Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 209 of 444
Found at i:58293769 original size:8 final size:8
Alignment explanation
Indices: 58293756--58293785 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
58293746 AATTTTGATG
58293756 ATGTTTAT
1 ATGTTTAT
58293764 ATGTTTAT
1 ATGTTTAT
58293772 ATGTTTAT
1 ATGTTTAT
58293780 AATGTT
1 -ATGTT
58293786 AATTTTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 16 0.76
9 5 0.24
ACGTcount: A:0.27, C:0.00, G:0.13, T:0.60
Consensus pattern (8 bp):
ATGTTTAT
Found at i:58296613 original size:27 final size:26
Alignment explanation
Indices: 58296572--58296654 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
58296562 GGAAGTATTT
*
58296572 TGGTGGCTCTACCACAAATATCTGTTC
1 TGGTGGCTCTGCCAC-AATATCTGTTC
*
58296599 TGGTGGCTCTGCCACAATATTTGTATC
1 TGGTGGCTCTGCCACAATATCTGT-TC
* *
58296626 TGGTGACTCTGTCACAATATCTGTTC
1 TGGTGGCTCTGCCACAATATCTGTTC
58296652 TGG
1 TGG
58296655 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 13 0.26
27 37 0.74
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (26 bp):
TGGTGGCTCTGCCACAATATCTGTTC
Found at i:58304407 original size:27 final size:27
Alignment explanation
Indices: 58304369--58304444 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 27
58304359 AAGTATTCTA
58304369 GTGGCTCTGCCACAAATATCTGTA-CCG
1 GTGGCTCTGCCAC-AATATCTGTATCCG
*
58304396 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTATCCG
* * *
58304423 TTGACTCTGTCACAATATCTGT
1 GTGGCTCTGCCACAATATCTGT
58304445 TCTGGCAGCC
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 10 0.23
27 34 0.77
ACGTcount: A:0.21, C:0.26, G:0.20, T:0.33
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTATCCG
Found at i:58310302 original size:31 final size:30
Alignment explanation
Indices: 58310264--58310354 Score: 78
Period size: 31 Copynumber: 3.0 Consensus size: 30
58310254 AATTCTTTAA
58310264 ATGTATACAATTGAATCAAAATCAAAGTTTC
1 ATGTATACAATTGAA-CAAAATCAAAGTTTC
* *
58310295 ATGTATAC-ATATGAACCACAATTC-AAGTTTT
1 ATGTATACAAT-TGAA-CA-AAATCAAAGTTTC
* * * *
58310326 ATGTGTATAATTGTACCAAATCAAAGTTT
1 ATGTATACAATTGAACAAAATCAAAGTTT
58310355 ACGTATCAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
29 4 0.08
30 9 0.19
31 29 0.60
32 6 0.12
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.35
Consensus pattern (30 bp):
ATGTATACAATTGAACAAAATCAAAGTTTC
Found at i:58312176 original size:295 final size:298
Alignment explanation
Indices: 58311640--58312316 Score: 795
Period size: 295 Copynumber: 2.3 Consensus size: 298
58311630 ACAACAAAGC
* * *
58311640 CACCAACTTGGTTAGGAAAATTATAGG-CATACCCTTCCGTAATTAAAATAAATTAT-TTCATCC
1 CACCAACTCGGTTAGGAAAATTA-AGGACATACCCTTCCGTAATTAAAATAAGTTATATT-ATTC
* * *
58311703 AAGGGTACTTTAGT-TTTTTTTTATTTAAAAGAATAATATAAATAAGCATATGGTGGTATTTGGA
64 AAGGGTATTTTAGTCTTTTTTTTA--TAAAACAATAATATAAAT-AGCATATGGTGGTATTTGAA
** * *
58311767 CCCAAACTAATTGTATTAGTAAAACCTTTAATTTACCACTCAAATAACATGTTATTTTAATATAT
126 CCCAAACTAATTACATTAATAAAACCTTTAATTTACCACTCAAATAAAATGTTATTTTAATATAT
* * * * *
58311832 TTAAACATTTTAATTTTATTATGCACACTTTATCACTTTCATCATTTGTATATCTA-TCTATAGT
191 TTAAACATTTTAATTTTATTATACACACTTTATCACTTACATCATTTGTATATATACACT-TACT
58311896 ATTATTTAAGCTCCTT-ACTGAGTTGATGTCACCCTCAATCGAGT
255 ATTATTTAAGCT-CTTGACTGAGTTGATGTCACCCTCAATCGAGT
* * *
58311940 TACCAACTCGGTTAGGAAAATTAAGGACATACCATTCCTTAATTAAAATAAGTTATATTATTCAA
1 CACCAACTCGGTTAGGAAAATTAAGGACATACCCTTCCGTAATTAAAATAAGTTATATTATTCAA
*
58312005 GGGTATTTTAGTCTTTTTTTTA-AAAACCAATAA-A-AAAT-GCATATTGTGAG-ATTTGAACCC
66 GGGTATTTTAGTCTTTTTTTTATAAAA-CAATAATATAAATAGCATATGGTG-GTATTTGAACCC
* ** * * *
58312065 AAATTAATTACATTAATAAAATTTTTAATTTACCACTCAACTAAAACT-TTATTTTGATATTTTT
129 AAACTAATTACATTAATAAAACCTTTAATTTACCACTCAAATAAAA-TGTTATTTTAATATATTT
*** * *
58312129 ATGTATTTTAATTTTATTATATACACTTTATTACTTACATCATTTGTATATATACACTTACTATT
193 AAACATTTTAATTTTATTATACACACTTTATCACTTACATCATTTGTATATATACACTTACTATT
* * * *
58312194 ATTTAAGCTCTTGACTGAGTTGGTGTCACCTTCAATGGGGT
258 ATTTAAGCTCTTGACTGAGTTGATGTCACCCTCAATCGAGT
** * * * *
58312235 CACCAACTCGGTTA-GACAAATTACCGATATACCCTTCCGTAGTAAAAAAAAG-TATATTATTCA
1 CACCAACTCGGTTAGGA-AAATTAAGGACATACCCTTCCGTAATTAAAATAAGTTATATTATTCA
*
58312298 AGGTTATTTTAGTCTTTTT
65 AGGGTATTTTAGTCTTTTT
58312317 ATTTTTTATT
Statistics
Matches: 324, Mismatches: 44, Indels: 24
0.83 0.11 0.06
Matches are distributed among these distances:
294 34 0.10
295 195 0.60
296 4 0.01
297 4 0.01
298 5 0.02
299 8 0.02
300 63 0.19
301 11 0.03
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.40
Consensus pattern (298 bp):
CACCAACTCGGTTAGGAAAATTAAGGACATACCCTTCCGTAATTAAAATAAGTTATATTATTCAA
GGGTATTTTAGTCTTTTTTTTATAAAACAATAATATAAATAGCATATGGTGGTATTTGAACCCAA
ACTAATTACATTAATAAAACCTTTAATTTACCACTCAAATAAAATGTTATTTTAATATATTTAAA
CATTTTAATTTTATTATACACACTTTATCACTTACATCATTTGTATATATACACTTACTATTATT
TAAGCTCTTGACTGAGTTGATGTCACCCTCAATCGAGT
Found at i:58314729 original size:15 final size:16
Alignment explanation
Indices: 58314704--58314733 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
58314694 TCTTTTTCTT
58314704 TTTCAATTTCTTTTTG
1 TTTCAATTTCTTTTTG
58314720 TTTC-ATTTCTTTTT
1 TTTCAATTTCTTTTT
58314734 TTCCTTTCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.10, C:0.13, G:0.03, T:0.73
Consensus pattern (16 bp):
TTTCAATTTCTTTTTG
Found at i:58315807 original size:11 final size:11
Alignment explanation
Indices: 58315791--58315818 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
58315781 CAATGGATAC
58315791 TGAATTTTTTT
1 TGAATTTTTTT
58315802 TGAATTTTTTT
1 TGAATTTTTTT
58315813 TGAATT
1 TGAATT
58315819 ACAATATCGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.21, C:0.00, G:0.11, T:0.68
Consensus pattern (11 bp):
TGAATTTTTTT
Found at i:58316925 original size:40 final size:40
Alignment explanation
Indices: 58316870--58316950 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
58316860 ACCAAAAACG
58316870 TTCCAAATATGCACCAGCAATTAAGTGATCAAATGCACAC
1 TTCCAAATATGCACCAGCAATTAAGTGATCAAATGCACAC
58316910 TTCCAAATATGCACCAGCAATTAAGTGATCAAATGCACAC
1 TTCCAAATATGCACCAGCAATTAAGTGATCAAATGCACAC
58316950 T
1 T
58316951 CTTTTATGCC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.40, C:0.25, G:0.12, T:0.23
Consensus pattern (40 bp):
TTCCAAATATGCACCAGCAATTAAGTGATCAAATGCACAC
Found at i:58319910 original size:21 final size:21
Alignment explanation
Indices: 58319886--58319925 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
58319876 GCTCTCAAGA
*
58319886 AACTAGATTCTAAAGTCTCCC
1 AACTAGATTCAAAAGTCTCCC
*
58319907 AACTGGATTCAAAAGTCTC
1 AACTAGATTCAAAAGTCTC
58319926 AACGGTGGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.25, G:0.12, T:0.28
Consensus pattern (21 bp):
AACTAGATTCAAAAGTCTCCC
Found at i:58326380 original size:38 final size:38
Alignment explanation
Indices: 58326319--58326470 Score: 139
Period size: 38 Copynumber: 3.9 Consensus size: 38
58326309 ATTTGATGTG
*
58326319 TATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTGG-AATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCT-TCATGCTGGTAA-TA
*
58326359 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAATA
* * *
58326397 TATCCGGGTTAAATCCCGCAGGCCT-AGTGTTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCA-TGCTGGTAATA
* * * *
58326435 TATCTGAGTTTAAAGTCCCGTAGGCTTCGTGCTGGT
1 TATCCG-GGTTAAA-TCCCGCAGGCTTCATGCTGGT
58326471 GTTATGTTTG
Statistics
Matches: 94, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
37 1 0.01
38 56 0.60
39 13 0.14
40 24 0.26
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAATA
Found at i:58326460 original size:78 final size:78
Alignment explanation
Indices: 58326319--58326470 Score: 193
Period size: 78 Copynumber: 1.9 Consensus size: 78
58326309 ATTTGATGTG
58326319 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTT
1 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTT
58326384 CGTGCTGGTAATA
66 CGTGCTGGTAATA
* * * * * * *
58326397 TATCCGGG-TTAAA-TCCCGCAGGCCTA-GTGTTGGTATTATATCTGAGTTTAAAGTCCCGTAGG
1 TATCCGGGCTTAAAGACCCGCAGG-CTATATGCTGGAATTATATCCG-GGTTAAA-TCCCGCAGG
58326459 CTTCGTGCTGGT
63 CTTCGTGCTGGT
58326471 GTTATGTTTG
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
76 22 0.34
77 14 0.22
78 28 0.44
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (78 bp):
TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTT
CGTGCTGGTAATA
Found at i:58326604 original size:2 final size:2
Alignment explanation
Indices: 58326597--58326631 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
58326587 CAGGTATGTG
58326597 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
58326632 GTGAGATTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:58330817 original size:30 final size:30
Alignment explanation
Indices: 58330775--58330832 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 30
58330765 AGAATAACTC
58330775 TTATTCGAAACAACCTCTACATTGATAACA
1 TTATTCGAAACAACCTCTACATTGATAACA
58330805 TTATT-GATAACAACCTCTACATTGATAA
1 TTATTCGA-AACAACCTCTACATTGATAA
58330833 AATGTTTCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 2 0.07
30 25 0.93
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.33
Consensus pattern (30 bp):
TTATTCGAAACAACCTCTACATTGATAACA
Found at i:58330830 original size:18 final size:18
Alignment explanation
Indices: 58330783--58330832 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
58330773 TCTTATTCGA
58330783 AACAACCTCTACATTGAT
1 AACAACCTCTACATTGAT
58330801 AAC-A--T-T--ATTGAT
1 AACAACCTCTACATTGAT
58330813 AACAACCTCTACATTGAT
1 AACAACCTCTACATTGAT
58330831 AA
1 AA
58330833 AATGTTTCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 12
0.68 0.00 0.32
Matches are distributed among these distances:
12 9 0.35
13 1 0.04
14 1 0.04
15 2 0.08
16 1 0.04
17 1 0.04
18 11 0.42
ACGTcount: A:0.42, C:0.22, G:0.06, T:0.30
Consensus pattern (18 bp):
AACAACCTCTACATTGAT
Found at i:58336464 original size:25 final size:25
Alignment explanation
Indices: 58336435--58336484 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
58336425 TGTGGTACAT
58336435 AGAAAAGGCATTGATTTTAATCCAA
1 AGAAAAGGCATTGATTTTAATCCAA
58336460 AGAAAAGGCATTGATTTTAATCCAA
1 AGAAAAGGCATTGATTTTAATCCAA
58336485 CAAAGGTAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.28
Consensus pattern (25 bp):
AGAAAAGGCATTGATTTTAATCCAA
Found at i:58341624 original size:53 final size:53
Alignment explanation
Indices: 58341442--58341648 Score: 191
Period size: 53 Copynumber: 3.8 Consensus size: 53
58341432 ATTAGGGTTT
** * * * * * *
58341442 AAGGATACCAAATAAGACCATTCCAAGGCATGGCATTGGTAAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGACAATGGTAAG-TTCATAAGGC
* * * * * * * *
58341496 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTATGATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGACAATGGT-AAGT-TCATAAGGC
* * *
58341551 AAAGATCCCATGTAAGACCATGCCAAGACATGACAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGACAATGGTAAGTTCATAAGGC
*
58341604 AAGGATACCATGTAAGACCATGTCAAGACATGGA-AATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACAT-GACAATGGTAAGTT
58341649 TAATAAGAAA
Statistics
Matches: 124, Mismatches: 26, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
