Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 272 of 325
Found at i:84366854 original size:12 final size:12
Alignment explanation
Indices: 84366837--84366869 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
84366827 AAATCCACCC
84366837 ATATTAATTTTT
1 ATATTAATTTTT
84366849 ATATT-ATTTTT
1 ATATTAATTTTT
84366860 ATA-TAATTTT
1 ATATTAATTTT
84366870 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:84370153 original size:25 final size:25
Alignment explanation
Indices: 84370106--84370153 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
84370096 TACACTAATC
* * *
84370106 AGAGTTTAAGTGGAAAACTAAAAAT
1 AGAGTTTAACTAGAAAACAAAAAAT
*
84370131 AGAGTTTAACTAGAAAAGAAAAA
1 AGAGTTTAACTAGAAAACAAAAA
84370154 GCTGAAAGAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.56, C:0.04, G:0.19, T:0.21
Consensus pattern (25 bp):
AGAGTTTAACTAGAAAACAAAAAAT
Found at i:84371959 original size:21 final size:21
Alignment explanation
Indices: 84371929--84372006 Score: 59
Period size: 21 Copynumber: 3.6 Consensus size: 21
84371919 TTGCTAGTAC
*
84371929 GGTGTGGATAAATCACTCATT
1 GGTGTAGATAAATCACTCATT
**
84371950 GGTGTAGATAAAAGTTGCT-AGTAT
1 GGTGTAGAT-AAA-TCACTCA-T-T
* *
84371974 GGTGTGGATAAACCACTCATT
1 GGTGTAGATAAATCACTCATT
*
84371995 GGTGCAGATAAA
1 GGTGTAGATAAA
84372007 AGTTGTTAAT
Statistics
Matches: 43, Mismatches: 9, Indels: 10
0.69 0.15 0.16
Matches are distributed among these distances:
21 19 0.44
22 7 0.16
23 8 0.19
24 9 0.21
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (21 bp):
GGTGTAGATAAATCACTCATT
Found at i:84371980 original size:45 final size:45
Alignment explanation
Indices: 84371916--84372082 Score: 210
Period size: 45 Copynumber: 3.7 Consensus size: 45
84371906 TTTTGCAGAC
* *
84371916 AAGTTGCTAGTACGGTGTGGATAAATCACTCATTGGTGTAGATAA
1 AAGTTGCTAGTATGGTGTGGATAAACCACTCATTGGTGTAGATAA
*
84371961 AAGTTGCTAGTATGGTGTGGATAAACCACTCATTGGTGCAGATAA
1 AAGTTGCTAGTATGGTGTGGATAAACCACTCATTGGTGTAGATAA
* * * * * **
84372006 AAGTTGTTAATATGGTATGGATAAACTACTTATCAGTGTAGATAA
1 AAGTTGCTAGTATGGTGTGGATAAACCACTCATTGGTGTAGATAA
* *
84372051 AAGATGCT-GATATGATGTGGATAAACCACTCA
1 AAGTTGCTAG-TATGGTGTGGATAAACCACTCA
84372083 ACAGTGCAAA
Statistics
Matches: 103, Mismatches: 18, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
45 103 1.00
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.31
Consensus pattern (45 bp):
AAGTTGCTAGTATGGTGTGGATAAACCACTCATTGGTGTAGATAA
Found at i:84372198 original size:34 final size:34
Alignment explanation
Indices: 84372147--84372263 Score: 146
Period size: 34 Copynumber: 3.4 Consensus size: 34
84372137 AATGGAAAAT
*
84372147 GTCATGCTTATAGCAGATCAATATGATAGCAATA
1 GTCATGCTTATAACAGATCAATATGATAGCAATA
* * *
84372181 TTCATGCTTACAACAGATCAATA-CAGTAGCAATA
1 GTCATGCTTATAACAGATCAATATGA-TAGCAATA
* * *
84372215 GGCATGCTTATAACATATCAATATGATAACAATA
1 GTCATGCTTATAACAGATCAATATGATAGCAATA
*
84372249 GACATGCTTATAACA
1 GTCATGCTTATAACA
84372264 AAATAGTACA
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
33 1 0.01
34 68 0.97
35 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (34 bp):
GTCATGCTTATAACAGATCAATATGATAGCAATA
Found at i:84372258 original size:68 final size:67
Alignment explanation
Indices: 84372149--84372291 Score: 180
Period size: 68 Copynumber: 2.1 Consensus size: 67
84372139 TGGAAAATGT
* * ** *
84372149 CATGCTTATAGCAGATCAATATGATAGCAATATTCATGCTTACAAC-AGATCAATACAGTAGCAA
1 CATGCTTATAACAGATCAATATGATAACAATAGACATGCTTACAACAAAAT-AATACAGTAGCAA
84372213 TAGG
65 -AGG
* * *
84372217 CATGCTTATAACATATCAATATGATAACAATAGACATGCTTATAACAAAATAGTACAGTAGCAAA
1 CATGCTTATAACAGATCAATATGATAACAATAGACATGCTTACAACAAAATAATACAGTAGCAAA
*
84372282 GT
66 GG
84372284 CATGCTTA
1 CATGCTTA
84372292 ACTTGTATTC
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
67 10 0.15
68 52 0.80
69 3 0.05
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (67 bp):
CATGCTTATAACAGATCAATATGATAACAATAGACATGCTTACAACAAAATAATACAGTAGCAAA
GG
Found at i:84374913 original size:19 final size:20
Alignment explanation
Indices: 84374891--84374930 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
84374881 TAAATTAACC
84374891 AATAT-TTTATAAAAATTAA
1 AATATATTTATAAAAATTAA
* *
84374910 AATATATTTGTAATAATTAA
1 AATATATTTATAAAAATTAA
84374930 A
1 A
84374931 TTTTATTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (20 bp):
AATATATTTATAAAAATTAA
Found at i:84375197 original size:18 final size:19
Alignment explanation
Indices: 84375165--84375202 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
84375155 AATTTATTTA
* *
84375165 TTTATTTATTTAATATATT
1 TTTATTTATTAAATAAATT
84375184 TTTA-TTATTAAATAAATT
1 TTTATTTATTAAATAAATT
84375202 T
1 T
84375203 AACCCGTACA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTATTTATTAAATAAATT
Found at i:84387249 original size:22 final size:22
Alignment explanation
Indices: 84387224--84387265 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
84387214 TTAAAAGATA
84387224 TTTTA-ATAATTAAATTTAATGT
1 TTTTACAT-ATTAAATTTAATGT
*
84387246 TTTTACATTTTAAATTTAAT
1 TTTTACATATTAAATTTAAT
84387266 CTTAATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (22 bp):
TTTTACATATTAAATTTAATGT
Found at i:84389372 original size:31 final size:32
Alignment explanation
Indices: 84389310--84389372 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 32
84389300 AACTTAATTA
* ** *
84389310 CCATATGGCACATTAGTGATTGGTTTGATGTG
1 CCATATGGCACAATAGTGATTGGCGTCATGTG
*
84389342 CCATGTGGCACAATA-TGATTGGCGTCATGTG
1 CCATATGGCACAATAGTGATTGGCGTCATGTG
84389373 ACAACTGGGT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
31 13 0.50
32 13 0.50
ACGTcount: A:0.22, C:0.16, G:0.29, T:0.33
Consensus pattern (32 bp):
CCATATGGCACAATAGTGATTGGCGTCATGTG
Found at i:84390380 original size:64 final size:65
Alignment explanation
Indices: 84390311--84390452 Score: 173
Period size: 65 Copynumber: 2.2 Consensus size: 65
84390301 GACAAAATTG
* * * * *
84390311 AATAGTTAGGTG-TCTATTTTGTCACTTTTTATAGATAAG-TGA-CAAAGAAAAAAAGAAATTTA
1 AATAGTTAGGTGATC-ATTTTATAACTTTTAATAG-TAAGATGATAAAAAAAAAAAAGAAATTTA
84390373 TT
64 TT
* *
84390375 AATAGTTGGGTGATCATTTTATAACTTTTAATAGTTAGATGATAAAAAAAAAAAAGAAATTTATT
1 AATAGTTAGGTGATCATTTTATAACTTTTAATAGTAAGATGATAAAAAAAAAAAAGAAATTTATT
*
84390440 GATAGTTAGGTGA
1 AATAGTTAGGTGA
84390453 CTACTAATGT
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
63 3 0.05
64 30 0.45
65 33 0.50
ACGTcount: A:0.42, C:0.04, G:0.17, T:0.37
Consensus pattern (65 bp):
AATAGTTAGGTGATCATTTTATAACTTTTAATAGTAAGATGATAAAAAAAAAAAAGAAATTTATT
Found at i:84397782 original size:19 final size:19
Alignment explanation
Indices: 84397758--84397811 Score: 108
Period size: 19 Copynumber: 2.8 Consensus size: 19
84397748 TCTGACACAA
84397758 TTTCAGTTAAAAAAAATAT
1 TTTCAGTTAAAAAAAATAT
84397777 TTTCAGTTAAAAAAAATAT
1 TTTCAGTTAAAAAAAATAT
84397796 TTTCAGTTAAAAAAAA
1 TTTCAGTTAAAAAAAA
84397812 AGAGTAGGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.35
Consensus pattern (19 bp):
TTTCAGTTAAAAAAAATAT
Found at i:84397886 original size:27 final size:27
Alignment explanation
Indices: 84397848--84397905 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
84397838 TAAAATATGG
*
84397848 GTGGAGGGTACCTCACAGGCGGCACCA
1 GTGGAGGGTACCCCACAGGCGGCACCA
84397875 GTGGAGGGTACCCCACAGGCGGCACCA
1 GTGGAGGGTACCCCACAGGCGGCACCA
84397902 GTGG
1 GTGG
84397906 TGCCTTTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.21, C:0.29, G:0.40, T:0.10
Consensus pattern (27 bp):
GTGGAGGGTACCCCACAGGCGGCACCA
Found at i:84398020 original size:22 final size:22
Alignment explanation
Indices: 84397995--84398036 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
84397985 TTACAGAAGA
84397995 AGAAGATAGAAAG-AAAGAAAGG
1 AGAAGA-AGAAAGAAAAGAAAGG
84398017 AGAAGAAGAAAGAAAAGAAA
1 AGAAGAAGAAAGAAAAGAAA
84398037 AGGTAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.02
Consensus pattern (22 bp):
AGAAGAAGAAAGAAAAGAAAGG
Found at i:84399977 original size:30 final size:30
Alignment explanation
Indices: 84399943--84400003 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
84399933 AAGAAGAGTG
84399943 TGTATTTGCTATTAAGCGGTATAGCATGAA
1 TGTATTTGCTATTAAGCGGTATAGCATGAA
84399973 TGTATTTGCTATTAAGCGGTATAGCATGAA
1 TGTATTTGCTATTAAGCGGTATAGCATGAA
84400003 T
1 T
84400004 ATATCAGTGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.30, C:0.10, G:0.23, T:0.38
Consensus pattern (30 bp):
TGTATTTGCTATTAAGCGGTATAGCATGAA
Found at i:84404744 original size:12 final size:12
Alignment explanation
Indices: 84404729--84404763 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
84404719 TGATTTTCCG
84404729 TTTATTTTTTAT
1 TTTATTTTTTAT
**
84404741 TTTATTTTGGAT
1 TTTATTTTTTAT
84404753 TTTATTTTTTA
1 TTTATTTTTTA
84404764 AAATATACTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (12 bp):
TTTATTTTTTAT
Found at i:84404841 original size:143 final size:144
Alignment explanation
Indices: 84404448--84405600 Score: 1504
Period size: 143 Copynumber: 8.1 Consensus size: 144
84404438 TATTTTGGTA
*
84404448 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATATTATTTTCGTATTTTA-TTTTTATATTAT
1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
* *
84404512 TTTAGTACATAATGTTTCAAATGTATTATTTTTGTATTTTTT-TATTAATTTAATAAAAAACTTT
66 TTTAGTACATAATGTTTCAAATGTATTATTTTAGT-TTTTTTATATTAATTTAAT-AAAAACTCT
84404576 GATTTTGACCGTTTGTTT
129 GATTTTG-CCGTTT-TTT
* * * *
84404594 TTTATTTTATTCTCGGATTTTACTTTTTAAAATAAACTATTTTCATATTTTATTTTTTATATTAT
1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
84404659 TTTAGTACATAATG-TTCAAATGTATTATTTTAG-TTTTTTATATTAATTTAATAAAAACTCTGA
66 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAATAAAAACTCTGA
84404722 TTTT-CCGTTTATTT
131 TTTTGCCGTTT-TTT
84404736 TTTATTTTATTTT-GGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATGTTTTTTATATT
1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTA--TTTTTTATATT
