Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000289.1 Hibiscus syriacus cultivar Beakdansim tig00000533_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: 75869
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Found at i:1236 original size:20 final size:19
Alignment explanation
Indices: 1190--1236 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
1180 AACGACTCCG
*
1190 TTGGTCAATAACGGAAACA
1 TTGGTCAATAACGAAAACA
* *
1209 TTGATCAATAACGAAAAATA
1 TTGGTCAATAACG-AAAACA
1229 TTGGTCAA
1 TTGGTCAA
1237 AGTGTCACAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.45, C:0.13, G:0.17, T:0.26
Consensus pattern (19 bp):
TTGGTCAATAACGAAAACA
Found at i:3876 original size:2 final size:2
Alignment explanation
Indices: 3869--3903 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
3859 AATAAGAATA
3869 AT AT AT AT AT AT AT AT AT A- 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
3904 TAGTTATAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3890 original size:19 final size:19
Alignment explanation
Indices: 3866--3903 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
3856 AAAAATAAGA
3866 ATAATATATATATATATAT
1 ATAATATATATATATATAT
3885 ATAATATATATATATATAT
1 ATAATATATATATATATAT
3904 TAGTTATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
ATAATATATATATATATAT
Found at i:3893 original size:17 final size:17
Alignment explanation
Indices: 3871--3903 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
3861 TAAGAATAAT
3871 ATATATATATATATATA
1 ATATATATATATATATA
3888 ATATATATATATATAT
1 ATATATATATATATAT
3904 TAGTTATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
ATATATATATATATATA
Found at i:3911 original size:15 final size:15
Alignment explanation
Indices: 3869--3902 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
3859 AATAAGAATA
3869 ATAT-ATATATATAT
1 ATATAATATATATAT
3883 ATATAATATATATAT
1 ATATAATATATATAT
3898 ATATA
1 ATATA
3903 TTAGTTATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATATAATATATATAT
Found at i:4598 original size:2 final size:2
Alignment explanation
Indices: 4591--4637 Score: 55
Period size: 2 Copynumber: 24.5 Consensus size: 2
4581 TATCAATAAT
*
4591 TA TA TA TA TA TA TA TA TA TA T- TA TA TG TA TA TA -A GTA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
4631 TA TA TA T
1 TA TA TA T
4638 TATTAAAAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
1 3 0.08
2 35 0.90
3 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4621 original size:17 final size:17
Alignment explanation
Indices: 4591--4637 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
4581 TATCAATAAT
4591 TATA-TATATATATATA
1 TATATTATATATATATA
*
4607 TATATTATATGTATATA
1 TATATTATATATATATA
4624 -AGTATTATATATAT
1 TA-TATTATATATAT
4638 TATTAAAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 5 0.19
17 22 0.81
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (17 bp):
TATATTATATATATATA
Found at i:5659 original size:3 final size:3
Alignment explanation
Indices: 5653--5680 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
5643 CGGCGGCGGC
5653 GGA GGA GGA GGA GGA GGA GGA GGA GGA G
1 GGA GGA GGA GGA GGA GGA GGA GGA GGA G
5681 AGAGTTTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (3 bp):
GGA
Found at i:10136 original size:10 final size:10
Alignment explanation
Indices: 10123--10150 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
10113 GTAGAAAATG
10123 GTTGAAACCA
1 GTTGAAACCA
10133 GTTGAAACCA
1 GTTGAAACCA
10143 GTTGAAAC
1 GTTGAAAC
10151 AGCTAATGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.21
Consensus pattern (10 bp):
GTTGAAACCA
Found at i:13126 original size:45 final size:45
Alignment explanation
Indices: 13036--13335 Score: 485
Period size: 45 Copynumber: 6.6 Consensus size: 45
13026 CCTCCATTCA
* *
13036 TGTTTATAATGCA-CCATTATGCATTTTCAGCTATAGCATACTTTTC
1 TGTTGATAATGCACCCA-TATGCA-TTTCAACTATAGCATACTTTTC
* * *
13082 TGTTGATAATGTACCCATATGCATTTCAACTGTAGCATATTTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
*
13127 TGTTGATAATGCACCCATATGCATTTCAACTGTAGCATACTTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
*
13172 TGTTGATAATGCACCCATATGCATTTCAACTGTAGCATACTTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
*
13217 TGTTGATAATGCACCCATATGCATTTCAACTATAGCGTACTTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
*
13262 TGTTGATAATGTACCCATATGCATTTCAACTATAGCATACTTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
*
13307 TGTTGATAATGCACCCACATGCATTTCAA
1 TGTTGATAATGCACCCATATGCATTTCAA
13336 TTATGACATC
Statistics
