Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold279
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: 1516008
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
File 3 of 10
Found at i:356184 original size:61 final size:61
Alignment explanation
Indices: 356036--356527 Score: 588
Period size: 61 Copynumber: 8.2 Consensus size: 61
356026 AAGTGTCCTA
* * * * *
356036 CTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGTTTTGAAAA-AAAATGTGTCTTA
1 CTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCTTG
* *
356096 CTCTTTGAGGACTAAAAGGTGCCACCAACGTGTGTGGGCTTTAAAAAGAAAAGGCATCTTG
1 CTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCTTG
* * *
356157 CTCTTTGAGGACTAAAAGGTGCCACCAACTTGTATGGGCTTT-AAAAGGAAA-GTGTCTTG
1 CTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCTTG
* * *
356216 CTCTTTGAGGACTAGAAGGTGCCACCAACTCGTGTGGGCTTTAAAAA-AAAAGGCGTCCTG
1 CTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCTTG
* * * * * *
356276 CTCTTTAAGGACTGAAAGATGCCACCAACTCGTGTGGG-TTTTAAAAGAAAAAGGCGTCATG
1 CTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAG-AAAAGGCGTCTTG
* * * * *
356337 TTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTG
1 CTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCTTG
* * * * *
356398 CTCTTTGAGGACTGAAAGGTGCCACTAACCTGTGTGGGCTTTAAAAGGAAAA--TGTCTTG
1 CTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCTTG
* * * * * *
356457 CTCTTTAAGGATTGAAAGGTGCCACCAATTTGTGTGGGCTTTAAAAAGGAAAA--TGTCCTG
1 CTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAA-GAAAAGGCGTCTTG
356517 CTCTTTGAGGA
1 CTCTTTGAGGA
356528 TTGAAAGGAT
Statistics
Matches: 380, Mismatches: 45, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
59 101 0.27
60 117 0.31
61 155 0.41
62 7 0.02
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.27
Consensus pattern (61 bp):
CTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCTTG
Found at i:356301 original size:180 final size:178
Alignment explanation
Indices: 356026--356527 Score: 620
Period size: 180 Copynumber: 2.8 Consensus size: 178
356016 AGAAAAGAGG
* * * * *
356026 AAGTGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGTTTTGAAAAAAAATGTG
1 AAGTGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAAAAAAGTG
* * * *
356091 TCTTACTCTTTGAGGACTAAAAGGTGCCACCAACGTGTGTGGGCTTTAAAAAGAAAAGGCATCTT
65 TCTTGCTCTTTAAGGACTGAAAGGTGCCACCAAC-TGTGTGGGCTTTAAAAAGAAAAGGC-TCAT
356156 GCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTATGGGCTTTAAAAGG-A
128 GCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTATGGGCTTTAAAAGGAA
* *
356206 AAGTGTCTTGCTCTTTGAGGACTAGAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAAAAAGGCG
1 AAGTGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAAAAA-GTG
* * *
356271 TCCTGCTCTTTAAGGACTGAAAGATGCCACCAACTCGTGTGGG-TTTTAAAAGAAAAAGGCGTCA
65 TCTTGCTCTTTAAGGACTGAAAGGTGCCACCAACT-GTGTGGGCTTTAAAAAG-AAAAGGC-TCA
* * * *
356335 TGTTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAA
127 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTATGGGCTTTAAAAGGAA
* * *
356387 AAGGCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACTAAC-CTGTGTGGGCTTTAAAAGGAAAA
1 AA-GTGTCCTGCTCTTTGAGGACTAG-AAGGTGCCACCAACTC-GTGTGGGCTTTAAAA-AAAAA
* * *
356450 -TGTCTTGCTCTTTAAGGATTGAAAGGTGCCACCAATTTGTGTGGGCTTTAAAAAGGAAAATG-T
62 GTGTCTTGCTCTTTAAGGACTGAAAGGTGCCACCAA-CTGTGTGGGCTTTAAAAA-GAAAAGGCT
*
356513 CCTGCTCTTTGAGGA
125 CATGCTCTTTGAGGA
356528 TTGAAAGGAT
Statistics
Matches: 279, Mismatches: 32, Indels: 22
0.84 0.10 0.07
Matches are distributed among these distances:
179 17 0.06
180 154 0.55
181 43 0.15
182 60 0.22
183 5 0.02
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (178 bp):
AAGTGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAAAAAGTGT
CTTGCTCTTTAAGGACTGAAAGGTGCCACCAACTGTGTGGGCTTTAAAAAGAAAAGGCTCATGCT
CTTTGAGGACTAAAAGGTGCCACCAACTTGTATGGGCTTTAAAAGGAA
Found at i:356402 original size:241 final size:239
Alignment explanation
Indices: 356030--356534 Score: 699
Period size: 241 Copynumber: 2.1 Consensus size: 239
356020 AAGAGGAAGT
* * * * * * * *
356030 GTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGTTTTGAAAAAAAATGTGTCTT
1 GTCCTGCTCTTTGAGGACTGAAAGATGCCACCAACTCGTGTGGGTTTTAAAAAAAAAGGCGTCAT
*
356095 ACTCTTTGAGGACTAAAAGGTGCCACCAACGTGTGTGGGCTTTAAAAAGAAAAGGCATCTTGCTC
66 ACTCTTTGAGGACTAAAAGGTGCCACCAACGTGTGTGGGCTTTAAAAAGAAAAGGCATCCTGCTC
* * *
356160 TTTGAGGACTAAAAGGTGCCACCAACTTGTATGGGCTTTAAAAGGAAAGTGTCTTGCTCTTTGAG
131 TTTGAGGACTAAAAGGTGCCACCAACCTGTATGGGCTTTAAAAGGAAAATGTCTTGCTCTTTAAG
356225 GACTAG-AAGGTGCCACCAACTCGTGTGGGCTTTAAAAA-AAAAGGC
196 GA-TAGAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAA--C
*
356270 GTCCTGCTCTTTAAGGACTGAAAGATGCCACCAACTCGTGTGGGTTTTAAAAGAAAAAGGCGTCA
1 GTCCTGCTCTTTGAGGACTGAAAGATGCCACCAACTCGTGTGGGTTTTAAAA-AAAAAGGCGTCA
** * * * * *
356335 TGTTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCT
65 TACTCTTTGAGGACTAAAAGGTGCCACCAACGTGTGTGGGCTTTAAAAAGAAAAGGCATCCTGCT
* * *
356400 CTTTGAGGACTGAAAGGTGCCACTAACCTGTGTGGGCTTTAAAAGGAAAATGTCTTGCTCTTTAA
130 CTTTGAGGACTAAAAGGTGCCACCAACCTGTATGGGCTTTAAAAGGAAAATGTCTTGCTCTTTAA
* * * *
356465 GGATTGAAAGGTGCCACCAATTTGTGTGGGCTTTAAAAAGGAAAAT
195 GGATAGAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAA-GAAAAC
*
356511 GTCCTGCTCTTTGAGGATTGAAAG
1 GTCCTGCTCTTTGAGGACTGAAAG
356535 GATAAAAGGT
Statistics
Matches: 232, Mismatches: 29, Indels: 7
0.87 0.11 0.03
Matches are distributed among these distances:
240 48 0.21
241 180 0.78
243 4 0.02
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (239 bp):
GTCCTGCTCTTTGAGGACTGAAAGATGCCACCAACTCGTGTGGGTTTTAAAAAAAAAGGCGTCAT
ACTCTTTGAGGACTAAAAGGTGCCACCAACGTGTGTGGGCTTTAAAAAGAAAAGGCATCCTGCTC
TTTGAGGACTAAAAGGTGCCACCAACCTGTATGGGCTTTAAAAGGAAAATGTCTTGCTCTTTAAG
GATAGAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAC
Found at i:367928 original size:78 final size:78
Alignment explanation
Indices: 367819--369190 Score: 851
Period size: 79 Copynumber: 17.4 Consensus size: 78
367809 GGGGTTTAAA
* * * *
367819 TATCGCCTCAAAAATAACGAGGTTGGAGTATCTCCGACGGTG-AAAATCAGTGTTTTAGAAATAA
1 TATCCCCTCAGAAATAACGGGGTTGGAGTATC-CCGATGGTGAAAAATCAGTGTTTTAGAAATAA
** *
367883 AATTAAGGTTGGCG
65 AATTGGGGTTGGAG
* *
367897 TATCCCCTCAGAAATAATGGGGTTAGAGTATCCCCGATGGT-AGAAAATCAGTGTTTTAGAAATA
1 TATCCCCTCAGAAATAACGGGGTTGGAGTAT-CCCGATGGTGA-AAAATCAGTGTTTTAGAAATA
**
367961 AAATTGGGGTTAAAG
64 AAATTGGGGTTGGAG
* ** * * * * * **
367976 AATCCTTTCAGCAATAACGAGATTGGAGTATCCCTGACGTTGAAAAATTGGTGTTTTAGAAATAA
1 TATCCCCTCAGAAATAACGGGGTTGGAGTATCCC-GATGGTGAAAAATCAGTGTTTTAGAAATAA
** *
368041 AATCAGGGTTAGAG
65 AATTGGGGTTGGAG
** * ** ** * *
368055 TAT-CCCAAAAAAATAATAGGGTTGGAGTATCTTTGATGGTGGAAAATC-GATGCTTTA-AAGAT
1 TATCCCCTCAGAAATAACGGGGTTGGAGTATC-CCGATGGTGAAAAATCAG-TGTTTTAGAA-AT
* *
368117 AAAATTGGGATTAGAG
63 AAAATTGGGGTTGGAG
* * * * ** *
368133 TATCCCATC-GAAAATAACAGAGTTAGAGTATCCTCGATAATGAAAAATTAGTGTTTTAGAAATA
1 TATCCCCTCAG-AAATAACGGGGTTGGAGTATCC-CGATGGTGAAAAATCAGTGTTTTAGAAATA
368197 AAATTGGGGTTGGAG
64 AAATTGGGGTTGGAG
* *
368212 TATCCCCTTAGAAATAACGAGGTTGGAGTATCCCTGATGGTGAAAAATC-GATGTTTTAGAAATA
1 TATCCCCTCAGAAATAACGGGGTTGGAGTATCCC-GATGGTGAAAAATCAG-TGTTTTAGAAATA
* * *
368276 AAACTAGGGTTGGTG
64 AAATTGGGGTTGGAG
* * * * * *
368291 TATCCTCTC-GTAAAAAACGGGATTGGAGCATCTTCGATGGTGGAAAATCAGTGTTTTAGAAATA
1 TATCCCCTCAG-AAATAACGGGGTTGGAGTATC-CCGATGGTGAAAAATCAGTGTTTTAGAAATA
* *
368355 AAACTAGGGTTGGAG
64 AAATTGGGGTTGGAG
* * * * * * * *
368370 TATCCTCTC-GAAAAAAACGAGATTTGAGTATCCTCGGTGGTGAAAAATC-GATGCTTTAGAGAT
1 TATCCCCTCAG-AAATAACGGGGTTGGAGTATCC-CGATGGTGAAAAATCAG-TGTTTTAGAAAT
368433 AAAATTGGGGTTGGAG
63 AAAATTGGGGTTGGAG
** * * * * * * *
368449 TATCCATTCAAAAATAACGAGGTTGCAATATCCCGATGGTGGAAAAATC-GATGCTTTGGAGATA
1 TATCCCCTCAGAAATAACGGGGTTGGAGTATCCCGATGGT-GAAAAATCAG-TGTTTTAGAAATA
* *
368513 AAATCGAGGTTGGAG
64 AAATTGGGGTTGGAG
* * * * * *
368528 TATCCCAT-AGAAAATAACAGGGTTAGAGTGTCCCGAT-ATGGAAAAATCAGT-TCTTTAGAGAT
1 TATCCCCTCAG-AAATAACGGGGTTGGAGTATCCCGATGGT-GAAAAATCAGTGT-TTTAGAAAT
* *
368590 AAAA-CGAGGATTGGAG
63 AAAATTG-GGGTTGGAG
* * * * * * * * *
368606 TATCTCCAT-GGAAATAACAGGATTGGAGTATCCTGATGGCGAAAAATC-GATGCTTTGGAGATA
1 TATC-CCCTCAGAAATAACGGGGTTGGAGTATCCCGATGGTGAAAAATCAG-TGTTTTAGAAATA
*
368669 AAATCGGGGTTGGAG
64 AAATTGGGGTTGGAG
* * * ** * * *
368684 TATCCCATAAAAAATAATAGGGTTGGAGTATCTCGATGATGAAAAATCAATGTTTTAGAAATAAA
1 TATCCCCTCAGAAATAACGGGGTTGGAGTATCCCGATGGTGAAAAATCAGTGTTTTAGAAATAAA
***
368749 ACCAGGGTTGGAG
66 ATTGGGGTTGGAG
* * * * * ** *
368762 TAT-CCCTCTAGTAATAATGAGGTTAGAGTATCCCTGATGGTGGAAAATTGGTGTTTTAGATATA
1 TATCCCCTC-AGAAATAACGGGGTTGGAGTATCCC-GATGGTGAAAAATCAGTGTTTTAGAAATA
* * *
368826 AAATCGGGATTGTAG
64 AAATTGGGGTTGGAG
** * * * *
368841 TATCGTCTTAGAAATAACGGGATTGGAGTATCCCCGATAGCGAAAAAT-AGTGTTTTAGAAATAA
1 TATCCCCTCAGAAATAACGGGGTTGGAGTAT-CCCGATGGTGAAAAATCAGTGTTTTAGAAATAA
*
368905 AAATGGGGTTGGAG
65 AATTGGGGTTGGAG
* ** * * ** * ** * *
368919 TATCCTCTTGGAAATAACAGGATTAAAGTATCTCCGATAGTGGGAAATTAGTGGTTTAGAAATAA
1 TATCCCCTCAGAAATAACGGGGTTGGAGTATC-CCGATGGTGAAAAATCAGTGTTTTAGAAATAA
** *
368984 AATCAGGGTTAGAG
65 AATTGGGGTTGGAG
* * * * *
368998 TATCCCCT-TGAAAATAACAGGGTTAGAGTATCCCAGATGGTGGAAAAATCAGTGCTTTAGAGAT
1 TATCCCCTCAG-AAATAACGGGGTTGGAGTATCCC-GATGGT-GAAAAATCAGTGTTTTAGAAAT
*
369062 AAAATTGAGGTTGGAG
63 AAAATTGGGGTTGGAG
** * * * * ** * * *
369078 TATCCTTTCA-AGAATAACAGGGTTGAAGCATCCTTGATGGTGGAAAAATTGGTGCTTTCGAGAT
1 TATCCCCTCAGA-AATAACGGGGTTGGAGTATCC-CGATGGT-GAAAAATCAGTGTTTTAGAAAT
* *
369142 AAAACTAGGGTTGGAG
63 AAAATTGGGGTTGGAG
* ** * *
369158 TATCCCTTTGGAAATAATGGGGTTAGAGTATCC
1 TATCCCCTCAGAAATAACGGGGTTGGAGTATCC
369191 ATTTGGAAAT
Statistics
Matches: 1019, Mismatches: 228, Indels: 92
0.76 0.17 0.07
Matches are distributed among these distances:
77 14 0.01
78 329 0.32
79 548 0.54
80 127 0.12
81 1 0.00
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (78 bp):
TATCCCCTCAGAAATAACGGGGTTGGAGTATCCCGATGGTGAAAAATCAGTGTTTTAGAAATAAA
ATTGGGGTTGGAG
Found at i:368094 original size:157 final size:156
Alignment explanation
Indices: 367830--369164 Score: 884
Period size: 157 Copynumber: 8.5 Consensus size: 156
367820 ATCGCCTCAA
* * ** * *
367830 AAATAACGAGGTTGGAGTATCTCC-GACGGTG-AAAATCAGTGTTTTAGAAATAAAATTAAGGTT
1 AAATAACGAGATTGGAGTATC-CCTGATGGTGAAAAATTGGTGTTTTAGAAATAAAATCAGGGTT
* * * * *
367893 GGCGTATCCCCTCAGAAATAATGGGGTTAGAGTATCCCCGATGGT-AGAAAATCAGTGTTTTAGA
65 GGAGTAT-CCCTAAAAAATAA-AGGGTTGGAGTATCCCCGATGGTGA-AAAATCAGTGTTTTAGA
** *
367957 AATAAAATTGGGGTTAAAGAATCCTTTCAG
127 AATAAAATTGGGGTTGGAGTATCCTTTCAG
* * * *
367987 CAATAACGAGATTGGAGTATCCCTGACGTTGAAAAATTGGTGTTTTAGAAATAAAATCAGGGTTA
1 AAATAACGAGATTGGAGTATCCCTGATGGTGAAAAATTGGTGTTTTAGAAATAAAATCAGGGTTG
* *** * *
368052 GAGTATCCCAAAAAAATAATAGGGTTGGAGTATCTTTGATGGTGGAAAATC-GATGCTTTA-AAG
66 GAGTATCCCTAAAAAATAA-AGGGTTGGAGTATCCCCGATGGTGAAAAATCAG-TGTTTTAGAA-
* * **
368115 ATAAAATTGGGATTAGAGTATCCCATC-G
128 ATAAAATTGGGGTTGGAGTATCCTTTCAG
* ** * **
368143 AAAATAAC-AGAGTTAGAGTAT-CCTCGATAATGAAAAATTAGTGTTTTAGAAATAAAATTGGGG
1 -AAATAACGAGA-TTGGAGTATCCCT-GATGGTGAAAAATTGGTGTTTTAGAAATAAAATCAGGG
* * * *
368206 TTGGAGTATCCCCTTAGAAATAACGAGGTTGGAGTATCCCTGATGGTGAAAAATC-GATGTTTTA
63 TTGGAGTAT-CCCTAAAAAATAAAG-GGTTGGAGTATCCCCGATGGTGAAAAATCAG-TGTTTTA
* * * *
368270 GAAATAAAACTAGGGTTGGTGTATCCTCTC-G
125 GAAATAAAATTGGGGTTGGAGTATCCTTTCAG
* * * * * **
368301 TAAAAAACGGGATTGGAGCAT-CTTCGATGGTGGAAAATCAGTGTTTTAGAAATAAAA-CTAGGG
1 -AAATAACGAGATTGGAGTATCCCT-GATGGTGAAAAATTGGTGTTTTAGAAATAAAATC-AGGG
* * * * * * *
368364 TTGGAGTATCCTCTCGAAAAA-AACGAGATTTGAGTATCCTCGGTGGTGAAAAATC-GATGCTTT
63 TTGGAGTATCC-CT-AAAAAATAAAG-GGTTGGAGTATCCCCGATGGTGAAAAATCAG-TGTTTT
* * *
368427 AGAGATAAAATTGGGGTTGGAGTATCCATTCAA
124 AGAAATAAAATTGGGGTTGGAGTATCCTTTCAG
* * * * * * * *
368460 AAATAACGAGGTTGCAATATCCC-GATGGTGGAAAAATCGATGCTTTGGAGATAAAATC-GAGGT
1 AAATAACGAGATTGGAGTATCCCTGATGGT-GAAAAATTGGTGTTTTAGAAATAAAATCAG-GGT
* * * *
368523 TGGAGTATCCCATAGAAAATAACAGGGTTAGAGTGT-CCCGAT-ATGGAAAAATCAGT-TCTTTA
64 TGGAGTATCCC-TAAAAAATAA-AGGGTTGGAGTATCCCCGATGGT-GAAAAATCAGTGT-TTTA
* * * *
368585 GAGATAAAA-CGAGGATTGGAGTAT-C-TCCATGG
125 GAAATAAAATTG-GGGTTGGAGTATCCTTTCA--G
* * * * * * *
368617 AAATAAC-AGGATTGGAGTAT-CCTGATGGCGAAAAATCGATGCTTTGGAGATAAAATCGGGGTT
1 AAATAACGA-GATTGGAGTATCCCTGATGGTGAAAAATTGGTGTTTTAGAAATAAAATCAGGGTT
* * *
