Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 28 of 199
Found at i:8192214 original size:97 final size:97
Alignment explanation
Indices: 8192048--8192307 Score: 403
Period size: 97 Copynumber: 2.7 Consensus size: 97
8192038 ATCGATATCA
* *
8192048 CAACACATTTAAATCAACAGAAAAAGACTAACTTTTCTCGAATGTGTTTCAAATTCAGGATTTAG
1 CAACACATTTAAATCAACAGAAAACGACTAATTTTTCTCGAATGTGTTTCAAATTCAGGATTTAG
*
8192113 CCATTAAGTTCGCGAAGAATTATTAAGGCTTT
66 CCATTAAGTTCGCGAAGAACTATTAAGGCTTT
* *
8192145 CAACACATTTAAAGCAACAGAAATCGACTAATTTTTCTCGAATGTGTTTCAAATTCAGGATTTAG
1 CAACACATTTAAATCAACAGAAAACGACTAATTTTTCTCGAATGTGTTTCAAATTCAGGATTTAG
*
8192210 CCATTATGTTCGCGAAGAACTATTAAGGCTTT
66 CCATTAAGTTCGCGAAGAACTATTAAGGCTTT
* * * * * * *
8192242 CAACGCATTTAAATCAACAGAAACCGACTAATTTTTCTCCAATCTATTTCAAATTTAGGGTTTAG
1 CAACACATTTAAATCAACAGAAAACGACTAATTTTTCTCGAATGTGTTTCAAATTCAGGATTTAG
8192307 C
66 C
8192308 AATCAGGTGT
Statistics
Matches: 149, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
97 149 1.00
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (97 bp):
CAACACATTTAAATCAACAGAAAACGACTAATTTTTCTCGAATGTGTTTCAAATTCAGGATTTAG
CCATTAAGTTCGCGAAGAACTATTAAGGCTTT
Found at i:8197988 original size:11 final size:11
Alignment explanation
Indices: 8197890--8197986 Score: 78
Period size: 11 Copynumber: 9.2 Consensus size: 11
8197880 TCATTTCTTT
8197890 AATTTCCTCTC
1 AATTTCCTCTC
8197901 AATTTCCTCTC
1 AATTTCCTCTC
**
8197912 AATTTGGTCTC
1 AATTTCCTCTC
*
8197923 AATTTCGTCTC
1 AATTTCCTCTC
*
8197934 AA-ATCCT-T-
1 AATTTCCTCTC
* **
8197942 -ACTTAATCTC
1 AATTTCCTCTC
*
8197952 AATTTGCTCTC
1 AATTTCCTCTC
8197963 AATTTCCTCTC
1 AATTTCCTCTC
8197974 AAATTT-CTCTC
1 -AATTTCCTCTC
8197985 AA
1 AA
8197987 ATCCCTATTT
Statistics
Matches: 69, Mismatches: 12, Indels: 11
0.75 0.13 0.12
Matches are distributed among these distances:
7 1 0.01
8 2 0.03
9 2 0.03
10 5 0.07
11 54 0.78
12 5 0.07
ACGTcount: A:0.24, C:0.29, G:0.04, T:0.43
Consensus pattern (11 bp):
AATTTCCTCTC
Found at i:8199815 original size:18 final size:18
Alignment explanation
Indices: 8199792--8199834 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
8199782 TGCCAGGTGC
* *
8199792 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
*
8199810 GTATCCAAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
8199828 GTTTCCT
1 GTATCCT
8199835 TTTTCGAGTC
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.28, G:0.09, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:8203675 original size:126 final size:126
Alignment explanation
Indices: 8203450--8203861 Score: 650
Period size: 126 Copynumber: 3.3 Consensus size: 126
8203440 ATTTATAGCC
* * * *
8203450 TCAGGAGTTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAG
1 TCAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGAAGTTTTTTTCAGTACTTCTGCTGACAAAG
* *
8203515 CATCCTGCTTAAAGCGTTTTTTACACTGTTTGCTCAAAAACGTCTACTCGAAATTATTTTT
66 CATCCTGCTTAAAGCGTTTTTGACACTGTTTGCTCAGAAACGTCTACTCGAAATTATTTTT
*
8203576 TCAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGAAGTTTTTTTCAGTACTTCTGCTAACAAAG
1 TCAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGAAGTTTTTTTCAGTACTTCTGCTGACAAAG
* * *
8203641 CATCCTACTCAAAGCGTTTTTGACACTGTTTGCTCAGAAACGTCTATTCGAAATTATTTTT
66 CATCCTGCTTAAAGCGTTTTTGACACTGTTTGCTCAGAAACGTCTACTCGAAATTATTTTT
* *
8203702 TCAGGAGCTACTGTAGCAAAAGCGCGTTCATGT-GAGAGCTTTTTTT-AGTACTTCTGCTGACAA
1 TCAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGA-AG-TTTTTTTCAGTACTTCTGCTGACAA
* *
8203765 AGCATCCTGTTTAAAGCGTTTTTGACACTGTTTGCTCAGAAACGTCTACTCGAAATTATTTTC
64 AGCATCCTGCTTAAAGCGTTTTTGACACTGTTTGCTCAGAAACGTCTACTCGAAATTATTTTT
*
8203828 TCAGGAGCCACTGTAGCAAAAGCGCGT-CACGTGG
1 TCAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGG
8203862 GAGCTTCTTT
Statistics
Matches: 263, Mismatches: 20, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
125 6 0.02
126 250 0.95
127 7 0.03
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (126 bp):
TCAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGAAGTTTTTTTCAGTACTTCTGCTGACAAAG
CATCCTGCTTAAAGCGTTTTTGACACTGTTTGCTCAGAAACGTCTACTCGAAATTATTTTT
Found at i:8204140 original size:91 final size:92
Alignment explanation
Indices: 8203904--8204222 Score: 381
Period size: 91 Copynumber: 3.4 Consensus size: 92
8203894 AGTAACTGTA
* * * * * * * *
8203904 AACCCCAAACCCTAATTTATTTGAATTTTTACTTAAAAATCCTAAACCCTAAACCCTAAACTAAT
1 AACCCTAAACCCTAA-TT-TTTG-ATTTTTTCTTAAAAACCCTTAACTCTAAATCCTAATCTGAT
* * *
8203969 TTATTATAAATTTATAATTAATTTACTCAAGT
63 TT-TTA-AATTTTTTAATTAAATTACTCAAGT
* * *
8204001 AACCCTGAACCCTAATTTATTTAATTTTTT-TTAAAAACCCTTAACTCTAAATCCTAATTTGATT
1 AACCCTAAACCCTAA-TT-TTTGATTTTTTCTTAAAAACCCTTAACTCTAAATCCTAATCTGATT
*
8204065 TTTAATTTTTTTAATTAAATTACTCAAGT
64 TTTAAATTTTTTAATTAAATTACTCAAGT
*
8204094 AACCCTAAACCTTAA-TTTTGATTTTTTCTTAAAAACCCTTAACTCTAAATCCTAATCTGATTTT
1 AACCCTAAACCCTAATTTTTGATTTTTTCTTAAAAACCCTTAACTCTAAATCCTAATCTGATTTT
*
8204158 TAAATTTTTTAATTAAATTACTCCAGT
66 TAAATTTTTTAATTAAATTACTCAAGT
*
8204185 AACCTTAAACCCTAATTTAATTGATTTTTTCTTAAAAA
1 AACCCTAAACCCTAATTT--TTGATTTTTTCTTAAAAA
8204223 ATAATAAACA
Statistics
Matches: 195, Mismatches: 23, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
90 10 0.05
91 74 0.38
92 2 0.01
93 34 0.17
94 21 0.11
95 28 0.14
96 6 0.03
97 20 0.10
ACGTcount: A:0.37, C:0.18, G:0.03, T:0.42
Consensus pattern (92 bp):
AACCCTAAACCCTAATTTTTGATTTTTTCTTAAAAACCCTTAACTCTAAATCCTAATCTGATTTT
TAAATTTTTTAATTAAATTACTCAAGT
Found at i:8204165 original size:47 final size:45
Alignment explanation
Indices: 8204020--8204167 Score: 135
Period size: 46 Copynumber: 3.3 Consensus size: 45
8204010 CCCTAATTTA
*
8204020 TTTAATTTTTTTTAAAAACCCTTAACTCTAAATCCTAATTTGATT
1 TTTAATTTTTTTTAAAAACCCTTAACTCTAAATCCTAATCTGATT
* * * * *
8204065 TTTAA-TTTTTTTAATTAAA---TT-ACTCAAGTAACCCTAAACCTTAAT
1 TTTAATTTTTTTTAA--AAACCCTTAACTCTA--AATCCT-AATCTGATT
*
8204110 TTTGATTTTTTCTTAAAAACCCTTAACTCTAAATCCTAATCTGATT
1 TTTAATTTTTT-TTAAAAACCCTTAACTCTAAATCCTAATCTGATT
*
8204156 TTTAAATTTTTT
1 TTTAATTTTTTT
8204168 AATTAAATTA
Statistics
Matches: 78, Mismatches: 14, Indels: 22
0.68 0.12 0.19
Matches are distributed among these distances:
42 5 0.06
43 2 0.03
44 14 0.18
45 18 0.23
46 23 0.29
47 9 0.12
48 2 0.03
49 5 0.06
ACGTcount: A:0.33, C:0.16, G:0.03, T:0.49
Consensus pattern (45 bp):
TTTAATTTTTTTTAAAAACCCTTAACTCTAAATCCTAATCTGATT
Found at i:8213461 original size:2 final size:2
Alignment explanation
Indices: 8213454--8213478 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8213444 NNNNNNNNNN
8213454 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
8213479 GCAGAACACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8214893 original size:2 final size:2
Alignment explanation
Indices: 8214886--8214917 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
8214876 TCATACATAC
8214886 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8214918 TGATTTTGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8216756 original size:43 final size:43
Alignment explanation
Indices: 8216658--8217112 Score: 388
Period size: 43 Copynumber: 10.7 Consensus size: 43
8216648 TAGAATACGA
* * *
8216658 TCTTTAGCGGCGCTTACAC-AAAAACGCCACTATAGGT-GGGAG
1 TCTTTAGCGGCGCTTATACAAAAAACGCCACTATAGATCGGG-T
**
8216700 TCTTTCTCGGCGCTTATACAAAAAACGCCACTATAGATCGGGT
1 TCTTTAGCGGCGCTTATACAAAAAACGCCACTATAGATCGGGT
* * * *
8216743 TCTCTAGCAGCGCTTATACAAAAAACGCCACTATAGATTGGGA
1 TCTTTAGCGGCGCTTATACAAAAAACGCCACTATAGATCGGGT
* * * * *
8216786 TCTTT-CCTGGCGTTTGTACAGAAAACGCCACTATAGATAGCGG-
1 TCTTTAGC-GGCGCTTATACAAAAAACGCCACTATAGATCG-GGT
** * * * *
8216829 -CTTTCCCGGCACTTATACAAAAAATGCCACGATAGCTCGGG-
1 TCTTTAGCGGCGCTTATACAAAAAACGCCACTATAGATCGGGT
* * * *** *
8216870 TCTATAGCGGCGCTTATA-AAGAAACGCCACGATAGAGATGGC
1 TCTTTAGCGGCGCTTATACAAAAAACGCCACTATAGATCGGGT
** * **
8216912 TCTTTAGCGGCGCTTATACAGGAAACGCCACTATAGATTGGCA
1 TCTTTAGCGGCGCTTATACAAAAAACGCCACTATAGATCGGGT
* * *
8216955 TCTTTCGCGGCGCTTATTCAAAAAACGCCACTATAGATTGGAGT
1 TCTTTAGCGGCGCTTATACAAAAAACGCCACTATAGATCGG-GT
* * * *
8216999 T-TTTTGCGGCGCTTATACAGAAAACGCCACTATAGATTGGGG
1 TCTTTAGCGGCGCTTATACAAAAAACGCCACTATAGATCGGGT
** * * *
8217041 TCTTTAGCGGCGCTTGGACAGAAAATGCCACTATAG-GCGGGGT
1 TCTTTAGCGGCGCTTATACAAAAAACGCCACTATAGATC-GGGT
* *
8217084 TCTTTAGCGGCGCTTATCCAAGAAACGCC
1 TCTTTAGCGGCGCTTATACAAAAAACGCC
8217113 GCTAATATTG
Statistics
Matches: 335, Mismatches: 67, Indels: 21
0.79 0.16 0.05
Matches are distributed among these distances:
41 19 0.06
42 77 0.23
43 233 0.70
44 6 0.02
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (43 bp):
TCTTTAGCGGCGCTTATACAAAAAACGCCACTATAGATCGGGT
Found at i:8217029 original size:212 final size:215
Alignment explanation
Indices: 8216707--8217112 Score: 525
Period size: 212 Copynumber: 1.9 Consensus size: 215
8216697 GAGTCTTTCT
**
8216707 CGGCGCTTATACAAAAAACGCCACTATAGATCGGGTTCTCTAGCAGCGCTTATACAAAAAACGCC
1 CGGCGCTTATACAAAAAACGCCACTATAGATCGGCATCTCTAGCAGCGCTTATACAAAAAACGCC
* * *
8216772 ACTATAGATTGGGATCTTTCCTGGCGTTTGTACAGAAAACGCCACTATAGATAGCGG-CTTTCCC
66 ACTATAGATTGGGATCTTTCCTGGCGCTTATACAGAAAACGCCACTATAGATAGCGGTCTTTACC
*
8216836 GGCACTTATACAAAAAATGCCACGATA-GCTCGGG-TCTATAGCGGCGCTTAT-AAAGAAACGCC
131 GGCACTTAGACAAAAAATGCCACGATAGGC-CGGGTTCTATAGCGGCGCTTATCAAAGAAACGCC
8216898 ACGATAGAGATGGCTCTTTAG
195 ACGATAGAGATGGCTCTTTAG
** * * * * *
8216919 CGGCGCTTATACAGGAAACGCCACTATAGATTGGCATCTTTCGCGGCGCTTATTCAAAAAACGCC
1 CGGCGCTTATACAAAAAACGCCACTATAGATCGGCATCTCTAGCAGCGCTTATACAAAAAACGCC
* * * * * *
8216984 ACTATAGATTGGAGTTTTTTGC-GGCGCTTATACAGAAAACGCCACTATAGATTGGGGTCTTTAG
66 ACTATAGATTGG-GATCTTTCCTGGCGCTTATACAGAAAACGCCACTATAGATAGCGGTCTTTAC
* * * * * * *
8217048 CGGCGCTTGGACAGAAAATGCCACTATAGGCGGGGTTCTTTAGCGGCGCTTATCCAAGAAACGCC
130 CGGCACTTAGACAAAAAATGCCACGATAGGCCGGGTTCTATAGCGGCGCTTATCAAAGAAACGCC
8217113 GCTAATATTG
Statistics
Matches: 163, Mismatches: 26, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
212 99 0.61
213 36 0.22
214 18 0.11
215 10 0.06
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (215 bp):
CGGCGCTTATACAAAAAACGCCACTATAGATCGGCATCTCTAGCAGCGCTTATACAAAAAACGCC
ACTATAGATTGGGATCTTTCCTGGCGCTTATACAGAAAACGCCACTATAGATAGCGGTCTTTACC
GGCACTTAGACAAAAAATGCCACGATAGGCCGGGTTCTATAGCGGCGCTTATCAAAGAAACGCCA
CGATAGAGATGGCTCTTTAG
Found at i:8217648 original size:21 final size:21
Alignment explanation
Indices: 8217606--8217651 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
8217596 TTGAACCTCA
* *
8217606 GCTTCTCTCACTGCTGCCTCT
1 GCTTCTCTCACTGCCGCATCT
**
8217627 GCTTCTCTCGTTGCCGCATCT
1 GCTTCTCTCACTGCCGCATCT
8217648 GCTT
1 GCTT
8217652 TAAGTTGTAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.04, C:0.39, G:0.17, T:0.39
Consensus pattern (21 bp):
GCTTCTCTCACTGCCGCATCT
Found at i:8217712 original size:87 final size:87
Alignment explanation
Indices: 8217534--8217701 Score: 241
Period size: 87 Copynumber: 1.9 Consensus size: 87
8217524 CTTCGTTGCA
* * *
8217534 GCCTCTGCTTCTCTCACTGCTGTATTTGCTTTAAGCTGCTACTGGAGTTCTTCATATTTTCGTTG
1 GCCTCTGCTTCTCTCACTGCCGCATCTGCTTTAAGCTGCTACTGGAGTTCTTCATATTTTCGTTG
8217599 AACCTCAGCTTCTCTCACTGCT
66 AACCTCAGCTTCTCTCACTGCT
** * *
8217621 GCCTCTGCTTCTCTCGTTGCCGCATCTGCTTTAAGTTG-TAGCTGGAGTTCTTCATATCTTT-TT
1 GCCTCTGCTTCTCTCACTGCCGCATCTGCTTTAAGCTGCTA-CTGGAGTTCTTCATAT-TTTCGT
8217684 TGAACCTCAGCTTCTCTC
64 TGAACCTCAGCTTCTCTC
8217702 GATGTTGCCT
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
86 2 0.03
87 67 0.93
88 3 0.04
ACGTcount: A:0.13, C:0.29, G:0.17, T:0.42
Consensus pattern (87 bp):
GCCTCTGCTTCTCTCACTGCCGCATCTGCTTTAAGCTGCTACTGGAGTTCTTCATATTTTCGTTG
AACCTCAGCTTCTCTCACTGCT
Found at i:8223189 original size:9 final size:9
Alignment explanation
Indices: 8223163--8223365 Score: 98
Period size: 9 Copynumber: 23.7 Consensus size: 9
8223153 TTATTCAGTG
8223163 GTAAGTTAT
1 GTAAGTTAT
8223172 GT-A-TTAT
1 GTAAGTTAT
*
8223179 GTAACTTAT
1 GTAAGTTAT
8223188 GTAAGTTA-
1 GTAAGTTAT
*
8223196 -TAATATTAAT
