Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_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: 10425128
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 51
Found at i:829729 original size:18 final size:18
Alignment explanation
Indices: 829706--829740 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
829696 ACTTGGGTTA
*
829706 GACTGGAATTTCTAGTTG
1 GACTGGAATTTCCAGTTG
829724 GACTGGAATTTCCAGTT
1 GACTGGAATTTCCAGTT
829741 TTACTTCCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.23, C:0.14, G:0.26, T:0.37
Consensus pattern (18 bp):
GACTGGAATTTCCAGTTG
Found at i:832629 original size:2 final size:2
Alignment explanation
Indices: 832622--832660 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
832612 ACTAATAAAC
* *
832622 TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA CA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
832661 GTGCGTATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:832721 original size:21 final size:23
Alignment explanation
Indices: 832683--832724 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
832673 CATAATATAT
832683 AAATATGACCAAAATAATAAAAC
1 AAATATGACCAAAATAATAAAAC
*
832706 AAATAT-A-CAAACTAATAAA
1 AAATATGACCAAAATAATAAA
832725 CCACTTTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 1 0.06
23 6 0.33
ACGTcount: A:0.67, C:0.12, G:0.02, T:0.19
Consensus pattern (23 bp):
AAATATGACCAAAATAATAAAAC
Found at i:835572 original size:22 final size:22
Alignment explanation
Indices: 835547--835617 Score: 71
Period size: 22 Copynumber: 3.5 Consensus size: 22
835537 AATTATATTG
835547 TATAATTAAGTCACTTTAATTT
1 TATAATTAAGTCACTTTAATTT
* *
835569 TATAGTTAA--CAC--T-ATAT
1 TATAATTAAGTCACTTTAATTT
* *
835586 TAAAATTAAGTCAATTTAATTT
1 TATAATTAAGTCACTTTAATTT
835608 TATAATTAAG
1 TATAATTAAG
835618 GGTCGAACTG
Statistics
Matches: 37, Mismatches: 7, Indels: 10
0.69 0.13 0.19
Matches are distributed among these distances:
17 10 0.27
18 1 0.03
19 2 0.05
20 3 0.08
21 1 0.03
22 20 0.54
ACGTcount: A:0.42, C:0.07, G:0.06, T:0.45
Consensus pattern (22 bp):
TATAATTAAGTCACTTTAATTT
Found at i:835802 original size:31 final size:31
Alignment explanation
Indices: 835767--835834 Score: 109
Period size: 31 Copynumber: 2.2 Consensus size: 31
835757 TTAATGGCTG
*
835767 AGGGATTAAAATGGAACGGATCGATAACATT
1 AGGGATTAAAATCGAACGGATCGATAACATT
* *
835798 AGGGACTAAAATCGAACGGATCGATAACGTT
1 AGGGATTAAAATCGAACGGATCGATAACATT
835829 AGGGAT
1 AGGGAT
835835 CATTTTCCCT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.40, C:0.12, G:0.28, T:0.21
Consensus pattern (31 bp):
AGGGATTAAAATCGAACGGATCGATAACATT
Found at i:836522 original size:37 final size:37
Alignment explanation
Indices: 836469--836565 Score: 149
Period size: 37 Copynumber: 2.6 Consensus size: 37
836459 CCTTTTCGTC
836469 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
836506 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* *
836543 CTACTATGATTTAAACTCCTAAA
1 CTACTAGGATTCAAACTCCTAAA
836566 GATAAGATCC
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 53 1.00
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:837105 original size:25 final size:23
Alignment explanation
Indices: 837077--837133 Score: 57
Period size: 22 Copynumber: 2.5 Consensus size: 23
837067 ATTTTTTTTA
837077 TTTATTTATATTCATTTGATTATTT
1 TTTATTTATATT-ATTT-ATTATTT
*
837102 TTTA-ATACTA-TATTTATTATTT
1 TTTATTTA-TATTATTTATTATTT
837124 TTT-TTTATAT
1 TTTATTTATAT
837134 ATATATACTC
Statistics
Matches: 27, Mismatches: 2, Indels: 9
0.71 0.05 0.24
Matches are distributed among these distances:
21 2 0.07
22 12 0.44
23 4 0.15
24 3 0.11
25 6 0.22
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (23 bp):
TTTATTTATATTATTTATTATTT
Found at i:837113 original size:27 final size:25
Alignment explanation
Indices: 837052--837139 Score: 67
Period size: 25 Copynumber: 3.5 Consensus size: 25
837042 ACACTATATA
*
837052 TTAT-TATATATACA-TATT-TTTT
1 TTATATATATATTCATTATTATTTT
*
837074 TTATTTATTTATATTCATTTGATTATTTT
1 TTA--TATATATATTCA-TT-ATTATTTT
* *
837103 TTA-ATACTATATTTATTATTTTTTT
1 TTATATA-TATATTCATTATTATTTT
837128 TTATATATATAT
1 TTATATATATAT
837140 ACTCTTTTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 15
0.72 0.07 0.21
Matches are distributed among these distances:
22 3 0.06
24 1 0.02
25 23 0.44
26 7 0.13
27 8 0.15
28 3 0.06
29 7 0.13
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (25 bp):
TTATATATATATTCATTATTATTTT
Found at i:837156 original size:23 final size:22
Alignment explanation
Indices: 837099--837156 Score: 55
Period size: 24 Copynumber: 2.6 Consensus size: 22
837089 CATTTGATTA
* *
837099 TTTTTTAATACTATATTTATTATT
1 TTTTTTAATA-TATATATACTA-T
* *
837123 TTTTTTTATATATATATACTCT
1 TTTTTTAATATATATATACTAT
837145 TTTTTTAA-ATAT
1 TTTTTTAATATAT
837157 TTTACTTATA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
21 4 0.14
22 8 0.28
23 8 0.28
24 9 0.31
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (22 bp):
TTTTTTAATATATATATACTAT
Found at i:838599 original size:5 final size:5
Alignment explanation
Indices: 838589--838626 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
838579 TCTTTTCATC
838589 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
838627 CATCACTTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:840524 original size:17 final size:18
Alignment explanation
Indices: 840502--840545 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
840492 ATCCAATCAA
840502 AAAC-AAAGAAAAAAGAG
1 AAACAAAAGAAAAAAGAG
*
840519 AAACAAAAGAAAAAAGAA
1 AAACAAAAGAAAAAAGAG
840537 AGAACAAAA
1 A-AACAAAA
840546 TCAAAAAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 4 0.17
18 13 0.54
19 7 0.29
ACGTcount: A:0.80, C:0.07, G:0.14, T:0.00
Consensus pattern (18 bp):
AAACAAAAGAAAAAAGAG
Found at i:840542 original size:19 final size:18
Alignment explanation
Indices: 840500--840558 Score: 75
Period size: 19 Copynumber: 3.3 Consensus size: 18
840490 AGATCCAATC
840500 AAAAAC-AAAGAAAAAAG
1 AAAAACAAAAGAAAAAAG
*
840517 AGAAACAAAAGAAAAAAG
1 AAAAACAAAAGAAAAAAG
**
840535 AAAGAACAAAATCAAAAAG
1 AAA-AACAAAAGAAAAAAG
840554 AAAAA
1 AAAAA
840559 GGGACAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
17 5 0.14
18 15 0.42
19 16 0.44
ACGTcount: A:0.80, C:0.07, G:0.12, T:0.02
Consensus pattern (18 bp):
AAAAACAAAAGAAAAAAG
Found at i:841189 original size:22 final size:22
Alignment explanation
Indices: 841161--841237 Score: 145
Period size: 22 Copynumber: 3.5 Consensus size: 22
841151 GCTACCCCAT
*
841161 CAAACCTTTGAGCATCAAATGA
1 CAAACCTTTGAGCATCAAATGC
841183 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
841205 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
841227 CAAACCTTTGA
1 CAAACCTTTGA
841238 CCAAACATAA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 54 1.00
ACGTcount: A:0.38, C:0.26, G:0.13, T:0.23
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:842009 original size:37 final size:35
Alignment explanation
Indices: 841966--842099 Score: 151
Period size: 37 Copynumber: 3.7 Consensus size: 35
841956 TTTCCAATAT
* *
841966 AAATTTTGTCTCTCTTGAGACAGTCTCATTTAAAAC
1 AAATTTTGTCTCCCTTGAGACAGTCTC-TTTGAAAC
* * * *
842002 AAGATTTTATCTCGCTTGAGATAGTTTTTCTTTGAAAC
1 AA-ATTTTGTCTCCCTTGAGACAG--TCTCTTTGAAAC
* *
842040 AAATTTCGTCTCCCTTGAGACAGTCTTCCTTGAAAC
1 AAATTTTGTCTCCCTTGAGACAGTC-TCTTTGAAAC
842076 AAATTTTGTCTCCCTTGAGACAGT
1 AAATTTTGTCTCCCTTGAGACAGT
842100 TTCTCTTCAG
Statistics
Matches: 82, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
35 1 0.01
36 34 0.41
37 35 0.43
38 9 0.11
39 3 0.04
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (35 bp):
AAATTTTGTCTCCCTTGAGACAGTCTCTTTGAAAC
Found at i:842075 original size:36 final size:36
Alignment explanation
Indices: 841966--842103 Score: 163
Period size: 36 Copynumber: 3.8 Consensus size: 36
841956 TTTCCAATAT
* *
841966 AAATTTTGTCTCTCTTGAGACAGTC-TCATTTAAAAC
1 AAATTTTGTCTCCCTTGAGACAGTCTTC-TTTGAAAC
* * * *
842002 AAGATTTTATCTCGCTTGAGATAGTTTTTCTTTGAAAC
1 AA-ATTTTGTCTCCCTTGAGACAG-TCTTCTTTGAAAC
* *
842040 AAATTTCGTCTCCCTTGAGACAGTCTTCCTTGAAAC
1 AAATTTTGTCTCCCTTGAGACAGTCTTCTTTGAAAC
842076 AAATTTTGTCTCCCTTGAGACAGT-TTCT
1 AAATTTTGTCTCCCTTGAGACAGTCTTCT
842104 CTTCAGACAA
Statistics
Matches: 86, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
35 3 0.03
36 36 0.42
37 35 0.41
38 10 0.12
39 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (36 bp):
AAATTTTGTCTCCCTTGAGACAGTCTTCTTTGAAAC
Found at i:842293 original size:106 final size:106
Alignment explanation
Indices: 842108--842949 Score: 1110
Period size: 106 Copynumber: 8.0 Consensus size: 106
842098 GTTTCTCTTC
*
842108 AGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTT
1 AGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTT
*
842173 CAGAGCCAATTTCAACTTCACAGCAAAGGATATTGGACTCA
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCA
* * * * ** * *
842214 AGACAGCACAAGCTCAACTTCAC-AGCGAAGGGGCGGCTGACTGTCAACAAACAACTTCTCAATT
1 AGACAACACAAGTTCAACTTCACGA-CGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATT
*
842278 TCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCG
65 TCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCA
* * *
842320 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTAGTTGTCAACAAACAACTTCCCAATTT
1 AGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTT
* * *
842385 CAGAGCCAATTTCAACTTCACAACGAAAGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCA
* * *
842426 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAAAAATTTCCCAATTT
1 AGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTT
* * *
842491 CGGAGCTAATTTCAACTTCACAGCGAAGGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCA
* * *
842532 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAATAATTTCCCAATTT
1 AGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTT
* * * *
842597 CAGAGTCAATTTCAATTTCACAGCGTATGATATTGGACTCA
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCA
* * * * *
842638 AGACAACGCAAGTTCAACATCAAGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTT
1 AGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTT
* * * * * *
842703 CAGAGACAATTCCAACTTCTCAGCGAAGGATCTTGAACCCA
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCA
* * * *
842744 AGGCAACACAAGCTCAACTTCACGACGAAGAGG-CGGCTGATTGTCAAC-AA-AATTT--C-A-T
1 AGACAACACAAGTTCAACTTCACGACGAAG-GGACCGCTGGTTGTCAACAAACAATTTCCCAATT
* *
842802 TCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCG
65 TCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCA
* * ** *
842844 AGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCGGTTC
1 AGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTT
842909 CAGAGCCAATTTCAACTTCAC-GAC-AGAGGATATTGGACTCA
66 CAGAGCCAATTTCAACTTCACAG-CGA-AGGATATTGGACTCA
842950 GAACAATGCT
Statistics
Matches: 648, Mismatches: 76, Indels: 24
0.87 0.10 0.03
Matches are distributed among these distances:
