Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008094.1 Hibiscus syriacus cultivar Beakdansim tig00110610_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: 9952466
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 30 of 43
Found at i:6343559 original size:24 final size:23
Alignment explanation
Indices: 6343478--6343556 Score: 101
Period size: 23 Copynumber: 3.5 Consensus size: 23
6343468 ACAATGAAAT
*
6343478 AAAAATAATTAAATAAAACAGAAC
1 AAAAA-AAGTAAATAAAACAGAAC
*
6343502 AAAAAAAGTAAA-AAAA-A-AAT
1 AAAAAAAGTAAATAAAACAGAAC
*
6343522 AAAAAAATTAAATAAAACAGAAC
1 AAAAAAAGTAAATAAAACAGAAC
6343545 AAAAAAAGTAAA
1 AAAAAAAGTAAA
6343557 ATACCCACTG
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
20 13 0.28
21 5 0.11
22 5 0.11
23 19 0.40
24 5 0.11
ACGTcount: A:0.77, C:0.05, G:0.05, T:0.13
Consensus pattern (23 bp):
AAAAAAAGTAAATAAAACAGAAC
Found at i:6345487 original size:84 final size:84
Alignment explanation
Indices: 6345343--6346707 Score: 1335
Period size: 84 Copynumber: 16.4 Consensus size: 84
6345333 AACTCGAAAA
* * * * * * * *
6345343 TTTTGTTGACAGATAACCCTTTTTGCCCTGAGCTATGCTGTAAATGACGTGCCTTTGAGCTGAGT
1 TTTTGTTGGCAGATAACCCTTTTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
* * *
6345408 ATAATCGAACTTGAAGGTC
66 GTAGTCGAACTCGAAGGTC
* *
6345427 TTTTGTTGGCAGATAACCCTTTTAGCCTTGAGTTATACTACAAATGATGTGCCTTGGAGCTGAGC
1 TTTTGTTGGCAGATAACCCTTTTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
*
6345492 GTAGTCAAACTCGAAGGTC
66 GTAGTCGAACTCGAAGGTC
* * * *
6345511 TTTTGTTGGCAAATAACCCTTCTT-GCCTT-AATCTATGTTGCAAATGATGTGCCTTGGAGTTGA
1 TTTTGTTGGCAGATAACCCTT-TTAGCCTTGAGT-TATGCTGCAAATGATGTGCCTTGGAGCTGA
*
6345574 GCGTAGTTGAACTCGAAGGTC
64 GCGTAGTCGAACTCGAAGGTC
* * ** * *
6345595 TTTTGTTTGTAGATAACCCTTCCAGCCTTGAGTTATGCTGCAGATGATGTGCCTTGGAGCTGAGT
1 TTTTGTTGGCAGATAACCCTTTTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
* *
6345660 GTATTCAAACTCGAAGGTC
66 GTAGTCGAACTCGAAGGTC
* * * *
6345679 TTTTGTTGGCACATAA-CCTTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTGGAGCTGAG
1 TTTTGTTGGCAGATAACCCTTT-TAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAG
*
6345743 CGTAGTCAAACTCGAAGGTC
65 CGTAGTCGAACTCGAAGGTC
* * * * * ** * * * *
6345763 TCTGGTTGGCAGATAACTCTTCTAGCCTTGACTTATGCTATAAATGATATGCCTTTGAGCTAAGT
1 TTTTGTTGGCAGATAACCCTTTTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
* *
6345828 GTGGTCGAACTCGAAGTTC
66 GTAGTCGAACTCGAAGGTC
* * *
6345847 TTTTGTTGGCAAATAACCCTTCTT-GCCTTGAGCTATGTTGCAAATGATGTGCCTTGGAGCTGAG
1 TTTTGTTGGCAGATAACCCTT-TTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAG
*
6345911 CGTATTCGAACTCGAAGGTC
65 CGTAGTCGAACTCGAAGGTC
* * * * * * *
6345931 TTTTGTTGGCAAATAGCTCTTCTT-GCCTTTAGCTATGTTGCAAATGATGTGCCTTGGAGCCGAG
1 TTTTGTTGGCAGATAACCCTT-TTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAG
6345995 CGTAGTCGAACTCGAAGGTC
65 CGTAGTCGAACTCGAAGGTC
* * * * * *
6346015 TTTGGTTGGCAGATAACCCTTCTAGACTTGAGTTATGCTGCAAATGATATGTCTTTGAGCTGAGC
1 TTTTGTTGGCAGATAACCCTTTTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
6346080 GTAGTCGAACTCGAAGGTC
66 GTAGTCGAACTCGAAGGTC
* * *
6346099 TTTTGTTGGCAAATAGCCCTTCTT-GCCTTGAGTTATGTTGCAAATGATGTGCCTTGGAGCT-AG
1 TTTTGTTGGCAGATAACCCTT-TTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAG
6346162 CGTAGTCGAACTCGAAGGTC
65 CGTAGTCGAACTCGAAGGTC
* * * * *
6346182 TTTGGTTGGCAGATAACCCTTCTAGCCATGAGTTATGCTGCAAATGATATACCTTGGAGCTGAGC
1 TTTTGTTGGCAGATAACCCTTTTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
6346247 GTAGTCGAACTCGAAGGTC
66 GTAGTCGAACTCGAAGGTC
* * * * * * *
6346266 ---T-TTGGCAGATAGCCCTTATT-TCCATAAGCTATGCTGCAAATGATGTGCCCTCGAAGCTGA
1 TTTTGTTGGCAGATAACCCTT-TTAGCCTTGAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGA
** * *
6346326 GTATAATCGAACTCGAGGGTC
64 GCGTAGTCGAACTCGAAGGTC
* * * * * * *
6346347 ---T-TTCGCATATAGCCCTTCTAGCCTTGAGCTATACTGCAAATGATGTGCCGTT-GAACTGAG
1 TTTTGTTGGCAGATAACCCTTTTAGCCTTGAGTTATGCTGCAAATGATGTGCC-TTGGAGCTGAG
* * * *
6346407 TGTAATTGAACTCAAAGGTC
65 CGTAGTCGAACTCGAAGGTC
* * * ** * *
6346427 -TTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTACAAATGATGTGCCCACGAAGTTGAG
1 TTTTGTTGGCAGATAACCCTTTTAGCCTTGAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAG
* * *
6346491 TGTAATCGAACTCGAGGGTC
65 CGTAGTCGAACTCGAAGGTC
* * * *
6346511 ---T-TTGGCAGATAACCCTTATT-GCCTTAAGCTATGCTGCAAATGATGTG-CTTTGAGCTGAT
1 TTTTGTTGGCAGATAACCCTT-TTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAG
* * *
6346570 TGTAATCGAACTCAAAGGTC
65 CGTAGTCGAACTCGAAGGTC
* * * * * *
6346590 -TTTGTTGACAGATAACCCTTCTAGCCTTGAATTATGCTGCAAATGATGTGCCCTCGAAGTTGAG
1 TTTTGTTGGCAGATAACCCTTTTAGCCTTGAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAG
* *
6346654 TGTAATCGAACTCGAAGGTC
65 CGTAGTCGAACTCGAAGGTC
* * * *
6346674 -TTGGCTGACAGATAA-CCTTTCTCGCCTTGAGTTA
1 TTTTGTTGGCAGATAACCCTTT-TAGCCTTGAGTTA
6346708 AACTGCCAAT
Statistics
Matches: 1065, Mismatches: 188, Indels: 56
0.81 0.14 0.04
Matches are distributed among these distances:
79 24 0.02
80 62 0.06
81 108 0.10
82 43 0.04
83 123 0.12
84 696 0.65
85 9 0.01
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.33
Consensus pattern (84 bp):
TTTTGTTGGCAGATAACCCTTTTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
GTAGTCGAACTCGAAGGTC
Found at i:6345634 original size:252 final size:251
Alignment explanation
Indices: 6345343--6346707 Score: 1483
Period size: 252 Copynumber: 5.5 Consensus size: 251
6345333 AACTCGAAAA
* * * * * * *
6345343 TTTTGTTGACAGATAACCCTTTTTGCCCTGAGCTATGCTGTAAATGACGTGCCTTTGAGCTGAGT
1 TTTTGTTGGCAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGT
* * * *
6345408 ATAATCGAACTTGAAGGTCTTTTGTTGGCAGATAACCCTTTTAGCCTTGAGTTATACTACAAATG
66 GTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTTTAGCCTTGAGTTATGCTGCAAATG
* *
6345473 ATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTTGTTGGCAAATAACCCTTCTTGCC
131 ATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGTTGGCAGATAACCCTTCTTGCC
* * * * * *
6345538 TTAATCTATGTTGCAAATGATGTGCCTTGGAGTTGAGCGTAGTTGAACTCGAAGGTC
195 TTAAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAGTCGAACTCGAAGGTC
* * * * *
6345595 TTTTGTTTGTAGATAACCCTTCCAGCCTTGAGTTATGCTGCAGATGATGTGCCTTGGAGCTGAGT
1 TTTTGTTGGCAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGT
* * * * * *
6345660 GTATTCAAACTCGAAGGTCTTTTGTTGGCACATAA-CCTTTCTTGCCTTGAGCTATGTTGCAAAT
66 GTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTT-TAGCCTTGAGTTATGCTGCAAAT
* * * *
6345724 GATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTCTGGTTGGCAGATAACTCTTCTAGC
130 GATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCT-TTGTTGGCAGATAACCCTTCTTGC
* ** * * * *
6345789 CTTGA-CTTATGCTATAAATGATATGCCTTTGAGCTAAGTGTGGTCGAACTCGAAGTTC
194 CTTAAGC-TATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAGTCGAACTCGAAGGTC
* * * *
6345847 TTTTGTTGGCAAATAACCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTGGAGCTGAGC
1 TTTTGTTGGCAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGT
* * * * * * *
6345912 GTATTCGAACTCGAAGGTCTTTTGTTGGCAAATAGCTCTTCTT-GCCTTTAGCTATGTTGCAAAT
66 GTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTT-TTAGCCTTGAGTTATGCTGCAAAT
* * *
6345976 GATGTGCCTTGGAGCCGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGA
130 GATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTT-GTTGGCAGATAACCCTTCTTGC
* * * * *
6346041 CTTGAGTTATGCTGCAAATGATATGTCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTC
194 CTTAAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAGTCGAACTCGAAGGTC
* * * * * *
6346099 TTTTGTTGGCAAATAGCCCTTCTTGCCTTGAGTTATGTTGCAAATGATGTGCCTTGGAGCT-AGC
1 TTTTGTTGGCAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGT
* * * *
6346163 GTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGCCATGAGTTATGCTGCAAATG
66 GTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTTTAGCCTTGAGTTATGCTGCAAATG
* * * * * *
6346228 ATATACCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC--T-TTGGCAGATAGCCCTTATTTCCA
131 ATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTTGCCT
* * * * *
6346290 TAAGCTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTATAATCGAACTCGAGGGTC
196 TAAGCTATGCTGCAAATGATGTGCCTTTG-AGCTGAGTGTAGTCGAACTCGAAGGTC
* * * * *
6346347 ---T-TTCGCATATAGCCCTTCTAGCCTTGAGCTATACTGCAAATGATGTGCCGTT-GAACTGAG
1 TTTTGTTGGCAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAATGATGTGCC-TTGGAGCTGAG
* * * * *
6346407 TGTAATTGAACTCAAAGGTC-TTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTACAAAT
65 TGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTTTAGCCTTGAGTTATGCTGCAAAT
** * * * * * *
6346471 GATGTGCCCACGAAGTTGAGTGTAATCGAACTCGAGGGTC--T-TTGGCAGATAACCCTTATTGC
130 GATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTTGC
* * *
6346533 CTTAAGCTATGCTGCAAATGATGTG-CTTTGAGCTGATTGTAATCGAACTCAAAGGTC
194 CTTAAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAGTCGAACTCGAAGGTC
* ** * * *
6346590 -TTTGTTGACAGATAACCCTTCTAGCCTTGAATTATGCTGCAAATGATGTGCCCTCGAAGTTGAG
1 TTTTGTTGGCAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAATGATGTG-CCTTGGAGCTGAG
* * * *
6346654 TGTAATCGAACTCGAAGGTC-TTGGCTGACAGATAA-CCTTTCTCGCCTTGAGTTA
65 TGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTT-TAGCCTTGAGTTA
6346708 AACTGCCAAT
Statistics
Matches: 949, Mismatches: 146, Indels: 41
0.84 0.13 0.04
Matches are distributed among these distances:
243 23 0.02
244 93 0.10
245 92 0.10
246 44 0.05
247 90 0.09
248 23 0.02
249 1 0.00
250 1 0.00
251 99 0.10
252 478 0.50
253 4 0.00
254 1 0.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.33
Consensus pattern (251 bp):
TTTTGTTGGCAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGT
GTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTTTAGCCTTGAGTTATGCTGCAAATG
ATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTTGCCT
TAAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAGTCGAACTCGAAGGTC
Found at i:6348049 original size:95 final size:95
Alignment explanation
Indices: 6347847--6348110 Score: 343
Period size: 95 Copynumber: 2.7 Consensus size: 95
6347837 TGCTAGCTGA
* * * * *
6347847 ATCCATAAAGCGGGGGCGTTTAACCAATTGCTCTAGAGGTACAACTTAATATCATTGTATAG-AT
1 ATCCATAAAGCCGGGGCGTTTAACCAATTGTTCTAGAGGTACAAC-TCA-AGC-TT-TATTGTAT
6347911 ATTATAATCACTTTTATCAGGCTAGCTGAATATT
62 ATTATAATCACTTTTATCAGGCTAGCTGAATATT
* *
6347945 ATCCATAAAGCCAGGGCGTTTAACCAATTGTTCTAGAGGGACAACTCAAGCTTTATTGTATATTA
1 ATCCATAAAGCCGGGGCGTTTAACCAATTGTTCTAGAGGTACAACTCAAGCTTTATTGTATATTA
*
6348010 TAATCACTTTTATCAGGCTAGCTGAATCTT
66 TAATCACTTTTATCAGGCTAGCTGAATATT
* * ** *
6348040 TTCCATAAAGTCGGGGAATTTAACCAATTGCTT-TAGAGGTACAGCTCAAGCTTTATTGTATATA
1 ATCCATAAAGCCGGGGCGTTTAACCAATTG-TTCTAGAGGTACAACTCAAGCTTTATTGTATAT-
6348104 TATAATC
64 TATAATC
6348111 TGGGTATACG
Statistics
