Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008526.1 Hibiscus syriacus cultivar Beakdansim tig00111398_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3043201
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 12
Found at i:1300670 original size:54 final size:54
Alignment explanation
Indices: 1300540--1300670 Score: 183
Period size: 54 Copynumber: 2.4 Consensus size: 54
1300530 TCTGCATCAT
* * * *
1300540 ATTCGCGTTGCGATAGTCT-AATACACTTTGCGATTTTCTCGTTGCGATAGTCAA
1 ATTCGCGTTGCGATAGT-TAAATTCACGTTACGATTATCTCGTTGCGATAGTCAA
* * *
1300594 ATTCCCGTTGCGATAATCAAATTCACGTTACGATTATCTCGTTGCGATAGTCAA
1 ATTCGCGTTGCGATAGTTAAATTCACGTTACGATTATCTCGTTGCGATAGTCAA
1300648 ATTCGCGTTGCGATAGTTAAATT
1 ATTCGCGTTGCGATAGTTAAATT
1300671 TGCGTTGCGA
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
54 66 1.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (54 bp):
ATTCGCGTTGCGATAGTTAAATTCACGTTACGATTATCTCGTTGCGATAGTCAA
Found at i:1300711 original size:54 final size:54
Alignment explanation
Indices: 1300653--1300809 Score: 226
Period size: 54 Copynumber: 2.9 Consensus size: 54
1300643 GTCAAATTCG
** *
1300653 CGTTGCGATAGTTAAATTTGCGTTGCGATAGTCATTTTCGCATTGCGATTATCT
1 CGTTGCGATAGTTAAATTCACGTTGCGATAGTCATTTTCGCATTGCGATTATCC
* *
1300707 CGTTGCGATAGTCAAATTCACGTTGCGATAGTCATTTTTGCATTGCGATTATCC
1 CGTTGCGATAGTTAAATTCACGTTGCGATAGTCATTTTCGCATTGCGATTATCC
* * *
1300761 CGTTGCGATA-TTCAAATTCAAGTTGCGATAGTCATATTCGCGTTGCGAT
1 CGTTGCGATAGTT-AAATTCACGTTGCGATAGTCATTTTCGCATTGCGAT
1300810 AGTCAAATGA
Statistics
Matches: 92, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
53 1 0.01
54 91 0.99
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (54 bp):
CGTTGCGATAGTTAAATTCACGTTGCGATAGTCATTTTCGCATTGCGATTATCC
Found at i:1300747 original size:74 final size:74
Alignment explanation
Indices: 1300579--1300755 Score: 237
Period size: 74 Copynumber: 2.4 Consensus size: 74
1300569 GCGATTTTCT
** *
1300579 CGTTGCGATAGTCAAATTCCCGTTGCGATAATCAAATTCACGTTACGATTATCTCGTTGCGATAG
1 CGTTGCGATAGTCAAATTTGCGTTGCGATAATCAAATTCACATTACGATTATCTCGTTGCGATAG
*
1300644 TCAAATTCG
66 TCAAATTCA
* * ** * *
1300653 CGTTGCGATAGTTAAATTTGCGTTGCGATAGTCATTTTCGCATTGCGATTATCTCGTTGCGATAG
1 CGTTGCGATAGTCAAATTTGCGTTGCGATAATCAAATTCACATTACGATTATCTCGTTGCGATAG
1300718 TCAAATTCA
66 TCAAATTCA
** *
1300727 CGTTGCGATAGTCATTTTTGCATTGCGAT
1 CGTTGCGATAGTCAAATTTGCGTTGCGAT
1300756 TATCCCGTTG
Statistics
Matches: 89, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
74 89 1.00
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (74 bp):
CGTTGCGATAGTCAAATTTGCGTTGCGATAATCAAATTCACATTACGATTATCTCGTTGCGATAG
TCAAATTCA
Found at i:1303294 original size:24 final size:24
Alignment explanation
Indices: 1303267--1303320 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
1303257 TTGAAACATC
*
1303267 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* * *
1303291 ATCAAAGTTCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
1303315 ATCAAA
1 ATCAAA
1303321 TTTCAAATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:1304096 original size:20 final size:20
Alignment explanation
Indices: 1304068--1304174 Score: 153
Period size: 20 Copynumber: 5.3 Consensus size: 20
1304058 AATTCAGTGA
*
1304068 TGCGTTAGTCAGAATCGCGT
1 TGCGATAGTCAGAATCGCGT
**
1304088 TGCGATAGTCAGAATTTCGT
1 TGCGATAGTCAGAATCGCGT
1304108 TGCGATAGTCAGAATCGCGT
1 TGCGATAGTCAGAATCGCGT
*
1304128 TGCGATCACGT-ATAATCGCGT
1 TGCGAT-A-GTCAGAATCGCGT
1304149 TGCGATAGTCAGAATCGCGT
1 TGCGATAGTCAGAATCGCGT
1304169 TGCGAT
1 TGCGAT
1304175 CACGTGTTAT
Statistics
Matches: 77, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
19 2 0.03
20 57 0.74
21 16 0.21
22 2 0.03
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (20 bp):
TGCGATAGTCAGAATCGCGT
Found at i:1304146 original size:21 final size:21
Alignment explanation
Indices: 1304120--1304195 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 21
1304110 CGATAGTCAG
1304120 AATCGCGTTGCGATCACGTAT
1 AATCGCGTTGCGATCACGTAT
*
1304141 AATCGCGTTGCGAT-A-GTCAG
1 AATCGCGTTGCGATCACGT-AT
*
1304161 AATCGCGTTGCGATCACGTGT
1 AATCGCGTTGCGATCACGTAT
*
1304182 TATCGCGTTGCGAT
1 AATCGCGTTGCGAT
1304196 TTACATATTC
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.04
20 16 0.33
21 28 0.58
22 2 0.04
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (21 bp):
AATCGCGTTGCGATCACGTAT
Found at i:1304215 original size:41 final size:41
Alignment explanation
Indices: 1304068--1304195 Score: 179
Period size: 41 Copynumber: 3.1 Consensus size: 41
1304058 AATTCAGTGA
* * **
1304068 TGCGTTAGTCAGAATCGCGTTGCGAT-A-GTCAGAATTTCGT
1 TGCGATAGTCAGAATCGCGTTGCGATCACGT-ATAATCGCGT
1304108 TGCGATAGTCAGAATCGCGTTGCGATCACGTATAATCGCGT
1 TGCGATAGTCAGAATCGCGTTGCGATCACGTATAATCGCGT
* *
1304149 TGCGATAGTCAGAATCGCGTTGCGATCACGTGTTATCGCGT
1 TGCGATAGTCAGAATCGCGTTGCGATCACGTATAATCGCGT
1304190 TGCGAT
1 TGCGAT
1304196 TTACATATTC
Statistics
Matches: 80, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
40 25 0.31
41 53 0.66
42 2 0.03
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (41 bp):
TGCGATAGTCAGAATCGCGTTGCGATCACGTATAATCGCGT
Found at i:1304538 original size:7 final size:7
Alignment explanation
Indices: 1304526--1304575 Score: 91
Period size: 7 Copynumber: 7.1 Consensus size: 7
1304516 AGAGGAAGAG
1304526 GAAGGGA
1 GAAGGGA
1304533 GAAGGGA
1 GAAGGGA
1304540 GAAGGGA
1 GAAGGGA
1304547 GAAGGGA
1 GAAGGGA
*
1304554 GAATGGA
1 GAAGGGA
1304561 GAAGGGA
1 GAAGGGA
1304568 GAAGGGA
1 GAAGGGA
1304575 G
1 G
1304576 GGATTTATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 41 1.00
ACGTcount: A:0.42, C:0.00, G:0.56, T:0.02
Consensus pattern (7 bp):
GAAGGGA
Found at i:1317768 original size:15 final size:15
Alignment explanation
Indices: 1317745--1317787 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
1317735 TTTAATAATT
1317745 ATAAAAATTTATAAA
1 ATAAAAATTTATAAA
*
1317760 ATAATAATTTAT-AA
1 ATAAAAATTTATAAA
* *
1317774 TTAAAAAATTATAA
1 ATAAAAATTTATAA
1317788 CTTTTAATAG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
ATAAAAATTTATAAA
Found at i:1324288 original size:25 final size:26
Alignment explanation
Indices: 1324260--1324318 Score: 79
Period size: 25 Copynumber: 2.3 Consensus size: 26
1324250 AATTAAAATT
1324260 AAATATATTTAATAAGTTAAGA-A-AA
1 AAATATATTTAA-AAGTTAAGATATAA
*
1324285 AAATATTTTTAAAAGTTAAGATATAA
1 AAATATATTTAAAAGTTAAGATATAA
1324311 AAA-ATATT
1 AAATATATT
1324319 ATGAGTTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 9 0.30
25 16 0.53
26 5 0.17
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.36
Consensus pattern (26 bp):
AAATATATTTAAAAGTTAAGATATAA
Found at i:1326978 original size:16 final size:16
Alignment explanation
Indices: 1326948--1326981 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
1326938 TATTTTAACA
1326948 ATATGAAAATAAAAAT
1 ATATGAAAATAAAAAT
1326964 ATAT-AAAATATAAAAT
1 ATATGAAAATA-AAAAT
1326980 AT
1 AT
1326982 TATATATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (16 bp):
ATATGAAAATAAAAAT
Found at i:1327390 original size:2 final size:2
Alignment explanation
Indices: 1327346--1327370 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1327336 AGTTTAAACA
1327346 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1327371 ACGGATAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1330858 original size:45 final size:46
Alignment explanation
Indices: 1330803--1330909 Score: 182
Period size: 46 Copynumber: 2.4 Consensus size: 46
1330793 AATAAGATAA
*
1330803 AATAT-CTTACCATTTA-TCCCATAAGCTCGTAAGCTTATTTTACC
1 AATATACTTACCATTTATTACCATAAGCTCGTAAGCTTATTTTACC
1330847 AATATACTTACCATTTATTACCATAAGCTCGTAAGCTTATTTTACC
1 AATATACTTACCATTTATTACCATAAGCTCGTAAGCTTATTTTACC
*
1330893 AATATATTTACCATTTA
1 AATATACTTACCATTTA
1330910 GGGGGTGTTT
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
44 5 0.08
45 11 0.19
46 43 0.73
ACGTcount: A:0.33, C:0.21, G:0.06, T:0.40
Consensus pattern (46 bp):
AATATACTTACCATTTATTACCATAAGCTCGTAAGCTTATTTTACC
Found at i:1330892 original size:24 final size:24
Alignment explanation
Indices: 1330821--1330893 Score: 66
Period size: 24 Copynumber: 3.1 Consensus size: 24
1330811 ACCATTTATC
1330821 CCATAAGCTCGTAAGCTTATTTTA
1 CCATAAGCTCGTAAGCTTATTTTA
* *
1330845 CCAATATA-CT--T-ACCATT-TATTA
1 CC-ATA-AGCTCGTAAGC-TTATTTTA
1330867 CCATAAGCTCGTAAGCTTATTTTA
1 CCATAAGCTCGTAAGCTTATTTTA
1330891 CCA
1 CCA
1330894 ATATATTTAC
Statistics
Matches: 37, Mismatches: 4, Indels: 16
0.65 0.07 0.28
Matches are distributed among these distances:
20 1 0.03
21 5 0.14
22 8 0.22
23 6 0.16
24 11 0.30
25 5 0.14
26 1 0.03
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.37
Consensus pattern (24 bp):
CCATAAGCTCGTAAGCTTATTTTA
Found at i:1331370 original size:37 final size:37
Alignment explanation
Indices: 1331294--1331370 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
1331284 TTTTTATATT
*
1331294 TTTAATTTTGTAAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
* * *
1331331 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTAT-CAA
1331368 TTT
1 TTT
1331371 GTAATATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 13 0.37
37 22 0.63
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (37 bp):
TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
Found at i:1331642 original size:46 final size:46
Alignment explanation
Indices: 1331570--1331791 Score: 383
Period size: 46 Copynumber: 4.8 Consensus size: 46
1331560 AAACGCACCC
1331570 TTAAT-CCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCAT
1 TTAATACCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCAT
* *
1331615 TTATTACCATAAGTTCGTAAGCTTATTTTACCAATATACTTACCAT
1 TTAATACCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCAT
*
1331661 TTAATCCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCAT
1 TTAATACCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCAT
* *
1331707 TTATTACCATAAGTTCGTAAGCTTATTTTACCAATATACTTACCAT
1 TTAATACCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCAT
*
1331753 TTAATCCCATAAGCTCGTAAGCTTATTTTACCAATATAC
1 TTAATACCATAAGCTCGTAAGCTTATTTTACCAATATAC
1331792 CATAAATCAT
Statistics
Matches: 165, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
45 4 0.02
46 161 0.98
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.39
Consensus pattern (46 bp):
TTAATACCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCAT
Found at i:1331683 original size:92 final size:92
Alignment explanation
Indices: 1331570--1331791 Score: 437
Period size: 92 Copynumber: 2.4 Consensus size: 92
1331560 AAACGCACCC