Matches: 240, Mismatches: 13, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
45 220 0.92
46 17 0.07
47 3 0.01
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.39
Consensus pattern (45 bp):
TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
Found at i:13361 original size:135 final size:135
Alignment explanation
Indices: 13036--13376 Score: 431
Period size: 135 Copynumber: 2.5 Consensus size: 135
13026 CCTCCATTCA
* * * * * ** *
13036 TGTTTATAATGCA-CCATTATGCATTTTCAGCTATAGCATACTTTTCTGTTGATAATGTACCCAT
1 TGTTGATAATGCACCCA-CATGCA-TTTCAACTGTAGCATACCTTTCTGTCAATAATGCACCCAT
* * *
13100 ATGCATTTCAACTGTAGCATATTTTTCTGTTGATAATGCACCCATATGCATTTCAACTGTAGCAT
64 ATGCATTTCAACTATAGCATACTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGCAT
13165 ACTTTTC
129 ACTTTTC
* * **
13172 TGTTGATAATGCACCCATATGCATTTCAACTGTAGCATACTTTTCTGTTGATAATGCACCCATAT
1 TGTTGATAATGCACCCACATGCATTTCAACTGTAGCATACCTTTCTGTCAATAATGCACCCATAT
* *
13237 GCATTTCAACTATAGCGTACTTTTCTGTTGATAATGTACCCATATGCATTTCAACTATAGCATAC
66 GCATTTCAACTATAGCATACTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGCATAC
13302 TTTTC
131 TTTTC
*
13307 TGTTGATAATGCACCCACATGCATTTCAA-T-TATGACAT-CCTTTCAT-TCCAATAATGCAGCC
1 TGTTGATAATGCACCCACATGCATTTCAACTGTA-G-CATACCTTTC-TGT-CAATAATGCACCC
13368 ATATGCATT
62 ATATGCATT
13377 ATTATTTTCA
Statistics
Matches: 186, Mismatches: 14, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
133 2 0.01
134 8 0.04
135 155 0.83
136 18 0.10
137 3 0.02
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.39
Consensus pattern (135 bp):
TGTTGATAATGCACCCACATGCATTTCAACTGTAGCATACCTTTCTGTCAATAATGCACCCATAT
GCATTTCAACTATAGCATACTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGCATAC
TTTTC
Found at i:20109 original size:45 final size:45
Alignment explanation
Indices: 20016--20360 Score: 489
Period size: 45 Copynumber: 7.6 Consensus size: 45
20006 TGTAACCTCC
*
20016 TTTCATGTTTATAATGCA-CCATTATGCATTTTCAACTATAGCATACT
1 TTTC-TGTTGATAATGCACCCA-TATGCA-TTTCAACTATAGCATACT
* * *
20063 TTTATGTTGATAATACACCCATATGCATTTCAACTATAGAATACT
1 TTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGCATACT
* **
20108 TTTCTGTTGATAATGCACCCATACGCATTTCAACTATAATATACT
1 TTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGCATACT
*
20153 TTTCTGTTGATAATGCACCCATATGCATTTCAACTATTGCATACT
1 TTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGCATACT
20198 TTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGCATACT
1 TTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGCATACT
* * *
20243 TTTTTGTTGATAATGCACCAATATGCATTTCAACTATAGAATACT
1 TTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGCATACT
* * *
20288 TTTCTGTTGATAATGCA-CCATATGTATTTCAACTATGGCAT-CC
1 TTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGCATACT
* *
20331 TTTCATGCTGATAATGCACCCATATACATT
1 TTTC-TGTTGATAATGCACCCATATGCATT
20361 ATTATTTTCA
Statistics
Matches: 269, Mismatches: 26, Indels: 8
0.89 0.09 0.03
Matches are distributed among these distances:
43 5 0.02
44 32 0.12
45 209 0.78
46 17 0.06
47 6 0.02
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.39
Consensus pattern (45 bp):
TTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGCATACT
Found at i:24948 original size:18 final size:18
Alignment explanation
Indices: 24927--24961 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
24917 TTCAGTCTTG
*
24927 TTTTCATTTTCTTCTTTC
1 TTTTAATTTTCTTCTTTC
*
24945 TTTTAATTTTTTTCTTT
1 TTTTAATTTTCTTCTTT
24962 TTGAGAAGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTTAATTTTCTTCTTTC
Found at i:31212 original size:6 final size:6
Alignment explanation
Indices: 31197--31934 Score: 1359
Period size: 6 Copynumber: 124.2 Consensus size: 6
31187 TACATTCATG
31197 ACAT-T ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
31244 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
31292 ACATAT ACATAT ACATAT ACATAT AC--AT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* *
31338 ACACAT ACACAT ACATAT ACATAT ACATAT ACATAT ACATAT AC--AT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
31384 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
31432 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
31480 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
31528 ACACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 --ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
31578 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
31626 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
31674 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