99 2 0.00
100 77 0.12
101 3 0.00
102 6 0.01
104 5 0.01
105 5 0.01
106 547 0.84
107 3 0.00
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (106 bp):
AGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTT
CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCA
Found at i:843718 original size:37 final size:37
Alignment explanation
Indices: 843665--843761 Score: 149
Period size: 37 Copynumber: 2.6 Consensus size: 37
843655 CCTTTTCGTC
843665 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
843702 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* *
843739 CTACTATGATTTAAACTCCTAAA
1 CTACTAGGATTCAAACTCCTAAA
843762 GATAAGATCC
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 53 1.00
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:844297 original size:22 final size:21
Alignment explanation
Indices: 844241--844333 Score: 84
Period size: 22 Copynumber: 4.3 Consensus size: 21
844231 TTTTTTACAC
*
844241 TATATA-TTATTATTATATATA
1 TATATATTTATTATT-TATTTA
* *
844262 CATATATTTTTTATTTATTTA
1 TATATATTTATTATTTATTTA
844283 TAT-TCATTTGATTATTT-TTTAA
1 TATAT-ATTT-ATTATTTATTT-A
*
844305 TACTATATTTATTATTTATATA
1 TA-TATATTTATTATTTATTTA
844327 TATATAT
1 TATATAT
844334 ATATACTCTT
Statistics
Matches: 59, Mismatches: 6, Indels: 14
0.75 0.08 0.18
Matches are distributed among these distances:
20 1 0.02
21 24 0.41
22 26 0.44
23 7 0.12
24 1 0.02
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.61
Consensus pattern (21 bp):
TATATATTTATTATTTATTTA
Found at i:844330 original size:19 final size:19
Alignment explanation
Indices: 844241--844331 Score: 69
Period size: 19 Copynumber: 4.6 Consensus size: 19
844231 TTTTTTACAC
*
844241 TATATAT-TA-TTATTATA
1 TATATATATATTTATTATT
* *
844258 TATACATATATTTTTTATT
1 TATATATATATTTATTATT
*
844277 TATTTATATTCATTTGATTATTT
1 TATATATA-T-ATTT-ATTA-TT
*
844300 TTTAATACTATATTTATTATT
1 TAT-ATA-TATATTTATTATT
844321 TATATATATAT
1 TATATATATAT
844332 ATATATACTC
Statistics
Matches: 57, Mismatches: 9, Indels: 14
0.71 0.11 0.17
Matches are distributed among these distances:
17 6 0.11
18 2 0.04
19 17 0.30
20 4 0.07
21 8 0.14
22 7 0.12
23 8 0.14
24 3 0.05
25 2 0.04
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (19 bp):
TATATATATATTTATTATT
Found at i:848164 original size:42 final size:42
Alignment explanation
Indices: 848080--848495 Score: 539
Period size: 42 Copynumber: 9.8 Consensus size: 42
848070 GCAAAAACGA
* * * *
848080 TAAGGTCTTATCCTTGCACATAACAAAAGAGCCTGAGGAAACTG
1 TAAGG-CTTACCCTTGCACACAACAAAGGAACCTG-GGAAACTG
* * *
848124 TAAGGCTTACTCTTGCACACAACAAAGAAACCTGAGAAACTG
1 TAAGGCTTACCCTTGCACACAACAAAGGAACCTGGGAAACTG
* *
848166 TAAGGCTTACCCTTGCACACAACAAAGGGACCTAGGTAAACTG
1 TAAGGCTTACCCTTGCACACAACAAAGGAACCT-GGGAAACTG
* * *
848209 TAAGGCTTACCTTTGCACACATCAAAGGGACCTGGGAAACTG
1 TAAGGCTTACCCTTGCACACAACAAAGGAACCTGGGAAACTG
* * *
848251 TAAGGCTTACCCTTGCACACAGCAAAGGAACCTAGGAAACTT
1 TAAGGCTTACCCTTGCACACAACAAAGGAACCTGGGAAACTG
** * *
848293 TAAGGCTTACCCTTGCACACAGTAAAGGGACATGGGGAAACTG
1 TAAGGCTTACCCTTGCACACAACAAAGGAACCT-GGGAAACTG
* *
848336 TAAGGCTTACCCTTGTACACAACAAAAGG-ACCTGGGAAACTA
1 TAAGGCTTACCCTTGCACACAAC-AAAGGAACCTGGGAAACTG
* *
848378 TAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGAAACTC
1 TAAGGCTTACCCTTGCACACAACAAAGGAACCTGGGAAACTG
*
848420 TAAGGCTTACCCTTGCACA-AAGCAAAGGAACTTGGGAAACTG
1 TAAGGCTTACCCTTGCACACAA-CAAAGGAACCTGGGAAACTG
*
848462 TAAGGCTTACCCTTGCACACAACAAAGGGACCTG
1 TAAGGCTTACCCTTGCACACAACAAAGGAACCTG
848496 CTGTAACAGT
Statistics
Matches: 328, Mismatches: 38, Indels: 14
0.86 0.10 0.04
Matches are distributed among these distances:
41 6 0.02
42 219 0.67
43 93 0.28
44 10 0.03
ACGTcount: A:0.35, C:0.24, G:0.21, T:0.19
Consensus pattern (42 bp):
TAAGGCTTACCCTTGCACACAACAAAGGAACCTGGGAAACTG
Found at i:848190 original size:85 final size:85
Alignment explanation
Indices: 848080--848495 Score: 504
Period size: 85 Copynumber: 4.9 Consensus size: 85
848070 GCAAAAACGA
* * *
848080 TAAGGTCTTATCCTTGCACATAACAAAAGAGCCTGAGGAAACTGTAAGGCTTACTCTTGCACACA
1 TAAGG-CTTACCCTTGCACACAACAAAAGAGCCTGAGGAAACTGTAAGGCTTACCCTTGCACACA
* *
848145 ACAAAGAAACCTGAGAAACTG
65 ACAAAGGAACCTGGGAAACTG
* *
848166 TAAGGCTTACCCTTGCACACAAC-AAAGGGACCT-AGGTAAACTGTAAGGCTTACCTTTGCACAC
1 TAAGGCTTACCCTTGCACACAACAAAAGAG-CCTGAGG-AAACTGTAAGGCTTACCCTTGCACAC
* *
848229 ATCAAAGGGACCTGGGAAACTG
64 AACAAAGGAACCTGGGAAACTG
* * * * *
848251 TAAGGCTTACCCTTGCACACAGCAAAGGAACCT-AGGAAACTTTAAGGCTTACCCTTGCACACAG
1 TAAGGCTTACCCTTGCACACAACAAAAGAGCCTGAGGAAACTGTAAGGCTTACCCTTGCACACAA
* * *
848315 TAAAGGGACATGGGGAAACTG
66 CAAAGGAACCT-GGGAAACTG
* *
848336 TAAGGCTTACCCTTGTACACAACAAAAG-GACCTG-GGAAACTATAAGGCTTACCCTTGCACACA
1 TAAGGCTTACCCTTGCACACAACAAAAGAG-CCTGAGGAAACTGTAAGGCTTACCCTTGCACACA
* *
848399 GCAAAGGAACCTGGGAAACTC
65 ACAAAGGAACCTGGGAAACTG
* * *
848420 TAAGGCTTACCCTTGCACA-AAGCAAAGGAACTTG-GGAAACTGTAAGGCTTACCCTTGCACACA
1 TAAGGCTTACCCTTGCACACAA-CAAAAGAGCCTGAGGAAACTGTAAGGCTTACCCTTGCACACA
*
848483 ACAAAGGGACCTG
65 ACAAAGGAACCTG
848496 CTGTAACAGT
Statistics
Matches: 288, Mismatches: 34, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
83 2 0.01
84 115 0.40
85 163 0.57
86 8 0.03
ACGTcount: A:0.35, C:0.24, G:0.21, T:0.19
Consensus pattern (85 bp):
TAAGGCTTACCCTTGCACACAACAAAAGAGCCTGAGGAAACTGTAAGGCTTACCCTTGCACACAA
CAAAGGAACCTGGGAAACTG
Found at i:848271 original size:127 final size:127
Alignment explanation
Indices: 848080--848495 Score: 570
Period size: 127 Copynumber: 3.3 Consensus size: 127
848070 GCAAAAACGA
* * * *
848080 TAAGGTCTTATCCTTGCACATAACAAA-AGAGCCTGAGGAAACTGTAAGGCTTACTCTTGCACAC
1 TAAGG-CTTACCCTTGCACACAACAAAGGGA-CCTG-GGAAACTGTAAGGCTTACCCTTGCACAC
* * * *
848144 AACAAAGAAACCTGAGAAACTGTAAGGCTTACCCTTGCACACAACAAAGGGACCTAGGTAAACTG
63 AGCAAAGGAACCTGAGAAACTCTAAGGCTTACCCTTGCACACAACAAAGGGACCTAGGGAAACTG
* *
848209 TAAGGCTTACCTTTGCACACATCAAAGGGACCTGGGAAACTGTAAGGCTTACCCTTGCACACAGC
1 TAAGGCTTACCCTTGCACACAACAAAGGGACCTGGGAAACTGTAAGGCTTACCCTTGCACACAGC
* ** * *
848274 AAAGGAACCT-AGGAAACTTTAAGGCTTACCCTTGCACACAGTAAAGGGACATGGGGAAACTG
66 AAAGGAACCTGA-GAAACTCTAAGGCTTACCCTTGCACACAACAAAGGGACCTAGGGAAACTG
* * *
848336 TAAGGCTTACCCTTGTACACAACAAAAGGACCTGGGAAACTATAAGGCTTACCCTTGCACACAGC
1 TAAGGCTTACCCTTGCACACAACAAAGGGACCTGGGAAACTGTAAGGCTTACCCTTGCACACAGC
* * *
848401 AAAGGAACCTGGGAAACTCTAAGGCTTACCCTTGCACA-AAGCAAA-GGAACTTGGGAAACTG
66 AAAGGAACCTGAGAAACTCTAAGGCTTACCCTTGCACACAA-CAAAGGGACCTAGGGAAACTG
848462 TAAGGCTTACCCTTGCACACAACAAAGGGACCTG
1 TAAGGCTTACCCTTGCACACAACAAAGGGACCTG
848496 CTGTAACAGT
Statistics
Matches: 255, Mismatches: 28, Indels: 11
0.87 0.10 0.04
Matches are distributed among these distances:
126 47 0.18
127 180 0.71
128 21 0.08
129 7 0.03
ACGTcount: A:0.35, C:0.24, G:0.21, T:0.19
Consensus pattern (127 bp):
TAAGGCTTACCCTTGCACACAACAAAGGGACCTGGGAAACTGTAAGGCTTACCCTTGCACACAGC
AAAGGAACCTGAGAAACTCTAAGGCTTACCCTTGCACACAACAAAGGGACCTAGGGAAACTG
Found at i:851249 original size:22 final size:23
Alignment explanation
Indices: 851217--851265 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
851207 CCACCTTCTA
851217 CAAATATTTACA-AAACTAACACC
1 CAAATATTTACACAAA-TAACACC
*
851240 CAAAT-TTTACACAAATAGCACC
1 CAAATATTTACACAAATAACACC
851262 CAAA
1 CAAA
851266 CAAAAATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 16 0.67
23 8 0.33
ACGTcount: A:0.51, C:0.27, G:0.02, T:0.20
Consensus pattern (23 bp):
CAAATATTTACACAAATAACACC
Found at i:854054 original size:14 final size:13
Alignment explanation
Indices: 854023--854057 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
854013 GTTCTCTTAT
854023 ATTTTTAGTCATA
1 ATTTTTAGTCATA
854036 ATTTTTAGTCATA
1 ATTTTTAGTCATA
854049 ATTTTTAGT
1 ATTTTTAGT
854058 GAAAATATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.29, C:0.06, G:0.09, T:0.57
Consensus pattern (13 bp):
ATTTTTAGTCATA
Found at i:856603 original size:4 final size:4
Alignment explanation
Indices: 856596--856625 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
856586 AAAAAAAAAA
856596 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AA
856626 CCAATCTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:873163 original size:43 final size:43
Alignment explanation
Indices: 873107--873190 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
873097 AATCATATCA
* *
873107 CATAAACTCTAAA-CTCTAAACCCTA-ACACATAAACCCTAAAAC
1 CATAAACTATAAACCT-TAAACCATATA-ACATAAACCCTAAAAC
*
873150 CATAAACTATAAACCTTAAATCATATAACATAAACCCTAAA
1 CATAAACTATAAACCTTAAACCATATAACATAAACCCTAAA
873191 CCCTAACCCC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
43 33 0.92
44 3 0.08
ACGTcount: A:0.51, C:0.27, G:0.00, T:0.21
Consensus pattern (43 bp):
CATAAACTATAAACCTTAAACCATATAACATAAACCCTAAAAC
Found at i:873215 original size:13 final size:13
Alignment explanation
Indices: 873034--873280 Score: 93
Period size: 14 Copynumber: 17.8 Consensus size: 13
873024 GCGTATAACT
*
873034 TAAATCTAAACCC
1 TAAACCTAAACCC
*
873047 TAAACACT-AACCT
1 TAAAC-CTAAACCC
*
873060 TAACACGTAAACCC
1 TAA-ACCTAAACCC
**
873074 TAAACCCTAAAATC
1 TAAA-CCTAAACCC
* *
873088 TAAACCTTAAATCA
1 TAAACC-TAAACCC
* * *
873102 TATCACATAAACTC
1 TA-AACCTAAACCC
873116 TAAACTCTAAACCC
1 TAAAC-CTAAACCC
*
873130 TAACACATAAACCC
1 TAA-ACCTAAACCC
**
873144 TAAAACCATAAACTA
1 T-AAACC-TAAACCC
* *
873159 TAAACCTTAAATCA
1 TAAACC-TAAACCC
*
873173 TATAACATAAACCC
1 TA-AACCTAAACCC
*
873187 TAAACCCTAACCCC
1 TAAA-CCTAAACCC
873201 TAATACCTAAA-CC
1 TAA-ACCTAAACCC
**
873214 TAAACCCTAAACTA
1 TAAA-CCTAAACCC
*
873228 TAAACCTTAAATCC
1 TAAACC-TAAACCC
* ** *
873242 TATCACAAAAACTC
1 TA-AACCTAAACCC
*
873256 TAAACCATAAACTC
1 TAAACC-TAAACCC
873270 TAAACTCTAAA
1 TAAAC-CTAAA
873281 TCTTAAATCA
Statistics
Matches: 171, Mismatches: 44, Indels: 37
0.68 0.17 0.15
Matches are distributed among these distances:
12 1 0.01
13 34 0.20
14 117 0.68
15 19 0.11
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (13 bp):
TAAACCTAAACCC
Found at i:873238 original size:7 final size:7
Alignment explanation
Indices: 873039--873225 Score: 82
Period size: 7 Copynumber: 26.9 Consensus size: 7
873029 TAACTTAAAT
873039 CTAAACC
1 CTAAACC
*
873046 CTAAACA
1 CTAAACC
873053 CT-AA-C
1 CTAAACC
*
873058 CTTAACAC
1 CTAAAC-C
*
873066 GTAAACC
1 CTAAACC
873073 CTAAACC
1 CTAAACC
**
873080 CTAAAAT
1 CTAAACC
873087 CTAAACC
1 CTAAACC
* *
873094 TTAAATC
1 CTAAACC
* *
873101 AT-ATCAC
1 CTAAAC-C
* *
873108 ATAAACT
1 CTAAACC
*
873115 CTAAACT
1 CTAAACC
873122 CTAAACC
1 CTAAACC
873129 CT-AACAC
1 CTAAAC-C
*
873136 ATAAACC
1 CTAAACC
873143 CTAAAACC
1 CT-AAACC
* *
873151 ATAAACT
1 CTAAACC
*
873158 ATAAACC
1 CTAAACC
* *
873165 TTAAATC
1 CTAAACC
*
873172 ATATAA-C
1 CTA-AACC
*
873179 ATAAACC
1 CTAAACC
873186 CTAAACC
1 CTAAACC
*
873193 CTAACCC
1 CTAAACC
873200 CTAATA-C
1 CTAA-ACC
873207 CTAAA-C
1 CTAAACC
873213 CTAAACC
1 CTAAACC
873220 CTAAAC
1 CTAAAC
873226 TATAAACCTT
Statistics
Matches: 139, Mismatches: 29, Indels: 24
0.72 0.15 0.12
