Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 18 of 189
Found at i:5858360 original size:37 final size:36
Alignment explanation
Indices: 5858254--5858368 Score: 119
Period size: 37 Copynumber: 3.1 Consensus size: 36
5858244 TATTGTTATT
5858254 AAATTTTAATAA-AATTATTAATATAA-ATAATTTAATA
1 AAATTTTAA-AATAATTATT-AT-TAATATAATTTAATA
* *
5858291 ATATTTTAACATAATTATTATTAAATATAATTTAATA
1 AAATTTTAAAATAATTATTATT-AATATAATTTAATA
* *
5858328 AAATTCTTAAAATAATTATTCTT-ATATGAATTTATTA
1 AAATT-TTAAAATAATTATTATTAATAT-AATTTAATA
5858365 AAAT
1 AAAT
5858369 CATAATATAT
Statistics
Matches: 67, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
35 1 0.01
36 9 0.13
37 42 0.63
38 15 0.22
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (36 bp):
AAATTTTAAAATAATTATTATTAATATAATTTAATA
Found at i:5868286 original size:29 final size:31
Alignment explanation
Indices: 5868244--5868306 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 31
5868234 ATTCCAAAAT
5868244 TCAACTTCACATTCT-TTTTTATTGTTAA-A
1 TCAACTTCACATTCTATTTTTATTGTTAACA
* * *
5868273 TCAAGTTCCCATTCTATTTTTATTTTTAACA
1 TCAACTTCACATTCTATTTTTATTGTTAACA
5868304 TCA
1 TCA
5868307 TTTTTTAGGG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 13 0.45
30 12 0.41
31 4 0.14
ACGTcount: A:0.27, C:0.19, G:0.03, T:0.51
Consensus pattern (31 bp):
TCAACTTCACATTCTATTTTTATTGTTAACA
Found at i:5868662 original size:96 final size:97
Alignment explanation
Indices: 5868550--5868849 Score: 410
Period size: 95 Copynumber: 3.1 Consensus size: 97
5868540 ATTTTAGGGA
* * * * * *
5868550 TTTAAGGAAAAAATTAAATAAATAAGGATTTAGGGTT-TTTAAATTAAATTAATTATAAATTTTT
1 TTTAAGGAAAAAATTAAATAAATTAGGGTTTAGGGTTACTT-GAGTAAATTAATTATAAATTTTA
* * *
5868614 AAAAAA-TAGATCAGGGTTCAGTGTTTATGGTT
65 AAAAAATTAGATTAGGGTTTAGTGTTTAAGGTT
*
5868646 TTTAAAGAAAAAATTAAATAAATTAGGGTTTA-GGTTACTTGAGTAAATTAATTATAAA-TTTAA
1 TTTAAGGAAAAAATTAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTAA
* *
5868709 AAAAATTAAATTAGGGTTTAGTGTTTAGGGTT
66 AAAAATTAGATTAGGGTTTAGTGTTTAAGGTT
* *
5868741 TTTAAGGAAAAAAATAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTAAA
1 TTTAAGGAAAAAATTAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTT-TA
* *
5868806 AAAAAATTAGATTGGGGTTTAGTATTTAAGGTT
65 AAAAAATTAGATTAGGGTTTAGTGTTTAAGGTT
5868839 TTTAAGGAAAA
1 TTTAAGGAAAA
5868850 TCAAATAAAA
Statistics
Matches: 181, Mismatches: 18, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
94 9 0.05
95 72 0.40
96 57 0.31
97 2 0.01
98 41 0.23
ACGTcount: A:0.44, C:0.01, G:0.17, T:0.38
Consensus pattern (97 bp):
TTTAAGGAAAAAATTAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTAA
AAAAATTAGATTAGGGTTTAGTGTTTAAGGTT
Found at i:5876138 original size:6 final size:6
Alignment explanation
Indices: 5876127--5876151 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
5876117 ATCGTCTCTA
5876127 AAATTT AAATTT AAATTT AAATTT A
1 AAATTT AAATTT AAATTT AAATTT A
5876152 TTTTTGAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
AAATTT
Found at i:5887484 original size:22 final size:22
Alignment explanation
Indices: 5887459--5887511 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
5887449 CATGAAGCAA
5887459 CCCCATACCCCCACTACAACAG
1 CCCCATACCCCCACTACAACAG
*
5887481 CCCCATACCTCCACTACAACAG
1 CCCCATACCCCCACTACAACAG
*
5887503 TCCCATACC
1 CCCCATACC
5887512 GTTTGACACT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.30, C:0.53, G:0.04, T:0.13
Consensus pattern (22 bp):
CCCCATACCCCCACTACAACAG
Found at i:5891370 original size:20 final size:21
Alignment explanation
Indices: 5891347--5891391 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
5891337 AAATACTTGT
*
5891347 AAATTATTT-AAAAATTATAA
1 AAATTATTTGAAAAACTATAA
*
5891367 AAA-TATTTGAAGAACTATAA
1 AAATTATTTGAAAAACTATAA
5891387 AAATT
1 AAATT
5891392 TAAAATTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 5 0.24
20 15 0.71
21 1 0.05
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (21 bp):
AAATTATTTGAAAAACTATAA
Found at i:5891827 original size:6 final size:6
Alignment explanation
Indices: 5891816--5891854 Score: 60
Period size: 6 Copynumber: 6.3 Consensus size: 6
5891806 TTTTGGGTTT
*
5891816 TTAGGG TTAGGG TTAGGG TTAGGT TTAGGG TTTAGGG TT
1 TTAGGG TTAGGG TTAGGG TTAGGG TTAGGG -TTAGGG TT
5891855 TTTAGGATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 24 0.80
7 6 0.20
ACGTcount: A:0.15, C:0.00, G:0.44, T:0.41
Consensus pattern (6 bp):
TTAGGG
Found at i:5892442 original size:124 final size:124
Alignment explanation
Indices: 5892034--5892444 Score: 709
Period size: 125 Copynumber: 3.3 Consensus size: 124
5892024 ATTTATTAAG
* **
5892034 GAAATCGCTCCCACGTGGACGCGTTTTTTATACAGTAGGTCCTGAAAAAAT-ATTTCGAGTTGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
*
5892098 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATAAGAAGAATTTCT
66 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTT-T
* *
5892158 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAAGTCCTGAAAAAATAATTTCGAGTTGAT
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
* *
5892223 GTTT-TAGAGCAAATAGTATAAAAAAAGCTTCAAGCAGGATGCTTTATCATAAGAATTTTT
66 GTTTCT-GAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAA-TTTT
5892283 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
5892348 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTT
66 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTT
5892407 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAG
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAG
5892445 CATGTTTGGG
Statistics
Matches: 271, Mismatches: 12, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
124 90 0.33
125 177 0.65
126 4 0.01
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (124 bp):
GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTT
Found at i:5894389 original size:49 final size:49
Alignment explanation
Indices: 5894246--5894373 Score: 222
Period size: 49 Copynumber: 2.6 Consensus size: 49
5894236 TAAGAGTATT
*
5894246 AACTATTTT-TATTTTATTACATTAAATAATATCAAAATATTCAAAATA
1 AACTATTTTGTATTTTATTACATTAAATAATATCAAAATATTCAAATTA
*
5894294 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAATTA
1 AACTATTTTGTATTTTATTACATTAAATAATATCAAAATATTCAAATTA
5894343 AACTATTTTGTATTTTATTACATTAATATAA
1 AACTATTTTGTATTTTATTACATTAA-ATAA
5894374 ACTAAATTGT
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
48 9 0.12
49 62 0.83
50 4 0.05
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.45
Consensus pattern (49 bp):
AACTATTTTGTATTTTATTACATTAAATAATATCAAAATATTCAAATTA
Found at i:5894814 original size:16 final size:17
Alignment explanation
Indices: 5894793--5894827 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
5894783 AAAAGGAAAC
5894793 ATAT-AAGGGTTAGGAT
1 ATATAAAGGGTTAGGAT
5894809 ATATAAAAGGGTTAGGAT
1 ATAT-AAAGGGTTAGGAT
5894827 A
1 A
5894828 CGCACCTGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
18 13 0.76
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (17 bp):
ATATAAAGGGTTAGGAT
Found at i:5894931 original size:17 final size:19
Alignment explanation
Indices: 5894906--5894940 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
5894896 TGTCGGTGTT
5894906 GTTACTGGGC-CTGATGAA
1 GTTACTGGGCGCTGATGAA
5894924 GTTA-TGGGCGCTGATGA
1 GTTACTGGGCGCTGATGA
5894941 TGGGCCGGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.20, C:0.14, G:0.37, T:0.29
Consensus pattern (19 bp):
GTTACTGGGCGCTGATGAA
Found at i:5896615 original size:19 final size:21
Alignment explanation
Indices: 5896585--5896627 Score: 72
Period size: 19 Copynumber: 2.1 Consensus size: 21
5896575 AATTTTTACG
5896585 ATTTAAATTTTTTTTAAAA-A
1 ATTTAAATTTTTTTTAAAATA
5896605 ATTTAAA-TTTTTTTAAAATA
1 ATTTAAATTTTTTTTAAAATA
5896625 ATT
1 ATT
5896628 AAAAATAGCG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTTAAATTTTTTTTAAAATA
Found at i:5896654 original size:11 final size:12
Alignment explanation
Indices: 5896638--5896674 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
5896628 AAAAATAGCG
5896638 ATTTAAGAG-AA
1 ATTTAAGAGCAA
5896649 ATTTAAGAGCAA
1 ATTTAAGAGCAA
*
5896661 A-TTGAGAGCAA
1 ATTTAAGAGCAA
5896672 ATT
1 ATT
5896675 GAGATTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.49, C:0.05, G:0.19, T:0.27
Consensus pattern (12 bp):
ATTTAAGAGCAA
Found at i:5896684 original size:11 final size:11
Alignment explanation
Indices: 5896654--5896678 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
5896644 GAGAAATTTA
5896654 AGAGCAAATTG
1 AGAGCAAATTG
5896665 AGAGCAAATTG
1 AGAGCAAATTG
5896676 AGA
1 AGA
5896679 TTAAATATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.08, G:0.28, T:0.16
Consensus pattern (11 bp):
AGAGCAAATTG
Found at i:5901444 original size:19 final size:19
Alignment explanation
Indices: 5901393--5901446 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 19
5901383 ATCATTATTC
* *
5901393 TTTAAAATTTATAAAAAAA
1 TTTAAAAATAATAAAAAAA
* **
5901412 -TAAAAAATCCTAAAAAAA
1 TTTAAAAATAATAAAAAAA
5901430 TTTAAAAATAATAAAAA
1 TTTAAAAATAATAAAAA
5901447 TTTTGAAATT
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
18 14 0.52
19 13 0.48
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.28
Consensus pattern (19 bp):
TTTAAAAATAATAAAAAAA
Found at i:5909898 original size:81 final size:81
Alignment explanation
Indices: 5909758--5909920 Score: 254
Period size: 81 Copynumber: 2.0 Consensus size: 81
5909748 TAGATATTAT
* * * * **
5909758 ATAACTCATTTTATTGTTAAATTTCTTACTATTTTAGAGGCATTTGCTTGATAAGTTGTAGTTAT
1 ATAACTCATTTTATTGTTAAATTTCATACTATTTTAGAAGCATTTACTTGATAAATTGTAACTAT
5909823 GTTAGTGTTATTTTTA
66 GTTAGTGTTATTTTTA
* *
5909839 ATAACTCGTTTTATTGTTAATTTTCATACTATTTTAGAAGCATTTACTTGATAAATTGTAACTAT
1 ATAACTCATTTTATTGTTAAATTTCATACTATTTTAGAAGCATTTACTTGATAAATTGTAACTAT
5909904 GTTAGTGTTATTTTTA
66 GTTAGTGTTATTTTTA
5909920 A
1 A
5909921 ATATAAAAAC
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 74 1.00
ACGTcount: A:0.28, C:0.08, G:0.13, T:0.51
Consensus pattern (81 bp):
ATAACTCATTTTATTGTTAAATTTCATACTATTTTAGAAGCATTTACTTGATAAATTGTAACTAT
GTTAGTGTTATTTTTA
Found at i:5911146 original size:23 final size:26
Alignment explanation
Indices: 5911089--5911151 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
5911079 GTAAAAATTA
* *
5911089 ATGTTCTTAATGTAATGTTTGTTAGT
1 ATGTTTTTAATTTAATGTTTGTTAGT
*
5911115 ATGTTTTTAGTTTAATG-TTGTTA-T
1 ATGTTTTTAATTTAATGTTTGTTAGT
5911139 -TGTTTTTAATTTA
1 ATGTTTTTAATTTA
5911152 TTTTACACTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 12 0.36
24 1 0.03
25 6 0.18
26 14 0.42
ACGTcount: A:0.22, C:0.02, G:0.16, T:0.60
Consensus pattern (26 bp):
ATGTTTTTAATTTAATGTTTGTTAGT
Found at i:5920822 original size:129 final size:129
Alignment explanation
Indices: 5920592--5920842 Score: 430
Period size: 129 Copynumber: 1.9 Consensus size: 129
5920582 GTTGGTGACT
*
5920592 AACTGATGCCAAGAATGGCATCAGATAAAGTGCCCAGGATTGCAACAATGTAAGGCATCCGCCCA
1 AACTGATGCCAAGAATGGCATCAGATAAAGTGCCAAGGATTGCAACAATGTAAGGCATCCGCCCA
* *
5920657 TGTCGACGACAGCAAGCTTTGTCGTCCGACAAAGCTCCGGAGACAACACTGCTAGAACTACCAG
66 TGTCGACGACAGCAAGCTTTGTCGTCCGACAAAGCTCCCGAGACAACACTGCCAGAACTACCAG
*
5920721 AACTGATGCCAAGAATGGCATCCGATAAAGTGCCAAGGATTGCAACAATGTAAGGCATCCGCCCA
1 AACTGATGCCAAGAATGGCATCAGATAAAGTGCCAAGGATTGCAACAATGTAAGGCATCCGCCCA
* * * *
5920786 TGTCTACGATAGCAGGCTTTGTCGTCCGACAAAGCTCCCGATACAACACTGCCAGAA
66 TGTCGACGACAGCAAGCTTTGTCGTCCGACAAAGCTCCCGAGACAACACTGCCAGAA
5920843 TGCGGAGCCC
Statistics
Matches: 114, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
129 114 1.00
ACGTcount: A:0.32, C:0.27, G:0.23, T:0.18
Consensus pattern (129 bp):
AACTGATGCCAAGAATGGCATCAGATAAAGTGCCAAGGATTGCAACAATGTAAGGCATCCGCCCA
TGTCGACGACAGCAAGCTTTGTCGTCCGACAAAGCTCCCGAGACAACACTGCCAGAACTACCAG
Found at i:5921675 original size:16 final size:15
Alignment explanation
Indices: 5921654--5921683 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
5921644 TCAAAAAATA
5921654 TATTATTTTCATATTT
1 TATTATTTT-ATATTT
5921670 TATTATTTTATATT
1 TATTATTTTATATT
5921684 ATTTTAATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (15 bp):
TATTATTTTATATTT
Found at i:5921796 original size:159 final size:160
Alignment explanation
Indices: 5921613--5922775 Score: 1746
Period size: 159 Copynumber: 7.4 Consensus size: 160
5921603 TAATTTCAAT
* *
5921613 GTATTTTTCTTATTTTCTG-ATTTTATTACTTTCAAAAAATATATTATTTTCATATTTTATTATT
1 GTATTTTTCTTATTTTC-GAATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATT
* *
5921677 TTATATTATTTTAATACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTCTTATATAAATTTA
65 TTATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTTTTATATAAATTTA
* * *
5921742 GT-AAATAACCCTTATTTTGTCCCTTTGTCC
130 GTAAAAAAACCCTTATTTTGGCCCTTTGTTC
5921772 GTATTTTTCTTATTTTCGAATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTT
1 GTATTTTTCTTATTTTCGAATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTT
* *
5921837 TATATTATTTTAGTACATAAAGTTTGAAATGTATCAATTTAGTGTGTTTTTTTTATATAAATTTA
66 TATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTG-TTTTTTTATATAAATTTA
5921902 GTAAAAAAACCCTTATTTTGGCCCTTTGTTC
130 GTAAAAAAACCCTTATTTTGGCCCTTTGTTC
* *
5921933 ATATTTTTCTTATTTT-TAGATTTTATTACTTTCAAAAAATATACTATTTTCG--------TATT
1 GTATTTTTCTTATTTTCGA-ATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATT
* *
5921989 TTATATTATTTTAGTACATAATGTTTGAAATGCATTAATTTAGTGTGTTTTTTTATATAAATTAA
65 TTATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTTTTATATAAATTTA
5922054 GTAAAAAAA-CCTTATTTTGGCCCTTTGTTC
130 GTAAAAAAACCCTTATTTTGGCCCTTTGTTC
* *
5922084 GTATTTTTCTTATTTTC-AGATTTTATCACTTTCAAAAAATATATTATTTTCGTATTTTATTATT
1 GTATTTTTCTTATTTTCGA-ATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATT
* *
5922148 TTATATTATTTTGGTACATAAAGTTTGAAATGTATTAATTTAGTGTG-TTTTTTATATAAATTTA
65 TTATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTTTTATATAAATTTA
*
5922212 GTAAAAAAAACCTTATTTTGGCCCTTTGTTC
130 GTAAAAAAACCCTTATTTTGGCCCTTTGTTC
*
5922243 GTATTTTTCTTATTTTC-AGATTTTATTACTTTCAAAAAATATACTATTTTTGTATTTTATTATT
1 GTATTTTTCTTATTTTCGA-ATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATT
* *
5922307 TTATATTATTTTAGTACATAAAGATTGAAATGTATTAATTTAGTGTGTTTTTTTATATAAATTTA
65 TTATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTTTTATATAAATTTA
* *
5922372 GTAAAAAAAACCTTATTTTGGCCCTTTATTC
130 GTAAAAAAACCCTTATTTTGGCCCTTTGTTC
* * * *
5922403 GTATTTTTCTTATTTTCGGATTTTATTATTTTCAAAAAATATA--ATATT--T-TTTAATTATTT
1 GTATTTTTCTTATTTTCGAATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTT
5922463 TATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTTTTATATAAATTTAG
66 TATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTTTTATATAAATTTAG
* *
5922528 T-AAAAAACCCTTATTTT-GACCTTTATTC
131 TAAAAAAACCCTTATTTTGGCCCTTTGTTC
*
5922556 GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTT
1 GTATTTTTCTTATTTTCGAATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTT
* * *
5922621 TGTATTATTTTAGTACATAATGTTTGAAATGTATT-ATTT-TTGTGTTGTTTT-TATAAATTTAG
66 TATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTTTTATATAAATTTAG
5922683 TAAAAAAAACCCCTTATTTTGGCCCTTTGTTC
131 T-AAAAAAA-CCCTTATTTTGGCCCTTTGTTC
* * * * *
5922715 GTATTTTTCTTTTTTTCGGATTTTATTACTTTAAAAAAATATACTATTTTCATTTTTTATT
1 GTATTTTTCTTATTTTCGAATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATT
5922776 TCTTTTCGTA
Statistics
Matches: 931, Mismatches: 48, Indels: 50
0.90 0.05 0.05
Matches are distributed among these distances:
151 69 0.07
152 26 0.03
153 100 0.11
154 15 0.02
155 90 0.10
156 11 0.01
157 11 0.01
158 84 0.09
159 345 0.37
160 107 0.11
161 73 0.08
ACGTcount: A:0.30, C:0.08, G:0.08, T:0.53
Consensus pattern (160 bp):
GTATTTTTCTTATTTTCGAATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTT
TATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTTTTATATAAATTTAG
TAAAAAAACCCTTATTTTGGCCCTTTGTTC
Found at i:5922190 original size:312 final size:312
Alignment explanation
Indices: 5921613--5922775 Score: 1659
Period size: 312 Copynumber: 3.7 Consensus size: 312
5921603 TAATTTCAAT
* **
5921613 GTATTTTTCTTATTTTCTGATTTTATTACTTTCAAAAAATATATTATTTTCATATTTTATTATTT
1 GTATTTTTCTTATTTTCAGATTTTATTACTTTC-AAAAA-ATA-TA----C-TATTTTCGTATTT
* *
5921678 TATATTATTTTAATACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTCTTATATAAATTTAG
58 TATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTTTTATATAAATTTAG
* * * * *
5921743 T-AAATAACCCTTATTTTGTCCCTTTGTCCGTATTTTTCTTATTTTCGAATTTTATTACTTTCAA
123 TAAAAAAAACCTTATTTTGGCCCTTTGTTCGTATTTTTCTTATTTTCGGATTTTATTACTTTCAA
*
5921807 AAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAAAGTTTGAAATGTATC
188 AAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAAAGTTTGAAATGTATT
5921872 AATTTAGTGTGTTTTTTTTATATAAATTTAGTAAAAAAACCCTTATTTTGGCCCTTTGTTC
253 AATTTAGTGTG-TTTTTTTATATAAATTTAGTAAAAAAACCCTTATTTTGGCCCTTTGTTC
* *
5921933 ATATTTTTCTTATTTTTAGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATATTAT
1 GTATTTTTCTTATTTTCAGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATATTAT
* *
5921998 TTTAGTACATAATGTTTGAAATGCATTAATTTAGTGTGTTTTTTTATATAAATTAAGT-AAAAAA
66 TTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTTTTATATAAATTTAGTAAAAAAA
* *
5922062 ACCTTATTTTGGCCCTTTGTTCGTATTTTTCTTATTTTCAGATTTTATCACTTTCAAAAAATATA
131 ACCTTATTTTGGCCCTTTGTTCGTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATA
* *
5922127 TTATTTTCGTATTTTATTATTTTATATTATTTTGGTACATAAAGTTTGAAATGTATTAATTTAGT
196 CTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAAAGTTTGAAATGTATTAATTTAGT
*
5922192 GTG-TTTTTTATATAAATTTAGTAAAAAAAACCTTATTTTGGCCCTTTGTTC
261 GTGTTTTTTTATATAAATTTAGTAAAAAAACCCTTATTTTGGCCCTTTGTTC
*
5922243 GTATTTTTCTTATTTTCAGATTTTATTACTTTCAAAAAATATACTATTTTTGTATTTTATTATTT
1 GTATTTTTCTTATTTTCAGATTTTATTACTTTCAAAAAATATACTATTTTCG--------TATTT
* *
5922308 TATATTATTTTAGTACATAAAGATTGAAATGTATTAATTTAGTGTGTTTTTTTATATAAATTTAG
58 TATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTTTTATATAAATTTAG
* *
5922373 TAAAAAAAACCTTATTTTGGCCCTTTATTCGTATTTTTCTTATTTTCGGATTTTATTATTTTCAA
123 TAAAAAAAACCTTATTTTGGCCCTTTGTTCGTATTTTTCTTATTTTCGGATTTTATTACTTTCAA
* * *
5922438 AAAATATA--ATATT--T-TTTAATTATTTTATATTATTTTAGTACATAATGTTTGAAATGTATT
188 AAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAAAGTTTGAAATGTATT
* *
5922498 AATTTAGTGTGTTTTTTTATATAAATTTAGT-AAAAAACCCTTATTTT-GACCTTTATTC
253 AATTTAGTGTGTTTTTTTATATAAATTTAGTAAAAAAACCCTTATTTTGGCCCTTTGTTC
*
5922556 GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTT
1 GTATTTTTCTTATTTTCAGATTTTATTACTTTCAAAAAATATACTATTTTCGTA--TT-TTA---
* *
5922621 TGTATTATTTTAGTACATAATGTTTGAAATGTATT-ATTT-TTGTGTTGTTTT-TATAAATTTAG
60 --TATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTTTTATATAAATTTAG
* *
5922683 TAAAAAAAACCCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTTCGGATTTTATTACTTTA
123 TAAAAAAAA--CCTTATTTTGGCCCTTTGTTCGTATTTTTCTTATTTTCGGATTTTATTACTTTC
* *
5922748 AAAAAATATACTATTTTCATTTTTTATT
186 AAAAAATATACTATTTTCGTATTTTATT
5922776 TCTTTTCGTA
Statistics
Matches: 768, Mismatches: 50, Indels: 53
0.88 0.06 0.06
Matches are distributed among these distances:
305 2 0.00
307 2 0.00
308 3 0.00
310 116 0.15
311 10 0.01
312 266 0.35
313 91 0.12
314 73 0.10
315 20 0.03
316 1 0.00
317 12 0.02
318 70 0.09
319 72 0.09
320 30 0.04
ACGTcount: A:0.30, C:0.08, G:0.08, T:0.53
Consensus pattern (312 bp):
GTATTTTTCTTATTTTCAGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATATTAT
TTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTTTTATATAAATTTAGTAAAAAAA
ACCTTATTTTGGCCCTTTGTTCGTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATA
CTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAAAGTTTGAAATGTATTAATTTAGT
GTGTTTTTTTATATAAATTTAGTAAAAAAACCCTTATTTTGGCCCTTTGTTC
Found at i:5922691 original size:471 final size:470
Alignment explanation
Indices: 5921613--5922775 Score: 1879
Period size: 471 Copynumber: 2.5 Consensus size: 470
5921603 TAATTTCAAT
* *
5921613 GTATTTTTCTTATTTTCTGATTTTATTACTTTCAAAAAATATATTATTTTCATATTTTATTATTT
1 GTATTTTTCTTATTTTCAGATTTTATTACTTTCAAAAAATATATTATTTTCGTATTTTATTATTT
*
5921678 TATATTATTTTAATACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTCTTATATAAATTTAG
66 TATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTT-TTATATAAATTTAG
* * *
5921743 T-AAATAACCCTTATTTTGTCCCTTTGTCCGTATTTTTCTTATTTTCGAATTTTATTACTTTCAA
130 TAAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTATTTTCG-ATTTTATTACTTTCAA
*
5921807 AAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAAAGTTTGAAATGTATC
194 AAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAAAGATTGAAATGTATC
* *
5921872 AATTTAGTGTGTTTTTTTTATATAAATTTAGTAAAAAAACCCTTATTTTGGCCCTTTGTTCATAT
259 AATTTAGTGTGTTTTTTTTATATAAATTTAGTAAAAAAAACCTTATTTTGGCCCTTTATTCATAT
* * *
5921937 TTTTCTTATTTTTAGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATATTATTTTA
324 TTTTCTTATTTTCAGATTTTATTACTTTCAAAAAATATAATATTTTAGTATTTTATATTATTTTA
5922002 GTACATAATGTTTGAAATGCATTAATTTAGTGTGTTTTTTTATATAAATTAAGTAAAAAAACCTT
389 GTACATAATGTTTGAAATGCATTAATTTAGTGTGTTTTTTTATATAAATTAAGTAAAAAAACCTT
* *
5922067 ATTTTGGCCCTTTGTTC
454 ATTTTGGACCTTTATTC
*
5922084 GTATTTTTCTTATTTTCAGATTTTATCACTTTCAAAAAATATATTATTTTCGTATTTTATTATTT
1 GTATTTTTCTTATTTTCAGATTTTATTACTTTCAAAAAATATATTATTTTCGTATTTTATTATTT
* *
5922149 TATATTATTTTGGTACATAAAGTTTGAAATGTATTAATTTAGTGTGTTTTTTATATAAATTTAGT
66 TATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTTTATATAAATTTAGT
*
5922214 AAAAAAAACCTTATTTTGGCCCTTTGTTCGTATTTTTCTTATTTTCAGATTTTATTACTTTCAAA
131 AAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTATTTTC-GATTTTATTACTTTCAAA
* *
5922279 AAATATACTATTTTTGTATTTTATTATTTTATATTATTTTAGTACATAAAGATTGAAATGTATTA
195 AAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAAAGATTGAAATGTATCA
*
5922344 ATTTAGTGTG-TTTTTTTATATAAATTTAGTAAAAAAAACCTTATTTTGGCCCTTTATTCGTATT
260 ATTTAGTGTGTTTTTTTTATATAAATTTAGTAAAAAAAACCTTATTTTGGCCCTTTATTCATATT
* * *
5922408 TTTCTTATTTTCGGATTTTATTATTTTCAAAAAATATAATATTTTTTAATTATTTTATATTATTT
325 TTTCTTATTTTCAGATTTTATTACTTTCAAAAAATATAATA--TTTT-AGTATTTTATATTATTT
* * *
5922473 TAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTTTTATATAAATTTAGTAAAAAACCC
387 TAGTACATAATGTTTGAAATGCATTAATTTAGTGTGTTTTTTTATATAAATTAAGTAAAAAAACC
5922538 TTATTTT-GACCTTTATTC
452 TTATTTTGGACCTTTATTC
* *
5922556 GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTT
1 GTATTTTTCTTATTTTCAGATTTTATTACTTTCAAAAAATATATTATTTTCGTATTTTATTATTT
* *
5922621 TGTATTATTTTAGTACATAATGTTTGAAATGTATT-ATTT-TTGTGTTGTTTT-TATAAATTTAG
66 TATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTT-TTTTATATAAATTTAG
* *
5922683 TAAAAAAAACCCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTTCGGATTTTATTACTTTA
130 T-AAAAAAA-CCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTATTTTC-GATTTTATTACTTTC
* *
5922748 AAAAAATATACTATTTTCATTTTTTATT
192 AAAAAATATACTATTTTCGTATTTTATT
5922776 TCTTTTCGTA
Statistics
Matches: 643, Mismatches: 41, Indels: 15
0.92 0.06 0.02
Matches are distributed among these distances:
470 121 0.19
471 254 0.40
472 184 0.29
473 84 0.13
ACGTcount: A:0.30, C:0.08, G:0.08, T:0.53
Consensus pattern (470 bp):
GTATTTTTCTTATTTTCAGATTTTATTACTTTCAAAAAATATATTATTTTCGTATTTTATTATTT
TATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTTTATATAAATTTAGT
AAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTATTTTCGATTTTATTACTTTCAAAA
AATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAAAGATTGAAATGTATCAA
TTTAGTGTGTTTTTTTTATATAAATTTAGTAAAAAAAACCTTATTTTGGCCCTTTATTCATATTT
TTCTTATTTTCAGATTTTATTACTTTCAAAAAATATAATATTTTAGTATTTTATATTATTTTAGT
ACATAATGTTTGAAATGCATTAATTTAGTGTGTTTTTTTATATAAATTAAGTAAAAAAACCTTAT
TTTGGACCTTTATTC
Found at i:5922963 original size:30 final size:30
Alignment explanation
Indices: 5922929--5923041 Score: 138
Period size: 30 Copynumber: 4.1 Consensus size: 30
5922919 AAATAAAATA
5922929 AAATAATAAAACATAGAATGTACATAACAT
1 AAATAATAAAACATAGAATGTACATAACAT
5922959 AAATAAT--AACATA-AA--TA-AT---A-
1 AAATAATAAAACATAGAATGTACATAACAT
* *
5922979 AAATAATAAGACATAGTATGTACATAACAT
1 AAATAATAAAACATAGAATGTACATAACAT
5923009 AAATAATAAAACATAGAATGTACATAACAT
1 AAATAATAAAACATAGAATGTACATAACAT
5923039 AAA
1 AAA
5923042 AGTTAAAATT
Statistics
Matches: 69, Mismatches: 4, Indels: 20
0.74 0.04 0.22
Matches are distributed among these distances:
20 7 0.10
21 1 0.01
22 5 0.07
23 1 0.01
24 2 0.03
25 4 0.06
26 2 0.03
27 2 0.03
28 6 0.09
29 1 0.01
30 38 0.55
ACGTcount: A:0.61, C:0.09, G:0.06, T:0.24
Consensus pattern (30 bp):
AAATAATAAAACATAGAATGTACATAACAT
Found at i:5922969 original size:12 final size:12
Alignment explanation
Indices: 5922952--5922984 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
5922942 TAGAATGTAC
5922952 ATAACATAAATA
1 ATAACATAAATA
5922964 ATAACATAAATA
1 ATAACATAAATA
*
5922976 ATAAAATAA
1 ATAACATAA
5922985 TAAGACATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (12 bp):
ATAACATAAATA
Found at i:5923310 original size:13 final size:14
Alignment explanation
Indices: 5923277--5923319 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
5923267 CCCTCCCTCT
*
5923277 TCTTCTTCTTCTTC
1 TCTTTTTCTTCTTC
*
5923291 TCTTTTTCTTTTTC
1 TCTTTTTCTTCTTC
5923305 -CTTTTTCTTCCTTC
1 TCTTTTTCTT-CTTC
5923319 T
1 T
5923320 GCGCCTCCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
13 9 0.38
14 15 0.62
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (14 bp):
TCTTTTTCTTCTTC
Found at i:5925062 original size:25 final size:24
Alignment explanation
Indices: 5925006--5925051 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
5924996 TTTAAATTTA
*
5925006 AATTTTAATATTTTTATTTTTAAT
1 AATTTTAATATATTTATTTTTAAT
*
5925030 AA-TTTAATCTATTTATTTTTAA
1 AATTTTAATATATTTATTTTTAA
5925052 AACTTTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (24 bp):
AATTTTAATATATTTATTTTTAAT
Found at i:5925267 original size:29 final size:30
Alignment explanation
Indices: 5925235--5925297 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 30
5925225 AAATAGAGCG
5925235 ACTAAATTCCTAGAA-TTA-AA-AGTACATGA
1 ACTAAATT-CTA-AATTTAGAAGAGTACATGA
5925264 ACTAAATTCTAAATTTATGAAGAGTACATGA
1 ACTAAATTCTAAATTTA-GAAGAGTACATGA
5925295 ACT
1 ACT
5925298 TGTGATATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
27 2 0.07
28 6 0.20
29 8 0.27
30 2 0.07
31 12 0.40
ACGTcount: A:0.46, C:0.13, G:0.11, T:0.30
Consensus pattern (30 bp):
ACTAAATTCTAAATTTAGAAGAGTACATGA
Found at i:5935788 original size:25 final size:25
Alignment explanation
Indices: 5935755--5935866 Score: 129
Period size: 25 Copynumber: 4.5 Consensus size: 25
5935745 ACAAGCTATA
*
5935755 AACGGTAAGCTCCTCTGAGCTGAAT
1 AACGATAAGCTCCTCTGAGCTGAAT
5935780 AACGATAAGCTCCTCTGAGCTGAAT
1 AACGATAAGCTCCTCTGAGCTGAAT
*
5935805 AACGGTAAGCTCCTCT-ACGCTGAAT
1 AACGATAAGCTCCTCTGA-GCTGAAT
* * * *
5935830 AATGATAAACTCATAC-GAGCTGAGT
1 AACGATAAGCTCCT-CTGAGCTGAAT
*
5935855 ATCGATAAGCTC
1 AACGATAAGCTC
5935867 ATAAGAGCTA
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
24 1 0.01
25 71 0.96
26 2 0.03
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (25 bp):
AACGATAAGCTCCTCTGAGCTGAAT
Found at i:5935867 original size:25 final size:24
Alignment explanation
Indices: 5935833--5935886 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
5935823 GCTGAATAAT
* *
5935833 GATAAACTCATACGAGCTGAGTATC
1 GATAAACTCATAAGAGCT-AGAATC
*
5935858 GATAAGCTCATAAGAGCTAGAATC
1 GATAAACTCATAAGAGCTAGAATC
5935882 GATAA
1 GATAA
5935887 CCCTAATGAC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 10 0.38
25 16 0.62
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.22
Consensus pattern (24 bp):
GATAAACTCATAAGAGCTAGAATC
Found at i:5935992 original size:11 final size:11
Alignment explanation