31722 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
31770 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
31818 ACATAT AC--AT ACATAT ACATAT ACATAT AC--AT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
31862 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* *
31910 ACATAT ACATAT ATATAT GCATAT A
1 ACATAT ACATAT ACATAT ACATAT A
31935 TAATTTTATA
Statistics
Matches: 716, Mismatches: 6, Indels: 21
0.96 0.01 0.03
Matches are distributed among these distances:
4 16 0.02
5 4 0.01
6 690 0.96
8 6 0.01
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
ACATAT
Found at i:32107 original size:31 final size:33
Alignment explanation
Indices: 32072--32132 Score: 90
Period size: 31 Copynumber: 1.9 Consensus size: 33
32062 AGGATCAAGA
*
32072 TTGACTTAAACC-GCTAA-GGGAGTCATCTCAT
1 TTGACTTAAACCTGCGAAGGGGAGTCATCTCAT
*
32103 TTGACTTAGACCTGCGAAGGGGAGTCATCT
1 TTGACTTAAACCTGCGAAGGGGAGTCATCT
32133 AAAGAATCCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 11 0.42
32 4 0.15
33 11 0.42
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (33 bp):
TTGACTTAAACCTGCGAAGGGGAGTCATCTCAT
Found at i:33073 original size:17 final size:17
Alignment explanation
Indices: 33051--33087 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
33041 CCGACCCGAC
33051 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
33068 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
33085 TGA
1 TGA
33088 TCGTTGACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.19, C:0.43, G:0.24, T:0.14
Consensus pattern (17 bp):
TGACCCGACCCGACCGT
Found at i:40159 original size:7 final size:7
Alignment explanation
Indices: 40143--40180 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
40133 AATCCGACCC
40143 GACCGTT
1 GACCGTT
*
40150 GACTGTT
1 GACCGTT
40157 GACCGTT
1 GACCGTT
40164 GACCGTT
1 GACCGTT
40171 GACCGTT
1 GACCGTT
40178 GAC
1 GAC
40181 TTCCTTTGAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.16, C:0.26, G:0.29, T:0.29
Consensus pattern (7 bp):
GACCGTT
Found at i:43513 original size:141 final size:141
Alignment explanation
Indices: 43259--43514 Score: 368
Period size: 141 Copynumber: 1.8 Consensus size: 141
43249 AACTTGAAAA
* * * * *
43259 TGGAGGTTCTAATGTTAATCCTAATTTGTTTTAACCAATTATTGAGTCGAATAATCAAAATGGTC
1 TGGAGGCTCTAATATTAATCCTAATTTATTTTAACCAATTATTGAATCGAATAATCAAAATGATC
* * *
43324 CCTCGAGCATGTTAATGCGAAAGCCAATTCAAATTACTCTCTATATTAAAGGACAAAAGTGAAAT
66 CCTCGAGCATGTTAATGCGAAAGCCAAATCAAATTACTCCCTAAATTAAAGGACAAAAGTGAAAT
43389 TAGACCTAAAT
131 TAGACCTAAAT
* * **
43400 TGGAGGCTCTAATATTAATCTTAATTTATTTTAACCAATTCTTGAATCGAATAATTGAAATGATC
1 TGGAGGCTCTAATATTAATCCTAATTTATTTTAACCAATTATTGAATCGAATAATCAAAATGATC
* * * *
43465 CCTTGAGCATTTTAATGCGAGAGCCAAATCAAATTATTCCCTAAATTAAA
66 CCTCGAGCATGTTAATGCGAAAGCCAAATCAAATTACTCCCTAAATTAAA
43515 AGTTTAGGGA
Statistics
Matches: 99, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
141 99 1.00
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.34
Consensus pattern (141 bp):
TGGAGGCTCTAATATTAATCCTAATTTATTTTAACCAATTATTGAATCGAATAATCAAAATGATC
CCTCGAGCATGTTAATGCGAAAGCCAAATCAAATTACTCCCTAAATTAAAGGACAAAAGTGAAAT
TAGACCTAAAT
Found at i:46243 original size:44 final size:44
Alignment explanation
Indices: 46157--46244 Score: 106
Period size: 44 Copynumber: 2.0 Consensus size: 44
46147 AAAATAATAT
* *
46157 TGATGCTATTCCAACTCCTTATGTGAAGGAAACGAGCGAAATGG
1 TGATGCTATTCCAACTCCTTATGTGAAGGAAACGAACAAAATGG
* * * *
46201 TGATGCTGA-TCCAACTTCTTATGTGATGGAATCTAACAAAATGG
1 TGATGCT-ATTCCAACTCCTTATGTGAAGGAAACGAACAAAATGG
46245 AAATGTTCTA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.97
45 1 0.03
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (44 bp):
TGATGCTATTCCAACTCCTTATGTGAAGGAAACGAACAAAATGG
Found at i:49177 original size:35 final size:35
Alignment explanation
Indices: 49131--49205 Score: 114
Period size: 35 Copynumber: 2.1 Consensus size: 35
49121 AAAATACTTT
49131 AATTTAGGGTTTAGAATGTAATTAAAGTATTTTGA
1 AATTTAGGGTTTAGAATGTAATTAAAGTATTTTGA
* * * *
49166 AATTTGGGGTTTAGAATGTAATTTAAGTGTTTTGG
1 AATTTAGGGTTTAGAATGTAATTAAAGTATTTTGA
49201 AATTT
1 AATTT
49206 TGAACATGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.32, C:0.00, G:0.23, T:0.45
Consensus pattern (35 bp):
AATTTAGGGTTTAGAATGTAATTAAAGTATTTTGA
Found at i:50312 original size:35 final size:35
Alignment explanation
Indices: 50257--50333 Score: 100
Period size: 35 Copynumber: 2.2 Consensus size: 35
50247 TCTAAACCCT
* *
50257 AAATTAAAGTATTTTAGAATTTAGGATTTAAAATA
1 AAATTGAATTATTTTAGAATTTAGGATTTAAAATA
* * * *
50292 TAATTGAATTATTTTGGAATTTAGGGTTTAGAATA