1 GTAA-GTT-AT
*
8223206 GTATGTTAT
1 GTAAGTTAT
8223215 GTAAG-T-T
1 GTAAGTTAT
8223222 GTAAGTTAT
1 GTAAGTTAT
8223231 GT-A-TTAT
1 GTAAGTTAT
* *
8223238 GTAACTTCT
1 GTAAGTTAT
*
8223247 ATAAGTTAT
1 GTAAGTTAT
* *
8223256 -CAAATTAAT
1 GTAAGTT-AT
*
8223265 GTATGTTAT
1 GTAAGTTAT
8223274 GTAAG-T-T
1 GTAAGTTAT
8223281 GTAAGTTAT
1 GTAAGTTAT
*
8223290 -TATGTATTAT
1 GTAAG--TTAT
*
8223300 GTATGTTAT
1 GTAAGTTAT
8223309 GTAAG-T-T
1 GTAAGTTAT
8223316 GTAAGTTAT
1 GTAAGTTAT
*
8223325 -TATGTATTAT
1 GTAAG--TTAT
8223335 GTAAGTTAT
1 GTAAGTTAT
* *
8223344 GTATGCTAT
1 GTAAGTTAT
8223353 GT-A-TTAT
1 GTAAGTTAT
8223360 GTAAGT
1 GTAAGT
8223366 GTAGTGACCT
Statistics
Matches: 147, Mismatches: 23, Indels: 48
0.67 0.11 0.22
Matches are distributed among these distances:
7 38 0.26
8 23 0.16
9 64 0.44
10 13 0.09
11 9 0.06
ACGTcount: A:0.32, C:0.02, G:0.18, T:0.48
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:8223229 original size:16 final size:16
Alignment explanation
Indices: 8223148--8223233 Score: 60
Period size: 16 Copynumber: 5.8 Consensus size: 16
8223138 AATTACAAGG
* *
8223148 GTAAGTTAT-TCAGTG
1 GTAAGTTATGTAAGTT
*
8223163 GTAAGTTATGT-ATTAT
1 GTAAGTTATGTAAGT-T
*
8223179 GTAACTTATGTAAGTT
1 GTAAGTTATGTAAGTT
*
8223195 ATAA--TAT-TAA--T
1 GTAAGTTATGTAAGTT
*
8223206 GTATGTTATGTAAGTT
1 GTAAGTTATGTAAGTT
8223222 GTAAGTTATGTA
1 GTAAGTTATGTA
8223234 TTATGTAACT
Statistics
Matches: 55, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
11 3 0.05
13 6 0.11
14 6 0.11
15 11 0.20
16 27 0.49
17 2 0.04
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.45
Consensus pattern (16 bp):
GTAAGTTATGTAAGTT
Found at i:8223255 original size:59 final size:59
Alignment explanation
Indices: 8223163--8223363 Score: 239
Period size: 59 Copynumber: 3.3 Consensus size: 59
8223153 TTATTCAGTG
8223163 GTAAGTTATGTATTATGTAACTTATGTAAGTTATAATATTAATGTATGTTATGTAAGTT
1 GTAAGTTATGTATTATGTAACTTATGTAAGTTATAATATTAATGTATGTTATGTAAGTT
* *
8223222 GTAAGTTATGTATTATGTAACTTCTATAAGTTATCAA-ATTAATGTATGTTATGTAAGTT
1 GTAAGTTATGTATTATGTAACTTATGTAAGTTAT-AATATTAATGTATGTTATGTAAGTT
** *
8223281 GTAAGTTATTATGTATTATGTATGTTATGTAAGTTGTAAGTTATT-ATGTA--TTATGTAAGTTA
1 GTAAG---TTATGTATTATGTAACTTATGTAAGTTATAA--TATTAATGTATGTTATGTAAG-T-
8223343 T
59 T
* *
8223344 GTATGCTATGTATTATGTAA
1 GTAAGTTATGTATTATGTAA
8223364 GTGTAGTGAC
Statistics
Matches: 123, Mismatches: 10, Indels: 17
0.82 0.07 0.11
Matches are distributed among these distances:
59 59 0.48
60 15 0.12
61 11 0.09
62 25 0.20
63 10 0.08
64 3 0.02
ACGTcount: A:0.32, C:0.02, G:0.17, T:0.48
Consensus pattern (59 bp):
GTAAGTTATGTATTATGTAACTTATGTAAGTTATAATATTAATGTATGTTATGTAAGTT
Found at i:8223294 original size:19 final size:18
Alignment explanation
Indices: 8223270--8223348 Score: 65
Period size: 19 Copynumber: 4.3 Consensus size: 18
8223260 TTAATGTATG
8223270 TTATGTAAGTTGTAAGTTA
1 TTATGT-AGTTGTAAGTTA
* *
8223289 TTATGTA--T-TATGTATG
1 TTATGTAGTTGTAAGT-TA
8223305 TTATGTAAGTTGTAAGTTA
1 TTATGT-AGTTGTAAGTTA
*
8223324 TTATGTATTATGTAAGTTA
1 TTATGTAGT-TGTAAGTTA
8223343 TGTATG
1 T-TATG
8223349 CTATGTATTA
Statistics
Matches: 48, Mismatches: 5, Indels: 13
0.73 0.08 0.20
Matches are distributed among these distances:
15 4 0.08
16 8 0.17
17 1 0.02
18 3 0.06
19 24 0.50
20 8 0.17
ACGTcount: A:0.29, C:0.00, G:0.20, T:0.51
Consensus pattern (18 bp):
TTATGTAGTTGTAAGTTA
Found at i:8223305 original size:35 final size:35
Alignment explanation
Indices: 8223263--8223346 Score: 159
Period size: 35 Copynumber: 2.4 Consensus size: 35
8223253 TATCAAATTA
8223263 ATGTATGTTATGTAAGTTGTAAGTTATTATGTATT
1 ATGTATGTTATGTAAGTTGTAAGTTATTATGTATT
8223298 ATGTATGTTATGTAAGTTGTAAGTTATTATGTATT
1 ATGTATGTTATGTAAGTTGTAAGTTATTATGTATT
*
8223333 ATGTAAGTTATGTA
1 ATGTATGTTATGTA
8223347 TGCTATGTAT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 48 1.00
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (35 bp):
ATGTATGTTATGTAAGTTGTAAGTTATTATGTATT
Found at i:8223359 original size:16 final size:15
Alignment explanation
Indices: 8223290--8223362 Score: 57
Period size: 16 Copynumber: 4.9 Consensus size: 15
8223280 TGTAAGTTAT
8223290 TATGTATTATGTATG
1 TATGTATTATGTATG
8223305 TTATGTA--A-GT-TG
1 -TATGTATTATGTATG
*
8223317 TAAGTTATTATGTAT-
1 TATG-TATTATGTATG
8223332 TATGTAAGTTATGTATG
1 TATGT-A-TTATGTATG
8223349 CTATGTATTATGTA
1 -TATGTATTATGTA
8223363 AGTGTAGTGA
Statistics
Matches: 46, Mismatches: 2, Indels: 18
0.70 0.03 0.27
Matches are distributed among these distances:
11 3 0.07
12 4 0.09
13 2 0.04
14 3 0.07
15 6 0.13
16 22 0.48
17 1 0.02
18 5 0.11
ACGTcount: A:0.29, C:0.01, G:0.19, T:0.51
Consensus pattern (15 bp):
TATGTATTATGTATG
Found at i:8223891 original size:39 final size:36
Alignment explanation
Indices: 8223832--8223904 Score: 92
Period size: 39 Copynumber: 1.9 Consensus size: 36
8223822 AAAACGAAAA
* * *
8223832 TTTTGAAACACGAGATTTTTTAGGAAACACGAATTTTCT
1 TTTTGAAACACAAAAATTTTTA--AAACAC-AATTTTCT
8223871 TTTTGAAACACAAAAATTTTTAAAACACAATTTT
1 TTTTGAAACACAAAAATTTTTAAAACACAATTTT
8223905 TTTGAAAACA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 6 0.19
37 6 0.19
39 19 0.61
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (36 bp):
TTTTGAAACACAAAAATTTTTAAAACACAATTTTCT
Found at i:8223925 original size:17 final size:16
Alignment explanation
Indices: 8223870--8223926 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 16
8223860 ACGAATTTTC
*
8223870 TTTTTGAAACACAAAAA
1 TTTTTGAAA-ACAAATA
*
8223887 TTTTT-AAAACACAATT
1 TTTTTGAAAACA-AATA
8223903 TTTTTGAAAACATAATA
1 TTTTTGAAAACA-AATA
8223920 TTTTTGA
1 TTTTTGA
8223927 TAAAATACGA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
15 3 0.09
16 10 0.29
17 21 0.62
ACGTcount: A:0.44, C:0.09, G:0.05, T:0.42
Consensus pattern (16 bp):
TTTTTGAAAACAAATA
Found at i:8223977 original size:17 final size:17
Alignment explanation
Indices: 8223952--8224189 Score: 95
Period size: 17 Copynumber: 13.2 Consensus size: 17
8223942 GAAGATTTTC
8223952 TTTTGAAACACGAAAAT
1 TTTTGAAACACGAAAAT
* **
8223969 TTATGAAACACGGTCAATTT
1 TTTTGAAACAC-G--AAAAT
8223989 TTTTGAAAACACGAAAAT
1 TTTTG-AAACACGAAAAT
* *
8224007 TTTTGAAAGACGAAATTT
1 TTTTGAAACACGAAA-AT
*
8224025 TTTTGAAAACACGGAAAT
1 TTTTG-AAACACGAAAAT
* **
8224043 TTATGAAACACGGAATTT
1 TTTTGAAACAC-GAAAAT
* *
8224061 TTTTGAAGACAAGAAAAC
1 TTTTGAA-ACACGAAAAT
* * ** *
8224079 TTTCGAAATACG-GGAC
1 TTTTGAAACACGAAAAT
* *
8224095 TTTTGAAAACAAGAAATTTTTT
1 TTTTG-AAACACGAAA----AT
*
8224117 TTTTGAAAACACGACAAT
1 TTTTG-AAACACGAAAAT
*
8224135 TTTTGAAACACTG-GAA-
1 TTTTGAAACAC-GAAAAT
* *
8224151 TTTTGAAAATACGAAGAT
1 TTTTG-AAACACGAAAAT
**
8224169 TTTTGAAATGCGAAAAT
1 TTTTGAAACACGAAAAT
8224186 TTTT
1 TTTT
8224190 TTTAAACACG
Statistics
Matches: 162, Mismatches: 41, Indels: 36
0.68 0.17 0.15
Matches are distributed among these distances:
16 12 0.07
17 61 0.38
18 50 0.31
19 11 0.07
20 8 0.05
21 6 0.04
22 14 0.09
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (17 bp):
TTTTGAAACACGAAAAT
Found at i:8224031 original size:36 final size:36
Alignment explanation
Indices: 8223935--8224077 Score: 171
Period size: 36 Copynumber: 3.9 Consensus size: 36
8223925 GATAAAATAC
8223935 GAAACACGAAGATTTTCTTTTG-AAACACGAAAATTTAT
1 GAAACACGAA-A-TTT-TTTTGAAAACACGAAAATTTAT
* *
8223973 GAAACACGGTCAATTTTTTTGAAAACACGAAAATTTTT
1 GAAACAC-G-AAATTTTTTTGAAAACACGAAAATTTAT
* *
8224011 GAAAGACGAAATTTTTTTGAAAACACGGAAATTTAT
1 GAAACACGAAATTTTTTTGAAAACACGAAAATTTAT
* * *
8224047 GAAACACGGAATTTTTTTGAAGACAAGAAAA
1 GAAACACGAAATTTTTTTGAAAACACGAAAA
8224078 CTTTCGAAAT
Statistics
Matches: 91, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
36 51 0.56
37 6 0.07
38 31 0.34
39 2 0.02
40 1 0.01
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.30
Consensus pattern (36 bp):
GAAACACGAAATTTTTTTGAAAACACGAAAATTTAT
Found at i:8224121 original size:22 final size:23
Alignment explanation
Indices: 8224095--8224138 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
8224085 AATACGGGAC
8224095 TTTTGAAAACAAGA-AATTTTTT
1 TTTTGAAAACAAGACAATTTTTT
*
8224117 TTTTGAAAACACGACAATTTTT
1 TTTTGAAAACAAGACAATTTTT
8224139 GAAACACTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.43
Consensus pattern (23 bp):
TTTTGAAAACAAGACAATTTTTT
Found at i:8224937 original size:20 final size:21
Alignment explanation
Indices: 8224912--8224951 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
8224902 GTGGGCCCTT
8224912 TTCC-TTTTTTCTTTTTTTTC
1 TTCCTTTTTTTCTTTTTTTTC
8224932 TTCCTTTTTTTCTTTTTTTT
1 TTCCTTTTTTTCTTTTTTTT
8224952 TGGGCCTGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.82
Consensus pattern (21 bp):
TTCCTTTTTTTCTTTTTTTTC
Found at i:8224951 original size:12 final size:12
Alignment explanation
Indices: 8224916--8224952 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
8224906 GCCCTTTTCC
8224916 TTTT-TTCTTTT
1 TTTTCTTCTTTT
*
8224927 TTTTCTTCCTTT
1 TTTTCTTCTTTT
8224939 TTTTCTT-TTTT
1 TTTTCTTCTTTT
8224950 TTT
1 TTT
8224953 GGGCCTGCTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 10 0.43
12 13 0.57
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (12 bp):
TTTTCTTCTTTT
Found at i:8225080 original size:22 final size:23
Alignment explanation
Indices: 8225055--8225098 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
8225045 GGCGGTACTG
8225055 GGCCTGCT-GCTGCTGCTGGGCT
1 GGCCTGCTAGCTGCTGCTGGGCT
* *
8225077 GGCCTGCTAGGTGCTGTTGGGC
1 GGCCTGCTAGCTGCTGCTGGGC
8225099 CTGGACTGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.02, C:0.27, G:0.43, T:0.27
Consensus pattern (23 bp):
GGCCTGCTAGCTGCTGCTGGGCT
Found at i:8226632 original size:76 final size:76
Alignment explanation
Indices: 8226451--8227115 Score: 703
Period size: 76 Copynumber: 8.7 Consensus size: 76
8226441 TAGATATTGA
* * * * *
8226451 AAATACCTCAGCGTAACCCGAGGCTCAACTCACTTCTAGCATTATGAGTTGATTTTTTTTGAAAA
1 AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCT-GCATTATGAGTTGA-TTTTTGT-AAAA
**
8226516 AATAGAAA-TTG-A-
63 ACCA-AAATTTGAAG
* * *
8226528 AAAGACCTCAGG-ATGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTCATTTTTGTGAAAA
1 AAATACCTC-GGCATGACCCGAGGCTCAACTCACCTCT-GCATTATGAGTTGATTTTTGTAAAAA
*
8226592 CCAAAAATTGAA-
64 CCAAAATTTGAAG
*** * * *
8226604 AAATACCTCGATGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAA
1 AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCT-GCATTATGAGTTGA--TTTTTGT-AAA
**
8226669 ACACGGAAA-TTGAA-
62 A-ACCAAAATTTGAAG
* *
8226683 AAATACCTCAGG-ATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAA
1 AAATACCTC-GGCATGACCCGAGGCTCAACTCACCTCT-GCATTATGAGTTGATTTTTGTAAAAA
* *
8226747 ACAGAAATTTAAAAG
64 CCA-AAATTT-GAAG
* *
8226762 AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTG-AAAAACG
1 AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGCATTATGAGTTGATTTTTGTAAAAACC
8226826 AAAATTTGAAAG
66 AAAATTTG-AAG
* *
8226838 AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTG-AAAAACG
1 AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGCATTATGAGTTGATTTTTGTAAAAACC
8226902 AAAATTTGAAAG
66 AAAATTTG-AAG
* *
8226914 AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTG-AAAAACG
1 AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGCATTATGAGTTGATTTTTGTAAAAACC
*
8226978 GAAATTTGAAAG
66 AAAATTTG-AAG
* * *
8226990 AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTTGAAAAAA
1 AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGCATTATGAGTTGATTTTTGT-AAAAAC
** *
8227055 GGAAATTTAAAAG
65 CAAAATTT-GAAG
* *
8227068 AAATACCTCGGCATGACTCGA-GCTC-ACTCA-CTCTGTA-TATGAGTTGAT
1 AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGCATTATGAGTTGAT
8227116 GCTTTCTTCT
Statistics
Matches: 530, Mismatches: 40, Indels: 39
0.87 0.07 0.06
Matches are distributed among these distances:
74 14 0.03
75 17 0.03
76 279 0.53
77 60 0.11
78 65 0.12
79 89 0.17
80 6 0.01
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (76 bp):
AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGCATTATGAGTTGATTTTTGTAAAAACC