Indices: 5935976--5936000 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
5935966 TCCTCGTTTC
5935976 ATTATAAGCTA
1 ATTATAAGCTA
5935987 ATTATAAGCTA
1 ATTATAAGCTA
5935998 ATT
1 ATT
5936001 GTATAATAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (11 bp):
ATTATAAGCTA
Found at i:5936796 original size:22 final size:23
Alignment explanation
Indices: 5936771--5936813 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
5936761 TTATCTTTAA
5936771 TTACCT-A-TTTACAAAATTACCC
1 TTACCTAACTTTA-AAAATTACCC
5936793 TTACCTAACTTTAAAAATTAC
1 TTACCTAACTTTAAAAATTAC
5936814 ACTAATGCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.32
23 9 0.47
24 4 0.21
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.37
Consensus pattern (23 bp):
TTACCTAACTTTAAAAATTACCC
Found at i:5939522 original size:21 final size:21
Alignment explanation
Indices: 5939498--5939537 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
5939488 TTTATGAATT
*
5939498 TTATAATTTATATTTTAAAAA
1 TTATAATTTAGATTTTAAAAA
**
5939519 TTATTTTTTAGATTTTAAA
1 TTATAATTTAGATTTTAAA
5939538 CATTTTTACT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (21 bp):
TTATAATTTAGATTTTAAAAA
Found at i:5943137 original size:16 final size:16
Alignment explanation
Indices: 5943112--5943142 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5943102 CTTTTGTCTG
*
5943112 CTTTCGTTCCTTTTTC
1 CTTTCCTTCCTTTTTC
5943128 CTTTCCTTCCTTTTT
1 CTTTCCTTCCTTTTT
5943143 AATTTTATTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.00, C:0.32, G:0.03, T:0.65
Consensus pattern (16 bp):
CTTTCCTTCCTTTTTC
Found at i:5953468 original size:15 final size:17
Alignment explanation
Indices: 5953450--5953494 Score: 58
Period size: 15 Copynumber: 2.7 Consensus size: 17
5953440 ATCTTCAACC
5953450 TTTTTCTCTTCCA-T-T
1 TTTTTCTCTTCCACTGT
*
5953465 TTTTTCTCTTCAACTGGT
1 TTTTTCTCTTCCACT-GT
5953483 TTTTTCTCTTCC
1 TTTTTCTCTTCC
5953495 TATATGAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 12 0.48
16 1 0.04
18 12 0.48
ACGTcount: A:0.07, C:0.27, G:0.04, T:0.62
Consensus pattern (17 bp):
TTTTTCTCTTCCACTGT
Found at i:5953875 original size:3 final size:3
Alignment explanation
Indices: 5953869--5953927 Score: 82
Period size: 3 Copynumber: 19.7 Consensus size: 3
5953859 GCATTTTATT
* * *
5953869 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC GTT ATC AAC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
*
5953917 ATA ATC ATC AT
1 ATC ATC ATC AT
5953928 TTGATATACT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.36, C:0.29, G:0.02, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:5957512 original size:24 final size:24
Alignment explanation
Indices: 5957485--5957536 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
5957475 TTAGTAAGTC
*
5957485 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
5957509 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
5957533 AAAT
1 AAAT
5957537 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:5959480 original size:24 final size:24
Alignment explanation
Indices: 5959453--5959504 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
5959443 TTAGTAAGTC
*
5959453 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
5959477 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
5959501 AAAT
1 AAAT
5959505 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:5961316 original size:17 final size:18
Alignment explanation
Indices: 5961290--5961323 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
5961280 AATGATCACA
*
5961290 AATAATCAAT-CAATACC
1 AATAAGCAATACAATACC
5961307 AATAAGCAATACAATAC
1 AATAAGCAATACAATAC
5961324 ACACCAGGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.56, C:0.21, G:0.03, T:0.21
Consensus pattern (18 bp):
AATAAGCAATACAATACC
Found at i:5961792 original size:12 final size:11
Alignment explanation
Indices: 5961770--5961816 Score: 53
Period size: 12 Copynumber: 4.2 Consensus size: 11
5961760 AATATAACCA
5961770 AATATAATAAT
1 AATATAATAAT
5961781 AATATCAATAAT
1 AATAT-AATAAT
5961793 AATA-AGAGTAAT
1 AATATA-A-TAAT
5961805 AA-ATAATAAT
1 AATATAATAAT
5961815 AA
1 AA
5961817 ATTAATTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
10 7 0.22
11 8 0.25
12 17 0.53
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (11 bp):
AATATAATAAT
Found at i:5962387 original size:29 final size:28
Alignment explanation
Indices: 5962355--5962497 Score: 178
Period size: 29 Copynumber: 4.9 Consensus size: 28
5962345 TACATTTTGG
*
5962355 CCCCTGAACTTTTCTAAATTACATTTCAA
1 CCCCTAAACTTTTCTAAATTACATTTC-A
*
5962384 CCCCTAAACTTTTCAAAATTACATTTCA
1 CCCCTAAACTTTTCTAAATTACATTTCA
*
5962412 CCCCTAAACTTTCTCAAAATTACATTTCTA
1 CCCCTAAACTTT-TCTAAATTACATTTC-A
* **
5962442 CCCCTAAACTTTTCTAAATTGCATTTGGG
1 CCCCTAAACTTTTCTAAATTACATTT-CA
*
5962471 CCCCTAAACTTTCTATAAATTACATTT
1 CCCCTAAACTTT-TCTAAATTACATTT
5962498 TAGCCCCATA
Statistics
Matches: 102, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
28 13 0.13
29 64 0.63
30 25 0.25
ACGTcount: A:0.31, C:0.27, G:0.03, T:0.38
Consensus pattern (28 bp):
CCCCTAAACTTTTCTAAATTACATTTCA
Found at i:5962533 original size:59 final size:59
Alignment explanation
Indices: 5962345--5962542 Score: 203
Period size: 58 Copynumber: 3.4 Consensus size: 59
5962335 AAACATAAAC
* * *
5962345 TACATTTTGGCCCCTGAACTTT-TCTAAATTACATTTCAACCCCTAAACTTTTC-AAAAT
1 TACATTTTGGCCCCTAAACTTTCTATAAATTACATTT-TACCCCTAAACTTTTCTAAAAT
**
5962403 TACA-TTTCACCCCTAAACTTTCTCA-AAATTACATTTCTACCCCTAAACTTTTCT-AAAT
1 TACATTTTGGCCCCTAAACTTTCT-ATAAATTACATTT-TACCCCTAAACTTTTCTAAAAT
* * *
5962461 TGCATTTGGGCCCCTAAACTTTCTATAAATTACATTTTAGCCCC-ATA-TTTTCCTAAAAT
1 TACATTTTGGCCCCTAAACTTTCTATAAATTACATTTTA-CCCCTAAACTTTT-CTAAAAT
* *
5962520 TACATTTTTGCCCCAAAAACTTT
1 TACATTTTGGCCCC-TAAACTTT
5962543 GCACACTCTA
Statistics
Matches: 117, Mismatches: 14, Indels: 16
0.80 0.10 0.11
Matches are distributed among these distances:
57 18 0.15
58 46 0.39
59 46 0.39
60 7 0.06
ACGTcount: A:0.31, C:0.26, G:0.05, T:0.38
Consensus pattern (59 bp):
TACATTTTGGCCCCTAAACTTTCTATAAATTACATTTTACCCCTAAACTTTTCTAAAAT
Found at i:5963115 original size:12 final size:11
Alignment explanation
Indices: 5963093--5963139 Score: 53
Period size: 12 Copynumber: 4.2 Consensus size: 11
5963083 AATATAACCA
5963093 AATATAATAAT
1 AATATAATAAT
5963104 AATATCAATAAT
1 AATAT-AATAAT
5963116 AATA-AGAGTAAT
1 AATATA-A-TAAT
5963128 AA-ATAATAAT
1 AATATAATAAT
5963138 AA
1 AA
5963140 ATTAATTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
10 7 0.22
11 8 0.25
12 17 0.53
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (11 bp):
AATATAATAAT
Found at i:5963707 original size:29 final size:28
Alignment explanation
Indices: 5963675--5963817 Score: 178
Period size: 29 Copynumber: 4.9 Consensus size: 28
5963665 TACATTTTGG
*
5963675 CCCCTGAACTTTTCTAAATTACATTTCAA
1 CCCCTAAACTTTTCTAAATTACATTTC-A
*
5963704 CCCCTAAACTTTTCAAAATTACATTTCA
1 CCCCTAAACTTTTCTAAATTACATTTCA
*
5963732 CCCCTAAACTTTCTCAAAATTACATTTCTA
1 CCCCTAAACTTT-TCTAAATTACATTTC-A
* **
5963762 CCCCTAAACTTTTCTAAATTGCATTTGGG
1 CCCCTAAACTTTTCTAAATTACATTT-CA
*
5963791 CCCCTAAACTTTCTATAAATTACATTT
1 CCCCTAAACTTT-TCTAAATTACATTT
5963818 TAGCCCCATA
Statistics
Matches: 102, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
28 13 0.13
29 64 0.63
30 25 0.25
ACGTcount: A:0.31, C:0.27, G:0.03, T:0.38
Consensus pattern (28 bp):
CCCCTAAACTTTTCTAAATTACATTTCA
Found at i:5963853 original size:59 final size:59
Alignment explanation
Indices: 5963665--5963862 Score: 203
Period size: 58 Copynumber: 3.4 Consensus size: 59
5963655 AAACATAAAC
* * *
5963665 TACATTTTGGCCCCTGAACTTT-TCTAAATTACATTTCAACCCCTAAACTTTTC-AAAAT
1 TACATTTTGGCCCCTAAACTTTCTATAAATTACATTT-TACCCCTAAACTTTTCTAAAAT
**
5963723 TACA-TTTCACCCCTAAACTTTCTCA-AAATTACATTTCTACCCCTAAACTTTTCT-AAAT
1 TACATTTTGGCCCCTAAACTTTCT-ATAAATTACATTT-TACCCCTAAACTTTTCTAAAAT
* * *
5963781 TGCATTTGGGCCCCTAAACTTTCTATAAATTACATTTTAGCCCC-ATA-TTTTCCTAAAAT
1 TACATTTTGGCCCCTAAACTTTCTATAAATTACATTTTA-CCCCTAAACTTTT-CTAAAAT
* *
5963840 TACATTTTTGCCCCAAAAACTTT
1 TACATTTTGGCCCC-TAAACTTT
5963863 GCACACTCTA
Statistics
Matches: 117, Mismatches: 14, Indels: 16
0.80 0.10 0.11
Matches are distributed among these distances:
57 18 0.15
58 46 0.39
59 46 0.39
60 7 0.06
ACGTcount: A:0.31, C:0.26, G:0.05, T:0.38
Consensus pattern (59 bp):
TACATTTTGGCCCCTAAACTTTCTATAAATTACATTTTACCCCTAAACTTTTCTAAAAT
Found at i:5964435 original size:12 final size:11
Alignment explanation
Indices: 5964413--5964459 Score: 53
Period size: 12 Copynumber: 4.2 Consensus size: 11
5964403 AATATAACCA
5964413 AATATAATAAT
1 AATATAATAAT
5964424 AATATCAATAAT
1 AATAT-AATAAT
5964436 AATA-AGAGTAAT
1 AATATA-A-TAAT
5964448 AA-ATAATAAT
1 AATATAATAAT
5964458 AA
1 AA
5964460 ATTAATTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
10 7 0.22
11 8 0.25
12 17 0.53
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (11 bp):
AATATAATAAT
Found at i:5965029 original size:29 final size:28
Alignment explanation
Indices: 5964997--5965138 Score: 169
Period size: 29 Copynumber: 4.9 Consensus size: 28
5964987 TACATTTTGG
*
5964997 CCCCTGAACTTTTCTAAATTACATTTCAA
1 CCCCTAAACTTTTCTAAATTACATTTC-A
*
5965026 CCCCTAAACTTTTCAAAATTACATTTCA
1 CCCCTAAACTTTTCTAAATTACATTTCA
*
5965054 CCCCTAAACTTTCTCAAAATTACATTTCTA
1 CCCCTAAACTTT-TCTAAATTACATTTC-A
* **
5965084 -CCCTAAACTTTTCTAAATTGCATTTGGG
1 CCCCTAAACTTTTCTAAATTACATTT-CA
*
5965112 CCCCTAAACTTTCTATAAATTACATTT
1 CCCCTAAACTTT-TCTAAATTACATTT
5965139 TAGCCTCATA
Statistics
Matches: 100, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
28 25 0.25
29 62 0.62
30 13 0.13
ACGTcount: A:0.32, C:0.27, G:0.04, T:0.38
Consensus pattern (28 bp):
CCCCTAAACTTTTCTAAATTACATTTCA
Found at i:5965158 original size:58 final size:59
Alignment explanation
Indices: 5964987--5965167 Score: 196
Period size: 58 Copynumber: 3.1 Consensus size: 59
5964977 AAACATAAAC
* * * *
5964987 TACATTTTGGCCCCTGAACTTT-TCTAAATTACATTTCAACCCCTAAACTTTTC-AAAAT
1 TACATTTGGGCCCCTAAACTTTCTCAAAATTACATTTCTA-CCCTAAACTTTTCTAAAAT
**
5965045 TACATTT-CACCCCTAAACTTTCTCAAAATTACATTTCTACCCTAAACTTTTCT-AAAT
1 TACATTTGGGCCCCTAAACTTTCTCAAAATTACATTTCTACCCTAAACTTTTCTAAAAT
* * *
5965102 TGCATTTGGGCCCCTAAACTTTCT-ATAAATTACATTT-TAGCCTCATA-TTTTCCTAAAAT
1 TACATTTGGGCCCCTAAACTTTCTCA-AAATTACATTTCTACCCT-AAACTTTT-CTAAAAT
5965161 TACATTT
1 TACATTT
5965168 TTGCCCCAAA
Statistics
Matches: 105, Mismatches: 11, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
57 44 0.42
58 51 0.49
59 10 0.10
ACGTcount: A:0.31, C:0.25, G:0.04, T:0.40
Consensus pattern (59 bp):
TACATTTGGGCCCCTAAACTTTCTCAAAATTACATTTCTACCCTAAACTTTTCTAAAAT
Found at i:5965746 original size:3 final size:3
Alignment explanation
Indices: 5965738--5965784 Score: 51
Period size: 3 Copynumber: 15.3 Consensus size: 3
5965728 ATAACCAAAT
* *
5965738 ATA ATA ATA AT- ATCA ATA ATA ATA AGA GTA ATAA ATA ATA ATA ATA
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA
5965784 A
1 A
5965785 ATTAATTAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
2 2 0.05
3 30 0.81
4 5 0.14
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:5966354 original size:29 final size:28
Alignment explanation
Indices: 5966322--5966464 Score: 160
Period size: 29 Copynumber: 4.9 Consensus size: 28
5966312 TACATTTTGG
* *
5966322 CCCCTGAACTTTTTTAAATTACATTTCAA
1 CCCCTAAACTTTTCTAAATTACATTTC-A
*
5966351 CCCCTAAACTTTTCAAAATTACATTTCA
1 CCCCTAAACTTTTCTAAATTACATTTCA
* *
5966379 CCCCTAAACTTTCTCAAAATTATATTTCTA
1 CCCCTAAACTTT-TCTAAATTACATTTC-A
* **
5966409 CCCCTAAACTTTTCTAAATTGCATTTGGG
1 CCCCTAAACTTTTCTAAATTACATTT-CA
*
5966438 CCCCTAAACTTTCTATAAATTACATTT
1 CCCCTAAACTTT-TCTAAATTACATTT
5966465 TAGCCCCATA
Statistics
Matches: 99, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
28 13 0.13
29 61 0.62
30 25 0.25
ACGTcount: A:0.31, C:0.26, G:0.03, T:0.39
Consensus pattern (28 bp):
CCCCTAAACTTTTCTAAATTACATTTCA
Found at i:5966500 original size:59 final size:59
Alignment explanation
Indices: 5966312--5966509 Score: 194
Period size: 58 Copynumber: 3.4 Consensus size: 59
5966302 AAACATAAAC
* * *
5966312 TACATTTTGGCCCCTGAACTTT-TTTAAATTACATTTCAACCCCTAAACTTTTC-AAAAT
1 TACATTTTGGCCCCTAAACTTTCTATAAATTACATTT-TACCCCTAAACTTTTCTAAAAT
** *
5966370 TACA-TTTCACCCCTAAACTTTCTCA-AAATTATATTTCTACCCCTAAACTTTTCT-AAAT
1 TACATTTTGGCCCCTAAACTTTCT-ATAAATTACATTT-TACCCCTAAACTTTTCTAAAAT
* * *
5966428 TGCATTTGGGCCCCTAAACTTTCTATAAATTACATTTTAGCCCC-ATA-TTTTCCTAAAAT
1 TACATTTTGGCCCCTAAACTTTCTATAAATTACATTTTA-CCCCTAAACTTTT-CTAAAAT
* *
5966487 TACATTTTTGCCCCAAAAACTTT
1 TACATTTTGGCCCC-TAAACTTT
5966510 GCACACTCTA
Statistics
Matches: 115, Mismatches: 16, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
57 18 0.16
58 45 0.39
59 45 0.39
60 7 0.06
ACGTcount: A:0.31, C:0.25, G:0.05, T:0.39
Consensus pattern (59 bp):
TACATTTTGGCCCCTAAACTTTCTATAAATTACATTTTACCCCTAAACTTTTCTAAAAT
Found at i:5966944 original size:14 final size:15
Alignment explanation
Indices: 5966921--5966964 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
5966911 CAACCCAAAG
5966921 GAAA-AAGAGAGAAA
1 GAAAGAAGAGAGAAA
5966935 -AAAGAAGAGA-AAA
1 GAAAGAAGAGAGAAA
*
5966948 GAAAGAAGAGAGGAA
1 GAAAGAAGAGAGAAA
5966963 GA
1 GA
5966965 GAAGGGGAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 6 0.23
14 16 0.62
15 4 0.15
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (15 bp):
GAAAGAAGAGAGAAA
Found at i:5967055 original size:4 final size:4
Alignment explanation
Indices: 5967046--5967089 Score: 67
Period size: 4 Copynumber: 11.8 Consensus size: 4
5967036 GTGACCCGAA
5967046 AAAG AAAG -AAG AAAG AAAG AAA- AAAG AAAG AAA- AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
5967090 AAGAAGGAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
3 9 0.24
4 28 0.76
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:5967062 original size:11 final size:10