Matches are distributed among these distances:
5 2 0.01
6 17 0.12
7 102 0.73
8 18 0.13
ACGTcount: A:0.47, C:0.32, G:0.01, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:873280 original size:14 final size:14
Alignment explanation
Indices: 873067--873274 Score: 94
Period size: 14 Copynumber: 14.9 Consensus size: 14
873057 CCTTAACACG
* *
873067 TAAACCCTAAACCC
1 TAAACTCTAAACCA
* *
873081 TAAAATCTAAACCT
1 TAAACTCTAAACCA
*
873095 TAAA-TC-ATATCACA
1 TAAACTCTA-AAC-CA
873109 TAAACTCTAAACTC-
1 TAAACTCTAAAC-CA
*
873123 TAAACCCT-AACACA
1 TAAACTCTAAAC-CA
*
873137 TAAACCCTAAAACCA
1 TAAACTCT-AAACCA
* *
873152 TAAACTATAAACCT
1 TAAACTCTAAACCA
873166 TAAA-TCATATAA-CA
1 TAAACTC-TA-AACCA
* *
873180 TAAACCCTAAACCC
1 TAAACTCTAAACCA
* *
873194 TAACCCCTAATACC-
1 TAAACTCTAA-ACCA
*
873208 TAAAC-CTAAACCC
1 TAAACTCTAAACCA
* *
873221 TAAACTATAAACCT
1 TAAACTCTAAACCA
*
873235 TAAA-TCCT-ATCACA
1 TAAACT-CTAAAC-CA
*
873249 AAAACTCTAAACCA
1 TAAACTCTAAACCA
873263 TAAACTCTAAAC
1 TAAACTCTAAAC
873275 TCTAAATCTT
Statistics
Matches: 150, Mismatches: 26, Indels: 36
0.71 0.12 0.17
Matches are distributed among these distances:
12 4 0.03
13 23 0.15
14 97 0.65
15 22 0.15
16 4 0.03
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAACTCTAAACCA
Found at i:873326 original size:28 final size:28
Alignment explanation
Indices: 873250--873328 Score: 79
Period size: 28 Copynumber: 2.8 Consensus size: 28
873240 CCTATCACAA
* *
873250 AAACTCTAAACCATA-AACTCTAAACTCT
1 AAACCCTAAACCATATAAC-ATAAACTCT
* * * *
873278 AAATCTTAAATCATATCACATAAACTCT
1 AAACCCTAAACCATATAACATAAACTCT
*
873306 AAACCCTAAACCTTATAACATAA
1 AAACCCTAAACCATATAACATAA
873329 TTAGAAGGAA
Statistics
Matches: 39, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
28 37 0.95
29 2 0.05
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.27
Consensus pattern (28 bp):
AAACCCTAAACCATATAACATAAACTCT
Found at i:890939 original size:13 final size:13
Alignment explanation
Indices: 890921--890950 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
890911 GTCACAACCC
890921 GACCCGACCCGTT
1 GACCCGACCCGTT
890934 GACCCGACCCGTT
1 GACCCGACCCGTT
890947 GACC
1 GACC
890951 GTTGACCGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.17, C:0.47, G:0.23, T:0.13
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:897290 original size:18 final size:18
Alignment explanation
Indices: 897264--897298 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
897254 TCGAAAGGAC
*
897264 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
897282 TGAATTAAATAATAAGA
1 TGAAGTAAATAATAAGA
897299 CCCGACGGAA
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:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:901630 original size:11 final size:11
Alignment explanation
Indices: 901614--901645 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
901604 TTCTTTTCAT
*
901614 TTTATTTGCTG
1 TTTATTTACTG
901625 TTTATTTACTG
1 TTTATTTACTG
901636 TTTATTTACT
1 TTTATTTACT
901646 ATCTTTCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.16, C:0.09, G:0.09, T:0.66
Consensus pattern (11 bp):
TTTATTTACTG
Found at i:904310 original size:14 final size:15
Alignment explanation
Indices: 904291--904342 Score: 52
Period size: 16 Copynumber: 3.5 Consensus size: 15
904281 GGAGGAATTT
904291 AAAAAAA-CAAAAAC
1 AAAAAAATCAAAAAC
* *
904305 AAAAAAATGAAAAAT
1 AAAAAAATCAAAAAC
* *
904320 AAAAAATTTGAAAAAC
1 AAAAAA-ATCAAAAAC
904336 AAAAAAA
1 AAAAAAA
904343 GGAGAGAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
14 7 0.23
15 11 0.35
16 13 0.42
ACGTcount: A:0.81, C:0.06, G:0.04, T:0.10
Consensus pattern (15 bp):
AAAAAAATCAAAAAC
Found at i:904318 original size:16 final size:15
Alignment explanation
Indices: 904299--904342 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 15
904289 TTAAAAAAAC
904299 AAAAACAAAAAAATG
1 AAAAACAAAAAAATG
* *
904314 AAAAATAAAAAATTTG
1 AAAAACAAAAAA-ATG
904330 AAAAACAAAAAAA
1 AAAAACAAAAAAA
904343 GGAGAGAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.80, C:0.05, G:0.05, T:0.11
Consensus pattern (15 bp):
AAAAACAAAAAAATG
Found at i:906978 original size:25 final size:24
Alignment explanation
Indices: 906955--907004 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
906945 CTTTCTTTTC
*
906955 TTTTCTTTTCAAGTTTTCATTTTTAA
1 TTTTATTTT-AAGTTTT-ATTTTTAA
906981 TTTTATTTTAAGTTTTATTTTTAA
1 TTTTATTTTAAGTTTTATTTTTAA
907005 ACATACTTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.35
25 7 0.30
26 8 0.35
ACGTcount: A:0.22, C:0.06, G:0.04, T:0.68
Consensus pattern (24 bp):
TTTTATTTTAAGTTTTATTTTTAA
Found at i:906984 original size:13 final size:13
Alignment explanation
Indices: 906955--907004 Score: 59
Period size: 13 Copynumber: 3.9 Consensus size: 13
906945 CTTTCTTTTC
* *
906955 TTTTCTTTTCAAG
1 TTTTATTTTTAAG
906968 TTTTCATTTTTAA-
1 TTTT-ATTTTTAAG
906981 TTTTA-TTTTAAG
1 TTTTATTTTTAAG
906993 TTTTATTTTTAA
1 TTTTATTTTTAA
907005 ACATACTTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
11 6 0.19
12 6 0.19
13 14 0.44
14 6 0.19
ACGTcount: A:0.22, C:0.06, G:0.04, T:0.68
Consensus pattern (13 bp):
TTTTATTTTTAAG
Found at i:906996 original size:12 final size:12
Alignment explanation
Indices: 906955--907001 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
906945 CTTTCTTTTC
*
906955 TTTTCTTTTCAAG
1 TTTTATTTT-AAG
906968 TTTTCATTTTTAA-
1 TTTT-A-TTTTAAG
906981 TTTTATTTTAAG
1 TTTTATTTTAAG
906993 TTTTATTTT
1 TTTTATTTT
907002 TAAACATACT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
11 6 0.20
12 10 0.33
13 8 0.27
14 2 0.07
15 4 0.13
ACGTcount: A:0.19, C:0.06, G:0.04, T:0.70
Consensus pattern (12 bp):
TTTTATTTTAAG
Found at i:907891 original size:22 final size:22
Alignment explanation
Indices: 907874--907952 Score: 99
Period size: 22 Copynumber: 3.6 Consensus size: 22
907864 AGAGGTATTG
907874 ATACCCCTATGAATAGGTATCA
1 ATACCCCTATGAATAGGTATCA
* * *
907896 ATACCCCCTATGAATGGGTACCT
1 ATA-CCCCTATGAATAGGTATCA
907919 ATACCCCTATGAA-AGGGTATCA
1 ATACCCCTATGAATA-GGTATCA
907941 ATACCCC-ATGAA
1 ATACCCCTATGAA
907953 GACTCAAATT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
21 5 0.10
22 25 0.51
23 19 0.39
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (22 bp):
ATACCCCTATGAATAGGTATCA
Found at i:907907 original size:23 final size:23
Alignment explanation
Indices: 907877--907947 Score: 92
Period size: 23 Copynumber: 3.1 Consensus size: 23
907867 GGTATTGATA
907877 CCCCTATGAATAGGTATCAATAC
1 CCCCTATGAATAGGTATCAATAC
* * *
907900 CCCCTATGAATGGGTACCTATA-
1 CCCCTATGAATAGGTATCAATAC
907922 CCCCTATGAA-AGGGTATCAATAC
1 CCCCTATGAATA-GGTATCAATAC
907945 CCC
1 CCC
907948 ATGAAGACTC
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
22 18 0.45
23 22 0.55
ACGTcount: A:0.31, C:0.30, G:0.15, T:0.24
Consensus pattern (23 bp):
CCCCTATGAATAGGTATCAATAC
Found at i:908426 original size:33 final size:33
Alignment explanation
Indices: 908358--908427 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
908348 TTTTATAAAG
* **
908358 GGGAAAGGTTCTAGCTGATCCCGTGAAAAGTTA
1 GGGAAAGGTTCTAGCTGAGCCCGTGAAAAACTA
* *
908391 GGGAAAGGTTCTAGTTTAGCCCGTGAAAAACTA
1 GGGAAAGGTTCTAGCTGAGCCCGTGAAAAACTA
908424 GGGA
1 GGGA
908428 GTTGTAAAGG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.31, C:0.14, G:0.31, T:0.23
Consensus pattern (33 bp):
GGGAAAGGTTCTAGCTGAGCCCGTGAAAAACTA
Found at i:911093 original size:18 final size:18
Alignment explanation
Indices: 911070--911144 Score: 89
Period size: 18 Copynumber: 4.1 Consensus size: 18
911060 CAACAATTGG
911070 TAACAATTGGTATCTTTT
1 TAACAATTGGTATCTTTT
*
911088 TAACAATTGGTATCCTTT
1 TAACAATTGGTATCTTTT
**
911106 T-GTAATTGGTATCATTTT
1 TAACAATTGGTATC-TTTT
911124 GTAAACAATTGGTATCTTTT
1 -T-AACAATTGGTATCTTTT
911144 T
1 T
911145 CATTAAAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
17 10 0.21
18 21 0.45
19 2 0.04
20 4 0.09
21 10 0.21
ACGTcount: A:0.27, C:0.11, G:0.13, T:0.49
Consensus pattern (18 bp):
TAACAATTGGTATCTTTT
Found at i:911114 original size:17 final size:17
Alignment explanation
Indices: 911092--911127 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
911082 TCTTTTTAAC
*
911092 AATTGGTATCCTTTTGT
1 AATTGGTATCATTTTGT
911109 AATTGGTATCATTTTGT
1 AATTGGTATCATTTTGT
911126 AA
1 AA
911128 ACAATTGGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.25, C:0.08, G:0.17, T:0.50
Consensus pattern (17 bp):
AATTGGTATCATTTTGT
Found at i:911136 original size:38 final size:35
Alignment explanation
Indices: 911074--911144 Score: 106
Period size: 38 Copynumber: 1.9 Consensus size: 35
911064 AATTGGTAAC
911074 AATTGGTATCTTTTTAACAATTGGTATCCTTTTGT
1 AATTGGTATCTTTTTAACAATTGGTATCCTTTTGT
*
911109 AATTGGTATCATTTTGTAAACAATTGGTATCTTTTT
1 AATTGGTATC-TTTT-T-AACAATTGGTATCCTTTT
911145 CATTAAAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
35 10 0.31
36 4 0.12
37 1 0.03
38 17 0.53
ACGTcount: A:0.25, C:0.10, G:0.14, T:0.51
Consensus pattern (35 bp):
AATTGGTATCTTTTTAACAATTGGTATCCTTTTGT
Found at i:914216 original size:3 final size:3
Alignment explanation
Indices: 914202--914239 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
914192 GTTGATTGTG
914202 TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
914240 ATATATATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:914247 original size:2 final size:2
Alignment explanation
Indices: 914240--914271 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
914230 ATAATAATAA
914240 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
914272 CCCAAAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:914628 original size:42 final size:42
Alignment explanation
Indices: 914523--914676 Score: 197
Period size: 42 Copynumber: 3.7 Consensus size: 42
914513 TTGACCCAAA
* *
914523 GTGATGTTGATCTAACTCCTTATGTGATGGACAAGC-CAA-G
1 GTGATGTTGATCCAACTCCTTATGTGATGGACAAGCGAAATG
*
914563 GTGATATTGATCCAACTCCTTATGTGATGGACAAGCGAAATG
1 GTGATGTTGATCCAACTCCTTATGTGATGGACAAGCGAAATG
** *
914605 AAGATGTTGATCCAACTCCTTATGTAATGGACGAA-CGAAATG
1 GTGATGTTGATCCAACTCCTTATGTGATGGAC-AAGCGAAATG
* * *
914647 GTGATGTTGATACAACTCCTCATGCGATGG
1 GTGATGTTGATCCAACTCCTTATGTGATGG
914677 GATCGAGCTA
Statistics
Matches: 98, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
40 34 0.35
41 2 0.02
42 60 0.61
43 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.29
Consensus pattern (42 bp):
GTGATGTTGATCCAACTCCTTATGTGATGGACAAGCGAAATG
Found at i:915974 original size:233 final size:235
Alignment explanation
Indices: 915462--916217 Score: 941
Period size: 233 Copynumber: 3.2 Consensus size: 235
915452 TAACACCATA
** ** * * *
915462 TGAAAACATCCTAACCGAAGGTCTTACAGATGGCTCGAAGGACTTATCA-ATTACTCGAATGGCT
1 TGAAAACATCCTTCCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTACTCGAAAGGCT
* * * * *
915526 TATAGACGATCTGAAGGATTTAGGCATCATGCTT-GAAAGACTTACTGATGGCTCGAAGG-GTTA
66 TATAGATGACCCGAAGGATTTAGGCATCATG-TTCGAAAGACTTACTGATGGCCCGAAGGACTTA
*