53 46 0.37
54 37 0.30
55 41 0.33
ACGTcount: A:0.39, C:0.17, G:0.23, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGACAATGGTAAGTTCATAAGGC
Found at i:58345305 original size:55 final size:54
Alignment explanation
Indices: 58345147--58345355 Score: 210
Period size: 55 Copynumber: 3.9 Consensus size: 54
58345137 ATCCTTTTGA
* * *
58345147 AACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTACCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTACCTTATAG
* * * * *
58345200 AACTAACCAATGTCATACCTTGGCATGGTCTTACATAGG-A-CCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACAT-GGTATCC-TTACCTTATAG
* * * *
58345254 TAACTTATCAATGCCATGTCTTGACATGGTTTTACATGGTATCCTTACCTTAGA-
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTACCTTATAG
* * *
58345308 AACCTTACCAATTGGCATGCCTTGGCATGGTTTTACATGGTATCCTTA
1 AA-CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTTA
58345356 AACACTAATG
Statistics
Matches: 127, Mismatches: 21, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
52 2 0.02
53 40 0.31
54 12 0.09
55 71 0.56
56 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.35
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTACCTTATAG
Found at i:58346851 original size:29 final size:28
Alignment explanation
Indices: 58346794--58346879 Score: 118
Period size: 28 Copynumber: 3.0 Consensus size: 28
58346784 TACCTGTATC
* *
58346794 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
*
58346822 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCC-AATCACATTCATA
* *
58346851 TGGCTCATTAGGCCCAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
58346879 T
1 T
58346880 TCATGCTCAC
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
28 26 0.51
29 25 0.49
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:58353611 original size:53 final size:53
Alignment explanation
Indices: 58353429--58353635 Score: 173
Period size: 53 Copynumber: 3.8 Consensus size: 53
58353419 ATTAGGATTT
* * * * * * * *
58353429 AAGGATACCAAGTAAAACCATGCCAAGGCATGCCATTGGTAAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATAGTAAG-TTCATAAGGC
* * * * * *
58353483 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAACTATGATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATAG-T-AAGT-TCATAAGGC
** * * *
58353538 AAATATCCCATGTAAGACCATGCCAAGGCATGGCAATAGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATAGTAAGTTCATAAGGC
* * *
58353591 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATAGTAAGTT
58353636 TAAAAAGAAA
Statistics
Matches: 118, Mismatches: 31, Indels: 9
0.75 0.20 0.06
Matches are distributed among these distances:
53 47 0.40
54 31 0.26
55 37 0.31
56 3 0.03
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATAGTAAGTTCATAAGGC
Found at i:58356650 original size:35 final size:34
Alignment explanation
Indices: 58356588--58356674 Score: 86
Period size: 35 Copynumber: 2.5 Consensus size: 34
58356578 ACGACTTTTT
* *
58356588 TTTTTCAAGAAATACTATGCTAGATTGTTCCCAAA
1 TTTTTAAAGAAACACTATGCTAGATTGTTCCC-AA
* ** *
58356623 TTTTTAAAGAAACACTATCGTTA-ATTGTTTTCAC
1 TTTTTAAAGAAACACTAT-GCTAGATTGTTCCCAA
58356657 TTTTTAAAGAAAACACTA
1 TTTTTAAAG-AAACACTA
58356675 AAAAAGGTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
34 10 0.23
35 31 0.70
36 3 0.07
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.39
Consensus pattern (34 bp):
TTTTTAAAGAAACACTATGCTAGATTGTTCCCAA
Found at i:58357015 original size:3 final size:3
Alignment explanation
Indices: 58357007--58357049 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
58356997 ACTCTTCCAA
* * * *
58357007 ATT ATT ATT ATT ACT AAT AAT ATT ATT AAT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
58357050 AATATAGCTT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (3 bp):
ATT
Found at i:58358958 original size:33 final size:33
Alignment explanation
Indices: 58358921--58358984 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
58358911 GTTTCAATTA
* *
58358921 GGATTTAGCCTGGACTGGTAATCCTAATTAACT
1 GGATTTAGCCTAGACTGGTAATCCAAATTAACT
58358954 GGATTTAGCCTAGACTGGTAATCCAAATTAA
1 GGATTTAGCCTAGACTGGTAATCCAAATTAA
58358985 ACTCTATAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.31
Consensus pattern (33 bp):
GGATTTAGCCTAGACTGGTAATCCAAATTAACT
Found at i:58359627 original size:17 final size:16
Alignment explanation
Indices: 58359601--58359632 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
58359591 AAAAGTTGAT
58359601 TGCCATTTGTTATGTG
1 TGCCATTTGTTATGTG
58359617 TGCCTATTTGTTATGT
1 TGCC-ATTTGTTATGT
58359633 CTCTTTACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.12, C:0.12, G:0.22, T:0.53
Consensus pattern (16 bp):
TGCCATTTGTTATGTG
Found at i:58366803 original size:15 final size:15
Alignment explanation
Indices: 58366783--58366812 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
58366773 AGAGAAAAAT
58366783 GGATGTAGAGGTGAG
1 GGATGTAGAGGTGAG
58366798 GGATGTAGAGGTGAG
1 GGATGTAGAGGTGAG
58366813 AGATTCGAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.53, T:0.20
Consensus pattern (15 bp):
GGATGTAGAGGTGAG
Found at i:58378938 original size:44 final size:44
Alignment explanation
Indices: 58378870--58378956 Score: 165
Period size: 44 Copynumber: 2.0 Consensus size: 44
58378860 ACAAACTTTG
58378870 TGAGATAAGCAATTGTATGCGAAGTTTAGCAAATGTGAATTTTT
1 TGAGATAAGCAATTGTATGCGAAGTTTAGCAAATGTGAATTTTT
*
58378914 TGAGATAAGCAATTGTATGTGAAGTTTAGCAAATGTGAATTTT
1 TGAGATAAGCAATTGTATGCGAAGTTTAGCAAATGTGAATTTT
58378957 GGTTGAGAAG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.34, C:0.06, G:0.23, T:0.37
Consensus pattern (44 bp):
TGAGATAAGCAATTGTATGCGAAGTTTAGCAAATGTGAATTTTT
Found at i:58380673 original size:21 final size:21
Alignment explanation
Indices: 58380647--58380688 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
58380637 GTCTGAAAGT
*
58380647 AGCTTCTAATTGTCAAAAATC
1 AGCTTCTAATCGTCAAAAATC
* *
58380668 AGCTTCTGATCGTCAGAAATC
1 AGCTTCTAATCGTCAAAAATC
58380689 TTACGCAGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.31
Consensus pattern (21 bp):
AGCTTCTAATCGTCAAAAATC
Found at i:58382254 original size:39 final size:41
Alignment explanation
Indices: 58382192--58382284 Score: 104
Period size: 40 Copynumber: 2.3 Consensus size: 41
58382182 CTATGTTCGA
* *
58382192 CACTAAGTGTGTG-GTTCGAAATAGCTT-GGTTACA-AATGG
1 CACTAAGTGTGCGAGTTCGAAATAGCTTCGGCTACATAA-GG
* * *
58382231 CACTAAGTGTGCGAGTT-GGAATAGCTTCGGCTATATGAGG
1 CACTAAGTGTGCGAGTTCGAAATAGCTTCGGCTACATAAGG
58382271 CACTAAGTGTGCGA
1 CACTAAGTGTGCGA
58382285 TACCAAGATA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
39 21 0.46
40 24 0.52
41 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.28
Consensus pattern (41 bp):
CACTAAGTGTGCGAGTTCGAAATAGCTTCGGCTACATAAGG
Found at i:58390347 original size:42 final size:42
Alignment explanation
Indices: 58390269--58390349 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
58390259 GTACAGGGGA
**
58390269 CACACGGCTAGACAACATGCCCATGGGGCTGGCTGTGTGTCT
1 CACACGGCTAGACAACATGCCCATGGGGCTACCTGTGTGTCT
* * *
58390311 CACACGGCCTAGAC-ATATGCCCATGTGTCTACCTGTGTG
1 CACACGG-CTAGACAACATGCCCATGGGGCTACCTGTGTG
58390350 GACAATATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
42 27 0.82
43 6 0.18
ACGTcount: A:0.20, C:0.30, G:0.27, T:0.23
Consensus pattern (42 bp):
CACACGGCTAGACAACATGCCCATGGGGCTACCTGTGTGTCT
Found at i:58392252 original size:40 final size:38
Alignment explanation
Indices: 58392203--58392310 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
58392193 ATCACGATTT
*
58392203 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
58392243 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
58392283 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
58392311 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:58400386 original size:80 final size:80
Alignment explanation
Indices: 58400302--58400450 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
58400292 TATGGTAACC
* * * *
58400302 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
58400366 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
58400382 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
58400447 CCGG
66 CCGG
58400451 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:58400392 original size:40 final size:38
Alignment explanation
Indices: 58400343--58400450 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
58400333 ATCACGATTT
*
58400343 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
58400383 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
58400423 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
58400451 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:58402594 original size:21 final size:21
Alignment explanation
Indices: 58402568--58402611 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
58402558 ATGCCGATGC
*
58402568 CATGTCCCAAACATGGTCTTA
1 CATGTCCCAAACATAGTCTTA
* *
58402589 CATGTCCTAGACATAGTCTTA
1 CATGTCCCAAACATAGTCTTA
58402610 CA
1 CA
58402612 CTAACTCTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (21 bp):
CATGTCCCAAACATAGTCTTA
Found at i:58402734 original size:46 final size:49
Alignment explanation
Indices: 58402589--58402799 Score: 176
Period size: 46 Copynumber: 4.5 Consensus size: 49
58402579 CATGGTCTTA
* * * * * *
58402589 CATGTCCTAGACATAGTCTTACACTAACTCTTACATAT-TAGTGCTGAAGC
1 CATGTCCCAGACATGGTCTTACACT-AGTCTTACATCTCGAG-GCTGATGC
* * *
58402639 CATGTCCCAGACATGGTCTTACACTA-AC--ACATCTTGTA-GCCGATG-
1 CATGTCCCAGACATGGTCTTACACTAGTCTTACATCTCG-AGGCTGATGC
58402684 CATGTCCCAGACAT-GTCTTACACTAGT-TTACATCTCGAGGCTGATG-
1 CATGTCCCAGACATGGTCTTACACTAGTCTTACATCTCGAGGCTGATGC
* * * *
58402730 CATGTCCCAAACAT-GTCTTACACTAGCTCTT--GTCTCAATGCTGATGC
1 CATGTCCCAGACATGGTCTTACACTAG-TCTTACATCTCGAGGCTGATGC
*
58402777 CATGTCCCAAACATGGTCTTACA
1 CATGTCCCAGACATGGTCTTACA
58402800 AGACACTAGC
Statistics
Matches: 137, Mismatches: 14, Indels: 22
0.79 0.08 0.13
Matches are distributed among these distances:
44 11 0.08
45 15 0.11
46 60 0.44
47 15 0.11
48 12 0.09
49 1 0.01
50 23 0.17
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (49 bp):
CATGTCCCAGACATGGTCTTACACTAGTCTTACATCTCGAGGCTGATGC
Found at i:58402855 original size:46 final size:46
Alignment explanation
Indices: 58402589--58402855 Score: 149
Period size: 46 Copynumber: 5.6 Consensus size: 46
58402579 CATGGTCTTA
* * * * *
58402589 CATGTCCTAGACATAGTCTTACACTAACTCTTACATATTAGT-GCTGAAG
1 CATGTCCCAAACAT-GTCTTACACTAGCTC-T-CATAAT-GTGGCTGATG
* * * * *
58402638 CCATGTCCCAGACATGGTCTTACACTAACACATC-T--TGTAGCCGATG
1 -CATGTCCCAAACAT-GTCTTACACTAGCTC-TCATAATGTGGCTGATG
* * * *
58402684 CATGTCCCAGACATGTCTTACACTAG-TTTACAT-CTCGAGGCTGATG
1 CATGTCCCAAACATGTCTTACACTAGCTCT-CATAAT-GTGGCTGATG
58402730 CATGTCCCAAACATGTCTTACACTAGCTCTTGTC-TCAA--T-GCTGATG
1 CATGTCCCAAACATGTCTTACACTAGCTC---TCAT-AATGTGGCTGATG
*
58402776 CCATGTCCCAAACATGGTCTTACAAGACACTAGCTCTCATAATGTGGTTGATG
1 -CATGTCCCAAACAT-GTCTT-----ACACTAGCTCTCATAATGTGGCTGATG
58402829 CATGTCCCAAACATGTCTTACACTAGC
1 CATGTCCCAAACATGTCTTACACTAGC
58402856 ACATAATTAA
Statistics
Matches: 178, Mismatches: 17, Indels: 48