1331570 TTAAT-CCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTTATTACCATAAGTTCGTA
1 TTAATCCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTTATTACCATAAGTTCGTA
1331634 AGCTTATTTTACCAATATACTTACCAT
66 AGCTTATTTTACCAATATACTTACCAT
1331661 TTAATCCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTTATTACCATAAGTTCGTA
1 TTAATCCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTTATTACCATAAGTTCGTA
1331726 AGCTTATTTTACCAATATACTTACCAT
66 AGCTTATTTTACCAATATACTTACCAT
1331753 TTAATCCCATAAGCTCGTAAGCTTATTTTACCAATATAC
1 TTAATCCCATAAGCTCGTAAGCTTATTTTACCAATATAC
1331792 CATAAATCAT
Statistics
Matches: 130, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
91 5 0.04
92 125 0.96
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.39
Consensus pattern (92 bp):
TTAATCCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTTATTACCATAAGTTCGTA
AGCTTATTTTACCAATATACTTACCAT
Found at i:1331923 original size:40 final size:40
Alignment explanation
Indices: 1331844--1331924 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 40
1331834 ATAGAAGTCA
* * * *
1331844 AATATTGCACCGAAGTGCTGAGATCGAGTTTTGCTCACCT
1 AATAATGCACCGAAGTGCTGAGATCGAGATTTACCCACCT
* * *
1331884 AATAATGCACCGTAGTGCTGAGGTCGGGATTTACCCACCT
1 AATAATGCACCGAAGTGCTGAGATCGAGATTTACCCACCT
1331924 A
1 A
1331925 GTACACTGTA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.27
Consensus pattern (40 bp):
AATAATGCACCGAAGTGCTGAGATCGAGATTTACCCACCT
Found at i:1332941 original size:29 final size:30
Alignment explanation
Indices: 1332875--1332942 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
1332865 AACAACCCAT
*
1332875 CAATTTTCCAAAATTTACGAATTGATCTCC
1 CAATTTTTCAAAATTTACGAATTGATCTCC
* * *
1332905 CAACTTTTCAAAATTTATG-ATATGGTC-CC
1 CAATTTTTCAAAATTTACGAAT-TGATCTCC
1332934 CAATTTTTC
1 CAATTTTTC
1332943 TAAGACTTGT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
29 12 0.38
30 20 0.62
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.40
Consensus pattern (30 bp):
CAATTTTTCAAAATTTACGAATTGATCTCC
Found at i:1338577 original size:21 final size:21
Alignment explanation
Indices: 1338535--1338577 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
1338525 TTTTTGGGCT
* * *
1338535 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
1338556 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
1338577 A
1 A
1338578 CGAATATGGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:1339308 original size:149 final size:150
Alignment explanation
Indices: 1339119--1339434 Score: 573
Period size: 150 Copynumber: 2.1 Consensus size: 150
1339109 GGGTAGAGGG
* *
1339119 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTT-GAAAGACACA
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
*
1339183 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATTATT
66 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
1339248 ATATGGCACTACGGTGCAAT
131 ATATGGCACTACGGTGCAAT
*
1339268 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
1339333 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
66 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
1339398 ATATGGCACTACGGTGCAAT
131 ATATGGCACTACGGTGCAAT
1339418 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
1339435 TGCATTTATA
Statistics
Matches: 161, Mismatches: 4, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
149 52 0.32
150 109 0.68
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (150 bp):
TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
ATATGGCACTACGGTGCAAT
Found at i:1339446 original size:23 final size:23
Alignment explanation
Indices: 1339402--1339446 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1339392 ATCATTATAT
*
1339402 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
* *
1339425 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
1339447 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:1345522 original size:21 final size:21
Alignment explanation
Indices: 1345480--1345522 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
1345470 TTTTTGGGCT
* * *
1345480 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
1345501 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
1345522 A
1 A
1345523 CGAATATGGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:1346256 original size:149 final size:150
Alignment explanation
Indices: 1346064--1346379 Score: 564
Period size: 150 Copynumber: 2.1 Consensus size: 150
1346054 GGGTAGAGGG
* *
1346064 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTT-GAAAGACACA
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
*
1346128 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATTATT
66 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
1346193 ATATGGCACTACGGTGCAAT
131 ATATGGCACTACGGTGCAAT
* *
1346213 TCTACGCGGTCCTTCGTGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
1346278 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
66 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
1346343 ATATGGCACTACGGTGCAAT
131 ATATGGCACTACGGTGCAAT
1346363 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
1346380 TGCATTTATA
Statistics
Matches: 159, Mismatches: 6, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
149 51 0.32
150 108 0.68
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (150 bp):
TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
ATATGGCACTACGGTGCAAT
Found at i:1346391 original size:23 final size:23
Alignment explanation
Indices: 1346347--1346391 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1346337 ATCATTATAT
*
1346347 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
* *
1346370 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
1346392 AACTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:1347708 original size:60 final size:59
Alignment explanation
Indices: 1347630--1347817 Score: 218
Period size: 60 Copynumber: 3.1 Consensus size: 59
1347620 ATCATATGTC
*
1347630 CCCAAATTATAACTCTCATTTTAAATTGGTCCTTAAACTTTTGAATAATCTAATTTCAT
1 CCCAAATTATGACTCTCATTTTAAATTGGTCCTTAAACTTTTGAATAATCTAATTTCAT
* ** * * *
1347689 CCTCAAACTATGACTCTCATCCTAAATTAGTACTTAAACTTTTGAA-AATTCTAATTTTAT
1 CC-CAAATTATGACTCTCATTTTAAATTGGTCCTTAAACTTTTGAATAA-TCTAATTTCAT
* * * *
1347749 CCCTAAATTATGACCCTC-TTTCTAAATTGGTCCTCAAACTTTTGAATATTCTAATTCCAT
1 CCC-AAATTATGACTCTCATTT-TAAATTGGTCCTTAAACTTTTGAATAATCTAATTTCAT
1347809 CCCCAAATT
1 -CCCAAATT
1347818 CATCGAAATA
Statistics
Matches: 106, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
59 6 0.06
60 96 0.91
61 4 0.04
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.40
Consensus pattern (59 bp):
CCCAAATTATGACTCTCATTTTAAATTGGTCCTTAAACTTTTGAATAATCTAATTTCAT
Found at i:1348052 original size:60 final size:60
Alignment explanation
Indices: 1347949--1348127 Score: 184
Period size: 60 Copynumber: 3.0 Consensus size: 60
1347939 ATAGTTTGGG
* * * *
1347949 ATGAAATTGGAATGTTCAAAAAGTTTGGGGACCAATTTAGAATGAAGGTCATATTTTGAGA
1 ATGAAATTGAAATGTTC-AAAAGTTTGAGGACTAATTTAGAATGAAGGTCATATTTTAAGA
* * * *
1348010 ATGAAATTGAAATGTTCAAAAGTTTGAGGACTAATTTAGAATGATA-GTCACAATCTAAGG
1 ATGAAATTGAAATGTTCAAAAGTTTGAGGACTAATTTAGAATGA-AGGTCATATTTTAAGA
* * * * *
1348070 ATGAAATTAAAATATTTAAAAG-TTCAGGGACTAATTTAAAATG-AGAGTCATATTTTAA
1 ATGAAATTGAAATGTTCAAAAGTTTGA-GGACTAATTTAGAATGAAG-GTCATATTTTAA
1348128 AGACATATCA
Statistics
Matches: 98, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
58 1 0.01
59 3 0.03
60 77 0.79
61 17 0.17
ACGTcount: A:0.42, C:0.07, G:0.20, T:0.32
Consensus pattern (60 bp):
ATGAAATTGAAATGTTCAAAAGTTTGAGGACTAATTTAGAATGAAGGTCATATTTTAAGA
Found at i:1349365 original size:11 final size:11
Alignment explanation
Indices: 1349349--1349373 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1349339 TTGACTATTG
1349349 TATTTATTCAT
1 TATTTATTCAT
1349360 TATTTATTCAT
1 TATTTATTCAT
1349371 TAT
1 TAT
1349374 GTAAATTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (11 bp):
TATTTATTCAT
Found at i:1362984 original size:23 final size:23
Alignment explanation
Indices: 1362951--1363013 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
1362941 ACTATTATAT
1362951 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
1362974 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
* *
1362997 GGCACTTCGGTACAATT
1 GGCACTACGGTGCAATT
1363014 ATATGAGCTG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.21, C:0.29, G:0.25, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:1363226 original size:16 final size:18
Alignment explanation
Indices: 1363191--1363227 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
1363181 TGTATGTGAT
*
1363191 ATATGTATATGATTTGTG
1 ATATGTATATGATGTGTG
1363209 ATATG-ATAT-ATGTGTG
1 ATATGTATATGATGTGTG
1363225 ATA
1 ATA
1363228 GGGGTTATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 9 0.50
17 4 0.22
18 5 0.28
ACGTcount: A:0.32, C:0.00, G:0.22, T:0.46
Consensus pattern (18 bp):
ATATGTATATGATGTGTG
Found at i:1375619 original size:40 final size:40
Alignment explanation
Indices: 1375569--1375648 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
1375559 GGTCCAAAAG
*
1375569 TGCACGAGAAAAATGATCCAATAGTCAAAAAGTAAGCTAT
1 TGCACAAGAAAAATGATCCAATAGTCAAAAAGTAAGCTAT
*
1375609 TGCACAAGAAAAATGTTCCAATAGTCAAAAAGTAAGCTAT
1 TGCACAAGAAAAATGATCCAATAGTCAAAAAGTAAGCTAT
1375649 CATTGATACA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.47, C:0.15, G:0.16, T:0.21
Consensus pattern (40 bp):
TGCACAAGAAAAATGATCCAATAGTCAAAAAGTAAGCTAT
Found at i:1379384 original size:124 final size:124
Alignment explanation
Indices: 1379164--1379489 Score: 537
Period size: 124 Copynumber: 2.6 Consensus size: 124
1379154 TGTAGTGTTT
* * * *
1379164 AAACTCAGGGTCTTAATAAATAACAATAATTCCATAATTATTAAGGTCGTTGATATCGTACCAAA
1 AAACTCTGGATCTCAATGAATAACAATAATTCCATAATTATTAAGGTCGTTGATATCGTACCAAA
1379229 CTAAGGATGTTTAAAAATTCTTAATCATTTTATATTAAACTTTCATATACGTTGTGCTC
66 CTAAGGATGTTTAAAAATTCTTAATCATTTTATATTAAACTTTCATATACGTTGTGCTC
1379288 AAACTCTGGATCTCAATGAATAACAATAATTCCATAATTATTAAGGTCGTTGATATCGTACCAAA
1 AAACTCTGGATCTCAATGAATAACAATAATTCCATAATTATTAAGGTCGTTGATATCGTACCAAA
1379353 CTAAGGATGTTTAAAAATTCTTAATCATTTTATATTAAACTTTCATATACGTTGTGCTC
66 CTAAGGATGTTTAAAAATTCTTAATCATTTTATATTAAACTTTCATATACGTTGTGCTC
** * * * *
1379412 AAACTCTGGATCTCAATGAATAACAATAATT-CATTAACCATTGAGGTCATTGGTATCGTGCCAA
1 AAACTCTGGATCTCAATGAATAACAATAATTCCA-TAATTATTAAGGTCGTTGATATCGTACCAA
*
1379476 ACTAAGAATGTTTA
65 ACTAAGGATGTTTA
1379490 TTTTTTTTAA
Statistics
Matches: 190, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
123 2 0.01
124 188 0.99
