Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold61
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: 1437555
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
File 6 of 10
Found at i:854177 original size:23 final size:23
Alignment explanation
Indices: 854148--854196 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
854138 CAAAAAATAT
854148 AAAAGAGAATGAATAGCAGCTCA
1 AAAAGAGAATGAATAGCAGCTCA
* *
854171 AAAAGAGGATGGATAGCAGCTCA
1 AAAAGAGAATGAATAGCAGCTCA
854194 AAA
1 AAA
854197 GATTAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.51, C:0.12, G:0.24, T:0.12
Consensus pattern (23 bp):
AAAAGAGAATGAATAGCAGCTCA
Found at i:856414 original size:93 final size:93
Alignment explanation
Indices: 856255--856442 Score: 358
Period size: 93 Copynumber: 2.0 Consensus size: 93
856245 TAACCACCGG
*
856255 GTCCGCTTTCATGTCGAGGGTGAGTATTAGGATAGGCTCATTTTTTTCTTATCAATTTTATTTTT
1 GTCCGCTTTCATATCGAGGGTGAGTATTAGGATAGGCTCATTTTTTTCTTATCAATTTTATTTTT
856320 AGGTCTTTAGTCTCAATTTAGCATCCTA
66 AGGTCTTTAGTCTCAATTTAGCATCCTA
*
856348 GTCCGCTTTCATATCGAGGGTGAGTATTAGGGTAGGCTCATTTTTTTCTTATCAATTTTATTTTT
1 GTCCGCTTTCATATCGAGGGTGAGTATTAGGATAGGCTCATTTTTTTCTTATCAATTTTATTTTT
856413 AGGTCTTTAGTCTCAATTTAGCATCCTA
66 AGGTCTTTAGTCTCAATTTAGCATCCTA
856441 GT
1 GT
856443 GCTTAGATCA
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 93 1.00
ACGTcount: A:0.20, C:0.16, G:0.19, T:0.45
Consensus pattern (93 bp):
GTCCGCTTTCATATCGAGGGTGAGTATTAGGATAGGCTCATTTTTTTCTTATCAATTTTATTTTT
AGGTCTTTAGTCTCAATTTAGCATCCTA
Found at i:860901 original size:35 final size:35
Alignment explanation
Indices: 860861--860927 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
860851 AAGAAAGTAG
860861 GGTTTTATTTAAATGAAGTATTGGGAATTGTATAA
1 GGTTTTATTTAAATGAAGTATTGGGAATTGTATAA
* * *
860896 GGTTTTATTTAAATGAATTGTTGGGGATTGTA
1 GGTTTTATTTAAATGAAGTATTGGGAATTGTA
860928 ATCCTAAGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.30, C:0.00, G:0.25, T:0.45
Consensus pattern (35 bp):
GGTTTTATTTAAATGAAGTATTGGGAATTGTATAA
Found at i:862088 original size:18 final size:18
Alignment explanation
Indices: 862065--862104 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
862055 TGCTGACATA
862065 CTTTTTCTTAGCCAACCT
1 CTTTTTCTTAGCCAACCT
*
862083 CTTTTTTTTAGCCAACCT
1 CTTTTTCTTAGCCAACCT
862101 CTTT
1 CTTT
862105 ATCACGTACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.15, C:0.30, G:0.05, T:0.50
Consensus pattern (18 bp):
CTTTTTCTTAGCCAACCT
Found at i:869413 original size:20 final size:20
Alignment explanation
Indices: 869390--869429 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
869380 TATACATTAA
*
869390 AAATAAAAATTTTTATTTTT
1 AAATAAAAATTATTATTTTT
* *
869410 AAATAATAGTTATTATTTTT
1 AAATAAAAATTATTATTTTT
869430 TTAATAAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (20 bp):
AAATAAAAATTATTATTTTT
Found at i:869446 original size:22 final size:22
Alignment explanation
Indices: 869386--869446 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
869376 TAGTTATACA
* *
869386 TTAAAAATAAAAATTTTTATTT
1 TTAAAAATAATAATTATTATTT
* *
869408 TTAAATAATAGTTATTATT-TTT
1 TTAAA-AATAATAATTATTATTT
869430 TTAATAAATAATAATTA
1 TTAA-AAATAATAATTA
869447 ATGTCTTAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
22 21 0.68
23 10 0.32
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
TTAAAAATAATAATTATTATTT
Found at i:871544 original size:14 final size:14
Alignment explanation
Indices: 871527--871576 Score: 64
Period size: 15 Copynumber: 3.4 Consensus size: 14
871517 TTTTCGAATG
871527 TTAATTTTTTAATT
1 TTAATTTTTTAATT
871541 TTAATATTTTTAATAT
1 TTAAT-TTTTTAAT-T
* *
871557 TTAATTTATTATTT
1 TTAATTTTTTAATT
871571 TTAATT
1 TTAATT
871577 ATTGTGTTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
14 12 0.38
15 14 0.44
16 6 0.19
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TTAATTTTTTAATT
Found at i:871569 original size:21 final size:22
Alignment explanation
Indices: 871534--871575 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
871524 ATGTTAATTT
871534 TTTAATTTTAATATTTTTAATA
1 TTTAATTTTAATATTTTTAATA
*
871556 TTTAA-TTTATTATTTTTAAT
1 TTTAATTTTAATATTTTTAAT
871576 TATTGTGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTAATTTTAATATTTTTAATA
Found at i:871987 original size:27 final size:27
Alignment explanation
Indices: 871949--872010 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
871939 CAAGGTTGAG
871949 CACAAACTTACAAAGAGAATAAATGAA
1 CACAAACTTACAAAGAGAATAAATGAA
871976 CACAAACTTACAAAGAGAATAAATGAA
1 CACAAACTTACAAAGAGAATAAATGAA
*
872003 TACAAACT
1 CACAAACT
872011 AAATAAACCT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.58, C:0.16, G:0.10, T:0.16
Consensus pattern (27 bp):
CACAAACTTACAAAGAGAATAAATGAA
Found at i:872471 original size:17 final size:17
Alignment explanation
Indices: 872435--872472 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
872425 ATAGTGATAT
* *
872435 GTGAACAGTTATGAATA
1 GTGAACAGTTATAAACA
872452 GTGAACAGTTATAAACA
1 GTGAACAGTTATAAACA
872469 GTGA
1 GTGA
872473 TATATCGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.26
Consensus pattern (17 bp):
GTGAACAGTTATAAACA
Found at i:872569 original size:13 final size:13
Alignment explanation
Indices: 872551--872575 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
872541 TTGTCAGTTT
872551 ATGTATCGATACA
1 ATGTATCGATACA
872564 ATGTATCGATAC
1 ATGTATCGATAC
872576 TAAGCAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:874569 original size:16 final size:15
Alignment explanation
Indices: 874531--874582 Score: 68
Period size: 16 Copynumber: 3.3 Consensus size: 15
874521 AATTCATATC
*
874531 ATTTAATTAAATATAT
1 ATTT-ATTAAATATTT
874547 ATTTATTAAATATTT
1 ATTTATTAAATATTT
*
874562 ATTATATTTAATATTT
1 ATT-TATTAAATATTT
874578 ATTTA
1 ATTTA
874583 AATATATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
15 15 0.45
16 18 0.55
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
ATTTATTAAATATTT
Found at i:876838 original size:15 final size:15
Alignment explanation
Indices: 876802--876841 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
876792 TTAAAATAAT
*
876802 ATATTTACATAAATTA
1 ATATTTA-ATAAAATA
*
876818 AAATTTAATAAAATA
1 ATATTTAATAAAATA
876833 ATATTTAAT
1 ATATTTAAT
876842 TTATATTATC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 15 0.71
16 6 0.29
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (15 bp):
ATATTTAATAAAATA
Found at i:876880 original size:25 final size:26
Alignment explanation
Indices: 876835--876889 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 26
876825 ATAAAATAAT
* *
876835 ATTTAATTTATATTATCTATTGTATA
1 ATTTAATTTATATTATATATTGTAAA
*
876861 ATTTAATTT-TATT-TGATATTTTAAA
1 ATTTAATTTATATTAT-ATATTGTAAA
876886 ATTT
1 ATTT
876890 TTAATTACTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 1 0.04
25 15 0.60
26 9 0.36
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.60
Consensus pattern (26 bp):
ATTTAATTTATATTATATATTGTAAA
Found at i:877732 original size:47 final size:45
Alignment explanation
Indices: 877678--877790 Score: 126
Period size: 43 Copynumber: 2.5 Consensus size: 45
877668 AATTTGATCA
877678 ATTAATTTTATCTTATTAATTTTTATTCATT-ATGTGTAATATAATAT
1 ATTAATTTTAT-TTATTAATTTTTATTCATTAAT-T-TAATATAATAT
** *
877725 ATTAATTTTA-TT-TT-AGCTTCATTCATTGAATTTAATATAATAT
1 ATTAATTTTATTTATTAATTTTTATTCATT-AATTTAATATAATAT
*
877768 ATTAATTTTATTTATTACTTTTT
1 ATTAATTTTATTTATTAATTTTT
877791 GAATTACGTT
Statistics
Matches: 54, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
43 31 0.57
44 5 0.09
45 6 0.11
46 2 0.04
47 10 0.19
ACGTcount: A:0.33, C:0.05, G:0.04, T:0.58
Consensus pattern (45 bp):
ATTAATTTTATTTATTAATTTTTATTCATTAATTTAATATAATAT
Found at i:878002 original size:320 final size:319
Alignment explanation
Indices: 877621--878252 Score: 987
Period size: 320 Copynumber: 2.0 Consensus size: 319
877611 TCTCAAATTT
* * * *
877621 TTTTTATATATTATAAAAATAATTCATTAAATTCAATTTATAATATTAATTTGATCAATTAATTT
1 TTTTCATATATTATAAAAATAATTCATTAAATGCAATATATAATATTAATTTGACCAATTAATTT
* * ** * *
877686 TATCTTATTAATTTTTATTCATTATGTGTAATATAATATATTAATTTTATTTTAG-CTTCATTCA
66 TATCTCATTAATTTTAATTCATTATGTACAATATAATATATTAATTTTATCTCAGCCTT-ATTCA
* * * * *
877750 TTGAATTTAATATAATATATTAATTTTATTTATTACTTTTTGAATTACGTTTTAATTCTTTTTAT
130 TTAAATTTAATATAATATATTAATTTCATTCATTACTTTTTGAATTACATTTTAATTC-TTTTAG
* * *
877815 TAGAATTTGAATGGTTTAATTATTAAAAATATAATAATAAAAATTATTACCAATTAATATTTTCT
194 TAAAATTTGAATGGTTAAATTACTAAAAATATAATAATAAAAATTATTACCAATTAATATTTTCT
*
877880 CATTCATTGAATTTAAATTTAATATAATATATTAATTTTATTTATTGTTTTTTTCAAAAAA
259 CATTCATTGAATTTAAATTTAATATAATATATTAATTTTATTTATTATTTTTTTCAAAAAA
* * *
877941 TTTTCATATATTATAAAATTAATTCATTGAATGCAATATATGATATTAATTTGACCAATTAATTT
1 TTTTCATATATTATAAAAATAATTCATTAAATGCAATATATAATATTAATTTGACCAATTAATTT
* *
878006 TATCTCATTTATTTTAATTCATTATGTACAATATAATATATTAATTTTATCTCAGCCTTATTTAT
66 TATCTCATTAATTTTAATTCATTATGTACAATATAATATATTAATTTTATCTCAGCCTTATTCAT
* *
878071 TAAATTTAATATAATATATTAATTTCATTCATTGCTTTTTGAATTATATTTTAATTCTTTTAGTA
131 TAAATTTAATATAATATATTAATTTCATTCATTACTTTTTGAATTACATTTTAATTCTTTTAGTA
* *
878136 AAATTTGAATGGTTAAATTACTAAAAATATAATAATACAAATTATTATCAATTAATATTTTCTCA
196 AAATTTGAATGGTTAAATTACTAAAAATATAATAATAAAAATTATTACCAATTAATATTTTCTCA
878201 TTCATTGAATTTAAATTTAATATAATATATTAATTTTATTTATTATTTTTTT
261 TTCATTGAATTTAAATTTAATATAATATATTAATTTTATTTATTATTTTTTT
878253 AATTTCATTT
Statistics
Matches: 283, Mismatches: 28, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
319 118 0.42
320 162 0.57
321 3 0.01
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (319 bp):
TTTTCATATATTATAAAAATAATTCATTAAATGCAATATATAATATTAATTTGACCAATTAATTT
TATCTCATTAATTTTAATTCATTATGTACAATATAATATATTAATTTTATCTCAGCCTTATTCAT
TAAATTTAATATAATATATTAATTTCATTCATTACTTTTTGAATTACATTTTAATTCTTTTAGTA
AAATTTGAATGGTTAAATTACTAAAAATATAATAATAAAAATTATTACCAATTAATATTTTCTCA
TTCATTGAATTTAAATTTAATATAATATATTAATTTTATTTATTATTTTTTTCAAAAAA
Found at i:878537 original size:37 final size:41
Alignment explanation
Indices: 878496--878580 Score: 106
Period size: 43 Copynumber: 2.1 Consensus size: 41
878486 TTTAACAATA
878496 AATTTTATCTC-AT-TCATT-GTT-TTTAATATAATATATT
1 AATTTTATCTCAATCTCATTCGTTATTTAATATAATATATT
* *
878533 AATTTTATCTCAATCTTATTCGTTGAATTTATTATAATATATT
1 AATTTTATCTCAATCTCATTCGTT--ATTTAATATAATATATT
878576 AATTT
1 AATTT
878581 CTTTCATTTC
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
37 11 0.28
38 2 0.05
39 4 0.10
40 3 0.08
43 20 0.50
ACGTcount: A:0.33, C:0.08, G:0.04, T:0.55
Consensus pattern (41 bp):
AATTTTATCTCAATCTCATTCGTTATTTAATATAATATATT
Found at i:881784 original size:22 final size:23
Alignment explanation
Indices: 881758--881800 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
881748 GAGTGATTAC
881758 TTTAATTAAAAATAA-AAATAAA
1 TTTAATTAAAAATAATAAATAAA
*
881780 TTTAATTAAATATAATAAATA
1 TTTAATTAAAAATAATAAATA
881801 TTTAATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (23 bp):