0.73 0.07 0.20
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 12 0.07
45 17 0.10
46 53 0.30
47 15 0.08
48 7 0.04
49 2 0.01
50 33 0.19
51 6 0.03
52 15 0.08
53 16 0.09
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (46 bp):
CATGTCCCAAACATGTCTTACACTAGCTCTCATAATGTGGCTGATG
Found at i:58415944 original size:23 final size:23
Alignment explanation
Indices: 58415914--58415958 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
58415904 TTGCAAACTG
*
58415914 TTAAAGCCTTTATTGTCCTATAT
1 TTAAAGCCTTCATTGTCCTATAT
58415937 TTAAAGCCTTCATTGTCCTATA
1 TTAAAGCCTTCATTGTCCTATA
58415959 CTTGCAAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.27, C:0.20, G:0.09, T:0.44
Consensus pattern (23 bp):
TTAAAGCCTTCATTGTCCTATAT
Found at i:58418537 original size:17 final size:19
Alignment explanation
Indices: 58418506--58418542 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
58418496 GTTGTTAGCC
58418506 CGTGTGGGCCCACAC-GCT
1 CGTGTGGGCCCACACAGCT
*
58418524 CGTGT-GGCCTACACAGCT
1 CGTGTGGGCCCACACAGCT
58418542 C
1 C
58418543 AAAATGGCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.14, C:0.38, G:0.30, T:0.19
Consensus pattern (19 bp):
CGTGTGGGCCCACACAGCT
Found at i:58426485 original size:46 final size:46
Alignment explanation
Indices: 58426435--58426603 Score: 218
Period size: 46 Copynumber: 3.7 Consensus size: 46
58426425 GGTTGAGCAT
58426435 CGAACTCGTTGAGTTGAGTCCAAGTTCACTCATGGATGCAAATGTC
1 CGAACTCGTTGAGTTGAGTCCAAGTTCACTCATGGATGCAAATGTC
* * * * *
58426481 CGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCAAGTTCACTCATGGATGCAA--ATG--TC
58426528 CGAACTCGTTGAGTTGAGTCCAAGTTCACTCATGGATGCAAATGTC
1 CGAACTCGTTGAGTTGAGTCCAAGTTCACTCATGGATGCAAATGTC
**
58426574 CGAACTCGTTGAGTTGAGTCTGAGTTCACT
1 CGAACTCGTTGAGTTGAGTCCAAGTTCACT
58426604 TAGGGGCAGG
Statistics
Matches: 104, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 56 0.54
47 28 0.27
48 4 0.04
50 6 0.06
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCAAGTTCACTCATGGATGCAAATGTC
Found at i:58426599 original size:93 final size:92
Alignment explanation
Indices: 58426431--58426600 Score: 322
Period size: 93 Copynumber: 1.8 Consensus size: 92
58426421 GGATGGTTGA
58426431 GCATCGAACTCGTTGAGTTGAGTCCAAGTTCACTCATGGATGCAAATGTCCGAACTCGTTGAGTT
1 GCATCGAACTCGTTGAGTTGAGTCCAAGTTCACTCATGGATGCAAATGTCCGAACTCGTTGAGTT
58426496 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
58426523 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTCATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCAT-CGAACTCGTTGAGTTGAGTCCAAGTTCACTCATGGATGCAAATGTCCGAACTCGTTGAGT
*
58426588 TGAGTCTGAGTTC
65 TGAGTCCGAGTTC
58426601 ACTTAGGGGC
Statistics
Matches: 76, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
92 4 0.05
93 72 0.95
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (92 bp):
GCATCGAACTCGTTGAGTTGAGTCCAAGTTCACTCATGGATGCAAATGTCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:58431936 original size:40 final size:40
Alignment explanation
Indices: 58431881--58432090 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
58431871 AACATTGGAA
58431881 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
58431921 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
58431961 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
58432001 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
58432040 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
58432081 CTATATCCGG
1 ATATATCCGG
58432091 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:58440058 original size:40 final size:40
Alignment explanation
Indices: 58440003--58440212 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
58439993 AACATTGGAA
58440003 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
58440043 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
58440083 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
58440123 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
58440162 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
58440203 CTATATCCGG
1 ATATATCCGG
58440213 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:58446460 original size:29 final size:29
Alignment explanation
Indices: 58446427--58446558 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
58446417 GTGACGAGAT
58446427 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
58446456 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
58446485 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
58446514 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
58446543 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
58446559 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:58448509 original size:40 final size:39
Alignment explanation
Indices: 58448464--58448671 Score: 191
Period size: 40 Copynumber: 5.2 Consensus size: 39
58448454 CGGAATACAA
*
58448464 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
58448504 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGT
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
58448544 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * * * *
58448584 CCGGATTTAGTCACTAGCATAATTGCCTTCAGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
* * * * *
58448624 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
58448664 CCGGATAT
1 CCGGATAT
58448672 CATTTAATTG
Statistics
Matches: 138, Mismatches: 29, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
39 1 0.01
40 137 0.99
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.27
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:58448611 original size:80 final size:81
Alignment explanation
Indices: 58448464--58448669 Score: 229
Period size: 80 Copynumber: 2.6 Consensus size: 81
58448454 CGGAATACAA
* * * *
58448464 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
* **
58448528 GCCTTCGGGTATTAGT
66 GCCTTCAGGTATTAAC
* * *
58448544 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAG-TC-ACTAGCATAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGA-TTAGAACGACTAGCACAAA
*
58448607 TGCCTTCAGGTCTTAAC
65 TGCCTTCAGGTATTAAC
* * ** * *
58448624 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
58448670 ATCATTTAAT
Statistics
Matches: 107, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
79 1 0.01
80 102 0.95
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (81 bp):
CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCAGGTATTAAC
Found at i:58455854 original size:80 final size:81
Alignment explanation
Indices: 58455707--58455911 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 81
58455697 CGGAATACAA
* * * *
58455707 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
58455771 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
58455787 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAG-TC-ACTAGCATAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGA-TTAGAACGACTAGCACAAA
*
58455850 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
* * ** * *
58455867 CCGGATTTAA-TACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
58455912 ATCATTTAAT
Statistics
Matches: 108, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
79 28 0.26
80 75 0.69
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (81 bp):
CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:58455896 original size:39 final size:40
Alignment explanation
Indices: 58455723--58455911 Score: 211
Period size: 40 Copynumber: 4.8 Consensus size: 40
58455713 ATAACCACAT
* ** * *
58455723 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACTACTA
* * *
58455763 GCACAAATGCCTTCGGGTATTAGCCCGGATTTAACAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACTACTA
* *
58455803 GCACGAATGCCTTCGGGTCTTAGCCCGGATTT-AGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACT-ACTA
* * *
58455843 GCATAATTGCCTTCGGGTCTTAACCCGGATTTAA-TACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACTACTA
* * *
58455882 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
58455912 ATCATTTAAT
Statistics
Matches: 129, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 31 0.24
40 97 0.75
41 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.28
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACTACTA
Found at i:58459640 original size:40 final size:40
Alignment explanation
Indices: 58459595--58459724 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
58459585 CGGAATACAA
58459595 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
58459635 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
58459675 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
58459715 CCGGATATAA
1 CCGGATATAA
58459725 TTTCCAGCAA
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.04
40 75 0.96
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:58470821 original size:14 final size:15
Alignment explanation
Indices: 58470802--58470830 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
58470792 AGATGCATGG
58470802 TTTTC-TTTTTCTTT
1 TTTTCTTTTTTCTTT
58470816 TTTTCTTTTTTCTTT
1 TTTTCTTTTTTCTTT
58470831 ATGTTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (15 bp):
TTTTCTTTTTTCTTT
Found at i:58477104 original size:41 final size:43
Alignment explanation
Indices: 58477041--58477149 Score: 134
Period size: 41 Copynumber: 2.6 Consensus size: 43
58477031 CATGTTTTCA
* **
58477041 CATATCGATGTCTCTGTCCCAGACAGGGTCTTACA-CAAATCAT
1 CATATCGATGCCAATGTCCCAGACAGGGTCTTACATCAAATC-T
* **
58477084 -ATAT-GATGCCAATGTCCCAGACATGGTCTTACATGTAATCT
1 CATATCGATGCCAATGTCCCAGACAGGGTCTTACATCAAATCT
58477125 CATATCGATGCCAATGTCCCAGACA
1 CATATCGATGCCAATGTCCCAGACA
58477150 TTGTTTTACA
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
41 26 0.46
42 12 0.21
43 19 0.33
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.28
Consensus pattern (43 bp):
CATATCGATGCCAATGTCCCAGACAGGGTCTTACATCAAATCT
Found at i:58477147 original size:43 final size:43
Alignment explanation
Indices: 58477017--58477175 Score: 169
Period size: 43 Copynumber: 3.7 Consensus size: 43
58477007 CGCCATATCT
* *** * **
58477017 CAGATATGGTCTTACATGTTTTCACATATCGATGTCTCTGTCC
1 CAGACATGGTCTTACATGAAATCACATATCGATGCCAATGTCC
* * *
58477060 CAGACAGGGTCTTACA-CAAATCATATAT-GATGCCAATGTCC
1 CAGACATGGTCTTACATGAAATCACATATCGATGCCAATGTCC
* *
58477101 CAGACATGGTCTTACATGTAATCTCATATCGATGCCAATGTCC
1 CAGACATGGTCTTACATGAAATCACATATCGATGCCAATGTCC
* * *
58477144 CAGACATTGTTTTACATGAAATCACACATCGA
1 CAGACATGGTCTTACATGAAATCACATATCGA
58477176 AAATCCTAAT
Statistics
Matches: 94, Mismatches: 20, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
41 25 0.27
42 15 0.16
43 54 0.57
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.31
Consensus pattern (43 bp):
CAGACATGGTCTTACATGAAATCACATATCGATGCCAATGTCC
Found at i:58478877 original size:13 final size:14
Alignment explanation
Indices: 58478849--58478882 Score: 52
Period size: 13 Copynumber: 2.4 Consensus size: 14
58478839 AAGAGTATAA
58478849 TTAAAGGGTCAAAAT
1 TTAAA-GGTCAAAAT
58478864 TTAAAGGT-AAAAT
1 TTAAAGGTCAAAAT
58478877 TTAAAG
1 TTAAAG
58478883 ATGATAATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 11 0.58
14 3 0.16
15 5 0.26