915589 CTAAGTAAGAAACTTTGGAAATAGTTTTCTTACTTTTAAAAAAATCAATTTTTAGAAAAGATTTA
130 CTAAGTAAGAAACTTTGGAAAT-GTTTTCTTACTTTAAAAAAAATCAA-TTTTAGAAAAGATTTA
* * *
915654 AATGAGAAACTTTGGAAATTGCTTTCGCATTTTTCGAAAATCATG
193 AATGAGAAACTTTGG-AATTACTTTCTCATTTTT-AAAAATCATG
* * *
915699 TGAAAACATCCTGCCCGAAGGTTTTATGGATGGCCTGAAGGACTTATCATCTTACTCGAAAGGCT
1 TGAAAACATCCTTCCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTACTCGAAAGGCT
* * * *
915764 TGTAGATGACCCGAAGGATTTAGGTATCATGTTCGAAAAATTTACTGATGGCCCGAAGGACTTAC
66 TATAGATGACCCGAAGGATTTAGGCATCATGTTCGAAAGACTTACTGATGGCCCGAAGGACTTAC
* * * *
915829 TAAGGAAGAAAATTTTGGAAAT-TATT-TT-CTTTAAAAAAAATCAATTTTAAAAAAGATTTAAA
131 TAAGTAAG-AAACTTTGGAAATGTTTTCTTACTTTAAAAAAAATCAATTTTAGAAAAGATTTAAA
* * *
915891 TGAGAAACTTTGGAATCATTTTCTCATTTTTAAAAATTATG
195 TGAGAAACTTTGGAATTACTTTCTCATTTTTAAAAATCATG
* * * *
915932 TGAAAACATCTTTCCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCGTCTTGCTCGAAAGGCG
1 TGAAAACATCCTTCCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTACTCGAAAGGCT
* * * * *
915997 TATAGATGTCTCTAAGGATTTAGGCATCATGCTCGAAAGACTTACTGATAGCCCGAAGGACTTAC
66 TATAGATGACCCGAAGGATTTAGGCATCATGTTCGAAAGACTTACTGATGGCCCGAAGGACTTAC
*
916062 TAAGTAAGAAACTTTAGAAATCGTTTTCTTACTTTAAAAAAAAATCAATTTTCAGAAAAGATTTA
131 TAAGTAAGAAACTTTGGAAAT-GTTTTCTTACTTT-AAAAAAAATCAATTTT-AGAAAAGATTTA
* *
916127 AATGAGAAACTTTAG-ATTACTTTCTCATTTTTTTTTAAAATCATG
193 AATGAGAAACTTTGGAATTACTTTCTCA---TTTTTAAAAATCATG
* * * *
916172 TGAAAACATCATTCTCAAAGGTCTTATGGATGGCCCGAGGGACTTA
1 TGAAAACATCCTTCCCGAAGGTCTTATGGATGGCCCGAAGGACTTA
916218 CTCTTCAAGA
Statistics
Matches: 447, Mismatches: 59, Indels: 23
0.84 0.11 0.04
Matches are distributed among these distances:
232 11 0.02
233 129 0.29
234 17 0.04
235 32 0.07
236 19 0.04
237 72 0.16
238 89 0.20
239 11 0.02
240 67 0.15
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (235 bp):
TGAAAACATCCTTCCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTACTCGAAAGGCT
TATAGATGACCCGAAGGATTTAGGCATCATGTTCGAAAGACTTACTGATGGCCCGAAGGACTTAC
TAAGTAAGAAACTTTGGAAATGTTTTCTTACTTTAAAAAAAATCAATTTTAGAAAAGATTTAAAT
GAGAAACTTTGGAATTACTTTCTCATTTTTAAAAATCATG
Found at i:916471 original size:59 final size:59
Alignment explanation
Indices: 916294--916504 Score: 200
Period size: 59 Copynumber: 3.6 Consensus size: 59
916284 GAGTAATCGA
* * * **
916294 CAAGAAACCTCTGAAAATCAGATTTA-TCTTCTTTAAAAACT-CATGTGAAGAA-GTCAT-T
1 CAAGAAACCTCTAAAAATCAGACTTAGT-TTCTTTAAAAA-TGCATTTGAA-AACACCATGT
* * * * * * * *
916352 -TAGAAACTTCTAAAAATCAGAATTAGCTTCTTT-AAAATTCTTTTGAAAACATCTTGT
1 CAAGAAACCTCTAAAAATCAGACTTAGTTTCTTTAAAAATGCATTTGAAAACACCATGT
* *
916409 CAAGAAACCTCTAAAAATAAGACTTAGTTTATTTAAAAATGCATTTGAAAACACCATGT
1 CAAGAAACCTCTAAAAATCAGACTTAGTTTCTTTAAAAATGCATTTGAAAACACCATGT
* *
916468 CAAGAAACCTCTTAAAATCAGCCTTAGTTTCTTTAAA
1 CAAGAAACCTCTAAAAATCAGACTTAGTTTCTTTAAA
916505 GATATGATAT
Statistics
Matches: 124, Mismatches: 23, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
55 3 0.02
56 13 0.10
57 28 0.23
58 27 0.22
59 53 0.43
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.33
Consensus pattern (59 bp):
CAAGAAACCTCTAAAAATCAGACTTAGTTTCTTTAAAAATGCATTTGAAAACACCATGT
Found at i:918379 original size:29 final size:29
Alignment explanation
Indices: 918362--918416 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
918352 GTTTTGATTT
918362 AATTTAGCCATTGTGTTTTATTTTATTCC
1 AATTTAGCCATTGTGTTTTATTTTATTCC
* * *
918391 AATTTAGTCATTG-CTTTTAGTTTATT
1 AATTTAGCCATTGTGTTTTATTTTATT
918417 TATTTATTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 11 0.48
29 12 0.52
ACGTcount: A:0.22, C:0.11, G:0.11, T:0.56
Consensus pattern (29 bp):
AATTTAGCCATTGTGTTTTATTTTATTCC
Found at i:928332 original size:2 final size:2
Alignment explanation
Indices: 928325--928352 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
928315 AAAATCATTC
928325 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
928353 TAAAAGTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:929176 original size:24 final size:22
Alignment explanation
Indices: 929148--929192 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
929138 TTTCAAAATC
929148 ATGATCCAA-TAGTTTATTGTAAAA
1 ATGAT-CAAGTAG-TTATT-TAAAA
929172 ATGATCAAGTAGTTATTTAAA
1 ATGATCAAGTAGTTATTTAAA
929193 TCACATGAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 4 0.20
23 8 0.40
24 8 0.40
ACGTcount: A:0.42, C:0.07, G:0.13, T:0.38
Consensus pattern (22 bp):
ATGATCAAGTAGTTATTTAAAA
Found at i:931348 original size:5 final size:5
Alignment explanation
Indices: 931317--931347 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
931307 TTAGTCCCTT
*
931317 AATTA AATTA AATTA AATTA AATTA ATTTA A
1 AATTA AATTA AATTA AATTA AATTA AATTA A
931348 TATATAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
AATTA
Found at i:932068 original size:56 final size:56
Alignment explanation
Indices: 931992--932103 Score: 224
Period size: 56 Copynumber: 2.0 Consensus size: 56
931982 ATGTACCTTT
931992 TGAAACAGAACCTCTCCAGATGCAACCAACTCTCTGATCTTGTGGAACCTTACATC
1 TGAAACAGAACCTCTCCAGATGCAACCAACTCTCTGATCTTGTGGAACCTTACATC
932048 TGAAACAGAACCTCTCCAGATGCAACCAACTCTCTGATCTTGTGGAACCTTACATC
1 TGAAACAGAACCTCTCCAGATGCAACCAACTCTCTGATCTTGTGGAACCTTACATC
932104 AATGTTAGTT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (56 bp):
TGAAACAGAACCTCTCCAGATGCAACCAACTCTCTGATCTTGTGGAACCTTACATC
Found at i:940720 original size:26 final size:24
Alignment explanation
Indices: 940658--940720 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 24
940648 CATTTTAATC
940658 AAAATAT-TAATTATTAAAATATTT
1 AAAATATAT-ATTATTAAAATATTT
*
940682 AAAATATAT-TTATTAATAT-TTCT
1 AAAATATATATTATTAAAATATT-T
940705 AATAATATAATATTAT
1 AA-AATAT-ATATTAT
940721 ATTTTTAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
22 2 0.06
23 12 0.36
24 12 0.36
25 3 0.09
26 4 0.12
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
AAAATATATATTATTAAAATATTT
Found at i:940722 original size:22 final size:23
Alignment explanation
Indices: 940692--940738 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
940682 AAAATATATT
940692 TATTAATATTTCTAATAATATAA
1 TATTAATATTTCTAATAATATAA
* *
940715 TATT-ATATTTTTAATATTATAA
1 TATTAATATTTCTAATAATATAA
940737 TA
1 TA
940739 AAATAATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
TATTAATATTTCTAATAATATAA
Found at i:940752 original size:32 final size:32
Alignment explanation
Indices: 940686--940765 Score: 92
Period size: 32 Copynumber: 2.5 Consensus size: 32
940676 ATATTTAAAA
* *
940686 TATATTTATTAATATTTCTAATAATATAATAT
1 TATATTTATTAATATTTATAATAAAATAATAT
940718 TATATTT-TTAATA-TTATAATAAAATAATCAAT
1 TATATTTATTAATATTTATAATAAAATAAT--AT
*
940750 TATATTATAATAATAT
1 TATATT-TATTAATAT
940766 AAGATATTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
30 13 0.32
31 6 0.15
32 15 0.38
33 1 0.03
34 5 0.12
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (32 bp):
TATATTTATTAATATTTATAATAAAATAATAT
Found at i:940871 original size:27 final size:27
Alignment explanation
Indices: 940818--940903 Score: 83
Period size: 27 Copynumber: 3.2 Consensus size: 27
940808 AATAAAATTT
*
940818 ATATTATTTAT-TAATTTCATAGA-AATA
1 ATATTATTTATAT-ATTTAATA-ATAATA
940845 ATATTATTTA-AT-TATTAATAATGAATA
1 ATATTATTTATATAT-TTAATAAT-AATA
*
940872 TTATTATTTATATATTTAATAATAAT-
1 ATATTATTTATATATTTAATAATAATA
940898 ATATTA
1 ATATTA
940904 ATCTAATAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 13
0.76 0.05 0.20
Matches are distributed among these distances:
25 2 0.04
26 10 0.20
27 27 0.54
28 10 0.20
29 1 0.02
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.51
Consensus pattern (27 bp):
ATATTATTTATATATTTAATAATAATA
Found at i:940895 original size:24 final size:23
Alignment explanation
Indices: 940841--940899 Score: 64
Period size: 28 Copynumber: 2.3 Consensus size: 23
940831 ATTTCATAGA
940841 AATAATATTATTTAATTATTAAT
1 AATAATATTATTTAATTATTAAT
*
940864 AATGAATATTATTATTTATATATTTAAT
1 AAT-AATATTA-T-TTAAT-TA-TTAAT
940892 AATAATAT
1 AATAATAT
940900 ATTAATCTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
23 3 0.10
24 7 0.23
25 1 0.03
26 4 0.13
27 7 0.23
28 8 0.27
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
AATAATATTATTTAATTATTAAT
Found at i:940912 original size:16 final size:16
Alignment explanation
Indices: 940891--940921 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
940881 ATATATTTAA
940891 TAATAATATATTAATC
1 TAATAATATATTAATC
*
940907 TAATAATATTTTAAT
1 TAATAATATATTAAT
940922 AAAGATATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (16 bp):
TAATAATATATTAATC
Found at i:940938 original size:23 final size:23
Alignment explanation
Indices: 940918--940962 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
940908 AATAATATTT
940918 TAATAAAGATATTTAAAATATAC
1 TAATAAAGATATTTAAAATATAC
* * *
940941 TAATTAATATTTTTAAAATATA
1 TAATAAAGATATTTAAAATATA
940963 ATATAACACA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
TAATAAAGATATTTAAAATATAC
Found at i:941099 original size:18 final size:19
Alignment explanation
Indices: 941057--941100 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
941047 ATTAATACAA
941057 TTATAA-AAATAATATTTT
1 TTATAATAAATAATATTTT
941075 TTATAATAAATAA-ATTATT
1 TTATAATAAATAATATT-TT
941094 TT-TAATA
1 TTATAATA
941101 TTTTAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TTATAATAAATAATATTTT
Found at i:941255 original size:14 final size:14
Alignment explanation
Indices: 941236--941270 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
941226 CAAACATCGT
941236 AAAATGTTTTTCAG
1 AAAATGTTTTTCAG
941250 AAAATGTTTTTCAG
1 AAAATGTTTTTCAG
941264 AAAATGT
1 AAAATGT
941271 AATTTATACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.40, C:0.06, G:0.14, T:0.40
Consensus pattern (14 bp):
AAAATGTTTTTCAG
Found at i:942939 original size:17 final size:18
Alignment explanation
Indices: 942919--942959 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
942909 AGAAAACAAT
*
942919 AATTTTATTAAAAATT-A
1 AATTTAATTAAAAATTCA
*
942936 AATTTAATTAAAAGTTCA
1 AATTTAATTAAAAATTCA
942954 AATTTA
1 AATTTA
942960 GTATCATACT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (18 bp):
AATTTAATTAAAAATTCA
Found at i:945762 original size:14 final size:14
Alignment explanation
Indices: 945743--945769 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
945733 ATAATAATAT
945743 ATATTATTATTATC
1 ATATTATTATTATC
945757 ATATTATTATTAT
1 ATATTATTATTAT
945770 TAAATTGTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (14 bp):
ATATTATTATTATC
Found at i:945771 original size:20 final size:20
Alignment explanation
Indices: 945726--945769 Score: 58
Period size: 17 Copynumber: 2.4 Consensus size: 20
945716 AGTGTCATTT
945726 TTATTATATAATAATATATA
1 TTATTATATAATAATATATA
*
945746 TTATTAT-T-ATCATAT-TA
1 TTATTATATAATAATATATA
945763 TTATTAT
1 TTATTAT
945770 TAAATTGTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 9 0.39
18 6 0.26
19 1 0.04
20 7 0.30