* * * * *
84404800 ATTTTAGTACATAATATTT-AAA-ATATTATTTTAGTTTTTTTATATGAATATAGAAAAAAAACT
64 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAAT-T-TAATAAAAACT
* *
84404863 CTGATTTGGCC--CTTTT
127 CTGATTTTGCCGTTTTTT
*
84404879 ATT-TTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
* * * *
84404943 TATAGTACATAATGTTTC--ATTTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAATCTGTG
66 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAATAAAAA-CTCTG
*
84405006 ATTTTGGCCG-TTTTA
130 ATTTT-GCCGTTTTTT
*
84405021 TTTATTTTGTTTTCGGATTTTATTTTTTAAAATATACTATTTT-GTATTTTATTTTTTATATTAT
1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
*
84405085 TTTAGTATATAATGTTTCAAATGTATTATTTTA-TTTTTTTATATTAATTTAGA-AAAAACTCTG
66 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTA-ATAAAAACTCTG
84405148 ATTTTGGCC--TTTTT
130 ATTTT-GCCGTTTTTT
* * * *
84405162 TAT-TTTTATTTTCAGG-TTTTATTTTTTAAGATATATTATTTTCGTATTTTTTTTTTTATATTA
1 TTTATTTTATTTTC-GGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTA
* * *
84405225 TTTTAGTACATAATGTTT--TATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAATCTGT
65 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAATAAAAA-CTCT
*
84405288 GGTTTTGGCC---TTTT
129 GATTTT-GCCGTTTTTT
* *
84405302 TTTATTTTGTTTTTGGATTTT-TGTATTTTAAAATATACTATTTTCGTATTTTATTTTTTTATAT
1 TTTATTTTATTTTCGGATTTTAT-T-TTTTAAAATATACTATTTTCGTATTTTA-TTTTTTATAT
* *
84405366 TATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAATT
63 TATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAAT-AAAAACT
84405431 CTGATTTTGGCCGTTTGTTT
127 CTGATTTT-GCCGTTT-TTT
* *
84405451 TTTATTTTATTTTCGGATTTTATTTTTCAAAATATATTATTTTCGTATTTTA-TTTTT-TATTAT
1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
* * * * *
84405514 TTTAGTACATAATGTTTCATATGTATTAATTTAGTATATTTATATTAATTTAGTAAAAAACTCTG
66 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAAT-AAAAACTCTG
84405579 ATTTTGACC--TTTTT
130 ATTTTG-CCGTTTTTT
84405593 TTTATTTT
1 TTTATTTT
84405601 CTAATTTCTT
Statistics
Matches: 901, Mismatches: 68, Indels: 80
0.86 0.06 0.08
Matches are distributed among these distances:
139 19 0.02
140 75 0.08
141 160 0.18
142 132 0.15
143 178 0.20
144 37 0.04
145 146 0.16
146 77 0.09
147 26 0.03
148 27 0.03
149 23 0.03
150 1 0.00
ACGTcount: A:0.27, C:0.05, G:0.08, T:0.59
Consensus pattern (144 bp):
TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAATAAAAACTCTGA
TTTTGCCGTTTTTT
Found at i:84405211 original size:283 final size:289
Alignment explanation
Indices: 84404446--84405600 Score: 1592
Period size: 283 Copynumber: 4.0 Consensus size: 289
84404436 TATATTTTGG
*
84404446 TATTTATTTTATTTTCGGATTTTATTTTTTAAAATATATTATTTTCGTATTTTA--TTTTTATAT
1 TATTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTTATAT
*
84404509 TATTTTAGTACATAATGTTTCAAATGTATTATTTTTGTATTTTTT-TATTAATTTA-ATAAAAAA
66 TATTTTAGTACATAATGTTTCAAATGTATTATTTTAGT-TTTTTTATATTAATTTAGA-AAAAAA
* * * * * *
84404572 CTTTGATTTTGACCGTTTGTTTTTTATTTTATTCTCGGATTTTACTTTTTAAAATAAACTATTTT
129 CTCTGATTTTGGCCG-TTGTTTTATATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTT
*
84404637 CATATTTTATTTTTTATATTATTTTAGTACATAATG-TTCAAATGTATTATTTTAG-TTTTTTAT
193 CGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTC--ATGTATTATTTTAGTTTTTTTAT
*
84404700 ATTAATTTAATAAAAA-CTCTGATTTT--CCGTTTAT
256 ATTAATTTAGTAAAAATCTCTGATTTTGGCC--TT-T
*
84404734 TTTTTATTTTATTTT-GGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATGTTTTTTATA
1 TATTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTAT-TTTTTTATA
* * * *
84404798 TTATTTTAGTACATAATATTT-AAA-ATATTATTTTAGTTTTTTTATATGAATATAGAAAAAAAA
65 TTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAG-AAAAAAA
* *
84404861 CTCTGA-TTTGGCC---CTTTTATTTTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTC
129 CTCTGATTTTGGCCGTTGTTTTATATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTC
* *
84404922 GTATTTTATTTTTTATATTATTATAGTACATAATGTTTCATTTATTATTTTAGTTTTTTTATATT
194 GTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCATGTATTATTTTAGTTTTTTTATATT
*
84404987 AATTTAGTAAAAATCTGTGATTTTGGCCGTTT
259 AATTTAGTAAAAATCTCTGATTTTGGCC-TTT
*
84405019 TATTTATTTTGTTTTCGGATTTTATTTTTTAAAATATACTATTTT-GTATTTTA-TTTTTTATAT
1 TATTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTTATAT
*
84405082 TATTTTAGTATATAATGTTTCAAATGTATTATTTTA-TTTTTTTATATTAATTTAG-AAAAAACT
66 TATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGAAAAAAACT
* *
84405145 CTGATTTTGGCC-TT-TTTTAT-TTTTATTTTCAGG-TTTTATTTTTTAAGATATATTATTTTCG
131 CTGATTTTGGCCGTTGTTTTATATTTTATTTTC-GGATTTTATTTTTTAAAATATACTATTTTCG
* *
84405206 TATTTTTTTTTTTATATTATTTTAGTACATAATGTTTTATGTATTATTTTAGTTTTTTTATATTA
195 TATTTTATTTTTTATATTATTTTAGTACATAATGTTTCATGTATTATTTTAGTTTTTTTATATTA
* *
84405271 ATTTAGTAAAAATCTGTGGTTTTGGCCTTT
260 ATTTAGTAAAAATCTCTGATTTTGGCCTTT
* *
84405301 T-TTTATTTTGTTTTTGGATTTT-TGTATTTTAAAATATACTATTTTCGTATTTTATTTTTTTAT
1 TATTTATTTTATTTTCGGATTTTAT-T-TTTTAAAATATACTATTTTCGTATTTTATTTTTTTAT
*
84405364 ATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAA
64 ATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGAAAAAAA
* * * *
84405429 TTCTGATTTTGGCCGTTTGTTTTTTATTTTATTTTCGGATTTTATTTTTCAAAATATATTATTTT
129 CTCTGATTTTGGCCG-TTGTTTTATATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTT
* * *
84405494 CGTATTTTA-TTTTT-TATTATTTTAGTACATAATGTTTCATATGTATTAATTTAGTATATTTAT
193 CGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTC--ATGTATTATTTTAGTTTTTTTAT
* *
84405557 ATTAATTTAGTAAAAAACTCTGATTTTGACCTTT
256 ATTAATTTAGTAAAAATCTCTGATTTTGGCCTTT
*
84405591 TTTTTATTTT
1 TATTTATTTT
84405601 CTAATTTCTT
Statistics
Matches: 785, Mismatches: 50, Indels: 61
0.88 0.06 0.07
Matches are distributed among these distances:
280 1 0.00
281 21 0.03
282 35 0.04
283 179 0.23
284 171 0.22
285 63 0.08
286 50 0.06
287 45 0.06
288 64 0.08
289 26 0.03
290 122 0.16
291 8 0.01
ACGTcount: A:0.27, C:0.05, G:0.08, T:0.59
Consensus pattern (289 bp):
TATTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTTATAT
TATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGAAAAAAACT
CTGATTTTGGCCGTTGTTTTATATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGT
ATTTTATTTTTTATATTATTTTAGTACATAATGTTTCATGTATTATTTTAGTTTTTTTATATTAA
TTTAGTAAAAATCTCTGATTTTGGCCTTT
Found at i:84406139 original size:3 final size:3
Alignment explanation
Indices: 84406131--84406193 Score: 60
Period size: 3 Copynumber: 21.3 Consensus size: 3
84406121 CCGCCTACTC
*
84406131 CTT CTT CTT CTT CTT CTT CTT CTT C-T CTT C-T CTT -TCT CTT CTC
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT-T CTT CTT
**
84406174 CTT CCC CTTT CTT CTT CTT C
1 CTT CTT C-TT CTT CTT CTT C
84406194 ACTCACGCAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
2 5 0.10
3 42 0.86
4 2 0.04
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (3 bp):
CTT
Found at i:84406192 original size:22 final size:21
Alignment explanation
Indices: 84406138--84406193 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
84406128 CTCCTTCTTC
* *
84406138 TTCTTCTTCTTCTTCTTCTCT
1 TTCTTCTTCTTCTCCTTCCCT
84406159 TCTCTT-TCTCTTCTCCTTCCCCT
1 T-TCTTCT-TCTTCTCCTT-CCCT
84406182 TTCTTCTTCTTC
1 TTCTTCTTCTTC
84406194 ACTCACGCAC
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
21 2 0.07
22 22 0.76
23 5 0.17
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (21 bp):
TTCTTCTTCTTCTCCTTCCCT
Found at i:84406349 original size:27 final size:27
Alignment explanation
Indices: 84406311--84406363 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
84406301 AGGAGTCAGC
84406311 GGTGCCGCCTGTGGGGTACCCTCCACT
1 GGTGCCGCCTGTGGGGTACCCTCCACT
84406338 GGTGCCGCCTGTGGGGTACCCTCCAC
1 GGTGCCGCCTGTGGGGTACCCTCCAC
84406364 CTATATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.08, C:0.38, G:0.34, T:0.21
Consensus pattern (27 bp):
GGTGCCGCCTGTGGGGTACCCTCCACT
Found at i:84406678 original size:38 final size:38
Alignment explanation
Indices: 84406633--84406706 Score: 112
Period size: 38 Copynumber: 1.9 Consensus size: 38
84406623 TAAAATATCA
*
84406633 AAAAATATAAAAACTATTTTAAATAATTATAATTTATT
1 AAAAATATAAAAAATATTTTAAATAATTATAATTTATT
* * *
84406671 AAAAATATAAAAAATATTTTTAATATTTTTAATTTA
1 AAAAATATAAAAAATATTTTAAATAATTATAATTTA
84406707 AAAAAATTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (38 bp):
AAAAATATAAAAAATATTTTAAATAATTATAATTTATT
Found at i:84407637 original size:44 final size:44
Alignment explanation
Indices: 84407568--84407651 Score: 114
Period size: 44 Copynumber: 1.9 Consensus size: 44
84407558 TATCTCTCAG
* * * * * *
84407568 CAATGTAATATCTTTATATCTGATTCGATCCTCTGAACTCAATA
1 CAATGCAACATCTTTATACCCGATTCAATCCTCTAAACTCAATA
84407612 CAATGCAACATCTTTATACCCGATTCAATCCTCTAAACTC
1 CAATGCAACATCTTTATACCCGATTCAATCCTCTAAACTC
84407652 GATATAAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 34 1.00
ACGTcount: A:0.32, C:0.26, G:0.07, T:0.35
Consensus pattern (44 bp):
CAATGCAACATCTTTATACCCGATTCAATCCTCTAAACTCAATA
Found at i:84409863 original size:25 final size:25
Alignment explanation
Indices: 84409822--84409890 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 25
84409812 TATACAGCTT
**
84409822 GTGAGAGCTTATTGATTCTA-AACTC
1 GTGAGAGCTTACCGATTC-ACAACTC
*
84409847 GT-ATGAGCTTACCGATTCACAGCTC
1 GTGA-GAGCTTACCGATTCACAACTC
*
84409872 GTGAGAGCATACCGATTCA
1 GTGAGAGCTTACCGATTCA
84409891 TAGCTTGTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
24 2 0.05
25 34 0.92
26 1 0.03
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (25 bp):
GTGAGAGCTTACCGATTCACAACTC
Found at i:84409889 original size:50 final size:50
Alignment explanation
Indices: 84409794--84409889 Score: 131
Period size: 50 Copynumber: 1.9 Consensus size: 50
84409784 CAGACCACAG
* * * **
84409794 CTCGTATGAGCTTCCCGATATACAGCTTGTGAGAGCTTATTGATTCTAAA
1 CTCGTATGAGCTTACCGATATACAGCTCGTGAGAGCATACCGATTCTAAA
84409844 CTCGTATGAGCTTACCGAT-TCACAGCTCGTGAGAGCATACCGATTC