368680 GGAGTATCCCATAAAAAATAATAGGGTTGGAGTAT-CTCGATGATGAAAAATCAATGTTTTAGAA
65 GGAGTATCCC-TAAAAAATAA-AGGGTTGGAGTATCCCCGATGGTGAAAAATCAGTGTTTTAGAA
*** *
368744 ATAAAACCAGGGTTGGAGTATCC-CTCTAG
128 ATAAAATTGGGGTTGGAGTATCCTTTC-AG
* * * * * *
368773 TAATAATGAGGTTAGAGTATCCCTGATGGTGGAAAATTGGTGTTTTAGATATAAAATC-GGGATT
1 AAATAACGAGATTGGAGTATCCCTGATGGTGAAAAATTGGTGTTTTAGAAATAAAATCAGGG-TT
* * * * * * *
368837 GTAGTATCGTCTTAGAAATAACGGGATTGGAGTATCCCCGATAGCGAAAAAT-AGTGTTTTAGAA
65 GGAGTATC-CCTAAAAAATAAAGGG-TTGGAGTATCCCCGATGGTGAAAAATCAGTGTTTTAGAA
* *
368901 ATAAAAATGGGGTTGGAGTATCCTCTT-GG
128 ATAAAATTGGGGTTGGAGTATCCT-TTCAG
** * ** * *
368930 AAATAAC-AGGATTAAAGTATCTCC-GATAGTGGGAAATTAGTGGTTTAGAAATAAAATCAGGGT
1 AAATAACGA-GATTGGAGTATC-CCTGATGGTGAAAAATTGGTGTTTTAGAAATAAAATCAGGGT
* ** * * *
368993 TAGAGTATCCCCTTGAAAATAACAGGGTTAGAGTATCCCAGATGGTGGAAAAATCAGTGCTTTAG
64 TGGAGTAT-CCCTAAAAAATAA-AGGGTTGGAGTATCCCCGATGGT-GAAAAATCAGTGTTTTAG
* *
369058 AGATAAAATTGAGGTTGGAGTATCCTTTCA-
126 AAATAAAATTGGGGTTGGAGTATCCTTTCAG
* * * * * * *
369088 AGAATAAC-AGGGTTGAAGCATCCTTGATGGTGGAAAAATTGGTGCTTTCGAGATAAAA-CTAGG
1 A-AATAACGA-GATTGGAGTATCCCTGATGGT-GAAAAATTGGTGTTTTAGAAATAAAATC-AGG
369151 GTTGGAGTATCCCT
62 GTTGGAGTATCCCT
369165 TTGGAAATAA
Statistics
Matches: 942, Mismatches: 179, Indels: 112
0.76 0.15 0.09
Matches are distributed among these distances:
155 3 0.00
156 141 0.15
157 385 0.41
158 310 0.33
159 71 0.08
160 32 0.03
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (156 bp):
AAATAACGAGATTGGAGTATCCCTGATGGTGAAAAATTGGTGTTTTAGAAATAAAATCAGGGTTG
GAGTATCCCTAAAAAATAAAGGGTTGGAGTATCCCCGATGGTGAAAAATCAGTGTTTTAGAAATA
AAATTGGGGTTGGAGTATCCTTTCAG
Found at i:369189 original size:28 final size:28
Alignment explanation
Indices: 369149--369220 Score: 117
Period size: 28 Copynumber: 2.6 Consensus size: 28
369139 GATAAAACTA
*
369149 GGGTTGGAGTATCCCTTTGGAAATAATG
1 GGGTTAGAGTATCCCTTTGGAAATAATG
*
369177 GGGTTAGAGTATCCATTTGGAAATAATG
1 GGGTTAGAGTATCCCTTTGGAAATAATG
*
369205 GGTTTAGAGTATCCCT
1 GGGTTAGAGTATCCCT
369221 GATGGCGAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.26, C:0.11, G:0.29, T:0.33
Consensus pattern (28 bp):
GGGTTAGAGTATCCCTTTGGAAATAATG
Found at i:370840 original size:20 final size:19
Alignment explanation
Indices: 370795--370849 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
370785 TGTATCGATA
* *
370795 CATTGTATCAAAACATGCT
1 CATTGTATCAATACATACT
*
370814 CATTGTATCTATACATACT
1 CATTGTATCAATACATACT
*
370833 CAATTGTATCGATACAT
1 C-ATTGTATCAATACAT
370850 GAAACTGGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.35, C:0.20, G:0.09, T:0.36
Consensus pattern (19 bp):
CATTGTATCAATACATACT
Found at i:370923 original size:33 final size:33
Alignment explanation
Indices: 370877--370943 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
370867 CCCTAAATGA
* *
370877 AATGTATCGATACATG-GGACATTGTATCGATAC
1 AATGTATCAATACATGAAGA-ATTGTATCGATAC
*
370910 AATGTATCAATACATGAAGAATTGTATTGATAC
1 AATGTATCAATACATGAAGAATTGTATCGATAC
370943 A
1 A
370944 TTATGCCCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 28 0.93
34 2 0.07
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (33 bp):
AATGTATCAATACATGAAGAATTGTATCGATAC
Found at i:373040 original size:15 final size:16
Alignment explanation
Indices: 372994--373041 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 16
372984 GGAAGAAAAT
*
372994 AAATCAAAATTTGTTGA
1 AAATGAAAA-TTGTTGA
*
373011 AAATG-AAATTCTTGA
1 AAATGAAAATTGTTGA
373026 AAA-GAAAATTGTTGA
1 AAATGAAAATTGTTGA
373041 A
1 A
373042 CTAGAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 1 0.04
15 19 0.70
16 3 0.11
17 4 0.15
ACGTcount: A:0.50, C:0.04, G:0.15, T:0.31
Consensus pattern (16 bp):
AAATGAAAATTGTTGA
Found at i:377527 original size:81 final size:81
Alignment explanation
Indices: 377442--377607 Score: 260
Period size: 81 Copynumber: 2.0 Consensus size: 81
377432 TTTGAAATAA
* *
377442 ATTTGTTTTATAAAGGGGAGAAATTTTATTTTGATAACAAAGAGGGGAGAAAAATCATTTTAATA
1 ATTTGTTTTATAAAGGGGAGAAATTTTATTTTAATAACAAAGAGGGGAGAAAAATCATTTTAACA
*
377507 AAAGAGAGTTTTAATT
66 AAAGAGAGTTTTAACT
* * **
377523 ATTTGTTTTATAAAGGGGATAAATTTTCTTTTAATAACAAAGAGGGGAGAAAAATTGTTTTAACA
1 ATTTGTTTTATAAAGGGGAGAAATTTTATTTTAATAACAAAGAGGGGAGAAAAATCATTTTAACA
*
377588 AAATAGAGTTTTAACT
66 AAAGAGAGTTTTAACT
377604 ATTT
1 ATTT
377608 TTTAAAGGGC
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 77 1.00
ACGTcount: A:0.41, C:0.04, G:0.18, T:0.37
Consensus pattern (81 bp):
ATTTGTTTTATAAAGGGGAGAAATTTTATTTTAATAACAAAGAGGGGAGAAAAATCATTTTAACA
AAAGAGAGTTTTAACT
Found at i:378265 original size:19 final size:20
Alignment explanation
Indices: 378241--378294 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
378231 ACATTATGCT
378241 TTGTATTGATACATGCTC-A
1 TTGTATTGATACATGCTCAA
**
378260 TTGTATTGATACAAACTCAA
1 TTGTATTGATACATGCTCAA
*
378280 TTGTATCGATACATG
1 TTGTATTGATACATG
378295 AAACTGGTAG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (20 bp):
TTGTATTGATACATGCTCAA
Found at i:381337 original size:61 final size:60
Alignment explanation
Indices: 381183--381688 Score: 537
Period size: 61 Copynumber: 8.4 Consensus size: 60
381173 GAAAAAAGAA
* * *
381183 ATGTCCTGCTCTTTGATGAATAAAAGGTGTCACCAACTTGTGTGGGCTTTAAAA--AAATG
1 ATGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAA-G
* *
381242 -TGTCTTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGACAAG
1 ATGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAG
* * * * * *
381302 ACGTCCTACTCTTTAAAGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAACGGAAA-
1 ATGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAG
* * * **
381361 ATGTCTTGCTTTTTGAGGACTGAAAGGTGCCACCAACTCATG-GGGCTTTAAAAGGAAAG
1 ATGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAG
* * * ** *
381420 -GGCACCCTGCTCTTTGAGGACTGAAAA-ATGCCACCAACTCATATGGGCTTTAAAAGGAAAAG
1 ATG--TCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG-AAAG
* * * *
381482 GTGTCCTGCTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAA-
1 ATGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAG
* * * * * *
381541 AGGCATCCTACTCTTTGAGGATTGAAAGGTGCCACCAACCTCTGTGGGCTTTAAAAGGAAA-
1 ATG--TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAG
* *
381602 ATGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAGAAAGGAAA-
1 ATGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTA-AAAGGAAAG
* *
381662 ATCTCCTGCTCTTTGAGGACTGAAAGG
1 ATGTCCTGCTCTTTGAGGACTAAAAGG
381689 ATAAAAGGTT
Statistics
Matches: 375, Mismatches: 57, Indels: 29
0.81 0.12 0.06
Matches are distributed among these distances:
58 64 0.17
59 77 0.21
60 70 0.19
61 159 0.42
62 4 0.01
63 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (60 bp):
ATGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAG
Found at i:381552 original size:241 final size:238
Alignment explanation
Indices: 381225--381686 Score: 622
Period size: 241 Copynumber: 1.9 Consensus size: 238
381215 CCAACTTGTG
* * *
381225 TGGGCTTTAAAAAAATGTGTCTTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTT
1 TGGGCTTTAAAAAAAGGTGTCCTGCTCTTTAAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTT
* * * * *
381290 TAAAAAGACAAGACGTCCTACTCTTTAAAGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAA
66 TAAAAAGAAAAGACATCCTACTCTTTAAAGACTAAAAGGTGCCACCAACCTCTGTGGGCTTTAAA
* * * * * *
381355 CGGAAAATGTCTTGCTTTTTGAGGACTGAAAGGTGCCACCAACTCATG-GGGCTTTA-AAAGGAA
131 AGGAAAATGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTCATGTGGGCTTTAGAAAGGAA
*
381418 AGGGCACCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTCATA
196 A-AGC-CCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTCATA
*
381463 TGGGCTTTAAAAGGAAAAGGTGTCCTGCTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGG
1 TGGGCTTT-AAA--AAAAGGTGTCCTGCTCTTTAAGGACTAAAAGGTGCCACCAACTTGTGTGGG
* * * * * * *
381528 CTTTGAAAGGAAAAGGCATCCTACTCTTTGAGGATTGAAAGGTGCCACCAACCTCTGTGGGCTTT
63 CTTTAAAAAGAAAAGACATCCTACTCTTTAAAGACTAAAAGGTGCCACCAACCTCTGTGGGCTTT
**
381593 AAAAGGAAAATGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAGAAAG
128 AAAAGGAAAATGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTCATGTGGGCTTTAGAAAG
* *
381658 GAAAATCTCCTGCTCTTTGAGGACTGAAA
193 GAAAAGCCCCTGCTCTTTGAGGACTGAAA
381687 GGATAAAAGG
Statistics
Matches: 192, Mismatches: 27, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
238 8 0.04
239 3 0.02
241 164 0.85
242 9 0.05
243 8 0.04
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.26
Consensus pattern (238 bp):
TGGGCTTTAAAAAAAGGTGTCCTGCTCTTTAAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTT
TAAAAAGAAAAGACATCCTACTCTTTAAAGACTAAAAGGTGCCACCAACCTCTGTGGGCTTTAAA
AGGAAAATGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTCATGTGGGCTTTAGAAAGGAA
AAGCCCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTCATA
Found at i:381671 original size:180 final size:177
Alignment explanation
Indices: 381185--381688 Score: 606
Period size: 180 Copynumber: 2.8 Consensus size: 177
381175 AAAAAGAAAT
* * * * * *
381185 GTCCTGCTCTTTGATGAATAAAAGGTGTCACCAACTTGTGTGGGCTTTAAAA--AAATGTGTCTT
1 GTCCTGCTCTTTGAGGAATGAAAGGTGCCACCAACCTCTGTGGGCTTTAAAAGGAAA-GTGTCCT
* * *
381248 GCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGACAAGA-CGTCCTACT
65 GCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AA-ATC-TCCTGCT
* * * *
381312 CTTTAAAGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAACGGAAAAT
127 CTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
* * * * *
381363 GTCTTGCTTTTTGAGGACTGAAAGGTGCCACCAA-CTCATG-GGGCTTTAAAAGGAAAGGGCACC
1 GTCCTGCTCTTTGAGGAATGAAAGGTGCCACCAACCTC-TGTGGGCTTTAAAAGGAAAGTG--TC
** * *
381426 CTGCTCTTTGAGGACTGAAAAA-TGCCACCAACTCATATGGGCTTTAAAAGGAAAAGGTGTCCTG
63 CTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA--TCTCCTG
381490 CTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
125 CTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
* * *
381543 GCATCCTACTCTTTGAGGATTGAAAGGTGCCACCAACCTCTGTGGGCTTTAAAAGGAAAATGTCC
1 G--TCCTGCTCTTTGAGGAATGAAAGGTGCCACCAACCTCTGTGGGCTTTAAAAGGAAAGTGTCC
*
381608 TACTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAGAAAGGAAAATCTCCTGCTC
64 TGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTA-AAAGGAAAATCTCCTGCTC
*
381673 TTTGAGGACTGAAAGG
128 TTTAAGGACTGAAAGG
381689 ATAAAAGGTT
Statistics
Matches: 276, Mismatches: 35, Indels: 28
0.81 0.10 0.08
Matches are distributed among these distances:
177 12 0.04
178 33 0.12
179 5 0.02
180 125 0.45
181 41 0.15
182 40 0.14
183 20 0.07
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (177 bp):
GTCCTGCTCTTTGAGGAATGAAAGGTGCCACCAACCTCTGTGGGCTTTAAAAGGAAAGTGTCCTG
CTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAATCTCCTGCTCTTT
AAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
Found at i:382698 original size:19 final size:19
Alignment explanation
Indices: 382676--382712 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
382666 TTTCTTTTAA
382676 TTTTTTGTT-TTTTGTTTTT
1 TTTTTTGTTGTTTT-TTTTT
382695 TTTTTTGTTGTTTTTTTT
1 TTTTTTGTTGTTTTTTTT
382713 AAAAGAAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (19 bp):
TTTTTTGTTGTTTTTTTTT
Found at i:382705 original size:15 final size:14
Alignment explanation
Indices: 382676--382712 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
382666 TTTCTTTTAA
*
382676 TTTTTTGTTTTTTG
1 TTTTTTTTTTTTTG
382690 TTTTTTTTTTTGTTG
1 TTTTTTTTTTT-TTG
382705 TTTTTTTT
1 TTTTTTTT
382713 AAAAGAAAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 10 0.48
15 11 0.52
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (14 bp):
TTTTTTTTTTTTTG
Found at i:393250 original size:79 final size:77
Alignment explanation
Indices: 393156--393985 Score: 576
Period size: 79 Copynumber: 10.6 Consensus size: 77
393146 AAAATAATGG
* * ** *
393156 GGTTAGAGTATCCTCGATGGTGAAAAATCAGTGTTTTAGAAATAAAAGCAAGGTTAAAGTATCCC
1 GGTTGGAGTATCC-CGATGGTGAAAAATCAGTGTTTTAGAAATAAAATCGGGGTTAAAGTATCCT
393221 CTCGAAAATAACGA
65 CTCGAAAATAAC-A
* * * * * ** *
393235 GATTGGAGTATCCTCGATGGTGAAAACTTAGTGTTTTAGAAATAAAACCGAGGTTGGAGTATCTT
1 GGTTGGAGTATCC-CGATGGTGAAAAATCAGTGTTTTAGAAATAAAATCGGGGTTAAAGTATCCT
*
393300 TTCGAAAATAACA
65 CTCGAAAATAACA
** * **
393313 GGGTTGGAGTATCCCTGATGGTGAAAAAATC-GATACTTTAGAGATAAAATCGGGGTTGGAGTAT
1 -GGTTGGAGTATCCC-GATGGTG-AAAAATCAG-TGTTTTAGAAATAAAATCGGGGTTAAAGTAT
*
393377 CCCCTCGAAAATAACAA
62 CCTCTCGAAAATAAC-A