AAAATTTGAAG
Found at i:8227924 original size:1 final size:1
Alignment explanation
Indices: 8227914--8228008 Score: 64
Period size: 1 Copynumber: 95.0 Consensus size: 1
8227904 TTCATCTTGA
* * * * * * * * * *
8227914 TTTTTCTTTTTTTCTTTTTTTTGTGTTTTTTCTTTTTGTTTGTTTTTTTTATTTTTCTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * *
8227979 TGTTTTTTTGTTTTTTTTTCTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
8228009 AGGCGTAATA
Statistics
Matches: 66, Mismatches: 28, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
1 66 1.00
ACGTcount: A:0.01, C:0.06, G:0.07, T:0.85
Consensus pattern (1 bp):
T
Found at i:8227949 original size:25 final size:23
Alignment explanation
Indices: 8227914--8228008 Score: 77
Period size: 26 Copynumber: 3.8 Consensus size: 23
8227904 TTCATCTTGA
8227914 TTTTTCTTTTTTTCTTTTTTTTGTGT
1 TTTTTC-TTTTTT-TTTTTTTTGT-T
8227940 TTTTTCTTTTTGTTTGTTTTTT-TT
1 TTTTTCTTTTT-TTT-TTTTTTGTT
8227964 ATTTTTCTTCTTTTTTGTTTTTTTGTT
1 -TTTTTC-T-TTTTTT-TTTTTTTGTT
* *
8227991 TTTTT-TTCTGTTTTTTTT
1 TTTTTCTTTTTTTTTTTTT
8228009 AGGCGTAATA
Statistics
Matches: 60, Mismatches: 2, Indels: 18
0.75 0.03 0.22
Matches are distributed among these distances:
22 6 0.10
23 4 0.07
24 2 0.03
25 14 0.23
26 27 0.45
27 7 0.12
ACGTcount: A:0.01, C:0.06, G:0.07, T:0.85
Consensus pattern (23 bp):
TTTTTCTTTTTTTTTTTTTTGTT
Found at i:8227995 original size:18 final size:17
Alignment explanation
Indices: 8227914--8227997 Score: 80
Period size: 17 Copynumber: 4.9 Consensus size: 17
8227904 TTCATCTTGA
*
8227914 TTTTTCTTTTTTTCTTTT
1 TTTTTGTTTTTTT-TTTT
*
8227932 TTTTGTGTTTTTTCTTTT
1 TTTT-TGTTTTTTTTTTT
* *
8227950 TGTTTGTTTTTTTTATT
1 TTTTTGTTTTTTTTTTT
* * *
8227967 TTTCT-TCTTTTTTGTT
1 TTTTTGTTTTTTTTTTT
8227983 TTTTTGTTTTTTTTT
1 TTTTTGTTTTTTTTT
8227998 CTGTTTTTTT
Statistics
Matches: 52, Mismatches: 12, Indels: 5
0.75 0.17 0.07
Matches are distributed among these distances:
16 13 0.25
17 21 0.40
18 11 0.21
19 7 0.13
ACGTcount: A:0.01, C:0.06, G:0.07, T:0.86
Consensus pattern (17 bp):
TTTTTGTTTTTTTTTTT
Found at i:8237378 original size:27 final size:24
Alignment explanation
Indices: 8237340--8237392 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
8237330 AGCACGAGAA
* *
8237340 TTTTAAAGCACAACAACTTTTTTTTT
1 TTTTAAAACACAA-AA-TTTTTTGTT
8237366 TTTTGAAAACACAAAATTTTTTGTT
1 TTTT-AAAACACAAAATTTTTTGTT
8237391 TT
1 TT
8237393 AAATACAAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 10 0.42
26 6 0.25
27 8 0.33
ACGTcount: A:0.32, C:0.11, G:0.06, T:0.51
Consensus pattern (24 bp):
TTTTAAAACACAAAATTTTTTGTT
Found at i:8237498 original size:39 final size:36
Alignment explanation
Indices: 8237439--8237511 Score: 92
Period size: 39 Copynumber: 1.9 Consensus size: 36
8237429 AAAACGAAAA
* * *
8237439 TTTTGAAACACGAGATTTTTTAGGAAACACGAATTTTCT
1 TTTTGAAACACAAAAATTTTTA--AAACAC-AATTTTCT
8237478 TTTTGAAACACAAAAATTTTTAAAACACAATTTT
1 TTTTGAAACACAAAAATTTTTAAAACACAATTTT
8237512 TTTGAAAACA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 6 0.19
37 6 0.19
39 19 0.61
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (36 bp):
TTTTGAAACACAAAAATTTTTAAAACACAATTTTCT
Found at i:8237532 original size:17 final size:16
Alignment explanation
Indices: 8237477--8237533 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 16
8237467 ACGAATTTTC
*
8237477 TTTTTGAAACACAAAAA
1 TTTTTGAAA-ACAAATA
*
8237494 TTTTT-AAAACACAATT
1 TTTTTGAAAACA-AATA
8237510 TTTTTGAAAACATAATA
1 TTTTTGAAAACA-AATA
8237527 TTTTTGA
1 TTTTTGA
8237534 TAAAATACGA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
15 3 0.09
16 10 0.29
17 21 0.62
ACGTcount: A:0.44, C:0.09, G:0.05, T:0.42
Consensus pattern (16 bp):
TTTTTGAAAACAAATA
Found at i:8237584 original size:17 final size:17
Alignment explanation
Indices: 8237559--8237684 Score: 81
Period size: 18 Copynumber: 6.9 Consensus size: 17
8237549 GAGGATTTTC
8237559 TTTTGAAACACGAAAAT
1 TTTTGAAACACGAAAAT
* **
8237576 TTATGAAACACGGTCAATTT
1 TTTTGAAACAC-G--AAAAT
*
8237596 TTTTAAAAACACGAAAAT
1 TTTT-GAAACACGAAAAT
* *
8237614 TTTTGAAAGACGAAATTT
1 TTTTGAAACACGAAA-AT
*
8237632 TTTTGAAAACACGGAAAT
1 TTTTG-AAACACGAAAAT
* **
8237650 TTATGAAACACGGAATTT
1 TTTTGAAACAC-GAAAAT
*
8237668 TTTTGAAGACAAGAAAA
1 TTTTGAA-ACACGAAAA
8237685 CTTTCGAAAT
Statistics
Matches: 80, Mismatches: 21, Indels: 15
0.69 0.18 0.13
Matches are distributed among these distances:
17 25 0.31
18 31 0.39
19 11 0.14
20 7 0.09
21 6 0.08
ACGTcount: A:0.44, C:0.10, G:0.14, T:0.31
Consensus pattern (17 bp):
TTTTGAAACACGAAAAT
Found at i:8237584 original size:38 final size:36
Alignment explanation
Indices: 8237542--8237684 Score: 130
Period size: 36 Copynumber: 3.9 Consensus size: 36
8237532 GATAAAATAC
8237542 GAAACACGAGGATTTTCTTTTGAAACACGAAAATTTAT
1 GAAACACGA-GATTTT-TTTTGAAACACGAAAATTTAT
** *
8237580 GAAACACG-GTCAATTTTTTTAAAAACACGAAAATTTTT
1 GAAACACGAG---ATTTTTTTTGAAACACGAAAATTTAT
* * *
8237618 GAAAGACGA-AATTTTTTTGAAAACACGGAAATTTAT
1 GAAACACGAGATTTTTTTTG-AAACACGAAAATTTAT
* *
8237654 GAAACACG-GAATTTTTTTGAAGACAAGAAAA
1 GAAACACGAGATTTTTTTTGAA-ACACGAAAA
8237685 CTTTCGAAAT
Statistics
Matches: 86, Mismatches: 12, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
35 9 0.10
36 39 0.45
38 33 0.38
39 5 0.06
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.30
Consensus pattern (36 bp):
GAAACACGAGATTTTTTTTGAAACACGAAAATTTAT
Found at i:8237641 original size:36 final size:36
Alignment explanation
Indices: 8237559--8237684 Score: 155
Period size: 36 Copynumber: 3.5 Consensus size: 36
8237549 GAGGATTTTC
*
8237559 TTTTG-AAACACGAAAATTTATGAAACACGGTCAATTT
1 TTTTGAAAACACGAAAATTTATGAAACAC-G-AAATTT
* * *
8237596 TTTTAAAAACACGAAAATTTTTGAAAGACGAAATTT
1 TTTTGAAAACACGAAAATTTATGAAACACGAAATTT
* *
8237632 TTTTGAAAACACGGAAATTTATGAAACACGGAATTT
1 TTTTGAAAACACGAAAATTTATGAAACACGAAATTT
* *
8237668 TTTTGAAGACAAGAAAA
1 TTTTGAAAACACGAAAA
8237685 CTTTCGAAAT
Statistics
Matches: 76, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
36 50 0.66
37 5 0.07
38 21 0.28
ACGTcount: A:0.44, C:0.10, G:0.14, T:0.31
Consensus pattern (36 bp):
TTTTGAAAACACGAAAATTTATGAAACACGAAATTT
Found at i:8237728 original size:22 final size:23
Alignment explanation
Indices: 8237702--8237745 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
8237692 AATACGGGAC
8237702 TTTTGAAAACAAGA-AATTTTTT
1 TTTTGAAAACAAGACAATTTTTT
*
8237724 TTTTGAAAACACGACAATTTTT
1 TTTTGAAAACAAGACAATTTTT
8237746 GAAACACTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.43
Consensus pattern (23 bp):
TTTTGAAAACAAGACAATTTTTT
Found at i:8237746 original size:18 final size:17
Alignment explanation
Indices: 8237723--8237783 Score: 63
Period size: 18 Copynumber: 3.5 Consensus size: 17
8237713 AGAAATTTTT
8237723 TTTTTGAAAACACGACAA
1 TTTTTGAAAACACGA-AA
*
8237741 TTTTTG-AAACACTGGAA
1 TTTTTGAAAACAC-GAAA
*
8237758 -TTTTGAAAATACGAAGA
1 TTTTTGAAAACACGAA-A
8237775 TTTTTGAAA
1 TTTTTGAAA
8237784 TGCTTGAATG
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
16 7 0.19
17 14 0.39
18 15 0.42
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.34
Consensus pattern (17 bp):
TTTTTGAAAACACGAAA
Found at i:8237958 original size:17 final size:17
Alignment explanation
Indices: 8237911--8237960 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
8237901 TTTGAAACAC
8237911 GAAAACAC-GAACATTTT
1 GAAAACACGGAA-ATTTT
* * *
8237928 -CAAACAAGGGAATTTT
1 GAAAACACGGAAATTTT
8237944 GAAAACACGGAAATTTT
1 GAAAACACGGAAATTTT
8237961 TTTGAAAAGA
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
16 10 0.40
17 15 0.60
ACGTcount: A:0.46, C:0.14, G:0.16, T:0.24
Consensus pattern (17 bp):
GAAAACACGGAAATTTT
Found at i:8238038 original size:17 final size:17
Alignment explanation
Indices: 8238016--8238064 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
8238006 TATTATTATT
*
8238016 ATTTTGAAACACGAGAA
1 ATTTTGAAACACGAAAA
*
8238033 ATTTTG-AAGACGTAAAA
1 ATTTTGAAACACG-AAAA
8238050 ATTTGTGAAACACGA
1 ATTT-TGAAACACGA
8238065 TTTTTTTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 5 0.19
17 13 0.50
18 3 0.12
19 5 0.19
ACGTcount: A:0.45, C:0.10, G:0.18, T:0.27
Consensus pattern (17 bp):
ATTTTGAAACACGAAAA
Found at i:8238533 original size:20 final size:21
Alignment explanation
Indices: 8238508--8238548 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
8238498 GTGGGCCCTT
8238508 TTCC-TTTTTTCTTTTTTTTC
1 TTCCTTTTTTTCTTTTTTTTC
8238528 TTCCTTTTTTTTCTTTTTTTT
1 TTCC-TTTTTTTCTTTTTTTT
8238549 GGGCCTGCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.21
22 15 0.79
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (21 bp):
TTCCTTTTTTTCTTTTTTTTC
Found at i:8238534 original size:13 final size:13
Alignment explanation
Indices: 8238518--8238542 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8238508 TTCCTTTTTT
8238518 CTTTTTTTTCTTC
1 CTTTTTTTTCTTC
8238531 CTTTTTTTTCTT
1 CTTTTTTTTCTT
8238543 TTTTTTGGGC
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:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
CTTTTTTTTCTTC
Found at i:8238676 original size:22 final size:23
Alignment explanation
Indices: 8238651--8238694 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
8238641 GGCGGTACTG
8238651 GGCCTGCT-GCTGCTGCTGGGCT
1 GGCCTGCTAGCTGCTGCTGGGCT
* *
8238673 GGCCTGCTAGGTGCTGTTGGGC
1 GGCCTGCTAGCTGCTGCTGGGC
8238695 CTGGACTGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.02, C:0.27, G:0.43, T:0.27
Consensus pattern (23 bp):
GGCCTGCTAGCTGCTGCTGGGCT
Found at i:8239207 original size:7 final size:7
Alignment explanation
Indices: 8239197--8239288 Score: 66
Period size: 7 Copynumber: 13.3 Consensus size: 7
8239187 CTTTTAAATT
8239197 TTTTTTC
1 TTTTTTC
8239204 TTTTTTC
1 TTTTTTC
*
8239211 TTTTTCTT
1 TTTTT-TC
8239219 TTTCTTTC
1 TTT-TTTC
8239227 TCTTTTTC
1 T-TTTTTC
8239235 -TTTTTC
1 TTTTTTC
8239241 -TTTTTC
1 TTTTTTC
* *
8239247 -TTCTCC
1 TTTTTTC
*
8239253 CTTTTTC
1 TTTTTTC
*
8239260 -TTCTTC
1 TTTTTTC
8239266 TTTTTTC
1 TTTTTTC
*
8239273 TTTCTTC
1 TTTTTTC
*
8239280 TTTCTTC
1 TTTTTTC
8239287 TT
1 TT
8239289 CTTCGGGCAG
Statistics
Matches: 71, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
6 21 0.30
7 36 0.51
8 10 0.14
9 4 0.06
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTTC
Found at i:8239214 original size:6 final size:6
Alignment explanation
Indices: 8239198--8239288 Score: 101
Period size: 6 Copynumber: 14.3 Consensus size: 6
8239188 TTTTAAATTT
*
8239198 TTTTTC TTTTTTC TTTTTC TTTTTC TTTCTC TTTTTC TTTTTC TTTTTC
1 TTTTTC -TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
** *
8239247 TTCTCCC TTTTTC TTCTTC TTTTTTC TTTCTTC TTTCTTC TT
1 TT-TTTC TTTTTC TTTTTC -TTTTTC TTT-TTC TTT-TTC TT
8239289 CTTCGGGCAG
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
6 46 0.63
7 27 0.37
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTTTC
Found at i:8239232 original size:24 final size:24
Alignment explanation
Indices: 8239195--8239288 Score: 120
Period size: 24 Copynumber: 3.8 Consensus size: 24
8239185 GACTTTTAAA
8239195 TTTTT-TTTCT-TTTTTCTTTTTC
1 TTTTTCTTTCTCTTTTTCTTTTTC
8239217 TTTTTCTTTCTCTTTTTCTTTTTC
1 TTTTTCTTTCTCTTTTTCTTTTTC
* *
8239241 TTTTTCTTCTCCCTTTTTCTTCTTC
1 TTTTTCTT-TCTCTTTTTCTTTTTC
8239266 TTTTTTCTTTCTTCTTTCTTCTT
1 -TTTTTCTTTC-TCTTT-TTCTT
8239289 CTTCGGGCAG
Statistics
Matches: 63, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
22 5 0.08
23 5 0.08
24 20 0.32
25 16 0.25
26 12 0.19
27 5 0.08
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (24 bp):
TTTTTCTTTCTCTTTTTCTTTTTC
Found at i:8239241 original size:37 final size:39
Alignment explanation
Indices: 8239216--8239290 Score: 102
Period size: 38 Copynumber: 1.9 Consensus size: 39
8239206 TTTTCTTTTT
8239216 CTTTTTC-T-TTCTCTTTTTCTTTTTC-TTTTTCTTCTCC
1 CTTTTTCTTCTTCT-TTTTTCTTTTTCTTTTTTCTTCTCC
*
8239253 CTTTTTCTTCTTCTTTTTTCTTTCTTCTTTCTTCTTCT
1 CTTTTTCTTCTTCTTTTTTCTTT-TTCTTTTTTCTTCT
