Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_pilon, whole genome shotgun sequence
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: 11160956
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 52 of 55
Found at i:10468595 original size:42 final size:42
Alignment explanation
Indices: 10468538--10468621 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
10468528 TAGAACTAAG
*
10468538 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGT
1 TTTTGTCTCACTTGAGACAGTTTCTCTTGAAACAAATTTTGT
10468580 TTTTGTCTCACTTGAGACAGTTTCTCTTGAAACAAATTTTGT
1 TTTTGTCTCACTTGAGACAGTTTCTCTTGAAACAAATTTTGT
10468622 CTCTCTTGAG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.23, C:0.17, G:0.14, T:0.46
Consensus pattern (42 bp):
TTTTGTCTCACTTGAGACAGTTTCTCTTGAAACAAATTTTGT
Found at i:10468639 original size:78 final size:79
Alignment explanation
Indices: 10468501--10468647 Score: 235
Period size: 78 Copynumber: 1.9 Consensus size: 79
10468491 TTGAAACAAA
* * * *
10468501 TTTTGTCTCCCTTGAGACAGTTTCTTTTAGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCTCTT
1 TTTTGTCTCACTTGAGACAGTTTCTTTGAGAACTAAATTTTGTCTCTCTTGAGACAGTTTCCCTT
10468566 GAAACAAATTTTGT
66 GAAACAAATTTTGT
10468580 TTTTGTCTCACTTGAGACAGTTTCTCTTGA-AAC-AAATTTTGTCTCTCTTGAGACAGTTTCCCT
1 TTTTGTCTCACTTGAGACAGTTTCT-TTGAGAACTAAATTTTGTCTCTCTTGAGACAGTTTCCCT
10468643 TGAAA
65 TGAAA
10468648 TAAAATCTTT
Statistics
Matches: 63, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
78 33 0.52
79 27 0.43
80 3 0.05
ACGTcount: A:0.22, C:0.19, G:0.15, T:0.44
Consensus pattern (79 bp):
TTTTGTCTCACTTGAGACAGTTTCTTTGAGAACTAAATTTTGTCTCTCTTGAGACAGTTTCCCTT
GAAACAAATTTTGT
Found at i:10468682 original size:65 final size:65
Alignment explanation
Indices: 10468590--10469001 Score: 206
Period size: 65 Copynumber: 5.9 Consensus size: 65
10468580 TTTTGTCTCA
*
10468590 CTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAATAAAATC
1 CTTGAGATAGTTT-TCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAATAAAATC
10468655 T
65 T
* ** *
10468656 -TTGA-ATATGTTTTACATT-AAACAAATTTTGTCTC-CTTTGAGACAATTTCTTTTGGAACTAA
1 CTTGAGATA-GTTTT-C-TTGAAACAAATTTTGTCTCTC-TTGAGACAGTTTCCCTT-GAAATAA
**
10468717 GTTTTGTCTCT
61 ------AATCT
* * *
10468728 CTTGAGACAGTTTCTCTTGAAACAAATTTTGTTTTTGTCTCACTTGAGACAGTTTCTCTTGAAAT
1 CTTGAGATAGTTT-TCTTGAAACAAA------TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAT
*
10468793 AAATTTTGTCTCT
59 AAA------ATCT
* * * * *
10468806 CTTGAGATAGTTTCCCTTTAAACAAATTTTGTCTCTATTGAGATAGTTTCCCTTGAAACAAAATC
1 CTTGAGATAGTTT-TCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAATAAAATC
10468871 T
65 T
* * ** *
10468872 -TTTA-ATATGTTTTCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGT
1 CTTGAGATA-GTTTT-CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTT-GAAATAA--
**
10468935 TTTGTTTCT
61 ----AATCT
* * * * *
10468944 CTTGAGACAGTTTATCTTGAAACAAATTTTATCTCTCTTAAGGCAGTTTCCATTGAAA
1 CTTGAGATAGTTT-TCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAA
10469002 CAAAGTTTTG
Statistics
Matches: 264, Mismatches: 42, Indels: 74
0.69 0.11 0.19
Matches are distributed among these distances:
64 7 0.03
65 79 0.30
66 16 0.06
72 42 0.16
73 56 0.21
74 6 0.02
78 33 0.12
79 24 0.09
80 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.43
Consensus pattern (65 bp):
CTTGAGATAGTTTTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAATAAAATCT
Found at i:10468775 original size:42 final size:42
Alignment explanation
Indices: 10468718--10468801 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
10468708 TGGAACTAAG
*
10468718 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGT
1 TTTTGTCTCACTTGAGACAGTTTCTCTTGAAACAAATTTTGT
*
10468760 TTTTGTCTCACTTGAGACAGTTTCTCTTGAAATAAATTTTGT
1 TTTTGTCTCACTTGAGACAGTTTCTCTTGAAACAAATTTTGT
10468802 CTCTCTTGAG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.23, C:0.15, G:0.14, T:0.48
Consensus pattern (42 bp):
TTTTGTCTCACTTGAGACAGTTTCTCTTGAAACAAATTTTGT
Found at i:10468780 original size:180 final size:180
Alignment explanation
Indices: 10468478--10468823 Score: 622
Period size: 180 Copynumber: 1.9 Consensus size: 180
10468468 TCGAAGCAAC
* *
10468478 GAATATGTTTTCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTTTTAGAACTAAGTTTTG
1 GAATATGTTTTCATTGAAACAAATTTTGTCTCCCTTGAGACAATTTCTTTTAGAACTAAGTTTTG
10468543 TCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTTTTTGTCTCACTTGAGACAGTTTCTCTT
66 TCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTTTTTGTCTCACTTGAGACAGTTTCTCTT
10468608 GAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAATAAAATCTTT
131 GAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAATAAAATCTTT
* *
10468658 GAATATGTTTTACATT-AAACAAATTTTGTCTCCTTTGAGACAATTTCTTTTGGAACTAAGTTTT
1 GAATATGTTTT-CATTGAAACAAATTTTGTCTCCCTTGAGACAATTTCTTTTAGAACTAAGTTTT
10468722 GTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTTTTTGTCTCACTTGAGACAGTTTCTCT
65 GTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTTTTTGTCTCACTTGAGACAGTTTCTCT
* *
10468787 TGAAATAAATTTTGTCTCTCTTGAGATAGTTTCCCTT
130 TGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTT
10468824 TAAACAAATT
Statistics
Matches: 159, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
180 156 0.98
181 3 0.02
ACGTcount: A:0.25, C:0.17, G:0.14, T:0.44
Consensus pattern (180 bp):
GAATATGTTTTCATTGAAACAAATTTTGTCTCCCTTGAGACAATTTCTTTTAGAACTAAGTTTTG
TCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTTTTTGTCTCACTTGAGACAGTTTCTCTT
GAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAATAAAATCTTT
Found at i:10468818 original size:78 final size:79
Alignment explanation
Indices: 10468681--10468837 Score: 228
Period size: 78 Copynumber: 2.0 Consensus size: 79
10468671 ATTAAACAAA
* * * *
10468681 TTTTGTCTCCTTTGAGACAATTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCTCTT
1 TTTTGTCTCCTTTGAGACAATTTCTCTTGGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTT
10468746 GAAACAAATTTTGT
66 GAAACAAATTTTGT
* *
10468760 TTTTGTCTCAC-TTGAGACAGTTTCTCTT-GAAATAAATTTTGTCTCTCTTGAGATAGTTTCCCT
1 TTTTGTCTC-CTTTGAGACAATTTCTCTTGGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCT
*
10468823 TTAAACAAATTTTGT
65 TGAAACAAATTTTGT
10468838 CTCTATTGAG
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
78 45 0.64
79 24 0.34
80 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.14, T:0.46
Consensus pattern (79 bp):
TTTTGTCTCCTTTGAGACAATTTCTCTTGGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTT
GAAACAAATTTTGT
Found at i:10468881 original size:216 final size:217
Alignment explanation
Indices: 10468538--10468973 Score: 669
Period size: 216 Copynumber: 2.0 Consensus size: 217
10468528 TAGAACTAAG
*
10468538 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTTTTTGTCTCACTTGAGACAGTTT
1 TTTTGTCTCACTTGAGACAGTTTCTCTTGAAACAAA-----TTTTTGTCTCACTTGAGACAGTTT
* * *
10468603 CTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAATAAAATCTTTGAATATGTTT
61 CCCTTGAAACAAATTTTGTCTCTATTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATATGTTT
*
10468668 TACATT-AAACAAATTTTGTCTCCTTTGAGACAATTTCTTTTGGAACTAAGTTTTGTCTCTCTTG
126 T-CATTGAAACAAATTTTGTCTCCCTTGAGACAATTTCTTTTGGAACTAAGTTTTGTCTCTCTTG
*
10468732 AGACAGTTTCTCTTGAAACAAATTTTGT
190 AGACAGTTTATCTTGAAACAAATTTTGT
* * *
10468760 TTTTGTCTCACTTGAGACAGTTTCTCTTGAAATAAA-TTTTGTCTCTCTTGAGATAGTTTCCCTT
1 TTTTGTCTCACTTGAGACAGTTTCTCTTGAAACAAATTTTTGTCTCACTTGAGACAGTTTCCCTT
* * * *
10468824 TAAACAAATTTTGTCTCTATTGAGATAGTTTCCCTTGAAACAAAATCTTTTAATATGTTTTCCTT
66 GAAACAAATTTTGTCTCTATTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATATGTTTTCATT
* *
10468889 GAAACAAATTTTGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTTTCTCTTGAGACAG
131 GAAACAAATTTTGTCTCCCTTGAGACAATTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAG
10468954 TTTATCTTGAAACAAATTTT
196 TTTATCTTGAAACAAATTTT
10468974 ATCTCTCTTA
Statistics
Matches: 198, Mismatches: 15, Indels: 8
0.90 0.07 0.04
Matches are distributed among these distances:
215 3 0.02
216 161 0.81
222 34 0.17
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.44
Consensus pattern (217 bp):
TTTTGTCTCACTTGAGACAGTTTCTCTTGAAACAAATTTTTGTCTCACTTGAGACAGTTTCCCTT
GAAACAAATTTTGTCTCTATTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATATGTTTTCATT
GAAACAAATTTTGTCTCCCTTGAGACAATTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAG
TTTATCTTGAAACAAATTTTGT
Found at i:10468940 original size:180 final size:181
Alignment explanation
Indices: 10468531--10469022 Score: 523
Period size: 180 Copynumber: 2.7 Consensus size: 181
10468521 TTTCTTTTAG
*
10468531 AACTAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTTTTTGTCTCACTTGAG
1 AACTAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTTTTTGTCTCACTTGAG
* *
10468596 ACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAATAAA-----ATCT
66 ACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGCTCT
* * * *
10468656 TTGAATATGTTTTACATTAAACAAATTTTGTCTCCTTTGAGACAATTTCTTTTGG
131 TTGAATATGTTTTACATTAAACAAA---TATCT-CTTTAAGACAATTTCTCTTGA
*
10468711 AACTAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTTTTTGTCTCACTTGAG
1 AACTAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTTTTTGTCTCACTTGAG
* * *
10468776 ACAGTTTCTCTTGAAATAAATTTTGTCTCTCTTGAGATAGTTTCCCTTTAAACAAATTTTGTCTC
66 ACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTG-CTC
* * * ***
10468841 TATTGAGATA-G-TTTCCCTTGAAACAAA-ATCT-TTTAATATGTTTTC-CTTGA
130 T-TTGA-ATATGTTTTACATT-AAACAAATATCTCTTTAAGACAATTTCTCTTGA
* * * *
10468891 AAC-AAATTTTGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTG---TT-TCT--CTTGA
1 AACTAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC-AAATTTTGTTTTTGTCTCACTTGA
* * * * *
10468949 GACAGTTTATCTTGAAACAAATTTTATCTCTCTTAAGGCAGTTTCCATTGAAACAAAGTTTTGCC
65 GACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA-TTTTG-C
10469014 TCTCTTGAA
128 TCT-TTGAA
10469023 ACACCAATCT
Statistics
Matches: 271, Mismatches: 30, Indels: 28
0.82 0.09 0.09
Matches are distributed among these distances:
174 55 0.20
175 13 0.05
176 3 0.01
177 2 0.01
179 32 0.12
180 130 0.48
181 9 0.03
183 3 0.01
186 9 0.03
187 12 0.04
188 3 0.01
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.43
Consensus pattern (181 bp):
AACTAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTTTTTGTCTCACTTGAG
ACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGCTCT
TTGAATATGTTTTACATTAAACAAATATCTCTTTAAGACAATTTCTCTTGA
Found at i:10468991 original size:36 final size:35
Alignment explanation
Indices: 10468484--10469021 Score: 331
Period size: 36 Copynumber: 14.9 Consensus size: 35
10468474 CAACGAATAT
*
10468484 GTTTTCCTTGAAACAAATTTTGTCTCCCTTGAGACA
1 GTTTT-CTTGAAACAAATTTTGTCTCTCTTGAGACA
* *
10468520 G-TTTCTTTTAGAACTAAGTTTTGTCTCTCTTGAGACA
1 GTTTTC-TTGA-AAC-AAATTTTGTCTCTCTTGAGACA
*
10468557 GTTTCTCTTGAAACAAATTTTGTTTTTGTCTCACTTGAGACA
1 GTTT-TCTTGAAACAAA------TTTTGTCTCTCTTGAGACA
10468599 GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACA
1 GTTT-TCTTGAAACAAATTTTGTCTCTCTTGAGACA
* * * *
10468635 GTTTCCCTTGAAATAAA------ATCT-TTGA-ATA
1 GTTT-TCTTGAAACAAATTTTGTCTCTCTTGAGACA
10468663 TGTTTTACATT-AAACAAATTTTGTCTC-CTTTGAGACA
1 -GTTTT-C-TTGAAACAAATTTTGTCTCTC-TTGAGACA
* * * *
10468700 ATTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACA
1 GTTT-TCTTGAAAC-AAATTTTGTCTCTCTTGAGACA
*
10468737 GTTTCTCTTGAAACAAATTTTGTTTTTGTCTCACTTGAGACA