TTTAATTAAAAATAATAAATAAA
Found at i:881805 original size:21 final size:21
Alignment explanation
Indices: 881758--881814 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
881748 GAGTGATTAC
*
881758 TTTAATTAAAAATAAAAATAAA
1 TTTAATTAAATATAAAAAT-AA
881780 TTTAATTAAATATAATAAAT-A
1 TTTAATTAAATATAA-AAATAA
*
881801 TTTAATAAAATATA
1 TTTAATTAAATATA
881815 TAATTCATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
21 14 0.44
22 14 0.44
23 4 0.12
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
TTTAATTAAATATAAAAATAA
Found at i:882095 original size:18 final size:18
Alignment explanation
Indices: 882071--882113 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
882061 TTTTATTTAA
*
882071 ATTTAAATTTAATTTGATT
1 ATTTAAATTTAAATT-ATT
882090 -TTTAAATTTAAATTATT
1 ATTTAAATTTAAATTATT
882107 ATTTAAA
1 ATTTAAA
882114 AATATTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 3 0.14
18 19 0.86
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (18 bp):
ATTTAAATTTAAATTATT
Found at i:882143 original size:14 final size:15
Alignment explanation
Indices: 882124--882152 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
882114 AATATTAAAA
882124 AATA-TTTTTATATT
1 AATATTTTTTATATT
882138 AATATTTTTTATATT
1 AATATTTTTTATATT
882153 TTATAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
AATATTTTTTATATT
Found at i:882854 original size:21 final size:23
Alignment explanation
Indices: 882828--882873 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
882818 AACAAATGAG
*
882828 TTTTTT-ATTATTATAATA-ATT
1 TTTTTTAATTATTAAAATATATT
*
882849 TTTTTTAATTTTTAAAATATATT
1 TTTTTTAATTATTAAAATATATT
882872 TT
1 TT
882874 ATAAAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 6 0.29
22 10 0.48
23 5 0.24
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (23 bp):
TTTTTTAATTATTAAAATATATT
Found at i:882883 original size:16 final size:14
Alignment explanation
Indices: 882857--882893 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
882847 TTTTTTTTAA
*
882857 TTTTTAAAATATAT
1 TTTTTAAAAAATAT
*
882871 TTTATAAAAAATAT
1 TTTTTAAAAAATAT
882885 TTTTTAAAA
1 TTTTTAAAA
882894 TGTGTTTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
TTTTTAAAAAATAT
Found at i:883545 original size:166 final size:167
Alignment explanation
Indices: 883266--883725 Score: 491
Period size: 168 Copynumber: 2.8 Consensus size: 167
883256 ATTTTATTAA
* *
883266 AATTCAAAAAATGAGATTGAA-GCATGAATTTTGTTTTTGAATAAATATGATAATTCATAGATTC
1 AATTCGAAAAATGAGATT-AATGCATGAATTTTGTTTTTGAATAAATATGATAATACATAGATTC
* * * *
883330 TTAA-TGTGAATCAGATTTTTTCTAACATAAAAGAACTTGATCAGACTAATACATGAATTGTAAA
65 TTAATTG-GAATCAGATTCTTTCTAATATAAAAGAAGTTGATAAGACTAATACATGAATTGTAAA
* * * * *
883394 TGTTAGACTGTAAAGAAT-G-GACTACTGCATGGATTTG
129 TGTCAAACTGTAAAGAATAGACACTAATGCATGGATTGG
* * ** * *
883431 AGTTCGAAAAATGGGATTAATGCATGGCTTTTGTTTTTGAATAAATATGATAAATGCATAAATTC
1 AATTCGAAAAATGAGATTAATGCATGAATTTTGTTTTTGAATAAATATGAT-AATACATAGATTC
* * * *
883496 TTAATTGGAATTAGATTCTTTCTAATATAAAAGAAGTTGATTAGACTAATACATGGATTATAAAT
65 TTAATTGGAATCAGATTCTTTCTAATATAAAAGAAGTTGATAAGACTAATACATGAATTGTAAAT
*
883561 GTCAAACTGTAAGGAATAGACACTAATGCATGGATTGG
130 GTCAAACTGTAAAGAATAGACACTAATGCATGGATTGG
* * * * * * *
883599 AATTTGAAAGATGTGACTAATGTATGAATTCTG-TTTTGAAATAAACATGATTAATACATAGATT
1 AATTCGAAAAATGAGATTAATGCATGAATTTTGTTTTTG-AATAAATATGA-TAATACATAGATT
* * * * * * * *
883663 GC-TGATGGGAATCAGATTCTTTTTTATATGAAAGAAGTTAATAAGACTAATGCATGAGTTGTA
64 -CTTAATTGGAATCAGATTCTTTCTAATATAAAAGAAGTTGATAAGACTAATACATGAATTGTA
883726 CCGAAGAATC
Statistics
Matches: 243, Mismatches: 44, Indels: 13
0.81 0.15 0.04
Matches are distributed among these distances:
164 2 0.01
165 43 0.18
166 80 0.33
167 8 0.03
168 108 0.44
169 2 0.01
ACGTcount: A:0.39, C:0.08, G:0.18, T:0.35
Consensus pattern (167 bp):
AATTCGAAAAATGAGATTAATGCATGAATTTTGTTTTTGAATAAATATGATAATACATAGATTCT
TAATTGGAATCAGATTCTTTCTAATATAAAAGAAGTTGATAAGACTAATACATGAATTGTAAATG
TCAAACTGTAAAGAATAGACACTAATGCATGGATTGG
Found at i:884799 original size:12 final size:12
Alignment explanation
Indices: 884782--884806 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
884772 GTACTAAATT
884782 TGATAACAATGA
1 TGATAACAATGA
884794 TGATAACAATGA
1 TGATAACAATGA
884806 T
1 T
884807 ATTGACCTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.16, T:0.28
Consensus pattern (12 bp):
TGATAACAATGA
Found at i:887133 original size:12 final size:12
Alignment explanation
Indices: 887116--887147 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
887106 AATTAAATTT
887116 AATTCAATAACA
1 AATTCAATAACA
887128 AATTCAATAACA
1 AATTCAATAACA
887140 AATTCAAT
1 AATTCAAT
887148 TTTAATGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (12 bp):
AATTCAATAACA
Found at i:888835 original size:21 final size:22
Alignment explanation
Indices: 888809--888853 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
888799 TTTCCTTTTC
888809 TCTCCCCCTTAA-AAAAAAATT
1 TCTCCCCCTTAATAAAAAAATT
*
888830 TCTCCCCCTTAATAAAACAATT
1 TCTCCCCCTTAATAAAAAAATT
888852 TC
1 TC
888854 ATTTAATCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.38, C:0.31, G:0.00, T:0.31
Consensus pattern (22 bp):
TCTCCCCCTTAATAAAAAAATT
Found at i:889396 original size:18 final size:17
Alignment explanation
Indices: 889369--889402 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
889359 TGTGTGGCTT
*
889369 TGTTTTGAGGAACTCGAA
1 TGTTTCGAGGAA-TCGAA
889387 TGTTTCGAGGAATCGA
1 TGTTTCGAGGAATCGA
889403 GCCCTCTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.26, C:0.12, G:0.29, T:0.32
Consensus pattern (17 bp):
TGTTTCGAGGAATCGAA
Found at i:890562 original size:19 final size:19
Alignment explanation
Indices: 890527--890567 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
890517 CTATAGACCC
890527 TAATTCATATCAAACAACCA
1 TAATTCATATCAAACAA-CA
*
890547 TAATTCA-ATCATACAACA
1 TAATTCATATCAAACAACA
890565 TAA
1 TAA
890568 CAAACATCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 5 0.25
19 8 0.40
20 7 0.35
ACGTcount: A:0.51, C:0.22, G:0.00, T:0.27
Consensus pattern (19 bp):
TAATTCATATCAAACAACA
Found at i:896580 original size:19 final size:20
Alignment explanation
Indices: 896536--896587 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
896526 TTACAAGCCA
896536 ATGTATTGATACATTTGGTC
1 ATGTATTGATACATTTGGTC
896556 ATGTATTGATACATCTT-GT-
1 ATGTATTGATACAT-TTGGTC
*
896575 ATGTATCGATACA
1 ATGTATTGATACA
896588 AACAGTTAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 12 0.40
20 16 0.53
21 2 0.07
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.42
Consensus pattern (20 bp):
ATGTATTGATACATTTGGTC
Found at i:896675 original size:13 final size:13
Alignment explanation
Indices: 896657--896681 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
896647 TATAGTGGTC
896657 ATGTATCGATACA
1 ATGTATCGATACA
896670 ATGTATCGATAC
1 ATGTATCGATAC
896682 TATGCATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:898861 original size:20 final size:20
Alignment explanation
Indices: 898836--898877 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
898826 TATTGATATA
898836 ATAAGTAAATGCATAGATAC
1 ATAAGTAAATGCATAGATAC
* * *
898856 ATAAGTGAATGTATCGATAC
1 ATAAGTAAATGCATAGATAC
898876 AT
1 AT
898878 GCCTGAAATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.10, G:0.17, T:0.29
Consensus pattern (20 bp):
ATAAGTAAATGCATAGATAC
Found at i:899626 original size:11 final size:11
Alignment explanation
Indices: 899610--899635 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
899600 TACTAACAAC
899610 TATGAGGTCTT
1 TATGAGGTCTT
899621 TATGAGGTCTT
1 TATGAGGTCTT
899632 TATG
1 TATG
899636 CCAATACATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.19, C:0.08, G:0.27, T:0.46
Consensus pattern (11 bp):
TATGAGGTCTT
Found at i:900172 original size:165 final size:164
Alignment explanation
Indices: 900001--900420 Score: 445
Period size: 166 Copynumber: 2.5 Consensus size: 164
899991 TTTAATCACC
900001 ATTAAATCAGTTTGCAAAAATTCATTCATTTTCATAAGTTTTTTATTTTTTCTTTGAAATTTTCT
1 ATTAAATCAGTTTG-AAAAATTCATTCATTTTCATAAGTTTTTTATTTTTTCTTTGAAATTTTCT
** ** * * * *
900066 TTTTTCTTAAATACGTTGTTTTCTACTTTGTAATTTTTTTCGAT-TGAATTTTCTT-GATTTTTA
65 TTTTTCAAAAATACGAAGTTTTCTACTTCGTAA-ATCTTTCGATGGGAATTTTCTTAG-TTTTTA
* * *
900129 ATTTTTAAAATTCATCATATACTATTATTTATTTTAT
128 ATTTTTAAAATCCATCAAATACTATTATTTATTTCAT
* * * * *
900166 ATTAAATCAGTTTTAAAAAATTCCTTCATTTTCATTAGTTTTTTATTTTTCCTTAGAAATTTTCC
1 ATTAAATCAG-TTTGAAAAATTCATTCATTTTCATAAGTTTTTTATTTTTTCTTTGAAATTTT-C
* * * *
900231 TATTTTCAAAAATTCGAAGTTTTCTACTTCGTAAATCTTTCGGTGGGATTTTTCTTAGTTTTTAA
64 TTTTTTCAAAAATACGAAGTTTTCTACTTCGTAAATCTTTCGATGGGAATTTTCTTAGTTTTTAA
**
900296 TTTTTAAAATCCATCAAATTTTATTATTTATTTCAT
129 TTTTTAAAATCCATCAAATACTATTATTTATTTCAT
* * * * * ** *
900332 AGTAATTCAGTTTTGAAAATTTAATTTATTTTCATGAA-TTTTGGATTTTTTCTTTGAAATTTCC
1 ATTAAATCAG-TTTGAAAAATTCATTCATTTTCAT-AAGTTTTTTATTTTTTCTTTGAAATTT-T
*
900396 CTTTTTTCGACAAATA-GAA-TTTTCT
63 CTTTTTTC-AAAAATACGAAGTTTTCT
900421 TCTCTATGAA
Statistics
Matches: 210, Mismatches: 38, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
165 67 0.32
166 136 0.65
167 7 0.03
ACGTcount: A:0.28, C:0.11, G:0.07, T:0.54
Consensus pattern (164 bp):
ATTAAATCAGTTTGAAAAATTCATTCATTTTCATAAGTTTTTTATTTTTTCTTTGAAATTTTCTT
TTTTCAAAAATACGAAGTTTTCTACTTCGTAAATCTTTCGATGGGAATTTTCTTAGTTTTTAATT
TTTAAAATCCATCAAATACTATTATTTATTTCAT
Found at i:901435 original size:22 final size:22
Alignment explanation
Indices: 901367--901425 Score: 91
Period size: 22 Copynumber: 2.7 Consensus size: 22
901357 AAAAAATAGT
*
901367 AGCTGATGGACGAAGAAACAAC
1 AGCTGATGGAGGAAGAAACAAC
* *
901389 AGCTGATAGAGGAAGAAACATC
1 AGCTGATGGAGGAAGAAACAAC
901411 AGCTGATGGAGGAAG
1 AGCTGATGGAGGAAG
901426 CAGCAGCAGC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.42, C:0.14, G:0.32, T:0.12
Consensus pattern (22 bp):
AGCTGATGGAGGAAGAAACAAC
Found at i:903407 original size:155 final size:155
Alignment explanation
Indices: 903119--903499 Score: 462
Period size: 155 Copynumber: 2.5 Consensus size: 155
903109 CAATCTTTTG
* * * * * * * *
903119 AGTCTTTTAGGGGTATCAGGTATTTTTAAGTCGAAAGTATCTCCTAGGGGTATTTTCATAATTTT
1 AGTCTTATAGAGGTATCAGGTACTTATACGTCGAAAGTATCCCCTAAGGGCATTTTCATAATTTT
* * * * * * * *
903184 TCAAAATCGAGTCTTAGATTGTCACCGGGTCCGCTTTTATGCTAAATGTAAATATTTATGATAAG
66 TTAAAACCGAGTCCTAGATTGTCACCGAGTCCACTTTTATCCGAAATGTAAATATTTAGGATAAG
903249 TTCATCTCATCTATTATCCTCTTTA
131 TTCATCTCATCTATTATCCTCTTTA
* * *
903274 AGTCCTT-TAGGGGTA-CTGGGTACTTATACGTCGAATGTATCCCCTAAGGGCATTTTCATAATT
1 AGT-CTTATAGAGGTATC-AGGTACTTATACGTCGAAAGTATCCCCTAAGGGCATTTTCATAATT
* * *
903337 TTTTAGAACCGAGTCCTAGGTTGTCACCGAGTCCACTTTTATACCGAAA-GTAGATATTTAGGAT
64 TTTTAAAACCGAGTCCTAGATTGTCACCGAGTCCACTTTTAT-CCGAAATGTAAATATTTAGGAT
* *
903401 AGGTTCATCTCATCTATTATCCTTTTTA
128 AAGTTCATCTCATCTATTATCCTCTTTA
* * * *
903429 AGTCTTATAGAGGTATCAGGTACTTTTACGTCGAAGGTATCCCCTAAGGGCATTTTCGTAAATTT
