Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 140 of 221
Found at i:42949162 original size:31 final size:31
Alignment explanation
Indices: 42949099--42949175 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
42949089 ATAAACACCA
*
42949099 GTACAAAGTACCTG--ATAATTAAGTCATCG
1 GTACACAGTACCTGATATAATTAAGTCATCG
* * *
42949128 GTACATAGTACTTGATATAATGTAA-TCATTG
1 GTACACAGTACCTGATATAAT-TAAGTCATCG
42949159 GTACACAGTACCTGATA
1 GTACACAGTACCTGATA
42949176 CTTTAAACTC
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
29 12 0.30
31 25 0.62
32 3 0.08
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (31 bp):
GTACACAGTACCTGATATAATTAAGTCATCG
Found at i:42950270 original size:30 final size:30
Alignment explanation
Indices: 42950236--42950360 Score: 151
Period size: 30 Copynumber: 4.2 Consensus size: 30
42950226 CGACCAATGG
* *
42950236 AAAGGGATAGCTTCGGCTATCGAATTATGA
1 AAAGGGATAGCTTCAGCTATCAAATTATGA
* *
42950266 AAAGGGATGGTTTCAGCTATCAAATTATGA
1 AAAGGGATAGCTTCAGCTATCAAATTATGA
* * * **
42950296 AAAGTGATGGGTTCAGCTATTGAATTATGA
1 AAAGGGATAGCTTCAGCTATCAAATTATGA
* *
42950326 AAAGGGATAGCTTCGGCTATAAAATTATGA
1 AAAGGGATAGCTTCAGCTATCAAATTATGA
42950356 AAAGG
1 AAAGG
42950361 TATGGTGACA
Statistics
Matches: 81, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 81 1.00
ACGTcount: A:0.37, C:0.10, G:0.26, T:0.28
Consensus pattern (30 bp):
AAAGGGATAGCTTCAGCTATCAAATTATGA
Found at i:42950418 original size:90 final size:90
Alignment explanation
Indices: 42950232--42950424 Score: 207
Period size: 90 Copynumber: 2.2 Consensus size: 90
42950222 TCATCGACCA
** ** * *
42950232 ATGG-AAAGGGATAGCTTCGGCTATCGAATTATGAAAAGGGATGGTTTCAGCTATCAAATTATGA
1 ATGGAAAAGGGATAGCTTCGGCTATAAAATTATGAAAAGGGATGGTGACAACCATCAAA-TATGA
* ** *
42950296 AAAGTGATGGGTTCAGCTATTGAATT
65 AAAGTGATGGCTTCAGCTATCAAAAT
*
42950322 AT-GAAAAGGGATAGCTTCGGCTATAAAATTATGAAAAGGTATGGTGACAACCATCAAGA-ATGA
1 ATGGAAAAGGGATAGCTTCGGCTATAAAATTATGAAAAGGGATGGTGACAACCATCAA-ATATG-
* *
42950385 AAAAG-GATGGCTTCGGCTGTCAAAAT
64 AAAAGTGATGGCTTCAGCTATCAAAAT
42950411 ATGGAAAA-GGATAG
1 ATGGAAAAGGGATAG
42950425 ATTGGGGTAT
Statistics
Matches: 86, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
89 27 0.31
90 58 0.67
91 1 0.01
ACGTcount: A:0.38, C:0.10, G:0.26, T:0.25
Consensus pattern (90 bp):
ATGGAAAAGGGATAGCTTCGGCTATAAAATTATGAAAAGGGATGGTGACAACCATCAAATATGAA
AAGTGATGGCTTCAGCTATCAAAAT
Found at i:42965105 original size:19 final size:19
Alignment explanation
Indices: 42965081--42965122 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
42965071 TTGCTAAAGA
*
42965081 TGCAAATATGTAGTGATAG
1 TGCAAATATGTAGTGATAC
42965100 TGCAAATATGTAGTGATAC
1 TGCAAATATGTAGTGATAC
42965119 TGCA
1 TGCA
42965123 TGGACAATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.31
Consensus pattern (19 bp):
TGCAAATATGTAGTGATAC
Found at i:42981578 original size:9 final size:9
Alignment explanation
Indices: 42981564--42981648 Score: 98
Period size: 9 Copynumber: 9.4 Consensus size: 9
42981554 TTTGGTTAAA
42981564 AATTAACCG
1 AATTAACCG
*
42981573 AATTAACTG
1 AATTAACCG
*
42981582 AATTACCCG
1 AATTAACCG
42981591 AATTAACCG
1 AATTAACCG
* *
42981600 AATTACCCT
1 AATTAACCG
*
42981609 AATTAATCG
1 AATTAACCG
*
42981618 AATTAACTG
1 AATTAACCG
* *
42981627 AATTACCCA
1 AATTAACCG
42981636 AATTAACCG
1 AATTAACCG
42981645 AATT
1 AATT
42981649 GAATCACTAC
Statistics
Matches: 60, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
9 60 1.00
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:42983017 original size:29 final size:29
Alignment explanation
Indices: 42982985--42983054 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 29
42982975 CAAACAACCT
* *
42982985 TGTGACCCACACAACCTACCGCACTGTCG
1 TGTGACCCACACAACCTACCACACGGTCG
* * * * *
42983014 TGTGATCTATACAGCTTACCACACGGTCG
1 TGTGACCCACACAACCTACCACACGGTCG
42983043 TGTGACCCACAC
1 TGTGACCCACAC
42983055 GGTCTACCAC
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.24, C:0.36, G:0.19, T:0.21
Consensus pattern (29 bp):
TGTGACCCACACAACCTACCACACGGTCG
Found at i:42985620 original size:16 final size:16
Alignment explanation
Indices: 42985599--42985643 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
42985589 AATTTTGAAA
42985599 TATTTTTTAAAATTTT
1 TATTTTTTAAAATTTT
* *
42985615 TATTTTTTTAAATATT
1 TATTTTTTAAAATTTT
*
42985631 T-TTTTTTAGAATT
1 TATTTTTTAAAATT
42985644 AGGATCAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
15 9 0.38
16 15 0.62
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (16 bp):
TATTTTTTAAAATTTT
Found at i:42985623 original size:17 final size:17
Alignment explanation
Indices: 42985601--42985637 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
42985591 TTTTGAAATA
42985601 TTTTTTAAA-ATTTTTAT
1 TTTTTTAAATATTTTT-T
42985618 TTTTTTAAATATTTTTT
1 TTTTTTAAATATTTTTT
42985635 TTT
1 TTT
42985638 AGAATTAGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTTAAATATTTTTT
Found at i:43001666 original size:72 final size:72
Alignment explanation
Indices: 43001586--43001726 Score: 212
Period size: 72 Copynumber: 2.0 Consensus size: 72
43001576 TCTATATGTT
* *
43001586 CACTCGAATGCCGATTTAGAATTCTAAGTTAACTTATGAATAGATTTAAT-TTTCTTACATGATT
1 CACTCGAATGCCGATTTAAAATTCTAAGTTAACTCATGAATAGATTT-ATGTTTCTTACATGATT
43001650 CAAAATTA
65 CAAAATTA
* * * *
43001658 CACTCGAATGTCGGTTTAAAATTTTAGGTTAACTCATGAATAGATTTATGTTTCTTACATGATTC
1 CACTCGAATGCCGATTTAAAATTCTAAGTTAACTCATGAATAGATTTATGTTTCTTACATGATTC
43001723 AAAA
66 AAAA
43001727 CTTTGATCAT
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
71 2 0.03
72 60 0.97
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (72 bp):
CACTCGAATGCCGATTTAAAATTCTAAGTTAACTCATGAATAGATTTATGTTTCTTACATGATTC
AAAATTA
Found at i:43009279 original size:15 final size:16
Alignment explanation
Indices: 43009256--43009289 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
43009246 ATTTACAAAA
43009256 TATGTATATATATAAG
1 TATGTATATATATAAG
43009272 TATG-ATATATATAAG
1 TATGTATATATATAAG
43009287 TAT
1 TAT
43009290 ATTTTGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (16 bp):
TATGTATATATATAAG
Found at i:43013953 original size:15 final size:16
Alignment explanation
Indices: 43013930--43013963 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
43013920 ATTTACAAAA
43013930 TATGTATATATATAAG
1 TATGTATATATATAAG
43013946 TATG-ATATATATAAG
1 TATGTATATATATAAG
43013961 TAT
1 TAT
43013964 ATTTTGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (16 bp):
TATGTATATATATAAG
Found at i:43015159 original size:18 final size:18
Alignment explanation
Indices: 43015117--43015159 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
43015107 GGGCTGCTGA
43015117 ACGTGGGCGGTTGCTGCG
1 ACGTGGGCGGTTGCTGCG
*
43015135 -CTATGGGCGGTTGCTGCG
1 AC-GTGGGCGGTTGCTGCG
43015153 ACGTGGG
1 ACGTGGG
43015160 GCGTGCGGCG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 1 0.05
18 19 0.90
19 1 0.05
ACGTcount: A:0.07, C:0.21, G:0.49, T:0.23
Consensus pattern (18 bp):
ACGTGGGCGGTTGCTGCG
Found at i:43027587 original size:16 final size:17
Alignment explanation
Indices: 43027568--43027612 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
43027558 CGGGATTTCC
43027568 TTCTTTTTCTCTCC-CT
1 TTCTTTTTCTCTCCTCT
*
43027584 TTCTTTCTC-CTTCCTCT
1 TTCTTTTTCTC-TCCTCT
43027601 TTC-TTTTCTCTC
1 TTCTTTTTCTCTC
43027613 TTTTTCGCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
15 1 0.04
16 17 0.71
17 6 0.25
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (17 bp):
TTCTTTTTCTCTCCTCT
Found at i:43028721 original size:98 final size:98
Alignment explanation
Indices: 43028542--43028734 Score: 341
Period size: 98 Copynumber: 2.0 Consensus size: 98
43028532 GTACAATAAA
*
43028542 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
43028607 CCTCTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
*
43028640 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
* *
43028705 CCTTTAAAATCTCAAACTCGGAATATTTCC
66 CCTCTAAAATCCCAAACTCGGAATATTTCC
43028735 ATTATTATTT
Statistics
Matches: 90, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 90 1.00
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.27
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:43030073 original size:19 final size:19
Alignment explanation
Indices: 43030049--43030161 Score: 163
Period size: 19 Copynumber: 5.8 Consensus size: 19
43030039 AATCATATAT
43030049 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
43030068 TCTAAGATTATATATCATC
1 TCTAAGATTGCATATCATA
43030087 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
43030106 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
**
43030127 TCTTGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
43030146 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
43030162 CTCAAAAATT
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
19 65 0.79
21 17 0.21
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:43030136 original size:40 final size:40
Alignment explanation
Indices: 43030049--43030160 Score: 183
Period size: 40 Copynumber: 2.9 Consensus size: 40
43030039 AATCATATAT
*
43030049 TCTAAGATTGCATATCATATCTAAGATT--ATATATCATC
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
43030087 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
**
43030127 TCTTGGATTGCATATCATATCTAAGATTGCATAT
1 TCTAAGATTGCATATCATATCTAAGATTGCATAT
43030161 CCTCAAAAAT
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
38 28 0.41
40 41 0.59
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (40 bp):
TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
Found at i:43030488 original size:44 final size:43
Alignment explanation
Indices: 43030375--43030879 Score: 308
Period size: 44 Copynumber: 11.6 Consensus size: 43
43030365 CTTCAATCTA
43030375 CTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG-CATCTT-AGTCTG
* *
43030420 C-CTCACTGCAACTTCA-GGAGGATAAGACTTGCTTCCTTAGTTTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGCAT-CTTAGTCTG
* * *
43030464 CTCCACTGCAACTTCAGGGAGATAAGACTAG-ATGC-GA-TATG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCAT-CTTAGTCTG
* * * * *
43030505 CT-CTCTGCAACTTCAGAGAGATAAGACCTGTG-ATTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGCATCTTAGTCTG
* * * *
43030548 CTCTACTGCAACTTCAGGGAGATAGGATTATCGGC-T-TTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACT-T--GCATCTTAGTCTG
*
43030592 CTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG-CATCTT-AGTCTG
* * *
43030637 CTTCACTGTAACTTCA-GGAGGATAAGACTTGCTTACTTAGTCTTG
1 CTCCACTGCAACTTCAGGGA-GATAAGACTTGCAT-CTTAGTC-TG
* * *