1 GTTT-TCTTGAAACAAA------TTTTGTCTCTCTTGAGACA
* *
10468779 GTTTCTCTTGAAATAAATTTTGTCTCTCTTGAGATA
1 GTTT-TCTTGAAACAAATTTTGTCTCTCTTGAGACA
* * * *
10468815 GTTTCCCTTTAAACAAATTTTGTCTCTATTGAGATA
1 GTTT-TCTTGAAACAAATTTTGTCTCTCTTGAGACA
* * *
10468851 GTTTCCCTTGAAACAAA----ATCT-T-TT-A-ATA
1 GTTT-TCTTGAAACAAATTTTGTCTCTCTTGAGACA
*
10468879 TGTTTTCCTTGAAACAAATTTTGTCTCCCTTGAGACA
1 -GTTTT-CTTGAAACAAATTTTGTCTCTCTTGAGACA
* * * *
10468916 GTTTCTTTTGGAACTAAGTTTTGTTTCTCTTGAGACA
1 GTTT-TCTTGAAAC-AAATTTTGTCTCTCTTGAGACA
* * *
10468953 GTTTATCTTGAAACAAATTTTATCTCTCTTAAGGCA
1 GTTT-TCTTGAAACAAATTTTGTCTCTCTTGAGACA
* *
10468989 GTTTCCATTGAAACAAAGTTTTGCCTCTCTTGA
1 GTTTTC-TTGAAACAAA-TTTTGTCTCTCTTGA
10469022 AACACCAATC
Statistics
Matches: 401, Mismatches: 54, Indels: 93
0.73 0.10 0.17
Matches are distributed among these distances:
28 5 0.01
29 31 0.08
30 7 0.02
31 1 0.00
32 3 0.01
33 3 0.01
34 1 0.00
35 13 0.03
36 158 0.39
37 102 0.25
38 6 0.01
39 2 0.00
42 69 0.17
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (35 bp):
GTTTTCTTGAAACAAATTTTGTCTCTCTTGAGACA
Found at i:10469008 original size:73 final size:73
Alignment explanation
Indices: 10468886--10469021 Score: 182
Period size: 73 Copynumber: 1.9 Consensus size: 73
10468876 ATATGTTTTC
* * ** * * **
10468886 CTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTTTCTCTTGAGA
1 CTTGAAACAAATTTTATCTCCCTTAAGACAGTTTCCATTGAAACAAAGTTTTGCCTCTCTTGAGA
10468951 CAGTTTAT
66 CAGTTTAT
* *
10468959 CTTGAAACAAATTTTATCTCTCTTAAGGCAGTTTCCATTGAAACAAAGTTTTGCCTCTCTTGA
1 CTTGAAACAAATTTTATCTCCCTTAAGACAGTTTCCATTGAAACAAAGTTTTGCCTCTCTTGA
10469022 AACACCAATC
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
73 53 1.00
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.41
Consensus pattern (73 bp):
CTTGAAACAAATTTTATCTCCCTTAAGACAGTTTCCATTGAAACAAAGTTTTGCCTCTCTTGAGA
CAGTTTAT
Found at i:10469677 original size:3 final size:3
Alignment explanation
Indices: 10469655--10469693 Score: 53
Period size: 3 Copynumber: 12.7 Consensus size: 3
10469645 CAAAAACATT
10469655 TTA TTA -TA TTA TATA TTTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA T-TA -TTA TTA TTA TTA TTA TTA TTA TT
10469694 TTGCAAGCCC
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 2 0.06
3 26 0.79
4 4 0.12
5 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:10470192 original size:3 final size:3
Alignment explanation
Indices: 10470140--10470176 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
10470130 AATGCTTTAT
10470140 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
10470177 CTTGCATTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:10471349 original size:29 final size:29
Alignment explanation
Indices: 10471282--10471359 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
10471272 TGAAAAATAA
* * * *
10471282 TTTACGTAAATTGGATTACTTAAAAAGTGT
1 TTTACGTAAAATGAATTACCT-AAAACTGT
10471312 TTTACGTAAAATGAATTACCTAAAACTGT
1 TTTACGTAAAATGAATTACCTAAAACTGT
*
10471341 TTTAGGTAAAATGAATTAC
1 TTTACGTAAAATGAATTAC
10471360 ATTTTATAGG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 25 0.58
30 18 0.42
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.37
Consensus pattern (29 bp):
TTTACGTAAAATGAATTACCTAAAACTGT
Found at i:10472396 original size:23 final size:23
Alignment explanation
Indices: 10472370--10472439 Score: 88
Period size: 23 Copynumber: 3.0 Consensus size: 23
10472360 CACCACAGCT
* *
10472370 TGTAAAAATGCACCGAAGTACCA
1 TGTAGAAATGCACCGAAGTGCCA
*
10472393 TGTAGAATTGCACCGAAGTGCC-
1 TGTAGAAATGCACCGAAGTGCCA
*
10472415 TCGTAGAAATGCACCGTAGTGCCA
1 T-GTAGAAATGCACCGAAGTGCCA
10472439 T
1 T
10472440 ATAAGATTGT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
22 1 0.03
23 38 0.95
24 1 0.03
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (23 bp):
TGTAGAAATGCACCGAAGTGCCA
Found at i:10474238 original size:30 final size:31
Alignment explanation
Indices: 10474181--10474240 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
10474171 CAACCTTTTA
** *
10474181 CAACTTTTCCAAAAATTATGAATTGGTCCCC
1 CAACTTTTCCAAAAATTACAAAATGGTCCCC
10474212 CAACTTTT-CAAAAATTACAAAATGGTCCC
1 CAACTTTTCCAAAAATTACAAAATGGTCCC
10474241 TAAATTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.37, C:0.25, G:0.08, T:0.30
Consensus pattern (31 bp):
CAACTTTTCCAAAAATTACAAAATGGTCCCC
Found at i:10475495 original size:30 final size:27
Alignment explanation
Indices: 10475461--10475522 Score: 72
Period size: 30 Copynumber: 2.2 Consensus size: 27
10475451 CTTTAATTTT
*
10475461 AATTATTAGTATT-TTATTAACATAATACTA
1 AATTATTA-TATTAATATTAA-AT-ATA-TA
10475491 AATTATTATATTAATATTAAATATATA
1 AATTATTATATTAATATTAAATATATA
10475518 AATTA
1 AATTA
10475523 ATATTACTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
27 7 0.23
28 3 0.10
29 6 0.20
30 14 0.47
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (27 bp):
AATTATTATATTAATATTAAATATATA
Found at i:10475505 original size:19 final size:19
Alignment explanation
Indices: 10475483--10475525 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
10475473 TTTATTAACA
*
10475483 TAATACTAAAT-TATTATAT
1 TAATACTAAATATA-TAAAT
*
10475502 TAATATTAAATATATAAAT
1 TAATACTAAATATATAAAT
10475521 TAATA
1 TAATA
10475526 TTACTCATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (19 bp):
TAATACTAAATATATAAAT
Found at i:10475677 original size:17 final size:17
Alignment explanation
Indices: 10475655--10475730 Score: 61
Period size: 17 Copynumber: 4.5 Consensus size: 17
10475645 AATAATACAA
10475655 TATTAAAATTATAATAT
1 TATTAAAATTATAATAT
*
10475672 TATTAAAATTATATTA-
1 TATTAAAATTATAATAT
*
10475688 TATGT-ATATTA-AATAT
1 TAT-TAAAATTATAATAT
* *
10475704 T-TTAATAATTAATATTTT
1 TATTAA-AATT-ATAATAT
10475722 TATTAAAAT
1 TATTAAAAT
10475731 GATATTAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
14 1 0.02
15 5 0.11
16 12 0.26
17 17 0.37
18 7 0.15
19 4 0.09
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (17 bp):
TATTAAAATTATAATAT
Found at i:10477864 original size:2 final size:2
Alignment explanation
Indices: 10477859--10477935 Score: 154
Period size: 2 Copynumber: 38.5 Consensus size: 2
10477849 TGTCACTCAC
10477859 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10477901 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10477936 TCTTTTATAT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 75 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10481033 original size:21 final size:21
Alignment explanation
Indices: 10481009--10481086 Score: 147
Period size: 21 Copynumber: 3.7 Consensus size: 21
10480999 TATGACCCAA
10481009 AGTATCGATACTCTTTCAAAT
1 AGTATCGATACTCTTTCAAAT
10481030 AGTATCGATACTCTTTCAAAT
1 AGTATCGATACTCTTTCAAAT
10481051 AGTATCGATACTCTTTCAAAT
1 AGTATCGATACTCTTTCAAAT
*
10481072 AGTATCGATATTCTT
1 AGTATCGATACTCTT
10481087 GCCCAGAAAC
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 56 1.00
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.40
Consensus pattern (21 bp):
AGTATCGATACTCTTTCAAAT
Found at i:10482263 original size:30 final size:30
Alignment explanation
Indices: 10482229--10482360 Score: 167
Period size: 30 Copynumber: 4.4 Consensus size: 30
10482219 ATTTACATAT
** *
10482229 TAAAACAATTTTCAGGTAATTTGTTTTACA
1 TAAAACAATTTTCAGGTAATTCATTTTACG
* *
10482259 TAAAACAGTTTTCATGTAATTCATTTTACG
1 TAAAACAATTTTCAGGTAATTCATTTTACG
* *
10482289 TAAAACAATTTTCATGTAATTCATTTGACG
1 TAAAACAATTTTCAGGTAATTCATTTTACG
* *
10482319 TAAAACAATTTTTAGGTAATCCATTTTACG
1 TAAAACAATTTTCAGGTAATTCATTTTACG
*
10482349 T-AAACTATTTTC
1 TAAAACAATTTTC
10482361 TAGAAAACCA
Statistics
Matches: 89, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
29 9 0.10
30 80 0.90
ACGTcount: A:0.36, C:0.13, G:0.09, T:0.42
Consensus pattern (30 bp):
TAAAACAATTTTCAGGTAATTCATTTTACG
Found at i:10482285 original size:15 final size:15
Alignment explanation
Indices: 10482267--10482314 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
10482257 CATAAAACAG
10482267 TTTTCATGTAATTCA
1 TTTTCATGTAATTCA
* **
10482282 TTTT-ACGTAAAACAA
1 TTTTCATGTAATTC-A
10482297 TTTTCATGTAATTCA
1 TTTTCATGTAATTCA
10482312 TTT
1 TTT
10482315 GACGTAAAAC
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
14 6 0.24
15 13 0.52
16 6 0.24
ACGTcount: A:0.31, C:0.12, G:0.06, T:0.50
Consensus pattern (15 bp):
TTTTCATGTAATTCA
Found at i:10482537 original size:113 final size:113
Alignment explanation
Indices: 10482403--10482630 Score: 456
Period size: 113 Copynumber: 2.0 Consensus size: 113
10482393 CTTAGTTTTA
10482403 GTTTTATATAATATACATATATCTAGTTTTAAAAAATAAATTATAAAGGTAAAATTAAAAACAAA
1 GTTTTATATAATATACATATATCTAGTTTTAAAAAATAAATTATAAAGGTAAAATTAAAAACAAA
10482468 TCTTGGTAACTCTTACAACCCCATGAATTACATATAATGAGAAGCATC
66 TCTTGGTAACTCTTACAACCCCATGAATTACATATAATGAGAAGCATC
10482516 GTTTTATATAATATACATATATCTAGTTTTAAAAAATAAATTATAAAGGTAAAATTAAAAACAAA
1 GTTTTATATAATATACATATATCTAGTTTTAAAAAATAAATTATAAAGGTAAAATTAAAAACAAA
10482581 TCTTGGTAACTCTTACAACCCCATGAATTACATATAATGAGAAGCATC
66 TCTTGGTAACTCTTACAACCCCATGAATTACATATAATGAGAAGCATC
10482629 GT
1 GT
10482631 CAAGGACAGA
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
113 115 1.00
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (113 bp):
GTTTTATATAATATACATATATCTAGTTTTAAAAAATAAATTATAAAGGTAAAATTAAAAACAAA
TCTTGGTAACTCTTACAACCCCATGAATTACATATAATGAGAAGCATC
Found at i:10482739 original size:17 final size:17
Alignment explanation
Indices: 10482714--10482751 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
10482704 TTTCAATAGA
*
10482714 AAATGTATAAAAAATTT
1 AAATATATAAAAAATTT
*
10482731 AAATATATAATAAATTT
1 AAATATATAAAAAATTT
10482748 AAAT
1 AAAT
10482752 TTTCAGAGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (17 bp):
AAATATATAAAAAATTT
Found at i:10486061 original size:37 final size:37
Alignment explanation
Indices: 10485990--10486063 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
10485980 TGGACTAGAC
* *
10485990 TGATAGAATTGTTAAATATGAAAAGTTAAATTTATTA
1 TGATAGAATTCTTAAATATGAAAAATTAAATTTATTA
* *
10486027 TGATAGAATTCTTAAATATGAAAAATTGAGTTTATTA
1 TGATAGAATTCTTAAATATGAAAAATTAAATTTATTA
10486064 AAATATTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.45, C:0.01, G:0.14, T:0.41
Consensus pattern (37 bp):
TGATAGAATTCTTAAATATGAAAAATTAAATTTATTA
Found at i:10486420 original size:33 final size:33
Alignment explanation
Indices: 10486382--10486448 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
10486372 GATTCGAGTC
10486382 AATATCGGATCAATTGATTTTCGAATTGGGTCA
1 AATATCGGATCAATTGATTTTCGAATTGGGTCA
* *
10486415 AATATCGGATCAATTGATTTTTGATTTGGGTCA
1 AATATCGGATCAATTGATTTTCGAATTGGGTCA
10486448 A
1 A
10486449 CCTTTAGAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (33 bp):
AATATCGGATCAATTGATTTTCGAATTGGGTCA
Found at i:10486674 original size:32 final size:32
Alignment explanation
Indices: 10486627--10486708 Score: 101
Period size: 32 Copynumber: 2.6 Consensus size: 32
10486617 TAAGATTAAT
** *
10486627 TTCAATTTGGCTTACTTTTGAATCGGGCCAAA
1 TTCAATTTGATTTACTTTTGAATCGGACCAAA
* * *
10486659 TTCAATTTGATTTACTTTTGGATCTGATCAAA
1 TTCAATTTGATTTACTTTTGAATCGGACCAAA
*
10486691 TTCAATTCGATTTACTTT
1 TTCAATTTGATTTACTTT
10486709 CGATTCAGGC
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (32 bp):
TTCAATTTGATTTACTTTTGAATCGGACCAAA
Found at i:10490324 original size:157 final size:159
Alignment explanation
Indices: 10490037--10490346 Score: 516
