Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold196
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: 7488280
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 125249 characters in sequence are not A, C, G, or T
File 35 of 47
Found at i:5755827 original size:32 final size:33
Alignment explanation
Indices: 5755735--5755827 Score: 129
Period size: 32 Copynumber: 2.9 Consensus size: 33
5755725 TTTCCTCTCT
*
5755735 AAAGCCCACACAAGTCGGTGGCA-ACCTTCTCA
1 AAAGCCCACACAAGTCGGTGGCATACCTTTTCA
5755767 AAAGCCCACACAAGTCGGTGGC-TACCTTTTC-
1 AAAGCCCACACAAGTCGGTGGCATACCTTTTCA
* * *
5755798 AAAGCCCACACAAGTTGATGGCATCCCTTT
1 AAAGCCCACACAAGTCGGTGGCATACCTTT
5755828 CTTTTTTCTC
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
31 20 0.36
32 35 0.64
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.20
Consensus pattern (33 bp):
AAAGCCCACACAAGTCGGTGGCATACCTTTTCA
Found at i:5755869 original size:45 final size:45
Alignment explanation
Indices: 5755798--5755906 Score: 159
Period size: 45 Copynumber: 2.4 Consensus size: 45
5755788 CTACCTTTTC
* *
5755798 AAAGCCCACACAAGTTGATGGCATCCCTTTCTTTTTT-CTCTCTTT
1 AAAGCGCACACAAGTTGGTGGCATCCCTTTCTTTTTTCCT-TCTTT
*
5755843 AAAGAC-TACACAAGTTGGTGGCATCCCTTTCTTTTTTCCTTCTTT
1 AAAG-CGCACACAAGTTGGTGGCATCCCTTTCTTTTTTCCTTCTTT
5755888 AAAGCGCACACAAGTTGGT
1 AAAGCGCACACAAGTTGGT
5755907 CGCAACCTTT
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
44 1 0.02
45 54 0.93
46 3 0.05
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.37
Consensus pattern (45 bp):
AAAGCGCACACAAGTTGGTGGCATCCCTTTCTTTTTTCCTTCTTT
Found at i:5756180 original size:33 final size:32
Alignment explanation
Indices: 5755885--5756266 Score: 299
Period size: 31 Copynumber: 11.9 Consensus size: 32
5755875 TTTTTCCTTC
* * * **
5755885 TTTAAAGCGCACACAAGTTGGTCGCAACCTTT
1 TTTAAAGCCCACACAAGTCGGTGGCAACCCCT
* * * * *
5755917 TTCTAAAACACACACAAGTCAGTGGTAA-CTCT
1 TT-TAAAGCCCACACAAGTCGGTGGCAACCCCT
* *
5755949 TCTAAAGCCTACACAAGTCGGTGGCAA-CCCT
1 TTTAAAGCCCACACAAGTCGGTGGCAACCCCT
* * *
5755980 TTTAAAGCCCACACAAGTCGATGGCAACTCTT
1 TTTAAAGCCCACACAAGTCGGTGGCAACCCCT
* * * *
5756012 TTTAAAGCCGATACAAGTTGGTGGCAA-CTCT
1 TTTAAAGCCCACACAAGTCGGTGGCAACCCCT
* **
5756043 TCTAAAGCCCACACAAGTCGGTGGCAA-CTTT
1 TTTAAAGCCCACACAAGTCGGTGGCAACCCCT
* * * *
5756074 TTTCCAAAGCCCGCACAAGTTGGAGGCAACCTCT
1 TTT--AAAGCCCACACAAGTCGGTGGCAACCCCT
* *** * *
5756108 TCTAAAAATCACACAAG-CTGATGGCAACCTCT
1 TTTAAAGCCCACACAAGTC-GGTGGCAACCCCT
*
5756140 TTTAAAGCCCACACAAATCGGTGGCAACCCCCT
1 TTTAAAGCCCACACAAGTCGGTGGCAA-CCCCT
* * *
5756173 TTTAAAGCCCATACAAGTCGATAGCAACCTCCT
1 TTTAAAGCCCACACAAGTCGGTGGCAACC-CCT
* * *
5756206 TTTAAAGCTCACACAAGTTGGTAGCAA-CCCT
1 TTTAAAGCCCACACAAGTCGGTGGCAACCCCT
* *
5756237 TCTAAAGCCCACACAAGTAGGTGGCAACCC
1 TTTAAAGCCCACACAAGTCGGTGGCAACCC
5756267 TCTCAAAAGC
Statistics
Matches: 277, Mismatches: 63, Indels: 20
0.77 0.17 0.06
Matches are distributed among these distances:
31 102 0.37
32 76 0.27
33 94 0.34
34 5 0.02
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (32 bp):
TTTAAAGCCCACACAAGTCGGTGGCAACCCCT
Found at i:5756265 original size:64 final size:61
Alignment explanation
Indices: 5755885--5756264 Score: 350
Period size: 64 Copynumber: 6.0 Consensus size: 61
5755875 TTTTTCCTTC
* * * * *
5755885 TTTAAAGCGCACACAAGTTGGTCGCAACCTTTTTCTAAAACACACACAAGTC-AGTGGTAACTCT
1 TTTAAAGC-CACACAAGTTGGTGGCAACC--CTTCTAAAGCCCACACAAGTCGA-TGGCAACTCT
* * *
5755949 TCTAAAGCCTACACAAGTCGGTGGCAACCCTTTTAAAGCCCACACAAGTCGATGGCAACTCTT
1 TTTAAAGCC-ACACAAGTTGGTGGCAACCCTTCTAAAGCCCACACAAGTCGATGGCAACTC-T
* * * *
5756012 TTTAAAGCCGATACAAGTTGGTGGCAACTCTTCTAAAGCCCACACAAGTCGGTGGCAACTTT
1 TTTAAAGCC-ACACAAGTTGGTGGCAACCCTTCTAAAGCCCACACAAGTCGATGGCAACTCT
* * ***
5756074 TTTCCAAAGCCCGCACAAGTTGGAGGCAACCTCTTCTAAAAATCACACAAG-CTGATGGCAACCT
1 TTT--AAAG-CCACACAAGTTGGTGGCAACC-CTTCTAAAGCCCACACAAGTC-GATGGCAA-CT
5756138 CT
60 CT
* * * * *
5756140 TTTAAAGCCCACACAAATCGGTGGCAACCCCCTTTTAAAGCCCATACAAGTCGATAGCAACCTCC
1 TTTAAAG-CCACACAAGTTGGTGGCAA--CCCTTCTAAAGCCCACACAAGTCGATGGCAA-CT-C
5756205 T
61 T
* * *
5756206 TTTAAAGCTCACACAAGTTGGTAGCAACCCTTCTAAAGCCCACACAAGTAGGTGGCAAC
1 TTTAAAGC-CACACAAGTTGGTGGCAACCCTTCTAAAGCCCACACAAGTCGATGGCAAC
5756265 CCTCTCAAAA
Statistics
Matches: 259, Mismatches: 43, Indels: 29
0.78 0.13 0.09
Matches are distributed among these distances:
62 29 0.11
63 57 0.22
64 90 0.35
65 50 0.19
66 33 0.13
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (61 bp):
TTTAAAGCCACACAAGTTGGTGGCAACCCTTCTAAAGCCCACACAAGTCGATGGCAACTCT
Found at i:5756922 original size:61 final size:60
Alignment explanation
Indices: 5756691--5756922 Score: 312
Period size: 61 Copynumber: 3.9 Consensus size: 60
5756681 TATGGGGATG
* * **
5756691 TCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTTAGTCCTCAAAGAGCAGGACG----C
1 TCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCCTTC
* * * *
5756747 -CTTTTAAAGCCTACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGTAGGACACCTTC
1 TCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCCTTC
*
5756806 TCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTTAAAGAGCAGGACGCCTTC
1 T-CTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCCTTC
* *
5756867 TCTTTTTAAAGCCTACACAAGTTGGTGGCACTTCCTAGTCCTTAAAGAGCAGGACG
1 TC-TTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACG
5756923 TTCTCTCCTT
Statistics
Matches: 155, Mismatches: 14, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
55 46 0.30
59 1 0.01
60 1 0.01
61 107 0.69
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (60 bp):
TCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCCTTC
Found at i:5756933 original size:122 final size:116
Alignment explanation
Indices: 5756692--5756921 Score: 334
Period size: 116 Copynumber: 1.9 Consensus size: 116
5756682 ATGGGGATGT
* **
5756692 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGC
1 CTTTCAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGC
*
5756757 CTACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGTAGGACACCTTCTC
66 CTACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACACCTTCTC
* *
5756808 CTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTTAAAGAGCAGGACGCCTTCTCTTTT
1 CTTTCAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACG----C-C-TTT
* *
5756873 TAAAGCCTACACAAGTTGGTGGCACTTCCTAGTCCTTAAAGAGCAGGAC
60 TAAAGCCTACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGAC
5756922 GTTCTCTCCT
Statistics
Matches: 100, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
116 49 0.49
120 1 0.01
121 1 0.01
122 49 0.49
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (116 bp):
CTTTCAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGC
CTACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACACCTTCTC
Found at i:5757176 original size:116 final size:116
Alignment explanation
Indices: 5756942--5757254 Score: 369
Period size: 116 Copynumber: 2.6 Consensus size: 116
5756932 TTCGCCCTTT
* * * *
5756942 AGTCATCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAA
1 AGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTC-AGTCCTCAA
* * * **
5757007 AGAGCAGGACACCTTCTCCTTTTAAAGCCTATAAAAGTTGGTGGCATTTTCC
65 AGAGCAGGACACCTTCTCCTTTCAAAGCCCACAAAAGTTGGTGGCACCTTCC
5757059 AGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAA
1 AGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAA
** * *
5757124 GAGCAGGATGCTTTCT-CTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCC
66 GAGCAGGACACCTTCTCCTTT-CAAAGCCCACAAAAGTTGGTGGCACCTTCC
* * * *
5757175 AGTCCTCAAAGAGTATGACGCCTTTTCTTTTCAAAGCCCAAACAAGCTGGTGGCACTTTTT-AGT
1 AGTCCTCAAAGAGCAAGACG-C----C-TTTCAAAGCCCACACAAGTTGGTGGCA-TTTTTCAGT
*
5757239 CCTCAGAGAGCAGGAC
59 CCTCAAAGAGCAGGAC
5757255 GCATTTTCCT
Statistics
Matches: 169, Mismatches: 19, Indels: 11
0.85 0.10 0.06
Matches are distributed among these distances:
115 4 0.02
116 65 0.38
117 52 0.31
121 1 0.01
122 42 0.25
123 5 0.03
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (116 bp):
AGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAA
GAGCAGGACACCTTCTCCTTTCAAAGCCCACAAAAGTTGGTGGCACCTTCC
Found at i:5757262 original size:61 final size:60
Alignment explanation
Indices: 5756939--5757268 Score: 326
Period size: 61 Copynumber: 5.6 Consensus size: 60
5756929 CCTTTCGCCC
*
5756939 TTTAGTCATCAAAGAGCAGGACGC----CTTTT-AAAGCCCACACAAGTTGGTGGCACTT
1 TTTAGTCCTCAAAGAGCAGGACGCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTT
* * * * *
5756994 TTCTAGTCCTCAAAGAGCAGGACACCTTCTCCTTTT-AAAGCCTATAAAAGTTGGTGGCA-TT
1 TT-TAGTCCTCAAAGAGCAGGAC-GCTT-TTCTTTTCAAAGCCCACACAAGTTGGTGGCACTT
* *
5757055 TTCCAGTCCTCAAAGAGCAAGACGC----C-TTTCAAAGCCCACACAAGTTGGTGGCA-TT
1 TT-TAGTCCTCAAAGAGCAGGACGCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTT
* * *
5757110 TTTCAGTCCTCAAAGAGCAGGATGCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCACCT
1 TTT-AGTCCTCAAAGAGCAGGACGCTTT-TCTTTTCAAAGCCCACACAAGTTGGTGGCACTT
** * * * *
5757172 TCCAGTCCTCAAAGAGTATGACGCCTTTTCTTTTCAAAGCCCAAACAAGCTGGTGGCACTT
1 TTTAGTCCTCAAAGAGCAGGACG-CTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTT
*
5757233 TTTAGTCCTCAGAGAGCAGGACGCATTTTCCTTTTC
1 TTTAGTCCTCAAAGAGCAGGACGC-TTTT-CTTTTC
5757269 TCCCTTATCC
Statistics
Matches: 226, Mismatches: 30, Indels: 31
0.79 0.10 0.11
Matches are distributed among these distances:
54 3 0.01
55 46 0.20
56 19 0.08
57 1 0.00
60 3 0.01
61 117 0.52
62 37 0.16
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (60 bp):
TTTAGTCCTCAAAGAGCAGGACGCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTT
Found at i:5757327 original size:45 final size:42
Alignment explanation
Indices: 5757276--5757378 Score: 127
Period size: 42 Copynumber: 2.4 Consensus size: 42
5757266 TTCTCCCTTA
*
5757276 TCCTCAAAGAACAGGACACACTTCATTCCCTTCT-TTTCCCTTTTG
1 TCCTCAAAGAGCAGGACACACTTCA-T-CCTTCTCTTT--CTTTTG
* * *
5757321 TCCTCAAAGAGCAGGACGCACTTTATCTTTCTCTTTCTTTTG
1 TCCTCAAAGAGCAGGACACACTTCATCCTTCTCTTTCTTTTG
5757363 TCCTCAAAGAGCAGGA
1 TCCTCAAAGAGCAGGA
5757379 TGCATTTCGT
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
42 22 0.42
43 5 0.09
44 4 0.08
45 22 0.42
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.34
Consensus pattern (42 bp):
TCCTCAAAGAGCAGGACACACTTCATCCTTCTCTTTCTTTTG
Found at i:5758944 original size:28 final size:28
Alignment explanation
Indices: 5758904--5758972 Score: 93
Period size: 28 Copynumber: 2.5 Consensus size: 28
5758894 ATAAAGCCGG
* ** *
5758904 GGTTTGAGTATCCCCTCGGAAGTAACGA
1 GGTTGGAGTATCCCCGAGGAAATAACGA
*
5758932 GGTTGGAGTATCCCCGATGAAATAACGA
1 GGTTGGAGTATCCCCGAGGAAATAACGA
5758960 GGTTGGAGTATCC
1 GGTTGGAGTATCC
5758973 TCGATTGTGA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (28 bp):
GGTTGGAGTATCCCCGAGGAAATAACGA
Found at i:5759023 original size:51 final size:51
Alignment explanation
Indices: 5758961--5759076 Score: 142
Period size: 51 Copynumber: 2.3 Consensus size: 51
5758951 AAATAACGAG
* * *
5758961 GTTGGAGTATCCTCGATTGTGAAAAATTAGTGTTTTGGAAATAAAATCGGA
1 GTTGGAATATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAATCGGA
* * * * *
5759012 GTTGGAATATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAACCGGG
1 GTTGGAATATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAATCGGA
* *
5759063 GTTTGAGTATCCCC
1 GTTGGAATATCCCC
5759077 TCGAAAATAA
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.32
Consensus pattern (51 bp):
GTTGGAATATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAATCGGA
Found at i:5759112 original size:237 final size:238
Alignment explanation