1 AAATTGAATTATTTTAGAATTTAGGATTTAAAATA
50327 AAATTGA
1 AAATTGA
50334 GGACTGTGTT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.43, C:0.00, G:0.16, T:0.42
Consensus pattern (35 bp):
AAATTGAATTATTTTAGAATTTAGGATTTAAAATA
Found at i:53918 original size:22 final size:22
Alignment explanation
Indices: 53863--53921 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
53853 TTACATTATG
*
53863 TTTTATTGA-ATTTTATTCACT
1 TTTTATTGATTTTTTATTCACT
* **
53884 TTTAATTCTTTTTTTATTGCA-T
1 TTTTATTGATTTTTTATT-CACT
53906 TTTTATTGATTTTTTA
1 TTTTATTGATTTTTTA
53922 AAAAGTGAAT
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
21 6 0.21
22 21 0.72
23 2 0.07
ACGTcount: A:0.20, C:0.07, G:0.05, T:0.68
Consensus pattern (22 bp):
TTTTATTGATTTTTTATTCACT
Found at i:54555 original size:16 final size:16
Alignment explanation
Indices: 54534--54564 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
54524 TCAAACTAGA
54534 TTGAGTTTAATGGGAT
1 TTGAGTTTAATGGGAT
54550 TTGAGTTTAATGGGA
1 TTGAGTTTAATGGGA
54565 CTTATCACCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (16 bp):
TTGAGTTTAATGGGAT
Found at i:57432 original size:2 final size:2
Alignment explanation
Indices: 57425--57454 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
57415 AACATGGAGT
57425 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
57455 GACTATATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:58278 original size:23 final size:23
Alignment explanation
Indices: 58248--58307 Score: 93
Period size: 23 Copynumber: 2.6 Consensus size: 23
58238 CATTTTATAT
58248 GGCACTTCGGTGCAATTCTACGC
1 GGCACTTCGGTGCAATTCTACGC
*
58271 GGCACTTCGGTGCAATTCTACGT
1 GGCACTTCGGTGCAATTCTACGC
* *
58294 GACACTTTGGTGCA
1 GGCACTTCGGTGCA
58308 TTTATACGAG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.18, C:0.27, G:0.27, T:0.28
Consensus pattern (23 bp):
GGCACTTCGGTGCAATTCTACGC
Found at i:60057 original size:39 final size:39
Alignment explanation
Indices: 60014--60136 Score: 131
Period size: 39 Copynumber: 3.2 Consensus size: 39
60004 AAATAATCAC
* *
60014 CCTCACCTTAGGTGTTATCTCCTTTATTACATTCAACAT
1 CCTCACCTTAGGTATTATCTCCTTTATTACACTCAACAT
* * *
60053 CCTCACCTTAGGAATTAT-TACCTTTATTACGCTCACCAT
1 CCTCACCTTAGGTATTATCT-CCTTTATTACACTCAACAT
* * * * **
60092 CATTACCTTAGGTATTACCGCCTTTATTACACTCATTAT
1 CCTCACCTTAGGTATTATCTCCTTTATTACACTCAACAT
60131 CCTCAC
1 CCTCAC
60137 ATTAAGCATT
Statistics
Matches: 67, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
38 1 0.01
39 66 0.99
ACGTcount: A:0.24, C:0.30, G:0.07, T:0.38
Consensus pattern (39 bp):
CCTCACCTTAGGTATTATCTCCTTTATTACACTCAACAT
Found at i:66367 original size:140 final size:142
Alignment explanation
Indices: 66182--66477 Score: 379
Period size: 140 Copynumber: 2.1 Consensus size: 142
66172 TCAAACTAGG
* *
66182 AAATTAAAGAACCT-AAA-G-TACTAAACCTAAATATGTAGGCTCTAATATTAA-CACTAATTTG
1 AAATTAAAGAA-CTAAAATGATAATAAACCTAAATATGTAGGCTCTAATATTAATC-CTAATTTA
* * * * * **
66243 TTTTAACCAATTATTGTGTCGAATAATCAAAATAGTCCCTCGGGCATGTTAATGCGATAGCTTAT
64 TTTTAACCAATTATCGAGTCGAATAATCAAAATAGTCCATCGAGCATGTTAATGCGAGAGCCAAT
66308 TCAAATTACCCCTT
129 TCAAATTACCCCTT
* *
66322 AAATTAAAGGACTAAAATGATAATAAACCTAAA-GTG-AGGCTCTAATATTAATCCTAATTTATT
1 AAATTAAAGAACTAAAATGATAATAAACCTAAATATGTAGGCTCTAATATTAATCCTAATTTATT
* * * * *
66385 TTAACCAATTATCGAGTTGAATAATCGAAATGGTCTATCGAGCATGTTAATGTGAGAGCCAATTC
66 TTAACCAATTATCGAGTCGAATAATCAAAATAGTCCATCGAGCATGTTAATGCGAGAGCCAATTC
*
66450 AAATTACTCCTT
131 AAATTACCCCTT
66462 AAATTAAAGAACTAAA
1 AAATTAAAGAACTAAA
66478 GTATGAGAAA
Statistics
Matches: 134, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
139 2 0.01
140 116 0.87
141 4 0.03
142 12 0.09
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.32
Consensus pattern (142 bp):
AAATTAAAGAACTAAAATGATAATAAACCTAAATATGTAGGCTCTAATATTAATCCTAATTTATT
TTAACCAATTATCGAGTCGAATAATCAAAATAGTCCATCGAGCATGTTAATGCGAGAGCCAATTC
AAATTACCCCTT
Found at i:67273 original size:31 final size:34
Alignment explanation
Indices: 67202--67283 Score: 89
Period size: 36 Copynumber: 2.4 Consensus size: 34
67192 CGTATTCTAA
* *
67202 TTCCCCCTATTTTTCATCATTTCCCGCACGCTTGATC
1 TTCCCCC-ATTTTTCATCAGTTCACGCACGC-TGA-C
67239 TTCCCCCATTTTTCATCAGTTCACGC-CG-TG-C
1 TTCCCCCATTTTTCATCAGTTCACGCACGCTGAC
*
67270 TTCCCCAATTTTTC
1 TTCCCCCATTTTTC
67284 TCTATTTCCC
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
31 14 0.33
33 2 0.05
35 2 0.05
36 17 0.40
37 7 0.17
ACGTcount: A:0.13, C:0.38, G:0.09, T:0.40
Consensus pattern (34 bp):
TTCCCCCATTTTTCATCAGTTCACGCACGCTGAC
Found at i:69539 original size:24 final size:24