1 CTCGTATGAGCTTACCGATAT-ACAGCTCGTGAGAGCATACCGATTC
84409890 ATAGCTTGTA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
49 1 0.03
50 39 0.98
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (50 bp):
CTCGTATGAGCTTACCGATATACAGCTCGTGAGAGCATACCGATTCTAAA
Found at i:84409901 original size:50 final size:50
Alignment explanation
Indices: 84409792--84409902 Score: 127
Period size: 50 Copynumber: 2.2 Consensus size: 50
84409782 GACAGACCAC
* * * **
84409792 AGCTCGTATGAGCTTCCCGATATACAGCTTGTGAGAGCTTATTGATTCTA
1 AGCTCGTATGAGCTTACCGATATACAGCTCGTGAGAGCATACCGATTCTA
*
84409842 AACTCGTATGAGCTTACCGAT-TCACAGCTCGTGAGAGCATACCGATTC-A
1 AGCTCGTATGAGCTTACCGATAT-ACAGCTCGTGAGAGCATACCGATTCTA
*
84409891 TAGCTTGTATGA
1 -AGCTCGTATGA
84409903 ACATATATGT
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
49 2 0.04
50 49 0.96
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.31
Consensus pattern (50 bp):
AGCTCGTATGAGCTTACCGATATACAGCTCGTGAGAGCATACCGATTCTA
Found at i:84409907 original size:25 final size:25
Alignment explanation
Indices: 84409844--84409907 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
84409834 TGATTCTAAA
*
84409844 CTCGTATGAGCTTACCGATTCACAG
1 CTCGTATGAGCATACCGATTCACAG
*
84409869 CTCGTGA-GAGCATACCGATTCATAG
1 CTCGT-ATGAGCATACCGATTCACAG
* *
84409894 CTTGTATGAACATA
1 CTCGTATGAGCATA
84409908 TATGTATATG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 1 0.03
25 31 0.94
26 1 0.03
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (25 bp):
CTCGTATGAGCATACCGATTCACAG
Found at i:84417851 original size:28 final size:28
Alignment explanation
Indices: 84417746--84417839 Score: 174
Period size: 28 Copynumber: 3.4 Consensus size: 28
84417736 AATTCATAAT
84417746 TTAA-TTA-TAAAATAATTAATTTGCAC
1 TTAAGTTATTAAAATAATTAATTTGCAC
84417772 TTAAGTTATTAAAATAATTAATTTGCAC
1 TTAAGTTATTAAAATAATTAATTTGCAC
84417800 TTAAGTTATTAAAATAATTAATTTGCAC
1 TTAAGTTATTAAAATAATTAATTTGCAC
84417828 TTAAGTTATTAA
1 TTAAGTTATTAA
84417840 CATATTGAAT
Statistics
Matches: 66, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
26 4 0.06
27 3 0.05
28 59 0.89
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (28 bp):
TTAAGTTATTAAAATAATTAATTTGCAC
Found at i:84418450 original size:14 final size:16
Alignment explanation
Indices: 84418419--84418452 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
84418409 TTTCACCTAT
84418419 TCATTCAACACATCTC
1 TCATTCAACACATCTC
* *
84418435 TCATTCCACACTTCTC
1 TCATTCAACACATCTC
84418451 TC
1 TC
84418453 TTTCTTGTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.41, G:0.00, T:0.35
Consensus pattern (16 bp):
TCATTCAACACATCTC
Found at i:84419317 original size:14 final size:13
Alignment explanation
Indices: 84419285--84419315 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
84419275 TTTTTACCTT
*
84419285 TTAATTTTCTTAG
1 TTAAATTTCTTAG
84419298 TTAAATTTCTTAG
1 TTAAATTTCTTAG
84419311 TTAAA
1 TTAAA
84419316 ATCTAGTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.55
Consensus pattern (13 bp):
TTAAATTTCTTAG
Found at i:84420380 original size:6 final size:6
Alignment explanation
Indices: 84420369--84420434 Score: 51
Period size: 6 Copynumber: 10.5 Consensus size: 6
84420359 TTCTGTTTTA
* * * * *
84420369 TTTATT TTTATT TTTATT TTAAGT TGTACT TTTATT TTTATT GTTGATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT -TTTATT
*
84420418 GTTTTTAT TTTATT TTT
1 -TTTAT-T TTTATT TTT
84420435 GAGACTTATA
Statistics
Matches: 47, Mismatches: 11, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
6 33 0.70
7 13 0.28
8 1 0.02
ACGTcount: A:0.17, C:0.02, G:0.08, T:0.74
Consensus pattern (6 bp):
TTTATT
Found at i:84420402 original size:24 final size:21
Alignment explanation
Indices: 84420364--84420433 Score: 70
Period size: 24 Copynumber: 3.2 Consensus size: 21
84420354 TAGTTTTCTG
* *
84420364 TTTTATTTATTTTTATTTTTA
1 TTTTAATTGTTTTTATTTTTA
84420385 TTTTAAGTTGTACTTTTATTTTTA
1 TTTTAA-TTGT--TTTTATTTTTA
*
84420409 TTGTTGATTGTTTTTA-TTTTA
1 TT-TTAATTGTTTTTATTTTTA
84420430 TTTT
1 TTTT
84420434 TGAGACTTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
20 2 0.05
21 12 0.29
22 8 0.19
24 17 0.40
25 3 0.07
ACGTcount: A:0.17, C:0.01, G:0.07, T:0.74
Consensus pattern (21 bp):
TTTTAATTGTTTTTATTTTTA
Found at i:84422120 original size:27 final size:28
Alignment explanation
Indices: 84422090--84422146 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 28
84422080 AAATGAATGG
84422090 AATAATTAGTTCTAGTTATTA-AATATA
1 AATAATTAGTTCTAGTTATTATAATATA
*
84422117 AATAATTAGTTCTAGTTATTATACTATA
1 AATAATTAGTTCTAGTTATTATAATATA
84422145 AA
1 AA
84422147 AAAATAATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
27 21 0.75
28 7 0.25
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (28 bp):
AATAATTAGTTCTAGTTATTATAATATA
Found at i:84422665 original size:18 final size:18
Alignment explanation
Indices: 84422644--84422678 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
84422634 AAAGAAAGCA
*
84422644 AATAAATAAATGAAAGAG
1 AATAAACAAATGAAAGAG
*
84422662 AATAAACAATTGAAAGA
1 AATAAACAAATGAAAGA
84422679 AGTGGGATAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.66, C:0.03, G:0.14, T:0.17
Consensus pattern (18 bp):
AATAAACAAATGAAAGAG
Found at i:84423604 original size:10 final size:10
Alignment explanation
Indices: 84423574--84423615 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
84423564 ATCACAAGTC
84423574 TTGTGATATA
1 TTGTGATATA
*
84423584 GTGTGATATA
1 TTGTGATATA
84423594 TTGTGATATA
1 TTGTGATATA
*
84423604 TATATGATATA
1 T-TGTGATATA
84423615 T
1 T
84423616 GTAGGGGATC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
10 19 0.68
11 9 0.32
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (10 bp):
TTGTGATATA
Found at i:84427913 original size:15 final size:17
Alignment explanation
Indices: 84427879--84427911 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
84427869 ATAATTAATA
84427879 TATTATATTATAAAATT
1 TATTATATTATAAAATT
84427896 TATTAT-TTATAAAATT
1 TATTATATTATAAAATT
84427912 ATACATATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TATTATATTATAAAATT
Found at i:84429122 original size:9 final size:11
Alignment explanation
Indices: 84429095--84429124 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
84429085 AATCAGGAAA
84429095 ATTATAAATAT
1 ATTATAAATAT
84429106 ATTATAAATAT
1 ATTATAAATAT
84429117 ATTA-AAAT
1 ATTATAAAT
84429125 TGGTATAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.21
11 15 0.79
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
ATTATAAATAT
Found at i:84429131 original size:20 final size:20
Alignment explanation
Indices: 84429108--84429145 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
84429098 ATAAATATAT
* *
84429108 TATAAATATATTAAAATTGG
1 TATAAACATATAAAAATTGG
84429128 TATAAACATATAAAAATT
1 TATAAACATATAAAAATT
84429146 ATAAAATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (20 bp):
TATAAACATATAAAAATTGG
Found at i:84429150 original size:9 final size:9
Alignment explanation
Indices: 84429092--84429196 Score: 63
Period size: 9 Copynumber: 11.0 Consensus size: 9
84429082 AAAAATCAGG
84429092 AAAATTATA
1 AAAATTATA
84429101 AATATATTATA
1 AA-A-ATTATA
*
84429112 AATA-TATTA
1 AAAATTA-TA
*
84429121 AAATTGGTATA
1 AAAAT--TATA
*
84429132 AACA-TATA
1 AAAATTATA
84429140 AAAATTAT-
1 AAAATTATA
84429148 AAAATATATAA
1 AAAAT-TAT-A
*
84429159 AAAATAATA
1 AAAATTATA
84429168 AAAACTTATA
1 AAAA-TTATA
*
84429178 AATATTATA
1 AAAATTATA
84429187 AAAATATATA
1 AAAAT-TATA
84429197 TTTTTATAAA
Statistics
Matches: 74, Mismatches: 10, Indels: 23
0.69 0.09 0.21
Matches are distributed among these distances:
8 14 0.19
9 27 0.36
10 14 0.19
11 17 0.23
12 2 0.03
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (9 bp):
AAAATTATA
Found at i:84429857 original size:9 final size:9
Alignment explanation
Indices: 84429843--84429935 Score: 57
Period size: 10 Copynumber: 10.1 Consensus size: 9
84429833 TATCATTTTT
84429843 AATTTTTAA
1 AATTTTTAA
84429852 AATTTTTAA
1 AATTTTTAA
*
84429861 TATGTTTT--
1 AAT-TTTTAA
*
84429869 TATTTTTAA
1 AATTTTTAA
*
84429878 AATTTATTAT
1 AATTT-TTAA
84429888 AATTTTT-A
1 AATTTTTAA
* *
84429896 CATTATTTAT
1 AATT-TTTAA
*
84429906 AATTTTTATG
1 AATTTTTA-A
84429916 AATTTTTATA
1 AATTTTTA-A
*
84429926 AAATTTTAA
1 AATTTTTAA
84429935 A
1 A
84429936 TATATTTTAT
Statistics
Matches: 67, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
7 4 0.06
8 6 0.09
9 26 0.39
10 31 0.46
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.59
Consensus pattern (9 bp):
AATTTTTAA
Found at i:84429858 original size:17 final size:18
Alignment explanation
Indices: 84429843--84429952 Score: 82
Period size: 18 Copynumber: 5.8 Consensus size: 18
84429833 TATCATTTTT
*
84429843 AATTTTTAAAATTTTTAA
1 AATTTTTATAATTTTTAA
*
84429861 TATGTTTT-T-ATTTTTAA
1 AAT-TTTTATAATTTTTAA
84429878 AATTTATTATAATTTTT-A
1 AATTT-TTATAATTTTTAA
* *
84429896 CATTATTTATAATTTTTATG
1 AATT-TTTATAATTTTTA-A
*
84429916 AATTTTTATAAAATTTTAA
1 AATTTTTAT-AATTTTTAA
84429935 ATATATTTTATTAATTTT
1 A-AT-TTTTA-TAATTTT
84429953 ATATATGTTT
Statistics
Matches: 72, Mismatches: 9, Indels: 19
0.72 0.09 0.19
Matches are distributed among these distances:
16 2 0.03
17 12 0.17
18 18 0.25
19 17 0.24
20 12 0.17
21 10 0.14
22 1 0.01
ACGTcount: A:0.36, C:0.01, G:0.02, T:0.61
Consensus pattern (18 bp):
AATTTTTATAATTTTTAA
Found at i:84429859 original size:27 final size:26
Alignment explanation
Indices: 84429828--84429923 Score: 99
Period size: 26 Copynumber: 3.6 Consensus size: 26
84429818 TAAATGATTC
84429828 TTTTATATCATTTTTAATTTTTAAAAT
1 TTTTATAT-ATTTTTAATTTTTAAAAT
*
84429855 TTTTA-ATATGTTTTTATTTTTAAAAT
1 TTTTATATAT-TTTTAATTTTTAAAAT
*
84429881 TTATTATA-ATTTTTACATTATTTATAAT
1 TT-TTATATATTTTTA-ATT-TTTAAAAT
84429909 TTTTATGA-ATTTTTA
1 TTTTAT-ATATTTTTA
84429924 TAAAATTTTA
Statistics