Indices: 5758687--5759315 Score: 687
Period size: 237 Copynumber: 2.6 Consensus size: 238
5758677 TTTTGGAGAT
* *
5758687 AATAACG-GGATTGGAGTATCCCC--TCGAAAATAACGGGGTTGGAGAATCCTCGATTGTGAAAA
1 AATAACGAGG-TTGGAGTATCCCCGAT-G-AAATAACGAGGTTGGAGTATCCTCGATTGTGAAAA
* * * * * * * * *
5758749 A-TCGATGATTTAGAAATAAGACA-AGG-GTTGAAGTGTCCCCGATTATAGAAAATAGATGTTTC
63 ATTAG-TGTTTTGGAAATAA-A-ATCGGAGTTGAA-TATCCCCGATTATGGAAAATTGGTGTTTT
* ** *
5758811 AAAAATAAAGTCGGGATTGGAGTA--CCCTCGTGAAAATAATAGGGTTGGAGTATCCCCAATTAT
124 AGAAATAAAACCGGGGTTGGAGTATCCCCTCG-GAAAATAATAGGGTTGGAGTATCCCCAATTAT
* * * * *
5758874 GAGAAA-TCAATATTTTGGAAATAAAGCC-GGGGTTTGAGTATCCCCTCGGA
188 GAAAAACT-AATATTTTAGAAATAAAACCGGGGGTTGGAGTATCCCCTCGAA
*
5758924 AGTAACGAGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAATT
1 AATAACGAGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAATT
* *
5758989 AGTGTTTTGGAAATAAAATCGGAGTTGGAATATCCCCGATTGTGGAGAATTGGTGTTTTAGAAAT
66 AGTGTTTTGGAAATAAAATCGGAGTT-GAATATCCCCGATTATGGAAAATTGGTGTTTTAGAAAT
* * * *
5759054 AAAACCGGGGTTTGAGTATCCCCTC-GAAAATAA-CGGGATTGGAGTATCTCCGATTATGAAAAA
130 AAAACCGGGGTTGGAGTATCCCCTCGGAAAATAATAGGG-TTGGAGTATCCCCAATTATGAAAAA
*
5759117 CTAATGTTTTAGAAATAAAACCGGGGGTTGGAGTATCCCCTCGAA
194 CTAATATTTTAGAAATAAAACCGGGGGTTGGAGTATCCCCTCGAA
* *
5759162 AATAAC-AGGGTTGGAGTATCCCCGATG-ATTAAC-AGGATTGGAGTATCCCCGATTGTGAAAAA
1 AATAACGA-GGTTGGAGTATCCCCGATGAAATAACGAGG-TTGGAGTATCCTCGATTGTGAAAAA
* * *
5759224 TTAGTATTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTAAAGGAAAATTGGTGTTTT-G
64 TTAGT-GTTTTGGAAATAAAATCGGAGTT-GAATATCCCCGATT-ATGGAAAATTGGTGTTTTAG
*
5759288 AAAATAAAACTGGGGTTGGAGTATCCCC
126 -AAATAAAACCGGGGTTGGAGTATCCCC
5759316 GATTGTGGAA
Statistics
Matches: 336, Mismatches: 39, Indels: 32
0.83 0.10 0.08
Matches are distributed among these distances:
235 1 0.00
236 9 0.03
237 191 0.57
238 89 0.26
239 46 0.14
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (238 bp):
AATAACGAGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAATT
AGTGTTTTGGAAATAAAATCGGAGTTGAATATCCCCGATTATGGAAAATTGGTGTTTTAGAAATA
AAACCGGGGTTGGAGTATCCCCTCGGAAAATAATAGGGTTGGAGTATCCCCAATTATGAAAAACT
AATATTTTAGAAATAAAACCGGGGGTTGGAGTATCCCCTCGAA
Found at i:5759173 original size:28 final size:28
Alignment explanation
Indices: 5759141--5759211 Score: 92
Period size: 27 Copynumber: 2.6 Consensus size: 28
5759131 ATAAAACCGG
5759141 GGGTTGGAGTATCCCCTCGA-AAATAACA
1 GGGTTGGAGTATCCCC-CGATAAATAACA
* *
5759169 GGGTTGGAGTAT-CCCCGATGATTAACA
1 GGGTTGGAGTATCCCCCGATAAATAACA
*
5759196 GGATTGGAGTATCCCC
1 GGGTTGGAGTATCCCC
5759212 GATTGTGAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
26 3 0.08
27 20 0.53
28 15 0.39
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCCGATAAATAACA
Found at i:5759345 original size:51 final size:51
Alignment explanation
Indices: 5759199--5759431 Score: 254
Period size: 51 Copynumber: 4.5 Consensus size: 51
5759189 ATTAACAGGA
* * *
5759199 TTGGAGTATCCCCGATTGTGAAAAATTAGTATTTTTGGAAATAAAATCGGAG
1 TTGGAGTATCCCCGATTGTGGAAAATTAGT-GTTTTGAAAATAAAATCGGAG
* ** * *
5759251 TTAGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAA-CTGGGG
1 TTGGAGTATCCCCGATT-GTGGAAAATTAGTGTTTTGAAAATAAAATC-GGAG
* *
5759303 TTGGAGTATCCCCGATTGTGGAAAATTTGTGTTTCGAAAATAAAATCGGAG
1 TTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTGAAAATAAAATCGGAG
* * * * *
5759354 TTAGAGTATTCCCAATTGTGGAAAATTAGTGTTTT-AGAAATAAAACCGGGG
1 TTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTGA-AAATAAAATCGGAG
* * *
5759405 TTGGAGTATCCCTGATTATGAAAAATT
1 TTGGAGTATCCCCGATTGTGGAAAATT
5759432 GAGAAACTTA
Statistics
Matches: 150, Mismatches: 27, Indels: 9
0.81 0.15 0.05
Matches are distributed among these distances:
50 1 0.01
51 91 0.61
52 49 0.33
53 9 0.06
ACGTcount: A:0.34, C:0.10, G:0.24, T:0.32
Consensus pattern (51 bp):
TTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTGAAAATAAAATCGGAG
Found at i:5759405 original size:102 final size:104
Alignment explanation
Indices: 5759199--5759431 Score: 319
Period size: 102 Copynumber: 2.3 Consensus size: 104
5759189 ATTAACAGGA
* * *
5759199 TTGGAGTATCCCCGATTGTGAAAAATTAGTATTTTTGGAAATAAAATCGGAGTTAGAGTATCCCC
1 TTGGAGTATCCCCGATTGTGAAAAATTAGTAGTTTCGAAAATAAAATCGGAGTTAGAGTATCCCC
* * *
5759264 GATTAAAGGAAAATTGGTGTTTTGAAAATAAAACTGGGG
66 AATTAAAGGAAAATTAGTGTTTTGAAAATAAAACCGGGG
* * *
5759303 TTGGAGTATCCCCGATTGTGGAAAATTTGT-GTTTCGAAAATAAAATCGGAGTTAGAGTATTCCC
1 TTGGAGTATCCCCGATTGTGAAAAATTAGTAGTTTCGAAAATAAAATCGGAGTTAGAGTATCCCC
**
5759367 AATT-GTGGAAAATTAGTGTTTT-AGAAATAAAACCGGGG
66 AATTAAAGGAAAATTAGTGTTTTGA-AAATAAAACCGGGG
* *
5759405 TTGGAGTATCCCTGATTATGAAAAATT
1 TTGGAGTATCCCCGATTGTGAAAAATT
5759432 GAGAAACTTA
Statistics
Matches: 114, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
101 1 0.01
102 52 0.46
103 33 0.29
104 28 0.25
ACGTcount: A:0.34, C:0.10, G:0.24, T:0.32
Consensus pattern (104 bp):
TTGGAGTATCCCCGATTGTGAAAAATTAGTAGTTTCGAAAATAAAATCGGAGTTAGAGTATCCCC
AATTAAAGGAAAATTAGTGTTTTGAAAATAAAACCGGGG
Found at i:5761892 original size:19 final size:21
Alignment explanation
Indices: 5761868--5761917 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
5761858 CGATACACTA
*
5761868 TATCGATACA-TTAAT-TATG
1 TATCGATACATTTAATGAATG
*
5761887 TATCGATACATTTACTGAATG
1 TATCGATACATTTAATGAATG
5761908 TATCGATACA
1 TATCGATACA
5761918 AATTATTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 10 0.37
20 4 0.15
21 13 0.48
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (21 bp):
TATCGATACATTTAATGAATG
Found at i:5762761 original size:45 final size:42
Alignment explanation
Indices: 5762634--5762768 Score: 137
Period size: 42 Copynumber: 3.1 Consensus size: 42
5762624 CCCGTTTTTC
* * ** *
5762634 GAGGACAAAGGAAAAAGGGAAACGAAA-TACGTCCTGCTCTCT
1 GAGGACAAAAGAAAAA-GGAAAAGAAAGTGTGTCCTGCTCTTT
* *
5762676 GAGGACAAAAGAAAAAGGAAAATAAAGTGTGTCTTGCTCTTT
1 GAGGACAAAAGAAAAAGGAAAAGAAAGTGTGTCCTGCTCTTT
* * *
5762718 GAGGACAAAAGAGAAAAGAAGTAAAGGAAGTGTGTCCTACTCTTT
1 GAGGACAAAAGA-AAAAG--GAAAAGAAAGTGTGTCCTGCTCTTT
5762763 GAGGAC
1 GAGGAC
5762769 TGAAAAGTGC
Statistics
Matches: 77, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
41 8 0.10
42 38 0.49
43 5 0.06
45 26 0.34
ACGTcount: A:0.41, C:0.13, G:0.27, T:0.19
Consensus pattern (42 bp):
GAGGACAAAAGAAAAAGGAAAAGAAAGTGTGTCCTGCTCTTT
Found at i:5762885 original size:61 final size:60
Alignment explanation
Indices: 5762752--5762963 Score: 232
Period size: 61 Copynumber: 3.5 Consensus size: 60
5762742 AGGAAGTGTG
* * **
5762752 TCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGACTTTG-AAAAGAAAAGGTG
1 TCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAAG-AAA-GCA
* * * *
5762813 TCCTACCCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGTTTTGCAAAAAGAAAGCA
1 TCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTG-AAAAAGAAAGCA
* * * * *
5762874 TCCTGCTCTTTGAAGACTAAAAAGTGCCACCAACTTGTGTGTGCTTT-AAAAGGAGAAGGCA
1 TCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAA--AGAAAGCA
*
5762935 TCCTGCTCTTTGAGGACT-AAAAGTGCCAC
1 TCCTACTCTTTGAGGACTGAAAAGTGCCAC
5762964 TGGCTTGTGG
Statistics
Matches: 129, Mismatches: 18, Indels: 9
0.83 0.12 0.06
Matches are distributed among these distances:
59 4 0.03
60 11 0.09
61 106 0.82
62 3 0.02
63 5 0.04
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.25
Consensus pattern (60 bp):
TCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAAGAAAGCA
Found at i:5763112 original size:61 final size:60
Alignment explanation
Indices: 5763023--5763340 Score: 367
Period size: 61 Copynumber: 5.4 Consensus size: 60
5763013 AAAGGAGAGA
5763023 GCGTCCTGCTCTTTGAGGACTAGG-AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACT-GGAAAGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAG
*
5763084 GCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAATTTGTGTGGGCTTTGAAAA-AAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAG
* * * * * * *
5763144 GCATCCTACTCTTTGAGGATTGGAAAATGCCACCCACTTGTGTGAGCTTTGAAAAGAAAAA
1 GCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAG
* * *
5763205 GCATCCTGCTCTTTGAGGACTGGAAAATGCAACCAACTTGTGTGGGCTTT----G-AAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAG
* *
5763260 GCGTCCTGCAT-TTTGAGGA-TTGAAAGGTGCCACCAACTTGTGTGGGCGTT----G-AAAG
1 GCGTCCTGC-TCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAG
5763315 GCGTCCTGCTCTTTGAGGACTGGAAA
1 GCGTCCTGCTCTTTGAGGACTGGAAA
5763341 AGCGGAAGGA
Statistics
Matches: 229, Mismatches: 21, Indels: 19
0.85 0.08 0.07
Matches are distributed among these distances:
54 6 0.03
55 62 0.27
56 7 0.03
60 55 0.24
61 95 0.41
62 4 0.02
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.26
Consensus pattern (60 bp):
GCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAG
Found at i:5763246 original size:121 final size:121
Alignment explanation
Indices: 5763026--5763258 Score: 344
Period size: 121 Copynumber: 1.9 Consensus size: 121
5763016 GGAGAGAGCG
* * * * *
5763026 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCT
1 TCCTACTCTTTGAGGACTAGGAAATGCCACCAACTTGTGTGAGCTTTAAAAGGAAAAAGCATCCT
* * *
5763091 GCTCTTTGAGGACTGGAAAGTGCCACCAATTTGTGTGGGCTTTGAAAAAAAAGGCA
66 GCTCTTTGAGGACTGGAAAATGCAACCAACTTGTGTGGGCTTTGAAAAAAAAGGCA
* *
5763147 TCCTACTCTTTGAGGA-TTGGAAAATGCCACCCACTTGTGTGAGCTTTGAAAA-GAAAAAGCATC
1 TCCTACTCTTTGAGGACTAGG-AAATGCCACCAACTTGTGTGAGCTTT-AAAAGGAAAAAGCATC
5763210 CTGCTCTTTGAGGACTGGAAAATGCAACCAACTTGTGTGGGCTTTGAAA
64 CTGCTCTTTGAGGACTGGAAAATGCAACCAACTTGTGTGGGCTTTGAAA
5763259 GGCGTCCTGC
Statistics
Matches: 100, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
120 3 0.03
121 93 0.93
122 4 0.04
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (121 bp):
TCCTACTCTTTGAGGACTAGGAAATGCCACCAACTTGTGTGAGCTTTAAAAGGAAAAAGCATCCT
GCTCTTTGAGGACTGGAAAATGCAACCAACTTGTGTGGGCTTTGAAAAAAAAGGCA
Found at i:5764337 original size:13 final size:14
Alignment explanation
Indices: 5764314--5764376 Score: 60
Period size: 14 Copynumber: 4.5 Consensus size: 14
5764304 TTTCTCTATT
5764314 TTTTCTTTG-TTTTG
1 TTTT-TTTGCTTTTG
5764328 TTTTTTTG--TTTG
1 TTTTTTTGCTTTTG
* *
5764340 TTTTTTTTGTTTTTT
1 -TTTTTTTGCTTTTG
5764355 TTTTTTTGCTTTTGG
1 TTTTTTTGCTTTT-G
5764370 TTTTTTT
1 TTTTTTT
5764377 TTTAGAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
12 4 0.10
13 12 0.29
14 16 0.38
15 10 0.24
ACGTcount: A:0.00, C:0.03, G:0.13, T:0.84
Consensus pattern (14 bp):
TTTTTTTGCTTTTG
Found at i:5764349 original size:21 final size:20
Alignment explanation
Indices: 5764323--5764379 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
5764313 TTTTTCTTTG
5764323 TTTTGTTTTTTTGTTTGTTT-T
1 TTTTGTTTTTTT-TTT-TTTCT
5764344 TTTTGTTTTTTTTTTTTTGCT
1 TTTTGTTTTTTTTTTTTT-CT
*
5764365 TTTGGTTTTTTTTTT
1 TTTTGTTTTTTTTTT
5764380 AGAAGAGAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
19 3 0.09
20 3 0.09
21 27 0.82
ACGTcount: A:0.00, C:0.02, G:0.12, T:0.86
Consensus pattern (20 bp):
TTTTGTTTTTTTTTTTTTCT
Found at i:5764376 original size:9 final size:9
Alignment explanation
Indices: 5764313--5764377 Score: 60
Period size: 9 Copynumber: 6.9 Consensus size: 9
5764303 TTTTCTCTAT
5764313 TTTTTCTTTG
1 TTTTT-TTTG
*
5764323 TTTTGTTT-
1 TTTTTTTTG
*
5764331 TTTTGTTTG
1 TTTTTTTTG
5764340 TTTTTTTTG
1 TTTTTTTTG
*
5764349 TTTTTTTTT
1 TTTTTTTTG
5764358 TTTTGCTTTTGG
1 TTTT--TTTT-G
5764370 TTTTTTTT
1 TTTTTTTT
5764378 TTAGAAGAGA
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
8 8 0.17
9 23 0.49
10 8 0.17
11 4 0.09
12 4 0.09
ACGTcount: A:0.00, C:0.03, G:0.12, T:0.85