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (20 bp):
TTATTATATAATAATATATA
Found at i:946947 original size:21 final size:22
Alignment explanation
Indices: 946917--946964 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
946907 TTATAATATT
*
946917 TTTAATCTATAT-ATTTT-ATAA
1 TTTAACCTATATAATTTTAAT-A
*
946938 TTTAACCTATGTAATTTTAATA
1 TTTAACCTATATAATTTTAATA
946960 TTTAA
1 TTTAA
946965 ATAAACATGG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 10 0.43
22 11 0.48
23 2 0.09
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.54
Consensus pattern (22 bp):
TTTAACCTATATAATTTTAATA
Found at i:948069 original size:45 final size:47
Alignment explanation
Indices: 947980--948069 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 47
947970 TCAGTATTGA
* * * *
947980 TTTATCTTCTAAATAAATGCATGCGAACTAGAAATCATGTGGTTAGG
1 TTTATCTTCTAAACAAATGCATGAGAACTAGAAAGCATGAGGTTAGG
*
948027 TTTATTTTCTAAACAAA-GCATGAG-ACTAGAAAGCATGAGGTTA
1 TTTATCTTCTAAACAAATGCATGAGAACTAGAAAGCATGAGGTTA
948070 AGATGTATAT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
45 17 0.45
46 6 0.16
47 15 0.39
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (47 bp):
TTTATCTTCTAAACAAATGCATGAGAACTAGAAAGCATGAGGTTAGG
Found at i:955539 original size:131 final size:131
Alignment explanation
Indices: 955286--955653 Score: 454
Period size: 131 Copynumber: 2.8 Consensus size: 131
955276 ATAAGTTTAA
* **
955286 GAGAGAAAGCGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAACA
1 GAGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAGTA
* * *
955351 AACATTTATTACTCCAATCGAAATGAAGAGATATTAATATTACGTCTAAAAATTCAATATCGA-T
66 ATCATTTATTACTCCAATCGAAATGAAGAGATATTACTATTACATCTAAAAATTCAATAT-GAGT
955415 TC
130 TC
* * * * * * *
955417 GAGTGAACATGATAATATCTAATGATTTCCAATCGAGAATAAATGATCTCTAATACCTTTAAGTA
1 GAGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAGTA
* * * * * *
955482 GTCATTTATTGCTCCAATCAAAATGAAGAGATATCACTATTTCATCTTAAAAA-TCAATATTAGT
66 ATCATTTATTACTCCAATCGAAATGAAGAGATATTACTATTACATC-TAAAAATTCAATATGAGT
*
955546 TT
130 TC
* * *
955548 GAGAGAAAACGACT-ATATCGAATTATTTCCAATCGAGAAAAAATGACCTCTCATGCCTTAAAGT
1 GAGAGAAAACGA-TAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAGT
* * *
955612 AATCATTTATTACTTCAACCGAAATGAAAAGATATTACTATT
65 AATCATTTATTACTCCAATCGAAATGAAGAGATATTACTATT
955654 CTCAATATCG
Statistics
Matches: 197, Mismatches: 37, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
130 1 0.01
131 189 0.96
132 7 0.04
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (131 bp):
GAGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAGTA
ATCATTTATTACTCCAATCGAAATGAAGAGATATTACTATTACATCTAAAAATTCAATATGAGTT
C
Found at i:958164 original size:134 final size:134
Alignment explanation
Indices: 957993--958913 Score: 1000
Period size: 134 Copynumber: 6.9 Consensus size: 134
957983 CATTAACTCA
* ** * *
957993 TTCCACTGTT-CTTCAGGGAAGATTGAATCTTGAAAGAGAGGGATATGTTCTGCTTTTTCTTGTG
1 TTCCACTGTTAC-TCAGGGAATATCAAATCTTGAAAGAGAGGGATATGTTTTGCTTTTTCTTGAG
* * * * * *
958057 GGAAAATCATATATGGGGACGTTGATTCATTCCACTATTCTCCAGGGAAAATTGAATTGAGGTAA
65 GGAAAATCAGATCTGGGGACGTTGATTCATTCCACTATTCTTCAGGGAATATTGAATCGAGGCAA
958122 ACTTG
130 ACTTG
* * *
958127 TTCCACTGTTACTCAGGGAAGATCAAATCTTGAAAGAGA--GATTTGTTTTGCTTATTT-TTTAG
1 TTCCACTGTTACTCAGGGAATATCAAATCTTGAAAGAGAGGGATATGTTTTGCTT-TTTCTTGAG
* * ** * **
958189 GGAAAATTAGATATGGGGTTGTTGATTCATTCCACTATTCTTTATAGAATATTGAATCGAGGCAA
65 GGAAAATCAGATCTGGGGACGTTGATTCATTCCACTATTCTTCAGGGAATATTGAATCGAGGCAA
958254 ACTTG
130 ACTTG
* * ** *
958259 TTCCGCTGTTACTCAGGAAATATCAAATCTTGAAAGAGAGGGATATGTTCCGCTTCTTCTTGAGG
1 TTCCACTGTTACTCAGGGAATATCAAATCTTGAAAGAGAGGGATATGTTTTGCTTTTTCTTGAGG
** * * * * *
958324 GAAAAT-ATGATCTAAGGATGTTGATTCATTCCACTATTCTTCAGGAAAGATTGAATCGAGTCAG
66 GAAAATCA-GATCTGGGGACGTTGATTCATTCCACTATTCTTCAGGGAATATTGAATCGAGGCAA
*
958388 GCTTG
130 ACTTG
* * * * *
958393 CTCCACTGTTACTCAGGGAATATCAAATCTTGAAAGAAAGGGATTTGTTTCGCTTCTTCTT-AGG
1 TTCCACTGTTACTCAGGGAATATCAAATCTTGAAAGAGAGGGATATGTTTTGCTTTTTCTTGAGG
* * *
958457 GAAAATCAGATCTGGGGACATTGATTCATTCCACT-TTCTTCAGGGAATATTGAATCGATGCCAA
66 GAAAATCAGATCTGGGGACGTTGATTCATTCCACTATTCTTCAGGGAATATTGAATCGAGGCAAA
*
958521 CTTA
131 CTTG
* * * * * *
958525 TTCCACTATTACTCAGGGAATATCAAATTTTGAAAGATAAGGATTTGTTTTGCCTTTTCTTGAGG
1 TTCCACTGTTACTCAGGGAATATCAAATCTTGAAAGAGAGGGATATGTTTTGCTTTTTCTTGAGG
* * * * * * *
958590 GAAAATCATATATGGGGACGTTGATTCATTCCATTGTTCTTTAAGGAATATTGAATCGAGGCAGA
66 GAAAATCAGATCTGGGGACGTTGATTCATTCCACTATTCTTCAGGGAATATTGAATCGAGGCAAA
958655 CTTG
131 CTTG
* * * *
958659 TTCCATTGTTACTCAGGGAATATCAAATCTTAAAAGGGATGGATATGTTTTG-TTTATTCTTGAG
1 TTCCACTGTTACTCAGGGAATATCAAATCTTGAAAGAGAGGGATATGTTTTGCTTT-TTCTTGAG
* ** * * * *
958723 GTAAAAT-AGATCTGGGGACACTGATTCATTCCACTTTTAC-TCAGGGAAGATTGAATCAAGGTA
65 GGAAAATCAGATCTGGGGACGTTGATTCATTCCACTATT-CTTCAGGGAATATTGAATCGAGGCA
*
958786 GACTTG
129 AACTTG
** * * *
958792 TTCCACTGTTACTCACAGAATATCAAATCTTGAAAGAGATGGATCTGTTTCGCTTTTTCTTGAGG
1 TTCCACTGTTACTCAGGGAATATCAAATCTTGAAAGAGAGGGATATGTTTTGCTTTTTCTTGAGG
* * * * **
958857 GAAAATCAGATCTGGGGACGATGATTAATTTCACTGA-TCTTTAGGGAGGATTGAATC
66 GAAAATCAGATCTGGGGACGTTGATTCATTCCACT-ATTCTTCAGGGAATATTGAATC
958914 ATGTTCGATT
Statistics
Matches: 663, Mismatches: 109, Indels: 30
0.83 0.14 0.04
Matches are distributed among these distances:
132 188 0.28
133 183 0.28
134 291 0.44
135 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.35
Consensus pattern (134 bp):
TTCCACTGTTACTCAGGGAATATCAAATCTTGAAAGAGAGGGATATGTTTTGCTTTTTCTTGAGG
GAAAATCAGATCTGGGGACGTTGATTCATTCCACTATTCTTCAGGGAATATTGAATCGAGGCAAA
CTTG
Found at i:958507 original size:266 final size:262
Alignment explanation
Indices: 958018--958891 Score: 1009
Period size: 266 Copynumber: 3.3 Consensus size: 262
958008 GGGAAGATTG
* *
958018 AATCTTGAAAGAGAGGGATATGTTCTGCTTTTTCTTGTGGGAAAATCATATATGGGGACGTTGAT
1 AATCTTGAAAGAGAGGGATATGTTCCGCTTTTTCTTGAGGGAAAATCATATATGGGGACGTTGAT
* * *
958083 TCATTCCACTATTCTCCAGGGAAAATTGAATTGAGGT-AAACTTGTTCCACTGTTACTCAGGGAA
66 TCATTCCACTATTCTTCA-GGAAAATTGAATCGA-GTCAGACTTGTTCCACTGTTACTCAGGGAA
* * * * ***
958147 GATCAAATCTTGAAAGAGAGATTTGTTTTGCTTATTTTTTAGGGAAAATTAGATATGGGGTTGTT
129 TATCAAATCTTGAAAGAGGGATTTGTTTTGCTTA-TTCTTAGGGAAAA-TAGATCTGGGGACATT
* ** *
958212 GATTCATTCCACTATTCTTTATAGAATATTGAATCGAGGCAAACTTGTTCCGCTGTTACTCAGGA
192 GATTCATTCCACT-TTCTTCAGGGAATATTGAATCGAGGCAAACTTGTTCCACTGTTACTCAGGA
958277 AATATCA
256 AATATCA
* * ** *
958284 AATCTTGAAAGAGAGGGATATGTTCCGCTTCTTCTTGAGGGAAAAT-ATGATCTAAGGATGTTGA
1 AATCTTGAAAGAGAGGGATATGTTCCGCTTTTTCTTGAGGGAAAATCAT-ATATGGGGACGTTGA
* *
958348 TTCATTCCACTATTCTTCAGGAAAGATTGAATCGAGTCAGGCTTGCTCCACTGTTACTCAGGGAA
65 TTCATTCCACTATTCTTCAGGAAA-ATTGAATCGAGTCAGACTTGTTCCACTGTTACTCAGGGAA
* *
958413 TATCAAATCTTGAAAGAAAGGGATTTGTTTCGCTTCTTCTTAGGGAAAATCAGATCTGGGGACAT
129 TATCAAATCTTGAAAG--AGGGATTTGTTTTGCTTATTCTTAGGGAAAAT-AGATCTGGGGACAT
* * * * *
958478 TGATTCATTCCACTTTCTTCAGGGAATATTGAATCGATGCCAACTTATTCCACTATTACTCAGGG
191 TGATTCATTCCACTTTCTTCAGGGAATATTGAATCGAGGCAAACTTGTTCCACTGTTACTCAGGA
958543 AATATCA
256 AATATCA
* * * * ** *
958550 AATTTTGAAAGATAAGGATTTGTTTTGCCTTTTCTTGAGGGAAAATCATATATGGGGACGTTGAT
1 AATCTTGAAAGAGAGGGATATGTTCCGCTTTTTCTTGAGGGAAAATCATATATGGGGACGTTGAT
* * * * * *
958615 TCATTCCATTGTTCTTTAAGGAATATTGAATCGAGGCAGACTTGTTCCATTGTTACTCAGGGAAT
66 TCATTCCACTATTC-TTCAGGAAAATTGAATCGAGTCAGACTTGTTCCACTGTTACTCAGGGAAT
* * * * * *
958680 ATCAAATCTTAAAAGGGATGGATATGTTTTGTTTATTCTTGAGGTAAAATAGATCTGGGGACACT
130 ATCAAATCTTGAAA--GAGGGATTTGTTTTGCTTATTCTT-AGGGAAAATAGATCTGGGGACATT
* * * * *
958745 GATTCATTCCACTTT-TACTCAGGGAAGATTGAATCAAGGTAGACTTGTTCCACTGTTACTCA-C
192 GATTCATTCCACTTTCT--TCAGGGAATATTGAATCGAGGCAAACTTGTTCCACTGTTACTCAGG
958808 AGAATATCA
255 A-AATATCA
* * * * * *
958817 AATCTTGAAAGAGATGGATCTGTTTCGCTTTTTCTTGAGGGAAAATCAGATCTGGGGACGATGAT
1 AATCTTGAAAGAGAGGGATATGTTCCGCTTTTTCTTGAGGGAAAATCATATATGGGGACGTTGAT
* *
958882 TAATTTCACT
66 TCATTCCACT
958892 GATCTTTAGG
Statistics
Matches: 514, Mismatches: 80, Indels: 27
0.83 0.13 0.04
Matches are distributed among these distances:
265 10 0.02
266 329 0.64
267 159 0.31
268 16 0.03
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (262 bp):
AATCTTGAAAGAGAGGGATATGTTCCGCTTTTTCTTGAGGGAAAATCATATATGGGGACGTTGAT
TCATTCCACTATTCTTCAGGAAAATTGAATCGAGTCAGACTTGTTCCACTGTTACTCAGGGAATA
TCAAATCTTGAAAGAGGGATTTGTTTTGCTTATTCTTAGGGAAAATAGATCTGGGGACATTGATT
CATTCCACTTTCTTCAGGGAATATTGAATCGAGGCAAACTTGTTCCACTGTTACTCAGGAAATAT
CA
Found at i:960156 original size:5 final size:5
Alignment explanation
Indices: 960148--960240 Score: 50
Period size: 5 Copynumber: 17.8 Consensus size: 5
960138 TTTTTTATCT
* *
960148 TTTTC TTTTC TTTTTTC TTCTC TCTTTC ATTTT- TATTTT TTTTC TTTTTTC
1 TTTTC TTTTC --TTTTC TTTTC T-TTTC -TTTTC T-TTTC TTTTC --TTTTC
* *
960199 TTTTC ATTT- TTTTC ATTT- TTTTC ATTTTC -TTTC TTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC -TTTTC TTTTC TTTTC TTTT
960241 TAATTTTTTC
Statistics
Matches: 69, Mismatches: 7, Indels: 24
0.69 0.07 0.24
Matches are distributed among these distances:
4 11 0.16
5 35 0.51
6 12 0.17
7 11 0.16
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTC
Found at i:960197 original size:46 final size:45
Alignment explanation
Indices: 960133--960256 Score: 135
Period size: 45 Copynumber: 2.7 Consensus size: 45
960123 TTGAACCCCC
* *
960133 TTTTATTTTTTATC-TTTTTCTTTTCTTTTTTCTTC-TCTCTTTCA
1 TTTTATTTTTTTTCTTTTTTCTTTTCATTTTT-TTCATCTCTTTCA
* *
960177 TTTTTATTTTTTTTCTTTTTTCTTTTCATTTTTTTCATTTTTTTCA
1 -TTTTATTTTTTTTCTTTTTTCTTTTCATTTTTTTCATCTCTTTCA
* * *
960223 TTTTCTTTCTTTTCTTTTTAATTTTTTCATTTTT
1 TTTTATTTTTTTTCTTTTT--TCTTTTCATTTTT
960257 CATTTTTCAT
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
45 33 0.49
46 23 0.34
47 12 0.18
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (45 bp):
TTTTATTTTTTTTCTTTTTTCTTTTCATTTTTTTCATCTCTTTCA
Found at i:960249 original size:9 final size:9
Alignment explanation
Indices: 960199--960256 Score: 71
Period size: 9 Copynumber: 6.2 Consensus size: 9
960189 TTCTTTTTTC
960199 TTTTCATTT
1 TTTTCATTT
960208 TTTTCATTT
1 TTTTCATTT
960217 TTTTCATTT
1 TTTTCATTT
*
960226 TCTTTCTTTT
1 T-TTTCATTT
* *
960236 CTTTTTAATT
1 -TTTTCATTT
960246 TTTTCATTT
1 TTTTCATTT
960255 TT
1 TT
960257 CATTTTTCAT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
9 28 0.68
10 12 0.29
11 1 0.02
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTTCATTT
Found at i:960256 original size:45 final size:45
Alignment explanation
Indices: 960133--960275 Score: 131
Period size: 45 Copynumber: 3.2 Consensus size: 45
960123 TTGAACCCCC
960133 TTTTATTT-TTTATC-TTTTTCTTTTC-TTTTTTC-TTCTCTCTTTCAT
1 TTTTATTTCTTT-TCTTTTTTCTTTTCATTTTTTCATT-T-T-TTTCAT
*
960178 TTTTATTTTTTTTCTTTTTTCTTTTCATTTTTTTCATTTTTTTCA-
1 TTTTATTTCTTTTCTTTTTTCTTTTCA-TTTTTTCATTTTTTTCAT
* *
960223 TTTTCTTTCTTTTCTTTTTAATTTTTTCA-TTTTTCA--TTTTTCAT
1 TTTTATTTCTTTTCTTTTT--TCTTTTCATTTTTTCATTTTTTTCAT