Matches: 60, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
25 2 0.03
26 23 0.38
27 17 0.28
28 18 0.30
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (26 bp):
TTTTATATATTTTTAATTTTTAAAAT
Found at i:84429930 original size:11 final size:10
Alignment explanation
Indices: 84429843--84429957 Score: 54
Period size: 10 Copynumber: 12.0 Consensus size: 10
84429833 TATCATTTTT
84429843 AATTTTTA-A
1 AATTTTTATA
84429852 AATTTTTA-A
1 AATTTTTATA
*
84429861 TATGTTTT-T-
1 AAT-TTTTATA
84429870 -ATTTTTA-A
1 AATTTTTATA
84429878 AATTTATTAT-
1 AATTT-TTATA
84429888 AA-TTTT-TA
1 AATTTTTATA
*
84429896 CATTATTTAT-
1 AATT-TTTATA
*
84429906 AATTTTTATG
1 AATTTTTATA
84429916 AATTTTTATA
1 AATTTTTATA
*
84429926 AAATTTTA-A
1 AATTTTTATA
*
84429935 ATATATTTTATT
1 A-AT-TTTTATA
84429947 AATTTTATATA
1 AATTTT-TATA
84429958 TGTTTCTTTT
Statistics
Matches: 82, Mismatches: 8, Indels: 30
0.68 0.07 0.25
Matches are distributed among these distances:
7 5 0.06
8 5 0.06
9 25 0.30
10 35 0.43
11 11 0.13
12 1 0.01
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.60
Consensus pattern (10 bp):
AATTTTTATA
Found at i:84430212 original size:10 final size:9
Alignment explanation
Indices: 84430197--84430299 Score: 65
Period size: 9 Copynumber: 11.6 Consensus size: 9
84430187 TCAATATTAA
84430197 TTTTATAATT
1 TTTTATAA-T
*
84430207 TTTTATAGT
1 TTTTATAAT
*
84430216 TTATTA-GAT
1 TT-TTATAAT
84430225 TTTTAT-AT
1 TTTTATAAT
84430233 TTTTATAAT
1 TTTTATAAT
*
84430242 ATTTATAAT
1 TTTTATAAT
84430251 GTTTTATAAGT
1 -TTTTATAA-T
* *
84430262 TTATATAAA
1 TTTTATAAT
84430271 TTTTA-ATAT
1 TTTTATA-AT
*
84430280 TTTGA-AAT
1 TTTTATAAT
84430288 TTTT-T-AT
1 TTTTATAAT
84430295 TTTTA
1 TTTTA
84430300 AAATATTCAT
Statistics
Matches: 74, Mismatches: 11, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
7 6 0.08
8 17 0.23
9 26 0.35
10 24 0.32
11 1 0.01
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (9 bp):
TTTTATAAT
Found at i:84430245 original size:19 final size:19
Alignment explanation
Indices: 84430197--84430259 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
84430187 TCAATATTAA
84430197 TTTTATAAT-TTTTTATA-
1 TTTTATAATATTTTTATAT
* * *
84430214 GTTTATTAGATTTTTATAT
1 TTTTATAATATTTTTATAT
*
84430233 TTTTATAATATTTATA-AT
1 TTTTATAATATTTTTATAT
84430251 GTTTTATAA
1 -TTTTATAA
84430260 GTTTATATAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
17 6 0.17
18 10 0.28
19 20 0.56
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (19 bp):
TTTTATAATATTTTTATAT
Found at i:84431621 original size:3 final size:3
Alignment explanation
Indices: 84431613--84431654 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
84431603 CAGTGTCCCA
84431613 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
84431655 GTTGTGACTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:84437494 original size:17 final size:19
Alignment explanation
Indices: 84437458--84437501 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
84437448 ATATAATTTT
*
84437458 TAAAAATATATATAATACA
1 TAAAAATATATATAAGACA
84437477 TAAAAATAT-TA-AAGACA
1 TAAAAATATATATAAGACA
*
84437494 TTAAAATA
1 TAAAAATA
84437502 AATGTTTCCC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 12 0.52
18 2 0.09
19 9 0.39
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.30
Consensus pattern (19 bp):
TAAAAATATATATAAGACA
Found at i:84438837 original size:17 final size:18
Alignment explanation
Indices: 84438817--84438858 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
84438807 TTAAAATTAA
84438817 AATTTATTAAATA-AT-AT
1 AATTT-TTAAATATATGAT
84438834 AATTTTTAAATATATGAT
1 AATTTTTAAATATATGAT
84438852 AATTTTT
1 AATTTTT
84438859 TATTTATATG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.30
17 7 0.30
18 9 0.39
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (18 bp):
AATTTTTAAATATATGAT
Found at i:84438855 original size:18 final size:16
Alignment explanation
Indices: 84438781--84438858 Score: 59
Period size: 17 Copynumber: 4.6 Consensus size: 16
84438771 ATTTTTTTTC
*
84438781 ATAATTTTTAATTAAT
1 ATAATTTTTAAATAAT
* *
84438797 AACAAGTTATTTAAA-ATT
1 -ATAA-TT-TTTAAATAAT
*
84438815 AAAATTTATTAAATAAT
1 ATAATTT-TTAAATAAT
84438832 ATAATTTTTAAATATAT
1 ATAATTTTTAAATA-AT
84438849 GATAATTTTT
1 -ATAATTTTT
84438859 TATTTATATG
Statistics
Matches: 49, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
15 1 0.02
16 14 0.29
17 16 0.33
18 13 0.27
19 5 0.10
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (16 bp):
ATAATTTTTAAATAAT
Found at i:84440058 original size:2 final size:2
Alignment explanation
Indices: 84440051--84440080 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
84440041 AAAATCAATA
84440051 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
84440081 GCATATAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:84442029 original size:177 final size:177
Alignment explanation
Indices: 84441730--84442104 Score: 588
Period size: 177 Copynumber: 2.1 Consensus size: 177
84441720 CTACTGCTTA
* * * *
84441730 GGAGATAAGATCTGCAATTTTTAGCCTGTTACCCTACAGCTTAGGGGGTTAAGGCTCGTATCTTC
1 GGAGATAAGATCTGTAATTTTTAACCTATTACCCTACAGCTTAAGGGGTTAAGGCTCGTATCTTC
* * * *
84441795 AACTTGCTCTCTTGCTACCTCAGAGAGATAAAGCCGGTGGCTAAAATCTGCTCCATAGTCGATAC
66 AACCTGCTCTCTTGCCACCTCAGAGAGATAAAGCCGGTGGCTAAAACCTGCTCCATAGCCGATAC
* * * * *
84441860 ATAGAGATAGGACTCGCCATTTTTGATCTGCTTCATAGCCGATATAT
131 ATAGAGATAAGACTCGCAATTTCTGATCTGCTCCATAGCCGATACAT
*
84441907 GGAGATAAGATCTGTAATTTTTAACCTATTACCCTACTGCTTAAGGGGTTAAGGCTCGTATCTTC
1 GGAGATAAGATCTGTAATTTTTAACCTATTACCCTACAGCTTAAGGGGTTAAGGCTCGTATCTTC
* * *
84441972 AACCTGCTCTCTTGCCATCTCAGAGAGATAAGGCCGGTGGCTAAAACCTGTTCCATAGCCGATAC
66 AACCTGCTCTCTTGCCACCTCAGAGAGATAAAGCCGGTGGCTAAAACCTGCTCCATAGCCGATAC
*
84442037 ATGGAGATAAGACTCGCAATTTCTGATCTGCTCCATAGCCGATACAT
131 ATAGAGATAAGACTCGCAATTTCTGATCTGCTCCATAGCCGATACAT
84442084 GGAGATAAGATCTGTAATTTT
1 GGAGATAAGATCTGTAATTTT
84442105 CAGTCAGCTT
Statistics
Matches: 180, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
177 180 1.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (177 bp):
GGAGATAAGATCTGTAATTTTTAACCTATTACCCTACAGCTTAAGGGGTTAAGGCTCGTATCTTC
AACCTGCTCTCTTGCCACCTCAGAGAGATAAAGCCGGTGGCTAAAACCTGCTCCATAGCCGATAC
ATAGAGATAAGACTCGCAATTTCTGATCTGCTCCATAGCCGATACAT
Found at i:84442075 original size:45 final size:45
Alignment explanation
Indices: 84442023--84442358 Score: 157
Period size: 44 Copynumber: 7.6 Consensus size: 45
84442013 TAAAACCTGT
84442023 TCCATAGCCGATACATGGAGATAAGACTCGCAATTTCTGATCTGC
1 TCCATAGCCGATACATGGAGATAAGACTCGCAATTTCTGATCTGC
* * *
84442068 TCCATAGCCGATACATGGAGATAAGA-TCTGTAATTT-TCAGTCAGC
1 TCCATAGCCGATACATGGAGATAAGACTC-GCAATTTCTGA-TCTGC
* * * * * * ** * *
84442113 TTCC-T-G-CAACTTCAAGAAGATAATACTTG---TGGCTAAAATCTAC
1 -TCCATAGCCGA-TACATGGAGATAAGACTCGCAATTTCT--GATCTGC
* *
84442156 TCCATAGCCGATACATGGAGATAAGACTCGCCATTTTTGATCTGC
1 TCCATAGCCGATACATGGAGATAAGACTCGCAATTTCTGATCTGC
* * *
84442201 TCCATAGCCGATGCATGGAGATAAGA-TCTGTAATTTACAG-TCTGC
1 TCCATAGCCGATACATGGAGATAAGACTC-GCAATTT-CTGATCTGC
** * * * * ** *
84442246 TTCC-T-G-TAACTTCAAGAAGATAAGACTTG---TGGCTAAAATCTGC
1 -TCCATAGCCGA-TACATGGAGATAAGACTCGCAATTTCT--GATCTGC
* * *
84442289 TCCATAGCCGATACATGGAGATAAGACTCGCCATTT-TTATTTGC
1 TCCATAGCCGATACATGGAGATAAGACTCGCAATTTCTGATCTGC
* *
84442333 TCCATAGCTGATACATAGAGATAAGA
1 TCCATAGCCGATACATGGAGATAAGA
84442359 TCTGTAATTT
Statistics
Matches: 211, Mismatches: 52, Indels: 57
0.66 0.16 0.18
Matches are distributed among these distances:
40 1 0.00
41 2 0.01
42 7 0.03
43 13 0.06
44 94 0.45
45 83 0.39
46 8 0.04
47 3 0.01
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (45 bp):
TCCATAGCCGATACATGGAGATAAGACTCGCAATTTCTGATCTGC
Found at i:84442177 original size:133 final size:132
Alignment explanation
Indices: 84442008--84442403 Score: 630
Period size: 133 Copynumber: 3.0 Consensus size: 132
84441998 GATAAGGCCG
* * *
84442008 GTGGCTAAAACCTGTTCCATAGCCGATACATGGAGATAAGACTCGCAATTTCTGATCTGCTCCAT
1 GTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTT-TGATCTGCTCCAT
* *
84442073 AGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCAGCTTCCTGCAACTTCAAGAAGATAATA
65 AGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTGCAACTTCAAGAAGATAAGA
84442138 CTT
130 CTT
*
84442141 GTGGCTAAAATCTACTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTTGATCTGCTCCAT
1 GTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCA-TTTTGATCTGCTCCAT
* * *
84442206 AGCCGATGCATGGAGATAAGATCTGTAATTTACAGTCTGCTTCCTGTAACTTCAAGAAGATAAGA
65 AGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTGCAACTTCAAGAAGATAAGA
84442271 CTT
130 CTT
* *
84442274 GTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTTATTTGCTCCATA
1 GTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTGATCTGCTCCATA
* * * * *
84442339 GCTGATACATAGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTACAACTTTAGGAAGATAAGAC
66 GCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTGCAACTTCAAGAAGATAAGAC
84442404 CGGTATCTTC
Statistics
Matches: 242, Mismatches: 20, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
132 72 0.30
133 167 0.69
134 3 0.01
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.30
Consensus pattern (132 bp):
GTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTGATCTGCTCCATA
GCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTGCAACTTCAAGAAGATAAGAC
TT
Found at i:84453739 original size:26 final size:26
Alignment explanation
Indices: 84453686--84453740 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
84453676 ATATAATGAG
* * *
84453686 AATCCTTAAAAAAATTATAATAAATA
1 AATCCTTAAAAAAATAAAAAAAAATA
84453712 AATCCTT-AAAAAATAAAAAAAAAGTA
1 AATCCTTAAAAAAATAAAAAAAAA-TA
84453738 AAT
1 AAT
84453741 AACATTATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 13 0.52
26 12 0.48
ACGTcount: A:0.65, C:0.07, G:0.02, T:0.25
Consensus pattern (26 bp):