Matches: 148, Mismatches: 15, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
94 4 0.03
95 90 0.61
96 11 0.07
97 2 0.01
98 41 0.28
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (95 bp):
ATCCATAAAGCCGGGGCGTTTAACCAATTGTTCTAGAGGTACAACTCAAGCTTTATTGTATATTA
TAATCACTTTTATCAGGCTAGCTGAATATT
Found at i:6350752 original size:11 final size:10
Alignment explanation
Indices: 6350736--6350818 Score: 84
Period size: 11 Copynumber: 8.2 Consensus size: 10
6350726 AAAGAACATC
6350736 AATAAATATAA
1 AATAAA-ATAA
6350747 AAT-AAATAA
1 AATAAAATAA
6350756 AATAAAATAAA
1 AATAAAAT-AA
6350767 AATAAAGATAA
1 AATAAA-ATAA
6350778 AATAAAGCA-AA
1 AATAAA--ATAA
6350789 AATAAAAT-A
1 AATAAAATAA
6350798 AAT-AAATAA
1 AATAAAATAA
*
6350807 AATAAAACAA
1 AATAAAATAA
6350817 AA
1 AA
6350819 AATAAAATTG
Statistics
Matches: 63, Mismatches: 2, Indels: 15
0.79 0.03 0.19
Matches are distributed among these distances:
8 4 0.06
9 16 0.25
10 13 0.21
11 27 0.43
12 3 0.05
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.18
Consensus pattern (10 bp):
AATAAAATAA
Found at i:6350755 original size:47 final size:46
Alignment explanation
Indices: 6350702--6350826 Score: 112
Period size: 47 Copynumber: 2.7 Consensus size: 46
6350692 ATAAACAAAT
* * * *
6350702 TAAATAAAAAAATTAAGGAAATAAAAAGAACATCAA-TAAATATAAAA
1 TAAATAAAAAAATTAA--AAATAAAAAGAAAATAAAGCAAAAATAAAA
* * *
6350749 TAAATAAAATAAAATAAAAATAAAGATAAAATAAAGCAAAAATAAAA
1 TAAATAAAA-AAATTAAAAATAAAAAGAAAATAAAGCAAAAATAAAA
*
6350796 TAAATAAATAAAA-TAAAACA-AAAAATAAAAT
1 TAAATAAA-AAAATTAAAA-ATAAAAAGAAAAT
6350827 TGAAGAAGAA
Statistics
Matches: 66, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
46 29 0.44
47 30 0.45
48 7 0.11
ACGTcount: A:0.74, C:0.03, G:0.04, T:0.18
Consensus pattern (46 bp):
TAAATAAAAAAATTAAAAATAAAAAGAAAATAAAGCAAAAATAAAA
Found at i:6350826 original size:5 final size:5
Alignment explanation
Indices: 6350736--6350818 Score: 84
Period size: 5 Copynumber: 16.4 Consensus size: 5
6350726 AAAGAACATC
6350736 AATAA ATATAA AAT-A AATAA AATAA AATAAA AATAA AGATAA AATAA
1 AATAA A-ATAA AATAA AATAA AATAA AAT-AA AATAA A-ATAA AATAA
*
6350783 AGCA-AA AATAA AAT-A AAT-A AATAA AATAA AACAA AA
1 A--ATAA AATAA AATAA AATAA AATAA AATAA AATAA AA
6350819 AATAAAATTG
Statistics
Matches: 69, Mismatches: 1, Indels: 16
0.80 0.01 0.19
Matches are distributed among these distances:
4 13 0.19
5 37 0.54
6 18 0.26
7 1 0.01
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.18
Consensus pattern (5 bp):
AATAA
Found at i:6363811 original size:23 final size:23
Alignment explanation
Indices: 6363784--6363831 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
6363774 TATGGGTTTG
*
6363784 ATATTAAAATAAGTGTTTAAGTT
1 ATATTAAAATAAGTGTTTAAATT
*
6363807 ATATTTAAATAAGTGTTTAAATT
1 ATATTAAAATAAGTGTTTAAATT
6363830 AT
1 AT
6363832 TTTTTATTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (23 bp):
ATATTAAAATAAGTGTTTAAATT
Found at i:6364572 original size:17 final size:18
Alignment explanation
Indices: 6364547--6364584 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
6364537 TTGTTGAAAG
6364547 ATAACTTAAAC-AAATTA
1 ATAACTTAAACTAAATTA
* *
6364564 ATAATTTAAACTTAATTA
1 ATAACTTAAACTAAATTA
6364582 ATA
1 ATA
6364585 TAATACATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (18 bp):
ATAACTTAAACTAAATTA
Found at i:6368772 original size:25 final size:25
Alignment explanation
Indices: 6368743--6368808 Score: 93
Period size: 25 Copynumber: 2.8 Consensus size: 25
6368733 AATAATAATA
6368743 GCATGTTATTAATTCATGTGGCATT
1 GCATGTTATTAATTCATGTGGCATT
* *
6368768 TCATGTTATTAATTCATGTTGCATT
1 GCATGTTATTAATTCATGTGGCATT
6368793 GCA---TATTAATTCATGT
1 GCATGTTATTAATTCATGT
6368809 TACATTAGGT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
22 13 0.34
25 25 0.66
ACGTcount: A:0.26, C:0.12, G:0.15, T:0.47
Consensus pattern (25 bp):
GCATGTTATTAATTCATGTGGCATT
Found at i:6379130 original size:20 final size:20
Alignment explanation
Indices: 6379105--6379158 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
6379095 AGTGCATTTG
6379105 ATGCATCGATGCACAAGACC
1 ATGCATCGATGCACAAGACC
*
6379125 ATGCATCAATGCACAAGACC
1 ATGCATCGATGCACAAGACC
6379145 ATGCATCGATGCAC
1 ATGCATCGATGCAC
6379159 TCAGGTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.35, C:0.30, G:0.19, T:0.17
Consensus pattern (20 bp):
ATGCATCGATGCACAAGACC
Found at i:6385048 original size:24 final size:22
Alignment explanation
Indices: 6385021--6385101 Score: 69
Period size: 24 Copynumber: 3.6 Consensus size: 22
6385011 ACACTTAACA
6385021 GTGCATCGATGCATCCCTTTGAAT
1 GTGCATCGATGCAT-CCTTTG-AT
* *
6385045 GTGCATCGATTCATCATGTTGA-
1 GTGCATCGATGCATCCT-TTGAT
*
6385067 -TGCACCGATGCATGCC-TTGTAT
1 GTGCATCGATGCAT-CCTTTG-AT
6385089 GTGCATCGATGCA
1 GTGCATCGATGCA
6385102 CAAGGCTATG
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
20 3 0.07
21 12 0.26
22 1 0.02
23 14 0.30
24 16 0.35
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.32
Consensus pattern (22 bp):
GTGCATCGATGCATCCTTTGAT
Found at i:6386694 original size:21 final size:21
Alignment explanation
Indices: 6386652--6386695 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
6386642 ACCCCGGGAG
**
6386652 CTAGCTCTTCACGAGCTGCTC
1 CTAGCTCTTCACGAGCCCCTC
* *
6386673 CTAGCTCTTCTCGTGCCCCTC
1 CTAGCTCTTCACGAGCCCCTC
6386694 CT
1 CT
6386696 CCTCCTCTGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.09, C:0.43, G:0.16, T:0.32
Consensus pattern (21 bp):
CTAGCTCTTCACGAGCCCCTC
Found at i:6387791 original size:20 final size:20
Alignment explanation
Indices: 6387762--6387799 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
6387752 TTTCAAAGTG
6387762 ATGCACCGATGCACCAATCC
1 ATGCACCGATGCACCAATCC
*
6387782 ATGCATCGATGCACCAAT
1 ATGCACCGATGCACCAAT
6387800 TAATTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.34, G:0.16, T:0.18
Consensus pattern (20 bp):
ATGCACCGATGCACCAATCC
Found at i:6389619 original size:6 final size:6
Alignment explanation
Indices: 6389600--6389700 Score: 57
Period size: 6 Copynumber: 17.2 Consensus size: 6
6389590 ATGCTTGAAC
* * * * *
6389600 AAGAAG AAGAAA AA-AGA AA-AAA AGGAAA AAGGAA AAG-AA AA-CAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA
* * * * *
6389644 AAGGAA AATAAA AAGAAA AAGAAA AATAAAA AAAATAA AAGAAA AGGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AA-GAAA AAGA-AA AAGAAA AAGAAA
*
6389694 AATAAA A
1 AAGAAA A
6389701 TGATAGAAAA
Statistics
Matches: 75, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
5 15 0.20
6 50 0.67
7 10 0.13
ACGTcount: A:0.79, C:0.01, G:0.16, T:0.04
Consensus pattern (6 bp):
AAGAAA
Found at i:6389645 original size:16 final size:16
Alignment explanation
Indices: 6389626--6389656 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6389616 AAAAAAAGGA
6389626 AAAAGGAAAAGAAAAC
1 AAAAGGAAAAGAAAAC
*
6389642 AAAAGGAAAATAAAA
1 AAAAGGAAAAGAAAA
6389657 AGAAAAAGAA
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:0.77, C:0.03, G:0.16, T:0.03
Consensus pattern (16 bp):
AAAAGGAAAAGAAAAC
Found at i:6389651 original size:22 final size:22
Alignment explanation
Indices: 6389610--6389700 Score: 75
Period size: 22 Copynumber: 4.2 Consensus size: 22
6389600 AAGAAGAAGA
6389610 AAAAAG-AAAAAAAGGAAAAAG
1 AAAAAGAAAAAAAAGGAAAAAG
* *
6389631 GAAAAGAAAACAAAAGG-AAAAT
1 AAAAAGAAAA-AAAAGGAAAAAG
6389653 AAAAAGAAAAAGAAA--AATAAA-
1 AAAAAGAAAAA-AAAGGAA-AAAG
* *
6389674 AAAAATAAAAGAAAAGGAAAAAT
1 AAAAAGAAAA-AAAAGGAAAAAG
6389697 AAAA
1 AAAA
6389701 TGATAGAAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
21 19 0.33
22 26 0.46
23 12 0.21
ACGTcount: A:0.80, C:0.01, G:0.14, T:0.04
Consensus pattern (22 bp):
AAAAAGAAAAAAAAGGAAAAAG
Found at i:6389696 original size:17 final size:16
Alignment explanation
Indices: 6389600--6389700 Score: 73
Period size: 17 Copynumber: 6.1 Consensus size: 16
6389590 ATGCTTGAAC
6389600 AAGAAGAAGAAAAAAGAA
1 AAGAA-AAG-AAAAAGAA
*
6389618 AA-AAAGGAAAAAGGAA
1 AAGAAAAGAAAAA-GAA
* *
6389634 AAGAAAACAAAAGGAA
1 AAGAAAAGAAAAAGAA
*
6389650 AATAAAAAGAAAAAGAA
1 AA-GAAAAGAAAAAGAA
*
6389667 AA-ATAAA-AAAAATAA
1 AAGA-AAAGAAAAAGAA
*
6389682 AAGAAAAGGAAAAATAA
1 AAGAAAA-GAAAAAGAA
6389699 AA
1 AA
6389701 TGATAGAAAA
Statistics
Matches: 68, Mismatches: 8, Indels: 15
0.75 0.09 0.16
Matches are distributed among these distances:
15 18 0.26
16 16 0.24
17 32 0.47
18 2 0.03
ACGTcount: A:0.79, C:0.01, G:0.16, T:0.04
Consensus pattern (16 bp):
AAGAAAAGAAAAAGAA
Found at i:6392005 original size:25 final size:25
Alignment explanation
Indices: 6391956--6392005 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
6391946 AATAATTATA
*
6391956 TCATGTTATTAATTCATGTGGCATT
1 TCATGTTATTAATTCATGTGACATT
*
6391981 TCATGTTATTAATTCATGTTACATT
1 TCATGTTATTAATTCATGTGACATT
6392006 AGGTATTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.26, C:0.12, G:0.12, T:0.50
Consensus pattern (25 bp):
TCATGTTATTAATTCATGTGACATT
Found at i:6395289 original size:4 final size:4
Alignment explanation
Indices: 6395280--6395308 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
6395270 ATACCCCTTC
6395280 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
6395309 TTACCTCTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:6396172 original size:25 final size:25
Alignment explanation
Indices: 6396125--6396173 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
6396115 CTATTTTGTA
* **
6396125 AATTTTAAATTCATATTAAAAAATT
1 AATTTGAAATTCATAACAAAAAATT
*
6396150 AATTTGAAATTCATAACATAAAAT
1 AATTTGAAATTCATAACAAAAAAT
6396174 ATGCATTATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (25 bp):
AATTTGAAATTCATAACAAAAAATT
Found at i:6401813 original size:140 final size:140
Alignment explanation
Indices: 6401557--6402571 Score: 1275
Period size: 140 Copynumber: 7.2 Consensus size: 140
6401547 ATAGACCAAC
* * * * * * * * *
6401557 TAACATTTCCAGTGGAGAGTTTATAATAAGAAGAACAT-ATCTGATAGAGGGAGAACAAGTCCAC
1 TAACATTTCCAATGAAGGGTTCATAATGAGAAGAAC-TCATCCGATAGAGGGAGAAGAAGTTCAT
* *
6401621 AATGAGAAGAATTTGTTCAACCTTTGCTCGATTCATCGTATATGGAGTTGAATCAGCGATGCCTC
65 AATGAGAAGAACTTGTTCAACCTTTGCTCGATTCATCGCATATGGAGTTGAATCAGCGATGCCTC
6401686 ACTCGAGGGAT
130 ACTCGAGGGAT
* * *
6401697 TAATATTTCCAATTAAGGGTTCATAATGAGAAGAACTCATCCGTTAGAGGGAGAAGAAGTTCATA
1 TAACATTTCCAATGAAGGGTTCATAATGAGAAGAACTCATCCGATAGAGGGAGAAGAAGTTCATA
* *
6401762 ATGAGAAGAACTTGTTCAACCTTTGCTCGATTTATCGCATATGGAGTTGAATCAGTGATGCCTCA
66 ATGAGAAGAACTTGTTCAACCTTTGCTCGATTCATCGCATATGGAGTTGAATCAGCGATGCCTCA
6401827 CTCGAGGGAT
131 CTCGAGGGAT
* * *
6401837 TAACATTTCCAATGCAGGGTTTATAATGAGAAAAACTCATCCGATAGAGGGAGAAGAAGTTCATA
1 TAACATTTCCAATGAAGGGTTCATAATGAGAAGAACTCATCCGATAGAGGGAGAAGAAGTTCATA
* * * **
6401902 ATGAGAATAACTTGTTCACCCTTTGCTCGATTCATCGCATATGAAGTTGAATCAGCGACACCTCA
66 ATGAGAAGAACTTGTTCAACCTTTGCTCGATTCATCGCATATGGAGTTGAATCAGCGATGCCTCA