1 AGTCTTATAGAGGTATCAGGTACTTATACGTCGAAAGTATCCCCTAAGGGCATTTTCATAATTTT
903494 TTAAAA
66 TTAAAA
903500 TAACTCTTAG
Statistics
Matches: 193, Mismatches: 28, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
154 4 0.02
155 181 0.94
156 8 0.04
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (155 bp):
AGTCTTATAGAGGTATCAGGTACTTATACGTCGAAAGTATCCCCTAAGGGCATTTTCATAATTTT
TTAAAACCGAGTCCTAGATTGTCACCGAGTCCACTTTTATCCGAAATGTAAATATTTAGGATAAG
TTCATCTCATCTATTATCCTCTTTA
Found at i:908418 original size:28 final size:28
Alignment explanation
Indices: 908378--908449 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
908368 AAAAAAAAAT
* ** *
908378 CGGGATTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
908406 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
908434 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
908450 TCGATTGTGA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:908500 original size:52 final size:50
Alignment explanation
Indices: 908437--908782 Score: 146
Period size: 52 Copynumber: 6.6 Consensus size: 50
908427 GAAATAACGA
* * * **
908437 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATTG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGG-AGTTTTGAAAATAAAACCG
** * *
908488 GAGTTGGAGTATCCCCGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCG
1 G-GTTGGAGTATCCCCGATT-GTGAAAAATTGGAGTTTTGAAAATAAAACCG
* * ** *
908540 GGATTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTT-AGCGACAAAACCGG
1 GG-TTGGAGTATCCCCGATTGT-GAAAAATTGGAGTTTTGA-AAATAAAACC-G
* * ** * * *
908593 GGTTGGAGTATCCCC--TCG-AAAATAACGGGGTTGGAGTATCCCCGAAGAT-TAACGG
1 GGTTGGAGTATCCCCGATTGTGAAA-AA-----TTGGAGT-T--TTGAAAATAAAACCG
** * *
908648 GGTTGGAGTATCCCCGATTGTGAAGAAATTAGTGTTTTTTGGAAATAAAATCG
1 GGTTGGAGTATCCCCGATTGTGAA-AAATT-G-GAGTTTTGAAAATAAAACCG
* * * * * **
908701 GAGTTAGAGTATCCCCCATTAT-AGAAAATTAGTGTTTTGAAAATAAAATTG
1 G-GTTGGAGTATCCCCGATTGTGA-AAAATTGGAGTTTTGAAAATAAAACCG
* *
908752 GAGTTGGAATATCCCCGATTGTGAAGAATTG
1 G-GTTGGAGTATCCCCGATTGTGAAAAATTG
908783 AGAAACTCAA
Statistics
Matches: 218, Mismatches: 51, Indels: 52
0.68 0.16 0.16
Matches are distributed among these distances:
48 3 0.01
49 2 0.01
50 2 0.01
51 43 0.20
52 87 0.40
53 24 0.11
54 25 0.11
55 19 0.09
56 3 0.01
57 4 0.02
58 5 0.02
59 1 0.00
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.29
Consensus pattern (50 bp):
GGTTGGAGTATCCCCGATTGTGAAAAATTGGAGTTTTGAAAATAAAACCG
Found at i:908561 original size:104 final size:102
Alignment explanation
Indices: 908439--908782 Score: 273
Period size: 104 Copynumber: 3.3 Consensus size: 102
908429 AATAACGAGG
* *
908439 TTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATTGGAGTTGGAGTATCCCC
1 TTGGAGTATCCCCGATTGTGAAAAATTGGT-TTTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
*
908504 GATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCGGGA
65 GATTAAAGGAAAATTGGAGTTTTGAAAATAAAA-CGGGA
* * * ** * * *
908543 TTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCGACAAAACCGGGGTTGGAGTATCCCC
1 TTGGAGTATCCCCGATTGT-GAAAAATTGGTTTTTTGGAAATAAAATCGGAGTTGGAGTAT-CCC
* * ** ** * * *
908608 TCGAAAATAACGG--GGTTGGAGTATCCCCGAAGAT-TAACGGGG
64 -CG--ATTAAAGGAAAATTGGAGT-T--TTGAAAATAAAACGGGA
*
908650 TTGGAGTATCCCCGATTGTGAAGAAATTAGTGTTTTTTGGAAATAAAATCGGAGTTAGAGTATCC
1 TTGGAGTATCCCCGATTGTGAA-AAATT-G-GTTTTTTGGAAATAAAATCGGAGTTGGAGTATCC
* * * * **
908715 CCCATTATA-GAAAATTAGTGTTTTGAAAATAAAATTGGA
63 CCGATTAAAGGAAAATTGGAGTTTTGAAAATAAAACGGGA
* *
908754 GTTGGAATATCCCCGATTGTGAAGAATTG
1 -TTGGAGTATCCCCGATTGTGAAAAATTG
908783 AGAAACTCAA
Statistics
Matches: 179, Mismatches: 46, Indels: 31
0.70 0.18 0.12
Matches are distributed among these distances:
103 6 0.03
104 49 0.27
105 38 0.21
106 16 0.09
107 30 0.17
108 11 0.06
109 29 0.16
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (102 bp):
TTGGAGTATCCCCGATTGTGAAAAATTGGTTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCG
ATTAAAGGAAAATTGGAGTTTTGAAAATAAAACGGGA
Found at i:908653 original size:27 final size:26
Alignment explanation
Indices: 908590--908664 Score: 114
Period size: 27 Copynumber: 2.8 Consensus size: 26
908580 GCGACAAAAC
908590 CGGGGTTGGAGTATCCCCTCGAAAATAA
1 CGGGGTTGGAGTAT-CCC-CGAAAATAA
*
908618 CGGGGTTGGAGTATCCCCGAAGATTAA
1 CGGGGTTGGAGTATCCCCGAA-AATAA
908645 CGGGGTTGGAGTATCCCCGA
1 CGGGGTTGGAGTATCCCCGA
908665 TTGTGAAGAA
Statistics
Matches: 45, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
26 4 0.09
27 27 0.60
28 14 0.31
ACGTcount: A:0.24, C:0.21, G:0.33, T:0.21
Consensus pattern (26 bp):
CGGGGTTGGAGTATCCCCGAAAATAA
Found at i:908730 original size:212 final size:212
Alignment explanation
Indices: 908373--908774 Score: 587
Period size: 212 Copynumber: 1.9 Consensus size: 212
908363 AGAAGAAAAA
* * * *
908373 AAAATCGGGATTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAG
1 AAAACCGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGAAGAAATAACGAG
* * *
908438 GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATTGGAGTTGGAGTATCCC
66 GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTAGAGTATCCC
* * *
908503 CGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCGGGA-TTGGAGTATCCCCGATTGTGGAAA
131 CCATTAAAGGAAAATTAGCGTTTTGAAAATAAAA-CGGGAGTTGGAATATCCCCGATTGTGGAAA
908567 AATTAGTGTTTTAGCGAC
195 AATTAGTGTTTTAGCGAC
* * *
908585 AAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGAAG-ATTAACGGG
1 AAAACCGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGAAGAAATAACGAG
908649 GTTGGAGTATCCCCGATTGTGAAGAAATTAGTGT-TTTTTGGAAATAAAATCGGAGTTAGAGTAT
66 GTTGGAGTATCCCCGATTGTGAA-AAATT-G-GTATTTTTGGAAATAAAATCGGAGTTAGAGTAT
* * **
908713 CCCCCATTATA-GAAAATTAGTGTTTTGAAAATAAAATTGGAGTTGGAATATCCCCGATTGTG
128 CCCCCATTAAAGGAAAATTAGCGTTTTGAAAATAAAACGGGAGTTGGAATATCCCCGATTGTG
908775 AAGAATTGAG
Statistics
Matches: 169, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
211 32 0.19
212 97 0.57
213 38 0.22
214 2 0.01
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.28
Consensus pattern (212 bp):
AAAACCGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGAAGAAATAACGAG
GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTAGAGTATCCC
CCATTAAAGGAAAATTAGCGTTTTGAAAATAAAACGGGAGTTGGAATATCCCCGATTGTGGAAAA
ATTAGTGTTTTAGCGAC
Found at i:911130 original size:20 final size:20
Alignment explanation
Indices: 911103--911157 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
911093 TAAAATTTCC
*
911103 AAATGTATCGATACAAAGAT
1 AAATGTATCGATACAAAGAA
** *
911123 CCATGTATCGATACACAGAA
1 AAATGTATCGATACAAAGAA
911143 AAATGTATCGATACA
1 AAATGTATCGATACA
911158 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.45, C:0.16, G:0.15, T:0.24
Consensus pattern (20 bp):
AAATGTATCGATACAAAGAA
Found at i:911292 original size:21 final size:21
Alignment explanation
Indices: 911268--911324 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
911258 CATTTGTAGG
*
911268 ATGTATCGACACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
911289 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
911310 ATGTATCGATACATT
1 ATGTATCGATACATT
911325 TGGATAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.32
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:912776 original size:73 final size:73
Alignment explanation
Indices: 912639--913260 Score: 333
Period size: 73 Copynumber: 8.6 Consensus size: 73
912629 TTTTCAAAGT
* * * * *
912639 CCACACAAGTTAGTGGCACCCCTTT-TTTTTAAAGCACGCACAAGCT-GACAACACCCTTTTCCT
1 CCACACAAGTTGGTGGCACCCCTTTCTTTTTAAAGCCCACACAAGCTAG-CAGCACCTTTTTCCT
912702 TCTTTAAGC
65 TCTTTAAGC
* * * *
912711 CCACATAGGTTGGTGGCACCCCTTTCTTTTTAAAGCCTACAAAAGCTAGCAGCACCTTTTTCCTT
1 CCACACAAGTTGGTGGCACCCCTTTCTTTTTAAAGCCCACACAAGCTAGCAGCACCTTTTTCCTT
912776 CTTTAAGC
66 CTTTAAGC
* * ** * * ** * * * *
912784 CCATAAAAAATAGTGGTACCTTTTTCTTTTTTAAAGCCCATACAAGCTAACAGTATCTTTTTCCT
1 CCACACAAGTTGGTGGCACCCCTTTC-TTTTTAAAGCCCACACAAGCTAGCAGCACCTTTTTCCT
912849 TCTTTAAGC
65 TCTTTAAGC
* * * * * * *
912858 CTACACAAGTTAGTGGCA--CCTTTTTTTTTAAAGCCCACACAAG-TTGACGGTACCTTTTTTCT
1 CCACACAAGTTGGTGGCACCCCTTTCTTTTTAAAGCCCACACAAGCTAG-CAGCACCTTTTTCCT
*
912920 T-TTTAGGC
65 TCTTTAAGC
* * * * ** * ** *
912928 CCACATAAGTTGGTGACACCCTTTTTTTTTCCTTCTTAAAGCCCGTACAAGCTGGTGGCACTCGT
1 CCACACAAGTTGGTGGCACCC-----CTTT-CTTTTTAAAGCCCACACAAGCTAGCAGCAC-CTT
912993 TTT-CTTCTTTAAGC
59 TTTCCTTCTTTAAGC
* * * *
913007 CCACACAAGTTGGTGGCACCCCTTTCTTTTCAAAGCCCACACAAG-TCAGTAGTAACC--GTT--
1 CCACACAAGTTGGTGGCACCCCTTTCTTTTTAAAGCCCACACAAGCT-AGCAG-CACCTTTTTCC
**
913067 TTC-AAAAGC
64 TTCTTTAAGC
* * ** * * * * * ** * *
913076 CCACACAAATTGGTAGCACCTATTTATTTTTAAAGTCCATACAAACTGGTGGTACCTTTTTCTTT
1 CCACACAAGTTGGTGGCACCCCTTTCTTTTTAAAGCCCACACAAGCTAGCAGCACCTTTTTCCTT
*
913141 CTTAAAGC
66 CTTTAAGC
* *** * * * **
913149 CCTACA-AA-TTGGTGGCACCCCTTTCTTTTCAAAGCTTGCACAAGTTGGCGGCATATATTTT-C
1 CC-ACACAAGTTGGTGGCACCCCTTTCTTTTTAAAGCCCACACAAGCTAGCAGCACCT-TTTTCC
**
913211 TTCTCAAAGC
64 TTCTTTAAGC
* * * *
913221 CCACATAATTTGGTGGCATCCATTTCTTTTT-AAGCCCACA
1 CCACACAAGTTGGTGGCACCCCTTTCTTTTTAAAGCCCACA
913261 TAAGTTGTTG
Statistics
Matches: 418, Mismatches: 105, Indels: 54
0.72 0.18 0.09
Matches are distributed among these distances:
68 3 0.01
69 43 0.10
70 27 0.06
71 36 0.09
72 81 0.19
73 108 0.26
74 62 0.15
77 3 0.01
78 23 0.06
79 32 0.08
ACGTcount: A:0.25, C:0.26, G:0.14, T:0.34
Consensus pattern (73 bp):
CCACACAAGTTGGTGGCACCCCTTTCTTTTTAAAGCCCACACAAGCTAGCAGCACCTTTTTCCTT
CTTTAAGC
Found at i:912898 original size:34 final size:35
Alignment explanation
Indices: 912854--913433 Score: 179
Period size: 36 Copynumber: 15.8 Consensus size: 35
912844 TTCCTTCTTT
* *
912854 AAGCCTACACAAGTTAGTGGCACC-TTTTTTTTTA
1 AAGCCCACACAAGTTGGTGGCACCTTTTTTTTTTA
** * *
912888 AAGCCCACACAAGTTGACGGTACCTTTTTTCTTTTT
1 AAGCCCACACAAGTTGGTGGCACCTTTTTT-TTTTA
* * *
912924 AGGCCCACATAAGTTGGTGACACCCTTTTTTTTTCCTTCTTA
1 AAGCCCACACAAGTTGGTGGCA-CC---TTTTTT--TT-TTA
** * *
912966 AAGCCCGTACAAGCTGGTGGCACTCGTTTTCTTCTTT-
1 AAGCCCACACAAGTTGGTGGCAC-C-TTTT-TTTTTTA
* * *
913003 AAGCCCACACAAGTTGGTGGCACCCCTTTCTTTTCA
1 AAGCCCACACAAGTTGGTGGCA-CCTTTTTTTTTTA
** ** * **
913039 AAGCCCACACAAGTCAGTAGTAACC---GTTTTCAA
1 AAGCCCACACAAGTTGGT-GGCACCTTTTTTTTTTA
* * *
913072 AAGCCCACACAAATTGGTAGCACCTATTTATTTTTA
1 AAGCCCACACAAGTTGGTGGCACCT-TTTTTTTTTA
* * ** *
913108 AAGTCCATACAAACTGGTGGTACCTTTTTCTTTCTTA
1 AAGCCCACACAAGTTGGTGGCACCTTTTT-TTT-TTA
* * *
913145 AAGCCCTACA-AA-TTGGTGGCACCCCTTTCTTTTCA
1 AAGCCC-ACACAAGTTGGTGGCA-CCTTTTTTTTTTA
*** * ** * *
913180 AAGCTTGCACAAGTTGGCGGCATATATTTTCTTCTCA
1 AAGCCCACACAAGTTGGTGGCACCT-TTTT-TTTTTA
* * * *
913217 AAGCCCACATAATTTGGTGGCATCCATTTCTTTTT-
1 AAGCCCACACAAGTTGGTGGCA-CCTTTTTTTTTTA
* *
913252 AAGCCCACATAAGTTGTTGGCACCCTTTTCTTTTTTACTTTTTA
1 AAGCCCACACAAGTTGGTGGCA--C----C-TTTTT--TTTTTA
*** ****
913296 AAGCCCGTGCAAGTTGGCAATACCCTTTTTCTTCTTT-
1 AAGCCCACACAAGTTGGTGGCA-CCTTTTT-TT-TTTA
* *
913333 AAGCCCACACAAGTTGGTGGCACCCCTTTCTTTTTA
1 AAGCCCACACAAGTTGGTGGCA-CCTTTTTTTTTTA
