Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 27 of 186
Found at i:8014717 original size:13 final size:14
Alignment explanation
Indices: 8014682--8014719 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
8014672 CCAAAAAAGT
8014682 AAATCATTTTCCAG
1 AAATCATTTTCCAG
8014696 AAATCATTTTCC-G
1 AAATCATTTTCCAG
*
8014709 AAGTCATTTTC
1 AAATCATTTTC
8014720 AGTGAAACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.39
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:8016161 original size:17 final size:19
Alignment explanation
Indices: 8016139--8016173 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
8016129 TAGAAATAAA
8016139 AATTTAAA-A-AAATCATG
1 AATTTAAATATAAATCATG
8016156 AATTTAAATATAAATCAT
1 AATTTAAATATAAATCAT
8016174 AAAATTGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 1 0.06
19 7 0.44
ACGTcount: A:0.57, C:0.06, G:0.03, T:0.34
Consensus pattern (19 bp):
AATTTAAATATAAATCATG
Found at i:8021479 original size:39 final size:39
Alignment explanation
Indices: 8021425--8021499 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 39
8021415 TTCTTCGTTA
*
8021425 GTCCGTTGATTGCCAAAAAAAATTTTGCATCTTTTTCTG
1 GTCCGCTGATTGCCAAAAAAAATTTTGCATCTTTTTCTG
** *
8021464 GTCCGCTGATTGCCAAAAAATTTTTTTCATCTTTTT
1 GTCCGCTGATTGCCAAAAAAAATTTTGCATCTTTTT
8021500 AACCATCCTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.24, C:0.19, G:0.13, T:0.44
Consensus pattern (39 bp):
GTCCGCTGATTGCCAAAAAAAATTTTGCATCTTTTTCTG
Found at i:8023938 original size:20 final size:20
Alignment explanation
Indices: 8023890--8023957 Score: 66
Period size: 20 Copynumber: 3.2 Consensus size: 20
8023880 TTCTTACATT
*
8023890 GTAAATCATTAAAAATATTGG
1 GTAAATCATTAGAAATATT-G
8023911 TAGTAAAT-AGTTAGAAATATTG
1 --GTAAATCA-TTAGAAATATTG
* *
8023933 GTAAATCATTAGATATTTTG
1 GTAAATCATTAGAAATATTG
8023953 GTAAA
1 GTAAA
8023958 AGCTTTTCCT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
20 21 0.52
21 1 0.03
22 2 0.05
23 16 0.40
ACGTcount: A:0.44, C:0.03, G:0.16, T:0.37
Consensus pattern (20 bp):
GTAAATCATTAGAAATATTG
Found at i:8028506 original size:12 final size:12
Alignment explanation
Indices: 8028477--8028515 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
8028467 GAAAGATTTG
* *
8028477 AAAAAAATATAG
1 AAAAAAAAATAA
*
8028489 ATAAAAAAATAA
1 AAAAAAAAATAA
8028501 AAAAAAAAATAA
1 AAAAAAAAATAA
8028513 AAA
1 AAA
8028516 TAAATAGATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.13
Consensus pattern (12 bp):
AAAAAAAAATAA
Found at i:8028772 original size:19 final size:19
Alignment explanation
Indices: 8028748--8028787 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
8028738 TAAGAATATA
*
8028748 ATCCAAACTAAATTAAAAT
1 ATCCAAACCAAATTAAAAT
*
8028767 ATCCAACCCAAATTAAAAT
1 ATCCAAACCAAATTAAAAT
8028786 AT
1 AT
8028788 TTTTTATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.55, C:0.20, G:0.00, T:0.25
Consensus pattern (19 bp):
ATCCAAACCAAATTAAAAT
Found at i:8036061 original size:8 final size:8
Alignment explanation
Indices: 8036048--8036076 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
8036038 TTATGTTTCG
8036048 TATATTAT
1 TATATTAT
8036056 TATATTAT
1 TATATTAT
8036064 TATATTAT
1 TATATTAT
8036072 TATAT
1 TATAT
8036077 AATAAAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATTAT
Found at i:8036109 original size:5 final size:5
Alignment explanation
Indices: 8036099--8036129 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
8036089 TTATGTTTTA
8036099 ATTAT ATTAT ATTAT ATTAT ATTAT A-TAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
8036130 AAACTAAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATTAT
Found at i:8036472 original size:15 final size:15
Alignment explanation
Indices: 8036452--8036508 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
8036442 AGATGAATTT
8036452 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
8036467 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
8036482 ATTGAATTTATATTG
1 ATTGAATTTATATTG
8036497 ATTGAA-TTATAT
1 ATTGAATTTATAT
8036509 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:8036927 original size:21 final size:21
Alignment explanation
Indices: 8036892--8036987 Score: 129
Period size: 21 Copynumber: 4.5 Consensus size: 21
8036882 AGGCACTTTA
8036892 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA--TCAGGCACCTCG
8036915 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
8036936 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
* * * **
8036957 TGTGTCGTTTTAGGCACTTTA
1 TGTGTCGTATCAGGCACCTCG
8036978 TGTGTCGTAT
1 TGTGTCGTAT
8036988 ACTGATCAGG
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
21 58 0.87
23 9 0.13
ACGTcount: A:0.14, C:0.23, G:0.27, T:0.36
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:8036962 original size:42 final size:42
Alignment explanation
Indices: 8036879--8036987 Score: 137
Period size: 42 Copynumber: 2.5 Consensus size: 42
8036869 GGCTTTATCG
* *
8036879 ATCAGGCACTTTATGTGTCGTATTTCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTCATGTGTCGTA--TCAGGCACCTCGTGTGTCGT
*
8036923 ATCAGGCACCTCGTGTGTCGTATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTCATGTGTCGTATCAGGCACCTCGTGTGTCGT
* * * *
8036965 TTTAGGCACTTTATGTGTCGTAT
1 ATCAGGCACCTCATGTGTCGTAT
8036988 ACTGATCAGG
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 38 0.67
44 19 0.33
ACGTcount: A:0.16, C:0.23, G:0.26, T:0.36
Consensus pattern (42 bp):
ATCAGGCACCTCATGTGTCGTATCAGGCACCTCGTGTGTCGT
Found at i:8038257 original size:115 final size:114
Alignment explanation
Indices: 8038125--8038351 Score: 400
Period size: 115 Copynumber: 2.0 Consensus size: 114
8038115 ATTTTTTAAG
*
8038125 GTCGTAAAAAAATTATTTATAAGCTAAATTTGTAAGTCAACTAATAATAAAATAATCTAGACTAA
1 GTCGTAAAAAAATTATTTATAAGCTAAATTTGTAAGTCAAATAATAATAAAATAATCTAGACTAA
* *
8038190 TCAGAGTTCGACTATAACAAATAAACAGAGTTTAACTGAGAGATTATCA
66 TCAGAGTTCGACAATAACAAATAAACAAAGTTTAACTGAGAGATTATCA
*
8038239 GTCGTAAAAAAAATTATTTATAAGCTAAGTTTGTAAGTCAAATAATAATAAAATAATCTAGACTA
1 GTCGT-AAAAAAATTATTTATAAGCTAAATTTGTAAGTCAAATAATAATAAAATAATCTAGACTA
*
8038304 ATTAGAGTTCGACAATAACAAATAAACAAAGTTTAACTGAGAGATTAT
65 ATCAGAGTTCGACAATAACAAATAAACAAAGTTTAACTGAGAGATTAT
8038352 ATTTCAAATT
Statistics
Matches: 107, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
114 5 0.05
115 102 0.95
ACGTcount: A:0.48, C:0.10, G:0.12, T:0.30
Consensus pattern (114 bp):
GTCGTAAAAAAATTATTTATAAGCTAAATTTGTAAGTCAAATAATAATAAAATAATCTAGACTAA
TCAGAGTTCGACAATAACAAATAAACAAAGTTTAACTGAGAGATTATCA
Found at i:8040212 original size:24 final size:22
Alignment explanation
Indices: 8040184--8040234 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 22
8040174 ATTCTAATCA
*
8040184 TTAAAT-TAAATGTTAAATGTCATT
1 TTAAATCT-AATGTGAAATGT--TT
8040208 TTAAATCTAATGTGAAATGTTT
1 TTAAATCTAATGTGAAATGTTT
8040230 TTAAA
1 TTAAA
8040235 ATATATAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 7 0.28
24 17 0.68
25 1 0.04
ACGTcount: A:0.41, C:0.04, G:0.10, T:0.45
Consensus pattern (22 bp):
TTAAATCTAATGTGAAATGTTT
Found at i:8044273 original size:17 final size:18
Alignment explanation
Indices: 8044251--8044284 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
8044241 ATAAATTTTA
8044251 AAAGTAAAAC-TAAAAAT
1 AAAGTAAAACTTAAAAAT
*
8044268 AAAGTAATACTTAAAAA
1 AAAGTAAAACTTAAAAA
8044285 AGAGAGTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.68, C:0.06, G:0.06, T:0.21
Consensus pattern (18 bp):
AAAGTAAAACTTAAAAAT
Found at i:8044489 original size:28 final size:28
Alignment explanation
Indices: 8044457--8044514 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
8044447 TAATTGATAT
*
8044457 AATA-TTGATAATTTTAAAATATAATTTA
1 AATATTTGAAAATTTTAAAA-ATAATTTA
* *
8044485 AATATTTTAAAATTTTAAAACTAATTTA
1 AATATTTGAAAATTTTAAAAATAATTTA
8044513 AA
1 AA
8044515 ATAATAACAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 13 0.50
29 13 0.50
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (28 bp):
AATATTTGAAAATTTTAAAAATAATTTA
Found at i:8051693 original size:21 final size:21
Alignment explanation
Indices: 8051667--8051707 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
8051657 AGACGAGCAA
* *
8051667 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
8051688 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
8051708 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:8056925 original size:50 final size:49
Alignment explanation
Indices: 8056835--8056996 Score: 155
Period size: 50 Copynumber: 3.3 Consensus size: 49
8056825 TACTCAATAG
* *
8056835 GCTTCCATCAATTCAT-AAAAAGACTTGTTTTTATCATTTCAGTTATCAG
1 GCTTCCATCAACTCATGAAAAAGACTTG-TTTTATCATTTCAGTTATCAA
* * * *
8056884 GCTTCCATCAACTCATGCAAACATACTTGTTTTATCATTTCAGTTGTTAA
1 GCTTCCATCAACTCATG-AAAAAGACTTGTTTTATCATTTCAGTTATCAA
* * * * * * *
8056934 ACTTCCATCAAATTATGTAGAGAGACTTGTTTTATCATCTCAGTCATCAA
1 GCTTCCATCAACTCATG-AAAAAGACTTGTTTTATCATTTCAGTTATCAA
**
8056984 GCTTTTATCAACT
1 GCTTCCATCAACT
8056997 GAGACTTATT
Statistics
Matches: 90, Mismatches: 21, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
49 15 0.17
50 66 0.73
51 9 0.10
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (49 bp):
GCTTCCATCAACTCATGAAAAAGACTTGTTTTATCATTTCAGTTATCAA
Found at i:8057880 original size:59 final size:58
Alignment explanation
Indices: 8057844--8057962 Score: 184