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:5768969 original size:124 final size:124
Alignment explanation
Indices: 5768749--5768999 Score: 502
Period size: 124 Copynumber: 2.0 Consensus size: 124
5768739 TCAGCATGAA
5768749 TCCAAGGCCTTCCTAACAAGCAGTTGTATGACGGAGTGATATCCATCACGTGGAAGTCGACTTCA
1 TCCAAGGCCTTCCTAACAAGCAGTTGTATGACGGAGTGATATCCATCACGTGGAAGTCGACTTCA
5768814 TAAGTACATGGACCGATCTACAAAGGAATGGTGATATTTCTTACGACATTTCTGTAGGT
66 TAAGTACATGGACCGATCTACAAAGGAATGGTGATATTTCTTACGACATTTCTGTAGGT
5768873 TCCAAGGCCTTCCTAACAAGCAGTTGTATGACGGAGTGATATCCATCACGTGGAAGTCGACTTCA
1 TCCAAGGCCTTCCTAACAAGCAGTTGTATGACGGAGTGATATCCATCACGTGGAAGTCGACTTCA
5768938 TAAGTACATGGACCGATCTACAAAGGAATGGTGATATTTCTTACGACATTTCTGTAGGT
66 TAAGTACATGGACCGATCTACAAAGGAATGGTGATATTTCTTACGACATTTCTGTAGGT
5768997 TCC
1 TCC
5769000 GTCAAATGCT
Statistics
Matches: 127, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
124 127 1.00
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (124 bp):
TCCAAGGCCTTCCTAACAAGCAGTTGTATGACGGAGTGATATCCATCACGTGGAAGTCGACTTCA
TAAGTACATGGACCGATCTACAAAGGAATGGTGATATTTCTTACGACATTTCTGTAGGT
Found at i:5777135 original size:28 final size:27
Alignment explanation
Indices: 5777095--5777164 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 27
5777085 AATAAAGCCG
** *
5777095 GGGTTGGAGTATCCCCTCGGAAGTAAC
1 GGGTTGGAGTATCCCCAAGGAAATAAC
*
5777122 AGGGTTGGAGTATCCCCAATGAAATAAC
1 -GGGTTGGAGTATCCCCAAGGAAATAAC
5777150 GAGGTTGGAGTATCC
1 G-GGTTGGAGTATCC
5777165 TCGATTGTGA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 1 0.03
28 36 0.97
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (27 bp):
GGGTTGGAGTATCCCCAAGGAAATAAC
Found at i:5777266 original size:51 final size:52
Alignment explanation
Indices: 5777157--5777267 Score: 129
Period size: 51 Copynumber: 2.2 Consensus size: 52
5777147 AACGAGGTTG
* *
5777157 GAGTAT-CCTCGATTGTGAAAAATTAGTGTTTTGGAAATAAAATCGGAGTTA
1 GAGTATCCCTCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGGAGTTA
* * * * *
5777208 GAATATCCCT-GATTGTGGAGAATTGGTGTTTTAGAAATAAAACCGG-GATTC
1 GAGTATCCCTCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGGAG-TTA
5777259 GAGTATCCC
1 GAGTATCCC
5777268 CTCAAAAATA
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
50 1 0.02
51 46 0.92
52 3 0.06
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (52 bp):
GAGTATCCCTCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGGAGTTA
Found at i:5777324 original size:79 final size:80
Alignment explanation
Indices: 5777228--5777379 Score: 245
Period size: 80 Copynumber: 1.9 Consensus size: 80
5777218 GATTGTGGAG
* *
5777228 AATTGGTGTTTTAGAAATAAAACC-GGGATTCG-AGTATCCCCTCAAAAATAACGGGGTTGGAGT
1 AATTGATGTTTTAGAAATAAAACCGGGGATT-GAAGTATCCCCTCAAAAATAACAGGGTTGGAGT
*
5777291 ATCTCCGATTATGAAA
65 ATCCCCGATTATGAAA
*
5777307 AATTGATGTTTTAGAAATAAAACCGGGGGTTGAAGTATCCCCTCAAAAATAACAGGGTTGGAGTA
1 AATTGATGTTTTAGAAATAAAACCGGGGATTGAAGTATCCCCTCAAAAATAACAGGGTTGGAGTA
5777372 TCCCCGAT
66 TCCCCGAT
5777380 GATAAACGGG
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
79 24 0.36
80 43 0.64
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (80 bp):
AATTGATGTTTTAGAAATAAAACCGGGGATTGAAGTATCCCCTCAAAAATAACAGGGTTGGAGTA
TCCCCGATTATGAAA
Found at i:5777435 original size:238 final size:237
Alignment explanation
Indices: 5776887--5777505 Score: 630
Period size: 236 Copynumber: 2.6 Consensus size: 237
5776877 GATAATAATG
* * * * *
5776887 GGGTTGGAGTATCCCC--TCGAAAATAGCGGGGTTGGAGAATCCCCGATTGTGAAAAA-TCGATG
1 GGGTTGGAGTATCCCCAAT-G-AAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAATTAG-TG
* * * * * * * **
5776949 ATTT-ACAAATAAGA-CAAGGGTT-GAAGTGTCCCCGATTATA-GAAAATAGATGTTTCAAAAAT
63 TTTTGA-AAATAAAATC-AGAGTTAGAA-TATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAAT
** * * * *** *
5777010 AAAGTCGGGATTGGAGTACCCCCGT-GAAAATAATAAGGTTGGAGTATCCCCAATTATGAGAAAT
125 AAAACCGGGATTAGAGTATCCCC-TCAAAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAAT
* * * ** *
5777074 CAATATTTGGAAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAGTAACA
189 CAATATTTAGAAATAAAACCGGGGTTGAAGTATCCCCTCAAAAATAACA
5777123 GGGTTGGAGTATCCCCAATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAATTAGTGTTT
1 GGGTTGGAGTATCCCCAATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAATTAGTGTTT
* * * ** *
5777188 TGGAAATAAAATCGGAGTTAGAATATCCCTGATT-GTGGAGAATTGGTGTTTT-AGAAATAAAAC
66 TGAAAATAAAATCAGAGTTAGAATATCCCCGATTAAAGGAAAATTGGTGTTTTGA-AAATAAAAC
* * * ** *
5777251 CGGGATTCGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCTCCGATTATGAAAAATTGATGT
130 CGGGATTAGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAAT-A
5777316 TTTAGAAATAAAACCGGGGGTTGAAGTATCCCCTCAAAAATAACA
194 TTTAGAAATAAAACC-GGGGTTGAAGTATCCCCTCAAAAATAACA
* * * * *
5777361 GGGTTGGAGTATCCCCGATGATA-AACGGGGTTGGAGTATCTTCGATTGTGAAAAATTGGTGTTT
1 GGGTTGGAGTATCCCCAATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAATTAGTG-TT
*
5777425 TTGAAAATAAAATCAGAGTTAGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAAC
65 TTGAAAATAAAATCAGAGTTAGAATATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAAC
*
5777490 CGGGGTTAGAGTATCC
130 CGGGATTAGAGTATCC
5777506 TCGATTGTGA
Statistics
Matches: 317, Mismatches: 52, Indels: 25
0.80 0.13 0.06
Matches are distributed among these distances:
235 2 0.01
236 141 0.44
237 55 0.17
238 80 0.25
239 38 0.12
240 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (237 bp):
GGGTTGGAGTATCCCCAATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAATTAGTGTTT
TGAAAATAAAATCAGAGTTAGAATATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACC
GGGATTAGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATT
TAGAAATAAAACCGGGGTTGAAGTATCCCCTCAAAAATAACA
Found at i:5777553 original size:51 final size:51
Alignment explanation
Indices: 5777390--5777624 Score: 267
Period size: 51 Copynumber: 4.6 Consensus size: 51
5777380 GATAAACGGG
** *
5777390 GTTGGAGTATCTTCGATTGTGAAAAATTGGTGTTTTTGAAAATAAAATCAGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTG-TTTTGAAAATAAAATCGGA
* ** * * *
5777442 GTTAGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGGG
1 GTTGGAGTATCCCCGATT-GTGAAAAATTGGTGTTTTGAAAATAAAATCGGA
* * *
5777494 GTTAGAGTATCCTCGATTGTGAAAAATTGGTGTTTCGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAATAAAATCGGA
* * *
5777545 GTTGGAGTATCCCCGATTGGGGAAAATTAGTGTTTT-AGAAATAAAATCGG-
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGA-AAATAAAATCGGA
* *
5777595 GATTGAAGTATCCCCGATTATGAAAAATTG
1 G-TTGGAGTATCCCCGATTGTGAAAAATTG
5777625 AGAAACTTAA
Statistics
Matches: 153, Mismatches: 27, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
50 2 0.01
51 92 0.60
52 48 0.31
53 11 0.07
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAATAAAATCGGA
Found at i:5777613 original size:102 final size:104
Alignment explanation
Indices: 5777394--5777624 Score: 308
Period size: 102 Copynumber: 2.2 Consensus size: 104
5777384 AACGGGGTTG
** *
5777394 GAGTATCTTCGATTGTGAAAAATTGGTGTTTTTGAAAATAAAATCAGAGTTAGAGTATCCCCGAT
1 GAGTATCCCCGATTGTGAAAAATTGGTGTTTTCGAAAATAAAATCAGAGTTAGAGTATCCCCGAT
* *
5777459 TAAAGGAAAATTGGTGTTTTGAAAATAAAACCGGGGTTA
66 TAAAGGAAAATTAGTGTTTTGAAAATAAAACCGGGATTA
* * *
5777498 GAGTATCCTCGATTGTGAAAAATTGGTG-TTTCGAAAATAAAATCGGAGTTGGAGTATCCCCGAT
1 GAGTATCCCCGATTGTGAAAAATTGGTGTTTTCGAAAATAAAATCAGAGTTAGAGTATCCCCGAT
** *
5777562 T-GGGGAAAATTAGTGTTTT-AGAAATAAAATCGGGATT-
66 TAAAGGAAAATTAGTGTTTTGA-AAATAAAACCGGGATTA
*
5777599 GAAGTATCCCCGATTATGAAAAATTG
1 G-AGTATCCCCGATTGTGAAAAATTG
5777625 AGAAACTTAA
Statistics
Matches: 114, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
101 2 0.02
102 51 0.45
103 34 0.30
104 27 0.24
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.31
Consensus pattern (104 bp):
GAGTATCCCCGATTGTGAAAAATTGGTGTTTTCGAAAATAAAATCAGAGTTAGAGTATCCCCGAT
TAAAGGAAAATTAGTGTTTTGAAAATAAAACCGGGATTA
Found at i:5780081 original size:19 final size:21
Alignment explanation
Indices: 5780057--5780104 Score: 64
Period size: 19 Copynumber: 2.4 Consensus size: 21
5780047 AGCGATACAC
*
5780057 TGTATCGACACA-TTACT-TA
1 TGTATCGACACATTTACTGAA
*
5780076 TGTATCGATACATTTACTGAA
1 TGTATCGACACATTTACTGAA
5780097 TGTATCGA
1 TGTATCGA
5780105 TACAAATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 11 0.44
20 5 0.20
21 9 0.36
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.38
Consensus pattern (21 bp):
TGTATCGACACATTTACTGAA
Found at i:5780101 original size:21 final size:19
Alignment explanation
Indices: 5780057--5780108 Score: 68
Period size: 21 Copynumber: 2.6 Consensus size: 19
5780047 AGCGATACAC
* *
5780057 TGTATCGACACATTACTTA
1 TGTATCGATACATTACTAA
5780076 TGTATCGATACATTTACTGAA
1 TGTATCGATACA-TTACT-AA
5780097 TGTATCGATACA
1 TGTATCGATACA
5780109 AATTATTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 11 0.38
20 5 0.17
21 13 0.45
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (19 bp):
TGTATCGATACATTACTAA
Found at i:5780825 original size:94 final size:97
Alignment explanation
Indices: 5780648--5780839 Score: 266
Period size: 94 Copynumber: 2.0 Consensus size: 97
5780638 ATCTAAACTT
** * * *
5780648 TCTCCTTTCACTTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCTACACAAGTTG
1 TCTCCTTTCACCCTTTAGTCCTCAAAGAGCAAGACACCTTTTCC---TAAAGCCCACACAAGTTG
5780713 GTGGCACCTTCTAATCCTCAAAGAGTAGGACGCTC
63 GTGGCACCTTCTAATCCTCAAAGAGTAGGACGCTC
5780748 TCTCCTTTCACCCTTTAGTCCTCAAAGAGCAAGACACC-TTT-C-AAAGCCCACACAAGTTGGTG
1 TCTCCTTTCACCCTTTAGTCCTCAAAGAGCAAGACACCTTTTCCTAAAGCCCACACAAGTTGGTG
*
5780810 GCACCTT-TCAGTCCTCAAAGAGTAGGACGC
66 GCACCTTCT-AATCCTCAAAGAGTAGGACGC
5780840 CTTTCAAAGC
Statistics
Matches: 85, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
93 1 0.01
94 46 0.54
98 1 0.01
99 3 0.04
100 34 0.40
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.28
Consensus pattern (97 bp):
TCTCCTTTCACCCTTTAGTCCTCAAAGAGCAAGACACCTTTTCCTAAAGCCCACACAAGTTGGTG
GCACCTTCTAATCCTCAAAGAGTAGGACGCTC
Found at i:5781020 original size:61 final size:55
Alignment explanation
Indices: 5780764--5781007 Score: 292
Period size: 55 Copynumber: 4.3 Consensus size: 55
5780754 TTCACCCTTT
* * * *
5780764 AGTCCTCAAAGAGCAAGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-TC
1 AGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTCCC
* * ***
5780819 AGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCTACACAAGTTGGTGGCATTTTTT
1 AGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCC
* * * *
5780874 AGTTCTCAAAAAGTAGGACGCCTTTTAAAGCCCACACAAGTTTGTGGCACTTCCC
1 AGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCC
*
5780929 AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCC
1 AGTCCTCAAAGAGTAGGACGCCTT-T-C----AAAGCCCACACAAGTTGGTGGCACTTCCC
5780990 AGTCCTCAAAGAGTAGGA
1 AGTCCTCAAAGAGTAGGA
5781008 TGCTCTCTCC
Statistics
Matches: 161, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
54 2 0.01
55 113 0.70
56 1 0.01
61 45 0.28
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (55 bp):
AGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCC
Found at i:5781154 original size:156 final size:155
Alignment explanation
Indices: 5780871--5781176 Score: 486
Period size: 156 Copynumber: 2.0 Consensus size: 155
5780861 GGTGGCATTT
* * *
5780871 TTTAGTTCTCAAAAAGTAGGACGCCTTTTAAAGCCCACACAAGTTTGTGGCACTTCCCAGTCCTC
1 TTTAGTCCTCAAAAAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTC
5780936 AAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAG
66 AAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAG
*
5781001 AGTAGGATGCTCTCTCCTTTCGCCC
131 AGCAGGATGCTCTCTCCTTTCGCCC
* * * *