AATCCTTAAAAAAATAAAAAAAAATA
Found at i:84456040 original size:23 final size:22
Alignment explanation
Indices: 84456000--84456044 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
84455990 AACCAGAATG
*
84456000 AAGAAAAATAAAAAGAATTGAAA
1 AAGAAAAAGAAAAAGAA-TGAAA
**
84456023 AAGAAAAAGAAAGGGAATGAAA
1 AAGAAAAAGAAAAAGAATGAAA
84456045 GAATGATAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.71, C:0.00, G:0.20, T:0.09
Consensus pattern (22 bp):
AAGAAAAAGAAAAAGAATGAAA
Found at i:84456535 original size:38 final size:37
Alignment explanation
Indices: 84456493--84456592 Score: 119
Period size: 37 Copynumber: 2.6 Consensus size: 37
84456483 AAAACCATAA
* ** *
84456493 ATTCATTTCCAGATCATTTTTATTTTGAAGAAAACCAC
1 ATTCATTTCCAAAT-ATTTCCATTTTGAAAAAAACCAC
*
84456531 ATTCATTTCCAAATGTTTCCATTTTGAAAAAAACCAC
1 ATTCATTTCCAAATATTTCCATTTTGAAAAAAACCAC
* *
84456568 ATTCATTTCTAAATGTTTTCCATTT
1 ATTCATTTCCAAAT-ATTTCCATTT
84456593 CTCCTTTTTC
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
37 32 0.59
38 22 0.41
ACGTcount: A:0.33, C:0.19, G:0.06, T:0.42
Consensus pattern (37 bp):
ATTCATTTCCAAATATTTCCATTTTGAAAAAAACCAC
Found at i:84456564 original size:37 final size:38
Alignment explanation
Indices: 84456514--84456592 Score: 133
Period size: 37 Copynumber: 2.1 Consensus size: 38
84456504 GATCATTTTT
*
84456514 ATTTTGAAGAAAACCACATTCATTTCCAAATG-TTTCC
1 ATTTTGAAAAAAACCACATTCATTTCCAAATGTTTTCC
*
84456551 ATTTTGAAAAAAACCACATTCATTTCTAAATGTTTTCC
1 ATTTTGAAAAAAACCACATTCATTTCCAAATGTTTTCC
84456589 ATTT
1 ATTT
84456593 CTCCTTTTTC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
37 30 0.77
38 9 0.23
ACGTcount: A:0.35, C:0.19, G:0.06, T:0.39
Consensus pattern (38 bp):
ATTTTGAAAAAAACCACATTCATTTCCAAATGTTTTCC
Found at i:84457015 original size:12 final size:12
Alignment explanation
Indices: 84456998--84457022 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
84456988 CAAGTCATTC
84456998 ATTACAGAAACA
1 ATTACAGAAACA
84457010 ATTACAGAAACA
1 ATTACAGAAACA
84457022 A
1 A
84457023 ACGAGTCGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
ATTACAGAAACA
Found at i:84459306 original size:23 final size:22
Alignment explanation
Indices: 84459258--84459298 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
84459248 AAATCTGTTG
*
84459258 TTTTCTTTTATTTTTTTTTCTA
1 TTTTCTTGTATTTTTTTTTCTA
84459280 TTTTCTTGT-TTTTTTTTTC
1 TTTTCTTGTATTTTTTTTTC
84459299 ATTATTTTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.05, C:0.10, G:0.02, T:0.83
Consensus pattern (22 bp):
TTTTCTTGTATTTTTTTTTCTA
Found at i:84459550 original size:13 final size:14
Alignment explanation
Indices: 84459518--84459559 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
84459508 ATTGTATTTT
* *
84459518 TAAAAAAAATTATA
1 TAAAAAAAGTAATA
*
84459532 TAAAAATAGTAATA
1 TAAAAAAAGTAATA
84459546 T-AAAAAAGTAATA
1 TAAAAAAAGTAATA
84459559 T
1 T
84459560 GGTCGGGCCG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.29
Consensus pattern (14 bp):
TAAAAAAAGTAATA
Found at i:84460735 original size:6 final size:6
Alignment explanation
Indices: 84460724--84460753 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
84460714 TTCTTGAAAA
84460724 TACAAG TACAAG TACAAG TACAAG TACAAG
1 TACAAG TACAAG TACAAG TACAAG TACAAG
84460754 GACTAATTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.17, G:0.17, T:0.17
Consensus pattern (6 bp):
TACAAG
Found at i:84468333 original size:4 final size:4
Alignment explanation
Indices: 84468324--84468357 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
84468314 TAGAAAATCT
84468324 TATG TATG TATG TATG TATG TATG TATG TATG TA
1 TATG TATG TATG TATG TATG TATG TATG TATG TA
84468358 AAAGATAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:84472360 original size:15 final size:15
Alignment explanation
Indices: 84472340--84472369 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
84472330 AATGTTCATG
84472340 AATAATAAACAAACA
1 AATAATAAACAAACA
*
84472355 AATAATAAATAAACA
1 AATAATAAACAAACA
84472370 TATATAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.73, C:0.10, G:0.00, T:0.17
Consensus pattern (15 bp):
AATAATAAACAAACA
Found at i:84475500 original size:38 final size:38
Alignment explanation
Indices: 84475427--84475628 Score: 217
Period size: 46 Copynumber: 4.9 Consensus size: 38
84475417 TGATATGAAA
84475427 TGTGTAAGACCATGGTTG-AAGATACCATGGCAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
*
84475464 TGTGTAAGACCATGGTTGAAAGATACCATGGTAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
84475502 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAG
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----T--G
* *
84475547 ATGTGTAAGACCATGGTTGAAAGATACCATTGCAACATG
1 -TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
*
84475586 ACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 ---TG---TG--TAAGACCATGGTTGAAAGATACCATGGCAAC
84475629 ATGACAGAAA
Statistics
Matches: 143, Mismatches: 6, Indels: 23
0.83 0.03 0.13
Matches are distributed among these distances:
37 18 0.13
38 53 0.37
39 1 0.01
41 4 0.03
43 1 0.01
44 1 0.01
45 1 0.01
46 64 0.45
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (38 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
Found at i:84475672 original size:46 final size:47
Alignment explanation
Indices: 84475505--84475662 Score: 232
Period size: 46 Copynumber: 3.4 Consensus size: 47
84475495 TAACCTGTGT
* * * *
84475505 GTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AGATGT
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAATGA
*
84475551 GTAAGACCATGGTTGAAAGATACCATTGCAACATGACATGAAAA-GA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAATGA
*
84475597 ATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAATGA
*
84475643 GTAAGACCATAGTTGAAAGA
1 GTAAGACCATGGTTGAAAGA
84475663 CATTATGGCA
Statistics
Matches: 101, Mismatches: 9, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
45 5 0.05
46 94 0.93
47 2 0.02
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (47 bp):
GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAATGA
Found at i:84475977 original size:23 final size:25
Alignment explanation
Indices: 84475932--84475978 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
84475922 AATAAATATA
*
84475932 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
84475957 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
84475979 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:84478459 original size:2 final size:2
Alignment explanation
Indices: 84478452--84478491 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
84478442 TAATAGCTGA
* *
84478452 AT AT AT AT AT AC AT AT AT AT AT AT AT AC AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
84478492 GATGAGAGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (2 bp):
AT
Found at i:84478473 original size:16 final size:16
Alignment explanation
Indices: 84478452--84478491 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
84478442 TAATAGCTGA
84478452 ATATATATATACATAT
1 ATATATATATACATAT
84478468 ATATATATATACATAT
1 ATATATATATACATAT
84478484 ATA-ATATA
1 ATATATATA
84478492 GATGAGAGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 5 0.21
16 19 0.79
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATATATATACATAT
Found at i:84484806 original size:11 final size:12
Alignment explanation
Indices: 84484782--84484812 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
84484772 AAAATTTAAA
84484782 ATAAATAATAAT
1 ATAAATAATAAT
84484794 ATAAATAAT-AT
1 ATAAATAATAAT
84484805 ATAAATAA
1 ATAAATAA
84484813 ATAAATCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
ATAAATAATAAT
Found at i:84484808 original size:19 final size:19
Alignment explanation
Indices: 84484781--84484818 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
84484771 TAAAATTTAA
84484781 AATAAAT-AATAATATAAAT
1 AATAAATAAATAA-ATAAAT
*
84484800 AATATATAAATAAATAAAT
1 AATAAATAAATAAATAAAT
84484819 CAAATGGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
AATAAATAAATAAATAAAT
Found at i:84484995 original size:34 final size:34
Alignment explanation
Indices: 84484902--84484984 Score: 148
Period size: 34 Copynumber: 2.4 Consensus size: 34
84484892 TAAAAATATT
*
84484902 TATCTAATTTATTTTAAACAGAATATCATCCATA
1 TATCTAATTTATTTTAAACAAAATATCATCCATA
84484936 TATCTAATTTATTTTAAACAAAATATCATCCATA
1 TATCTAATTTATTTTAAACAAAATATCATCCATA
84484970 TAATCTAATTTATTT
1 T-ATCTAATTTATTT
84484985 AAGTTAAATA
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
34 34 0.72
35 13 0.28
ACGTcount: A:0.41, C:0.13, G:0.01, T:0.45
Consensus pattern (34 bp):
TATCTAATTTATTTTAAACAAAATATCATCCATA
Found at i:84488291 original size:20 final size:18
Alignment explanation
Indices: 84488262--84488301 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
84488252 ACATTAATTT
84488262 ATTTTAATATTAAATTAAAA
1 ATTTTAATA-T-AATTAAAA
*
84488282 ATTTTTATATAATTAAAA
1 ATTTTAATATAATTAAAA
84488300 AT
1 AT
84488302 GTCACTTGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 10 0.53
19 1 0.05
20 8 0.42
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTTTAATATAATTAAAA
Found at i:84488481 original size:2 final size:2
Alignment explanation
Indices: 84488440--84488465 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
84488430 ATTAAACCTA
84488440 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
84488466 TGAAAATACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:84488728 original size:18 final size:19
Alignment explanation
Indices: 84488683--84488729 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
84488673 ATTTTTATAT
*
84488683 TATATTTTAAAATTTTAAAA
1 TATA-TTTATAATTTTAAAA
84488703 TATATTTATAATTTTAAAA
1 TATATTTATAATTTTAAAA
84488722 T-TATTTAT
1 TATATTTAT
84488730 TAAAGTAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 7 0.27
19 15 0.58
20 4 0.15