Period size: 157 Copynumber: 2.0 Consensus size: 159
10490027 AACAAGTGCA
* *
10490037 CATCACCAAGAACATAATATGTTTACATTTAGAGTCGCAACATGATAATAAACCTAACCTATTTG
1 CATCACCAACAACATAATATGTTTACATTTAGAGTCGCAACATAATAATAAACCTAACCTATTTG
10490102 ACAAGCTAACTGTCTGCAAACATATGCGTGAGACAAGCTAAAATAAATTTTAATTGAACACTGAA
66 ACAAGCTAACTGTCTGCAAACATATGCGTGAGACAAGCTAAAATAAATTTTAATTGAACACTGAA
*
10490167 ATTA-AATCTATAAAGCATTGATTACATT
131 ATTATAATCCATAAAGCATTGATTACATT
** *
10490195 CATCACCAACAACATAATATGTTTAGTTTTAGAGTCGCAGC-TAATAATAAACCTAACCTATTTG
1 CATCACCAACAACATAATATGTTTACATTTAGAGTCGCAACATAATAATAAACCTAACCTATTTG
* * * *
10490259 ACAAGCTAATTGTCTGCATACATATGCGTGTGACATGCTAAAATAAATTTTAATTGAACACTGAA
66 ACAAGCTAACTGTCTGCAAACATATGCGTGAGACAAGCTAAAATAAATTTTAATTGAACACTGAA
10490324 ATTATAATCCATAAAGCATTGAT
131 ATTATAATCCATAAAGCATTGAT
10490347 CGTATGTTTA
Statistics
Matches: 141, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
157 87 0.62
158 54 0.38
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.30
Consensus pattern (159 bp):
CATCACCAACAACATAATATGTTTACATTTAGAGTCGCAACATAATAATAAACCTAACCTATTTG
ACAAGCTAACTGTCTGCAAACATATGCGTGAGACAAGCTAAAATAAATTTTAATTGAACACTGAA
ATTATAATCCATAAAGCATTGATTACATT
Found at i:10493870 original size:14 final size:14
Alignment explanation
Indices: 10493853--10493892 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
10493843 ATAATTTAGA
10493853 ATTTAGGGTTTAAG
1 ATTTAGGGTTTAAG
10493867 ATTTAGGGTTTTAAG
1 ATTTAGGG-TTTAAG
10493882 --TTAGGGTTTAA
1 ATTTAGGGTTTAA
10493893 AGTATAGCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 5 0.20
13 6 0.24
14 8 0.32
15 6 0.24
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.45
Consensus pattern (14 bp):
ATTTAGGGTTTAAG
Found at i:10504266 original size:67 final size:66
Alignment explanation
Indices: 10504125--10504252 Score: 161
Period size: 67 Copynumber: 1.9 Consensus size: 66
10504115 ATCTAAATGG
* * * *
10504125 AAATAAGTATGGGCAAATTTCATATACAAATATAATCTTAAGGGAAAATTTGAAGTAAATTACAA
1 AAATAAATATGGGCAAATTTCATATAAAAATATAATCTTAAGGGAAAAGTTGAAGCAAATTACAA
10504190 A
66 A
* * *
10504191 AATATAAATATGGGCCAATTTCATATAAAAATATAATTTTAA-GGATTAAGTTGAA-CAAATTA
1 AA-ATAAATATGGGCAAATTTCATATAAAAATATAATCTTAAGGGA-AAAGTTGAAGCAAATTA
10504253 ATATTTAAAT
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
66 11 0.21
67 42 0.79
ACGTcount: A:0.49, C:0.07, G:0.12, T:0.31
Consensus pattern (66 bp):
AAATAAATATGGGCAAATTTCATATAAAAATATAATCTTAAGGGAAAAGTTGAAGCAAATTACAA
A
Found at i:10504410 original size:10 final size:11
Alignment explanation
Indices: 10504384--10504658 Score: 116
Period size: 10 Copynumber: 24.4 Consensus size: 11
10504374 AATAATTTTA
10504384 ATATAT-AT-T
1 ATATATAATAT
10504393 ATATATAATAT
1 ATATATAATAT
10504404 A-ATATAATAT
1 ATATATAATAT
10504414 A-AGTATACAT-T
1 ATA-TATA-ATAT
* *
10504425 ATACTTACTTATAA
1 ATA--TA-TAATAT
10504439 ATATATAATAT
1 ATATATAATAT
10504450 A-AGTATACAT-T
1 ATA-TATA-ATAT
10504461 ATACTTATAATAT
1 ATA--TATAATAT
* *
10504474 ATACATTATACT
1 ATATATAATA-T
10504486 AT-TAT-ATAT
1 ATATATAATAT
10504495 ATATAT-ATAT
1 ATATATAATAT
10504505 ATATAT-ATAT
1 ATATATAATAT
10504515 ATATAT-ATAT
1 ATATATAATAT
10504525 ATATAT-ATAT
1 ATATATAATAT
*
10504535 ATATATACATTAA
1 ATATATA-A-TAT
10504548 ATACTTATAAGTAT
1 ATA--TATAA-TAT
*
10504562 ATACAATACATTAT
1 ATA-TATA-A-TAT
*
10504576 ATATATAAGTAG
1 ATATATAA-TAT
10504588 ATAT-TATATAT
1 ATATATA-ATAT
10504599 ATATTATAAGTAT
1 ATA-TATAA-TAT
10504612 AT-TATACATAT
1 ATATATA-ATAT
*
10504623 ATATA-AGTAT
1 ATATATAATAT
* **
10504633 TTATATAACGT
1 ATATATAATAT
10504644 -TATATAAGTAT
1 ATATATAA-TAT
10504655 ATAT
1 ATAT
10504659 TATACTTCTA
Statistics
Matches: 210, Mismatches: 26, Indels: 57
0.72 0.09 0.19
Matches are distributed among these distances:
9 9 0.04
10 74 0.35
11 46 0.22
12 30 0.14
13 30 0.14
14 17 0.08
15 4 0.02
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (11 bp):
ATATATAATAT
Found at i:10504450 original size:23 final size:23
Alignment explanation
Indices: 10504393--10504541 Score: 67
Period size: 23 Copynumber: 6.3 Consensus size: 23
10504383 AATATATATT
10504393 ATATATAATATAATATAATATAA
1 ATATATAATATAATATAATATAA
* * * * *
10504416 GTATACATTATACT-TACTTATAA
1 ATATATAATATAATATA-ATATAA
10504439 ATATATAATATAAGTATACAT-TATA
1 ATATATAATATAA-TATA-ATATA-A
* * *
10504464 CT-TATAATAT-ATACATTAT-A
1 ATATATAATATAATATAATATAA
* *
10504484 CTAT-TATATATATATATATATATAT
1 ATATATA-ATATA-ATATA-ATATAA
*
10504509 ATATATATATATATATATATATATAT
1 ATATATA-ATATA-ATATA-ATATAA
10504535 ATATATA
1 ATATATA
10504542 CATTAAATAC
Statistics
Matches: 97, Mismatches: 17, Indels: 21
0.72 0.13 0.16
Matches are distributed among these distances:
20 5 0.05
21 6 0.06
22 6 0.06
23 29 0.30
24 14 0.14
25 9 0.09
26 28 0.29
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.45
Consensus pattern (23 bp):
ATATATAATATAATATAATATAA
Found at i:10504639 original size:2 final size:2
Alignment explanation
Indices: 10504384--10504627 Score: 133
Period size: 2 Copynumber: 129.5 Consensus size: 2
10504374 AATAATTTTA
*
10504384 AT AT AT AT -T AT AT AT A- AT AT A- AT AT A- AT AT A- AGT AT AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
* *
10504422 AT -T AT ACT -T ACT -T AT AA AT AT AT A- AT AT A- AGT AT AC AT
1 AT AT AT A-T AT A-T AT AT AT AT AT AT AT AT AT AT A-T AT AT AT
*
10504460 -T AT ACT -T AT A- AT AT AT AC AT -T AT ACT AT -T AT AT AT AT AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT
10504499 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
10504541 AC AT -T AA AT ACT -T AT A- AGT AT AT AC A- AT AC AT -T AT AT AT
1 AT AT AT AT AT A-T AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT
* *
10504580 AT A- AGT AG AT AT -T AT AT AT AT AT -T AT A- AGT AT AT -T AT AC
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT
10504619 AT AT AT AT A
1 AT AT AT AT A
10504628 AGTATTTATA
Statistics
Matches: 188, Mismatches: 19, Indels: 70
0.68 0.07 0.25
Matches are distributed among these distances:
1 25 0.13
2 152 0.81
3 11 0.06
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.44
Consensus pattern (2 bp):
AT
Found at i:10504649 original size:12 final size:12
Alignment explanation
Indices: 10504384--10504658 Score: 94
Period size: 12 Copynumber: 23.5 Consensus size: 12
10504374 AATAATTTTA
*
10504384 ATATATATTA-T
1 ATATATATAAGT
10504395 ATATAATATAA-T
1 ATAT-ATATAAGT
10504407 ATA-ATATAAGT
1 ATATATATAAGT
* *
10504418 ATACAT-TATACT
1 ATATATATA-AGT
*
10504430 -TACT-TATAAAT
1 ATA-TATATAAGT
10504441 ATATAATATAAGT
1 ATAT-ATATAAGT
* **
10504454 ATACATTATACTT
1 ATATA-TATAAGT
10504467 ATAATATATACA-T
1 AT-ATATATA-AGT
*
10504480 -TATACTATTA-T
1 ATATA-TATAAGT
10504491 ATATATAT-A-T
1 ATATATATAAGT
10504501 ATATATAT-A-T
1 ATATATATAAGT
10504511 ATATATAT-A-T
1 ATATATATAAGT
10504521 ATATATATATA-T
1 ATATATATA-AGT
*
10504533 ATATATATACATT
1 ATATATATA-AGT
*
10504546 AAATACTTATAAGT
1 ATATA--TATAAGT
* *
10504560 ATATACAATACATT
1 ATATA-TATA-AGT
10504574 ATATATATAAGT
1 ATATATATAAGT
*
10504586 AGATAT-TATA-T
1 ATATATATA-AGT
10504597 ATATATTATAAGT
1 ATATA-TATAAGT
*
10504610 ATAT-TAT-A-C
1 ATATATATAAGT
10504619 ATATATATAAGT
1 ATATATATAAGT
*
10504631 ATTTATATAACG-
1 ATATATATAA-GT
10504643 -T-TATATAAGT
1 ATATATATAAGT
10504653 ATATAT
1 ATATAT
10504659 TATACTTCTA
Statistics
Matches: 208, Mismatches: 25, Indels: 61
0.71 0.09 0.21
Matches are distributed among these distances:
9 5 0.02
10 47 0.23
11 37 0.18
12 60 0.29
13 40 0.19
14 15 0.07
15 4 0.02
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (12 bp):
ATATATATAAGT
Found at i:10504800 original size:16 final size:16
Alignment explanation
Indices: 10504755--10504802 Score: 87
Period size: 16 Copynumber: 3.0 Consensus size: 16
10504745 AACTAAAGAC
*
10504755 CAGGTTGATAACAGGT
1 CAGGTTGATAACATGT
10504771 CAGGTTGATAACATGT
1 CAGGTTGATAACATGT
10504787 CAGGTTGATAACATGT
1 CAGGTTGATAACATGT
10504803 AAGATAATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.29
Consensus pattern (16 bp):
CAGGTTGATAACATGT
Found at i:10509613 original size:6 final size:6
Alignment explanation
Indices: 10509611--10509647 Score: 56
Period size: 6 Copynumber: 6.0 Consensus size: 6
10509601 AACATATTTA
*
10509611 TATAAT TATAAT TATAAT TATAAT TGATTAT TATAAT
1 TATAAT TATAAT TATAAT TATAAT T-ATAAT TATAAT
10509648 GTTGACATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 23 0.82
7 5 0.18
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (6 bp):
TATAAT
Found at i:10511092 original size:24 final size:24
Alignment explanation
Indices: 10511065--10511174 Score: 102
Period size: 24 Copynumber: 4.6 Consensus size: 24
10511055 GTAAACGGAG
*
10511065 ATATCAGAAATCAAAACAGAATTC
1 ATATCAGAAATCAGAACAGAATTC
* *
10511089 ATATCAGATATCAGAACAGAATCC
1 ATATCAGAAATCAGAACAGAATTC
*
10511113 AGATCAG-AATCAGAACAGAATTC
1 ATATCAGAAATCAGAACAGAATTC
* *
10511136 AGGTAAC-G-TATCAGAACAGAATTC
1 A--TATCAGAAATCAGAACAGAATTC
*
10511160 A-ATTCGGAAATCAGA
1 ATA-TCAGAAATCAGA
10511175 TAAAATATTT
Statistics
Matches: 70, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
21 1 0.01
22 1 0.01
23 16 0.23
24 50 0.71
25 2 0.03
ACGTcount: A:0.47, C:0.17, G:0.15, T:0.20
Consensus pattern (24 bp):
ATATCAGAAATCAGAACAGAATTC
Found at i:10511096 original size:12 final size:12
Alignment explanation
Indices: 10511069--10511160 Score: 66
Period size: 12 Copynumber: 7.8 Consensus size: 12
10511059 ACGGAGATAT
* *
10511069 CAGAAATCAAAA
1 CAGAATTCAGAA
* *
10511081 CAGAATTCATAT
1 CAGAATTCAGAA
10511093 CAG-ATATCAGAA
1 CAGAAT-TCAGAA
* *
10511105 CAGAATCCAGAT
1 CAGAATTCAGAA
10511117 CAGAA-TCAGAA
1 CAGAATTCAGAA
10511128 CAGAATTCAGGTAA
1 CAGAATTCA-G-AA
*
10511142 C-GTA-TCAGAA
1 CAGAATTCAGAA
10511152 CAGAATTCA
1 CAGAATTCA
10511161 ATTCGGAAAT
Statistics
Matches: 62, Mismatches: 11, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
10 3 0.05
11 14 0.23
12 37 0.60
13 5 0.08
14 3 0.05
ACGTcount: A:0.48, C:0.18, G:0.15, T:0.18
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:10511148 original size:47 final size:48
Alignment explanation
Indices: 10511067--10511157 Score: 125
Period size: 47 Copynumber: 1.9 Consensus size: 48
10511057 AAACGGAGAT
*
10511067 ATCAGAAATCAAAACAGAATTCATATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAAAACAGAATTCATAACAGATATCAGAACAGAATCCAG
*
10511115 ATCAG-AATCAGAACAGAATTCAGGTAAC-G-TATCAGAACAGAAT
1 ATCAGAAATCAAAACAGAATTCA--TAACAGATATCAGAACAGAAT
10511158 TCAATTCGGA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
47 30 0.77
48 6 0.15
49 3 0.08
ACGTcount: A:0.48, C:0.18, G:0.15, T:0.19
Consensus pattern (48 bp):
ATCAGAAATCAAAACAGAATTCATAACAGATATCAGAACAGAATCCAG
Found at i:10521429 original size:2 final size:2
Alignment explanation
Indices: 10521422--10521478 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
10521412 AACTAACAAG
10521422 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10521464 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
10521479 CTTTCTAAGT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10522975 original size:3 final size:3
Alignment explanation
Indices: 10522969--10523006 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
10522959 TCGAAAAAAA
10522969 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
10523007 CCCAAGAACT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:10523062 original size:12 final size:12