Period size: 59 Copynumber: 2.0 Consensus size: 58
8057834 AAATTAAATT
* *
8057844 AACTAAAAAAGAAAGAAAGCAACTTACCAAACTAAAAGGAAATGTAGAAAAAGAAGACC
1 AACTAAAAAAGAAAGAAAACAACTTACCAAACTAAAAAGAAAT-TAGAAAAAGAAGACC
*
8057903 AACTAAAAAAGAAAGAAAACAACTTACGAAACTAAAAAGAAATTTAGAAAAAGGAAGACC
1 AACTAAAAAAGAAAGAAAACAACTTACCAAACTAAAAAGAAA-TTAGAAAAA-GAAGACC
8057963 GGGAAACAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
59 47 0.85
60 8 0.15
ACGTcount: A:0.62, C:0.13, G:0.14, T:0.11
Consensus pattern (58 bp):
AACTAAAAAAGAAAGAAAACAACTTACCAAACTAAAAAGAAATTAGAAAAAGAAGACC
Found at i:8068700 original size:23 final size:23
Alignment explanation
Indices: 8068674--8068723 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
8068664 TTTAATTTTC
*
8068674 TTAAAAAATGATGAAATTATAAA
1 TTAAAAAATGATAAAATTATAAA
* * * *
8068697 TTAATACATTATAAAATTATATA
1 TTAAAAAATGATAAAATTATAAA
8068720 TTAA
1 TTAA
8068724 CATCTCAAAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (23 bp):
TTAAAAAATGATAAAATTATAAA
Found at i:8068717 original size:85 final size:85
Alignment explanation
Indices: 8068569--8068725 Score: 190
Period size: 85 Copynumber: 1.8 Consensus size: 85
8068559 TTCGCAATTG
* * * * * ** * *
8068569 AAAAATTGTAATTTAATCTCTTTAAAAATTATTAAATTATAAATTTATGTATGGTAAATTTATAT
1 AAAAATTATAATTTAATCTCTTAAAAAATGATGAAATTATAAATTAATACATGATAAAATTATAT
*
8068634 TTTAACACCTTAAAAATGAA
66 ATTAACACCTTAAAAATGAA
* *
8068654 AAAAATTAT-ATTTAATTTTCTTAAAAAATGATGAAATTATAAATTAATACATTATAAAATTATA
1 AAAAATTATAATTTAA-TCTCTTAAAAAATGATGAAATTATAAATTAATACATGATAAAATTATA
8068718 TATTAACA
65 TATTAACA
8068726 TCTCAAACAT
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
84 6 0.10
85 53 0.90
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.41
Consensus pattern (85 bp):
AAAAATTATAATTTAATCTCTTAAAAAATGATGAAATTATAAATTAATACATGATAAAATTATAT
ATTAACACCTTAAAAATGAA
Found at i:8070217 original size:18 final size:18
Alignment explanation
Indices: 8070194--8070229 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
8070184 TTTCACATAG
*
8070194 TGTTATATTATTTATGTA
1 TGTTATATTATTCATGTA
8070212 TGTTATATTATTCATGTA
1 TGTTATATTATTCATGTA
8070230 GACTTTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.28, C:0.03, G:0.11, T:0.58
Consensus pattern (18 bp):
TGTTATATTATTCATGTA
Found at i:8070432 original size:63 final size:63
Alignment explanation
Indices: 8070322--8070441 Score: 163
Period size: 63 Copynumber: 1.9 Consensus size: 63
8070312 TCTAAGTACT
* *
8070322 ATAATAAAACATATATTGATAGTTTATGTACCATATTAGATAATTTATAAAAGTACAAGTATC
1 ATAATAAAACATATATTGATAATTTATGTACCATATTAGATAATTTATAAAAATACAAGTATC
* * *
8070385 ATAATAAAATATATATTTATAATTTATGTCCCATATT-GA-ACATTTTATAAAAATACA
1 ATAATAAAACATATATTGATAATTTATGTACCATATTAGATA-A-TTTATAAAAATACA
8070442 TATACCAAAC
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
61 1 0.02
62 3 0.06
63 46 0.92
ACGTcount: A:0.47, C:0.08, G:0.07, T:0.38
Consensus pattern (63 bp):
ATAATAAAACATATATTGATAATTTATGTACCATATTAGATAATTTATAAAAATACAAGTATC
Found at i:8073693 original size:25 final size:25
Alignment explanation
Indices: 8073665--8073719 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
8073655 GATAAGCTCA
*
8073665 CAGCTCTCACTTCTAGCTAAGCTTG
1 CAGCTCTCACATCTAGCTAAGCTTG
* * * *
8073690 CAGCTTTGACATCTTGCTGAGCTTG
1 CAGCTCTCACATCTAGCTAAGCTTG
8073715 CAGCT
1 CAGCT
8073720 TGCACATTGG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.18, C:0.29, G:0.20, T:0.33
Consensus pattern (25 bp):
CAGCTCTCACATCTAGCTAAGCTTG
Found at i:8074074 original size:20 final size:20
Alignment explanation
Indices: 8074045--8074092 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
8074035 TTCATTCAAT
8074045 TAGA-AAAACAATACATTTA
1 TAGATAAAACAATACATTTA
8074064 TAGATAAAACAATACATTTA
1 TAGATAAAACAATACATTTA
*
8074084 TAGCTAAAA
1 TAGATAAAA
8074093 ACTATCACCA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
19 4 0.15
20 23 0.85
ACGTcount: A:0.56, C:0.10, G:0.06, T:0.27
Consensus pattern (20 bp):
TAGATAAAACAATACATTTA
Found at i:8084727 original size:12 final size:13
Alignment explanation
Indices: 8084685--8084741 Score: 71
Period size: 12 Copynumber: 4.2 Consensus size: 13
8084675 CTTTAACCTC
8084685 AAAAAATATAAAATT
1 AAAAAAT-TAAAA-T
*
8084700 AAAAATTTTAAAAT
1 AAAAA-ATTAAAAT
8084714 AAAAAATT-AAAT
1 AAAAAATTAAAAT
8084726 AAAAAATTAAAAT
1 AAAAAATTAAAAT
8084739 AAA
1 AAA
8084742 TTTTTAATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
12 12 0.32
13 9 0.24
14 6 0.16
15 10 0.26
16 1 0.03
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (13 bp):
AAAAAATTAAAAT
Found at i:8087876 original size:19 final size:17
Alignment explanation
Indices: 8087837--8087889 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
8087827 TAGTTATTCT
*
8087837 TATTAT-TAGTATTAT-
1 TATTATGTAATATTATA
*
8087852 TATTATTTTAATATGTATA
1 TATTA-TGTAATAT-TATA
8087871 TATTATGTAATATTATA
1 TATTATGTAATATTATA
8087888 TA
1 TA
8087890 CATGCTTTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
15 5 0.16
16 1 0.03
17 11 0.34
18 10 0.31
19 5 0.16
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.57
Consensus pattern (17 bp):
TATTATGTAATATTATA
Found at i:8102170 original size:17 final size:18
Alignment explanation
Indices: 8102150--8102188 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
8102140 ATTCATTGTA
*
8102150 TTATTTCAT-TAAAATTC
1 TTATTTAATGTAAAATTC
8102167 TTA-TTAATGTAAAATTC
1 TTATTTAATGTAAAATTC
8102184 TTATT
1 TTATT
8102189 ATTTAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 4 0.21
17 14 0.74
18 1 0.05
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.54
Consensus pattern (18 bp):
TTATTTAATGTAAAATTC
Found at i:8102774 original size:9 final size:9
Alignment explanation
Indices: 8102741--8102766 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
8102731 ACTTCATCCT
8102741 AATTTTTTA
1 AATTTTTTA
8102750 AATTTTTTA
1 AATTTTTTA
8102759 AATTTTTT
1 AATTTTTT
8102767 TTAATTTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
AATTTTTTA
Found at i:8105254 original size:22 final size:23
Alignment explanation
Indices: 8105229--8105274 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
8105219 CAACCAAATC
8105229 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
8105251 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
8105274 A
1 A
8105275 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:8105280 original size:23 final size:23
Alignment explanation
Indices: 8105236--8105280 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
8105226 ATCAATTCAA
*
8105236 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
8105259 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
8105281 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:8108651 original size:26 final size:24
Alignment explanation
Indices: 8108611--8108670 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
8108601 TTATTTTATT
* * *
8108611 AAATAAAAAAATTTAAAAATATAA
1 AAATAAATATATTTAAAAACATAA
8108635 TAAATCAAATATATTTAAAAACATAA
1 -AAAT-AAATATATTTAAAAACATAA
8108661 AAATAAATAT
1 AAATAAATAT
8108671 GAAAACAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.28
Consensus pattern (24 bp):
AAATAAATATATTTAAAAACATAA
Found at i:8109075 original size:3 final size:3
Alignment explanation
Indices: 8109067--8109141 Score: 66
Period size: 3 Copynumber: 25.7 Consensus size: 3
8109057 TGTTATCTTC
* * *
8109067 ATT ATT ATT GA-T ATT ATT ATT ATT ATT GTT -TT TTT ATT ACT ATT
1 ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
8109111 ATC ATT ATT A-T ATT ATT ACT ATT AGT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
8109142 ATTTATATTC
Statistics
Matches: 58, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
2 5 0.09
3 52 0.90
4 1 0.02
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:8109110 original size:23 final size:23
Alignment explanation
Indices: 8109067--8109141 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 23
8109057 TGTTATCTTC
*
8109067 ATTATTATTGATATTATTATTATT
1 ATTATTATT-ATATTATTACTATT
*
8109091 ATTGTT-TT-T-TTATTACTATT
1 ATTATTATTATATTATTACTATT
*
8109111 ATCATTATTATATTATTACTATT
1 ATTATTATTATATTATTACTATT
*
8109134 AGTATTAT
1 ATTATTAT
8109142 ATTTATATTC
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
20 14 0.33
21 3 0.07
22 1 0.02
23 19 0.45
24 5 0.12
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (23 bp):
ATTATTATTATATTATTACTATT
Found at i:8109124 original size:20 final size:20
Alignment explanation
Indices: 8109101--8109144 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
8109091 ATTGTTTTTT
* *
8109101 TATTACTATTATCATTATTA
1 TATTACTACTATCAGTATTA
* *
8109121 TATTATTACTATTAGTATTA
1 TATTACTACTATCAGTATTA
8109141 TATT
1 TATT
8109145 TATATTCATG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (20 bp):
TATTACTACTATCAGTATTA
Found at i:8109377 original size:26 final size:26
Alignment explanation
Indices: 8109320--8109433 Score: 79
Period size: 27 Copynumber: 4.2 Consensus size: 26
8109310 ATTATTATCA
* *
8109320 ATTTTAAATATTTTACATATATAATTT
1 ATTTTAAATATTATACGTATAT-ATTT
*
8109347 CTTTTAAACTATTATACGTAT-TATTT
1 ATTTTAAA-TATTATACGTATATATTT
* * *
8109373 ATTTTGAAATTTTATATGTATCT-TTGT
1 ATTTT-AAATATTATACGTATATATT-T
**
8109400 ATTTTAAATTATTATATATATACATATTT
1 ATTTTAAA-TATTATACGTAT--ATATTT
8109429 ATTTT
1 ATTTT
8109434 TTTAAATATT
Statistics