43030682 -TCCACCGCAACTTCAGGGAGATAAGACTAG-ATGC-GA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCAT-CTTAGTCTG
* * * * * * * *
43030722 CT-CTCTGTAACTTCAGAGAGATAA-AATCTGAAATTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGACT-TG-CATCTTAGTCTG
* ** *
43030765 CTCCACTGCAACTTCAGGGAGATAGGA-TTGTCGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG-CATC-TTAGTCTG
* * * * *
43030809 CTCCACTGCAACTTTAGGAAGATAAGATTTGTCATCTTCGATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG-CATCTTAG-TCTG
* **
43030854 CTCCACTACTGCTT-AGGGAGATAAGA
1 CTCCACTGCAACTTCAGGGAGATAAGA
43030880 TCTACAATCT
Statistics
Matches: 362, Mismatches: 66, Indels: 65
0.73 0.13 0.13
Matches are distributed among these distances:
39 2 0.01
40 43 0.12
41 11 0.03
42 10 0.03
43 19 0.05
44 185 0.51
45 92 0.25
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (43 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGCATCTTAGTCTG
Found at i:43030708 original size:217 final size:217
Alignment explanation
Indices: 43030369--43030847 Score: 789
Period size: 217 Copynumber: 2.2 Consensus size: 217
43030359 TTAGTACTTC
* *
43030369 AATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTGCCTCACTGCAACTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTT
* *
43030434 CAGGAGGATAAGACTTGCTTCCTTAGTTTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGC
66 CAGGAGGATAAGACTTGCTTACTTAGTTTGCTCCACCGCAACTTCAGGGAGATAAGACTAGATGC
* ** *
43030499 GATATGCTCTCTGCAACTTCAGAGAGATAAGACCTGTGATTTTAATCCGCTCTACTGCAACTTCA
131 GATATGCTCTCTGCAACTTCAGAGAGATAAAACCTGAAATTTTAATCCGCTCCACTGCAACTTCA
43030564 GGGAGATAGGATTATCGGCTTT
196 GGGAGATAGGATTATCGGCTTT
* *
43030586 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCTTCACTGTAACTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTT
43030651 CAGGAGGATAAGACTTGCTTACTTAGTCTTG-TCCACCGCAACTTCAGGGAGATAAGACTAGATG
66 CAGGAGGATAAGACTTGCTTACTTAGT-TTGCTCCACCGCAACTTCAGGGAGATAAGACTAGATG
* * *
43030715 CGATCTGCTCTCTGTAACTTCAGAGAGATAAAATCTGAAATTTTAATCCGCTCCACTGCAACTTC
130 CGATATGCTCTCTGCAACTTCAGAGAGATAAAACCTGAAATTTTAATCCGCTCCACTGCAACTTC
*
43030780 AGGGAGATAGGATTGTCGGCTTT
195 AGGGAGATAGGATTATCGGCTTT
* * *
43030803 AATCTGCTCCACTGCAACTTTAGGAAGATAAGATTTGTCATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTC
43030848 GATCTACTCC
Statistics
Matches: 244, Mismatches: 17, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
217 241 0.99
218 3 0.01
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (217 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTT
CAGGAGGATAAGACTTGCTTACTTAGTTTGCTCCACCGCAACTTCAGGGAGATAAGACTAGATGC
GATATGCTCTCTGCAACTTCAGAGAGATAAAACCTGAAATTTTAATCCGCTCCACTGCAACTTCA
GGGAGATAGGATTATCGGCTTT
Found at i:43030969 original size:132 final size:132
Alignment explanation
Indices: 43030827--43031420 Score: 963
Period size: 132 Copynumber: 4.5 Consensus size: 132
43030817 CAACTTTAGG
* * * *
43030827 AAGATAAGATTTGTCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTC
1 AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTC
* * *
43030892 AACCTACTTCGCTGCTGCTCAGGGAAACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTG
66 AACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTG
43030957 GA
131 GA
** * *
43030959 AAGATAAGATTCATCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAATATCTACAATCTTC
1 AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTC
*
43031024 AACCTTCTCCGCTGCTGCTCAGTGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTG
66 AACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTG
43031089 GA
131 GA
* * * * *
43031091 AATATAAGATTCGCCGTCTTCAATCTGCTCCATTACTGCTTAGGGAGATAAGATCTACAATTTTT
1 AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTC
* *
43031156 AACTTTCTCCGCTGCTGCTCAGGGAGACAAGACTTGGTGGCTTAAATCTGCTTCCCACTATCTTG
66 AACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTG
43031221 GA
131 GA
* *
43031223 AAGATAAGATTCGCTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATATTC
1 AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTC
43031288 AACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTG
66 AACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTG
43031353 GA
131 GA
* * * *
43031355 AAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGTTTAAGGAGATAAGATCTACAATTTTC
1 AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTC
43031420 A
66 A
43031421 CTGATCTGTT
Statistics
Matches: 429, Mismatches: 33, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 429 1.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (132 bp):
AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTC
AACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTG
GA
Found at i:43032651 original size:5 final size:6
Alignment explanation
Indices: 43032629--43032673 Score: 54
Period size: 6 Copynumber: 7.2 Consensus size: 6
43032619 TTGGCCTCTC
* *
43032629 CTTTTA CTTTTT CTTTTT CTTTTTT CCTTTTT CCTTTT CTTTTT C
1 CTTTTT CTTTTT CTTTTT C-TTTTT -CTTTTT CTTTTT CTTTTT C
43032674 CTCTTTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
6 23 0.68
7 10 0.29
8 1 0.03
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (6 bp):
CTTTTT
Found at i:43032658 original size:20 final size:19
Alignment explanation
Indices: 43032630--43032684 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
43032620 TGGCCTCTCC
*
43032630 TTTTACTTTTTCTTTTTCTT
1 TTTTCCTTTTTCTTTTTC-T
*
43032650 TTTTCCTTTTTCCTTTTCT
1 TTTTCCTTTTTCTTTTTCT
43032669 TTTTCCTCTTTT-TTTT
1 TTTTCCT-TTTTCTTTT
43032685 GAAATATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 11 0.35
20 20 0.65
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTCCTTTTTCTTTTTCT
Found at i:43032674 original size:12 final size:12
Alignment explanation
Indices: 43032637--43032684 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
43032627 TCCTTTTACT
*
43032637 TTTTCTTTTTCTT
1 TTTTCTTTTTC-C
43032650 TTTTCCTTTTTCC
1 TTTT-CTTTTTCC
43032663 TTTTCTTTTTCC
1 TTTTCTTTTTCC
43032675 TCTTT-TTTTT
1 T-TTTCTTTTT
43032685 GAAATATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
12 14 0.44
13 11 0.34
14 7 0.22
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTCTTTTTCC
Found at i:43035761 original size:13 final size:13
Alignment explanation
Indices: 43035743--43035768 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
43035733 CTTTTTCAAG
43035743 AAACTAAATTGAA
1 AAACTAAATTGAA
43035756 AAACTAAATTGAA
1 AAACTAAATTGAA
43035769 TTGCAATTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.23
Consensus pattern (13 bp):
AAACTAAATTGAA
Found at i:43036305 original size:19 final size:19
Alignment explanation
Indices: 43036281--43036393 Score: 163
Period size: 19 Copynumber: 5.8 Consensus size: 19
43036271 AATCATATAT
43036281 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
43036300 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
43036319 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
43036338 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
**
43036359 TCTTGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
43036378 TCTAGGATTGCATATC
1 TCTAAGATTGCATATC
43036394 CTCAAAAATT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
19 68 0.80
21 17 0.20
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:43036368 original size:40 final size:40
Alignment explanation
Indices: 43036281--43036392 Score: 183
Period size: 40 Copynumber: 2.9 Consensus size: 40
43036271 AATCATATAT
43036281 TCTAAGATTGCATATCATATCTAAGATT--ATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
43036319 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
** *
43036359 TCTTGGATTGCATATCATATCTAGGATTGCATAT
1 TCTAAGATTGCATATCATATCTAAGATTGCATAT
43036393 CCTCAAAAAT
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
38 28 0.41
40 41 0.59
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (40 bp):
TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
Found at i:43041696 original size:18 final size:18
Alignment explanation
Indices: 43041673--43041708 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
43041663 ATTATTTATA
43041673 GTGTAATATATAAAACTT
1 GTGTAATATATAAAACTT
43041691 GTGTAATATATAAAACTT
1 GTGTAATATATAAAACTT
43041709 AGTAATCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.39
Consensus pattern (18 bp):
GTGTAATATATAAAACTT
Found at i:43041721 original size:18 final size:18
Alignment explanation
Indices: 43041675--43041714 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
43041665 TATTTATAGT
*
43041675 GTAATATATAAAACTTGT
1 GTAATATATAAAACTTGA
43041693 GTAATATATAAAACTT-A
1 GTAATATATAAAACTTGA
43041710 GTAAT
1 GTAAT
43041715 CTAATAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.38
Consensus pattern (18 bp):
GTAATATATAAAACTTGA
Found at i:43048503 original size:15 final size:16
Alignment explanation
Indices: 43048469--43048504 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
43048459 TTATTTCATC
*
43048469 TAATTTGCATTTAGGT
1 TAATTTGCATCTAGGT
43048485 TAATTTGCATCTA-GT
1 TAATTTGCATCTAGGT
43048500 TAATT
1 TAATT
43048505 AATTTAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.28, C:0.08, G:0.14, T:0.50
Consensus pattern (16 bp):
TAATTTGCATCTAGGT
Found at i:43050062 original size:187 final size:187
Alignment explanation
Indices: 43049747--43050122 Score: 601
Period size: 187 Copynumber: 2.0 Consensus size: 187
43049737 AAAATAAACA
* * *
43049747 GAAAACTAAATTCTATAAAGAAAACTAATAATATCCAAAGCTATCCATAACAAGTGTTAAATGAG
1 GAAAACTAAACTCTACAAAAAAAACTAATAATATCCAAAGCTATCCATAACAAGTGTTAAATGAG
* *
43049812 TCTATTTATAAATTTAGGGTTACCGTTATCGTCAACCCTAGGTCTGCTAACGTTCTTGTGTTAAA
66 TCTATTTATAAATTTAGGGTTACCGTTATCCTCAACCCTAGGTCTGCTAACGTTCTCGTGTTAAA
*
43049877 CATTTGATTGTGCAGACCAAAACACCCCTAGCTCGTAAGTGTTTCTCGTACAGGACC
131 CATTTGATTGTGCAGACCAAAACACCCCTAGCTCGTAAGTGTTTATCGTACAGGACC
*
43049934 GAAAACTAAACTCTACAAAAAAAACTAATAATATCCAAAGCTATCCATAACAATTGTTAAATGAG
1 GAAAACTAAACTCTACAAAAAAAACTAATAATATCCAAAGCTATCCATAACAAGTGTTAAATGAG
** ** * *
43049999 TCTATTTATGGATTTAGGGTTGTCGTTATCCTCAACCCTAGGT-TAGCTGATGTTCTCGTGTTAA
66 TCTATTTATAAATTTAGGGTTACCGTTATCCTCAACCCTAGGTCT-GCTAACGTTCTCGTGTTAA
* *
43050063 ACATTTGATTGTGCAGACCAAAACAGCCCTAGCTCGTAAGTGTTTATTGTACAGGACC
130 ACATTTGATTGTGCAGACCAAAACACCCCTAGCTCGTAAGTGTTTATCGTACAGGACC
43050121 GA
1 GA
43050123 TGTCACGATG
Statistics
Matches: 173, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
186 1 0.01
187 172 0.99
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (187 bp):
GAAAACTAAACTCTACAAAAAAAACTAATAATATCCAAAGCTATCCATAACAAGTGTTAAATGAG
TCTATTTATAAATTTAGGGTTACCGTTATCCTCAACCCTAGGTCTGCTAACGTTCTCGTGTTAAA
CATTTGATTGTGCAGACCAAAACACCCCTAGCTCGTAAGTGTTTATCGTACAGGACC