ACGTcount: A:0.50, C:0.03, G:0.18, T:0.29
Consensus pattern (14 bp):
TTAAAGGTCAAAAT
Found at i:58478949 original size:9 final size:9
Alignment explanation
Indices: 58478935--58479057 Score: 85
Period size: 9 Copynumber: 14.0 Consensus size: 9
58478925 AACTTTGGAT
58478935 CATAACTTA
1 CATAACTTA
58478944 CATAACTTA
1 CATAACTTA
* *
58478953 TATAGCTTA
1 CATAACTTA
58478962 CATAACTTA
1 CATAACTTA
*
58478971 CTTAA--TA
1 CATAACTTA
* *
58478978 CGTAA-ATA
1 CATAACTTA
* * *
58478986 TATATCATA
1 CATAACTTA
58478995 TCATAACTTA
1 -CATAACTTA
58479005 CATAACTTA
1 CATAACTTA
58479014 CATAACTTA
1 CATAACTTA
*
58479023 CATAA-ATA
1 CATAACTTA
* * *
58479031 TATATCATA
1 CATAACTTA
58479040 TCATAACTTA
1 -CATAACTTA
58479050 CAT-ACTTA
1 CATAACTTA
58479058 ATTATACTTA
Statistics
Matches: 91, Mismatches: 18, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
7 6 0.07
8 14 0.15
9 59 0.65
10 12 0.13
ACGTcount: A:0.44, C:0.18, G:0.02, T:0.37
Consensus pattern (9 bp):
CATAACTTA
Found at i:58479067 original size:45 final size:45
Alignment explanation
Indices: 58478958--58479057 Score: 161
Period size: 45 Copynumber: 2.3 Consensus size: 45
58478948 ACTTATATAG
* *
58478958 CTTACATAACTTACTTAA--TACGTAAATATATATCATATCATAA
1 CTTACATAACTTACATAACTTACATAAATATATATCATATCATAA
58479001 CTTACATAACTTACATAACTTACATAAATATATATCATATCATAA
1 CTTACATAACTTACATAACTTACATAAATATATATCATATCATAA
58479046 CTTACAT-ACTTA
1 CTTACATAACTTA
58479058 ATTATACTTA
Statistics
Matches: 53, Mismatches: 2, Indels: 3
0.91 0.03 0.05
Matches are distributed among these distances:
43 17 0.32
44 5 0.09
45 31 0.58
ACGTcount: A:0.44, C:0.18, G:0.01, T:0.37
Consensus pattern (45 bp):
CTTACATAACTTACATAACTTACATAAATATATATCATATCATAA
Found at i:58484913 original size:27 final size:27
Alignment explanation
Indices: 58484884--58485065 Score: 206
Period size: 27 Copynumber: 6.8 Consensus size: 27
58484874 ACCCTCAAAT
* * *
58484884 TGTAAAATTACCAAAATACCCTCG-ATT
1 TGTAAAATTACCGAAATACCCTTGTA-G
*
58484911 TGT-AAATTACCGAAATACCTTTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
** *
58484937 TGTAAAATTACTAAAATACCATTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
*
58484964 TGTAAAATTACTGAAATACCCTTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
* * *
58484991 TGTAAAATTACCAAAATAACCTTGTTG
1 TGTAAAATTACCGAAATACCCTTGTAG
* * *
58485018 TGTAAGATTATCGAAATACCCTTGTGG
1 TGTAAAATTACCGAAATACCCTTGTAG
*
58485045 TGTAAAATTATCGAAATACCC
1 TGTAAAATTACCGAAATACCC
58485066 CTATAGGGCA
Statistics
Matches: 134, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
26 20 0.15
27 114 0.85
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.32
Consensus pattern (27 bp):
TGTAAAATTACCGAAATACCCTTGTAG
Found at i:58485078 original size:27 final size:27
Alignment explanation
Indices: 58485024--58485079 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
58485014 GTTGTGTAAG
* * *
58485024 ATTATCGAAATACCCTTGTGGTGTAAA
1 ATTATCGAAATACCCCTATGGTGCAAA
58485051 ATTATCGAAATACCCCTATAGG-GCAAA
1 ATTATCGAAATACCCCTAT-GGTGCAAA
58485078 AT
1 AT
58485080 AACTGTTTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 23 0.92
28 2 0.08
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.29
Consensus pattern (27 bp):
ATTATCGAAATACCCCTATGGTGCAAA
Found at i:58489211 original size:24 final size:24
Alignment explanation
Indices: 58489177--58489245 Score: 88
Period size: 24 Copynumber: 2.9 Consensus size: 24
58489167 TCGTGAACCC
*
58489177 ACTTTTCGGCTTTTTAGCCTTTCG
1 ACTTTTTGGCTTTTTAGCCTTTCG
*
58489201 ACTTTTTGGCTTTTTAGCCTTTTGG
1 ACTTTTTGGCTTTTTAGCC-TTTCG
*
58489226 A-TTTTTGG-TTTTCAGCCTTT
1 ACTTTTTGGCTTTTTAGCCTTT
58489246 GCTATTTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
22 3 0.07
23 8 0.20
24 25 0.61
25 5 0.12
ACGTcount: A:0.09, C:0.19, G:0.17, T:0.55
Consensus pattern (24 bp):
ACTTTTTGGCTTTTTAGCCTTTCG
Found at i:58493213 original size:2 final size:2
Alignment explanation
Indices: 58493206--58493232 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
58493196 TTTGGTTGTG
58493206 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
58493233 GCAAATGGCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:58496027 original size:27 final size:27
Alignment explanation
Indices: 58495997--58496079 Score: 70
Period size: 27 Copynumber: 3.3 Consensus size: 27
58495987 CTAATGGCCG
58495997 ATGTGATGAATGTGAAAATGTATATAT
1 ATGTGATGAATGTGAAAATGTATATAT
** ** *
58496024 ATGTGAT-AA-G-GCCTAATG---GCAG
1 ATGTGATGAATGTG-AAAATGTATATAT
58496046 ATGTGATGAATGTGAAAATGTATATAT
1 ATGTGATGAATGTGAAAATGTATATAT
58496073 ATGTGAT
1 ATGTGAT
58496080 AAGGCCTAAT
Statistics
Matches: 39, Mismatches: 10, Indels: 14
0.62 0.16 0.22
Matches are distributed among these distances:
22 8 0.21
23 2 0.05
24 6 0.15
25 6 0.15
26 2 0.05
27 15 0.38
ACGTcount: A:0.37, C:0.04, G:0.25, T:0.34
Consensus pattern (27 bp):
ATGTGATGAATGTGAAAATGTATATAT
Found at i:58496040 original size:49 final size:49
Alignment explanation
Indices: 58495971--58496271 Score: 532
Period size: 49 Copynumber: 6.1 Consensus size: 49
58495961 GTACATAATA
58495971 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
*
58496020 ATATATGTGATAAGGCCTAATGGCAGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
*
58496069 ATATATGTGATAAGGCCTAATGGCCG-TGTGATGAATGTGAAAATATATAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAA-ATGTAT
*
58496119 ATATATGTGATAAGGCCTAATGGCCGGTGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
58496168 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
* *
58496217 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
58496266 ATATAT
1 ATATAT
58496272 ATGTGGTAAA
Statistics
Matches: 242, Mismatches: 7, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
48 13 0.05
49 182 0.75
50 34 0.14
51 13 0.05
ACGTcount: A:0.35, C:0.08, G:0.26, T:0.31
Consensus pattern (49 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
Found at i:58496239 original size:148 final size:149
Alignment explanation
Indices: 58495971--58496291 Score: 563
Period size: 148 Copynumber: 2.2 Consensus size: 149
58495961 GTACATAATA
58495971 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATGTGATAAGGC
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATGTGATAAGGC
*
58496036 CTAATGGCAGATGTGATGAATGTGAAAATGTATATATATGTGATAAGGCCTAATGGCCG-TGTGA
66 CTAATGGCAGATGTGATGAATGTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGACGTGA
58496100 TGAATGTGAAAATATATAT
131 TGAATGTGAAAATATATAT
*
58496119 ATATATGTGATAAGGCCTAATGGCCGGTGTGATGAATGTGAAAATGTATATATATGTGATAAGGC
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATGTGATAAGGC
*
58496184 CTAATGGCCGATGTGATGAATGTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGACGTGA
66 CTAATGGCAGATGTGATGAATGTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGACGTGA
* *
58496249 TGAATGTGAAAGTGTATAT
131 TGAATGTGAAAATATATAT
* * *
58496268 ATATATGTGGTAAAGCCGAATGGC
1 ATATATGTGATAAGGCCTAATGGC
58496292 TAATGTGAAT
Statistics
Matches: 164, Mismatches: 8, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
148 122 0.74
149 42 0.26
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.30
Consensus pattern (149 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATGTGATAAGGC
CTAATGGCAGATGTGATGAATGTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGACGTGA
TGAATGTGAAAATATATAT
Found at i:58498317 original size:40 final size:40
Alignment explanation
Indices: 58498268--58498551 Score: 444
Period size: 40 Copynumber: 7.1 Consensus size: 40
58498258 CATGAGAATT
58498268 GAGCATTCGTGCTAATGATGTATCCGGACTAAGTTCCGAA
1 GAGCATTCGTGCTAATGATGTATCCGGACTAAGTTCCGAA
58498308 GAGCATTCGTGCTAATGATGTATCCGGACTAAGTTCCGAA
1 GAGCATTCGTGCTAATGATGTATCCGGACTAAGTTCCGAA
58498348 GAGCATTCGTGCTAATGATGTATCCGGACTAAGTT-CGAA
1 GAGCATTCGTGCTAATGATGTATCCGGACTAAGTTCCGAA
* * * *
58498387 GAGTATTCGTGCTAATGATATATCCGGGCTAAATTCCGAA
1 GAGCATTCGTGCTAATGATGTATCCGGACTAAGTTCCGAA
* * *
58498427 GAGCATTCGTGCTAATGATATATCCGGGCTAAATTCCGAA
1 GAGCATTCGTGCTAATGATGTATCCGGACTAAGTTCCGAA
* *
58498467 GAGCATTCGTGCTAGTGATGTATCCGGATTAAGTTCCGAA
1 GAGCATTCGTGCTAATGATGTATCCGGACTAAGTTCCGAA
* * * *
58498507 GAGCATTCGTGCTAGTGATGTATCCGGGCTAGGTCCCGAA
1 GAGCATTCGTGCTAATGATGTATCCGGACTAAGTTCCGAA
58498547 GAGCA
1 GAGCA
58498552 ATCATGCTGG
Statistics
Matches: 229, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
39 35 0.15
40 194 0.85
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.27
Consensus pattern (40 bp):
GAGCATTCGTGCTAATGATGTATCCGGACTAAGTTCCGAA
Found at i:58498486 original size:119 final size:120
Alignment explanation
Indices: 58498268--58498551 Score: 453
Period size: 119 Copynumber: 2.4 Consensus size: 120
58498258 CATGAGAATT
* *
58498268 GAGCATTCGTGCTAATGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAATGATGTATCC
1 GAGCATTCGTGCTAATGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAATGATATATCC
*
58498333 GGACTAAGTTCCGAAGAGCATTCGTGCTAATGATGTATCCGGACTAAGTT-CGAA
66 GGACTAAATTCCGAAGAGCATTCGTGCTAATGATGTATCCGGACTAAGTTCCGAA
* * *
58498387 GAGTATTCGTGCTAATGATATATCCGGGCTAAATTCCGAAGAGCATTCGTGCTAATGATATATCC
1 GAGCATTCGTGCTAATGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAATGATATATCC
* * *
58498452 GGGCTAAATTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGATTAAGTTCCGAA
66 GGACTAAATTCCGAAGAGCATTCGTGCTAATGATGTATCCGGACTAAGTTCCGAA
* * *
58498507 GAGCATTCGTGCTAGTGATGTATCCGGGCTAGGTCCCGAAGAGCA
1 GAGCATTCGTGCTAATGATGTATCCGGGCTAAGTTCCGAAGAGCA
58498552 ATCATGCTGG
Statistics
Matches: 149, Mismatches: 15, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
119 106 0.71
120 43 0.29
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.27
Consensus pattern (120 bp):
GAGCATTCGTGCTAATGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAATGATATATCC
GGACTAAATTCCGAAGAGCATTCGTGCTAATGATGTATCCGGACTAAGTTCCGAA
Found at i:58501797 original size:29 final size:29
Alignment explanation
Indices: 58501764--58501895 Score: 122
Period size: 29 Copynumber: 4.6 Consensus size: 29
58501754 GTGACGAGAT
58501764 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
58501793 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
58501822 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
58501851 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
58501880 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
58501896 AAATCGAGTA
Statistics
Matches: 83, Mismatches: 19, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
28 2 0.02
29 81 0.98
ACGTcount: A:0.23, C:0.17, G:0.34, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:58509729 original size:29 final size:29
Alignment explanation
Indices: 58509696--58509827 Score: 122
Period size: 29 Copynumber: 4.6 Consensus size: 29
58509686 GTGACGAGAT
58509696 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
58509725 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
58509754 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
58509783 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
58509812 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
58509828 AAATCGAGTA
Statistics