5781026 TTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCATACAAGTTGGTGGCACTTTTCTAGTCCT
1 TTTAGTCCTCAAAAAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTCCCAGTCCT
* * * *
5781091 CAAAGAGTAGGACGCCTTCTCCTTTTAAAGCCCATACAAGTTGGTGGCATTTTCCAGTCCTCAAA
65 CAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAA
*
5781156 GAGCAGGATGCTTTCTCCTTT
130 GAGCAGGATGCTCTCTCCTTT
5781177 TAAAGATCAC
Statistics
Matches: 137, Mismatches: 13, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
155 48 0.35
156 89 0.65
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (155 bp):
TTTAGTCCTCAAAAAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTC
AAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAG
AGCAGGATGCTCTCTCCTTTCGCCC
Found at i:5781174 original size:61 final size:61
Alignment explanation
Indices: 5781049--5781305 Score: 313
Period size: 61 Copynumber: 4.2 Consensus size: 61
5781039 GAGCAGGACG
* * *
5781049 CCTTTTAAAGCCCATACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGTAGGACGCCTTCT
1 CCTTTTAAAGCCCATACAAGTTGGTGGCAC-CTTCCAGTCCTCAAAGAGTAGGACGCTTTCT
** * *
5781111 CCTTTTAAAGCCCATACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTCT
1 CCTTTTAAAGCCCATACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGTAGGACGCTTTCT
** * * **
5781172 CCTTTTAAAGATCACT-CGAGTTGGTGGCACCTTCCAGTCCTCAAAGAGAAGGATTCTTTCT
1 CCTTTTAAAGCCCA-TACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGTAGGACGCTTTCT
* *
5781233 -CTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGTAGGACGCTTT-T
1 CCTTT-TAAAGCCCATACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGTAGGACGCTTTCT
*
5781293 TCTTTTCAAAGCC
1 CCTTTT-AAAGCC
5781306 TACACGAGCT
Statistics
Matches: 169, Mismatches: 21, Indels: 11
0.84 0.10 0.05
Matches are distributed among these distances:
60 5 0.03
61 134 0.79
62 30 0.18
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (61 bp):
CCTTTTAAAGCCCATACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGTAGGACGCTTTCT
Found at i:5781196 original size:217 final size:211
Alignment explanation
Indices: 5780813--5781225 Score: 578
Period size: 217 Copynumber: 1.9 Consensus size: 211
5780803 GTTGGTGGCA
* * * *
5780813 CCTTTCAGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCTACACAAGTTGGTGGCATTTTTTAGTT
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTC
*
5780878 CTCAAAAAGTAGGACGCCTTTTAAAGCCCACACAAGTTTGTGGCACTTCCCAGTCCTCAAAGAGC
66 CTCAAAAAGTAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGC
* *
5780943 AGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCCAGTCCTCAAAGAGTAGG
131 AGGACGCCTTCTCCTTTTAAAGACCACACAAGTTGGTGGCACCTT-CCAGTCCTCAAAGAGAAGG
5781007 ATGCTCTCTCCTTTCGC
195 ATGCTCTCTCCTTTCGC
* *
5781024 CCTTT-AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCATACAAGTTGGTGGCACTTTTCTAGT
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCTAGT
* * * *
5781088 CCTCAAAGAGTAGGACGCCTTCTCCTTTTAAAGCCCATACAAGTTGGTGGCATTTTCCAGTCCTC
65 CCTCAAAAAGTAGGACG------CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTC
* * * * *
5781153 AAAGAGCAGGATGCTTTCTCCTTTTAAAGATCACTCGAGTTGGTGGCACCTTCCAGTCCTCAAAG
124 AAAGAGCAGGACGCCTTCTCCTTTTAAAGACCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAG
5781218 AGAAGGAT
189 AGAAGGAT
5781226 TCTTTCTCTT
Statistics
Matches: 176, Mismatches: 18, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
210 45 0.26
211 28 0.16
217 100 0.57
218 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (211 bp):
CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTC
CTCAAAAAGTAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGC
AGGACGCCTTCTCCTTTTAAAGACCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGAAGGA
TGCTCTCTCCTTTCGC
Found at i:5781333 original size:61 final size:60
Alignment explanation
Indices: 5781029--5781358 Score: 296
Period size: 61 Copynumber: 5.5 Consensus size: 60
5781019 TTCGCCCTTT
*
5781029 AGTCCTCAAAGAGCAGGACGC-----CTTTTAAAGCCCATACAAGTTGGTGGCACTTTTC
1 AGTCCTCAAAGAGCAGGACGCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC
* * * *
5781084 TAGTCCTCAAAGAGTAGGACGCCTTCTCCTTTTAAAGCCCATACAAGTTGGTGGCA-TTTTCC
1 -AGTCCTCAAAGAGCAGGACG-CTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTT-C
* * ** * * * *
5781146 AGTCCTCAAAGAGCAGGATGCTTTCTCCTTTTAAAGATCACTCGAGTTGGTGGCACCTTCC
1 AGTCCTCAAAGAGCAGGACGCTTT-TTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC
* ** * * * *
5781207 AGTCCTCAAAGAGAAGGATTCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCC
1 AGTCCTCAAAGAGCAGGACGCTTTTTCTTT-TAAAGCCCACACAAGTTGGTGGCACTTTTC
* * * * * *
5781268 AGTCCTCAAAGAGTAGGACGCTTTTTCTTTTCAAAGCCTACACGAGCTGGTGGTACTTTTT
1 AGTCCTCAAAGAGCAGGACGCTTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACTTTTC
* * *
5781329 AGTCCTTAGAGAGCATGACGCTTTTT-TTTT
1 AGTCCTCAAAGAGCAGGACGCTTTTTCTTTT
5781359 CTCCTTTGTC
Statistics
Matches: 227, Mismatches: 36, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
56 19 0.08
57 1 0.00
60 11 0.05
61 165 0.73
62 31 0.14
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.31
Consensus pattern (60 bp):
AGTCCTCAAAGAGCAGGACGCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC
Found at i:5781434 original size:45 final size:42
Alignment explanation
Indices: 5781363--5781473 Score: 107
Period size: 45 Copynumber: 2.6 Consensus size: 42
5781353 TTTTTTCTCC
* * * *
5781363 TTTGTCATCAAAGAGCAAGACACACTTCAT-TCCCTTCTTTTCCCT
1 TTTGTCCTCAAAGAACAGGACGCACTTCATCTCCC-TC-TTT--CT
* * *
5781408 TTTGTCCTCCAAGAACAGGACGCACTTTATCTTCCTCTTTCT
1 TTTGTCCTCAAAGAACAGGACGCACTTCATCTCCCTCTTTCT
*
5781450 TTTGTCCTCAAAGAGCAGGACGCA
1 TTTGTCCTCAAAGAACAGGACGCA
5781474 TTTCGTTTTC
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
42 24 0.43
44 3 0.05
45 26 0.46
46 3 0.05
ACGTcount: A:0.23, C:0.30, G:0.14, T:0.33
Consensus pattern (42 bp):
TTTGTCCTCAAAGAACAGGACGCACTTCATCTCCCTCTTTCT
Found at i:5782236 original size:30 final size:30
Alignment explanation
Indices: 5782200--5782305 Score: 97
Period size: 30 Copynumber: 3.5 Consensus size: 30
5782190 CATTGTTCAT
5782200 TGTATCGATACATTCTGCGTTTTACCCAGA
1 TGTATCGATACATTCTGCGTTTTACCCAGA
* * * ** *
5782230 TGTATCGATACATTGTTCGTTGTATCAATACA
1 TGTATCGATACATTCTGCGTTTTA-C-CCAGA
* * *
5782262 TTATATTGATACATTCTG-GGTTTACCCAGA
1 -TGTATCGATACATTCTGCGTTTTACCCAGA
5782292 TGTATCGATACATT
1 TGTATCGATACATT
5782306 TTGCAATGTA
Statistics
Matches: 56, Mismatches: 17, Indels: 7
0.70 0.21 0.09
Matches are distributed among these distances:
29 12 0.21
30 23 0.41
31 2 0.04
32 6 0.11
33 13 0.23
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.40
Consensus pattern (30 bp):
TGTATCGATACATTCTGCGTTTTACCCAGA
Found at i:5782316 original size:62 final size:63
Alignment explanation
Indices: 5782197--5782325 Score: 181
Period size: 62 Copynumber: 2.1 Consensus size: 63
5782187 ATACATTGTT
* * **
5782197 CATTGTATCGATACATTCTGCGTTTTACCCAGATGTATCGATACATTGTTCGTTGTATCAATA
1 CATTATATCGATACATTCTGCGGTTTACCCAGATGTATCGATACATTGTTCAATGTATCAATA
* *
5782260 CATTATATTGATACATTCTG-GGTTTACCCAGATGTATCGATACATT-TTGCAATGTATCGATA
1 CATTATATCGATACATTCTGCGGTTTACCCAGATGTATCGATACATTGTT-CAATGTATCAATA
5782322 CATT
1 CATT
5782326 CAGGCATTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
61 2 0.03
62 39 0.66
63 18 0.31
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.40
Consensus pattern (63 bp):
CATTATATCGATACATTCTGCGGTTTACCCAGATGTATCGATACATTGTTCAATGTATCAATA
Found at i:5784703 original size:28 final size:28
Alignment explanation
Indices: 5784667--5784743 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
5784657 ATTTTTCACA
* *
5784667 ATCGGGGATACTCCAATCCCGTTATTTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
5784695 ATCGAGGATACTCCAACCCCGTTATTTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
*
5784723 --CGAGGGGATACTCTAACCCCG
1 ATCGA--GGATACTCCAACCCCG
5784744 GCTTTATTTC
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
26 3 0.07
28 41 0.93
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.26
Consensus pattern (28 bp):
ATCGAGGATACTCCAACCCCGTTATTTC
Found at i:5784946 original size:79 final size:78
Alignment explanation
Indices: 5784817--5785011 Score: 259
Period size: 79 Copynumber: 2.5 Consensus size: 78
5784807 TCTAAATCAT
* *
5784817 CGATTTT-TACAATCGGGGATACTCCAACCCCGTTATTTTGGAAGGAATACTCCAACCCCGATTT
1 CGATTTTCTATAATC-GGGATACTCCAACCCCGTTATTTTCGAAGGAATACTCCAACCCCGATTT
*
5784881 TATTTTCAAAATAA
65 TATTTTCAAAACAA
* *
5784895 CGATTTTCTATAATCAGGGATACTCCAACCCTGTTATTTTCG-AGGAGATACTCCAACCTCGATT
1 CGATTTTCTATAATC-GGGATACTCCAACCCCGTTATTTTCGAAGGA-ATACTCCAACCCCGATT
* *
5784959 TTATTTTCAGAACAC
64 TTATTTTCAAAACAA
* *
5784974 CGATTTTCCATAATCGAGGATACTCCACCCCCGTTATT
1 CGATTTTCTATAATCG-GGATACTCCAACCCCGTTATT
5785012 ATCTCCAAAA
Statistics
Matches: 103, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
78 12 0.12
79 91 0.88
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (78 bp):
CGATTTTCTATAATCGGGATACTCCAACCCCGTTATTTTCGAAGGAATACTCCAACCCCGATTTT
ATTTTCAAAACAA
Found at i:5786552 original size:20 final size:20
Alignment explanation
Indices: 5786510--5786644 Score: 155
Period size: 20 Copynumber: 6.6 Consensus size: 20
5786500 TTCAACAATT
5786510 TGTATCGATACAATAAG-GCAA
1 TGTATCGATAC-ATAAGTG-AA
*
5786531 TGTATTGATACATAAGTGAA
1 TGTATCGATACATAAGTGAA
5786551 TGTATCGATACATAAGTGAA
1 TGTATCGATACATAAGTGAA
***
5786571 TGTATCGATACATGCCTGAAA
1 TGTATCGATACATAAGTG-AA
5786592 TGTATCGATACATAAGTGAA
1 TGTATCGATACATAAGTGAA
* ***
5786612 TGTATTGATACATGCCTGAAA
1 TGTATCGATACATAAGTG-AA
5786633 TGTATCGATACA
1 TGTATCGATACA
5786645 AGACCATATG
Statistics
Matches: 98, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
20 57 0.58
21 41 0.42
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (20 bp):
TGTATCGATACATAAGTGAA
Found at i:5786555 original size:41 final size:41
Alignment explanation
Indices: 5786510--5786644 Score: 202
Period size: 41 Copynumber: 3.3 Consensus size: 41
5786500 TTCAACAATT
***
5786510 TGTATCGATACAATAAG-GCAATGTATTGATACATAAGTG-AA
1 TGTATCGATAC-ATAAGTG-AATGTATTGATACATGCCTGAAA
*
5786551 TGTATCGATACATAAGTGAATGTATCGATACATGCCTGAAA
1 TGTATCGATACATAAGTGAATGTATTGATACATGCCTGAAA
5786592 TGTATCGATACATAAGTGAATGTATTGATACATGCCTGAAA
1 TGTATCGATACATAAGTGAATGTATTGATACATGCCTGAAA
5786633 TGTATCGATACA
1 TGTATCGATACA
5786645 AGACCATATG
Statistics
Matches: 87, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
40 21 0.24
41 66 0.76
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (41 bp):
TGTATCGATACATAAGTGAATGTATTGATACATGCCTGAAA
Found at i:5786605 original size:61 final size:62
Alignment explanation
Indices: 5786529--5786644 Score: 180
Period size: 61 Copynumber: 1.9 Consensus size: 62
5786519 ACAATAAGGC
* *
5786529 AATGTATTGATACATAAGTGAATGTATCGATACATAAGTG-AATGTATCGATACATGCCTGA
1 AATGTATCGATACATAAGTGAATGTATCGATACATAACTGAAATGTATCGATACATGCCTGA
* **
5786590 AATGTATCGATACATAAGTGAATGTATTGATACATGCCTGAAATGTATCGATACA
1 AATGTATCGATACATAAGTGAATGTATCGATACATAACTGAAATGTATCGATACA
5786645 AGACCATATG
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
61 35 0.71
62 14 0.29
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (62 bp):
AATGTATCGATACATAAGTGAATGTATCGATACATAACTGAAATGTATCGATACATGCCTGA
Found at i:5786712 original size:40 final size:40
Alignment explanation
Indices: 5786667--5786744 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
5786657 ATATTAGAAG
* * *
5786667 GAAATTGTATCAACACATTTTTAAATGTATCGATACATAA
1 GAAATTATATCAACACATTTCTAAATGTATCAATACATAA
* * * *
5786707 GAAATTATATCGATACATTTCTCATTGTATCAATACAT