8239291 TCGGGCAGCA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
37 7 0.21
38 10 0.30
39 7 0.21
40 9 0.27
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (39 bp):
CTTTTTCTTCTTCTTTTTTCTTTTTCTTTTTTCTTCTCC
Found at i:8239246 original size:43 final size:43
Alignment explanation
Indices: 8239210--8239292 Score: 116
Period size: 43 Copynumber: 1.9 Consensus size: 43
8239200 TTTCTTTTTT
*
8239210 CTTTTTCTTTTTCTTTCTCTT-TTTCTT-TTTCTTTTTCTTCTCC
1 CTTTTTCTTCTTCTTT-T-TTCTTTCTTCTTTCTTTTTCTTCTCC
*
8239253 CTTTTTCTTCTTCTTTTTTCTTTCTTCTTTCTTCTTCTTC
1 CTTTTTCTTCTTCTTTTTTCTTTCTTCTTTCTTTTTCTTC
8239293 GGGCAGCACC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
41 2 0.06
42 7 0.19
43 27 0.75
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (43 bp):
CTTTTTCTTCTTCTTTTTTCTTTCTTCTTTCTTTTTCTTCTCC
Found at i:8239436 original size:19 final size:17
Alignment explanation
Indices: 8239414--8239452 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
8239404 TTTTCTTGTT
8239414 TTTTGCTGCTGCGTTTTTG
1 TTTTGCTGCT-C-TTTTTG
*
8239433 TTTTGCTTCTCTTTTTG
1 TTTTGCTGCTCTTTTTG
8239450 TTT
1 TTT
8239453 CACTTTTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
18 1 0.05
19 9 0.47
ACGTcount: A:0.00, C:0.15, G:0.18, T:0.67
Consensus pattern (17 bp):
TTTTGCTGCTCTTTTTG
Found at i:8239447 original size:16 final size:16
Alignment explanation
Indices: 8239428--8239480 Score: 51
Period size: 12 Copynumber: 3.5 Consensus size: 16
8239418 GCTGCTGCGT
8239428 TTTTGTTTTGCTTCTC
1 TTTTGTTTTGCTTCTC
* *
8239444 ---T-TTTTGTTTCAC
1 TTTTGTTTTGCTTCTC
8239456 TTTTGTTTTGCTTCTC
1 TTTTGTTTTGCTTCTC
8239472 TTTTTGTTT
1 -TTTTGTTT
8239481 CACTTTCTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 9
0.68 0.10 0.22
Matches are distributed among these distances:
12 9 0.32
13 1 0.04
15 1 0.04
16 9 0.32
17 8 0.29
ACGTcount: A:0.02, C:0.15, G:0.11, T:0.72
Consensus pattern (16 bp):
TTTTGTTTTGCTTCTC
Found at i:8239449 original size:17 final size:17
Alignment explanation
Indices: 8239427--8239480 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
8239417 TGCTGCTGCG
8239427 TTTTTGTTTTGCTTCTC
1 TTTTTGTTTTGCTTCTC
*
8239444 TTTTTG---T--TTCAC
1 TTTTTGTTTTGCTTCTC
8239456 -TTTTGTTTTGCTTCTC
1 TTTTTGTTTTGCTTCTC
8239472 TTTTTGTTT
1 TTTTTGTTT
8239481 CACTTTCTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 12
0.67 0.05 0.28
Matches are distributed among these distances:
11 5 0.17
12 4 0.14
14 2 0.07
16 4 0.14
17 14 0.48
ACGTcount: A:0.02, C:0.15, G:0.11, T:0.72
Consensus pattern (17 bp):
TTTTTGTTTTGCTTCTC
Found at i:8239463 original size:28 final size:28
Alignment explanation
Indices: 8239428--8239486 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
8239418 GCTGCTGCGT
8239428 TTTTGTTTTGCTTCTCTTTTTGTTTCAC
1 TTTTGTTTTGCTTCTCTTTTTGTTTCAC
8239456 TTTTGTTTTGCTTCTCTTTTTGTTTCAC
1 TTTTGTTTTGCTTCTCTTTTTGTTTCAC
8239484 TTT
1 TTT
8239487 CTCTTGGCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.03, C:0.17, G:0.10, T:0.69
Consensus pattern (28 bp):
TTTTGTTTTGCTTCTCTTTTTGTTTCAC
Found at i:8239496 original size:28 final size:28
Alignment explanation
Indices: 8239428--8239498 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 28
8239418 GCTGCTGCGT
* *
8239428 TTTTGTTTTGCTTCTCTTTTTGTTTCAC
1 TTTTGCTTGGCTTCTCTTTTTGTTTCAC
* *
8239456 TTTTGTTTTGCTTCTCTTTTTGTTTCAC
1 TTTTGCTTGGCTTCTCTTTTTGTTTCAC
8239484 TTTCT-CTTGGCTTCT
1 TTT-TGCTTGGCTTCT
8239499 AGGTGGTGGT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 39 0.98
29 1 0.03
ACGTcount: A:0.03, C:0.20, G:0.11, T:0.66
Consensus pattern (28 bp):
TTTTGCTTGGCTTCTCTTTTTGTTTCAC
Found at i:8239740 original size:29 final size:30
Alignment explanation
Indices: 8239719--8239805 Score: 86
Period size: 30 Copynumber: 2.9 Consensus size: 30
8239709 GTAATTTACG
*
8239719 AAATATTAGGGGTCAAAGTGTAATTTAAAGA
1 AAAT-TTAGGGGTCAAAATGTAATTTAAAGA
* *
8239750 AAATTTTGGGGTCAAAATGTAAATTTTAA-A
1 AAATTTAGGGGTCAAAATGT-AATTTAAAGA
* ** *
8239780 AACTAGAGGGGTTAAAATGTAATTTA
1 AAATTTAGGGGTCAAAATGTAATTTA
8239806 TATTTTTTGT
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
29 5 0.11
30 30 0.65
31 11 0.24
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.32
Consensus pattern (30 bp):
AAATTTAGGGGTCAAAATGTAATTTAAAGA
Found at i:8239823 original size:12 final size:13
Alignment explanation
Indices: 8239806--8239838 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
8239796 ATGTAATTTA
*
8239806 TATTTTTTGTA-T
1 TATTTTTTATATT
8239818 TATTTTTTATATT
1 TATTTTTTATATT
8239831 TATTTTTT
1 TATTTTTT
8239839 TTGAGATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (13 bp):
TATTTTTTATATT
Found at i:8240238 original size:23 final size:24
Alignment explanation
Indices: 8240185--8240239 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 24
8240175 AAATTTTAAT
*
8240185 AAATATATATTAAAACTGTATATA
1 AAATATATATCAAAACTGTATATA
*
8240209 AATATATATATCAAAGA-TGT-TTTA
1 AA-ATATATATCAAA-ACTGTATATA
8240233 AAATATA
1 AAATATA
8240240 ACCTTGAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 5 0.19
24 7 0.26
25 14 0.52
26 1 0.04
ACGTcount: A:0.53, C:0.04, G:0.05, T:0.38
Consensus pattern (24 bp):
AAATATATATCAAAACTGTATATA
Found at i:8242782 original size:25 final size:26
Alignment explanation
Indices: 8242753--8242804 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 26
8242743 TATCGTAGAC
*
8242753 ATTAACCATAGATC-TTAAACCC-TAA
1 ATTAACCATA-AACATTAAACCCGTAA
8242778 ATTAACCATAAACATTAAACCCGTAA
1 ATTAACCATAAACATTAAACCCGTAA
8242804 A
1 A
8242805 CCACAAACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 2 0.08
25 18 0.75
26 4 0.17
ACGTcount: A:0.48, C:0.23, G:0.04, T:0.25
Consensus pattern (26 bp):
ATTAACCATAAACATTAAACCCGTAA
Found at i:8243778 original size:113 final size:112
Alignment explanation
Indices: 8243661--8244199 Score: 301
Period size: 114 Copynumber: 4.7 Consensus size: 112
8243651 AGCAGGCTAT
* *
8243661 AGCGGCGTTTTACTGAAGCGCCACTATTGGATCTATGCCTCATTTTTAAACGCTGCGTTTTGATT
1 AGCGGCGTTTTACTGAAGCGCCACTATTGGA-CTATGCCTCAATATTAAACGCTGCGTTTTGATT
*
8243726 CACATATTTTGTGGCGCTTGTACTTTAGCGCCGCTAATGCTG-TGATTC
65 CACATATTTTGTGGCGCTTGTACTTTAGCGCCGCTAATGCTGCT-CTTC
* * * ** ** * *
8243774 AGCGGCGTTTCTTCGGAAGCGCCACTAATTGTACTATATCTCAATATTGTACGCTGCGTATTGTT
1 AGCGGCGTTT-TACTGAAGCGCCACT-ATTGGACTATGCCTCAATATTAAACGCTGCGTTTTGAT
* * * ** **** * *
8243839 TAACATTTTTTGTGGCGGTTACAAACAAACGCCGCTAATTCTGCTCTAT-
64 TCACATATTTTGTGGCGCTTGTACTTTAGCGCCGCTAATGCTGCTCT-TC
* * * * * * *
8243888 AGTGGCGTTTT--TAGAATGCGCCGCTACTGCCACTATTCCTGAATATTAAACGATGCGTTTTG-
1 AGCGGCGTTTTACT-GAA-GCGCCACTATTG-GACTATGCCTCAATATTAAACGCTGCGTTTTGA
* ** * ** * * * *
8243950 -TCAGAT-TTATTACGGCG-TTTTTGTTTAAAATCGCCACTAATGATGCTCTTT
63 TTCACATATT-TTGTGGCGCTTGTACTTT---AGCGCCGCTAATGCTGCTCTTC
* * *
8244001 TGCGGCGTTTTACAGAAGCGCCACTATTGGATCTATGCCTC-AT-TTCCAAACGCTGCGTTTTTT
1 AGCGGCGTTTTACTGAAGCGCCACTATTGGA-CTATGCCTCAATATT--AAACGCTGCG-TTTTG
* *
8244064 ATTCACATATTTTGTGGCGCTTGTACTTTAGTGCCGCTAATGTTG-TGCTTC
62 ATTCACATATTTTGTGGCGCTTGTACTTTAGCGCCGCTAATGCTGCT-CTTC
** * * ** * * *
8244115 AGCGGCGTTTCTAGGGAAGTGCCACTAATTGTACTATAG-CTCAATATTGTATGCTGCGTATTGT
1 AGCGGCGTTT-TACTGAAGCGCCACT-ATTGGACTAT-GCCTCAATATTAAACGCTGCGTTTTGA
* * *
8244179 TTAACATTTTTTATGGCGCTT
63 TTCACATATTTTGTGGCGCTT
8244200 ACAAAAAAAC
Statistics
Matches: 313, Mismatches: 85, Indels: 55
0.69 0.19 0.12
Matches are distributed among these distances:
110 4 0.01
111 12 0.04
112 10 0.03
113 94 0.30
114 131 0.42
115 33 0.11
116 19 0.06
117 10 0.03
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (112 bp):
AGCGGCGTTTTACTGAAGCGCCACTATTGGACTATGCCTCAATATTAAACGCTGCGTTTTGATTC
ACATATTTTGTGGCGCTTGTACTTTAGCGCCGCTAATGCTGCTCTTC
Found at i:8244086 original size:341 final size:340
Alignment explanation
Indices: 8243662--8244371 Score: 1204
Period size: 341 Copynumber: 2.1 Consensus size: 340
8243652 GCAGGCTATA
* **
8243662 GCGGCGTTTTACTGAAGCGCCACTATTGGATCTATGCCTCATTTTTAAACGCTGCGTTTTGATTC
1 GCGGCGTTTTACAGAAGCGCCACTATTGGATCTATGCCTCATTTCCAAACGCTGCGTTTTGATTC
*
8243727 ACATATTTTGTGGCGCTTGTACTTTAGCGCCGCTAATGCTGTGATTCAGCGGCGTTTCTTCGGAA
66 ACATATTTTGTGGCGCTTGTACTTTAGCGCCGCTAATGCTGTGATTCAGCGGCGTTTCTACGGAA
* * *
8243792 GCGCCACTAATTGTACTATATCTCAATATTGTACGCTGCGTATTGTTTAACATTTTTTGTGGCGG
131 GCGCCACTAATTGTACTATAGCTCAATATTGTACGCTGCGTATTGTTTAACATTTTTTATGGCGC
* *
8243857 TTACAAACAAACGCCGCTAATTCTGCTCTATAGTGGCGTTTTTAGAATGCGCCGCTACTGCCACT
196 TTACAAAAAAACGCCGCTAATTCTACTCTATAGTGGCGTTTTTAGAATGCGCCGCTACTGCCACT
8243922 ATTCCTGAATATTAAACGATGCGTTTTGTCAGATTTATTACGGCGTTTTTGTTTAAAATCGCCAC
261 ATTCCTGAATATTAAACGATGCGTTTTGTCAGATTTATTACGGCGTTTTTGTTTAAAATCGCCAC
* *
8243987 TAATGATGCTCTTTT
326 TAAAGATGCTCGTTT
*
8244002 GCGGCGTTTTACAGAAGCGCCACTATTGGATCTATGCCTCATTTCCAAACGCTGCGTTTTTTATT
1 GCGGCGTTTTACAGAAGCGCCACTATTGGATCTATGCCTCATTTCCAAACGCTGCG-TTTTGATT
* * * *
8244067 CACATATTTTGTGGCGCTTGTACTTTAGTGCCGCTAATGTTGTGCTTCAGCGGCGTTTCTAGGGA
65 CACATATTTTGTGGCGCTTGTACTTTAGCGCCGCTAATGCTGTGATTCAGCGGCGTTTCTACGGA
* *
8244132 AGTGCCACTAATTGTACTATAGCTCAATATTGTATGCTGCGTATTGTTTAACATTTTTTATGGCG
130 AGCGCCACTAATTGTACTATAGCTCAATATTGTACGCTGCGTATTGTTTAACATTTTTTATGGCG
*
8244197 CTTACAAAAAAACGCCGCTAATTCTACTCTATAGTGGCGTTTTTAGAATGCGCCGCTACTGCTAC
195 CTTACAAAAAAACGCCGCTAATTCTACTCTATAGTGGCGTTTTTAGAATGCGCCGCTACTGCCAC
*
8244262 TATTCCTGAATATTAAACGATGCGTTTTGTTAGATTTATTACGGCGTTTTTGTTTAAAATCGCCA
260 TATTCCTGAATATTAAACGATGCGTTTTGTCAGATTTATTACGGCGTTTTTGTTTAAAATCGCCA
8244327 CTAAAGATGCTCGTTT
325 CTAAAGATGCTCGTTT
* *
8244343 GCGGCGTTTTCCTAGAAGCGCCGCTATTG
1 GCGGCGTTTTAC-AGAAGCGCCACTATTG
8244372 CGGGATCTTT
Statistics
Matches: 346, Mismatches: 22, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
340 53 0.15
341 278 0.80
342 15 0.04
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.37
Consensus pattern (340 bp):
GCGGCGTTTTACAGAAGCGCCACTATTGGATCTATGCCTCATTTCCAAACGCTGCGTTTTGATTC
ACATATTTTGTGGCGCTTGTACTTTAGCGCCGCTAATGCTGTGATTCAGCGGCGTTTCTACGGAA
GCGCCACTAATTGTACTATAGCTCAATATTGTACGCTGCGTATTGTTTAACATTTTTTATGGCGC
TTACAAAAAAACGCCGCTAATTCTACTCTATAGTGGCGTTTTTAGAATGCGCCGCTACTGCCACT
ATTCCTGAATATTAAACGATGCGTTTTGTCAGATTTATTACGGCGTTTTTGTTTAAAATCGCCAC
TAAAGATGCTCGTTT
Found at i:8244910 original size:42 final size:42
Alignment explanation
Indices: 8244767--8244973 Score: 244
Period size: 42 Copynumber: 5.0 Consensus size: 42
8244757 ACAACTCGCA
* * * * * *
8244767 CAATGCC-ATATCCCAGATATGATCTTACATGCTATCATATAT
1 CAATGCCAATGTCCCAGACATGGTCTTACACG-AATCACATAT
* *
8244809 CGATGCCAATAG--CCAG-CTATGGTCTTACACGAATCTC-TAT
1 CAATGCCAAT-GTCCCAGAC-ATGGTCTTACACGAATCACATAT
*
8244849 CAATGGCAATGTCCCAGACATGGTCTTACACGAATCACATAT
1 CAATGCCAATGTCCCAGACATGGTCTTACACGAATCACATAT
*
8244891 CAATGCCAATGTCCTAGACATGGTCTTACACGAATCACATAT
1 CAATGCCAATGTCCCAGACATGGTCTTACACGAATCACATAT
*
8244933 CGATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAT
1 CAATGCCAATGTCCCAGACATGGTCTTACACG-AATCACAT
8244974 CTCAGTATCC
Statistics
Matches: 142, Mismatches: 15, Indels: 15
0.83 0.09 0.09
Matches are distributed among these distances:
39 1 0.01
40 11 0.08
41 25 0.18
42 95 0.67
43 10 0.07
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (42 bp):
CAATGCCAATGTCCCAGACATGGTCTTACACGAATCACATAT
Found at i:8247131 original size:23 final size:23
Alignment explanation
Indices: 8247088--8247131 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
8247078 GGGTTGCATT
* *
8247088 TTGGACTTCTTATTTTTCTTGGC
1 TTGGACTTCTTACTTTCCTTGGC
8247111 TTGGACTGTCTT-CTTTCCTTG
1 TTGGACT-TCTTACTTTCCTTG
8247132 AGTAACCATC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 14 0.78
24 4 0.22
ACGTcount: A:0.07, C:0.20, G:0.18, T:0.55
Consensus pattern (23 bp):
TTGGACTTCTTACTTTCCTTGGC
Found at i:8250307 original size:16 final size:16
Alignment explanation
Indices: 8250259--8250310 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
8250249 ATTTGGAACA
* *
8250259 ATTTAGAGTTTGAATA
1 ATTTTGAGTTTGAATT