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (124 bp):
AAACTCTGGATCTCAATGAATAACAATAATTCCATAATTATTAAGGTCGTTGATATCGTACCAAA
CTAAGGATGTTTAAAAATTCTTAATCATTTTATATTAAACTTTCATATACGTTGTGCTC
Found at i:1387738 original size:7 final size:7
Alignment explanation
Indices: 1387726--1387753 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
1387716 AACAATTTGT
1387726 ACTATGA
1 ACTATGA
1387733 ACTATGA
1 ACTATGA
1387740 ACTATGA
1 ACTATGA
1387747 ACTATGA
1 ACTATGA
1387754 GAAGTGAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (7 bp):
ACTATGA
Found at i:1392232 original size:12 final size:13
Alignment explanation
Indices: 1392215--1392244 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
1392205 TATTTTCCTA
1392215 TCTTTTCTCC-CC
1 TCTTTTCTCCACC
1392227 TCTTTTCTCCACC
1 TCTTTTCTCCACC
1392240 TCTTT
1 TCTTT
1392245 ATTTTCTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.03, C:0.43, G:0.00, T:0.53
Consensus pattern (13 bp):
TCTTTTCTCCACC
Found at i:1393798 original size:18 final size:18
Alignment explanation
Indices: 1393777--1393827 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
1393767 ATTATATATC
* *
1393777 TGTTTAATATTTAAATGG
1 TGTTTAAAATTTAAATAG
*
1393795 TG-TTACACATTTAAATAG
1 TGTTTA-AAATTTAAATAG
1393813 TGCTTTAAAATTTAA
1 TG-TTTAAAATTTAA
1393828 TGTGTTTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
17 3 0.11
18 14 0.52
19 7 0.26
20 3 0.11
ACGTcount: A:0.37, C:0.06, G:0.12, T:0.45
Consensus pattern (18 bp):
TGTTTAAAATTTAAATAG
Found at i:1394934 original size:282 final size:282
Alignment explanation
Indices: 1394430--1394997 Score: 920
Period size: 282 Copynumber: 2.0 Consensus size: 282
1394420 TCTTACATTC
* *
1394430 CTATCAAATACACCAAACAAGTTAGTGTAATATTCCTAGCAATGTGTCAAGTAATATTACATTTC
1 CTATCAAATACACCAAACAAGTTAGTGTAATATTCCCAACAATGTGTCAAGTAATATTACATTTC
* * *
1394495 AAGGATCCTATTCCCTGAGGTAGTAATACATTCTGTGAACCAAACGCCCCCTAATGGTACTTCCT
66 AAGAATCCTATTCCCAGAGGTAGTAATACATCCTGTGAACCAAACGCCCCCTAATGGTACTTCCT
*
1394560 CTTCCTAGTGGTGATGTTTCATATGTTTAATGTGAAAGATTTATGAAACCTTTTAGAAATCTTAA
131 CTTCCTAGTGGTGATGTTTCATATGTTTAATGTGAAAGATTTATGAAACCTTTTAGAAATCTGAA
* *
1394625 ATGGGTGGTGGAGTGTGAAGATGCTATTTTTAATGTATAATATCTTTATGTATAAAAAGAATTTA
196 ATGGGTGGTGAAGTGAGAAGATGCTATTTTTAATGTATAATATCTTTATGTATAAAAAGAATTTA
*
1394690 GTTACCACTTCTATTTTGTTTT
261 GTTACCACTTCTATTTTGTTTG
* *
1394712 CTATCAAATACACCAAACAAGTTAGTGTAATATTCCCAATAATGTGTCAAGTAATGTTACATTTC
1 CTATCAAATACACCAAACAAGTTAGTGTAATATTCCCAACAATGTGTCAAGTAATATTACATTTC
* * * * *
1394777 AAGAATCCTATTCCCAGAGGTAGTCATACATCCTTTGAACCAAACTCCCCCTAATTGTATTTCCT
66 AAGAATCCTATTCCCAGAGGTAGTAATACATCCTGTGAACCAAACGCCCCCTAATGGTACTTCCT
* *
1394842 CTTCCTAGTGGTGATGTTTCATATGTTTAATGTGAAAGATTTGTTAAACCTTTTAGAAATCTGAA
131 CTTCCTAGTGGTGATGTTTCATATGTTTAATGTGAAAGATTTATGAAACCTTTTAGAAATCTGAA
* ** * *
1394907 ATGGGTGGTGAAGTGAGAGGATGCTATTTTTAATGTATGGTATCTTTATTTATAATAAGAATTTA
196 ATGGGTGGTGAAGTGAGAAGATGCTATTTTTAATGTATAATATCTTTATGTATAAAAAGAATTTA
*
1394972 GTTACCACTTCTGTTTTGTTTG
261 GTTACCACTTCTATTTTGTTTG
1394994 CTAT
1 CTAT
1394998 ACTTACATTA
Statistics
Matches: 262, Mismatches: 24, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
282 262 1.00
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (282 bp):
CTATCAAATACACCAAACAAGTTAGTGTAATATTCCCAACAATGTGTCAAGTAATATTACATTTC
AAGAATCCTATTCCCAGAGGTAGTAATACATCCTGTGAACCAAACGCCCCCTAATGGTACTTCCT
CTTCCTAGTGGTGATGTTTCATATGTTTAATGTGAAAGATTTATGAAACCTTTTAGAAATCTGAA
ATGGGTGGTGAAGTGAGAAGATGCTATTTTTAATGTATAATATCTTTATGTATAAAAAGAATTTA
GTTACCACTTCTATTTTGTTTG
Found at i:1403633 original size:16 final size:16
Alignment explanation
Indices: 1403612--1403642 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1403602 GATATTAGCA
1403612 CTCTAAATGTAACTTT
1 CTCTAAATGTAACTTT
*
1403628 CTCTAATTGTAACTT
1 CTCTAAATGTAACTT
1403643 AGGCGTCAGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.19, G:0.06, T:0.45
Consensus pattern (16 bp):
CTCTAAATGTAACTTT
Found at i:1406055 original size:14 final size:14
Alignment explanation
Indices: 1406036--1406065 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
1406026 TAAATGTATG
1406036 TATTCTATCATCTT
1 TATTCTATCATCTT
1406050 TATTCTATCATCTT
1 TATTCTATCATCTT
1406064 TA
1 TA
1406066 CCGTAAGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (14 bp):
TATTCTATCATCTT
Found at i:1418443 original size:21 final size:20
Alignment explanation
Indices: 1418357--1418514 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 20
1418347 AAATGACCAA
**
1418357 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
1418376 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
1418396 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
1418416 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * * *
1418437 GAAAATCGCGATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
1418458 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
1418478 CAATAATCGCAACGCGAATAT
1 CAA-AATCGCAACGCGATTTT
*
1418499 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
1418515 ACACATAAAT
Statistics
Matches: 102, Mismatches: 31, Indels: 11
0.71 0.22 0.08
Matches are distributed among these distances:
19 16 0.16
20 42 0.41
21 44 0.43
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:1418507 original size:20 final size:20
Alignment explanation
Indices: 1418482--1418792 Score: 79
Period size: 20 Copynumber: 15.5 Consensus size: 20
1418472 GATTTTCAAT
* *
1418482 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACA-CATA
1418502 AATCGCAACGCGAACACATA
1 AATCGCAACGCGAACACATA
* *
1418522 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
1418542 AATCGCAACGTGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* ****
1418562 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGAACACATA
* * *
1418582 AATCGCAATGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
1418602 TATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
** *
1418622 AATCGCAACGATAATACATAA
1 AATCGCAACGCGAACACAT-A
* *
1418643 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
1418663 AATCGCAACGTGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* *
1418683 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
1418703 AATCGCAATGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* *
1418723 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
** *
1418743 AATCGCAACGATAATC-CGTA
1 AATCGCAACGCGAA-CACATA
* *
1418763 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
1418783 AATCGCAACG
1 AATCGCAACG
1418793 ATAATCCGTA
Statistics
Matches: 244, Mismatches: 38, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
19 3 0.01
20 224 0.92
21 16 0.07
22 1 0.00
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGAACACATA
Found at i:1418527 original size:40 final size:40
Alignment explanation
Indices: 1418482--1418871 Score: 439
Period size: 40 Copynumber: 9.7 Consensus size: 40
1418472 GATTTTCAAT
* ** * * *
1418482 AATCGCAACGCGAATATGAAAATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGTAAC-CGTA
* *
1418522 AATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGTAACCGTA
** * * *
1418562 AATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGTAACCGTA
* * *
1418602 TATCGCAACGCGTATCCGTAAATCGCAACGA-TAATACATAA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGTAA-CCGT-A
* *
1418643 AATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGTAACCGTA
* * *
1418683 AATCGCAACGCGTATCCGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGTAACCGTA
1418723 AATCGCAACGCGTATCCGTAAATCGCAACGA-TAATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGTAA-CCGTA
1418763 AATCGCAACGCGTATCCGTAAATCGCAACGA-TAATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGTAA-CCGTA
* * *
1418803 AATCGCAACGAGAATCTGTAAATCGCAACGA-TAATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGTAA-CCGTA
* * * *
1418843 AATCGCAACGAGAATCTGTAAATCACAAC
1 AATCGCAACGCGTATCCGTAAATCGCAAC
1418872 ACTGAAATTT
Statistics
Matches: 312, Mismatches: 33, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
39 4 0.01
40 272 0.87
41 34 0.11
42 2 0.01
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.20
Consensus pattern (40 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGAGTAACCGTA
Found at i:1418799 original size:20 final size:19
Alignment explanation
Indices: 1418520--1418871 Score: 398
Period size: 20 Copynumber: 17.6 Consensus size: 19
1418510 CGCGAACACA
1418520 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACG-GTATCCG
1418540 TAAATCGCAACGTGTATCCG
1 TAAATCGCAACG-GTATCCG
**
1418560 TAAATCGCAACGCGTATGGG
1 TAAATCGCAACG-GTATCCG
*
1418580 TAAATCGCAATGCGTATCCG
1 TAAATCGCAACG-GTATCCG
*
1418600 TATATCGCAACGCGTATCCG
1 TAAATCGCAACG-GTATCCG
* * *
1418620 TAAATCGCAACGATAATACA
1 TAAATCGCAACGGT-ATCCG
1418640 TAAAATCGCAACGCGTATCCG
1 T-AAATCGCAACG-GTATCCG
1418661 TAAATCGCAACGTGTATCCG
1 TAAATCGCAACG-GTATCCG
1418681 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACG-GTATCCG
*
1418701 TAAATCGCAATGCGTATCCG
1 TAAATCGCAACG-GTATCCG
1418721 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACG-GTATCCG
*
1418741 TAAATCGCAACGATAATCCG
1 TAAATCGCAACGGT-ATCCG
1418761 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACG-GTATCCG
*
1418781 TAAATCGCAACGATAATCCG
1 TAAATCGCAACGGT-ATCCG
* *
1418801 TAAATCGCAACGAGAATCTG
1 TAAATCGCAACG-GTATCCG
*
1418821 TAAATCGCAACGATAATCCG
1 TAAATCGCAACGGT-ATCCG
* *
1418841 TAAATCGCAACGAGAATCTG
1 TAAATCGCAACG-GTATCCG
*
1418861 TAAATCACAAC
1 TAAATCGCAAC
1418872 ACTGAAATTT
Statistics
Matches: 290, Mismatches: 33, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
19 3 0.01
20 270 0.93
21 16 0.06
22 1 0.00
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (19 bp):
TAAATCGCAACGGTATCCG
Found at i:1419587 original size:24 final size:24
Alignment explanation
Indices: 1419548--1419594 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
1419538 AAATTTGGTC
1419548 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
1419572 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
1419595 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:1419786 original size:12 final size:12
Alignment explanation
Indices: 1419769--1419793 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1419759 ATATAATCCT
1419769 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1419781 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1419793 G
1 G
1419794 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:1422097 original size:19 final size:19
Alignment explanation
Indices: 1422075--1422347 Score: 345
Period size: 19 Copynumber: 15.4 Consensus size: 19