Alignment explanation
Indices: 10523047--10523092 Score: 74
Period size: 12 Copynumber: 3.8 Consensus size: 12
10523037 TTTCCACCAC
*
10523047 TCCATGTTTTCT
1 TCCATGTTTTGT
10523059 TCCATGTTTTGT
1 TCCATGTTTTGT
10523071 TCCATGTTTTGT
1 TCCATGTTTTGT
*
10523083 ACCATGTTTT
1 TCCATGTTTT
10523093 ATTATTCCAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.11, C:0.20, G:0.13, T:0.57
Consensus pattern (12 bp):
TCCATGTTTTGT
Found at i:10523684 original size:146 final size:147
Alignment explanation
Indices: 10523284--10523656 Score: 545
Period size: 146 Copynumber: 2.6 Consensus size: 147
10523274 CGGGATCCAT
*
10523284 GATCAATATTCCGAACGGTCAAAAGTTGCGTAAGGCCATA-AAAAACAACATATTGAAAAATCAG
1 GATCAATATTCCGAACGGTCAAAAGTTGCGTAAGGCCA-ACAAGAACAACATATTGAAAAATCAG
* * *
10523348 GACGATCGGACGGTGGACGGTGACGGATCGGAGAAAACAAATCC-AGACGGTTTTTAGCCTCTTT
65 GACGATCGGACGGTGGACGGTGACGGATCAGAGAAAACAAATCCGAGACAGTTTTTAGCCTCTTG
* *
10523412 CTGGTGATTGGAATCTTC
130 CCGGTGATCGGAATCTTC
* * *
10523430 GATCAACATTCCGAACGGTCAAATGTTGCGTAAGGCCATCAAGAACAACATATTGAAAAATCAGG
1 GATCAATATTCCGAACGGTCAAAAGTTGCGTAAGGCCAACAAGAACAACATATTGAAAAATCAGG
*
10523495 ACGATCGGACGGTAGACGGTGACGGATCAGAGAAAACAAATCCGA-ACAGTTTTTAGCCTCTTGC
66 ACGATCGGACGGTGGACGGTGACGGATCAGAGAAAACAAATCCGAGACAGTTTTTAGCCTCTTGC
10523559 CGGTGATCGGAATCTTC
131 CGGTGATCGGAATCTTC
* * ** * * * *
10523576 GATCAGTATTCCGAACGGTGAAAAGTTGCGCGATGCCAACACGAACAACCTATTAAAAAATCAGG
1 GATCAATATTCCGAACGGTCAAAAGTTGCGTAAGGCCAACAAGAACAACATATTGAAAAATCAGG
*
10523641 ACGATCAGACGGTGGA
66 ACGATCGGACGGTGGA
10523657 TGACGGCAGA
Statistics
Matches: 202, Mismatches: 23, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
146 201 1.00
147 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.21
Consensus pattern (147 bp):
GATCAATATTCCGAACGGTCAAAAGTTGCGTAAGGCCAACAAGAACAACATATTGAAAAATCAGG
ACGATCGGACGGTGGACGGTGACGGATCAGAGAAAACAAATCCGAGACAGTTTTTAGCCTCTTGC
CGGTGATCGGAATCTTC
Found at i:10526522 original size:7 final size:6
Alignment explanation
Indices: 10526501--10526545 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
10526491 ATTAACACCT
**
10526501 TTTGCA TTTGCA TTTGGCA TTTGCA TTTGCA CCTGCA -TTGCA TTT
1 TTTGCA TTTGCA TTT-GCA TTTGCA TTTGCA TTTGCA TTTGCA TTT
10526546 ATGTATTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
5 4 0.12
6 24 0.71
7 6 0.18
ACGTcount: A:0.16, C:0.20, G:0.18, T:0.47
Consensus pattern (6 bp):
TTTGCA
Found at i:10526522 original size:13 final size:13
Alignment explanation
Indices: 10526504--10526529 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10526494 AACACCTTTT
10526504 GCATTTGCATTTG
1 GCATTTGCATTTG
10526517 GCATTTGCATTTG
1 GCATTTGCATTTG
10526530 CACCTGCATT
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:0.15, C:0.15, G:0.23, T:0.46
Consensus pattern (13 bp):
GCATTTGCATTTG
Found at i:10530040 original size:125 final size:125
Alignment explanation
Indices: 10529818--10530079 Score: 357
Period size: 125 Copynumber: 2.1 Consensus size: 125
10529808 AAGTTATGAT
* * * * *
10529818 ATGTTGGGGCACGACTGAACCCACGTCATGTTGAGATTACAAGATTCAGACCAATGAGGCATGAA
1 ATGTTGAGGCACGACGGAACCCACATCATGTCGAGATGACAAGATTCAGACCAATGAGGCATGAA
*
10529883 GAATGAGCCTTAGAAATTGAGGTGATGGGGCATTTTAAAGGCCCATACAAGTATAAGATA
66 GAATGAGCCTTACAAATTGAGGTGATGGGGCATTTTAAAGGCCCATACAAGTATAAGATA
* *
10529943 ATGTTGAGGCATGACGGAACCCACATCATGTCGAGATGACAAGATTCAGACTAA-GAAGGCATTG
1 ATGTTGAGGCACGACGGAACCCACATCATGTCGAGATGACAAGATTCAGACCAATG-AGGCA-TG
* * * * * *
10530007 -AGAATGAGCCTTACAATTTGAGGTGTTGGGGCATTTTGAAGGCCCGTACCAGTATGAGATA
64 AAGAATGAGCCTTACAAATTGAGGTGATGGGGCATTTTAAAGGCCCATACAAGTATAAGATA
*
10530068 ATATTGAGGCAC
1 ATGTTGAGGCAC
10530080 TAGTGATGGC
Statistics
Matches: 119, Mismatches: 16, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
124 1 0.01
125 116 0.97
126 2 0.02
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.24
Consensus pattern (125 bp):
ATGTTGAGGCACGACGGAACCCACATCATGTCGAGATGACAAGATTCAGACCAATGAGGCATGAA
GAATGAGCCTTACAAATTGAGGTGATGGGGCATTTTAAAGGCCCATACAAGTATAAGATA
Found at i:10531360 original size:36 final size:36
Alignment explanation
Indices: 10531245--10531438 Score: 201
Period size: 36 Copynumber: 5.4 Consensus size: 36
10531235 AGCAAAGTCA
* ** * *
10531245 ATCTTAAGCCTTCACCGAAGAGGAGTGAAGCAGATCA
1 ATCTTAAGCCTTCACCAAAGAATAGTGAAGCA-AACC
* *
10531282 ATCTAAAGCCTTCACCAAATAATAGTGAAGC-AACC
1 ATCTTAAGCCTTCACCAAAGAATAGTGAAGCAAACC
* * *
10531317 ATCTTAAGCCGTCACTAAAGAGTAGTGAAGCAAACC
1 ATCTTAAGCCTTCACCAAAGAATAGTGAAGCAAACC
10531353 ATCTTAAGCCTTCACCAAAGAATAGTGAAGCAAACC
1 ATCTTAAGCCTTCACCAAAGAATAGTGAAGCAAACC
** * * * * *
10531389 ATCTTGTGTCTTCATCAAAGAGTCGTGAAGGAAATCC
1 ATCTTAAGCCTTCACCAAAGAATAGTGAAGCAAA-CC
*
10531426 ATTTTAAGCCTTC
1 ATCTTAAGCCTTC
10531439 TCAGAAGAGT
Statistics
Matches: 129, Mismatches: 26, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
35 28 0.22
36 64 0.50
37 37 0.29
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.23
Consensus pattern (36 bp):
ATCTTAAGCCTTCACCAAAGAATAGTGAAGCAAACC
Found at i:10531892 original size:54 final size:54
Alignment explanation
Indices: 10531810--10533339 Score: 1632
Period size: 54 Copynumber: 29.0 Consensus size: 54
10531800 AGTGAAGCAA
* *
10531810 AAGAAGATTATTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCAGTTTG
1 AAGAAGA-TGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
* *
10531865 AAGAAAATG-TCTGAGTTCTATACTCCCTAGAGAAAGAGTGAGCGAACCCGTTTG
1 AAGAAGATGTTC-GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
* * *
10531919 AA-AA-TTGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAATCAGTTTG
1 AAGAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
*
10531971 AAGAAAATG-TCTGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
1 AAGAAGATGTTC-GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
* *
10532025 AA-AA-TTG-TCTGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCTGTTTG
1 AAGAAGATGTTC-GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
* * * *
10532077 --G-AGAT-TGTCTGAGTTCTATACTTCCTGAAAGAAAGAGGAAGCGAACCCG-TTC
1 AAGAAGATGT-TC-GAGTTCTATACTCCCT-AGAGAAAGAGGGAGCGAACCCGTTTG
* *
10532129 ACAGAAGATGTTTGAGTTCTATACTCCCT-GAAGAAAGAGGGAGCGAACCCATTT-
1 A-AGAAGATGTTCGAGTTCTATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTTG
* * *
10532183 --GAAGATTTTTGAGTTCTATACTCCCT-GAAGAAAGAGGGAACGAACCCGTTTG
1 AAGAAGATGTTCGAGTTCTATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTTG
* * * *
10532235 AAGAAGATGTTCGAGTTCCATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTT
1 AAGAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
* * *
10532289 CATAAGATTTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
1 AAGAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
* * * * *
10532343 AA-AA-TTGTTCGAGTTATATACTCTCTAGAGAAAGAGGGAGCGAATCAGTTTG
1 AAGAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
* * *
10532395 AATAAAATGTCCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
1 AAGAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
* *
10532449 AA-AA-TTG-TCTGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCTGTTTG
1 AAGAAGATGTTC-GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
* *
10532501 --G-AGAT-TGTCTGAGTTCTATACTCCCTAAATAAAGAGGGAGCGAACCCGTTT-
1 AAGAAGATGT-TC-GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
* *
10532552 --GAAGATGCTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
1 AAGAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
*
10532604 --G-AGATGTTCGAGTTCTATACTCCCTAGAGAAACAGGGAGCGAACCCG--T-
1 AAGAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
* * *
10532652 --GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGTGAACCC--ATG
1 AAGAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
* *
10532702 AAG-AGATGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTT
1 AAGAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
* * * **
10532755 CAGAAGATTTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTAAG
1 AAGAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
* * * * * * ** **
10532809 AAAAAAATGTTCGAGTTTTATACTCCTTAGAGAAAGAAGGACCGAACATGTAAG
1 AAGAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
10532863 AAGAAGATGTTCGAGTT-TCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT-
1 AAGAAGATGTTCGAGTTCT-ATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
* ** * * ** *
10532916 --GAAGATGTTTGAGTTCCGTACTCCTTAAAGAAAGAATGAGCGAACCCGTTTT
1 AAGAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
* * * * * ** *
10532968 CAGAAGATTTTCGAGTTCCATACTCCTTAAAGAAAGAATGAGCGAACCCGTTTT
1 AAGAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
* * * * * **
10533022 CAGAAGATTTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGTGAACCCATAAG
1 AAGAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
*
10533076 AAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT-
1 AAGAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
10533129 --GAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
1 AAGAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
* * * * * *
10533181 AAGAAGATATCCGAGTTCCATACT-CCTTGAAGAAAGAAGGAGTGAACCCGTTTG
1 AAGAAGATGTTCGAGTTCTATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTTG
* * * **
10533235 -AGGAGAT-ATCTGAGTTTTATACTCCCT-GAAGAAAGAGGGAGCGAACCCGTAAG
1 AAGAAGATGTTC-GAGTTCTATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTTG
* * * ***
10533288 AAGAAGATGTTCGAGTTCCATACTCCTTAAAGAAAGAATAAGCGAACCCGTT
1 AAGAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTT
10533340 AATAGAAGAT
Statistics
Matches: 1268, Mismatches: 154, Indels: 107
0.83 0.10 0.07
Matches are distributed among these distances:
48 1 0.00
49 44 0.03
50 2 0.00
51 268 0.21
52 246 0.19
53 83 0.07
54 592 0.47
55 26 0.02
56 5 0.00
57 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.24
Consensus pattern (54 bp):
AAGAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
Found at i:10532267 original size:159 final size:157
Alignment explanation
Indices: 10531810--10533339 Score: 1587
Period size: 159 Copynumber: 9.7 Consensus size: 157
10531800 AGTGAAGCAA
* * *
10531810 AAGAAGAT-TATTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCAGTTTGAAGAAAATG
1 AAGAAGATGT-TT-GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAG--ATTT
* * *
10531874 TCTGAGTTCTATACTCCCTAGAGAAAGAGTGAGCGAACCCGTTTGAA-AA-TTGTTCGAGTTCTA
62 TC-GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCCA
* *
10531937 TACTCCCTAGAGAAAGAGGGAGCGAATCAGTTT
126 TACTCCCTAGAGAAAGAGGGAGCGAACCCG-TT
* * * *
10531970 GAAGAAAATGTCTGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAAATTGTCT
1 -AAGAAGATGTTTGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATTTTC-
* *
10532035 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCTGTTTG--G-AGAT-TGTCTGAGTTCTAT
64 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGT-TC-GAGTTCCAT
* * *
10532096 ACTTCCTGAAAGAAAGAGGAAGCGAACCCGTT
127 ACTCCCT-AGAGAAAGAGGGAGCGAACCCGTT
*
10532128 CACAGAAGATGTTTGAGTTCTATACTCCCT-GAAGAAAGAGGGAGCGAACCCATTTGAAGATTTT
1 -A-AGAAGATGTTTGAGTTCTATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTTGAAGATTTT
* *
10532192 TGAGTTCTATACTCCCT-GAAGAAAGAGGGAACGAACCCGTTTGAAGAAGATGTTCGAGTTCCAT
63 CGAGTTCTATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCCAT
* *
10532256 ACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTT
127 ACTCCCTAGAGAAAGAGGGAGCGAACCCG--TT