** * ** * ** **
393394 ATTTGGAGTATTCCCGATGATGAAAAATTTGTGTTTTAGAAATAAAAACAAGGTTGGAGTATCCT
1 GGTTGGAGTA-TCCCGATGGTGAAAAATCAGTGTTTTAGAAATAAAATCGGGGTTAAAGTATCCT
* *
393459 CTCAAAAATATCAA
65 CTCGAAAATAAC-A
* ** *
393473 GGTTGGAGTATCCCGATGGTGAAAAATCGGTGTTTTAGAAATAAAATTAGGGTTAGAGTATCCTC
1 GGTTGGAGTATCCCGATGGTGAAAAATCAGTGTTTTAGAAATAAAATCGGGGTTAAAGTATCCTC
* *
393538 TTGAAAATAATGA
66 TCGAAAATAA-CA
* * *
393551 GATTGGAGTATCCTCGATGGTGAAAAATCAGTGTTTTAGAAATAAAATTGGGGTTAAAGTATCTT
1 GGTTGGAGTATCC-CGATGGTGAAAAATCAGTGTTTTAGAAATAAAATCGGGGTTAAAGTATCCT
*
393616 CTTGAAAATAACA
65 CTCGAAAATAACA
* * * ** *
393629 GGGTTAGAGTATGCCCAATTGTGAAAAAATC-GATACTTTA-AAGATAAAA-C-----TGAAGT-
1 -GGTTGGAGTAT-CCCGATGGTG-AAAAATCAG-TGTTTTAGAA-ATAAAATCGGGGTTAAAGTA
** *
393685 TGGTC-AG-AAATAACA
61 TCCTCTCGAAAATAACA
* * * * * * *
393700 GGGTTAGAGTATCCCCGATGATGAAAAAATCAATGCTTTAGAGATAAAATTGGGGTTAGAGTATC
1 -GGTTGGAGTAT-CCCGATGGTG-AAAAATCAGTGTTTTAGAAATAAAATCGGGGTTAAAGTATC
393765 CTCTC-AGAAATAACGA
63 CTCTCGA-AAATAAC-A
* * * ** * * *
393781 GGTTAGAATATCCCTAATGGCAAAAAATCGGTGTTTTAGAAATAAAACCGGGGTTAAAGTATCCC
1 GGTTGGAGTATCCC-GATGGTGAAAAATCAGTGTTTTAGAAATAAAATCGGGGTTAAAGTATCCT
**
393846 CTCGAAAATAATG
65 CTCGAAAATAACA
* * * * * * * *
393859 GGATTGAAGTATCCTCAATGATGAAAAATTAGTGTTTTATAAATAAAACCGAGGTTGAAGTATCA
1 GG-TTGGAGTATCC-CGATGGTGAAAAATCAGTGTTTTAGAAATAAAATCGGGGTTAAAGTATC-
* *
393924 CT-T-GGAAATAGCA
63 CTCTCGAAAATAACA
*
393937 GAATTGGAGTATCCTCGATGGTGAAAAATC-GATGTTTTAGAAATAAAAT
1 G-GTTGGAGTATCC-CGATGGTGAAAAATCAG-TGTTTTAGAAATAAAAT
393986 ATCAATGAAA
Statistics
Matches: 601, Mismatches: 116, Indels: 69
0.76 0.15 0.09
Matches are distributed among these distances:
71 47 0.08
72 2 0.00
73 3 0.00
74 5 0.01
77 5 0.01
78 121 0.20
79 311 0.52
80 101 0.17
81 6 0.01
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (77 bp):
GGTTGGAGTATCCCGATGGTGAAAAATCAGTGTTTTAGAAATAAAATCGGGGTTAAAGTATCCTC
TCGAAAATAACA
Found at i:393872 original size:387 final size:388
Alignment explanation
Indices: 393069--393985 Score: 913
Period size: 387 Copynumber: 2.4 Consensus size: 388
393059 AGACTATTCT
*
393069 CTCGAAAATAATGGGGTT-AGAGCATCCCCAATGGTG-AAAATCGGTGTTTTAG----AAAATCG
1 CTCGAAAATAAT-GGGTTGA-AGTAT-CCCAATGGTGAAAAATCGGTGTTTTAGAAATAAAATCG
* * * *
393128 AGGTTGGAGTATCCCTTCAAAATAATGGGGTTAGAGTATCCTCGATGGTGAAAAATCAGTGTTTT
63 AGGTT-GAGTATCCCTTGAAAATAATGAGATTGGAGTATCCTCGATGGTGAAAAATCAGTGTTTT
* * *
393193 AGAAATAAAAGCAAGGTTAAAGTATCCCCTCGAAAATAACGAGATTGGAGTATCCTCGATGGTGA
127 AGAAATAAAATCAAGGTTAAAGTATCCCCTCGAAAATAACGAGATTAGAGTATCCTCAATGGTGA
** ** * * *
393258 AAACTTAGTGTTTTAGAAATAAAACCGAGGTTGGAGTATCTTTTCGAAAATAACAGGGTTGGAGT
192 AAAAATAGTACTTTAGAAATAAAACCGAAGTTGGAG-ATC---TAGAAAATAACAGGGTTAGAGT
* * * *
393323 ATCCCTGATGGTGAAAAAATCGATACTTTAGAGATAAAATCGGGGTTGGAGTATCCCCTCGAAAA
253 ATCCCCGATGATGAAAAAATCAATACTTTAGAGATAAAATCGGGGTTAGAGTATCCCCTCGAAAA
* * * * ** ** **
393388 TAACAAATTTGGAGTATTCCCGATGATGAAAAATTTGTGTTTTAGAAATAAAAACAAGGTTGGAG
318 TAACAAAGTTAGAATATTCCCAATGACAAAAAATCGGTGTTTTAGAAATAAAAACAAGGTTAAAG
*
393453 TATCCT
383 TATCCC
* * * * *
393459 CTCAAAAAT-ATCAAGGTTGGAGTATCCCGATGGTGAAAAATCGGTGTTTTAGAAATAAAAT-TA
1 CTCGAAAATAAT--GGGTTGAAGTATCCCAATGGTGAAAAATCGGTGTTTTAGAAATAAAATCGA
393522 GGGTTAGAGTATCCTCTTGAAAATAATGAGATTGGAGTATCCTCGATGGTGAAAAATCAGTGTTT
64 -GGTT-GAGTATCC-CTTGAAAATAATGAGATTGGAGTATCCTCGATGGTGAAAAATCAGTGTTT
*** ** * * *
393587 TAGAAATAAAATTGGGGTTAAAGTATCTTCTTGAAAATAAC-AGGGTTAGAGTATGCC-CAATTG
126 TAGAAATAAAATCAAGGTTAAAGTATCCCCTCGAAAATAACGA-GATTAGAGTAT-CCTCAATGG
* *
393650 TGAAAAAATCGATACTTTA-AAGATAAAACTGAAGTT-G-G-TC-AG-AAATAACAGGGTTAGAG
189 TGAAAAAATAG-TACTTTAGAA-ATAAAACCGAAGTTGGAGATCTAGAAAATAACAGGGTTAGAG
* * *
393709 TATCCCCGATGATGAAAAAATCAATGCTTTAGAGATAAAATTGGGGTTAGAGTATCCTCTC-AGA
252 TATCCCCGATGATGAAAAAATCAATACTTTAGAGATAAAATCGGGGTTAGAGTATCCCCTCGA-A
* * * * **
393773 AATAACGAGGTTAGAATA-TCCCTAATGGCAAAAAATCGGTGTTTTAGAAATAAAACCGGGGTTA
316 AATAACAAAGTTAGAATATTCCC-AATGACAAAAAATCGGTGTTTTAGAAATAAAAACAAGGTTA
393837 AAGTATCCC
380 AAGTATCCC
* ** * *
393846 CTCGAAAATAATGGGATTGAAGTATCCTCAATGATGAAAAATTAGTGTTTTATAAATAAAACCGA
1 CTCGAAAATAATGGG-TTGAAGTATCC-CAATGGTGAAAAATCGGTGTTTTAGAAATAAAATCGA
* *
393911 GGTTGAAGTATCACTTGGAAAT-A-GCAGAATTGGAGTATCCTCGATGGTGAAAAATC-GATGTT
64 GGTTG-AGTATCCCTTGAAAATAATG-AG-ATTGGAGTATCCTCGATGGTGAAAAATCAG-TGTT
393973 TTAGAAATAAAAT
125 TTAGAAATAAAAT
393986 ATCAATGAAA
Statistics
Matches: 436, Mismatches: 68, Indels: 49
0.79 0.12 0.09
Matches are distributed among these distances:
385 1 0.00
386 11 0.03
387 194 0.44
388 41 0.09
389 12 0.03
390 32 0.07
392 2 0.00
393 1 0.00
394 19 0.04
395 104 0.24
396 19 0.04
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.28
Consensus pattern (388 bp):
CTCGAAAATAATGGGTTGAAGTATCCCAATGGTGAAAAATCGGTGTTTTAGAAATAAAATCGAGG
TTGAGTATCCCTTGAAAATAATGAGATTGGAGTATCCTCGATGGTGAAAAATCAGTGTTTTAGAA
ATAAAATCAAGGTTAAAGTATCCCCTCGAAAATAACGAGATTAGAGTATCCTCAATGGTGAAAAA
ATAGTACTTTAGAAATAAAACCGAAGTTGGAGATCTAGAAAATAACAGGGTTAGAGTATCCCCGA
TGATGAAAAAATCAATACTTTAGAGATAAAATCGGGGTTAGAGTATCCCCTCGAAAATAACAAAG
TTAGAATATTCCCAATGACAAAAAATCGGTGTTTTAGAAATAAAAACAAGGTTAAAGTATCCC
Found at i:395476 original size:13 final size:13
Alignment explanation
Indices: 395458--395483 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
395448 CAATTTTTTG
395458 TGTATCGATACAT
1 TGTATCGATACAT
395471 TGTATCGATACAT
1 TGTATCGATACAT
395484 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:397883 original size:21 final size:21
Alignment explanation
Indices: 397859--397905 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
397849 TTTGATGCTG
397859 ATTTTG-A-TGAAAAACGAAGT
1 ATTTTGAAGTGAAAAAC-AAGT
397879 -TATTTGAAGTGAAAAACAAGT
1 AT-TTTGAAGTGAAAAACAAGT
397900 ATTTTG
1 ATTTTG
397906 CAAAAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
19 1 0.04
20 4 0.17
21 9 0.39
22 9 0.39
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.34
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAACAAGT
Found at i:398047 original size:13 final size:13
Alignment explanation
Indices: 398029--398067 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
398019 ATAATCACCC
*
398029 TGTATCGATACAG
1 TGTATCGATACAA
398042 TGTATCGATACAA
1 TGTATCGATACAA
398055 TGTATCGATACAA
1 TGTATCGATACAA
398068 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:398078 original size:20 final size:20
Alignment explanation
Indices: 398053--398131 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
398043 GTATCGATAC
398053 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
398073 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
398098 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
398118 CATGTATCGATACA
1 AATGTATCGATACA
398132 TTTTGGACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:400169 original size:15 final size:15
Alignment explanation
Indices: 400149--400179 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
400139 ATTTTGTTTG
*
400149 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
400164 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
400179 G
1 G
400180 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:402012 original size:21 final size:21
Alignment explanation
Indices: 401983--402027 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
401973 AAGTTTTCAT
*
401983 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
402003 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
402025 TTT
1 TTT
402028 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:404265 original size:13 final size:13
Alignment explanation
Indices: 404247--404272 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
404237 CAATTTTTTG
404247 TGTATCGATACAT
1 TGTATCGATACAT
404260 TGTATCGATACAT
1 TGTATCGATACAT
404273 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:407809 original size:20 final size:19
Alignment explanation
Indices: 407784--407824 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
407774 AAAAAACCCA
*
407784 AAATGTATTGATACAATGAT
1 AAATGTATCGATACAAT-AT
407804 AAATGTATCGATACAATAT
1 AAATGTATCGATACAATAT
407823 AA
1 AA
407825 GTATGTATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.49, C:0.07, G:0.12, T:0.32
Consensus pattern (19 bp):
AAATGTATCGATACAATAT
Found at i:412325 original size:27 final size:27
Alignment explanation
Indices: 412295--412346 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
412285 CAGATCTTGA
* *
412295 AGAAAAGCGGGGTTGGAGTATCCCTTC
1 AGAAAAGCGAGATTGGAGTATCCCTTC
*
412322 AGAAGAGCGAGATTGGAGTATCCCT
1 AGAAAAGCGAGATTGGAGTATCCCT
412347 AACAATCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.29, C:0.17, G:0.33, T:0.21
Consensus pattern (27 bp):
AGAAAAGCGAGATTGGAGTATCCCTTC
Found at i:414046 original size:13 final size:13
Alignment explanation
Indices: 414030--414054 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
414020 CAATTCATCA
414030 TGTATCGATACAT
1 TGTATCGATACAT
414043 TGTATCGATACA
1 TGTATCGATACA
414055 ATGTCCTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:414054 original size:33 final size:33
Alignment explanation
Indices: 414010--414074 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
414000 TTATAAGCAA
414010 TGTATCAATACAAT-TCATCATGTATCGATACAT
1 TGTATCAATACAATGTCAT-ATGTATCGATACAT
* *
414043 TGTATCGATACAATGTCCTATGTATCGATACA
1 TGTATCAATACAATGTCATATGTATCGATACA
414075 AACAGTGGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 26 0.90
34 3 0.10
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.35
Consensus pattern (33 bp):
TGTATCAATACAATGTCATATGTATCGATACAT
Found at i:414130 original size:20 final size:19
Alignment explanation
Indices: 414105--414176 Score: 83
Period size: 20 Copynumber: 3.7 Consensus size: 19
414095 TGCCAGTTTT
* *
414105 ATGTATCGATACAATTATCC
1 ATGTATCGATACAATGA-AC
414125 ATGTATCGATACAATGAAC
1 ATGTATCGATACAATGAAC
*
414144 ATGTATCGATACAAAGCATA-
1 ATGTATCGATACAATG-A-AC
414164 ATGTATCGATACA
1 ATGTATCGATACA
414177 TCTGGTTGTG
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
19 16 0.34
20 30 0.64
21 1 0.02
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (19 bp):
ATGTATCGATACAATGAAC
Found at i:414765 original size:22 final size:22
Alignment explanation
Indices: 414737--414778 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
414727 ATTTTCTCAT
414737 ATTTCTCCCCCTTTATCAAAGC
1 ATTTCTCCCCCTTTATCAAAGC
* *
414759 ATTTCTCTCCCTTTGTCAAA
1 ATTTCTCCCCCTTTATCAAA
414779 TAAAAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.21, C:0.33, G:0.05, T:0.40
Consensus pattern (22 bp):
ATTTCTCCCCCTTTATCAAAGC
Found at i:418092 original size:20 final size:20
Alignment explanation
Indices: 418038--418093 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
418028 AAAATTCCCA
** *
418038 AATGTATCGATACAAAGATT
1 AATGTATCGATACATTGAGT
418058 AATGTATCGATACATTGAGT
1 AATGTATCGATACATTGAGT
418078 AATGTATCGATACATT
1 AATGTATCGATACATT
418094 TCCTTGGCAG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (20 bp):
AATGTATCGATACATTGAGT
Found at i:418147 original size:19 final size:18
Alignment explanation
Indices: 418123--418185 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
418113 AGCGATACAT
418123 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
418142 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
*
418155 TGTATCAATACAACACTTA
1 TGTATCGATACAA-ACTTA
418174 TGTATCGATACA
1 TGTATCGATACA
418186 GTTACTGTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 10 0.28
14 1 0.03
16 2 0.06
18 1 0.03
19 22 0.61
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:418156 original size:32 final size:32
Alignment explanation
Indices: 418115--418185 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
418105 AGCTTCGTAG
*
418115 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCAATACAAAACTTATGTAT
*
418147 CGATACATTGTATCAATACAACACTTATGTAT
1 CGATACATTGTATCAATACAAAACTTATGTAT
418179 CGATACA
1 CGATACA
418186 GTTACTGTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.32
Consensus pattern (32 bp):
CGATACATTGTATCAATACAAAACTTATGTAT
Found at i:418513 original size:19 final size:18
Alignment explanation
Indices: 418485--418547 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
418475 ATTCAGTAAA
*
418485 TGTATTGATACATAAGTGT
1 TGTATCGATACATAAGT-T
418504 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