960267 TTTTCATTT
1 TTTT-ATTT
960276 TTCATTCTTC
Statistics
Matches: 85, Mismatches: 4, Indels: 18
0.79 0.04 0.17
Matches are distributed among these distances:
43 7 0.08
44 4 0.05
45 37 0.44
46 19 0.22
47 8 0.09
48 8 0.09
49 2 0.02
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (45 bp):
TTTTATTTCTTTTCTTTTTTCTTTTCATTTTTTCATTTTTTTCAT
Found at i:960278 original size:7 final size:7
Alignment explanation
Indices: 960232--960293 Score: 81
Period size: 7 Copynumber: 8.9 Consensus size: 7
960222 ATTTTCTTTC
960232 TTTTC-T
1 TTTTCAT
*
960238 TTTTAATT
1 TTTTCA-T
960246 TTTTCAT
1 TTTTCAT
960253 TTTTCAT
1 TTTTCAT
960260 TTTTCAT
1 TTTTCAT
960267 TTTTCAT
1 TTTTCAT
960274 TTTTCAT
1 TTTTCAT
*
960281 TCTTCAT
1 TTTTCAT
*
960288 TCTTCA
1 TTTTCA
960294 GGCGAAGTAC
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
6 4 0.08
7 41 0.80
8 6 0.12
ACGTcount: A:0.15, C:0.16, G:0.00, T:0.69
Consensus pattern (7 bp):
TTTTCAT
Found at i:970120 original size:67 final size:67
Alignment explanation
Indices: 970012--970157 Score: 283
Period size: 67 Copynumber: 2.2 Consensus size: 67
970002 GCTTATCTCA
970012 CAGTTTTACATAATCACTTATATTATATCACATCACTTATATACAAATTTCATATATTCAATTTG
1 CAGTTTTACATAATCACTTATATTATATCACATCACTTATATACAAATTTCATATATTCAATTTG
970077 TT
66 TT
970079 CAGTTTTACATAATCACTTATATTATATCACATCACTTATATACAAATTTCATATATTCAATTTG
1 CAGTTTTACATAATCACTTATATTATATCACATCACTTATATACAAATTTCATATATTCAATTTG
970144 TT
66 TT
*
970146 CAATTTTACATA
1 CAGTTTTACATA
970158 GCTTGTCACA
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 78 1.00
ACGTcount: A:0.36, C:0.16, G:0.03, T:0.45
Consensus pattern (67 bp):
CAGTTTTACATAATCACTTATATTATATCACATCACTTATATACAAATTTCATATATTCAATTTG
TT
Found at i:972411 original size:129 final size:130
Alignment explanation
Indices: 972092--972430 Score: 464
Period size: 131 Copynumber: 2.6 Consensus size: 130
972082 ATAATTTTGA
**
972092 GAGAGAAAACGATAATATCTAATTATTTCTAATCGAGAATAAATGACCTCTCATACCTTAAAATT
1 GAGAGAAAACGATAATATCTAATTATTTCTAATCGAGAATAAATGACCTCTCATACCTTAAAACA
* * * *
972157 GTGATTCATTACTCCAATCGAAATGAAGAGATATCACTATTCCGTCTTAAAAATCAATATCAATT
66 GTCATTTATTACTCCAATCGAAATGAAGAGATATCACAATTCCATCTT-AAAATCAATATCAATT
972222 C
130 C
* * * * *
972223 GAGTGAAAACGATAATATCTAATGATTTCTAATCGAGAATAATTGACCTTTCATACCTTAAAGCA
1 GAGAGAAAACGATAATATCTAATTATTTCTAATCGAGAATAAATGACCTCTCATACCTTAAAACA
* * * *
972288 GTCATTTATTGCTCCTATCGAAATGAAGAGATATCACAATTCCATCTT-AAATCAATATTAATTT
66 GTCATTTATTACTCCAATCGAAATGAAGAGATATCACAATTCCATCTTAAAATCAATATCAATTC
* * * * * *
972352 GAGAGAAAACGGTAATATCGAATTATTTCCAATTGAGAATAAATGACCTCTCATGCCTTAAATCA
1 GAGAGAAAACGATAATATCTAATTATTTCTAATCGAGAATAAATGACCTCTCATACCTTAAAACA
*
972417 TTCATTTATTACTC
66 GTCATTTATTACTC
972431 TAAAAAAATT
Statistics
Matches: 181, Mismatches: 27, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
129 81 0.45
131 100 0.55
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.33
Consensus pattern (130 bp):
GAGAGAAAACGATAATATCTAATTATTTCTAATCGAGAATAAATGACCTCTCATACCTTAAAACA
GTCATTTATTACTCCAATCGAAATGAAGAGATATCACAATTCCATCTTAAAATCAATATCAATTC
Found at i:976677 original size:22 final size:23
Alignment explanation
Indices: 976649--976706 Score: 77
Period size: 21 Copynumber: 2.7 Consensus size: 23
976639 TACCCCATTG
976649 GGTACCGATACCCCTAT-ACAAA
1 GGTACCGATACCCCTATCACAAA
*
976671 GGTACCGATA--CCTATCCCAAA
1 GGTACCGATACCCCTATCACAAA
*
976692 GGTATCGATACCCCT
1 GGTACCGATACCCCT
976707 TATGTTGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 5 0.16
21 13 0.42
22 10 0.32
23 3 0.10
ACGTcount: A:0.31, C:0.33, G:0.16, T:0.21
Consensus pattern (23 bp):
GGTACCGATACCCCTATCACAAA
Found at i:991906 original size:2 final size:2
Alignment explanation
Indices: 991899--991932 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
991889 AATCTTAAGA
*
991899 AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
991933 TGTTTGTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:995298 original size:54 final size:54
Alignment explanation
Indices: 995255--996038 Score: 1080
Period size: 54 Copynumber: 14.5 Consensus size: 54
995245 TAAACTCATT
* * * * * *
995255 ATGAATTACGTGGATTGCCCACATAGTGTCGAAACGGTTATTCATCAACATACG
1 ATGAATTTCGTGAATTGCACACTTAGTGCCGAAACGGTTATTCATCAACATATG
995309 ATGAATTTCGTGAATTGCACACTTAGTGCCGAAACGGTTATTCATCAACATATG
1 ATGAATTTCGTGAATTGCACACTTAGTGCCGAAACGGTTATTCATCAACATATG
* **
995363 ATGAATTTCGTGAATTGCACACTTAGTGCCAAAATAGTTATTCATCAACATATG
1 ATGAATTTCGTGAATTGCACACTTAGTGCCGAAACGGTTATTCATCAACATATG
** *
995417 ATGAATTTTTTTAATTGCACACTTAGTGCCGAAACGGTTATTCATCAACATATG
1 ATGAATTTCGTGAATTGCACACTTAGTGCCGAAACGGTTATTCATCAACATATG
* *
995471 ATGAATTTCGTGAATTGCACACTTAGTGTCGAAATGGTTATTCATCAACATATG
1 ATGAATTTCGTGAATTGCACACTTAGTGCCGAAACGGTTATTCATCAACATATG
995525 ATGAATTTCGTGAATTGCACACTTAGTGCCGAAACGGTTATTCATCAACATATG
1 ATGAATTTCGTGAATTGCACACTTAGTGCCGAAACGGTTATTCATCAACATATG
* **
995579 ATGAATTTCGT-ATTTTGCACACTTAGTGCCGAATTGGTTATTCATCAACATATG
1 ATGAATTTCGTGA-ATTGCACACTTAGTGCCGAAACGGTTATTCATCAACATATG
* * *
995633 ATGAA-TTCTATAAATTGCACACTTAGTGCCGAAACAGTTATTCATCAACATATG
1 ATGAATTTC-GTGAATTGCACACTTAGTGCCGAAACGGTTATTCATCAACATATG
* * * *
995687 ATGAATTACGT-ACTTTGCACACTTAGTGTCGAAACGGTTATTCATCAGCATATG
1 ATGAATTTCGTGA-ATTGCACACTTAGTGCCGAAACGGTTATTCATCAACATATG
* *
995741 ATGAATTTTGT-ACTTTGCACACTTAGTGCCGAAACGGTTATTCATCAACATATG
1 ATGAATTTCGTGA-ATTGCACACTTAGTGCCGAAACGGTTATTCATCAACATATG
* *
995795 ATGAA-TTCTGTGAATTGTACACTTAGTGCCGAAACGATTATTCATCAACATATG
1 ATGAATTTC-GTGAATTGCACACTTAGTGCCGAAACGGTTATTCATCAACATATG
* * * * **
995849 ATGAATTTTGT-ACTTTGCATAATTAGTGCCGAAATAGTTATTCATCAACATATG
1 ATGAATTTCGTGA-ATTGCACACTTAGTGCCGAAACGGTTATTCATCAACATATG
* * *
995903 ATGAATTTTGT-ACTTTGCACACTTAGTGTCGAAACGGTTATTCATCAACATATG
1 ATGAATTTCGTGA-ATTGCACACTTAGTGCCGAAACGGTTATTCATCAACATATG
**
995957 ATGAATTTCGTGAATTGCACACTTAGTGCCGAAATAGTTATTCATCAACATATG
1 ATGAATTTCGTGAATTGCACACTTAGTGCCGAAACGGTTATTCATCAACATATG
*
996011 ATGAATTTCGT-ACTTTGCACACTTAGTG
1 ATGAATTTCGTGA-ATTGCACACTTAGTG
996039 ACTATTTGGT
Statistics
Matches: 656, Mismatches: 63, Indels: 22
0.89 0.09 0.03
Matches are distributed among these distances:
53 9 0.01
54 640 0.98
55 7 0.01
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (54 bp):
ATGAATTTCGTGAATTGCACACTTAGTGCCGAAACGGTTATTCATCAACATATG
Found at i:996114 original size:15 final size:15
Alignment explanation
Indices: 996094--996125 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
996084 TGACTAGTAT
996094 AACATATAGTTACAC
1 AACATATAGTTACAC
996109 AACATATAGTTACAC
1 AACATATAGTTACAC
996124 AA
1 AA
996126 TTAAATGCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.19, G:0.06, T:0.25
Consensus pattern (15 bp):
AACATATAGTTACAC
Found at i:996538 original size:21 final size:21
Alignment explanation
Indices: 996512--996606 Score: 172
Period size: 21 Copynumber: 4.5 Consensus size: 21
996502 CCCTCTTTCG
996512 GTATCGATACTTCTTGCATCA
1 GTATCGATACTTCTTGCATCA
996533 GTATCGATACTTCTTGCATCA
1 GTATCGATACTTCTTGCATCA
*
996554 GTATCGATACTTCTGGCATCA
1 GTATCGATACTTCTTGCATCA
996575 GTATCGATACTTCTTGCATCA
1 GTATCGATACTTCTTGCATCA
*
996596 GTATTGATACT
1 GTATCGATACT
996607 ACCCAGTTGT
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 71 1.00
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (21 bp):
GTATCGATACTTCTTGCATCA
Found at i:998183 original size:14 final size:14
Alignment explanation
Indices: 998139--998191 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
998129 TTCAATAGTG
*
998139 AATTTAAATATTTA
1 AATTTAAATATTAA
* *
998153 AA-TTAATTTTTATA
1 AATTTAAATATTA-A
998167 AATTTAAATATTAA
1 AATTTAAATATTAA
*
998181 AATTTAGATAT
1 AATTTAAATAT
998192 CCAATAAAAG
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
13 7 0.23
14 16 0.52
15 8 0.26
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (14 bp):
AATTTAAATATTAA
Found at i:1010906 original size:153 final size:154
Alignment explanation
Indices: 1010628--1010934 Score: 607
Period size: 153 Copynumber: 2.0 Consensus size: 154
1010618 GATCAAGAAC
1010628 TACAATATAAAGCCTCTGTAGAGAAAAAGAAAATGCCTACTTTGTAACACCTCCATACTATATTA
1 TACAATATAAAGCCTCTGTAGAGAAAAAGAAAATGCCTACTTTGTAACACCTCCATACTATATTA
1010693 TAGTTAGTTGAGTAAAGAAATTACCGCATAACTTCAGAAGGGTGAATACAGTAGCAGCAACAAAA
66 TAGTTAGTTGAGTAAAGAAATTACCGCATAACTTCAGAAGGGTGAATACAGTAGCAGCAACAAAA
1010758 AA-ACCATTGAAATCGCAACCCAG
131 AAGACCATTGAAATCGCAACCCAG
1010781 TACAATATAAAGCCTCTGTAGAGAAAAAGAAAATGCCTACTTTGTAACACCTCCATACTATATTA
1 TACAATATAAAGCCTCTGTAGAGAAAAAGAAAATGCCTACTTTGTAACACCTCCATACTATATTA
1010846 TAGTTAGTTGAGTAAAGAAATTACCGCATAACTTCAGAAGGGTGAATACAGTAGCAGCAACAAAA
66 TAGTTAGTTGAGTAAAGAAATTACCGCATAACTTCAGAAGGGTGAATACAGTAGCAGCAACAAAA
1010911 AAGACCATTGAAATCGCAACCCAG
131 AAGACCATTGAAATCGCAACCCAG
1010935 AAGTGCTACA
Statistics
Matches: 153, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
153 132 0.86
154 21 0.14
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.23
Consensus pattern (154 bp):
TACAATATAAAGCCTCTGTAGAGAAAAAGAAAATGCCTACTTTGTAACACCTCCATACTATATTA
TAGTTAGTTGAGTAAAGAAATTACCGCATAACTTCAGAAGGGTGAATACAGTAGCAGCAACAAAA
AAGACCATTGAAATCGCAACCCAG
Found at i:1014638 original size:17 final size:18
Alignment explanation
Indices: 1014603--1014650 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
1014593 TGTTTTTTCA
*
1014603 TTTTCTTTATTGTTTTTTT
1 TTTTCTTTATTG-TGTTTT
1014622 TTTTCTTTATTG-GTTTT
1 TTTTCTTTATTGTGTTTT
*
1014639 TTTTCTTGATTG
1 TTTTCTTTATTG
1014651 ATGAGTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 15 0.56
19 12 0.44
ACGTcount: A:0.06, C:0.06, G:0.10, T:0.77
Consensus pattern (18 bp):
TTTTCTTTATTGTGTTTT
Found at i:1014641 original size:20 final size:19
Alignment explanation
Indices: 1014592--1014642 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 19
1014582 TCTCTTCAAC
*
1014592 TTGTTTTTTCATTTTCTTTA
1 TTGTTTTTT-TTTTTCTTTA
1014612 TTGTTTTTTTTTTTCTTTA
1 TTGTTTTTTTTTTTCTTTA
1014631 TTGGTTTTTTTT
1 TT-GTTTTTTTT
1014643 CTTGATTGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 11 0.38
20 18 0.62
ACGTcount: A:0.06, C:0.06, G:0.08, T:0.80
Consensus pattern (19 bp):
TTGTTTTTTTTTTTCTTTA
Found at i:1016285 original size:2 final size:2
Alignment explanation
Indices: 1016274--1016368 Score: 176
Period size: 2 Copynumber: 48.5 Consensus size: 2
1016264 TCATAGTACA
1016274 AT AT -T 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
1016315 -T 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
1016356 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
1016369 CAACATGAAC
Statistics
Matches: 91, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
1 2 0.02
2 89 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:1016534 original size:2 final size:2
Alignment explanation
Indices: 1016527--1016566 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
1016517 AGATTAATCA
1016527 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