Alignment explanation
Indices: 5967043--5967134 Score: 96
Period size: 11 Copynumber: 8.6 Consensus size: 10
5967033 GGGGTGACCC
5967043 GAAAAAGAAA
1 GAAAAAGAAA
5967053 GAAGAAAGAAA
1 GAA-AAAGAAA
5967064 GAAAAAAGAAA
1 G-AAAAAGAAA
5967075 GAAAAAAGAAA
1 G-AAAAAGAAA
*
5967086 GAAAAAGAAG
1 GAAAAAGAAA
5967096 GAAAAAGGGAAA
1 GAAAAA--GAAA
5967108 GAAAATAGAAAA
1 GAAAA-AG-AAA
*
5967120 AAAAAAGAAA
1 GAAAAAGAAA
5967130 -AAAAA
1 GAAAAA
5967135 TATATTTTAA
Statistics
Matches: 73, Mismatches: 3, Indels: 13
0.82 0.03 0.15
Matches are distributed among these distances:
9 5 0.07
10 20 0.27
11 30 0.41
12 17 0.23
13 1 0.01
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.01
Consensus pattern (10 bp):
GAAAAAGAAA
Found at i:5967066 original size:15 final size:15
Alignment explanation
Indices: 5967046--5967089 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
5967036 GTGACCCGAA
5967046 AAAGAAAGAAGAAAG
1 AAAGAAAGAAGAAAG
*
5967061 AAAGAAAAAAGAAAG
1 AAAGAAAGAAGAAAG
5967076 AAA-AAAGAAAGAAA
1 AAAGAAAG-AAGAAA
5967090 AAGAAGGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 3 0.12
15 23 0.88
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (15 bp):
AAAGAAAGAAGAAAG
Found at i:5967069 original size:22 final size:22
Alignment explanation
Indices: 5967044--5967134 Score: 114
Period size: 22 Copynumber: 4.2 Consensus size: 22
5967034 GGGTGACCCG
*
5967044 AAAAAGAAAGAAGAAAGAAAGA
1 AAAAAGAAAGAAAAAAGAAAGA
5967066 AAAAAGAAAGAAAAAAGAAAG-
1 AAAAAGAAAGAAAAAAGAAAGA
* *
5967087 AAAAAGAAGGAAAAAGGGAAAGA
1 AAAAAGAAAGAAAAA-AGAAAGA
* *
5967110 AAATAGAAAAAAAAAAGAAA-A
1 AAAAAGAAAGAAAAAAGAAAGA
5967131 AAAA
1 AAAA
5967135 TATATTTTAA
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
21 18 0.31
22 29 0.49
23 12 0.20
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.01
Consensus pattern (22 bp):
AAAAAGAAAGAAAAAAGAAAGA
Found at i:5967084 original size:33 final size:33
Alignment explanation
Indices: 5967044--5967134 Score: 114
Period size: 33 Copynumber: 2.8 Consensus size: 33
5967034 GGGTGACCCG
5967044 AAAAAGAAAGAAGAAAGAAAGAAAAA-AGAAAGA
1 AAAAAGAAAGAA-AAAGAAAGAAAAAGAGAAAGA
* *
5967077 AAAAAGAAAGAAAAAGAAGGAAAAAGGGAAAGA
1 AAAAAGAAAGAAAAAGAAAGAAAAAGAGAAAGA
* *
5967110 AAATAGAAAAAAAAAAGAAA-AAAAA
1 AAAAAG-AAAGAAAAAGAAAGAAAAA
5967135 TATATTTTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
32 12 0.24
33 28 0.55
34 11 0.22
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.01
Consensus pattern (33 bp):
AAAAAGAAAGAAAAAGAAAGAAAAAGAGAAAGA
Found at i:5967117 original size:7 final size:6
Alignment explanation
Indices: 5967043--5967131 Score: 62
Period size: 6 Copynumber: 15.0 Consensus size: 6
5967033 GGGGTGACCC
* *
5967043 GAAAAA GAAAGAA GAAAGAAA GAAAAA -AGAAA GAAAAA -AGAAA GAAAAA
1 GAAAAA GAAA-AA G-AA-AAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA
* **
5967092 G--AAG GAAAAA GGGAAA GAAAATA GAAAAA -AAAAA GAAAAA
1 GAAAAA GAAAAA GAAAAA GAAAA-A GAAAAA GAAAAA GAAAAA
5967132 AAATATATTT
Statistics
Matches: 64, Mismatches: 10, Indels: 18
0.70 0.11 0.20
Matches are distributed among these distances:
4 3 0.05
5 13 0.20
6 31 0.48
7 11 0.17
8 5 0.08
9 1 0.02
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.01
Consensus pattern (6 bp):
GAAAAA
Found at i:5967417 original size:10 final size:10
Alignment explanation
Indices: 5967400--5967444 Score: 65
Period size: 10 Copynumber: 4.6 Consensus size: 10
5967390 CCAATCTGCA
5967400 GAAAAAAAAG
1 GAAAAAAAAG
*
5967410 GGAAAAAAAG
1 GAAAAAAAAG
5967420 GAAAAAAAA-
1 GAAAAAAAAG
*
5967429 GAAAAAGAAG
1 GAAAAAAAAG
5967439 GAAAAA
1 GAAAAA
5967445 GGAAAGGGCT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
9 8 0.26
10 23 0.74
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (10 bp):
GAAAAAAAAG
Found at i:5967426 original size:19 final size:19
Alignment explanation
Indices: 5967400--5967444 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 19
5967390 CCAATCTGCA
5967400 GAAAAAAAAGGGAAAAA-AAG
1 GAAAAAAAA--GAAAAAGAAG
5967420 GAAAAAAAAGAAAAAGAAG
1 GAAAAAAAAGAAAAAGAAG
5967439 GAAAAA
1 GAAAAA
5967445 GGAAAGGGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.25
19 9 0.38
20 9 0.38
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (19 bp):
GAAAAAAAAGAAAAAGAAG
Found at i:5967445 original size:10 final size:9
Alignment explanation
Indices: 5967402--5967444 Score: 59
Period size: 9 Copynumber: 4.6 Consensus size: 9
5967392 AATCTGCAGA
5967402 AAAAAAAGGG
1 AAAAAAA-GG
5967412 AAAAAAAGG
1 AAAAAAAGG
*
5967421 AAAAAAAAG
1 AAAAAAAGG
5967430 AAAAAGAAGG
1 AAAAA-AAGG
5967440 AAAAA
1 AAAAA
5967445 GGAAAGGGCT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
9 15 0.50
10 15 0.50
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (9 bp):
AAAAAAAGG
Found at i:5968084 original size:18 final size:19
Alignment explanation
Indices: 5968069--5968105 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
5968059 TTCTAAAATG
5968069 TTTGTATTTT-AAAAAAAA
1 TTTGTATTTTCAAAAAAAA
*
5968087 TTTGTGTTTTCAAAAAAAA
1 TTTGTATTTTCAAAAAAAA
5968106 AGGAAAAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (19 bp):
TTTGTATTTTCAAAAAAAA
Found at i:5979128 original size:1 final size:1
Alignment explanation
Indices: 5979124--5979207 Score: 60
Period size: 1 Copynumber: 84.0 Consensus size: 1
5979114 AAAAGTAGAC
* * * * * * * * * *
5979124 AAAAAACAAAAAAAAAACAACAAAAGAAAATAACAAAAAAACAAAAAACAAAAAAAGAAAAAAAG
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
5979189 AAAAAAAGAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAA
5979208 TCAAGATGAA
Statistics
Matches: 59, Mismatches: 24, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 59 1.00
ACGTcount: A:0.86, C:0.07, G:0.06, T:0.01
Consensus pattern (1 bp):
A
Found at i:5979137 original size:8 final size:8
Alignment explanation
Indices: 5979134--5979201 Score: 75
Period size: 8 Copynumber: 8.6 Consensus size: 8
5979124 AAAAAACAAA
5979134 AAAAAAAC
1 AAAAAAAC
* *
5979142 AACAAAAG
1 AAAAAAAC
*
5979150 AAAATAAC
1 AAAAAAAC
5979158 AAAAAAAC
1 AAAAAAAC
5979166 -AAAAAAC
1 AAAAAAAC
*
5979173 AAAAAAAG
1 AAAAAAAC
*
5979181 AAAAAAAG
1 AAAAAAAC
*
5979189 AAAAAAAG
1 AAAAAAAC
5979197 AAAAA
1 AAAAA
5979202 GAAAAATCAA
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
7 7 0.13
8 45 0.87
ACGTcount: A:0.85, C:0.07, G:0.06, T:0.01
Consensus pattern (8 bp):
AAAAAAAC
Found at i:5979158 original size:16 final size:15
Alignment explanation
Indices: 5979131--5979201 Score: 90
Period size: 16 Copynumber: 4.7 Consensus size: 15
5979121 GACAAAAAAC
*
5979131 AAAA-AAAAAACAAC
1 AAAAGAAAAAACAAA
5979145 AAAAGAAAATAACAAA
1 AAAAGAAAA-AACAAA
*
5979161 AAAACAAAAAACAAA
1 AAAAGAAAAAACAAA
*
5979176 AAAAGAAAAAAAGAAA
1 AAAAG-AAAAAACAAA
5979192 AAAAGAAAAA
1 AAAAGAAAAA
5979202 GAAAAATCAA
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
14 4 0.08
15 19 0.38
16 27 0.54
ACGTcount: A:0.86, C:0.07, G:0.06, T:0.01
Consensus pattern (15 bp):
AAAAGAAAAAACAAA
Found at i:5979170 original size:31 final size:30
Alignment explanation
Indices: 5979131--5979207 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 30
5979121 GACAAAAAAC
* *
5979131 AAAAAAAAAACAACAAAAGAAAATAACAAA
1 AAAAAAAAAACAAAAAAAGAAAAAAACAAA
*
5979161 AAAACAAAAAACAAAAAAAGAAAAAAAGAAA
1 AAAA-AAAAAACAAAAAAAGAAAAAAACAAA
* *
5979192 AAAAGAAAAAGAAAAA
1 AAAAAAAAAACAAAAA
5979208 TCAAGATGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
30 14 0.34
31 27 0.66
ACGTcount: A:0.86, C:0.06, G:0.06, T:0.01
Consensus pattern (30 bp):
AAAAAAAAAACAAAAAAAGAAAAAAACAAA
Found at i:5980194 original size:75 final size:75
Alignment explanation
Indices: 5980070--5980960 Score: 732
Period size: 75 Copynumber: 11.3 Consensus size: 75
5980060 TCAAGAATTT
* * *
5980070 TTTTTCAATTTCTATTTTTC-AAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGAGTC
1 TTTTTAAATTTCTA-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
5980134 ACG-TCGAGGTA
65 ACGCT-GAGGTA
* * *
5980145 TTTTTAAATTTCTATTTTCAAAAAAATCAACTTATATTGCGAGAAGTGAGTTGAGCCTTGGGCTG
1 TTTTTAAATTTCTATTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG-T-
5980210 CACGCTGAGGTA
64 CACGCTGAGGTA
* *
5980222 TTTCTTTTAAA-TT-T-TTTTC-AAAAAATTAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
1 --T-TTTTAAATTTCTATTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
* *
5980283 TCACATACCGAGGTA
63 TCAC--GCTGAGGTA
* * * * *
5980298 -TTTTAAATTTCTGTTTTTC--AAAACTCAACTCATACTGCGAGAGGTGAGTTGAGTCTCGAGTC
1 TTTTTAAATTTCT-ATTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
5980360 ACG-TCGAGGTA
65 ACGCT-GAGGTA
* * * * * *
5980371 TTTTTCAATTTTTGCTTTTC--AAAAAGCAACTCATATTGCTAGAGATGAGTTGAGCCTCGGGTC
1 TTTTTAAATTTCT-ATTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
*
5980434 CCGCTGAGGTA
65 ACGCTGAGGTA
* * *
5980445 TTTTCAATTTATTTTTCTCTATTTTGCAAAAAAATCAACTCATATCGCGAGAAGTGAGTTGAGCC
1 TTTTTAA---A---TT-TCTATTTT-CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
5980510 TCGGGTCGCACGCTGAGGTA
58 TCGGGT--CACGCTGAGGTA
* * *
5980530 TTTCTTTTAAATTTCTTTTTTCAAAAAAATCAACTCATAATGCGAAAGGTGAGTTGAGCCTCGGG
1 --T-TTTTAAATTTCTATTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
5980595 TCACGCTGAGGTA
63 TCACGCTGAGGTA
* *
5980608 TTTTCAATTTATGTTTTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCC
1 TTTTTAA---A----TTTCTA-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
5980673 TCGGGTCGCACGCTGAGGTA
58 TCGGGT--CACGCTGAGGTA
* * *
5980693 TTTCTTTTAAAATTTTTGTTTTTC-AAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCG
1 --T-TTTT-AAATTTCT-ATTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
5980757 GGTCATC-CTGAGGTA
61 GGTCA-CGCTGAGGTA
* *
5980772 TTTTTCAATTTCTGTTTTTCAAAAGAAAAAGGAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
1 TTTTTAAATTTCT-ATTTTC------------AAAAAAATCAACTCATATTGCGAGAGGTGAGTT
*
5980837 GAGCCTCGAGTCACG-TCGAGGTA
53 GAGCCTCGGGTCACGCT-GAGGTA
* * * * * **
5980860 TTTTTCAATTTTTGATTTTCACAAAAATCAACTCATATTACAAGAGGTGAGTTGAGCCTTAGGTC
1 TTTTTAAATTTCT-ATTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
*
5980925 ATATGCTGAGGTA
65 --ACGCTGAGGTA
* *
5980938 TTCTTCAATTTCTATTTTTCAAA
1 TTTTTAAATTTCTA-TTTTCAAA
5980961 GCTTAACACA
Statistics
Matches: 676, Mismatches: 74, Indels: 129
0.77 0.08 0.15
Matches are distributed among these distances:
72 7 0.01
73 8 0.01
74 74 0.11
75 109 0.16
76 94 0.14
77 18 0.03
78 41 0.06
79 14 0.02
80 55 0.08
81 51 0.08
82 16 0.02
83 83 0.12
85 24 0.04
86 1 0.00
87 4 0.01
88 75 0.11
89 2 0.00
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (75 bp):
TTTTTAAATTTCTATTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
CGCTGAGGTA
Found at i:5980545 original size:83 final size:78
Alignment explanation
Indices: 5980066--5980774 Score: 635
Period size: 83 Copynumber: 9.1 Consensus size: 78
5980056 TCTTTCAAGA
* * * * * *
5980066 ATTTTTTTTCAATTTCTATTTTTCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGA
1 ATTTCTTTTAAATTTTTA-TTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGG
5980131 GT-CACG-TCGAGGT
65 GTCCACGCT-GAGGT
* * *
5980144 A--T-TTTTAAATTTCTATTTTCAAAAAAATCAACTTATATTGCGAGAAGTGAGTTGAGCCTTGG
1 ATTTCTTTTAAATTTTTATTTTC-AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGG
*
5980206 GCTGCACGCTGAGGT
65 G-TCCACGCTGAGGT
* * *
5980221 ATTTCTTTTAAA--TTT-TTTTCAAAAAATTAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
1 ATTTCTTTTAAATTTTTATTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGG
** *
5980283 TCACATACCGAGGT
66 TC-CACGCTGAGGT
* * * *
5980297 A----TTTTAAATTTCTGT-TTTTC-AAAACTCAACTCATACTGCGAGAGGTGAGTTGAGTCTCG
1 ATTTCTTTTAAATTT-T-TATTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCG
*
5980356 AGT-CACG-TCGAGGT
64 GGTCCACGCT-GAGGT
* * * *
5980370 A--T-TTTTCAATTTTTGCTTTTC-AAAAAGCAACTCATATTGCTAG-AGATGAGTTGAGCCTCG
1 ATTTCTTTTAAATTTTT-ATTTTCAAAAAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCG
5980430 GGTCC-CGCTGAGGT
64 GGTCCACGCTGAGGT
* ** *
5980444 ATTTTCAATTTATTTTTCTCTATTTTGCAAAAAAATCAACTCATATCGCGAGAAGTGAGTTGAGC
1 A-TTTC-TTTTAAATTT-T-TATTTT-C-AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
5980509 CTCGGGTCGCACGCTGAGGT
60 CTCGGGTC-CACGCTGAGGT
*
5980529 ATTTCTTTTAAATTTCTT-TTTTCAAAAAAATCAACTCATAATGCGA-AAGGTGAGTTGAGCCTC
1 ATTTCTTTTAAATTT-TTATTTTC-AAAAAATCAACTCATATTGCGAGAA-GTGAGTTGAGCCTC
5980592 GGGT-CACGCTGAGGT
63 GGGTCCACGCTGAGGT
* **
5980607 ATTTTCAATTTATGTTTTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
1 A-TTTC-TTTTA-AATTTT-TA-TTTTC-AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
5980672 CTCGGGTCGCACGCTGAGGT
60 CTCGGGTC-CACGCTGAGGT
* * *
5980692 ATTTCTTTTAAAATTTTTGTTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCG
1 ATTTCTTTT-AAATTTTT-ATTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCG
5980757 GGT-CATC-CTGAGGT
64 GGTCCA-CGCTGAGGT
5980771 ATTT
1 ATTT
5980775 TTCAATTTCT
Statistics
Matches: 530, Mismatches: 56, Indels: 89
0.79 0.08 0.13
Matches are distributed among these distances:
72 8 0.02
73 10 0.02
74 61 0.12
75 89 0.17
76 54 0.10
77 16 0.03
78 16 0.03
79 26 0.05
80 58 0.11
81 51 0.10
82 7 0.01
83 98 0.18
84 14 0.03
85 22 0.04
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.36
Consensus pattern (78 bp):
ATTTCTTTTAAATTTTTATTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGG
TCCACGCTGAGGT
Found at i:5980595 original size:163 final size:159
Alignment explanation
Indices: 5980066--5980957 Score: 835
Period size: 163 Copynumber: 5.6 Consensus size: 159
5980056 TCTTTCAAGA
* *
5980066 ATTTTTTTTCAATTTCTATTTTTCAAAAAATCAACTCATATTGC-AAGAGGTGAGTTGAGCCTCG
1 ATTTCTTTTAAATTT-T-TTTTTCAAAAAATCAACTCATATTGCGAA-AGGTGAGTTGAGCCTCG
* * *
5980130 AGTCACG-TCGAGGTATTTTTAA---A---TTTCTATTTTCAAAAAAATCAACTTATATTGCGAG
63 GGTCACGCT-GAGGTATTTTCAATTTATTTTTTCTATTTTCAAAAAAATCAACTCATATTGCGAG