Matches: 83, Mismatches: 19, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
28 2 0.02
29 81 0.98
ACGTcount: A:0.23, C:0.17, G:0.34, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:58520608 original size:40 final size:40
Alignment explanation
Indices: 58520580--58520732 Score: 184
Period size: 40 Copynumber: 3.8 Consensus size: 40
58520570 TTATAGTGAT
*
58520580 TCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGTAAC
1 TCGCACAAATGCCTTCGGGAATTAGCCCGGATTTAGTAAC
* * * *
58520620 TCGCACGAATGCCTTCGGGACTTAACCCGG-TTTTGATAAC
1 TCGCACAAATGCCTTCGGGAATTAGCCCGGATTTAG-TAAC
*
58520660 TCGCACAAATGCCTTCGGGAATT-GACCCGGATTTAGTCAC
1 TCGCACAAATGCCTTCGGGAATTAG-CCCGGATTTAGTAAC
* * *
58520700 TTAGCACAAAAGCCTTCGGGACTTAGCCCGGAT
1 -TCGCACAAATGCCTTCGGGAATTAGCCCGGAT
58520733 ACCATTCGAA
Statistics
Matches: 95, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
39 4 0.04
40 59 0.62
41 31 0.33
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
TCGCACAAATGCCTTCGGGAATTAGCCCGGATTTAGTAAC
Found at i:58520664 original size:80 final size:81
Alignment explanation
Indices: 58520580--58520730 Score: 225
Period size: 80 Copynumber: 1.9 Consensus size: 81
58520570 TTATAGTGAT
* * * *
58520580 TCGCACAATTGCCTTCGGGAATT-AGCCCGGATTTAGTAAC-TCGCACGAATGCCTTCGGGACTT
1 TCGCACAAATGCCTTCGGGAATTGA-CCCGGATTTAGTAACTTAGCACAAAAGCCTTCGGGACTT
58520643 AACCCGGTTTTGATAAC
65 AACCCGGTTTTGATAAC
*
58520660 TCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTCACTTAGCACAAAAGCCTTCGGGACTTA
1 TCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTAACTTAGCACAAAAGCCTTCGGGACTTA
*
58520725 GCCCGG
66 ACCCGG
58520731 ATACCATTCG
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
80 36 0.57
81 27 0.43
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
TCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTAACTTAGCACAAAAGCCTTCGGGACTTA
ACCCGGTTTTGATAAC
Found at i:58521438 original size:2 final size:2
Alignment explanation
Indices: 58521431--58521462 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
58521421 ATGTGCAAAC
58521431 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
58521463 GCTAGAGCCG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:58526164 original size:25 final size:26
Alignment explanation
Indices: 58526130--58526221 Score: 95
Period size: 23 Copynumber: 3.7 Consensus size: 26
58526120 CAGTTAATAA
58526130 ATTCGCACACATAGTGCATA-TATT-C
1 ATTCGCACACATAGTGC-TACTATTCC
*
58526155 ATTCGCACACATAGTGCTAGCTTTTCC
1 ATTCGCACACATAGTGCTA-CTATTCC
* * *
58526182 ATACGCACACATAGTGCTGC---CCC
1 ATTCGCACACATAGTGCTACTATTCC
58526205 ATTCGCACACATAGTGC
1 ATTCGCACACATAGTGC
58526222 CCTTTTCATT
Statistics
Matches: 59, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
23 18 0.31
24 2 0.03
25 17 0.29
26 4 0.07
27 18 0.31
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.27
Consensus pattern (26 bp):
ATTCGCACACATAGTGCTACTATTCC
Found at i:58526188 original size:27 final size:24
Alignment explanation
Indices: 58526133--58526199 Score: 80
Period size: 27 Copynumber: 2.6 Consensus size: 24
58526123 TTAATAAATT
*
58526133 CGCACACATAGTGCATATATTCATT
1 CGCACACATAGTGC-TATATTCATA
*
58526158 CGCACACATAGTGCTAGCTTTTCCATA
1 CGCACACATAGTGCTA--TATT-CATA
58526185 CGCACACATAGTGCT
1 CGCACACATAGTGCT
58526200 GCCCCATTCG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
24 2 0.05
25 14 0.38
26 3 0.08
27 18 0.49
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.28
Consensus pattern (24 bp):
CGCACACATAGTGCTATATTCATA
Found at i:58528700 original size:30 final size:29
Alignment explanation
Indices: 58528654--58528720 Score: 107
Period size: 30 Copynumber: 2.3 Consensus size: 29
58528644 CCTCAAGTAA
* *
58528654 CCAAAGCTAGTTAAATCGCACTCTTAGTT
1 CCAAAGCTAGTTAAATCGCACACTTAGTG
58528683 CCAAAGCTAGTTTAAATCGCACACTTAGTG
1 CCAAAGCTAG-TTAAATCGCACACTTAGTG
58528713 CCAAAGCT
1 CCAAAGCT
58528721 TCCGATTCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
29 10 0.29
30 25 0.71
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (29 bp):
CCAAAGCTAGTTAAATCGCACACTTAGTG
Found at i:58535764 original size:28 final size:28
Alignment explanation
Indices: 58535695--58535795 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
58535685 GACAAGATTG
* * * *
58535695 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
58535725 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
58535753 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
58535782 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
58535796 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:58538758 original size:17 final size:17
Alignment explanation
Indices: 58538736--58538769 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
58538726 ATATGTGATA
58538736 AGGCCTAATGGCCGATG
1 AGGCCTAATGGCCGATG
58538753 AGGCCTAATGGCCGATG
1 AGGCCTAATGGCCGATG
58538770 TGATGAATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.35, T:0.18
Consensus pattern (17 bp):
AGGCCTAATGGCCGATG
Found at i:58538809 original size:49 final size:49
Alignment explanation
Indices: 58538753--58539162 Score: 591
Period size: 49 Copynumber: 8.7 Consensus size: 49
58538743 ATGGCCGATG
58538753 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATA
1 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATA
58538802 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG-----A--TG---
1 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATA
* * *
58538841 CGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTAGATATGTGATG
1 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATA
58538890 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATA
1 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATA
58538939 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATA
1 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATA
* *
58538988 AGGCCGAATGGCCAATGTGATGAATGTGAAA--GTGTATATATGTGATA
1 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATA
* * * *
58539035 AGGCCTAATGGCCCATGTGATGACTGTGAAA--GTGTATATGTGTGGTA
1 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATA
* * * *
58539082 AGGCCGAACGGCCAATGTGATGGATGTGAAA--GTGTATATATGTGATA
1 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATA
58539129 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
58539163 CATATGTGTG
Statistics
Matches: 327, Mismatches: 22, Indels: 24
0.88 0.06 0.06
Matches are distributed among these distances:
39 35 0.11
42 2 0.01
44 2 0.01
46 2 0.01
47 125 0.38
49 161 0.49
ACGTcount: A:0.30, C:0.10, G:0.32, T:0.28
Consensus pattern (49 bp):
AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATA
Found at i:58538839 original size:39 final size:40
Alignment explanation
Indices: 58538795--58539160 Score: 194
Period size: 47 Copynumber: 8.0 Consensus size: 40
58538785 TGTGTATATA
58538795 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA-G
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGG
**
58538834 TGTGATGCGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG-G
58538875 TGTAGATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TGT-G--A--T-A--AGGCCTAATGGCCGATGTGATGAATGTGAAA--G-G
58538926 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 ------TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA--G-G
* *
58538975 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 ------TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG-G
* *
58539022 TATATATGTGATAAGGCCTAATGGCCCATGTGATGACTGTGAAAGTGTATATG
1 ------TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA--G-----G
* * * * *
58539075 TGTGGTAAGGCCGAACGGCCAATGTGATGGATGTGAAAGTG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG-G
58539116 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ------TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
58539161 TGCATATGTG
Statistics
Matches: 277, Mismatches: 20, Indels: 52
0.79 0.06 0.15
Matches are distributed among these distances:
39 36 0.13
41 6 0.02
42 1 0.00
44 1 0.00
45 1 0.00
46 1 0.00
47 110 0.40
49 109 0.39
51 4 0.01
52 1 0.00
53 2 0.01
54 1 0.00
56 1 0.00
57 3 0.01
ACGTcount: A:0.30, C:0.10, G:0.32, T:0.28
Consensus pattern (40 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGG
Found at i:58539045 original size:47 final size:47
Alignment explanation
Indices: 58538842--58539177 Score: 492
Period size: 47 Copynumber: 7.0 Consensus size: 47
58538832 AGTGTGATGC
* *
58538842 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTAGATATGTGATGA
1 GGCCTAATGGCCGATGTGATGAATGTGAAA--GTGTATATATGTGATAA
58538891 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAA--GTGTATATATGTGATAA
58538940 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAA--GTGTATATATGTGATAA
* *
58538989 GGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* * * *
58539036 GGCCTAATGGCCCATGTGATGACTGTGAAAGTGTATATGTGTGGTAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* * * *
58539083 GGCCGAACGGCCAATGTGATGGATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* *
58539130 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATGTGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
58539177 G
1 G
58539178 TCCCGAAGGG
Statistics
Matches: 265, Mismatches: 22, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
47 141 0.53
49 124 0.47
ACGTcount: A:0.30, C:0.10, G:0.32, T:0.29
Consensus pattern (47 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
Found at i:58542104 original size:40 final size:40
Alignment explanation
Indices: 58541750--58542092 Score: 544
Period size: 40 Copynumber: 8.6 Consensus size: 40
58541740 CTCGACGATG
* *
58541750 ATCCGGGTTAAGTCCCGAAGAGCATTTGTGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATAT
* *
58541790 ATTCGGGTTAAGTCCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATAT
58541830 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATAT
* * *
58541870 ATCTGGGCTATGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATAT
*
58541910 ATCCGGGTTAAGTCCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATAT
*
58541950 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATAT
*
58541990 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATAT
* * * *
58542030 ATCCGTGCTAA-ACCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATAT
*
58542069 ATCCGGGCTAGGTCCCGAAGAGCA
1 ATCCGGGCTAAGTCCCGAAGAGCA
58542093 ATCATGCTGG
Statistics
Matches: 279, Mismatches: 23, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
39 33 0.12
40 246 0.88
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATAT
Found at i:58545131 original size:49 final size:49
Alignment explanation
Indices: 58545071--58545551 Score: 769
Period size: 49 Copynumber: 10.0 Consensus size: 49
58545061 GTATGAGATA
58545071 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
58545120 TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* *
58545169 TATATATGTGATGAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* *
58545218 TAGATATGTGATTAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
58545267 TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
58545316 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* * *