1 GAAATTATATCAACACATTTCTAAATGTATCAATACAT
5786745 TCTGGGTTTT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.37
Consensus pattern (40 bp):
GAAATTATATCAACACATTTCTAAATGTATCAATACATAA
Found at i:5786786 original size:20 final size:18
Alignment explanation
Indices: 5786761--5786812 Score: 72
Period size: 16 Copynumber: 2.9 Consensus size: 18
5786751 TTTTGACAAA
5786761 AATGTATCGATACATTTTT
1 AATGTATCGATACA-TTTT
5786780 CAATGTATCGATACA--TT
1 -AATGTATCGATACATTTT
5786797 AATGTATCGATACATT
1 AATGTATCGATACATT
5786813 ACATTCAGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
16 14 0.47
17 2 0.07
20 14 0.47
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (18 bp):
AATGTATCGATACATTTT
Found at i:5790720 original size:6 final size:6
Alignment explanation
Indices: 5790709--5790744 Score: 63
Period size: 6 Copynumber: 5.8 Consensus size: 6
5790699 ATCTTGGTTG
5790709 AAAGTA AAAGTA AAAGTTA AAAGTA AAAGTA AAAGT
1 AAAGTA AAAGTA AAAG-TA AAAGTA AAAGTA AAAGT
5790745 TAAACCTACA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.64, C:0.00, G:0.17, T:0.19
Consensus pattern (6 bp):
AAAGTA
Found at i:5790733 original size:19 final size:19
Alignment explanation
Indices: 5790709--5790748 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
5790699 ATCTTGGTTG
5790709 AAAGTAAAAGTAAAAGTTA
1 AAAGTAAAAGTAAAAGTTA
5790728 AAAGTAAAAGTAAAAGTTA
1 AAAGTAAAAGTAAAAGTTA
5790747 AA
1 AA
5790749 CCTACAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.65, C:0.00, G:0.15, T:0.20
Consensus pattern (19 bp):
AAAGTAAAAGTAAAAGTTA
Found at i:5790748 original size:13 final size:12
Alignment explanation
Indices: 5790709--5790744 Score: 63
Period size: 13 Copynumber: 2.9 Consensus size: 12
5790699 ATCTTGGTTG
5790709 AAAGTAAAAGTA
1 AAAGTAAAAGTA
5790721 AAAGTTAAAAGTA
1 AAAG-TAAAAGTA
5790734 AAAGTAAAAGT
1 AAAGTAAAAGT
5790745 TAAACCTACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.64, C:0.00, G:0.17, T:0.19
Consensus pattern (12 bp):
AAAGTAAAAGTA
Found at i:5791097 original size:19 final size:19
Alignment explanation
Indices: 5791054--5791126 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
5791044 CACACCCAGA
*
5791054 TGTATCGATACAT-TATGCTT
1 TGTATCGATACATGT-T-CAT
5791074 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTTCAT
**
5791093 TGTATCGATACATGGACAAT
1 TGTATCGATACATGTTC-AT
5791113 TGTATCGATACATG
1 TGTATCGATACATG
5791127 AAACTGGTAG
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
19 17 0.35
20 30 0.62
21 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATGTTCAT
Found at i:5791190 original size:13 final size:13
Alignment explanation
Indices: 5791172--5791201 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
5791162 GATACATAGG
5791172 ACATTGTATCGAT
1 ACATTGTATCGAT
5791185 ACATTGTATCGAT
1 ACATTGTATCGAT
5791198 ACAT
1 ACAT
5791202 GATGGATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:5791220 original size:33 final size:32
Alignment explanation
Indices: 5791155--5791223 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 32
5791145 CTACCACCGT
* *
5791155 TTGTATCGATACATAGGACATTGTATCGATACA
1 TTGTATCGATACATAGGA-ATTATATCAATACA
5791188 TTGTATCGATACATGATGG-ATTATATCAATACA
1 TTGTATCGATACAT-A-GGAATTATATCAATACA
5791221 TTG
1 TTG
5791224 CTTGTAACGG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
33 29 0.91
34 1 0.03
35 2 0.06
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.36
Consensus pattern (32 bp):
TTGTATCGATACATAGGAATTATATCAATACA
Found at i:5797389 original size:13 final size:13
Alignment explanation
Indices: 5797371--5797397 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
5797361 ACAACATTCC
5797371 TTGTATCGATACA
1 TTGTATCGATACA
5797384 TTGTATCGATACA
1 TTGTATCGATACA
5797397 T
1 T
5797398 GGGTTACTAT
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:5798598 original size:24 final size:23
Alignment explanation
Indices: 5798570--5798614 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
5798560 AAAAAGGGGG
*
5798570 AAATATATATTGCTTTGAAAAATA
1 AAATAAATATTGCTTT-AAAAATA
*
5798594 AAATAAATTTTGCTTTAAAAA
1 AAATAAATATTGCTTTAAAAA
5798615 GGGGGAGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.51, C:0.04, G:0.07, T:0.38
Consensus pattern (23 bp):
AAATAAATATTGCTTTAAAAATA
Found at i:5799269 original size:19 final size:19
Alignment explanation
Indices: 5799245--5799296 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
5799235 CAATACATTT
*
5799245 TATCGATACATGTTCAA-TG
1 TATCGATACATGAT-AATTG
5799264 TATCGATACATGGATAATTG
1 TATCGATACAT-GATAATTG
5799284 TATCGATACATGA
1 TATCGATACATGA
5799297 AACTGCAGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (19 bp):
TATCGATACATGATAATTG
Found at i:5799287 original size:20 final size:20
Alignment explanation
Indices: 5799245--5799295 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
5799235 CAATACATTT
*
5799245 TATCGATACAT-GTTCAATG
1 TATCGATACATGGATCAATG
5799264 TATCGATACATGGAT-AATTG
1 TATCGATACATGGATCAA-TG
5799284 TATCGATACATG
1 TATCGATACATG
5799296 AAACTGCAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (20 bp):
TATCGATACATGGATCAATG
Found at i:5799365 original size:20 final size:19
Alignment explanation
Indices: 5799323--5799376 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 19
5799313 CTACCACTGT
5799323 TTGTATCGATACATAGGACA
1 TTGTATCGATACATAGGA-A
5799343 TTGTATCGATACATGATGG-A
1 TTGTATCGATACAT-A-GGAA
*
5799363 TTGTATTGATACAT
1 TTGTATCGATACAT
5799377 TGCTTGTAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 28 0.90
21 1 0.03
22 2 0.06
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACATAGGAA
Found at i:5800571 original size:2 final size:2
Alignment explanation
Indices: 5800559--5800595 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
5800549 TAAATGCTTC
*
5800559 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5800596 AAGAAAGTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5800905 original size:104 final size:106
Alignment explanation
Indices: 5800725--5800928 Score: 326
Period size: 104 Copynumber: 1.9 Consensus size: 106
5800715 TTCTAAAGCC
*
5800725 TTGTTTGTATTTATTACTATAAAGAGAGAATAGATTTTTAACTTATTAAAAAAAAGTAGTTAATG
1 TTGTTTGTATTTATTACTATAAAGAGAGAATAGATTTTTAACTTATTAAAAAAAAATAGTTAATG
*
5800790 GAAAC-AAAAAA-AAAACAAAATAGGTACAAATTTTAAGTG
66 GAAACAAAAAAATAAAACAAAATAGCTACAAATTTTAAGTG
*
5800829 TTGTTTGTATTTGTTACTATAAAGAGAGAATAGATTTTTAA-TT-TTATAAAAAAAATAGTTAAT
1 TTGTTTGTATTTATTACTATAAAGAGAGAATAGATTTTTAACTTATTA-AAAAAAAATAGTTAAT
*
5800892 GGAAACCAAAAAAATAAAATAAAATAGCTACAAATTT
65 GGAAA-CAAAAAAATAAAACAAAATAGCTACAAATTT
5800929 CGAGTATTTG
Statistics
Matches: 92, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
102 3 0.03
103 22 0.24
104 41 0.45
105 6 0.07
106 20 0.22
ACGTcount: A:0.49, C:0.05, G:0.12, T:0.34
Consensus pattern (106 bp):
TTGTTTGTATTTATTACTATAAAGAGAGAATAGATTTTTAACTTATTAAAAAAAAATAGTTAATG
GAAACAAAAAAATAAAACAAAATAGCTACAAATTTTAAGTG
Found at i:5801279 original size:16 final size:15
Alignment explanation
Indices: 5801258--5801300 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
5801248 TAATGAAAAA
*
5801258 ATATTTATAAATAATT
1 ATATTT-TAAATAAAT
*
5801274 ATATTTTAAAAAAAT
1 ATATTTTAAATAAAT
5801289 ATATTTTAAATA
1 ATATTTTAAATA
5801301 TAAATTATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 18 0.75
16 6 0.25
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATATTTTAAATAAAT
Found at i:5801291 original size:15 final size:15
Alignment explanation
Indices: 5801253--5801298 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
5801243 AAAATTAATG
*
5801253 AAAAAATAT-TTATA
1 AAAAAATATATTTTA
* *
5801267 AATAATTATATTTTA
1 AAAAAATATATTTTA
5801282 AAAAAATATATTTTA
1 AAAAAATATATTTTA
5801297 AA
1 AA
5801299 TATAAATTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 7 0.27
15 19 0.73
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AAAAAATATATTTTA
Found at i:5801311 original size:29 final size:30
Alignment explanation
Indices: 5801244--5801315 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 30
5801234 TTTTTTTATA
* *
5801244 AAATTAATGAAAAAATATTTATAAATAATT
1 AAATTATTAAAAAAATATTTATAAATAATT
* *
5801274 ATATT-TTAAAAAAATATATTTTAAAT-A-T
1 AAATTATTAAAAAAATAT-TTATAAATAATT
5801302 AAATTATTAAAAAA
1 AAATTATTAAAAAA
5801316 TTTAAAAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
28 5 0.14
29 19 0.54
30 11 0.31
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (30 bp):
AAATTATTAAAAAAATATTTATAAATAATT
Found at i:5802098 original size:53 final size:54
Alignment explanation
Indices: 5801985--5802100 Score: 126
Period size: 53 Copynumber: 2.2 Consensus size: 54
5801975 ACCCAAACCT
* ** * * *
5801985 AAAATGACTTGAACTTGATTTAACCCGAATGTTAAACCCAATTGACCTAAATCT
1 AAAATGACCTGAACCCGATTTAACCCGAACGTTAAACCCAATTAACCTAAATCC
* * * * *
5802039 AGAATGACCTGAACCCGA-TTAACCCGAGCGTTAGACCCAATTAACTTGAATCC
1 AAAATGACCTGAACCCGATTTAACCCGAACGTTAAACCCAATTAACCTAAATCC
5802092 AAAATGACC
1 AAAATGACC
5802101 CAAACTCGAA
Statistics
Matches: 50, Mismatches: 12, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
53 36 0.72
54 14 0.28
ACGTcount: A:0.38, C:0.24, G:0.14, T:0.24
Consensus pattern (54 bp):
AAAATGACCTGAACCCGATTTAACCCGAACGTTAAACCCAATTAACCTAAATCC
Found at i:5802176 original size:48 final size:48
Alignment explanation
Indices: 5802124--5802228 Score: 138
Period size: 48 Copynumber: 2.2 Consensus size: 48
5802114 ACTCGAACTT
* *
5802124 GAAATGACTCAAACCCAAAATGACCTAAATTCAAAATGACCCAAACCC
1 GAAATGACCCAAACCCAAAATGACCTAAATCCAAAATGACCCAAACCC
* * * **
5802172 GAAATAACCCAAATCCAAAGTGACCTAAATCCAAAATGACCTGAACCC
1 GAAATGACCCAAACCCAAAATGACCTAAATCCAAAATGACCCAAACCC
5802220 GAAAATGAC
1 G-AAATGAC
5802229 ACGAAAATTT
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
48 42 0.88
49 6 0.12
ACGTcount: A:0.48, C:0.28, G:0.10, T:0.14
Consensus pattern (48 bp):
GAAATGACCCAAACCCAAAATGACCTAAATCCAAAATGACCCAAACCC
Found at i:5802213 original size:16 final size:16
Alignment explanation
Indices: 5802125--5802228 Score: 93
Period size: 16 Copynumber: 6.4 Consensus size: 16
5802115 CTCGAACTTG
5802125 AAATGA-CTCAAACCCA
1 AAATGACCT-AAACCCA
**
5802141 AAATGACCTAAATTCA
1 AAATGACCTAAACCCA
* *
5802157 AAATGACCCAAACCCG
1 AAATGACCTAAACCCA
* * *
5802173 AAATAACCCAAATCCA
1 AAATGACCTAAACCCA
* *
5802189 AAGTGACCTAAATCCA
1 AAATGACCTAAACCCA
*
5802205 AAATGACCTGAACCCGA
1 AAATGACCTAAACCC-A
5802222 AAATGAC
1 AAATGAC
5802229 ACGAAAATTT
Statistics
Matches: 71, Mismatches: 15, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
16 61 0.86
17 10 0.14
ACGTcount: A:0.48, C:0.28, G:0.10, T:0.14
Consensus pattern (16 bp):
AAATGACCTAAACCCA
Found at i:5804216 original size:129 final size:136
Alignment explanation
Indices: 5804032--5804365 Score: 364
Period size: 140 Copynumber: 2.5 Consensus size: 136
5804022 GTGGTTATAG
* * * * *
5804032 CAATGTTCTTTGATCTAGCTATATTTTGGATCCTACCATTGGGGACAAATGCAATGGTGTACATG
1 CAATGTTCTTTGATCTAGCTATGTTTTAGATCCTGCCATTGGGGACGAATACAATGGTGTACATG
*
5804097 CTA-A-T-C-T-C-CTC-GAAGTTACATTATG-ATATAGAGCTT-ACCACTAGGGTGAAAGTGAT
66 CTACATTACATACTCTCTGAAGTTACATTATGAATAT-GAACTTCACCACTAGGGTGAAAGTGAT
5804153 CT-TAAGCC
130 -TGTAA-CC
* * *
5804161 CAATGTACTTTGATCTAGCTATGTTTTAGATCCTGCCATTGAGGATGAATACAATGGTGTACATG
1 CAATGTTCTTTGATCTAGCTATGTTTTAGATCCTGCCATTGGGGACGAATACAATGGTGTACATG
* *
5804226 CTAGCATTTACATAACCTCTCTGAAGTTACATTATGAATATGAATTTCACCATTAGGGTGAAAGT
66 CTA-CA-TTACAT-A-CTCTCTGAAGTTACATTATGAATATGAACTTCACCACTAGGGTGAAAGT
5804291 GATTGTAACC
127 GATTGTAACC
* * * * * * * *