1016567 TTCATTTAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1017376 original size:27 final size:29
Alignment explanation
Indices: 1017339--1017392 Score: 76
Period size: 27 Copynumber: 1.9 Consensus size: 29
1017329 TTCATCAAAA
1017339 TTTTAAATATAAT-ATATATA-AATATAT
1 TTTTAAATATAATCATATATACAATATAT
* *
1017366 TTTTTAATATAATCATTTATACAATAT
1 TTTTAAATATAATCATATATACAATAT
1017393 TCATTGTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 12 0.52
28 6 0.26
29 5 0.22
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (29 bp):
TTTTAAATATAATCATATATACAATATAT
Found at i:1017535 original size:12 final size:12
Alignment explanation
Indices: 1017518--1017543 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1017508 AAAAGTCAGT
1017518 CAAAGTTTGGTG
1 CAAAGTTTGGTG
1017530 CAAAGTTTGGTG
1 CAAAGTTTGGTG
1017542 CA
1 CA
1017544 GTTCAAAGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.12, G:0.31, T:0.31
Consensus pattern (12 bp):
CAAAGTTTGGTG
Found at i:1023272 original size:9 final size:9
Alignment explanation
Indices: 1023258--1023282 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
1023248 TTCCATTTAT
1023258 TATTATTAG
1 TATTATTAG
1023267 TATTATTAG
1 TATTATTAG
1023276 TATTATT
1 TATTATT
1023283 TTCTAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (9 bp):
TATTATTAG
Found at i:1032369 original size:127 final size:126
Alignment explanation
Indices: 1032143--1032521 Score: 589
Period size: 127 Copynumber: 3.0 Consensus size: 126
1032133 TACTATTCAT
* * * * *
1032143 GTGAAGGCGCGTTCTTGGGGACACGCCTTCCATTATTTTATCAGAGAATATGTTATCATTGCCAT
1 GTGAAGGCGCGTTCCTGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCT
* * * *
1032208 ATTATGTCACTTATGTCCCCCGAGAACTATTCATGTCAATACCTATTATTCCTTAGGGGACC
66 ATTATGTCACTTATGT-CCCAGGGAACTATTCATGTCAATACCTACTATTTCTTAGGGGACC
* *
1032270 GTGAAGACGCGTTCCTGGGGGCGCGTCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCT
1 GTGAAGGCGCGTTCCTGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCT
1032335 ATTATGTCACTTATGTCCCATGGGAACTATTCATGTCAATACCTACTATTTCTTAGGGGACC
66 ATTATGTCACTTATGTCCCA-GGGAACTATTCATGTCAATACCTACTATTTCTTAGGGGACC
* * *
1032397 GTGAAGGCGCGTTCCCGGGGGCGCGCCTTCTATTATTTTGTCAAAGAATATGTTATCATTGCCCT
1 GTGAAGGCGCGTTCCTGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCT
*
1032462 ATTATGTCACTTATGTCCCCA-GGAACTATTCATGTCAATACTTACTATTTCTTAGGGGAC
66 ATTATGTCACTTATGT-CCCAGGGAACTATTCATGTCAATACCTACTATTTCTTAGGGGAC
1032522 TTTAAAGCGC
Statistics
Matches: 233, Mismatches: 17, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
126 41 0.18
127 188 0.81
128 4 0.02
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.34
Consensus pattern (126 bp):
GTGAAGGCGCGTTCCTGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCT
ATTATGTCACTTATGTCCCAGGGAACTATTCATGTCAATACCTACTATTTCTTAGGGGACC
Found at i:1032975 original size:27 final size:26
Alignment explanation
Indices: 1032944--1033036 Score: 78
Period size: 27 Copynumber: 3.2 Consensus size: 26
1032934 TATTAAGTTG
1032944 AATTTAATGTTAAATTTCGAATACTAT
1 AATTTAAT-TTAAATTTCGAATACTAT
* *
1032971 AATTTATATTTAAATTTTGAATAATATT
1 AATTTA-ATTTAAATTTCGAATACTA-T
1032999 ATTTGTATTTTAATTTTAAATTTCGAATACTAT
1 A-----A-TTTAA-TTTAAATTTCGAATACTAT
1033032 AATTT
1 AATTT
1033037 GTATTTTAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 18
0.71 0.05 0.24
Matches are distributed among these distances:
27 24 0.45
28 5 0.09
33 4 0.08
34 20 0.38
ACGTcount: A:0.39, C:0.04, G:0.05, T:0.52
Consensus pattern (26 bp):
AATTTAATTTAAATTTCGAATACTAT
Found at i:1033027 original size:34 final size:34
Alignment explanation
Indices: 1032979--1033045 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
1032969 ATAATTTATA
* *
1032979 TTTAAATTTTGAATAATATTATTTGTATTTTAAT
1 TTTAAATTTCGAATAATATAATTTGTATTTTAAT
*
1033013 TTTAAATTTCGAATACTATAATTTGTATTTTAA
1 TTTAAATTTCGAATAATATAATTTGTATTTTAA
1033046 AAACATTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.55
Consensus pattern (34 bp):
TTTAAATTTCGAATAATATAATTTGTATTTTAAT
Found at i:1033606 original size:21 final size:20
Alignment explanation
Indices: 1033571--1033635 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 20
1033561 TAAAACCCTA
* *
1033571 CGGGCTA-GCATGTAACTTGG
1 CGGGCTAGGAATGTAACCT-G
1033591 CGGGCTAGGAATGTAACCCTG
1 CGGGCTAGGAATGTAA-CCTG
*
1033612 AGGGCTAGGAATGTAACCCTG
1 CGGGCTAGGAATGTAA-CCTG
1033633 CGG
1 CGG
1033636 AGATGACATA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
20 7 0.18
21 30 0.77
22 2 0.05
ACGTcount: A:0.23, C:0.22, G:0.35, T:0.20
Consensus pattern (20 bp):
CGGGCTAGGAATGTAACCTG
Found at i:1035250 original size:65 final size:64
Alignment explanation
Indices: 1035181--1035342 Score: 200
Period size: 65 Copynumber: 2.5 Consensus size: 64
1035171 GAATTAATTG
* **** *
1035181 AAACATCGAATGCATTCCATGCA-CTGATGCATTCTCCATACATCAATGCACTCTGAATATTTTC
1 AAACATCGAATGCATTTCATGCATC-GATGCACAAGCCATACATCAATGCACTCAGAATATTTTC
* * * **
1035245 AAAACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCACTCAGGCTATTTTC
1 -AAACATCGAATGCATTTCATGCATCGATGCACAAGCCATACATCAATGCACTCAGAATATTTTC
1035310 AAACATCGAATGCATTTCATGCATCGATGCACA
1 AAACATCGAATGCATTTCATGCATCGATGCACA
1035343 CTTGGTGCAC
Statistics
Matches: 84, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
64 32 0.38
65 51 0.61
66 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (64 bp):
AAACATCGAATGCATTTCATGCATCGATGCACAAGCCATACATCAATGCACTCAGAATATTTTC
Found at i:1035334 original size:64 final size:62
Alignment explanation
Indices: 1035134--1035342 Score: 199
Period size: 65 Copynumber: 3.2 Consensus size: 62
1035124 ATTTGAGGTG
* * * * *
1035134 ATGCACCGATGCATCAACCATGCATCGATGCA-TTAGTGAATTAATTGAAACATCGAATGCATTC
1 ATGCATCGATGCA-CAACCATGCATCGATGCACTCAG-GTATT--TTCAAACATCGAATGCATTT
1035198 C
62 C
* * * * *
1035199 ATGCA-CTGATGCATTC-TCCATACATCAATGCACTCTGAATATTTTCAAAACATCGAATGCATT
1 ATGCATC-GATGCA--CAACCATGCATCGATGCACTCAG-GTATTTTC-AAACATCGAATGCATT
*
1035262 TG
61 TC
1035264 ATGCATCGATGCACAAGCCATGCATCGATGCACTCAGGCTATTTTCAAACATCGAATGCATTTC
1 ATGCATCGATGCACAA-CCATGCATCGATGCACTCAGG-TATTTTCAAACATCGAATGCATTTC
1035328 ATGCATCGATGCACA
1 ATGCATCGATGCACA
1035343 CTTGGTGCAC
Statistics
Matches: 119, Mismatches: 17, Indels: 17
0.78 0.11 0.11
Matches are distributed among these distances:
63 1 0.01
64 35 0.29
65 75 0.63
66 8 0.07
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (62 bp):
ATGCATCGATGCACAACCATGCATCGATGCACTCAGGTATTTTCAAACATCGAATGCATTTC
Found at i:1038868 original size:15 final size:15
Alignment explanation
Indices: 1038842--1038878 Score: 65
Period size: 15 Copynumber: 2.4 Consensus size: 15
1038832 ATTCTATTCA
1038842 TCTTTGAGTGTTCTTT
1 TCTTT-AGTGTTCTTT
1038858 TCTTTAGTGTTCTTT
1 TCTTTAGTGTTCTTT
1038873 TCTTTA
1 TCTTTA
1038879 TTCTAGAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.08, C:0.14, G:0.14, T:0.65
Consensus pattern (15 bp):
TCTTTAGTGTTCTTT
Found at i:1046351 original size:77 final size:77
Alignment explanation
Indices: 1046211--1046356 Score: 177
Period size: 77 Copynumber: 1.9 Consensus size: 77
1046201 TGAGATTGAA
* * * * * * *
1046211 AAAAAATTAAGGGTCTTAATTATAAAGGTAAAAAGTGAGATTGAAAAAATAGGGGCTTTTATTAA
1 AAAAAATTAAGGGCCTCAATTATAAAGATAAAAAGTGAGATTGAAAAAATAAGGCCCTCTATTAA
1046276 AAAGTGGGATTG
66 AAAGTGGGATTG
* * *
1046288 AAAAAATTAGGGGCCTCAATTATAAATATAAAAAGTGGGATT-AAAAAATTAAGGCCCTCTATTA
1 AAAAAATTAAGGGCCTCAATTATAAAGATAAAAAGTGAGATTGAAAAAA-TAAGGCCCTCTATTA
*
1046352 TAAAG
65 AAAAG
1046357 GTAAAAAAGT
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
76 6 0.11
77 51 0.89
ACGTcount: A:0.47, C:0.06, G:0.20, T:0.27
Consensus pattern (77 bp):
AAAAAATTAAGGGCCTCAATTATAAAGATAAAAAGTGAGATTGAAAAAATAAGGCCCTCTATTAA
AAAGTGGGATTG
Found at i:1046352 original size:42 final size:43
Alignment explanation
Indices: 1046273--1046466 Score: 187
Period size: 42 Copynumber: 4.5 Consensus size: 43
1046263 GGGCTTTTAT
* * * *
1046273 TAAAAAGTGGGATTGAAAAAATTAGGGGCCTCAATTATAAATA
1 TAAAAAGTGGGATTAAAAAAATTAAGGGCCTCTATTATAAAGA
* *
1046316 TAAAAAGTGGGATT-AAAAAATTAAGGCCCTCTATTATAAAGG
1 TAAAAAGTGGGATTAAAAAAATTAAGGGCCTCTATTATAAAGA
* * * *
1046358 TAAAAAAGTGGTATTAAAAAAAGTATGGGTCTCTATTATAAAGA
1 T-AAAAAGTGGGATTAAAAAAATTAAGGGCCTCTATTATAAAGA
* **** *
1046402 GAAAAA-CAAAATTAAAAAAATTAAGGGTCT-TAATTATAAAGA
1 TAAAAAGTGGGATTAAAAAAATTAAGGGCCTCT-ATTATAAAGA
* *
1046444 TAAAAAGTAGGATTGAAAAAATT
1 TAAAAAGTGGGATTAAAAAAATT
1046467 GAGGCTCTAT
Statistics
Matches: 124, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
41 1 0.01
42 57 0.46
43 43 0.35
44 23 0.19
ACGTcount: A:0.51, C:0.06, G:0.18, T:0.26
Consensus pattern (43 bp):
TAAAAAGTGGGATTAAAAAAATTAAGGGCCTCTATTATAAAGA
Found at i:1046864 original size:23 final size:23
Alignment explanation
Indices: 1046838--1046893 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
1046828 AACAAACACA
* * *
1046838 TAAACGAATATGTTTGCAAATGT
1 TAAACGAACATGTTTACAAATGC
* *
1046861 TAAATGAACATGTTTACGAATGC
1 TAAACGAACATGTTTACAAATGC
1046884 TAAACGAACA
1 TAAACGAACA
1046894 AACACAAACC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.29
Consensus pattern (23 bp):
TAAACGAACATGTTTACAAATGC
Found at i:1056177 original size:23 final size:23
Alignment explanation
Indices: 1056148--1056258 Score: 87
Period size: 23 Copynumber: 4.7 Consensus size: 23
1056138 TACATAATCA
1056148 TTCGGGACAATTCTATGTAGTCC
1 TTCGGGACAATTCTATGTAGTCC
* * * * *
1056171 TTTGGGATAATTCTATATGGTCA
1 TTCGGGACAATTCTATGTAGTCC
* * * *
1056194 TTCAGGACAATTCTACGTGGCCC
1 TTCGGGACAATTCTATGTAGTCC
* *
1056217 TTTGGGACAAATTTCTATGTAGTTC
1 TTCGGGAC-AA-TTCTATGTAGTCC
* *
1056242 TTCGGGATAAATCTATG
1 TTCGGGACAATTCTATG
1056259 AGGCACTTCG
Statistics
Matches: 65, Mismatches: 21, Indels: 4
0.72 0.23 0.04
Matches are distributed among these distances:
23 46 0.71
24 4 0.06
25 15 0.23
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.37
Consensus pattern (23 bp):
TTCGGGACAATTCTATGTAGTCC
Found at i:1057871 original size:13 final size:13
Alignment explanation
Indices: 1057853--1057890 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
1057843 TTGATAGTAG
1057853 GGAAAAATAAGTC
1 GGAAAAATAAGTC
1057866 GGAAAAATAAGTC
1 GGAAAAATAAGTC
1057879 GGAAAAATAAGT
1 GGAAAAATAAGT
1057891 GTAGTTGAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.55, C:0.05, G:0.24, T:0.16
Consensus pattern (13 bp):
GGAAAAATAAGTC
Found at i:1062038 original size:2 final size:2
Alignment explanation
Indices: 1062026--1062080 Score: 101
Period size: 2 Copynumber: 27.0 Consensus size: 2
1062016 ATCTACGTGA
1062026 AT AT GAT 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
1062069 AT AT AT AT AT AT
1 AT AT AT AT AT AT
1062081 GTGAATGTGC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 50 0.96
3 2 0.04
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1062258 original size:22 final size:22
Alignment explanation
Indices: 1062205--1062260 Score: 85
Period size: 23 Copynumber: 2.5 Consensus size: 22
