanation
Indices: 2431275--2431307 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
2431265 GAAATGGGCT
2431275 GACCCGGTCCAACCC
1 GACCCGGTCCAACCC
*
2431290 GACCCGGTCTAACCC
1 GACCCGGTCCAACCC
2431305 GAC
1 GAC
2431308 TGTAAACCTG
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:0.21, C:0.48, G:0.21, T:0.09
Consensus pattern (15 bp):
GACCCGGTCCAACCC
Found at i:2432008 original size:27 final size:28
Alignment explanation
Indices: 2431978--2432033 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
2431968 TTAGGAATAA
*
2431978 TTTC-AAGGGTTTAACATTGAAATTATC
1 TTTCTAAGGGTTTAACATCGAAATTATC
*
2432005 TTTCTATGGGTTTAACATCGAAATTATC
1 TTTCTAAGGGTTTAACATCGAAATTATC
2432033 T
1 T
2432034 GGTTACAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 4 0.15
28 22 0.85
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.43
Consensus pattern (28 bp):
TTTCTAAGGGTTTAACATCGAAATTATC
Found at i:2433366 original size:24 final size:24
Alignment explanation
Indices: 2433339--2433388 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
2433329 TTCTATTCTA
2433339 ATATCTGACCTAG-ATTATGTTATG
1 ATATCTGA-CTAGAATTATGTTATG
* *
2433363 ATATCTGACTTGAATTATGTTTTG
1 ATATCTGACTAGAATTATGTTATG
2433387 AT
1 AT
2433389 TTTTGATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 3 0.13
24 20 0.87
ACGTcount: A:0.28, C:0.10, G:0.16, T:0.46
Consensus pattern (24 bp):
ATATCTGACTAGAATTATGTTATG
Found at i:2436507 original size:16 final size:17
Alignment explanation
Indices: 2436479--2436522 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
2436469 GGCTATTTTG
2436479 GGTTTTAGGTTTAG-TTA
1 GGTTTT-GGTTTAGTTTA
2436496 GGTTTTGGTTTAGTTTA
1 GGTTTTGGTTTAGTTTA
*
2436513 GGTTCTGGTT
1 GGTTTTGGTT
2436523 GGGTTTAGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 7 0.28
17 18 0.72
ACGTcount: A:0.11, C:0.02, G:0.32, T:0.55
Consensus pattern (17 bp):
GGTTTTGGTTTAGTTTA
Found at i:2439073 original size:134 final size:134
Alignment explanation
Indices: 2438924--2439897 Score: 1013
Period size: 134 Copynumber: 7.3 Consensus size: 134
2438914 ATCGAGAAAC
* * * * **
2438924 GTTGATTCATTCCACTGTTC-CTCATGGAAGATTGAATCAAGGCAGACTTATTATGTTGTTACTC
1 GTTGATTCATTCCACTG-TCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCTACTGTTACTC
* *
2438988 AGAGAATATCAAATCTAAAAAGAGAGGGATCTGTTCCGTTTCTTCTTGAGGGAAAATCAGATCTG
65 AGAGAATATCAAATCTAAAAAGAGAGGGATATGTTCCGCTTCTTCTTGAGGGAAAATCAGATCT-
2439053 GGGGA-
129 GGGGAT
* * * * * *
2439058 GTTGATTCATTCCACTATTC-CTCAGGAAAGATTGAATCGAGGTAGACTTATTCCACTGTCACTC
1 GTTGATTCATTCCACT-GTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCTACTGTTACTC
* * * * * * * *
2439122 A-AGGAAT-GCAAAATTTGAAAAGAGAGTGATATGTTCCACTTTTTCTTGAGGGAAAATTAGATT
65 AGA-GAATATC-AAATCTAAAAAGAGAGGGATATGTTCCGCTTCTTCTTGAGGGAAAATCAGATC
2439185 TGGGGAT
128 TGGGGAT
* * *
2439192 GTTGATTCATTTCACTATTC-CTCAGGGAAGATTGAATCGAGGCAGACTTGTT-TCACTGTTATT
1 GTTGATTCATTCCACT-GTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCT-ACTGTTACT
* * * * *
2439255 CATG-GAATATCAAATCTAAAAAGATAGAGATATGTTCCACTTCTTCTTAAGGGAAAATCAGATA
64 CA-GAGAATATCAAATCTAAAAAGAGAGGGATATGTTCCGCTTCTTCTTGAGGGAAAATCAGATC
2439319 TGGGGAT
128 TGGGGAT
* ** * * *
2439326 GTTGATTCATTCCACTGTCACTTAGGGAAGATT-AATCGAGATAGACTTGTTCCACTGTCACTTA
1 GTTGATTCATTCCACTGTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCTACTGTTACTCA
* * * * * * * * *
2439390 GAAAATATCAAACCTGAAAATAGA--GATATGTTCTGCTTCTTTTTTAGGGAAAATCAGATTTGA
66 GAGAATATCAAATCTAAAAAGAGAGGGATATGTTCCGCTTCTTCTTGAGGGAAAATCAGATCTGG
2439453 GGAT
131 GGAT
* * *
2439457 GTTGATTCATTCCTA-TGTCACTCATGGAAGATTGAACCGAGGCAAACTTGTTCTACTGTTACTC
1 GTTGATTCATTCC-ACTGTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCTACTGTTACTC
* * * * * * *
2439521 AGGGAATATCAAATATGAAAATAGAGGGATTTGTTCCGCTTCTTCTTGAGGAAAAATCAGATCTA
65 AGAGAATATCAAATCTAAAAAGAGAGGGATATGTTCCGCTTCTTCTTGAGGGAAAATCAGATCTG
*
2439586 GGGAA
130 GGGAT
* * * * *
2439591 GTTTATTCATTCCACTATCACTCAGGGAATATTGAATCGAGGCAGACTTGTTCCACTTTTACTCA
1 GTTGATTCATTCCACTGTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCTACTGTTACTCA
* * * * * *
2439656 GGGAATATCAAATCTAAAAAGAGAGAGATTTGTTCTGCTTCTTCTTTAGGGAAAATCAGATCTTG
66 GAGAATATCAAATCTAAAAAGAGAGGGATATGTTCCGCTTCTTCTTGAGGGAAAATCAGATCTGG
*
2439721 GTAT
131 GGAT
* * * *
2439725 GTTGATTTATTCCACTGTCACTCAGGGATGATTGAATCAAGGCAGACTTGTTCTACTATTACTCA
1 GTTGATTCATTCCACTGTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCTACTGTTACTCA
* * ** * * * *
2439790 GGGAATATCAAATTTGAAAATTAG-GGGAATCTTTTCCGCTTCTTCTTAAGAGAAAATCAGATCT
66 GAGAATATCAAATCT-AAAAAGAGAGGG-ATATGTTCCGCTTCTTCTTGAGGGAAAATCAGATCT
2439854 GGGGAT
129 GGGGAT
*
2439860 GTTGATTCATTCCACTGGT-ATTCAGGGAAGATTGAATC
1 GTTGATTCATTCCACT-GTCACTCAGGGAAGATTGAATC
2439898 AAGTTCGATT
Statistics
Matches: 703, Mismatches: 118, Indels: 37
0.82 0.14 0.04
Matches are distributed among these distances:
131 66 0.09
132 46 0.07
133 51 0.07
134 464 0.66
135 74 0.11
136 2 0.00
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.33
Consensus pattern (134 bp):
GTTGATTCATTCCACTGTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCTACTGTTACTCA
GAGAATATCAAATCTAAAAAGAGAGGGATATGTTCCGCTTCTTCTTGAGGGAAAATCAGATCTGG
GGAT
Found at i:2439941 original size:399 final size:397
Alignment explanation
Indices: 2438924--2439941 Score: 1093
Period size: 399 Copynumber: 2.5 Consensus size: 397
2438914 ATCGAGAAAC
* * * **
2438924 GTTGATTCATTCCACTGTTC-CTCATGGAAGATTGAATCAAGGCAGACTTATTATGTTGTTACTC
1 GTTGATTCATTCCACTG-TCACTCAGGGAAGATTGAATCAAGGCAGACTTGTTCTACTGTTACTC
* * * *
2438988 AGAGAATATCAAATCTAAAAAGAGAGGGATCTGTTCCGTTTCTTCTTGAGGGAAAATCAGATCTG
65 AGAGAATATCAAATCTGAAAATAG-GGGATCTGTTCCGCTTCTTCTTAAGGGAAAATCAGATCT-
* * * * *
2439053 GGGGA-GTTGATTCATTCCACTATTCCTCAGGAAAGATTGAATCGAGGTAGACTTATTCCACTGT
128 GGGGATGTTGATTCATTCCACT-GTACTCAGGGAAGATTGAATCGA-GTCGACTTATTCTACTGT
* * * * * * * *
2439117 CACTCAAGGAAT-GCAAAATTTGAAAAGAGAGTGATATGTTCCACTTTTTCTTGAGGGAAAATTA
191 C-TTCAA-GAATAAC-AAATATGAAAATAGAGGGATATGTTCCACTTCTTCTTGAGGAAAAATCA
* * * * *
2439181 GATTTGGGGATGTTGATTCATTTCACTATTCCTCAGGGAAGATTGAATCGAGGCAGACTTGTTTC
253 GATCTAGGGAAGTTGATTCATTCCACTATTCCTCAGGGAAGATTGAATCGAGGCAGACTTGTTCC
* * *
2439246 ACTGTTATTCATGGAATATCAAATCTAAAAAGATAGAGATATGTTCCACTTCTTCTTAAGGGAAA
318 ACTGTTACTCAGGGAATATCAAATCTAAAAAGAGAGAGATATGTTCCACTTCTTCTTAAGGGAAA
2439311 ATCAGATATGGGGAT
383 ATCAGATATGGGGAT
* * ** * * *
2439326 GTTGATTCATTCCACTGTCACTTAGGGAAGATT-AATCGAGATAGACTTGTTCCACTGTCACTTA
1 GTTGATTCATTCCACTGTCACTCAGGGAAGATTGAATCAAGGCAGACTTGTTCTACTGTTACTCA
* * * * * * * * *
2439390 GAAAATATCAAACCTGAAAATA-GAGATATGTTCTGCTTCTTTTTTAGGGAAAATCAGATTTGAG