5804301 CAATGTTCTTTAATCTGGCTAAGTTTTACATCTTGCAATTGGGGACGAATATAATGGTTTACATG
1 CAATGTTCTTTGATCTAGCTATGTTTTAGATCCTGCCATTGGGGACGAATACAATGGTGTACATG
5804366 TTAGCCATAA
Statistics
Matches: 169, Mismatches: 22, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
129 60 0.36
131 1 0.01
133 1 0.01
134 1 0.01
135 1 0.01
138 1 0.01
139 3 0.02
140 75 0.44
141 26 0.15
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.34
Consensus pattern (136 bp):
CAATGTTCTTTGATCTAGCTATGTTTTAGATCCTGCCATTGGGGACGAATACAATGGTGTACATG
CTACATTACATACTCTCTGAAGTTACATTATGAATATGAACTTCACCACTAGGGTGAAAGTGATT
GTAACC
Found at i:5805651 original size:2 final size:2
Alignment explanation
Indices: 5805646--5805693 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
5805636 AAGCTCTTTG
5805646 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
5805688 CT CT CT
1 CT CT CT
5805694 TAACAAGTTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:5805815 original size:18 final size:17
Alignment explanation
Indices: 5805792--5805830 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
5805782 GTCTTAGGGG
5805792 TTTGCAAGTACAATTTTA
1 TTTGCAA-TACAATTTTA
* *
5805810 TTTGCAATTCAGTTTTA
1 TTTGCAATACAATTTTA
5805827 TTTG
1 TTTG
5805831 TGCATCTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.26, C:0.10, G:0.13, T:0.51
Consensus pattern (17 bp):
TTTGCAATACAATTTTA
Found at i:5808437 original size:21 final size:21
Alignment explanation
Indices: 5808404--5808444 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
5808394 CTAAGTAAAA
5808404 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
5808425 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
5808445 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:5808509 original size:20 final size:19
Alignment explanation
Indices: 5808484--5808554 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
5808474 ACCCTGAAAA
5808484 GTATCGATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* **
5808504 GTATCGATACAAATTGCAT
1 GTATCGATACACATTAAAT
**
5808523 AGTATCGATACACACAAATAT
1 -GTATCGATACACATTAA-AT
5808544 GTATCGATACA
1 GTATCGATACA
5808555 GGACATTGGC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.10
20 35 0.85
21 2 0.05
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.30
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:5808615 original size:53 final size:53
Alignment explanation
Indices: 5808524--5808660 Score: 229
Period size: 53 Copynumber: 2.6 Consensus size: 53
5808514 AAATTGCATA
5808524 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
* * *
5808578 GTATCGATACACACAATATATATCGATGCAGGTCATTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
5808631 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
5808661 TTGGAAGTAG
Statistics
Matches: 77, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
53 63 0.82
54 14 0.18
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
Found at i:5808703 original size:10 final size:10
Alignment explanation
Indices: 5808684--5808714 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
5808674 AATCTCATTT
5808684 TCACTGTTCA
1 TCACTGTTCA
*
5808694 TCACTATTCA
1 TCACTGTTCA
5808704 TCACTGTTCA
1 TCACTGTTCA
5808714 T
1 T
5808715 GTATCGATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.42
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:5808739 original size:21 final size:22
Alignment explanation
Indices: 5808702--5808756 Score: 94
Period size: 21 Copynumber: 2.5 Consensus size: 22
5808692 CATCACTATT
*
5808702 CATCACTGTTCATGTATCGATA
1 CATCACTGTTCAAGTATCGATA
5808724 CATCACT-TTCAAGTATCGATA
1 CATCACTGTTCAAGTATCGATA
5808745 CATCACTGTTCA
1 CATCACTGTTCA
5808757 CACTGTTCAC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 20 0.65
22 11 0.35
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.35
Consensus pattern (22 bp):
CATCACTGTTCAAGTATCGATA
Found at i:5808851 original size:13 final size:13
Alignment explanation
Indices: 5808833--5808858 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5808823 ACATATTTGT
5808833 GTGTATCGATACA
1 GTGTATCGATACA
5808846 GTGTATCGATACA
1 GTGTATCGATACA
5808859 TCATAAATAG
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:0.23, T:0.31
Consensus pattern (13 bp):
GTGTATCGATACA
Found at i:5809400 original size:34 final size:35
Alignment explanation
Indices: 5809337--5809403 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
5809327 CTAAGTGATT
5809337 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
5809373 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
5809404 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:5811445 original size:162 final size:161
Alignment explanation
Indices: 5811203--5811650 Score: 537
Period size: 162 Copynumber: 2.8 Consensus size: 161
5811193 TTTTTTTTCA
** * **
5811203 ATTTACAAAA-ACTCATTTCA-TACCTTAATGGAATTTCGAAAAGATACAAAAAGTTTAAAAATC
1 ATTTACAAAATAC-CATTT-AGTACCTTAATGGAAGCTCGAAAAGATAGAAAAAGTTTTGAAATC
5811266 TTTTATA-CCTCTACGAATACCCATAGGAATATAAAAGATTAAAAAAATGATTAAAATTTATCTC
64 TTTTATACCCT-TACGAATACCCATAGGAATATAAAAGATTAAAAAAATGATTAAAATTTATCTC
*
5811330 AGTTATGAAAGTATTAATTTAA-TCTAATTATTT
128 AATTATGAAAGTATTAATTTAATTCTAATTATTT
* *
5811363 ATTTACGAAAATACCATTTAGTACCTTAATGGAAGCTCAAAAAGATATGAAAAATTTTTGAAATC
1 ATTTAC-AAAATACCATTTAGTACCTTAATGGAAGCTCGAAAAGATA-GAAAAAGTTTTGAAATC
* * * * * * *
5811428 TTTTATACCCTTACGAATCCCCATAGAAATATAGAAGATTAAGAAAATGATTAATATTTGTTTCA
64 TTTTATACCCTTACGAATACCCATAGGAATATAAAAGATTAAAAAAATGATTAAAATTTATCTCA
* *
5811493 ATTATGAAAGTATTAATTTAATTTTATTTATTT
129 ATTATGAAAGTATTAATTTAATTCTAATTATTT
* * * * *
5811526 ATTTATAAAAATACTATTTTGTACCTTAATGAAAGCCCGAAAAGATACG-AAAAGTTTTGAAAAA
1 ATTTA-CAAAATACCATTTAGTACCTTAATGGAAGCTCGAAAAGATA-GAAAAAGTTTTG--AAA
* ** *
5811590 TCTTTTATACCCTTACGGATGTCCATGGGAATATAAAAGATTAAAAAGAATGATTAAAATT
62 TCTTTTATACCCTTACGAATACCCATAGGAATATAAAAGATTAAAAA-AATGATTAAAATT
5811651 CAATTTTGCC
Statistics
Matches: 245, Mismatches: 33, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
160 7 0.03
161 32 0.13
162 98 0.40
163 53 0.22
164 43 0.18
165 12 0.05
ACGTcount: A:0.43, C:0.11, G:0.10, T:0.35
Consensus pattern (161 bp):
ATTTACAAAATACCATTTAGTACCTTAATGGAAGCTCGAAAAGATAGAAAAAGTTTTGAAATCTT
TTATACCCTTACGAATACCCATAGGAATATAAAAGATTAAAAAAATGATTAAAATTTATCTCAAT
TATGAAAGTATTAATTTAATTCTAATTATTT
Found at i:5811700 original size:3 final size:3
Alignment explanation
Indices: 5811692--5811740 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
5811682 ATTTAACCCA
5811692 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
5811740 T
1 T
5811741 TTACCGATTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:5812902 original size:14 final size:14
Alignment explanation
Indices: 5812871--5812908 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
5812861 AATTATATCG
5812871 TAAAAATT-AATAA
1 TAAAAATTAAATAA
* *
5812884 AAAAAATTAAATTA
1 TAAAAATTAAATAA
5812898 TAAAAATTAAA
1 TAAAAATTAAA
5812909 ATAAAATTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 7 0.33
14 14 0.67
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
TAAAAATTAAATAA
Found at i:5813712 original size:20 final size:20
Alignment explanation
Indices: 5813687--5813732 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
5813677 TATATTATGA
5813687 AAAATTCAAACTTAATTCAT
1 AAAATTCAAACTTAATTCAT
5813707 AAAATTCAAACTTAATTCAT
1 AAAATTCAAACTTAATTCAT
5813727 AAAATT
1 AAAATT
5813733 TATCAATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAATTCAAACTTAATTCAT
Found at i:5814169 original size:2 final size:2
Alignment explanation
Indices: 5814162--5814197 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
5814152 ATTAAGGGTC
5814162 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5814198 GAATTACTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5815055 original size:25 final size:25
Alignment explanation
Indices: 5815018--5815092 Score: 60
Period size: 25 Copynumber: 2.9 Consensus size: 25
5815008 TTTAGAAAAG
*
5815018 TTTTAATAAATTATATATAAAACTAT
1 TTTTAA-ATATTATATATAAAACTAT
* * * * **
5815044 TTTTCAATATTATTTTTGAATTTAT
1 TTTTAAATATTATATATAAAACTAT
*
5815069 TTTTAAATATAATATATCAAAACT
1 TTTTAAATATTATATAT-AAAACT
5815093 TATTATTTTA
Statistics
Matches: 34, Mismatches: 14, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
25 26 0.76
26 8 0.24
ACGTcount: A:0.43, C:0.05, G:0.01, T:0.51
Consensus pattern (25 bp):
TTTTAAATATTATATATAAAACTAT
Found at i:5815068 original size:12 final size:13
Alignment explanation
Indices: 5815041--5815078 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
5815031 TATATAAAAC
5815041 TATTTTTCAATAT
1 TATTTTTCAATAT
*
5815054 TATTTTTGAAT-T
1 TATTTTTCAATAT
*
5815066 TATTTTTAAATAT
1 TATTTTTCAATAT
5815079 AATATATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (13 bp):
TATTTTTCAATAT
Found at i:5815351 original size:16 final size:16
Alignment explanation
Indices: 5815327--5815357 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5815317 TTGATTCACA
*
5815327 TATATAATTATTTTAT
1 TATAAAATTATTTTAT
5815343 TATAAAATTATTTTA
1 TATAAAATTATTTTA
5815358 ACGCATTACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TATAAAATTATTTTAT
Found at i:5816403 original size:19 final size:20
Alignment explanation
Indices: 5816366--5816403 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
5816356 TTTTAAAATA
* *
5816366 AATATAAATAATTTTATTTT
1 AATATAAATAATATCATTTT
5816386 AATA-AAATAATATCATTT
1 AATATAAATAATATCATTT
5816404 GATTAACTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (20 bp):
AATATAAATAATATCATTTT
Found at i:5816444 original size:2 final size:2
Alignment explanation
Indices: 5816437--5816474 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
5816427 AAACTAAACC
*
5816437 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5816475 TATCTACACA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:5818988 original size:23 final size:23
Alignment explanation
Indices: 5818939--5818989 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
5818929 ATATTTTTTT
* * *
5818939 ATTTTTTAAAACAAATAAAGATC
1 ATTTTTTAAAACAAAAAAACATA
5818962 ATTTTTTAAAA-AAAAAAACATA
1 ATTTTTTAAAACAAAAAAACATA
*
5818984 AATTTT
1 ATTTTT
5818990 GAACTTTTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 13 0.54
23 11 0.46
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.37
Consensus pattern (23 bp):
ATTTTTTAAAACAAAAAAACATA
Found at i:5819540 original size:17 final size:17
Alignment explanation
Indices: 5819518--5819553 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
5819508 CATTTCATAT
* *
5819518 TTTTTCTTTTTTTTTTC
1 TTTTTCTTTCTTTCTTC
5819535 TTTTTCTTTCTTTCTTC
1 TTTTTCTTTCTTTCTTC
5819552 TT
1 TT
5819554 CATCTTCCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTTCTTTCTTTCTTC
Found at i:5820842 original size:32 final size:32
Alignment explanation
Indices: 5820793--5821235 Score: 690
Period size: 32 Copynumber: 13.8 Consensus size: 32
5820783 AAAATGGTGA
* ** *
5820793 TTTGAAAAGGGTTGCCACTAACTTGCGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
5820825 TTTTAAATGGGTTGCCACCGACTTGCGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * * *
5820857 TTTTAAATGGGTTGCCACCAACTTCTGGGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
**
5820889 TTTGAAAAAGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
5820921 TTTGAAATGGGTTGCCACCTACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
5820953 TTT-AGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGA-AATGGGTTGCCACCGACTTGTGTGGGC