Matches: 70, Mismatches: 9, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
26 23 0.33
27 28 0.40
28 10 0.14
29 7 0.10
30 2 0.03
ACGTcount: A:0.34, C:0.05, G:0.04, T:0.57
Consensus pattern (26 bp):
ATTTTAAATATTATACGTATATATTT
Found at i:8109414 original size:27 final size:26
Alignment explanation
Indices: 8109320--8109416 Score: 81
Period size: 26 Copynumber: 3.7 Consensus size: 26
8109310 ATTATTATCA
* * * *
8109320 ATTTTAAATATTTTACATATATAATTT
1 ATTTTAAAT-TATTATATGTATTATTT
* * *
8109347 CTTTTAAACTATTATACGTATTATTT
1 ATTTTAAATTATTATATGTATTATTT
8109373 ATTTTGAAATT-TTATATGTATCT-TTGT
1 ATTTT-AAATTATTATATGTAT-TATT-T
8109400 ATTTTAAATTATTATAT
1 ATTTTAAATTATTATAT
8109417 ATATACATAT
Statistics
Matches: 56, Mismatches: 10, Indels: 8
0.76 0.14 0.11
Matches are distributed among these distances:
26 32 0.57
27 24 0.43
ACGTcount: A:0.34, C:0.05, G:0.04, T:0.57
Consensus pattern (26 bp):
ATTTTAAATTATTATATGTATTATTT
Found at i:8109853 original size:27 final size:26
Alignment explanation
Indices: 8109811--8109906 Score: 74
Period size: 27 Copynumber: 3.6 Consensus size: 26
8109801 TACTTTGTGA
8109811 ATTATTTATCTT-AATTTA-TTTAACAT
1 ATTATTTAT-TTAAATTTACTTT-ACAT
*
8109837 ATTATTTATTTGAAATTTACTTTATAT
1 ATTATTTATTT-AAATTTACTTTACAT
*
8109864 ATTATGTTATTTCAAATTGT--TTTATAT
1 ATTAT-TTATTT-AAATT-TACTTTACAT
*
8109891 TTTATTTATGTTAAAT
1 ATTATTTAT-TTAAAT
8109907 CTTTTTCATA
Statistics
Matches: 61, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
25 2 0.03
26 17 0.28
27 27 0.44
28 14 0.23
29 1 0.02
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.59
Consensus pattern (26 bp):
ATTATTTATTTAAATTTACTTTACAT
Found at i:8126658 original size:21 final size:21
Alignment explanation
Indices: 8126626--8126666 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
8126616 GAACATTTGG
8126626 TGTATAGGCTAAGAA-AGGCCT
1 TGTATAGGCTAA-AACAGGCCT
8126647 TGTAT-GGCCTAAAACAGGCC
1 TGTATAGG-CTAAAACAGGCC
8126667 CCTCGAGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (21 bp):
TGTATAGGCTAAAACAGGCCT
Found at i:8136004 original size:20 final size:20
Alignment explanation
Indices: 8135979--8136017 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
8135969 AGTTGAGGCT
*
8135979 GTGTGGGGTTATATAACACC
1 GTGTGGGGCTATATAACACC
*
8135999 GTGTGGGGCTATATCACAC
1 GTGTGGGGCTATATAACAC
8136018 AATCGTGTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (20 bp):
GTGTGGGGCTATATAACACC
Found at i:8144033 original size:20 final size:20
Alignment explanation
Indices: 8144008--8144054 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
8143998 ACTTAAAATG
*
8144008 TATATTTGAAATGTTT-TATA
1 TATATTTGAAAT-TTTGAATA
*
8144028 TATATTTTAAATTTTGAATA
1 TATATTTGAAATTTTGAATA
8144048 TATATTT
1 TATATTT
8144055 CAGAAATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 3 0.12
20 21 0.88
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.57
Consensus pattern (20 bp):
TATATTTGAAATTTTGAATA
Found at i:8144093 original size:30 final size:30
Alignment explanation
Indices: 8144058--8144114 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
8144048 TATATTTCAG
*
8144058 AAATTATTTTTCTAA-ATTTTAAATATTTTT
1 AAATTATTTTT-AAAGATTTTAAATATTTTT
8144088 AAATTATTTTTAAAGATTTTAAATATT
1 AAATTATTTTTAAAGATTTTAAATATT
8144115 ATTTTTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (30 bp):
AAATTATTTTTAAAGATTTTAAATATTTTT
Found at i:8144100 original size:21 final size:23
Alignment explanation
Indices: 8144074--8144140 Score: 81
Period size: 21 Copynumber: 3.1 Consensus size: 23
8144064 TTTTTCTAAA
*
8144074 TTTTAAATATTTTTAA-ATTA-T
1 TTTTAAATATTTTAAATATTATT
*
8144095 TTTTAAAGATTTTAAATATTATT
1 TTTTAAATATTTTAAATATTATT
8144118 TTTTAAATA--TTAAATA-TATT
1 TTTTAAATATTTTAAATATTATT
8144138 TTT
1 TTT
8144141 AATAATATAA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
20 7 0.17
21 21 0.51
22 4 0.10
23 9 0.22
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (23 bp):
TTTTAAATATTTTAAATATTATT
Found at i:8144144 original size:11 final size:10
Alignment explanation
Indices: 8144074--8144114 Score: 57
Period size: 11 Copynumber: 4.1 Consensus size: 10
8144064 TTTTTCTAAA
8144074 TTTTAAATAT
1 TTTTAAATAT
8144084 TTTTAAATTAT
1 TTTTAAA-TAT
*
8144095 TTTTAAAGA-
1 TTTTAAATAT
8144104 TTTTAAATAT
1 TTTTAAATAT
8144114 T
1 T
8144115 ATTTTTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 8 0.30
10 9 0.33
11 10 0.37
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (10 bp):
TTTTAAATAT
Found at i:8144144 original size:18 final size:21
Alignment explanation
Indices: 8144090--8144140 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
8144080 ATATTTTTAA
* *
8144090 ATTATTTTTAAAGATTTTAAAT
1 ATTATTTTTTAA-ATATTAAAT
8144112 ATTATTTTTTAAATATTAAAT
1 ATTATTTTTTAAATATTAAAT
8144133 A-TATTTTT
1 ATTATTTTT
8144141 AATAATATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 7 0.26
21 9 0.33
22 11 0.41
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (21 bp):
ATTATTTTTTAAATATTAAAT
Found at i:8144147 original size:21 final size:20
Alignment explanation
Indices: 8144086--8144148 Score: 74
Period size: 20 Copynumber: 3.0 Consensus size: 20
8144076 TTAAATATTT
*
8144086 TTAAAT-TATTTTTAAAGATT
1 TTAAATATATTTTTAAA-ATA
*
8144106 TTAAATATTATTTTTTAAATA
1 TTAAATA-TATTTTTAAAATA
8144127 TTAAATATATTTTTAATAATA
1 TTAAATATATTTTTAA-AATA
8144148 T
1 T
8144149 AAAAAATTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
20 14 0.38
21 14 0.38
22 9 0.24
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
TTAAATATATTTTTAAAATA
Found at i:8144151 original size:20 final size:21
Alignment explanation
Indices: 8144090--8144157 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
8144080 ATATTTTTAA
*
8144090 ATTATTTTTAAAGATTTTAAAT
1 ATTATTTTTAAA-ATATTAAAT
*
8144112 ATTATTTTTTAAATATTAAAT
1 ATTATTTTTAAAATATTAAAT
* *
8144133 A-TATTTTTAATAATATAAAAA
1 ATTATTTTTAA-AATATTAAAT
8144154 ATTA
1 ATTA
8144158 AATATTTTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
20 8 0.21
21 18 0.46
22 13 0.33
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (21 bp):
ATTATTTTTAAAATATTAAAT
Found at i:8144262 original size:20 final size:20
Alignment explanation
Indices: 8144237--8144356 Score: 65
Period size: 20 Copynumber: 6.7 Consensus size: 20
8144227 GTTTTATAAT
8144237 ATATATTTTTTAAATTTTAA
1 ATATATTTTTTAAATTTTAA
8144257 ATATATATTTTT--A----AA
1 ATATAT-TTTTTAAATTTTAA
8144272 AT-TATTTTTCTAAATTTTAA
1 ATATATTTTT-TAAATTTTAA
8144292 ATAT-TATTTTTAAA--TT--
1 ATATAT-TTTTTAAATTTTAA
** *
8144308 AT-T-TTTTAAAAAATTT-A
1 ATATATTTTTTAAATTTTAA
*
8144325 A-ATATTTTTTAAATATTAA
1 ATATATTTTTTAAATTTTAA
8144344 ATATATTTTTTAA
1 ATATATTTTTTAA
8144357 TAATATAAAA
Statistics
Matches: 77, Mismatches: 6, Indels: 34
0.66 0.05 0.29
Matches are distributed among these distances:
13 4 0.05
14 10 0.13
15 6 0.08
16 5 0.06
17 2 0.03
18 11 0.14
19 3 0.04
20 26 0.34
21 10 0.13
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (20 bp):
ATATATTTTTTAAATTTTAA
Found at i:8144262 original size:22 final size:23
Alignment explanation
Indices: 8144228--8144274 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 23
8144218 ATTTGAAATG
*
8144228 TTTTATAATATATATTTTTTAAA
1 TTTTATAATATATATTTTTAAAA
8144251 TTTTA-AATATATATTTTTAAAA
1 TTTTATAATATATATTTTTAAAA
8144273 TT
1 TT
8144275 ATTTTTCTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
TTTTATAATATATATTTTTAAAA
Found at i:8144270 original size:14 final size:14
Alignment explanation
Indices: 8144251--8144317 Score: 55
Period size: 12 Copynumber: 5.5 Consensus size: 14
8144241 ATTTTTTAAA
8144251 TTTTAAATATATAT
1 TTTTAAATATATAT
8144265 TTTTAAA-AT-TAT
1 TTTTAAATATATAT
*
8144277 TTTT--CTA-A-A-
1 TTTTAAATATATAT
8144286 TTTTAAATAT-TAT
1 TTTTAAATATATAT
8144299 TTTTAAAT-TAT-T
1 TTTTAAATATATAT
8144311 TTTTAAA
1 TTTTAAA
8144318 AAATTTAAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 18
0.68 0.03 0.29
Matches are distributed among these distances:
9 4 0.09
10 1 0.02
11 3 0.07
12 17 0.40
13 11 0.26
14 7 0.16
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTTAAATATATAT
Found at i:8144288 original size:35 final size:32
Alignment explanation
Indices: 8144240--8144338 Score: 130
Period size: 34 Copynumber: 3.0 Consensus size: 32
8144230 TTATAATATA
8144240 TATTTTTTAAATTTTAAATATATATTTTTAAAAT
1 TATTTTTTAAATTTTAAATAT-TATTTTT-AAAT
8144274 TATTTTTCTAAATTTTAAATATTATTTTTAAAT
1 TATTTTT-TAAATTTTAAATATTATTTTTAAAT
*
8144307 TATTTTTTAAAAAATTTAAATA-T-TTTTTAAAT
1 TATTTTTT--AAATTTTAAATATTATTTTTAAAT
8144339 ATTAAATATA
Statistics
Matches: 61, Mismatches: 1, Indels: 8
0.87 0.01 0.11
Matches are distributed among these distances:
32 10 0.16
33 12 0.20
34 25 0.41
35 14 0.23
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (32 bp):
TATTTTTTAAATTTTAAATATTATTTTTAAAT
Found at i:8144337 original size:11 final size:11
Alignment explanation
Indices: 8144286--8144341 Score: 53
Period size: 11 Copynumber: 5.0 Consensus size: 11
8144276 TTTTTCTAAA
8144286 TTTTAAATATTAT
1 TTTTAAATA-T-T
8144299 TTTTAAATTATT
1 TTTTAAA-TATT
*
8144311 TTTTAAA-A-A
1 TTTTAAATATT
*
8144320 ATTTAAATATT
1 TTTTAAATATT
8144331 TTTTAAATATT
1 TTTTAAATATT
8144342 AAATATATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
9 6 0.17
10 2 0.06
11 10 0.28
12 8 0.22
13 8 0.22
14 2 0.06
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTAAATATT
Found at i:8144369 original size:20 final size:20
Alignment explanation
Indices: 8144301--8144371 Score: 83
Period size: 20 Copynumber: 3.5 Consensus size: 20
8144291 AATATTATTT
* *
8144301 TTAAATTATTTTTTAAAAAA
1 TTAAAATATTTTTTAAAATA
*
8144321 TTTAAATATTTTTT-AAATA
1 TTAAAATATTTTTTAAAATA
8144340 TTAAATATATTTTTTAATAATA
1 TTAAA-ATATTTTTTAA-AATA
8144362 -TAAAATATTT
1 TTAAAATATTT
8144372 AAATATTTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
19 8 0.18
20 27 0.61
21 5 0.11
22 4 0.09
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTAAAATATTTTTTAAAATA
Found at i:8144383 original size:39 final size:42
Alignment explanation
Indices: 8144299--8144388 Score: 102
Period size: 39 Copynumber: 2.3 Consensus size: 42
8144289 TAAATATTAT
* *
8144299 TTTTAAAT-TATTTTTTAAAAAATTTAAATATTTTTTAAATA
1 TTTTAAATATATTTTTTAAAAAATATAAATATTATTTAAATA
*
8144340 --TTAAATATATTTTTT-AATAATATAAA-A-TATTTAAATA
1 TTTTAAATATATTTTTTAAAAAATATAAATATTATTTAAATA
*
8144377 TTTTAAAGATAT
1 TTTTAAATATAT
8144389 GAACTTTCAA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
37 9 0.21
38 1 0.02
39 24 0.57
40 8 0.19
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (42 bp):
TTTTAAATATATTTTTTAAAAAATATAAATATTATTTAAATA
Found at i:8144408 original size:215 final size:210
Alignment explanation
Indices: 8144003--8144450 Score: 676
Period size: 215 Copynumber: 2.1 Consensus size: 210
8143993 AAAAAACTTA
*
8144003 AAATGTATATTTGAAATG-TTT-T-ATATATATTTTAAATTTTGAATATATATTTCAGAAATTAT
1 AAATGTATATTTGAAATGTTTTATAATATATATTTTAAATTTTAAATATATATTTCAGAAATTAT
* *
8144065 TTTTCTAAATTTTAAATATTTTTAAATTATTTTTAAAGATTTTAAATATTATTTTTTAAATATTA
66 TTTTCTAAATTTTAAATATTTTTAAATTATTTTTAAAAAATTTAAATATTATTTTTTAAATATTA
*
8144130 AATATATTTTTAATAATATAAAAAATTAAATATTTTAAAGATATGAGCTTTCAAATTTATTATTA
131 AATATATTTTTAATAATATAAAAAATTAAATATTTTAAAGATATGAACTTTCAAATTTATTATTA
8144195 GTTTTATAATATTTC
196 GTTTTATAATATTTC
*
8144210 AAATGTATATTTGAAATGTTTTATAATATATATTTTTTAAATTTTAAATATATATTTTTA-AAAT
1 AAATGTATATTTGAAATGTTTTATAATATATA--TTTTAAATTTTAAATATATA-TTTCAGAAAT
8144274 TATTTTTCTAAATTTTAAATATTATTTTTAAATTATTTTTTAAAAAATTT-AA-A-TATTTTTTA
63 TATTTTTCTAAATTTT-AA-A-TATTTTTAAATTA-TTTTTAAAAAATTTAAATATTATTTTTTA
*
8144336 AATATTAAATATATTTTTTAATAATATAAAATATTTAAATATTTTAAAGATATGAACTTTCAAAT
124 AATATTAAATATA-TTTTTAATAATATAAAA-AATTAAATATTTTAAAGATATGAACTTTCAAAT
*
8144401 TTATTATTAGTTTTATAATATTTT
187 TTATTATTAGTTTTATAATATTTC
* *
8144425 AAATGTATATTTTAATTTGTTTTATA
1 AAATGTATATTTGAA-ATGTTTTATA
8144451 TATTTTTTTA
Statistics
Matches: 219, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
207 18 0.08
208 3 0.01
209 1 0.00
210 7 0.03
212 39 0.18
213 28 0.13
214 19 0.09
215 83 0.38
216 21 0.10
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (210 bp):
AAATGTATATTTGAAATGTTTTATAATATATATTTTAAATTTTAAATATATATTTCAGAAATTAT
TTTTCTAAATTTTAAATATTTTTAAATTATTTTTAAAAAATTTAAATATTATTTTTTAAATATTA
AATATATTTTTAATAATATAAAAAATTAAATATTTTAAAGATATGAACTTTCAAATTTATTATTA
GTTTTATAATATTTC
Found at i:8144504 original size:20 final size:20
Alignment explanation
Indices: 8144481--8144519 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
8144471 TTAAATAATT
8144481 TTAAAT-TATTATAAAATAAA
1 TTAAATATATTA-AAAATAAA
8144501 TTAAATAATATTAAAAATA
1 TTAAAT-ATATTAAAAATA
8144520 TTAAAAACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 6 0.35
22 5 0.29
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
TTAAATATATTAAAAATAAA
Found at i:8144508 original size:9 final size:10
Alignment explanation
Indices: 8144471--8144524 Score: 58
Period size: 9 Copynumber: 5.5 Consensus size: 10
8144461 ATTATGATTT
*
8144471 TTAAATAATT
1 TTAAATAATA
*
8144481 TTAAATTATTA
1 TTAAA-TAATA
*
8144492 TAAAATAA-A
1 TTAAATAATA
8144501 TTAAATAATA
1 TTAAATAATA
8144511 TTAAA-AATA
1 TTAAATAATA
8144520 TTAAA
1 TTAAA
8144525 AACTAATAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
9 17 0.46
10 13 0.35
11 7 0.19
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
TTAAATAATA
Found at i:8144617 original size:25 final size:24
Alignment explanation
Indices: 8144583--8144637 Score: 101
Period size: 25 Copynumber: 2.2 Consensus size: 24
8144573 TTATATTATT
8144583 AATAATATATATTTAATATTTAAAA
1 AATAATATATATTTAATATTT-AAA
8144608 AATAATATATATTTAATATTTAAA
1 AATAATATATATTTAATATTTAAA
8144632 AATAAT
1 AATAAT
8144638 TTCAAATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 9 0.30
25 21 0.70
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
AATAATATATATTTAATATTTAAA
Found at i:8144688 original size:23 final size:23
Alignment explanation
Indices: 8144662--8144706 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
8144652 TCAAAATTTT
*
8144662 TAAAATTAATAATAA-AAAATAAG
1 TAAAATAAATAA-AATAAAATAAG
8144685 TAAAATAAATAAAATAAAATAA
1 TAAAATAAATAAAATAAAATAA
8144707 AATAAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (23 bp):
TAAAATAAATAAAATAAAATAAG
Found at i:8144691 original size:9 final size:9
Alignment explanation
Indices: 8144677--8144712 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
8144667 TTAATAATAA
*
8144677 AAAATAAGT
1 AAAATAAAT
8144686 AAAATAAAT
1 AAAATAAAT
8144695 AAAATAAAAT
1 AAAAT-AAAT
8144705 AAAATAAA
1 AAAATAAA
8144713 AATAAAAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 16 0.64
10 9 0.36
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (9 bp):
AAAATAAAT
Found at i:8144699 original size:5 final size:5
Alignment explanation
Indices: 8144662--8144719 Score: 57
Period size: 5 Copynumber: 11.0 Consensus size: 5
8144652 TCAAAATTTT
8144662 TAAAA TTAATAA TAAAA -AATAA GTAAAA T-AAA TAAAA TAAAA TAAAA
1 TAAAA -TAA-AA TAAAA TAA-AA -TAAAA TAAAA TAAAA TAAAA TAAAA
8144709 TAAAAA TAAAA
1 T-AAAA TAAAA
8144720 ACAAAAACAA
Statistics
Matches: 46, Mismatches: 0, Indels: 13
0.78 0.00 0.22
Matches are distributed among these distances:
4 6 0.13
5 23 0.50
6 13 0.28
7 4 0.09
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (5 bp):
TAAAA
Found at i:8148801 original size:22 final size:22
Alignment explanation
Indices: 8148773--8148816 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
8148763 ATGCTGCAAA
*
8148773 ACCATGCAATTTTCAACAATTT
1 ACCATGCAATTGTCAACAATTT
8148795 ACCATGCAATTGTCAACAATTT
1 ACCATGCAATTGTCAACAATTT
8148817 CTACCATGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.34
Consensus pattern (22 bp):
ACCATGCAATTGTCAACAATTT
Found at i:8154319 original size:80 final size:80
Alignment explanation
Indices: 8154186--8154345 Score: 293
Period size: 80 Copynumber: 2.0 Consensus size: 80
8154176 ATAACAAGGA
* *
8154186 AATGGAAATCATGGTACTGATGAGCTCATCAATCATGGTATATATTATTGGTACATGGAAATTAT
1 AATGGAAATCATGGTACTGACGAGCTCATCAATCATAGTATATATTATTGGTACATGGAAATTAT
8154251 TGTACTAACTTGAAT
66 TGTACTAACTTGAAT
*
8154266 AATGGAAATCATGGTATTGACGAGCTCATCAATCATAGTATATATTATTGGTACATGGAAATTAT
1 AATGGAAATCATGGTACTGACGAGCTCATCAATCATAGTATATATTATTGGTACATGGAAATTAT
8154331 TGTACTAACTTGAAT
66 TGTACTAACTTGAAT
8154346 GTTGAGTTTG
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 77 1.00
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.35
Consensus pattern (80 bp):
AATGGAAATCATGGTACTGACGAGCTCATCAATCATAGTATATATTATTGGTACATGGAAATTAT
TGTACTAACTTGAAT
Found at i:8158089 original size:40 final size:41
Alignment explanation
Indices: 8157941--8158088 Score: 129
Period size: 40 Copynumber: 3.6 Consensus size: 41
8157931 CGGGCTTCGG
* *
8157941 GCCTAGCAGGCTATAATACCGGTGAAATG-ATATCGGGCTTCAA
1 GCCTAGCAGGCTA-AATGCCGGTG-AATGAAT-TCGGGCTTAAA
* * * * * *
8157984 GCTTAGCAGGCGAGATGCCGGTGAATGAGTTCAGACTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGCTTAAA
* *** *
8158025 GTCTAGCAGGCTTTGTGCCGGTG-ATGAATTCGGGTTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGCTTAAA
*
8158065 ACCTAGCAGGCTAAATGCCGGTGA
1 GCCTAGCAGGCTAAATGCCGGTGA
8158089 TTTGATAAAA
Statistics
Matches: 80, Mismatches: 23, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
40 31 0.39
41 29 0.36
42 9 0.11
43 11 0.14
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (41 bp):
GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGCTTAAA
Found at i:8171921 original size:39 final size:39
Alignment explanation
Indices: 8171869--8171955 Score: 122
Period size: 39 Copynumber: 2.2 Consensus size: 39
8171859 GACTTAATGT
* *
8171869 CTAGCAGGTCTCGTGCCGGTGATAAATTC-AGGTTTATAC
1 CTAGCAGGCCTCGTGCCGATGATAAATTCGA-GTTTATAC
* *
8171908 CTAGCAGGCCTCGTGCCGATGTTAAGTTCGAGTTTATAC
1 CTAGCAGGCCTCGTGCCGATGATAAATTCGAGTTTATAC
8171947 CTAGCAGGC
1 CTAGCAGGC
8171956 AAATTGCCGG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
39 42 0.98
40 1 0.02
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.29
Consensus pattern (39 bp):
CTAGCAGGCCTCGTGCCGATGATAAATTCGAGTTTATAC
Found at i:8180077 original size:39 final size:39
Alignment explanation
Indices: 8180027--8180113 Score: 138
Period size: 39 Copynumber: 2.2 Consensus size: 39
8180017 GACTTAATGT
*
8180027 CTAGCAGGCCTCGTGCCGGTGATAAATTCAGGTTTATAC
1 CTAGCAGGCCTCGTGCCAGTGATAAATTCAGGTTTATAC
* * *
8180066 CTAGCAGGCCTCGTGCCAGTGTTAAGTTCGGGTTTATAC
1 CTAGCAGGCCTCGTGCCAGTGATAAATTCAGGTTTATAC
8180105 CTAGCAGGC
1 CTAGCAGGC
8180114 AAATTGCCGG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.28
Consensus pattern (39 bp):
CTAGCAGGCCTCGTGCCAGTGATAAATTCAGGTTTATAC
Found at i:8182155 original size:35 final size:36