418517 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
418536 TGTATCGATACA
1 TGTATCGATACA
418548 ATGTATCGCT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 11 0.30
15 2 0.05
17 2 0.05
19 22 0.59
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.38
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:418522 original size:13 final size:13
Alignment explanation
Indices: 418504--418528 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
418494 ACATAAGTGT
418504 TGTATCGATACAA
1 TGTATCGATACAA
418517 TGTATCGATACA
1 TGTATCGATACA
418529 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:418527 original size:32 final size:32
Alignment explanation
Indices: 418483--418555 Score: 128
Period size: 32 Copynumber: 2.3 Consensus size: 32
418473 ATATTCAGTA
*
418483 AATGTATTGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
*
418515 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
418547 AATGTATCG
1 AATGTATCG
418556 CTAGGAAGCT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.37
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:418617 original size:13 final size:13
Alignment explanation
Indices: 418599--418637 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
418589 CATTTTTTTG
418599 TGTATCGATACAT
1 TGTATCGATACAT
418612 TGTATCGATACAT
1 TGTATCGATACAT
418625 TGTATCGATACAT
1 TGTATCGATACAT
418638 CTATTCTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:421061 original size:52 final size:52
Alignment explanation
Indices: 421003--421389 Score: 249
Period size: 52 Copynumber: 7.4 Consensus size: 52
420993 TCAATTGTTC
* *
421003 ATAATCGGGGATACACCAACCCCGATTTTATTTTCAAAACACCAATTTTCCT
1 ATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCT
* * * * *
421055 TTAATCGTGGATACTCCAACTCCGATTTTATTTCCAAAAACACTAATTTTTC-
1 ATAATCGGGGATACTCCAACCCCGATTTTATTTCC-AAAACACCAATTTTCCT
* * * * * * * **
421107 ACAATCGAGGATACTCCAACCTCG-TTATATCAT-CAGGGATACTCCAA--CCCCGT
1 ATAATCGGGGATACTCCAACCCCGATTTTAT-TTCCA---AAACACCAATTTTCC-T
* * ** * * ***
421160 -TACCTCCGAGGGGATACTTCAACCCCGGCTTTATTCCCAAAATATTGA-TTT-CT
1 ATA-AT-C--GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCT
* * *
421213 CATAATCGGGGATACTCCAACCCCGGA-TTTATTGCTAAAACACTAATTTTCC-
1 -ATAATCGGGGATACTCCAACCCC-GATTTTATTTCCAAAACACCAATTTTCCT
*
421265 ATAATCGGGGATACTCCAACCCC-AGTTTTATTTTCAAAACACCAATTTTCCT
1 ATAATCGGGGATACTCCAACCCCGA-TTTTATTTCCAAAACACCAATTTTCCT
* * * *
421317 TTAATCAGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTC-
1 ATAATCGGGGATACTCCAACCCCGATTTTATTTCC-AAAACACCAATTTTCCT
* *
421369 ACAATCGAGGATACTCCAACC
1 ATAATCGGGGATACTCCAACC
421390 TCGTTATTTC
Statistics
Matches: 252, Mismatches: 59, Indels: 48
0.70 0.16 0.13
Matches are distributed among these distances:
49 1 0.00
50 1 0.00
51 81 0.32
52 100 0.40
53 40 0.16
54 6 0.02
55 2 0.01
56 15 0.06
57 6 0.02
ACGTcount: A:0.31, C:0.27, G:0.11, T:0.30
Consensus pattern (52 bp):
ATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCT
Found at i:421234 original size:51 final size:51
Alignment explanation
Indices: 421169--421389 Score: 212
Period size: 51 Copynumber: 4.3 Consensus size: 51
421159 TTACCTCCGA
* * * * *
421169 GGGGATACTTCAACCCCGGCTTTATTCCCAAAATATTGA-TTTCTCATAATC
1 GGGGATACTCCAACCCCGGATTTATTCCCAAAACACTAATTTTC-CATAATC
* *
421220 GGGGATACTCCAACCCCGGATTTATTGCTAAAACACTAATTTTCCATAATC
1 GGGGATACTCCAACCCCGGATTTATTCCCAAAACACTAATTTTCCATAATC
* * ** * *
421271 GGGGATACTCCAACCCCAGTTTTATTTTCAAAACACCAATTTTCCTTTAATC
1 GGGGATACTCCAACCCCGGATTTATTCCCAAAACACTAATTTTCC-ATAATC
* * * * * *
421323 AGGGATACTCCAACTCC-GATTTTATTTCCAAAAACACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGGA-TTTA-TTCCCAAAACACTAATTTTCCATAATC
*
421375 GAGGATACTCCAACC
1 GGGGATACTCCAACC
421390 TCGTTATTTC
Statistics
Matches: 140, Mismatches: 26, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
51 79 0.56
52 44 0.31
53 17 0.12
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.31
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGGATTTATTCCCAAAACACTAATTTTCCATAATC
Found at i:421463 original size:109 final size:108
Alignment explanation
Indices: 421324--421523 Score: 258
Period size: 108 Copynumber: 1.8 Consensus size: 108
421314 CCTTTAATCA
* * *
421324 GGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAAC
1 GGGATACTCCAACCCCGACTTTATTTCC-AAAACACCAATTTCTCACAATCGAGGATACTCCAAC
* *
421389 CTCGTTATTTCAT-CGGGGATACTCCAACCCCCATTACCTCCGAG
65 CCCGTTATTTC-TGAGGGGATACTCCAACCCCCATTACCTCCGAG
* * *** * * *
421433 GGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTCTCATAATTGGGGATACTCCAACC
1 GGGATACTCCAACCCCGACTTTATTTCCAAAACACCAATTTCTCACAATCGAGGATACTCCAACC
421498 CCGTTATTTCTGAGGGGATACTCCAA
66 CCGTTATTTCTGAGGGGATACTCCAA
421524 TCCCGATTCT
Statistics
Matches: 77, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
107 1 0.01
108 51 0.66
109 25 0.32
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (108 bp):
GGGATACTCCAACCCCGACTTTATTTCCAAAACACCAATTTCTCACAATCGAGGATACTCCAACC
CCGTTATTTCTGAGGGGATACTCCAACCCCCATTACCTCCGAG
Found at i:421537 original size:79 final size:79
Alignment explanation
Indices: 421402--421584 Score: 199
Period size: 79 Copynumber: 2.3 Consensus size: 79
421392 GTTATTTCAT
* ** *
421402 CGGGGATACTCCAACCCCCATTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAAAAT-
1 CGGGGATACTCCAA-CCCCGTTATTTCCGAGGGGATACTCCAACCCCGGATTTATTTCC-AAATC
** * *
421466 ATTGATTTCTCATAAT
64 ATCAATTTCTCACAAC
* * * * *
421482 TGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAATCCC-GATTCTATTTTCTAATCA
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGATT-TATTTCCAAATCA
*
421546 TCAATTTTTCACAAC
65 TCAATTTCTCACAAC
421561 CGGGGATACTCCAACCCCGTTATT
1 CGGGGATACTCCAACCCCGTTATT
421585 ATCTCCAAAA
Statistics
Matches: 86, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
78 6 0.07
79 67 0.78
80 13 0.15
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.30
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGATTTATTTCCAAATCAT
CAATTTCTCACAAC
Found at i:424547 original size:13 final size:13
Alignment explanation
Indices: 424529--424555 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
424519 ATAGTTACCC
424529 ATGTATCGATACA
1 ATGTATCGATACA
424542 ATGTATCGATACA
1 ATGTATCGATACA
424555 A
1 A
424556 GGAATGTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:431929 original size:53 final size:52
Alignment explanation
Indices: 431864--432046 Score: 194
Period size: 51 Copynumber: 3.5 Consensus size: 52
431854 GAAATATCGA
* *
431864 GGTTGAAGTATCCTCGATTGTGAAAAAATTGGTGTTTTTGGAAATAAAA-TCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAAATTGGTG-TTTTGGAAATAAAACT-GG
* * * *
431917 AGCTGGAGTATCCCCGA-T-TAAAGGAAAATTGGTGTTTTGAAAATAAAACTGG
1 GGTTGGAGTATCCCCGATTGTGAA--AAAATTGGTGTTTTGGAAATAAAACTGG
* * * * *
431969 GGTTGGAGTAT-CCCAATTGTGGAAAAATTAGTGTTTTAGCAATAAAACTGG
1 GGTTGGAGTATCCCCGATTGTGAAAAAATTGGTGTTTTGGAAATAAAACTGG
*
432020 GGTTGGAGTATCCCCGATTATGAAAAA
1 GGTTGGAGTATCCCCGATTGTGAAAAA
432047 TTACCGCATG
Statistics
Matches: 106, Mismatches: 18, Indels: 13
0.77 0.13 0.09
Matches are distributed among these distances:
51 42 0.40
52 38 0.36
53 26 0.25
ACGTcount: A:0.34, C:0.10, G:0.26, T:0.30
Consensus pattern (52 bp):
GGTTGGAGTATCCCCGATTGTGAAAAAATTGGTGTTTTGGAAATAAAACTGG
Found at i:432605 original size:55 final size:54
Alignment explanation
Indices: 432521--433085 Score: 583
Period size: 55 Copynumber: 9.9 Consensus size: 54
432511 AGTGTATCCA
* * *
432521 TGCTCTTTGAGGACTAAAAAGTGCAACCAACTCGTGTGGGCTTTGAAAGGCGTCC
1 TGCTCTTTGAGGACTGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
* * * *
432576 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGTGTCC
1 TGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
*
432631 TGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCC
1 TGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
* ** **
432686 TGCTCTTTGGGGACTGAAAAGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGTATCC
1 TGCTCTTTGAGGACTGAAAA-TGCCACCAACTTGTGTGGGCTTTG-AAAG-----GCGTCC
*
432747 TGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCC
1 TGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
* * *
432802 TGCTCTTTGAGGACAGGAAAATGCCACCAACTTGTGTGGGCTTCGAAAGGCATCC
1 TGCTCTTTGAGGAC-TGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
* *
432857 TACTTTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGCGTCC
1 TGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCGTCC
** **
432918 TGCTCTTTGAGGACTGAAGGTGCCACTGACTTGTGTGGGCTTTAAAAGAAAAGGCGTCC
1 TGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGCGTCC
* * *
432977 TACTCTTTG-GGACTGGAAAATGCCACCAACTTGTATGGGCTTTGAAAAGAAAAAGCATCC
1 TGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTG-AAAG-----GCGTCC
** *
433037 TGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
1 TGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGG
433086 AACAGGCATC
Statistics
Matches: 440, Mismatches: 44, Indels: 53
0.82 0.08 0.10
Matches are distributed among these distances:
54 6 0.01
55 232 0.53
56 8 0.02
58 5 0.01
59 48 0.11
60 69 0.16
61 67 0.15
62 5 0.01
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (54 bp):
TGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
Found at i:432805 original size:171 final size:170
Alignment explanation
Indices: 432516--433116 Score: 684
Period size: 171 Copynumber: 3.5 Consensus size: 170
432506 AATAAAGTGT
* * *
432516 ATCCATGCTCTTTGAGGACTAAAAAGTGCAACCAACTCGTGTGGGCTTT-----G-AAAGGCGTC
1 ATCC-TGCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGCATC
* * * *
432575 CTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGTGTCCTGCTCTTTG
65 CTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTG
*
432640 AGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGT
129 AGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGC
* * * * *
432682 GTCCTGCTCTTTGGGGACTGAAAAGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGTATCC
1 ATCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGCATCC
*
432747 TGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGA
66 TGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGA
*
432812 GGAC-AGGAAAATGCCACCAACTTGTGTGGGCTTCGAAAGGC
130 GGACTA-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGC
* * * * * *
432853 ATCCTACTTTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGCGTC
1 ATCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGCATC
** ** *
432917 CTGCTCTTTGAGGACTGAAGGTGCCACTGACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTACTC
65 CTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGCGTCCTGCTC
* *
432982 TTTG-GGACTGGAAAATGCCACCAACTTGTATGGGCTTTGAAAAGAAAAAGC
125 TTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTG-AAAG-----GC
* * *
433033 ATCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAACAGGCATC
1 ATCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAA-GAAAAGGCATC
*
433096 CTGCTCTTTGAGGACTAAAAA
65 CTGCTCTTTGAGGACTGAAAA
433117 GCGAAAGGAG
Statistics
Matches: 367, Mismatches: 45, Indels: 33
0.82 0.10 0.07
Matches are distributed among these distances:
165 40 0.11
166 3 0.01
170 26 0.07
171 162 0.44
172 9 0.02
174 32 0.09
175 21 0.06
178 5 0.01
179 50 0.14
180 19 0.05
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.26
Consensus pattern (170 bp):
ATCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGCATCC
TGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAG
GACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGC
Found at i:434089 original size:1 final size:1
Alignment explanation
Indices: 434085--434173 Score: 61
Period size: 1 Copynumber: 89.0 Consensus size: 1
434075 CTCTTTTCTC
* * * * * ** * * *
434085 TTTTTTTTTTCTCTTTTTCTTTGTTTTGTTTTTTTTTTGGTTTTTTTTTGTTTTGTTTTTTTTTG
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* **
434150 TTGTTTTTTTTTTGGTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTT
434174 GAAGAGAAGG
Statistics
Matches: 66, Mismatches: 22, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 66 1.00
ACGTcount: A:0.00, C:0.03, G:0.11, T:0.85
Consensus pattern (1 bp):
T
Found at i:434096 original size:13 final size:13
Alignment explanation
Indices: 434078--434173 Score: 72
Period size: 13 Copynumber: 7.2 Consensus size: 13
434068 TTTTCTTCTC
*
434078 TTTTCTCTTTTTT
1 TTTTCTGTTTTTT
*
434091 TTTTCTCTTTTTCT
1 TTTTCTGTTTTT-T