5820985 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
5821017 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
5821049 TTTGAAATGGGTTGCCACCGACTTGTATGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
5821081 TTTGAAATGGGTTACCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
5821113 TTTGAAATGGATTGCCACCGACTTATGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
5821145 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
5821177 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
5821209 TTTGGAATGGGTTGCCACCGATTTGTG
1 TTTGAAATGGGTTGCCACCGACTTGTG
5821236 AATTTAAAAG
Statistics
Matches: 381, Mismatches: 28, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
31 1 0.00
32 379 0.99
33 1 0.00
ACGTcount: A:0.17, C:0.19, G:0.32, T:0.31
Consensus pattern (32 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:5821287 original size:27 final size:27
Alignment explanation
Indices: 5821221--5822202 Score: 1430
Period size: 27 Copynumber: 35.9 Consensus size: 27
5821211 TGGAATGGGT
* * * *
5821221 TGCCACCGATTTGTGAATTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
5821248 ATGCCACGGAGTTGTGGACTTAAAAGGG
1 -TGCCACGGAGTTGTGGACTTAAAAGGG
5821276 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
5821303 ATGCCACGGAGTTGTGGACTTAAAAGGG
1 -TGCCACGGAGTTGTGGACTTAAAAGGG
5821331 ATGCCACGGAGTTGTGGACTTAAAAGGG
1 -TGCCACGGAGTTGTGGACTTAAAAGGG
* *
5821359 TGCCACAGAGTTGTGGACTAAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
5821386 TGCCACGGAGTTGTGGACTTTAAAAGGG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
* * *
5821414 TGCCACAGAGTTGTGGACTTAAAAAAGA
1 TGCCACGGAGTTGTGGACTT-AAAAGGG
* * *
5821442 TGCCACAGAGTTATAGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
5821469 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* *
5821496 TGCTACGGAGTTGTGGTCTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
5821523 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* * *
5821550 ATGCCATGGAGTTATGGACTTAAAAGAG
1 -TGCCACGGAGTTGTGGACTTAAAAGGG
5821578 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
5821605 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
5821632 TGCCACGGAGTTGTGGTA-TTAAAAGGAA
1 TGCCACGGAGTTGTGG-ACTTAAAAGG-G
*
5821660 TGCCACAGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
5821687 TGCCACGGAGTTGTGGACTTAAAAGGAA
1 TGCCACGGAGTTGTGGACTTAAAAGG-G
**
5821715 TGCCATAGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
5821742 TGCCACGGAGTTGTGGACTTAAAAGAG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
5821769 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
5821796 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* *
5821823 TGCCACGGAGTTGTGGTA-ATAAAAGGAA
1 TGCCACGGAGTTGTGG-ACTTAAAAGG-G
*
5821851 TGCCACAGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
5821878 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* *
5821905 TGCCACAGAGTTGTGGACTTAAAAGGAA
1 TGCCACGGAGTTGTGGACTTAAAAGG-G
**
5821933 TGCCATAGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
5821960 TGCCACGGAGTTAT-GACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
5821986 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
5822013 TGCCACAGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* *
5822040 TGCCACAGAGTTGTGGACTAAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* *
5822067 TACCACGGAGTTGTGGATTTTAAAAGGG
1 TGCCACGGAGTTGTGGA-CTTAAAAGGG
*
5822095 TGCCACAGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
5822122 TACCACGGAGTTGTGGACTTTAAAAGGG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
* * *
5822150 TGCCACAGAGTTGTGGATTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
5822177 TGCCACAGAGTTGTGGACTTTAAAAG
1 TGCCACGGAGTTGTGGAC-TTAAAAG
5822203 AAAATGCCAC
Statistics
Matches: 868, Mismatches: 70, Indels: 32
0.89 0.07 0.03
Matches are distributed among these distances:
26 25 0.03
27 543 0.63
28 300 0.35
ACGTcount: A:0.30, C:0.14, G:0.33, T:0.23
Consensus pattern (27 bp):
TGCCACGGAGTTGTGGACTTAAAAGGG
Found at i:5821290 original size:55 final size:54
Alignment explanation
Indices: 5821221--5822202 Score: 1430
Period size: 55 Copynumber: 18.0 Consensus size: 54
5821211 TGGAATGGGT
* * * *
5821221 TGCCACCGATTTGTGAATTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGG
5821276 TGCCACGGAGTTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGG
* *
5821331 ATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTAAAAAGGG
1 -TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
* * *
5821386 TGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAAAGA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTT-AAAAGGG
* * *
5821442 TGCCACAGAGTTATAGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
* *
5821496 TGCTACGGAGTTGTGGTCTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
* * *
5821550 ATGCCATGGAGTTATGGACTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGG
1 -TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
*
5821605 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTA-TTAAAAGGAA
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGG-ACTTAAAAGG-G
* *
5821660 TGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAA
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGG-G
** *
5821715 TGCCATAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGAG
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
5821769 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
* * *
5821823 TGCCACGGAGTTGTGGTA-ATAAAAGGAATGCCACAGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGG-ACTTAAAAGG-GTGCCACGGAGTTGTGGACTTAAAAGGG
* *
5821878 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAA
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGG-G
** *
5821933 TGCCATAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTAT-GACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
*
5821986 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
* * * *
5822040 TGCCACAGAGTTGTGGACTAAAAAGGGTACCACGGAGTTGTGGATTTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGA-CTTAAAAGGG
* *
5822095 TGCCACAGAGTTGTGGACTTAAAAGGGTACCACGGAGTTGTGGACTTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGG
* * * *
5822150 TGCCACAGAGTTGTGGATTTAAAAGGATGCCACAGAGTTGTGGACTTTAAAAG
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAG
5822203 AAAATGCCAC
Statistics
Matches: 851, Mismatches: 62, Indels: 28
0.90 0.07 0.03
Matches are distributed among these distances:
53 37 0.04
54 285 0.33
55 482 0.57
56 47 0.06
ACGTcount: A:0.30, C:0.14, G:0.33, T:0.23
Consensus pattern (54 bp):
TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
Found at i:5821432 original size:82 final size:81
Alignment explanation
Indices: 5821221--5822202 Score: 1448
Period size: 82 Copynumber: 12.0 Consensus size: 81
5821211 TGGAATGGGT
* * * * *
5821221 TGCCACCGATTTGTGAATTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
1 TGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAG
5821286 TTGTGGACTTAAAAGGG
65 TTGTGGACTTAAAAGGG
5821303 ATGCCACGGAGTTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGA
1 -TGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGA
*
5821368 GTTGTGGACTAAAAAGGG
64 GTTGTGGACTTAAAAGGG
* * *
5821386 TGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAAAGATGCCACAGA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTT-AAAAGGGTGCCACAGA
* *
5821451 GTTATAGACTTAAAAGGG
64 GTTGTGGACTTAAAAGGG
* * *
5821469 TGCCACGGAGTTGTGGACTTAAAAGGGTGCTACGGAGTTGTGGTCTTAAAAGGGTGCCACGGAGT
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGT
5821534 TGTGGACTTAAAAGGG
66 TGTGGACTTAAAAGGG
* * * *
5821550 ATGCCATGGAGTTATGGACTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
1 -TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAG
5821615 TTGTGGACTTAAAAGGG
65 TTGTGGACTTAAAAGGG
* * *
5821632 TGCCACGGAGTTGTGGTA-TTAAAAGGAATGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGA
1 TGCCACGGAGTTGTGG-ACTTAAAAGG-GTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGA
*
5821696 GTTGTGGACTTAAAAGGAA
64 GTTGTGGACTTAAAAGG-G
** * *
5821715 TGCCATAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGAGTGCCACGGAGT
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGT
5821780 TGTGGACTTAAAAGGG
66 TGTGGACTTAAAAGGG
* *
5821796 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTA-ATAAAAGGAATGCCACAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGG-ACTTAAAAGG-GTGCCACAGA
5821860 GTTGTGGACTTAAAAGGG
64 GTTGTGGACTTAAAAGGG
* * *
5821878 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAATGCCATAGAG
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGG-GTGCCACAGAG
5821943 TTGTGGACTTAAAAGGG
65 TTGTGGACTTAAAAGGG
*
5821960 TGCCACGGAGTTAT-GACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGT
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGT
5822024 TGTGGACTTAAAAGGG
66 TGTGGACTTAAAAGGG
* * * *
5822040 TGCCACAGAGTTGTGGACTAAAAAGGGTACCACGGAGTTGTGGATTTTAAAAGGGTGCCACAGAG
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGA-CTTAAAAGGGTGCCACAGAG
5822105 TTGTGGACTTAAAAGGG
65 TTGTGGACTTAAAAGGG
* * * *
5822122 TACCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGATTTAAAAGGATGCCACAGAG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAG
5822187 TTGTGGACTTTAAAAG
65 TTGTGGAC-TTAAAAG
5822203 AAAATGCCAC
Statistics
Matches: 824, Mismatches: 61, Indels: 28
0.90 0.07 0.03
Matches are distributed among these distances:
80 38 0.05
81 162 0.20
82 440 0.53
83 184 0.22
ACGTcount: A:0.30, C:0.14, G:0.33, T:0.23
Consensus pattern (81 bp):
TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGT
TGTGGACTTAAAAGGG
Found at i:5829497 original size:23 final size:23
Alignment explanation
Indices: 5829448--5829498 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
5829438 ATATTTTTTT
* * *
5829448 ATTTTTTAAAACAAATAAAGATC
1 ATTTTTTAAAACAAAAAAACATA
5829471 ATTTTTTAAAA-AAAAAAACATA
1 ATTTTTTAAAACAAAAAAACATA
*
5829493 AATTTT
1 ATTTTT
5829499 GAACTTTTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 13 0.54
23 11 0.46
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.37
Consensus pattern (23 bp):
ATTTTTTAAAACAAAAAAACATA
Found at i:5830049 original size:17 final size:17
Alignment explanation
Indices: 5830027--5830062 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
5830017 CATTTCATAT
* *
5830027 TTTTTCTTTTTTTTTTC
1 TTTTTCTTTCTTTCTTC
5830044 TTTTTCTTTCTTTCTTC
1 TTTTTCTTTCTTTCTTC
5830061 TT
1 TT
5830063 CATCTTCCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTTCTTTCTTTCTTC
Found at i:5831552 original size:21 final size:21
Alignment explanation
Indices: 5831523--5831565 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
5831513 TTCATTCATT
* * *
5831523 CCTCTTTTCCCCACTCAACAA
1 CCTCCTTTCCCAAATCAACAA
5831544 CCTCCTTTCCCAAATCAACAA
1 CCTCCTTTCCCAAATCAACAA
5831565 C
1 C
5831566 TGATTCACTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.47, G:0.00, T:0.26
Consensus pattern (21 bp):
CCTCCTTTCCCAAATCAACAA
Found at i:5832342 original size:22 final size:21
Alignment explanation
Indices: 5832307--5832351 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
5832297 TCAAAAAATT
5832307 AATTAAAATAATTTAAATTTA
1 AATTAAAATAATTTAAATTTA
*
5832328 AATTAAATATAATTTTAATTTA
1 AATTAAA-ATAATTTAAATTTA
5832350 AA
1 AA
5832352 AATATTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
AATTAAAATAATTTAAATTTA
Found at i:5832362 original size:20 final size:19
Alignment explanation
Indices: 5832332--5832405 Score: 68
Period size: 19 Copynumber: 4.0 Consensus size: 19