* ** * * *
913369 AAGCCCGCATGAGCTAGTGGCACCCTTTCTCTTTTTA
1 AAGCCCACACAAGTTGGTGGCA-CCTTT-TTTTTTTA
* * *
913406 AAGCCCACATATGCTGGTGGCACCTTTT
1 AAGCCCACACAAGTTGGTGGCACCTTTT
913434 GCCTTTATAG
Statistics
Matches: 395, Mismatches: 113, Indels: 75
0.68 0.19 0.13
Matches are distributed among these distances:
32 3 0.01
33 19 0.05
34 21 0.05
35 43 0.11
36 122 0.31
37 113 0.29
38 13 0.03
39 2 0.01
40 11 0.03
41 9 0.02
42 19 0.05
43 7 0.02
44 13 0.03
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.35
Consensus pattern (35 bp):
AAGCCCACACAAGTTGGTGGCACCTTTTTTTTTTA
Found at i:912978 original size:78 final size:79
Alignment explanation
Indices: 912885--913037 Score: 175
Period size: 79 Copynumber: 1.9 Consensus size: 79
912875 ACCTTTTTTT
* * * * *
912885 TTAAAGCCCACACAAGTTGACGGTAC-CTTTTTTCTT-TTTAGGCCCACATAAGTTGGTGACACC
1 TTAAAGCCCACACAAGCTGACGGCACTC-GTTTTCTTCTTTAAGCCCACACAAGTTGGTGACACC
* *
912948 CTTTTTTTTTCCTTC
65 CCTTTCTTTTCCTTC
** ** *
912963 TTAAAGCCCGTACAAGCTGGTGGCACTCGTTTTCTTCTTTAAGCCCACACAAGTTGGTGGCACCC
1 TTAAAGCCCACACAAGCTGACGGCACTCGTTTTCTTCTTTAAGCCCACACAAGTTGGTGACACCC
913028 CTTTCTTTTC
66 CTTTCTTTTC
913038 AAAGCCCACA
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
78 27 0.44
79 34 0.56
ACGTcount: A:0.20, C:0.27, G:0.16, T:0.37
Consensus pattern (79 bp):
TTAAAGCCCACACAAGCTGACGGCACTCGTTTTCTTCTTTAAGCCCACACAAGTTGGTGACACCC
CTTTCTTTTCCTTC
Found at i:913043 original size:36 final size:36
Alignment explanation
Indices: 912628--913433 Score: 289
Period size: 37 Copynumber: 22.0 Consensus size: 36
912618 AACTAGACCC
* * * *
912628 CTTTTCAAAGTCCACACAAGTTAGTGGCACCCCTTT
1 CTTTTTAAAGCCCACACAAGTTGGTGGCACCCTTTT
* * * ****
912664 -TTTTTAAAGCACGCACAAGCTGACAACACCCTTTT
1 CTTTTTAAAGCCCACACAAGTTGGTGGCACCCTTTT
* * *
912699 CCTTCTTT-AAGCCCACATAGGTTGGTGGCACCCCTTT
1 -CTT-TTTAAAGCCCACACAAGTTGGTGGCACCCTTTT
* * * * ** *
912736 CTTTTTAAAGCCTACAAAAGCTAGCAGCACCTTTTT
1 CTTTTTAAAGCCCACACAAGTTGGTGGCACCCTTTT
* * ** * * *
912772 CCTTCTTT-AAGCCCATAAAAAATAGTGGTACCTTTTT
1 -CTT-TTTAAAGCCCACACAAGTTGGTGGCACCCTTTT
* * **** * * *
912809 CTTTTTTAAAGCCCATACAAGCTAACAGTATCTTTTT
1 C-TTTTTAAAGCCCACACAAGTTGGTGGCACCCTTTT
* *
912846 CCTTCTTT-AAGCCTACACAAGTTAGTGGCA-CCTTTT
1 -CTT-TTTAAAGCCCACACAAGTTGGTGGCACCCTTTT
** * *
912882 -TTTTTAAAGCCCACACAAGTTGACGGTACCTTTTTT
1 CTTTTTAAAGCCCACACAAGTTGGTGGCACC-CTTTT
* * *
912918 CTTTTT-AGGCCCACATAAGTTGGTGACACCCTTTTTTTTT
1 CTTTTTAAAGCCCACACAAGTTGGTGGCACCC-----TTTT
* ** * *
912958 CCTTCTTAAAGCCCGTACAAGCTGGTGGCACTCGTTTT
1 -CTTTTTAAAGCCCACACAAGTTGGTGGCAC-CCTTTT
*
912996 CTTCTTT-AAGCCCACACAAGTTGGTGGCACCCCTTT
1 CTT-TTTAAAGCCCACACAAGTTGGTGGCACCCTTTT
* ** ** *
913032 CTTTTCAAAGCCCACACAAGTCAGTAGTAACCGTTTT
1 CTTTTTAAAGCCCACACAAGTTGGT-GGCACCCTTTT
* * *
913069 C----AAAAGCCCACACAAATTGGTAGCA-CCTATTT
1 CTTTTTAAAGCCCACACAAGTTGGTGGCACCCT-TTT
* * * ** * *
913101 ATTTTTAAAGTCCATACAAACTGGTGGTACCTTTTT
1 CTTTTTAAAGCCCACACAAGTTGGTGGCACCCTTTT
*
913137 CTTTCTTAAAGCCCTACA-AA-TTGGTGGCACCCCTTT
1 CTTT-TTAAAGCCC-ACACAAGTTGGTGGCACCCTTTT
* *** * ***
913173 CTTTTCAAAGCTTGCACAAGTTGGCGGCATATATTTT
1 CTTTTTAAAGCCCACACAAGTTGGTGGCA-CCCTTTT
* * * * * *
913210 CTTCTCAAAGCCCACATAATTTGGTGGCATCCATTT
1 CTTTTTAAAGCCCACACAAGTTGGTGGCACCCTTTT
* *
913246 CTTTTT-AAGCCCACATAAGTTGTTGGCACCCTTTTCTTTTTT
1 CTTTTTAAAGCCCACACAAGTTGGTGGCA-CC----C--TTTT
*** ****
913288 ACTTTTTAAAGCCCGTGCAAGTTGGCAATACCCTTTTT
1 -CTTTTTAAAGCCCACACAAGTTGGTGGCACCC-TTTT
*
913326 CTTCTTT-AAGCCCACACAAGTTGGTGGCACCCCTTT
1 CTT-TTTAAAGCCCACACAAGTTGGTGGCACCCTTTT
* ** * *
913362 CTTTTTAAAGCCCGCATGAGCTAGTGGCACCCTTTCT
1 CTTTTTAAAGCCCACACAAGTTGGTGGCACCCTTT-T
* * *
913399 CTTTTTAAAGCCCACATATGCTGGTGGCA-CCTTTT
1 CTTTTTAAAGCCCACACAAGTTGGTGGCACCCTTTT
913434 GCCTTTATAG
Statistics
Matches: 560, Mismatches: 162, Indels: 97
0.68 0.20 0.12
Matches are distributed among these distances:
31 2 0.00
32 4 0.01
33 19 0.03
34 21 0.04
35 62 0.11
36 166 0.30
37 207 0.37
38 26 0.05
39 1 0.00
40 5 0.01
41 5 0.01
42 20 0.04
43 9 0.02
44 13 0.02
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (36 bp):
CTTTTTAAAGCCCACACAAGTTGGTGGCACCCTTTT
Found at i:913239 original size:37 final size:35
Alignment explanation
Indices: 913190--913273 Score: 87
Period size: 35 Copynumber: 2.3 Consensus size: 35
913180 AAGCTTGCAC
* *
913190 AAGTTGGCGGCATATATTTTCTTCTCAAAGCCCACAT
1 AAGTTGGTGGCATACA-TTTCTT-TCAAAGCCCACAT
* * **
913227 AATTTGGTGGCATCCATTTCTTTTTAAGCCCACAT
1 AAGTTGGTGGCATACATTTCTTTCAAAGCCCACAT
*
913262 AAGTTGTTGGCA
1 AAGTTGGTGGCA
913274 CCCTTTTCTT
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
35 21 0.54
36 6 0.15
37 12 0.31
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (35 bp):
AAGTTGGTGGCATACATTTCTTTCAAAGCCCACAT
Found at i:913257 original size:35 final size:35
Alignment explanation
Indices: 913217--913286 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
913207 TTTCTTCTCA
* *
913217 AAGCCCACATAATTTGGTGGCATCCATTTCTTTTT
1 AAGCCCACATAAGTTGGTGGCACCCATTTCTTTTT
* *
913252 AAGCCCACATAAGTTGTTGGCACCCTTTTCTTTTT
1 AAGCCCACATAAGTTGGTGGCACCCATTTCTTTTT
913287 TACTTTTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.40
Consensus pattern (35 bp):
AAGCCCACATAAGTTGGTGGCACCCATTTCTTTTT
Found at i:913577 original size:52 final size:52
Alignment explanation
Indices: 913502--913649 Score: 199
Period size: 52 Copynumber: 2.8 Consensus size: 52
913492 TGATGGCATT
* *
913502 ATCTTTAAGTCTAATGTCACTGGCCTTGAATTAGCACATTGGCACTCTTATC
1 ATCTTTAAGTCTAATGTCGCTGGCCTTGAATTAGCACATTGGCACCCTTATC
*
913554 A-CTTTTAAGTCCAATGTCGCTGGCCTTGAATTAGCACATTGGCACCCTTATC
1 ATC-TTTAAGTCTAATGTCGCTGGCCTTGAATTAGCACATTGGCACCCTTATC
* * * ** *
913606 ATCTTTAAATCTAACGTTGCTACCCTTGAAGTAGCACATTGGCA
1 ATCTTTAAGTCTAATGTCGCTGGCCTTGAATTAGCACATTGGCA
913650 TCATACCTTC
Statistics
Matches: 84, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
51 1 0.01
52 82 0.98
53 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (52 bp):
ATCTTTAAGTCTAATGTCGCTGGCCTTGAATTAGCACATTGGCACCCTTATC
Found at i:914460 original size:29 final size:29
Alignment explanation
Indices: 914424--914508 Score: 152
Period size: 29 Copynumber: 2.9 Consensus size: 29
914414 GATACATTTT
914424 TCATTGTATCGATACATTATGGGTTTTGC
1 TCATTGTATCGATACATTATGGGTTTTGC
914453 TCATTGTATCGATACATTATGGGTTTTGC
1 TCATTGTATCGATACATTATGGGTTTTGC
* *
914482 TCATTGTATCGATACATTCTAGGTTTT
1 TCATTGTATCGATACATTATGGGTTTT
914509 TAACCTAAAT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 54 1.00
ACGTcount: A:0.21, C:0.14, G:0.19, T:0.46
Consensus pattern (29 bp):
TCATTGTATCGATACATTATGGGTTTTGC
Found at i:917073 original size:79 final size:79
Alignment explanation
Indices: 916867--917073 Score: 217
Period size: 79 Copynumber: 2.6 Consensus size: 79
916857 GTTAAAAAGT
* * * * *
916867 GGATAATCCAACCCCACCATCTCCAAGGAGATACTCCAACCTCATTTTT-GCTTTCGAAATATGA
1 GGATACTCCAACCCCACCATTTCCAAGGAGATACTCCAACCTC-TTTTTAACTTCCAAAATATGA
916931 AAATTTTCATCCTTA
65 AAATTTTCATCCTTA
** * * * *
916946 GGATACTTGAACCCCACCATTTCCGAA-GAGAAATTCTAACCTCGTTTTAACTTCCAAAATATTG
1 GGATACTCCAACCCCACCATTTCC-AAGGAGATACTCCAACCTCTTTTTAACTTCCAAAATA-TG
917010 -AAATTTTCAT-CTCTA
64 AAAATTTTCATCCT-TA
* *
917025 GGATACTCCAACCCCATCATTTTCAAGGAGATACTCCAACGC-CTTTTTA
1 GGATACTCCAACCCCACCATTTCCAAGGAGATACTCCAAC-CTCTTTTTA
917074 TTTTGTAAAA
Statistics
Matches: 103, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
78 8 0.08
79 90 0.87
80 5 0.05
ACGTcount: A:0.31, C:0.27, G:0.11, T:0.31
Consensus pattern (79 bp):
GGATACTCCAACCCCACCATTTCCAAGGAGATACTCCAACCTCTTTTTAACTTCCAAAATATGAA
AATTTTCATCCTTA
Found at i:917133 original size:28 final size:28
Alignment explanation
Indices: 917102--917168 Score: 116
Period size: 28 Copynumber: 2.4 Consensus size: 28
917092 TTCTTTGGGA
917102 ATACTCCAACCCCACCATTTTTGAGGGG
1 ATACTCCAACCCCACCATTTTTGAGGGG
*
917130 ATACTCCAACCCCATCATTTTTGAGGGG
1 ATACTCCAACCCCACCATTTTTGAGGGG
*
917158 ACACTCCAACC
1 ATACTCCAACC
917169 TTGTTTTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.27, C:0.34, G:0.15, T:0.24
Consensus pattern (28 bp):
ATACTCCAACCCCACCATTTTTGAGGGG
Found at i:917247 original size:37 final size:37
Alignment explanation
Indices: 917206--917279 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
917196 TTTTTCATTT
* *
917206 TTGGGGATGCTCCAACCTCATCATTTTCGAGAGGATA
1 TTGGGGATACTCCAACCTCATCATTTTCAAGAGGATA
917243 TTGGGGATACTCCAACCTCATCATTTTCAAGAGGATA
1 TTGGGGATACTCCAACCTCATCATTTTCAAGAGGATA
917280 CTTTAACCCC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (37 bp):
TTGGGGATACTCCAACCTCATCATTTTCAAGAGGATA
Found at i:917406 original size:80 final size:80
Alignment explanation
Indices: 917265--917422 Score: 178
Period size: 80 Copynumber: 2.0 Consensus size: 80
917255 CAACCTCATC
** ** * *
917265 ATTTTCAAGAGGATACTTTAACCCCATTTTTACTTTTAAAACGCCAAAATTTTTATCTTAGGGGA
1 ATTTTCAAGAGGATACTCCAACCCCATTTTTACTTCCAAAACACC-AAATTTTCATCTTA-GGGA
*
917330 TACTCGAACTCCACTAT
64 TACTCGAACCCCACTAT
*
917347 ATTTT-AAG-GGATACTCCAACCCTATTTTTACTTCCAAAACACC-AATTTTACATCTTTAGGGA
1 ATTTTCAAGAGGATACTCCAACCCCATTTTTACTTCCAAAACACCAAATTTT-CATC-TTAGGGA
*
917409 TACTCTAACCCCAC
64 TACTCGAACCCCAC
917423 CATCTCTGAG
Statistics
Matches: 65, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
78 6 0.09
79 19 0.29
80 32 0.49
81 3 0.05
82 5 0.08
ACGTcount: A:0.32, C:0.24, G:0.09, T:0.35
Consensus pattern (80 bp):
ATTTTCAAGAGGATACTCCAACCCCATTTTTACTTCCAAAACACCAAATTTTCATCTTAGGGATA
CTCGAACCCCACTAT
Found at i:917447 original size:79 final size:79
Alignment explanation
Indices: 917275--917453 Score: 182
Period size: 79 Copynumber: 2.3 Consensus size: 79
917265 ATTTTCAAGA
* * ** * * *
917275 GGATACTTTAACCCCATTTTTACTTTTAAAACGCCAAAATTTTTATCTTAGGGGATACTCGAACT
1 GGATACTCTAACCCAATTTTTACTTCCAAAACACC-AAATTTTCATCTTAGGGGATACTCGAACC
* * *
917340 CCACTATATTTTAAG
65 CCACCATATCTGAAG
* * *
917355 GGATACTCCAACCCTATTTTTACTTCCAAAACACC-AATTTTACATCTTTA-GGGATACTCTAAC
1 GGATACTCTAACCCAATTTTTACTTCCAAAACACCAAATTTT-CATC-TTAGGGGATACTCGAAC
* *
917418 CCCACCATCTCTGAGG
64 CCCACCATATCTGAAG
917434 GGATACTCTAACCCAATTTT
1 GGATACTCTAACCCAATTTT
917454 CACCAAAAAA
Statistics
Matches: 81, Mismatches: 16, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
78 6 0.07
79 43 0.53
80 32 0.40
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (79 bp):
GGATACTCTAACCCAATTTTTACTTCCAAAACACCAAATTTTCATCTTAGGGGATACTCGAACCC
CACCATATCTGAAG
Found at i:922199 original size:20 final size:20
Alignment explanation
Indices: 922174--922212 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
922164 AATTGTGAGC
922174 ATGTATCAATACATTTACTT
1 ATGTATCAATACATTTACTT
* *
922194 ATGTATCGATATATTTACT
1 ATGTATCAATACATTTACT
922213 GTTTGTATTG
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:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (20 bp):
ATGTATCAATACATTTACTT
Found at i:924318 original size:4 final size:4
Alignment explanation
Indices: 924309--924376 Score: 70