58545365 TATATATGTGATAAGGCCGAACGGCCAATGTGATGAATGTGAAA--GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
58545412 TATATATGTGATAAGGCCTAATGGCCCATGTGATGAATGTGAAA--GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* * * * * *
58545459 TATATGTGTGGTAAGGCCGAACGGCCAATGTGATGGATGTGAAA--GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
58545506 TATA-ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
58545552 CATATGTGTG
Statistics
Matches: 404, Mismatches: 26, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
46 33 0.08
47 92 0.23
48 1 0.00
49 278 0.69
ACGTcount: A:0.30, C:0.09, G:0.32, T:0.29
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
Found at i:58547678 original size:40 final size:40
Alignment explanation
Indices: 58547629--58547706 Score: 147
Period size: 40 Copynumber: 1.9 Consensus size: 40
58547619 TATGATGTTT
58547629 GTGAAATGAATGTGAAGTGTTTTGATATGTTTGGTAATGC
1 GTGAAATGAATGTGAAGTGTTTTGATATGTTTGGTAATGC
*
58547669 GTGAGATGAATGTGAAGTGTTTTGATATGTTTGGTAAT
1 GTGAAATGAATGTGAAGTGTTTTGATATGTTTGGTAAT
58547707 CCCGCTTAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.27, C:0.01, G:0.31, T:0.41
Consensus pattern (40 bp):
GTGAAATGAATGTGAAGTGTTTTGATATGTTTGGTAATGC
Found at i:58555116 original size:2 final size:2
Alignment explanation
Indices: 58555109--58555134 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
58555099 ACCAGAACAG
58555109 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
58555135 GTGGCGAAGC
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:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:58555544 original size:27 final size:27
Alignment explanation
Indices: 58555514--58555627 Score: 149
Period size: 27 Copynumber: 4.2 Consensus size: 27
58555504 AAATTAGTAT
58555514 TTCTACCCTACAAGGGTATTTCGGTAA
1 TTCTACCCTACAAGGGTATTTCGGTAA
* *
58555541 TTCTATCCTACAGGGGTATTTCGGTAA
1 TTCTACCCTACAAGGGTATTTCGGTAA
* * ***
58555568 TTCTACCCTATAGGGGTATTTTAATAA
1 TTCTACCCTACAAGGGTATTTCGGTAA
58555595 TTCTACCCTA-AAGGGGTATTTCGGTAA
1 TTCTACCCTACAA-GGGTATTTCGGTAA
58555622 TTCTAC
1 TTCTAC
58555628 AACTTATCCA
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
26 1 0.01
27 74 0.99
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.37
Consensus pattern (27 bp):
TTCTACCCTACAAGGGTATTTCGGTAA
Found at i:58555596 original size:54 final size:54
Alignment explanation
Indices: 58555514--58555627 Score: 165
Period size: 54 Copynumber: 2.1 Consensus size: 54
58555504 AAATTAGTAT
** * *
58555514 TTCTACCCTACAAGGGTATTTCGGTAATTCTATCCTACAGGGGTATTTCGGTAA
1 TTCTACCCTACAAGGGTATTTCAATAATTCTACCCTAAAGGGGTATTTCGGTAA
* * *
58555568 TTCTACCCTATAGGGGTATTTTAATAATTCTACCCTAAAGGGGTATTTCGGTAA
1 TTCTACCCTACAAGGGTATTTCAATAATTCTACCCTAAAGGGGTATTTCGGTAA
58555622 TTCTAC
1 TTCTAC
58555628 AACTTATCCA
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.37
Consensus pattern (54 bp):
TTCTACCCTACAAGGGTATTTCAATAATTCTACCCTAAAGGGGTATTTCGGTAA
Found at i:58564077 original size:37 final size:37
Alignment explanation
Indices: 58564014--58564122 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
58564004 TAGCTCAACG
* * *
58564014 AAATCTCCACACGAAGTTATCAGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
58564051 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
58564088 TAATCTCCACATGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
58564123 ATATATTTCC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:58564390 original size:48 final size:48
Alignment explanation
Indices: 58564268--58564452 Score: 291
Period size: 48 Copynumber: 3.8 Consensus size: 48
58564258 GCACATCACC
* * *
58564268 TACATATTTCACACTAGCCATTCAGCTTCACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
58564318 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
58564366 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
58564414 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
58564453 TGCATGTTCA
Statistics
Matches: 126, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
48 84 0.67
49 2 0.02
50 40 0.32
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:58564457 original size:98 final size:97
Alignment explanation
Indices: 58564268--58564451 Score: 300
Period size: 98 Copynumber: 1.9 Consensus size: 97
58564258 GCACATCACC
*
58564268 TACATATTTCACACTAGCCATTCAGCTTCACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACACTAGCCATTCAGCTTCACCACATATACATATCTCA-ATACATATTTCACATT
58564333 GACCATTCGGCTTTACCACATATGCATATCTCA
65 GACCATTCGGCTTTACCACATATGCATATCTCA
* * *
58564366 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC-ATACATATTTCACATT-
1 TACATATTTCACACTAGCCATTCAGCTTCACCACATATACATATCTCAATACATATTTCACATTG
58564429 AGCCATTCGGCTTTACCACATAT
66 A-CCATTCGGCTTTACCACATAT
58564452 ATGCATGTTC
Statistics
Matches: 81, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
95 1 0.01
96 36 0.44
98 44 0.54
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (97 bp):
TACATATTTCACACTAGCCATTCAGCTTCACCACATATACATATCTCAATACATATTTCACATTG
ACCATTCGGCTTTACCACATATGCATATCTCA
Found at i:58564501 original size:47 final size:47
Alignment explanation
Indices: 58564422--58564614 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
58564412 CATACATATT
* * * *
58564422 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
58564469 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
58564516 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
58564563 TCACATTGGCCATTC-GCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
58564609 TCACAT
1 TCACAT
58564615 AAAATCCTAA
Statistics
Matches: 132, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
46 33 0.25
47 99 0.75
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:58572567 original size:45 final size:45
Alignment explanation
Indices: 58572435--58572569 Score: 198
Period size: 45 Copynumber: 3.0 Consensus size: 45
58572425 AATATTATAC
* *
58572435 GATACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGATGA
1 GATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
* * * *
58572480 GATACTGTTCAGGCCTTTGAGCCTAGCAGGCTATTATACCGGTGA
1 GATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
* *
58572525 GATACTATTTGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
1 GATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
58572570 AATGATATCG
Statistics
Matches: 79, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 79 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.27
Consensus pattern (45 bp):
GATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
Found at i:58579603 original size:26 final size:26
Alignment explanation
Indices: 58579525--58579604 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
58579515 GATGTCACGT
*
58579525 GTGTAGTACTAAGTGCAGGCTACTAC
1 GTGTAGTACTAAATGCAGGCTACTAC
* * * *
58579551 GTGTACTGGA-TAATTG--GTC-AC-AT
1 GTGTA--GTACTAAATGCAGGCTACTAC
58579574 GTGTAGTACTAAATGCAGGCTACTAC
1 GTGTAGTACTAAATGCAGGCTACTAC
58579600 GTGTA
1 GTGTA
58579605 TCAGATGGTT
Statistics
Matches: 39, Mismatches: 8, Indels: 14
0.64 0.13 0.23
Matches are distributed among these distances:
21 2 0.05
22 5 0.13
23 6 0.15
24 4 0.10
25 4 0.10
26 11 0.28
27 5 0.13
28 2 0.05
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (26 bp):
GTGTAGTACTAAATGCAGGCTACTAC
Found at i:58579693 original size:98 final size:99
Alignment explanation
Indices: 58579518--58579696 Score: 288
Period size: 98 Copynumber: 1.8 Consensus size: 99
58579508 CTATTGTGAT
* ** *
58579518 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCACATGTGTAGTAC
1 GTCACGTGTGTAGTACCAAGTGCAGGCTACTACGTGTACCAGATAATTAGTCACATGTGTAGTAC
58579583 TAAATGCAGGCTACTACGTGTATCAGATGGTTAG
66 TAAATGCAGGCTACTACGTGTATCAGATGGTTAG
* *
58579617 GTCAC-TGTGTAGTACCAAGTGCAGGCTACTACGTGTACCAGATAATTAGTCGCATGTGTAGTAT
1 GTCACGTGTGTAGTACCAAGTGCAGGCTACTACGTGTACCAGATAATTAGTCACATGTGTAGTAC
*
58579681 TAAGTGCAGGCTACTA
66 TAAATGCAGGCTACTA
58579697 TGCGTACCAG
Statistics
Matches: 73, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
98 68 0.93
99 5 0.07
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (99 bp):
GTCACGTGTGTAGTACCAAGTGCAGGCTACTACGTGTACCAGATAATTAGTCACATGTGTAGTAC
TAAATGCAGGCTACTACGTGTATCAGATGGTTAG
Found at i:58579704 original size:49 final size:49
Alignment explanation
Indices: 58579518--58579709 Score: 251
Period size: 49 Copynumber: 3.9 Consensus size: 49
58579508 CTATTGTGAT
* ** *
58579518 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTA
* * **
58579567 GTCACATGTGTAGTACTAAATGCAGGCTACTACGTGTATCAGATGGTTA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTA
*
58579616 GGTCAC-TGTGTAGTACCAAGTGCAGGCTACTACGTGTACCAGATAATTA
1 -GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTA
* * * *
58579665 GTCGCATGTGTAGTATTAAGTGCAGGCTACTATGCGTACCAGATA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
58579710 GCCTTCTCTA
Statistics
Matches: 123, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
48 4 0.03
49 114 0.93
50 5 0.04
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (49 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTA
Found at i:58581430 original size:14 final size:14
Alignment explanation
Indices: 58581411--58581470 Score: 75
Period size: 14 Copynumber: 4.3 Consensus size: 14
58581401 ATGGTAAGAG
58581411 TGGTATGAACGAAA
1 TGGTATGAACGAAA
*
58581425 TGGTATGAATGAAA
1 TGGTATGAACGAAA
* *
58581439 TGGTATGATCGAAG
1 TGGTATGAACGAAA
* *
58581453 GGGTATGAACGAAT
1 TGGTATGAACGAAA
58581467 TGGT
1 TGGT
58581471 CAGTTTAGGT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 38 1.00
ACGTcount: A:0.35, C:0.05, G:0.33, T:0.27
Consensus pattern (14 bp):
TGGTATGAACGAAA
Found at i:58586487 original size:18 final size:18
Alignment explanation
Indices: 58586472--58586556 Score: 57
Period size: 19 Copynumber: 4.6 Consensus size: 18
58586462 TGTCAGAACT
*
58586472 AGAATTAGAATTAGAATC
1 AGAATCAGAATTAGAATC
* *
58586490 AGAATCAGAATCAG-GTGAC
1 AGAATCAGAATTAGAAT--C
*
58586509 AGAATCAGAATCAGAATC
1 AGAATCAGAATTAGAATC
* *
58586527 AGTATCAGGTAA-CAGAATC
1 AGAATCA-G-AATTAGAATC
*
58586546 AAAATCAGAAT
1 AGAATCAGAAT
58586557 GTGAATGCAA
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
17 3 0.06
18 20 0.37
19 28 0.52
20 3 0.06
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.20
Consensus pattern (18 bp):
AGAATCAGAATTAGAATC
Found at i:58586501 original size:6 final size:6
Alignment explanation
Indices: 58586472--58586556 Score: 75
Period size: 6 Copynumber: 13.8 Consensus size: 6
58586462 TGTCAGAACT
* * *
58586472 AGAATT AGAATT AGAATC AGAATC AGAATC AG-GTGAC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
58586521 AGAATC AGTATC AGGTAA-C AGAATC AAAATC AGAAT
1 AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAAT
58586557 GTGAATGCAA
Statistics
Matches: 66, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
5 3 0.05
6 55 0.83
7 6 0.09
8 2 0.03
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:58586519 original size:31 final size:31
Alignment explanation
Indices: 58586478--58586556 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
58586468 AACTAGAATT
* *
58586478 AGAATTAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