6401967 CTCGAGGGAT
131 CTCGAGGGAT
* * ** *
6401977 TAACATTTCCAGTGAAGAGTTCATAATGAGAAGAACTCATCTAATAGAAGGAGAAGAAGTTCATA
1 TAACATTTCCAATGAAGGGTTCATAATGAGAAGAACTCATCCGATAGAGGGAGAAGAAGTTCATA
* *
6402042 ATGAGAATAACTTGTTCAACCTTTGCTCGATTCATCGCATATGGAGTTGAATCAGCAATGCCTCA
66 ATGAGAAGAACTTGTTCAACCTTTGCTCGATTCATCGCATATGGAGTTGAATCAGCGATGCCTCA
* *
6402107 CTTGAGGAAT
131 CTCGAGGGAT
* * * ** *
6402117 TAACATATCCAATGGAGGGTTCGTAATGAGAAGAACTCATATGAT-GAGGGAGAAGAAATTCATA
1 TAACATTTCCAATGAAGGGTTCATAATGAGAAGAACTCATCCGATAGAGGGAGAAGAAGTTCATA
* * * * ** *
6402181 ATGAGAGGAACTTGTTCAGCCTTTGCTCGATTCATCGCATATAGAGTTGAATCTGTAATGCCTTA
66 ATGAGAAGAACTTGTTCAACCTTTGCTCGATTCATCGCATATGGAGTTGAATCAGCGATGCCTCA
6402246 CTCGAGGGAT
131 CTCGAGGGAT
* * * *
6402256 TAACATTTACAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATAGAGGGAGAAGAAGTTCATA
1 TAACATTTCCAATGAAGGGTTCATAATGAGAAGAACTCATCCGATAGAGGGAGAAGAAGTTCATA
* * * * * *
6402321 ATGAAAATAACTTGTTCAACCTTTTCTCGATTCATCACATATGGAGTTGAATCAACAATGCCTCA
66 ATGAGAAGAACTTGTTCAACCTTTGCTCGATTCATCGCATATGGAGTTGAATCAGCGATGCCTCA
*
6402386 CTTGAGGGAT
131 CTCGAGGGAT
* * ** * * * *
6402396 TAATATATCCAATTG-AGGGTTGGTAATGAGAATAACTCATTCAAT-GAGAGAGAAGAAGTTCAT
1 TAACATTTCCAA-TGAAGGGTTCATAATGAGAAGAACTCATCCGATAGAGGGAGAAGAAGTTCAT
* ** * * **
6402459 AATGAGACGAACTTGTTCAACCTTAACTCGATTCATCGCATTTAGAGTTGAATCAATGATGCCTC
65 AATGAGAAGAACTTGTTCAACCTTTGCTCGATTCATCGCATATGGAGTTGAATCAGCGATGCCTC
6402524 ACTCGAGGGAT
130 ACTCGAGGGAT
* * *
6402535 CAACATTTTTCAA-GTAGAGAGTTCATAATGAGAAGAA
1 TAACA-TTTCCAATG-A-AGGGTTCATAATGAGAAGAA
6402572 TTGCAACTTG
Statistics
Matches: 756, Mismatches: 112, Indels: 13
0.86 0.13 0.01
Matches are distributed among these distances:
138 1 0.00
139 207 0.27
140 530 0.70
141 18 0.02
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (140 bp):
TAACATTTCCAATGAAGGGTTCATAATGAGAAGAACTCATCCGATAGAGGGAGAAGAAGTTCATA
ATGAGAAGAACTTGTTCAACCTTTGCTCGATTCATCGCATATGGAGTTGAATCAGCGATGCCTCA
CTCGAGGGAT
Found at i:6402311 original size:279 final size:280
Alignment explanation
Indices: 6401557--6402571 Score: 1367
Period size: 279 Copynumber: 3.6 Consensus size: 280
6401547 ATAGACCAAC
* * * * * * *
6401557 TAACATTTCCAGTGGAGAGTTTATAATAAGAAGAACAT-ATCTGATAGAGGGAGAACAAGTCCAC
1 TAACATATCCAATGGAGGGTTTATAATGAGAAGAAC-TCATCTGATAGAGGGAGAAGAAGTTCAT
* * *
6401621 AATGAGAAGAATTTGTTCAACCTTTGCTCGATTCATCGTATATGGAGTTGAATCAGCGATGCCTC
65 AATGAGAAGAACTTGTTCAACCTTTGCTCGATTCATCGCATATAGAGTTGAATCAGCGATGCCTC
* * * * *
6401686 ACTCGAGGGATTAATATTTCCAATTAAGGGTTCATAATGAGAAGAACTCATCCGTTAGAGGGAGA
130 ACTCGAGGGATTAACATTTCCAGTGAAGAGTTCATAATGAGAAGAACTCATCCGATAGAGGGAGA
* *
6401751 AGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTGCTCGATTTATCGCATATGGAGTTGAATCA
195 AGAAGTTCATAATGAGAATAACTTGTTCAACCTTTGCTCGATTCATCGCATATGGAGTTGAATCA
** *
6401816 GTGATGCCTCACTCGAGGGAT
260 GCAATGCCTCACTTGAGGGAT
* * * *
6401837 TAACATTTCCAATGCAGGGTTTATAATGAGAAAAACTCATCCGATAGAGGGAGAAGAAGTTCATA
1 TAACATATCCAATGGAGGGTTTATAATGAGAAGAACTCATCTGATAGAGGGAGAAGAAGTTCATA
* * **
6401902 ATGAGAATAACTTGTTCACCCTTTGCTCGATTCATCGCATAT-GAAGTTGAATCAGCGACACCTC
66 ATGAGAAGAACTTGTTCAACCTTTGCTCGATTCATCGCATATAG-AGTTGAATCAGCGATGCCTC
** *
6401966 ACTCGAGGGATTAACATTTCCAGTGAAGAGTTCATAATGAGAAGAACTCATCTAATAGAAGGAGA
130 ACTCGAGGGATTAACATTTCCAGTGAAGAGTTCATAATGAGAAGAACTCATCCGATAGAGGGAGA
6402031 AGAAGTTCATAATGAGAATAACTTGTTCAACCTTTGCTCGATTCATCGCATATGGAGTTGAATCA
195 AGAAGTTCATAATGAGAATAACTTGTTCAACCTTTGCTCGATTCATCGCATATGGAGTTGAATCA
*
6402096 GCAATGCCTCACTTGAGGAAT
260 GCAATGCCTCACTTGAGGGAT
** * *
6402117 TAACATATCCAATGGAGGGTTCGTAATGAGAAGAACTCATATGAT-GAGGGAGAAGAAATTCATA
1 TAACATATCCAATGGAGGGTTTATAATGAGAAGAACTCATCTGATAGAGGGAGAAGAAGTTCATA
* * * ** *
6402181 ATGAGAGGAACTTGTTCAGCCTTTGCTCGATTCATCGCATATAGAGTTGAATCTGTAATGCCTTA
66 ATGAGAAGAACTTGTTCAACCTTTGCTCGATTCATCGCATATAGAGTTGAATCAGCGATGCCTCA
* *
6402246 CTCGAGGGATTAACATTTACAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATAGAGGGAGAA
131 CTCGAGGGATTAACATTTCCAGTGAAGAGTTCATAATGAGAAGAACTCATCCGATAGAGGGAGAA
* * * *
6402311 GAAGTTCATAATGAAAATAACTTGTTCAACCTTTTCTCGATTCATCACATATGGAGTTGAATCAA
196 GAAGTTCATAATGAGAATAACTTGTTCAACCTTTGCTCGATTCATCGCATATGGAGTTGAATCAG
6402376 CAATGCCTCACTTGAGGGAT
261 CAATGCCTCACTTGAGGGAT
* * ** * * *
6402396 TAATATATCCAATTGAGGGTTGGTAATGAGAATAACTCAT-TCA-ATGAGAGAGAAGAAGTTCAT
1 TAACATATCCAATGGAGGGTTTATAATGAGAAGAACTCATCTGATA-GAGGGAGAAGAAGTTCAT
* ** * **
6402459 AATGAGACGAACTTGTTCAACCTTAACTCGATTCATCGCATTTAGAGTTGAATCAATGATGCCTC
65 AATGAGAAGAACTTGTTCAACCTTTGCTCGATTCATCGCATATAGAGTTGAATCAGCGATGCCTC
* *
6402524 ACTCGAGGGATCAACATTTTTCAAGT-AGAGAGTTCATAATGAGAAGAA
130 ACTCGAGGGATTAACA--TTTCCAGTGA-AGAGTTCATAATGAGAAGAA
6402572 TTGCAACTTG
Statistics
Matches: 651, Mismatches: 76, Indels: 15
0.88 0.10 0.02
Matches are distributed among these distances:
278 2 0.00
279 337 0.52
280 286 0.44
281 26 0.04
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (280 bp):
TAACATATCCAATGGAGGGTTTATAATGAGAAGAACTCATCTGATAGAGGGAGAAGAAGTTCATA
ATGAGAAGAACTTGTTCAACCTTTGCTCGATTCATCGCATATAGAGTTGAATCAGCGATGCCTCA
CTCGAGGGATTAACATTTCCAGTGAAGAGTTCATAATGAGAAGAACTCATCCGATAGAGGGAGAA
GAAGTTCATAATGAGAATAACTTGTTCAACCTTTGCTCGATTCATCGCATATGGAGTTGAATCAG
CAATGCCTCACTTGAGGGAT
Found at i:6402716 original size:20 final size:20
Alignment explanation
Indices: 6402693--6402735 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
6402683 AATCTATTTA
* *
6402693 TATATTATTATTAATATTAT
1 TATATTATAAATAATATTAT
*
6402713 TATATTATAAATACTATTAT
1 TATATTATAAATAATATTAT
6402733 TAT
1 TAT
6402736 TTACAAACCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
TATATTATAAATAATATTAT
Found at i:6402720 original size:17 final size:17
Alignment explanation
Indices: 6402698--6402732 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
6402688 ATTTATATAT
* *
6402698 TATTATTAATATTATTA
1 TATTATAAATACTATTA
6402715 TATTATAAATACTATTA
1 TATTATAAATACTATTA
6402732 T
1 T
6402733 TATTTACAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (17 bp):
TATTATAAATACTATTA
Found at i:6402877 original size:23 final size:23
Alignment explanation
Indices: 6402849--6402893 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
6402839 AAAATACCCA
* *
6402849 AAACAAAACCTGACCCAGAGCCC
1 AAACAAAACCCGACCCAAAGCCC
6402872 AAACAAAACCCGACCCAAAGCC
1 AAACAAAACCCGACCCAAAGCC
6402894 TACCCTAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.47, C:0.40, G:0.11, T:0.02
Consensus pattern (23 bp):
AAACAAAACCCGACCCAAAGCCC
Found at i:6405261 original size:32 final size:32
Alignment explanation
Indices: 6405225--6405294 Score: 113
Period size: 32 Copynumber: 2.2 Consensus size: 32
6405215 ATTTTGAAAT
**
6405225 TAAATAAAGTTCAAACTCAAAATTTTCAATTC
1 TAAATAAAGGGCAAACTCAAAATTTTCAATTC
*
6405257 TAAATATAGGGCAAACTCAAAATTTTCAATTC
1 TAAATAAAGGGCAAACTCAAAATTTTCAATTC
6405289 TAAATA
1 TAAATA
6405295 TAGCGTAATC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.47, C:0.14, G:0.06, T:0.33
Consensus pattern (32 bp):
TAAATAAAGGGCAAACTCAAAATTTTCAATTC
Found at i:6405295 original size:32 final size:32
Alignment explanation
Indices: 6405236--6405297 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
6405226 AAATAAAGTT
6405236 CAAACTCAAAATTTTCAATTCTAAATATAGGG
1 CAAACTCAAAATTTTCAATTCTAAATATAGGG
6405268 CAAACTCAAAATTTTCAATTCTAAATATAG
1 CAAACTCAAAATTTTCAATTCTAAATATAG
6405298 CGTAATCAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.45, C:0.16, G:0.06, T:0.32
Consensus pattern (32 bp):
CAAACTCAAAATTTTCAATTCTAAATATAGGG
Found at i:6406630 original size:23 final size:23
Alignment explanation
Indices: 6406579--6406646 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 23
6406569 CATATTCGGT
*
6406579 TTGTTTAGCATTTACGAACATAG
1 TTGTTTAGCATTCACGAACATAG
* *
6406602 TCGTTTAGCATTCACGAATAT-G
1 TTGTTTAGCATTCACGAACATAG
* * *
6406624 CTTGTTTAACGTTCGCGAACATA
1 -TTGTTTAGCATTCACGAACATA
6406647 TTCACTTAAC
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
22 1 0.03
23 34 0.97
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.37
Consensus pattern (23 bp):
TTGTTTAGCATTCACGAACATAG
Found at i:6408856 original size:2 final size:2
Alignment explanation
Indices: 6408849--6408879 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
6408839 TTTTGGTAAT
*
6408849 TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6408880 TATTTTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:6409225 original size:16 final size:16
Alignment explanation
Indices: 6409204--6409236 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
6409194 TATCACACAT
6409204 AGATGGACACAAATCA
1 AGATGGACACAAATCA
6409220 AGATGGACACAAATCA
1 AGATGGACACAAATCA
6409236 A
1 A
6409237 ACAAGCAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.52, C:0.18, G:0.18, T:0.12
Consensus pattern (16 bp):
AGATGGACACAAATCA
Found at i:6417785 original size:7 final size:7
Alignment explanation
Indices: 6417773--6417798 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
6417763 TAAACAAATG
6417773 AATATAA
1 AATATAA
6417780 AATATAA
1 AATATAA
6417787 AATATAA
1 AATATAA
6417794 AATAT
1 AATAT
6417799 GTTCGTTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
AATATAA
Found at i:6418523 original size:157 final size:155
Alignment explanation
Indices: 6418196--6418654 Score: 520
Period size: 157 Copynumber: 2.9 Consensus size: 155
6418186 ATCCTCCTTC
* * * * *
6418196 ATTTTAAGT-CTATTTTTACGAAATTTGAACTATATGCTCCTAAACCATAGTAGAATATATGTGT
1 ATTTTAAGTCCT-TTTTTACCAAATTTGAGCCAAATGCTCCTAAACCATAGTAGAATACATGTGT
* * * *
6418260 ACTTTCAATTCCTCTTTTAGAT--AATTTTTTATTTTTCAATTTAATCCTTCAATTTTTCATGAT
65 ACTTTCAATTCATCTTTTTGATAAAATTTTTTATTTTTTAATTTAGTCCTTCAATTTTTCATGAT
* *
6418323 CTCCTTATTTTTTCAATGCATCATTT
130 CTCCTTATTTCTTCAATTCATCATTT
* *
6418349 ATTTTAAGTCCTGTTTTTTTACCCAAATTTGAGCCACATGCTCCTAAAACATAGTAGAATACATG
1 ATTTTAAGTCC---TTTTTTA-CCAAATTTGAGCCAAATGCTCCTAAACCATAGTAGAATACATG
* * * *
6418414 TGTACTTTCAATTCATCTTTTTGATAAAAATATTTCTTTTTTAATTTAGTCCTTTAATTTTTCAT
62 TGTACTTTCAATTCATCTTTTTGATAAAATTTTTTATTTTTTAATTTAGTCCTTCAATTTTTCAT
* *
6418479 GATTTCCTTATTTCTTCAATTCTTCATTT
127 GATCTCCTTATTTCTTCAATTCATCATTT
* * * * *
6418508 ATTTTAACTCC-TTTTTACCGAATTTGAGCCAAACGCTCCTAAACCATAGTAAAATACGTGTGTA
1 ATTTTAAGTCCTTTTTTACCAAATTTGAGCCAAATGCTCCTAAACCATAGTAGAATACATGTGTA
* *
6418572 -TTGTCAATTCCA-CTTTTTGATAACATTTTTTTTTATTTTTCAATTTAGT--TTCAATTTTTCA
66 CTT-TCAATT-CATCTTTTTGATAA-A--ATTTTTTATTTTTTAATTTAGTCCTTCAATTTTTCA
* *
6418633 TAATCTCCTTATTCCTTCAATT
126 TGATCTCCTTATTTCTTCAATT
6418655 TGTGATTTAG
Statistics
Matches: 260, Mismatches: 34, Indels: 22
0.82 0.11 0.07
Matches are distributed among these distances:
153 11 0.04
154 59 0.23
155 39 0.15
156 6 0.02
157 78 0.30
159 67 0.26
ACGTcount: A:0.27, C:0.17, G:0.07, T:0.48
Consensus pattern (155 bp):