*
8250275 ATTTTGAGATT-AGATT
1 ATTTTGAGTTTGA-ATT
*
8250291 ATTTTGTGTTTGAATT
1 ATTTTGAGTTTGAATT
8250307 ATTT
1 ATTT
8250311 AGATTCACAC
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
15 1 0.03
16 27 0.93
17 1 0.03
ACGTcount: A:0.29, C:0.00, G:0.17, T:0.54
Consensus pattern (16 bp):
ATTTTGAGTTTGAATT
Found at i:8250704 original size:29 final size:31
Alignment explanation
Indices: 8250664--8250727 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 31
8250654 TAATAAAGAT
* *
8250664 AAAA-TTGTATTTTAGTCTCT-CAAATTATA
1 AAAATTTGTATTTAAGTCTCTAAAAATTATA
* *
8250693 AAAATTTG-ATTTAATTCTTTAAAAATTATA
1 AAAATTTGTATTTAAGTCTCTAAAAATTATA
8250723 AAAAT
1 AAAAT
8250728 ATAGACTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 13 0.45
30 16 0.55
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.44
Consensus pattern (31 bp):
AAAATTTGTATTTAAGTCTCTAAAAATTATA
Found at i:8255794 original size:22 final size:24
Alignment explanation
Indices: 8255769--8255812 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
8255759 AACCCTGGTA
8255769 TAATTTT-TC-TCAGAATGAAGTT
1 TAATTTTGTCTTCAGAATGAAGTT
*
8255791 TAATTTTGTCTTGAGAATGAAG
1 TAATTTTGTCTTCAGAATGAAG
8255813 AAAGGACTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 2 0.11
24 10 0.53
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (24 bp):
TAATTTTGTCTTCAGAATGAAGTT
Found at i:8263060 original size:31 final size:33
Alignment explanation
Indices: 8263022--8263082 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 33
8263012 TCTTGTTTCA
*
8263022 AAAACATA-AAAAATTATGTTAAAA-AAATTGG
1 AAAACATAGAAAAACTATGTTAAAAGAAATTGG
8263053 AAAACATAGAAAAACTATGTTAAAAGAAAT
1 AAAACATAGAAAAACTATGTTAAAAGAAAT
8263083 GGAGAAGAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 8 0.30
32 15 0.56
33 4 0.15
ACGTcount: A:0.62, C:0.05, G:0.10, T:0.23
Consensus pattern (33 bp):
AAAACATAGAAAAACTATGTTAAAAGAAATTGG
Found at i:8263191 original size:61 final size:62
Alignment explanation
Indices: 8263123--8263245 Score: 221
Period size: 62 Copynumber: 2.0 Consensus size: 62
8263113 GAAGAGAATG
*
8263123 GGAAAACAAAG-AAAAAAAGAAAGTCAAAAGAACATAAAAAAATTAAATTGCTCAAAACGAA
1 GGAAAACAAAGAAAAAAAAGAAAGTCAAAAGAACACAAAAAAATTAAATTGCTCAAAACGAA
*
8263184 GGAAAACAAAGAAAAAAAAGAAAGTTAAAAGAACACAAAAAAATTAAATTGCTCAAAACGAA
1 GGAAAACAAAGAAAAAAAAGAAAGTCAAAAGAACACAAAAAAATTAAATTGCTCAAAACGAA
8263246 AAAATATAGA
Statistics
Matches: 59, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
61 11 0.19
62 48 0.81
ACGTcount: A:0.66, C:0.10, G:0.13, T:0.11
Consensus pattern (62 bp):
GGAAAACAAAGAAAAAAAAGAAAGTCAAAAGAACACAAAAAAATTAAATTGCTCAAAACGAA
Found at i:8266530 original size:23 final size:23
Alignment explanation
Indices: 8266504--8266569 Score: 56
Period size: 23 Copynumber: 3.2 Consensus size: 23
8266494 TTAAAGAGAA
8266504 GAATCACTCATTTCACTACATAC
1 GAATCACTCATTTCACTACATAC
* * *
8266527 GAAT---TCA----AATCCATAA
1 GAATCACTCATTTCACTACATAC
8266543 GAATCACTCATTTCACTACATAC
1 GAATCACTCATTTCACTACATAC
8266566 GAAT
1 GAAT
8266570 TCAAATCCAT
Statistics
Matches: 30, Mismatches: 6, Indels: 14
0.60 0.12 0.28
Matches are distributed among these distances:
16 10 0.33
19 3 0.10
20 3 0.10
23 14 0.47
ACGTcount: A:0.39, C:0.26, G:0.06, T:0.29
Consensus pattern (23 bp):
GAATCACTCATTTCACTACATAC
Found at i:8266556 original size:39 final size:39
Alignment explanation
Indices: 8266502--8266583 Score: 164
Period size: 39 Copynumber: 2.1 Consensus size: 39
8266492 TGTTAAAGAG
8266502 AAGAATCACTCATTTCACTACATACGAATTCAAATCCAT
1 AAGAATCACTCATTTCACTACATACGAATTCAAATCCAT
8266541 AAGAATCACTCATTTCACTACATACGAATTCAAATCCAT
1 AAGAATCACTCATTTCACTACATACGAATTCAAATCCAT
8266580 AAGA
1 AAGA
8266584 TACTATTGCT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.43, C:0.24, G:0.06, T:0.27
Consensus pattern (39 bp):
AAGAATCACTCATTTCACTACATACGAATTCAAATCCAT
Found at i:8272550 original size:25 final size:27
Alignment explanation
Indices: 8272517--8272567 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
8272507 AAATATAGGT
*
8272517 AAAATTTTAGAAAATTAAAA-AATATA
1 AAAATTTAAGAAAATTAAAATAATATA
8272543 AAAATTTAAGAAAATTAAAATAATA
1 AAAATTTAAGAAAATTAAAATAATA
8272568 GTTTCATTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (27 bp):
AAAATTTAAGAAAATTAAAATAATATA
Found at i:8272725 original size:18 final size:19
Alignment explanation
Indices: 8272697--8272735 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
8272687 TTTGTAAAAT
*
8272697 ATATATTTTTATTTTTTAA
1 ATATATTTTTATTTTTAAA
8272716 ATAT-TTTTTATTTTTAAA
1 ATATATTTTTATTTTTAAA
8272734 AT
1 AT
8272736 TTCAAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
ATATATTTTTATTTTTAAA
Found at i:8303158 original size:41 final size:41
Alignment explanation
Indices: 8303101--8303332 Score: 392
Period size: 41 Copynumber: 5.7 Consensus size: 41
8303091 TTTAACATAT
*
8303101 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
*
8303142 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
8303183 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
* * *
8303224 TCACCGGCACTTAGCCTGCTAGGTTTACAACCTGCTTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
*
8303265 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
* *
8303306 TCACCAGCACTTAGCCTGCTAGACTTA
1 TCACCGGCACTTAGCCTGCTAGGCTTA
8303333 AAGTCCGAAT
Statistics
Matches: 180, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 180 1.00
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
Found at i:8303351 original size:123 final size:122
Alignment explanation
Indices: 8303100--8303381 Score: 410
Period size: 123 Copynumber: 2.3 Consensus size: 122
8303090 ATTTAACATA
* *
8303100 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
1 TTCACCGGCACTTAGCCTGCTAGGTTTA-AACCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
* *
8303165 TTTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAG
65 TTTATAACCTGATTCAGATCACCAGCACTTAGCCTGCTAGACTTATAACCTGATTCAG
* *
8303223 ATCACCGGCACTTAGCCTGCTAGGTTTACAACCTGCTTCAGATCACCGGCACTTAGCCTGCTAGG
1 TTCACCGGCACTTAGCCTGCTAGGTTTA-AACCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
*
8303288 TTTATAACCTGATTCAGATCACCAGCACTTAGCCTGCTAGACTTA-AAGTCC-GAATT-AT
65 TTTATAACCTGATTCAGATCACCAGCACTTAGCCTGCTAGACTTATAA--CCTG-ATTCAG
8303346 TTCACCGGC-CTTAAGCCTGCTAGGTTTTAAACCTGA
1 TTCACCGGCACTT-AGCCTGCTAGG-TTTAAACCTGA
8303382 AAATTTCAAT
Statistics
Matches: 144, Mismatches: 10, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
122 5 0.03
123 130 0.90
124 9 0.06
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (122 bp):
TTCACCGGCACTTAGCCTGCTAGGTTTAAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGGT
TTATAACCTGATTCAGATCACCAGCACTTAGCCTGCTAGACTTATAACCTGATTCAG
Found at i:8306368 original size:14 final size:14
Alignment explanation
Indices: 8306349--8306375 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8306339 TTCTCTTTCA
8306349 CACTTGTATTTTAC
1 CACTTGTATTTTAC
8306363 CACTTGTATTTTA
1 CACTTGTATTTTA
8306376 TTTTATCATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.19, G:0.07, T:0.52
Consensus pattern (14 bp):
CACTTGTATTTTAC
Found at i:8308373 original size:13 final size:13
Alignment explanation
Indices: 8308355--8308411 Score: 62
Period size: 13 Copynumber: 4.3 Consensus size: 13
8308345 TACTCATTAC
8308355 AAGAGAAGCAAAG
1 AAGAGAAGCAAAG
*
8308368 AAGAGAAGGAAGAG
1 AAGAGAAGCAA-AG
*
8308382 CAAGAGAAGCAGAG
1 -AAGAGAAGCAAAG
*
8308396 AAGAGAAACAAA-
1 AAGAGAAGCAAAG
8308408 AAGA
1 AAGA
8308412 AGAGGTTAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
12 4 0.11
13 20 0.54
14 4 0.11
15 9 0.24
ACGTcount: A:0.61, C:0.07, G:0.32, T:0.00
Consensus pattern (13 bp):
AAGAGAAGCAAAG
Found at i:8308414 original size:28 final size:28
Alignment explanation
Indices: 8308354--8308415 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
8308344 TTACTCATTA
** *
8308354 CAAGAGAAGCAAAGAAGAGAAGGAAGAG
1 CAAGAGAAGCAAAGAAGAGAACAAAAAG
*
8308382 CAAGAGAAGCAGAGAAGAGAAACAAAAAG
1 CAAGAGAAGCAAAGAAGAG-AACAAAAAG
8308411 -AAGAG
1 CAAGAG
8308416 GTTAATGAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 23 0.79
29 6 0.21
ACGTcount: A:0.60, C:0.08, G:0.32, T:0.00
Consensus pattern (28 bp):
CAAGAGAAGCAAAGAAGAGAACAAAAAG
Found at i:8310768 original size:28 final size:28
Alignment explanation
Indices: 8310736--8310817 Score: 148
Period size: 28 Copynumber: 2.9 Consensus size: 28
8310726 CTTACTTATT
8310736 GCAAGAGAAGCAGAGAAGAA-AAAGAAGA
1 GCAAGAGAAGCAGAGAA-AAGAAAGAAGA
8310764 GCAAGAGAAGCAGAGAAAAGAAAGAAGA
1 GCAAGAGAAGCAGAGAAAAGAAAGAAGA
8310792 GCAAGAGAAGCAGAGAAAAGAAAGAA
1 GCAAGAGAAGCAGAGAAAAGAAAGAA
8310818 AGAAAAAAGG
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
27 2 0.04
28 51 0.96
ACGTcount: A:0.61, C:0.07, G:0.32, T:0.00
Consensus pattern (28 bp):
GCAAGAGAAGCAGAGAAAAGAAAGAAGA
Found at i:8310803 original size:9 final size:9
Alignment explanation
Indices: 8310736--8310808 Score: 53
Period size: 9 Copynumber: 8.0 Consensus size: 9
8310726 CTTACTTATT
8310736 GCAAGAGAA
1 GCAAGAGAA
8310745 GC-AGAGAA
1 GCAAGAGAA
* *
8310753 GAAAAAGAAGA
1 GCAAGAG-A-A
8310764 GCAAGAGAA
1 GCAAGAGAA
*
8310773 GCAGAGAAAA
1 GCA-AGAGAA
*
8310783 GAAAGA-AGA
1 GCAAGAGA-A
8310792 GCAAGAGAA
1 GCAAGAGAA
8310801 GC-AGAGAA
1 GCAAGAGAA
8310809 AAGAAAGAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 13
0.72 0.10 0.18
Matches are distributed among these distances:
8 14 0.27
9 21 0.41
10 10 0.20
11 6 0.12
ACGTcount: A:0.59, C:0.08, G:0.33, T:0.00
Consensus pattern (9 bp):
GCAAGAGAA
Found at i:8314460 original size:92 final size:91
Alignment explanation
Indices: 8314292--8314461 Score: 216
Period size: 94 Copynumber: 1.8 Consensus size: 91
8314282 CCAAATCTCC
* *
8314292 TGCAATTTTTTTAAAAAAATAGTAATTTTTGTGAAATTATTTTTATGTCATTAACACTTAATTTT
1 TGCAATTTTTTTAAAAAAACAGTAATTTTTGTGAAATTATTTTTATGTCATTAACACATAATTTT
8314357 GGTAATTATTTTACCAAAATTCTAATT
66 GGTAA-TATTTTACCAAAATTCTAATT
* * * * * * *
8314384 TGCAATTTTTTTTAAAAAATACAGTGATTTTTGTGTAATTTTTTTCTTTGTTATTGATACATAAT
1 TGCAA-TTTTTTTAAAAAA-ACAGTAATTTTTGTGAAATTATTTT-TATGTCATTAACACATAAT
8314449 TTTGGTAAT-TTTT
63 TTTGGTAATATTTT
8314462 GTGAAGCTTT
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
92 5 0.08
93 17 0.26
94 22 0.33
95 22 0.33
ACGTcount: A:0.32, C:0.06, G:0.09, T:0.52
Consensus pattern (91 bp):
TGCAATTTTTTTAAAAAAACAGTAATTTTTGTGAAATTATTTTTATGTCATTAACACATAATTTT
GGTAATATTTTACCAAAATTCTAATT
Found at i:8315276 original size:119 final size:120
Alignment explanation
Indices: 8315141--8315369 Score: 313
Period size: 119 Copynumber: 1.9 Consensus size: 120
8315131 AGAAAAGTTT
* *
8315141 TGATTTTTTTCT-AAAAAAGAGAAAGTTTA-ATTTTTTTTAAAATAAAAATATGTTTTTTAGTGA
1 TGATTTTTTTCTAAAAAAAGAGAAAGTTTAGA---TTTTTAAAATAAAAATATATTTTTTAGTCA
8315204 TATTAAAGGAAAAGTTT-AAATTCTCAAAACAAAATTTTGAT-TTTTAAGAAAAATAG
63 TATTAAAGGAAAAGTTTAAAATTCTCAAAACAAAATTTTGATCTTTTAAGAAAAATAG
* * *
8315260 TGATTTTTTTTTAAAAAAAAGAGAAAGTTTAGATTTTTAAAATAAAAATTTATTTTTTAGTCATT
1 TGATTTTTTTCT-AAAAAAAGAGAAAGTTTAGATTTTTAAAATAAAAATATATTTTTTAGTCATA
* * * *
8315325 TTAAAGGAAAAGTTTAAAATTTTTAAAATAAACTTTTGATCTTTT
65 TTAAAGGAAAAGTTTAAAATTCTCAAAACAAAATTTTGATCTTTT
8315370 TCAACTATTT
Statistics
Matches: 96, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
119 54 0.56
120 20 0.21
121 21 0.22
122 1 0.01
ACGTcount: A:0.43, C:0.03, G:0.10, T:0.44
Consensus pattern (120 bp):
TGATTTTTTTCTAAAAAAAGAGAAAGTTTAGATTTTTAAAATAAAAATATATTTTTTAGTCATAT
TAAAGGAAAAGTTTAAAATTCTCAAAACAAAATTTTGATCTTTTAAGAAAAATAG
Found at i:8318278 original size:4 final size:4
Alignment explanation
Indices: 8318263--8318304 Score: 50
Period size: 4 Copynumber: 10.8 Consensus size: 4
8318253 GTGCCCTAAT
* * *
8318263 TTCA TT-A TTCA TTCA TTCA TTCA TCCT TTCA TTCA CTCA TTC
1 TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTC
8318305 TCTCATTTGT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
3 3 0.10
4 28 0.90