66 GAGAATATCAAATCTGAAAATAGGGGATCTGTTCCGCTTCTTCTTAAGGGAAAATCAGATCTGGG
* * * * *
2439454 GATGTTGATTCATTCCTA-TGTCACTCATGGAAGATTGAACCGAGGCAAACTTGTTCTACTGT-T
131 GATGTTGATTCATTCC-ACTGT-ACTCAGGGAAGATTGAATCGAGTC-GACTTATTCTACTGTCT
* * * *
2439517 ACTCAGGGAATATCAAATATGAAAATAGAGGGATTTGTTCCGCTTCTTCTTGAGGAAAAATCAGA
193 --TCA-AGAATAACAAATATGAAAATAGAGGGATATGTTCCACTTCTTCTTGAGGAAAAATCAGA
* *
2439582 TCTAGGGAAGTTTATTCATTCCACTA-TCACTCAGGGAATATTGAATCGAGGCAGACTTGTTCCA
255 TCTAGGGAAGTTGATTCATTCCACTATTC-CTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCA
* * ** *
2439646 CTTTTACTCAGGGAATATCAAATCTAAAAAGAGAGAGATTTGTTCTGCTTCTTCTTTAGGGAAAA
319 CTGTTACTCAGGGAATATCAAATCTAAAAAGAGAGAGATATGTTCCACTTCTTCTTAAGGGAAAA
* * *
2439711 TCAGATCTTGGTAT
384 TCAGATATGGGGAT
* * *
2439725 GTTGATTTATTCCACTGTCACTCAGGGATGATTGAATCAAGGCAGACTTGTTCTACTATTACTCA
1 GTTGATTCATTCCACTGTCACTCAGGGAAGATTGAATCAAGGCAGACTTGTTCTACTGTTACTCA
* * * *
2439790 GGGAATATCAAATTTGAAAATTAGGGGAATCTTTTCCGCTTCTTCTTAAGAGAAAATCAGATCTG
66 GAGAATATCAAATCTGAAAA-TAGGGG-ATCTGTTCCGCTTCTTCTTAAGGGAAAATCAGATCTG
* * * **
2439855 GGGATGTTGATTCATTCCACTGGTATTCAGGGAAGATTGAATCAAGTTCGA-TT-TTTTTTTGTC
129 GGGATGTTGATTCATTCCACT-GTACTCAGGGAAGATTGAATCGAG-TCGACTTATTCTACTGTC
*
2439918 TTCAAGAATAACAAATCTGAAAAT
192 TTCAAGAATAACAAATATGAAAAT
2439942 TAAACATTAA
Statistics
Matches: 500, Mismatches: 98, Indels: 39
0.78 0.15 0.06
Matches are distributed among these distances:
398 8 0.02
399 294 0.59
400 45 0.09
401 49 0.10
402 34 0.07
403 67 0.13
404 3 0.01
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (397 bp):
GTTGATTCATTCCACTGTCACTCAGGGAAGATTGAATCAAGGCAGACTTGTTCTACTGTTACTCA
GAGAATATCAAATCTGAAAATAGGGGATCTGTTCCGCTTCTTCTTAAGGGAAAATCAGATCTGGG
GATGTTGATTCATTCCACTGTACTCAGGGAAGATTGAATCGAGTCGACTTATTCTACTGTCTTCA
AGAATAACAAATATGAAAATAGAGGGATATGTTCCACTTCTTCTTGAGGAAAAATCAGATCTAGG
GAAGTTGATTCATTCCACTATTCCTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTAC
TCAGGGAATATCAAATCTAAAAAGAGAGAGATATGTTCCACTTCTTCTTAAGGGAAAATCAGATA
TGGGGAT
Found at i:2440562 original size:42 final size:41
Alignment explanation
Indices: 2440466--2440566 Score: 105
Period size: 42 Copynumber: 2.4 Consensus size: 41
2440456 AGGTCTTATG
*
2440466 GATGGCCCAAAGGACTTATAATCTTGCTCAAAAGACTTAAA
1 GATGGCCCAAAGGACTTATAATCATGCTCAAAAGACTTAAA
* * * * * **
2440507 GATGACTCGAAGGATTTA-AGCATCATGCTCGAAAGACTTACT
1 GATGGCCCAAAGGACTTATA--ATCATGCTCAAAAGACTTAAA
2440549 GATGGCCCAAAGGACTTA
1 GATGGCCCAAAGGACTTA
2440567 CCAAGTAAGA
Statistics
Matches: 46, Mismatches: 12, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
40 1 0.02
41 14 0.30
42 31 0.67
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.24
Consensus pattern (41 bp):
GATGGCCCAAAGGACTTATAATCATGCTCAAAAGACTTAAA
Found at i:2440885 original size:4 final size:4
Alignment explanation
Indices: 2440876--2442582 Score: 3172
Period size: 4 Copynumber: 430.0 Consensus size: 4
2440866 CAATAAGAAT