ATTTTAAGTCCTTTTTTACCAAATTTGAGCCAAATGCTCCTAAACCATAGTAGAATACATGTGTA
CTTTCAATTCATCTTTTTGATAAAATTTTTTATTTTTTAATTTAGTCCTTCAATTTTTCATGATC
TCCTTATTTCTTCAATTCATCATTT
Found at i:6418589 original size:154 final size:156
Alignment explanation
Indices: 6418231--6418654 Score: 504
Period size: 159 Copynumber: 2.7 Consensus size: 156
6418221 TGAACTATAT
* * *
6418231 GCTCCTAAACCATAGTAGAATATATGTGTACTTTCAATTCCTCTTTTAGAT--AATTTTTTATTT
1 GCTCCTAAACCATAGTAGAATACATGTGTACTTTCAATTCCACTTTTTGATAAAATTTTTTATTT
* * * * *
6418294 TTCAATTTAATCCTTCAATTTTTCATGATCTCCTTATTTTTTCAATGCATCATTTATTTTAAGTC
66 TTTAATTTAGTCCTTCAATTTTTCATGATCTCCTTATTTCTTCAATTCATCATTTATTTTAACTC
* *
6418359 CTGTTTTTTTACCCAAATTTGAGCCACAT
131 C---TTTTTTACCCAAATTTGAGCCAAAC
* * * *
6418388 GCTCCTAAAACATAGTAGAATACATGTGTACTTTCAATT-CATCTTTTTGATAAAAATATTTCTT
1 GCTCCTAAACCATAGTAGAATACATGTGTACTTTCAATTCCA-CTTTTTGATAAAATTTTTTATT
* * *
6418452 TTTTAATTTAGTCCTTTAATTTTTCATGATTTCCTTATTTCTTCAATTCTTCATTTATTTTAACT
65 TTTTAATTTAGTCCTTCAATTTTTCATGATCTCCTTATTTCTTCAATTCATCATTTATTTTAACT
*
6418517 CC-TTTTTA-CCGAATTTGAGCCAAAC
130 CCTTTTTTACCCAAATTTGAGCCAAAC
* * *
6418542 GCTCCTAAACCATAGTAAAATACGTGTGTA-TTGTCAATTCCACTTTTTGATAACATTTTTTTTT
1 GCTCCTAAACCATAGTAGAATACATGTGTACTT-TCAATTCCACTTTTTGATAA-A--ATTTTTT
* * *
6418606 ATTTTTCAATTTAGT--TTCAATTTTTCATAATCTCCTTATTCCTTCAATT
62 ATTTTTTAATTTAGTCCTTCAATTTTTCATGATCTCCTTATTTCTTCAATT
6418655 TGTGATTTAG
Statistics
Matches: 229, Mismatches: 30, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
153 2 0.01
154 58 0.25
155 39 0.17
156 1 0.00
157 62 0.27
159 67 0.29
ACGTcount: A:0.27, C:0.18, G:0.07, T:0.48
Consensus pattern (156 bp):
GCTCCTAAACCATAGTAGAATACATGTGTACTTTCAATTCCACTTTTTGATAAAATTTTTTATTT
TTTAATTTAGTCCTTCAATTTTTCATGATCTCCTTATTTCTTCAATTCATCATTTATTTTAACTC
CTTTTTTACCCAAATTTGAGCCAAAC
Found at i:6421468 original size:23 final size:23
Alignment explanation
Indices: 6421442--6421515 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 23
6421432 ATTCACAAAT
*
6421442 ATGTTCGTTTAACGTTTGTGAAC
1 ATGTTTGTTTAACGTTTGTGAAC
* * *
6421465 ATGTTTGTTGATCGTTCGTGAAC
1 ATGTTTGTTTAACGTTTGTGAAC
* **
6421488 ATATTTGCCTAACGTTTGTGAAC
1 ATGTTTGTTTAACGTTTGTGAAC
*
6421511 CTGTT
1 ATGTT
6421516 GACATATTGA
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.20, C:0.15, G:0.22, T:0.43
Consensus pattern (23 bp):
ATGTTTGTTTAACGTTTGTGAAC
Found at i:6428364 original size:42 final size:42
Alignment explanation
Indices: 6428289--6428395 Score: 128
Period size: 42 Copynumber: 2.6 Consensus size: 42
6428279 GGTATTATGG
* * *
6428289 ATGGCCCAAAGGTCTTA-TCATCTTGCTCGAAAGACTTA-TAA
1 ATGGCCCAAAGGACTTACTCATCATGCACGAAAGACTTACT-A
* * *
6428330 ATGGCCCGAAGGACTTACGCATCATGCACGAAAGACTTACTG
1 ATGGCCCAAAGGACTTACTCATCATGCACGAAAGACTTACTA
*
6428372 ATGGCCTAAAGGACTTACTCATCA
1 ATGGCCCAAAGGACTTACTCATCA
6428396 AGAAACCTTG
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
41 15 0.27
42 39 0.71
43 1 0.02
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (42 bp):
ATGGCCCAAAGGACTTACTCATCATGCACGAAAGACTTACTA
Found at i:6428825 original size:113 final size:113
Alignment explanation
Indices: 6428627--6429000 Score: 595
Period size: 113 Copynumber: 3.3 Consensus size: 113
6428617 GGATATACTT
** * * *
6428627 ATCAAGAAACCTTTGAAAATCAAGCTTAGTTTCTTAGTTGTCATCAAGGAACCTCTACATATCAC
1 ATCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTTAGTTGTCATCAAGGAACCCCTACATATCAC
* *
6428692 GTTGGTCCCTTGAGCTTAGTTTCTTATAAAAATTCATTGAAAACCGTC
66 GTTGGTCCCTCGAGCTTAGTTTCTTATAAAAATTCATTGAAAATCGTC
* * * * *
6428740 ATCAAGAAACCCCTGAAACTCAGGCTTAGTTTCTCAATTGTCATTAAGGAACCCCTACATATCAC
1 ATCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTTAGTTGTCATCAAGGAACCCCTACATATCAC
* *
6428805 GTTGGTCCCTCAATCTTAGTTTCTTATAAAAATTCATTGAAAATCGTC
66 GTTGGTCCCTCGAGCTTAGTTTCTTATAAAAATTCATTGAAAATCGTC
*
6428853 ATCAAGAAACCCCTAAAAATCAGACTTAGTTTCTTAGTTGTCATCAAGGAACCCCTACATATCAC
1 ATCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTTAGTTGTCATCAAGGAACCCCTACATATCAC
* *
6428918 GTTGGTCCCTCGAGCTTAGTTTCTTATAAAAATTCATTAAAAATCGTA
66 GTTGGTCCCTCGAGCTTAGTTTCTTATAAAAATTCATTGAAAATCGTC
6428966 ATCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTT
1 ATCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTT
6429001 TCAAAAAAAT
Statistics
Matches: 238, Mismatches: 23, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
113 238 1.00
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.32
Consensus pattern (113 bp):
ATCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTTAGTTGTCATCAAGGAACCCCTACATATCAC
GTTGGTCCCTCGAGCTTAGTTTCTTATAAAAATTCATTGAAAATCGTC
Found at i:6439795 original size:23 final size:21
Alignment explanation
Indices: 6439769--6439810 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 21
6439759 GGATCTGTCT
6439769 ATTTTCTTCTTTCTTCTTTTTTC
1 ATTTTCTT-TTT-TTCTTTTTTC
6439792 ATTTTCTTTTTTTCTTTTT
1 ATTTTCTTTTTTTCTTTTT
6439811 CTATTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 8 0.42
22 3 0.16
23 8 0.42
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.79
Consensus pattern (21 bp):
ATTTTCTTTTTTTCTTTTTTC
Found at i:6439797 original size:16 final size:15
Alignment explanation
Indices: 6439778--6439846 Score: 63
Period size: 14 Copynumber: 4.7 Consensus size: 15
6439768 TATTTTCTTC
6439778 TTTCTTCTTTTTTCAT
1 TTTCTT-TTTTTTCAT
*
6439794 TTTC-TTTTTTTCTT
1 TTTCTTTTTTTTCAT
*
6439808 TTTCTATTTTTTTCGT
1 TTTCT-TTTTTTTCAT
*
6439824 TTT-ATTTTTTTC-T
1 TTTCTTTTTTTTCAT
*
6439837 TTCCTTTTTT
1 TTTCTTTTTT
6439847 GCTATATATT
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
13 3 0.07
14 25 0.56
15 1 0.02
16 16 0.36
ACGTcount: A:0.04, C:0.14, G:0.01, T:0.80
Consensus pattern (15 bp):
TTTCTTTTTTTTCAT
Found at i:6439819 original size:30 final size:30
Alignment explanation
Indices: 6439770--6439838 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
6439760 GATCTGTCTA
*
6439770 TTTTCTTCTTTCTTCTTTTTTCATTTTCTTT
1 TTTTCTT-TTTCTTCTTTTTTCATTTTATTT
*
6439801 TTTTCTTTTTCTAT-TTTTTTCGTTTTATTT
1 TTTTCTTTTTCT-TCTTTTTTCATTTTATTT
6439831 TTTTCTTT
1 TTTTCTTT
6439839 CCTTTTTTGC
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
30 27 0.77
31 8 0.23
ACGTcount: A:0.04, C:0.14, G:0.01, T:0.80
Consensus pattern (30 bp):
TTTTCTTTTTCTTCTTTTTTCATTTTATTT
Found at i:6440112 original size:2 final size:2
Alignment explanation
Indices: 6440105--6440138 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
6440095 ACAATAAGGG
6440105 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6440139 TAGGATAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6441658 original size:149 final size:149
Alignment explanation
Indices: 6441383--6441674 Score: 399
Period size: 149 Copynumber: 2.0 Consensus size: 149
6441373 CTCCTACCTT
* * * *
6441383 CAGAAATCTTTCGATCTGGTTCGTAATCTGCAATTGTTGGCATTAGCGTCGAATTGTCTTGAGTC
1 CAGAAATCTTTCAAGCTGGTTCGTAATCTGCAATTGTTGGCATTAGCGTCGAATCGTCTCGAGTC
* * * * * * *
6441448 CAACTTGTTACCTCAACAGGCATATGTTTGGCTCGTCTCCTTTGTAGGTAAACTCTCTCTTGACG
66 CAACTTGTTACCTCAACAAGCAGATGTATGGCTCATCTCCTTGGTAAGTAAACTCTCTCTTGACA
6441513 CTACTCGATCTACTACTTC
131 CTACTCGATCTACTACTTC
* * *
6441532 CAGAAATCTTTCAAGCTGGTTTGTGATCTTCAATTGTTGGC-TTCAGCGTCGAATCGTCTCGAGT
1 CAGAAATCTTTCAAGCTGGTTCGTAATCTGCAATTGTTGGCATT-AGCGTCGAATCGTCTCGAGT
* * *
6441596 CCAACTTTTTACCTCAGCAAGCAGATGTATGGCTCATCTCCTTGGTAAGTAGACTC-CATCTTGA
65 CCAACTTGTTACCTCAACAAGCAGATGTATGGCTCATCTCCTTGGTAAGTAAACTCTC-TCTTGA
6441660 CACTACTCGATCTAC
129 CACTACTCGATCTAC
6441675 GTAGAGCATC
Statistics
Matches: 124, Mismatches: 17, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
148 3 0.02
149 121 0.98
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.35
Consensus pattern (149 bp):
CAGAAATCTTTCAAGCTGGTTCGTAATCTGCAATTGTTGGCATTAGCGTCGAATCGTCTCGAGTC
CAACTTGTTACCTCAACAAGCAGATGTATGGCTCATCTCCTTGGTAAGTAAACTCTCTCTTGACA
CTACTCGATCTACTACTTC
Found at i:6443988 original size:28 final size:29
Alignment explanation
Indices: 6443957--6444043 Score: 88
Period size: 28 Copynumber: 2.9 Consensus size: 29
6443947 ATAAAAGTAG
6443957 TATATATTAATATTATTTATAATATATTTATAT
1 TATATATTAATATTATTTATAATATA--T-T-T
* *
6443990 TATATATTAATATGTA--AACAATATATTT
1 TATATATTAATAT-TATTTATAATATATTT
*
6444018 TATATATTAATATTATTTATATTATA
1 TATATATTAATATTATTTATAATATA
6444044 AATAATAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
27 2 0.04
28 14 0.30
29 7 0.15
30 1 0.02
32 7 0.15
33 13 0.28
34 2 0.04
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (29 bp):
TATATATTAATATTATTTATAATATATTT
Found at i:6445003 original size:16 final size:16
Alignment explanation
Indices: 6444962--6445006 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
6444952 GTTTAAAATT
*
6444962 TTAATATTGTATTTGA
1 TTAATATTTTATTTGA
* * *
6444978 TGAGTGTTTTATTTGA
1 TTAATATTTTATTTGA
6444994 TTAATATTTTATT
1 TTAATATTTTATT
6445007 ATTAATTAAA
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.13, T:0.60
Consensus pattern (16 bp):
TTAATATTTTATTTGA
Found at i:6449588 original size:24 final size:24
Alignment explanation
Indices: 6449552--6449597 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
6449542 GTTTTAATGG
6449552 AGAAAACTGATTAAAATATAAAAAA
1 AGAAAACTGATTAAAAT-TAAAAAA
*
6449577 AGAAAA-TGATTAAGATTAAAA
1 AGAAAACTGATTAAAATTAAAA
6449598 TTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 5 0.25
24 9 0.45
25 6 0.30
ACGTcount: A:0.65, C:0.02, G:0.11, T:0.22
Consensus pattern (24 bp):
AGAAAACTGATTAAAATTAAAAAA
Found at i:6455829 original size:64 final size:66
Alignment explanation
Indices: 6455743--6455906 Score: 199
Period size: 64 Copynumber: 2.5 Consensus size: 66
6455733 TGCACTCTTA
* * * * *
6455743 GTGCACCGATGCATCAAGTGCATTCGATGTTTCA-AAATAGCCAGAGTGCTTCGATGCATGG-CT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCATAAA-AGCCACAGTGCATCGATGCATGGTAT
6455806 G-
65 GT
* *
6455807 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATCCTCAGTGCATCGATGCATGGTAT
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCATAAAAGCCACAGTGCATCGATGCATGGTAT
6455872 GT
65 GT
*
6455874 GCATGCATCGATGCATGAAATGCATTCGATGTT
1 G--TGCATCGATGCATCAAATGCATTCGATGTT
6455907 CAATTTAATT
Statistics
Matches: 86, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
64 27 0.31
65 24 0.28
66 5 0.06
67 1 0.01
68 2 0.02
69 27 0.31
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (66 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCATAAAAGCCACAGTGCATCGATGCATGGTATG
T
Found at i:6455904 original size:69 final size:65
Alignment explanation
Indices: 6455743--6455906 Score: 197
Period size: 69 Copynumber: 2.5 Consensus size: 65
6455733 TGCACTCTTA
* * * * *
6455743 GTGCACCGATGCATCAAGTGCATTCGATG-TTTCAAAATAGCCAGAGTGCTTCGATGCATGGCTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGCCACAGTGCATCGATGCATGGATG
* *