Period size: 4 Copynumber: 17.0 Consensus size: 4
924299 GTATTTTTTC
*
924309 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTATT CTCGT CTTT C-TT -TTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT C-T-TT CT-TT CTTT CTTT CTTT
*
924358 CTTT -TTG CTTT CTTT CTTT
1 CTTT CTTT CTTT CTTT CTTT
924377 ATTCCTTCTT
Statistics
Matches: 54, Mismatches: 5, Indels: 10
0.78 0.07 0.14
Matches are distributed among these distances:
3 6 0.11
4 40 0.74
5 5 0.09
6 3 0.06
ACGTcount: A:0.01, C:0.24, G:0.03, T:0.72
Consensus pattern (4 bp):
CTTT
Found at i:929963 original size:20 final size:20
Alignment explanation
Indices: 929938--930062 Score: 92
Period size: 20 Copynumber: 5.7 Consensus size: 20
929928 TTTTAACCAG
929938 ATGTATCGATACATTAAATA
1 ATGTATCGATACATTAAATA
929958 ATGTATCGATACATCTGGGTAAAAAGATAGA
1 ATGTATCGATACA--T---T---AA-AT--A
* *
929989 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTAAATA
*
930009 ATGTATCGATACATT-CATA
1 ATGTATCGATACATTAAATA
930028 CATGTATCGATACATTGAAA-A
1 -ATGTATCGATACATT-AAATA
930049 ATGTATCGATACAT
1 ATGTATCGATACAT
930063 CTAGGTAAAA
Statistics
Matches: 86, Mismatches: 5, Indels: 28
0.72 0.04 0.24
Matches are distributed among these distances:
19 2 0.02
20 58 0.67
21 1 0.01
22 3 0.03
23 1 0.01
25 1 0.01
26 1 0.01
28 2 0.02
29 3 0.03
31 14 0.16
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACATTAAATA
Found at i:931323 original size:28 final size:28
Alignment explanation
Indices: 930828--931322 Score: 482
Period size: 28 Copynumber: 17.5 Consensus size: 28
930818 CACCCACTTG
* * *
930828 TGTGGGCTTTAGAGAAAGTTGCCACTAACTT
1 TGTGGGCTTT-GA-AAGGATGCCACTGAC-T
*
930859 ATGTGGGCTTTAAAAGGATGCCACTGACT
1 -TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
930888 TATGGGTTTTGAGAAGG-TGCCTCTGACT
1 TGTGGGCTTTGA-AAGGATGCCACTGACT
* * * *
930916 AGTGGGCTTTG-AAGAAATGCCTCTAACT
1 TGTGGGCTTTGAAAG-GATGCCACTGACT
930944 TGTGGGCTTTGAGAA-GATGCCACTGACT
1 TGTGGGCTTTGA-AAGGATGCCACTGACT
* * * *
930972 CGTGGGCTTAGGAAGGATGCCACTGAAT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
931000 TGTGGGCTTTG-AAGAGATGCCATTGACT
1 TGTGGGCTTTGAAAG-GATGCCACTGACT
* *
931028 TATGAGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
** * * *
931056 CATGGGCTTTGGAAGGATGCCATTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
931084 TGTGGGCTTTG-AAGAGATGCCATTGACT
1 TGTGGGCTTTGAAAG-GATGCCACTGACT
* *
931112 TATAGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
931140 CGTGGGCTTTGAAAGGATGCCATTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
931168 CGTGGGCTATGAAAATG-TGCCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* *
931196 TGTGAGCTATGAAAAGG-TGCCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
*
931224 TGTGGGCTTTGAAAATGGGTGCCACTGACT
1 TGTGGGCTTTG-AAA-GGATGCCACTGACT
* *
931254 TATGGGCTTTGAAAGGATGCCACTGGCT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
931282 TGTGGGCTTTGAAGGGATGCTACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
931310 TGTGGGCTTTGAA
1 TGTGGGCTTTGAA
931323 GAGATGAACG
Statistics
Matches: 392, Mismatches: 58, Indels: 30
0.82 0.12 0.06
Matches are distributed among these distances:
26 3 0.01
27 8 0.02
28 315 0.80
29 20 0.05
30 35 0.09
31 1 0.00
32 10 0.03
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:932587 original size:16 final size:16
Alignment explanation
Indices: 932568--932622 Score: 67
Period size: 16 Copynumber: 3.3 Consensus size: 16
932558 TATGGACCCC
932568 TTTTTTGTTTGTTTAT
1 TTTTTTGTTTGTTTAT
932584 TTTTTT-TTGTGTTTATT
1 TTTTTTGTT-TGTTTA-T
*
932601 TATTTTTGTTTTTTTAT
1 T-TTTTTGTTTGTTTAT
932618 TTTTT
1 TTTTT
932623 CTATTTTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
15 2 0.06
16 16 0.47
17 4 0.12
18 10 0.29
19 2 0.06
ACGTcount: A:0.07, C:0.00, G:0.09, T:0.84
Consensus pattern (16 bp):
TTTTTTGTTTGTTTAT
Found at i:932592 original size:14 final size:14
Alignment explanation
Indices: 932568--932632 Score: 62
Period size: 14 Copynumber: 4.5 Consensus size: 14
932558 TATGGACCCC
932568 TTTTTTGTTTGTTTA
1 TTTTTT-TTTGTTTA
932583 TTTTTTTTTGTGTTTA
1 -TTTTTTTT-TGTTTA
*
932599 TTTATTTTTGTTT-
1 TTTTTTTTTGTTTA
*
932612 TTTTATTTTT-TCTA
1 TTTT-TTTTTGTTTA
932626 TTTTTTT
1 TTTTTTT
932633 GTTTTTTGTT
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
13 8 0.19
14 14 0.33
15 9 0.21
16 12 0.28
ACGTcount: A:0.08, C:0.02, G:0.08, T:0.83
Consensus pattern (14 bp):
TTTTTTTTTGTTTA
Found at i:932596 original size:20 final size:19
Alignment explanation
Indices: 932568--932649 Score: 78
Period size: 20 Copynumber: 4.2 Consensus size: 19
932558 TATGGACCCC
*
932568 TTTTTTGTTTGTTTATTTT
1 TTTTTTGTTTATTTATTTT
932587 TTTTTGTGTTTATTTATTTT
1 TTTTT-TGTTTATTTATTTT
* *
932607 TGTTTT-TTTATTTTTTCTAT
1 TTTTTTGTTTATTTATT-T-T
*
932627 TTTTTTGTTT-TTTGTTGTT
1 TTTTTTGTTTATTTATT-TT
932646 TTTT
1 TTTT
932650 CTTCTTGGCT
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
18 9 0.17
19 12 0.23
20 29 0.55
21 3 0.06
ACGTcount: A:0.06, C:0.01, G:0.10, T:0.83
Consensus pattern (19 bp):
TTTTTTGTTTATTTATTTT
Found at i:932639 original size:10 final size:10
Alignment explanation
Indices: 932583--932649 Score: 55
Period size: 10 Copynumber: 6.6 Consensus size: 10
932573 TGTTTGTTTA
932583 TTTTTTTTTG
1 TTTTTTTTTG
* * *
932593 TGTTTATTTA
1 TTTTTTTTTG
932603 TTTTTGTTTT-
1 TTTTT-TTTTG
*
932613 TTTATTTTTTC
1 TTT-TTTTTTG
*
932624 TATTTTTTTG
1 TTTTTTTTTG
*
932634 TTTTTTGTTG
1 TTTTTTTTTG
932644 TTTTTT
1 TTTTTT
932650 CTTCTTGGCT
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
10 38 0.84
11 7 0.16
ACGTcount: A:0.06, C:0.01, G:0.09, T:0.84
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:932647 original size:16 final size:15
Alignment explanation
Indices: 932568--932649 Score: 62
Period size: 16 Copynumber: 5.3 Consensus size: 15
932558 TATGGACCCC
*
932568 TTTTTTGTTTGTT-T
1 TTTTTTTTTTGTTGT
*
932582 ATTTTTTTTTG-TGT
1 TTTTTTTTTTGTTGT
932596 TTATTTATTTTTGTT-T
1 TT-TTT-TTTTTGTTGT
* *
932612 TTTTATTTTTTCTATTT
1 TTTT-TTTTTTGT-TGT
932629 TTTTGTTTTTTGTTGT
1 TTTT-TTTTTTGTTGT
932645 TTTTT
1 TTTTT
932650 CTTCTTGGCT
Statistics
Matches: 54, Mismatches: 7, Indels: 13
0.73 0.09 0.18
Matches are distributed among these distances:
13 1 0.02
14 11 0.20
15 12 0.22
16 17 0.31
17 13 0.24
ACGTcount: A:0.06, C:0.01, G:0.10, T:0.83
Consensus pattern (15 bp):
TTTTTTTTTTGTTGT
Found at i:932647 original size:25 final size:24
Alignment explanation
Indices: 932585--932647 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 24
932575 TTTGTTTATT
*
932585 TTTTTTTG-TGTTTATTTATTTTTG
1 TTTTTTTGTTGTTT-TCTATTTTTG
* *
932609 TTTTTTTATT-TTTTCTATTTTTT
1 TTTTTTTGTTGTTTTCTATTTTTG
932632 TGTTTTTTGTTGTTTT
1 T-TTTTTTGTTGTTTT
932648 TTCTTCTTGG
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
23 9 0.28
24 18 0.56
25 5 0.16
ACGTcount: A:0.06, C:0.02, G:0.10, T:0.83
Consensus pattern (24 bp):
TTTTTTTGTTGTTTTCTATTTTTG
Found at i:932648 original size:34 final size:32
Alignment explanation
Indices: 932568--932649 Score: 85
Period size: 31 Copynumber: 2.5 Consensus size: 32
932558 TATGGACCCC
* *
932568 TTTTTTGTTTGTTTATTTTTTTTTGTGTTTATTT
1 TTTTTTG-TTGTTT-TTTTTTTTTCTATTTATTT
* * *
932602 ATTTTTGTT-TTTTTATTTTTTCTATTTTTTT
1 TTTTTTGTTGTTTTTTTTTTTTCTATTTATTT
932633 GTTTTTTGTTGTTTTTT
1 -TTTTTTGTTGTTTTTT
932650 CTTCTTGGCT
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
31 15 0.38
32 11 0.28
33 7 0.18
34 6 0.15
ACGTcount: A:0.06, C:0.01, G:0.10, T:0.83
Consensus pattern (32 bp):
TTTTTTGTTGTTTTTTTTTTTTCTATTTATTT
Found at i:946511 original size:20 final size:20
Alignment explanation
Indices: 946486--946542 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
946476 GTACAAAGAC
*
946486 AGAATGTATCAATACATTGA
1 AGAATGTATCGATACATTGA
946506 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
*
946526 AAAATGTATCGATACAT
1 AGAATGTATCGATACAT
946543 CTGGGTAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.44, C:0.11, G:0.16, T:0.30
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:948237 original size:15 final size:14
Alignment explanation
Indices: 948217--948246 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
948207 TCTATATATA
948217 TATTTATTATTTATT
1 TATTTATTA-TTATT
948232 TATTTATTATTATT
1 TATTTATTATTATT
948246 T
1 T
948247 TTTTCTTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (14 bp):
TATTTATTATTATT
Found at i:949592 original size:19 final size:20
Alignment explanation
Indices: 949568--949610 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
949558 CTTTGATTTT
949568 AAAAGA-AAAAAATGAAAA-A
1 AAAAGAGAAAAAA-GAAAAGA
*
949587 AAAAGAGGAAAAAGAAAAGA
1 AAAAGAGAAAAAAGAAAAGA
949607 AAAA
1 AAAA
949611 AATTGAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.02
Consensus pattern (20 bp):
AAAAGAGAAAAAAGAAAAGA
Found at i:951287 original size:11 final size:11
Alignment explanation
Indices: 951271--951300 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
951261 GCCGTTATAA
951271 GCTTGTTTGGC
1 GCTTGTTTGGC
*
951282 GCTTGTTTGGT
1 GCTTGTTTGGC
951293 GCTTGTTT
1 GCTTGTTT
951301 TCATGCTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.13, G:0.33, T:0.53
Consensus pattern (11 bp):
GCTTGTTTGGC
Found at i:951411 original size:17 final size:17
Alignment explanation
Indices: 951391--951453 Score: 62
Period size: 17 Copynumber: 3.8 Consensus size: 17
951381 ATTACAAGCT
951391 ATGTATCGATACATTTC
1 ATGTATCGATACATTTC
951408 ATGTATCGATACA----
1 ATGTATCGATACATTTC
*
951421 ATGTATTGATACATTGTACC
1 ATGTATCGATACATT-T--C
951441 ATGTATCGATACA
1 ATGTATCGATACA
951454 AATAGTGATA
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
13 12 0.32
17 13 0.35
20 12 0.32
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (17 bp):
ATGTATCGATACATTTC
Found at i:951449 original size:33 final size:30
Alignment explanation
Indices: 951391--951454 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 30
951381 ATTACAAGCT
951391 ATGTATCGATACATTTCATGTATCGATACA
1 ATGTATCGATACATTTCATGTATCGATACA
*
951421 ATGTATTGATACATTGTACCATGTATCGATACA
1 ATGTATCGATACATT-T--CATGTATCGATACA
951454 A
1 A
951455 ATAGTGATAG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 14 0.47
31 1 0.03
33 15 0.50
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (30 bp):
ATGTATCGATACATTTCATGTATCGATACA
Found at i:951527 original size:19 final size:20
Alignment explanation
Indices: 951483--951537 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
951473 CTGCCAGTTT
* **
951483 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATCGAA
951503 CATGTATCGATACAA-CGAA
1 CATGTATCGATACAATCGAA
951522 CATGTATCGATACAAT
1 CATGTATCGATACAAT
951538 GTATCGATAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (20 bp):
CATGTATCGATACAATCGAA
Found at i:951541 original size:13 final size:13
Alignment explanation
Indices: 951523--951549 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
951513 TACAACGAAC
951523 ATGTATCGATACA
1 ATGTATCGATACA