Alignment explanation
Indices: 69507--69564 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
69497 CCGATTCATT
69507 GAAGTCACTTCTTGAAGAATGTGA
1 GAAGTCACTTCTTGAAGAATGTGA
69531 GAAGTCACTTCTTGAAGAATGTGA
1 GAAGTCACTTCTTGAAGAATGTGA
*
69555 GAAGCCACTT
1 GAAGTCACTT
69565 TACGTAGGGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.28
Consensus pattern (24 bp):
GAAGTCACTTCTTGAAGAATGTGA
Found at i:71417 original size:83 final size:85
Alignment explanation
Indices: 71211--71516 Score: 411
Period size: 85 Copynumber: 3.6 Consensus size: 85
71201 GTCTTTTTAA
* * * **
71211 ATGACGTGTGCTTCAATGACACGCAATGTAAGTCATATACGCGTGTCATAAATTTATGACACACA
1 ATGACGGGGGCTTCAATGACACGCAATGTAAGTCATACATACGTGTCATAAATTTATGACACACA
* *
71276 AATGTATGTCA-AATAGATTT
66 AATGTGTGTCATATTA-ATTT
* * *
71296 ATGACGGGGGCTTCAATGACGCGCAATGTAAGTCATACATACGTGTCATAAATTTATGACGCATA
1 ATGACGGGGGCTTCAATGACACGCAATGTAAGTCATACATACGTGTCATAAATTTATGACACACA
*
71361 AATGTGTGTCATCTTAA-TT
66 AATGTGTGTCATATTAATTT
* * ** *
71380 -TGACGGGGGCTTTAATGACGCGCAATGTAAGTCATACATGTGTGTCATAAATTTATGACAAACA
1 ATGACGGGGGCTTCAATGACACGCAATGTAAGTCATACATACGTGTCATAAATTTATGACACACA
*
71444 AATATGTGTCATATTAATTT
66 AATGTGTGTCATATTAATTT
* *
71464 ATGACGGAGGCTTCAATGACACGCAATGTAAGTCATACATACGCGTCATAAAT
1 ATGACGGGGGCTTCAATGACACGCAATGTAAGTCATACATACGTGTCATAAAT
71517 GTGCGTCATA
Statistics
Matches: 193, Mismatches: 25, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
83 73 0.38
84 4 0.02
85 114 0.59
86 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (85 bp):
ATGACGGGGGCTTCAATGACACGCAATGTAAGTCATACATACGTGTCATAAATTTATGACACACA
AATGTGTGTCATATTAATTT
Found at i:72721 original size:15 final size:15
Alignment explanation
Indices: 72703--72736 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
72693 AATAACAATG
72703 AAAA-TAAAAAGGAAA
1 AAAATTAAAAA-GAAA
72718 AAAATTAAAAAGAAA
1 AAAATTAAAAAGAAA
72733 AAAA
1 AAAA
72737 GAATGAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.82, C:0.00, G:0.09, T:0.09
Consensus pattern (15 bp):
AAAATTAAAAAGAAA
Found at i:72732 original size:27 final size:27
Alignment explanation
Indices: 72687--72754 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 27
72677 ATTTCATAAA
*
72687 GAAAAAAA-TAACAATGAAAATAAA-AAG
1 GAAAAAAATTAA-AAAGAAAA-AAAGAAG
*
72714 GAAAAAAATTAAAAAGAAAAAAAGAAT
1 GAAAAAAATTAAAAAGAAAAAAAGAAG
72741 GAAAAAACATTAAA
1 GAAAAAA-ATTAAA
72755 CATATCATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
26 3 0.08
27 24 0.67
28 9 0.25
ACGTcount: A:0.75, C:0.03, G:0.10, T:0.12
Consensus pattern (27 bp):
GAAAAAAATTAAAAAGAAAAAAAGAAG
Found at i:73898 original size:11 final size:11
Alignment explanation
Indices: 73876--73933 Score: 57
Period size: 11 Copynumber: 5.1 Consensus size: 11
73866 AACTATATAT
73876 AATATGTTTCAA
1 AATAT-TTTCAA
73888 AATATTTTCAA
1 AATATTTTCAA
*
73899 AATATATATT-AT
1 AATAT-T-TTCAA
73911 AA-ATTTTCAAA
1 AATATTTTC-AA
73922 AATATTTTCAA
1 AATATTTTCAA
73933 A
1 A
73934 CTACATGTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
9 2 0.05
10 1 0.03
11 19 0.49
12 15 0.38
13 2 0.05
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (11 bp):
AATATTTTCAA
Found at i:73924 original size:34 final size:33
Alignment explanation
Indices: 73816--73933 Score: 116
Period size: 34 Copynumber: 3.4 Consensus size: 33
73806 TAATAATTAT
73816 AAAATATTTTCAAAACTATATAATACATATTGTT-A
1 AAAATATTTTCAAAACTATAT-ATA-ATATT-TTCA
* *
73851 AAAAAATTGTTTTAAAACTATATATAATATGTTTC-
1 AAAATA-T-TTTCAAAACTATATATAATAT-TTTCA
*
73886 AAAATATTTTCAAAA-TATATATTATAAATTTTCA
1 AAAATATTTTCAAAACTATATA-TA-ATATTTTCA
73920 AAAATATTTTCAAA
1 AAAATATTTTCAAA
73934 CTACATGTTA
Statistics
Matches: 71, Mismatches: 5, Indels: 15
0.78 0.05 0.16
Matches are distributed among these distances:
32 6 0.08
33 13 0.18
34 18 0.25
35 16 0.23
36 5 0.07
37 13 0.18
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.42
Consensus pattern (33 bp):
AAAATATTTTCAAAACTATATATAATATTTTCA
Found at i:73930 original size:12 final size:12
Alignment explanation
Indices: 73876--73933 Score: 52
Period size: 12 Copynumber: 5.0 Consensus size: 12
73866 AACTATATAT
73876 AATATGTTTC-AA
1 AATAT-TTTCAAA
73888 AATATTTTCAAA
1 AATATTTTCAAA
* *
73900 ATATATATT--AT
1 A-ATATTTTCAAA
73911 AA-ATTTTCAAA
1 AATATTTTCAAA
73922 AATATTTTCAAA
1 AATATTTTCAAA
73934 CTACATGTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
9 4 0.11
10 1 0.03
11 9 0.24
12 17 0.46
13 6 0.16
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (12 bp):
AATATTTTCAAA
Found at i:73945 original size:34 final size:34
Alignment explanation