6455807 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-ATCCTCAGTGCATCGATGCATGGTA
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCA-AAATAGCCACAGTGCATCGATGCATGG-A
6455871 TG
64 TG
*
6455873 TGCATGCATCGATGCATGAAATGCATTCGATGTT
1 -G--TGCATCGATGCATCAAATGCATTCGATGTT
6455907 CAATTTAATT
Statistics
Matches: 86, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
64 27 0.31
65 24 0.28
66 5 0.06
67 1 0.01
69 29 0.34
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (65 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGCCACAGTGCATCGATGCATGGATG
Found at i:6456464 original size:13 final size:13
Alignment explanation
Indices: 6456446--6456478 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
6456436 AGCCATTAGT
6456446 TTCATAAACAATA
1 TTCATAAACAATA
6456459 TTCATAAACAATA
1 TTCATAAACAATA
6456472 TTCATAA
1 TTCATAA
6456479 TTAAATGTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (13 bp):
TTCATAAACAATA
Found at i:6458128 original size:17 final size:18
Alignment explanation
Indices: 6458108--6458150 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
6458098 GAAATACACA
*
6458108 TTTTTTT-AATTT-TGAT
1 TTTTTTTAAATTTGTAAT
6458124 TTTTTTTAAATTTGTAAT
1 TTTTTTTAAATTTGTAAT
6458142 TTTTTTTAA
1 TTTTTTTAA
6458151 TGAAATTGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 7 0.29
17 5 0.21
18 12 0.50
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (18 bp):
TTTTTTTAAATTTGTAAT
Found at i:6458561 original size:23 final size:22
Alignment explanation
Indices: 6458523--6458625 Score: 118
Period size: 23 Copynumber: 4.6 Consensus size: 22
6458513 GCATGACCCT
*
6458523 ATGCATCGATGTACATTCAAGG
1 ATGCATCGATGCACATTCAAGG
* *
6458545 CATGCATCAATGCACATTAAAGG
1 -ATGCATCGATGCACATTCAAGG
* * *
6458568 CATGCATCGGTGCACCTTCATGG
1 -ATGCATCGATGCACATTCAAGG
*
6458591 -TGTATCGATGCACATTCAAGG
1 ATGCATCGATGCACATTCAAGG
6458612 ATGCATCGATGCAC
1 ATGCATCGATGCAC
6458626 TGTTAGGTGT
Statistics
Matches: 66, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
21 17 0.26
22 12 0.18
23 37 0.56
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.25
Consensus pattern (22 bp):
ATGCATCGATGCACATTCAAGG
Found at i:6458602 original size:21 final size:20
Alignment explanation
Indices: 6458573--6458644 Score: 65
Period size: 21 Copynumber: 3.5 Consensus size: 20
6458563 AAAGGCATGC
*
6458573 ATCGGTGCACCTTCATGGTGT
1 ATCGATGCACCTTCA-GGTGT
* *
6458594 ATCGATGCACATTCAAGGATGC
1 ATCGATGCACCTTC-AGG-TGT
*
6458616 ATCGATGCA-CTGTTAGGTGT
1 ATCGATGCACCT-TCAGGTGT
6458636 ATCGATGCA
1 ATCGATGCA
6458645 TGAAGCACAA
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
20 11 0.26
21 18 0.43
22 13 0.31
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (20 bp):
ATCGATGCACCTTCAGGTGT
Found at i:6458641 original size:20 final size:21
Alignment explanation
Indices: 6458527--6458644 Score: 78
Period size: 23 Copynumber: 5.4 Consensus size: 21
6458517 GACCCTATGC
* *
6458527 ATCGATGTACATTCAAGGCATGC
1 ATCGATGCACATTCAAGG--TGT
* * *
6458550 ATCAATGCACATTAAAGGCATGC
1 ATCGATGCACATTCAAGG--TGT
* * *
6458573 ATCGGTGCACCTTCATGGTGT
1 ATCGATGCACATTCAAGGTGT
*
6458594 ATCGATGCACATTCAAGGATGC
1 ATCGATGCACATTCAAGG-TGT
*
6458616 ATCGATGCAC-TGT-TAGGTGT
1 ATCGATGCACAT-TCAAGGTGT
6458636 ATCGATGCA
1 ATCGATGCA
6458645 TGAAGCACAA
Statistics
Matches: 78, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
20 11 0.14
21 21 0.27
22 13 0.17
23 33 0.42
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (21 bp):
ATCGATGCACATTCAAGGTGT
Found at i:6458643 original size:42 final size:44
Alignment explanation
Indices: 6458554--6458644 Score: 125
Period size: 42 Copynumber: 2.1 Consensus size: 44
6458544 GCATGCATCA
*
6458554 ATGCACATTAAAGGCATGCATCGGTGCACCTTCATGGTGTATCG
1 ATGCACATTAAAGGCATGCATCGATGCACCTTCATGGTGTATCG
* *
6458598 ATGCACATTCAAGG-ATGCATCGATGCA-CTGTTA-GGTGTATCG
1 ATGCACATTAAAGGCATGCATCGATGCACCT-TCATGGTGTATCG
6458640 ATGCA
1 ATGCA
6458645 TGAAGCACAA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
42 16 0.37
43 14 0.33
44 13 0.30
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.27
Consensus pattern (44 bp):
ATGCACATTAAAGGCATGCATCGATGCACCTTCATGGTGTATCG
Found at i:6462496 original size:22 final size:21
Alignment explanation
Indices: 6462454--6462493 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
6462444 GAGTTTATTT
*
6462454 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
6462475 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
6462494 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:6464518 original size:65 final size:65
Alignment explanation
Indices: 6464364--6464520 Score: 192
Period size: 65 Copynumber: 2.4 Consensus size: 65
6464354 AAATAGTTAG
* *** *
6464364 AGTGCATCGATGCATGGCTGGTGCATCGATGCATCAAATGCATTCGATGTTTTCGTAAAATCCTC
1 AGTGCATCGATGCATGGTTGGTGCATCGATGCATCAAATGCATTCGATGTTCAAGTAAAATCATC
* * * *
6464429 AGTGCATCGATGCATGGTAT-GTGCATCGATGCATGAAATGCATTCGATGTTCAATTTAATTCAT
1 AGTGCATCGATGCATGGT-TGGTGCATCGATGCATCAAATGCATTCGATGTTCAAGTAAAATCAT
6464493 -
65 C
*
6464493 GGTGCATCGATGCATGGATTGGTGCATC
1 AGTGCATCGATGCATGG-TTGGTGCATC
6464521 ACTTTGAAAA
Statistics
Matches: 79, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
64 17 0.22
65 61 0.77
66 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (65 bp):
AGTGCATCGATGCATGGTTGGTGCATCGATGCATCAAATGCATTCGATGTTCAAGTAAAATCATC
Found at i:6474923 original size:159 final size:156
Alignment explanation
Indices: 6474585--6475117 Score: 592
Period size: 159 Copynumber: 3.4 Consensus size: 156
6474575 ATTGATTTCA
* * ** *
6474585 TTATTTCTTCAATTCCTCATTCATTTTAAGTCCATTTTTATGAAATTTGAACCAAATGCTCCTAA
1 TTATTTCTTCAATTCGTCATTTATTTTAAGTCCATTTTTACCAAATTTGAACCACATGCT-CTAA
* * *
6474650 AACATAGGAGAATATATGTATACTTTCAATTCCTCTTTTAGAT---AATATTTTTATTCTTCAAT
65 AACATAGCAGAATATATGTATACTTTCAATTCCTCTTTTTGATAAAAATATTTTTATTTTTCAAT
6474712 TTAGTCCTTCAAGTTTTT-ATAATCTCC
130 TTAGTCCTTCAA-TTTTTCATAATCTCC
* * * *
6474739 TTATTTCTTCAATGCGTCATTTATTTTAAGTCACTTTTTTATCAAATTTGAGCCACATGCTCTTA
1 TTATTTCTTCAATTCGTCATTTATTTTAAGTC-CATTTTTACCAAATTTGAACCACATGCTC-TA
** * * * * *
6474804 AAACATAATAGAATACATGTATACTTCCATTTCATCTTTTTGATAAGAAAAATTTTTATTTTTCA
64 AAACATAGCAGAATATATGTATACTTTCAATTCCTCTTTTTGATAA-AAATATTTTTATTTTTCA
* *
6474869 ATTTAGTCCTTTAATTTTTCATAATTTCC
128 ATTTAGTCCTTCAATTTTTCATAATCTCC
* * * * *
6474898 TTATTTCTTCAATACGTCATTTATTTTGAGTCAATTTTTACCGAATTTGAGCCACATGCTACTAA
1 TTATTTCTTCAATTCGTCATTTATTTTAAGTCCATTTTTACCAAATTTGAACCACATGCT-CTAA
* * * * * * *
6474963 ACCATAGCAAAATATGTGTGTACTTTCAATTCCTCTTTTTGAT-AACATTTTTTTTTGGTTTTCA
65 AACATAGCAGAATATATGTATACTTTCAATTCCTCTTTTTGATAAAAATATTTTTAT--TTTTCA
*
6475027 ATTAAGT-CTTCAATTTTTCATAATCTCC
128 ATTTAGTCCTTCAATTTTTCATAATCTCC
* * * *
6475055 TTATTCCTTCAATTTGTGATTTATTTTAAGTCCTTTTTTTTACCAAATTTGAACCACATGCTC
1 TTATTTCTTCAATTCGTCATTTATTTTAAGTCC--ATTTTTACCAAATTTGAACCACATGCTC
6475118 ATATACTACA
Statistics
Matches: 317, Mismatches: 50, Indels: 20
0.82 0.13 0.05
Matches are distributed among these distances:
154 30 0.09
155 63 0.20
156 8 0.03
157 47 0.15
158 78 0.25
159 91 0.29
ACGTcount: A:0.28, C:0.17, G:0.08, T:0.47
Consensus pattern (156 bp):
TTATTTCTTCAATTCGTCATTTATTTTAAGTCCATTTTTACCAAATTTGAACCACATGCTCTAAA
ACATAGCAGAATATATGTATACTTTCAATTCCTCTTTTTGATAAAAATATTTTTATTTTTCAATT
TAGTCCTTCAATTTTTCATAATCTCC
Found at i:6476040 original size:20 final size:20
Alignment explanation
Indices: 6476015--6476068 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
6476005 TCCGACTATT
6476015 GCAATGCGAATATGTAAATC
1 GCAATGCGAATATGTAAATC
* *
6476035 GCAATGTGAATATGTAAATT
1 GCAATGCGAATATGTAAATC
*
6476055 GCAATGCGATTATG
1 GCAATGCGAATATG
6476069 ACTATCGCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.30
Consensus pattern (20 bp):
GCAATGCGAATATGTAAATC
Found at i:6476078 original size:20 final size:20
Alignment explanation
Indices: 6476055--6476119 Score: 94
Period size: 20 Copynumber: 3.2 Consensus size: 20
6476045 TATGTAAATT
* *
6476055 GCAATGCGATTATGACTATC
1 GCAACGCGATTATGACTGTC
*
6476075 GCAACGCGATTCTGACTGTC
1 GCAACGCGATTATGACTGTC
*
6476095 GCAACGTGATTATGACTGTC
1 GCAACGCGATTATGACTGTC
6476115 GCAAC
1 GCAAC
6476120 ACTGAATTTC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (20 bp):
GCAACGCGATTATGACTGTC
Found at i:6478864 original size:42 final size:41
Alignment explanation
Indices: 6478794--6478910 Score: 101
Period size: 42 Copynumber: 2.8 Consensus size: 41
6478784 TCGGGCTCTA
* *
6478794 GAATGTTGGGAGGGACTCTTCAACGATGACAGTGGCCTCAT
1 GAATGGTGGGAGGGACTCTTCAACGATGACAGGGGCCTCAT
* ** * *
6478835 GAATGGTGGGAGGGGACTCTTGAGGGATGATAGGGGCCTCTT
1 GAATGGTGGGA-GGGACTCTTCAACGATGACAGGGGCCTCAT
* * * *
6478877 GAACGATAGGG-GAGGCCTCTTGAACGATGACAGG
1 GAATGGT-GGGAG-GGACTCTTCAACGATGACAGG
6478911 TGAGTCGGGT
Statistics
Matches: 60, Mismatches: 13, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
41 11 0.18
42 46 0.77
43 3 0.05
ACGTcount: A:0.24, C:0.16, G:0.38, T:0.21
Consensus pattern (41 bp):
GAATGGTGGGAGGGACTCTTCAACGATGACAGGGGCCTCAT
Found at i:6479434 original size:20 final size:18
Alignment explanation
Indices: 6479396--6479442 Score: 67
Period size: 20 Copynumber: 2.5 Consensus size: 18
6479386 GAAACTTAAA
*
6479396 ATCGCAACACGAATGACT
1 ATCGCAACGCGAATGACT
6479414 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAA--TGACT
6479434 ATCGCAACG
1 ATCGCAACG
6479443 AGAGAATCGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 12 0.46
20 14 0.54
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.19
Consensus pattern (18 bp):
ATCGCAACGCGAATGACT
Found at i:6479550 original size:20 final size:20
Alignment explanation
Indices: 6479487--6479552 Score: 96
Period size: 20 Copynumber: 3.3 Consensus size: 20
6479477 GATTCTTTCC
**
6479487 TTGCGATAGTCAAATTCGCG
1 TTGCGATAGTCATTTTCGCG
* *
6479507 TTACGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCG
6479527 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCG
6479547 TTGCGA
1 TTGCGA
6479553 AAGTAAACTA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCG
Found at i:6481447 original size:20 final size:20
Alignment explanation
Indices: 6481422--6481528 Score: 83
Period size: 20 Copynumber: 5.5 Consensus size: 20
6481412 TCTGAAACTT
6481422 AAAATCGCAACACAAAAATG
1 AAAATCGCAACACAAAAATG
*
6481442 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACAAAAATG
** * * **
6481462 ATTATCGCAACGCGAATTTG
1 AAAATCGCAACACAAAAATG
** * *
6481482 ACTATCGCAACGC-GAAATG
1 AAAATCGCAACACAAAAATG
* *
6481501 AAAATCGCAACTCAAAACT-
1 AAAATCGCAACACAAAAATG
6481520 AAAATCGCA
1 AAAATCGCA
6481529 TTGCGATTCT
Statistics
Matches: 71, Mismatches: 15, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
19 22 0.31
20 49 0.69
ACGTcount: A:0.48, C:0.22, G:0.14, T:0.16
Consensus pattern (20 bp):
AAAATCGCAACACAAAAATG