1422065 CGGAAAATAC
*
1422075 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1422094 AATCCCAA--C---ATG-A
1 AATCGCAATGCGAAATGAA
1422107 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
1422127 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
1422141 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1422160 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1422179 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
1422193 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1422212 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1422231 AATCGCAATGCGAAATGGA
1 AATCGCAATGCGAAATGAA
1422250 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1422269 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1422288 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
1422302 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1422321 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1422340 AATCGCAA
1 AATCGCAA
1422348 CGAGATAATC
Statistics
Matches: 224, Mismatches: 8, Indels: 44
0.81 0.03 0.16
Matches are distributed among these distances:
13 8 0.04
14 31 0.14
15 3 0.01
16 10 0.04
17 10 0.04
18 3 0.01
19 150 0.67
20 9 0.04
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:1422126 original size:33 final size:33
Alignment explanation
Indices: 1422075--1422369 Score: 133
Period size: 33 Copynumber: 8.5 Consensus size: 33
1422065 CGGAAAATAC
*
1422075 AATCGCAACGCGAAATGAAAATCCCAAC-ATGA-
1 AATCGCAATGCGAAATGAAAATCCCAACGA-GAG
*
1422107 AATCGCAATGCGGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGC-GAAATGAAAATCCCAACGAGAG
* * *
1422141 AATCGCAATGCGAAATGAAAATCGCAATGCGA-
1 AATCGCAATGCGAAATGAAAATCCCAACGAGAG
* * * * *
1422173 AAT-GAAAAT-CGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCG-CAATGCGAAATGA-A-AATCCCAA--CG--A-GAG
* *
1422212 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGG
1 AATCGCAATGCGAAATGAAAATCCCAA--CGAGA--G
* *
1422249 AAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 -AATCGCAATGCGAAATGAAAATCCCAA--CG--A-GAG
* *
1422288 AATCGCAA--CGAAA-G--AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCCCAA--CG--A-GAG
* *
1422321 AATCGCAATGCGAAATGAAAATCGCAACGAGAT
1 AATCGCAATGCGAAATGAAAATCCCAACGAGAG
1422354 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
1422370 TATAAACGCA
Statistics
Matches: 221, Mismatches: 17, Indels: 49
0.77 0.06 0.17
Matches are distributed among these distances:
31 7 0.03
32 17 0.08
33 90 0.41
34 13 0.06
35 8 0.04
36 9 0.04
38 61 0.28
39 7 0.03
40 8 0.04
41 1 0.00
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCCCAACGAGAG
Found at i:1422275 original size:109 final size:105
Alignment explanation
Indices: 1422106--1422369 Score: 451
Period size: 109 Copynumber: 2.5 Consensus size: 105
1422096 TCCCAACATG
1422106 AAATCGCAATGCGGAAATGAAAATCGCAACGAGA-GAATCGCAATGCGAAATGAAAATCGCAATG
1 AAATCGCAATGC-GAAATGAAAATCGCAACGAGATGAATCGCAATGCGAAATGAAAATCGCAATG
*
1422170 CGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGA
65 CGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGA
*
1422211 AAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGGAAATCGCAATGCGAAATGAAAATCGCA
1 AAATCGCAATGCGAAATGAAAATCGCAA--CGAGAT-G-AATCGCAATGCGAAATGAAAATCGCA
1422276 ATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGA
62 ATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGA
1422320 AAATCGCAATGCGAAATGAAAATCGCAACGAGAT-AATCGCAATGCGAAAT
1 AAATCGCAATGCGAAATGAAAATCGCAACGAGATGAATCGCAATGCGAAAT
1422370 TATAAACGCA
Statistics
Matches: 151, Mismatches: 3, Indels: 11
0.92 0.02 0.07
Matches are distributed among these distances:
104 32 0.21
105 12 0.08
106 4 0.03
107 5 0.03
108 1 0.01
109 97 0.64
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (105 bp):
AAATCGCAATGCGAAATGAAAATCGCAACGAGATGAATCGCAATGCGAAATGAAAATCGCAATGC
GAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGA
Found at i:1422385 original size:52 final size:52
Alignment explanation
Indices: 1422106--1422369 Score: 447
Period size: 52 Copynumber: 5.0 Consensus size: 52
1422096 TCCCAACATG
1422106 AAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGA
1 AAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGA
1422159 AAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGA
1 AAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGA
*
1422211 AAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGGAAATCGCAATGCGAAATGA
1 AAATCGCAATGCGAAATGAAAATCGCAA--CGAGA--G-AATCGCAATGCGAAATGA
*
1422268 AAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGA
1 AAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGA
*
1422320 AAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAAAT
1 AAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAAT
1422370 TATAAACGCA
Statistics
Matches: 203, Mismatches: 3, Indels: 11
0.94 0.01 0.05
Matches are distributed among these distances:
52 134 0.66
53 13 0.06
54 4 0.02
55 5 0.02
56 1 0.00
57 46 0.23
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (52 bp):
AAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGA
Found at i:1422466 original size:19 final size:19
Alignment explanation
Indices: 1422376--1422458 Score: 113
Period size: 20 Copynumber: 4.6 Consensus size: 19
1422366 AAATTATAAA
1422376 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
1422395 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
1422415 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
1422431 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
1422448 CGCATTGCGAT
1 CGCATTGCGAT
1422459 AGTCATTTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
14 6 0.11
16 7 0.12
17 7 0.12
19 17 0.30
20 19 0.34
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.43
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:1422584 original size:14 final size:14
Alignment explanation
Indices: 1422565--1422601 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
1422555 CATCAATTAC
1422565 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
1422579 ACAAATCATCTTTT
1 ACAAATCAACTTTT
1422593 ACAAATCAA
1 ACAAATCAA
1422602 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:1424569 original size:14 final size:14
Alignment explanation
Indices: 1424550--1424606 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1424540 GCGAAATGAA
*
1424550 AATCGCAACGACAG
1 AATCGCAACGAAAG
1424564 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
1424581 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
1424597 AATCGCAACG
1 AATCGCAACG
1424607 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:1424577 original size:33 final size:33
Alignment explanation
Indices: 1424531--1424623 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
1424521 GCGAAACCAA
*
1424531 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
1424564 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
1424597 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
1424624 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:1424588 original size:19 final size:19
Alignment explanation
Indices: 1424494--1424628 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
1424484 TAGTTTACTT
* *
1424494 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
1424514 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
1424533 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
1424552 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
1424566 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
1424585 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
1424599 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
1424618 TCGCAATGCGA
1 TCGCAACGCGA
1424629 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:1424646 original size:19 final size:19
Alignment explanation
Indices: 1424624--1424752 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
1424614 AAAATCGCAA
1424624 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
1424643 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
1424657 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
1424676 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
1424690 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
1424709 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
1424728 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
1424748 TGCGA
1 TGCGA
1424753 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:1424666 original size:33 final size:33
Alignment explanation
Indices: 1424624--1424715 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
1424614 AAAATCGCAA
1424624 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
1424657 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
1424690 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
1424716 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:1424966 original size:92 final size:92
Alignment explanation
Indices: 1424796--1425266 Score: 915
Period size: 92 Copynumber: 5.1 Consensus size: 92
1424786 TTGAATGGAT
1424796 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1424861 AGTTTAGCAGAATTGGCAGCAACCGAAC
65 AGTTTAGCAGAATTGGCAGCAACCGAAC
1424889 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACA
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACA
1424954 GTTTAGCAGAATTGGCAGCAACCGAAC
66 GTTTAGCAGAATTGGCAGCAACCGAAC
1424981 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACA
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACA
1425046 GTTTAGCAGAATTGGCAGCAACCGAAC
66 GTTTAGCAGAATTGGCAGCAACCGAAC
1425073 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACA
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACA
1425138 GTTTAGCAGAATTGGCAGCAACCGAAC
66 GTTTAGCAGAATTGGCAGCAACCGAAC
1425165 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
*
1425230 AGTTTAGCAGAATTGGCAGCAACCGAAT
65 AGTTTAGCAGAATTGGCAGCAACCGAAC
1425258 AAATTTACT
1 AAATTTACT
1425267 AAGCAATCTA
Statistics
Matches: 376, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
92 276 0.73
93 100 0.27
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.22
Consensus pattern (92 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACA
GTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:1426989 original size:14 final size:14
Alignment explanation
Indices: 1426970--1427059 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
1426960 TTGAAATGAA
1426970 AATCGCAACGAGAG
1 AATCGCAACGAGAG
1426984 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