Found at i:43056681 original size:17 final size:17
Alignment explanation
Indices: 43056648--43056695 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
43056638 CATTGTCCCC
*
43056648 AATGCACTGAC-ATGAA
1 AATGCAATGACAATGAA
*
43056664 AATGTAATGACAATGAA
1 AATGCAATGACAATGAA
43056681 AATGCAATGACAATG
1 AATGCAATGACAATG
43056696 TATACTTATC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 9 0.32
17 19 0.68
ACGTcount: A:0.48, C:0.12, G:0.19, T:0.21
Consensus pattern (17 bp):
AATGCAATGACAATGAA
Found at i:43060548 original size:394 final size:394
Alignment explanation
Indices: 43059820--43060611 Score: 1395
Period size: 394 Copynumber: 2.0 Consensus size: 394
43059810 AAATAAATAC
* *
43059820 GACTCGTTCCAATGATACTTCATTACGTCATGAAGAAATCTTTCTTTTTTATGGCCCTTGATGGG
1 GACTCGTTCCAATGATACTTCACTACGTCACGAAGAAATCTTTCTTTTTTATGGCCCTTGATGGG
*
43059885 AGCTTACCATACACCAAGTAATCAACCAAATCTGCATACCAAGGAGTTACATCGACAACGAATAA
66 AGCTTACCACACACCAAGTAATCAACCAAATCTGCATACCAAGGAGTTACATCGACAACGAATAA
* * * *
43059950 CATCTCATCTGGGAATATGTCGACAATTGGAAGTATTTTCTCATCTTTGCTGCCAACTTCCAATC
131 CATCTCATCTGGAAATATGTCGACAACTGGAAGTATTTTCCCATCTTCGCTGCCAACTTCCAATC
*
43060015 TAGACAAATGATCGGCAACTTAATTCTCTGACCCCTTTCGATCTTTTATTTTGATGCCAAATTCT
196 TAGACAAATGATCGGCAACTTAATTCTCTGACCCCTTTCGATCTTTTATCTTGATGCCAAATTCT
* *
43060080 TGCAACAATAATATCCACCGTATCGGTCTTGGTTTGGCATCTTTTTTTGCAAATAGATATCGCAA
261 TGCAACAATAATATCCACCGTATCGATCTTGGTTTGGCATCTTTTTTTGCAAATAGATATCACAA
* *
43060145 TGCAAAATGATCAGTGAATACCATAATTTTTGCGCCAACAAGATAAGAGTGAAACTTGTCAAAGG
326 TGCAAAATGATCAATGAATACCATAATTTTTGCACCAACAAGATAAGAGTGAAACTTGTCAAAGG
43060210 CAAA
391 CAAA
*
43060214 GACTCGTTCCAATGATACTTCACTATGTCACGAAGAAATCTTTCTTTTTTATGGCCCTTGATGGG
1 GACTCGTTCCAATGATACTTCACTACGTCACGAAGAAATCTTTCTTTTTTATGGCCCTTGATGGG
* *
43060279 AGCTTACCACACACCAAGTAATCAACCAAATCTGCATACCAATGAGTTACATCGACAATGAATAA
66 AGCTTACCACACACCAAGTAATCAACCAAATCTGCATACCAAGGAGTTACATCGACAACGAATAA
*
43060344 CATCTCATCTGGAAATATGTCGACAACTGGAAGTATTTTCCCATCTTCGCTGCCAACTTCTAATC
131 CATCTCATCTGGAAATATGTCGACAACTGGAAGTATTTTCCCATCTTCGCTGCCAACTTCCAATC
* *
43060409 TAGACAAATGATCGGCAACTTGATTCTCTGACCCCTTTCGATCTTTTATCTTGATGTCAAATTCT
196 TAGACAAATGATCGGCAACTTAATTCTCTGACCCCTTTCGATCTTTTATCTTGATGCCAAATTCT
43060474 TGCAACAATAATATCCACCGTATCGATCTTGGTTTGGCATCTTTTTTTGCAAATAGATATCACAA
261 TGCAACAATAATATCCACCGTATCGATCTTGGTTTGGCATCTTTTTTTGCAAATAGATATCACAA
* * *
43060539 TGCAAAATGATCAATGAATACCGTAATTTTTTCACCGACAAGATAAGAGTGAAACTTGTCAAAGG
326 TGCAAAATGATCAATGAATACCATAATTTTTGCACCAACAAGATAAGAGTGAAACTTGTCAAAGG
43060604 CAAA
391 CAAA
43060608 GACT
1 GACT
43060612 ACAACCAACA
Statistics
Matches: 377, Mismatches: 21, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
394 377 1.00
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.31
Consensus pattern (394 bp):
GACTCGTTCCAATGATACTTCACTACGTCACGAAGAAATCTTTCTTTTTTATGGCCCTTGATGGG
AGCTTACCACACACCAAGTAATCAACCAAATCTGCATACCAAGGAGTTACATCGACAACGAATAA
CATCTCATCTGGAAATATGTCGACAACTGGAAGTATTTTCCCATCTTCGCTGCCAACTTCCAATC
TAGACAAATGATCGGCAACTTAATTCTCTGACCCCTTTCGATCTTTTATCTTGATGCCAAATTCT
TGCAACAATAATATCCACCGTATCGATCTTGGTTTGGCATCTTTTTTTGCAAATAGATATCACAA
TGCAAAATGATCAATGAATACCATAATTTTTGCACCAACAAGATAAGAGTGAAACTTGTCAAAGG
CAAA
Found at i:43066311 original size:16 final size:16
Alignment explanation
Indices: 43066242--43066309 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
43066232 TTTGGTTCGC
43066242 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
43066258 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
43066274 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
43066290 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
43066306 TGTA
1 TGTA
43066310 ATAGCAAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:43066344 original size:45 final size:44
Alignment explanation
Indices: 43066290--43066384 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
43066280 GGATTAGAGG
* *
43066290 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
43066335 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
43066379 TGTAAT
1 TGTAAT
43066385 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:43066554 original size:25 final size:25
Alignment explanation
Indices: 43066522--43066576 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
43066512 TAATTTAATC
*
43066522 ATAT-TTAAACATAATTATTATT-AA
1 ATATATTAAACAT-ATTATAATTAAA
*
43066546 ATATATTAAATATATTATAATTAAA
1 ATATATTAAACATATTATAATTAAA
43066571 ATATAT
1 ATATAT
43066577 AATTTAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
ATATATTAAACATATTATAATTAAA
Found at i:43073251 original size:37 final size:38
Alignment explanation
Indices: 43073187--43073274 Score: 144
Period size: 37 Copynumber: 2.4 Consensus size: 38
43073177 GTGCTGAGGT
*
43073187 GTGTTATCGGTCGGGTTTAGCTCTTATGAGCGTTTGGC
1 GTGTTATCGGTTGGGTTTAGCTCTTATGAGCGTTTGGC
*
43073225 GTGTTATTGGTTGGG-TTAGCTCTTATGAGCGTTTGGC
1 GTGTTATCGGTTGGGTTTAGCTCTTATGAGCGTTTGGC
43073262 GTGTT-TCGGTTGG
1 GTGTTATCGGTTGG
43073275 ACTACTTGTG
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
36 7 0.15
37 27 0.57
38 13 0.28
ACGTcount: A:0.09, C:0.12, G:0.36, T:0.42
Consensus pattern (38 bp):
GTGTTATCGGTTGGGTTTAGCTCTTATGAGCGTTTGGC
Found at i:43083395 original size:26 final size:26
Alignment explanation
Indices: 43083323--43083388 Score: 80
Period size: 26 Copynumber: 2.6 Consensus size: 26
43083313 AGCGAGCCAT
**
43083323 ATCGGGAAGCTC-CGAAGAGCCATTA
1 ATCGGGAAGCTCACGAAGAGCTTTTA
* **
43083348 ATCAGGAAGCTCATAAAGAGCTTTTA
1 ATCGGGAAGCTCACGAAGAGCTTTTA
43083374 ATCGGGAAGCTCACG
1 ATCGGGAAGCTCACG
43083389 GAAAGCTATA
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
25 11 0.34
26 21 0.66
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.20
Consensus pattern (26 bp):
ATCGGGAAGCTCACGAAGAGCTTTTA
Found at i:43091744 original size:31 final size:31
Alignment explanation
Indices: 43091715--43092266 Score: 253
Period size: 31 Copynumber: 18.0 Consensus size: 31
43091705 TATATATATT
*
43091715 CATATACGAACCAAATTCGGCAATGTATATA-
1 CATATACGAATCAAATTCGGCAATGTATA-AC
* *
43091746 TATATA-GAAATC-AATTCGGCAATGTACAAC
1 CATATACG-AATCAAATTCGGCAATGTATAAC
* * *
43091776 CATATATGAATCAAGTTCGGCAATGTATAAT
1 CATATACGAATCAAATTCGGCAATGTATAAC
* * **
43091807 CATATACAAATTAAATTTAGCAATGTATAAC
1 CATATACGAATCAAATTCGGCAATGTATAAC
* * *
43091838 CATATACGAA-CCAATTCAGCAACT-TATATC
1 CATATACGAATCAAATTCGGCAA-TGTATAAC
**
43091868 CATATAC-AATTC-AATTCCAACAATGTATAAC
1 CATATACGAA-TCAAATT-CGGCAATGTATAAC
* * * * * * *
43091899 CATGTACAAATTAATTTCAGCAATATATAAT
1 CATATACGAATCAAATTCGGCAATGTATAAC
* ** *
43091930 CATATACAAATC-AATTCAACAACT-TATATC
1 CATATACGAATCAAATTCGGCAA-TGTATAAC
* **
43091960 CATATAC-AATTCAATTTCAACAATGTATAAC
1 CATATACGAA-TCAAATTCGGCAATGTATAAC
* * * ** *
43091991 CATATACAAATTAATTTTAGCAATGTACAAC
1 CATATACGAATCAAATTCGGCAATGTATAAC
* *
43092022 CATATATGAATC-AATTCGGCAACT-TATATC
1 CATATACGAATCAAATTCGGCAA-TGTATAAC
* * * **
43092052 TAGATAC-AATTCAATTTCAACAATGTATAAC
1 CATATACGAA-TCAAATTCGGCAATGTATAAC
* * * * *
43092083 CATGTAC-ACATTAATTTCAGCAATGTATAAT
1 CATATACGA-ATCAAATTCGGCAATGTATAAC
*
43092114 CATATA-GAAATC-AATTCGGCAACT-TATATC
1 CATATACG-AATCAAATTCGGCAA-TGTATAAC
* **
43092144 CATATAC-AATTCAATTTCAACAATGTATAAC
1 CATATACGAA-TCAAATTCGGCAATGTATAAC
* * * * * *
43092175 CATATACAAATTAATTTCAGCAATGTAAAAT
1 CATATACGAATCAAATTCGGCAATGTATAAC
* * * *
43092206 CATATACAAAT-TAATTTGGCAACT-TATATC
1 CATATACGAATCAAATTCGGCAA-TGTATAAC
* * * *
43092236 CATATGCAAATCAATTTCGACAATGTATAAC
1 CATATACGAATCAAATTCGGCAATGTATAAC
43092267 TATAAACAAT
Statistics
Matches: 402, Mismatches: 87, Indels: 64
0.73 0.16 0.12
Matches are distributed among these distances:
29 9 0.02
30 133 0.33
31 249 0.62
32 11 0.03
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.31
Consensus pattern (31 bp):
CATATACGAATCAAATTCGGCAATGTATAAC
Found at i:43091871 original size:92 final size:92
Alignment explanation
Indices: 43091734--43092275 Score: 691
Period size: 92 Copynumber: 5.9 Consensus size: 92
43091724 ACCAAATTCG
* * * * *
43091734 GCAATGTATATAT-ATATA-GAAATCAATTCGGCAA-TGTACAACCATATATGAA-TCAAGTTCG
1 GCAATGTATA-ATCATATACG-AATCAATTCGGCAACT-TATATCCATATA-CAATTCAATTTCA
* *
43091795 GCAATGTATAATCATATACAAATTAAATTT-A
62 ACAATGTATAACCATATACAAATT-AATTTCA
* * * *
43091826 GCAATGTATAACCATATACGAACCAATTCAGCAACTTATATCCATATACAATTCAATTCCAACAA
1 GCAATGTATAATCATATACGAATCAATTCGGCAACTTATATCCATATACAATTCAATTTCAACAA
*
43091891 TGTATAACCATGTACAAATTAATTTCA
66 TGTATAACCATATACAAATTAATTTCA
* * **
43091918 GCAATATATAATCATATACAAATCAATTCAACAACTTATATCCATATACAATTCAATTTCAACAA
1 GCAATGTATAATCATATACGAATCAATTCGGCAACTTATATCCATATACAATTCAATTTCAACAA
*
43091983 TGTATAACCATATACAAATTAATTTTA
66 TGTATAACCATATACAAATTAATTTCA
* * * * *
43092010 GCAATGTACAACCATATATGAATCAATTCGGCAACTTATATCTAGATACAATTCAATTTCAACAA
1 GCAATGTATAATCATATACGAATCAATTCGGCAACTTATATCCATATACAATTCAATTTCAACAA
* *
43092075 TGTATAACCATGTACACATTAATTTCA
66 TGTATAACCATATACAAATTAATTTCA
43092102 GCAATGTATAATCATATA-GAAATCAATTCGGCAACTTATATCCATATACAATTCAATTTCAACA
1 GCAATGTATAATCATATACG-AATCAATTCGGCAACTTATATCCATATACAATTCAATTTCAACA
43092166 ATGTATAACCATATACAAATTAATTTCA
65 ATGTATAACCATATACAAATTAATTTCA
* * * * * * *
43092194 GCAATGTAAAATCATATACAAATTAATTTGGCAACTTATATCCATATGCAAATCAATTTCGACAA
1 GCAATGTATAATCATATACGAATCAATTCGGCAACTTATATCCATATACAATTCAATTTCAACAA
* *
43092259 TGTATAACTATAAACAA
66 TGTATAACCATATACAA
43092276 TTCGAATTCG
Statistics
Matches: 396, Mismatches: 47, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
91 9 0.02
92 385 0.97
93 2 0.01
ACGTcount: A:0.44, C:0.18, G:0.07, T:0.32
Consensus pattern (92 bp):
GCAATGTATAATCATATACGAATCAATTCGGCAACTTATATCCATATACAATTCAATTTCAACAA
TGTATAACCATATACAAATTAATTTCA
Found at i:43095022 original size:15 final size:15
Alignment explanation
Indices: 43095004--43095185 Score: 93
Period size: 15 Copynumber: 12.3 Consensus size: 15
43094994 TTAATATAAT
43095004 TATTTTATATTAAAA
1 TATTTTATATTAAAA
*
43095019 TATTTTAT-TT-TAA
1 TATTTTATATTAAAA
43095032 -A--TTATATTAAAA
1 TATTTTATATTAAAA
* **
43095044 TATTTTTTAGTT-TTA
1 TATTTTATA-TTAAAA
43095059 TATTAAATTATATTAAAA
1 TATT---TTATATTAAAA
*
43095077 TATTTTATTTTAAATTA
1 TATTTTATATTAAA--A
* *
43095094 TACTTTGA-AATAAAA
1 TA-TTTTATATTAAAA
43095109 TATTTTATATT--AA
1 TATTTTATATTAAAA
43095122 -A--TTATATTAAAA
1 TATTTTATATTAAAA
*
43095134 TATTTTATTTTAAATTA
1 TATTTTATATTAAA--A
* *
43095151 TACTTTGA-AATAAAA
1 TA-TTTTATATTAAAA
43095166 TATTTTATATTAAAA
1 TATTTTATATTAAAA
43095181 TATTT
1 TATTT
43095186 CAAATATTTT
Statistics
Matches: 124, Mismatches: 20, Indels: 46
0.65 0.11 0.24
Matches are distributed among these distances:
10 11 0.09
11 2 0.02
12 6 0.05
13 6 0.05
14 10 0.08
15 54 0.44
16 2 0.02
17 16 0.13
18 17 0.14
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTTATATTAAAA
Found at i:43095042 original size:25 final size:25
Alignment explanation
Indices: 43095008--43095152 Score: 146
Period size: 25 Copynumber: 5.2 Consensus size: 25
43094998 TATAATTATT
43095008 TTATATTAAAATATTTTATTTTAAA
1 TTATATTAAAATATTTTATTTTAAA
43095033 TTATATTAAAATATTTTTTAGTTTTATATTAAA
1 TTATATTAAAATA--TTTTA----T-T-TTAAA
43095066 TTATATTAAAATATTTTATTTTAAA
1 TTATATTAAAATATTTTATTTTAAA
*
43095091 TTATACTTTGAAATAAAATATTTTATATTAAA
1 TTATA---T----TAAAATATTTTATTTTAAA
43095123 TTATATTAAAATATTTTATTTTAAA
1 TTATATTAAAATATTTTATTTTAAA
43095148 TTATA
1 TTATA
43095153 CTTTGAAATA
Statistics
Matches: 103, Mismatches: 2, Indels: 30
0.76 0.01 0.22
Matches are distributed among these distances:
25 46 0.45
26 1 0.01
27 6 0.06
28 1 0.01
29 1 0.01
31 6 0.06
32 24 0.23
33 18 0.17
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (25 bp):
TTATATTAAAATATTTTATTTTAAA
Found at i:43095113 original size:32 final size:32
Alignment explanation
Indices: 43095072--43095179 Score: 149
Period size: 32 Copynumber: 3.6 Consensus size: 32
43095062 TAAATTATAT
*
43095072 TAAAATATTTTATTTTAAATTATACTTTGAAA
1 TAAAATATTTTATATTAAATTATACTTTGAAA
43095104 TAAAATATTTTATATTAAATTATA---T----
1 TAAAATATTTTATATTAAATTATACTTTGAAA
*
43095129 TAAAATATTTTATTTTAAATTATACTTTGAAA
1 TAAAATATTTTATATTAAATTATACTTTGAAA
43095161 TAAAATATTTTATATTAAA
1 TAAAATATTTTATATTAAA
43095180 ATATTTCAAA
Statistics
Matches: 66, Mismatches: 3, Indels: 14
0.80 0.04 0.17
Matches are distributed among these distances:
25 23 0.35
28 1 0.02
29 1 0.02
32 41 0.62
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (32 bp):
TAAAATATTTTATATTAAATTATACTTTGAAA
Found at i:43095202 original size:57 final size:57
Alignment explanation
Indices: 43095008--43095200 Score: 284
Period size: 57 Copynumber: 3.4 Consensus size: 57
43094998 TATAATTATT
* ***
43095008 TTATATTAAAATATTTTATTTTAAATTATA--TTAAAATATTTTTTAGTTTTATATTAAA
1 TTATATTAAAATATTTTATTTTAAATTATACTTTGAAATA--AAATA-TTTTATATTAAA
43095066 TTATATTAAAATATTTTATTTTAAATTATACTTTGAAATAAAATATTTTATATTAAA
1 TTATATTAAAATATTTTATTTTAAATTATACTTTGAAATAAAATATTTTATATTAAA
43095123 TTATATTAAAATATTTTATTTTAAATTATACTTTGAAATAAAATATTTTATATTAAA
1 TTATATTAAAATATTTTATTTTAAATTATACTTTGAAATAAAATATTTTATATTAAA
* *
43095180 ATAT-TTCAAATATTTTATTTT
1 TTATATTAAAATATTTTATTTT
43095201 TATATTTTCT
Statistics
Matches: 127, Mismatches: 6, Indels: 6
0.91 0.04 0.04
Matches are distributed among these distances:
56 16 0.13
57 72 0.57
58 32 0.25
60 7 0.06
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (57 bp):
TTATATTAAAATATTTTATTTTAAATTATACTTTGAAATAAAATATTTTATATTAAA
Found at i:43100498 original size:3 final size:3
Alignment explanation
Indices: 43100490--43100523 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
43100480 ATGTCACAAT
43100490 TAA TAA TAA TAA TAA TAA TAA TAA TAA TACA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
43100524 ACTCAATGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:43101422 original size:15 final size:15
Alignment explanation
Indices: 43101402--43101432 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
43101392 ATTAATTAAT
43101402 TATGATGTCATCGCA
1 TATGATGTCATCGCA
43101417 TATGATGTCATCGCA
1 TATGATGTCATCGCA
43101432 T
1 T
43101433 GTCGATGATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (15 bp):
TATGATGTCATCGCA
Found at i:43109047 original size:66 final size:66
Alignment explanation
Indices: 43108937--43109114 Score: 209
Period size: 66 Copynumber: 2.7 Consensus size: 66
43108927 GAAAAATCAA
* * *
43108937 ATACCG-GATCTTTCCAAGCTCTTGAACGAGATATCAGGTCTTCTCAATCC-CAAGCTCCTAAAC
1 ATACCGAG-TCTTTCCAAGCTCCTGAACAAGATATCAGGTCTTCTCAA-CCTCAAGATCCTAAAC
**
43109000 GTG
64 AAG
** * * *
43109003 ATACCGAGTCTTTCCAAGCTCCTGAATTAGATATCAGGTTTTCTCAACCTCAAGATCCTGAATAA
1 ATACCGAGTCTTTCCAAGCTCCTGAACAAGATATCAGGTCTTCTCAACCTCAAGATCCTAAACAA
43109068 G
66 G
*
43109069 ATATCGAGT-TTTCCCAAGCTCCTGAACAAGATATCAGGTCTTCTCA
1 ATACCGAGTCTTT-CCAAGCTCCTGAACAAGATATCAGGTCTTCTCA
43109115 GGTTTCTGAA
Statistics
Matches: 96, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
65 5 0.05
66 90 0.94
67 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (66 bp):
ATACCGAGTCTTTCCAAGCTCCTGAACAAGATATCAGGTCTTCTCAACCTCAAGATCCTAAACAA
G
Found at i:43113489 original size:23 final size:23
Alignment explanation
Indices: 43113464--43113507 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
43113454 ACTTTTTATA
*
43113464 AAAATATTTAAAAA-TTTAAAAG
1 AAAATATATAAAAATTTTAAAAG
43113486 AAAATATATAAAAATTTTAAAA
1 AAAATATATAAAAATTTTAAAA
43113508 ATAAAAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (23 bp):
AAAATATATAAAAATTTTAAAAG
Found at i:43113517 original size:29 final size:29
Alignment explanation
Indices: 43113459--43113525 Score: 93
Period size: 31 Copynumber: 2.3 Consensus size: 29
43113449 AATGTACTTT
43113459 TTATAAAAATATTTAAAAATTTAAAAGAAAA
1 TTATAAAAATATTTAAAAA-TTAAAAG-AAA
43113490 TATATAAAAAT-TTTAAAAA-TAAAAGAAA
1 T-TATAAAAATATTTAAAAATTAAAAGAAA
43113518 TTATAAAA
1 TTATAAAA
43113526 TATAAAAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
27 7 0.20
28 4 0.11
29 6 0.17
31 9 0.26
32 9 0.26
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (29 bp):
TTATAAAAATATTTAAAAATTAAAAGAAA
Found at i:43113532 original size:19 final size:18
Alignment explanation
Indices: 43113486--43113533 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
43113476 AATTTAAAAG
* *
43113486 AAAATATATAAAAATTTT
1 AAAATATAAAAAAATTAT
43113504 AAAA-ATAAAAGAAATTAT
1 AAAATATAAAA-AAATTAT
43113522 AAAATATAAAAA
1 AAAATATAAAAA
43113534 TAGATGTATC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 5 0.19
18 15 0.58
19 6 0.23
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (18 bp):
AAAATATAAAAAAATTAT
Found at i:43114128 original size:49 final size:49
Alignment explanation
Indices: 43114050--43114167 Score: 121
Period size: 49 Copynumber: 2.4 Consensus size: 49
43114040 TTGCAACTCA
* * * **
43114050 GGCTCTCAATTCAAGGTGGTTATACGGTCATGGGTTGAAGTATAACTA-G
1 GGCTCCCAATTGAAAGTGGTTATACGGTCACAGGTTGAAGTATAAC-ACG
** *
43114099 GGCTCCCAATTGAAAGTGGTTATGTGGTCACAGGTTGGAGTATAACACG
1 GGCTCCCAATTGAAAGTGGTTATACGGTCACAGGTTGAAGTATAACACG
* * *
43114148 GGCCCCCAGTTGATAGTGGT
1 GGCTCCCAATTGAAAGTGGT
43114168 AATGCAGTCA
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
48 1 0.02
49 56 0.98
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.28
Consensus pattern (49 bp):
GGCTCCCAATTGAAAGTGGTTATACGGTCACAGGTTGAAGTATAACACG
Found at i:43128088 original size:9 final size:9
Alignment explanation
Indices: 43128074--43128118 Score: 58
Period size: 9 Copynumber: 5.1 Consensus size: 9
43128064 AACTAAATAC
43128074 TTGAGAGAA
1 TTGAGAGAA
43128083 TTGAGAG-A
1 TTGAGAGAA
43128091 TT-AGATGAA
1 TTGAGA-GAA
*
43128100 TTGAAAGAA
1 TTGAGAGAA
43128109 TTGAGAGAA
1 TTGAGAGAA
43128118 T
1 T
43128119 AGGATTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
7 3 0.10
8 4 0.13
9 22 0.71
10 2 0.06
ACGTcount: A:0.44, C:0.00, G:0.29, T:0.27
Consensus pattern (9 bp):
TTGAGAGAA
Found at i:43131170 original size:17 final size:18
Alignment explanation
Indices: 43131150--43131192 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
43131140 TAAAAATATC
43131150 ATTTTAATTTAATAAA-T
1 ATTTTAATTTAATAAAGT
*
43131167 ATTTTAATTTATTAAAGT
1 ATTTTAATTTAATAAAGT
*
43131185 TTTTTAAT
1 ATTTTAAT
43131193 GTATTTTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (18 bp):
ATTTTAATTTAATAAAGT
Found at i:43131191 original size:18 final size:17
Alignment explanation
Indices: 43131150--43131197 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
43131140 TAAAAATATC
*
43131150 ATTTTAATTTAATAAAT
1 ATTTTAATTTATTAAAT
43131167 ATTTTAATTTATTAAAGT
1 ATTTTAATTTATTAAA-T
* *
43131185 TTTTTAATGTATT
1 ATTTTAATTTATT
43131198 TTTTGATGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 15 0.56
18 12 0.44
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (17 bp):
ATTTTAATTTATTAAAT
Found at i:43132731 original size:28 final size:28
Alignment explanation
Indices: 43132684--43132738 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
43132674 TATTTTAAAA
*** *
43132684 TATTTTTAAAATACTTTTTTTATTTTTT
1 TATTTTTAAAATAAAATTTTGATTTTTT
43132712 TATTTTTAAAATAAAATTTTGATTTTT
1 TATTTTTAAAATAAAATTTTGATTTTT
43132739 ATTAAAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (28 bp):
TATTTTTAAAATAAAATTTTGATTTTTT
Found at i:43137064 original size:29 final size:29
Alignment explanation
Indices: 43137031--43137089 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
43137021 CATATTTTTA
43137031 ATATTGAATTTTTCTTTCACCCACGTTAC
1 ATATTGAATTTTTCTTTCACCCACGTTAC
43137060 ATATTGAATTTTTCTTTCACCCACGTTAC
1 ATATTGAATTTTTCTTTCACCCACGTTAC
43137089 A
1 A
43137090 CATTTTGATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.25, C:0.24, G:0.07, T:0.44
Consensus pattern (29 bp):
ATATTGAATTTTTCTTTCACCCACGTTAC
Found at i:43148127 original size:15 final size:15
Alignment explanation
Indices: 43148085--43148192 Score: 87
Period size: 15 Copynumber: 7.2 Consensus size: 15
43148075 CCAATATCTC
*
43148085 GATACCCATATCTTT
1 GATACCCATATATTT
**
43148100 GACTTTCCA-ATATTT
1 GA-TACCCATATATTT
43148115 GATACCCATATATTT
1 GATACCCATATATTT
**
43148130 GACTTTCCA-ATATTT
1 GA-TACCCATATATTT
*
43148145 GATACCCATATCTTT
1 GATACCCATATATTT
**
43148160 GACTTTCCAT-TATTT
1 GA-TACCCATATATTT
*
43148175 GATACCCATATCTTT
1 GATACCCATATATTT
43148190 GAT
1 GAT
43148193 TTTCCATAAA
Statistics
Matches: 71, Mismatches: 16, Indels: 12
0.72 0.16 0.12
Matches are distributed among these distances:
14 13 0.18
15 45 0.63
16 13 0.18
ACGTcount: A:0.27, C:0.22, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATATTT
Found at i:43148199 original size:30 final size:30
Alignment explanation
Indices: 43148075--43148198 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
43148065 TTTTATTATG
*
43148075 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
*
43148106 CCAATATTTGATACCCATATATTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
43148136 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* *
43148166 CCATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
43148196 CCA
1 CCA
43148199 TAAATATGGA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 81 0.92
31 7 0.08
ACGTcount: A:0.27, C:0.24, G:0.06, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:43152764 original size:30 final size:30
Alignment explanation