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TATATTTATAATTTTAAAA
Found at i:84488816 original size:18 final size:18
Alignment explanation
Indices: 84488793--84488830 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
84488783 AAATTAATAT
84488793 TTTAAT-TTATTTAGAAAA
1 TTTAATATTATTT-GAAAA
84488811 TTTAATATTATTTGAAAA
1 TTTAATATTATTTGAAAA
84488829 TT
1 TT
84488831 CCATAACTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (18 bp):
TTTAATATTATTTGAAAA
Found at i:84494728 original size:26 final size:26
Alignment explanation
Indices: 84494699--84494750 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
84494689 GTAAAAGATA
84494699 GAGATAAATAAAGTGAATCAAATCTG
1 GAGATAAATAAAGTGAATCAAATCTG
84494725 GAGATAAATAAAGTGAATCAAATCTG
1 GAGATAAATAAAGTGAATCAAATCTG
84494751 AATATGGGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.50, C:0.08, G:0.19, T:0.23
Consensus pattern (26 bp):
GAGATAAATAAAGTGAATCAAATCTG
Found at i:84496821 original size:38 final size:37
Alignment explanation
Indices: 84496770--84496890 Score: 145
Period size: 38 Copynumber: 3.2 Consensus size: 37
84496760 AGAAGTATAT
* *
84496770 TGTTATTCAGGCTTTATGCCTAGTAGACTTTGTGCCG
1 TGTTATTCGGGCTTTATGCCTAGCAGACTTTGTGCCG
* * **
84496807 CTGTTATTCGGGCTTTGTGCCTAACAGGTTTTGTGCCAG
1 -TGTTATTCGGGCTTTATGCCTAGCAGACTTTGTGCC-G
84496846 TGTTATTCGGGCTTTATGCCTAGCA-AGCTTTGTGCCGG
1 TGTTATTCGGGCTTTATGCCTAGCAGA-CTTTGTGCC-G
84496884 TGTTATT
1 TGTTATT
84496891 AAGTCTTTGT
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
38 69 0.99
39 1 0.01
ACGTcount: A:0.14, C:0.19, G:0.26, T:0.40
Consensus pattern (37 bp):
TGTTATTCGGGCTTTATGCCTAGCAGACTTTGTGCCG
Found at i:84496913 original size:21 final size:22
Alignment explanation
Indices: 84496873--84496913 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
84496863 GCCTAGCAAG
*
84496873 CTTTGTGCCGGTGTTATTAAGT
1 CTTTGTGCCAGTGTTATTAAGT
84496895 CTTTGTGCCAGTG-TATTAA
1 CTTTGTGCCAGTGTTATTAA
84496914 AAGTTAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.17, C:0.15, G:0.24, T:0.44
Consensus pattern (22 bp):
CTTTGTGCCAGTGTTATTAAGT
Found at i:84498240 original size:14 final size:13
Alignment explanation
Indices: 84498221--84498277 Score: 57
Period size: 12 Copynumber: 4.5 Consensus size: 13
84498211 TAATTAGATA
84498221 AATATTATTTTATT
1 AATA-TATTTTATT
*
84498235 AATAT-TTTTAAT
1 AATATATTTTATT
*
84498247 AAGATATTTTATT
1 AATATATTTTATT
84498260 -AT-TATTTTATT
1 AATATATTTTATT
*
84498271 AGTATAT
1 AATATAT
84498278 AAAGAAAGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
11 9 0.26
12 12 0.34
13 10 0.29
14 4 0.11
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.60
Consensus pattern (13 bp):
AATATATTTTATT
Found at i:84504263 original size:12 final size:12
Alignment explanation
Indices: 84504246--84504279 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
84504236 CGCTCATGTG
84504246 CTACCACACGGC
1 CTACCACACGGC
*
84504258 CTACCACACGGG
1 CTACCACACGGC
*
84504270 CGACCACACG
1 CTACCACACG
84504280 CCCGTGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.26, C:0.47, G:0.21, T:0.06
Consensus pattern (12 bp):
CTACCACACGGC
Found at i:84509389 original size:7 final size:7
Alignment explanation
Indices: 84509377--84509401 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
84509367 AATTGTTTTA
84509377 AACAAAC
1 AACAAAC
84509384 AACAAAC
1 AACAAAC
84509391 AACAAAC
1 AACAAAC
84509398 AACA
1 AACA
84509402 TGAAACATGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.72, C:0.28, G:0.00, T:0.00
Consensus pattern (7 bp):
AACAAAC
Found at i:84511133 original size:20 final size:20
Alignment explanation
Indices: 84511095--84511133 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
84511085 AAAATAAATC
* * *
84511095 TAATTTAAAATATATATAAT
1 TAATTAAAAACATAAATAAT
84511115 TAATTAAAAACATAAATAA
1 TAATTAAAAACATAAATAA
84511134 AATAAAATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (20 bp):
TAATTAAAAACATAAATAAT
Found at i:84534510 original size:26 final size:23
Alignment explanation
Indices: 84534451--84534511 Score: 59
Period size: 26 Copynumber: 2.4 Consensus size: 23
84534441 TTTTTTTCAC
84534451 TTTTAAATTTTTTAAAAATATAA
1 TTTTAAATTTTTTAAAAATATAA
*
84534474 TTTACTAAAATTTTTTACAATTATATATA
1 TTT--T-AAATTTTTTA-AA-AATATA-A
84534503 TTTTAAATT
1 TTTTAAATT
84534512 AATTTGATTG
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
23 3 0.10
25 1 0.03
26 15 0.48
27 3 0.10
28 5 0.16
29 4 0.13
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (23 bp):
TTTTAAATTTTTTAAAAATATAA
Found at i:84536570 original size:25 final size:24
Alignment explanation
Indices: 84536536--84536584 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 24
84536526 AATTTAAAAT
84536536 TTATATTAATATTAAATAAATATAA
1 TTATATTAATATTAAATAAA-ATAA
*
84536561 TTATATTAATATTACATAAAATAA
1 TTATATTAATATTAAATAAAATAA
84536585 AAATCCCCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (24 bp):
TTATATTAATATTAAATAAAATAA
Found at i:84536931 original size:25 final size:24
Alignment explanation
Indices: 84536898--84536951 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 24
84536888 GGTTTTTATT
84536898 TTATTTTATTTAATATTAAGATAA
1 TTATTTTATTTAATATTAAGATAA
*
84536922 TTATATTTATTTAATATTAATATAA
1 TTAT-TTTATTTAATATTAAGATAA
*
84536947 ATATT
1 TTATT
84536952 AATATAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 5 0.19
25 22 0.81
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (24 bp):
TTATTTTATTTAATATTAAGATAA
Found at i:84536965 original size:12 final size:12
Alignment explanation
Indices: 84536934--84536959 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
84536924 ATATTTATTT
84536934 AATATTAATATA
1 AATATTAATATA
84536946 AATATTAATATA
1 AATATTAATATA
84536958 AA
1 AA
84536960 ATTTAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
AATATTAATATA
Found at i:84537101 original size:10 final size:10
Alignment explanation
Indices: 84537047--84537108 Score: 56
Period size: 10 Copynumber: 6.2 Consensus size: 10
84537037 TACTTTTTAG
84537047 TTTTATATAT
1 TTTTATATAT
84537057 TTTTA-A-AT
1 TTTTATATAT
84537065 TTATTATTATAT
1 TT-TTA-TATAT
* *
84537077 TTTTAAAAAT
1 TTTTATATAT
* *
84537087 ATTTATGTAT
1 TTTTATATAT
84537097 TTTTATATAT
1 TTTTATATAT
84537107 TT
1 TT
84537109 CTTTTAATTT
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
8 4 0.10
9 4 0.10
10 24 0.60
11 4 0.10
12 4 0.10
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.65
Consensus pattern (10 bp):
TTTTATATAT
Found at i:84537104 original size:48 final size:47
Alignment explanation
Indices: 84536961--84537104 Score: 116
Period size: 48 Copynumber: 3.0 Consensus size: 47
84536951 TAATATAAAA
* *
84536961 TTTAAATTTATTTATTATATTCTTTTGAAAATATTTATT-TTTATATA-T
1 TTTAAATTTA-TTATTATA-T-TTTTAAAAATATTTATTATTTTTATATT
* * * * * *
84537009 TTTATATATTATTATT-TCTTGTCAAGATTACTTT-TTAGTTTTATATATT
1 TTTAAAT-TTATTATTATATTTTTAAAAATA-TTTATTA-TTTT-TATATT
84537058 TTTAAATTTATTATTATATTTTTAAAAATATTTATGTATTTTTATAT
1 TTTAAATTTATTATTATATTTTTAAAAATATTTAT-TATTTTTATAT
84537105 ATTTCTTTTA
Statistics
Matches: 73, Mismatches: 14, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
45 8 0.11
46 4 0.05
47 4 0.05
48 31 0.42
49 24 0.33
50 2 0.03
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (47 bp):
TTTAAATTTATTATTATATTTTTAAAAATATTTATTATTTTTATATT
Found at i:84544372 original size:104 final size:107
Alignment explanation
Indices: 84544199--84544451 Score: 280
Period size: 107 Copynumber: 2.4 Consensus size: 107
84544189 AGAATGAAAA
* * * * *
84544199 AATTGAATTGATAAACCATCGTTGCCGGGTAAT-CGGAGGTGGTAAGCCATCGTTGTGGGGTAAC
1 AATTGAATCGATAAACCATCGTTGTCGGGCAATCCAG-GGTGGTAAGCCATCGTTGTGGGGCAAC
* *
84544263 CT-GGG-GG-TGGTCATCATTGCTAGGAAACCCAACATGATAG
65 CTGGGGTGGCAGGTCATCATTACTAGGAAACCCAACATGATAG
* * * **
84544303 AATTAAATCGATAAACCATCGTTGTCGGGCAATCCAGGGTGGTAAGCCATTGTTGTTGGGCAATT
1 AATTGAATCGATAAACCATCGTTGTCGGGCAATCCAGGGTGGTAAGCCATCGTTGTGGGGCAACC
* * * * ***
84544368 TGGGGTGGCAGGTCATCGTTACTGGGCATCCCGGGATGATAG
66 TGGGGTGGCAGGTCATCATTACTAGGAAACCCAACATGATAG
* *
84544410 AATTGAATCGATAAACCATCATTGTCGAGCAATCCAGGGTGG
1 AATTGAATCGATAAACCATCGTTGTCGGGCAATCCAGGGTGG
84544452 CATGTCATAT
Statistics
Matches: 123, Mismatches: 22, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
104 53 0.43
105 5 0.04
106 2 0.02
107 63 0.51
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (107 bp):
AATTGAATCGATAAACCATCGTTGTCGGGCAATCCAGGGTGGTAAGCCATCGTTGTGGGGCAACC
TGGGGTGGCAGGTCATCATTACTAGGAAACCCAACATGATAG
Found at i:84559384 original size:15 final size:15
Alignment explanation
Indices: 84559360--84559399 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
84559350 TGTAAATTGA
*
84559360 ATTTCCTTATCATGG
1 ATTTCTTTATCATGG
*
84559375 ATTTCTTTATCTTGG
1 ATTTCTTTATCATGG
84559390 ATTTCTTTAT
1 ATTTCTTTAT
84559400 TCTGGGCTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.17, C:0.15, G:0.10, T:0.57
Consensus pattern (15 bp):
ATTTCTTTATCATGG
Found at i:84565510 original size:15 final size:16
Alignment explanation
Indices: 84565492--84565525 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
84565482 AAATTAAATT
*
84565492 AATTAA-CTAGATGCA
1 AATTAACCTAAATGCA
84565507 AATTAACCTAAATGCA
1 AATTAACCTAAATGCA
84565523 AAT
1 AAT
84565526 GATATCAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.50, C:0.15, G:0.09, T:0.26
Consensus pattern (16 bp):
AATTAACCTAAATGCA
Found at i:84565751 original size:16 final size:17
Alignment explanation
Indices: 84565730--84565767 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
84565720 TTATAGTTTT
84565730 AAATAAA-TTTTGGGTA
1 AAATAAAGTTTTGGGTA
*
84565746 AAATAAATGTTTTGGGTC
1 AAATAAA-GTTTTGGGTA
84565764 AAAT
1 AAAT
84565768 TGGAATTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
18 12 0.63
ACGTcount: A:0.42, C:0.03, G:0.18, T:0.37
Consensus pattern (17 bp):