ACGTcount: A:0.21, C:0.29, G:0.00, T:0.50
Consensus pattern (4 bp):
TTCA
Found at i:8332685 original size:18 final size:19
Alignment explanation
Indices: 8332661--8332704 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
8332651 CAATCCTTAA
* *
8332661 AAATTAATAT-AAGTATTT
1 AAATTAAGATAAAATATTT
*
8332679 TAATTAAGATAAAATATTT
1 AAATTAAGATAAAATATTT
8332698 AAATTAA
1 AAATTAA
8332705 CTAATGACAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.41
Consensus pattern (19 bp):
AAATTAAGATAAAATATTT
Found at i:8334712 original size:3 final size:3
Alignment explanation
Indices: 8334704--8334754 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
8334694 ATTTTTGTAA
8334704 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8334752 TAT
1 TAT
8334755 CATCATCTTC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:8334902 original size:14 final size:14
Alignment explanation
Indices: 8334885--8334915 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
8334875 TATAATTGCT
8334885 TATATATATATATG
1 TATATATATATATG
8334899 TATATATATATATG
1 TATATATATATATG
8334913 TAT
1 TAT
8334916 TTTTTAACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (14 bp):
TATATATATATATG
Found at i:8335200 original size:18 final size:19
Alignment explanation
Indices: 8335160--8335202 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
8335150 AGTGCTTTAA
*
8335160 TTTTTATTTATTTATTTGC
1 TTTTTATTTATTGATTTGC
*
8335179 -TTTTATTTGTTGATTT-C
1 TTTTTATTTATTGATTTGC
8335196 TTTTTAT
1 TTTTTAT
8335203 CCTATTTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 1 0.05
18 20 0.95
ACGTcount: A:0.14, C:0.05, G:0.07, T:0.74
Consensus pattern (19 bp):
TTTTTATTTATTGATTTGC
Found at i:8347554 original size:99 final size:100
Alignment explanation
Indices: 8347380--8348066 Score: 799
Period size: 99 Copynumber: 7.1 Consensus size: 100
8347370 GTAACCATAG
* * * * **
8347380 ATTGCAATTTAAAAGATTGAGGCCACGACGGCGGATCTTACTTCCAAGCA-ATGCAGCGGAACAG
1 ATTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCTGGCAGATGCAGCGGAACAG
* * *
8347444 ATTGAAGCTACAATGGCGAATATCACTTCCCTGAC
66 ATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
* * * * *
8347479 ATTGCAA-TTAAAAGATTGAGGCCACAACGGCAAATCTTA-TTCCTAAGCAGGTGCAGCGGAACA
1 ATTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCT-GGCAGATGCAGCGGAACA
* **
8347542 GATTGAAGCTACAACAGCGAATCTTGCTTCCCCGAC
65 GATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
* * * * *
8347578 ATTGCAATTTAAAAGATTGAAGCTACAACAGTGAATCTTAC-CCTCTGGC-GATGCAGCGGAACA
1 ATTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTC-CTGGCAGATGCAGCGGAACA
*
8347641 GATTGAAGCTACAACAGCGAATCTCACTTCCCCGAC
65 GATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
* * *
8347677 ATTGTAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACCTT-CT-GCA-TTGCAGTGGAACA
1 ATTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTA-CTTCCTGGCAGATGCAGCGGAACA
*
8347739 GATTGAAGCTACAACAGCGAATCTCACTTCCCCGAC
65 GATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
* *
8347775 ATTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACATT-CTGGCA-TTGCAGTGGAACA
1 ATTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTAC-TTCCTGGCAGATGCAGCGGAACA
*
8347838 GATTGAAGCTACAACGGCGAGTCTCACTT-CCC--C
65 GATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
*
8347871 ATTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGC-GATGCAGCGGAACAG
1 ATTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCTGGCAGATGCAGCGGAACAG
*
8347935 ATTGAAGCTACAACGGCGAGTCTCACTT-CCC--C
66 ATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
* * * * * *
8347967 ATTGCAA--T---AGATCGAAGCCACAACGGCGAATCTCATTTCCTTGC-GGTGTAGTGGAACAG
1 ATTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCTGGCAGATGCAGCGGAACAG
* * * *
8348026 ATTGAAGCTACGATGGCGAATCTCGCTTCCCCAAC
66 ATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
8348061 ATTGCA
1 ATTGCA
8348067 GTCAAACAAA
Statistics
Matches: 527, Mismatches: 46, Indels: 35
0.87 0.08 0.06
Matches are distributed among these distances:
91 68 0.13
92 3 0.01
94 8 0.02
95 2 0.00
96 97 0.18
97 5 0.01
98 128 0.24
99 183 0.35
100 31 0.06
101 2 0.00
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (100 bp):
ATTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCTGGCAGATGCAGCGGAACAG
ATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
Found at i:8347566 original size:50 final size:50
Alignment explanation
Indices: 8347414--8347664 Score: 133
Period size: 49 Copynumber: 5.1 Consensus size: 50
8347404 ACGACGGCGG
**
8347414 ATCTTACTTCC-AAGCA-ATGCAGCGGAACAGATTGAAGCTACAATGGCGA
1 ATCTTA-TTCCTAAGCAGATGCAGCGGAACAGATTGAAGCTACAACAGCGA
* * * * *** * * * * *
8347463 ATATCACTTCCCTGA-CA-TTGCA-ATTAAAAGATTGAGGCCACAACGGCAA
1 ATCTTA-TT-CCTAAGCAGATGCAGCGGAACAGATTGAAGCTACAACAGCGA
*
8347512 ATCTTATTCCTAAGCAGGTGCAGCGGAACAGATTGAAGCTACAACAGCGA
1 ATCTTATTCCTAAGCAGATGCAGCGGAACAGATTGAAGCTACAACAGCGA
* ** * **** * *
8347562 ATCTTGCTTCC-CCGACA-TTGCAATTTAAAAGATTGAAGCTACAACAGTGA
1 ATCTT-ATTCCTAAG-CAGATGCAGCGGAACAGATTGAAGCTACAACAGCGA
* **
8347612 ATCTTA-CCCTCTGGC-GATGCAGCGGAACAGATTGAAGCTACAACAGCGA
1 ATCTTATTCCT-AAGCAGATGCAGCGGAACAGATTGAAGCTACAACAGCGA
8347661 ATCT
1 ATCT
8347665 CACTTCCCCG
Statistics
Matches: 147, Mismatches: 45, Indels: 20
0.69 0.21 0.09
Matches are distributed among these distances:
47 4 0.03
48 6 0.04
49 65 0.44
50 65 0.44
51 7 0.05
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (50 bp):
ATCTTATTCCTAAGCAGATGCAGCGGAACAGATTGAAGCTACAACAGCGA
Found at i:8348754 original size:20 final size:20
Alignment explanation
Indices: 8348729--8348768 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
8348719 CATAGTAAAA
8348729 ATAAAAGAAAAAAGAAAAGC
1 ATAAAAGAAAAAAGAAAAGC
8348749 ATAAAAGAAAAAAGAAAAGC
1 ATAAAAGAAAAAAGAAAAGC
8348769 CTTACCTGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.75, C:0.05, G:0.15, T:0.05
Consensus pattern (20 bp):
ATAAAAGAAAAAAGAAAAGC
Found at i:8349486 original size:3 final size:3
Alignment explanation
Indices: 8349478--8349519 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
8349468 GTTATTTTTG
8349478 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8349520 CATCTTCACT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:8349664 original size:14 final size:14
Alignment explanation
Indices: 8349647--8349673 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8349637 TATAATTGCT
8349647 TATATATATGTATA
1 TATATATATGTATA
8349661 TATATATATGTAT
1 TATATATATGTAT
8349674 TTTTTAACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (14 bp):
TATATATATGTATA
Found at i:8349958 original size:18 final size:19
Alignment explanation
Indices: 8349918--8349960 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
8349908 AGTGCTTTAA
*
8349918 TTTTTATTTATTTATTTGC
1 TTTTTATTTATTGATTTGC
*
8349937 -TTTTATTTGTTGATTT-C
1 TTTTTATTTATTGATTTGC
8349954 TTTTTAT
1 TTTTTAT
8349961 CCTATATTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 1 0.05
18 20 0.95
ACGTcount: A:0.14, C:0.05, G:0.07, T:0.74
Consensus pattern (19 bp):
TTTTTATTTATTGATTTGC
Found at i:8352780 original size:13 final size:14
Alignment explanation
Indices: 8352756--8352786 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
8352746 CATAAAGGGG
8352756 AAGAAGAAAAGGAA
1 AAGAAGAAAAGGAA
8352770 AAGAA-AAAAGGAA
1 AAGAAGAAAAGGAA
8352783 AAGA
1 AAGA
8352787 TTAAATTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (14 bp):
AAGAAGAAAAGGAA
Found at i:8355406 original size:21 final size:19
Alignment explanation
Indices: 8355382--8355435 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 19
8355372 AGCCTTCAAA
8355382 ATTAATCTTATTCATATTCAT
1 ATTAATCTTATTCATATT--T
*
8355403 ATT-ATGTATATTCATATTT
1 ATTAATCT-TATTCATATTT
*
8355422 ATTAAACTTATTCA
1 ATTAATCTTATTCA
8355436 AAACTGAACT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 10 0.36
20 5 0.18
21 13 0.46
ACGTcount: A:0.35, C:0.11, G:0.02, T:0.52
Consensus pattern (19 bp):
ATTAATCTTATTCATATTT
Found at i:8356576 original size:124 final size:124
Alignment explanation
Indices: 8356123--8356687 Score: 652
Period size: 126 Copynumber: 4.5 Consensus size: 124
8356113 GATAAAATCA
* * * * * * * * *
8356123 AAGCAGGATGATTTATCAGAAGGATTTTTGAAGTCGCGCCCACATGTACTCACTTTTGCTACAGT
1 AAGCAGGATGCTTTATTAGAAGAATTTGTGAAATC-CGCCCACGTGGACGCGCTTTTGCTACAGT
* * * *
8356188 AGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTAAGAAAATGGTTTAAAAAACGCTTC
65 AGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* * * * *
8356248 AAGCAGGATGCTTTGTGAGGAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTACTACAGT
1 AAGCAGGATGCTTTATTAGAAGAATTTGTGAAATC-CGCCCACGTGGACGCGCTTTTGCTACAGT
* * * * *
8356313 TGGTCCTGCAAGAAATAATTTCGAGC-TGACGTTTTTGAACAAATAGTTTAAAAAACGCTTC
65 AGGTCCTGGAA-AAATAATTTCGA-CTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* * *
8356374 AAGCAAGATGCTTTATAAGAAGAATTTGTGAATTCACGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATTAGAAGAATTTGTGAAATC-CGCCCACGTGGACGCGCTTTTGCTACAGT
* * * * * *
8356439 AGGTCTTGAAAAAATAATTTTGAGTTGACATTTCTGAGCAAATAGTATAAAACAACGCTGC
65 AGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAA-AACGCTTC
* * *
8356500 AAGCAGCATGCTATT-TTAGAAGAATTTGTGAAAT-CGCCCTCGTGGACGCACTTTTGCTACAGT
1 AAGCAGGATGCT-TTATTAGAAGAATTTGTGAAATCCGCCCACGTGGACGCGCTTTTGCTACAGT
* * *
8356563 TGGTCCTGGAAAAATAATTTTGACTTGACGTTTCTGAGCAAATAGTAT-AAAATCGCTTC
65 AGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* * * *
8356622 TAGCAGGATGTTTTATGAGAAGAATTTGTGAAATCGCGCCAACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATTAGAAGAATTTGTGAAATC-CGCCCACGTGGACGCGCTTTTGCTACAGT
8356687 A
65 A
8356688 ACATGTTTGG
Statistics
Matches: 373, Mismatches: 59, Indels: 17
0.83 0.13 0.04
Matches are distributed among these distances:
121 2 0.01
122 33 0.09
123 3 0.01
124 96 0.26
125 95 0.25
126 141 0.38
127 3 0.01
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.30
Consensus pattern (124 bp):
AAGCAGGATGCTTTATTAGAAGAATTTGTGAAATCCGCCCACGTGGACGCGCTTTTGCTACAGTA
GGTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
Found at i:8359886 original size:21 final size:21
Alignment explanation
Indices: 8359860--8361018 Score: 917
Period size: 22 Copynumber: 54.0 Consensus size: 21
8359850 TCAAATTATA
8359860 TTTAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
8359881 TTTAAGTTAAGGGTTTAGGGTTT
1 TTTAAGTTAAGGG-TTAGGG-TT
* *
8359904 TTTAGGTTAAGGGTCAAGGGTT
1 TTTAAGTTAAGGGT-TAGGGTT
* *
8359926 TTTAAGTTAATGTTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
8359947 TTTAGGTTAAGGGTTAGAGTT
1 TTTAAGTTAAGGGTTAGGGTT
* * *
8359968 TTAAAGTTAAAGGTTTAGAGTT
1 TTTAAGTT-AAGGGTTAGGGTT
*
8359990 TTTAGGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
* * **
8360012 TTAAAGATAAGTTTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
*
8360033 TTTAAGTTAGGGGTTAGGG-T
1 TTTAAGTTAAGGGTTAGGGTT
* * *
8360053 TTTAGGTTAAGGTTTTAAGGTT
1 TTTAAGTTAAGG-GTTAGGGTT
* * *
8360075 TTTAATTTAACGGTTAAGGTT
1 TTTAAGTTAAGGGTTAGGGTT
*
8360096 TTTAAGCTAAGGGTTTAGGG-T
1 TTTAAGTTAAGGG-TTAGGGTT
* *
8360117 TTTAAATTAAGGGTCTAAGGTT
1 TTTAAGTTAAGGGT-TAGGGTT
* * *
8360139 TTAAAGTTAAAGTTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* * * *
8360160 TTCAGGCTAAGGGTTAGGATT
1 TTTAAGTTAAGGGTTAGGGTT
* * **
8360181 TTTAGGTTAATGGTTTAATGTT
1 TTTAAGTTAA-GGGTTAGGGTT
*
8360203 TTTAATTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
8360224 TTAAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
*
8360246 TTAAAGTTAAGGGTCTAGGGTT
1 TTTAAGTTAAGGGT-TAGGGTT
* *
8360268 TTAAAGTTAAGGTTTA-GGTT
1 TTTAAGTTAAGGGTTAGGGTT
*
8360288 TTTCAAGTTAAGGGTTAAGGTT
1 TTT-AAGTTAAGGGTTAGGGTT
* *
8360310 TTTAGAGTTTAGGGTTTAGAGTT
1 TTTA-AGTTAAGGG-TTAGGGTT
*
8360333 TTTAATTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
* *
8360355 TTTAATTTAAGAGTTTAGGGTT
1 TTTAAGTTAAG-GGTTAGGGTT
* * *
8360377 TTTAGGTTAAAGGTTTTGGGTT
1 TTTAAGTT-AAGGGTTAGGGTT
*