Found at i:6481926 original size:20 final size:21
Alignment explanation
Indices: 6481901--6481949 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
6481891 TCTGAGAGAT
6481901 GGAGAT-AGACAGATTTCGCC
1 GGAGATGAGACAGATTTCGCC
* *
6481921 GGAGATGGAGACTGATTTCGTC
1 GGAGAT-GAGACAGATTTCGCC
6481943 GGAGATG
1 GGAGATG
6481950 GGGACGGATG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 6 0.24
21 1 0.04
22 18 0.72
ACGTcount: A:0.27, C:0.14, G:0.37, T:0.22
Consensus pattern (21 bp):
GGAGATGAGACAGATTTCGCC
Found at i:6481937 original size:22 final size:22
Alignment explanation
Indices: 6481907--6481964 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
6481897 AGATGGAGAT
6481907 AGACAGATTTCGCCGGAGATGG
1 AGACAGATTTCGCCGGAGATGG
* *
6481929 AGACTGATTTCGTCGGAGATGG
1 AGACAGATTTCGCCGGAGATGG
* * *
6481951 GGACGGATGTCGCC
1 AGACAGATTTCGCC
6481965 TTTGAGAGTG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.22, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
AGACAGATTTCGCCGGAGATGG
Found at i:6482159 original size:20 final size:20
Alignment explanation
Indices: 6482129--6482250 Score: 129
Period size: 20 Copynumber: 6.1 Consensus size: 20
6482119 GCGCTTTGAA
6482129 AATCGCATTGCGATAGTCAG
1 AATCGCATTGCGATAGTCAG
* * *
6482149 CATCGCGTTGCGACAGTCAG
1 AATCGCATTGCGATAGTCAG
* *
6482169 AATCTCGTTGCGATAGTCAG
1 AATCGCATTGCGATAGTCAG
*
6482189 AATCGCATTGCGATAGTCAT
1 AATCGCATTGCGATAGTCAG
* * *
6482209 ACTCGCATTGCGAT-TTACAT
1 AATCGCATTGCGATAGT-CAG
* *
6482229 ATTCGCATTGCGATATTCAG
1 AATCGCATTGCGATAGTCAG
6482249 AA
1 AA
6482251 AATCGCAACG
Statistics
Matches: 86, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
19 1 0.01
20 83 0.97
21 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (20 bp):
AATCGCATTGCGATAGTCAG
Found at i:6482272 original size:21 final size:21
Alignment explanation
Indices: 6482238--6482305 Score: 100
Period size: 21 Copynumber: 3.2 Consensus size: 21
6482228 TATTCGCATT
*
6482238 GCGATATTCAGAAAATCGCAAC
1 GCGA-ATTCGGAAAATCGCAAC
6482260 GCGAATTCGGAAAATCGCAAC
1 GCGAATTCGGAAAATCGCAAC
* *
6482281 GCGAATTTGGAAAATCGCAAT
1 GCGAATTCGGAAAATCGCAAC
6482302 GCGA
1 GCGA
6482306 TAGTCAGAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
21 39 0.91
22 4 0.09
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.18
Consensus pattern (21 bp):
GCGAATTCGGAAAATCGCAAC
Found at i:6484000 original size:23 final size:23
Alignment explanation
Indices: 6483947--6484021 Score: 69
Period size: 23 Copynumber: 3.3 Consensus size: 23
6483937 TAACGTTTAC
* * *
6483947 GAACATGTTCATTTAACATTCAT
1 GAACATGTTCCTTTAACGTTCGT
* * * * *
6483970 AAATATGTTCGTTTAATGTTTGT
1 GAACATGTTCCTTTAACGTTCGT
*
6483993 GAACATGTTCCTTTACCGTTCGT
1 GAACATGTTCCTTTAACGTTCGT
6484016 GAACAT
1 GAACAT
6484022 ATTCACATAA
Statistics
Matches: 39, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.41
Consensus pattern (23 bp):
GAACATGTTCCTTTAACGTTCGT
Found at i:6485568 original size:26 final size:26
Alignment explanation
Indices: 6485538--6485588 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
6485528 TTTGTGTTTG
* * **
6485538 CCCTCTTAAAATTTTATCAATTTGTT
1 CCCTCATAAAACTTTAGAAATTTGTT
6485564 CCCTCATAAAACTTTAGAAATTTGT
1 CCCTCATAAAACTTTAGAAATTTGT
6485589 CCCATAACAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.31, C:0.20, G:0.06, T:0.43
Consensus pattern (26 bp):
CCCTCATAAAACTTTAGAAATTTGTT
Found at i:6491744 original size:27 final size:26
Alignment explanation
Indices: 6491713--6491764 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
6491703 AAACACTTTA
*
6491713 GGTCATTTTACATTTTAAGGGAATTTT
1 GGTCATTTTACACTTT-AGGGAATTTT
*
6491740 GGTCATTTTACACTTTAGGGCATTT
1 GGTCATTTTACACTTTAGGGAATTT
6491765 CTATAAATCC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 8 0.35
27 15 0.65
ACGTcount: A:0.23, C:0.12, G:0.19, T:0.46
Consensus pattern (26 bp):
GGTCATTTTACACTTTAGGGAATTTT
Found at i:6492667 original size:19 final size:19
Alignment explanation
Indices: 6492629--6492668 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
6492619 CAACTCTGAC
*
6492629 CAAAGTCAACGGGTCGGGT
1 CAAAGTCAACGGGTCAGGT
* *
6492648 CAAAGTCAATGGTTCAGGT
1 CAAAGTCAACGGGTCAGGT
6492667 CA
1 CA
6492669 GATCAACAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (19 bp):
CAAAGTCAACGGGTCAGGT
Found at i:6496501 original size:2 final size:2
Alignment explanation
Indices: 6496494--6496518 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6496484 TGTTGAGCGA
6496494 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
6496519 ATAGAACATC
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:6502012 original size:17 final size:20
Alignment explanation
Indices: 6501985--6502032 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
6501975 AATCTACCTA
*
6501985 TATATTAT-TATTAATATTAT
1 TATATTATATA-TACTATTAT
6502005 TATATTATATATACTATTAT
1 TATATTATATATACTATTAT
6502025 TAT-TTATA
1 TATATTATA
6502033 AACAAATAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 5 0.19
20 19 0.73
21 2 0.08
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (20 bp):
TATATTATATATACTATTAT
Found at i:6511427 original size:33 final size:33
Alignment explanation
Indices: 6511390--6511454 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
6511380 CAAATAACTT
*
6511390 AATATAAATAATTACTAA-ATAATATTTAATATA
1 AATATAAAT-AGTACTAATATAATATTTAATATA
* *
6511423 AATATAACTAGTCCTAATATAATATTTAATAT
1 AATATAAATAGTACTAATATAATATTTAATAT
6511455 TATAACTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 6 0.21
33 22 0.79
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (33 bp):
AATATAAATAGTACTAATATAATATTTAATATA
Found at i:6512015 original size:13 final size:13
Alignment explanation
Indices: 6511997--6512043 Score: 94
Period size: 13 Copynumber: 3.6 Consensus size: 13
6511987 GTAGCCGATT
6511997 GCCACTGTATTTC
1 GCCACTGTATTTC
6512010 GCCACTGTATTTC
1 GCCACTGTATTTC
6512023 GCCACTGTATTTC
1 GCCACTGTATTTC
6512036 GCCACTGT
1 GCCACTGT
6512044 CGACCACCAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.15, C:0.32, G:0.17, T:0.36
Consensus pattern (13 bp):
GCCACTGTATTTC
Found at i:6512053 original size:26 final size:26
Alignment explanation
Indices: 6511998--6512053 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
6511988 TAGCCGATTG
*** *
6511998 CCACTGTATTTCGCCACTGTATTTCG
1 CCACTGTATTTCGCCACTGTAGACCA
*
6512024 CCACTGTATTTCGCCACTGTCGACCA
1 CCACTGTATTTCGCCACTGTAGACCA
6512050 CCAC
1 CCAC
6512054 ACACGGTGGC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.18, C:0.38, G:0.14, T:0.30
Consensus pattern (26 bp):
CCACTGTATTTCGCCACTGTAGACCA
Found at i:6512864 original size:3 final size:3
Alignment explanation
Indices: 6512846--6512904 Score: 68
Period size: 3 Copynumber: 19.7 Consensus size: 3
6512836 TTGTAACAAT
* *
6512846 TAA TTA TAA T-A TAA TAA TAA TATA TAA TAA TAA TAA TATA TAC TAA
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TA-A TAA TAA
6512892 TAA TAA T-A TAA TA
1 TAA TAA TAA TAA TA
6512905 TTTATAACAA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
2 4 0.08
3 38 0.79
4 6 0.12
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:6512872 original size:13 final size:14
Alignment explanation
Indices: 6512846--6512904 Score: 84
Period size: 13 Copynumber: 4.1 Consensus size: 14
6512836 TTGTAACAAT
*
6512846 TAATTATAATATAA
1 TAATAATAATATAA
6512860 TAATAAT-ATATAA
1 TAATAATAATATAA
6512873 TAATAATAATATATA
1 TAATAATAATATA-A
6512888 CTAATAATAATATAA
1 -TAATAATAATATAA
6512903 TA
1 TA
6512905 TTTATAACAA
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
13 13 0.32
14 13 0.32
15 2 0.05
16 13 0.32
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (14 bp):
TAATAATAATATAA
Found at i:6512875 original size:16 final size:16
Alignment explanation
Indices: 6512856--6512901 Score: 83
Period size: 16 Copynumber: 2.9 Consensus size: 16
6512846 TAATTATAAT
6512856 ATAATAATAATATATA
1 ATAATAATAATATATA
6512872 ATAATAATAATATATA
1 ATAATAATAATATATA
*
6512888 CTAATAATAATATA
1 ATAATAATAATATA
6512902 ATATTTATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (16 bp):
ATAATAATAATATATA
Found at i:6513132 original size:37 final size:37
Alignment explanation
Indices: 6513082--6513158 Score: 136
Period size: 37 Copynumber: 2.1 Consensus size: 37
6513072 TGATCTGATC
*
6513082 TTGCTTCACTACTCTTTTGTGAAGGCTTGAATTGGCA
1 TTGCTTCACTACTCTTTTATGAAGGCTTGAATTGGCA
*
6513119 TTGCTTCACTACTCTTTTATGAAGGCTTGAATTTGCA
1 TTGCTTCACTACTCTTTTATGAAGGCTTGAATTGGCA
6513156 TTG
1 TTG
6513159 AAAGAATCTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.19, C:0.18, G:0.19, T:0.43
Consensus pattern (37 bp):
TTGCTTCACTACTCTTTTATGAAGGCTTGAATTGGCA
Found at i:6513239 original size:46 final size:45
Alignment explanation
Indices: 6513159--6513288 Score: 179
Period size: 46 Copynumber: 2.8 Consensus size: 45
6513149 ATTTGCATTG
* *
6513159 AAAGAATCTATTTCCACTACTCTTTCGTGGAGATCAGATTAACTTGT
1 AAAGAATCTATTT-CACTACTCTTCCGTGAAGATCAGATTAACTT-T
*
6513206 AAAGAATCTATTTCACTACTCTTCCGTGAAGATCAGATTGACTTT
1 AAAGAATCTATTTCACTACTCTTCCGTGAAGATCAGATTAACTTT
* * *
6513251 AGAAGAATTTGTTTCACTACTCTTCTGTGAAGATCAGA
1 A-AAGAATCTATTTCACTACTCTTCCGTGAAGATCAGA
6513289 CTCAAGATTG
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
45 2 0.03
46 61 0.80
47 13 0.17
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.35
Consensus pattern (45 bp):
AAAGAATCTATTTCACTACTCTTCCGTGAAGATCAGATTAACTTT
Found at i:6518587 original size:29 final size:31
Alignment explanation
Indices: 6518555--6518614 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
6518545 AAATTTTGAA
*
6518555 TAAATTCAATT-AAGTCCAAATA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
6518584 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
6518615 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.35
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:6520808 original size:34 final size:32
Alignment explanation
Indices: 6520746--6520815 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
6520736 ACCTTACAAC
* *
6520746 TCCCTAGTTTTTCTGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACTGGGATAAACTAGAACCTT
*
6520778 TCCCTAGCTTTTACATGGGATAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-TGGGATAAACTAGAACCTT
6520812 TCCC
1 TCCC
6520816 CTTTACAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 21 0.64
ACGTcount: A:0.23, C:0.27, G:0.16, T:0.34
Consensus pattern (32 bp):
TCCCTAGTTTTACTGGGATAAACTAGAACCTT
Found at i:6521124 original size:21 final size:21
Alignment explanation
Indices: 6521098--6521139 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
6521088 CCAGAATGGG
*
6521098 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
6521119 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