*
5980188 AAGTGAGTTGAGCCTTGGG-CTGCACGCTGAGGT
127 AAGTGAGTTGAGCCTCGGGTC-GCACGCTGAGGT
* * *
5980221 ATTTCTTTTAAA--TTTTTTTCAAAAAATTAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
1 ATTTCTTTTAAATTTTTTTTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGT
* * * * * * *
5980284 CACATACCGAGGTATTTT-AA---A-TTTCTGT-TTTTC--AAAACTCAACTCATACTGCGAGAG
66 CAC--GCTGAGGTATTTTCAATTTATTTTTTCTATTTTCAAAAAAATCAACTCATATTGCGAGAA
* *
5980341 GTGAGTTGAGTCTCGAGT--CACG-TCGAGGT
129 GTGAGTTGAGCCTCGGGTCGCACGCT-GAGGT
* * * * *
5980370 A--T-TTTTCAATTTTTGCTTTTC-AAAAAGCAACTCATATTGCTAGAGATGAGTTGAGCCTCGG
1 ATTTCTTTTAAATTTTT--TTTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGG
* *
5980431 GTCCCGCTGAGGTATTTTCAATTTATTTTTCTCTATTTTGCAAAAAAATCAACTCATATCGCGAG
64 GTCACGCTGAGGTATTTTCAATTTATTTTT-TCTATTTT-CAAAAAAATCAACTCATATTGCGAG
5980496 AAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGT
127 AAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGT
*
5980529 ATTTCTTTTAAATTTCTTTTTTCAAAAAAATCAACTCATAATGCGAAAGGTGAGTTGAGCCTCGG
1 ATTTCTTTTAAATTT-TTTTTTC-AAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGG
5980594 GTCACGCTGAGGTATTTTCAATTTATGTTTTTCTATTTTTCAAAAAAATCAACTCATATTGCGAG
64 GTCACGCTGAGGTATTTTCAATTTAT-TTTTTCTA-TTTTCAAAAAAATCAACTCATATTGCGAG
5980659 AAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGT
127 AAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGT
* *
5980692 ATTTCTTTTAAAATTTTTGTTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCG
1 ATTTCTTTT-AAA-TTTT-TTTTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCG
* * *****
5980757 GGTCATC-CTGAGGTATTTTTCAATTTCTGTTTTTCAAAAGAAAAAGGAAAAAAATCAACTCATA
63 GGTCA-CGCTGAGGTA-TTTTCAATTTAT-TTTTTC-----TATTTTCAAAAAAATCAACTCATA
* *
5980821 TTGCGAGAGGTGAGTTGAGCCTCGAGT--CACG-TCGAGGT
120 TTGCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCT-GAGGT
* * *
5980859 A--T-TTTTCAATTTTTGATTTTCACAAAAATCAACTCATATTAC-AAGAGGTGAGTTGAGCCTT
1 ATTTCTTTTAAATTTTT--TTTTCA-AAAAATCAACTCATATTGCGAA-AGGTGAGTTGAGCCTC
* * *
5980920 AGGTCATATGCTGAGGTATTCTTCAATTTCTATTTTTC
62 GGGTC--ACGCTGAGGTATT-TTCAATTTAT-TTTTTC
5980958 AAAGCTTAAC
Statistics
Matches: 625, Mismatches: 60, Indels: 93
0.80 0.08 0.12
Matches are distributed among these distances:
146 6 0.01
147 12 0.02
148 6 0.01
149 49 0.08
150 5 0.01
151 81 0.13
152 8 0.01
153 18 0.03
154 7 0.01
155 11 0.02
157 36 0.06
159 10 0.02
160 1 0.00
161 7 0.01
162 13 0.02
163 141 0.23
164 104 0.17
165 31 0.05
166 26 0.04
167 10 0.02
169 42 0.07
170 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (159 bp):
ATTTCTTTTAAATTTTTTTTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGT
CACGCTGAGGTATTTTCAATTTATTTTTTCTATTTTCAAAAAAATCAACTCATATTGCGAGAAGT
GAGTTGAGCCTCGGGTCGCACGCTGAGGT
Found at i:5980840 original size:88 final size:88
Alignment explanation
Indices: 5980717--5980880 Score: 267
Period size: 88 Copynumber: 1.9 Consensus size: 88
5980707 TTTGTTTTTC
*
5980717 AAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCATCCT-GAGGTATTTTTCAAT
1 AAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGAGTCA-CCTCGAGGTATTTTTCAAT
*
5980781 TTCTGTTTTTCAAAAGAAAAAGGA
65 TTCTGATTTTCAAAAGAAAAAGGA
* *
5980805 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTCACGTCGAGGTATTTTTCAATT
1 AAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGAGTCACCTCGAGGTATTTTTCAATT
*
5980870 TTTGATTTTCA
66 TCTGATTTTCA
5980881 CAAAAATCAA
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
87 2 0.03
88 68 0.97
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (88 bp):
AAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGAGTCACCTCGAGGTATTTTTCAATT
TCTGATTTTCAAAAGAAAAAGGA
Found at i:5981362 original size:29 final size:28
Alignment explanation
Indices: 5981315--5981472 Score: 156
Period size: 29 Copynumber: 5.4 Consensus size: 28
5981305 CAAAAAAACA
** *
5981315 TAAATTACATTTTGGCCCCTGAACTTTTC
1 TAAATTACA-TTTCACCCCTAAACTTTTC
5981344 TAAATTACATTTCAACCCCTAAACTTTT-
1 TAAATTACATTTC-ACCCCTAAACTTTTC
5981372 TGAAATTACATTTCACCCCTAAACTTTCTC
1 T-AAATTACATTTCACCCCTAAACTTT-TC
*
5981402 AAAATTACATTTCTACCCCTAAACTTTTC
1 TAAATTACATTTC-ACCCCTAAACTTTTC
** ** * *
5981431 TAAATTGTATTTGGGCCCCTAAAATTTCTA
1 TAAATTACATTT-CACCCCTAAACTTT-TC
5981461 TAAATTACATTT
1 TAAATTACATTT
5981473 TAGCCCCATA
Statistics
Matches: 109, Mismatches: 13, Indels: 13
0.81 0.10 0.10
Matches are distributed among these distances:
28 17 0.16
29 68 0.62
30 24 0.22
ACGTcount: A:0.32, C:0.23, G:0.05, T:0.40
Consensus pattern (28 bp):
TAAATTACATTTCACCCCTAAACTTTTC
Found at i:5981407 original size:58 final size:58
Alignment explanation
Indices: 5981315--5981472 Score: 187
Period size: 58 Copynumber: 2.7 Consensus size: 58
5981305 CAAAAAAACA
* *
5981315 TAAATTACATTTTGGCCCCTGAACTTT-TCTAAATTACATTTCAACCCCTAAACTTTT-
1 TAAATTACA-TTTGGCCCCTAAACTTTCTCAAAATTACATTTCAACCCCTAAACTTTTC
** *
5981372 TGAAATTACATTTCACCCCTAAACTTTCTCAAAATTACATTTCTACCCCTAAACTTTTC
1 T-AAATTACATTTGGCCCCTAAACTTTCTCAAAATTACATTTCAACCCCTAAACTTTTC
** *
5981431 TAAATTGTATTTGGGCCCCTAAAATTTCT-ATAAATTACATTT
1 TAAATTACATTT-GGCCCCTAAACTTTCTCA-AAATTACATTT
5981473 TAGCCCCATA
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
57 15 0.17
58 46 0.53
59 25 0.29
ACGTcount: A:0.32, C:0.23, G:0.05, T:0.40
Consensus pattern (58 bp):
TAAATTACATTTGGCCCCTAAACTTTCTCAAAATTACATTTCAACCCCTAAACTTTTC
Found at i:5982062 original size:4 final size:4
Alignment explanation
Indices: 5982053--5982096 Score: 58
Period size: 4 Copynumber: 11.8 Consensus size: 4
5982043 GTGACCCGAA
*
5982053 AAAG AAAG -AAG AAAG AAAG AAA- AAAG GAAG AAA- AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
5982097 AAGAAGGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
3 9 0.26
4 26 0.74
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:5982069 original size:11 final size:10
Alignment explanation
Indices: 5982050--5982138 Score: 101
Period size: 11 Copynumber: 8.6 Consensus size: 10
5982040 GGGGTGACCC
5982050 GAAAAAGAAA
1 GAAAAAGAAA
5982060 GAAGAAAGAAA
1 GAA-AAAGAAA
*
5982071 GAAAAAAGGAA
1 G-AAAAAGAAA
5982082 GAAAAAAGAAA
1 G-AAAAAGAAA
*
5982093 GAAAAAGAAG
1 GAAAAAGAAA
5982103 GAAAAAGGGAAA
1 GAAAAA--GAAA
5982115 GAAAAA-AAA
1 GAAAAAGAAA
5982124 GAAAAAGAAA
1 GAAAAAGAAA
5982134 -AAAAA
1 GAAAAA
5982139 TATATTTTAA
Statistics
Matches: 70, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
9 14 0.20
10 20 0.29
11 25 0.36
12 11 0.16
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (10 bp):
GAAAAAGAAA
Found at i:5982083 original size:26 final size:25
Alignment explanation
Indices: 5982054--5982123 Score: 83
Period size: 26 Copynumber: 2.9 Consensus size: 25
5982044 TGACCCGAAA
5982054 AAGAAAGAAGAAAGAAAGAAAAAAGG
1 AAGAAAGAAGAAAGAAA-AAAAAAGG
* *
5982080 AAGAAAAAAGAAAG-AAAAAGAAGG
1 AAGAAAGAAGAAAGAAAAAAAAAGG
*
5982104 AA-AAAG-GGAAAGAAAAAAAA
1 AAGAAAGAAGAAAGAAAAAAAA
5982124 GAAAAAGAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
22 5 0.13
23 9 0.24
24 9 0.24
25 2 0.05
26 13 0.34
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (25 bp):
AAGAAAGAAGAAAGAAAAAAAAAGG
Found at i:5982134 original size:15 final size:15
Alignment explanation
Indices: 5982050--5982138 Score: 72
Period size: 15 Copynumber: 5.6 Consensus size: 15
5982040 GGGGTGACCC
5982050 GAAAAAGAAAGAAGAAA
1 GAAAAA-AAAGAA-AAA
*
5982067 GAAAGAAAAAAGGAAGAA
1 G-AA-AAAAAA-GAAAAA
*
5982085 -AAAAGAAAGAAAAA
1 GAAAAAAAAGAAAAA
* **
5982099 GAAGGAAAAAGGGAAA
1 GAA-AAAAAAGAAAAA
5982115 GAAAAAAAAGAAAAA
1 GAAAAAAAAGAAAAA
5982130 GAAAAAAAA
1 GAAAAAAAA
5982139 TATATTTTAA
Statistics
Matches: 57, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
14 5 0.09
15 25 0.44
16 13 0.23
17 1 0.02
18 7 0.12
19 6 0.11
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (15 bp):
GAAAAAAAAGAAAAA
Found at i:5982424 original size:18 final size:18
Alignment explanation
Indices: 5982399--5982441 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 18
5982389 CCAATCTGCA
5982399 GAAAAAAAGGGAAAAA-AAG
1 GAAAAAAA--GAAAAAGAAG
5982418 GAAAAAAAGAAAAAGAAG
1 GAAAAAAAGAAAAAGAAG
5982436 GAAAAA
1 GAAAAA
5982442 GGAAAGGGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.26
18 9 0.39
19 8 0.35
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (18 bp):
GAAAAAAAGAAAAAGAAG
Found at i:5982442 original size:10 final size:9
Alignment explanation
Indices: 5982399--5982441 Score: 61
Period size: 10 Copynumber: 4.7 Consensus size: 9
5982389 CCAATCTGCA
5982399 GAAAAAAAGG
1 GAAAAAAA-G
5982409 GAAAAAAAG
1 GAAAAAAAG
5982418 GAAAAAAA-
1 GAAAAAAAG
5982426 GAAAAAGAAG
1 GAAAAA-AAG
5982436 GAAAAA
1 GAAAAA
5982442 GGAAAGGGCT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
8 6 0.19
9 11 0.35
10 14 0.45
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (9 bp):
GAAAAAAAG
Found at i:5983067 original size:16 final size:16
Alignment explanation
Indices: 5983022--5983066 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
5983012 TTTCGAAAAA
5983022 TCGTGTTTCTAAAATTC
1 TCGTGTTT-TAAAATTC
*
5983039 TCGTGTTTTAAAATTT
1 TCGTGTTTTAAAATTC
5983055 TCGT-TTTTAAAA
1 TCGTGTTTTAAAA
5983067 AAAAAGAGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 8 0.30
16 11 0.41
17 8 0.30
ACGTcount: A:0.27, C:0.11, G:0.11, T:0.51
Consensus pattern (16 bp):
TCGTGTTTTAAAATTC
Found at i:5983108 original size:18 final size:19
Alignment explanation
Indices: 5983093--5983129 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
5983083 TTCTAAAATG
5983093 TTTGTATTTT-AAAAAAAA
1 TTTGTATTTTCAAAAAAAA
*
5983111 TTTGTGTTTTCAAAAAAAA
1 TTTGTATTTTCAAAAAAAA
5983130 AAGGAAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (19 bp):
TTTGTATTTTCAAAAAAAA
Found at i:5984494 original size:45 final size:44
Alignment explanation
Indices: 5984443--5984600 Score: 122
Period size: 44 Copynumber: 3.6 Consensus size: 44
5984433 CCACTCTAAT
*
5984443 TGCAACTTTAGGGAGATAAGATTCA-CCATCTTCAGTCTACCCCAC
1 TGCAACTTTAGGGAGATAAGATT-ATCCAT-TTCAATCTACCCCAC
* * * *** * *
5984488 TGCAACTTCAGAGAGATAGGATTATTGGTTTTAATCTACTCCAC
1 TGCAACTTTAGGGAGATAAGATTATCCATTTCAATCTACCCCAC
* * * ** *
5984532 TGCAACTTTAGGGAGATAAGACTTGT-AACTTCAATCCGCTCCAC
1 TGCAACTTTAGGGAGATAAGA-TTATCCATTTCAATCTACCCCAC
* *
5984576 TGCAACTTTAGAGAGATAGGATTAT
1 TGCAACTTTAGGGAGATAAGATTAT
5984601 TGGCTTTAAT
Statistics
Matches: 89, Mismatches: 22, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
43 3 0.03
44 62 0.70
45 24 0.27
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (44 bp):
TGCAACTTTAGGGAGATAAGATTATCCATTTCAATCTACCCCAC
Found at i:5984536 original size:44 final size:44
Alignment explanation
Indices: 5984478--5984630 Score: 155
Period size: 44 Copynumber: 3.5 Consensus size: 44
5984468 CCATCTTCAG
* *
5984478 TCTACCCCACTGCAACTTCAGAGAGATAGGATTATTGGTTTTAA
1 TCTACTCCACTGCAACTTCAGAGAGATAGGATTATTGGCTTTAA
* * * * ** *
5984522 TCTACTCCACTGCAACTTTAGGGAGATAAGACTT-GTAACTTCAA
1 TCTACTCCACTGCAACTTCAGAGAGATAGGA-TTATTGGCTTTAA
** *
5984566 TCCGCTCCACTGCAACTTTAGAGAGATAGGATTATTGGCTTTAA
1 TCTACTCCACTGCAACTTCAGAGAGATAGGATTATTGGCTTTAA
* * *
5984610 TTTGCTCCACTGAAACTTCAG
1 TCTACTCCACTGCAACTTCAG
5984631 GGAAATAAGA
Statistics
Matches: 86, Mismatches: 21, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
43 2 0.02
44 82 0.95
45 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (44 bp):
TCTACTCCACTGCAACTTCAGAGAGATAGGATTATTGGCTTTAA
Found at i:5984782 original size:51 final size:51
Alignment explanation
Indices: 5984718--5985880 Score: 401
Period size: 51 Copynumber: 23.9 Consensus size: 51
5984708 GCAATACTAG
* * *
5984718 GGAAACAAGATTCGTTGCTTTCAACTTTAATTTGTTCTACTACAACTCCAA
1 GGAAATAAGATTCGTTGCTTTCAGCTTTAATTTGTTCTACTGCAACTCCAA
* * * * *
5984769 GGCAATAAGATTCGCTG-TCTTCAGCTTTAA-----TCTACTGCCACGCCAG
1 GGAAATAAGATTCGTTGCT-TTCAGCTTTAATTTGTTCTACTGCAACTCCAA
* * * *
5984815 GGAAATAAGATTTGTTGCCTTCTGCTTTAATTTGTTCCACTGCAACTCCAA
1 GGAAATAAGATTCGTTGCTTTCAGCTTTAATTTGTTCTACTGCAACTCCAA
* * *
5984866 GGAAATAAGATTC-TCTACCTTCAGCTTTAA-----TCTATTGCAA-TGCCAA
1 GGAAATAAGATTCGT-TGCTTTCAGCTTTAATTTGTTCTACTGCAACT-CCAA
* * * * * * *
5984912 GGAAACAAGATT-GTGAGCCTTCAACTTTAATTTATTCCACTGTAACAT-CAA
1 GGAAATAAGATTCGT-TGCTTTCAGCTTTAATTTGTTCTACTGCAAC-TCCAA
* * *
5984963 GGAAATAAGATTCGCTGC-TTCAGCTTTAA-----TCTATTGCAA-TGCCAG
1 GGAAATAAGATTCGTTGCTTTCAGCTTTAATTTGTTCTACTGCAACT-CCAA
** * ** *
5985008 GGAAATAAGATTCACTGCCTTCAGCTTTAATCCGTTCCACTGCAAC-CCTAA
1 GGAAATAAGATTCGTTGCTTTCAGCTTTAATTTGTTCTACTGCAACTCC-AA
* * * * * * *
5985059 AGAAATAAGATTCGCTGTCTTT-AGCTTTAA-----TCTATTGTAACGCTAG
1 GGAAATAAGATTCGTTG-CTTTCAGCTTTAATTTGTTCTACTGCAACTCCAA
* * * * * *
5985105 GGAAACAAGATTCGTTGCCTTT-AGATTTAATCTATTCCACTACAACGT-CAA
1 GGAAATAAGATTCGTTG-CTTTCAGCTTTAATTTGTTCTACTGCAAC-TCCAA
* * * * *
5985156 GGAAATAAGATTCGTTGCCTTCAGCTTTAATCT-AT-TA-T--AACGCCAG
1 GGAAATAAGATTCGTTGCTTTCAGCTTTAATTTGTTCTACTGCAACTCCAA
* * * * *
5985202 GGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACAGCAACGT-CAA
1 GGAAATAAGATTCGTTGCTTTCAGCTTTAATTTGTTCTACTGCAAC-TCCAA
* * * * *
5985253 GGAAATAAGATTCGCTGCCTTCAGCTTTAA-----TCTATTGCAACGCCAG
1 GGAAATAAGATTCGTTGCTTTCAGCTTTAATTTGTTCTACTGCAACTCCAA
* * * * * *
5985299 GGAAATAAGATTTGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGT-TAA
1 GGAAATAAGATTCGTTGCTTTCAGCTTTAATTTGTTCTACTGCAAC-TCCAA
* * * * * * *
5985350 GGAAATAAGATTTGCTGCCTTCAACTTTAA-----TCTACTGCAGCGCTAA
1 GGAAATAAGATTCGTTGCTTTCAGCTTTAATTTGTTCTACTGCAACTCCAA
* * * * * * * * *
5985396 GGAAATAAGATTTGCTGCATTCAGCTTTAATCTATTCCACTACGA-TGCTAA
1 GGAAATAAGATTCGTTGCTTTCAGCTTTAATTTGTTCTACTGCAACT-CCAA
* * * *
5985447 GGAAATAAGATTTGTTACTTTCAACTTTAA-----TCTACTGCAACGCC-A
1 GGAAATAAGATTCGTTGCTTTCAGCTTTAATTTGTTCTACTGCAACTCCAA
* * * * *
5985492 GAGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACAGCAACGT-CAA
1 G-GAAATAAGATTCGTTGCTTTCAGCTTTAATTTGTTCTACTGCAAC-TCCAA
* * * *