951536 ATGTATCGATACA
1 ATGTATCGATACA
951549 A
1 A
951550 AGCAAGATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:951565 original size:33 final size:32
Alignment explanation
Indices: 951504--951568 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
951494 ACAATTGTCC
*
951504 ATGTATCGATACAACGAACATGTATCGATACA
1 ATGTATCGATACAAAGAACATGTATCGATACA
*
951536 ATGTATCGATACAAAGCAAGATGTATCGATACA
1 ATGTATCGATACAAAG-AACATGTATCGATACA
951569 TCTAGGTGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.25
Consensus pattern (32 bp):
ATGTATCGATACAAAGAACATGTATCGATACA
Found at i:951652 original size:20 final size:20
Alignment explanation
Indices: 951627--951676 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
951617 GTCAACCATA
951627 ATGTATCGATTCAATTACCT
1 ATGTATCGATTCAATTACCT
951647 ATGTATCGATTCAATTACCT
1 ATGTATCGATTCAATTACCT
951667 ATGTATCGAT
1 ATGTATCGAT
951677 ACTTTGAGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATTCAATTACCT
Found at i:952093 original size:14 final size:14
Alignment explanation
Indices: 952074--952103 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
952064 AACATATTAG
952074 AAAGTTCAAATATC
1 AAAGTTCAAATATC
952088 AAAGTTCAAATATC
1 AAAGTTCAAATATC
952102 AA
1 AA
952104 GGTTTTCGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.53, C:0.13, G:0.07, T:0.27
Consensus pattern (14 bp):
AAAGTTCAAATATC
Found at i:954028 original size:13 final size:13
Alignment explanation
Indices: 954010--954036 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
954000 ATAGTACTCT
954010 ATGTATCGATACA
1 ATGTATCGATACA
954023 ATGTATCGATACA
1 ATGTATCGATACA
954036 A
1 A
954037 GGAATGTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:955790 original size:13 final size:13
Alignment explanation
Indices: 955772--955797 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
955762 CAATTTTTGG
955772 TGTATCGATACAT
1 TGTATCGATACAT
955785 TGTATCGATACAT
1 TGTATCGATACAT
955798 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:955794 original size:33 final size:32
Alignment explanation
Indices: 955752--955815 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
955742 TACAAGCCAA
*
955752 TGTATCGATACA-ATTTTTGGTGTATCGATACAT
1 TGTATCGATACATA-CTTT-GTGTATCGATACAT
955785 TGTATCGATACATACTTTGTGTATCGATACA
1 TGTATCGATACATACTTTGTGTATCGATACA
955816 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 13 0.45
33 15 0.52
34 1 0.03
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (32 bp):
TGTATCGATACATACTTTGTGTATCGATACAT
Found at i:955812 original size:32 final size:33
Alignment explanation
Indices: 955752--955815 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
955742 TACAAGCCAA
*
955752 TGTATCGATACAATTTTTGGTGTATCGATACAT
1 TGTATCGATACAATCTTTGGTGTATCGATACAT
955785 TGTATCGATAC-ATACTTT-GTGTATCGATACA
1 TGTATCGATACAAT-CTTTGGTGTATCGATACA
955816 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATCTTTGGTGTATCGATACAT
Found at i:957894 original size:21 final size:20
Alignment explanation
Indices: 957865--957907 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
957855 GGCTAGAATG
*
957865 GGGACTGCCCGGTTGCGACCT
1 GGGACTG-CCGGTCGCGACCT
*
957886 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
957906 GG
1 GG
957908 TGGGTGCTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.09, C:0.30, G:0.44, T:0.16
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:958367 original size:13 final size:13
Alignment explanation
Indices: 958349--958387 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
958339 ATAATCCCCC
*
958349 TGTATCGATACAG
1 TGTATCGATACAA
*
958362 TGTATCAATACAA
1 TGTATCGATACAA
958375 TGTATCGATACAA
1 TGTATCGATACAA
958388 AGAAAAATGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:964577 original size:13 final size:13
Alignment explanation
Indices: 964559--964584 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
964549 CAATTTTTGG
964559 TGTATCGATACAT
1 TGTATCGATACAT
964572 TGTATCGATACAT
1 TGTATCGATACAT
964585 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:964581 original size:33 final size:32
Alignment explanation
Indices: 964539--964602 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
964529 TACAAGCCAA
*
964539 TGTATCGATACA-ATTTTTGGTGTATCGATACAT
1 TGTATCGATACATA-CTTT-GTGTATCGATACAT
964572 TGTATCGATACATACTTTGTGTATCGATACA
1 TGTATCGATACATACTTTGTGTATCGATACA
964603 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 13 0.45
33 15 0.52
34 1 0.03
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (32 bp):
TGTATCGATACATACTTTGTGTATCGATACAT
Found at i:964599 original size:32 final size:33
Alignment explanation
Indices: 964539--964602 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
964529 TACAAGCCAA
*
964539 TGTATCGATACAATTTTTGGTGTATCGATACAT
1 TGTATCGATACAATCTTTGGTGTATCGATACAT
964572 TGTATCGATAC-ATACTTT-GTGTATCGATACA
1 TGTATCGATACAAT-CTTTGGTGTATCGATACA
964603 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATCTTTGGTGTATCGATACAT
Found at i:968303 original size:21 final size:21
Alignment explanation
Indices: 968279--968318 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
968269 ATGCAAATTT
**
968279 TTATTTTTCTTAGCTAATTCA
1 TTATTTTGATTAGCTAATTCA
968300 TTATTTTGATTAGCTAATT
1 TTATTTTGATTAGCTAATT
968319 TTTTAATGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.10, G:0.07, T:0.57
Consensus pattern (21 bp):
TTATTTTGATTAGCTAATTCA
Found at i:970662 original size:13 final size:12
Alignment explanation
Indices: 970644--970703 Score: 61
Period size: 13 Copynumber: 4.9 Consensus size: 12
970634 ACAATTGTCC
970644 ATGTATCGATAA
1 ATGTATCGATAA
970656 TATGTATCGATACA
1 -ATGTATCGATA-A
* *
970670 ATGTATC--CAG
1 ATGTATCGATAA
970680 ATGTATCGATAAA
1 ATGTATCGAT-AA
970693 ATGTATCGATA
1 ATGTATCGATA
970704 CAAATCGATA
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
10 7 0.18
11 1 0.03
12 1 0.03
13 29 0.74
14 1 0.03
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (12 bp):
ATGTATCGATAA
Found at i:970691 original size:36 final size:33
Alignment explanation
Indices: 970627--970706 Score: 115
Period size: 36 Copynumber: 2.3 Consensus size: 33
970617 CAGTTTCATA
* *
970627 TATCGATACAATTGTCCATGTATCGATAATATG
1 TATCGATACAATTATCCATGTATCGATAAAATG
970660 TATCGATACAATGTATCCAGATGTATCGATAAAATG
1 TATCGATACAAT-TATCC--ATGTATCGATAAAATG
970696 TATCGATACAA
1 TATCGATACAA
970707 ATCGATACAT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
33 12 0.29
34 4 0.10
36 26 0.62
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.33
Consensus pattern (33 bp):
TATCGATACAATTATCCATGTATCGATAAAATG
Found at i:971939 original size:4 final size:4
Alignment explanation
Indices: 971928--971992 Score: 57
Period size: 4 Copynumber: 16.8 Consensus size: 4
971918 TTATCTTTTT
* * *
971928 TTTC -TTC TTTC TTTCC TATTC TCTC TTTC CTT- TTTC -TTC TTTC TTTA
1 TTTC TTTC TTTC TTT-C T-TTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
971975 TTTC TTT- TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTT
971993 TCTTCTCCAA
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
3 11 0.22
4 32 0.65
5 4 0.08
6 2 0.04
ACGTcount: A:0.03, C:0.25, G:0.00, T:0.72
Consensus pattern (4 bp):
TTTC
Found at i:972171 original size:74 final size:75
Alignment explanation
Indices: 972066--972245 Score: 219
Period size: 74 Copynumber: 2.5 Consensus size: 75
972056 ATTAAATCAA
* *
972066 AAAACAAATTTTAAACTTCTATAAATAAAAATAAATTATACTTTAAAAATTTAAACTCATATAAT
1 AAAACAAATTTTAAACTTCTATAAATAAAAATAAATTATACTCTAAAAATTTAAACTAATATAAT
972131 TATACTTAAG
66 TATACTTAAG
* * * *
972141 AAAACATA-TTTAAATTTCTATAAATCAAAATAAATTATACTCTGAAAATTTAAACTAATATAAT
1 AAAACAAATTTTAAACTTCTATAAATAAAAATAAATTATACTCTAAAAATTTAAACTAATATAAT
* *
972205 CA-A-AT-A-
66 TATACTTAAG
* * *
972211 AAAATAAA-TTTAAACTTTTATAAATAGAAATAAAT
1 AAAACAAATTTTAAACTTCTATAAATAAAAATAAAT
972246 ATTACCTTTA
Statistics
Matches: 91, Mismatches: 14, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
70 29 0.32
71 1 0.01
72 1 0.01
73 1 0.01
74 52 0.57
75 7 0.08
ACGTcount: A:0.55, C:0.08, G:0.02, T:0.35
Consensus pattern (75 bp):
AAAACAAATTTTAAACTTCTATAAATAAAAATAAATTATACTCTAAAAATTTAAACTAATATAAT
TATACTTAAG
Found at i:975582 original size:52 final size:52
Alignment explanation
Indices: 975434--975562 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
975424 CGAAATATGA
*
975434 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATTTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
975486 AAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
975538 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
975563 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:975657 original size:13 final size:13
Alignment explanation
Indices: 975639--975690 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
975629 AACTTCGTAG
975639 CGATACATTGTAT
1 CGATACATTGTAT
975652 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
975671 CGATACATTGTAT
1 CGATACATTGTAT
975684 CGATACA
1 CGATACA
975691 ACACTTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 2 0.06
16 2 0.06
17 2 0.06
19 10 0.30
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:975671 original size:19 final size:19
Alignment explanation
Indices: 975647--975711 Score: 79
Period size: 19 Copynumber: 3.7 Consensus size: 19
975637 AGCGATACAT
975647 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
975666 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
975679 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
975698 TGTATCGATACAAA
1 TGTATCGATACAAA
975712 TCATTGAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
13 11 0.28
14 1 0.03
16 2 0.05
18 1 0.03
19 24 0.62
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:975677 original size:32 final size:32
Alignment explanation
Indices: 975639--975709 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
975629 AACTTCGTAG
975639 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
975671 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
975703 CGATACA
1 CGATACA
975710 AATCATTGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:976477 original size:52 final size:52
Alignment explanation
Indices: 976412--976523 Score: 172
Period size: 52 Copynumber: 2.2 Consensus size: 52
976402 TATTGGGCTC
** * *
976412 GAAGATGCGAAGAATGAC-AATGTGCTGATTCACGGTCAGCGACATTAGACTT
1 GAAGATGAAAAGAATG-CTAATGTGCTAATTCACGATCAGCGACATTAGACTT
976464 GAAGATGAAAAGAATGCTAATGTGCTAATTCACGATCAGCGACATTAGACTT
1 GAAGATGAAAAGAATGCTAATGTGCTAATTCACGATCAGCGACATTAGACTT
976516 GAAGATGA
1 GAAGATGA
976524 CGTGCCAATA
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
51 1 0.02
52 54 0.98
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (52 bp):
GAAGATGAAAAGAATGCTAATGTGCTAATTCACGATCAGCGACATTAGACTT
Found at i:976718 original size:31 final size:31
Alignment explanation
Indices: 976677--976761 Score: 101
Period size: 31 Copynumber: 2.9 Consensus size: 31