*
434105 TTGTTTTGTTTTTT
1 TT-TTCTGTTTTTT
*
434119 TTTT-GGTTTTTTT
1 TTTTCTG-TTTTTT
*
434132 TTGTTTTGTTTTTT
1 TT-TTCTGTTTTTT
434146 TTTGT-TGTTTTTT
1 TTT-TCTGTTTTTT
*
434159 TTTT-GGTTTTTT
1 TTTTCTGTTTTTT
434171 TTT
1 TTT
434174 GAAGAGAAGG
Statistics
Matches: 72, Mismatches: 5, Indels: 13
0.80 0.06 0.14
Matches are distributed among these distances:
12 12 0.17
13 34 0.47
14 17 0.24
15 9 0.12
ACGTcount: A:0.00, C:0.05, G:0.10, T:0.84
Consensus pattern (13 bp):
TTTTCTGTTTTTT
Found at i:434096 original size:20 final size:19
Alignment explanation
Indices: 434067--434111 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
434057 CTTAAGCAGA
434067 TTTTTCTTCTCTTTTCTCTT
1 TTTTTCTTCTCTTTT-TCTT
*
434087 TTTTTTTTCTCTTTTTCTT
1 TTTTTCTTCTCTTTTTCTT
434106 TGTTTT
1 T-TTTT
434112 GTTTTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.80
Consensus pattern (19 bp):
TTTTTCTTCTCTTTTTCTT
Found at i:434128 original size:11 final size:11
Alignment explanation
Indices: 434108--434174 Score: 70
Period size: 11 Copynumber: 6.5 Consensus size: 11
434098 TTTTTCTTTG
*
434108 TTTTGTTTTTT
1 TTTTGGTTTTT
434119 TTTTGGTTTTT
1 TTTTGGTTTTT
434130 TTTT-G-TTTT
1 TTTTGGTTTTT
*
434139 GTTT--TTTTT
1 TTTTGGTTTTT
* *
434148 TGTTGTTTTTT
1 TTTTGGTTTTT
434159 TTTTGGTTTTT
1 TTTTGGTTTTT
434170 TTTTG
1 TTTTG
434175 AAGAGAAGGT
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
9 13 0.28
10 1 0.02
11 33 0.70
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (11 bp):
TTTTGGTTTTT
Found at i:434128 original size:27 final size:25
Alignment explanation
Indices: 434098--434174 Score: 95
Period size: 25 Copynumber: 3.0 Consensus size: 25
434088 TTTTTTTCTC
434098 TTTTTCTTTGTTTTGTTTTTTTTTTGG
1 TTTTT-TTTGTTTTG-TTTTTTTTTGG
434125 TTTTTTTTTGTTTTGTTTTTTTTT-G
1 -TTTTTTTTGTTTTGTTTTTTTTTGG
434150 TTGTTTTTT-TTTTGGTTTTTTTTTG
1 TT-TTTTTTGTTTT-GTTTTTTTTTG
434175 AAGAGAAGGT
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
24 6 0.13
25 17 0.37
26 9 0.20
27 9 0.20
28 5 0.11
ACGTcount: A:0.00, C:0.01, G:0.14, T:0.84
Consensus pattern (25 bp):
TTTTTTTTGTTTTGTTTTTTTTTGG
Found at i:434131 original size:15 final size:14
Alignment explanation
Indices: 434085--434173 Score: 83
Period size: 15 Copynumber: 6.4 Consensus size: 14
434075 CTCTTTTCTC
* *
434085 TTTTTTTTT-TCTC
1 TTTTTTTTTGTTTT
*
434098 TTTTTCTTTGTTTT
1 TTTTTTTTTGTTTT
* **
434112 GTTTTTTTT-TTGG
1 TTTTTTTTTGTTTT
434125 TTTTTTTTTGTTTT
1 TTTTTTTTTGTTTT
434139 GTTTTTTTTTGTTGTT
1 -TTTTTTTTTGTT-TT
*
434155 TTTTTTTTGGTTTT
1 TTTTTTTTTGTTTT
434169 TTTTT
1 TTTTT
434174 GAAGAGAAGG
Statistics
Matches: 61, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
13 18 0.30
14 18 0.30
15 23 0.38
16 2 0.03
ACGTcount: A:0.00, C:0.03, G:0.11, T:0.85
Consensus pattern (14 bp):
TTTTTTTTTGTTTT
Found at i:446618 original size:28 final size:28
Alignment explanation
Indices: 446562--446638 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
446552 GGAATAAAGC
*** **
446562 CGGGGTTGGAGTATCCCCTCGGAGGTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
446590 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
* *
446618 CGAGGTTGGAGTATCCTCGAT
1 CGGGGTTGGAGTATCCCCGAT
446639 TGTGAAAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.22, C:0.19, G:0.35, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:446761 original size:51 final size:51
Alignment explanation
Indices: 446621--446803 Score: 176
Period size: 51 Copynumber: 3.5 Consensus size: 51
446611 GAAATAACGA
* * * *
446621 GGTTGGAGTATCCTCGATTGTGAAAAAATTGATGTTTTTAGAAATAAAA-TCG
1 GGTTGGAGTATCCCCGATTATGGAAAAATTG-TG-TTTTAGAAATAAAACTAG
* *
446673 GAGCTGGAGTATCCCCGATTAAAGG-AAAATTGGTGTTTT-GAAAATAAAACTAG
1 G-GTTGGAGTATCCCCGATT-ATGGAAAAATT-GTGTTTTAG-AAATAAAACTAG
* * **
446726 GGTTGGAGTAT-CCCGATTCTGGAAAAATTAGTGTTTTAGCAATAAAACCGG
1 GGTTGGAGTATCCCCGATTATGGAAAAATT-GTGTTTTAGAAATAAAACTAG
446777 GGTTGGAGTATCCCCGATTATGAGAAA
1 GGTTGGAGTATCCCCGATTATG-GAAA
446804 TCAATATTTT
Statistics
Matches: 108, Mismatches: 14, Indels: 17
0.78 0.10 0.12
Matches are distributed among these distances:
50 2 0.02
51 41 0.38
52 32 0.30
53 31 0.29
54 2 0.02
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGGAAAAATTGTGTTTTAGAAATAAAACTAG
Found at i:446814 original size:51 final size:51
Alignment explanation
Indices: 446715--446838 Score: 137
Period size: 51 Copynumber: 2.4 Consensus size: 51
446705 GTGTTTTGAA
* * * *
446715 AATAAAACTA-GGGTTGGAGTATCCCGATTCTGGAAAAATTAGTGTTTT-AG
1 AATAAAAC-AGGGGTTGGAGTATCCCGATTATGGAAAAATCAATATTTTAAG
* *
446765 CAATAAAACCGGGGTTGGAGTATCCCCGATTAT-GAGAAATCAATATTTTAAG
1 -AATAAAACAGGGGTTGGAGTAT-CCCGATTATGGAAAAATCAATATTTTAAG
*
446817 AATAAAGCAGGGGTTGGAGTAT
1 AATAAAACAGGGGTTGGAGTAT
446839 AAATAACGGG
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
51 52 0.84
52 10 0.16
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.28
Consensus pattern (51 bp):
AATAAAACAGGGGTTGGAGTATCCCGATTATGGAAAAATCAATATTTTAAG
Found at i:449370 original size:13 final size:13
Alignment explanation
Indices: 449352--449410 Score: 60
Period size: 13 Copynumber: 5.0 Consensus size: 13
449342 CAAAGAATAG
449352 ATGTATCGATACA
1 ATGTATCGATACA
449365 ATGTATCGATACA
1 ATGTATCGATACA
449378 CA-G-A---A-A-A
1 -ATGTATCGATACA
449385 ATGTATCGATACA
1 ATGTATCGATACA
449398 ATGTATCGATACA
1 ATGTATCGATACA
449411 CAGAAAAATG
Statistics
Matches: 38, Mismatches: 0, Indels: 16
0.70 0.00 0.30
Matches are distributed among these distances:
6 1 0.03
7 2 0.05
8 2 0.05
9 1 0.03
11 1 0.03
12 2 0.05
13 28 0.74
14 1 0.03
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.27
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:449389 original size:20 final size:20
Alignment explanation
Indices: 449364--449430 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 20
449354 GTATCGATAC
449364 AATGTATCGATACACAGAAA
1 AATGTATCGATACACAGAAA
449384 AATGTATCGAT--AC-----
1 AATGTATCGATACACAGAAA
449397 AATGTATCGATACACAGAAA
1 AATGTATCGATACACAGAAA
449417 AATGTATCGATACA
1 AATGTATCGATACA
449431 TTTCCTTGGC
Statistics
Matches: 40, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 11 0.28
15 2 0.05
18 2 0.05
20 25 0.62
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.24
Consensus pattern (20 bp):
AATGTATCGATACACAGAAA
Found at i:449394 original size:33 final size:33
Alignment explanation
Indices: 449331--449430 Score: 173
Period size: 33 Copynumber: 3.0 Consensus size: 33
449321 AACTTCCTAG
* *
449331 ATGTATCGATACAAAGAATAGATGTATCGATACA
1 ATGTATCGATACACAGAA-AAATGTATCGATACA
449365 ATGTATCGATACACAGAAAAATGTATCGATACA
1 ATGTATCGATACACAGAAAAATGTATCGATACA
449398 ATGTATCGATACACAGAAAAATGTATCGATACA
1 ATGTATCGATACACAGAAAAATGTATCGATACA
449431 TTTCCTTGGC
Statistics
Matches: 64, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
33 47 0.73
34 17 0.27
ACGTcount: A:0.45, C:0.14, G:0.16, T:0.25
Consensus pattern (33 bp):
ATGTATCGATACACAGAAAAATGTATCGATACA
Found at i:449472 original size:13 final size:13
Alignment explanation
Indices: 449454--449505 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
449444 AGCTTCCTAG
449454 CGATACATTGTAT
1 CGATACATTGTAT
449467 CGATACAAAACTTGTGTAT
1 CGATAC---A-TT--GTAT
449486 CGATACATTGTAT
1 CGATACATTGTAT
449499 CGATACA
1 CGATACA
449506 ACACTTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 2 0.06
16 2 0.06
17 2 0.06
19 10 0.30
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:449486 original size:19 final size:18
Alignment explanation
Indices: 449461--449526 Score: 70
Period size: 19 Copynumber: 3.8 Consensus size: 18
449451 TAGCGATACA
449461 TTGTATCGATACAAAACT
1 TTGTATCGATACAAAACT
449479 TGTGTATCGATAC---A--
1 T-TGTATCGATACAAAACT
*
449493 TTGTATCGATACAACACT
1 TTGTATCGATACAAAACT
449511 TATGTATCGATACAAA
1 T-TGTATCGATACAAA
449527 TCGCTGAAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 13
0.74 0.02 0.24
Matches are distributed among these distances:
13 11 0.28
14 1 0.03
16 2 0.05
18 2 0.05
19 24 0.60
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (18 bp):
TTGTATCGATACAAAACT
Found at i:449495 original size:32 final size:32
Alignment explanation
Indices: 449454--449524 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
449444 AGCTTCCTAG
*
449454 CGATACATTGTATCGATACAAAACTTGTGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
449486 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
449518 CGATACA
1 CGATACA
449525 AATCGCTGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.32
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:449588 original size:21 final size:22
Alignment explanation
Indices: 449562--449619 Score: 75
Period size: 21 Copynumber: 2.7 Consensus size: 22
449552 GTTGGGACCT
* *
449562 TGTATCGATACATTTGTA-GAA
1 TGTATCGATACATTTGCACAAA
*
449583 TGTATCGATACA-TTCCACAAA
1 TGTATCGATACATTTGCACAAA
449604 TGTATCGATACATTTG
1 TGTATCGATACATTTG
449620 GATAAAAGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
20 3 0.10
21 26 0.84
22 2 0.06
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (22 bp):
TGTATCGATACATTTGCACAAA
Found at i:449973 original size:13 final size:13
Alignment explanation
Indices: 449955--449981 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
449945 TACAATGAAC
449955 ATGTATCGATACA
1 ATGTATCGATACA
449968 ATGTATCGATACA
1 ATGTATCGATACA
449981 A
1 A
449982 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:449997 original size:33 final size:32
Alignment explanation
Indices: 449939--450000 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
449929 CAGTTTCATC
*
449939 TATCGATACAATGAACATGTATCGATACAATG
1 TATCGATACAAAGAACATGTATCGATACAATG
449971 TATCGATACAAAGCATA-ATGTATCGATACA
1 TATCGATACAAAG-A-ACATGTATCGATACA
450001 TCTGGGTGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
32 12 0.44
33 14 0.52
34 1 0.04
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (32 bp):
TATCGATACAAAGAACATGTATCGATACAATG
Found at i:452297 original size:21 final size:20
Alignment explanation
Indices: 452230--452303 Score: 71
Period size: 21 Copynumber: 3.6 Consensus size: 20
452220 ACAATGGTCC
*
452230 TGTATCGATACATTTCA-GACA
1 TGTATCGATACA-TTCACTA-A
*
452251 TGTATCGATACATTC-CTTGA
1 TGTATCGATACATTCAC-TAA
452271 TGTATCGATACATTCACTAA
1 TGTATCGATACATTCACTAA
*
452291 TTGTATCAATACA
1 -TGTATCGATACA
452304 AATTGTAGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
20 21 0.47
21 24 0.53
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATTCACTAA
Found at i:452532 original size:19 final size:19
Alignment explanation
Indices: 452505--452542 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
452495 GCCAGGCGCC
*
452505 ATTGGTTTATTACAAAATA
1 ATTGATTTATTACAAAATA
452524 ATTGATTTATTACAAAATA
1 ATTGATTTATTACAAAATA
452543 TTTTTTTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (19 bp):
ATTGATTTATTACAAAATA
Found at i:452857 original size:112 final size:112
Alignment explanation
Indices: 452660--452988 Score: 399
Period size: 112 Copynumber: 2.9 Consensus size: 112
452650 ATTTTGGTTC
* * * * * *
452660 GCTCAAAAATTTCAAAACTAATAGTATACATGCCCCATTTTCCTAGGCACGAATAGATCAGATCA
1 GCTCAAAAATTTCAAAACTGATAGGATACATGACCCATTTTCCTAGGCACGAATGGATCAGGTTA
*
452725 TATAAAATATAAATTTCTTTGAAAATTAGACAAATTTGATGCTGTTA
66 TATAAAATATAAATTTCTTTGAAAATCAGACAAATTTGATGCTGTTA
* * *
452772 GCTCAAAAATTTCAAAATTGATAGGATACATGTCCCATTTTCCTAGGCACGAATGGATCAGGTTG
1 GCTCAAAAATTTCAAAACTGATAGGATACATGACCCATTTTCCTAGGCACGAATGGATCAGGTTA
* * * * * *
452837 TGTAAAACATTAATTTCTTTGAAAATCGGACAAATTTGATGTTGTTG
66 TATAAAATATAAATTTCTTTGAAAATCAGACAAATTTGATGCTGTTA
* * * * * * * * *
452884 GGTTAAAATTTTCAAAACTGAGAGGATACAT-ACGCTATTTGCTTAAGCACAAATGGATCAGGTT
1 GCTCAAAAATTTCAAAACTGATAGGATACATGAC-CCATTTTCCTAGGCACGAATGGATCAGGTT
* *
452948 ATATAAAATATGAATTTCTTTAAAAATCAGACAAATTTGAT
65 ATATAAAATATAAATTTCTTTGAAAATCAGACAAATTTGAT
452989 ATTCTTTCAA
Statistics
Matches: 184, Mismatches: 32, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
111 1 0.01
112 183 0.99
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.33
Consensus pattern (112 bp):
GCTCAAAAATTTCAAAACTGATAGGATACATGACCCATTTTCCTAGGCACGAATGGATCAGGTTA
TATAAAATATAAATTTCTTTGAAAATCAGACAAATTTGATGCTGTTA
Found at i:461195 original size:13 final size:13
Alignment explanation
Indices: 461177--461203 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
461167 ACATTATGCT
461177 TTGTATCAATACA