5985544 GGAAATAAGATTCGCTGCCTTCAGCTTTAA-----TCTATTGCAACGCC-A
1 GGAAATAAGATTCGTTGCTTTCAGCTTTAATTTGTTCTACTGCAACTCCAA
* * * * * *
5985589 GAGAAATAAGATTTGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGT-TAA
1 G-GAAATAAGATTCGTTGCTTTCAGCTTTAATTTGTTCTACTGCAAC-TCCAA
* * * * * * *
5985641 GGAAATAAGATTTGCTGCCTTCAACTTTAA-----TCTACTGCAGC-GCTA
1 GGAAATAAGATTCGTTGCTTTCAGCTTTAATTTGTTCTACTGCAACTCCAA
* * * * * * * * * *
5985686 GGAAAATAAAATTTGCTGCATTCAGCTTTAATCTATTCCACTACGA-TGCTAA
1 GG-AAATAAGATTCGTTGCTTTCAGCTTTAATTTGTTCTACTGCAACT-CCAA
* * * *
5985738 GGAAATAAGATTTGTTACTTTCAACTTTAA-----TCTACTGCAACGCC-A
1 GGAAATAAGATTCGTTGCTTTCAGCTTTAATTTGTTCTACTGCAACTCCAA
* * * * * *
5985783 GAGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCATTGCAA-TGCCAG
1 G-GAAATAAGATTCGTTGCTTTCAGCTTTAATTTGTTCTACTGCAACT-CCAA
** * * * *
5985835 GGAAATAAGATTCACTGCCTTCAGCTTTAATCTATTCCACTGCAAC
1 GGAAATAAGATTCGTTGCTTTCAGCTTTAATTTGTTCTACTGCAAC
5985881 GCTCGGGAAA
Statistics
Matches: 857, Mismatches: 160, Indels: 189
0.71 0.13 0.16
Matches are distributed among these distances:
43 1 0.00
45 36 0.04
46 368 0.43
47 2 0.00
48 2 0.00
49 1 0.00
50 18 0.02
51 416 0.49
52 12 0.01
53 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (51 bp):
GGAAATAAGATTCGTTGCTTTCAGCTTTAATTTGTTCTACTGCAACTCCAA
Found at i:5984825 original size:97 final size:97
Alignment explanation
Indices: 5984694--5985870 Score: 1330
Period size: 97 Copynumber: 12.1 Consensus size: 97
5984684 TGTGATTTAT
** * * * * * * *
5984694 AGCTTTAATCTATTGCAATACTAGGGAAACAAGATTCGTTGCTTTCAACTTTAATTTGTTCTACT
1 AGCTTTAATCTATTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACT
* *
5984759 ACAAC-TCCAAGGCAATAAGATTCGCTGTCTTC
66 ACAACGT-CAAGGAAATAAGATTCGCTGCCTTC
* * * * * *
5984791 AGCTTTAATCTACTGCCACGCCAGGGAAATAAGATTTGTTGCCTTCTGCTTTAATTTGTTCCACT
1 AGCTTTAATCTATTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACT
* * *
5984856 GCAAC-TCCAAGGAAATAAGATTCTCTACCTTC
66 ACAACGT-CAAGGAAATAAGATTCGCTGCCTTC
* * * * * *
5984888 AGCTTTAATCTATTGCAATGCCAAGGAAACAAGATT-G-TGAGCCTTCAACTTTAATTTATTCCA
1 AGCTTTAATCTATTGCAACGCCAGGGAAATAAGATTCGCT--GCCTTCAGCTTTAATCTGTTCCA
** *
5984951 CTGTAACATCAAGGAAATAAGATTCGCTG-CTTC
64 CTACAACGTCAAGGAAATAAGATTCGCTGCCTTC
* * *
5984984 AGCTTTAATCTATTGCAATGCCAGGGAAATAAGATTCACTGCCTTCAGCTTTAATCCGTTCCACT
1 AGCTTTAATCTATTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACT
* * * * *
5985049 GCAAC-CCTAAAGAAATAAGATTCGCTGTCTTT
66 ACAACGTC-AAGGAAATAAGATTCGCTGCCTTC
* * * * * * *
5985081 AGCTTTAATCTATTGTAACGCTAGGGAAACAAGATTCGTTGCCTTTAGATTTAATCTATTCCACT
1 AGCTTTAATCTATTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACT
*
5985146 ACAACGTCAAGGAAATAAGATTCGTTGCCTTC
66 ACAACGTCAAGGAAATAAGATTCGCTGCCTTC
**
5985178 AGCTTTAATCTATTATAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCAC-
1 AGCTTTAATCTATTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACT
5985242 AGCAACGTCAAGGAAATAAGATTCGCTGCCTTC
66 A-CAACGTCAAGGAAATAAGATTCGCTGCCTTC
*
5985275 AGCTTTAATCTATTGCAACGCCAGGGAAATAAGATTTGCTGCCTTCAGCTTTAATCTGTTCCACT
1 AGCTTTAATCTATTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACT
* * *
5985340 GCAACGTTAAGGAAATAAGATTTGCTGCCTTC
66 ACAACGTCAAGGAAATAAGATTCGCTGCCTTC
* * * * * * * *
5985372 AACTTTAATCTACTGCAGCGCTAAGGAAATAAGATTTGCTGCATTCAGCTTTAATCTATTCCACT
1 AGCTTTAATCTATTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACT
* * * * * *
5985437 ACGATG-CTAAGGAAATAAGATTTGTTACTTTC
66 ACAACGTC-AAGGAAATAAGATTCGCTGCCTTC
* * *
5985469 AACTTTAATCTACTGCAACGCCAGAGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCAC-
1 AGCTTTAATCTATTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACT
5985533 AGCAACGTCAAGGAAATAAGATTCGCTGCCTTC
66 A-CAACGTCAAGGAAATAAGATTCGCTGCCTTC
* *
5985566 AGCTTTAATCTATTGCAACGCCAGAGAAATAAGATTTGCTGCCTTCAGCTTTAATCTGTTCCACT
1 AGCTTTAATCTATTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACT
* * *
5985631 GCAACGTTAAGGAAATAAGATTTGCTGCCTTC
66 ACAACGTCAAGGAAATAAGATTCGCTGCCTTC
* * * * * * * * *
5985663 AACTTTAATCTACTGCAGCGCTAGGAAAATAAAATTTGCTGCATTCAGCTTTAATCTATTCCACT
1 AGCTTTAATCTATTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACT
* * * * * *
5985728 ACGATG-CTAAGGAAATAAGATTTGTTACTTTC
66 ACAACGTC-AAGGAAATAAGATTCGCTGCCTTC
* * * *
5985760 AACTTTAATCTACTGCAACGCCAGAGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCATT
1 AGCTTTAATCTATTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACT
* * * * *
5985825 GCAATGCCAGGGAAATAAGATTCACTGCCTTC
66 ACAACGTCAAGGAAATAAGATTCGCTGCCTTC
5985857 AGCTTTAATCTATT
1 AGCTTTAATCTATT
5985871 CCACTGCAAC
Statistics
Matches: 928, Mismatches: 136, Indels: 32
0.85 0.12 0.03
Matches are distributed among these distances:
95 2 0.00
96 84 0.09
97 837 0.90
98 5 0.01
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (97 bp):
AGCTTTAATCTATTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACT
ACAACGTCAAGGAAATAAGATTCGCTGCCTTC
Found at i:5985427 original size:291 final size:291
Alignment explanation
Indices: 5984694--5985870 Score: 1508
Period size: 291 Copynumber: 4.0 Consensus size: 291
5984684 TGTGATTTAT
** * * * * * * *
5984694 AGCTTTAATCTATTGCAATACTAGGGAAACAAGATTCGTTGCTTTCAACTTTAATTTGTTCTACT
1 AGCTTTAATCTATTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACT
* * * * * * *
5984759 ACAAC-TCCAAGGCAATAAGATTCGCTGTCTTCAGCTTTAATCTACTGCCA-CGCCAGGGAAATA
66 GCAACGT-TAAGGAAATAAGATTCGCTGCCTTCAACTTTAATCTACTG-CAGCGCTAAGGAAATA
* * * * * * * *
5984822 AGATTTGTTGCCTTCTGCTTTAATTTGTTCCACTGCAACTCCAAGGAAATAAGATTC-TCTACCT
129 AGATTTGCTGCATTCAGCTTTAATCTATTCCACTACAACGCTAAGGAAATAAGATTCGT-TACCT
* * * * * * *
5984886 TCAGCTTTAATCTATTGCAATGCCA-AGGAAACAAGATT-G-TGAGCCTTCAACTTTAATTTATT
193 TCAACTTTAATCTACTGCAACGCCAGA-GAAATAAGATTCGCT--GCCTTCAGCTTTAATCTGTT
* * *
5984948 CCACTGTAACATCAAGGAAATAAGATTCGCTG-CTTC
255 CCACAGCAACGTCAAGGAAATAAGATTCGCTGCCTTC
* * *
5984984 AGCTTTAATCTATTGCAATGCCAGGGAAATAAGATTCACTGCCTTCAGCTTTAATCCGTTCCACT
1 AGCTTTAATCTATTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACT
** * * * * * * * * *
5985049 GCAACCCTAAAGAAATAAGATTCGCTGTCTTTAGCTTTAATCTATTGTAACGCTAGGGAAACAAG
66 GCAACGTTAAGGAAATAAGATTCGCTGCCTTCAACTTTAATCTACTGCAGCGCTAAGGAAATAAG
* * * * * *
5985114 ATTCGTTGCCTTTAGATTTAATCTATTCCACTACAACG-TCAAGGAAATAAGATTCGTTGCCTTC
131 ATTTGCTGCATTCAGCTTTAATCTATTCCACTACAACGCT-AAGGAAATAAGATTCGTTACCTTC
* * ** *
5985178 AGCTTTAATCTATTATAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACA
195 AACTTTAATCTACTGCAACGCCAGAGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACA
5985243 GCAACGTCAAGGAAATAAGATTCGCTGCCTTC
260 GCAACGTCAAGGAAATAAGATTCGCTGCCTTC
*
5985275 AGCTTTAATCTATTGCAACGCCAGGGAAATAAGATTTGCTGCCTTCAGCTTTAATCTGTTCCACT
1 AGCTTTAATCTATTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACT
*
5985340 GCAACGTTAAGGAAATAAGATTTGCTGCCTTCAACTTTAATCTACTGCAGCGCTAAGGAAATAAG
66 GCAACGTTAAGGAAATAAGATTCGCTGCCTTCAACTTTAATCTACTGCAGCGCTAAGGAAATAAG
* * * *
5985405 ATTTGCTGCATTCAGCTTTAATCTATTCCACTACGATGCTAAGGAAATAAGATTTGTTACTTTCA
131 ATTTGCTGCATTCAGCTTTAATCTATTCCACTACAACGCTAAGGAAATAAGATTCGTTACCTTCA
5985470 ACTTTAATCTACTGCAACGCCAGAGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACAG
196 ACTTTAATCTACTGCAACGCCAGAGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACAG
5985535 CAACGTCAAGGAAATAAGATTCGCTGCCTTC
261 CAACGTCAAGGAAATAAGATTCGCTGCCTTC
* *
5985566 AGCTTTAATCTATTGCAACGCCAGAGAAATAAGATTTGCTGCCTTCAGCTTTAATCTGTTCCACT
1 AGCTTTAATCTATTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACT
*
5985631 GCAACGTTAAGGAAATAAGATTTGCTGCCTTCAACTTTAATCTACTGCAGCGCT-AGGAAAATAA
66 GCAACGTTAAGGAAATAAGATTCGCTGCCTTCAACTTTAATCTACTGCAGCGCTAAGG-AAATAA
* * * * *
5985695 AATTTGCTGCATTCAGCTTTAATCTATTCCACTACGATGCTAAGGAAATAAGATTTGTTACTTTC
130 GATTTGCTGCATTCAGCTTTAATCTATTCCACTACAACGCTAAGGAAATAAGATTCGTTACCTTC
**
5985760 AACTTTAATCTACTGCAACGCCAGAGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCATT
195 AACTTTAATCTACTGCAACGCCAGAGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACA
* * * *
5985825 GCAATGCCAGGGAAATAAGATTCACTGCCTTC
260 GCAACGTCAAGGAAATAAGATTCGCTGCCTTC
5985857 AGCTTTAATCTATT
1 AGCTTTAATCTATT
5985871 CCACTGCAAC
Statistics
Matches: 797, Mismatches: 80, Indels: 19
0.89 0.09 0.02
Matches are distributed among these distances:
289 1 0.00
290 237 0.30
291 557 0.70
292 2 0.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (291 bp):
AGCTTTAATCTATTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACT
GCAACGTTAAGGAAATAAGATTCGCTGCCTTCAACTTTAATCTACTGCAGCGCTAAGGAAATAAG
ATTTGCTGCATTCAGCTTTAATCTATTCCACTACAACGCTAAGGAAATAAGATTCGTTACCTTCA
ACTTTAATCTACTGCAACGCCAGAGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACAG
CAACGTCAAGGAAATAAGATTCGCTGCCTTC
Found at i:5988245 original size:137 final size:137
Alignment explanation
Indices: 5987998--5988269 Score: 492
Period size: 137 Copynumber: 2.0 Consensus size: 137
5987988 GCCTTTACCA
* *
5987998 GTTTGGTGAAGTAATTAATAACCTAAAAAATGAAGTGATACCCATTAGAAGCCTTCGGTGATATT
1 GTTTGGTGAAGTAATTAATAACCTAAAAAATGAAGCGATACCCATTAGAAGCCTTCGATGATATT
5988063 GGCCCGATGACATCCATGCCCCACTTTGCTTAAAATTTAAGCCACCCTTTTCGAGTTTTCAACTC
66 GGCCCGATGACATCCATGCCCCACTTTGCTTAAAATTTAAGCCACCCTTTTCGAGTTTTCAACTC
5988128 AAATCCC
131 AAATCCC
* *
5988135 GTTTGGTGAAGTAATTAATGACCTCAAAAATGAAGCGATACCCATTAGAAGCCTTCGATGATATT
1 GTTTGGTGAAGTAATTAATAACCTAAAAAATGAAGCGATACCCATTAGAAGCCTTCGATGATATT
5988200 GGCCCGATGACATCCATGCCCCACTTTGCTTAAAATTTGAA-CCACCCTTTTCGAGTTTTCAACT
66 GGCCCGATGACATCCATGCCCCACTTTGCTTAAAATTT-AAGCCACCCTTTTCGAGTTTTCAACT
5988264 CAAATC
130 CAAATC
5988270 TCCATTGGTC
Statistics
Matches: 130, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
137 128 0.98
138 2 0.02
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.30
Consensus pattern (137 bp):
GTTTGGTGAAGTAATTAATAACCTAAAAAATGAAGCGATACCCATTAGAAGCCTTCGATGATATT
GGCCCGATGACATCCATGCCCCACTTTGCTTAAAATTTAAGCCACCCTTTTCGAGTTTTCAACTC
AAATCCC
Found at i:5988362 original size:11 final size:11
Alignment explanation
Indices: 5988319--5988366 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
5988309 GGCCTCTACT
*
5988319 TTTTCTTTTCC
1 TTTTCTTTTTC
5988330 TTTTCTTTTTCC
1 TTTTCTTTTT-C
* *
5988342 TTCTCTTTTTA
1 TTTTCTTTTTC
5988353 TTTTCTTTTT-
1 TTTTCTTTTTC
5988363 TTTT
1 TTTT
5988367 ATCATTTTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
10 4 0.12
11 18 0.56
12 10 0.31
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:5988374 original size:23 final size:24
Alignment explanation
Indices: 5988324--5988379 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 24
5988314 CTACTTTTTC
* *
5988324 TTTTCCTTTTCTTTTTCCTTCTC-
1 TTTTCATTTTCTTTTTCCTTATCA
* **
5988347 TTTTTATTTTCTTTTTTTTTATCA
1 TTTTCATTTTCTTTTTCCTTATCA
5988371 TTTTCATTT
1 TTTTCATTT
5988380 CCAATTTTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
23 18 0.69
24 8 0.31
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.75
Consensus pattern (24 bp):
TTTTCATTTTCTTTTTCCTTATCA
Found at i:5988402 original size:28 final size:29
Alignment explanation
Indices: 5988371--5988431 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
5988361 TTTTTTATCA
5988371 TTTTCA-TTTCCAATTTTTTTGAAATATT
1 TTTTCATTTTCCAATTTTTTTGAAATATT
* ***
5988399 TTTTGATTTTTTTATTTTTTTGAAATATT
1 TTTTCATTTTCCAATTTTTTTGAAATATT
5988428 TTTT
1 TTTT
5988432 GATTGGATCT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 5 0.18
29 23 0.82
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.69
Consensus pattern (29 bp):
TTTTCATTTTCCAATTTTTTTGAAATATT
Found at i:6002457 original size:17 final size:16
Alignment explanation
Indices: 6002437--6002468 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
6002427 AGAAATTATG
6002437 ATAATTATATATTTAAA
1 ATAATTATA-ATTTAAA
6002454 ATAATTATAATTTAA
1 ATAATTATAATTTAA
6002469 TAGAAGTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATAATTATAATTTAAA
Found at i:6006674 original size:84 final size:84
Alignment explanation
Indices: 6006566--6006735 Score: 277
Period size: 84 Copynumber: 2.0 Consensus size: 84
6006556 TCACTAATTT
* * * *
6006566 ACATAATAAATCTTCCAAACACGCATCAAGAATGGGATTAAAAACATGAAACTTTTATGGCTTGT
1 ACATAATAAATCATCCAAAAACGCATCAAAAATGGGATTAAAAACATGAAACTTTTATGGCTTAT
*
6006631 CGGACATCGGGATCAATAA
66 CAGACATCGGGATCAATAA
**
6006650 ACATAATAAATCATCCAAAAACGCATCAAAAATGGGATTAAAAACATGCTACTTTTATGGCTTAT
1 ACATAATAAATCATCCAAAAACGCATCAAAAATGGGATTAAAAACATGAAACTTTTATGGCTTAT
6006715 CAGACATCGGGATCAATAA
66 CAGACATCGGGATCAATAA
6006734 AC
1 AC
6006736 CCTAAACCTA
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
84 79 1.00
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.25
Consensus pattern (84 bp):
ACATAATAAATCATCCAAAAACGCATCAAAAATGGGATTAAAAACATGAAACTTTTATGGCTTAT
CAGACATCGGGATCAATAA
Found at i:6008847 original size:19 final size:18
Alignment explanation
Indices: 6008825--6008878 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 18
6008815 TTTTTTACAT
6008825 TATTATTGTT-TTATGGTAC
1 TATTATTGTTATTAT--TAC
6008844 TATTACTTGTTTATTATTAC
1 TATTA-TTG-TTATTATTAC
6008864 TATTATTGTCTATTA
1 TATTATTGT-TATTA
6008879 CTATTACTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
18 1 0.03
19 13 0.42
20 11 0.35
21 2 0.06
22 4 0.13
ACGTcount: A:0.24, C:0.07, G:0.09, T:0.59
Consensus pattern (18 bp):
TATTATTGTTATTATTAC
Found at i:6008864 original size:20 final size:19
Alignment explanation
Indices: 6008841--6008878 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
6008831 TGTTTTATGG
*
6008841 TACTATTACTTGTTTATTAT
1 TACTATTA-TTGTCTATTAT
6008861 TACTATTATTGTCTATTA
1 TACTATTATTGTCTATTA
6008879 CTATTACTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.26, C:0.11, G:0.05, T:0.58
Consensus pattern (19 bp):
TACTATTATTGTCTATTAT
Found at i:6010529 original size:22 final size:22
Alignment explanation
Indices: 6010503--6010551 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