976667 TAGAAGAAGA
976677 TGCCACCAACTTGTGTGGGCTTTTGAAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTTGAAA-GGT
976709 TG-CACCAACTTGTGT-GG-TTTTG-AAGGT
1 TGCCACCAACTTGTGTGGGCTTTTGAAAGGT
**
976736 TGCCACTGAC-T-TGTGGGCTTTTGAAA
1 TGCCACCAACTTGTGTGGGCTTTTGAAA
976762 AGATACCACT
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
26 3 0.06
27 8 0.17
28 12 0.26
29 7 0.15
30 2 0.04
31 13 0.28
32 2 0.04
ACGTcount: A:0.19, C:0.18, G:0.29, T:0.34
Consensus pattern (31 bp):
TGCCACCAACTTGTGTGGGCTTTTGAAAGGT
Found at i:976778 original size:29 final size:29
Alignment explanation
Indices: 976736--977028 Score: 435
Period size: 29 Copynumber: 10.0 Consensus size: 29
976726 TTTTGAAGGT
*
976736 TGCCACTGACTTGTGGGCTTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGGAAAAGA
* *
976765 TACCACTGACTTGTGGGCTTTGGAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGGAAAA-GA
*
976795 TGCCATTGACTTGTGGGCTTTGGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGGAAAAGA
* *
976824 TGTCACTGACTTGTGGGCTTTGGAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGGAAAA-GA
*
976854 TGCCACTGACTTGTGGGCTTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGGAAAAGA
* *
976883 TGCCACTAACTTGTGGGCTTTGGAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGGAAAA-GA
* *
976913 TGTCACTGACTTGTGGGCTTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGGAAAAGA
*
976942 TGCCACTGACTTGTGGGCTTTGGAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGGAAAA-GA
976972 TGCCACTGACTTGTGGGCTTTGGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGGAAAAGA
977001 TGCCACTGACTTGTGGGCTTT-GAAAAGA
1 TGCCACTGACTTGTGGGCTTTGGAAAAGA
977029 AAAAGGTGCC
Statistics
Matches: 237, Mismatches: 23, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
28 7 0.03
29 125 0.53
30 105 0.44
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.29
Consensus pattern (29 bp):
TGCCACTGACTTGTGGGCTTTGGAAAAGA
Found at i:976807 original size:59 final size:59
Alignment explanation
Indices: 976731--977027 Score: 515
Period size: 59 Copynumber: 5.1 Consensus size: 59
976721 TGTGGTTTTG
* *
976731 AAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGATACCACTGACTTGTGGGCTTTGGAA
1 AAGGGTGCCACTGACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTGGAA
* * *
976790 AAGGGTGCCATTGACTTGTGGGCTTTGGAAAAGATGTCACTGACTTGTGGGCTTTGGAA
1 AAGGGTGCCACTGACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTGGAA
*
976849 AAGGGTGCCACTGACTTGTGGGCTTTTGAAAAGATGCCACTAACTTGTGGGCTTTGGAA
1 AAGGGTGCCACTGACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTGGAA
*
976908 AAGGGTGTCACTGACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTGGAA
1 AAGGGTGCCACTGACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTGGAA
*
976967 AAGGGTGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTT-GAA
1 AAGGGTGCCACTGACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTGGAA
977025 AAG
1 AAG
977028 AAAAAGGTGC
Statistics
Matches: 225, Mismatches: 13, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
58 6 0.03
59 219 0.97
ACGTcount: A:0.23, C:0.16, G:0.32, T:0.29
Consensus pattern (59 bp):
AAGGGTGCCACTGACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTGGAA
Found at i:977039 original size:34 final size:34
Alignment explanation
Indices: 976731--977230 Score: 340
Period size: 34 Copynumber: 15.9 Consensus size: 34
976721 TGTGGTTTTG
976731 AAGGTTGCCACTGACTTGTGGGCTTTTGAAAAG---
1 AAGG-TGCCACTGACTTGTGGGC-TTTGAAAAGAAA
*
976764 -A--TACCACTGACTTGTGGGCTTTG----GAAA
1 AAGGTGCCACTGACTTGTGGGCTTTGAAAAGAAA
* *
976791 AGGGTGCCATTGACTTGTGGGCTTTG----G-AA
1 AAGGTGCCACTGACTTGTGGGCTTTGAAAAGAAA
* *
976820 AAGATGTCACTGACTTGTGGGCTTTG----GAAA
1 AAGGTGCCACTGACTTGTGGGCTTTGAAAAGAAA
*
976850 AGGGTGCCACTGACTTGTGGGCTTTTGAAAAG---
1 AAGGTGCCACTGACTTGTGGGC-TTTGAAAAGAAA
*
976882 -A--TGCCACTAACTTGTGGGCTTTG----GAAA
1 AAGGTGCCACTGACTTGTGGGCTTTGAAAAGAAA
* *
976909 AGGGTGTCACTGACTTGTGGGCTTTTGAAAAG---
1 AAGGTGCCACTGACTTGTGGGC-TTTGAAAAGAAA
976941 -A--TGCCACTGACTTGTGGGCTTTG----GAAA
1 AAGGTGCCACTGACTTGTGGGCTTTGAAAAGAAA
*
976968 AGGGTGCCACTGACTTGTGGGCTTTG----G-AA
1 AAGGTGCCACTGACTTGTGGGCTTTGAAAAGAAA
*
976997 AAGATGCCACTGACTTGTGGGCTTTGAAAAGAAA
1 AAGGTGCCACTGACTTGTGGGCTTTGAAAAGAAA
* *
977031 AAGGTGCCA-TGGAGTTGTGGGCTTT-AAAAGGGAA
1 AAGGTGCCACT-GACTTGTGGGCTTTGAAAA-GAAA
* ** * * *
977065 AAGATGCCACAAAGTTGTGGGC-TTAAAAAGGGAA
1 AAGGTGCCACTGACTTGTGGGCTTTGAAAA-GAAA
* * *
977099 AAGATGCCACGGAGTTGTGGGCTTTGAAAAGAAA
1 AAGGTGCCACTGACTTGTGGGCTTTGAAAAGAAA
* * *
977133 AAGATGCCACGGAGTTGTGGGCTTTGAAAAGAAA
1 AAGGTGCCACTGACTTGTGGGCTTTGAAAAGAAA
* *
977167 AAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAA
1 AAGGTGCCACTGACTTGTGGGCTTTGAAAAGAAA
* *
977201 AAGGTGCCACGGAGTTGTGGGCTTT-AAAAG
1 AAGGTGCCACTGACTTGTGGGCTTTGAAAAG
977231 GGTGAAGATG
Statistics
Matches: 396, Mismatches: 32, Indels: 78
0.78 0.06 0.15
Matches are distributed among these distances:
24 3 0.01
28 12 0.03
29 102 0.26
30 81 0.20
31 8 0.02
32 1 0.00
33 13 0.03
34 168 0.42
35 8 0.02
ACGTcount: A:0.28, C:0.14, G:0.32, T:0.26
Consensus pattern (34 bp):
AAGGTGCCACTGACTTGTGGGCTTTGAAAAGAAA
Found at i:978694 original size:20 final size:20
Alignment explanation
Indices: 978659--978740 Score: 78
Period size: 20 Copynumber: 4.2 Consensus size: 20
978649 ATCCGGACCC
* *
978659 TTTTTGTTGTTGTTGTTGTT
1 TTTTTGTTTTTTTTGTTGTT
* *
978679 TTTTTCTTTTTTTTGTT-TG
1 TTTTTGTTTTTTTTGTTGTT
* * *
978698 TTTGTGTTTTTTTTCTTTTT
1 TTTTTGTTTTTTTTGTTGTT
*
978718 TTTTTGTTTTGTTTG-TGTT
1 TTTTTGTTTTTTTTGTTGTT
978737 TTTT
1 TTTT
978741 GTAGAGGATG
Statistics
Matches: 49, Mismatches: 12, Indels: 3
0.77 0.19 0.05
Matches are distributed among these distances:
19 22 0.45
20 27 0.55
ACGTcount: A:0.00, C:0.02, G:0.16, T:0.82
Consensus pattern (20 bp):
TTTTTGTTTTTTTTGTTGTT
Found at i:978698 original size:27 final size:26
Alignment explanation
Indices: 978658--978731 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 26
978648 CATCCGGACC
*
978658 CTTTTTGTTG-TTGTTGTTGTTTTTTT
1 CTTTTTTTTGTTTGTT-TTGTTTTTTT
978684 CTTTTTTTTGTTTGTTTGTGTTTTTTT
1 CTTTTTTTTGTTTGTTT-TGTTTTTTT
978711 -TCTTTTTTT-TTTGTTTTGTTT
1 CT-TTTTTTTGTTTGTTTTGTTT
978732 GTGTTTTTTG
Statistics
Matches: 44, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
25 5 0.11
26 18 0.41
27 21 0.48
ACGTcount: A:0.00, C:0.04, G:0.15, T:0.81
Consensus pattern (26 bp):
CTTTTTTTTGTTTGTTTTGTTTTTTT
Found at i:978727 original size:9 final size:9
Alignment explanation
Indices: 978659--978742 Score: 62
Period size: 9 Copynumber: 9.1 Consensus size: 9
978649 ATCCGGACCC
*
978659 TTTTTGTTG
1 TTTTTTTTG
* *
978668 TTGTTGTTG
1 TTTTTTTTG
*
978677 -TTTTTTTC
1 TTTTTTTTG
978685 TTTTTTTTG
1 TTTTTTTTG
*
978694 TTTGTTTGTG
1 TTT-TTTTTG
*
978704 TTTTTTTTCTT
1 -TTTTTTT-TG
978715 TTTTTTTTG
1 TTTTTTTTG
*
978724 TTTTGTTTG
1 TTTTTTTTG
*
978733 TGTTTTTTG
1 TTTTTTTTG
978742 T
1 T
978743 AGAGGATGGC
Statistics
Matches: 59, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
8 5 0.08
9 35 0.59
10 15 0.25
11 4 0.07
ACGTcount: A:0.00, C:0.02, G:0.17, T:0.81
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:978729 original size:31 final size:29
Alignment explanation
Indices: 978659--978740 Score: 107
Period size: 31 Copynumber: 2.8 Consensus size: 29
978649 ATCCGGACCC
978659 TTTTTGTTGTTG-TTGT-TGTTTTTTTCTTT
1 TTTTTGTT-TTGTTTGTGT-TTTTTTTCTTT
978688 TTTTTG-TTTGTTTGTGTTTTTTTTCTTTTT
1 TTTTTGTTTTGTTTGTGTTTTTTTTC--TTT
978718 TTTTTGTTTTGTTTGTGTTTTTT
1 TTTTTGTTTTGTTTGTGTTTTTT
978741 GTAGAGGATG
Statistics
Matches: 48, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
27 3 0.06
28 13 0.27
29 7 0.15
30 9 0.19
31 16 0.33
ACGTcount: A:0.00, C:0.02, G:0.16, T:0.82
Consensus pattern (29 bp):
TTTTTGTTTTGTTTGTGTTTTTTTTCTTT
Found at i:978736 original size:6 final size:5
Alignment explanation
Indices: 978660--978738 Score: 51
Period size: 5 Copynumber: 15.8 Consensus size: 5
978650 TCCGGACCCT
*
978660 TTTTG TTGTTG TTGTTG -TTT- TTTTC TTTT- TTTTG -TTTG TTTGTG
1 TTTTG TT-TTG TT-TTG TTTTG TTTTG TTTTG TTTTG TTTTG TTT-TG
* *
978704 TTTT- TTTTCT TTTTT TTTTG TTTTG TTTGTG TTTT
1 TTTTG TTTT-G TTTTG TTTTG TTTTG TTT-TG TTTT
978739 TTGTAGAGGA
Statistics
Matches: 64, Mismatches: 1, Indels: 18
0.77 0.01 0.22
Matches are distributed among these distances:
4 17 0.27
5 24 0.38
6 23 0.36
ACGTcount: A:0.00, C:0.03, G:0.16, T:0.81
Consensus pattern (5 bp):
TTTTG
Found at i:986511 original size:33 final size:33
Alignment explanation
Indices: 986469--986534 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
986459 GCCAAGGGAA
***
986469 TGTATCGATACATTTTTCTTTGCATCGATACAT
1 TGTATCGATACATGGATCTTTGCATCGATACAT
*
986502 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTTTGCATCGATACAT
986535 CTTGAAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATGGATCTTTGCATCGATACAT
Found at i:989056 original size:28 final size:29
Alignment explanation
Indices: 989016--989074 Score: 84
Period size: 28 Copynumber: 2.0 Consensus size: 29
989006 TTAATCATCG
*
989016 GGGATACTCCAACCCCG-TTATTTCCAAA
1 GGGATACACCAACCCCGATTATTTCCAAA
989044 GGGATACACCAACCCCGACTTTATTTCCAAA
1 GGGATACACCAACCCCGA--TTATTTCCAAA
989075 ATATTGATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 16 0.59
31 11 0.41
ACGTcount: A:0.31, C:0.32, G:0.14, T:0.24
Consensus pattern (29 bp):
GGGATACACCAACCCCGATTATTTCCAAA
Found at i:989222 original size:53 final size:52
Alignment explanation
Indices: 989044--989265 Score: 227
Period size: 52 Copynumber: 4.3 Consensus size: 52
989034 TATTTCCAAA
* ** * *** *
989044 GGGATACACCAACCCCGACTTTATTTCC-AAAATATTGATTTTTCATAATCG
1 GGGATACTCCAACCCCGGTTTTATTTCCAAAAACACCAATTTTTCCTAATCG
* * * *
989095 GGGATACTCCAACCCCGGTTTTA-TTGCTAAAACACTAATTTTTCCACAATCG
1 GGGATACTCCAACCCCGGTTTTATTTCCAAAAACACCAATTTTTCC-TAATCG
*
989147 GGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTTTCCTTTAATCG
1 GGGATACTCCAACCCCGGTTTTATTTCCAAAAACACCAATTTTTCC--TAATCG
* * *
989200 GGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCAC-AATCG
1 GGGATACTCCAACCCCGGTTTTATTTCCAAAAACACCAATTTTTC-CTAATCG
*
989252 AGGATACTCCAACC
1 GGGATACTCCAACC
989266 TCGTTATCTC
Statistics
Matches: 146, Mismatches: 19, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
50 3 0.02
51 33 0.23
52 61 0.42
53 33 0.23
54 15 0.10
55 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (52 bp):
GGGATACTCCAACCCCGGTTTTATTTCCAAAAACACCAATTTTTCCTAATCG
Found at i:989285 original size:28 final size:28
Alignment explanation
Indices: 989253--989324 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
989243 TCACAATCGA
* **
989253 GGATACTCCAACCTCGTTA-TCTCATTGG
1 GGATACTCCAACCCCGTTACT-TCAGAGG
*
989281 GGATACTCCAACCCCGTTACTTCCGAGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
989309 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
989325 GCTTTATTCC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 38 0.97
29 1 0.03
ACGTcount: A:0.22, C:0.35, G:0.19, T:0.24