AAATAAAGTTTTGGGTA
Found at i:84569165 original size:24 final size:24
Alignment explanation
Indices: 84569138--84569200 Score: 126
Period size: 24 Copynumber: 2.6 Consensus size: 24
84569128 CTTATTATGT
84569138 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
84569162 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
84569186 TCGCACACATAGTGC
1 TCGCACACATAGTGC
84569201 ATTTGAGATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:84570428 original size:15 final size:15
Alignment explanation
Indices: 84570408--84570437 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
84570398 GTGAAGTGAT
84570408 AACATGGTGATTGAA
1 AACATGGTGATTGAA
84570423 AACATGGTGATTGAA
1 AACATGGTGATTGAA
84570438 GCATGAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.27, T:0.27
Consensus pattern (15 bp):
AACATGGTGATTGAA
Found at i:84573842 original size:16 final size:15
Alignment explanation
Indices: 84573811--84573851 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
84573801 TTATTTATTA
84573811 AATTAATTTT-AATT
1 AATTAATTTTCAATT
84573825 AATTAATTTTCCAATT
1 AATTAATTTT-CAATT
*
84573841 AAATAATTTTC
1 AATTAATTTTC
84573852 TCAACTCAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 10 0.42
15 1 0.04
16 13 0.54
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.51
Consensus pattern (15 bp):
AATTAATTTTCAATT
Found at i:84581691 original size:40 final size:40
Alignment explanation
Indices: 84581583--84581734 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
84581573 CGAATGGTAT
* * * *
84581583 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* *
84581624 CCGGG-TCAA-TTCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * *
84581663 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * *
84581703 CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
84581735 CGCTATATCC
Statistics
Matches: 92, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
39 15 0.16
40 70 0.76
41 7 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:84589677 original size:40 final size:40
Alignment explanation
Indices: 84589581--84589733 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
84589571 CGAATGGTAT
* * * *
84589581 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* *
84589622 CCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * *
84589662 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * *
84589702 CCGGGCTATGTCCCGAAGGCTTTTGCGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
84589734 CGCTATATCC
Statistics
Matches: 94, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
40 69 0.73
41 25 0.27
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:84597739 original size:27 final size:27
Alignment explanation
Indices: 84597709--84597782 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
84597699 GTCTCTTTGG
* * *
84597709 ACTATCTCGTGTTTAATATCCTATCAC
1 ACTATCCCGTGTTTAACATCCTATCAA
* * * *
84597736 ACTATCCCATGTTTAGCATCCTGTTAA
1 ACTATCCCGTGTTTAACATCCTATCAA
84597763 ACTATCCCGTGTTTAACATC
1 ACTATCCCGTGTTTAACATC
84597783 ACATTGGACT
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.26, C:0.27, G:0.09, T:0.38
Consensus pattern (27 bp):
ACTATCCCGTGTTTAACATCCTATCAA
Found at i:84597793 original size:27 final size:27
Alignment explanation
Indices: 84597763--84597831 Score: 93
Period size: 27 Copynumber: 2.6 Consensus size: 27
84597753 ATCCTGTTAA
*
84597763 ACTATCCCGTGTTTAACATCACATTGG
1 ACTATCCGGTGTTTAACATCACATTGG
*** *
84597790 ACTATCCGGTGTTTATTGTCCCATTGG
1 ACTATCCGGTGTTTAACATCACATTGG
84597817 ACTATCCGGTGTTTA
1 ACTATCCGGTGTTTA
84597832 TTGTCCCATT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.20, C:0.23, G:0.19, T:0.38
Consensus pattern (27 bp):
ACTATCCGGTGTTTAACATCACATTGG
Found at i:84597832 original size:27 final size:27
Alignment explanation
Indices: 84597784--84597858 Score: 123
Period size: 27 Copynumber: 2.8 Consensus size: 27
84597774 TTTAACATCA
84597784 CATTGGACTATCCGGTGTTTATTGTCC
1 CATTGGACTATCCGGTGTTTATTGTCC
84597811 CATTGGACTATCCGGTGTTTATTGTCC
1 CATTGGACTATCCGGTGTTTATTGTCC
* **
84597838 CATTGGAATATCTAGTGTTTA
1 CATTGGACTATCCGGTGTTTA
84597859 ATATCCTGTC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.41
Consensus pattern (27 bp):
CATTGGACTATCCGGTGTTTATTGTCC
Found at i:84600666 original size:46 final size:46
Alignment explanation
Indices: 84600447--84600814 Score: 204
Period size: 46 Copynumber: 7.8 Consensus size: 46
84600437 GGGTTATTTG
* * **
84600447 TGTGCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCATATTAAGA
1 TGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-C-TA-CGAGA
* * * * *
84600494 -GAT-CCAGTGTGAGACTATGTTTGGGACATGGCATCAGC-ATTGAGA
1 TG-TGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTA-CGAGA
* * ** *
84600539 CTAGAGCAAGTGTAAGA-CATGTCTAAGACAT-GTATCGGCCT-CGAGA
1 -T-GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CTACGAGA
*
84600585 TGTAAGCCAATGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGA
1 TGT--GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGAGA
** * *
84600631 TGTGTTAGTGTAAGACCATGTCTAGGACATGGCATCGAC-ACGTATAGA
1 TGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACG---AGA
* * * *
84600679 GGTGTCAGTGTAAGACCATGTTTGGGACATGGCATCGGC-ACAGATA
1 TGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTAC-GAGA
* * * * *
84600725 TGTGAGAGCTAGTGTAAGACCATGTCCGGGACATGGCATTGACT-TGATGAA
1 TGT----GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGA-G-A
*
84600776 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 TGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
84600815 ATTATACCCT
Statistics
Matches: 248, Mismatches: 48, Indels: 50
0.72 0.14 0.14
Matches are distributed among these distances:
44 10 0.04
45 25 0.10
46 66 0.27
47 56 0.23
48 55 0.22
49 3 0.01
50 30 0.12
51 3 0.01
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.24
Consensus pattern (46 bp):
TGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGAGA
Found at i:84600698 original size:48 final size:47
Alignment explanation
Indices: 84600595--84600812 Score: 196
Period size: 48 Copynumber: 4.6 Consensus size: 47
84600585 TGTAAGCCAA
* * * *
84600595 TGTAAGA-CATGTCTGGGACAT-GCATCGGCTACG--AGATGTGTTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGAC-ACGATAGAGGAGTCAG
* *
84600639 TGTAAGACCATGTCTAGGACATGGCATCGACACGTATAGAGGTGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACACG-ATAGAGGAGTCAG
* * *
84600687 TGTAAGACCATGTTTGGGACATGGCATCGGCACAGATATGTGAGAG-CTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACAC-GATA-GAG-GAGTC-AG
* * ** * *
84600737 TGTAAGACCATGTCCGGGACATGGCATTGACTTGAT-GAATGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACACGATAG-AGGAGTCAG
84600784 TGTAAGACCATGTCTGGGACATGGCATCG
1 TGTAAGACCATGTCTGGGACATGGCATCG
84600813 GCATTATACC
Statistics
Matches: 144, Mismatches: 19, Indels: 19
0.79 0.10 0.10
Matches are distributed among these distances:
44 7 0.05
45 16 0.11
46 7 0.05
47 33 0.23
48 43 0.30
49 7 0.05
50 31 0.22
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (47 bp):
TGTAAGACCATGTCTGGGACATGGCATCGACACGATAGAGGAGTCAG
Found at i:84600809 original size:97 final size:93
Alignment explanation
Indices: 84600447--84600815 Score: 258
Period size: 94 Copynumber: 3.9 Consensus size: 93
84600437 GGGTTATTTG
* * * * *
84600447 TGTGCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGC-CATATTA-AGAGATCCAGTGTGAGA
1 TGTGCTAGTGTAAGACCATGTCCAGGACATGGCATCGACACGTA-TAGAG-GAGCCAGTGTAAGA
* * * *
84600508 CTATGTTTGGGACATGGCATCAGCATTGAGA
64 CCATGTCTGGGACATGGCATCGGCA-CGAGA
* * * * * * ** * *
84600539 CTAGAGCAAGTGTAAGA-CATGTCTAAGACAT-GTATCGGC-C-TCGAGATGTAAGCCAATGTAA
1 -T-GTGCTAGTGTAAGACCATGTCCAGGACATGGCATCGACACGTATAGA-G-GAGCCAGTGTAA
84600600 GA-CATGTCTGGGACAT-GCATCGGCTACGAGA
62 GACCATGTCTGGGACATGGCATCGGC-ACGAGA
* * * *
84600631 TGTGTTAGTGTAAGACCATGTCTAGGACATGGCATCGACACGTATAGAGGTGTCAGTGTAAGACC
1 TGTGCTAGTGTAAGACCATGTCCAGGACATGGCATCGACACGTATAGAGGAGCCAGTGTAAGACC
* *
84600696 ATGTTTGGGACATGGCATCGGCACAGATA
66 ATGTCTGGGACATGGCATCGGCAC-GAGA
* * ** *
84600725 TGTGAGAGCTAGTGTAAGACCATGTCCGGGACATGGCATTGACTTG-AT-GAATGAGCCAGTGTA
1 TGT----GCTAGTGTAAGACCATGTCCAGGACATGGCATCGACACGTATAG-AGGAGCCAGTGTA
84600788 AGACCATGTCTGGGACATGGCATCGGCA
61 AGACCATGTCTGGGACATGGCATCGGCA
84600816 TTATACCCTA
Statistics
Matches: 221, Mismatches: 39, Indels: 28
0.77 0.14 0.10
Matches are distributed among these distances:
90 11 0.05
91 14 0.06
92 28 0.13
93 33 0.15
94 62 0.28
96 1 0.00
97 39 0.18
98 33 0.15
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.24
Consensus pattern (93 bp):
TGTGCTAGTGTAAGACCATGTCCAGGACATGGCATCGACACGTATAGAGGAGCCAGTGTAAGACC
ATGTCTGGGACATGGCATCGGCACGAGA
Found at i:84612542 original size:18 final size:18
Alignment explanation
Indices: 84612519--84612561 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
84612509 ATGACTTTAC
84612519 TAACGATCCCCGAGTGCA
1 TAACGATCCCCGAGTGCA
* *
84612537 TAACGATCTCCGAGTGCG
1 TAACGATCCCCGAGTGCA
84612555 TAACGAT
1 TAACGAT
84612562 TTCCAAAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (18 bp):
TAACGATCCCCGAGTGCA
Found at i:84618943 original size:46 final size:44
Alignment explanation
Indices: 84618785--84619005 Score: 153
Period size: 46 Copynumber: 4.8 Consensus size: 44
84618775 GGGTTATTTG
* * * * *
84618785 TGTGCTAGTGTAAGACATGTCTGGGACATACATCGGCCAC-ATTA
1 TGTGCCAGTGTAAGACATGTCTAGGACATGCATCGGCTACGA-GA
* * *
84618829 TGAGATCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCATTGA-GACGA
1 TGTG--CCAGTGTAAGA-CATGTCTAGGACAT-GCATCGGC--T-ACGA-GA
* * * *
84618880 -GAGCTAGTGTAAGACATGTCTAAGACATGTATCGGCCT-CGAGA
1 TGTGCCAGTGTAAGACATGTCTAGGACATGCATCGG-CTACGAGA
*
84618923 TGTAAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGA
1 TGT--GCCAGTGTAAGACATGTCTAGGACATGCATCGGCTACGAGA
* *
84618969 TGTGTCAGTGTAAGACCATATCTAGGACATTGCATCG
1 TGTGCCAGTGTAAGA-CATGTCTAGGACA-TGCATCG