6521140 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:6521324 original size:29 final size:31
Alignment explanation
Indices: 6521292--6521351 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
6521282 AAATTTTGAA
*
6521292 TAAATTCAATT-AAGTCCAAATA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
6521321 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
6521352 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.35
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:6523907 original size:29 final size:31
Alignment explanation
Indices: 6523875--6523934 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
6523865 AAATTTTGAA
*
6523875 TAAATTCAATT-AAGTCCAAATAC-ATTTTG
1 TAAATTCAATTCAAGTCCAAAAACTATTTTG
6523904 TAAATTCAATTCAAGTCCAAAAACTATTTTG
1 TAAATTCAATTCAAGTCCAAAAACTATTTTG
6523935 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 11 0.39
31 6 0.21
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.37
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACTATTTTG
Found at i:6529094 original size:23 final size:22
Alignment explanation
Indices: 6529055--6529097 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
6529045 CAATTCCTTT
*
6529055 ATCTTTTCTTTATCTTGTTTTA
1 ATCTTTTCTTTACCTTGTTTTA
*
6529077 ATCTTGTTTTTTACCTTGTTT
1 ATCTT-TTCTTTACCTTGTTT
6529098 CCAACACCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.12, C:0.14, G:0.07, T:0.67
Consensus pattern (22 bp):
ATCTTTTCTTTACCTTGTTTTA
Found at i:6531605 original size:43 final size:43
Alignment explanation
Indices: 6531544--6531693 Score: 176
Period size: 43 Copynumber: 3.5 Consensus size: 43
6531534 TAAAGTTCGC
* ** * *
6531544 AATAGGTATTGATATTTAGCGGCGTTTGTGTGACAAACGCCGT
1 AATAGGTGTTGATATTTAGCGGCGTTTGTCAGAAAAACGCCAT
*
6531587 AATAGGTGTTGATATTTAGCGGCGTTTGTCAGAAAAATGCCAT
1 AATAGGTGTTGATATTTAGCGGCGTTTGTCAGAAAAACGCCAT
* * * * * *
6531630 AATAGGTGTTGATATTTAGCGGCATTTTTTAGATAAACACCAC
1 AATAGGTGTTGATATTTAGCGGCGTTTGTCAGAAAAACGCCAT
6531673 AATAGGT-TATGATATTTAGCG
1 AATAGGTGT-TGATATTTAGCG
6531694 ATGTTTTTCT
Statistics
Matches: 93, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 1 0.01
43 92 0.99
ACGTcount: A:0.30, C:0.12, G:0.24, T:0.34
Consensus pattern (43 bp):
AATAGGTGTTGATATTTAGCGGCGTTTGTCAGAAAAACGCCAT
Found at i:6531710 original size:86 final size:86
Alignment explanation
Indices: 6531543--6531728 Score: 196
Period size: 86 Copynumber: 2.2 Consensus size: 86
6531533 CTAAAGTTCG
* * * **
6531543 CAATAGGTATTGATATTTAGCGGCGTTTGTGTGACAAACGCCGTAATAGGTGTTGATATTTAGCG
1 CAATAGGTGTTGATATTTAGCGGCATTTGTGTGACAAACACCACAATAGGTGTTGATATTTAGCG
* *
6531608 GCGTTTGTCAGAAAAATGCCA
66 ACGTTTGTCACAAAAATGCCA
* * *
6531629 TAATAGGTGTTGATATTTAGCGGCATTT-TTTAGATAAACACCACAATAGGT-TATGATATTTAG
1 CAATAGGTGTTGATATTTAGCGGCATTTGTGT-GACAAACACCACAATAGGTGT-TGATATTTAG
* * * * *
6531692 CGATGTTTTTCTCTAAAATGCCG
64 CGACGTTTGTCACAAAAATGCCA
*
6531715 CAGTAGGTGTTGAT
1 CAATAGGTGTTGAT
6531729 GTTTTGCGAC
Statistics
Matches: 81, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
85 3 0.04
86 78 0.96
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.35
Consensus pattern (86 bp):
CAATAGGTGTTGATATTTAGCGGCATTTGTGTGACAAACACCACAATAGGTGTTGATATTTAGCG
ACGTTTGTCACAAAAATGCCA
Found at i:6532233 original size:21 final size:20
Alignment explanation
Indices: 6532167--6532238 Score: 63
Period size: 21 Copynumber: 3.5 Consensus size: 20
6532157 GCTGATATGA
* *
6532167 TGCTTCTCTCTGTGCTACCGT
1 TGCTTCTCTCTATGCT-TCGT
*
6532188 TGCTTCTCTCTATGCTGTCGC
1 TGCTTCTCTCTATGCT-TCGT
* *
6532209 TGCTTCTTTCTCTGCTTCTGT
1 TGCTTCTCTCTATGCTTC-GT
*
6532230 TGCTGCTCT
1 TGCTTCTCT
6532239 GGCTGCTTCT
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 2 0.05
21 39 0.95
ACGTcount: A:0.03, C:0.32, G:0.18, T:0.47
Consensus pattern (20 bp):
TGCTTCTCTCTATGCTTCGT
Found at i:6532244 original size:21 final size:21
Alignment explanation
Indices: 6532220--6532289 Score: 86
Period size: 21 Copynumber: 3.3 Consensus size: 21
6532210 GCTTCTTTCT
*
6532220 CTGCTTCTGTTGCTGCTCTGG
1 CTGCTTCTGCTGCTGCTCTGG
* *
6532241 CTGCTTCTACTACTGCTCTGG
1 CTGCTTCTGCTGCTGCTCTGG
* **
6532262 TTGCTTCTGCTGCTGCTCTCT
1 CTGCTTCTGCTGCTGCTCTGG
6532283 CTGCTTC
1 CTGCTTC
6532290 CCTTGCTTCA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.03, C:0.33, G:0.21, T:0.43
Consensus pattern (21 bp):
CTGCTTCTGCTGCTGCTCTGG
Found at i:6532244 original size:33 final size:31
Alignment explanation
Indices: 6532207--6532289 Score: 82
Period size: 33 Copynumber: 2.6 Consensus size: 31
6532197 CTATGCTGTC
6532207 GCTGCTTCTTTCTCTGCTTCT-GTTGCTGCTCT
1 GCTGCTTCTTTCTCTGCTTCTGGTTGCT--TCT
*
6532239 GGCTGCTTC-TACTACTGC-TCTGGTTGCTTCT
1 -GCTGCTTCTTTCT-CTGCTTCTGGTTGCTTCT
* *
6532270 GCTGCTGCTCTCTCTGCTTC
1 GCTGCTTCTTTCTCTGCTTC
6532290 CCTTGCTTCA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
30 11 0.26
31 7 0.17
32 6 0.14
33 18 0.43
ACGTcount: A:0.02, C:0.33, G:0.20, T:0.45
Consensus pattern (31 bp):
GCTGCTTCTTTCTCTGCTTCTGGTTGCTTCT
Found at i:6540519 original size:42 final size:42
Alignment explanation
Indices: 6540472--6540553 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
6540462 CTTCTACGAT
*
6540472 GTTTATTACAA-AAACGCCCCTAAAGGACAAAACTACTGCGGC
1 GTTTATTA-AAGAAACGCCACTAAAGGACAAAACTACTGCGGC
* * *
6540514 GTTTATTAAAGAAACGCCATTAAATGACAAAACTATTGCG
1 GTTTATTAAAGAAACGCCACTAAAGGACAAAACTACTGCG
6540554 ACATTTTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 2 0.06
42 33 0.94
ACGTcount: A:0.40, C:0.21, G:0.16, T:0.23
Consensus pattern (42 bp):
GTTTATTAAAGAAACGCCACTAAAGGACAAAACTACTGCGGC
Found at i:6540663 original size:41 final size:41
Alignment explanation
Indices: 6540618--6540696 Score: 97
Period size: 41 Copynumber: 1.9 Consensus size: 41
6540608 AACGCCGCTA
*
6540618 AAGTACATGGATATTGCGGC-ATTTGATCACAAACGCCAAAT
1 AAGTACAAGGATATTGCGGCGATTTGAT-ACAAACGCCAAAT
* * * *
6540659 AAGTATAAGGCTATTGCGGCGTTTTTATACAAACGCCA
1 AAGTACAAGGATATTGCGGCGATTTGATACAAACGCCA
6540697 CTCAATTAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
41 27 0.84
42 5 0.16
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (41 bp):
AAGTACAAGGATATTGCGGCGATTTGATACAAACGCCAAAT
Found at i:6545678 original size:10 final size:10
Alignment explanation
Indices: 6545663--6545692 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
6545653 CTTTTCTGGT
6545663 GGCGCGTAGA
1 GGCGCGTAGA
6545673 GGCGCGTAGA
1 GGCGCGTAGA
6545683 GGCGCGTAGA
1 GGCGCGTAGA
6545693 TGCTCCGACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.50, T:0.10
Consensus pattern (10 bp):
GGCGCGTAGA
Found at i:6546346 original size:3 final size:3
Alignment explanation
Indices: 6546333--6546377 Score: 58
Period size: 3 Copynumber: 15.0 Consensus size: 3
6546323 TGTAACAATT
6546333 ATA AT- ATA ATA ATA ATA ATA TATA ATA TATA ATA ATA AT- ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA -ATA ATA ATA ATA ATA ATA
6546378 CTTATAACAA
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
2 4 0.11
3 28 0.74
4 6 0.16
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
ATA
Found at i:6546366 original size:20 final size:21
Alignment explanation
Indices: 6546332--6546374 Score: 79
Period size: 20 Copynumber: 2.1 Consensus size: 21
6546322 TTGTAACAAT
6546332 TATAATATAATAATAATAATA
1 TATAATATAATAATAATAATA
6546353 TATAATAT-ATAATAATAATA
1 TATAATATAATAATAATAATA
6546373 TA
1 TA
6546375 ATACTTATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TATAATATAATAATAATAATA
Found at i:6546383 original size:20 final size:19
Alignment explanation
Indices: 6546333--6546384 Score: 67
Period size: 17 Copynumber: 2.9 Consensus size: 19
6546323 TGTAACAATT
6546333 ATAATATAATA--ATAATA
1 ATAATATAATATTATAATA
6546350 AT-ATATAATA-TATAATA
1 ATAATATAATATTATAATA
6546367 ATAATATAATACTTATAA
1 ATAATATAATA-TTATAA
6546385 CAAATCGGGA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.26
17 10 0.32
18 8 0.26
20 5 0.16
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
ATAATATAATATTATAATA
Found at i:6547562 original size:18 final size:19
Alignment explanation
Indices: 6547530--6547565 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
6547520 CTTGTTGGCC
6547530 TTGACCTGAACCGTTGAAT
1 TTGACCTGAACCGTTGAAT
6547549 TTGACCTG-ACCGTTGAA
1 TTGACCTGAACCGTTGAA
6547566 CTACCCATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (19 bp):
TTGACCTGAACCGTTGAAT
Found at i:6549127 original size:17 final size:17
Alignment explanation
Indices: 6549099--6549135 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
6549089 CATGCATTGC
*
6549099 ATTTAAGCATGTATTTT
1 ATTTAAGCATGTAGTTT
6549116 ATTTAAGCATGTAGTTT
1 ATTTAAGCATGTAGTTT
6549133 ATT
1 ATT
6549136 AATTCATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.30, C:0.05, G:0.14, T:0.51
Consensus pattern (17 bp):
ATTTAAGCATGTAGTTT
Found at i:6549701 original size:24 final size:24
Alignment explanation
Indices: 6549674--6549719 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
6549664 AATTCAAAGC
*
6549674 ATTCAAGTCTAAATTAATCATCTA
1 ATTCAAGGCTAAATTAATCATCTA
* * *
6549698 ATTCGAGGCTGATTTAATCATC
1 ATTCAAGGCTAAATTAATCATC
6549720 CAAATCGAGG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (24 bp):
ATTCAAGGCTAAATTAATCATCTA
Found at i:6550430 original size:17 final size:17
Alignment explanation
Indices: 6550402--6550438 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
6550392 CATGCATTGC
*
6550402 ATTTAAGCATGTATTTT
1 ATTTAAGCATGTAGTTT
6550419 ATTTAAGCATGTAGTTT
1 ATTTAAGCATGTAGTTT
6550436 ATT
1 ATT
6550439 AATTCATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.30, C:0.05, G:0.14, T:0.51
Consensus pattern (17 bp):
ATTTAAGCATGTAGTTT
Found at i:6551004 original size:24 final size:24
Alignment explanation
Indices: 6550977--6551022 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
6550967 AATTCAAAGC
*
6550977 ATTCAAGTCTAAATTAATCATCTA
1 ATTCAAGGCTAAATTAATCATCTA
* * *
6551001 ATTCGAGGCTGATTTAATCATC
1 ATTCAAGGCTAAATTAATCATC
6551023 CAAATCGAGG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (24 bp):
ATTCAAGGCTAAATTAATCATCTA
Found at i:6552837 original size:110 final size:110
Alignment explanation
Indices: 6552652--6552983 Score: 387
Period size: 110 Copynumber: 3.0 Consensus size: 110
6552642 ATTATGATAT
* * * *
6552652 ACCAAAGGTTAAACGAGCTTTTCTATATGAAATTCTTCTTCCTTGATGATCGAGTTCTTCAAATT
1 ACCAAAGGTTGAACAAGCTTTCCTATATGAAATTCTTCTTCCTTGATGGTCGAGTTCTTCAAATT
* * * * *
6552717 AAGAACTCTCCATTGTAAATGCTATTACACCTTCTTCTATGATGG
66 ATGAATTCTCCATTGAAAATGCTATTCCACCTTCTTCTGTGATGG
* * * * *
6552762 ACCAAAGGTTGAACAAGCTCTCCTATATGAATTTCCTCTTTCTTGATGGTCGAGTTCTTTAAATT
1 ACCAAAGGTTGAACAAGCTTTCCTATATGAAATTCTTCTTCCTTGATGGTCGAGTTCTTCAAATT
* * * **
6552827 ATGAATTCTCCATTGGAAATTCTATTCCACATTCTTCTGTGATAT
66 ATGAATTCTCCATTGAAAATGCTATTCCACCTTCTTCTGTGATGG
* * * * * *