1427001 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
1427017 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
1427036 AATCGCAACGAGAG
1 AATCGCAACGAGAG
1427050 AATCGCAACG
1 AATCGCAACG
1427060 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:1427007 original size:33 final size:33
Alignment explanation
Indices: 1426962--1427076 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
1426952 TCTTTTGGTT
1426962 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
1426995 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1427028 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1427061 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
1427077 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:1427008 original size:19 final size:18
Alignment explanation
Indices: 1426969--1427081 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
1426959 GTTGAAATGA
1426969 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
1426984 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
1427001 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
1427017 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
1427034 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
1427050 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
1427067 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
1427082 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:1427112 original size:14 final size:14
Alignment explanation
Indices: 1427093--1427147 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
1427083 TTTGGTTTCG
1427093 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1427107 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
1427126 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
1427140 CGTTGCGA
1 CGTTGCGA
1427148 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:1427125 original size:33 final size:33
Alignment explanation
Indices: 1427077--1427147 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
1427067 AAAATCGCAA
**
1427077 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1427110 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1427143 TGCGA
1 TGCGA
1427148 CAGTCATTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:1427155 original size:33 final size:33
Alignment explanation
Indices: 1427088--1427169 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
1427078 GCGATTTTGG
***
1427088 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1427121 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
1427154 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
1427170 TTCATTTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:1427174 original size:20 final size:20
Alignment explanation
Indices: 1427100--1427188 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
1427090 TCGCGTTGCG
1427100 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
1427120 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
***
1427133 ATTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
1427153 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
1427173 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
1427189 CTCTTCTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.05
14 9 0.16
19 9 0.16
20 21 0.38
21 13 0.24
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:1427310 original size:33 final size:33
Alignment explanation
Indices: 1427268--1427338 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
1427258 AATACTAACT
*
1427268 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
1427301 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
1427334 TGAAA
1 TGAAA
1427339 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:1427572 original size:22 final size:22
Alignment explanation
Indices: 1427520--1427574 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
1427510 TGGTTGTGAG
**
1427520 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
1427542 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
1427564 GGATTTCTTCG
1 GGATTTCTTCG
1427575 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:1427745 original size:20 final size:20
Alignment explanation
Indices: 1427720--1427912 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
1427710 CTTTAAATAT
1427720 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
1427740 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
1427762 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
1427781 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
1427801 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
1427821 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
1427841 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
1427861 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
1427881 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
1427901 CGCGTTGCGATT
1 CGCGTTGCGATT
1427913 ATTGAAAATC
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 127 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:1427907 original size:60 final size:60
Alignment explanation
Indices: 1427720--1427912 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
1427710 CTTTAAATAT
**
1427720 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
1427781 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
1427841 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
1427901 CGCGTTGCGATT
1 CGCGTTGCGATT
1427913 ATTGAAAATC
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 83 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:1428825 original size:35 final size:35
Alignment explanation
Indices: 1428778--1428863 Score: 100
Period size: 35 Copynumber: 2.5 Consensus size: 35
1428768 AAAACAGTCA
* * *
1428778 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
* * * *
1428813 TCAATTTTATTCTAAACCCTAAATTCTAAAATACT
1 TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
*
1428848 TCAATTAAATTCTAAA
1 TCAATTTAATTCTAAA
1428864 ATACTTCAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.41, C:0.21, G:0.01, T:0.37
Consensus pattern (35 bp):
TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
Found at i:1428857 original size:21 final size:21
Alignment explanation
Indices: 1428832--1428874 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
1428822 TTCTAAACCC
1428832 TAAATTCTAAAATACTTCAAT
1 TAAATTCTAAAATACTTCAAT
1428853 TAAATTCTAAAATACTTCAAT
1 TAAATTCTAAAATACTTCAAT
1428874 T
1 T
1428875 TAAGGTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAATTCTAAAATACTTCAAT
Found at i:1429029 original size:16 final size:18
Alignment explanation
Indices: 1428997--1429030 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
1428987 TATTAATGTA
1428997 TGAATCATTTATATTTTT
1 TGAATCATTTATATTTTT
1429015 TGAAT-ATTT-TATTTTT
1 TGAATCATTTATATTTTT
1429031 AATAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (18 bp):
TGAATCATTTATATTTTT
Found at i:1429702 original size:130 final size:130
Alignment explanation
Indices: 1429499--1429746 Score: 424
Period size: 130 Copynumber: 1.9 Consensus size: 130
1429489 AATTTTCTTC
* *
1429499 TAATTAGGAGGTGACATGTGTCACCAATAACACATATCATGATCATGTGTTAACACATGTCAAAT
1 TAATTAGGAGGTAACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAAAT
*
1429564 CCTGATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
66 CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
* * * * *
1429629 TAATTAGGTGGTAACATGTGTCACCAATGACACGTGTCATGATCATGTGCTAACACATGTCAGAT
1 TAATTAGGAGGTAACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAAAT
1429694 CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGAT
66 CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGAT
1429747 TATATAAATA
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
130 110 1.00
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.36
Consensus pattern (130 bp):
TAATTAGGAGGTAACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAAAT
CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
Found at i:1431126 original size:130 final size:130
Alignment explanation
Indices: 1430985--1431232 Score: 424
Period size: 130 Copynumber: 1.9 Consensus size: 130
1430975 TATTTATATA
*
1430985 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
* * *
1431050 TTAGCACATGATCATGACACGTGTCATTGGTGACACATGTTACCACCTAATTATTTATATATGCT
66 TTAACACATGATCATAACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
1431115 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
* * * *
1431180 TTAACACATGATCATAATATGTGTTATTGGTGACACATGTCACCTCCTAATTA
66 TTAACACATGATCATAACACGTGTCATTGGTGACACATGTCACCACCTAATTA
1431233 GAAGAAAATT
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
130 110 1.00
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (130 bp):
ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
TTAACACATGATCATAACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
Found at i:1431263 original size:130 final size:129
Alignment explanation
Indices: 1430999--1431263 Score: 309
Period size: 130 Copynumber: 2.0 Consensus size: 129
1430989 ATTTGGTCCT
* *
1430999 AAATTAAATAAAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTGTTAGCACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTGTTAACACATGATCA
* * *** * * **** *
1431064 TGACACGTGTCATTGGTGACACATGTTACCACCTAATTATTTATATATGCTATCAATTTGGTCCT
66 TAACACGTGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGT-CA
1431129 AAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTGTTAACACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTGTTAACACATGATCA
* * * * *
1431194 TAATATGTGTTATTGGTGACACATGTCACCTCCTAATTAGAAGAAAATTAAGTTA-CAAAGAAGT
66 TAACACGTGTCATTGGTGACACATGTCACCACCTAATT--AAGAAAA-TAAGCTATCAAAGAAGT
1431258 -A
128 CA
1431259 AAATT
1 AAATT
1431264 TGGGTCTTGG
Statistics
Matches: 113, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
130 100 0.88
132 8 0.07
133 5 0.04
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (129 bp):
AAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTGTTAACACATGATCA
TAACACGTGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGTCA
Found at i:1431589 original size:28 final size:27
Alignment explanation
Indices: 1431558--1431620 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 27
1431548 AGTTGATACA
*
1431558 ATATTTTAAAAGAATAAATTTAAGATTT
1 ATATTTTAAAA-AATAAATTTAAGAATT
** * *
1431586 ATATATTTTTAAACTAAATTTAATAATT
1 ATAT-TTTAAAAAATAAATTTAAGAATT
1431614 ATATTTT
1 ATATTTT
1431621 TCATATTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
27 3 0.10
28 21 0.72
29 5 0.17