6010493 TGGGAACTTG
6010503 CCCTAGGTAGAGCTATACCAAA
1 CCCTAGGTAGAGCTATACCAAA
*
6010525 CCCTAGGTGGAGCTATACCAAA
1 CCCTAGGTAGAGCTATACCAAA
6010547 CCCTA
1 CCCTA
6010552 CGGGATTCCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.33, C:0.31, G:0.18, T:0.18
Consensus pattern (22 bp):
CCCTAGGTAGAGCTATACCAAA
Found at i:6014911 original size:132 final size:131
Alignment explanation
Indices: 6014740--6015400 Score: 864
Period size: 132 Copynumber: 5.0 Consensus size: 131
6014730 GGGGAGCAGT
* *
6014740 TTGAAGATTAT-AGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATCGAAAATGGTGGATTTTAC
1 TTGAAGATT-TCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATGGTGGATTTTAC
* * * *
6014804 CTCCTTGAGGTTACAGTGGAGTACATTGAAGCCACTAATTCTATCTCCCTGGGCAACAGTGGAAT
65 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA-CTCCCTGGGCAGCAGCGGAAT
6014869 AGA
129 AGA
* * * * **
6014872 TTGAAGATTACAGATCTTATCTCCCTAAGCATTAGTGGAGCAGGTC-AAAGATGGCAGATTTTAC
1 TTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAA-ATGGTGGATTTTAC
* * *
6014936 CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCGGTAATTCTACTTCCCTAGGCAGCAGCGGAAT
65 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTAC-TCCCTGGGCAGCAGCGGAAT
6015001 AGA
129 AGA
* * * * *
6015004 TTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTAGTAGAGCAGGTCGAAGATGGCGGATTTTACC
1 TTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATGGTGGATTTTACC
* *
6015069 TCCCTGAAGTTGCAGTGGAGTACATTGAAGCCAGTAATTCTACCTCCCTGGGCAGCAGCGGAATA
66 TCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA-CTCCCTGGGCAGCAGCGGAATA
6015134 GA
130 GA
* * *
6015136 TTAAAGATTTCAGATCTTGTCTCCCCAAGCAGTAGTGGAGCAGATC-AAAGATGGTGAATTTTAC
1 TTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAA-ATGGTGGATTTTAC
*
6015200 CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGCGGAAT
65 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTAC-TCCCTGGGCAGCAGCGGAAT
6015265 AGA
129 AGA
* * * * *
6015268 TTGAAGATTTCAGATCTTGCCTTCCT--GCATAGATAGTGAAGCAGATCGAAGATGGTAGATTTT
1 TTGAAGATTTCAGATCTTGTCTCCCTAAGC--AG-TAGTGGAGCAGATCGAAAATGGTGGATTTT
* * * * *
6015331 ACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGCAATTCTATCTTCCAGGGCAACAGTGGA
63 ACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA-CTCCCTGGGCAGCAGCGGA
6015396 ATAGA
127 ATAGA
6015401 CAGAAGAAAT
Statistics
Matches: 467, Mismatches: 50, Indels: 23
0.86 0.09 0.04
Matches are distributed among these distances:
130 2 0.00
131 7 0.01
132 367 0.79
133 88 0.19
134 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (131 bp):
TTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATGGTGGATTTTACC
TCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTCCCTGGGCAGCAGCGGAATAG
A
Found at i:6015210 original size:264 final size:264
Alignment explanation
Indices: 6014740--6015400 Score: 981
Period size: 264 Copynumber: 2.5 Consensus size: 264
6014730 GGGGAGCAGT
** * * *
6014740 TTGAAGATTAT-AGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATCGAAAATGGTGGATTTTAC
1 TTGAAGATT-TCAGATCTTGCCTCCCTAAGCAGTAGTAGAGCAGATCGAAGATGGTGGATTTTAC
* *
6014804 CTCCTTGAGGTTACAGTGGAGTACATTGAAGCCACTAATTCTATCTCCCTGGGCAACAGTGGAAT
65 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAACAGTGGAAT
* * * *
6014869 AGATTGAAGATTACAGATCTTATCTCCCTAAGCATTAGTGGAGCAGGTCAAAGATGGCAGATTTT
130 AGATTAAAGATTACAGATCTTATCTCCCCAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTT
*
6014934 ACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCGGTAATTCTACTTCCCTAGGCAGCAGCGGA
195 ACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTAGGCAGCAGCGGA
6014999 ATAGA
260 ATAGA
* *
6015004 TTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTAGTAGAGCAGGTCGAAGATGGCGGATTTTACC
1 TTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTAGTAGAGCAGATCGAAGATGGTGGATTTTACC
* * * * *
6015069 TCCCTGAAGTTGCAGTGGAGTACATTGAAGCCAGTAATTCTACCTCCCTGGGCAGCAGCGGAATA
66 TCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAACAGTGGAATA
* * *
6015134 GATTAAAGATTTCAGATCTTGTCTCCCCAAGCAGTAGTGGAGCAGATCAAAGATGG-TGAATTTT
131 GATTAAAGATTACAGATCTTATCTCCCCAAGCAGTAGTGGAGCAGATCAAAGATGGCAG-ATTTT
*
6015198 ACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGCGGA
195 ACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTAGGCAGCAGCGGA
6015263 ATAGA
260 ATAGA
* *
6015268 TTGAAGATTTCAGATCTTGCCTTCCT--GCA-TAGATAGTGAAGCAGATCGAAGATGGTAGATTT
1 TTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTAG-TA--G-AGCAGATCGAAGATGGTGGATTT
* * *
6015330 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGCAATTCTATCTTCCAGGGCAACAGTGG
62 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAACAGTGG
6015395 AATAGA
127 AATAGA
6015401 CAGAAGAAAT
Statistics
Matches: 356, Mismatches: 35, Indels: 11
0.89 0.09 0.03
Matches are distributed among these distances:
261 3 0.01
262 5 0.01
263 2 0.01
264 263 0.74
265 83 0.23
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (264 bp):
TTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTAGTAGAGCAGATCGAAGATGGTGGATTTTACC
TCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAACAGTGGAATA
GATTAAAGATTACAGATCTTATCTCCCCAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTA
CCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTAGGCAGCAGCGGAA
TAGA
Found at i:6016951 original size:19 final size:20
Alignment explanation
Indices: 6016920--6016960 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
6016910 TGTTTTATGG
*
6016920 TACTATTACTTGTTTATTAT
1 TACTATTACTTGTCTATTAT
6016940 TACTATTA-TTGTCTATTAT
1 TACTATTACTTGTCTATTAT
6016959 TA
1 TA
6016961 TTACTAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.27, C:0.10, G:0.05, T:0.59
Consensus pattern (20 bp):
TACTATTACTTGTCTATTAT
Found at i:6027293 original size:3 final size:3
Alignment explanation
Indices: 6027287--6027316 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
6027277 TTCTTTTCTT
6027287 TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
6027317 ACATTTTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:6028107 original size:25 final size:25
Alignment explanation
Indices: 6028073--6028131 Score: 118
Period size: 25 Copynumber: 2.4 Consensus size: 25
6028063 CCACTACATC
6028073 CTAGTTGAACTAGGATTTTGTTTTA
1 CTAGTTGAACTAGGATTTTGTTTTA
6028098 CTAGTTGAACTAGGATTTTGTTTTA
1 CTAGTTGAACTAGGATTTTGTTTTA
6028123 CTAGTTGAA
1 CTAGTTGAA
6028132 ATAAACTTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.25, C:0.08, G:0.20, T:0.46
Consensus pattern (25 bp):
CTAGTTGAACTAGGATTTTGTTTTA
Found at i:6028848 original size:30 final size:30
Alignment explanation
Indices: 6028807--6028864 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
6028797 CTGGGCATTT
* * *
6028807 CCACACAGGCTGGGCACATGCCCGTGTGAG
1 CCACACAGGCTGGCCACACGCCCATGTGAG
*
6028837 CCACACGGGCTGGCCACACGCCCATGTG
1 CCACACAGGCTGGCCACACGCCCATGTG
6028865 CCTGTCCCTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.19, C:0.38, G:0.31, T:0.12
Consensus pattern (30 bp):
CCACACAGGCTGGCCACACGCCCATGTGAG
Found at i:6041483 original size:45 final size:45
Alignment explanation
Indices: 6041414--6041830 Score: 399
Period size: 45 Copynumber: 9.3 Consensus size: 45
6041404 GTACTGGCGT
* *
6041414 GAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGGC
1 GAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCATACTGGTGGC
** * *** * *
6041459 GAAGTAGATTGAAGAAAACGGATCTTGTCTTCATGTACTGG-CGT
1 GAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCATACTGGTGGC
*
6041503 AAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCATACTGGTGGC
1 GAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCATACTGGTGGC
* * * *
6041548 AAAGTAGATCAAAGATAACAAATCTTGTCTTCCCATACTGGTGGT
1 GAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCATACTGGTGGC
* *** * *
6041593 GAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTGG-CGT
1 GAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCATACTGGTGGC
* **
6041637 GAAGTAGATCAAAGATAGTAGATCTTGTCTTCCCATACTGGTGGC
1 GAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCATACTGGTGGC
* * * *** * *
6041682 GAAGTAGATCGAAGAAAACGGATATTGTCTTCATGTACTGG-CGT
1 GAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCATACTGGTGGC
* * *
6041726 GAAGTAGATCAAAGATAATAGATCTTGTCTTCCCATACTGATGGC
1 GAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCATACTGGTGGC
* ** * * ** * ** *
6041771 GAAGTAGGTCGGAGATAGCAGATCTTGTCTTCCTGTATTGGCAGT
1 GAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCATACTGGTGGC
6041816 GAAGTAGATCAAAGA
1 GAAGTAGATCAAAGA
6041831 TATCAGTCTT
Statistics
Matches: 293, Mismatches: 76, Indels: 6
0.78 0.20 0.02
Matches are distributed among these distances:
44 104 0.35
45 189 0.65
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.28
Consensus pattern (45 bp):
GAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCATACTGGTGGC
Found at i:6041541 original size:89 final size:89
Alignment explanation
Indices: 6041389--6041757 Score: 350
Period size: 89 Copynumber: 4.1 Consensus size: 89
6041379 GAGTAGCAGT
* * *
6041389 AGATCTTATCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTG
1 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCATACTG
* **
6041454 GTGGCGAAGTAGATTGAAGAAAAC
66 GTGGCAAAGTAGATCAAAGAAAAC
* *
6041478 GGATCTTGTCTTCATGTACTGGCGTAAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCATACTG
1 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCATACTG
*
6041543 GTGGCAAAGTAGATCAAAGATAAC
66 GTGGCAAAGTAGATCAAAGAAAAC
* *** * * ***
6041567 AAATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACT
1 AGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCATACT
* * **
6041632 GGCGTG--AAGTAGATCAAAGATAGT
65 GGTG-GCAAAGTAGATCAAAGAAAAC
*** * * * * * ***
6041656 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACGGATATTGTCTTCATGTACT
1 AGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCATACT
* * *
6041721 GGCGTG--AAGTAGATCAAAGATAAT
65 GGTG-GCAAAGTAGATCAAAGAAAAC
6041745 AGATCTTGTCTTC
1 AGATCTTGTCTTC
6041758 CCATACTGAT
Statistics
Matches: 250, Mismatches: 28, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
89 210 0.84
90 39 0.16
91 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (89 bp):
AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCATACTG
GTGGCAAAGTAGATCAAAGAAAAC
Found at i:6041660 original size:134 final size:134
Alignment explanation
Indices: 6041415--6041757 Score: 490
Period size: 134 Copynumber: 2.6 Consensus size: 134
6041405 TACTGGCGTG
* * * *
6041415 AAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATTGAAGAAAACGG
1 AAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAACAG
6041480 ATCTTGTCTTCATGTACTGGCGTAAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCATACTGGT
66 ATCTTGTCTTCATGTACTGGCGTAAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCATACTGGT
6041545 GGCA
131 GGCA
*
6041549 AAGTAGATCAAAGATAACAAATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAACAG
1 AAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAACAG
* * **
6041614 ATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGTAGATCTTGTCTTCCCATACTGGT
66 ATCTTGTCTTCATGTACTGGCGTAAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCATACTGGT
*
6041679 GGCG
131 GGCA
* * * * *** * * * *
6041683 AAGTAGATCGAAGAAAACGGATATTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGATAATAG
1 AAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAACAG
6041747 ATCTTGTCTTC
66 ATCTTGTCTTC
6041758 CCATACTGAT
Statistics
Matches: 187, Mismatches: 22, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
133 31 0.17
134 156 0.83
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (134 bp):
AAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAACAG
ATCTTGTCTTCATGTACTGGCGTAAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCATACTGGT
GGCA
Found at i:6041758 original size:89 final size:89
Alignment explanation
Indices: 6041504--6041832 Score: 462
Period size: 89 Copynumber: 3.7 Consensus size: 89
6041494 TACTGGCGTA
* *** * *
6041504 AAGTAGATCAAAGAAAACAGATCTTGTCTTCCCATACTGGTG-GCAAAGTAGATCAAAGATAACA
1 AAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTGGCGTG--AAGTAGATCAAAGATAATA
* *
6041568 AATCTTGTCTTCCCATACTGGTGGTG
64 GATCTTGTCTTCCCATACTGGTGGCG
*
6041594 AAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGTAGA
1 AAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAATAGA
6041659 TCTTGTCTTCCCATACTGGTGGCG
66 TCTTGTCTTCCCATACTGGTGGCG
* *
6041683 AAGTAGATCGAAGAAAACGGATATTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAATAGA
1 AAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAATAGA
*
6041748 TCTTGTCTTCCCATACTGATGGCG
66 TCTTGTCTTCCCATACTGGTGGCG
* * * * * *
6041772 AAGTAGGTCGGAGATAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCAAAGATA
1 AAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTGGC-GTGAAGTAGATCAAAGATA
6041833 TCAGTCTTAT
Statistics
Matches: 216, Mismatches: 21, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
89 159 0.74
90 56 0.26
91 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (89 bp):
AAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAATAGA
TCTTGTCTTCCCATACTGGTGGCG
Found at i:6041775 original size:134 final size:134
Alignment explanation
Indices: 6041415--6041803 Score: 413
Period size: 134 Copynumber: 2.9 Consensus size: 134
6041405 TACTGGCGTG
* * * * * * * ** *
6041415 AAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATTGAAGAAAACGG
1 AAGTAGATCAAAGAAAACAAATATTGTCTTCACATACTGGTCGTGAAGTAGATCAAAGAAAACAG
** ** * *
6041480 ATCTTGTCTTCATGTACTGGCGTAAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCATACTGGT
66 ATCTTGTCTTCACATACTGGCGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGT
6041545 GGCA
131 GGCA
* * * * *