* * *
10532289 CATAAGAT-TTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAAATTGTTC
1 AAGAAGATGTTT-GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATT-TTC
* * * * * * * *
10532353 GAGTTATATACTCTCTAGAGAAAGAGGGAGCGAATCAGTTTGAATAAAATGTCCGAGTTCTATAC
64 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCCATAC
10532418 TCCCTAGAGAAAGAGGGAGCGAACCCGTT
129 TCCCTAGAGAAAGAGGGAGCGAACCCGTT
* * * * * *
10532447 -TGAAAATTGTCTGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCTGTTTGGAGATTGTCT
1 AAGAAGA-TGTTTGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATTTTC-
* * *
10532511 GAGTTCTATACTCCCTAAATAAAGAGGGAGCGAACCCGTTT---GAAGATGCTCGAGTTCCATAC
64 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCCATAC
10532573 TCCCTAGAGAAAGAGGGAGCGAACCCGTT
129 TCCCTAGAGAAAGAGGGAGCGAACCCGTT
* * * * *
10532602 -TGGAGATGTTCGAGTTCTATACTCCCTAGAGAAACAGGGAGCGAACCCG--TGAAGATGTTCGA
1 AAGAAGATGTTTGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATTTTCGA
* * * *
10532664 GTTCCATACTCCCTAGAGAAAGAGGGAGTGAACCC--ATGAAG-AGATGTTCGAGTTCTATACTC
66 GTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCCATACTC
*
10532726 CCTAAAGAAAGAGGGAGCGAACCCGTTTT
131 CCTAGAGAAAGAGGGAGCGAACCCG--TT
* * ** * *
10532755 CAGAAGAT-TTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTAAGAAAAAAATGT
1 AAGAAGATGTTT-GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG---AAGATTT
* * * * ** ** *
10532819 TCGAGTTTTATACTCCTTAGAGAAAGAAGGACCGAACATGTAAGAAGAAGATGTTCGAGTTTCAT
62 TCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCCAT
10532884 ACTCCCTAGAGAAAGAGGGAGCGAACCCGTT
127 ACTCCCTAGAGAAAGAGGGAGCGAACCCGTT
* ** * * **
10532915 -TGAAGATGTTTGAGTTCCGTACTCCTTAAAGAAAGAATGAGCGAACCCGTTTTCAGAAGATTTT
1 AAGAAGATGTTTGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCG-TTT--GAAGATTTT
* * * ** ** *
10532979 CGAGTTCCATACTCCTTAAAGAAAGAATGAGCGAACCCGTTTTCAGAAGATTTTCGAGTTCCATA
63 CGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCCATA
* * *
10533044 CTCCCTAGAGAAAGAGGGAGTGAACCCATAAG
128 CTCCCTAGAGAAAGAGGGAGCGAACCCGT--T
* * *
10533076 AAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGA
1 AAGAAGATGTTTGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATTTTCGA
* *
10533141 GTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATATCCGAGTTCCATACT-
66 GTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCCATACTC
* * *
10533205 CCTTGAAGAAAGAAGGAGTGAACCCGTTT
131 CCTAG-AGAAAGAGGGAGCGAACCCG-TT
* * * * * ** *
10533234 GAGGAGATATCTGAGTTTTATACTCCCT-GAAGAAAGAGGGAGCGAACCCGTAAGAAGAAGATGT
1 AAGAAGATGTTTGAGTTCTATACTCCCTAG-AGAAAGAGGGAGCGAACCCGT---TTGAAGATTT
* * * ***
10533298 TCGAGTTCCATACTCCTTAAAGAAAGAATAAGCGAACCCGTT
62 TCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTT
10533340 AATAGAAGAT
Statistics
Matches: 1160, Mismatches: 159, Indels: 100
0.82 0.11 0.07
Matches are distributed among these distances:
149 1 0.00
151 76 0.07
152 9 0.01
153 4 0.00
154 80 0.07
155 49 0.04
156 3 0.00
157 10 0.01
158 235 0.20
159 389 0.34
160 147 0.13
161 69 0.06
162 88 0.08
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.24
Consensus pattern (157 bp):
AAGAAGATGTTTGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATTTTCGA
GTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCCATACTC
CCTAGAGAAAGAGGGAGCGAACCCGTT
Found at i:10532325 original size:213 final size:209
Alignment explanation
Indices: 10531810--10533339 Score: 1577
Period size: 213 Copynumber: 7.2 Consensus size: 209
10531800 AGTGAAGCAA
* * * * *
10531810 AAGAAGATTATTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCAGTTTGAAGAAAATGT
1 AAGAAGA-TGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAG--ATTTT
* * * *
10531875 CTGAGTTCTATACTCCCTAGAGAAAGAGTGAGCGAACCCGTTTGAA-AA-TTGTTCGAGTTCTAT
63 C-GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCG-TTGAAGAAGATGTTCGAGTTCCAT
*
10531938 ACTCCCTAGAGAAAGAGGGAGCGAA-TCAGTTTGAAGAAAATG-TCTGAGTTCTATACTCCCTAG
126 ACTCCCTAGAGAAAGAGGGAGCGAACCCA-TTTGAAG---ATGTTC-GAGTTCTATACTCCCTAG
*
10532001 AGAAAGAGGGAGCGAACCCGTTTG
186 AGAAAGAGGGAGCGAACCCGTATG
* * * * *
10532025 AA-AA-TTG-TCTGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCTGTTTGGAGATTGTCT
1 AAGAAGATGTTC-GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATTTTC-
* * * * *
10532087 GAGTTCTATACTTCCTGAAAGAAAGAGGAAGCGAACCCGTTCACAGAAGATGTTTGAGTTCTATA
64 GAGTTCTATACTCCCT-AAAGAAAGAGGGAGCGAACCCGTTGA-AGAAGATGTTCGAGTTCCATA
* *
10532152 CTCCCT-GAAGAAAGAGGGAGCGAACCCATTTGAAGATTTTTGAGTTCTATACTCCCT-GAAGAA
127 CTCCCTAG-AGAAAGAGGGAGCGAACCCATTTGAAGATGTTCGAGTTCTATACTCCCTAG-AGAA
* *
10532215 AGAGGGAACGAACCCGTTTG
190 AGAGGGAGCGAACCCGTATG
* * *
10532235 AAGAAGATGTTCGAGTTCCATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTTCATAAGATTTT
1 AAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCG-TTT--GAAGATTTT
* * **
10532300 CGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAA-AA-TTGTTCGAGTTATATA
63 CGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCG-TTGAAGAAGATGTTCGAGTTCCATA
* * * *
10532363 CTCTCTAGAGAAAGAGGGAGCGAA-TCAGTTTGAATAAAATGTCCGAGTTCTATACTCCCTAGAG
127 CTCCCTAGAGAAAGAGGGAGCGAACCCA-TTTG---AAGATGTTCGAGTTCTATACTCCCTAGAG
*
10532427 AAAGAGGGAGCGAACCCGTTTG
188 AAAGAGGGAGCGAACCCGTATG
* * * * *
10532449 AA-AA-TTG-TCTGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCTGTTTGGAGATTGTCT
1 AAGAAGATGTTC-GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATTTTC-
* * *
10532511 GAGTTCTATACTCCCTAAATAAAGAGGGAGCGAACCCGTT--TGAAGATGCTCGAGTTCCATACT
64 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTGAAGAAGATGTTCGAGTTCCATACT
* * *
10532574 CCCTAGAGAAAGAGGGAGCGAACCCGTTTGGAGATGTTCGAGTTCTATACTCCCTAGAGAAACAG
129 CCCTAGAGAAAGAGGGAGCGAACCCATTTGAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAG
10532639 GGAGCGAACCCG--T-
194 GGAGCGAACCCGTATG
* * *
10532652 --GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGTGAACCC--ATGAAGAGATGTTC
1 AAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG-A-AGATTTTC
** *
10532713 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTTCAGAAGATTTTCGAGTTCCATAC
64 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCG-TTGAAGAAGATGTTCGAGTTCCATAC
* ** * * *
10532778 TCCCTAGAGAAAGAGGGAGCGAACCCGTAAGAAAAAAATGTTCGAGTTTTATACTCCTTAGAGAA
128 TCCCTAGAGAAAGAGGGAGCGAACCCATTTG---AAGATGTTCGAGTTCTATACTCCCTAGAGAA
* * ** *
10532843 AGAAGGACCGAACATGTAAG
190 AGAGGGAGCGAACCCGTATG
*
10532863 AAGAAGATGTTCGAGTTTCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTT-G
1 AAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAT-TTTCG
** * ** ** *
10532927 AGTTCCGTACTCCTTAAAGAAAGAATGAGCGAACCCGTTTTCAGAAGATTTTCGAGTTCCATACT
65 AGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCG-TTGAAGAAGATGTTCGAGTTCCATACT
* * ** * * *
10532992 CCTTAAAGAAAGAATGAGCGAACCCGTTTTCAGAAGATTTTCGAGTTCCATACTCCCTAGAGAAA
129 CCCTAGAGAAAGAGGGAGCGAACCC-ATTT--GAAGATGTTCGAGTTCTATACTCCCTAGAGAAA
* * *
10533057 GAGGGAGTGAACCCATAAG
191 GAGGGAGCGAACCCGTATG
*
10533076 AAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGA
1 AAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATTTTCGA
* * *
10533141 GTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATATCCGAGTTCCATACT-
66 GTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCG-TTGAAGAAGATGTTCGAGTTCCATACTC
* * * * * *
10533205 CCTTGAAGAAAGAAGGAGTGAACCCGTTTGAGGAGAT-ATCTGAGTTTTATACTCCCT-GAAGAA
130 CCTAG-AGAAAGAGGGAGCGAACCCATTTGA--AGATGTTC-GAGTTCTATACTCCCTAG-AGAA
*
10533268 AGAGGGAGCGAACCCGTAAG
190 AGAGGGAGCGAACCCGTATG
* * ***
10533288 AAGAAGATGTTCGAGTTCCATACTCCTTAAAGAAAGAATAAGCGAACCCGTT
1 AAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTT
10533340 AATAGAAGAT
Statistics
Matches: 1121, Mismatches: 139, Indels: 113
0.82 0.10 0.08
Matches are distributed among these distances:
201 2 0.00
202 39 0.03
203 44 0.04
204 3 0.00
205 48 0.04
206 43 0.04
208 40 0.04
209 49 0.04
210 108 0.10
211 71 0.06
212 216 0.19
213 373 0.33
214 72 0.06
215 12 0.01
216 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.24
Consensus pattern (209 bp):
AAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATTTTCGA
GTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTGAAGAAGATGTTCGAGTTCCATACTCC
CTAGAGAAAGAGGGAGCGAACCCATTTGAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGG
AGCGAACCCGTATG
Found at i:10533490 original size:55 final size:55
Alignment explanation
Indices: 10533368--10533620 Score: 314
Period size: 55 Copynumber: 4.6 Consensus size: 55
10533358 GCTTACTTGC
* * ** *
10533368 TCGAGTCTTATATTCTCTGAAGAAATAGGGAGCAAACGCGA-TATTGAAGAATGT
1 TCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACAAGATTATTGAAGATTGT
* * *
10533422 TTGAGTCTTATACTATCTGAACG-AATAGAGAGCAGACAAGATTATTGAAGATTGT
1 TCGAGTCTTATACTCTCTGAA-GAAATAGGGAGCAGACAAGATTATTGAAGATTGT
* * *
10533477 TCGAGTTTTATACTCTCTGAAGAAATAGGGAGCATACAAGATTGTTGAAGATTGT
1 TCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACAAGATTATTGAAGATTGT
* *
10533532 TCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACAAGATTGTTGAAGATTGT
1 TCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACAAGATTATTGAAGATTGT
* ** *
10533587 TTGAGTCCCATACTCTCTGAA-AGAATATGGAGCA
1 TCGAGTCTTATACTCTCTGAAGA-AATAGGGAGCA
10533621 TACATGTTTT
Statistics
Matches: 175, Mismatches: 20, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
54 34 0.19
55 141 0.81
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.29
Consensus pattern (55 bp):
TCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACAAGATTATTGAAGATTGT
Found at i:10533637 original size:55 final size:55
Alignment explanation
Indices: 10533368--10533651 Score: 306
Period size: 55 Copynumber: 5.2 Consensus size: 55
10533358 GCTTACTTGC
* * * ** * *
10533368 TCGAGTCTTATATTCTCTGAAGAAATAGGGAGCAAACGCGA-TATTGAAGAATGT
1 TCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACAAGATTGTTGAAGATTGT
* * * * *
10533422 TTGAGTCTTATACTATCTGAACG-AATAGAGAGCAGACAAGATTATTGAAGATTGT
1 TCGAGTCTCATACTCTCTGAA-GAAATAGGGAGCAGACAAGATTGTTGAAGATTGT
* * *
10533477 TCGAGTTTTATACTCTCTGAAGAAATAGGGAGCATACAAGATTGTTGAAGATTGT
1 TCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACAAGATTGTTGAAGATTGT
10533532 TCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACAAGATTGTTGAAGATTGT
1 TCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACAAGATTGTTGAAGATTGT
* * * * * * *
10533587 TTGAGTCCCATACTCTCTGAA-AGAATATGGAGCATACATG-TTTTTCGAAGATTTT
1 TCGAGTCTCATACTCTCTGAAGA-AATAGGGAGCAGACAAGATTGTT-GAAGATTGT
*
10533642 TCAAGTCTCA
1 TCGAGTCTCA
10533652 CTTACCCCGG
Statistics
Matches: 198, Mismatches: 27, Indels: 9
0.85 0.12 0.04
Matches are distributed among these distances:
54 38 0.19
55 160 0.81
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (55 bp):
TCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACAAGATTGTTGAAGATTGT
Found at i:10533825 original size:3 final size:3
Alignment explanation
Indices: 10533819--10533866 Score: 87
Period size: 3 Copynumber: 15.7 Consensus size: 3
10533809 TCGAAAAAAA
10533819 TAT TAT TAAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
10533865 TA
1 TA
10533867 CCCAAGAACT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 41 0.93
4 3 0.07
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:10533922 original size:12 final size:12
Alignment explanation
Indices: 10533907--10533967 Score: 86
Period size: 12 Copynumber: 5.1 Consensus size: 12