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (27 bp):
ATATTTTAAAAAATAAATTTAAGAATT
Found at i:1431721 original size:16 final size:18
Alignment explanation
Indices: 1431700--1431733 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
1431690 ATTTCTTATT
1431700 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
1431716 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
1431734 TACATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:1431878 original size:21 final size:21
Alignment explanation
Indices: 1431854--1431896 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
1431844 TATTACCTTA
1431854 AATTGAAGTATTTTAGAATTT
1 AATTGAAGTATTTTAGAATTT
*
1431875 AATTTAAGTATTTTAGAATTT
1 AATTGAAGTATTTTAGAATTT
1431896 A
1 A
1431897 GGGTTTAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.49
Consensus pattern (21 bp):
AATTGAAGTATTTTAGAATTT
Found at i:1432279 original size:157 final size:157
Alignment explanation
Indices: 1432017--1432332 Score: 605
Period size: 157 Copynumber: 2.0 Consensus size: 157
1432007 TCAATGACTG
1432017 TTTATATAATTTATCCTAATTTTCTAACTGTGGTTTAAGTTGGGGGACCATATTGCAAACGGAAT
1 TTTATATAATTTATCCTAATTTTCTAACTGTGGTTTAAGTTGGGGGACCATATTGCAAACGGAAT
1432082 AAATGTTGGGGGACTGTATTGCAAGTTTTAAATGTTGGGGGACCTAAATGCAAGCTTCAAAAATG
66 AAATGTTGGGGGACTGTATTGCAAGTTTTAAATGTTGGGGGACCTAAATGCAAGCTTCAAAAATG
1432147 TTCAGTGACCATTACTATACTTTACCC
131 TTCAGTGACCATTACTATACTTTACCC
*
1432174 TTTATATAATTTATCCTAATTTTCTAACTGTGGTTTAAGTTGGGGGACCATATTGCAAATGGAAT
1 TTTATATAATTTATCCTAATTTTCTAACTGTGGTTTAAGTTGGGGGACCATATTGCAAACGGAAT
* *
1432239 AAATGTTGGGGGACTGTATTGCAAGTTTTAAATGTTGGGGGACCTAAATGTAAGCTTCAGAAATG
66 AAATGTTGGGGGACTGTATTGCAAGTTTTAAATGTTGGGGGACCTAAATGCAAGCTTCAAAAATG
1432304 TTCAGTGACCATTACTATACTTTACCC
131 TTCAGTGACCATTACTATACTTTACCC
1432331 TT
1 TT
1432333 AAAATTATGC
Statistics
Matches: 156, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
157 156 1.00
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (157 bp):
TTTATATAATTTATCCTAATTTTCTAACTGTGGTTTAAGTTGGGGGACCATATTGCAAACGGAAT
AAATGTTGGGGGACTGTATTGCAAGTTTTAAATGTTGGGGGACCTAAATGCAAGCTTCAAAAATG
TTCAGTGACCATTACTATACTTTACCC
Found at i:1432505 original size:15 final size:16
Alignment explanation
Indices: 1432487--1432519 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
1432477 TAATTTGATA
*
1432487 TTAAAACAAT-ATTAT
1 TTAAAAAAATAATTAT
1432502 TTAAAAAAATAATTAT
1 TTAAAAAAATAATTAT
1432518 TT
1 TT
1432520 CTTAATTTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TTAAAAAAATAATTAT
Found at i:1451751 original size:31 final size:31
Alignment explanation
Indices: 1451709--1451783 Score: 114
Period size: 31 Copynumber: 2.4 Consensus size: 31
1451699 TTCAAAAAAT
* * *
1451709 AACAAATTGATCACTAATGTTATCTATTTGT
1 AACAAAATGATCACTAACGTTATCTATTTGC
*
1451740 AATAAAATGATCACTAACGTTATCTATTTGC
1 AACAAAATGATCACTAACGTTATCTATTTGC
1451771 AACAAAATGATCA
1 AACAAAATGATCA
1451784 ATCCACTGTC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.41, C:0.15, G:0.09, T:0.35
Consensus pattern (31 bp):
AACAAAATGATCACTAACGTTATCTATTTGC
Found at i:1458531 original size:80 final size:80
Alignment explanation
Indices: 1458436--1458602 Score: 255
Period size: 80 Copynumber: 2.1 Consensus size: 80
1458426 ATCATTCAAT
* * * *
1458436 TTAACAAAAAATTGTATTTCAGTTTCGTTTGAATTTGTTATTGCGTTGAACGCAA-ATAAGTTTC
1 TTAACAAAAAATTGTATTTCACTTTCATTTGAAATTGTTATTGCGTTGAAC-AAACATAAGTTTC
1458500 CAAACAGAGGTGACAG
65 CAAACAGAGGTGACAG
* * *
1458516 TTAACAAATATTTGTATTTCACTTTCATTTGAAATTGTTATTGCGTTGAACAAACATAAGTTTCG
1 TTAACAAAAAATTGTATTTCACTTTCATTTGAAATTGTTATTGCGTTGAACAAACATAAGTTTCC
1458581 AAACAGAGGTGACAG
66 AAACAGAGGTGACAG
1458596 TTAACAA
1 TTAACAA
1458603 TTGATTGAAT
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
79 2 0.03
80 77 0.97
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (80 bp):
TTAACAAAAAATTGTATTTCACTTTCATTTGAAATTGTTATTGCGTTGAACAAACATAAGTTTCC
AAACAGAGGTGACAG
Found at i:1464558 original size:2 final size:2
Alignment explanation
Indices: 1464551--1464583 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1464541 AGTGGTGAAG
1464551 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1464584 ATAGCAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1470004 original size:2 final size:2
Alignment explanation
Indices: 1469997--1470022 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1469987 TGTGTTATTA
1469997 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
1470023 GTTTATCTAA
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:1470464 original size:6 final size:6
Alignment explanation
Indices: 1470455--1470481 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
1470445 GTTCATGTTC
1470455 GAGTTT GAGTTT GAGTTT GAGTTT GAG
1 GAGTTT GAGTTT GAGTTT GAGTTT GAG
1470482 GCTTCAATCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.37, T:0.44
Consensus pattern (6 bp):
GAGTTT
Found at i:1476809 original size:27 final size:27
Alignment explanation
Indices: 1476778--1476845 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
1476768 TCTATTTACA
1476778 AAATCATATCTCTATAGGAATGGTAAC
1 AAATCATATCTCTATAGGAATGGTAAC
1476805 AAATCATATCTCTATAGGAATGGTAAC
1 AAATCATATCTCTATAGGAATGGTAAC
1476832 AAATC--ATCTCTATA
1 AAATCATATCTCTATA
1476846 ATTCCTACAC
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
25 9 0.22
27 32 0.78
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (27 bp):
AAATCATATCTCTATAGGAATGGTAAC
Found at i:1480534 original size:27 final size:27
Alignment explanation
Indices: 1480498--1480605 Score: 184
Period size: 27 Copynumber: 4.1 Consensus size: 27
1480488 ATAATAATCC
*
1480498 TAGGATTGGTAACAAATCATATCTCTA
1 TAGGAATGGTAACAAATCATATCTCTA
*
1480525 TAGAAATGGTAACAAATCATATCTCTA
1 TAGGAATGGTAACAAATCATATCTCTA
1480552 TAGGAATGGTAACAAATCATATCTCTA
1 TAGGAATGGTAACAAATCATATCTCTA
1480579 TAGGAATGGTAACAAATC--ATCTCTA
1 TAGGAATGGTAACAAATCATATCTCTA
1480604 TA
1 TA
1480606 ATTCCTACAC
Statistics
Matches: 78, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
25 9 0.12
27 69 0.88
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.31
Consensus pattern (27 bp):
TAGGAATGGTAACAAATCATATCTCTA
Found at i:1500351 original size:24 final size:24
Alignment explanation
Indices: 1500340--1500475 Score: 184
Period size: 24 Copynumber: 5.7 Consensus size: 24
1500330 ATCAAAACAT
1500340 AATCCAGGTCAAGTATCAGATCAA
1 AATCCAGGTCAAGTATCAGATCAA
1500364 AATCCAGGTCAAGTATCAGATCAA
1 AATCCAGGTCAAGTATCAGATCAA
*
1500388 AATCCAGGTCAAGTATTC-GATCAG
1 AATCCAGGTCAAGTA-TCAGATCAA
* * *
1500412 AATCCATGTCAAGTATCCGATCAG
1 AATCCAGGTCAAGTATCAGATCAA
* * *
1500436 AATCCATGTCAAGTATCCGATCAG
1 AATCCAGGTCAAGTATCAGATCAA
*
1500460 AATCCAGGTCAGGTAT
1 AATCCAGGTCAAGTAT
1500476 TATAATAGAA
Statistics
Matches: 106, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
23 2 0.02
24 102 0.96
25 2 0.02
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (24 bp):
AATCCAGGTCAAGTATCAGATCAA
Found at i:1500375 original size:12 final size:13
Alignment explanation
Indices: 1500340--1500470 Score: 75
Period size: 12 Copynumber: 10.8 Consensus size: 13
1500330 ATCAAAACAT
1500340 AATCCAGGTCAAG
1 AATCCAGGTCAAG
* *
1500353 TAT-CAGATCAA-
1 AATCCAGGTCAAG
1500364 AATCCAGGTCAAG
1 AATCCAGGTCAAG
* *
1500377 TAT-CAGATCAA-
1 AATCCAGGTCAAG
1500388 AATCCAGGTCAAG
1 AATCCAGGTCAAG
* * *
1500401 TATTC-GATC-AG
1 AATCCAGGTCAAG
*
1500412 AATCCATGTCAAG
1 AATCCAGGTCAAG
* *
1500425 TATCC-GATC-AG
1 AATCCAGGTCAAG
*
1500436 AATCCATGTCAAG
1 AATCCAGGTCAAG
* *
1500449 TATCC-GATC-AG
1 AATCCAGGTCAAG
1500460 AATCCAGGTCA
1 AATCCAGGTCA
1500471 GGTATTATAA
Statistics
Matches: 82, Mismatches: 26, Indels: 20
0.64 0.20 0.16
Matches are distributed among these distances:
11 21 0.26
12 42 0.51
13 19 0.23
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.23
Consensus pattern (13 bp):
AATCCAGGTCAAG
Found at i:1500458 original size:72 final size:72
Alignment explanation
Indices: 1500340--1500476 Score: 211
Period size: 72 Copynumber: 1.9 Consensus size: 72
1500330 ATCAAAACAT
1500340 AATCCAGGTCAAGTATCAGATCAAAATCCAGGTCAAGTATCAGATCAAAATCCAGGTCAAGTATT
1 AATCCAGGTCAAGTATCAGATCAAAATCCAGGTCAAGTATCAGATCAAAATCCAGGTCAAGTATT
1500405 CGATCAG
66 CGATCAG
* * * * * * *
1500412 AATCCATGTCAAGTATCCGATCAGAATCCATGTCAAGTATCCGATCAGAATCCAGGTCAGGTATT
1 AATCCAGGTCAAGTATCAGATCAAAATCCAGGTCAAGTATCAGATCAAAATCCAGGTCAAGTATT
1500477 ATAATAGAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
72 58 1.00
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (72 bp):
AATCCAGGTCAAGTATCAGATCAAAATCCAGGTCAAGTATCAGATCAAAATCCAGGTCAAGTATT
CGATCAG
Found at i:1520078 original size:13 final size:14
Alignment explanation
Indices: 1520062--1520114 Score: 58
Period size: 13 Copynumber: 3.9 Consensus size: 14
1520052 TATCTTTTGT
*
1520062 GTTTGTGTT-GTTC
1 GTTTATGTTCGTTC
1520075 GTTTATGTTCGTT-
1 GTTTATGTTCGTTC
1520088 -TATTATGTTCGTTC
1 GT-TTATGTTCGTTC
*
1520102 GTTTGTGTTCGTT
1 GTTTATGTTCGTT
1520115 TACGTTCGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
12 1 0.03
13 19 0.56
14 13 0.38
15 1 0.03
ACGTcount: A:0.06, C:0.09, G:0.25, T:0.60
Consensus pattern (14 bp):
GTTTATGTTCGTTC
Found at i:1520085 original size:10 final size:10
Alignment explanation
Indices: 1520070--1520127 Score: 52
Period size: 10 Copynumber: 6.1 Consensus size: 10
1520060 GTGTTTGTGT
1520070 TGTTCGTTTA
1 TGTTCGTTTA
1520080 TGTTCGTTTA
1 TGTTCGTTTA
1520090 T-TAT-G-TT-
1 TGT-TCGTTTA
* *
1520097 CGTTCGTTTG
1 TGTTCGTTTA
1520107 TGTTCGTTTA
1 TGTTCGTTTA
*
1520117 CGTTCGTTTA
1 TGTTCGTTTA
1520127 T
1 T
1520128 CATTTAAATG
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
7 1 0.03
8 4 0.11
9 4 0.11
10 29 0.76
ACGTcount: A:0.09, C:0.12, G:0.21, T:0.59
Consensus pattern (10 bp):
TGTTCGTTTA
Found at i:1522446 original size:15 final size:15
Alignment explanation
Indices: 1522428--1522477 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
1522418 GAGAGATGTT
1522428 GTTTGGGAGAAAATG
1 GTTTGGGAGAAAATG
* *
1522443 GTTTAGGAG-AGATG
1 GTTTGGGAGAAAATG
1522457 TTGTTTGGGAGAAAATG
1 --GTTTGGGAGAAAATG
1522474 GTTT
1 GTTT
1522478 AGTAAATCCT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
14 4 0.14
15 12 0.43
16 8 0.29
17 4 0.14
ACGTcount: A:0.28, C:0.00, G:0.38, T:0.34
Consensus pattern (15 bp):
GTTTGGGAGAAAATG
Found at i:1522454 original size:31 final size:31
Alignment explanation
Indices: 1522416--1522479 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
1522406 CATTGTTGGG
1522416 AGGAGAGATGTTGTTTGGGAGAAAATGGTTT
1 AGGAGAGATGTTGTTTGGGAGAAAATGGTTT
1522447 AGGAGAGATGTTGTTTGGGAGAAAATGGTTT