Alignment explanation
Indices: 8182111--8182277 Score: 196
Period size: 35 Copynumber: 4.6 Consensus size: 36
8182101 TCCTCATTGA
** *
8182111 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTATGGGAT
* **
8182146 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTATGG----GAT
*
8182186 AATACCATACCTACATTTCACAGCTCAGTAT-GGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGGAT
8182221 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGGAT
* *
8182256 GATACCACACCTACATTTCACA
1 AATACCATACCTACATTTCACA
8182278 CTTTGCCATG
Statistics
Matches: 116, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
35 86 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (36 bp):
AATACCATACCTACATTTCACAACTCAGTATGGGAT
Found at i:8182194 original size:75 final size:74
Alignment explanation
Indices: 8182107--8182277 Score: 217
Period size: 75 Copynumber: 2.4 Consensus size: 74
8182097 GTTTTCCTCA
** * * **
8182107 TTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAACT
1 TTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAACT
8182171 CAGTATGGAT
65 CAGTATGGAT
*
8182181 TTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAACT
1 TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
8182246 CAGTATGGA-
65 CAGTATGGAT
*
8182255 -TG--ATACCACACCTACATTTCACA
1 TTGAAATACCATACCTACATTTCACA
8182278 CTTTGCCATG
Statistics
Matches: 87, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
70 20 0.23
73 2 0.02
74 7 0.08
75 58 0.67
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.31
Consensus pattern (74 bp):
TTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACTC
AGTATGGAT
Found at i:8185969 original size:35 final size:35
Alignment explanation
Indices: 8185827--8185957 Score: 140
Period size: 35 Copynumber: 3.6 Consensus size: 35
8185817 CCTCATTGAA
* *
8185827 ATACCATACCTACATTTTACAACTC-GATATGGGA-A
1 ATACCATACCTACATTTCACAACTCAG-TAT-GGATG
* **
8185862 ATGCCATACCTACATTTCTTAACTCAGTATGGATTTG
1 ATACCATACCTACATTTCACAACTCAGTATGGA--TG
8185899 ATAATACCATACCTACATTTCACAACTCAGTATGGATG
1 ---ATACCATACCTACATTTCACAACTCAGTATGGATG
8185937 ATACCATACCTACATTTCACA
1 ATACCATACCTACATTTCACA
8185958 CTTTTTTATG
Statistics
Matches: 81, Mismatches: 8, Indels: 14
0.79 0.08 0.14
Matches are distributed among these distances:
34 3 0.04
35 45 0.56
36 1 0.01
38 2 0.02
40 30 0.37
ACGTcount: A:0.34, C:0.24, G:0.10, T:0.31
Consensus pattern (35 bp):
ATACCATACCTACATTTCACAACTCAGTATGGATG
Found at i:8195701 original size:12 final size:13
Alignment explanation
Indices: 8195684--8195712 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
8195674 AAAAAGATAG
8195684 TAAATAAAT-AAA
1 TAAATAAATAAAA
8195696 TAAATAAATAAAA
1 TAAATAAATAAAA
8195709 TAAA
1 TAAA
8195713 CGAAACTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAATAAATAAAA
Found at i:8198853 original size:74 final size:74
Alignment explanation
Indices: 8198729--8198876 Score: 269
Period size: 74 Copynumber: 2.0 Consensus size: 74
8198719 AATTATCAAC
* * *
8198729 ATAAATAAGATAAATTTTGTCCAAATTTTAGCTATACCTCAAATTGCAACTATCGTTGTAGCTAG
1 ATAAATAACATAAATTTTGTCCAAATTTTAGCTATAACTCAAATTACAACTATCGTTGTAGCTAG
8198794 AAATCAAAT
66 AAATCAAAT
8198803 ATAAATAACATAAATTTTGTCCAAATTTTAGCTATAACTCAAATTACAACTATCGTTGTAGCTAG
1 ATAAATAACATAAATTTTGTCCAAATTTTAGCTATAACTCAAATTACAACTATCGTTGTAGCTAG
8198868 AAATCAAAT
66 AAATCAAAT
8198877 TTTGGTTCTA
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 71 1.00
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.34
Consensus pattern (74 bp):
ATAAATAACATAAATTTTGTCCAAATTTTAGCTATAACTCAAATTACAACTATCGTTGTAGCTAG
AAATCAAAT
Found at i:8212455 original size:19 final size:19
Alignment explanation
Indices: 8212407--8212459 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
8212397 AGATAGGGGC
* *
8212407 ACATGCCCGTGTGGCTTGGG
1 ACATGCCCGTGT-GCCTGGA
*
8212427 ACACGCCCGTGTGCCTGGA
1 ACATGCCCGTGTGCCTGGA
8212446 ACATGCCCGTGTGC
1 ACATGCCCGTGTGC
8212460 TGCAACTGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 18 0.62
20 11 0.38
ACGTcount: A:0.13, C:0.32, G:0.34, T:0.21
Consensus pattern (19 bp):
ACATGCCCGTGTGCCTGGA
Found at i:8213354 original size:53 final size:52
Alignment explanation
Indices: 8213273--8213432 Score: 169
Period size: 52 Copynumber: 3.1 Consensus size: 52
8213263 CGGATCACAT
* * ** * * **
8213273 ATCATACCGATGCCATATCTCATATATGGTCTTATACAGAATTACGTTATCAC
1 ATCATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCAC-AAATCAC
*
8213326 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGGAA-CACAAATCAC
1 ATCATACCGATGCCATAGCCCAGCTATGGTCTTATAC-GGAATCACAAATCAC
* * * * *
8213378 ATTATACCGGTGCCATAGCCCGGCTATGGTCTTATACGGAATCATATATCAC
1 ATCATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACAAATCAC
8213430 ATC
1 ATC
8213433 TTTTCCGTCA
Statistics
Matches: 89, Mismatches: 16, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
51 4 0.04
52 48 0.54
53 34 0.38
54 3 0.03
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.28
Consensus pattern (52 bp):
ATCATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACAAATCAC
Found at i:8213429 original size:52 final size:52
Alignment explanation
Indices: 8213229--8213432 Score: 163
Period size: 52 Copynumber: 4.0 Consensus size: 52
8213219 TCACACATCA
* ** * * *
8213229 CACACCGAAGCCATAGCCTTGCCATGGTCTTACACGG-ATCACATAT--CAT
1 CACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCATATATCACAT
* * ** * *
8213278 ---ACCGATGCCATATCTCATATATGGTCTTATACAGAATTACGT-TATCACAT
1 CACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAA-T-CATATATCACAT
* *
8213328 CACACCGATGCCATAGCCCAGCTATGGTCTTATACGGGAA-CACAAATCACAT
1 CACACCGATGCCATAGCCCAGCTATGGTCTTATAC-GGAATCATATATCACAT
* * * *
8213380 TATACCGGTGCCATAGCCCGGCTATGGTCTTATACGGAATCATATATCACAT
1 CACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCATATATCACAT
8213432 C
1 C
8213433 TTTTCCGTCA
Statistics
Matches: 117, Mismatches: 27, Indels: 19
0.72 0.17 0.12
Matches are distributed among these distances:
46 24 0.21
47 1 0.01
48 4 0.03
49 1 0.01
50 3 0.03
51 5 0.04
52 48 0.41
53 28 0.24
54 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (52 bp):
CACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCATATATCACAT
Found at i:8221244 original size:17 final size:17
Alignment explanation
Indices: 8221218--8221250 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8221208 CTTTGTTTGA
*
8221218 AAACCTAAAGAAGAATC
1 AAACCAAAAGAAGAATC
8221235 AAACCAAAAGAAGAAT
1 AAACCAAAAGAAGAAT
8221251 ATACAATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.64, C:0.15, G:0.12, T:0.09
Consensus pattern (17 bp):
AAACCAAAAGAAGAATC
Found at i:8226121 original size:10 final size:11
Alignment explanation
Indices: 8226108--8226175 Score: 52
Period size: 10 Copynumber: 6.5 Consensus size: 11
8226098 TTTTCTATGC
8226108 TTTTT-TAAAA
1 TTTTTCTAAAA
* *
8226118 TTTTT-TATAT
1 TTTTTCTAAAA
8226128 TTTTTCTAAAA
1 TTTTTCTAAAA
* * * *
8226139 ATTGTATAATA
1 TTTTTCTAAAA
*
8226150 TTTTTCT-ATA
1 TTTTTCTAAAA
8226160 TTTTTCTAAAA
1 TTTTTCTAAAA
8226171 TTTTT
1 TTTTT
8226176 ATAACATTTA
Statistics
Matches: 44, Mismatches: 12, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
10 23 0.52
11 21 0.48
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.63
Consensus pattern (11 bp):
TTTTTCTAAAA
Found at i:8226164 original size:32 final size:32
Alignment explanation
Indices: 8226117--8226184 Score: 93
Period size: 32 Copynumber: 2.1 Consensus size: 32
8226107 CTTTTTTAAA
*
8226117 ATTTTTTATATTTTTTCTAAAAATTGTATAAT
1 ATTTTTTATATTTTTTCTAAAAATTGTATAAC
* *
8226149 ATTTTTCTATA-TTTTTCTAAAATTTTTATAAC
1 ATTTTT-TATATTTTTTCTAAAAATTGTATAAC
8226181 ATTT
1 ATTT
8226185 AAAAATTTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
32 28 0.88
33 4 0.12
ACGTcount: A:0.32, C:0.06, G:0.01, T:0.60
Consensus pattern (32 bp):
ATTTTTTATATTTTTTCTAAAAATTGTATAAC
Found at i:8226233 original size:38 final size:37
Alignment explanation
Indices: 8226151--8226246 Score: 104
Period size: 39 Copynumber: 2.5 Consensus size: 37
8226141 TGTATAATAT
* *
8226151 TTTTCTATATTTTTCTAAAATTTTTATAACATTTAAAAA
1 TTTTCTATATTTTT-T-ATATTTTAATAACATTTAAAAA
*
8226190 TTTTCTATATTTTTTATATTTTAAATAACTATTTATAAA
1 TTTTCTATATTTTTTATATTTT-AATAAC-ATTTAAAAA
8226229 -TTTCTAATAATTTTTTAT
1 TTTTCT-AT-ATTTTTTAT
8226247 GAATTTTTTA
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
37 6 0.12
38 11 0.22
39 24 0.48
40 9 0.18
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (37 bp):
TTTTCTATATTTTTTATATTTTAATAACATTTAAAAA
Found at i:8226237 original size:21 final size:21
Alignment explanation
Indices: 8226213--8226252 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
8226203 TTATATTTTA
8226213 AATAACTATTTATAAATTTCT
1 AATAACTATTTATAAATTTCT
* * *
8226234 AATAATTTTTTATGAATTT
1 AATAACTATTTATAAATTT
8226253 TTTAATTTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.53
Consensus pattern (21 bp):
AATAACTATTTATAAATTTCT
Found at i:8233993 original size:75 final size:73
Alignment explanation
Indices: 8233901--8234082 Score: 213
Period size: 75 Copynumber: 2.4 Consensus size: 73
8233891 GCACACAATC
* *
8233901 GTCGGTTTATCCGACTAGCGCTGGACGCAAATACCGTTGGTTCATCCAACTAGAGCT-GGACTCA
1 GTCGG-TTATCCGACTAGTGCTGG-CGCAAACACCGTTGGTTCATCCAACTAGAGCTAGG-CTCA
*
8233965 CATTTAATATG
63 CATTCAATATG
* ** *
8233976 GTCGGTATATCCGACTAGTGCTGGGCGTAAACATTGTTGGTTTATCCAACTAGAGCTAGGCTCAC