8360399 TTTAAGTTAAGAGTTTAGGG--
1 TTTAAGTTAAG-GGTTAGGGTT
* *
8360419 TTTAAGGGTTAGGGGTTAGTGTT
1 TTTAA--GTTAAGGGTTAGGGTT
* *
8360442 TTTAATTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
* *
8360464 TTTAATTTAAGGGTTAGGATT
1 TTTAAGTTAAGGGTTAGGGTT
* *
8360485 TTTAATTTAAGAGATTAGGGGTT
1 TTTAAGTTAAG-GGTTA-GGGTT
*
8360508 TTTAGGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
* *
8360530 TTAAAGTTAAGAGTTTAGGG--
1 TTTAAGTTAAG-GGTTAGGGTT
*
8360550 TTT-AG----GGGTTAAGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* * *
8360566 TTTAATTTAAGAGTTTAAGGTT
1 TTTAAGTTAAG-GGTTAGGGTT
* *
8360588 TTTAGGTTAATGGTTTAGGGTT
1 TTTAAGTTAA-GGGTTAGGGTT
*
8360610 TTAAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
*
8360631 TTTAATTTAAGAGGTTAGGGTT
1 TTTAAGTTAAG-GGTTAGGGTT
*
8360653 TTTAGGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
* * * *
8360675 TTAAAGTGAAGGTTTAGGGTA
1 TTTAAGTTAAGGGTTAGGGTT
* *
8360696 TTTAGGTTAGGGGTTAGGG-T
1 TTTAAGTTAAGGGTTAGGGTT
* * *
8360716 TTTAATTTAAAGATTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
8360737 TTTAATTTAAGAGATTAGGGTTT
1 TTTAAGTTAAG-GGTTAGGG-TT
* * *
8360760 TTTAGGTTAAAGGTTTTGGGTT
1 TTTAAGTT-AAGGGTTAGGGTT
*
8360782 TTTAAGTTAAGAGTTTAGGG--
1 TTTAAGTTAAG-GGTTAGGGTT
* *
8360802 TTTAAGGGTTAGGGGTTAGTGTT
1 TTTAA--GTTAAGGGTTAGGGTT
* *
8360825 TTTAATTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
* *
8360847 TTTAATTTAAGGGTTAGAGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
8360868 TTTAATTTAAGAGTTTAGGGTT
1 TTTAAGTTAAG-GGTTAGGGTT
* *
8360890 TTTAGGTTAAGAGTTTAGGGTT
1 TTTAAGTTAAG-GGTTAGGGTT
*
8360912 TTAAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
8360933 TTTAGGTTAAGGGGTTAGAGTT
1 TTTAAGTTAA-GGGTTAGGGTT
* *
8360955 TTAAAGTTAATGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
8360976 TTTAGGTTAAGGGGTTAGGGGT
1 TTTAAGTTAA-GGGTTAGGGTT
*
8360998 TTTAAGTTAAGGTTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
8361019 ATGGTTTTTA
Statistics
Matches: 917, Mismatches: 168, Indels: 106
0.77 0.14 0.09
Matches are distributed among these distances:
14 6 0.01
15 1 0.00
16 3 0.00
17 1 0.00
19 2 0.00
20 44 0.05
21 332 0.36
22 451 0.49
23 74 0.08
24 3 0.00
ACGTcount: A:0.25, C:0.01, G:0.30, T:0.44
Consensus pattern (21 bp):
TTTAAGTTAAGGGTTAGGGTT
Found at i:8359984 original size:43 final size:42
Alignment explanation
Indices: 8359860--8361018 Score: 1009
Period size: 43 Copynumber: 27.0 Consensus size: 42
8359850 TCAAATTATA
8359860 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAA-GGTTTAGGG-TT
* * *
8359904 TTTAGGTTAAGGGTCAAGGGTTTTTAAGTTAATGTTTAGGGTT
1 TTTAAGTTAAGGGT-TAGGGTTTTTAAGTTAAGGTTTAGGGTT
* * * *
8359947 TTTAGGTTAAGGGTTAGAGTTTTAAAGTTAAAGGTTTAGAGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTT-AAGGTTTAGGGTT
* * * *
8359990 TTTAGGTTAAGGGTTTAGGGTTTTAAAGATAAGTTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGTTTAGGGTT
* * *
8360033 TTTAAGTTAGGGGTTAGGG-TTTTAGGTTAAGGTTTTAAGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGG-TTTAGGGTT
* * * *
8360075 TTTAATTTAACGGTTAAGGTTTTTAAGCTAAGGGTTTAGGG-T
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAA-GGTTTAGGGTT
* * * *
8360117 TTTAAATTAAGGGTCTAAGGTTTTAAAGTTAAAGTTTAGGGTT
1 TTTAAGTTAAGGGT-TAGGGTTTTTAAGTTAAGGTTTAGGGTT
* * * * * **
8360160 TTCAGGCTAAGGGTTAGGATTTTTAGGTTAATGGTTTAATGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAA-GGTTTAGGGTT
* * *
8360203 TTTAATTTAAGGGTTAGGGTTTTAAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAA-GGTTTAGGGTT
* *
8360246 TTAAAGTTAAGGGTCTAGGGTTTTAAAGTTAAGGTTTA-GGTT
1 TTTAAGTTAAGGGT-TAGGGTTTTTAAGTTAAGGTTTAGGGTT
* * *
8360288 TTTCAAGTTAAGGGTTAAGGTTTTTAGAGTTTAGGGTTTAGAGTT
1 TTT-AAGTTAAGGGTTAGGGTTTTTA-AG-TTAAGGTTTAGGGTT
* *
8360333 TTTAATTTAAGGGTTTAGGGTTTTTAATTTAAGAGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAG-GTTTAGGGTT
* * *
8360377 TTTAGGTTAAAGGTTTTGGGTTTTTAAGTTAAGAGTTTAGGG--
1 TTTAAGTT-AAGGGTTAGGGTTTTTAAGTTAAG-GTTTAGGGTT
* * * *
8360419 TTTAAGGGTTAGGGGTTAGTGTTTTTAATTTAAGGGTTTAAGGTT
1 TTTAA--GTTAAGGGTTAGGGTTTTTAAGTTAA-GGTTTAGGGTT
* * * *
8360464 TTTAATTTAAGGGTTAGGATTTTTAATTTAAGAGATTAGGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAG-GTTTA-GGGTT
* *
8360508 TTTAGGTTAAGGGTTTAGGGTTTTAAAGTTAAGAGTTTAGGG--
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAG-GTTTAGGGTT
* * *
8360550 TTT-AG----GGGTTAAGGTTTTTAATTTAAGAGTTTAAGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAG-GTTTAGGGTT
* * * *
8360588 TTTAGGTTAATGGTTTAGGGTTTTAAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAA-GGGTTAGGGTTTTTAAGTTAAGGTTTAGGGTT
* *
8360631 TTTAATTTAAGAGGTTAGGGTTTTTAGGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAG-GGTTAGGGTTTTTAAGTTAA-GGTTTAGGGTT
* * * * * * *
8360675 TTAAAGTGAAGGTTTAGGGTATTTAGGTTAGGGGTTAGGG-T
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGTTTAGGGTT
* * * * *
8360716 TTTAATTTAAAGATTAGGGTTTTTAATTTAAGAGATTAGGGTTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAG-GTTTAGGG-TT
* * *
8360760 TTTAGGTTAAAGGTTTTGGGTTTTTAAGTTAAGAGTTTAGGG--
1 TTTAAGTT-AAGGGTTAGGGTTTTTAAGTTAAG-GTTTAGGGTT
* * * *
8360802 TTTAAGGGTTAGGGGTTAGTGTTTTTAATTTAAGGGTTTAAGGTT
1 TTTAA--GTTAAGGGTTAGGGTTTTTAAGTTAA-GGTTTAGGGTT
* * *
8360847 TTTAATTTAAGGGTTAGAGTTTTTAATTTAAGAGTTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAG-GTTTAGGGTT
* * * *
8360890 TTTAGGTTAAGAGTTTAGGGTTTTAAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAG-GGTTAGGGTTTTTAAGTTAAGGTTTAGGGTT
* * *
8360933 TTTAGGTTAAGGGGTTAGAGTTTTAAAGTTAATGG-TTAGGGTT
1 TTTAAGTTAA-GGGTTAGGGTTTTTAAGTTAA-GGTTTAGGGTT
* *
8360976 TTTAGGTTAAGGGGTTAGGGGTTTTAAGTTAAGGTTTAGGGTT
1 TTTAAGTTAA-GGGTTAGGGTTTTTAAGTTAAGGTTTAGGGTT
8361019 ATGGTTTTTA
Statistics
Matches: 914, Mismatches: 152, Indels: 99
0.78 0.13 0.08
Matches are distributed among these distances:
36 24 0.03
37 3 0.00
38 3 0.00
39 1 0.00
41 34 0.04
42 121 0.13
43 429 0.47
44 203 0.22
45 96 0.11
ACGTcount: A:0.25, C:0.01, G:0.30, T:0.44
Consensus pattern (42 bp):
TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGTTTAGGGTT
Found at i:8360567 original size:36 final size:35
Alignment explanation
Indices: 8360508--8360588 Score: 99
Period size: 36 Copynumber: 2.3 Consensus size: 35
8360498 ATTAGGGGTT
* * *
8360508 TTTAGGTTAAGGGTTTAGGGTTTTAAAGTTAAGAG
1 TTTAGGTTTAGGGGTTAAGGTTTTAAAGTTAAGAG
* *
8360543 TTTAGGGTTTAGGGGTTAAGGTTTTTAATTTAAGAG
1 TTTA-GGTTTAGGGGTTAAGGTTTTAAAGTTAAGAG
8360579 TTTAAGGTTT
1 TTT-AGGTTT
8360589 TTAGGTTAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
35 4 0.10
36 34 0.87
37 1 0.03
ACGTcount: A:0.26, C:0.00, G:0.30, T:0.44
Consensus pattern (35 bp):
TTTAGGTTTAGGGGTTAAGGTTTTAAAGTTAAGAG
Found at i:8360596 original size:36 final size:37
Alignment explanation
Indices: 8360526--8360603 Score: 95
Period size: 36 Copynumber: 2.1 Consensus size: 37
8360516 AAGGGTTTAG
* *
8360526 GGTTTTAAAGTTAAGAGTTTAGGGTTTAGGGGTTAA-
1 GGTTTTAAAGTTAAGAGTTTAAGGTTTAGAGGTTAAT
* * **
8360562 GGTTTTTAATTTAAGAGTTTAAGGTTTTTAGGTTAAT
1 GGTTTTAAAGTTAAGAGTTTAAGGTTTAGAGGTTAAT
8360599 GGTTT
1 GGTTT
8360604 AGGGTTTTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
36 30 0.86
37 5 0.14
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (37 bp):
GGTTTTAAAGTTAAGAGTTTAAGGTTTAGAGGTTAAT
Found at i:8360620 original size:36 final size:35
Alignment explanation
Indices: 8360504--8360621 Score: 85
Period size: 36 Copynumber: 3.1 Consensus size: 35
8360494 AGAGATTAGG
8360504 GGTTTTTAGGTTAAGGGTTTAGGGTTTTAAAGTTAA
1 GGTTTTTAGGTTAA-GGTTTAGGGTTTTAAAGTTAA
****
8360540 GAGTTTAGGGTTTAGGGGTTAAGGTTT-TTAATTTAAGAGTTTAA
1 G-G-TT----TTTA--GGTTAAGGTTTAGGGTTTTAA-AG-TTAA
8360584 GGTTTTTAGGTTAATGGTTTAGGGTTTTAAAGTTAA
1 GGTTTTTAGGTTAA-GGTTTAGGGTTTTAAAGTTAA
8360620 GG
1 GG
8360622 GTTAGGGTTT
Statistics
Matches: 62, Mismatches: 8, Indels: 24
0.66 0.09 0.26
Matches are distributed among these distances:
36 13 0.21
37 8 0.13
38 11 0.18
42 11 0.18
43 8 0.13
44 11 0.18
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (35 bp):
GGTTTTTAGGTTAAGGTTTAGGGTTTTAAAGTTAA
Found at i:8360985 original size:27 final size:26
Alignment explanation
Indices: 8360955--8361034 Score: 69
Period size: 27 Copynumber: 3.2 Consensus size: 26
8360945 GGTTAGAGTT
*
8360955 TTAAAGTTAATGGTTAGGGTTTTTAGG
1 TTAAAGTT-AGGGTTAGGGTTTTTAGG
* *
8360982 TT-AAG---GGGTTAGGGGTTTTAAG
1 TTAAAGTTAGGGTTAGGGTTTTTAGG
* *
8361004 TTAAGGTTTAGGGTTATGGTTTTTAGG
1 TTAAAG-TTAGGGTTAGGGTTTTTAGG
8361031 TTAA
1 TTAA
8361035 GGGTTTCAGG
Statistics
Matches: 41, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
22 16 0.39
23 2 0.05
26 3 0.07
27 20 0.49
ACGTcount: A:0.24, C:0.00, G:0.33, T:0.44
Consensus pattern (26 bp):
TTAAAGTTAGGGTTAGGGTTTTTAGG
Found at i:8361045 original size:14 final size:14
Alignment explanation
Indices: 8360988--8361046 Score: 50
Period size: 14 Copynumber: 4.3 Consensus size: 14
8360978 TAGGTTAAGG
*
8360988 GGTTAGGGGTTTTA
1 GGTTAAGGGTTTTA
*
8361002 AGTTAA-GG-TTTA
1 GGTTAAGGGTTTTA
* *
8361014 GGGTTATGGTTTTTA
1 -GGTTAAGGGTTTTA
*
8361029 GGTTAAGGGTTTCA
1 GGTTAAGGGTTTTA
8361043 GGTT
1 GGTT
8361047 TGTCAATTAA
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
12 4 0.12
13 6 0.18
14 20 0.59
15 4 0.12
ACGTcount: A:0.19, C:0.02, G:0.36, T:0.44
Consensus pattern (14 bp):
GGTTAAGGGTTTTA
Found at i:8361312 original size:21 final size:21
Alignment explanation
Indices: 8361288--8361334 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
8361278 CTTTGTCCAG
*
8361288 CTTCTGGCGGCGG-TTGTGGTT
1 CTTCCGGCGG-GGATTGTGGTT
*
8361309 CTTCCGGCGGGGATTTTGGTT
1 CTTCCGGCGGGGATTGTGGTT
8361330 CTTCC
1 CTTCC
8361335 AGTAAGGCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.02, C:0.23, G:0.36, T:0.38
Consensus pattern (21 bp):
CTTCCGGCGGGGATTGTGGTT
Found at i:8362261 original size:7 final size:7
Alignment explanation
Indices: 8362251--8362276 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
8362241 TTATATACAT
8362251 AATACTA
1 AATACTA
8362258 AATACTA
1 AATACTA
8362265 AATACTA
1 AATACTA
8362272 AATAC
1 AATAC
8362277 CAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:8362482 original size:20 final size:20
Alignment explanation
Indices: 8362445--8362482 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
8362435 TTTATTTTTA
*
8362445 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
8362465 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
8362483 TATCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:8363043 original size:15 final size:15
Alignment explanation
Indices: 8363023--8363052 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8363013 TGGAATGTGT
8363023 GCGTCTAGGGTCTCC
1 GCGTCTAGGGTCTCC
*
8363038 GCGTCTCGGGTCTCC
1 GCGTCTAGGGTCTCC
8363053 ATCTCTCGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.03, C:0.37, G:0.33, T:0.27
Consensus pattern (15 bp):
GCGTCTAGGGTCTCC
Found at i:8363472 original size:50 final size:51
Alignment explanation
Indices: 8363429--8363525 Score: 135
Period size: 51 Copynumber: 1.9 Consensus size: 51
8363419 AATTATTTAA
8363429 AAATAGGGATTTAAGAG-AATTTA-AGAGGAACTTGAGAGCAAATTGAAAAT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGGAACTTGAGAGCAAATTGAAAAT
* * * *
8363479 AAATATGGATTTGAGAGAAATTTTGAAGGAATTTGAGAGCAAATTGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGA
8363526 GAGGAAATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
50 15 0.37
51 25 0.61
52 1 0.02
ACGTcount: A:0.45, C:0.03, G:0.25, T:0.27
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGAAAAT
Found at i:8363501 original size:11 final size:11
Alignment explanation
Indices: 8363487--8363563 Score: 72
Period size: 11 Copynumber: 6.9 Consensus size: 11
8363477 ATAAATATGG
8363487 ATTTGAGAGAA
1 ATTTGAGAGAA
*
8363498 ATTTTGA-AGGA
1 A-TTTGAGAGAA
8363509 ATTTGAGAGCAA
1 ATTTGAGAG-AA
8363521 A-TTGAGAGGAA
1 ATTTGAGA-GAA
8363532 ATTT-AGAAGAA
1 ATTTGAG-AGAA
8363543 A-TTGAGAGAAA