*
58586509 AGAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
*
58586540 AGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
58586557 GTGAATGCAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:58586722 original size:27 final size:26
Alignment explanation
Indices: 58586674--58586733 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
58586664 GCGAGGCTGC
*
58586674 CAGATATTGTGATGAAGTCACCAGATA
1 CAGATATTGTGATGAAGCCACCAGA-A
* * *
58586701 CAGATATTGTGCTTAGGCCACCAGAA
1 CAGATATTGTGATGAAGCCACCAGAA
58586727 CAGATAT
1 CAGATAT
58586734 ATATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (26 bp):
CAGATATTGTGATGAAGCCACCAGAA
Found at i:58587101 original size:27 final size:27
Alignment explanation
Indices: 58587071--58587481 Score: 435
Period size: 27 Copynumber: 15.2 Consensus size: 27
58587061 TTAACACCTA
*
58587071 AGGGTAAAATGGTAATTTTATAAATCG
1 AGGGTAAAACGGTAATTTTATAAATCG
* *
58587098 AGGGTAAAACGGTTATTCTATAAATCG
1 AGGGTAAAACGGTAATTTTATAAATCG
* *
58587125 AGGGTAAAACGGTAATTTTGTAAATCA
1 AGGGTAAAACGGTAATTTTATAAATCG
* ** * *
58587152 AGGATAAAATAGTAATTTTGTAAATTG
1 AGGGTAAAACGGTAATTTTATAAATCG
*
58587179 AGGGTAAAACGGTAATTCTATAAATCG
1 AGGGTAAAACGGTAATTTTATAAATCG
** * *
58587206 AGGGTAAAATAGTAATTCTATAAATTG
1 AGGGTAAAACGGTAATTTTATAAATCG
* * *
58587233 GGGGTAAAACTGTAATTTTGTAAATCG
1 AGGGTAAAACGGTAATTTTATAAATCG
* ** **
58587260 AAGGTAAAATAGTAATTTTGCAAATCG
1 AGGGTAAAACGGTAATTTTATAAATCG
* *
58587287 AGGGTAAAACGATAATTCTATAAATCG
1 AGGGTAAAACGGTAATTTTATAAATCG
* *
58587314 AGGGTAAAACGATAATTTTGTAAATCG
1 AGGGTAAAACGGTAATTTTATAAATCG
** * *
58587341 AGGGTAAAATAGTAATTTTGTAAATTG
1 AGGGTAAAACGGTAATTTTATAAATCG
* *
58587368 AGGGTAAAACGATAATTTTGTAAATCG
1 AGGGTAAAACGGTAATTTTATAAATCG
*
58587395 AGGGTAAAACAGTAATTTTATAAATCG
1 AGGGTAAAACGGTAATTTTATAAATCG
* *
58587422 AGGGTAAAACGATAATTCTATAAATCG
1 AGGGTAAAACGGTAATTTTATAAATCG
* **** * *
58587449 ATGGTACTTTGGTAATTTTACAAGTCG
1 AGGGTAAAACGGTAATTTTATAAATCG
58587476 AGGGTA
1 AGGGTA
58587482 TTTTAGTAAT
Statistics
Matches: 319, Mismatches: 65, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 319 1.00
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.31
Consensus pattern (27 bp):
AGGGTAAAACGGTAATTTTATAAATCG
Found at i:58587490 original size:27 final size:26
Alignment explanation
Indices: 58587444--58587627 Score: 172
Period size: 27 Copynumber: 6.8 Consensus size: 26
58587434 TAATTCTATA
* *
58587444 AATCGATGGTACTTTGGTAATTTTAC
1 AATCGAGGGTATTTTGGTAATTTTAC
*
58587470 AAGTCGAGGGTATTTTAGTAATTTTAC
1 AA-TCGAGGGTATTTTGGTAATTTTAC
* ** *
58587497 AGGTCGAGGGTATTTCAGTAATTTCAC
1 A-ATCGAGGGTATTTTGGTAATTTTAC
58587524 AAATC-AGAGGTATTTTGGTAATTTTAC
1 -AATCGAG-GGTATTTTGGTAATTTTAC
* *
58587551 AAACTAGGGGTATTTTGGTAATTTTAC
1 AATCGA-GGGTATTTTGGTAATTTTAC
* * *
58587578 AAACTAGGGGTATTTTGGTAATTTTATA
1 AATCGA-GGGTATTTTGGTAATTTTA-C
* *
58587606 AACCAAGGGTATTTTGGTAATT
1 AATCGAGGGTATTTTGGTAATT
58587628 CTACCCTACA
Statistics
Matches: 137, Mismatches: 14, Indels: 13
0.84 0.09 0.08
Matches are distributed among these distances:
26 7 0.05
27 124 0.91
28 6 0.04
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.40
Consensus pattern (26 bp):
AATCGAGGGTATTTTGGTAATTTTAC
Found at i:58587504 original size:81 final size:81
Alignment explanation
Indices: 58587405--58587580 Score: 189
Period size: 81 Copynumber: 2.2 Consensus size: 81
58587395 AGGGTAAAAC
* *
58587405 AGTAATTTTATAAATCGAGGGTAAAAC-GATAA-TTCTATAAATC-GATGGTACTTTGGTAATTT
1 AGTAATTTTACAAATCGAGGGTAAAACAG-TAATTTC-ACAAATCAGA-GGTACTTTGGTAATTT
*
58587467 TACAAGTCGA-GGGTATTTT
63 TACAA-ACGAGGGGTATTTT
** *** *
58587486 AGTAATTTTACAGGTCGAGGGTATTTCAGTAATTTCACAAATCAGAGGTATTTTGGTAATTTTAC
1 AGTAATTTTACAAATCGAGGGTAAAACAGTAATTTCACAAATCAGAGGTACTTTGGTAATTTTAC
*
58587551 AAACTAGGGGTATTTT
66 AAACGAGGGGTATTTT
*
58587567 GGTAATTTTACAAA
1 AGTAATTTTACAAA
58587581 CTAGGGGTAT
Statistics
Matches: 78, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
80 2 0.03
81 70 0.90
82 6 0.08
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.38
Consensus pattern (81 bp):
AGTAATTTTACAAATCGAGGGTAAAACAGTAATTTCACAAATCAGAGGTACTTTGGTAATTTTAC
AAACGAGGGGTATTTT
Found at i:58587589 original size:81 final size:82
Alignment explanation
Indices: 58587443--58587627 Score: 200
Period size: 81 Copynumber: 2.3 Consensus size: 82
58587433 ATAATTCTAT
* * * * ** *
58587443 AAATC-GATGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTTAGTAATTTTACAGGTCGAGGG
1 AAATCAGAGGGTATTTTGGTAATTTTACAACTAGAGGGTATTTTAGTAATTTTACAACTAGAGGG
58587507 TATTTCAGTAATTTCAC
66 TATTTCAGTAATTTCAC
*
58587524 AAATCAGA-GGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGGTAATTTTACAAACTAG-G
1 AAATCAGAGGGTATTTTGGTAATTTTAC-AACTAGAGGGTATTTTAGTAATTTTAC-AACTAGAG
** * *
58587586 GGTATTTTGGTAATTTTAT
64 GGTATTTCAGTAATTTCAC
*
58587605 AAACCA-AGGGTATTTTGGTAATT
1 AAATCAGAGGGTATTTTGGTAATT
58587628 CTACCCTACA
Statistics
Matches: 88, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
80 1 0.01
81 78 0.89
82 9 0.10
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (82 bp):
AAATCAGAGGGTATTTTGGTAATTTTACAACTAGAGGGTATTTTAGTAATTTTACAACTAGAGGG
TATTTCAGTAATTTCAC
Found at i:58589498 original size:6 final size:6
Alignment explanation
Indices: 58589478--58589571 Score: 86
Period size: 6 Copynumber: 15.3 Consensus size: 6
58589468 AAGAAACATT
* *
58589478 ATCAGA A-CTAGA ATCAAA ATCAGA ATCAGA ATCAGGTG AT-AGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
* *
58589527 ATCAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
58589572 ATGAATGCAA
Statistics
Matches: 72, Mismatches: 8, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
5 5 0.07
6 58 0.81
7 6 0.08
8 3 0.04
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:58589568 original size:37 final size:37
Alignment explanation
Indices: 58589489--58589571 Score: 121
Period size: 37 Copynumber: 2.2 Consensus size: 37
58589479 TCAGAACTAG
* * * *
58589489 AATCAAAATCAGAATCAGAATCAGGTGATAGAATCAG
1 AATCAGAATCAGAATCAGAATCAGGTAACAGAATCAA
*
58589526 AATCAGAATCAGAATCAGTATCAGGTAACAGAATCAA
1 AATCAGAATCAGAATCAGAATCAGGTAACAGAATCAA
58589563 AATCAGAAT
1 AATCAGAAT
58589572 ATGAATGCAA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.19
Consensus pattern (37 bp):
AATCAGAATCAGAATCAGAATCAGGTAACAGAATCAA
Found at i:58589840 original size:27 final size:26
Alignment explanation
Indices: 58589792--58589843 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
58589782 GCGAGGCTGC
*
58589792 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
58589818 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
58589844 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:58591521 original size:78 final size:81
Alignment explanation
Indices: 58591413--58591594 Score: 257
Period size: 78 Copynumber: 2.3 Consensus size: 81
58591403 TACTCGTTCA
* *
58591413 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
*
58591476 ATTTAGTAAC-TCGCAC
65 ATTTAGTAACTTAGCAC
**
58591492 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
58591555 TTTAGTCACTTAGCAC
66 TTTAGTAACTTAGCAC
*
58591571 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
58591595 CATCATTCGA
Statistics
Matches: 92, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
77 3 0.03
78 49 0.53
79 29 0.32
80 11 0.12
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TTTAGTAACTTAGCAC
Found at i:58591594 original size:40 final size:40
Alignment explanation
Indices: 58591411--58591594 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
58591401 GCTACTCGTT
*
58591411 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
58591451 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
58591491 C-AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
58591529 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
58591570 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
58591595 CATCATTCGA
Statistics
Matches: 129, Mismatches: 9, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
38 26 0.20
39 21 0.16
40 69 0.53
41 13 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:58599577 original size:39 final size:40
Alignment explanation
Indices: 58599447--58599669 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
58599437 GCTACTCGTT
*
58599447 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
58599487 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
** * *
58599527 C-AATGTTTTCGGG-CTTAGCCCGGAATTGGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
58599565 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
58599604 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
58599645 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
58599670 CATCATTCGA
Statistics
Matches: 162, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
38 25 0.15
39 55 0.34
40 69 0.43
41 13 0.08
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:58599629 original size:117 final size:120
Alignment explanation
Indices: 58599447--58599669 Score: 312
Period size: 117 Copynumber: 1.9 Consensus size: 120
58599437 GCTACTCGTT
*
58599447 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* * **
58599512 ATTTAGTAAC-TCGCACAATGTTTTCGGG-CTTAGCCCGGAATTGGTAACTCGCA
66 ATTTAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGAATTGGTAACTCGCA
* **
58599565 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
*
58599627 GGATTTAGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 GGATTTAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
58599670 CATCATTCGA
Statistics
Matches: 92, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
116 4 0.04
117 49 0.53
118 28 0.30
119 11 0.12
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATTTAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGAATTGGTAACTCGCA
Found at i:58601622 original size:27 final size:27
Alignment explanation
Indices: 58601387--58601688 Score: 365
Period size: 27 Copynumber: 11.2 Consensus size: 27
58601377 AACACCCTAG
* * *
58601387 GGGTAAAATGGTAATTTTATAAATAGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
*
58601414 GGGTAAAATGGTAATTCTGTAAATTGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
* * * *
58601441 GGATAAAATAGTAATTTTGTAAATCAA
1 GGGTAAAATGGTAATTCTGTAAATCGA
* * *
58601468 GGGTAAAACGATAATTCTATAAATCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
58601495 GGGTAAACA--GTAATTCTGTAAATCGA
1 GGGTAAA-ATGGTAATTCTGTAAATCGA
* *
58601521 GGGTAAAATGATAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
* *
58601548 GGGTAAAATGGTAATTCTATAAATCAA
1 GGGTAAAATGGTAATTCTGTAAATCGA
* * *
58601575 GGGTAAAACGGTAATTTTGTAAATTGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
* *
58601602 GGGTAAAATAGTAATTCTGTAAATCAA
1 GGGTAAAATGGTAATTCTGTAAATCGA
* *
58601629 GGGTAAAACGGTAATTCTGTAAATCAA
1 GGGTAAAATGGTAATTCTGTAAATCGA
*
58601656 GGGTAAAAATAGTAATTCTGTAAATCGA
1 GGGT-AAAATGGTAATTCTGTAAATCGA
58601684 GGGTA
1 GGGTA
58601689 CTTTGGTAAT
Statistics
Matches: 233, Mismatches: 38, Indels: 8
0.84 0.14 0.03
Matches are distributed among these distances:
25 1 0.00
26 22 0.09
27 185 0.79
28 25 0.11