1 GTCGGT-TATCCGACTAGTGCT-GGCGCAAACACCGTTGGTTCATCCAACTAGAGCTAGGCTCAC
*
8234041 ATTCAATATT
64 ATTCAATATG
*
8234051 GTCGGTTAACTCGACTAGTGCTAGGCGCAAAC
1 GTCGGTTATC-CGACTAGTGCT-GGCGCAAAC
8234083 TCCTCTAGGT
Statistics
Matches: 92, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
74 4 0.04
75 84 0.91
76 4 0.04
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.29
Consensus pattern (73 bp):
GTCGGTTATCCGACTAGTGCTGGCGCAAACACCGTTGGTTCATCCAACTAGAGCTAGGCTCACAT
TCAATATG
Found at i:8234785 original size:22 final size:22
Alignment explanation
Indices: 8234757--8234809 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
8234747 TAATACCAAA
8234757 CCCCATACCCCCACTACAACAG
1 CCCCATACCCCCACTACAACAG
*
8234779 CCCCATACCTCCACTACAACAG
1 CCCCATACCCCCACTACAACAG
*
8234801 TCCCATACC
1 CCCCATACC
8234810 GTCTGACACC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.30, C:0.53, G:0.04, T:0.13
Consensus pattern (22 bp):
CCCCATACCCCCACTACAACAG
Found at i:8235119 original size:26 final size:25
Alignment explanation
Indices: 8235085--8235138 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 25
8235075 TCTTGGTTCT
*
8235085 TTTTTTATTTT-TATTTAGTTTTTTTC
1 TTTTGTATTTTCT-TTTA-TTTTTTTC
8235111 TTTTGTATTTTCTTTTATTTTTTTC
1 TTTTGTATTTTCTTTTATTTTTTTC
8235136 TTT
1 TTT
8235139 CTCTTCGCGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 11 0.42
26 14 0.54
27 1 0.04
ACGTcount: A:0.09, C:0.06, G:0.04, T:0.81
Consensus pattern (25 bp):
TTTTGTATTTTCTTTTATTTTTTTC
Found at i:8235133 original size:12 final size:13
Alignment explanation
Indices: 8235081--8235138 Score: 50
Period size: 13 Copynumber: 4.5 Consensus size: 13
8235071 GTGTTCTTGG
8235081 TTCTTTT-TTTATT
1 TTCTTTTATTT-TT
8235094 TT-TATTTAGTTTTT
1 TTCT-TTTA-TTTTT
* *
8235108 TTCTTTT-GTATT
1 TTCTTTTATTTTT
8235120 TTCTTTTATTTTT
1 TTCTTTTATTTTT
8235133 TTCTTT
1 TTCTTT
8235139 CTCTTCGCGA
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
12 11 0.31
13 14 0.39
14 7 0.19
15 4 0.11
ACGTcount: A:0.09, C:0.07, G:0.03, T:0.81
Consensus pattern (13 bp):
TTCTTTTATTTTT
Found at i:8235134 original size:20 final size:19
Alignment explanation
Indices: 8235081--8235126 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
8235071 GTGTTCTTGG
8235081 TTCTTTTTTTATTTTTATT
1 TTCTTTTTTTATTTTTATT
** *
8235100 TAGTTTTTTTCTTTTGTATT
1 TTCTTTTTTTATTTT-TATT
8235120 TTCTTTT
1 TTCTTTT
8235127 ATTTTTTTCT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.09, C:0.07, G:0.04, T:0.80
Consensus pattern (19 bp):
TTCTTTTTTTATTTTTATT
Found at i:8236821 original size:25 final size:25
Alignment explanation
Indices: 8236788--8236856 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
8236778 GTGTCAACAG
8236788 ATAT-GATAGGAAAATTTTATGAAA
1 ATATCGATAGGAAAATTTTATGAAA
8236812 ATATCGATAGGAAAATTTTATGAAA
1 ATATCGATAGGAAAATTTTATGAAA
*
8236837 ATATCGATAGAAAAATTTTA
1 ATATCGATAGGAAAATTTTA
8236857 CCGATTTAGT
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
24 4 0.09
25 39 0.91
ACGTcount: A:0.49, C:0.03, G:0.14, T:0.33
Consensus pattern (25 bp):
ATATCGATAGGAAAATTTTATGAAA
Found at i:8238044 original size:26 final size:26
Alignment explanation
Indices: 8238008--8238062 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
8237998 GGCTTAAATT
8238008 TATATTTTTAGAATCCTGAATGAGTC
1 TATATTTTTAGAATCCTGAATGAGTC
8238034 TATATTTTTAGAATCCTGAATGAGTC
1 TATATTTTTAGAATCCTGAATGAGTC
8238060 TAT
1 TAT
8238063 CTTCAATAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.44
Consensus pattern (26 bp):
TATATTTTTAGAATCCTGAATGAGTC
Found at i:8242169 original size:26 final size:25
Alignment explanation
Indices: 8242140--8242206 Score: 80
Period size: 26 Copynumber: 2.6 Consensus size: 25
8242130 ATATGAAAAC
*
8242140 TTAAAATAAATAATATATATAATGAT
1 TTAAAATAAATAATATATAAAAT-AT
* *
8242166 TTAACATAAATAATGTATAAAATAT
1 TTAAAATAAATAATATATAAAATAT
* *
8242191 TTAGAATAAATGATAT
1 TTAAAATAAATAATAT
8242207 GAAAAGAGAA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
25 14 0.41
26 20 0.59
ACGTcount: A:0.55, C:0.01, G:0.06, T:0.37
Consensus pattern (25 bp):
TTAAAATAAATAATATATAAAATAT
Found at i:8255961 original size:24 final size:24
Alignment explanation
Indices: 8255903--8256010 Score: 83
Period size: 24 Copynumber: 4.5 Consensus size: 24
8255893 ATACATGTAT
* * * *
8255903 GCTCTTGCAAGCCATAATCGGTAT
1 GCTCTTACGAGCCATAATCGATAA
8255927 GCTCTTACGAGCCATAATCGATAA
1 GCTCTTACGAGCCATAATCGATAA
* * *
8255951 GCTCTTTCGAG-CAAAATACGGTAA
1 GCTCTTACGAGCCATAAT-CGATAA
* * * *
8255975 GCTCATACGAGCTAAGAATCGGTAA
1 GCTCTTACGAGC-CATAATCGATAA
*
8256000 GCTCATACGAG
1 GCTCTTACGAG
8256011 TTATGGTGAG
Statistics
Matches: 70, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
23 5 0.07
24 44 0.63
25 17 0.24
26 4 0.06
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.24
Consensus pattern (24 bp):
GCTCTTACGAGCCATAATCGATAA
Found at i:8256002 original size:25 final size:23
Alignment explanation
Indices: 8255918--8256010 Score: 96
Period size: 24 Copynumber: 3.9 Consensus size: 23
8255908 TGCAAGCCAT
* * *
8255918 AATCGGTATGCTCTTACGAGCCAT
1 AATCGGTAAGCTCATACGAG-CAA
* * *
8255942 AATCGATAAGCTCTTTCGAGCAA
1 AATCGGTAAGCTCATACGAGCAA
8255965 AATACGGTAAGCTCATACGAGCTAA
1 AAT-CGGTAAGCTCATACGAGC-AA
8255990 GAATCGGTAAGCTCATACGAG
1 -AATCGGTAAGCTCATACGAG
8256011 TTATGGTGAG
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
23 5 0.08
24 32 0.54
25 19 0.32
26 3 0.05
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.24
Consensus pattern (23 bp):
AATCGGTAAGCTCATACGAGCAA
Found at i:8259269 original size:14 final size:14
Alignment explanation
Indices: 8259250--8259276 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8259240 TAGTACCTTA
8259250 TGAAACATATTTCG
1 TGAAACATATTTCG
8259264 TGAAACATATTTC
1 TGAAACATATTTC
8259277 ATAATGCAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (14 bp):
TGAAACATATTTCG
Found at i:8261457 original size:5 final size:5
Alignment explanation
Indices: 8261449--8261474 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
8261439 GAGTTATTTT
8261449 TTTAA TTTAA TTTAA TTTAA TTTAA T
1 TTTAA TTTAA TTTAA TTTAA TTTAA T
8261475 GTATTATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TTTAA
Found at i:8271086 original size:26 final size:27
Alignment explanation
Indices: 8270994--8271100 Score: 98
Period size: 26 Copynumber: 4.1 Consensus size: 27
8270984 ACAATATAAC
*
8270994 TAAATAACATAT-AAAA-A-TTCAAAA
1 TAAATAACATATAAAAATAGTTTAAAA
* *
8271018 TAAATAATATATATCAAATAGTTTAAAA
1 TAAATAACATATA-AAAATAGTTTAAAA
8271046 TAAATAACATATAAAAATA-TTTAAAA
1 TAAATAACATATAAAAATAGTTTAAAA
* * * **
8271072 TGAATAATATGT-AAAACGGTTTAAAA
1 TAAATAACATATAAAAATAGTTTAAAA
8271098 TAA
1 TAA
8271101 CTAATGCAAA
Statistics
Matches: 67, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
24 11 0.16
25 4 0.06
26 28 0.42
27 6 0.09
28 18 0.27
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.31
Consensus pattern (27 bp):
TAAATAACATATAAAAATAGTTTAAAA
Found at i:8271094 original size:52 final size:51
Alignment explanation
Indices: 8270994--8271100 Score: 135
Period size: 52 Copynumber: 2.1 Consensus size: 51
8270984 ACAATATAAC
*
8270994 TAAATAACATATAAAAATTCAAAATAAATAATATATATCAAATAGTTTAAAA
1 TAAATAACATATAAAAATTCAAAATAAATAATATATA-CAAACAGTTTAAAA
* * * *
8271046 TAAATAACATATAAAAATATTTAAAATGAATAATATGTA-AAACGGTTTAAAA
1 TAAATAACATAT-AAAA-ATTCAAAATAAATAATATATACAAACAGTTTAAAA
8271098 TAA
1 TAA
8271101 CTAATGCAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
52 26 0.54
53 4 0.08
54 18 0.38
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.31
Consensus pattern (51 bp):
TAAATAACATATAAAAATTCAAAATAAATAATATATACAAACAGTTTAAAA
Found at i:8271122 original size:23 final size:23
Alignment explanation
Indices: 8271092--8271146 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
8271082 GTAAAACGGT
* *
8271092 TTAAAATAACTAATGCAAAA-GAC
1 TTAAAATAA-AAATACAAAATGAC
*
8271115 TTAAAATAAAAATATAAAATGAC
1 TTAAAATAAAAATACAAAATGAC
8271138 TTAAAATAA
1 TTAAAATAA
8271147 TATACAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 7 0.25
23 21 0.75
ACGTcount: A:0.62, C:0.07, G:0.05, T:0.25
Consensus pattern (23 bp):
TTAAAATAAAAATACAAAATGAC
Found at i:8271235 original size:45 final size:42
Alignment explanation
Indices: 8271152--8271244 Score: 105
Period size: 43 Copynumber: 2.1 Consensus size: 42
8271142 AATAATATAC
* * * *
8271152 AATAAAACATTTTGAAATGAATACTATAAAAAATTTAAAGTA
1 AATAAAACATTTTAAAATAAATAATATAAAAAATTTAAAATA
* *
8271194 AATAAAATAGTTTTAAAATAAATAATATATAAAAATATTAAAATG
1 AATAAAACA-TTTTAAAATAAATAATATA-AAAAAT-TTAAAATA
8271239 AATAAA
1 AATAAA
8271245 TAAACAACAA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 8 0.19
43 16 0.38
44 6 0.14
45 12 0.29
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.31
Consensus pattern (42 bp):
AATAAAACATTTTAAAATAAATAATATAAAAAATTTAAAATA
Found at i:8275821 original size:10 final size:10
Alignment explanation
Indices: 8275808--8275851 Score: 52
Period size: 10 Copynumber: 4.2 Consensus size: 10
8275798 ATCAAAATAA
8275808 AAAAAGAAAT
1 AAAAAGAAAT
8275818 AAAAAGAAAT
1 AAAAAGAAAT
*
8275828 AATCAAAAAAAT
1 AA--AAAGAAAT
*
8275840 AAGAAGAAAT
1 AAAAAGAAAT
8275850 AA
1 AA
8275852 TCAATCAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
10 20 0.69
12 9 0.31
ACGTcount: A:0.77, C:0.02, G:0.09, T:0.11