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTACTTCAGAGG
Found at i:989343 original size:264 final size:262
Alignment explanation
Indices: 988873--989375 Score: 765
Period size: 264 Copynumber: 1.9 Consensus size: 262
988863 TTCTCAATTC
* * * * *
988873 TCCACAATCGAGGATATTCCAACTCCTATTTTATTTTCAAGACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGAGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
*
988938 TACTCCAACTCCGATTTTATTTCCAAAAAAAATACCAAATTTTCACAATCGGGGATACTCCAACC
66 TACTCCAACTCCGATTTTATTTCC--AAAAAATACCAAATTTTCACAATCGAGGATACTCCAACC
*
989003 CCGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCAAAGGGATACACCAACCCCGACTTTAT
129 CCGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCAAAGGGATACACCAACCCCGACTTTAT
* *
989068 TTCCAAAATATTGATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAA
194 TCCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAA
989133 TTTT
259 TTTT
* * *
989137 TCCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTTCCTTTAATCGGG
1 TCCACAATCGAGGATACTCCAACCCCGATTTTATTTTCAAAACACCAA-TTTT-CTATAATCGGG
*
989202 GATACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTTTTCACAATCGAGGATACTCCAACC
64 GATACTCCAACTCCGATTTTATTTCCAAAAAATACCAAATTTTCACAATCGAGGATACTCCAACC
* * * * * * *
989266 TCGTTATCTCATTGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTA
129 CCGTTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCAAAGGGATACACCAACCCCGACTTTA
*
989331 TTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAACCCCG
193 TTCCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCG
989376 TTATTTTCGA
Statistics
Matches: 215, Mismatches: 21, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
263 41 0.19
264 134 0.62
265 4 0.02
266 36 0.17
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (262 bp):
TCCACAATCGAGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAATACCAAATTTTCACAATCGAGGATACTCCAACCCC
GTTAATCATCGGGGATACTCCAACCCCGTTACTTCCAAAGGGATACACCAACCCCGACTTTATTC
CCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATT
TT
Found at i:989457 original size:78 final size:79
Alignment explanation
Indices: 989279--989481 Score: 223
Period size: 78 Copynumber: 2.6 Consensus size: 79
989269 TTATCTCATT
* * * * *
989279 GGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATATT
1 GGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGGATTTATTCCCAAAATATC
* **
989344 GATTTCTCATAATT
66 GATTTCTCACAACC
* * ** **
989358 GGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAATCCC-GATTTTTTTTC-TGATCAT
1 GGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGGATTTATTCCCAAAAT-AT
989421 CGATTTCTCACAACC
65 CGATTTCTCACAACC
* *
989436 GGGGATACTCCAACCCCGTTATTTTC-AAGGAAACACTCCAACCCCG
1 GGGGATACTCCAACCCCGTTATTTTCGAAGG-GATACTCCAACCCCG
989482 TTATTATCTC
Statistics
Matches: 104, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
77 6 0.06
78 57 0.55
79 41 0.39
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGGATTTATTCCCAAAATATC
GATTTCTCACAACC
Found at i:1001893 original size:8 final size:7
Alignment explanation
Indices: 1001876--1001949 Score: 55
Period size: 7 Copynumber: 10.4 Consensus size: 7
1001866 CCTTCTCTTC
1001876 AAAA-AA
1 AAAAGAA
1001882 AAAAGCAA
1 AAAAG-AA
1001890 AAAA-AA
1 AAAAGAA
1001896 AAAAGAA
1 AAAAGAA
*
1001903 AAAA-AC
1 AAAAGAA
*
1001909 AAAACAA
1 AAAAGAA
*
1001916 AAAACAAA
1 AAAA-GAA
1001924 ACAAAGAA
1 A-AAAGAA
*
1001932 AAAGAGAG
1 AAA-AGAA
1001940 AAAAGAA
1 AAAAGAA
1001947 AAA
1 AAA
1001950 GAACCTACTT
Statistics
Matches: 55, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
6 15 0.27
7 19 0.35
8 18 0.33
9 3 0.05
ACGTcount: A:0.84, C:0.07, G:0.09, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:1001928 original size:12 final size:11
Alignment explanation
Indices: 1001875--1001924 Score: 66
Period size: 12 Copynumber: 4.5 Consensus size: 11
1001865 ACCTTCTCTT
1001875 CAAAAAAAAAA
1 CAAAAAAAAAA
1001886 GCAAAAAAAAAA
1 -CAAAAAAAAAA
*
1001898 -AAGAAAAAAA
1 CAAAAAAAAAA
1001908 CAAAACAAAAAA
1 CAAAA-AAAAAA
1001920 CAAAA
1 CAAAA
1001925 CAAAGAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
10 9 0.26
11 3 0.09
12 22 0.65
ACGTcount: A:0.86, C:0.10, G:0.04, T:0.00
Consensus pattern (11 bp):
CAAAAAAAAAA
Found at i:1003018 original size:59 final size:58
Alignment explanation
Indices: 1002919--1003632 Score: 747
Period size: 55 Copynumber: 12.3 Consensus size: 58
1002909 TCCGCTTTTT
* **
1002919 AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGA-CCCTTTT-CTTTTAAAGCCCACACAAGTTGGTGGCACCTT-C
*
1002980 AGTCCTCAAAGAGCGGGACCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* * *
1003038 AGTCCTCAAAAAGCGGGACGCCTTTTCTTTAAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGAC-CCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* * *
1003097 AGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGA-CCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* * *
1003156 AGTCCTTAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGA-CCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACC-TTC
* * * **
1003217 AGTCCCCAAAAAGCAGGACCCCTTTC--AAAAAGCCCACACAAGTTGGTGGCA-CTTCC
1 AGTCCTCAAAGAGCAGGACCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-C
* * *
1003273 AGTCCTCAAAGAGCAGGGCGCCTTCTCCTCTTAAAGCCCACACAAGTTGGTGGCA-CTTCC
1 AGTCCTCAAAGAGCAGGAC-CCTT-TTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-C
*
1003333 TAGTCCTCAAAGAGCAGGACGC----CTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCC
1 -AGTCCTCAAAGAGCAGGACCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT--C
* *
1003389 AGTCCTCAAAAAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCC
1 AGTCCTCAAAGAGCAGGAC-CCTT-TTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-C
* **
1003449 TAGTCCTCAAAAAGCAGGA----TGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 -AGTCCTCAAAGAGCAGGACCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTC
*
1003505 AGTCCTCAAAGAGTAGGACACC---TC--TTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGAC-CCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTC
* * * *
1003560 AGTCCTCAAAGAGCAGGATGCC-TTTC----AAAGCCCACACGAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGA-CCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTC
*
1003615 AATCCTCAAAGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
1003633 TACACTTTAT
Statistics
Matches: 581, Mismatches: 44, Indels: 62
0.85 0.06 0.09
Matches are distributed among these distances:
55 187 0.32
56 24 0.04
57 31 0.05
58 21 0.04
59 150 0.26
60 66 0.11
61 102 0.18
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (58 bp):
AGTCCTCAAAGAGCAGGACCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
Found at i:1003431 original size:116 final size:115
Alignment explanation
Indices: 1002919--1003632 Score: 842
Period size: 116 Copynumber: 6.2 Consensus size: 115
1002909 TCCGCTTTTT
* * **
1002919 AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTC
1 AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTC
* *
1002984 CTCAAAGAGCGGGACCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
66 CTCAAAGAGCAGGACGC----CTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* * * *
1003038 AGTCCTCAAAAAGCGGGACGCCTT-TTCTTTAAAAGCCCACACAAGTTGGTGGCACCTT-CAGTC
1 AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTC
* * *
1003101 CTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTTC
66 CTCAAAGAGCAGGACG-C----CTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* * * * *
1003156 AGTCCTTAAAGAGCAGGATG-CTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
1 AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTCCAGT
* * * *
1003220 CCCCAAAAAGCAGGACCCCTTTCAAAAAGCCCACACAAGTTGGTGGCA-CTTCC
65 CCTCAAAGAGCAGGACGCCTTT--TAAAGCCCACACAAGTTGGTGGCACCTT-C
* *
1003273 AGTCCTCAAAGAGCAGGGCGCCTTCTCCTCTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGT
1 AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCC-AGT
1003337 CCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCC
65 CCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT--C
*
1003389 AGTCCTCAAAAAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGT
1 AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCC-AGT
* *
1003453 CCTCAAAAAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
65 CCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTC
* * *
1003505 AGTCCTCAAAGAGTAGGAC-AC--CT-C--TTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
1 AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTC
* * * * *
1003564 CTCAAAGAGCAGGATGCCTTTCAAAGCCCACACGAGTTGGTGGCACTTTTT
66 CTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTC
*
1003615 AATCCTCAAAGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
1003633 TACACTTTAT
Statistics
Matches: 532, Mismatches: 49, Indels: 37
0.86 0.08 0.06
Matches are distributed among these distances:
110 90 0.17
111 4 0.01
112 1 0.00
113 2 0.00
115 31 0.06
116 132 0.25
117 108 0.20
118 99 0.19
119 49 0.09
120 16 0.03
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (115 bp):
AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTC
CTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
Found at i:1004344 original size:21 final size:21
Alignment explanation
Indices: 1004314--1004391 Score: 104
Period size: 21 Copynumber: 3.7 Consensus size: 21
1004304 ATTATTATCC
1004314 AAATGTATCGATACATTTGTA
1 AAATGTATCGATACATTTGTA
* *
1004335 AAATGAATCGATACATTTGTG
1 AAATGTATCGATACATTTGTA
* *
1004356 GAATGTATCGATACA-TTCTA
1 AAATGTATCGATACATTTGTA
1004376 CAAATGTATCGATACA
1 -AAATGTATCGATACA
1004392 GGGTCCCAAC
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
20 3 0.06
21 46 0.94
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.33
Consensus pattern (21 bp):
AAATGTATCGATACATTTGTA
Found at i:1004452 original size:19 final size:19
Alignment explanation
Indices: 1004428--1004481 Score: 108
Period size: 19 Copynumber: 2.8 Consensus size: 19
1004418 TTTCAGCGAT
1004428 TTGTATCGATACATAAATG
1 TTGTATCGATACATAAATG
1004447 TTGTATCGATACATAAATG
1 TTGTATCGATACATAAATG
1004466 TTGTATCGATACATAA
1 TTGTATCGATACATAA
1004482 TTACCTACTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACATAAATG
Found at i:1004539 original size:13 final size:13
Alignment explanation
Indices: 1004521--1004546 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1004511 CATTTTTCTG
1004521 TGTATCGATACAT
1 TGTATCGATACAT
1004534 TGTATCGATACAT
1 TGTATCGATACAT
1004547 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1004543 original size:33 final size:33
Alignment explanation
Indices: 1004501--1004566 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
1004491 GCCAAGGGAA
***
1004501 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
1004534 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
1004567 CTTGAAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Done.