10533897 TTTCCACCAC
10533907 TCCATGTTTTAT
1 TCCATGTTTTAT
*
10533919 TCCATGTTTTGT
1 TCCATGTTTTAT
*
10533931 TCCATGTTTTGT
1 TCCATGTTTTAT
* *
10533943 TCTATGTTTTCT
1 TCCATGTTTTAT
10533955 TCCATGTTTTAT
1 TCCATGTTTTAT
10533967 T
1 T
10533968 ATTCCACTTA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 44 1.00
ACGTcount: A:0.11, C:0.16, G:0.11, T:0.61
Consensus pattern (12 bp):
TCCATGTTTTAT
Found at i:10533939 original size:24 final size:24
Alignment explanation
Indices: 10533907--10533967 Score: 95
Period size: 24 Copynumber: 2.5 Consensus size: 24
10533897 TTTCCACCAC
*
10533907 TCCATGTTTTATTCCATGTTTTGT
1 TCCATGTTTTATTCCATGTTTTCT
* *
10533931 TCCATGTTTTGTTCTATGTTTTCT
1 TCCATGTTTTATTCCATGTTTTCT
10533955 TCCATGTTTTATT
1 TCCATGTTTTATT
10533968 ATTCCACTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.11, C:0.16, G:0.11, T:0.61
Consensus pattern (24 bp):
TCCATGTTTTATTCCATGTTTTCT
Found at i:10534422 original size:146 final size:145
Alignment explanation
Indices: 10534158--10534530 Score: 584
Period size: 146 Copynumber: 2.6 Consensus size: 145
10534148 TGGGATCTCT
* *
10534158 GATCAATATTCTGAACGGTCAAAAGTTGCGTAAGGCCATCACGAACAACATAGTGAAAAATCAGG
1 GATCAATATTCCGAACGGTCAAAAGTTGCGTAA-GCCATCACGAACAACATATTGAAAAATCAGG
* * * *
10534223 ACGATCGGACGATGGACGGTGACGGATCGGAGAAAACAAATCCGGACGGTTTTTAGCCTCTTTCC
65 ACGATCGGACGGTGGACGGTGACGGATCAGAGAAAACAAATCCGGACAGTTTTTAGCCTCTTGCC
10534288 GGTGATCGGAATCTTC
130 GGTGATCGGAATCTTC
* *
10534304 GATCAACATTCCGAACAGTCAAAAGTTGCGTAAGACCATCACGAACAACATATTGAAAAATCAGG
1 GATCAATATTCCGAACGGTCAAAAGTTGCGTAAG-CCATCACGAACAACATATTGAAAAATCAGG
10534369 ACGATCGGACGGTGGACGGTGACGGATCAGAGAAAACAAATCCGGACAGTTTTTAGCCTCTTGCC
65 ACGATCGGACGGTGGACGGTGACGGATCAGAGAAAACAAATCCGGACAGTTTTTAGCCTCTTGCC
10534434 GGTGATCGGAATCTTC
130 GGTGATCGGAATCTTC
* * * * * * *
10534450 GATCAGTATTCCAAACGGTGAAAAGTTGTGTGATGCCAACACGAACAACCTATTGAAAAATCAGG
1 GATCAATATTCCGAACGGTCAAAAGTTGCGT-AAGCCATCACGAACAACATATTGAAAAATCAGG
10534515 ACGATCGGACGGTGGA
65 ACGATCGGACGGTGGA
10534531 TGACGGCAGA
Statistics
Matches: 208, Mismatches: 17, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
145 1 0.00
146 205 0.99
147 2 0.01
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (145 bp):
GATCAATATTCCGAACGGTCAAAAGTTGCGTAAGCCATCACGAACAACATATTGAAAAATCAGGA
CGATCGGACGGTGGACGGTGACGGATCAGAGAAAACAAATCCGGACAGTTTTTAGCCTCTTGCCG
GTGATCGGAATCTTC
Found at i:10537200 original size:103 final size:104
Alignment explanation
Indices: 10537025--10537243 Score: 377
Period size: 103 Copynumber: 2.1 Consensus size: 104
10537015 CAAGGAAGTT
10537025 TATATATATACACATATACTTGACGACAAAGTTAGAAACAACTAACAAGATATATATATGTACAC
1 TATATATATACACATATACTTGACGACAAAGTTAGAAACAACTAACAAGATATATATATGTACAC
*
10537090 ATATACTT-GACAAAGTTAGAAACAACTAACAAGATATA
66 ATATACTTAGACAAAGATAGAAACAACTAACAAGATATA
* *
10537128 TATATATGTACACGTATACTTGACGACAAAGTTAGAAACAACTAACAAGATATATATATGTACAC
1 TATATATATACACATATACTTGACGACAAAGTTAGAAACAACTAACAAGATATATATATGTACAC
*
10537193 GTATACTTGACGACAAAGATAGAAACAACTAACAAGATATA
66 ATATACTT-A-GACAAAGATAGAAACAACTAACAAGATATA
10537234 TATATATATA
1 TATATATATA
10537244 TGTATACTTT
Statistics
Matches: 108, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
103 70 0.65
106 38 0.35
ACGTcount: A:0.48, C:0.14, G:0.11, T:0.26
Consensus pattern (104 bp):
TATATATATACACATATACTTGACGACAAAGTTAGAAACAACTAACAAGATATATATATGTACAC
ATATACTTAGACAAAGATAGAAACAACTAACAAGATATA
Found at i:10537249 original size:52 final size:52
Alignment explanation
Indices: 10537025--10537252 Score: 354
Period size: 52 Copynumber: 4.4 Consensus size: 52
10537015 CAAGGAAGTT
*
10537025 TATATATATACACATATACTTGACGACAAAGTTAGAAACAACTAACAAGATA
1 TATATATATACACGTATACTTGACGACAAAGTTAGAAACAACTAACAAGATA
* *
10537077 TATATATGTACACATATACTT---GACAAAGTTAGAAACAACTAACAAGATA
1 TATATATATACACGTATACTTGACGACAAAGTTAGAAACAACTAACAAGATA
10537126 TATATATATGTACACGTATACTTGACGACAAAGTTAGAAACAACTAACAAGATA
1 TATATATA--TACACGTATACTTGACGACAAAGTTAGAAACAACTAACAAGATA
* *
10537180 TATATATGTACACGTATACTTGACGACAAAGATAGAAACAACTAACAAGATA
1 TATATATATACACGTATACTTGACGACAAAGTTAGAAACAACTAACAAGATA
* *
10537232 TATATATATATATGTATACTT
1 TATATATATACACGTATACTT
10537253 TCTGACTAAG
Statistics
Matches: 163, Mismatches: 8, Indels: 10
0.90 0.04 0.06
Matches are distributed among these distances:
49 35 0.21
51 12 0.07
52 81 0.50
54 35 0.21
ACGTcount: A:0.47, C:0.14, G:0.11, T:0.28
Consensus pattern (52 bp):
TATATATATACACGTATACTTGACGACAAAGTTAGAAACAACTAACAAGATA
Found at i:10540947 original size:14 final size:13
Alignment explanation
Indices: 10540918--10540956 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
10540908 AGAATTAACA
10540918 CATTTTACATTTG
1 CATTTTACATTTG
*
10540931 CATTTTGCATCTTG
1 CATTTTACAT-TTG
*
10540945 CATTTTATATTT
1 CATTTTACATTT
10540957 TTAATTGTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.21, C:0.15, G:0.08, T:0.56
Consensus pattern (13 bp):
CATTTTACATTTG
Found at i:10543008 original size:17 final size:16
Alignment explanation
Indices: 10542988--10543026 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
10542978 TATTCTCGAT
10542988 AAGCTTAAGAAATCCTG
1 AAGCTTAA-AAATCCTG
10543005 AAGC-TAAAAATCCTG
1 AAGCTTAAAAATCCTG
10543020 AAG-TTAA
1 AAGCTTAA
10543027 TGTAATTTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 14 0.67
16 3 0.14
17 4 0.19
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.23
Consensus pattern (16 bp):
AAGCTTAAAAATCCTG
Found at i:10545319 original size:117 final size:116
Alignment explanation
Indices: 10545131--10545423 Score: 372
Period size: 117 Copynumber: 2.5 Consensus size: 116
10545121 GGAAGGGTTG
* * * ** *
10545131 ATAATGAGAAAAACTCATCTGATGAGGGAGAAGAAGTTCCTAATGAGAAGTGCTTGTTCGACCTT
1 ATAATGAGAAGAACTCAGCCGATGAGGGAGAAGAAGTTCCTAATGAGAAGAACTTGTTCGACATT
* *
10545196 GGCTCATCCATCACATAAGGAGTTGGATCA-ACATTTCCAATGAAATAGTTC
66 GACTCATCCATCACATAAGGAGTTGGATCAGAC-TTTCCAATGAAAGAGTTC
* *
10545247 ATAATGAGAAGAACTCGGCACGATGAGGGAGAAGAAGTTCCTAATGAGAAGAACTTGTTTGACAT
1 ATAATGAGAAGAACTCAGC-CGATGAGGGAGAAGAAGTTCCTAATGAGAAGAACTTGTTCGACAT
* ** * *
10545312 TGACTCATCCATCACATAAGGAGTTGGCTCAGTACTTTCCGGTGGAAGGGTTC
65 TGACTCATCCATCACATAAGGAGTTGGATCAG-ACTTTCCAATGAAAGAGTTC
* * * * *
10545365 ATAATGAGAAGAACTCATCTGATGAGGGATAAGAAGTTCCTAATGAGAATAATTTGTTC
1 ATAATGAGAAGAACTCAGCCGATGAGGGAGAAGAAGTTCCTAATGAGAAGAACTTGTTC
10545424 AACCTTGGCT
Statistics
Matches: 152, Mismatches: 22, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
116 16 0.11
117 104 0.68
118 30 0.20
119 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (116 bp):
ATAATGAGAAGAACTCAGCCGATGAGGGAGAAGAAGTTCCTAATGAGAAGAACTTGTTCGACATT
GACTCATCCATCACATAAGGAGTTGGATCAGACTTTCCAATGAAAGAGTTC
Found at i:10556087 original size:2 final size:2
Alignment explanation
Indices: 10556082--10556121 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
10556072 TGGTAACAAC
10556082 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10556122 AATCTTGGGT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:10560434 original size:21 final size:20
Alignment explanation
Indices: 10560403--10560441 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
10560393 AATATTAAAT
*
10560403 CTAATAAATAATATTATTTA
1 CTAATAAATAATAATATTTA
10560423 CTAATAAAATAATAATATT
1 CTAAT-AAATAATAATATT
10560442 ATTATTACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (20 bp):
CTAATAAATAATAATATTTA
Found at i:10562079 original size:15 final size:15
Alignment explanation
Indices: 10562059--10562087 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
10562049 CCTAACTATT
10562059 ATTTGATAATAAAAA
1 ATTTGATAATAAAAA
10562074 ATTTGATAATAAAA
1 ATTTGATAATAAAA
10562088 TGTATATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (15 bp):
ATTTGATAATAAAAA
Found at i:10563303 original size:22 final size:21
Alignment explanation
Indices: 10563273--10563324 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
10563263 CGTATAATTA
*
10563273 TAAATTTATTGAAAATTTAAAGG
1 TAAA-TTATTGAAAA-TAAAAGG
* *
10563296 TATATTATTTAAAATAAAAGG
1 TAAATTATTGAAAATAAAAGG
10563317 TAAATTAT
1 TAAATTAT
10563325 ACAAATGACC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 13 0.52
22 9 0.36
23 3 0.12
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (21 bp):
TAAATTATTGAAAATAAAAGG
Found at i:10565965 original size:19 final size:20
Alignment explanation
Indices: 10565929--10565976 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
10565919 TCTAAATCTT
*
10565929 TTTTCAAAATTTCATTTTAG
1 TTTTCAAAATTCCATTTTAG
10565949 TTTTCAAAA-TCCATTTTAG
1 TTTTCAAAATTCCATTTTAG
*
10565968 CTTTCAAAA
1 TTTTCAAAA
10565977 GAAAATCATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 17 0.65
20 9 0.35
ACGTcount: A:0.33, C:0.15, G:0.04, T:0.48
Consensus pattern (20 bp):
TTTTCAAAATTCCATTTTAG
Found at i:10568605 original size:23 final size:24
Alignment explanation
Indices: 10568561--10568617 Score: 98
Period size: 23 Copynumber: 2.4 Consensus size: 24
10568551 ATCAAATTCA
10568561 ACGTTTTTCCTCTTCTCTTAGTGGC
1 ACGTTTTTCCTC-TCTCTTAGTGGC
10568586 ACGTTTTTCCTC-CTCTTAGTGGC
1 ACGTTTTTCCTCTCTCTTAGTGGC
10568609 ACGTTTTTC
1 ACGTTTTTC
10568618 GCTTTGCTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
23 20 0.62
25 12 0.38
ACGTcount: A:0.09, C:0.28, G:0.16, T:0.47
Consensus pattern (24 bp):
ACGTTTTTCCTCTCTCTTAGTGGC
Found at i:10570986 original size:21 final size:21
Alignment explanation
Indices: 10570960--10571003 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
10570950 TTCTACGGCC
10570960 TTAGAGTATTTCTTGAATATT
1 TTAGAGTATTTCTTGAATATT
10570981 TTAGAGTATTTCTTGAATATT
1 TTAGAGTATTTCTTGAATATT
10571002 TT
1 TT
10571004 TACAACCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.27, C:0.05, G:0.14, T:0.55
Consensus pattern (21 bp):
TTAGAGTATTTCTTGAATATT
Found at i:10572190 original size:37 final size:36
Alignment explanation
Indices: 10572128--10572246 Score: 161
Period size: 35 Copynumber: 3.3 Consensus size: 36
10572118 TCTCATTATG
* * * * *
10572128 ATTTTTC-AACAAATATCTACCAAACTCTGAAAAACT
1 ATTTTTCAAAGAAACATTTACCAAACTTTG-AAAACC
10572164 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACC
1 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACC
10572200 A-TTTTCAAAGAAACATTTACCAAACTTTGAAAACC
1 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACC
10572235 ATTTTTTCAAAG
1 A-TTTTTCAAAG
10572247 TTGGTTACCA
Statistics
Matches: 75, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
35 35 0.47
36 13 0.17
37 27 0.36
ACGTcount: A:0.44, C:0.19, G:0.05, T:0.32
Consensus pattern (36 bp):
ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACC
Found at i:10572202 original size:21 final size:21
Alignment explanation
Indices: 10572178--10572238 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
10572168 TTCAAAGAAA
10572178 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
10572199 CATTT-TCAAA----G-AAA-
1 CATTTACCAAACTTTGAAAAC
10572213 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
10572234 CATTT
1 CATTT
10572239 TTTCAAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 7 0.23
16 1 0.03
19 1 0.03
20 7 0.23
21 10 0.32
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:10572255 original size:35 final size:36
Alignment explanation
Indices: 10572145--10572273 Score: 133
Period size: 35 Copynumber: 3.6 Consensus size: 36
10572135 AACAAATATC