1 ATTTGAGAG-AA
8363554 ATTTGAGAGA
1 ATTTGAGAGA
8363564 GGATTAGTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 18
0.73 0.03 0.24
Matches are distributed among these distances:
10 9 0.16
11 28 0.51
12 18 0.33
ACGTcount: A:0.45, C:0.01, G:0.27, T:0.26
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:8363526 original size:33 final size:33
Alignment explanation
Indices: 8363487--8363563 Score: 102
Period size: 33 Copynumber: 2.3 Consensus size: 33
8363477 ATAAATATGG
* * *
8363487 ATTTGAGAGAAATTTTGAAGGAATTTGAGAGCAA
1 ATTTGAGAGAAATTTAGAA-GAAATTGAGAGAAA
8363521 A-TTGAGAGGAAATTTAGAAGAAATTGAGAGAAA
1 ATTTGAGA-GAAATTTAGAAGAAATTGAGAGAAA
8363554 ATTTGAGAGA
1 ATTTGAGAGA
8363564 GGATTAGTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
33 21 0.55
34 17 0.45
ACGTcount: A:0.45, C:0.01, G:0.27, T:0.26
Consensus pattern (33 bp):
ATTTGAGAGAAATTTAGAAGAAATTGAGAGAAA
Found at i:8366266 original size:5 final size:5
Alignment explanation
Indices: 8366256--8366311 Score: 103
Period size: 5 Copynumber: 11.2 Consensus size: 5
8366246 TTTGCTTTAG
*
8366256 TATTA TATTA TATTA TATTA CATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
8366306 TATTA T
1 TATTA T
8366312 GTAATTTGTA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 49 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:8367361 original size:13 final size:13
Alignment explanation
Indices: 8367345--8367370 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8367335 ACATTACGCA
8367345 AACAAATGGTTTT
1 AACAAATGGTTTT
8367358 AACAAATGGTTTT
1 AACAAATGGTTTT
8367371 TGGAAACACG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (13 bp):
AACAAATGGTTTT
Found at i:8368965 original size:43 final size:44
Alignment explanation
Indices: 8368863--8368972 Score: 120
Period size: 43 Copynumber: 2.5 Consensus size: 44
8368853 GTTGTCGTGC
* * *
8368863 AAGACCACATCTGGAACGTTGGCATCGACTTGTGATTTACGTGT
1 AAGACCACGTCTGGGACGTTGGCATCGACTTGTGATTTACATGT
*
8368907 AAGACC-CTGTTTGGGACAG-TGGCATCGA-TATGTGA-TTACATGT
1 AAGACCAC-GTCTGGGAC-GTTGGCATCGACT-TGTGATTTACATGT
*
8368950 AAGACCACGTCTGGGACGATGGC
1 AAGACCACGTCTGGGACGTTGGC
8368973 GTTGTATGAA
Statistics
Matches: 56, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
42 1 0.02
43 27 0.48
44 27 0.48
45 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (44 bp):
AAGACCACGTCTGGGACGTTGGCATCGACTTGTGATTTACATGT
Found at i:8369628 original size:19 final size:19
Alignment explanation
Indices: 8369604--8369655 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
8369594 AATCTTCAAG
8369604 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
8369623 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
8369642 GATATGCAATCTTA
1 GATATGCAATCTTA
8369656 AAAGATATGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:8369648 original size:38 final size:40
Alignment explanation
Indices: 8369604--8369680 Score: 113
Period size: 38 Copynumber: 1.9 Consensus size: 40
8369594 AATCTTCAAG
8369604 GATATGCAATCTT-AGATATGA-TATGTAATCTTAGATAT
1 GATATGCAATCTTAAGATATGATTATGTAATCTTAGATAT
*
8369642 GATATGCAATCTTAAAAGATATGATTTTGTAATCTTAGA
1 GATATGCAATCTT--AAGATATGATTATGTAATCTTAGA
8369681 GATTTAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
38 13 0.38
41 8 0.24
42 13 0.38
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.39
Consensus pattern (40 bp):
GATATGCAATCTTAAGATATGATTATGTAATCTTAGATAT
Found at i:8369909 original size:23 final size:23
Alignment explanation
Indices: 8369865--8369909 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
8369855 TCTTATTTTG
* *
8369865 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
8369888 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
8369910 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:8370155 original size:3 final size:3
Alignment explanation
Indices: 8370149--8370180 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
8370139 CATCATCATC
8370149 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
8370181 ATTCATGCGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:8377092 original size:45 final size:45
Alignment explanation
Indices: 8377021--8377427 Score: 348
Period size: 44 Copynumber: 9.2 Consensus size: 45
8377011 TGTACTGGCA
* *
8377021 TGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGG
1 TGAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCGTACTGGTGG
* * * *** *
8377066 CGAAGTAGATCGAAGAAAACAAATCTTGTCTTTATGTACTGG-CG
1 TGAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCGTACTGGTGG
* * *
8377110 TGAAGTAGATCAAAG-AAACAAATCTTGTCTCCCCATACTGGTGG
1 TGAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCGTACTGGTGG
* * * **
8377154 TGGAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTACT--TGCG
1 TGAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCGTACTGGTG-G
* *
8377198 TGAAGTAGATCAAAG-AAACAAATCTTGTCTTCCCATACTGGTGG
1 TGAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCGTACTGGTGG
* * * ** *
8377242 TGGAGTAGATCGAAGAAAATAGATCTTGTCTTCATGTACTGG-CG
1 TGAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCGTACTGGTGG
* * *
8377286 TGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCGTACTGATGG
1 TGAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCGTACTGGTGG
* * * ** *
8377331 CT-AAGCAGATCGAAGAAAACAGATCTTATCTTCATGTA-TCGG-CG
1 -TGAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCGTACT-GGTGG
* * * * * * *
8377375 TGAAGTAGATCAAATACAACATATTTTATCTTCCCATACTGGCGG
1 TGAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCGTACTGGTGG
8377420 T-AAGTAGA
1 TGAAGTAGA
8377428 GTGAAGATTA
Statistics
Matches: 282, Mismatches: 68, Indels: 25
0.75 0.18 0.07
Matches are distributed among these distances:
43 42 0.15
44 131 0.46
45 108 0.38
46 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (45 bp):
TGAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCGTACTGGTGG
Found at i:8377180 original size:88 final size:89
Alignment explanation
Indices: 8377000--8377427 Score: 578
Period size: 88 Copynumber: 4.8 Consensus size: 89
8376990 AAGTAGTAGT
* *
8377000 TCTTGTCTTCATGTACTGGCATGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTG
1 TCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAAATCTTGTCTTCCCATACTGGTG
* *
8377065 GCGAAGTAGATCGAAGAAAACAAA
66 GTGAAGTAGATCGAAGAAAACAGA
* *
8377089 TCTTGTCTTTATGTACTGGCGTGAAGTAGATCAAAGA-AACAAATCTTGTCTCCCCATACTGGTG
1 TCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAAATCTTGTCTTCCCATACTGGTG
* * * *
8377153 GTGGAGTAGATCAAAGATAGCAGA
66 GTGAAGTAGATCGAAGAAAACAGA
*
8377177 TCTTGTCTTCATGTACTTGCGTGAAGTAGATCAAAGA-AACAAATCTTGTCTTCCCATACTGGTG
1 TCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAAATCTTGTCTTCCCATACTGGTG
* *
8377241 GTGGAGTAGATCGAAGAAAATAGA
66 GTGAAGTAGATCGAAGAAAACAGA
* * * *
8377265 TCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCGTACTGATG
1 TCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAAATCTTGTCTTCCCATACTGGTG
*
8377330 GCT-AAGCAGATCGAAGAAAACAGA
66 G-TGAAGTAGATCGAAGAAAACAGA
* * * * * * *
8377354 TCTTATCTTCATGTA-TCGGCGTGAAGTAGATCAAATACAACATATTTTATCTTCCCATACTGGC
1 TCTTGTCTTCATGTACT-GGCGTGAAGTAGATCAAAGATAACAAATCTTGTCTTCCCATACTGGT
8377418 GGT-AAGTAGA
65 GGTGAAGTAGA
8377428 GTGAAGATTA
Statistics
Matches: 300, Mismatches: 36, Indels: 7
0.87 0.10 0.02
Matches are distributed among these distances:
88 168 0.56
89 131 0.44
90 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (89 bp):
TCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAAATCTTGTCTTCCCATACTGGTG
GTGAAGTAGATCGAAGAAAACAGA
Found at i:8377475 original size:265 final size:265
Alignment explanation
Indices: 8377000--8377478 Score: 619
Period size: 265 Copynumber: 1.8 Consensus size: 265
8376990 AAGTAGTAGT
*
8377000 TCTTGTCTTCATGTACTGGCATGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTG
1 TCTTGTCTTCATGTACTGGCATGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGATG
* * *
8377065 GCGAAGTAGATCGAAGAAAACAAATCTTGTCTTTATGTACTGGCGTGAAGTAGATCAAAGAAACA
66 GCGAAGCAGATCGAAGAAAACAAATCTTATCTTCATGTACTGGCGTGAAGTAGATCAAAGAAACA
* * * * * * * * *
8377130 AATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTACTT
131 AATCTTATCTCCCCATACTGGCGGTGAAGTAGATCAAAGATAGCAAATCTTATCTCCAAGCACGT
* *
8377195 GCGTGAAGTAGATCAAAGAAACAAATCTTGTCTTCCCATACTGGTGGTGGAGTAGATCGAAGAAA
196 GAGTGAAGCAGATCAAAGAAACAAATCTTGTCTTCCCATACTGGTGGTGGAGTAGATCGAAGAAA
8377260 ATAGA
261 ATAGA
* * *
8377265 TCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCGTACTGATG
1 TCTTGTCTTCATGTACTGGCATGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGATG
* * *
8377330 GCTAAGCAGATCGAAGAAAACAGATCTTATCTTCATGTA-TCGGCGTGAAGTAGATCAAATACAA
66 GCGAAGCAGATCGAAGAAAACAAATCTTATCTTCATGTACT-GGCGTGAAGTAGATCAAAGA-AA
* * * * *
8377394 CATATTTTATCTTCCCATACTGGCGGT-AAGTAGAGT-GAAGATTA-TAAATCTTATCTCCCTAA
129 CAAATCTTATCTCCCCATACTGGCGGTGAAGTAGA-TCAAAGA-TAGCAAATCTTATCT-CC-AA
*
8377456 GCA-GT-AGTGGAGCAGATCAAAGA
190 GCACGTGAGTGAAGCAGATCAAAGA
8377479 TGGCAGATTT
Statistics
Matches: 181, Mismatches: 27, Indels: 12
0.82 0.12 0.05
Matches are distributed among these distances:
264 1 0.01
265 148 0.82
266 29 0.16
267 3 0.02
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.29
Consensus pattern (265 bp):
TCTTGTCTTCATGTACTGGCATGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGATG
GCGAAGCAGATCGAAGAAAACAAATCTTATCTTCATGTACTGGCGTGAAGTAGATCAAAGAAACA
AATCTTATCTCCCCATACTGGCGGTGAAGTAGATCAAAGATAGCAAATCTTATCTCCAAGCACGT
GAGTGAAGCAGATCAAAGAAACAAATCTTGTCTTCCCATACTGGTGGTGGAGTAGATCGAAGAAA
ATAGA
Found at i:8377622 original size:44 final size:45
Alignment explanation
Indices: 8377558--8377655 Score: 144
Period size: 44 Copynumber: 2.2 Consensus size: 45
8377548 CAGTGGAATC
* ** *
8377558 GATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGT-GTGAAGTA
1 GATCGAAGAAAGCAGATCTTGTCTTCACATACTGGTGGTGAAGTA
*
8377602 GATCGAAGAAAGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTA
1 GATCGAAGAAAGCAGATCTTGTCTTCACATACTGGTGGTGAAGTA
8377647 GATCGAAGA
1 GATCGAAGA
8377656 TACAAGTCTT
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 31 0.65
45 17 0.35
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.28
Consensus pattern (45 bp):
GATCGAAGAAAGCAGATCTTGTCTTCACATACTGGTGGTGAAGTA
Found at i:8377859 original size:44 final size:43
Alignment explanation
Indices: 8377646--8377863 Score: 130
Period size: 44 Copynumber: 5.1 Consensus size: 43
8377636 GTGGTGAAGT
*
8377646 AGATCGAAGATACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGC
1 AGATTGAAG-TACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGC
* ** * * *
8377690 AGACTGAAGTAACCAA-TCCAATCTCCTTGAAGTTGCAATGGAGT
1 AGATTGAAGT-A-CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGC
* * * * *
8377734 GGATT-AAG-ACCACAGATCTCATCTCTCTGAAGTTGTAGTAGAGC
1 AGATTGAAGTA-CA-AG-TCTTATCTCCCTGAAGTTGCAGTGGAGC
* * * * * **
8377778 AGATCGCA-T-C-AGACTTATCT---TTAAGTTGTAGCAGAGC
1 AGATTGAAGTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGC
*
8377815 AAATTGAAGCTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGC
1 AGATTGAAG-TACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGC
8377859 AGATT
1 AGATT
8377864 AAAGATAGCA
Statistics
Matches: 127, Mismatches: 33, Indels: 28
0.68 0.18 0.15
Matches are distributed among these distances:
37 20 0.16
39 1 0.01
40 7 0.06
41 15 0.12
42 1 0.01
43 5 0.04
44 74 0.58
45 4 0.03
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (43 bp):
AGATTGAAGTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGC
Found at i:8378337 original size:18 final size:19
Alignment explanation
Indices: 8378302--8378338 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
8378292 AGCAATAGGG
*
8378302 AGCGCCGCAACAAGCCCTC
1 AGCGCCACAACAAGCCCTC
8378321 AGCGCCACAAC-AGCCCTC
1 AGCGCCACAACAAGCCCTC
8378339 GCCTCCAGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.27, C:0.49, G:0.19, T:0.05
Consensus pattern (19 bp):
AGCGCCACAACAAGCCCTC
Done.