Consensus pattern (10 bp):
AAAAAGAAAT
Found at i:8275828 original size:22 final size:22
Alignment explanation
Indices: 8275802--8275852 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
8275792 AAAAAAATCA
8275802 AAATAA-AAAAAGAAATAAAAAG
1 AAATAATAAAAA-AAATAAAAAG
* *
8275824 AAATAATCAAAAAAATAAGAAG
1 AAATAATAAAAAAAATAAAAAG
8275846 AAATAAT
1 AAATAAT
8275853 CAATCAAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 22 0.85
23 4 0.15
ACGTcount: A:0.76, C:0.02, G:0.08, T:0.14
Consensus pattern (22 bp):
AAATAATAAAAAAAATAAAAAG
Found at i:8275853 original size:22 final size:23
Alignment explanation
Indices: 8275809--8275855 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 23
8275799 TCAAAATAAA
8275809 AAAAGAAATAAAAAGAAATAATC
1 AAAAGAAATAAAAAGAAATAATC
*
8275832 AAAA-AAATAAGAAGAAATAATC
1 AAAAGAAATAAAAAGAAATAATC
8275854 AA
1 AA
8275856 TCAAAGAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.74, C:0.04, G:0.09, T:0.13
Consensus pattern (23 bp):
AAAAGAAATAAAAAGAAATAATC
Found at i:8277153 original size:64 final size:64
Alignment explanation
Indices: 8276962--8277153 Score: 278
Period size: 64 Copynumber: 3.0 Consensus size: 64
8276952 TCATTTATAA
* *
8276962 CACATCTAGTTAGGAGCAGTTGATTCATTTCGATCATAGCATCCTAATTATTTGACA-ACAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGACCATAGCATCCTAATTATTTGACATA-AGCAT
* *
8277026 CACATCTAGTTAGGAGCATTTGATTCATTTCGACCTTAGCATCCTAATTATTTGACATTAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGACCATAGCATCCTAATTATTTGACATAAGCAT
* * * * * *
8277090 CACATCTAGTTAGGAGTATTTGAGTCATTTTGAGCATAACATCCTAATTATTTGGCATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGACCATAGCATCCTAATTATTTGACATAAGCAT
8277154 GATACATGAA
Statistics
Matches: 115, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
64 115 1.00
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATTTGATTCATTTCGACCATAGCATCCTAATTATTTGACATAAGCAT
Found at i:8277599 original size:44 final size:46
Alignment explanation
Indices: 8277536--8277631 Score: 128
Period size: 44 Copynumber: 2.2 Consensus size: 46
8277526 GCCCTAAAGC
** *
8277536 CTTAT-TTCTCTGAGGTAGCAA-GAGAGCAGGTTGAAGATTGAAG-T
1 CTTATCTTCTCTGAGGTAGCAAGGA-AGCAGACTGAAGACTGAAGAT
8277580 CTTATCTTC-CTGAGGTAGCAAGGAAGCAGACTGAAGACTGAAGAT
1 CTTATCTTCTCTGAGGTAGCAAGGAAGCAGACTGAAGACTGAAGAT
8277625 CTTATCT
1 CTTATCT
8277632 CCTTAAACAG
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
44 33 0.72
45 13 0.28
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (46 bp):
CTTATCTTCTCTGAGGTAGCAAGGAAGCAGACTGAAGACTGAAGAT
Found at i:8277786 original size:175 final size:176
Alignment explanation
Indices: 8277488--8277975 Score: 719
Period size: 175 Copynumber: 2.8 Consensus size: 176
8277478 ATTGAAGGCA
* * *
8277488 AATCTTATCTCCATGTATCGGCAATGGAGAAGATTTAAGCC-CTAAAGCCTTATTTCTCTGAGGT
1 AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTA-CCACT--AGCCTTATCTCTCTGAGGT
*
8277552 AGCAAGAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGA
63 AGCAAGAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAA
* * *
8277617 CTGAAGATCTTATCTCCTTAAACAGTAGCGGAACATATCAAAGATGGCG
128 TTGAAGATCTTATATCCTTAAACAGTAGCGGAACAGATCAAAGATGGCG
*
8277666 AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTACCACTAGCCTTATCTCTTTGAGGTAGC
1 AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTACCACTAGCCTTATCTCTCTGAGGTAGC
* ** *
8277731 AAGAAAGCAGGTTGAAGAACG-AGTCTTATCTTCCTGAGGTAACAAGGAAGCAGACTGAAAATTG
66 AAGAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTG
* * * * * *
8277795 AAGATTTTATATCTTTAAACAGTAGGGGAGCAGATCGAAGATGGTG
131 AAGATCTTATATCCTTAAACAGTAGCGGAACAGATCAAAGATGGCG
* * * *
8277841 AATCTTATCTCCATATATCGGCAATGGAGCTGATTTTACCACCAACCTTATCTCTCTGAGGTAGC
1 AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTACCACTAGCCTTATCTCTCTGAGGTAGC
* *
8277906 AAGAGAGCAGGTTGAAGATTGAAGTCTTACCTTCCTAAGGTAGCAAGGAAGCAGACTGAAAATTG
66 AAGAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTG
8277971 AAGAT
131 AAGAT
8277976 TGTAAAAGGC
Statistics
Matches: 279, Mismatches: 29, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
175 156 0.56
176 83 0.30
177 2 0.01
178 38 0.14
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.27
Consensus pattern (176 bp):
AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTACCACTAGCCTTATCTCTCTGAGGTAGC
AAGAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTG
AAGATCTTATATCCTTAAACAGTAGCGGAACAGATCAAAGATGGCG
Found at i:8278107 original size:147 final size:147
Alignment explanation
Indices: 8277841--8278267 Score: 621
Period size: 147 Copynumber: 2.9 Consensus size: 147
8277831 GAAGATGGTG
* *
8277841 AATCTTATCTCCATATATCGGCAATGGAGCTGATTTTA-CCACCAA-CCTTATCTCTCTGAGGTA
1 AATCTTATCTCCATATATCGGCAATGGAGCAGATTTAAGCC-CCAAGCCTTATCTCTCTGAGGTA
** * *
8277904 GCAAGAGAGCAGGTTGAAGATTGAAGTCTTACCTTCCTAAGGTAGCAAGGAAGCAGACTGAAAAT
65 GCAAGAGAGCAGGTTGAAGATTGAAGTCTTATTTTCCTGAGGTAGCAAGGAAGCAGACTGAAGAT
*
8277969 TGAAGATTGTAAA-AGGCA
130 TGAAGA-TGGAAAGAGGCA
8277987 AATCTTATCTCCATATATCGGCAATGGAGCAGATTTAAGCCCCAAGCCTTATCTCTCTGAGGTAG
1 AATCTTATCTCCATATATCGGCAATGGAGCAGATTTAAGCCCCAAGCCTTATCTCTCTGAGGTAG
* * *
8278052 CAAGAAAACAGGTTGAAAATTGAAGTCTTATTTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATT
66 CAAGAGAGCAGGTTGAAGATTGAAGTCTTATTTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATT
*
8278117 GAAGATGGAAAGAGGCG
131 GAAGATGGAAAGAGGCA
* * * *
8278134 AATCTTATCTCCATATACCGACAATGGAGCAGGTTTAAGCCTCAAGGCCTTATCTCTCTGAGGTA
1 AATCTTATCTCCATATATCGGCAATGGAGCAGATTTAAGCCCCAA-GCCTTATCTCTCTGAGGTA
* * *
8278199 GCAAGAGAGTAGGTTGAAGATTG-AGTCTTATCTTT-CTGAGGTAGTAAGAAAGCAGACTGAAGA
65 GCAAGAGAGCAGGTTGAAGATTGAAGTCTTAT-TTTCCTGAGGTAGCAAGGAAGCAGACTGAAGA
8278262 TTGAAG
129 TTGAAG
8278268 GTCATATCTC
Statistics
Matches: 255, Mismatches: 21, Indels: 9
0.89 0.07 0.03
Matches are distributed among these distances:
146 45 0.18
147 169 0.66
148 41 0.16
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (147 bp):
AATCTTATCTCCATATATCGGCAATGGAGCAGATTTAAGCCCCAAGCCTTATCTCTCTGAGGTAG
CAAGAGAGCAGGTTGAAGATTGAAGTCTTATTTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATT
GAAGATGGAAAGAGGCA
Found at i:8278237 original size:43 final size:43
Alignment explanation
Indices: 8278182--8278265 Score: 114
Period size: 43 Copynumber: 2.0 Consensus size: 43
8278172 GCCTCAAGGC
* * **
8278182 CTTATCTCTCTGAGGTAGCAAGAGAGTAGGTTGAAGATTGAGT
1 CTTATCTCTCTGAGGTAGCAAGAAAGCAGACTGAAGATTGAGT
* *
8278225 CTTATCTTTCTGAGGTAGTAAGAAAGCAGACTGAAGATTGA
1 CTTATCTCTCTGAGGTAGCAAGAAAGCAGACTGAAGATTGA
8278266 AGGTCATATC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.30
Consensus pattern (43 bp):
CTTATCTCTCTGAGGTAGCAAGAAAGCAGACTGAAGATTGAGT
Found at i:8278431 original size:177 final size:175
Alignment explanation
Indices: 8278126--8278533 Score: 489
Period size: 177 Copynumber: 2.3 Consensus size: 175
8278116 TGAAGATGGA
* * * *
8278126 AAGA-GGCGAATCTTATCTCCATATACCGACAATGGAGCAGGTTTAAGCCTCAAGGCCTTATCTC
1 AAGATGGCGAATCTTATCTCCATGTACCG-CAATGGAGCAGATTTAAGCCACTA-GCCTTATCTC
* * *
8278190 TCTGAGGTAGCAAGAGAGTAGGTTGAAGATTGAGTCTTATCTTTCTGAGGTAGTAAGAAAGCAGA
64 TCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAGTCTTATCTTCCTGAGGTAGCAAGAAAGCAGA
** * *
8278255 CTGAAGATTGAAGGTCATATCTCCCT-AAGCAGTAGTGGAGCAGATCG
129 CTGAAGATTGAAAATC-TATCTCCCTAAAGCAGTAGCGGAGCAAATCG
* *
8278302 AAGATGGCAAATCTTATCTCCATGTACCAGCAATGGAGCAGATTTTAGCCACTAGCCTTATCTCT
1 AAGATGGCGAATCTTATCTCCATGTACC-GCAATGGAGCAGATTTAAGCCACTAGCCTTATCTCT
** *
8278367 CTGAGGTAGCAAGAGAGCAGGTTGGCGATTTTG-GTCTTATCTTCCTGAGGTAGCAAGGAAGCAG
65 CTGAGGTAGCAAGAGAGCAGGTTGAAGA--TTGAGTCTTATCTTCCTGAGGTAGCAAGAAAGCAG
* * *
8278431 ACTGAAGATTGAAAATCTATTTCCCTAAAGCAGTTGCGGAGCAAATTG
128 ACTGAAGATTGAAAATCTATCTCCCTAAAGCAGTAGCGGAGCAAATCG
* * * * * * * *
8278479 AGGATGACGAATCTTGTCTCTATGTATCGGTAATAGAGCAGATTTAAGTCACTAG
1 AAGATGGCGAATCTTATCTCCATGTA-CCGCAATGGAGCAGATTTAAGCCACTAG
8278534 TCCTATTTCC
Statistics
Matches: 197, Mismatches: 29, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
176 48 0.24
177 144 0.73
178 5 0.03
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (175 bp):
AAGATGGCGAATCTTATCTCCATGTACCGCAATGGAGCAGATTTAAGCCACTAGCCTTATCTCTC
TGAGGTAGCAAGAGAGCAGGTTGAAGATTGAGTCTTATCTTCCTGAGGTAGCAAGAAAGCAGACT
GAAGATTGAAAATCTATCTCCCTAAAGCAGTAGCGGAGCAAATCG
Found at i:8284850 original size:21 final size:21
Alignment explanation
Indices: 8284825--8284893 Score: 56
Period size: 21 Copynumber: 3.3 Consensus size: 21
8284815 AACCCCATTT
8284825 TTATTTTATTTTACTTTATTA
1 TTATTTTATTTTACTTTATTA
*
8284846 TTA--TTATTTT--TATATTA
1 TTATTTTATTTTACTTTATTA
* *
8284863 TTTATTATTATTTTACTATTTTTT
1 -TTATT-TTATTTTACT-TTATTA
8284887 TTATTTT
1 TTATTTT
8284894 TTATTTTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 13
0.69 0.07 0.24
Matches are distributed among these distances:
17 6 0.16
18 3 0.08
19 7 0.19
21 10 0.27
22 2 0.05
23 6 0.16
24 3 0.08
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (21 bp):
TTATTTTATTTTACTTTATTA
Found at i:8284854 original size:24 final size:24
Alignment explanation
Indices: 8284828--8284874 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
8284818 CCCATTTTTA
*
8284828 TTTTATTTTACTTTATTATTATTAT
1 TTTTATATTA-TTTATTATTATTAT
8284853 TTTTATATTATTTATTATTATT
1 TTTTATATTATTTATTATTATT
8284875 TTACTATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (24 bp):