Indices: 73873--73954 Score: 96
Period size: 34 Copynumber: 2.4 Consensus size: 34
73863 TAAAACTATA
*
73873 TATAATATGTTTC-AAAATATTTTCAAAATATATAT
1 TATAA-AT-TTTCAAAAATATTTTCAAAATACATAT
* *
73908 TATAAATTTTCAAAAATATTTTCAAACTACATGT
1 TATAAATTTTCAAAAATATTTTCAAAATACATAT
*
73942 TAT-AGTTTTCAAA
1 TATAAATTTTCAAA
73955 TTTAAAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
33 13 0.31
34 24 0.57
35 5 0.12
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.44
Consensus pattern (34 bp):
TATAAATTTTCAAAAATATTTTCAAAATACATAT
Found at i:74078 original size:37 final size:36
Alignment explanation
Indices: 74001--74104 Score: 131
Period size: 37 Copynumber: 2.9 Consensus size: 36
73991 GTTTTTTTAA
74001 AAAAAC-ATATATATATAT-ATTTTCAAAATGACTT
1 AAAAACTATATATATATATAATTTTCAAAATGACTT
**
74035 AAAAACTATATATTATATATAATTTTCAAAATGTTTT
1 AAAAACTATATA-TATATATAATTTTCAAAATGACTT
** *
74072 GGAAACTATATATATGTATAAATTTTCAAAATG
1 AAAAACTATATATATATAT-AATTTTCAAAATG
74105 CTTTATAGTT
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
34 6 0.10
35 5 0.08
36 13 0.21
37 37 0.61
ACGTcount: A:0.47, C:0.07, G:0.06, T:0.40
Consensus pattern (36 bp):
AAAAACTATATATATATATAATTTTCAAAATGACTT
Found at i:74774 original size:78 final size:80
Alignment explanation
Indices: 74674--75746 Score: 735
Period size: 78 Copynumber: 13.4 Consensus size: 80
74664 AATTTATTGA
* * * * *
74674 CAGATAGCCCTTCTTG-CCTGAGCTATGCTGTAAATGATGTGCCTTGGAGCTGAGCATAGTCGAA
1 CAGATAACCCTTCTAGACTTGAGTTATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
74738 CTCAAAGGTC-TTGG
66 CTCAAAGGTCTTTGG
* * * * *** * * * *
74752 CAGATAGCCCTTC-AGCCTTGAGCTATACCCCAAATGATGTGTCATT-GAGTTGAGCGTAATCAA
1 CAGATAACCCTTCTAGACTTGAGTTATGCTGTAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGA
74815 ACTCAAAGGTCTTGTTGG
65 ACTCAAAGGTC-T-TTGG
** * * *
74833 CA-ATAACCCTTCTAG-CATTGAGTTATGCTACAAATGATGTGCCCTCGAAGCTGAG-GTAATCG
1 CAGATAACCCTTCTAGAC-TTGAGTTATGCTGTAAATGATGTG-CCTTGGAGCTGAGCGTAGTCG
* *
74895 AACTC-GAGAGTCTTTAG
64 AACTCAAAG-GTCTTTGG
* * * * *
74912 CAGAT-AGCCTTCTCGACTTAAGTTATTCTG-CAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
1 CAGATAACCCTTCTAGACTTGAGTTATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
*
74975 CTCGAAGGTCTTTGGTTAG
66 CTCAAAGGTCTTT-G---G
* * * * * ** *
74994 CAGATAACCCTTCTCGACTTAAGTTATACTGTAAATGATGTGCCCTCGAAGCTGAGTATAATCGA
1 CAGATAACCCTTCTAGACTTGAGTTATGCTGTAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGA
* * *
75059 AC-GAGAGGT-TTTGA
65 ACTCAAAGGTCTTTGG
* * * * * * *
75073 CAG-TAACCCTTCTCGACTTAAGCTATTCTGCAAATAATGTGCCTTGGAGCTGAGCGTAGTCAAA
1 CAGATAACCCTTCTAGACTTGAGTTATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
*
75137 CTCGAAGGTCTTTCGGTG
66 CTCAAAGGTCTTT--G-G
* * * * * *
75155 ACAGATAACCCTTCTAG-CCTGAGTTATGATGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCG
1 -CAGATAACCCTTCTAGACTTGAGTTATGCTGTAAATGATGTG-CCTTGGAGCTGAGCGTAGTCG
* *
75219 AACTCGAGGGTCTTTGG
64 AACTCAAAGGTCTTTGG
* * * * *
75236 CAGATAGCCCTTCTCA-ACTT-ACGCTATGTTGTAAATGATGT--C-TGGAGATG-GCATAGTCG
1 CAGATAACCCTTCT-AGACTTGA-GTTATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCG
75295 AACTCAAAGGTCTTTGGTTGG
64 AACTCAAAGGTC--T--TTGG
* ** * * *
75316 CAGATAACCCTTCTTGACTT-AGTTATATTGTGAATGATGTGGCTTGGAGTTGAGCGTAGTCGAA
1 CAGATAACCCTTCTAGACTTGAGTTATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
**
75380 CTTGAAGGTCTTTTGGTG
66 CTCAAAGGTC-TTT-G-G
* * * * * * *
75398 ACAGATAA-CCTTCTAGCCTTGAGTTATGCTATAAATGATGTGCCCTCGAAGCTGAGTGTAATAG
1 -CAGATAACCCTTCTAGACTTGAGTTATGCTGTAAATGATGTG-CCTTGGAGCTGAGCGTAGTCG
* *
75462 AACTCGAACGTCTTTGG
64 AACTCAAAGGTCTTTGG
* * * * * ** *
75479 TAGATAGCCCTTC--GACTTAAGATATGCTGCAAATGACATGCCTTGGAGTTGAGCGTAGTCGAA
1 CAGATAACCCTTCTAGACTTGAGTTATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
75542 CTCAAAGGTCTTGGTTGG
66 CTCAAAGGTC-T--TTGG
* * * ** * * *
75560 CAGATAACCCTTCTAGCCTTGAG-TATGTTGTAAATGATGTGCCCTCAATACTGAGTGTAATCGA
1 CAGATAACCCTTCTAGACTTGAGTTATGCTGTAAATGATGTGCCTTGGA-GCTGAGCGTAGTCGA
*
75624 ACT-AGAGGTCTTTGG
65 ACTCAAAGGTCTTTGG
* * * **
75639 CAGATAGCCCTTC--GACTTAAGCTATGCTACAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
1 CAGATAACCCTTCTAGACTTGAGTTATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
*
75702 CTCGAAGGTCTGTTGG
66 CTCAAAGGTCT-TTGG
* *
75718 CAGATAACCCTTCTCGACTTAAGTTATGC
1 CAGATAACCCTTCTAGACTTGAGTTATGC
75747 AGCAAAAGTT
Statistics
Matches: 778, Mismatches: 160, Indels: 111
0.74 0.15 0.11
Matches are distributed among these distances:
76 16 0.02
77 56 0.07
78 173 0.22
79 103 0.13
80 59 0.08