Indices: 43152718--43152841 Score: 194
Period size: 30 Copynumber: 4.1 Consensus size: 30
43152708 TTTTATTATG
*
43152718 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
43152749 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
*
43152779 CTAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
43152809 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
43152839 CCA
1 CCA
43152842 TAAATATGGA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 81 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.23, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:43152773 original size:15 final size:15
Alignment explanation
Indices: 43152728--43152835 Score: 69
Period size: 15 Copynumber: 7.2 Consensus size: 15
43152718 CCAATATCTC
43152728 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
43152743 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
43152758 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
43152773 GACTTTCTA-ATATTT
1 GA-TACCCATATCTTT
43152788 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
43152803 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
43152818 GATACCCATATCTTT
1 GATACCCATATCTTT
43152833 GAT
1 GAT
43152836 TTTCCATAAA
Statistics
Matches: 65, Mismatches: 22, Indels: 12
0.66 0.22 0.12
Matches are distributed among these distances:
14 11 0.17
15 43 0.66
16 11 0.17
ACGTcount: A:0.26, C:0.21, G:0.07, T:0.45
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:43169508 original size:13 final size:13
Alignment explanation
Indices: 43169492--43169516 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43169482 TGTTTATAAT
43169492 ATGTATGTATATC
1 ATGTATGTATATC
43169505 ATGTATGTATAT
1 ATGTATGTATAT
43169517 TACAATTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.16, T:0.48
Consensus pattern (13 bp):
ATGTATGTATATC
Found at i:43178193 original size:32 final size:32
Alignment explanation
Indices: 43178151--43178211 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
43178141 TTTTTTGAAA
43178151 AATAATTATAACTATTTAAAT-AAT-ATTATTTG
1 AATAATTATAA-TA-TTAAATGAATAATTATTTG
*
43178183 AATAGTTATAATATTAAATGAATAATTAT
1 AATAATTATAATATTAAATGAATAATTAT
43178212 GTGTTTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 6 0.23
31 5 0.19
32 15 0.58
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (32 bp):
AATAATTATAATATTAAATGAATAATTATTTG
Found at i:43178204 original size:20 final size:20
Alignment explanation
Indices: 43178170--43178211 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
43178160 AACTATTTAA
** *
43178170 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
43178190 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
43178210 AT
1 AT
43178212 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:43184322 original size:114 final size:113
Alignment explanation
Indices: 43184115--43184350 Score: 393
Period size: 114 Copynumber: 2.1 Consensus size: 113
43184105 ATAAATACTC
* *
43184115 AAGTATTG-AGGAGTATTGTTAGGCATAAAGCTTCAAATTAAGTTTGGGGGTGGTAAAACTCGTT
1 AAGTATTGAAGGAGTATTGTTAGGAATAAAGCTTCAAATTAAGTTTGGGGGTGGTAAAACCCGTT
*
43184179 AGTAGGAAGCATGTACCTTGAAAGGATCCAAGACAAAGTTAGGGTTAA
66 AGTAGGAAGCATGTACCTCGAAAGGATCCAAGACAAAGTTAGGGTTAA
*
43184227 AAGTATTGAAGGAGTATTGTTGGGAATAAAGCTTCAAATTAAGTTTGGAGGGTGGTAAAACCCGT
1 AAGTATTGAAGGAGTATTGTTAGGAATAAAGCTTCAAATTAAGTTTGG-GGGTGGTAAAACCCGT
*
43184292 TAGTAGGAAGGATGTACCTCGAAAGGATCCAAGACAAAGTTAGGGTTAA
65 TAGTAGGAAGCATGTACCTCGAAAGGATCCAAGACAAAGTTAGGGTTAA
* *
43184341 GATTATTGAA
1 AAGTATTGAA
43184351 CCTAAAAATT
Statistics
Matches: 115, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
112 8 0.07
113 37 0.32
114 70 0.61
ACGTcount: A:0.36, C:0.09, G:0.28, T:0.27
Consensus pattern (113 bp):
AAGTATTGAAGGAGTATTGTTAGGAATAAAGCTTCAAATTAAGTTTGGGGGTGGTAAAACCCGTT
AGTAGGAAGCATGTACCTCGAAAGGATCCAAGACAAAGTTAGGGTTAA
Found at i:43189401 original size:15 final size:15
Alignment explanation
Indices: 43189378--43189413 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
43189368 TTACAGAGTA
* *
43189378 CACCTACTCTTGCTC
1 CACCAACTCTTACTC
43189393 CACCAACTCTTACTC
1 CACCAACTCTTACTC
43189408 CACCAA
1 CACCAA
43189414 TTGTTTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.25, C:0.47, G:0.03, T:0.25
Consensus pattern (15 bp):
CACCAACTCTTACTC
Found at i:43190502 original size:35 final size:36
Alignment explanation
Indices: 43190463--43190572 Score: 143
Period size: 38 Copynumber: 3.0 Consensus size: 36
43190453 TCTTAAACCG
* * *
43190463 ATCTTAAACCCAAATTGTAACAAAATGTTA-AATAC
1 ATCTTAAACCCAAATTGCAACAAAATGTAAGAACAC
*
43190498 ATCTTAAACCCAAATTGCAACAAAACATCTAAGAACAC
1 ATCTTAAACCCAAATTGCAAC-AAA-ATGTAAGAACAC
43190536 ATCTTAAACCCAAATTGCAACAAAATGTCAA-AACAC
1 ATCTTAAACCCAAATTGCAACAAAATGT-AAGAACAC
43190572 A
1 A
43190573 CAAAGCCTTT
Statistics
Matches: 66, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
35 20 0.30
36 12 0.18
37 9 0.14
38 25 0.38
ACGTcount: A:0.50, C:0.23, G:0.05, T:0.22
Consensus pattern (36 bp):
ATCTTAAACCCAAATTGCAACAAAATGTAAGAACAC
Found at i:43190784 original size:16 final size:16
Alignment explanation
Indices: 43190763--43190797 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
43190753 ATGTAGACGT
43190763 GAAAGAGAT-GGAAAAC
1 GAAAGAGATAGG-AAAC
43190779 GAAAGAGATAGGAAAC
1 GAAAGAGATAGGAAAC
43190795 GAA
1 GAA
43190798 GAAGTGAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.57, C:0.06, G:0.31, T:0.06
Consensus pattern (16 bp):
GAAAGAGATAGGAAAC
Found at i:43190911 original size:51 final size:48
Alignment explanation
Indices: 43190856--43190953 Score: 135
Period size: 48 Copynumber: 2.0 Consensus size: 48
43190846 AATAGATGTT
*
43190856 AGAGAAAATGAAAGA-AAAAGAGACTGGAATGAAAAATGTTGAAGACGATGC
1 AGAGAAAATGAAAGAGAAAAGAG-CAGG---GAAAAATGTTGAAGACGATGC
*
43190907 AGAGAAAATGAAAGAGAAAATAGCAGGGAAAAATGTTGAAGACGATG
1 AGAGAAAATGAAAGAGAAAAGAGCAGGGAAAAATGTTGAAGACGATG
43190954 GTGAATAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
48 20 0.45
51 18 0.41
52 6 0.14
ACGTcount: A:0.53, C:0.05, G:0.29, T:0.13
Consensus pattern (48 bp):
AGAGAAAATGAAAGAGAAAAGAGCAGGGAAAAATGTTGAAGACGATGC
Found at i:43190913 original size:24 final size:24
Alignment explanation
Indices: 43190886--43190953 Score: 59
Period size: 23 Copynumber: 2.8 Consensus size: 24
43190876 AGACTGGAAT
43190886 GAAAAATGTTGAAGACGATGCAGA
1 GAAAAATGTTGAAGACGATGCAGA
** ** *
43190910 G-AAAATG-AAAGAGAAAATAGCAGG
1 GAAAAATGTTGA-AGACGAT-GCAGA
43190934 GAAAAATGTTGAAGACGATG
1 GAAAAATGTTGAAGACGATG
43190954 GTGAATAAAT
Statistics
Matches: 31, Mismatches: 9, Indels: 8
0.65 0.19 0.17
Matches are distributed among these distances:
22 1 0.03
23 11 0.35
24 7 0.23
25 11 0.35
26 1 0.03
ACGTcount: A:0.50, C:0.06, G:0.29, T:0.15
Consensus pattern (24 bp):
GAAAAATGTTGAAGACGATGCAGA
Found at i:43203791 original size:3 final size:3
Alignment explanation
Indices: 43203783--43203807 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
43203773 ATTATAGTAC
43203783 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
43203808 CATATTTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:43206203 original size:49 final size:49
Alignment explanation
Indices: 43206131--43206228 Score: 169
Period size: 49 Copynumber: 2.0 Consensus size: 49
43206121 CGCCTTACAC
* *
43206131 ACATAAAGCTCACTGCTGAGACTTTATAGATGTAGTATCAAAATACAGA
1 ACATAAAGCTCACTGATGAGACTTCATAGATGTAGTATCAAAATACAGA
*
43206180 ACATAAAGCTCACTGATGAGACTTCATATATGTAGTATCAAAATACAGA
1 ACATAAAGCTCACTGATGAGACTTCATAGATGTAGTATCAAAATACAGA
43206229 TTTAATAACA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (49 bp):
ACATAAAGCTCACTGATGAGACTTCATAGATGTAGTATCAAAATACAGA
Found at i:43207311 original size:15 final size:15
Alignment explanation
Indices: 43207291--43207321 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
43207281 CTCCACATAA
*
43207291 TTCATACACATGCAT
1 TTCATACACAAGCAT
43207306 TTCATACACAAGCAT
1 TTCATACACAAGCAT
43207321 T
1 T
43207322 CAACCAATAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.26, G:0.06, T:0.32
Consensus pattern (15 bp):
TTCATACACAAGCAT
Found at i:43208657 original size:27 final size:25
Alignment explanation
Indices: 43208598--43208645 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
43208588 TCATAGCCCA
43208598 AAACATTGGTAAATGATATCCTCAC
1 AAACATTGGTAAATGATATCCTCAC
43208623 AAACATTGGTAAATGATATCCTC
1 AAACATTGGTAAATGATATCCTC
43208646 TCATTGGCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (25 bp):
AAACATTGGTAAATGATATCCTCAC
Found at i:43209395 original size:25 final size:25
Alignment explanation
Indices: 43209357--43209409 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
43209347 ATTTTTTTTG
*
43209357 AAATTTTATCAGGGGTAAACTCGTC
1 AAATTTTATCAGGGGTAAAATCGTC
*
43209382 AAATTTTA-CTAGGGGTAAAATTGTC
1 AAATTTTATC-AGGGGTAAAATCGTC
43209407 AAA
1 AAA
43209410 AAAATTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 1 0.04
25 24 0.96
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (25 bp):
AAATTTTATCAGGGGTAAAATCGTC
Found at i:43213529 original size:433 final size:433
Alignment explanation
Indices: 43212723--43213592 Score: 1740
Period size: 433 Copynumber: 2.0 Consensus size: 433
43212713 ATATAACAAC
43212723 ATTTAAGATAAAATTTTATTAACATGTTTCAAATGTTTTAAACAATTCAAAGACTTGTAAAATAC
1 ATTTAAGATAAAATTTTATTAACATGTTTCAAATGTTTTAAACAATTCAAAGACTTGTAAAATAC
43212788 TCAAAAAACATGTTTCAAATGTATTTTAACTAATCCAAATGGTTTTAGTCAATACTAAAGAGTTT
66 TCAAAAAACATGTTTCAAATGTATTTTAACTAATCCAAATGGTTTTAGTCAATACTAAAGAGTTT
43212853 TTAAGTGTTTAAAATGTTTTAAAGGAATTTTGATGGATTAGTATTAGTCCTAGGGATCTATGTAT
131 TTAAGTGTTTAAAATGTTTTAAAGGAATTTTGATGGATTAGTATTAGTCCTAGGGATCTATGTAT
43212918 CGATACATTGCAAGCGAATAGCCAAATAATAAAATTGGAAGGGCATGTATCGATACTTTGCTTCA
196 CGATACATTGCAAGCGAATAGCCAAATAATAAAATTGGAAGGGCATGTATCGATACTTTGCTTCA
43212983 AGGTATCGATATATGGCTATATGTATCAATACGTTGGTGTCAAAACGATCATCAACAGCTAGTTT
261 AGGTATCGATATATGGCTATATGTATCAATACGTTGGTGTCAAAACGATCATCAACAGCTAGTTT
43213048 TAAGCTAACTATTAATACCTGTAACATCCTAAAAATCGAGGGATAGTAGAATTGTGTTTGGGAAT
326 TAAGCTAACTATTAATACCTGTAACATCCTAAAAATCGAGGGATAGTAGAATTGTGTTTGGGAAT
43213113 CGAGAGAGAGTGGTCATGCCCAAATTTTTGAGATTATCTACCT
391 CGAGAGAGAGTGGTCATGCCCAAATTTTTGAGATTATCTACCT
43213156 ATTTAAGATAAAATTTTATTAACATGTTTCAAATGTTTTAAACAATTCAAAGACTTGTAAAATAC
1 ATTTAAGATAAAATTTTATTAACATGTTTCAAATGTTTTAAACAATTCAAAGACTTGTAAAATAC
43213221 TCAAAAAACATGTTTCAAATGTATTTTAACTAATCCAAATGGTTTTAGTCAATACTAAAGAGTTT
66 TCAAAAAACATGTTTCAAATGTATTTTAACTAATCCAAATGGTTTTAGTCAATACTAAAGAGTTT
43213286 TTAAGTGTTTAAAATGTTTTAAAGGAATTTTGATGGATTAGTATTAGTCCTAGGGATCTATGTAT
131 TTAAGTGTTTAAAATGTTTTAAAGGAATTTTGATGGATTAGTATTAGTCCTAGGGATCTATGTAT