1 TTGTATCAATACA
461190 TTGTATCAATACA
1 TTGTATCAATACA
461203 T
1 T
461204 GTTCATTGTA
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:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (13 bp):
TTGTATCAATACA
Found at i:461233 original size:20 final size:19
Alignment explanation
Indices: 461187--461243 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
461177 TTGTATCAAT
* *
461187 ACATTGTATCAATACATGT
1 ACATTGTATCGATACATGC
*
461206 TCATTGTATCGATACATGC
1 ACATTGTATCGATACATGC
461225 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
461244 AAATTGGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:462841 original size:15 final size:15
Alignment explanation
Indices: 462821--462855 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
462811 AACTATCAAA
462821 GATGATGAAGATAAT
1 GATGATGAAGATAAT
*
462836 GATGATGATGATAAT
1 GATGATGAAGATAAT
462851 GATGA
1 GATGA
462856 AGTTGACTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (15 bp):
GATGATGAAGATAAT
Found at i:464566 original size:79 final size:78
Alignment explanation
Indices: 464481--464746 Score: 307
Period size: 79 Copynumber: 3.4 Consensus size: 78
464471 ACATCTCCTA
* * *
464481 GTGAAAAATTTAATATTTTGGAGATAAAATGGGGTTGGAGTACCCCCTCAGAAATAACGGGGTTG
1 GTGAAAAA-TTAATATTTTGGAAATAAAATGGGGTTGGAGTACCCCCTTAGAAATAATGGGGTTG
*
464546 GAGTATCCCCGATG
65 GAGTATCCCCGATT
* * * *
464560 GTGAAAAATTGATGTTTTGGAAATAAAATCAGGGTTGGAGTATCCCCTTAGAAATAATGGGGTTG
1 GTGAAAAATTAATATTTTGGAAATAAAAT-GGGGTTGGAGTACCCCCTTAGAAATAATGGGGTTG
* *
464625 GAGCATCCCCAATT
65 GAGTATCCCCGATT
* * * * * * *
464639 GTGGAAAATTAGTATTTTGAAAATAAAACCGAGGTTGGAGTATCCCCCTTAAAAATAATGGGATT
1 GTGAAAAATTAATATTTTGGAAATAAAA-TGGGGTTGGAGTA-CCCCCTTAGAAATAATGGGGTT
*
464704 GAAGTATCCCCGATT
64 GGAGTATCCCCGATT
** *
464719 GTGAAAAATTGGTATTTTGAAAATAAAA
1 GTGAAAAATTAATATTTTGGAAATAAAA
464747 CCGGGATTGA
Statistics
Matches: 158, Mismatches: 26, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
78 18 0.11
79 83 0.53
80 57 0.36
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (78 bp):
GTGAAAAATTAATATTTTGGAAATAAAATGGGGTTGGAGTACCCCCTTAGAAATAATGGGGTTGG
AGTATCCCCGATT
Found at i:464720 original size:80 final size:79
Alignment explanation
Indices: 464513--464765 Score: 316
Period size: 79 Copynumber: 3.2 Consensus size: 79
464503 GATAAAATGG
* * * *
464513 GGTTGGAGTA-CCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATTGATGTTT
1 GGTTGGAGTATCCCCCTTAGAAATAATGGGGTTGGAGTATCCCCGATTGTGAAAAATTG-TATTT
* *
464577 TGGAAATAAAATC-A
65 TGAAAATAAAACCGA
* * *
464591 GGGTTGGAGTAT-CCCCTTAGAAATAATGGGGTTGGAGCATCCCCAATTGTGGAAAATTAGTATT
1 -GGTTGGAGTATCCCCCTTAGAAATAATGGGGTTGGAGTATCCCCGATTGTGAAAAATT-GTATT
464655 TTGAAAATAAAACCGA
64 TTGAAAATAAAACCGA
* * *
464671 GGTTGGAGTATCCCCCTTAAAAATAATGGGATTGAAGTATCCCCGATTGTGAAAAATTGGTATTT
1 GGTTGGAGTATCCCCCTTAGAAATAATGGGGTTGGAGTATCCCCGATTGTGAAAAATT-GTATTT
464736 TGAAAATAAAACCG-
65 TGAAAATAAAACCGA
*
464750 GGATTGAAGTATCCCC
1 GG-TTGGAGTATCCCC
464766 TCGAAAATAA
Statistics
Matches: 152, Mismatches: 17, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
79 78 0.51
80 74 0.49
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (79 bp):
GGTTGGAGTATCCCCCTTAGAAATAATGGGGTTGGAGTATCCCCGATTGTGAAAAATTGTATTTT
GAAAATAAAACCGA
Found at i:465783 original size:20 final size:20
Alignment explanation
Indices: 465754--465826 Score: 110
Period size: 20 Copynumber: 3.6 Consensus size: 20
465744 GCAGACTTTT
* *
465754 TGTATGGATACAATGAATAA
1 TGTATCGATACAATGAACAA
465774 TGTATCGATACAATGAACAA
1 TGTATCGATACAATGAACAA
*
465794 TGTATTGATACAATGAACAA
1 TGTATCGATACAATGAACAA
*
465814 TATATCGATACAA
1 TGTATCGATACAA
465827 ATTGTGAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.45, C:0.11, G:0.15, T:0.29
Consensus pattern (20 bp):
TGTATCGATACAATGAACAA
Found at i:466234 original size:3 final size:3
Alignment explanation
Indices: 466226--466254 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
466216 CATTCAATTT
466226 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
466255 TTTGGGTAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:466591 original size:61 final size:61
Alignment explanation
Indices: 466502--466708 Score: 319
Period size: 61 Copynumber: 3.4 Consensus size: 61
466492 AATTAAATGT
* * *
466502 GTCCTGCTCTTTGAGAACTAGAATGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGT
1 GTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * *
466563 GTCCTGCTCTTTGGGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAGAAGGAAAAGGC
1 GTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
*
466624 GTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCGACTTGTGTGGGCTTTAAAAGGAAAAGGC
1 GTCCTGCTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
*
466685 GTCCTGCTCTTCGAGGACT-GAAAG
1 GTCCTGCTCTTTGAGGACTAGAAAG
466709 GATAAAAGGT
Statistics
Matches: 135, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
60 5 0.04
61 130 0.96
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (61 bp):
GTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
Found at i:467664 original size:7 final size:7
Alignment explanation
Indices: 467654--467709 Score: 69
Period size: 7 Copynumber: 7.9 Consensus size: 7
467644 TTGAGTAGGT
467654 TTTTTTC
1 TTTTTTC
*
467661 TTTTCTC
1 TTTTTTC
467668 TTTTTTC
1 TTTTTTC
467675 TTTTTTC
1 TTTTTTC
467682 TTTTTTC
1 TTTTTTC
467689 ATTTTTT-
1 -TTTTTTC
*
467696 TGTTGTTC
1 T-TTTTTC
467704 TTTTTT
1 TTTTTT
467710 GTTTCGTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
6 1 0.02
7 34 0.81
8 7 0.17
ACGTcount: A:0.02, C:0.12, G:0.04, T:0.82
Consensus pattern (7 bp):
TTTTTTC
Found at i:478035 original size:4 final size:4
Alignment explanation
Indices: 478026--478056 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
478016 AAATAAAACA
*
478026 AAAT AAAT AAAT GAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
478057 CACCTCAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:480178 original size:79 final size:79
Alignment explanation
Indices: 480081--480509 Score: 501
Period size: 79 Copynumber: 5.4 Consensus size: 79
480071 TATTTTGGAG
* * * *
480081 ATAAAAACAGGGTCGGAGTA-CCTCCTCAAAAATAACGGGGTTGAAGTATCCCCGATGGTGAAAA
1 ATAAAACCAGGGTTGGAGTATCC-CCTCGAAAATAACGGGGTTGAAGTATCCCCGATTGTGAAAA
* *
480145 ATCGATGTTTTGAAA
65 ATTGGTGTTTTGAAA
** * * * * *
480160 ATAAAATTAAGGTTGGAGTATCCCCTCGAAAATAACAGGGTTTAAGTATCACCGATTGTGGAAAA
1 ATAAAACCAGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGAAGTATCCCCGATTGTGAAAAA
480225 TTGGTGTTTT-AGAA
66 TTGGTGTTTTGA-AA
* * *
480239 ATAAAACCAGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTAT-CCCGATTGTGGAAAA
1 ATAAAACCAGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGAAGTATCCCCGATTGTGAAAAA
480303 TTGGTGTTTT-AGAA
66 TTGGTGTTTTGA-AA
* * * *
480317 ATAAAACTAGGGTTGAAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCTCGATTGTGAAAAA
1 ATAAAACCAGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGAAGTATCCCCGATTGTGAAAAA
*
480382 TTGGTGTTTTGGAA
66 TTGGTGTTTTGAAA
* * * * *
480396 ATAAAACC-GAGGTTGGAGTATTCCTTCAAAAATAACGAGATTGGAA-TATCCCCGATTGTGAAA
1 ATAAAACCAG-GGTTGGAGTATCCCCTCGAAAATAACGGGGTT-GAAGTATCCCCGATTGTGAAA
* *
480459 AATTGGTATTTTGGAA
64 AATTGGTGTTTTGAAA
* *
480475 ATAAAACCAGGGTTGGAGTATCGCCTCGGAAATAA
1 ATAAAACCAGGGTTGGAGTATCCCCTCGAAAATAA
480510 AAACATGAAT
Statistics
Matches: 304, Mismatches: 39, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
78 76 0.25
79 223 0.73
80 5 0.02
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (79 bp):
ATAAAACCAGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGAAGTATCCCCGATTGTGAAAAA
TTGGTGTTTTGAAA
Found at i:480350 original size:157 final size:156
Alignment explanation
Indices: 480081--480509 Score: 533
Period size: 157 Copynumber: 2.7 Consensus size: 156
480071 TATTTTGGAG
* * * *
480081 ATAAAAACAGGGTCGGAGTA-CCTCCTCAAAAATAACGGGGTTGAAGTATCCCCGATGGTGAAAA
1 ATAAAACCAGGGTTGGAGTATCC-CCTCAAAAATAAC-GGGTTGGAGTATCCCCGATTGTGAAAA
* * * * *
480145 ATCGATGTTTTGAAAATAAAATTAAGGTTGGAGTATCCCCTCGAAAATAACAGGGTTTAAGTATC
64 ATTGGTGTTTTG-AAATAAAACTAGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGAAGTATC
*
480210 AC-CGATTGTGGAAAATTGGTGTTTTAGAA
128 -CTCGATTGTGAAAAATTGGTGTTTTAGAA
* *
480239 ATAAAACCAGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTAT-CCCGATTGTGGAAAA
1 ATAAAACCAGGGTTGGAGTATCCCCTCAAAAATAAC-GGGTTGGAGTATCCCCGATTGTGAAAAA
* * *
480303 TTGGTGTTTTAGAAATAAAACTAGGGTTGAAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCC
65 TTGGTGTTTT-GAAATAAAACTAGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGAAGTATCC
*
480368 TCGATTGTGAAAAATTGGTGTTTTGGAA
129 TCGATTGTGAAAAATTGGTGTTTTAGAA
* * * *
480396 ATAAAACC-GAGGTTGGAGTATTCCTTCAAAAATAACGAGATTGGAATATCCCCGATTGTGAAAA
1 ATAAAACCAG-GGTTGGAGTATCCCCTCAAAAATAACG-GGTTGGAGTATCCCCGATTGTGAAAA
* * * *
480460 ATTGGTATTTTGGAAATAAAACCAGGGTTGGAGTATCGCCTCGGAAATAA
64 ATTGGTGTTTT-GAAATAAAACTAGGGTTGGAGTATCCCCTCGAAAATAA
480510 AAACATGAAT
Statistics
Matches: 236, Mismatches: 29, Indels: 12
0.85 0.10 0.04
Matches are distributed among these distances:
156 3 0.01
157 132 0.56
158 99 0.42
159 2 0.01
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (156 bp):
ATAAAACCAGGGTTGGAGTATCCCCTCAAAAATAACGGGTTGGAGTATCCCCGATTGTGAAAAAT
TGGTGTTTTGAAATAAAACTAGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGAAGTATCCTC
GATTGTGAAAAATTGGTGTTTTAGAA
Found at i:487067 original size:13 final size:13
Alignment explanation
Indices: 487049--487083 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
487039 TGTTCTTTGT
487049 ATCGATACAATGC
1 ATCGATACAATGC
*
487062 ATCGATACAATGT
1 ATCGATACAATGC
*
487075 ATCAATACA
1 ATCGATACA
487084 TGGGTTACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.43, C:0.20, G:0.11, T:0.26
Consensus pattern (13 bp):
ATCGATACAATGC
Found at i:489560 original size:13 final size:13
Alignment explanation
Indices: 489542--489568 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
489532 ACATTATGCT
489542 TTGTATCGATACA
1 TTGTATCGATACA
489555 TTGTATCGATACA
1 TTGTATCGATACA
489568 T
1 T
489569 GTTCATTGTA
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:489672 original size:13 final size:13
Alignment explanation
Indices: 489654--489683 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
489644 GATACATGGC
489654 ACATTGTATCGAT
1 ACATTGTATCGAT
*
489667 ACATTGTCTCGAT
1 ACATTGTATCGAT
489680 ACAT
1 ACAT
489684 GAAGAATTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:489684 original size:33 final size:32
Alignment explanation
Indices: 489637--489707 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 32
489627 CTACCGCTGT
*
489637 TTGTATCGATACATG-GCACATTGTATCGATACA
1 TTGTCTCGATACATGAG-A-ATTGTATCGATACA
*
489670 TTGTCTCGATACATGAAGAATTGTATCGATATA
1 TTGTCTCGATACATG-AGAATTGTATCGATACA
489703 TTGTC
1 TTGTC
489708 CCAAACGGCT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
33 32 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (32 bp):
TTGTCTCGATACATGAGAATTGTATCGATACA
Found at i:491414 original size:20 final size:19
Alignment explanation
Indices: 491368--491423 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
491358 AAAACCCTTA
**
491368 AATGTATCGATACACAATTC
1 AATGTATCGATACA-TGTTC
*
491388 AAAGTATCGATACATGTTGC
1 AATGTATCGATACATGTT-C
491408 AATGTATCGATACATG
1 AATGTATCGATACATG
491424 AAAAAGATGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 2 0.06
20 29 0.94
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (19 bp):
AATGTATCGATACATGTTC
Found at i:491500 original size:13 final size:13
Alignment explanation
Indices: 491482--491507 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
491472 TACAGCAAGT
491482 ATGTATCGATACA
1 ATGTATCGATACA
491495 ATGTATCGATACA
1 ATGTATCGATACA
491508 CAAAATTGTA
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:491521 original size:31 final size:32
Alignment explanation
Indices: 491464--491525 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 32
491454 TAGCCAAACT
*
491464 TGTATCGATACAGCAAGTATGTATCGATACAA
1 TGTATCGATACAGCAAATATGTATCGATACAA
491496 TGTATCGATACA-CAAA-ATTGTATCGATACA
1 TGTATCGATACAGCAAATA-TGTATCGATACA
491526 TTAGCTTGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 1 0.04
31 15 0.54
32 12 0.43
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (32 bp):
TGTATCGATACAGCAAATATGTATCGATACAA
Found at i:493990 original size:21 final size:21