TTTTATATTATTTATTATTATTAT
Found at i:8284890 original size:27 final size:27
Alignment explanation
Indices: 8284821--8284905 Score: 90
Period size: 27 Copynumber: 3.3 Consensus size: 27
8284811 AAGCAACCCC
8284821 ATTTT-TATTTTATTTTACTTTATTATT
1 ATTTTATATTTTATTTTA-TTTATTATT
*
8284848 A--TTAT-TTTTATATTATTTATTATT
1 ATTTTATATTTTATTTTATTTATTATT
*
8284872 ATTTTACTATTTT-TTTTATTTTTTATT
1 ATTTTA-TATTTTATTTTATTTATTATT
*
8284899 TTTTTAT
1 ATTTTAT
8284906 TCTTATGCTT
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
24 10 0.20
25 11 0.22
26 5 0.10
27 19 0.39
28 4 0.08
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.75
Consensus pattern (27 bp):
ATTTTATATTTTATTTTATTTATTATT
Found at i:8284896 original size:59 final size:55
Alignment explanation
Indices: 8284833--8284943 Score: 123
Period size: 59 Copynumber: 1.9 Consensus size: 55
8284823 TTTTATTTTA
** * *
8284833 TTTTACTTTATTATTATTATTTTTATATTATTTATTATTATTTTACTATTTTTTTTATT
1 TTTTACTTTATTATTATTATGCTTATATT-TTAAAT-TTATTTTA--ATTTTTTTTATT
* * *
8284892 TTTTATTTTTTTATTCTTATGCTTATATTTTAAATTTATTTTAATTTTTTTT
1 TTTTACTTTATTATTATTATGCTTATATTTTAAATTTATTTTAATTTTTTTT
8284944 GCTATATCTA
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
55 9 0.20
57 8 0.18
58 4 0.09
59 24 0.53
ACGTcount: A:0.23, C:0.04, G:0.01, T:0.73
Consensus pattern (55 bp):
TTTTACTTTATTATTATTATGCTTATATTTTAAATTTATTTTAATTTTTTTTATT
Found at i:8286075 original size:23 final size:23
Alignment explanation
Indices: 8286045--8286089 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
8286035 TTATTGTTCA
*
8286045 AAAAAAAATAAAATCAAAAAATC
1 AAAAAAAATAAAATAAAAAAATC
*
8286068 AAAAAAAATATAATAAAAAAAT
1 AAAAAAAATAAAATAAAAAAAT
8286090 ATTGATTATA
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:0.80, C:0.04, G:0.00, T:0.16
Consensus pattern (23 bp):
AAAAAAAATAAAATAAAAAAATC
Found at i:8287797 original size:14 final size:14
Alignment explanation
Indices: 8287778--8287807 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
8287768 ATTGCGTTCA
*
8287778 TAGTTATATTAGAT
1 TAGTTAAATTAGAT
8287792 TAGTTAAATTAGAT
1 TAGTTAAATTAGAT
8287806 TA
1 TA
8287808 AAAACAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (14 bp):
TAGTTAAATTAGAT
Found at i:8287988 original size:14 final size:14
Alignment explanation
Indices: 8287969--8287998 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
8287959 ATTGCGTTCA
*
8287969 TAGTTATATTAGAT
1 TAGTTAAATTAGAT
8287983 TAGTTAAATTAGAT
1 TAGTTAAATTAGAT
8287997 TA
1 TA
8287999 AAAACAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (14 bp):
TAGTTAAATTAGAT
Found at i:8288004 original size:191 final size:191
Alignment explanation
Indices: 8287680--8288061 Score: 755
Period size: 191 Copynumber: 2.0 Consensus size: 191
8287670 ATCAGATTCA
8287680 AAATAATGGGTGAAGTCTAGGTGGATTCTTTCCTGGGTATTGTCTTTCTCATTGGTTGTCTTTGG
1 AAATAATGGGTGAAGTCTAGGTGGATTCTTTCCTGGGTATTGTCTTTCTCATTGGTTGTCTTTGG
8287745 TTATTTTTCCCATTTCATTCTTTATTGCGTTCATAGTTATATTAGATTAGTTAAATTAGATTAAA
66 TTATTTTTCCCATTTCATTCTTTATTGCGTTCATAGTTATATTAGATTAGTTAAATTAGATTAAA
8287810 AACAATCACTTCAATTTATCAGCTAAATAATAGAAAAACGGTAATTACTAGTACTTTTAGT
131 AACAATCACTTCAATTTATCAGCTAAATAATAGAAAAACGGTAATTACTAGTACTTTTAGT
8287871 AAATAATGGGTGAAGTCTAGGTGGATTCTTTCCTGGGTATTGTCTTTCTCATTGGTTGTCTTTGG
1 AAATAATGGGTGAAGTCTAGGTGGATTCTTTCCTGGGTATTGTCTTTCTCATTGGTTGTCTTTGG
*
8287936 TTATTTTTCCCATTTCGTTCTTTATTGCGTTCATAGTTATATTAGATTAGTTAAATTAGATTAAA
66 TTATTTTTCCCATTTCATTCTTTATTGCGTTCATAGTTATATTAGATTAGTTAAATTAGATTAAA
8288001 AACAATCACTTCAATTTATCAGCTAAATAATAGAAAAACGGTAATTACTAGTACTTTTAGT
131 AACAATCACTTCAATTTATCAGCTAAATAATAGAAAAACGGTAATTACTAGTACTTTTAGT
8288062 CCTCGTGGAT
Statistics
Matches: 190, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
191 190 1.00
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (191 bp):
AAATAATGGGTGAAGTCTAGGTGGATTCTTTCCTGGGTATTGTCTTTCTCATTGGTTGTCTTTGG
TTATTTTTCCCATTTCATTCTTTATTGCGTTCATAGTTATATTAGATTAGTTAAATTAGATTAAA
AACAATCACTTCAATTTATCAGCTAAATAATAGAAAAACGGTAATTACTAGTACTTTTAGT
Found at i:8289682 original size:27 final size:27
Alignment explanation
Indices: 8289639--8289702 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 27
8289629 TTTAATCGTA
8289639 TTTA-AATTATACCTATAA-CATTAAT
1 TTTATAATTATACCTATAAGCATTAAT
* *
8289664 TTTATAATTTTACTCTATAAGCATTTAT
1 TTTATAATTATAC-CTATAAGCATTAAT
8289692 TTTACTAATTA
1 TTTA-TAATTA
8289703 AAATTAACTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 4 0.12
26 7 0.22
27 6 0.19
28 10 0.31
29 5 0.16
ACGTcount: A:0.38, C:0.11, G:0.02, T:0.50
Consensus pattern (27 bp):
TTTATAATTATACCTATAAGCATTAAT
Found at i:8291088 original size:23 final size:22
Alignment explanation
Indices: 8291041--8291088 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
8291031 CAATTTAATC
8291041 CTAACTAAATTCACTTACTTTT
1 CTAACTAAATTCACTTACTTTT
*
8291063 CTAACTCAATTCATACTT-CTTTT
1 CTAACTAAATTC--ACTTACTTTT
8291086 CTA
1 CTA
8291089 CTTAATTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 11 0.48
23 8 0.35
24 4 0.17
ACGTcount: A:0.29, C:0.25, G:0.00, T:0.46
Consensus pattern (22 bp):
CTAACTAAATTCACTTACTTTT
Found at i:8293772 original size:21 final size:20
Alignment explanation
Indices: 8293740--8293778 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
8293730 AGCATTGAAT
*
8293740 TTGGTAATGATGATGAGGAG
1 TTGGTAATGATGAAGAGGAG
8293760 TTGGTATATGATGAAGAGG
1 TTGGTA-ATGATGAAGAGG
8293779 GTAATGATCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.31, C:0.00, G:0.38, T:0.31
Consensus pattern (20 bp):
TTGGTAATGATGAAGAGGAG
Found at i:8300918 original size:22 final size:22
Alignment explanation
Indices: 8300893--8300935 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
8300883 TAATTAAGAA
*
8300893 ACTTTAATTCATTCAATGTAAT
1 ACTTTAATTAATTCAATGTAAT
* *
8300915 ACTTTTATTAATTGAATGTAA
1 ACTTTAATTAATTCAATGTAA
8300936 AGGAGCTTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.37, C:0.09, G:0.07, T:0.47
Consensus pattern (22 bp):
ACTTTAATTAATTCAATGTAAT
Found at i:8303937 original size:131 final size:130
Alignment explanation
Indices: 8303727--8304115 Score: 562
Period size: 131 Copynumber: 3.0 Consensus size: 130
8303717 TAATTATTCA
* * * *
8303727 TTTAAAAATTCTTTAAAACGAAGGCAATACTCGATGTTTGGCAATCCGGGAATCGTGCCCTATCG
1 TTTAAAAATTCTTCAAAACGAAGGTAATACTCGATGTTTAGCAATCGGGGAATCGTGCCCTATCG
* ** * *
8303792 TGCTGGGTCGCGATTTCCCGTTTGTTCAAAACAATCGAATATTCCTCTGGAATTTCACTCATATC
66 TGCTGGGTTGCGATTTCCTATTTGTTCAAAATAATCGAATATTCCTTTGGAATTTCACTCATATC
** * *
8303857 TTTAAAAATTCTTCAAAACGAAGGTAATGTTCGATGTTCAGCAAGTCGGGGAATCGTGCCTTATC
1 TTTAAAAATTCTTCAAAACGAAGGTAATACTCGATGTTTAGCAA-TCGGGGAATCGTGCCCTATC
* * * *
8303922 GTGCTGGGTTGCGATTTCCTATTTATTCAAAATAATCGAATAGTCCTTTGGAATGTCACTCATGT
65 GTGCTGGGTTGCGATTTCCTATTTGTTCAAAATAATCGAATATTCCTTTGGAATTTCACTCATAT
8303987 C
130 C
* *
8303988 TTAAAAAACTCTTCAAAACGAAGGTAATACTCGATGTTTAGCAATTCGGGGAATCGTGCCCTATC
1 TTTAAAAATTCTTCAAAACGAAGGTAATACTCGATGTTTAGCAA-TCGGGGAATCGTGCCCTATC
* * *
8304053 GTGCTGGGTTGCGATTTCCTATTTGTTCGAAATAACCGAATATTCCTTTAGAATTTCACTCAT
65 GTGCTGGGTTGCGATTTCCTATTTGTTCAAAATAATCGAATATTCCTTTGGAATTTCACTCAT
8304116 GTTCTCTAAA
Statistics
Matches: 228, Mismatches: 30, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
130 38 0.17
131 190 0.83
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (130 bp):
TTTAAAAATTCTTCAAAACGAAGGTAATACTCGATGTTTAGCAATCGGGGAATCGTGCCCTATCG
TGCTGGGTTGCGATTTCCTATTTGTTCAAAATAATCGAATATTCCTTTGGAATTTCACTCATATC
Found at i:8314721 original size:45 final size:44
Alignment explanation
Indices: 8314632--8314726 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
8314622 TTACACCTCT
* *
8314632 ATTACATTCAACCAAACACAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACACAGATTTACTATTACACCTCTATTCC
** *
8314676 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACA-CAGATTTACTATTACACCTCTATTCC
8314721 ATTACA
1 ATTACA
8314727 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (44 bp):
ATTACATTCAACCAAACACAGATTTACTATTACACCTCTATTCC
Found at i:8314726 original size:16 final size:16
Alignment explanation
Indices: 8314705--8314737 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
8314695 TTGATTTGCT
*
8314705 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
8314721 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
8314737 A
1 A
8314738 ATCCAATACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.36, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:8314747 original size:21 final size:21
Alignment explanation
Indices: 8314718--8314760 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
8314708 ACACCTCTAT
*
8314718 TCCATTACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
8314739 TCCAATACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
8314760 T
1 T
8314761 ACAGCGAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (21 bp):
TCCAATACACCTCTAATCCAA
Found at i:8315775 original size:19 final size:21
Alignment explanation
Indices: 8315748--8315787 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
8315738 TTATTCCCAA
*
8315748 AAACTTTTTA-TTTTCCCCCT
1 AAACTTTTTACTTTTCACCCT
8315768 AAAC-TTTTACTTTTCACCCT
1 AAACTTTTTACTTTTCACCCT
8315788 TTACTCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.47
Consensus pattern (21 bp):
AAACTTTTTACTTTTCACCCT
Done.