81 103 0.13
82 59 0.08
83 112 0.14
84 78 0.10
85 19 0.02
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (80 bp):
CAGATAACCCTTCTAGACTTGAGTTATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
CTCAAAGGTCTTTGG
Found at i:75201 original size:161 final size:163
Alignment explanation
Indices: 74671--75356 Score: 635
Period size: 162 Copynumber: 4.3 Consensus size: 163
74661 ACCAATTTAT
* * * * * * * *
74671 TGACAGATAGCCCTTCTTGCCTGAGCTATGCTGTAAATGATGTG-CCTTGGAGCTGAGCATAGTC
1 TGACAGATAACCCTTCTAGCCTGAGTTATGATGTAAATGATGTGCCCTCGAAGCTGAGTATAATC
* * * * * * * ** *
74735 GAACTC-AAAGGTC-TTGGCAGATAGCCCTTC-AGCCTTGAGCTATACCCCAAATGATGTGTCAT
66 GAAC-CGAGAGGTCTTTGACAGATAACCCTTCTCGACTTAAGCTATTCTGCAAATGATGTG-CCT
* * *
74797 T-GAGTTGAGCGTAATCAAACTCAAAGGTC-TTGT
129 TGGAGCTGAGCGTAGTCAAACTCAAAGGTCTTTGG
* * * ** *
74830 TGGCA-ATAACCCTTCTAGCATTGAGTTATGCTACAAATGATGTGCCCTCGAAGCTGAG-GTAAT
1 TGACAGATAACCCTTCTAGC-CTGAGTTATGATGTAAATGATGTGCCCTCGAAGCTGAGTATAAT
* *
74893 CGAACTCGAGA-GTCTTT-AGCAGAT-AGCCTTCTCGACTTAAGTTATTCTGC-AATGATGTGCC
65 CGAAC-CGAGAGGTCTTTGA-CAGATAACCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCC
* *
74954 TTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
128 TTGGAGCTGAGCGTAGTCAAACTCAAAGGTCTTTGG
* * * *
74990 TTAGCAGATAACCCTTCTCGACTTAAGTTAT-ACTGTAAATGATGTGCCCTCGAAGCTGAGTATA
1 TGA-CAGATAACCCTTCTAG-CCTGAGTTATGA-TGTAAATGATGTGCCCTCGAAGCTGAGTATA
*
75054 ATCGAA-CGAGAGGT-TTTGACAG-TAACCCTTCTCGACTTAAGCTATTCTGCAAATAATGTGCC
63 ATCGAACCGAGAGGTCTTTGACAGATAACCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCC
*
75116 TTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTCGG
128 TTGGAGCTGAGCGTAGTCAAACTCAAAGGTCTTT-GG
*
75153 TGACAGATAACCCTTCTAGCCTGAGTTATGATGTAAATGATGTGCCCTCGAAGCTGAGTGTAATC
1 TGACAGATAACCCTTCTAGCCTGAGTTATGATGTAAATGATGTGCCCTCGAAGCTGAGTATAATC
* * * * *
75218 GAACTCGAG-GGTCTTTGGCAGATAGCCCTTCTCAACTTACGCTATGT-TGTAAATGATGT--C-
66 GAAC-CGAGAGGTCTTTGACAGATAACCCTTCTCGACTTAAGCTAT-TCTGCAAATGATGTGCCT
* * *
75278 TGGAGATG-GCATAGTCGAACTCAAAGGTCTTTGG
129 TGGAGCTGAGCGTAGTCAAACTCAAAGGTCTTTGG
* * * * *
75312 TTGGCAGATAACCCTTCTTGACTTAGTTAT-ATTGTGAATGATGTG
1 -TGACAGATAACCCTTCTAGCCTGAGTTATGA-TGTAAATGATGTG
75357 GCTTGGAGTT
Statistics
Matches: 441, Mismatches: 60, Indels: 51
0.80 0.11 0.09
Matches are distributed among these distances:
158 15 0.03
159 78 0.18
160 94 0.21
161 88 0.20
162 111 0.25
163 24 0.05
164 30 0.07
165 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (163 bp):
TGACAGATAACCCTTCTAGCCTGAGTTATGATGTAAATGATGTGCCCTCGAAGCTGAGTATAATC
GAACCGAGAGGTCTTTGACAGATAACCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTTG
GAGCTGAGCGTAGTCAAACTCAAAGGTCTTTGG
Found at i:75316 original size:80 final size:82
Alignment explanation
Indices: 74943--75738 Score: 268
Period size: 83 Copynumber: 9.9 Consensus size: 82
74933 GTTATTCTGC
* * * *
74943 AATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTAGCAGATAACCCTTCT
1 AATGATGTG-CTTGGAGATGAGCATAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCT
* * *
75008 CGACTTAAGTTATACTGTA
65 CAACTT-AGCTATATTGTA
* * * * * * * *
75027 AATGATGTGCCCTCGAAGCTGAGTATAATCGAAC-GAGAGG---TT--TTGACAG-TAACCCTTC
1 AATGATGTG--CTTGGAGATGAGCATAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTC
* *
75085 TCGACTTAAGCTAT-TCTGCA
64 TCAACTT-AGCTATAT-TGTA
* * * * * *
75105 AATAATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTCGG-TGACAGATAACCCTTC
1 AATGATGTG-CTTGGAGATGAGCATAGTCGAACTCAAAGGTCTTT-GGTTGGCAGATAACCCTTC
* * *
75169 T-AGCCTGAGTTATGA-TGTA
64 TCA-ACTTAGCTAT-ATTGTA
* * * ** * * * *
75188 AATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTC--T--TTGGCAGATAGCCCTTC
1 AATGATGTG--CTTGGAGATGAGCATAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTC
*
75249 TCAACTTACGCTATGTTGTA
64 TCAACTTA-GCTATATTGTA
*
75269 AATGATGT-C-TGGAGATG-GCATAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTT
1 AATGATGTGCTTGGAGATGAGCATAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTC
* * *
75331 GACTTAGTTATATTGTG
66 AACTTAGCTATATTGTA
* * ** *
75348 AATGATGTGGCTTGGAGTTGAGCGTAGTCGAACTTGAAGGTCTTTTGG-TGACAGATAA-CCTTC
1 AATGATGT-GCTTGGAGATGAGCATAGTCGAACTCAAAGGTC-TTTGGTTGGCAGATAACCCTTC
* * ** *
75411 T-AGCCTTGAGTTATGCTATA
64 TCA-ACTT-AGCTATATTGTA
* * * ** * * * * *
75431 AATGATGTGCCCTCGAAGCTGAGTGTAATAGAACTCGAACGTCTTTGG-T---AGATAGCCC-T-
1 AATGATGTG--CTTGGAGATGAGCATAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTC
* * ** *
75490 TCGACTTAAGATATGCTGCA
64 TCAACTT-AGCTATATTGTA
** * *
75510 AATGACATGCCTTGGAGTTGAGCGTAGTCGAACTCAAAGGTC-TTGGTTGGCAGATAACCCTTCT