Alignment explanation
Indices: 493966--494012 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
493956 GTATGAGAAA
493966 GTTTGGATTATTTGGTGTTGG
1 GTTTGGATTATTTGGTGTTGG
493987 GTTTGGATTATTTGGTGTTGG
1 GTTTGGATTATTTGGTGTTGG
494008 GTTTG
1 GTTTG
494013 TTCTTAGTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.09, C:0.00, G:0.38, T:0.53
Consensus pattern (21 bp):
GTTTGGATTATTTGGTGTTGG
Found at i:495188 original size:13 final size:13
Alignment explanation
Indices: 495170--495194 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
495160 TACAAGCCAA
495170 TGTATCGATACAG
1 TGTATCGATACAG
495183 TGTATCGATACA
1 TGTATCGATACA
495195 AGTTTAGCTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:495284 original size:13 final size:13
Alignment explanation
Indices: 495266--495290 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
495256 ACATTTGGTC
495266 ATGTATCGATACA
1 ATGTATCGATACA
495279 ATGTATCGATAC
1 ATGTATCGATAC
495291 TGTGCAACAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:495985 original size:19 final size:19
Alignment explanation
Indices: 495961--496023 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
495951 TAGCCAAACT
495961 TGTATCGATACACAAAGTA
1 TGTATCGATACACAAAGTA
495980 TGTATCGAT--AC--A--A
1 TGTATCGATACACAAAGTA
495993 TGTATCGATACACAAAGTA
1 TGTATCGATACACAAAGTA
496012 TGTATCGATACA
1 TGTATCGATACA
496024 ATGTATCGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 10 0.26
15 3 0.08
17 3 0.08
19 22 0.58
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.29
Consensus pattern (19 bp):
TGTATCGATACACAAAGTA
Found at i:495997 original size:13 final size:13
Alignment explanation
Indices: 495979--496036 Score: 62
Period size: 13 Copynumber: 4.0 Consensus size: 13
495969 TACACAAAGT
495979 ATGTATCGATACA
1 ATGTATCGATACA
495992 ATGTATCGATACACAAA
1 ATGTATCGAT--AC--A
496009 GTATGTATCGATACA
1 --ATGTATCGATACA
496024 ATGTATCGATACA
1 ATGTATCGATACA
496037 CAAAAAAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.59
15 3 0.08
17 3 0.08
19 10 0.26
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.29
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:496002 original size:32 final size:32
Alignment explanation
Indices: 495961--496040 Score: 160
Period size: 32 Copynumber: 2.5 Consensus size: 32
495951 TAGCCAAACT
495961 TGTATCGATACACAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAGTATGTATCGATACAA
495993 TGTATCGATACACAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAGTATGTATCGATACAA
496025 TGTATCGATACACAAA
1 TGTATCGATACACAAA
496041 AAAATTGTAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 48 1.00
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACAAAGTATGTATCGATACAA
Found at i:498290 original size:21 final size:21
Alignment explanation
Indices: 498257--498306 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
498247 TTGCAAGTTG
*
498257 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
498279 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
498300 AAATAAA
1 AAATAAA
498307 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:503852 original size:23 final size:21
Alignment explanation
Indices: 503810--503852 Score: 50
Period size: 23 Copynumber: 2.0 Consensus size: 21
503800 GTTTAATGTT
**
503810 TTTGCTTGACTTTGTGTTTTA
1 TTTGCTTGACTTTGAATTTTA
503831 TTTGCATTGTACTTTGAATTTT
1 TTTGC-TTG-ACTTTGAATTTT
503853 TAATCTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 5 0.28
22 3 0.17
23 10 0.56
ACGTcount: A:0.14, C:0.09, G:0.16, T:0.60
Consensus pattern (21 bp):
TTTGCTTGACTTTGAATTTTA
Found at i:504790 original size:13 final size:13
Alignment explanation
Indices: 504772--504797 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
504762 TCCACAAAGT
504772 ATGTATCGATACA
1 ATGTATCGATACA
504785 ATGTATCGATACA
1 ATGTATCGATACA
504798 CAAAAAAATT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:514024 original size:32 final size:31
Alignment explanation
Indices: 513916--514032 Score: 94
Period size: 32 Copynumber: 3.6 Consensus size: 31
513906 CTTAGTCACC
* * *
513916 TTTCTAGACTAATTATTTTTGCCCTAGTCACTT
1 TTTCTTGACTAA-TAGTTTTGCCCTAGT-AATT
* * *
513949 TCTT-TTGACCAATAGATTT-CACCTTAGTCATT
1 T-TTCTTGACTAATAGTTTTGC-CC-TAGTAATT
* *
513981 TTTTTTTACTAATAAGTTTTGCCCTAGTAATT
1 TTTCTTGACTAAT-AGTTTTGCCCTAGTAATT
514013 TTTCTTGACTAATAGTTTTG
1 TTTCTTGACTAATAGTTTTG
514033 TCTTTAGTCA
Statistics
Matches: 66, Mismatches: 12, Indels: 14
0.72 0.13 0.15
Matches are distributed among these distances:
31 10 0.15
32 35 0.53
33 18 0.27
34 3 0.05
ACGTcount: A:0.23, C:0.17, G:0.10, T:0.50
Consensus pattern (31 bp):
TTTCTTGACTAATAGTTTTGCCCTAGTAATT
Found at i:514080 original size:32 final size:32
Alignment explanation
Indices: 513904--514109 Score: 120
Period size: 31 Copynumber: 6.5 Consensus size: 32
513894 AATAGGCTTC
* * * * *
513904 GCCTTAGTCACCTTTCTAGACTAATTATTTTT
1 GCCTTAGTCACTTTTTTTGACTAATAAGTTTT
* * *
513936 GCCCTAGTCACTTTCTTTTGACCAAT-AGATTTC
1 GCCTTAGTCACTTT-TTTTGACTAATAAG-TTTT
* * *
513969 ACCTTAGTCATTTTTTTTTACTAATAAGTTTT
1 GCCTTAGTCACTTTTTTTGACTAATAAGTTTT
* *
514001 GCCCTAGT-AATTTTTCTTGACTAAT-AGTTTT
1 GCCTTAGTCACTTTTT-TTGACTAATAAGTTTT
* * * **
514032 GTCTTTAGTCA-ATTTTTTGACCAATGGGTTTT
1 G-CCTTAGTCACTTTTTTTGACTAATAAGTTTT
* *
514064 GCCTTAGTCAC-CTTTTTGACAAAT-AGATTTT
1 GCCTTAGTCACTTTTTTTGACTAATAAG-TTTT
* *
514095 GCGTTTGTCA-TTTTT
1 GCCTTAGTCACTTTTT
514110 CAAACTTAAG
Statistics
Matches: 135, Mismatches: 29, Indels: 21
0.73 0.16 0.11
Matches are distributed among these distances:
30 1 0.01
31 55 0.41
32 54 0.40
33 25 0.19
ACGTcount: A:0.21, C:0.18, G:0.13, T:0.48
Consensus pattern (32 bp):
GCCTTAGTCACTTTTTTTGACTAATAAGTTTT
Found at i:514347 original size:29 final size:29
Alignment explanation
Indices: 514284--514388 Score: 106
Period size: 29 Copynumber: 3.6 Consensus size: 29
514274 TTCTAACTTG
*
514284 AGGTTTCACCCTAGTTACCCCTTT--AGACTCA
1 AGGTTTCACCCTAG-T--CCCTTTCCA-ACTAA
* * *
514315 AGGTTACACCTTAGTCCTTTTCCAACTAA
1 AGGTTTCACCCTAGTCCCTTTCCAACTAA
*
514344 AGGTTTCACCCTAGTCCCTTTCCAATTAA
1 AGGTTTCACCCTAGTCCCTTTCCAACTAA
*
514373 AGGTTTCACCGTAGTC
1 AGGTTTCACCCTAGTC
514389 ATCCTTTATA
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
28 5 0.08
29 44 0.70
30 2 0.03
31 12 0.19
ACGTcount: A:0.24, C:0.30, G:0.13, T:0.33
Consensus pattern (29 bp):
AGGTTTCACCCTAGTCCCTTTCCAACTAA
Found at i:514405 original size:31 final size:29
Alignment explanation
Indices: 514284--514410 Score: 84
Period size: 29 Copynumber: 4.2 Consensus size: 29
514274 TTCTAACTTG
*
514284 AGGTTTCACCCTAGTTACCCCTTT-AGA-CTCA
1 AGGTTTCACCCTAG-T--CCCTTTCA-ATCTAA
* * *
514315 AGGTTACACCTTAGTCCTTTTCCAA-CTAA
1 AGGTTTCACCCTAGTCCCTTT-CAATCTAA
514344 AGGTTTCACCCTAGTCCCTTTCCAAT-TAA
1 AGGTTTCACCCTAGTCCCTTT-CAATCTAA
*
514373 AGGTTTCACCGTAGTCATCCTTT-ATATCTAA
1 AGGTTTCACCCTAGTC--CCTTTCA-ATCTAA
*
514404 AGTTTTC
1 AGGTTTC
514411 CACCAAAATC
Statistics
Matches: 80, Mismatches: 9, Indels: 14
0.78 0.09 0.14
Matches are distributed among these distances:
28 5 0.06
29 45 0.56
30 4 0.05
31 26 0.32
ACGTcount: A:0.24, C:0.28, G:0.12, T:0.36
Consensus pattern (29 bp):
AGGTTTCACCCTAGTCCCTTTCAATCTAA
Found at i:518213 original size:78 final size:78
Alignment explanation
Indices: 518069--518216 Score: 190
Period size: 78 Copynumber: 1.9 Consensus size: 78
518059 ATTAAAAGTA
* * * ** ** * *
518069 TACTTTGAGGGTATAATAGTTATTTTATCTTATTATCAAGTCTTTTATGGTCATTGAGATATTTT
1 TACTTTAAGGGTATAATAATTATTTTATCTCATTATCAAGTCTTTTAAAGTCATAAAAATACTTT
518134 CATGTCAAATATG
66 CATGTCAAATATG
*
518147 TACTTTAAGGGTATAATAATTATTTTCTCTCATTATCGAA-TCTTTTAAAGTCATAAAAATACTT
1 TACTTTAAGGGTATAATAATTATTTTATCTCATTATC-AAGTCTTTTAAAGTCATAAAAATACTT
518211 TCATGT
65 TCATGT
518217 TGAAGGTGCA
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
78 57 0.97
79 2 0.03
ACGTcount: A:0.31, C:0.11, G:0.12, T:0.46
Consensus pattern (78 bp):
TACTTTAAGGGTATAATAATTATTTTATCTCATTATCAAGTCTTTTAAAGTCATAAAAATACTTT
CATGTCAAATATG
Found at i:519521 original size:22 final size:21
Alignment explanation
Indices: 519477--519525 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
519467 TTACTACACA
* **
519477 CTAAAGTATTGATATTTTTTG
1 CTAAAGTATTGATACTTAATG
519498 CTTAAAGTATTGATACTTAATG
1 C-TAAAGTATTGATACTTAATG
519520 CTAAAG
1 CTAAAG
519526 AACCAATACC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 6 0.25
22 18 0.75
ACGTcount: A:0.35, C:0.08, G:0.14, T:0.43
Consensus pattern (21 bp):
CTAAAGTATTGATACTTAATG
Found at i:520259 original size:13 final size:13
Alignment explanation
Indices: 520241--520265 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
520231 CATTGTTCAT
520241 TGTATCGATACAA
1 TGTATCGATACAA
520254 TGTATCGATACA
1 TGTATCGATACA
520266 TTCTGGGTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:520312 original size:20 final size:19
Alignment explanation
Indices: 520283--520356 Score: 94
Period size: 20 Copynumber: 3.7 Consensus size: 19
520273 TTTACCCATA
*
520283 TGTATTGATACATTTTGCAT
1 TGTATCGATACATTTT-CAT
*
520303 TGTATCGATACATTGCTCAT
1 TGTATCGATACATT-TTCAT
*
520323 TGTATCGATACATTTTACAA
1 TGTATCGATACATTTT-CAT
520343 TGTATCGATACATT
1 TGTATCGATACATT
520357 CAGGCATTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 1 0.02
20 46 0.96
21 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.43
Consensus pattern (19 bp):
TGTATCGATACATTTTCAT
Found at i:522767 original size:28 final size:28
Alignment explanation
Indices: 522709--522767 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
522699 TTTCACAATC
* *
522709 GGGGATACTCCAACCCTGTTATTTTCGA
1 GGGGATACTCCAACCCCGTTATTATCGA
* * *
522737 GGGGATACTCCAGCCCCGTTGTTATCTA
1 GGGGATACTCCAACCCCGTTATTATCGA
522765 GGG
1 GGG
522768 CACTCCTAGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.19, C:0.25, G:0.27, T:0.29
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTATCGA
Found at i:525365 original size:19 final size:21
Alignment explanation
Indices: 525331--525376 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
525321 TGTTAGGAAT
*
525331 AAATAATTTTTAAAATA-CAA
1 AAATTATTTTTAAAATATCAA
*
525351 GAATTATTTTT-AAATATCAA
1 AAATTATTTTTAAAATATCAA
525371 AAATTA
1 AAATTA
525377 AAACTAACTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.39
Consensus pattern (21 bp):
AAATTATTTTTAAAATATCAA
Found at i:526678 original size:52 final size:52
Alignment explanation
Indices: 526616--526727 Score: 170
Period size: 52 Copynumber: 2.2 Consensus size: 52
526606 TTTGGAAAGG
* * * *
526616 AAATATATCGATACATTTTTTATTGTATCGATAAATTCTGGGTTTTTGACCC
1 AAATGTATCGATACATTTTTCATTATATCGATAAATTCTAGGTTTTTGACCC
**
526668 AAATGTATCGATACATTTTTCATTATATCGATACTTTCTAGGTTTTTGACCC
1 AAATGTATCGATACATTTTTCATTATATCGATAAATTCTAGGTTTTTGACCC
526720 AAATGTAT
1 AAATGTAT
526728 TGACATATTC
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.29, C:0.14, G:0.12, T:0.44
Consensus pattern (52 bp):
AAATGTATCGATACATTTTTCATTATATCGATAAATTCTAGGTTTTTGACCC
Found at i:526753 original size:52 final size:52
Alignment explanation
Indices: 526641--526753 Score: 136
Period size: 52 Copynumber: 2.2 Consensus size: 52
526631 TTTTTTATTG
** * * * *
526641 TATCGATAAATTCTGGGTTTTTGACCCAAATGTATCGATACATTTTTCATTA
1 TATCGATACTTTCTAGGTTTTTGACCCAAATGTATCGACACATTCTTCAATA
* * *
526693 TATCGATACTTTCTAGGTTTTTGACCCAAATGTATTGACATATTCTTCAATG
1 TATCGATACTTTCTAGGTTTTTGACCCAAATGTATCGACACATTCTTCAATA
*
526745 TATTGATAC
1 TATCGATAC
526754 ATGCAGGCAA
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.42
Consensus pattern (52 bp):
TATCGATACTTTCTAGGTTTTTGACCCAAATGTATCGACACATTCTTCAATA
Found at i:529037 original size:96 final size:96
Alignment explanation
Indices: 528880--529123 Score: 267
Period size: 96 Copynumber: 2.5 Consensus size: 96
528870 TTTTTATTCA
* * *
528880 TGGGGATACTCCAATCCTATTCTT-TTGAGGAGATACTCCAACCCCATTTTTTAAATTTATCAAA
1 TGGGGATACTCCAA-CCTATT-TTCTT-AGGGGATACTCTAACCCCATTTTTTAAACTTATCAAA
* * *
528944 ATTTAAATCTTATTTTTGCTTTAATTGTCATCAT
63 ATTTAAATCTTATTTTTGCCTAAATTATCATCAT
* **
528978 TGGGGATACTCCAACCTCATTTTCTTAGGGGATACTCTAACCGCA-TTTTTAAACTTATCACGAT
1 TGGGGATACTCCAACCT-ATTTTCTTAGGGGATACTCTAACCCCATTTTTTAAACTTATCAAAAT
529042 TTAAATCTTATTTTTGCCTAAATTATCATCAT
65 TTAAATCTTATTTTTGCCTAAATTATCATCAT
*** * ** * *
529074 CAAGGATATTCCAAACCTATTTTTCCGAGGGGATACTCTAGCCCCGTTTT
1 TGGGGATACTCC-AACCTA-TTTTCTTAGGGGATACTCTAACCCCATTTT