2440876 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2440924 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2440972 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2441020 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2441068 TATG -ATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2441115 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2441163 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2441211 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2441259 TATG TATG TATG TATG TATG TATG TATG TATG TA-- TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2441305 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2441353 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2441401 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG -ATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2441448 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2441496 TATG -ATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2441543 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2441591 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * * *
2441639 TATG CATG TATG TATG CATG TATG -ATG CATG CATG CATG CATG CATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
2441686 TATG TATG CATG CATG --TG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * *
2441732 TATG TATA TATG TATG TATG TATG TATG TATG AATG -ATG TATG TATA
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
2441779 TGACG CATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 T-ATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2441828 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2441876 TATG TATG TATG TATG TATG TATG TATG -ATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2441923 TATG TATG --TG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2441969 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2442017 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2442065 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2442113 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2442161 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2442209 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2442257 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2442305 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2442353 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2442401 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2442449 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2442497 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
2442545 TATG TATG TA-- TATG TATG TATG TATG TATG TCTG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2442583 AAATGATGTA
Statistics
Matches: 1671, Mismatches: 17, Indels: 30
0.97 0.01 0.02
Matches are distributed among these distances:
2 8 0.00
3 18 0.01
4 1644 0.98
5 1 0.00
ACGTcount: A:0.25, C:0.01, G:0.25, T:0.49
Consensus pattern (4 bp):
TATG
Found at i:2443972 original size:44 final size:43
Alignment explanation
Indices: 2443909--2444041 Score: 158
Period size: 44 Copynumber: 3.0 Consensus size: 43
2443899 TATTCCTTGA
*
2443909 TGATATGAGCCTTCAAAAATGTCCCAACATTTATTATTTATTGC
1 TGATATGGGCCTTCAAAAATGTCCCAACATTTATTATTT-TTGC
** *
2443953 TGATATGGGCCTTCAAAAATACCCCAACATTTATTATTTTTGGA
1 TGATATGGGCCTTCAAAAATGTCCCAACATTTATTATTTTT-GC
* * * * *
2443997 TGATACGGGACTTCAAAAGTGTCCCAACATTCATCATTTCTTGC
1 TGATATGGGCCTTCAAAAATGTCCCAACATTTATTATTT-TTGC
2444041 T
1 T
2444042 CCAGCACTGA
Statistics
Matches: 75, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
43 2 0.03
44 71 0.95
45 2 0.03
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (43 bp):
TGATATGGGCCTTCAAAAATGTCCCAACATTTATTATTTTTGC
Done.