1 AATGATGTG-CTTGGAGATGAGCATAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCT
* *
75574 -AGCCTTGAG-TATGTTGTA
65 CA-ACTT-AGCTATATTGTA
* ** * ** * * *
75592 AATGATGTGCCCTCAATACTGAGTGTAATCGAACT-AGAGGTC--T--TTGGCAGATAGCCC-T-
1 AATGATGTG-CTTGGAGA-TGAGCATAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTC
* ** **
75650 TCGACTTAAGCTATGCTACA
64 TCAACTT-AGCTATATTGTA
* * *
75670 AATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC--T-GTTGGCAGATAACCCTTCT
1 AATGATGTG-CTTGGAGATGAGCATAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCT
*
75732 CGACTTA
65 CAACTTA
75739 AGTTATGCAG
Statistics
Matches: 541, Mismatches: 124, Indels: 98
0.71 0.16 0.13
Matches are distributed among these distances:
76 16 0.03
77 47 0.09
78 90 0.17
79 67 0.12
80 48 0.09
81 40 0.07
82 43 0.08
83 91 0.17
84 80 0.15
85 19 0.04
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (82 bp):
AATGATGTGCTTGGAGATGAGCATAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTC
AACTTAGCTATATTGTA
Found at i:75391 original size:243 final size:243
Alignment explanation
Indices: 75076--75602 Score: 697
Period size: 243 Copynumber: 2.2 Consensus size: 243
75066 GTTTTGACAG
* * * *
75076 TAACCCTTCTCGACTTAAGCTAT-TCTGCAAATAATGTGCCTTGGAGCTGAGCGTAGTCAAACTC
1 TAACCCTTCTAGACTTGAG-TATAT-TGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTC
*
75140 GAAGGTCTTTCGGTGACAGATAACCCTTCTAGCC-TGAGTTATGATGTAAATGATGTGCCCTCGA
64 GAAGGTCTTTCGGTGACAGATAA-CCTTCTAGCCTTGAGTTATGATATAAATGATGTGCCCTCGA
* ** * * * *
75204 AGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCAACTTACGCTATGTTGTA
128 AGCTGAGTGTAATAGAACTCGAACGTCTTTGGCAGATAGCCC-T-TCAACTTAAGATATGCTGCA
*
75269 AATG-ATGTC-TGGAGATG-GCATAGTCGAACTCAAAGGTCTTTGGTTGGCAGA
191 AATGAATGCCTTGGAGATGAGCATAGTCGAACTCAAAGGTC-TTGGTTGGCAGA
* * * * * *
75320 TAACCCTTCTTGACTT-AGTTATATTGTGAATGATGTGGCTTGGAGTTGAGCGTAGTCGAACTTG
1 TAACCCTTCTAGACTTGAG-TATATTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCG
* *
75384 AAGGTCTTTTGGTGACAGATAACCTTCTAGCCTTGAGTTATGCTATAAATGATGTGCCCTCGAAG
65 AAGGTCTTTCGGTGACAGATAACCTTCTAGCCTTGAGTTATGATATAAATGATGTGCCCTCGAAG
* *
75449 CTGAGTGTAATAGAACTCGAACGTCTTTGGTAGATAGCCCTTCGACTTAAGATATGCTGCAAATG
130 CTGAGTGTAATAGAACTCGAACGTCTTTGGCAGATAGCCCTTCAACTTAAGATATGCTGCAAATG
* *
75514 ACATGCCTTGGAGTTGAGCGTAGTCGAACTCAAAGGTCTTGGTTGGCAGA
195 A-ATGCCTTGGAGATGAGCATAGTCGAACTCAAAGGTCTTGGTTGGCAGA
* *
75564 TAACCCTTCTAGCCTTGAGTATGTTGTAAATGATGTGCC
1 TAACCCTTCTAGACTTGAGTATATTGTAAATGATGTGCC
75603 CTCAATACTG
Statistics
Matches: 247, Mismatches: 29, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
241 19 0.08
242 11 0.04
243 129 0.52
244 66 0.27
245 22 0.09
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (243 bp):
TAACCCTTCTAGACTTGAGTATATTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGA
AGGTCTTTCGGTGACAGATAACCTTCTAGCCTTGAGTTATGATATAAATGATGTGCCCTCGAAGC
TGAGTGTAATAGAACTCGAACGTCTTTGGCAGATAGCCCTTCAACTTAAGATATGCTGCAAATGA
ATGCCTTGGAGATGAGCATAGTCGAACTCAAAGGTCTTGGTTGGCAGA
Found at i:75694 original size:160 final size:162
Alignment explanation
Indices: 75348--75746 Score: 551
Period size: 160 Copynumber: 2.5 Consensus size: 162
75338 TTATATTGTG
* * *
75348 AATGATGTGGCTTGGAGTTGAGCGTAGTCGAACTTGAAGGTCTTTTGG-TGACAGATAA-CCTTC
1 AATGATGTGCCTTGGAGTTGAGCGTAGTCGAACTCGAAGGTC--TTGGTTGGCAGATAACCCTTC
* *
75411 TAGCCTTGAGTTATGCTATAAATGATGTGCCCTCGAAGCTGAGTGTAATAGAACTCGAACGTCTT
64 TAGCCTTGAGTTATGCTATAAATGATGTGCCCTCGAAACTGAGTGTAATAGAACTAGAACGTCTT
* *
75476 TGGTAGATAGCCCTTCGACTTAAGATATGCTGCA
129 TGGCAGATAGCCCTTCGACTTAAGATATGCTACA
** *
75510 AATGACATGCCTTGGAGTTGAGCGTAGTCGAACTCAAAGGTCTTGGTTGGCAGATAACCCTTCTA
1 AATGATGTGCCTTGGAGTTGAGCGTAGTCGAACTCGAAGGTCTTGGTTGGCAGATAACCCTTCTA
* * * *
75575 GCCTTGAG-TATGTTGTAAATGATGTGCCCTC-AATACTGAGTGTAATCGAACTAG-AGGTCTTT
66 GCCTTGAGTTATGCTATAAATGATGTGCCCTCGAA-ACTGAGTGTAATAGAACTAGAACGTCTTT
*
75637 GGCAGATAGCCCTTCGACTTAAGCTATGCTACA
130 GGCAGATAGCCCTTCGACTTAAGATATGCTACA
* *
75670 AATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-T-GTTGGCAGATAACCCTTCTC
1 AATGATGTGCCTTGGAGTTGAGCGTAGTCGAACTCGAAGGTCTTGGTTGGCAGATAACCCTTCTA
* *
75733 GACTTAAGTTATGC
66 GCCTTGAGTTATGC
75747 AGCAAAAGTT
Statistics
Matches: 210, Mismatches: 23, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
158 25 0.12
159 5 0.02
160 81 0.39
161 47 0.22
162 52 0.25
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (162 bp):
AATGATGTGCCTTGGAGTTGAGCGTAGTCGAACTCGAAGGTCTTGGTTGGCAGATAACCCTTCTA
GCCTTGAGTTATGCTATAAATGATGTGCCCTCGAAACTGAGTGTAATAGAACTAGAACGTCTTTG
GCAGATAGCCCTTCGACTTAAGATATGCTACA
Done.