84619006 ATATGGATAT
Statistics
Matches: 141, Mismatches: 20, Indels: 30
0.74 0.10 0.16
Matches are distributed among these distances:
43 2 0.01
44 17 0.12
45 14 0.10
46 59 0.42
47 27 0.19
48 16 0.11
50 3 0.02
51 3 0.02
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (44 bp):
TGTGCCAGTGTAAGACATGTCTAGGACATGCATCGGCTACGAGA
Found at i:84621301 original size:35 final size:35
Alignment explanation
Indices: 84621261--84621419 Score: 167
Period size: 35 Copynumber: 4.5 Consensus size: 35
84621251 GTCTGTACAT
84621261 ATGTGATGATATATTGAACTTGTAAATTTGGCCAC
1 ATGTGATGATATATTGAACTTGTAAATTTGGCCAC
* * * *
84621296 ATGTGATGTTATATTAAACTTG-AATATTTGACTAC
1 ATGTGATGATATATTGAACTTGTAA-ATTTGGCCAC
* * * * * *
84621331 ATGTGATGTTATATTGAGCTTGTATATTCGGTCAT
1 ATGTGATGATATATTGAACTTGTAAATTTGGCCAC
* * * *
84621366 ATATGATGATATATTGTACTTGTATATTTGGCCAT
1 ATGTGATGATATATTGAACTTGTAAATTTGGCCAC
*
84621401 ATGTGATGATATAATGAAC
1 ATGTGATGATATATTGAAC
84621420 CTTGAGTATT
Statistics
Matches: 101, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
34 2 0.02
35 98 0.97
36 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.42
Consensus pattern (35 bp):
ATGTGATGATATATTGAACTTGTAAATTTGGCCAC
Found at i:84634724 original size:17 final size:19
Alignment explanation
Indices: 84634690--84634724 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
84634680 AAAATATTTT
84634690 TTTATAATCTATTAAATAC
1 TTTATAATCTATTAAATAC
84634709 TTTAT-ATCTA-TAAATA
1 TTTATAATCTATTAAATA
84634725 TTAATTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 5 0.31
19 5 0.31
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (19 bp):
TTTATAATCTATTAAATAC
Found at i:84634774 original size:11 final size:11
Alignment explanation
Indices: 84634743--84634822 Score: 60
Period size: 11 Copynumber: 7.1 Consensus size: 11
84634733 AAAAAAATAG
84634743 TATATATTATT
1 TATATATTATT
*
84634754 TCACATATTATT
1 T-ATATATTATT
84634766 TATATATTATT
1 TATATATTATT
*
84634777 T-TTTACTTATAAGT
1 TATATA-TTAT---T
84634791 TATAT-TTA-T
1 TATATATTATT
84634800 TATATATT-TT
1 TATATATTATT
84634810 ATATATATTATT
1 -TATATATTATT
84634822 T
1 T
84634823 TTTAAAAAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 20
0.70 0.05 0.25
Matches are distributed among these distances:
9 6 0.11
10 6 0.11
11 24 0.44
12 12 0.22
13 3 0.05
14 2 0.04
15 2 0.04
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (11 bp):
TATATATTATT
Found at i:84634787 original size:16 final size:15
Alignment explanation
Indices: 84634759--84634826 Score: 54
Period size: 14 Copynumber: 4.6 Consensus size: 15
84634749 TTATTTCACA
*
84634759 TATTATTTA-TATAT
1 TATTTTTTATTATAT
84634773 TATTTTTTACTTATAAGT
1 TATTTTTTA-TTAT-A-T
*
84634791 TA-TATTTATTATA-
1 TATTTTTTATTATAT
*
84634804 TATTTTATA-TATAT
1 TATTTTTTATTATAT
84634818 TATTTTTTA
1 TATTTTTTA
84634827 AAAAAATTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
13 6 0.14
14 20 0.47
15 1 0.02
16 7 0.16
17 6 0.14
18 3 0.07
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (15 bp):
TATTTTTTATTATAT
Found at i:84634922 original size:17 final size:17
Alignment explanation
Indices: 84634900--84634934 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
84634890 TTCATTATAT
84634900 TTACATTTTATTACATA
1 TTACATTTTATTACATA
*
84634917 TTACATTTTATTATATA
1 TTACATTTTATTACATA
84634934 T
1 T
84634935 ATATATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (17 bp):
TTACATTTTATTACATA
Found at i:84634976 original size:21 final size:19
Alignment explanation
Indices: 84634932--84634987 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
84634922 TTTTATTATA
*
84634932 TATATATATATATATAT-ATT
1 TATAT-TAT-TATATATGGTT
84634952 TATATTACTTATTATATGGTT
1 TATATTA-TTA-TATATGGTT
84634973 TATATTATTATATAT
1 TATATTATTATATAT
84634988 TTTGGTTATA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
19 9 0.28
20 14 0.44
21 9 0.28
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.57
Consensus pattern (19 bp):
TATATTATTATATATGGTT
Found at i:84634988 original size:10 final size:10
Alignment explanation
Indices: 84634924--84634988 Score: 53
Period size: 12 Copynumber: 6.2 Consensus size: 10
84634914 ATATTACATT
84634924 TTATTATATA
1 TTATTATATA
84634934 TATATATATATA
1 T-TAT-TATATA
84634946 TATATT-TATA
1 T-TATTATATA
84634956 TTACTTATTATA
1 TTA-TTA-TATA
**
84634968 TGGTT-TATA
1 TTATTATATA
84634977 TTATTATATA
1 TTATTATATA
84634987 TT
1 TT
84634989 TTGGTTATAA
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
9 9 0.20
10 14 0.31
11 6 0.13
12 16 0.36
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (10 bp):
TTATTATATA
Found at i:84634997 original size:21 final size:21
Alignment explanation
Indices: 84634930--84634987 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 21
84634920 CATTTTATTA
*
84634930 TATATATATATATATATAT-ATT
1 TATAT-TAT-TATATATATGGTT
84634952 TATATTACTTAT-TATATGGTT
1 TATATTA-TTATATATATGGTT
84634973 TATATTATTATATAT
1 TATATTATTATATAT
84634988 TTTGGTTATA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
20 9 0.28
21 17 0.53
22 6 0.19
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (21 bp):
TATATTATTATATATATGGTT
Found at i:84638693 original size:17 final size:17
Alignment explanation
Indices: 84638646--84638696 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
84638636 TGACATGTTG
84638646 TAAAAGAATTATAAAAAA
1 TAAAA-AATTATAAAAAA
* **
84638664 T-AAAAATCAATAAAATT
1 TAAAAAAT-TATAAAAAA
84638681 TAAAAAATTATAAAAA
1 TAAAAAATTATAAAAA
84638697 TTATTAAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 5
0.72 0.14 0.14
Matches are distributed among these distances:
16 3 0.12
17 16 0.62
18 7 0.27
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (17 bp):
TAAAAAATTATAAAAAA
Found at i:84638704 original size:10 final size:9
Alignment explanation
Indices: 84638652--84638743 Score: 59
Period size: 9 Copynumber: 10.3 Consensus size: 9
84638642 GTTGTAAAAG
84638652 AATTATAAA
1 AATTATAAA
84638661 AA--ATAAA
1 AATTATAAA
*
84638668 AATCAATAAA
1 AAT-TATAAA
*
84638678 ATTTA-AAA
1 AATTATAAA
84638686 AATTATAAA
1 AATTATAAA
84638695 AATTATTAAA
1 AATTA-TAAA
**
84638705 TTTTAATAAA
1 AATT-ATAAA
84638715 AA-TATATAA
1 AATTATA-AA
*
84638724 AATTA-CAA
1 AATTATAAA
*
84638732 AATTACAAA
1 AATTATAAA
84638741 AAT
1 AAT
84638744 CGTAAAAAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 18
0.71 0.10 0.20
Matches are distributed among these distances:
7 7 0.11
8 17 0.26
9 21 0.32
10 19 0.29
11 1 0.02
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (9 bp):
AATTATAAA
Found at i:84638802 original size:27 final size:27
Alignment explanation
Indices: 84638654--84638807 Score: 77
Period size: 27 Copynumber: 5.7 Consensus size: 27
84638644 TGTAAAAGAA
*
84638654 TTATAAAA-A-ATAAAAATCAATAAAAT
1 TTATAAAATATATAAAAATCAA-AAATT
* * *
84638680 TTAAAAAAT-TATAAAAATTATTAAATT
1 TTATAAAATATATAAAAATCA-AAAATT
*
84638707 TTAATAAAA-ATATATAAAATTACAAAATT
1 TT-ATAAAATATATA-AAAATCA-AAAATT
** * * * *
84638736 ACA-AAAATCGTAAAAAAATAAAAAAGT
1 TTATAAAAT-ATATAAAAATCAAAAATT
** *
84638763 TTA-AATTTTTATAAAAATCAAAAATT
1 TTATAAAATATATAAAAATCAAAAATT
*
84638789 TTATAAAATATATAGAAAT
1 TTATAAAATATATAAAAAT
84638808 ATAGAAAAAA
Statistics
Matches: 94, Mismatches: 25, Indels: 17
0.69 0.18 0.12
Matches are distributed among these distances:
26 24 0.26
27 39 0.41
28 16 0.17
29 15 0.16
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.32
Consensus pattern (27 bp):
TTATAAAATATATAAAAATCAAAAATT
Found at i:84638837 original size:31 final size:32
Alignment explanation
Indices: 84638782--84638851 Score: 83
Period size: 31 Copynumber: 2.2 Consensus size: 32
84638772 TATAAAAATC
*
84638782 AAAAATTTTATAAAATATATAG-AAA-TATAGA
1 AAAAAATTTATAAAATATATAGAAAATTATA-A
*
84638813 AAAAAATTTATAAAATCGTA-AGAAAATTATAA
1 AAAAAATTTATAAAAT-ATATAGAAAATTATAA
84638845 AAAAAAT
1 AAAAAAT
84638852 AAAGAAATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
31 17 0.50
32 13 0.38
33 4 0.12
ACGTcount: A:0.64, C:0.01, G:0.06, T:0.29
Consensus pattern (32 bp):
AAAAAATTTATAAAATATATAGAAAATTATAA
Found at i:84639097 original size:8 final size:8
Alignment explanation
Indices: 84639086--84639169 Score: 71
Period size: 8 Copynumber: 10.0 Consensus size: 8
84639076 ATTTTACAAT
84639086 TTTTTATA
1 TTTTTATA
*
84639094 TTTTTTACAA
1 -TTTTTA-TA
84639104 TTTTTATA
1 TTTTTATA
*
84639112 TTTTTCTAA
1 TTTTTAT-A
*
84639121 GTTTTAATA
1 -TTTTTATA
84639130 TTTTTATA
1 TTTTTATA
*
84639138 TTTCTA-A
1 TTTTTATA
*
84639145 GTTTTAATA
1 -TTTTTATA
84639154 TTTTTATA
1 TTTTTATA
84639162 TTTTTATA
1 TTTTTATA
84639170 AAAATTTAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
7 1 0.02
8 38 0.63
9 15 0.25
10 6 0.10
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (8 bp):
TTTTTATA
Found at i:84639107 original size:18 final size:18
Alignment explanation
Indices: 84639077--84639134 Score: 73
Period size: 18 Copynumber: 3.2 Consensus size: 18
84639067 ATTTATAAAA
84639077 TTTTACAATTTTTTATATT
1 TTTTACAA-TTTTTATATT
84639096 TTTTACAATTTTTATATT
1 TTTTACAATTTTTATATT
* *
84639114 TTTCTA-AGTTTTAATATT
1 TTT-TACAATTTTTATATT
84639132 TTT
1 TTT
84639135 ATATTTCTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
18 26 0.72
19 10 0.28
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTTACAATTTTTATATT
Found at i:84639146 original size:24 final size:24
Alignment explanation
Indices: 84639103--84639164 Score: 106
Period size: 24 Copynumber: 2.5 Consensus size: 24
84639093 ATTTTTTACA
84639103 ATTTTTATATTTTTCTAAGTTTTAAT
1 ATTTTTATA--TTTCTAAGTTTTAAT
84639129 ATTTTTATATTTCTAAGTTTTAAT
1 ATTTTTATATTTCTAAGTTTTAAT
84639153 ATTTTTATATTT
1 ATTTTTATATTT
84639165 TTATAAAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
24 27 0.75
26 9 0.25
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.66
Consensus pattern (24 bp):
ATTTTTATATTTCTAAGTTTTAAT
Done.