ACGTcount: A:0.42, C:0.06, G:0.22, T:0.30
Consensus pattern (27 bp):
GGGTAAAATGGTAATTCTGTAAATCGA
Found at i:58601625 original size:81 final size:81
Alignment explanation
Indices: 58601387--58601688 Score: 412
Period size: 81 Copynumber: 3.7 Consensus size: 81
58601377 AACACCCTAG
* * ** * *
58601387 GGGTAAAATGGTAATTTTATAAAT-AGAGGGTAAAATGGTAATTCTGTAAATTGAGGATAAAATA
1 GGGTAAAACGGTAATTCTATAAATCA-AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATA
58601451 GTAATTTTGTAAATCAA
65 GTAATTTTGTAAATCAA
* *
58601468 GGGTAAAACGATAATTCTATAAATCGAGGGT-AAACAGTAATTCTGTAAATCGAGGGTAAAAT-G
1 GGGTAAAACGGTAATTCTATAAATCAAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATAG
*
58601531 ATAATTTTGTAAATCGA
66 -TAATTTTGTAAATCAA
* * * *
58601548 GGGTAAAATGGTAATTCTATAAATCAAGGGTAAAACGGTAATTTTGTAAATTGAGGGTAAAATAG
1 GGGTAAAACGGTAATTCTATAAATCAAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATAG
*
58601613 TAATTCTGTAAATCAA
66 TAATTTTGTAAATCAA
* *
58601629 GGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAAATAGTAATTCTGTAAATCGAGGGTA
1 GGGTAAAACGGTAATTCTATAAATCAAGGGT-AAAACAGTAATTCTGTAAATCGAGGGTA
58601689 CTTTGGTAAT
Statistics
Matches: 193, Mismatches: 23, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
79 1 0.01
80 70 0.36
81 97 0.50
82 25 0.13
ACGTcount: A:0.42, C:0.06, G:0.22, T:0.30
Consensus pattern (81 bp):
GGGTAAAACGGTAATTCTATAAATCAAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATAG
TAATTTTGTAAATCAA
Found at i:58601710 original size:27 final size:27
Alignment explanation
Indices: 58601680--58601786 Score: 119
Period size: 27 Copynumber: 4.0 Consensus size: 27
58601670 ATTCTGTAAA
*
58601680 TCGAGGGTACTTT-GGTAATTTTACAAG
1 TCGAGGGTA-TTTCAGTAATTTTACAAG
* *
58601707 TCGAAGGTATTTCAGTAATTTTACAGG
1 TCGAGGGTATTTCAGTAATTTTACAAG
* *
58601734 TCGAGGGTATTTCAGTAATTTCACAAA
1 TCGAGGGTATTTCAGTAATTTTACAAG
**
58601761 TC-AGAGGTATTTTGGTAATTTTACAA
1 TCGAG-GGTATTTCAGTAATTTTACAA
58601787 ACCAGGGGTA
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
26 5 0.07
27 63 0.93
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.37
Consensus pattern (27 bp):
TCGAGGGTATTTCAGTAATTTTACAAG
Found at i:58601739 original size:54 final size:54
Alignment explanation
Indices: 58601680--58601785 Score: 135
Period size: 54 Copynumber: 2.0 Consensus size: 54
58601670 ATTCTGTAAA
* * *
58601680 TCGAGGGTACTTT-GGTAATTTTACAAGTC-GAAGGTATTTCAGTAATTTTACAGG
1 TCGAGGGTA-TTTCAGTAATTTCACAAATCAG-AGGTATTTCAGTAATTTTACAGG
**
58601734 TCGAGGGTATTTCAGTAATTTCACAAATCAGAGGTATTTTGGTAATTTTACA
1 TCGAGGGTATTTCAGTAATTTCACAAATCAGAGGTATTTCAGTAATTTTACA
58601786 AACCAGGGGT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
53 3 0.07
54 41 0.91
55 1 0.02
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.38
Consensus pattern (54 bp):
TCGAGGGTATTTCAGTAATTTCACAAATCAGAGGTATTTCAGTAATTTTACAGG
Found at i:58601787 original size:27 final size:26
Alignment explanation
Indices: 58601677--58601805 Score: 114
Period size: 27 Copynumber: 4.8 Consensus size: 26
58601667 GTAATTCTGT
*
58601677 AAATCGAGGGTACTTTGGTAATTTTAC
1 AAATCGA-GGTATTTTGGTAATTTTAC
* **
58601704 AAGTCGAAGGTATTTCAGTAATTTTAC
1 AAATCG-AGGTATTTTGGTAATTTTAC
** ** *
58601731 AGGTCGAGGGTATTTCAGTAATTTCAC
1 AAATCGA-GGTATTTTGGTAATTTTAC
58601758 AAATCAGAGGTATTTTGGTAATTTTAC
1 AAATC-GAGGTATTTTGGTAATTTTAC
* *
58601785 AAACCAGGGGTATTTTGGTAA
1 AAATC-GAGGTATTTTGGTAA
58601806 CTGTATAACC
Statistics
Matches: 86, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.01
27 82 0.95
28 3 0.03
ACGTcount: A:0.31, C:0.11, G:0.22, T:0.36
Consensus pattern (26 bp):
AAATCGAGGTATTTTGGTAATTTTAC
Found at i:58601824 original size:27 final size:27
Alignment explanation
Indices: 58601767--58601832 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
58601757 CAAATCAGAG
* * * *
58601767 GTATTTTGGTAATTTTACAAACCAGGG
1 GTATTTTGGTAACTGTACAAACCAAGA
* *
58601794 GTATTTTGGTAACTGTATAACCCAAGA
1 GTATTTTGGTAACTGTACAAACCAAGA
58601821 GTATTTTGGTAA
1 GTATTTTGGTAA
58601833 TTCTACCCTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (27 bp):
GTATTTTGGTAACTGTACAAACCAAGA
Found at i:58603988 original size:46 final size:46
Alignment explanation
Indices: 58603913--58604084 Score: 188
Period size: 46 Copynumber: 3.7 Consensus size: 46
58603903 TGTAACCCGC
* * *
58603913 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCAT
* * * * *
58603959 CCATGAGTGAACTCGAAATCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C-ATTTGCAT
* * *
58604009 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCAT
58604052 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
58604085 TGGATGCTCA
Statistics
Matches: 102, Mismatches: 17, Indels: 14
0.77 0.13 0.11
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 56 0.55
47 26 0.25
48 3 0.03
49 2 0.02
50 5 0.05
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCAT
Found at i:58604079 original size:93 final size:93
Alignment explanation
Indices: 58603920--58604091 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
58603910 CGCCCATAAG
* * *
58603920 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATGAGTGAACTCGAAATCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAGTGAACTCGAAATCAACTCA
58603985 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * *
58604013 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAGTGAACTCGAAATCAACTCA
*
58604078 ACGAGTTTGGATGC
66 ACGAGTTCGGATGC
58604092 TCAACCATCC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAGTGAACTCGAAATCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:58610052 original size:46 final size:48
Alignment explanation
Indices: 58609980--58610102 Score: 151
Period size: 46 Copynumber: 2.6 Consensus size: 48
58609970 GACATTATAA
* * *
58609980 AAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCATTGAGAC-GA-
1 AAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACAGAC
* * * *
58610026 GAGCTAGTGTAAGATATGTCTGGGACATGCATCGGCCTCGAGACATAC
1 AAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACAGAC
* *
58610074 AAGCTAGTGTAAGACCTGTATGGGACATG
1 AAGCTAGTGTAAGACATGTCTGGGACATG
58610103 GCGTCAGCTT
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
46 38 0.59
47 1 0.02
48 25 0.39
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.22
Consensus pattern (48 bp):
AAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACAGAC
Found at i:58610201 original size:49 final size:49
Alignment explanation
Indices: 58610121--58610252 Score: 124
Period size: 49 Copynumber: 2.7 Consensus size: 49
58610111 TTGTTGTGTG
* * * * *
58610121 TCAGTGTAAGACCTGCCTAGGACATGGCATCGACACT-GATAGATGAGA-
1 TCAGTGTAAGACCTGTCTGGGACACGACATCGAC-CTCGATAGATGAAAT
* * *
58610169 TCTAGTGTAAGACCTGTCTGGGAGACGACATCGGCCTCGATATATGAAAT
1 TC-AGTGTAAGACCTGTCTGGGACACGACATCGACCTCGATAGATGAAAT
** * *
58610219 TCAACGTAAGACCTGTCTGGGACATGGCATCGAC
1 TCAGTGTAAGACCTGTCTGGGACACGACATCGAC
58610253 TTTGATGTGC
Statistics
Matches: 67, Mismatches: 14, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
48 4 0.06
49 61 0.91
50 2 0.03
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.23
Consensus pattern (49 bp):
TCAGTGTAAGACCTGTCTGGGACACGACATCGACCTCGATAGATGAAAT
Found at i:58610240 original size:142 final size:138
Alignment explanation
Indices: 58609984--58610246 Score: 314
Period size: 142 Copynumber: 1.9 Consensus size: 138
58609974 TTATAAAAGC
* * * *
58609984 CAGTGTAAGACATGTCTAGGACATGCATCGGCATTGAGACGAGAGCTAGTGTAAGATATGTCTGG
1 CAGTGTAAGACATGCCTAGGACATGCATCGACACTGAGACGAGAGCTAGTGTAAGACATGTCTGG
* **
58610049 GACATGCATCGGCCTCGAGACATACAAGCTAGTGTAAGACCTGTATGGGACATGGCGTCAGCTTG
66 GACACGCATCGGCCTCGAGACATACAAGCTAACGTAAGACCTGTATGGGACATGGCGTCAGCTTG
58610114 TTGTGTGT
131 TTGTGTGT
* * * *
58610122 CAGTGTAAGACCTGCCTAGGACATGGCATCGACACTGATAGATGAGATCTAGTGTAAGACCTGTC
1 CAGTGTAAGACATGCCTAGGACAT-GCATCGACACTG--AGACGAGAGCTAGTGTAAGACATGTC
* * * * *
58610187 TGGGAGACGACATCGGCCTCGATATATGA-AA-TTCAACGTAAGACCTGTCTGGGACATGGC
63 TGGGACACG-CATCGGCCTCGAGACAT-ACAAGCT-AACGTAAGACCTGTATGGGACATGGC
58610247 ATCGACTTTG
Statistics
Matches: 103, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
138 22 0.21
139 10 0.10
141 30 0.29
142 40 0.39
143 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (138 bp):
CAGTGTAAGACATGCCTAGGACATGCATCGACACTGAGACGAGAGCTAGTGTAAGACATGTCTGG
GACACGCATCGGCCTCGAGACATACAAGCTAACGTAAGACCTGTATGGGACATGGCGTCAGCTTG
TTGTGTGT
Found at i:58615699 original size:10 final size:10
Alignment explanation
Indices: 58615686--58615751 Score: 60
Period size: 10 Copynumber: 6.5 Consensus size: 10
58615676 AGCTCCCATC
*
58615686 AGCTCACTTG
1 AGCTCAATTG
*
58615696 AGCTCAATTT
1 AGCTCAATTG
*
58615706 AGCTCACTTG
1 AGCTCAATTG
*
58615716 AGCTCAATTC
1 AGCTCAATTG
**
58615726 AGCTCGTTTG
1 AGCTCAATTG
*
58615736 AGCTCGAATTT
1 AGCTC-AATTG
58615747 AGCTC
1 AGCTC
58615752 GTTTCAGCTC
Statistics
Matches: 43, Mismatches: 12, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
10 36 0.84
11 7 0.16
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (10 bp):
AGCTCAATTG
Found at i:58615709 original size:20 final size:20
Alignment explanation
Indices: 58615686--58615751 Score: 96
Period size: 20 Copynumber: 3.2 Consensus size: 20
58615676 AGCTCCCATC
58615686 AGCTCACTTGAGCTCAATTT
1 AGCTCACTTGAGCTCAATTT
*
58615706 AGCTCACTTGAGCTCAATTC
1 AGCTCACTTGAGCTCAATTT
**
58615726 AGCTCGTTTGAGCTCGAATTT
1 AGCTCACTTGAGCTC-AATTT
58615747 AGCTC
1 AGCTC
58615752 GTTTCAGCTC
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
20 32 0.78
21 9 0.22
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (20 bp):
AGCTCACTTGAGCTCAATTT
Found at i:58616746 original size:30 final size:31
Alignment explanation
Indices: 58616706--58616768 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 31
58616696 TGGTTTCATA
*
58616706 TTTCATATTTCATAACACT-GGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
58616736 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
58616767 TT
1 TT
58616769 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 16 0.55
31 13 0.45
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:58617011 original size:24 final size:24
Alignment explanation
Indices: 58616960--58617102 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
58616950 GCTTTATCAT
*
58616960 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
58616985 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
58617009 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
58617032 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
58617056 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
58617080 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
58617103 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:58617039 original size:47 final size:48
Alignment explanation
Indices: 58616960--58617101 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
58616950 GCTTTATCAT
* *
58616960 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
58617009 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
58617056 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
58617102 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Done.