43213351 CGATACATTGCAAGCGAATAGCCAAATAATAAAATTGGAAGGGCATGTATCGATACTTTGCTTCA
196 CGATACATTGCAAGCGAATAGCCAAATAATAAAATTGGAAGGGCATGTATCGATACTTTGCTTCA
43213416 AGGTATCGATATATGGCTATATGTATCAATACGTTGGTGTCAAAACGATCATCAACAGCTAGTTT
261 AGGTATCGATATATGGCTATATGTATCAATACGTTGGTGTCAAAACGATCATCAACAGCTAGTTT
43213481 TAAGCTAACTATTAATACCTGTAACATCCTAAAAATCGAGGGATAGTAGAATTGTGTTTGGGAAT
326 TAAGCTAACTATTAATACCTGTAACATCCTAAAAATCGAGGGATAGTAGAATTGTGTTTGGGAAT
43213546 CGAGAGAGAGTGGTCATGCCCAAATTTTTGAGATTATCTACCT
391 CGAGAGAGAGTGGTCATGCCCAAATTTTTGAGATTATCTACCT
43213589 ATTT
1 ATTT
43213593 TTAGGAATAA
Statistics
Matches: 437, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
433 437 1.00
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.34
Consensus pattern (433 bp):
ATTTAAGATAAAATTTTATTAACATGTTTCAAATGTTTTAAACAATTCAAAGACTTGTAAAATAC
TCAAAAAACATGTTTCAAATGTATTTTAACTAATCCAAATGGTTTTAGTCAATACTAAAGAGTTT
TTAAGTGTTTAAAATGTTTTAAAGGAATTTTGATGGATTAGTATTAGTCCTAGGGATCTATGTAT
CGATACATTGCAAGCGAATAGCCAAATAATAAAATTGGAAGGGCATGTATCGATACTTTGCTTCA
AGGTATCGATATATGGCTATATGTATCAATACGTTGGTGTCAAAACGATCATCAACAGCTAGTTT
TAAGCTAACTATTAATACCTGTAACATCCTAAAAATCGAGGGATAGTAGAATTGTGTTTGGGAAT
CGAGAGAGAGTGGTCATGCCCAAATTTTTGAGATTATCTACCT
Found at i:43215718 original size:20 final size:19
Alignment explanation
Indices: 43215695--43215744 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
43215685 ACTTTTTAAA
43215695 TATATTTTCTACAATTATTT
1 TATATTTTCTAC-ATTATTT
*
43215715 TATAATTTT-TACATTTTTT
1 TAT-ATTTTCTACATTATTT
*
43215734 TACATTTTCTA
1 TATATTTTCTA
43215745 ATAGTATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 5 0.19
19 10 0.38
20 6 0.23
21 5 0.19
ACGTcount: A:0.28, C:0.10, G:0.00, T:0.62
Consensus pattern (19 bp):
TATATTTTCTACATTATTT
Found at i:43215819 original size:17 final size:15
Alignment explanation
Indices: 43215787--43215815 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
43215777 AATTATAAGT
43215787 TTTTTGTAAATTTTA
1 TTTTTGTAAATTTTA
43215802 TTTTTGTAAATTTT
1 TTTTTGTAAATTTT
43215816 TTATAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (15 bp):
TTTTTGTAAATTTTA
Found at i:43215830 original size:16 final size:17
Alignment explanation
Indices: 43215811--43215849 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
43215801 ATTTTTGTAA
43215811 ATTTTTT-ATAATATAT
1 ATTTTTTGATAATATAT
*
43215827 ATTTTTTGGATTATATAT
1 ATTTTTT-GATAATATAT
43215845 ATTTT
1 ATTTT
43215850 AAGAATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 7 0.35
18 13 0.65
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (17 bp):
ATTTTTTGATAATATAT
Found at i:43227797 original size:36 final size:36
Alignment explanation
Indices: 43227757--43227829 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
43227747 TTAAGTTTGT
43227757 AACTTTTTAACCCTCTACTACGTAGGATTAATTATA
1 AACTTTTTAACCCTCTACTACGTAGGATTAATTATA
*
43227793 AACTTTTTAACCCTTTACTACGTAGGATTAATTATA
1 AACTTTTTAACCCTCTACTACGTAGGATTAATTATA
43227829 A
1 A
43227830 CTCTTGATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.34, C:0.18, G:0.08, T:0.40
Consensus pattern (36 bp):
AACTTTTTAACCCTCTACTACGTAGGATTAATTATA
Found at i:43235575 original size:18 final size:18
Alignment explanation
Indices: 43235552--43235586 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
43235542 CAAGAACAGG
43235552 AAGCATCAAAATAGTTTC
1 AAGCATCAAAATAGTTTC
*
43235570 AAGCATGAAAATAGTTT
1 AAGCATCAAAATAGTTT
43235587 GACACATTGT
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:0.46, C:0.11, G:0.14, T:0.29
Consensus pattern (18 bp):
AAGCATCAAAATAGTTTC
Found at i:43240444 original size:16 final size:16
Alignment explanation
Indices: 43240425--43240455 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
43240415 TCTTCTTTAC
43240425 TTACTCACTTACTTGT
1 TTACTCACTTACTTGT
*
43240441 TTACTTACTTACTTG
1 TTACTCACTTACTTG
43240456 CTTAAATAAC
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:0.19, C:0.23, G:0.06, T:0.52
Consensus pattern (16 bp):
TTACTCACTTACTTGT
Found at i:43240852 original size:50 final size:49
Alignment explanation
Indices: 43240711--43240902 Score: 145
Period size: 50 Copynumber: 3.7 Consensus size: 49
43240701 TTTCCTTTAC
* * * * *
43240711 TGCCAATGCCATATCCCAAATATGGTCTTACGTGGGAG-TTCTCATATCAG
1 TGCCAATGTCATGTCCCAAA-ATGGTCTTACATGGG-GCCTCTCATCTCAG
* * * ** *
43240761 TGCCTATGTTATGTCCCTAACATGGTCTTACGCGGGACCTCTCATCTCAG
1 TGCCAATGTCATGTCCC-AAAATGGTCTTACATGGGGCCTCTCATCTCAG
43240811 TGCCAAT-TCCATGTCCCAGAAATGGTCTTACATGGGGCCTCTCGTAATCTCAATG
1 TGCCAATGT-CATGTCCCA-AAATGGTCTTACATGGGGCCTCTC---ATCTC-A-G
* *
43240866 ATGCCAATGTCATGTCTCAGACATGGTCTTACATGGG
1 -TGCCAATGTCATGTCCCA-AAATGGTCTTACATGGG
43240903 ATCTCTTTAC
Statistics
Matches: 114, Mismatches: 17, Indels: 16
0.78 0.12 0.11
Matches are distributed among these distances:
49 2 0.02
50 70 0.61
51 2 0.02
53 5 0.04
54 1 0.01
55 1 0.01
56 32 0.28
57 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (49 bp):
TGCCAATGTCATGTCCCAAAATGGTCTTACATGGGGCCTCTCATCTCAG
Found at i:43243790 original size:49 final size:50
Alignment explanation
Indices: 43243718--43243890 Score: 154
Period size: 50 Copynumber: 3.5 Consensus size: 50
43243708 GAAACAAGCT
* *
43243718 ATATCCCAGACATAGTCTTACATGGGATGTT-TCCT-TTACTGCCAATGCC
1 ATATCCCAGACATGGTCTTACATGGGA-GTTCTCATATTACTGCCAATGCC
* * ** *
43243767 ATATCCCATATATGGTCTTACATGGGAGTTCTCATATTGGTGTCAATGCC
1 ATATCCCAGACATGGTCTTACATGGGAGTTCTCATATTACTGCCAATGCC
* * ** * *** *
43243817 ATGTCCCAGACATGGTCTTAC-GGAGGACCTCTCATCTCGGTGCCAACGCC
1 ATATCCCAGACATGGTCTTACATG-GGAGTTCTCATATTACTGCCAATGCC
*
43243867 ATGTCCCAGACATGGTCTTACATG
1 ATATCCCAGACATGGTCTTACATG
43243891 AGACCTCTTG
Statistics
Matches: 102, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
48 3 0.03
49 28 0.27
50 70 0.69
51 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (50 bp):
ATATCCCAGACATGGTCTTACATGGGAGTTCTCATATTACTGCCAATGCC
Found at i:43243824 original size:50 final size:51
Alignment explanation
Indices: 43243757--43243898 Score: 173
Period size: 50 Copynumber: 2.8 Consensus size: 51
43243747 TTTCCTTTAC
* * * ** *
43243757 TGCCAATGCCATATCCCATATATGGTCTTACATG-GGAGTTCTCATATTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGGACCTCTCATATCGG
* * *
43243807 TGTCAATGCCATGTCCCAGACATGGTCTTAC-GGAGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGGACCTCTCATATCGG
*
43243857 TGCCAACGCCATGTCCCAGACATGGTCTTACATGA-GACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGGACCTCT
43243899 TGTGACAGCC
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
49 1 0.01
50 75 0.96
51 2 0.03
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (51 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGGACCTCTCATATCGG
Found at i:43259383 original size:27 final size:28
Alignment explanation
Indices: 43259299--43259396 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
43259289 CATGAGATTG
* * * *
43259299 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
43259328 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
43259356 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
43259383 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
43259397 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:43259407 original size:27 final size:27
Alignment explanation
Indices: 43259327--43259409 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
43259317 TAAATTGTAC
* *
43259327 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
43259355 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
43259382 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
43259409 A
1 A
43259410 TATTTTTTAA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:43259410 original size:29 final size:27
Alignment explanation
Indices: 43259299--43259411 Score: 100
Period size: 28 Copynumber: 4.0 Consensus size: 27
43259289 CATGAGATTG
** * *
43259299 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
43259328 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
43259356 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
43259383 GCACTGAGTGTGCGGACTTAATATATATA
1 GCACTAAGTGTGC-GACTTAAT-TATATA
43259412 TTTTTTAATC
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.38
29 22 0.30
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:43272943 original size:40 final size:40
Alignment explanation
Indices: 43272880--43273098 Score: 240
Period size: 40 Copynumber: 5.5 Consensus size: 40
43272870 TACTGGGTAT
* ** *
43272880 AAACAAGGGCACGTATGTGCAATCATGGGTACCGAAGTAC
1 AAACAGGGGCACAAATGTGCAATCAGGGGTACCGAAGTAC
* * *
43272920 AAACAGGGGCATAAATGTCCAATCAGGGGTACCAAAGTAC
1 AAACAGGGGCACAAATGTGCAATCAGGGGTACCGAAGTAC
* ** * *
43272960 AAAAAGGGGCATGAATGTGCAATCAAGGGTACTGAAGTAC
1 AAACAGGGGCACAAATGTGCAATCAGGGGTACCGAAGTAC
* * * * *
43273000 AAACAGGGACACGAATGTGCAATTAGGGGTACCAAATTAC
1 AAACAGGGGCACAAATGTGCAATCAGGGGTACCGAAGTAC
* *
43273040 AAACAGGGGCACATATGTGCAATCAGTGGTACCGAAGTAC
1 AAACAGGGGCACAAATGTGCAATCAGGGGTACCGAAGTAC
* * *
43273080 AAACAAGGGTACGAATGTG
1 AAACAGGGGCACAAATGTG
43273099 TAACCAGACA
Statistics
Matches: 147, Mismatches: 32, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 147 1.00
ACGTcount: A:0.38, C:0.17, G:0.27, T:0.17
Consensus pattern (40 bp):
AAACAGGGGCACAAATGTGCAATCAGGGGTACCGAAGTAC
Found at i:43273028 original size:80 final size:79
Alignment explanation
Indices: 43272886--43273098 Score: 268
Period size: 80 Copynumber: 2.7 Consensus size: 79
43272876 GTATAAACAA
* * ** *
43272886 GGGCACGTATGTGCAATCATGGGTACCGAAGTACAAACAGGGGCATAAATGTCCAATCAGGGGTA
1 GGGCACATATGTGCAATCAAGGGTACCGAAGTACAAACA-GGGCACGAATGTGCAATCAGGGGTA
43272951 CCAAAGTACAAAAAG
65 CCAAAGTACAAAAAG
* * *
43272966 GGGCATGA-ATGTGCAATCAAGGGTACTGAAGTACAAACAGGGACACGAATGTGCAATTAGGGGT
1 GGGCA-CATATGTGCAATCAAGGGTACCGAAGTACAAACAGGG-CACGAATGTGCAATCAGGGGT
* *
43273030 ACCAAATTACAAACAG
64 ACCAAAGTACAAAAAG
*
43273046 GGGCACATATGTGCAATC-AGTGGTACCGAAGTACAAACAAGGGTACGAATGTG
1 GGGCACATATGTGCAATCAAG-GGTACCGAAGTACAAAC-AGGGCACGAATGTG
43273099 TAACCAGACA
Statistics
Matches: 115, Mismatches: 13, Indels: 10
0.83 0.09 0.07
Matches are distributed among these distances:
79 6 0.05
80 105 0.91
81 4 0.03
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.17
Consensus pattern (79 bp):
GGGCACATATGTGCAATCAAGGGTACCGAAGTACAAACAGGGCACGAATGTGCAATCAGGGGTAC
CAAAGTACAAAAAG
Found at i:43273096 original size:120 final size:120
Alignment explanation
Indices: 43272880--43273098 Score: 298
Period size: 120 Copynumber: 1.8 Consensus size: 120
43272870 TACTGGGTAT
* * * *
43272880 AAACAAGGGCACGTATGTGCAATCATGGGTACCGAAGTACAAACAGGGGCATAAATGTCCAATCA