6552872 ATCAAAGGTTGAACAAGCTTTCCTATATGAACTTCTTCTTCCTTTATAGTTGAGTTCTTCATATT
1 ACCAAAGGTTGAACAAGCTTTCCTATATGAAATTCTTCTTCCTTGATGGTCGAGTTCTTCAAATT
* * * *
6552937 ATG-ATATCTTCATTAAAAATGTTATTCCACCTTCTTTTGTGATGG
66 ATGAAT-TCTCCATTGAAAATGCTATTCCACCTTCTTCTGTGATGG
6552982 AC
1 AC
6552984 TAAATTGGAA
Statistics
Matches: 183, Mismatches: 38, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
109 2 0.01
110 181 0.99
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.40
Consensus pattern (110 bp):
ACCAAAGGTTGAACAAGCTTTCCTATATGAAATTCTTCTTCCTTGATGGTCGAGTTCTTCAAATT
ATGAATTCTCCATTGAAAATGCTATTCCACCTTCTTCTGTGATGG
Found at i:6563509 original size:24 final size:24
Alignment explanation
Indices: 6563459--6563535 Score: 113
Period size: 24 Copynumber: 3.2 Consensus size: 24
6563449 GAGCTTAGAG
*
6563459 AAGAGAAGCAAAATGAAAAAA--A
1 AAGAGAAACAAAATGAAAAAATGA
6563481 AAGAGAAACAAAATGAAAAAATGA
1 AAGAGAAACAAAATGAAAAAATGA
*
6563505 GAGAGAAACAAAATGAAAAAATGA
1 AAGAGAAACAAAATGAAAAAATGA
6563529 ATAGAGA
1 A-AGAGA
6563536 TTGGCCCTTA
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
22 20 0.41
24 24 0.49
25 5 0.10
ACGTcount: A:0.69, C:0.04, G:0.19, T:0.08
Consensus pattern (24 bp):
AAGAGAAACAAAATGAAAAAATGA
Found at i:6565529 original size:23 final size:23
Alignment explanation
Indices: 6565503--6565603 Score: 68
Period size: 23 Copynumber: 4.4 Consensus size: 23
6565493 TAAATAATTT
*
6565503 ATATTATTTATAATATTATAAAA
1 ATATTATTTATAATATTTTAAAA
6565526 ATATT-TATT-TAAT-TTTTAAAA
1 ATATTAT-TTATAATATTTTAAAA
*
6565547 TCATATTATTTAT-TTATTTTAAATA
1 --ATATTATTTATAATATTTTAAA-A
* * * *
6565572 ATATTAGTAAT-TTATTTGAAATA
1 ATATTATTTATAATATTTTAAA-A
6565595 ATATTATTT
1 ATATTATTT
6565604 TTAAGTATCT
Statistics
Matches: 64, Mismatches: 7, Indels: 14
0.75 0.08 0.16
Matches are distributed among these distances:
21 7 0.11
22 5 0.08
23 42 0.66
24 9 0.14
25 1 0.02
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (23 bp):
ATATTATTTATAATATTTTAAAA
Found at i:6565746 original size:23 final size:22
Alignment explanation
Indices: 6565727--6565774 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
6565717 AAATAATGTT
6565727 ATTTTAAATAAATAATTAATATG
1 ATTTTAAA-AAATAATTAATATG
*
6565750 ATTTTAAAAATTAATTAA-AT-
1 ATTTTAAAAAATAATTAATATG
6565770 ATTTT
1 ATTTT
6565775 TATAATATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 5 0.21
21 2 0.08
22 9 0.38
23 8 0.33
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
ATTTTAAAAAATAATTAATATG
Found at i:6566364 original size:2 final size:2
Alignment explanation
Indices: 6566359--6566385 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6566349 TTTTTTCTTT
6566359 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
6566386 TAAAAGATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6570936 original size:39 final size:39
Alignment explanation
Indices: 6570882--6570957 Score: 152
Period size: 39 Copynumber: 1.9 Consensus size: 39
6570872 ACTTATTTAG
6570882 GATTCATCTTCTTCCCCATAAAGAACGTCATCTACATCA
1 GATTCATCTTCTTCCCCATAAAGAACGTCATCTACATCA
6570921 GATTCATCTTCTTCCCCATAAAGAACGTCATCTACAT
1 GATTCATCTTCTTCCCCATAAAGAACGTCATCTACAT
6570958 TATCATCGTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (39 bp):
GATTCATCTTCTTCCCCATAAAGAACGTCATCTACATCA
Found at i:6572968 original size:19 final size:19
Alignment explanation
Indices: 6572944--6572988 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
6572934 AGTATAATAA
*
6572944 TTATATATTA-ATTATTTAT
1 TTATATATTACATAATTT-T
6572963 TTATATATTACATAATTTT
1 TTATATATTACATAATTTT
6572982 TTATATA
1 TTATATA
6572989 AAGAAGGGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
TTATATATTACATAATTTT
Found at i:6589760 original size:24 final size:24
Alignment explanation
Indices: 6589726--6589779 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
6589716 CTGAAAAATC
6589726 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
6589750 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
6589774 ATCAAA
1 ATCAAA
6589780 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:6589793 original size:24 final size:24
Alignment explanation
Indices: 6589726--6589793 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
6589716 CTGAAAAATC
* * *
6589726 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
6589750 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
6589774 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
6589794 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:6589926 original size:12 final size:12
Alignment explanation
Indices: 6589905--6589938 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
6589895 GGTTGTGGGT
*
6589905 TTTGAGATTGTG
1 TTTGATATTGTG
6589917 TTTGATATTGTG
1 TTTGATATTGTG
*
6589929 TTTGGTATTG
1 TTTGATATTG
6589939 GAAATGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:6590650 original size:20 final size:19
Alignment explanation
Indices: 6590629--6590862 Score: 98
Period size: 20 Copynumber: 11.6 Consensus size: 19
6590619 GCGATAGTCA
6590629 GAATCTCGTTGCGATTTAC
1 GAATCTCGTTGCGATTTAC
* * *
6590648 AGATTCGCATTGCGATTTAC
1 -GAATCTCGTTGCGATTTAC
*
6590668 GTAT-TCGTATTGCGATTTAC
1 GAATCTCG--TTGCGATTTAC
* * *
6590688 GTAT-TCGCATTACAATTTAC
1 GAATCTCG--TTGCGATTTAC
*
6590708 GGAT-TCGCATTGCGATTTAC
1 GAATCTCG--TTGCGATTTAC
* *
6590728 GTATTCTCGTTGTGATTTAC
1 G-AATCTCGTTGCGATTTAC
*
6590748 -AGATACGCGTTGCGATTTAC
1 GA-AT-CTCGTTGCGATTTAC
* *
6590768 GTATTCTTGTTGCGATTTAC
1 G-AATCTCGTTGCGATTTAC
* *
6590788 GGATACGCGTTGCGATTTTAC
1 GAAT-CTCGTTGCGA-TTTAC
* *
6590809 GTATTGTCGTTGCGATTTAC
1 G-AATCTCGTTGCGATTTAC
* * *
6590829 GGATACGCATTGCGATTTTAC
1 GAAT-CTCGTTGCGA-TTTAC
*
6590850 GGATACTCGTTGC
1 GAAT-CTCGTTGC
6590863 AATAGTCAGA
Statistics
Matches: 164, Mismatches: 37, Indels: 25
0.73 0.16 0.11
Matches are distributed among these distances:
18 2 0.01
19 5 0.03
20 120 0.73
21 32 0.20
22 5 0.03
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.39
Consensus pattern (19 bp):
GAATCTCGTTGCGATTTAC
Found at i:6590681 original size:40 final size:40
Alignment explanation
Indices: 6590637--6590846 Score: 172
Period size: 40 Copynumber: 5.2 Consensus size: 40
6590627 CAGAATCTCG
* * * *
6590637 TTGCGATTTACAG-ATTCGCATTGCGATTTACGTATTCGTA
1 TTGCGATTTAC-GTATTCGCATTACAATTTACGGATTCGCA
6590677 TTGCGATTTACGTATTCGCATTACAATTTACGGATTCGCA
1 TTGCGATTTACGTATTCGCATTACAATTTACGGATTCGCA
* * *** * * *
6590717 TTGCGATTTACGTATTCTCGTTGTGATTTACAGATACGCG
1 TTGCGATTTACGTATTCGCATTACAATTTACGGATTCGCA
*** * * * *
6590757 TTGCGATTTACGTATTCTTGTTGCGATTTACGGATACGCG
1 TTGCGATTTACGTATTCGCATTACAATTTACGGATTCGCA
* * * *
6590797 TTGCGATTTTACGTATT-GTCGTTGCGATTTACGGATACGCA
1 TTGCGA-TTTACGTATTCG-CATTACAATTTACGGATTCGCA
6590838 TTGCGATTT
1 TTGCGATTT
6590847 TACGGATACT
Statistics
Matches: 149, Mismatches: 18, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
39 1 0.01
40 112 0.75
41 36 0.24
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (40 bp):
TTGCGATTTACGTATTCGCATTACAATTTACGGATTCGCA
Found at i:6590745 original size:60 final size:60
Alignment explanation
Indices: 6590635--6590862 Score: 239
Period size: 60 Copynumber: 3.8 Consensus size: 60
6590625 GTCAGAATCT
* *
6590635 CGTTGCGATTTACAGATTCGCATTGCGATTTAC-G-TATTCGTATTGCGATTTACGTATTCG
1 CGTTGCGATTTACGGATTCGCATTGCGATTTACGGATACTCG--TTGCGATTTACGTATTCG
* * * * * * *
6590695 CATTACAATTTACGGATTCGCATTGCGATTTACGTATTCTCGTTGTGATTTACAG-ATACG
1 CGTTGCGATTTACGGATTCGCATTGCGATTTACGGATACTCGTTGCGATTTAC-GTATTCG
* *** *
6590755 CGTTGCGATTTACGTATTCTTGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATT-G
1 CGTTGCGATTTACGGATTCGCATTGCGATTTACGGATACTCGTTGCGA-TTTACGTATTCG
*
6590815 TCGTTGCGATTTACGGATACGCATTGCGATTTTACGGATACTCGTTGC
1 -CGTTGCGATTTACGGATTCGCATTGCGA-TTTACGGATACTCGTTGC
6590863 AATAGTCAGA
Statistics
Matches: 134, Mismatches: 27, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
60 82 0.61
61 31 0.23
62 21 0.16
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.39
Consensus pattern (60 bp):
CGTTGCGATTTACGGATTCGCATTGCGATTTACGGATACTCGTTGCGATTTACGTATTCG
Found at i:6591027 original size:20 final size:19
Alignment explanation
Indices: 6590978--6591031 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
6590968 ATTCTTCATA
6590978 ATCGCGTTGCGATTCTGGG
1 ATCGCGTTGCGATTCTGGG
* **
6590997 AACTGATTTGCGATTCTGGAG
1 ATC-GCGTTGCGATTCTGG-G
6591018 ATCGCGTTGCGATT
1 ATCGCGTTGCGATT
6591032 TTTATTTCGC
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.07
20 22 0.81
21 3 0.11
ACGTcount: A:0.17, C:0.19, G:0.31, T:0.33
Consensus pattern (19 bp):
ATCGCGTTGCGATTCTGGG
Found at i:6599502 original size:20 final size:20
Alignment explanation
Indices: 6599477--6599530 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
6599467 GGACACAGGG
* *
6599477 GCGGATGCACTAAGTAAAGC
1 GCGGATACACCAAGTAAAGC
6599497 GCGGATACACCAAGTAAAGC
1 GCGGATACACCAAGTAAAGC
6599517 GCGGATACACCAAG
1 GCGGATACACCAAG
6599531 CCCCATAGGG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.37, C:0.24, G:0.28, T:0.11
Consensus pattern (20 bp):
GCGGATACACCAAGTAAAGC
Found at i:6600951 original size:12 final size:12
Alignment explanation
Indices: 6600927--6600967 Score: 73
Period size: 12 Copynumber: 3.3 Consensus size: 12
6600917 CGCCCCGATT
6600927 ACCCGATTACCCG
1 ACCCGA-TACCCG
6600940 ACCCGATACCCG
1 ACCCGATACCCG
6600952 ACCCGATACCCG
1 ACCCGATACCCG
6600964 ACCC
1 ACCC
6600968 AATAAATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
12 22 0.79
13 6 0.21
ACGTcount: A:0.24, C:0.51, G:0.15, T:0.10
Consensus pattern (12 bp):
ACCCGATACCCG
Found at i:6608150 original size:12 final size:12
Alignment explanation
Indices: 6608133--6608158 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6608123 AGATTTCCCA
6608133 ATGGAGAAATGT
1 ATGGAGAAATGT
6608145 ATGGAGAAATGT
1 ATGGAGAAATGT
6608157 AT
1 AT
6608159 TTTTTTGAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.31, T:0.27
Consensus pattern (12 bp):
ATGGAGAAATGT
Found at i:6627895 original size:80 final size:77
Alignment explanation
Indices: 6627778--6627925 Score: 181
Period size: 80 Copynumber: 1.9 Consensus size: 77
6627768 ATATAGTAAG
* *
6627778 TAAACATTAAAAGAATGTAATTTAGATTACAACTCTTTTAATTGGTATATATAATTCGAAATAAT
1 TAAACATTAAAAGAATATAATTCAGATTACAACTC-TTTAA-T-GTATATATAATT-GAAATAAT
6627843 TAAATAAGTTTTTAAA
62 TAAATAAGTTTTTAAA
* * * * * *
6627859 TAAACATT-AAAGATTATAATTCATATTATAAGTCTTTAATGTATATTTAATTGAATTAATTAAA
1 TAAACATTAAAAGAATATAATTCAGATTACAACTCTTTAATGTATATATAATTGAAATAATTAAA
6627923 TAA
66 TAA
6627926 TATTTTATTA
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
76 14 0.24
77 11 0.19
78 1 0.02
79 5 0.08
80 20 0.34
81 8 0.14
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.41
Consensus pattern (77 bp):
TAAACATTAAAAGAATATAATTCAGATTACAACTCTTTAATGTATATATAATTGAAATAATTAAA
TAAGTTTTTAAA
Done.