5832322 AATTTAAATT
5832332 AAATA-TAATTTTAATTTAA
1 AAATATTAA-TTTAATTTAA
5832351 AAATATTAATTTAA--TAA
1 AAATATTAATTTAATTTAA
*
5832368 AAATAAT-ATTTATATCTT-A
1 AAATATTAATTTA-AT-TTAA
*
5832387 AATTATTAATTTAATTTAA
1 AAATATTAATTTAATTTAA
5832406 TTTTATAACT
Statistics
Matches: 45, Mismatches: 3, Indels: 14
0.73 0.05 0.23
Matches are distributed among these distances:
16 5 0.11
17 10 0.22
18 2 0.04
19 19 0.42
20 9 0.20
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (19 bp):
AAATATTAATTTAATTTAA
Found at i:5834418 original size:23 final size:23
Alignment explanation
Indices: 5834377--5834437 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 23
5834367 AATAAGATTT
*
5834377 TTTTATTATAA-AATT-TATAT-
1 TTTTATAATAATAATTATATATA
5834397 TTTTATAAT-ATAATTATATATA
1 TTTTATAATAATAATTATATATA
*
5834419 TTTTATAATAATAGTTATA
1 TTTTATAATAATAATTATA
5834438 ATTTTATTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
19 1 0.03
20 12 0.34
21 5 0.14
22 9 0.26
23 8 0.23
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
TTTTATAATAATAATTATATATA
Found at i:5834445 original size:25 final size:24
Alignment explanation
Indices: 5834388--5834449 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 24
5834378 TTTATTATAA
5834388 AATTTATATTTTTATAATATAATTAT
1 AATTT-TA-TTTTATAATATAATTAT
* *
5834414 -A-TATATTTTATAATAATAGTTAT
1 AATTTTATTTTATAAT-ATAATTAT
5834437 AATTTTATTTTAT
1 AATTTTATTTTAT
5834450 TAGTAGTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
22 9 0.30
23 9 0.30
24 2 0.07
25 10 0.33
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (24 bp):
AATTTTATTTTATAATATAATTAT
Found at i:5835694 original size:52 final size:53
Alignment explanation
Indices: 5835588--5835694 Score: 146
Period size: 52 Copynumber: 2.0 Consensus size: 53
5835578 AACTCGAAAT
*
5835588 AATTCGAATTTAAGTAACTCAAACCTAAATAAATTCAAATTAAAAACTACCTG
1 AATTCGAATTTAAGTAACTCAAACCTAAATAAATTCAAATTAAAAACAACCTG
* * * *
5835641 AATTCGAA-TTATA-TAATTCAAACCTAAATAAATTTAAATTCAAAACAATCTG
1 AATTCGAATTTA-AGTAACTCAAACCTAAATAAATTCAAATTAAAAACAACCTG
5835693 AA
1 AA
5835695 CATAAAATTA
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
52 39 0.81
53 9 0.19
ACGTcount: A:0.50, C:0.15, G:0.05, T:0.30
Consensus pattern (53 bp):
AATTCGAATTTAAGTAACTCAAACCTAAATAAATTCAAATTAAAAACAACCTG
Found at i:5836693 original size:14 final size:15
Alignment explanation
Indices: 5836661--5836718 Score: 52
Period size: 14 Copynumber: 4.1 Consensus size: 15
5836651 TATTATCAGA
5836661 ATTAAATATAA-ATT
1 ATTAAATATAATATT
*
5836675 TTTAAATATAATA-T
1 ATTAAATATAATATT
*
5836689 ATTAAAT-TATTATT
1 ATTAAATATAATATT
*
5836703 TTTAAA-ATAATTATT
1 ATTAAATATAA-TATT
5836718 A
1 A
5836719 GATATATTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
13 4 0.12
14 25 0.74
15 5 0.15
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTAAATATAATATT
Found at i:5836695 original size:28 final size:27
Alignment explanation
Indices: 5836661--5836725 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 27
5836651 TATTATCAGA
5836661 ATTAAATATA-AATTTTTAAATATAATAT
1 ATTAAATATATAATTTTTAAA-ATAAT-T
*
5836689 ATTAAAT-TATTATTTTTAAAATAATT
1 ATTAAATATATAATTTTTAAAATAATT
*
5836715 ATTAGATATAT
1 ATTAAATATAT
5836726 TTATAATAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
26 7 0.21
27 10 0.30
28 16 0.48
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (27 bp):
ATTAAATATATAATTTTTAAAATAATT
Found at i:5836865 original size:15 final size:15
Alignment explanation
Indices: 5836845--5836876 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
5836835 TGCAGAGTTA
5836845 AAAAACTTCAATAAC
1 AAAAACTTCAATAAC
5836860 AAAAACTTCAATAAC
1 AAAAACTTCAATAAC
5836875 AA
1 AA
5836877 TGAAGTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.62, C:0.19, G:0.00, T:0.19
Consensus pattern (15 bp):
AAAAACTTCAATAAC
Found at i:5836990 original size:15 final size:16
Alignment explanation
Indices: 5836954--5836995 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
5836944 AACTTTAATT
5836954 TTAA-AATATATTATA
1 TTAATAATATATTATA
5836969 TTAATAATATATT-TA
1 TTAATAATATATTATA
5836984 TCT-ATAATATAT
1 T-TAATAATATAT
5836996 ATAAAAAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 16 0.64
16 9 0.36
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (16 bp):
TTAATAATATATTATA
Found at i:5837081 original size:22 final size:19
Alignment explanation
Indices: 5837056--5837105 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 19
5837046 TAAATTATCT
*
5837056 TTTATAAATATATTTTTTATTA
1 TTTATAAATAT-TTATTTA--A
5837078 TTTATAAA-ATTTATTTAA
1 TTTATAAATATTTATTTAA
5837096 TTTATAAATA
1 TTTATAAATA
5837106 AAAAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 9 0.35
19 1 0.04
20 6 0.23
21 2 0.08
22 8 0.31
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTATAAATATTTATTTAA
Found at i:5838726 original size:32 final size:32
Alignment explanation
Indices: 5838680--5838744 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
5838670 TGTCATTGTT
5838680 ATTACATCTCTATCCCAACATCTTGAATACTA
1 ATTACATCTCTATCCCAACATCTTGAATACTA
* *
5838712 ATTATATCTCTATCCCATCATCTTGAATACTA
1 ATTACATCTCTATCCCAACATCTTGAATACTA
5838744 A
1 A
5838745 CTGTTAGCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.34, C:0.26, G:0.03, T:0.37
Consensus pattern (32 bp):
ATTACATCTCTATCCCAACATCTTGAATACTA
Found at i:5840891 original size:25 final size:24
Alignment explanation
Indices: 5840856--5840906 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
5840846 TGATTCAAGA
*
5840856 AAAAATATTAAAT-TAAACTAAATT
1 AAAAATATTAAATACAAACT-AATT
5840880 AAAAATATTTAAATACAAACTAATT
1 AAAAATA-TTAAATACAAACTAATT
5840905 AA
1 AA
5840907 GCTTAAGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 7 0.29
25 12 0.50
26 5 0.21
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (24 bp):
AAAAATATTAAATACAAACTAATT
Found at i:5841885 original size:23 final size:21
Alignment explanation
Indices: 5841839--5841886 Score: 53
Period size: 23 Copynumber: 2.1 Consensus size: 21
5841829 CAAAATTTAC
5841839 TTTGATTTTTTTTTTTTTCAGA
1 TTTGATTTTTTTTTTTTT-AGA
5841861 TTTGATTCTTTTTCTTTTGTT-GA
1 TTTGATT-TTTTT-TTTT-TTAGA
5841884 TTT
1 TTT
5841887 TTAGCTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
22 7 0.30
23 10 0.43
24 4 0.17
25 2 0.09
ACGTcount: A:0.10, C:0.06, G:0.10, T:0.73
Consensus pattern (21 bp):
TTTGATTTTTTTTTTTTTAGA
Found at i:5842116 original size:6 final size:6
Alignment explanation
Indices: 5842105--5842129 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
5842095 CAAAATAATT
5842105 AAATAA AAATAA AAATAA AAATAA A
1 AAATAA AAATAA AAATAA AAATAA A
5842130 TGGAATGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:5842148 original size:15 final size:15
Alignment explanation
Indices: 5842128--5842175 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
5842118 AATAAAAATA
5842128 AATGGAATGAAATGG
1 AATGGAATGAAATGG
* * *
5842143 AATGGAAAGAATTGA
1 AATGGAATGAAATGG
5842158 AATGGATATGAACATGG
1 AATGGA-ATGAA-ATGG
5842175 A
1 A
5842176 CTTGGACATG
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
15 18 0.72
16 4 0.16
17 3 0.12
ACGTcount: A:0.48, C:0.02, G:0.29, T:0.21
Consensus pattern (15 bp):
AATGGAATGAAATGG
Found at i:5842913 original size:3 final size:3
Alignment explanation
Indices: 5842901--5842930 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
5842891 TTTGAATTAA
5842901 ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
5842931 ATCAAAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:5845682 original size:6 final size:6
Alignment explanation
Indices: 5845664--5845725 Score: 74
Period size: 6 Copynumber: 10.7 Consensus size: 6
5845654 TAACACAATC
* * *
5845664 ATTAGA ATT-GG ATTTGG ATT-GG GTTAGG ATTAGG ATTAGG ATTAGG
1 ATTAGG ATTAGG ATTAGG ATTAGG ATTAGG ATTAGG ATTAGG ATTAGG
*
5845710 ATTGGG ATTAGG ATTA
1 ATTAGG ATTAGG ATTA
5845726 AACATGATAT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
5 8 0.16
6 41 0.84
ACGTcount: A:0.29, C:0.00, G:0.34, T:0.37
Consensus pattern (6 bp):
ATTAGG
Found at i:5847197 original size:13 final size:13
Alignment explanation
Indices: 5847181--5847211 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
5847171 TAATATTTTT
5847181 TATTTATATTTAA
1 TATTTATATTTAA
*
5847194 TATTGATATTTAA
1 TATTTATATTTAA
5847207 TATTT
1 TATTT
5847212 TAATAATGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.61
Consensus pattern (13 bp):
TATTTATATTTAA
Found at i:5847641 original size:16 final size:16
Alignment explanation
Indices: 5847604--5847653 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
5847594 ATAAAATATA
*
5847604 TATATT-TATTAATTAT
1 TATATTATATTTATT-T
5847620 TA-ATTATATTTATTT
1 TATATTATATTTATTT
*
5847635 TATATTAAATTTATATT
1 TATATTATATTTAT-TT
5847652 TA
1 TA
5847654 AATATTAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
15 6 0.21
16 19 0.66
17 4 0.14
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TATATTATATTTATTT
Found at i:5847648 original size:22 final size:22
Alignment explanation
Indices: 5847585--5847653 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 22
5847575 TAAAAAATCA
*
5847585 TATTATTATATAAAATATATATATT
1 TATT-TTATATTAAAT-T-TATATT
*
5847610 TA-TTAATTATT-AA-TTATATT
1 TATTTTA-TATTAAATTTATATT
5847630 TATTTTATATTAAATTTATATT
1 TATTTTATATTAAATTTATATT
5847652 TA
1 TA
5847654 AATATTAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 11
0.73 0.06 0.22
Matches are distributed among these distances:
20 12 0.32
21 6 0.16
22 9 0.24
23 4 0.11
24 4 0.11
25 2 0.05
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
TATTTTATATTAAATTTATATT
Found at i:5849901 original size:20 final size:20
Alignment explanation
Indices: 5849876--5849922 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
5849866 TGTTAAAATT
*
5849876 TATATAAAATAAAT-TATTAA
1 TATATAAAA-AAATATATAAA
*
5849896 TATATAAAAATATATATAAA
1 TATATAAAAAAATATATAAA
5849916 TATATAA
1 TATATAA
5849923 TACTTTTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 3 0.12
20 21 0.88
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
TATATAAAAAAATATATAAA
Found at i:5850671 original size:3 final size:3
Alignment explanation
Indices: 5850663--5850712 Score: 70
Period size: 3 Copynumber: 17.7 Consensus size: 3
5850653 ATGTGAAAAG
*
5850663 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AA- AAT AA- AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
5850708 AAT AA
1 AAT AA
5850713 ACATGAAAGC
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
2 6 0.14
3 37 0.86
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:5850792 original size:6 final size:6
Alignment explanation
Indices: 5850781--5850807 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
5850771 GAGTGACGGG
5850781 CCTGCC CCTGCC CCTGCC CCTGCC CCT
1 CCTGCC CCTGCC CCTGCC CCTGCC CCT
5850808 TGCATTTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.67, G:0.15, T:0.19
Consensus pattern (6 bp):
CCTGCC
Found at i:5850963 original size:26 final size:25
Alignment explanation
Indices: 5850925--5850993 Score: 84
Period size: 26 Copynumber: 2.7 Consensus size: 25
5850915 TGGAATCTTT
***
5850925 TATTTTTATTTATTTTTTAATTTTA
1 TATTTTTATTTATTTAAAAATTTTA
5850950 TATTTTTATTTTATTTAAAAATTTTA
1 TATTTTTA-TTTATTTAAAAATTTTA
*
5850976 AATTATTTATTTATTTAA
1 TATT-TTTATTTATTTAA
5850994 TTAAATATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
25 8 0.21
26 26 0.68
27 4 0.11
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (25 bp):
TATTTTTATTTATTTAAAAATTTTA
Done.