1 AAACAAGGGCACGAATGTGCAATCAGGGGTACCAAAGTACAAACAGGGGCACAAATGTCCAATCA
*
43272945 GGGGTACCAAAGTACAAAAAGGGGCATGAATGTGCAATCAAGGGTACTGAAGTAC
66 GGGGTACCAAAGTACAAAAAGGGGCACGAATGTGCAATCAAGGGTACTGAAGTAC
* * * *
43273000 AAAC-AGGGACACGAATGTGCAATTAGGGGTACCAAATTACAAACAGGGGCACATATGTGCAATC
1 AAACAAGGG-CACGAATGTGCAATCAGGGGTACCAAAGTACAAACAGGGGCACAAATGTCCAATC
* * *
43273064 AGTGGTACCGAAGTACAAACAA-GGGTACGAATGTG
65 AGGGGTACCAAAGTACAAA-AAGGGGCACGAATGTG
43273099 TAACCAGACA
Statistics
Matches: 85, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
119 4 0.05
120 79 0.93
121 2 0.02
ACGTcount: A:0.38, C:0.17, G:0.27, T:0.17
Consensus pattern (120 bp):
AAACAAGGGCACGAATGTGCAATCAGGGGTACCAAAGTACAAACAGGGGCACAAATGTCCAATCA
GGGGTACCAAAGTACAAAAAGGGGCACGAATGTGCAATCAAGGGTACTGAAGTAC
Found at i:43294351 original size:15 final size:15
Alignment explanation
Indices: 43294331--43294361 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
43294321 AAAACTTAAC
43294331 ATGTAGAGCTATCAG
1 ATGTAGAGCTATCAG
43294346 ATGTAGAGCTATCAG
1 ATGTAGAGCTATCAG
43294361 A
1 A
43294362 CTTACCAGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.26
Consensus pattern (15 bp):
ATGTAGAGCTATCAG
Found at i:43295725 original size:18 final size:18
Alignment explanation
Indices: 43295702--43295739 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
43295692 ATTGAGACAA
43295702 TTATTTAATTGAAA-TAAT
1 TTATTT-ATTGAAATTAAT
*
43295720 TTATTTATTTAAATTAAT
1 TTATTTATTGAAATTAAT
43295738 TT
1 TT
43295740 TAAGATGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (18 bp):
TTATTTATTGAAATTAAT
Found at i:43304563 original size:15 final size:14
Alignment explanation
Indices: 43304552--43304598 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
43304542 TTTAATAAAG
43304552 TTTAATAAAATAAT
1 TTTAATAAAATAAT
*
43304566 TTTTATAAAATGAAT
1 TTTAATAAAAT-AAT
* *
43304581 TTTAATTAAATCAT
1 TTTAATAAAATAAT
43304595 TTTA
1 TTTA
43304599 TAAGACAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 16 0.57
15 12 0.43
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (14 bp):
TTTAATAAAATAAT
Found at i:43305921 original size:19 final size:20
Alignment explanation
Indices: 43305897--43305938 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
43305887 TTATGTAAAC
* *
43305897 AAATGTTTTAAT-TTTTTTT
1 AAATGTTCTAATGTGTTTTT
43305916 AAATGTTCTAATGTGTTTTT
1 AAATGTTCTAATGTGTTTTT
43305936 AAA
1 AAA
43305939 ATGTGTTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (20 bp):
AAATGTTCTAATGTGTTTTT
Found at i:43306137 original size:29 final size:26
Alignment explanation
Indices: 43306102--43306158 Score: 71
Period size: 29 Copynumber: 2.1 Consensus size: 26
43306092 AGAGGTTAAT
43306102 TTATAAATT-TAATGATATTTTAGAATTTC
1 TTATAAATTAT-AT-ATATTTT--AATTTC
43306131 TTATAAATTATATATATTTTAATTTC
1 TTATAAATTATATATATTTTAATTTC
43306157 TT
1 TT
43306159 TATGGTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
26 8 0.30
28 7 0.26
29 11 0.41
30 1 0.04
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.56
Consensus pattern (26 bp):
TTATAAATTATATATATTTTAATTTC
Found at i:43306145 original size:26 final size:29
Alignment explanation
Indices: 43306102--43306158 Score: 68
Period size: 26 Copynumber: 2.1 Consensus size: 29
43306092 AGAGGTTAAT
43306102 TTATAAATTTAATGATAT-TTTAGAATTTC
1 TTATAAATTTAATGATATATTT-GAATTTC
*
43306131 TTATAAA-TT-AT-ATATATTTTAATTTC
1 TTATAAATTTAATGATATATTTGAATTTC
43306157 TT
1 TT
43306159 TATGGTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
26 12 0.46
27 5 0.19
28 2 0.08
29 7 0.27
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.56
Consensus pattern (29 bp):
TTATAAATTTAATGATATATTTGAATTTC
Found at i:43310829 original size:2 final size:2
Alignment explanation
Indices: 43310822--43310847 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
43310812 GCCTTAACAT
43310822 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
43310848 AAAAAAAAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:43311391 original size:22 final size:22
Alignment explanation
Indices: 43311343--43311408 Score: 68
Period size: 22 Copynumber: 3.2 Consensus size: 22
43311333 TTTTTTAAAA
*
43311343 TTTTATGAACTTTTTATATATT
1 TTTTTTGAACTTTTTATATATT
* *
43311365 CTTTTTGAACTTTTT-TTTATT
1 TTTTTTGAACTTTTTATATATT
*
43311386 TTTTTT--A-TTTTTAAATATT
1 TTTTTTGAACTTTTTATATATT
43311405 TTTT
1 TTTT
43311409 ATAAATTTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
18 5 0.14
19 9 0.24
21 10 0.27
22 13 0.35
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.71
Consensus pattern (22 bp):
TTTTTTGAACTTTTTATATATT
Found at i:43314972 original size:23 final size:24
Alignment explanation
Indices: 43314918--43314974 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
43314908 ATAGAAATGT
43314918 ATAAAATAAAATAATAATACCTAA
1 ATAAAATAAAATAATAATACCTAA
* *
43314942 A-AACATAAAATAAT-AT-CTTATA
1 ATAAAATAAAATAATAATACCTA-A
43314964 ATAAAATAAAA
1 ATAAAATAAAA
43314975 GGATCTATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 3 0.11
22 4 0.14
23 20 0.71
24 1 0.04
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (24 bp):
ATAAAATAAAATAATAATACCTAA
Found at i:43315028 original size:22 final size:21
Alignment explanation
Indices: 43315003--43315060 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 21
43314993 TAAGGGGAAA
43315003 AATAAAATAGAATAA-AAAGACT
1 AATAAAAT--AATAATAAAGACT
*
43315025 AATAATAATAATAATAATGACT
1 AATAA-AATAATAATAAAGACT
43315047 AATAAAAATAATAA
1 AAT-AAAATAATAA
43315061 CAATAAACCA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
21 5 0.16
22 22 0.69
23 5 0.16
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.24
Consensus pattern (21 bp):
AATAAAATAATAATAAAGACT
Found at i:43315032 original size:3 final size:3
Alignment explanation
Indices: 43315024--43315066 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
43315014 ATAAAAAGAC
* * *
43315024 TAA TAA TAA TAA TAA TAA TGAC TAA TAA AAA TAA TAA CAA TAA
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
43315067 ACCAATTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
3 31 0.94
4 2 0.06
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:43317274 original size:42 final size:42
Alignment explanation
Indices: 43317153--43317312 Score: 151
Period size: 42 Copynumber: 3.8 Consensus size: 42
43317143 ATGGGTTATA
* * * * ** *
43317153 CTTCGGTTAATCCGATGATGCACTTACGTGCTAGTATGCTTA
1 CTTCGGTTTATTCAATGATGCACTTATGTGCTAGTATATTTG
** * *
43317195 CTTCGGTTTA-TCTGGTGATACACTTATGTGTTAGTATATTTG
1 CTTCGGTTTATTC-AATGATGCACTTATGTGCTAGTATATTTG
*
43317237 CTTCCGTTTATTCAATGATGCACTTATGTGCTAGTATATTTG
1 CTTCGGTTTATTCAATGATGCACTTATGTGCTAGTATATTTG
* ** * *
43317279 CTTTGGTACATCCAATAATGCACTTATGTGCTAG
1 CTTCGGTTTATTCAATGATGCACTTATGTGCTAG
43317313 GATGATTGCT
Statistics
Matches: 96, Mismatches: 20, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
41 1 0.01
42 93 0.97
43 2 0.02
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.41
Consensus pattern (42 bp):
CTTCGGTTTATTCAATGATGCACTTATGTGCTAGTATATTTG
Found at i:43317694 original size:12 final size:13
Alignment explanation
Indices: 43317677--43317706 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
43317667 GGCTCAGAAA
43317677 TGATA-GAAATGT
1 TGATAGGAAATGT
43317689 TGATAGGAAATGT
1 TGATAGGAAATGT
43317702 TGATA
1 TGATA
43317707 ACAGTAAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.40, C:0.00, G:0.27, T:0.33
Consensus pattern (13 bp):
TGATAGGAAATGT
Found at i:43319226 original size:13 final size:13
Alignment explanation
Indices: 43319204--43319244 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
43319194 GGCCCGACCC
43319204 ATATTAAATATAT
1 ATATTAAATATAT
*
43319217 ATATTTAATATAT
1 ATATTAAATATAT
**
43319230 ATAAAAAATATAT
1 ATATTAAATATAT
43319243 AT
1 AT
43319245 TTGATTAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATATTAAATATAT
Found at i:43319262 original size:21 final size:21
Alignment explanation
Indices: 43319209--43319279 Score: 90
Period size: 21 Copynumber: 3.3 Consensus size: 21
43319199 GACCCATATT
*
43319209 AAAT-ATATATATTTAATATATA
1 AAATAATATATATTTGAT-TA-A
*
43319231 TAAAAAATATATATTTGATTAA
1 -AAATAATATATATTTGATTAA
43319253 AAATAATATATATTTGATTAA
1 AAATAATATATATTTGATTAA
43319274 AAATAA
1 AAATAA
43319280 AAAATATATA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
21 26 0.59
22 1 0.02
23 5 0.11
24 12 0.27
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (21 bp):
AAATAATATATATTTGATTAA
Found at i:43319286 original size:21 final size:21
Alignment explanation
Indices: 43319241--43319286 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
43319231 TAAAAAATAT
* *
43319241 ATATTTGATTAAAAATAATAT
1 ATATTTGATTAAAAATAAAAA
43319262 ATATTTGATTAAAAATAAAAA
1 ATATTTGATTAAAAATAAAAA
43319283 ATAT
1 ATAT
43319287 ATATTAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (21 bp):
ATATTTGATTAAAAATAAAAA
Found at i:43319300 original size:21 final size:22
Alignment explanation
Indices: 43319204--43319300 Score: 74
Period size: 24 Copynumber: 4.3 Consensus size: 22
43319194 GGCCCGACCC
* *
43319204 ATATTAAATATATATATTTAATAT
1 ATATAAAAAATATATATTT-A-AT
*
43319228 ATATAAAAAATATATATTTGAT
1 ATATAAAAAATATATATTTAAT
*
43319250 -TA-AAAATAATATATATTTGATTAA
1 ATATAAAA-AATATATATTT-A--AT
*
43319274 AAATAAAAAATATATA-TTAAT
1 ATATAAAAAATATATATTTAAT
43319295 ATATAA
1 ATATAA
43319301 TTCTAGTGTC
Statistics
Matches: 59, Mismatches: 8, Indels: 15
0.72 0.10 0.18
Matches are distributed among these distances:
20 4 0.07
21 19 0.32
22 2 0.03
23 1 0.02
24 20 0.34
25 9 0.15
26 4 0.07
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (22 bp):
ATATAAAAAATATATATTTAAT
Found at i:43319482 original size:31 final size:32
Alignment explanation
Indices: 43319420--43319482 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
43319410 AAATGTTTAG
** *
43319420 AATGAACTTGAACAAATGGTTGTCCAGATTCA
1 AATGAACTTGAACAAATCATTGTCCAAATTCA
*
43319452 AATGAACTTGGAC-AATCATTGTCCAAATTCA
1 AATGAACTTGAACAAATCATTGTCCAAATTCA
43319483 TTCTCTATGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
31 15 0.56
32 12 0.44
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (32 bp):
AATGAACTTGAACAAATCATTGTCCAAATTCA
Found at i:43327802 original size:28 final size:28
Alignment explanation
Indices: 43327762--43327817 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
43327752 GATTGCAACT
43327762 TCTTTTAGTTAAGTAATCAAAATGAAAA
1 TCTTTTAGTTAAGTAATCAAAATGAAAA
43327790 TCTTTTAGTTAAGTAATCAAAATGAAAA
1 TCTTTTAGTTAAGTAATCAAAATGAAAA
43327818 CTTACCCATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.46, C:0.07, G:0.11, T:0.36
Consensus pattern (28 bp):