1 AGGAGAGATGTTGTTTGGGAGAAAATGGTTT
1522478 AG
1 AG
1522480 TAAATCCTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.30, C:0.00, G:0.39, T:0.31
Consensus pattern (31 bp):
AGGAGAGATGTTGTTTGGGAGAAAATGGTTT
Found at i:1522467 original size:16 final size:16
Alignment explanation
Indices: 1522417--1522468 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
1522407 ATTGTTGGGA
1522417 GGAGAGATGTTGTTTG
1 GGAGAGATGTTGTTTG
* *
1522433 GGAGAAAATG--GTTTA
1 GGAG-AGATGTTGTTTG
1522448 GGAGAGATGTTGTTTG
1 GGAGAGATGTTGTTTG
1522464 GGAGA
1 GGAGA
1522469 AAATGGTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
14 4 0.14
15 8 0.28
16 13 0.45
17 4 0.14
ACGTcount: A:0.27, C:0.00, G:0.42, T:0.31
Consensus pattern (16 bp):
GGAGAGATGTTGTTTG
Found at i:1525394 original size:2 final size:2
Alignment explanation
Indices: 1525389--1525426 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1525379 AGTGTGTGTG
1525389 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1525427 GAGAGAGAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1525431 original size:2 final size:2
Alignment explanation
Indices: 1525426--1525457 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1525416 ATATATATAT
1525426 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1525458 GAATACACAT
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1528480 original size:36 final size:36
Alignment explanation
Indices: 1528385--1528484 Score: 110
Period size: 36 Copynumber: 2.8 Consensus size: 36
1528375 ACTGCAGATA
* *
1528385 CTGATCACGTCTGCCTCTTCCTTGATTGTGCAAATG
1 CTGATCACGTCTGACTCTTTCTTGATTGTGCAAATG
* * ** * *
1528421 CTGGTCATGTCTGTTTCTCTCTTGGTTGTGCAAATG
1 CTGATCACGTCTGACTCTTTCTTGATTGTGCAAATG
* *
1528457 TTGATCACGTTTGACTCTTTCTTGATTG
1 CTGATCACGTCTGACTCTTTCTTGATTG
1528485 GGTTGCTCCT
Statistics
Matches: 49, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
36 49 1.00
ACGTcount: A:0.14, C:0.22, G:0.21, T:0.43
Consensus pattern (36 bp):
CTGATCACGTCTGACTCTTTCTTGATTGTGCAAATG
Found at i:1528931 original size:13 final size:13
Alignment explanation
Indices: 1528913--1528937 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1528903 TACTTGGTGT
1528913 AAAAAAAAGAAAG
1 AAAAAAAAGAAAG
1528926 AAAAAAAAGAAA
1 AAAAAAAAGAAA
1528938 AACCTTATCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAAAAGAAAG
Found at i:1531049 original size:26 final size:26
Alignment explanation
Indices: 1531008--1531063 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
1530998 ATACAAATTA
1531008 ATTTTTTTGAATTTGTTATAAGATAT
1 ATTTTTTTGAATTTGTTATAAGATAT
1531034 ATTTTTTT-AATATTGTTATAAGATAT
1 ATTTTTTTGAAT-TTGTTATAAGATAT
1531060 ATTT
1 ATTT
1531064 AAATAAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
25 3 0.10
26 26 0.90
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.59
Consensus pattern (26 bp):
ATTTTTTTGAATTTGTTATAAGATAT
Found at i:1531941 original size:15 final size:15
Alignment explanation
Indices: 1531906--1531946 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
1531896 TATCTACTTT
1531906 AAAATTTTATTTAAA
1 AAAATTTTATTTAAA
**
1531921 TTAATTTTATTTAAA
1 AAAATTTTATTTAAA
*
1531936 AAAATTATATT
1 AAAATTTTATT
1531947 ATTAACATAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
AAAATTTTATTTAAA
Found at i:1535018 original size:16 final size:16
Alignment explanation
Indices: 1534997--1535044 Score: 75
Period size: 16 Copynumber: 3.2 Consensus size: 16
1534987 CCAAAAAACC
1534997 TTTAGATGAATTATCA
1 TTTAGATGAATTATCA
1535013 TTTAGATGAA-T-T-A
1 TTTAGATGAATTATCA
1535026 TTTAGATGAATTATCA
1 TTTAGATGAATTATCA
1535042 TTT
1 TTT
1535045 TTTAAATTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
13 11 0.38
14 2 0.07
15 2 0.07
16 14 0.48
ACGTcount: A:0.35, C:0.04, G:0.12, T:0.48
Consensus pattern (16 bp):
TTTAGATGAATTATCA
Found at i:1535030 original size:13 final size:13
Alignment explanation
Indices: 1534997--1535039 Score: 59
Period size: 13 Copynumber: 3.1 Consensus size: 13
1534987 CCAAAAAACC
1534997 TTTAGATGAATTATCA
1 TTTAGATGAA-T-T-A
1535013 TTTAGATGAATTA
1 TTTAGATGAATTA
1535026 TTTAGATGAATTA
1 TTTAGATGAATTA
1535039 T
1 T
1535040 CATTTTTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 15 0.56
14 1 0.04
15 1 0.04
16 10 0.37
ACGTcount: A:0.37, C:0.02, G:0.14, T:0.47
Consensus pattern (13 bp):
TTTAGATGAATTA
Found at i:1540868 original size:108 final size:108
Alignment explanation
Indices: 1540728--1540935 Score: 301
Period size: 108 Copynumber: 1.9 Consensus size: 108
1540718 TGTTTAAAGT
* * *
1540728 TGATGGGGCCTTAGAAATCTGACGATAACAAAATAAGTAAATTACTTATTTTGTTATTAATATTA
1 TGATGGAGCCTTAGAAATCTCACGATAACAAAATAAGTAAATTACTTATTTTGTTATGAATATTA
1540793 TCAAA-ATATTAGATAACGCCTAAAATGTTACCAAAACTTAAGC
66 T-AAATATATTAGATAACGCCTAAAATGTTACCAAAACTTAAGC
* * * *
1540836 TGATGGAGTCTTAGAAATTTCACGATAACAAAATATGTTAATTACTTATTTTGTTATGAATATTA
1 TGATGGAGCCTTAGAAATCTCACGATAACAAAATAAGTAAATTACTTATTTTGTTATGAATATTA
* ** *
1540901 TAAATATATTAGGTTGCGCCTAATATGTTACCAAA
66 TAAATATATTAGATAACGCCTAAAATGTTACCAAA
1540936 GTTTAAGTTG
Statistics
Matches: 88, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
107 3 0.03
108 85 0.97
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (108 bp):
TGATGGAGCCTTAGAAATCTCACGATAACAAAATAAGTAAATTACTTATTTTGTTATGAATATTA
TAAATATATTAGATAACGCCTAAAATGTTACCAAAACTTAAGC
Found at i:1540961 original size:108 final size:107
Alignment explanation
Indices: 1540737--1540999 Score: 280
Period size: 108 Copynumber: 2.4 Consensus size: 107
1540727 TTGATGGGGC
** * *
1540737 CTTAGAAATCTGACGATAACAAAATAAGTAAATTACTTATTTTGTTATTAATATTATCAAAATAT
1 CTTAGAAATCCAACGATAACAAAATAAGTTAATTACTTATTTTGTTATGAATATTATCAAAATAT
*
1540802 TAGATAACGCCTAAAATGTTACCAAAACTTAAGCTGATGGAG
66 TAGATAACGCCTAAAATGTTACCAAAACTTAAGCTGAAGGAG
* *
1540844 TCTTAGAAATTTC-ACGATAACAAAATATGTTAATTACTTATTTTGTTATGAATATTAT-AAATA
1 -CTTAGAAA-TCCAACGATAACAAAATAAGTTAATTACTTATTTTGTTATGAATATTATCAAA-A
* ** * ** *
1540907 TATTAGGTTGCGCCTAATATGTTACCAAAGTTTAAGTTGACAGGA-
63 TATTAGATAACGCCTAAAATGTTACCAAAACTTAAGCTGA-AGGAG
* * * * * *
1540952 CATTTGAAATCCAACAACAACAAAATAGGTTAAATATTTATTTTGTTA
1 C-TTAGAAATCCAACGATAACAAAATAAGTTAATTACTTATTTTGTTA
1541000 CAAATAAATA
Statistics
Matches: 130, Mismatches: 20, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
107 6 0.05
108 120 0.92
109 4 0.03
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36
Consensus pattern (107 bp):
CTTAGAAATCCAACGATAACAAAATAAGTTAATTACTTATTTTGTTATGAATATTATCAAAATAT
TAGATAACGCCTAAAATGTTACCAAAACTTAAGCTGAAGGAG
Found at i:1541954 original size:100 final size:100
Alignment explanation
Indices: 1541838--1542034 Score: 252
Period size: 100 Copynumber: 2.0 Consensus size: 100
1541828 ATTTTAAACG
* * * *
1541838 GTTAAATTGTAAATATTTTATTATTTACATTATTATTATACCTTTAAACAAACCAATA-AGTAGT
1 GTTAAATTGTAAATATTTTATTATTCACATTAATATTATACATTTAAACAAACCAATAGA-TAAT
* *
1541902 TTAACGTAATATGTAGTGCCTATTTTATTTTAACTT
65 TTAACGTAATATGTAGAGCCCATTTTATTTTAACTT
* * ** ***
1541938 GTTAAGTTGTAAATATTTTATTGTTCGTATTAATATTATACATTTAAACAAACTGGTAGATAATT
1 GTTAAATTGTAAATATTTTATTATTCACATTAATATTATACATTTAAACAAACCAATAGATAATT
*
1542003 TAACTTAATATGTAGAGCCCATTTTATTTTAA
66 TAACGTAATATGTAGAGCCCATTTTATTTTAA
1542035 TCGTTTACAT
Statistics
Matches: 82, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
100 81 0.99
101 1 0.01
ACGTcount: A:0.36, C:0.09, G:0.10, T:0.45
Consensus pattern (100 bp):
GTTAAATTGTAAATATTTTATTATTCACATTAATATTATACATTTAAACAAACCAATAGATAATT
TAACGTAATATGTAGAGCCCATTTTATTTTAACTT
Found at i:1542085 original size:177 final size:177
Alignment explanation
Indices: 1541861--1542287 Score: 479
Period size: 177 Copynumber: 2.4 Consensus size: 177
1541851 TATTTTATTA
* * *
1541861 TTTACATTATTATTATACCTTTAAACAAACCAATAAGTAGTTTAACGTAATATGTAGTGCCTATT
1 TTTACATTATTATTATACATTTAAACAAATCAGTAAGTAGTTTAACGTAATATGTA-TGCCTATT
* * *** ** *
1541926 TTATTTTAACTTG-TTAAGTTGTAAATATTTTATTGTTCGTATTAATATTATACATTTAAACAAA
65 TTATTTTAAC-CGATTAAGTTGTAAATATTGTACCATTCACATTAATAGTATACATTTAAACAAA
* ** *
1541990 -CTGGTAGATAATTTAACTTAATATG-TAGA-GCCCATTTTATTTTAATC-G
129 TC-AGTAGATAATTTAAAGTAATA-GATA-ACGCCCATTTTATTTTAACCAG
* * * * *
1542038 TTTACATTATTATTATACTTTTAAATAAATCAGTACGTAGTTTAACGTAATAGGCAATGCCTATT
1 TTTACATTATTATTATACATTTAAACAAATCAGTAAGTAGTTTAACGTAATATG-TATGCCTATT
* *
1542103 TTATTTTAACCGATTAAGTTGTAAATATTGTACCATTTACATTAATAGTATACCTTTAAACAAAT
65 TTATTTTAACCGATTAAGTTGTAAATATTGTACCATTCACATTAATAGTATACATTTAAACAAAT
* * *
1542168 CAGTAGGTAGTTTAAAGTAATAGATAACGCCTATTTTATTTTAACCAG
130 CAGTAGATAATTTAAAGTAATAGATAACGCCCATTTTATTTTAACCAG
* * * * *
1542216 -ATACATTATTATTATACATTTAAACAAATCGGTAGGTAATTTAACGTAATATGTATCACCTATT
1 TTTACATTATTATTATACATTTAAACAAATCAGTAAGTAGTTTAACGTAATATGTAT-GCCTATT
1542280 TTATTTTA
65 TTATTTTA
1542288 CTGTTACATT
Statistics
Matches: 210, Mismatches: 33, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
176 5 0.02
177 202 0.96
178 3 0.01
ACGTcount: A:0.36, C:0.11, G:0.10, T:0.42
Consensus pattern (177 bp):
TTTACATTATTATTATACATTTAAACAAATCAGTAAGTAGTTTAACGTAATATGTATGCCTATTT
TATTTTAACCGATTAAGTTGTAAATATTGTACCATTCACATTAATAGTATACATTTAAACAAATC
AGTAGATAATTTAAAGTAATAGATAACGCCCATTTTATTTTAACCAG
Found at i:1542278 original size:77 final size:76
Alignment explanation
Indices: 1542139--1542520 Score: 432
Period size: 77 Copynumber: 5.0 Consensus size: 76
1542129 ATTGTACCAT
* * * * * *
1542139 TTACATTAATAGTATACCTTTAAACAAATCAGTAGGTAGTTTAAAGTAATA-GATAACGCCTATT
1 TTACATTATTATTATACCTTTAAACAAACCGGTAGGTAGTTTAACGTAATATG-TATCGCCTATT
1542203 TTATTTTAACCAG
65 TTATTTTAACC-G
* * * * *
1542216 ATACATTATTATTATACATTTAAACAAATCGGTAGGTAATTTAACGTAATATGTATCACCTATTT
1 TTACATTATTATTATACCTTTAAACAAACCGGTAGGTAGTTTAACGTAATATGTATCGCCTATTT
*
1542281 TATTTT-ACTG
66 TATTTTAACCG
* * * * *
1542291 TTACATTATTATGATACTTTTAAATAAACCGGTAGGTAATTTAACGTAATATGTACCGCCTATTT
1 TTACATTATTATTATACCTTTAAACAAACCGGTAGGTAGTTTAACGTAATATGTATCGCCTATTT
1542356 TATTTTAACCGG
66 TATTTTAACC-G
* * * *
1542368 TTACATTATTATTATACCTTTAAACAAAACGGTAGCTAGTTTAACGTAATAGGT-TACGTCTATT
1 TTACATTATTATTATACCTTTAAACAAACCGGTAGGTAGTTTAACGTAATATGTAT-CGCCTATT
1542432 TTATTTT-ACCG
65 TTATTTTAACCG
* * *
1542443 TTTACATTATTATTATTATACCTTTAAACAAACCAGTAGCTAGTTTAACGTAATATGT-TGCGCT
1 -TTAC---ATTATTATTATACCTTTAAACAAACCGGTAGGTAGTTTAACGTAATATGTAT-CGCC
1542507 TATTTTATTTTAAC
61 TATTTTATTTTAAC
1542521 TGGTTAAATT
Statistics
Matches: 263, Mismatches: 33, Indels: 15
0.85 0.11 0.05
Matches are distributed among these distances:
75 66 0.25
76 11 0.04
77 122 0.46
78 1 0.00
79 61 0.23
80 2 0.01
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (76 bp):