* * *
10572145 TACCAAACTCTGAAAAAC-TATTTTTCAAAGAAACATT
1 TACCAAACTTTGAAAACCAT-TTTTTCAAAG-AACAGT
*
10572182 TACCAAACTTTGAAAACCA--TTTTCAAAGAAACATT
1 TACCAAACTTTGAAAACCATTTTTTCAAAG-AACAGT
***
10572217 TACCAAACTTTGAAAACCATTTTTTCAAAG-TTGGT
1 TACCAAACTTTGAAAACCATTTTTTCAAAGAACAGT
10572252 TACCAAAC-TTGAAAACCATTTT
1 TACCAAACTTTGAAAACCATTTT
10572274 AATACTTTCA
Statistics
Matches: 83, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
34 14 0.17
35 44 0.53
37 25 0.30
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.32
Consensus pattern (36 bp):
TACCAAACTTTGAAAACCATTTTTTCAAAGAACAGT
Found at i:10573004 original size:23 final size:23
Alignment explanation
Indices: 10572978--10573022 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
10572968 CACCACAGCT
*
10572978 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
10573001 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
10573023 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:10573271 original size:149 final size:149
Alignment explanation
Indices: 10573001--10573304 Score: 590
Period size: 149 Copynumber: 2.0 Consensus size: 149
10572991 CGAAGTGCCC
10573001 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
*
10573066 CATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATA
10573131 CATATGTCCCAAAGAACCG
131 CATATGTCCCAAAGAACCG
10573150 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
*
10573215 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATA
10573280 CATATGTCCCAAAGAACCG
131 CATATGTCCCAAAGAACCG
10573299 CGTAGA
1 CGTAGA
10573305 CCCTCGACTC
Statistics
Matches: 153, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 153 1.00
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (149 bp):
CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
CATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATA
CATATGTCCCAAAGAACCG
Found at i:10574808 original size:21 final size:21
Alignment explanation
Indices: 10574784--10574828 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
10574774 TCTTGTTCGT
* *
10574784 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
10574805 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
10574826 TTG
1 TTG
10574829 CCCAAAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:10579933 original size:37 final size:36
Alignment explanation
Indices: 10579870--10579989 Score: 172
Period size: 35 Copynumber: 3.3 Consensus size: 36
10579860 ATCCCATTAT
* * *
10579870 CATTTTTC-AATAAATATCTACCAAACTTTGAAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTG-AAAAC
*
10579906 TATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
10579942 CA-TTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
10579977 CATTTTTTCAAAG
1 CA-TTTTTCAAAG
10579990 TTGGTTACCA
Statistics
Matches: 76, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
35 35 0.46
36 13 0.17
37 28 0.37
ACGTcount: A:0.43, C:0.18, G:0.05, T:0.33
Consensus pattern (36 bp):
CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
Found at i:10579945 original size:21 final size:21
Alignment explanation
Indices: 10579921--10579981 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
10579911 TTCAAAGAAA
10579921 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
10579942 CATTT-TCAAA----G-AAA-
1 CATTTACCAAACTTTGAAAAC
10579956 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
10579977 CATTT
1 CATTT
10579982 TTTCAAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 7 0.23
16 1 0.03
19 1 0.03
20 7 0.23
21 10 0.32
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:10579998 original size:35 final size:36
Alignment explanation
Indices: 10579888--10580016 Score: 142
Period size: 35 Copynumber: 3.6 Consensus size: 36
10579878 AATAAATATC
* *
10579888 TACCAAACTTTGAAAAAC-TATTTTTCAAAGAAACATT
1 TACCAAACTTTGAAAACCAT-TTTTTCAAAG-AACAGT
*
10579925 TACCAAACTTTGAAAACCA--TTTTCAAAGAAACATT
1 TACCAAACTTTGAAAACCATTTTTTCAAAG-AACAGT
***
10579960 TACCAAACTTTGAAAACCATTTTTTCAAAG-TTGGT
1 TACCAAACTTTGAAAACCATTTTTTCAAAGAACAGT
10579995 TACCAAAC-TTGAAAACCATTTT
1 TACCAAACTTTGAAAACCATTTT
10580017 AATACTTTCA
Statistics
Matches: 84, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
34 14 0.17
35 44 0.52
37 26 0.31
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.33
Consensus pattern (36 bp):
TACCAAACTTTGAAAACCATTTTTTCAAAGAACAGT
Found at i:10588066 original size:31 final size:31
Alignment explanation
Indices: 10588030--10588088 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
10588020 AACTTAAAAG
*
10588030 AGTTTTGTAATACTGAAATTTAAATAATTTT
1 AGTTTTATAATACTGAAATTTAAATAATTTT
10588061 AGTTTTATAATACTGAAATTTAAATAAT
1 AGTTTTATAATACTGAAATTTAAATAAT
10588089 CCATACAACT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.46
Consensus pattern (31 bp):
AGTTTTATAATACTGAAATTTAAATAATTTT
Found at i:10588137 original size:22 final size:22
Alignment explanation
Indices: 10588112--10588670 Score: 709
Period size: 22 Copynumber: 25.5 Consensus size: 22
10588102 ATAATATTTT
10588112 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATTCATA
10588134 TTTT-AAATAAATCAATTCATA
1 TTTTAAAATAAATCAATTCATA
*
10588155 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATTCATA
* * *
10588177 TTTTAAAATAAATAAATCCGTA
1 TTTTAAAATAAATCAATTCATA
* *** *
10588199 TTTTAAAATAATTTTTTTTATA
1 TTTTAAAATAAATCAATTCATA
*
10588221 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATTCATA
*
10588243 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATTCATA
*
10588265 TTTTAAAATAAAT-AAATCGATA
1 TTTTAAAATAAATCAATTC-ATA
*
10588287 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATTCATA
10588309 TTTTAAAATAAATCAA-TCTATA
1 TTTTAAAATAAATCAATTC-ATA
*
10588331 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATTCATA
**
10588353 TTTTAAAATAAAT-TTTTCCATA
1 TTTTAAAATAAATCAATT-CATA
10588375 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATTCATA
** ***
10588397 TTTTAAAATAGTTTTTTTTCATA
1 TTTTAAAATA-AATCAATTCATA
*
10588420 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATTCATA
* *
10588442 TTTTAAAATGAATCAATCCATA
1 TTTTAAAATAAATCAATTCATA
*
10588464 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATTCATA
*
10588486 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATTCATA
***
10588508 TTTTAAAATAAATTTTTTCATA
1 TTTTAAAATAAATCAATTCATA
*
10588530 TTTTAAAATAAATCAATACATA
1 TTTTAAAATAAATCAATTCATA
**
10588552 TTTTAAAATAAAT-TTTTCCATA
1 TTTTAAAATAAATCAATT-CATA
10588574 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATTCATA
* *
10588596 TTTTAAAATAAATCAATCCGTA
1 TTTTAAAATAAATCAATTCATA
10588618 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATTCATA
10588640 TTTTAAAATAAATC-A-TCTATA
1 TTTTAAAATAAATCAATTC-ATA
10588661 TTTTAAAATA
1 TTTTAAAATA
10588671 TATTTTAAAA
Statistics
Matches: 469, Mismatches: 57, Indels: 23
0.85 0.10 0.04
Matches are distributed among these distances:
20 2 0.00
21 41 0.09
22 401 0.86
23 25 0.05
ACGTcount: A:0.47, C:0.10, G:0.01, T:0.42
Consensus pattern (22 bp):
TTTTAAAATAAATCAATTCATA
Found at i:10588674 original size:12 final size:12
Alignment explanation
Indices: 10588657--10588694 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
10588647 ATAAATCATC
10588657 TATATTTTAAAA
1 TATATTTTAAAA
10588669 TATATTTTAAAA
1 TATATTTTAAAA
*
10588681 TAGA-TTTAAAA
1 TATATTTTAAAA
10588692 TAT
1 TAT
10588695 TTTAATTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 9 0.38
12 15 0.62
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (12 bp):
TATATTTTAAAA
Found at i:10591543 original size:32 final size:28
Alignment explanation
Indices: 10591476--10591554 Score: 95
Period size: 29 Copynumber: 2.6 Consensus size: 28
10591466 TAAAACTAGG
*
10591476 ACCATAATAATAATTATTAAAAAAATAA
1 ACCATAATAATAAATATTAAAAAAATAA
*
10591504 GCTCATAATAATAAATATTAAGAAAATATTGAA
1 AC-CATAATAATAAATATTAA-AAAA-A-T-AA
10591537 ACCATAATAATAAATATT
1 ACCATAATAATAAATATT
10591555 TCAAATAATT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
28 1 0.02
29 17 0.40
30 4 0.09
31 1 0.02
32 17 0.40
33 3 0.07
ACGTcount: A:0.58, C:0.08, G:0.04, T:0.30
Consensus pattern (28 bp):
ACCATAATAATAAATATTAAAAAAATAA
Found at i:10592027 original size:2 final size:2
Alignment explanation
Indices: 10592020--10592075 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
10592010 AATGAATTTC
10592020 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10592062 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
10592076 TTCCACGTCA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10595978 original size:183 final size:183
Alignment explanation
Indices: 10595733--10596091 Score: 549
Period size: 183 Copynumber: 2.0 Consensus size: 183
10595723 ATTAAATTTT
* * *
10595733 AAATTTTAAATATATTATATATAACATATAAGCTCAACCCAAATCATTTAAAACTTAATTAATAA
1 AAATATTAAATATATTATATATAACATATAAGCTCAACCCAAACCATTTAAAACTCAATTAATAA
* * ** *
10595798 TTTAAGATCTAATAGCTTTTAAACATAAATCAATATTAATTAATTAAAAATTTTATATAAAATTT
66 TTTAAAATCCAATAAATTTTAAACATAAATCAATATTAATTAATTAAAAA-ATTATATAAAATTT
*
10595863 TTATTTTATAATTATATATTATTTAAATTAATTGTAAACTGTTTTTTTAATTAA
130 TTATTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTTTAATTAA
* * **
10595917 AAATATTAAA-ATATTATATATAACATATGAGTTCGGCCCAAACCATTTAAAACTCAATTAATAA
1 AAATATTAAATATATTATATATAACATATAAGCTCAACCCAAACCATTTAAAACTCAATTAATAA
** * *
10595981 TTTAAAATCCAATAAATTTTAAATTTAAATCAATATTATTTAATTAAAAAATTATATAAATTTTT
66 TTTAAAATCCAATAAATTTTAAACATAAATCAATATTAATTAATTAAAAAATTATATAAAATTTT
10596046 TATTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTT
131 TATTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTT
10596092 CGAATAAAAA
Statistics
Matches: 158, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
182 58 0.37
183 91 0.58
184 9 0.06
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.44
Consensus pattern (183 bp):
AAATATTAAATATATTATATATAACATATAAGCTCAACCCAAACCATTTAAAACTCAATTAATAA
TTTAAAATCCAATAAATTTTAAACATAAATCAATATTAATTAATTAAAAAATTATATAAAATTTT
TATTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTTTAATTAA
Found at i:10598526 original size:6 final size:6
Alignment explanation
Indices: 10598515--10598549 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
10598505 AACAATGAAC
* *
10598515 AGGAAA AGGAAA AGGAAA AGGAAC CGGAAA AGGAA
1 AGGAAA AGGAAA AGGAAA AGGAAA AGGAAA AGGAA
10598550 TTGGAAGCGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.60, C:0.06, G:0.34, T:0.00
Consensus pattern (6 bp):
AGGAAA
Found at i:10602375 original size:232 final size:231
Alignment explanation
Indices: 10601970--10602433 Score: 847
Period size: 232 Copynumber: 2.0 Consensus size: 231
10601960 ATCACTTAAA
*
10601970 AAAGGCAATGACATCATGTGCACATATCTCACTCGCATCAAGAGGTTTGTGATGCATTAGATTCA
1 AAAGGCAATGACATCATGTGCACATATCTCACTCGCATAAAGAGGTTTGTGATGCATTAGATTCA
10602035 TGTGAAAGTGCGATTCCTCAAGCCGAGCATGTTGCTAGCATATTAAAAGGTCTCCCTCGTGAATA
66 TGTGAAAGTGCGATTCCTCAAGCCGAGCATGTTGCTAGCATATTAAAAGGTCTCCCTCGTGAATA
* * *
10602100 TCAACCATATATTGCGTTCATAACCACCATGAATGATGAGTTGTCTCTTGAAAAGATCTTCTCGA
131 TCAACCATACATTGCGTTCATAACCACCATGAAGGATGAGTTGTCTCTTGAAAAGATCTGCTCGA
*
10602165 TGTTGATTGATGCAGAAACGCAATTGGTTGGGTTTG
196 TGTTGATTGATGCAGAAACGCAATTGGCTGGGTTTG
10602201 AAAGGCAATGACATCATGTGCACATATCTCACTCGCATGAAAGAGGTTTGTGATGCATTAGATTC
1 AAAGGCAATGACATCATGTGCACATATCTCACTCGCAT-AAAGAGGTTTGTGATGCATTAGATTC
*