TCTTTTAGTTAAGTAATCAAAATGAAAA
Found at i:43328444 original size:21 final size:22
Alignment explanation
Indices: 43328390--43328446 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
43328380 TTAAAAATAT
*
43328390 TTTTTGTATTAATATCTAAATAA
1 TTTTT-TATTAATATCTAAACAA
* *
43328413 TTTTATGTTAA-ATCTAAACAA
1 TTTTTTATTAATATCTAAACAA
43328434 TTTTTTATTAATA
1 TTTTTTATTAATA
43328447 AAAAGCAATT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
21 18 0.64
22 6 0.21
23 4 0.14
ACGTcount: A:0.39, C:0.05, G:0.04, T:0.53
Consensus pattern (22 bp):
TTTTTTATTAATATCTAAACAA
Found at i:43336844 original size:132 final size:131
Alignment explanation
Indices: 43336656--43337135 Score: 702
Period size: 132 Copynumber: 3.7 Consensus size: 131
43336646 AGATCTGCTT
* * * * * *
43336656 TCTTCGATCGATTCCACTGCCGACCAGAGAGATAGAATTACTGGCTTCAATATACTCCACTATAA
1 TCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTATAA
* * * * *
43336721 CCTCAGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTACTGCCTAGGGAGATAGGATATGT
66 CCTCAGGGAGGTAAAATCCGCCATCTT-GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
43336786 AA
130 AA
43336788 TCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTATAA
1 TCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTATAA
* *
43336853 CCTCAGGGAGGTAAAATCCGCCATCCTTAATCTGCTCCACTGCTGCTTAGGGAGATAAGATCTGT
66 CCTCAGGGAGGTAAAATCCGCCAT-CTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
43336918 AA
130 AA
* *
43336920 TCTTCTATCTATTCCACTGCTACCCAGGGAGATAGAATTACTGGCTTCAATGTACT-C-C----A
1 TCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTATAA
* * *
43336979 CCTCAGGGAGGTAAAATCCGCCATCTTTGATTTGCTCCACTATTGCTTAGGGAGATAAGATCTTT
66 CCTCAGGGAGGTAAAATCCGCCATC-TTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
43337044 AA
130 AA
* * *
43337046 TCTTCAATCTATTCCACTACTGCCTAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAA
1 TCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTATAA
43337111 CCTCAGGGAGGTAAAATCCGCCATC
66 CCTCAGGGAGGTAAAATCCGCCATC
43337136 AACCTGTTCC
Statistics
Matches: 316, Mismatches: 24, Indels: 16
0.89 0.07 0.04
Matches are distributed among these distances:
125 1 0.00
126 113 0.36
127 1 0.00
128 1 0.00
130 1 0.00
131 1 0.00
132 195 0.62
133 3 0.01
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (131 bp):
TCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTATAA
CCTCAGGGAGGTAAAATCCGCCATCTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTA
A
Found at i:43336860 original size:44 final size:44
Alignment explanation
Indices: 43336684--43336862 Score: 127
Period size: 44 Copynumber: 4.1 Consensus size: 44
43336674 GCCGACCAGA
*
43336684 GAGATAGAAT-TACTGGCTTCAATATACTCCACTATAACCTCAGG
1 GAGATAGAATCTACTGGCTTCAATCTACTCCACTAT-ACCTCAGG
* * * *** * *
43336728 GAGGTAAAATCTGCCATCTTCGATCTACTCCACTACTGCCT-AGG
1 GAGATAGAATCTACTGGCTTCAATCTACTCCACTA-TACCTCAGG
* * * * *
43336772 GAGATAGGATATGTAAT--CTTCAATCTATTCCACTGCTGCC-CAGG
1 GAGATA-GA-ATCTACTGGCTTCAATCTACTCCACT-ATACCTCAGG
*
43336816 GAGATAGAAT-TACTGGCTTCAATGTACTCCACTATAACCTCAGG
1 GAGATAGAATCTACTGGCTTCAATCTACTCCACTAT-ACCTCAGG
43336860 GAG
1 GAG
43336863 GTAAAATCCG
Statistics
Matches: 102, Mismatches: 23, Indels: 20
0.70 0.16 0.14
Matches are distributed among these distances:
41 3 0.03
42 3 0.03
43 19 0.19
44 51 0.50
45 22 0.22
46 4 0.04
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (44 bp):
GAGATAGAATCTACTGGCTTCAATCTACTCCACTATACCTCAGG
Found at i:43336949 original size:44 final size:44
Alignment explanation
Indices: 43336724--43336953 Score: 146
Period size: 44 Copynumber: 5.2 Consensus size: 44
43336714 ACTATAACCT
* * ** * *
43336724 CAGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTACTGCC
1 CAGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCTGCC
* * * *
43336768 TAGGGAGATAGGATATGTAATCTTCAATCTATTCCACTGCTGCC
1 CAGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCTGCC
* * * * *
43336812 CAGGGAGAT-AGA-AT-TACTGGCTTCAATGTACTCCACT-ATAACC
1 CAGGGAGATAAGATCTGTAAT--CTTCAATCTACTCCACTGCT-GCC
* * * ** * *
43336855 TCAGGGAGGTAAAATCCGCCATCCTT-AATCTGCTCCACTGCTGCT
1 -CAGGGAGATAAGATCTGTAAT-CTTCAATCTACTCCACTGCTGCC
* * * *
43336900 TAGGGAGATAAGATCTGTAATCTTCTATCTATTCCACTGCTACC
1 CAGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCTGCC
43336944 CAGGGAGATA
1 CAGGGAGATA
43336954 GAATTACTGG
Statistics
Matches: 135, Mismatches: 42, Indels: 18
0.69 0.22 0.09
Matches are distributed among these distances:
41 3 0.02
42 3 0.02
43 22 0.16
44 88 0.65
45 14 0.10
46 4 0.03
47 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (44 bp):
CAGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCTGCC
Found at i:43337114 original size:258 final size:261
Alignment explanation
Indices: 43336656--43337135 Score: 743
Period size: 258 Copynumber: 1.8 Consensus size: 261
43336646 AGATCTGCTT
43336656 TCTTCGATCGATTCCACTGCCGACCAGAGAGATAGAATTACTGGCTTCAATATACTCCACTATAA
1 TCTTCGATCGATTCCACTGCCGACCAGAGAGATAGAATTACTGGCTTCAATATACTCCAC---AA
* *
43336721 CCTCAGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTACTGCCTAGGGAGATAGGATATGT
63 CCTCAGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGCCTAGGGAGATAAGATATGT
*
43336786 AATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTAT
128 AATCTTCAATCTATTCCACTACTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTAT
43336851 AACCTCAGGGAGGTAAAATCCGCCATCCTTAATCTGCTCCACTGCTGCTTAGGGAGATAAGATCT
193 AACCTCAGGGAGGTAAAATCCGCCATCCTTAATCTGCTCCACTGCTGCTTAGGGAGATAAGATCT
43336916 GTAA
258 GTAA
* * * * *
43336920 TCTTCTATCTATTCCACTG-CTACCCAGGGAGATAGAATTACTGGCTTCAATGTACT-C-C-ACC
1 TCTTCGATCGATTCCACTGCCGA-CCAGAGAGATAGAATTACTGGCTTCAATATACTCCACAACC
* * * * * * *
43336981 TCAGGGAGGTAAAATCCGCCATCTTTGATTTGCTCCACTATTGCTTAGGGAGATAAGATCTTTAA
65 TCAGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGCCTAGGGAGATAAGATATGTAA
* *
43337046 TCTTCAATCTATTCCACTACTGCCTAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAA
130 TCTTCAATCTATTCCACTACTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTATAA
43337111 CCTCAGGGAGGTAAAATCCGCCATC
195 CCTCAGGGAGGTAAAATCCGCCATC
43337136 AACCTGTTCC
Statistics
Matches: 198, Mismatches: 17, Indels: 8
0.89 0.08 0.04
Matches are distributed among these distances:
258 146 0.74
262 1 0.01
263 3 0.02
264 48 0.24
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (261 bp):
TCTTCGATCGATTCCACTGCCGACCAGAGAGATAGAATTACTGGCTTCAATATACTCCACAACCT
CAGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGCCTAGGGAGATAAGATATGTAAT
CTTCAATCTATTCCACTACTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTATAAC
CTCAGGGAGGTAAAATCCGCCATCCTTAATCTGCTCCACTGCTGCTTAGGGAGATAAGATCTGTA
A
Found at i:43337947 original size:13 final size:13
Alignment explanation
Indices: 43337929--43337953 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43337919 AAATTGTCGA
43337929 GGATAACAAAGAT
1 GGATAACAAAGAT
43337942 GGATAACAAAGA
1 GGATAACAAAGA
43337954 AATTAATTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.08, G:0.24, T:0.12
Consensus pattern (13 bp):
GGATAACAAAGAT
Found at i:43339325 original size:21 final size:21
Alignment explanation
Indices: 43339299--43339340 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
43339289 AATTTGGCAG
43339299 AAAAAATC-TGAAAGAATGAAA
1 AAAAAATCGT-AAAGAATGAAA
43339320 AAAAAATCGTAAAGAATGAAA
1 AAAAAATCGTAAAGAATGAAA
43339341 GAACATTTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.67, C:0.05, G:0.14, T:0.14
Consensus pattern (21 bp):
AAAAAATCGTAAAGAATGAAA
Found at i:43341246 original size:13 final size:13
Alignment explanation
Indices: 43341228--43341253 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
43341218 TGTTCAATTT
43341228 TTTACTAGAAAAC
1 TTTACTAGAAAAC
43341241 TTTACTAGAAAAC
1 TTTACTAGAAAAC
43341254 AAATCTCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
TTTACTAGAAAAC
Found at i:43345719 original size:23 final size:23
Alignment explanation
Indices: 43345693--43345738 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
43345683 GTTGGTCCTT
43345693 AGAGGACTTATCCACATTAGATA
1 AGAGGACTTATCCACATTAGATA
*
43345716 AGAGGACTTATCCACGTTAGATA
1 AGAGGACTTATCCACATTAGATA
43345739 GTCCCAGCGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (23 bp):
AGAGGACTTATCCACATTAGATA
Found at i:43346338 original size:35 final size:34
Alignment explanation
Indices: 43346286--43346373 Score: 106
Period size: 35 Copynumber: 2.5 Consensus size: 34
43346276 AAGAGCATAA
* * *
43346286 ATACAGTTTACACGGTGTCGCACC-AAAGGACTTTT
1 ATACCGTTTACATGGTGTCGC-CCGAAA-GACTTGT
43346321 ATACCGTTTACATGGTGTCGCCCTGAAAGACTTGT
1 ATACCGTTTACATGGTGTCGCCC-GAAAGACTTGT
*
43346356 ATATCGTTTACATGGTGT
1 ATACCGTTTACATGGTGT
43346374 TACCTCGAAG
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
34 2 0.04
35 42 0.89
36 3 0.06
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (34 bp):
ATACCGTTTACATGGTGTCGCCCGAAAGACTTGT
Found at i:43346999 original size:15 final size:15
Alignment explanation
Indices: 43346979--43347010 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
43346969 ATGAATATAG
43346979 TAAGATTAAGAAGCT
1 TAAGATTAAGAAGCT
43346994 TAAGATTAAGAAGCT
1 TAAGATTAAGAAGCT
43347009 TA
1 TA
43347011 CTAGTTTACT
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:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (15 bp):
TAAGATTAAGAAGCT
Found at i:43356985 original size:20 final size:20
Alignment explanation
Indices: 43356952--43356990 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
43356942 ATTATTTTGG
43356952 AATTTTATACAAAACCATTA
1 AATTTTATACAAAACCATTA
*
43356972 AATTTATATA-AAAATCATT
1 AATTT-TATACAAAACCATT
43356991 GCCATCCTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.38
Consensus pattern (20 bp):
AATTTTATACAAAACCATTA
Found at i:43363547 original size:40 final size:40
Alignment explanation
Indices: 43363414--43363595 Score: 206
Period size: 40 Copynumber: 4.6 Consensus size: 40
43363404 AAATCACGTA
* * ** ** *
43363414 CCTTCGGGATTTAA-CCGGATATAACTCCTCGTTCAAATG
1 CCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATG
* * * * ** *
43363453 TCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATG
1 CCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATG
*
43363492 CCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATG
*
43363532 CCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATG
43363572 CCTTCGGGACTTAACCCGGATTTA
1 CCTTCGGGACTTAACCCGGATTTA
43363596 GTATCTCGCA
Statistics
Matches: 120, Mismatches: 21, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 43 0.36
40 77 0.64
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATG
Done.