TTACATTATTATTATACCTTTAAACAAACCGGTAGGTAGTTTAACGTAATATGTATCGCCTATTT
TATTTTAACCG
Found at i:1542351 original size:152 final size:152
Alignment explanation
Indices: 1542128--1542520 Score: 479
Period size: 152 Copynumber: 2.6 Consensus size: 152
1542118 AAGTTGTAAA
* * * * *
1542128 TATTGTACCATTTACATTAATA-GTATACCTTTAAACAAATCAGTAGGTAGTTTAAAGTAATA-G
1 TATTTTACCGTTTACATTATTATG-ATACCTTTAAACAAACCAGTAGGTAGTTTAACGTAATATG
* *
1542191 ATAACGCCTATTTTATTTTAACCAGATACATTATTATTATACATTTAAACAAATCGGTAGGTAAT
65 -TAACGCCTATTTTATTTTAACCAGATACATTATTATTATACATTTAAACAAAACGGTAGCTAAT
*
1542256 TTAACGTAATATGTATCAC-CTATTT
129 TTAACGTAATAGGT-T-ACGCTATTT
* * * * *
1542281 TATTTTACTG-TTACATTATTATGATACTTTTAAATAAACCGGTAGGTAATTTAACGTAATATGT
1 TATTTTACCGTTTACATTATTATGATACCTTTAAACAAACCAGTAGGTAGTTTAACGTAATATGT
* * * * *
1542345 ACCGCCTATTTTATTTTAACCGGTTACATTATTATTATACCTTTAAACAAAACGGTAGCTAGTTT
66 AACGCCTATTTTATTTTAACCAGATACATTATTATTATACATTTAAACAAAACGGTAGCTAATTT
1542410 AACGTAATAGGTTACGTCTATTT
131 AACGTAATAGGTTACG-CTATTT
* *
1542433 TATTTTACCGTTTACATTATTATTATTATACCTTTAAACAAACCAGTAGCTAGTTTAACGTAATA
1 TATTTTACCGTTTAC---ATTATTATGATACCTTTAAACAAACCAGTAGGTAGTTTAACGTAATA
** *
1542498 TGTTGCGCTTATTTTATTTTAAC
63 TGTAACGCCTATTTTATTTTAAC
1542521 TGGTTAAATT
Statistics
Matches: 204, Mismatches: 28, Indels: 13
0.83 0.11 0.05
Matches are distributed among these distances:
150 2 0.01
151 1 0.00
152 127 0.62
153 13 0.06
156 61 0.30
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (152 bp):
TATTTTACCGTTTACATTATTATGATACCTTTAAACAAACCAGTAGGTAGTTTAACGTAATATGT
AACGCCTATTTTATTTTAACCAGATACATTATTATTATACATTTAAACAAAACGGTAGCTAATTT
AACGTAATAGGTTACGCTATTT
Found at i:1543862 original size:30 final size:30
Alignment explanation
Indices: 1543804--1543873 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
1543794 GTTATATGAG
*
1543804 CTATGTGATAAAAGTATAAAAATGATATGT
1 CTATGTGATAAAAGTATAAAAATAATATGT
**
1543834 CTATGTGAT-AAAGATATGGAAATAATATGT
1 CTATGTGATAAAAG-TATAAAAATAATATGT
* *
1543864 TTATGAGATA
1 CTATGTGATA
1543874 CACTATGTGA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 4 0.12
30 29 0.88
ACGTcount: A:0.44, C:0.03, G:0.19, T:0.34
Consensus pattern (30 bp):
CTATGTGATAAAAGTATAAAAATAATATGT
Found at i:1546194 original size:64 final size:64
Alignment explanation
Indices: 1546121--1546344 Score: 213
Period size: 64 Copynumber: 3.5 Consensus size: 64
1546111 TGTTTGAATG
* * ** *
1546121 TGCACCGATGCATTGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAAGACATCGAATGCAATTC
1 TGCATCGATGCATAGGTAGTGCATCGATGCATC-CCATTAATAATAAA-ACATCGAATACAATTC
1546184 A
64 A
* * **
1546185 TGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATGAAACATCGAATACAATTGG
1 TGCATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATACAATTCA
** * ** * *
1546249 TGCATCGATGCATAAGG-AGTGCATCGATGCATCCCAGCAATAATACAACATCGAATGTATTTTA
1 TGCATCGATGCAT-AGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATACAATTCA
* * *
1546313 TGCACCAATGTATCA-GTAGTGCATCGATGCAT
1 TGCATCGATGCAT-AGGTAGTGCATCGATGCAT
1546345 ACCCTTATTG
Statistics
Matches: 133, Mismatches: 23, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
63 1 0.01
64 124 0.93
65 8 0.06
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.27
Consensus pattern (64 bp):
TGCATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATACAATTCA
Found at i:1547156 original size:31 final size:31
Alignment explanation
Indices: 1547001--1547141 Score: 255
Period size: 31 Copynumber: 4.5 Consensus size: 31
1546991 AGGGTCGAGG
1547001 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
1547032 GTTTACCTATGTTCTTCGGGACATATAGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
1547063 GCTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
1547094 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
1547125 GTTTACCTAGGTTCTTC
1 GTTTACCTATGTTCTTC
1547142 AGAATCTATG
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 105 1.00
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.39
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:1549292 original size:39 final size:39
Alignment explanation
Indices: 1549238--1549319 Score: 128
Period size: 39 Copynumber: 2.1 Consensus size: 39
1549228 AGCTGTTAGT
*
1549238 GTTAGTTACTGTGCTTAGGTGATGAGCTGTTATGAATCG
1 GTTAGTTACTGTGCTTAAGTGATGAGCTGTTATGAATCG
** *
1549277 GTTAGTTGTTGTGCTTAAGTGCTGAGCTGTTATGAATCG
1 GTTAGTTACTGTGCTTAAGTGATGAGCTGTTATGAATCG
1549316 GTTA
1 GTTA
1549320 TGGTTTGTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.20, C:0.10, G:0.30, T:0.40
Consensus pattern (39 bp):
GTTAGTTACTGTGCTTAAGTGATGAGCTGTTATGAATCG
Found at i:1550282 original size:76 final size:76
Alignment explanation
Indices: 1550155--1550339 Score: 225
Period size: 76 Copynumber: 2.4 Consensus size: 76
1550145 CGGTAGCTAG
* * * *
1550155 TTTAACGTAATAGGTAGCG-CATATTTTATTTTACCGTTTACATTATTATTATATCTTTAAACAA
1 TTTAACGTAATAGTTA-CGACATATTTTATTTTACCGTTTACATTATCATTATACCTATAAACAA
*
1550219 A-CGGATAACTAA
65 ATCAG-TAACTAA
* * *
1550231 TTTAACGTAATATGTTACGAC-TATTTTATTTTACTGTTTACATTATCATTATGCCTATAAATAA
1 TTTAACGTAATA-GTTACGACATATTTTATTTTACCGTTTACATTATCATTATACCTATAAACAA
1550295 ATCAGTAACTAA
65 ATCAGTAACTAA
*
1550307 TTTAACGTAATAAGTTGC-ACATATTTTATTTTA
1 TTTAACGTAAT-AGTTACGACATATTTTATTTTA
1550340 ATTGGTTAAG
Statistics
Matches: 95, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
75 2 0.02
76 86 0.91
77 7 0.07
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.43
Consensus pattern (76 bp):
TTTAACGTAATAGTTACGACATATTTTATTTTACCGTTTACATTATCATTATACCTATAAACAAA
TCAGTAACTAA
Found at i:1550382 original size:100 final size:100
Alignment explanation
Indices: 1550257--1550465 Score: 258
Period size: 100 Copynumber: 2.1 Consensus size: 100
1550247 ACGACTATTT
* * * * *
1550257 TATTTTACTGTTTACATTATCATTATGCCTATAAATAAATCAGTAACTAATTTAACGTAATAAGT
1 TATTTTACCGTTTACATTATCATTATACCTATAAATAAACCAGTAACTAACTTAACATAATAAGT
*
1550322 TGC-ACATATTTTATTTTAATTGGTTAAGTTGTAAA
66 TGCGAC-TATTTTATTTTAATCGGTTAAGTTGTAAA
* * * * * * *
1550357 TATTTTACCGTTTACATTATTATTATATCTTTAAATAAACCGGTAGCTAGCTTAACATAATAGGT
1 TATTTTACCGTTTACATTATCATTATACCTATAAATAAACCAGTAACTAACTTAACATAATAAGT
* *
1550422 TGCGTCTATTTTATTTTAATCGGTTAAGTTGTAAT
66 TGCGACTATTTTATTTTAATCGGTTAAGTTGTAAA
1550457 TATTATTAC
1 TATT-TTAC
1550466 ATTATCGATA
Statistics
Matches: 92, Mismatches: 15, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
100 87 0.95
101 5 0.05
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.45
Consensus pattern (100 bp):
TATTTTACCGTTTACATTATCATTATACCTATAAATAAACCAGTAACTAACTTAACATAATAAGT
TGCGACTATTTTATTTTAATCGGTTAAGTTGTAAA
Found at i:1560311 original size:21 final size:22
Alignment explanation
Indices: 1560282--1560334 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
1560272 ATTCTGACTA
1560282 TCGCATTGCGATTTTCC-AAAT
1 TCGCATTGCGATTTTCCGAAAT
*
1560303 TCGCGTTGCGATTTTCCGAAA-
1 TCGCATTGCGATTTTCCGAAAT
*
1560324 TCGCAATGCGA
1 TCGCATTGCGA
1560335 ATACGTAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 25 0.89
22 3 0.11
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.32
Consensus pattern (22 bp):
TCGCATTGCGATTTTCCGAAAT
Found at i:1560346 original size:20 final size:20
Alignment explanation
Indices: 1560321--1560376 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
1560311 CGATTTTCCG
1560321 AAATCGCAATGCGAATACGT
1 AAATCGCAATGCGAATACGT
1560341 AAATCGCAATGCGAATACGT
1 AAATCGCAATGCGAATACGT
*
1560361 AAATCGCAACGCGAAT
1 AAATCGCAATGCGAAT
1560377 CTGACTATCG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.41, C:0.21, G:0.20, T:0.18
Consensus pattern (20 bp):
AAATCGCAATGCGAATACGT
Found at i:1560598 original size:22 final size:22
Alignment explanation
Indices: 1560573--1560638 Score: 105
Period size: 22 Copynumber: 3.0 Consensus size: 22
1560563 GGCGACATCC
1560573 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
*
1560595 GTCCCCATCTCCGACGATATCA
1 GTCCCCATCTCCGACGAAATCA
* *
1560617 GTCTCCATCTCCGGCGAAATCA
1 GTCCCCATCTCCGACGAAATCA
1560639 TTCACGGTCA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.24, C:0.39, G:0.15, T:0.21
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:1561055 original size:20 final size:20
Alignment explanation
Indices: 1561008--1561072 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
1560998 CGATTCTTGC
** *
1561008 GTTGCGATAGTCAAATTCGC
1 GTTGCGATAGTCATTTTCGT
* *
1561028 GTTACGATAGTCATTTTTGT
1 GTTGCGATAGTCATTTTCGT
**
1561048 GTTGCGATTTTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
1561068 GTTGC
1 GTTGC
1561073 AATTTAAAGT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.17, C:0.15, G:0.23, T:0.45
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:1561077 original size:20 final size:20
Alignment explanation
Indices: 1561038--1561077 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
1561028 GTTACGATAG
* *
1561038 TCATTTTTGTGTTGCGATTT
1 TCATTTTCGTGTTGCAATTT
1561058 TCATTTTCGTGTTGCAATTT
1 TCATTTTCGTGTTGCAATTT
1561078 AAAGTTTCAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.12, C:0.12, G:0.17, T:0.57
Consensus pattern (20 bp):
TCATTTTCGTGTTGCAATTT
Found at i:1562384 original size:31 final size:31
Alignment explanation
Indices: 1562349--1562410 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
1562339 CTTGCCACTG
1562349 ATTGGTGGCAAGCTAGTAAGCATTTTTTTGA
1 ATTGGTGGCAAGCTAGTAAGCATTTTTTTGA
1562380 ATTGGTGGCAAGCTAGTAAGCATTTTTTTGA
1 ATTGGTGGCAAGCTAGTAAGCATTTTTTTGA
1562411 TGGCACGAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.26, C:0.10, G:0.26, T:0.39
Consensus pattern (31 bp):
ATTGGTGGCAAGCTAGTAAGCATTTTTTTGA
Found at i:1563045 original size:20 final size:20
Alignment explanation
Indices: 1562998--1563144 Score: 121
Period size: 20 Copynumber: 7.8 Consensus size: 20
1562988 AGAATAGTTT
* *
1562998 ACTATCGAAATACGAAAATG
1 ACTATCGCAATGCGAAAATG
*
1563018 ACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
1563038 ACTATCGCAA--CG-AGA-G
1 ACTATCGCAATGCGAAAATG
*
1563054 A--ATCGCAATGTG-AAATG
1 ACTATCGCAATGCGAAAATG
** *
1563071 AAAATCGCAATGCGAAAATA
1 ACTATCGCAATGCGAAAATG
**
1563091 ACTATCGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
1563111 ACTATCGCAATGC-AAAATG
1 ACTATCGCAATGCGAAAATG
** *
1563130 AAAATCGCATTGCGA
1 ACTATCGCAATGCGA
1563145 TTCTCTCGTT
Statistics
Matches: 102, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
14 7 0.07
16 5 0.05
17 4 0.04
18 2 0.02
19 24 0.24
20 60 0.59
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.20
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Done.