1062195 GAGTCAGGGT
*
1062205 TTTATGCGGTCATTTGGGACAA
1 TTTATGTGGTCATTTGGGACAA
*
1062227 TTCTATGTGGTCATTTGGGATAA
1 TT-TATGTGGTCATTTGGGACAA
1062250 TTTATGTGGTC
1 TTTATGTGGTC
1062261 CTCCGAGACA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
22 11 0.35
23 20 0.65
ACGTcount: A:0.20, C:0.11, G:0.27, T:0.43
Consensus pattern (22 bp):
TTTATGTGGTCATTTGGGACAA
Found at i:1062373 original size:17 final size:17
Alignment explanation
Indices: 1062351--1062392 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
1062341 TGCATTAGTG
1062351 CACAACCTCAATGTACT
1 CACAACCTCAATGTACT
1062368 CACAACCTCAATGTACT
1 CACAACCTCAATGTACT
1062385 CACAACCT
1 CACAACCT
1062393 TGAGTTCTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.36, C:0.38, G:0.05, T:0.21
Consensus pattern (17 bp):
CACAACCTCAATGTACT
Found at i:1078824 original size:43 final size:43
Alignment explanation
Indices: 1078699--1079028 Score: 280
Period size: 42 Copynumber: 7.6 Consensus size: 43
1078689 CTCGACTCAG
* * *
1078699 TAAAAAGTGAGATTGAAAAAAAATTAAGGGTCTCAGTTATAAAGG
1 TAAAAAGTGAGATTG--AAAAAATTAAGGGCCTCAATTATAAAGA
* *
1078744 TAAAAAGTGAGATTG-AAAAATTAAGGGCCTTC-GTTATAAATA
1 TAAAAAGTGAGATTGAAAAAATTAAGGGCC-TCAATTATAAAGA
1078786 TAAAAAGTGAGATTGAAAAAATT-AGGAGCCTCAATTATAAATG-
1 TAAAAAGTGAGATTGAAAAAATTAAGG-GCCTCAATTATAAA-GA
* * *
1078829 TAAAAAGTGGGATTGAAAAAAATTAAGGACCTCTATTATAAAGGTA
1 TAAAAAGTGAGATTG-AAAAAATTAAGGGCCTCAATTATAAA-G-A
* * * **
1078875 AAAAAAGTGGGATTGAAAAAA-AATAGGATTCTCAATTATAAAGA
1 TAAAAAGTGAGATTGAAAAAATTA-AGG-GCCTCAATTATAAAGA
* * * * **
1078919 GAAAAAAT-AAATT-TAAAAATTAAGGGATTCAATTATAAAGA
1 TAAAAAGTGAGATTGAAAAAATTAAGGGCCTCAATTATAAAGA
* * * * * *
1078960 TAAAAAATAAAATTAAAAAAAATAAGGGCCTCACTTAT-AAGA
1 TAAAAAGTGAGATTGAAAAAATTAAGGGCCTCAATTATAAAGA
*
1079002 TAAAAAGTAAGATTGAAAAAATTAAGG
1 TAAAAAGTGAGATTGAAAAAATTAAGG
1079029 CCCTATAAAA
Statistics
Matches: 238, Mismatches: 33, Indels: 31
0.79 0.11 0.10
Matches are distributed among these distances:
41 20 0.08
42 81 0.34
43 55 0.23
44 29 0.12
45 28 0.12
46 25 0.11
ACGTcount: A:0.52, C:0.05, G:0.17, T:0.25
Consensus pattern (43 bp):
TAAAAAGTGAGATTGAAAAAATTAAGGGCCTCAATTATAAAGA
Found at i:1078856 original size:87 final size:87
Alignment explanation
Indices: 1078699--1079028 Score: 293
Period size: 85 Copynumber: 3.8 Consensus size: 87
1078689 CTCGACTCAG
*
1078699 TAAAAAGTGAGATTGAAAAAAAATTAAGG-GTCTCAGTTATAAAGGTAAAAAGTGAGATTGAAAA
1 TAAAAAGTGAGATTG-AAAAAAATT-AGGAGTCTCAATTATAAAGGTAAAAAGTGAGATTGAAAA
* *
1078763 ATTAAGGGCCT-TCGTTATAAA-TA
64 ATTAAGGACCTCT-ATTATAAAGTA
* * *
1078786 TAAAAAGTGAGATTG-AAAAAATTAGGAGCCTCAATTATAAATGTAAAAAGTGGGATTGAAAAAA
1 TAAAAAGTGAGATTGAAAAAAATTAGGAGTCTCAATTATAAAGGTAAAAAGTGAGATTG--AAAA
1078850 ATTAAGGACCTCTATTATAAAGGTA
64 ATTAAGGACCTCTATTATAAA-GTA
* * * * * * *
1078875 AAAAAAGTGGGATTGAAAAAAAATAGGATTCTCAATTATAAAGAG-AAAAAAT-AAATTTAAAAA
1 TAAAAAGTGAGATTGAAAAAAATTAGGAGTCTCAATTATAAAG-GTAAAAAGTGAGATTGAAAAA
* *
1078938 TTAAGGGA-TTCAATTATAAAG-A
65 TTAA-GGACCTCTATTATAAAGTA
* * * * * * * * *
1078960 TAAAAAATAAAATTAAAAAAAATAAGG-GCCTCACTTAT-AAGATAAAAAGTAAGATTGAAAAAA
1 TAAAAAGTGAGATTGAAAAAAATTAGGAGTCTCAATTATAAAGGTAAAAAGTGAGATTG-AAAAA
1079023 TTAAGG
65 TTAAGG
1079029 CCCTATAAAA
Statistics
Matches: 198, Mismatches: 33, Indels: 27
0.77 0.13 0.10
Matches are distributed among these distances:
83 9 0.05
84 17 0.09
85 64 0.32
86 1 0.01
87 55 0.28
88 4 0.02
89 18 0.09
90 29 0.15
91 1 0.01
ACGTcount: A:0.52, C:0.05, G:0.17, T:0.25
Consensus pattern (87 bp):
TAAAAAGTGAGATTGAAAAAAATTAGGAGTCTCAATTATAAAGGTAAAAAGTGAGATTGAAAAAT
TAAGGACCTCTATTATAAAGTA
Found at i:1079827 original size:17 final size:17
Alignment explanation
Indices: 1079788--1079828 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
1079778 AAGGTAGGTG
**
1079788 TTTACAAGAATTAAGCA
1 TTTACAAGAACAAAGCA
1079805 --TACAAGAACAAAGCA
1 TTTACAAGAACAAAGCA
1079820 TTTACAAGA
1 TTTACAAGA
1079829 GAAAGATGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
15 13 0.65
17 7 0.35
ACGTcount: A:0.51, C:0.15, G:0.12, T:0.22
Consensus pattern (17 bp):
TTTACAAGAACAAAGCA
Found at i:1080121 original size:19 final size:20
Alignment explanation
Indices: 1080084--1080125 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
1080074 CTGTTAGACA
1080084 GGGGGGAATCGGTACCCCCT
1 GGGGGGAATCGGTACCCCCT
*
1080104 GGGGGGAATCTGTACCCCCT
1 GGGGGGAATCGGTACCCCCT
1080124 GG
1 GG
1080126 ACATTCTGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.29, G:0.40, T:0.17
Consensus pattern (20 bp):
GGGGGGAATCGGTACCCCCT
Found at i:1081585 original size:19 final size:20
Alignment explanation
Indices: 1081542--1081589 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
1081532 TCTAAATCAT
*
1081542 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
1081562 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
1081581 TTTTCAAAA
1 TTTTCAAAA
1081590 GAAAATCGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:1082891 original size:21 final size:21
Alignment explanation
Indices: 1082867--1082936 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
1082857 GGAATTAGTA
1082867 CCCCCTGGGGGGGAATCTGTT
1 CCCCCTGGGGGGGAATCTGTT
* *
1082888 CCCCCTGGGGGGAAATC-GGT
1 CCCCCTGGGGGGGAATCTGTT
* * *
1082908 ACCTCTGGGGGGGAATCTGTA
1 CCCCCTGGGGGGGAATCTGTT
*
1082929 CCCTCTGG
1 CCCCCTGG
1082937 ACAATCTGAT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 16 0.40
21 24 0.60
ACGTcount: A:0.13, C:0.29, G:0.37, T:0.21
Consensus pattern (21 bp):
CCCCCTGGGGGGGAATCTGTT
Found at i:1083617 original size:43 final size:43
Alignment explanation
Indices: 1083554--1083786 Score: 226
Period size: 43 Copynumber: 5.5 Consensus size: 43
1083544 CGACTAAGTA
* * *
1083554 AAAAAGTGAGATTGAGAAAATTAAGGGTCTCAATTATAAAGGT
1 AAAAAGTAAGATTGAAAAAATTAAGGGTCTCAATTATAAAGAT
* * * *
1083597 AAAAATTGAGATTGAAAAAATT-AGGAGCCTCAATTATAAATAT
1 AAAAAGTAAGATTGAAAAAATTAAGG-GTCTCAATTATAAAGAT
** * * *
1083640 AAAAAGTGTGATTGAAAAAATTATGGGCCTCAATTATAAAGAG
1 AAAAAGTAAGATTGAAAAAATTAAGGGTCTCAATTATAAAGAT
* * *
1083683 AAAAA-TAAAATTAAAAAAATTAAGGATCTCAATTATACAA-AT
1 AAAAAGTAAGATTGAAAAAATTAAGGGTCTCAATTATA-AAGAT
* * *
1083725 AAAAAATAAAATTAAAAAAATTAA--GTACATCAATTAT-AAGAT
1 AAAAAGTAAGATTGAAAAAATTAAGGGT-C-TCAATTATAAAGAT
1083767 AAAAAGTAAGATTGAAAAAA
1 AAAAAGTAAGATTGAAAAAA
1083787 ATTGAGGCCC
Statistics
Matches: 161, Mismatches: 22, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
41 3 0.02
42 54 0.34
43 102 0.63
44 2 0.01
ACGTcount: A:0.55, C:0.06, G:0.14, T:0.25
Consensus pattern (43 bp):
AAAAAGTAAGATTGAAAAAATTAAGGGTCTCAATTATAAAGAT
Found at i:1083701 original size:86 final size:86
Alignment explanation
Indices: 1083554--1083789 Score: 239
Period size: 85 Copynumber: 2.8 Consensus size: 86
1083544 CGACTAAGTA
* * * * *
1083554 AAAAAGTGAGATTGAGAAAATTAAGGGTCTCAATTATAAAGGTAAAAATTGAGATTGAAAAAATT
1 AAAAAGTGAGATTGAAAAAATTAAGGGCCTCAATTATAAAGGTAAAAATTAAAATTAAAAAAATT
1083619 -AGGAGCCTCAATTATA-AATAT
66 AAGGA-CCTCAATTATACAA-AT
* *
1083640 AAAAAGTGTGATTGAAAAAATTATGGGCCTCAATTATAAAGAG-AAAAA-TAAAATTAAAAAAAT
1 AAAAAGTGAGATTGAAAAAATTAAGGGCCTCAATTATAAAG-GTAAAAATTAAAATTAAAAAAAT
*
1083703 TAAGGATCTCAATTATACAAAT
65 TAAGGACCTCAATTATACAAAT
* * * * ** * * * *
1083725 AAAAAATAAAATTAAAAAAATTAAGTACATCAATTAT-AAGATAAAAAGTAAGATTGAAAAAAAT
1 AAAAAGTGAGATTGAAAAAATTAAGGGCCTCAATTATAAAGGTAAAAATTAAAATT-AAAAAAAT
1083789 T
65 T
1083790 GAGGCCCTAT
Statistics
Matches: 125, Mismatches: 19, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
84 8 0.06
85 59 0.47
86 57 0.46
87 1 0.01
ACGTcount: A:0.55, C:0.06, G:0.14, T:0.26
Consensus pattern (86 bp):
AAAAAGTGAGATTGAAAAAATTAAGGGCCTCAATTATAAAGGTAAAAATTAAAATTAAAAAAATT
AAGGACCTCAATTATACAAAT
Found at i:1084063 original size:21 final size:23
Alignment explanation
Indices: 1084037--1084078 Score: 70
Period size: 21 Copynumber: 1.9 Consensus size: 23
1084027 TTGAACACAT
1084037 TATGAAATTT-A-GAGTTTAAAC
1 TATGAAATTTAAGGAGTTTAAAC
1084058 TATGAAATTTAAGGAGTTTAA
1 TATGAAATTTAAGGAGTTTAA
1084079 GCATTAGTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 10 0.53
22 1 0.05
23 8 0.42
ACGTcount: A:0.43, C:0.02, G:0.17, T:0.38
Consensus pattern (23 bp):
TATGAAATTTAAGGAGTTTAAAC
Found at i:1084228 original size:23 final size:23
Alignment explanation
Indices: 1084174--1084229 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
1084164 AACAAACACA
* * *
1084174 TAAACAAATATGTTCACGAATGT
1 TAAACGAACATGTTCACGAATGC
**
1084197 TAATTGAACATGTTCACGAATGC
1 TAAACGAACATGTTCACGAATGC
1084220 TAAACGAACA
1 TAAACGAACA
1084230 AACACGAACC
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (23 bp):
TAAACGAACATGTTCACGAATGC
Found at i:1085546 original size:156 final size:156
Alignment explanation
Indices: 1085364--1085675 Score: 615
Period size: 156 Copynumber: 2.0 Consensus size: 156
1085354 GATCTGTTTG
1085364 ATTTTAATCATTAATTTAATAAAAATTAATTTGGATCTCTTATGTTTATGGTTAGTTTAATTTTG
1 ATTTTAATCATTAATTTAATAAAAATTAATTTGGATCTCTTATGTTTATGGTTAGTTTAATTTTG
1085429 ATCCTTCAAGCATTAACTTTTATTAATCTAATAAGAAATTTGACTTTGACATTTAAATAATAAAA
66 ATCCTTCAAGCATTAACTTTTATTAATCTAATAAGAAATTTGACTTTGACATTTAAATAATAAAA
1085494 TAAAAACCACTTAAATGATCGTACGT
131 TAAAAACCACTTAAATGATCGTACGT
*
1085520 ATTTTAGTCATTAATTTAATAAAAATTAATTTGGATCTCTTATGTTTATGGTTAGTTTAATTTTG
1 ATTTTAATCATTAATTTAATAAAAATTAATTTGGATCTCTTATGTTTATGGTTAGTTTAATTTTG
1085585 ATCCTTCAAGCATTAACTTTTATTAATCTAATAAGAAATTTGACTTTGACATTTAAATAATAAAA
66 ATCCTTCAAGCATTAACTTTTATTAATCTAATAAGAAATTTGACTTTGACATTTAAATAATAAAA
1085650 TAAAAACCACTTAAATGATCGTACGT
131 TAAAAACCACTTAAATGATCGTACGT
1085676 CATACTTACA
Statistics
Matches: 155, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
156 155 1.00
ACGTcount: A:0.38, C:0.10, G:0.09, T:0.42
Consensus pattern (156 bp):
ATTTTAATCATTAATTTAATAAAAATTAATTTGGATCTCTTATGTTTATGGTTAGTTTAATTTTG
ATCCTTCAAGCATTAACTTTTATTAATCTAATAAGAAATTTGACTTTGACATTTAAATAATAAAA
TAAAAACCACTTAAATGATCGTACGT
Found at i:1087337 original size:21 final size:21
Alignment explanation
Indices: 1087311--1087352 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
1087301 AGGAGATTGA
1087311 AAGTCCAATCCAAGCCTTCTC
1 AAGTCCAATCCAAGCCTTCTC
1087332 AAGTCCAATCCAAGCCTTCTC
1 AAGTCCAATCCAAGCCTTCTC
1087353 TCTTTTTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.38, G:0.10, T:0.24
Consensus pattern (21 bp):
AAGTCCAATCCAAGCCTTCTC
Found at i:1090825 original size:15 final size:15
Alignment explanation
Indices: 1090805--1090870 Score: 87
Period size: 15 Copynumber: 4.4 Consensus size: 15
1090795 TTTCGGAAAA
1090805 TGAATTACTGAAATT
1 TGAATTACTGAAATT
*
1090820 TGAATTATTGAAATT
1 TGAATTACTGAAATT
**
1090835 TGAATTACTGAAAAA
1 TGAATTACTGAAATT
* *
1090850 TGAATTATTGGAATT
1 TGAATTACTGAAATT
1090865 TGAATT
1 TGAATT
1090871 CTGGAAAATG
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 43 1.00
ACGTcount: A:0.41, C:0.03, G:0.15, T:0.41
Consensus pattern (15 bp):
TGAATTACTGAAATT
Done.