6041549 AAGTAGATCAAAGATAACAAATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAACAG
1 AAGTAGATCAAAGAAAACAAATATTGTCTTCACATACTGGTCGTGAAGTAGATCAAAGAAAACAG
** * *
6041614 ATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGTAGATCTTGTCTTCCCATACTGGT
66 ATCTTGTCTTCACATACTGGCGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGT
*
6041679 GGCG
131 GGCA
* ** ** * *
6041683 AAGTAGATCGAAGAAAACGGATATTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGATAATAG
1 AAGTAGATCAAAGAAAACAAATATTGTCTTCACATACTGGTCGTGAAGTAGATCAAAGAAAACAG
* * **
6041747 ATCTTGTCTTCCCATACTGATG-GCGAAGTAGGTCGGAGATAGCAGATCTTGTCTTCC
66 ATCTTGTCTTCACATACTG--GCGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCC
6041804 TGTATTGGCA
Statistics
Matches: 223, Mismatches: 30, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
133 36 0.16
134 186 0.83
135 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (134 bp):
AAGTAGATCAAAGAAAACAAATATTGTCTTCACATACTGGTCGTGAAGTAGATCAAAGAAAACAG
ATCTTGTCTTCACATACTGGCGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGT
GGCA
Found at i:6041798 original size:223 final size:223
Alignment explanation
Indices: 6041389--6041844 Score: 707
Period size: 223 Copynumber: 2.0 Consensus size: 223
6041379 GAGTAGCAGT
6041389 AGATCTTATCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTG
1 AGATCTTATCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTG
* *
6041454 GTGGCGAAGTAGATTGAAGAAAACGGATCTTGTCTTCATGTACTGGCGTAAAGTAGATCAAAGAA
66 GTGGCGAAGTAGATCGAAGAAAACGGATATTGTCTTCATGTACTGGCGTAAAGTAGATCAAAGAA
*
6041519 AACAGATCTTGTCTTCCCATACTGGTGGCAAAGTAGATCAAAGATAACAAATCTTGTCTTCCCAT
131 AACAGATCTTGTCTTCCCATACTGATGGCAAAGTAGATCAAAGATAACAAATCTTGTCTTCCCAT
** *
6041584 ACTGGTGGTGAAGTAGATCGAAGAAAAC
196 ACTGGCAGTGAAGTAGATCAAAGAAAAC
* *
6041612 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGTAGATCTTGTCTTCCCATACTG
1 AGATCTTATCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTG
* *
6041677 GTGGCGAAGTAGATCGAAGAAAACGGATATTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAT
66 GTGGCGAAGTAGATCGAAGAAAACGGATATTGTCTTCATGTACTGGCGTAAAGTAGATCAAAGAA
* * * ** * * **
6041742 AATAGATCTTGTCTTCCCATACTGATGGCGAAGTAGGTCGGAGATAGCAGATCTTGTCTTCCTGT
131 AACAGATCTTGTCTTCCCATACTGATGGCAAAGTAGATCAAAGATAACAAATCTTGTCTTCCCAT
* * *
6041807 ATTGGCAGTGAAGTAGATCAAAGATATC
196 ACTGGCAGTGAAGTAGATCAAAGAAAAC
6041835 AG-TCTTATCT
1 AGATCTTATCT
6041845 CCCCGACATT
Statistics
Matches: 210, Mismatches: 23, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
222 7 0.03
223 203 0.97
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (223 bp):
AGATCTTATCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTG
GTGGCGAAGTAGATCGAAGAAAACGGATATTGTCTTCATGTACTGGCGTAAAGTAGATCAAAGAA
AACAGATCTTGTCTTCCCATACTGATGGCAAAGTAGATCAAAGATAACAAATCTTGTCTTCCCAT
ACTGGCAGTGAAGTAGATCAAAGAAAAC
Found at i:6043012 original size:3 final size:3
Alignment explanation
Indices: 6042999--6043058 Score: 50
Period size: 3 Copynumber: 19.7 Consensus size: 3
6042989 ATTTTCTCCC
* * *
6042999 ATT ATTT ATT ATT ATT GTT A-T ATT ATTT ATT ATC ATC ATT ATT ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT
* *
6043045 TTT ATT ATT TTT AT
1 ATT ATT ATT ATT AT
6043059 ATTTGTACAT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
2 2 0.04
3 38 0.83
4 6 0.13
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:6043043 original size:24 final size:21
Alignment explanation
Indices: 6042999--6043061 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
6042989 ATTTTCTCCC
*
6042999 ATTATTTATTATTATTGTTAT
1 ATTATTTATTATTATTATTAT
* *
6043020 ATTATTTATTATCATCA-T-T
1 ATTATTTATTATTATTATTAT
*
6043039 ATTATTT-TTATTATTTTTAT
1 ATTATTTATTATTATTATTAT
6043059 ATT
1 ATT
6043062 TGTACATACG
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
18 6 0.18
19 9 0.26
20 5 0.15
21 14 0.41
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.67
Consensus pattern (21 bp):
ATTATTTATTATTATTATTAT
Found at i:6043061 original size:8 final size:9
Alignment explanation
Indices: 6042999--6043062 Score: 58
Period size: 9 Copynumber: 6.8 Consensus size: 9
6042989 ATTTTCTCCC
6042999 ATTATTTATT
1 ATTATTT-TT
6043009 ATTATTGTTAT
1 ATTATT-TT-T
6043020 ATTATTTATT
1 ATTATTT-TT
* **
6043030 ATCATCATT
1 ATTATTTTT
6043039 ATTATTTTT
1 ATTATTTTT
6043048 ATTATTTTT
1 ATTATTTTT
6043057 A-TATTT
1 ATTATTT
6043063 GTACATACGC
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
8 5 0.11
9 18 0.40
10 13 0.29
11 9 0.20
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (9 bp):
ATTATTTTT
Found at i:6046756 original size:50 final size:50
Alignment explanation
Indices: 6046632--6046880 Score: 268
Period size: 50 Copynumber: 4.8 Consensus size: 50
6046622 GATAATAACA
* * * * *
6046632 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGG-CTGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGAC--CTCTCAT-CTCGG
* *
6046683 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
6046733 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
6046783 TGCCCATGCCATGTCCCAGACATGGTCTTACTGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
6046838 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
6046881 TTACCCAAAT
Statistics
Matches: 168, Mismatches: 22, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.54
51 32 0.19
52 1 0.01
53 2 0.01
54 1 0.01
55 2 0.01
56 38 0.23
ACGTcount: A:0.20, C:0.30, G:0.24, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:6046809 original size:100 final size:104
Alignment explanation
Indices: 6046631--6046880 Score: 343
Period size: 100 Copynumber: 2.4 Consensus size: 104
6046621 TGATAATAAC
*
6046631 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGG-CTGTTCTCGTGATGGTGCCCATGCCAT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGAC--CTCTCGTGATGGTGCCCATGCCAT
*
6046695 GTCCCAGACATGGTCTTA-TAGGGGACCTCTC-ATC-T-CGG
64 GTCCCAGACATGGTCTTACT-GGGGACCTCTCAATCTTAAGG
* *
6046733 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
6046796 TCCCAGACATGGTCTTACTGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACTGGGGACCTCTCA--ATCTTAAGG
* *
6046838 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
6046881 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 6, Indels: 14
0.87 0.04 0.09
Matches are distributed among these distances:
99 1 0.01
100 49 0.37
101 36 0.27
102 1 0.01
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.20, C:0.30, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACTGGGGACCTCTCAATCTTAAGG
Found at i:6046996 original size:13 final size:13
Alignment explanation
Indices: 6046975--6047006 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
6046965 GCTTGGATCA
*
6046975 TCATCAAATAAAT
1 TCATAAAATAAAT
6046988 TCATAAAATAAAT
1 TCATAAAATAAAT
6047001 TCATAA
1 TCATAA
6047007 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:6047253 original size:30 final size:30
Alignment explanation
Indices: 6047218--6047275 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
6047208 CCTCGACTCT
*
6047218 AACTTTTTCAAAATTACAATTTTACCCCTA
1 AACTTTTACAAAATTACAATTTTACCCCTA
* * *
6047248 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTACCCC
6047276 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.33, C:0.24, G:0.02, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTACCCCTA
Found at i:6049932 original size:21 final size:21
Alignment explanation
Indices: 6049907--6049948 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
6049897 GCAAATGTTC
6049907 TTTCATTCTTT-ACGATTTTTT
1 TTTCATTCTTTCA-GATTTTTT
6049928 TTTCATTCTTTCAGATTTTTT
1 TTTCATTCTTTCAGATTTTTT
6049949 CTGCCAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.14, C:0.14, G:0.05, T:0.67
Consensus pattern (21 bp):
TTTCATTCTTTCAGATTTTTT
Found at i:6051329 original size:13 final size:13
Alignment explanation
Indices: 6051311--6051335 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6051301 TAAATCAATT
6051311 TCTTTGTTATCCA
1 TCTTTGTTATCCA
6051324 TCTTTGTTATCC
1 TCTTTGTTATCC
6051336 TCGACAATTT
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:0.12, C:0.24, G:0.08, T:0.56
Consensus pattern (13 bp):
TCTTTGTTATCCA
Found at i:6052240 original size:44 final size:44
Alignment explanation
Indices: 6052191--6052401 Score: 147
Period size: 44 Copynumber: 4.8 Consensus size: 44
6052181 CCAGTAATTC
* * *
6052191 TATCTCCCTGGGCAACAGTGGAATAGATTGAAGGTTACAAATCT
1 TATCTCCCTGGGCAGCAGTGGAGTAGATTGAAGATTACAAATCT
** * * * ** ** *
6052235 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTT
1 TATCTCCCTGGGCAGCAGTGGAGTAGATTGAAGATTACAAATCT
* * * * *** * *
6052279 TACCTCCCTGAGGTTA-CAGTGGAGTACATTAAAGCCAATAATTC-
1 TATCTCCCTG-GG-CAGCAGTGGAGTAGATTGAAGATTACAAATCT
* *
6052323 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCT
1 TATCTCCCTGGGCAGCAGTGGAGTAGATTGAAGATTACAAATCT
* * *
6052367 TATCTCCCTAGGCAGTAGTGGAGTAGATCGAAGAT
1 TATCTCCCTGGGCAGCAGTGGAGTAGATTGAAGAT
6052402 GAAAGATTTT
Statistics
Matches: 117, Mismatches: 46, Indels: 8
0.68 0.27 0.05
Matches are distributed among these distances:
42 1 0.01
43 21 0.18
44 79 0.68
45 15 0.13
46 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.27
Consensus pattern (44 bp):
TATCTCCCTGGGCAGCAGTGGAGTAGATTGAAGATTACAAATCT
Found at i:6052342 original size:132 final size:132
Alignment explanation
Indices: 6052135--6052488 Score: 546
Period size: 132 Copynumber: 2.7 Consensus size: 132
6052125 GGAGCAGGTT
*
6052135 GATGGCGGATTTTACCTCCCTAAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
1 GATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
* *
6052200 GGGCAACAGTGGAATAGATTGAAGGTTACAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
66 GGGCAGCAGTGGAATAGATTGAAGATTACAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
6052265 AA
131 AA
* *
6052267 GATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTAAAGCCAATAATTCTATCTCCCT
1 GATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
* * *
6052332 GGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGGAGTAGATCG
66 GGGCAGCAGTGGAATAGATTGAAGATTACAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
6052397 AA
131 AA
*** * * *
6052399 GATGAAAGATTTTACCTCCCTGAGGTTACAGTAGAGTATATTGAAGCCAGTAATTTTATCTCCCT
1 GATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
* * * *
6052464 GGTCGGCAGTGGAATCGATCGAAGA
66 GGGCAGCAGTGGAATAGATTGAAGA
6052489 AAGCAGATCT
Statistics
Matches: 202, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
132 202 1.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (132 bp):
GATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
GGGCAGCAGTGGAATAGATTGAAGATTACAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
AA
Found at i:6052544 original size:132 final size:131
Alignment explanation
Indices: 6052142--6052566 Score: 509
Period size: 132 Copynumber: 3.2 Consensus size: 131
6052132 GTTGATGGCG
* *
6052142 GATTTTACCTCCCTAAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAAC
1 GATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGC
* * * *
6052207 AGTGGAATAGATTGAAGGTTACAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGG
66 AGTGGAATAGATTGAA-GATACAGATCTTATCTCCCT-AGCAGTAGTGGAGTAGATCGAAGATGA
*
6052272 C-G
129 CAA
* *
6052274 GATTTTACCTCCCTGAGGTTACAGTGGAGTACATTAAAGCCAATAATTCTATCTCCCTGGGCAGC
1 GATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGC
6052339 AGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGGAGTAGATCGAAGATGA
66 AGTGGAATAGATTGAAGA-TACAGATCTTATCTCCCTA-GCAGTAGTGGAGTAGATCGAAGATGA
6052404 -AA
129 CAA
* * * * *
6052406 GATTTTACCTCCCTGAGGTTACAGTAGAGTATATTGAAGCCAGTAATTTTATCTCCCTGGTCGGC
1 GATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGC
* * * * * * * *
6052471 AGTGGAATCGATCGAAGAAAGCAGATCTTGTCTTCCCATA-CTGGTGGCGAAGTAGATCGAAGAT
66 AGTGGAATAGATTGAAGATA-CAGATCTTATC-TCCC-TAGC-AGTAGTGGAGTAGATCGAAGAT
6052535 -ACAA
127 GACAA
* * * *
6052539 G-TTTTATCTCCTTGAAGTTGCAGTGGAG
1 GATTTTACCTCCCTGAGGTTACAGTGGAG
6052567 CGGACAGAAA
Statistics
Matches: 256, Mismatches: 29, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
131 3 0.01
132 226 0.88
133 25 0.10
134 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (131 bp):
GATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGC
AGTGGAATAGATTGAAGATACAGATCTTATCTCCCTAGCAGTAGTGGAGTAGATCGAAGATGACA
A
Found at i:6055617 original size:29 final size:28
Alignment explanation
Indices: 6055557--6055644 Score: 97
Period size: 29 Copynumber: 3.1 Consensus size: 28
6055547 ATTTTGTTAG
* *
6055557 ATAAGTCCTTATACTTTTATTAACCCAA
1 ATAAGTCCTTAAACTTTAATTAACCCAA
6055585 ATAAG-CCTTAAACTTTAATTTATACCCAA
1 ATAAGTCCTTAAACTTTAA-TTA-ACCCAA
* * *
6055614 ATAAATCTTTTAACTTTTAATTAACCCAA
1 ATAAGTCCTTAAAC-TTTAATTAACCCAA
6055643 AT
1 AT
6055645 GGGGCTTATT
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
27 11 0.22
28 8 0.16
29 18 0.35
30 9 0.18
31 5 0.10
ACGTcount: A:0.40, C:0.19, G:0.02, T:0.39
Consensus pattern (28 bp):
ATAAGTCCTTAAACTTTAATTAACCCAA
Found at i:6058642 original size:29 final size:30
Alignment explanation
Indices: 6058589--6058645 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
6058579 TCCGAGCCTT
*
6058589 GGGGCAAAAATATAATTATGTAAAAGTTTA
1 GGGGCAAAAATATAATTATGAAAAAGTTTA
* *
6058619 GGGGCAAAATTGTAATT-TGAAAAAGTT
1 GGGGCAAAAATATAATTATGAAAAAGTT
6058646 AGAGTCGAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.44, C:0.04, G:0.23, T:0.30
Consensus pattern (30 bp):
GGGGCAAAAATATAATTATGAAAAAGTTTA
Found at i:6058876 original size:13 final size:13
Alignment explanation
Indices: 6058858--6058888 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
6058848 TTCCAGCAAC
6058858 TATGAATTTATTT
1 TATGAATTTATTT
6058871 TATGAATTTATTT
1 TATGAATTTATTT
*
6058884 GATGA
1 TATGA
6058889 TGATCTAAGC
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:0.00, G:0.13, T:0.55
Consensus pattern (13 bp):
TATGAATTTATTT
Done.