529124 GCAACTAAAA
Statistics
Matches: 123, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
96 54 0.44
97 47 0.38
98 22 0.18
ACGTcount: A:0.27, C:0.21, G:0.12, T:0.39
Consensus pattern (96 bp):
TGGGGATACTCCAACCTATTTTCTTAGGGGATACTCTAACCCCATTTTTTAAACTTATCAAAATT
TAAATCTTATTTTTGCCTAAATTATCATCAT
Found at i:533713 original size:20 final size:20
Alignment explanation
Indices: 533688--533745 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
533678 GTAAAAAGAT
*
533688 AGAATGTATTGATACATTGA
1 AGAATGTATCGATACATTGA
**
533708 AGAATGTATCGATACATTTT
1 AGAATGTATCGATACATTGA
**
533728 TCAATGTATCGATACATT
1 AGAATGTATCGATACATT
533746 CTGGGTAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.38
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:534744 original size:31 final size:30
Alignment explanation
Indices: 534655--534781 Score: 148
Period size: 32 Copynumber: 4.1 Consensus size: 30
534645 CAACATTAGG
* *
534655 TTTAGAAGGGTTGCCACCAACTCATGTAGGC
1 TTTAGAAGGGTTGCCACCAACT-GTGTGGGC
* *
534686 TTTAGAGAAGGTTGCCACGAACTTGTGTGGGC
1 TTTAGA-AGGGTTGCCACCAAC-TGTGTGGGC
* *
534718 TTTAGAAGGGCTGCCACCGACCTGTGTGGGC
1 TTTAGAAGGGTTGCCACC-AACTGTGTGGGC
534749 TTTAGAAGAGGTTGCCACCAACT-TGTGGGC
1 TTTAGAAG-GGTTGCCACCAACTGTGTGGGC
534779 TTT
1 TTT
534782 GAACATGTCC
Statistics
Matches: 82, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
30 10 0.12
31 35 0.43
32 36 0.44
33 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.28
Consensus pattern (30 bp):
TTTAGAAGGGTTGCCACCAACTGTGTGGGC
Found at i:534754 original size:63 final size:63
Alignment explanation
Indices: 534655--534775 Score: 165
Period size: 63 Copynumber: 1.9 Consensus size: 63
534645 CAACATTAGG
* *
534655 TTTAGAAGGGTTGCCACCAACTCATGTAGGCTTTAG-AGAAGGTTGCCACGAACTTGTGTGGGC
1 TTTAGAAGGGCTGCCACCAACTCATGTAGGCTTTAGAAG-AGGTTGCCACCAACTTGTGTGGGC
* * *
534718 TTTAGAAGGGCTGCCACCGAC-CTGTGTGGGCTTTAGAAGAGGTTGCCACCAACTTGTG
1 TTTAGAAGGGCTGCCACCAACTC-ATGTAGGCTTTAGAAGAGGTTGCCACCAACTTGTG
534776 GGCTTTGAAC
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
62 1 0.02
63 48 0.94
64 2 0.04
ACGTcount: A:0.22, C:0.21, G:0.31, T:0.26
Consensus pattern (63 bp):
TTTAGAAGGGCTGCCACCAACTCATGTAGGCTTTAGAAGAGGTTGCCACCAACTTGTGTGGGC
Found at i:534837 original size:28 final size:28
Alignment explanation
Indices: 534711--535351 Score: 577
Period size: 28 Copynumber: 22.5 Consensus size: 28
534701 CACGAACTTG
* *
534711 TGTGGGCTTT-AGAAGGGCTGCCACCGACCT
1 TGTGGGCTTTGA-AAAGG-TGCCACTGA-CT
* **
534741 GTGTGGGCTTTAGAAGAGGTTGCCACCAACT
1 -TGTGGGCTTT-GAAAAGG-TGCCACTGACT
* * *
534772 TGTGGGCTTTGAACATGT-CC-CTAACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
***
534798 TACAGGCTTTGAAAAGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
* *
534826 TGTGGGTTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
*
534854 TGTGGGCTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
* *
534882 TGTGAGCTTTG-AAAGAATGCCACTGACT
1 TGTGGGCTTTGAAAAG-GTGCCACTGACT
* * *
534910 TGTGAGCTTTG-AAAGAATGCCACCGACT
1 TGTGGGCTTTGAAAAG-GTGCCACTGACT
* * *
534938 TGTAGGCTTTGAAAAGGTGACACTAACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
* * * *
534966 TATGGGCTTCG-AAAGCTGCCACTGGCT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
* *
534993 TGTGGGCTTTCAAAAGGGTTGCCACTGAAT
1 TGTGGGCTTTGAAAA-GG-TGCCACTGACT
*
535023 TGTGGGCTCTG-AAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGG-TGCCACTGACT
* *
535051 TGTGGGCTCTGAAAAGGGTCGCCACTAACT
1 TGTGGGCTTTGAAAA-GGT-GCCACTGACT
*
535081 TGTGGGCTCTG-AAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGG-TGCCACTGACT
*
535109 TGTGGGCTTTG-AAAGGATGCCGCTGACT
1 TGTGGGCTTTGAAAAGG-TGCCACTGACT
* *
535137 TATGGGCTTTTG-AAAGGATGCCACTAACT
1 TGTGGGC-TTTGAAAAGG-TGCCACTGACT
* *
535166 TGTGGGCTTTGAAAAGATGCCACTGTCT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
* *
535194 TGTGGGCTTTGAAAATGTGCCATTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
* *
535222 TGTGGGCTGTGAAAAGGATGCCACTCACT
1 TGTGGGCTTTGAAAAGG-TGCCACTGACT
* * *
535251 TATGGGCTTTGAAAAAGATACCACTGACT
1 TGTGGGCTTTG-AAAAGGTGCCACTGACT
*
535280 TGTGGGCTTTTG-AAAGGATGCCATTGACT
1 TGTGGGC-TTTGAAAAGG-TGCCACTGACT
*
535309 TGTGGGCTTTG-AAAGGATGCCATTGACT
1 TGTGGGCTTTGAAAAGG-TGCCACTGACT
*
535337 TGTGGGCTTTAAAAA
1 TGTGGGCTTTGAAAA
535352 TGTGTTGTAT
Statistics
Matches: 515, Mismatches: 75, Indels: 42
0.81 0.12 0.07
Matches are distributed among these distances:
26 18 0.03
27 28 0.05
28 284 0.55
29 102 0.20
30 59 0.11
31 12 0.02
32 11 0.02
33 1 0.00
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.29
Consensus pattern (28 bp):
TGTGGGCTTTGAAAAGGTGCCACTGACT
Found at i:535140 original size:171 final size:170
Alignment explanation
Indices: 534742--535351 Score: 673
Period size: 171 Copynumber: 3.6 Consensus size: 170
534732 CACCGACCTG
* ** * * **
534742 TGTGGGCTTTAGAAGAGGTTGCCACCAACTTGTGGGCTTTG-AA-CATGTCC-CTAACTTACAGG
1 TGTGGGCTTT-GAA-AGGATGCCACTGACTTGTGGGCTTTGAAAGGATG-CCACTGACTTATGGG
**
534804 CTTTGAAAAGG-TGCCACTGACTTGTGGG-TTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAA
63 CTTTG-AAAGGATGCCACTGACTTGTGGGCTTTAAAAAGGGTGCCACTGACTTGTGGGCTTTGAA
* * * *
534867 AAGATGCCACTGACTTGTGAGCTTTG-AAAGAATGCCACTGACT
127 AAGATGCCACTGACTTGTGGGCTCTGAAAAGGATGCCACTAACT
* * * * * *
534910 TGTGAGCTTTGAAAGAATGCCACCGACTTGTAGGCTTTGAAAAGG-TGACACTAACTTATGGGCT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG-AAAGGATGCCACTGACTTATGGGCT
* * * * * * *
534974 TCGAAA-GCTGCCACTGGCTTGTGGGCTTTCAAAAGGGTTGCCACTGAATTGTGGGCTCTGAAAG
65 TTGAAAGGATGCCACTGACTTGTGGGCTTTAAAAAGGG-TGCCACTGACTTGTGGGCTTTGAAAA
*
535038 GATGCCACTGACTTGTGGGCTCTGAAAAGGGTCGCCACTAACT
129 GATGCCACTGACTTGTGGGCTCTGAAAAGGAT-GCCACTAACT
* *
535081 TGTGGGCTCTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCGCTGACTTATGGGCTT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTATGGGC-T
* * * *
535146 TTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAA-GATGCCACTGTCTTGTGGGCTTTGAAAAT
65 TTGAAAGGATGCCACTGACTTGTGGGCTTTAAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAA-
* * *
535210 G-TGCCATTGACTTGTGGGCTGTGAAAAGGATGCCACTCACT
129 GATGCCACTGACTTGTGGGCTCTGAAAAGGATGCCACTAACT
* * * * *
535251 TATGGGCTTTGAAAAAGATACCACTGACTTGTGGGCTTTTGAAAGGATGCCATTGACTTGTGGGC
1 TGTGGGCTTTG-AAAGGATGCCACTGACTTGTGGGC-TTTGAAAGGATGCCACTGACTTATGGGC
*
535316 TTTGAAAGGATGCCATTGACTTGTGGGCTTTAAAAA
64 TTTGAAAGGATGCCACTGACTTGTGGGCTTTAAAAA
535352 TGTGTTGTAT
Statistics
Matches: 374, Mismatches: 53, Indels: 27
0.82 0.12 0.06
Matches are distributed among these distances:
166 23 0.06
167 23 0.06
168 36 0.10
169 45 0.12
170 28 0.07
171 162 0.43
172 33 0.09
173 24 0.06
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (170 bp):
TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTATGGGCTT
TGAAAGGATGCCACTGACTTGTGGGCTTTAAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGA
TGCCACTGACTTGTGGGCTCTGAAAAGGATGCCACTAACT
Found at i:535352 original size:143 final size:141
Alignment explanation
Indices: 534711--535355 Score: 665
Period size: 143 Copynumber: 4.5 Consensus size: 141
534701 CACGAACTTG
* * * * * **
534711 TGTGGGCTTTAGAAGGGCTGCCACCGACCTGTGTGGGCTTTAGAAGAGGTTGCCACCAACTTGTG
1 TGTGGGCTTTTGAAAGGATGCCACTGA-CT-TGTGGGCTTT-GAA-AGGATGCCACTGACTTGTG
* * * *** * *
534776 GGCTTTGAACATGT-CC-CTAACTTACAGGCTTTGAAAAGGTGCCACTGACTTGTGGGTTTTGAA
62 GGCTTTAAAAATGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTATGGGCTTTGAA
* *
534839 AGGGTGCCACTGACT
127 AAGATGCCACTGACT
* * * *
534854 TGTGGGC-TTTGAAAAGATGCCACTGACTTGTGAGCTTTGAAAGAATGCCACTGACTTGTGAGCT
1 TGTGGGCTTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCT
* * * * *
534918 TTGAAAGAA--TGCCACCGACTTGTAGGCTTTGAAAAGGTGACACTAACTTATGGGCTTCG-AAA
66 TT-AAA-AATGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTATGGGCTTTGAAAA
* *
534980 GCTGCCACTGGCT
129 GATGCCACTGACT
** * * *
534993 TGTGGGCTTTCAAAAGGGTTGCCACTGAATTGTGGGCTCTGAAAGGATGCCACTGACTTGTGGGC
1 TGTGGGCTTTTGAAA-GGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGC
* ** * * *
535058 TCTGAAAAGGGTCGCCACTAACTTGTGGGCTCTG-AAAGGATGCCACTGACTTGTGGGCTTTGAA
65 T-TTAAAAATGT-GCCACTGACTTGTGGGCTTTGAAAAGG-TGCCACTGACTTATGGGCTTTGAA
* *
535122 AGGATGCCGCTGACT
127 AAGATGCCACTGACT
* * * *
535137 TATGGGCTTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGATGCCACTGTCTTGTGGGCT
1 TGTGGGCTTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCT
* * * *
535202 TTGAAAATGTGCCATTGACTTGTGGGCTGTGAAAAGGATGCCACTCACTTATGGGCTTTGAAAAA
66 TTAAAAATGTGCCACTGACTTGTGGGCTTTGAAAAGG-TGCCACTGACTTATGGGCTTTG-AAAA
*
535267 GATACCACTGACT
129 GATGCCACTGACT
* *
535280 TGTGGGCTTTTGAAAGGATGCCATTGACTTGTGGGCTTTGAAAGGATGCCATTGACTTGTGGGCT
1 TGTGGGCTTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCT
535345 TTAAAAATGTG
66 TTAAAAATGTG
535356 TTGTATTGAC
Statistics
Matches: 412, Mismatches: 76, Indels: 28
0.80 0.15 0.05
Matches are distributed among these distances:
138 21 0.05
139 27 0.07
140 52 0.13
141 66 0.16
142 53 0.13
143 169 0.41
144 24 0.06
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.29
Consensus pattern (141 bp):
TGTGGGCTTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCT
TTAAAAATGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTATGGGCTTTGAAAAGA
TGCCACTGACT
Found at i:536669 original size:13 final size:11
Alignment explanation
Indices: 536664--536698 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
536654 TTTTGTATTA
536664 TTTTTTTTGTT
1 TTTTTTTTGTT
536675 TTTTTTGTT-TT
1 TTTTTT-TTGTT
536686 TTTTTTTTGTT
1 TTTTTTTTGTT
536697 TT
1 TT
536699 GCTTTTTGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 2 0.09
11 18 0.82
12 2 0.09
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (11 bp):
TTTTTTTTGTT
Found at i:536678 original size:9 final size:9
Alignment explanation
Indices: 536664--536705 Score: 59
Period size: 9 Copynumber: 4.6 Consensus size: 9
536654 TTTTGTATTA
536664 TTTTTTTTG
1 TTTTTTTTG
536673 TTTTTTTTG
1 TTTTTTTTG
536682 TTTTTTTT-
1 TTTTTTTTG
536690 TTTTGTTTTG
1 TTTT-TTTTG
536700 CTTTTT
1 -TTTTT
536706 GAGAAGGACG
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
8 4 0.13
9 21 0.70
10 1 0.03
11 4 0.13
ACGTcount: A:0.00, C:0.02, G:0.10, T:0.88
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:536679 original size:22 final size:22
Alignment explanation
Indices: 536653--536698 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
536643 GACCTTTCCC
536653 TTTTTGTATTATTTTTTTTGTTT
1 TTTTTGT-TTATTTTTTTTGTTT
*
536676 TTTTTGTTTTTTTTTTTTGTTT
1 TTTTTGTTTATTTTTTTTGTTT
536698 T
1 T
536699 GCTTTTTGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.04, C:0.00, G:0.09, T:0.87
Consensus pattern (22 bp):
TTTTTGTTTATTTTTTTTGTTT
Found at i:536685 original size:14 final size:14
Alignment explanation
Indices: 536654--536705 Score: 63
Period size: 13 Copynumber: 3.7 Consensus size: 14
536644 ACCTTTCCCT
*
536654 TTTTGTATTATTTT-
1 TTTTGT-TTTTTTTG
536668 TTTTGTTTTTTTTG
1 TTTTGTTTTTTTTG
536682 TTTT-TTTTTTTTG
1 TTTTGTTTTTTTTG
536695 TTTTGCTTTTT
1 TTTTG-TTTTT
536706 GAGAAGGACG
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
13 19 0.56
14 10 0.29
15 5 0.15
ACGTcount: A:0.04, C:0.02, G:0.10, T:0.85
Consensus pattern (14 bp):
TTTTGTTTTTTTTG
Found at i:554184 original size:16 final size:16
Alignment explanation
Indices: 554155--554194 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
554145 GGGTTTTACC
*
554155 AACATTTATTCTATTAA
1 AACATTT-TTCTATCAA
554172 AACATTTTTCTATCAA
1 AACATTTTTCTATCAA
554188 AA-ATTTT
1 AACATTTT
554195 GAAAGCCTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 5 0.23
16 10 0.45
17 7 0.32
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.47
Consensus pattern (16 bp):
AACATTTTTCTATCAA
Found at i:561643 original size:53 final size:50
Alignment explanation
Indices: 561582--561679 Score: 151
Period size: 50 Copynumber: 1.9 Consensus size: 50
561572 TACATTTTTC
*
561582 AATGTATCGATACATCTGGGTAAAAAAAAACAAAATGTATCAATACATTGAAA
1 AATGTATCGATACATCTAGGT---AAAAAACAAAATGTATCAATACATTGAAA
*
561635 AATGTATCGATACATCTAGGTAAAAAACAAAATGTATCGATACAT
1 AATGTATCGATACATCTAGGTAAAAAACAAAATGTATCAATACAT
561680 GTACTGTTCA
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
50 23 0.53
53 20 0.47
ACGTcount: A:0.49, C:0.12, G:0.13, T:0.26
Consensus pattern (50 bp):
AATGTATCGATACATCTAGGTAAAAAACAAAATGTATCAATACATTGAAA
Done.