10602266 ATGTGAAAGTGCGATTCCTCAAGCCGAGCATGTTGTTAGCATATTAAAAGGTCTCCCTCGTGAAT
65 ATGTGAAAGTGCGATTCCTCAAGCCGAGCATGTTGCTAGCATATTAAAAGGTCTCCCTCGTGAAT
*
10602331 ATCAACCATACATTGCGTTCATCACCACCATGAAGGATGAGTTGTCTCTTGAAAAGATCTGCTCG
130 ATCAACCATACATTGCGTTCATAACCACCATGAAGGATGAGTTGTCTCTTGAAAAGATCTGCTCG
*
10602396 ATGTTGATTGATGTAGAAACGCAATTGGCTGGGTTTG
195 ATGTTGATTGATGCAGAAACGCAATTGGCTGGGTTTG
10602433 A
1 A
10602434 TTCCCAGGAA
Statistics
Matches: 224, Mismatches: 8, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
231 38 0.17
232 186 0.83
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (231 bp):
AAAGGCAATGACATCATGTGCACATATCTCACTCGCATAAAGAGGTTTGTGATGCATTAGATTCA
TGTGAAAGTGCGATTCCTCAAGCCGAGCATGTTGCTAGCATATTAAAAGGTCTCCCTCGTGAATA
TCAACCATACATTGCGTTCATAACCACCATGAAGGATGAGTTGTCTCTTGAAAAGATCTGCTCGA
TGTTGATTGATGCAGAAACGCAATTGGCTGGGTTTG
Found at i:10610150 original size:157 final size:155
Alignment explanation
Indices: 10609889--10610246 Score: 398
Period size: 157 Copynumber: 2.3 Consensus size: 155
10609879 AGTTACATAG
* * * * * *
10609889 GTATTCTATTATTGTATATGAGCATGTGGGTTAAATTTGGTAAAAACAAACTTAAAATAAACGAG
1 GTATTCTAATATGGTTTAGGAGCATGTGGCTCAAATTTGGTAAAAACAAACTTAAAATAAACGAG
* * *
10609954 AAATTGAAGGAATAAGGAGATTATGAAAAAATGAAGGACTAAATTAAAAAATAAGAAAAGTGTTG
66 AAATTGAAGAAATAAAGAGATTATGAAAAAATGAAGGACTAAATTAAAAAAT-A-AAAAGTGTTA
10610019 TCAAAAAGAAGAACTGAAAGTAAACAT
129 TCAAAAAGAAGAACTGAAAGTAAACAT
* * *
10610046 GTATTCTAATATGGTTTAGGAGCATGTGACTCAAATTTGGTAAAAATAAACTTAAAATAAATGAC
1 GTATTCTAATATGGTTTAGGAGCATGTGGCTCAAATTTGGTAAAAACAAACTTAAAATAAACGA-
* * * ***** *
10610111 G-AATTGAA-AAATCAAATAGATTAT-AAAACATTGAAGGACTAAATTGAAAAATATTTTTTTTT
65 GAAATTGAAGAAAT-AAAGAGATTATGAAAA-AATGAAGGACTAAATTAAAAAATAAAAAGTGTT
** * *
10610173 ATCAAAAAGTGGAATTGAAAGTACACAT
128 ATCAAAAAGAAGAACTGAAAGTAAACAT
* * *
10610201 TTATTCTACTATGGTTTAGGAGCATGTGGTTCAAATTTGGTAAAAA
1 GTATTCTAATATGGTTTAGGAGCATGTGGCTCAAATTTGGTAAAAA
10610247 AAATGGACTT
Statistics
Matches: 169, Mismatches: 29, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
155 68 0.40
156 8 0.05
157 92 0.54
158 1 0.01
ACGTcount: A:0.46, C:0.07, G:0.18, T:0.30
Consensus pattern (155 bp):
GTATTCTAATATGGTTTAGGAGCATGTGGCTCAAATTTGGTAAAAACAAACTTAAAATAAACGAG
AAATTGAAGAAATAAAGAGATTATGAAAAAATGAAGGACTAAATTAAAAAATAAAAAGTGTTATC
AAAAAGAAGAACTGAAAGTAAACAT
Found at i:10610430 original size:14 final size:14
Alignment explanation
Indices: 10610408--10610439 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
10610398 ATAATTCGAG
10610408 TTGACTCGAATAAC
1 TTGACTCGAATAAC
*
10610422 TTGATTCGAATAAC
1 TTGACTCGAATAAC
10610436 TTGA
1 TTGA
10610440 AATTAATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (14 bp):
TTGACTCGAATAAC
Found at i:10613939 original size:21 final size:21
Alignment explanation
Indices: 10613913--10613956 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
10613903 ATTCTGGGCT
* *
10613913 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCATTCA
*
10613934 AGGGGAACCGATACCCCTTCA
1 AGGGGAACCGATACCCATTCA
10613955 AG
1 AG
10613957 CGAATAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.27, G:0.27, T:0.16
Consensus pattern (21 bp):
AGGGGAACCGATACCCATTCA
Found at i:10614027 original size:23 final size:22
Alignment explanation
Indices: 10613979--10614027 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
10613969 CCAGAATGTC
10613979 AAGG-GGGAACCGATACCCCCA
1 AAGGAGGGAACCGATACCCCCA
* *
10614000 CAGGAGGGAACCGATTCCCCCTA
1 AAGGAGGGAACCGATACCCCC-A
10614023 AAGGA
1 AAGGA
10614028 AAATTATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 3 0.13
22 15 0.65
23 5 0.22
ACGTcount: A:0.33, C:0.31, G:0.29, T:0.08
Consensus pattern (22 bp):
AAGGAGGGAACCGATACCCCCA
Found at i:10615292 original size:101 final size:102
Alignment explanation
Indices: 10615111--10615424 Score: 505
Period size: 101 Copynumber: 3.1 Consensus size: 102
10615101 GTCGAGGGTC
10615111 TATGTGGTCCTTCGGGACATA-ATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTC-GGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
10615175 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
65 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
*
10615213 TATGT-GTCCTTCGGACATATATGTATTCTTTAGAACATGTGTGAAGTCTGGTGAGACACATACT
1 TATGTGGTCCTTCGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACT
* *
10615277 TGATCTTTGGCATATG--TATGATTCTTAAGGAATGA
66 TGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
*
10615312 TATATGGTCC-TCGGAACATATATGTATTC-TTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGG-ACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
10615375 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
65 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
*
10615413 TATGTAGTCCTT
1 TATGTGGTCCTT
10615425 ATGGACATTA
Statistics
Matches: 195, Mismatches: 11, Indels: 12
0.89 0.05 0.06
Matches are distributed among these distances:
99 73 0.37
100 25 0.13
101 91 0.47
102 6 0.03
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (102 bp):
TATGTGGTCCTTCGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACT
TGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
Found at i:10615497 original size:24 final size:24
Alignment explanation
Indices: 10615444--10615508 Score: 73
Period size: 23 Copynumber: 2.8 Consensus size: 24
10615434 ATTATATGGT
*
10615444 ACTACGATGCAA-TTCTA-GCGGC
1 ACTACGGTGCAATTTCTATGCGGC
*
10615466 ACTACGGTGCAATTTCTATGTGGC
1 ACTACGGTGCAATTTCTATGCGGC
* *
10615490 ACTTCGGTGC-ATTTATATG
1 ACTACGGTGCAATTTCTATG
10615509 AGCTGTGGTG
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 11 0.30
23 13 0.35
24 13 0.35
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (24 bp):
ACTACGGTGCAATTTCTATGCGGC
Found at i:10615503 original size:23 final size:24
Alignment explanation
Indices: 10615463--10615508 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
10615453 CAATTCTAGC
*
10615463 GGCACTACGGTGCAATTTCTATGT
1 GGCACTACGGTGCAATTTATATGT
*
10615487 GGCACTTCGGTGC-ATTTATATG
1 GGCACTACGGTGCAATTTATATG
10615509 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.35
Consensus pattern (24 bp):
GGCACTACGGTGCAATTTATATGT
Found at i:10617883 original size:29 final size:31
Alignment explanation
Indices: 10617828--10617886 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 31
10617818 ATGGACATAC
10617828 TGTCATCTTTCGTAAACTTGGGACATGTTGA
1 TGTCATCTTTCGTAAACTTGGGACATGTTGA
*
10617859 TGTCATCTTTTGT-AA-TTGGGACATGTTG
1 TGTCATCTTTCGTAAACTTGGGACATGTTG
10617887 GTGATTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 13 0.48
30 2 0.07
31 12 0.44
ACGTcount: A:0.20, C:0.14, G:0.24, T:0.42
Consensus pattern (31 bp):
TGTCATCTTTCGTAAACTTGGGACATGTTGA
Found at i:10618054 original size:31 final size:33
Alignment explanation
Indices: 10618000--10618071 Score: 94
Period size: 31 Copynumber: 2.2 Consensus size: 33
10617990 GTAAGTTTGG
* *
10618000 ACATGTTGCTGTCATTTTTTTTAAATAAAT-TGA
1 ACATGTTGATGTCA-TTTTTTTAAATAAATCTAA
*
10618033 ACATGTTGATGTCA-TTTTTTAAGTAAATCTAA
1 ACATGTTGATGTCATTTTTTTAAATAAATCTAA
10618065 ACATGTT
1 ACATGTT
10618072 CTCATTTTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
31 13 0.37
32 9 0.26
33 13 0.37
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.46
Consensus pattern (33 bp):
ACATGTTGATGTCATTTTTTTAAATAAATCTAA
Found at i:10618377 original size:74 final size:74
Alignment explanation
Indices: 10618220--10618365 Score: 244
Period size: 75 Copynumber: 2.0 Consensus size: 74
10618210 TTTATAACTC
*
10618220 AAATATTTGTATTATAAGTGTTGTTGGTTGATTAAAGAGACAAATGATTTTATGTTTTTGTTAAA
1 AAATATTTGTATTATAAGTGTTGTTGGTTGATTAAAGAGACAAATGATTATATGTTTTTGTTAAA
10618285 AAATATGAT
66 AAATATGAT
*
10618294 AAATATTTGTATTATAATGTGTTGTTGGTTGATTAAAGGGACAAATG-TTATATG-TTTTGTT-A
1 AAATATTTGTATTATAA-GTGTTGTTGGTTGATTAAAGAGACAAATGATTATATGTTTTTGTTAA
10618356 AAAATATGAT
65 AAAATATGAT
10618366 TTAAGATTTT
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
72 11 0.16
73 7 0.10
74 23 0.33
75 28 0.41
ACGTcount: A:0.36, C:0.01, G:0.18, T:0.45
Consensus pattern (74 bp):
AAATATTTGTATTATAAGTGTTGTTGGTTGATTAAAGAGACAAATGATTATATGTTTTTGTTAAA
AAATATGAT
Found at i:10619321 original size:86 final size:84
Alignment explanation
Indices: 10619159--10619328 Score: 322
Period size: 86 Copynumber: 2.0 Consensus size: 84
10619149 CTCGGCTAGT
10619159 TTACACCCCTACTTGCACGAGAGAGACATTTATATAAATAACTATTTTTATTGTTTCTGAGTTAT
1 TTACACCCCTACTTGCACGAGAGAGACATTTATATAAATAACTATTTTTATTGTTTCTGAGTTAT
10619224 ATAAAAAGCATTGGTGTCC
66 ATAAAAAGCATTGGTGTCC
10619243 TTACACCCCTACTTGCACGAGAGAGACATTTATATAAATCAACTATTTTTTATTGTTTCTGAGTT
1 TTACACCCCTACTTGCACGAGAGAGACATTTATATAAAT-AACTA-TTTTTATTGTTTCTGAGTT
10619308 ATATAAAAAGCATTGGTGTCC
64 ATATAAAAAGCATTGGTGTCC
10619329 AATGACACCT
Statistics
Matches: 84, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
84 39 0.46
85 5 0.06
86 40 0.48
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (84 bp):
TTACACCCCTACTTGCACGAGAGAGACATTTATATAAATAACTATTTTTATTGTTTCTGAGTTAT
ATAAAAAGCATTGGTGTCC
Found at i:10621373 original size:58 final size:58
Alignment explanation
Indices: 10621283--10621399 Score: 234
Period size: 58 Copynumber: 2.0 Consensus size: 58
10621273 GACCTTTGGG
10621283 AACAAATAGTCTTTTGCCTTCTTTTGCCATACACAACTGCTGAAATACAAGGCAATGA
1 AACAAATAGTCTTTTGCCTTCTTTTGCCATACACAACTGCTGAAATACAAGGCAATGA
10621341 AACAAATAGTCTTTTGCCTTCTTTTGCCATACACAACTGCTGAAATACAAGGCAATGA
1 AACAAATAGTCTTTTGCCTTCTTTTGCCATACACAACTGCTGAAATACAAGGCAATGA
10621399 A
1 A
10621400 GAATTACTTT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (58 bp):
AACAAATAGTCTTTTGCCTTCTTTTGCCATACACAACTGCTGAAATACAAGGCAATGA
Found at i:10621904 original size:135 final size:135
Alignment explanation
Indices: 10621662--10622338 Score: 688
Period size: 135 Copynumber: 5.0 Consensus size: 135
10621652 AAACAACTAT
* ** *
10621662 AATCGATCATAAATCCATTGGATGATGAATCTTTCAACCGTCAAATATGCTATTAATG----TTG
1 AATCGATCTTAAATCCATCAGATGATGAATCTTTCAACCGTCAACTATGCTATTAATGAAAATTG
* * * ** * * *
10621723 CAC-TGAAGTCCACATTACGCGTGACACTAACAGATAAATATAGTTAGAGTCGATCTCAAATTTA
66 C-CTTGCAGTCCACACTACACGTG-TGC--A-AGCTAAATGTAGTTAGAGTCGATCTCAAATTCA
*
10621787 TCTGATCATG
126 TCTGATGATG
* * * * * *
10621797 AATCGATCTTAAATCCATC-GAATGATGGATCCTTGAACCGTAAACTATGCTAATAATGAAAAAT
1 AATCGATCTTAAATCCATCAG-ATGATGAATCTTTCAACCGTCAACTATGCTATTAATGAAAATT
* *
10621861 GCCTTGCAGTCCACACTAGA-GTAGTGCAAGCTAAATGTAGTTAG-GTTCGATCTCAAATTCATT
65 GCCTTGCAGTCCACACTACACGT-GTGCAAGCTAAATGTAGTTAGAG-TCGATCTCAAATTCATC
10621924 TGATGATG
128 TGATGATG
* * *
10621932 AATCGATCTTAAATCCATCGGATGATGAATCTTTCAAGCGCCAACTATGCTATTAATGAAAATTG
1 AATCGATCTTAAATCCATCAGATGATGAATCTTTCAACCGTCAACTATGCTATTAATGAAAATTG
* * * *
10621997 CAC-CGAAGTCCACATTACACGTG-GCTCTAACAGATAAATGTAGTTAGAGTCGATCTCAAATAT
66 C-CTTGCAGTCCACACTACACGTGTG--C--A-AGCTAAATGTAGTTAGAGTCGATCTCAAAT-T
10622060 -ATCTGATGATG
124 CATCTGATGATG
* * **
10622071 AATCGATCTTAAATCCATCAGATGATGGATCTTTGAACTTTCAACTATGCTATTAATGAAAATTG
1 AATCGATCTTAAATCCATCAGATGATGAATCTTTCAACCGTCAACTATGCTATTAATGAAAATTG
* * * *
10622136 CGTTGCAGTCCACACTACACGTGTGCAAGCTAAATGAAGTTAGAGTCGATCTCATATCCATCTGA
66 CCTTGCAGTCCACACTACACGTGTGCAAGCTAAATGTAGTTAGAGTCGATCTCAAATTCATCTGA
10622201 TGATG
131 TGATG
* **
10622206 AATCGATCTTAAATCCATCAGATGATGAATCTTTCAACCGTCAACTATGCTATTAGTGAAAATCA
1 AATCGATCTTAAATCCATCAGATGATGAATCTTTCAACCGTCAACTATGCTATTAATGAAAATTG
* * * * *
10622271 CAC-AGCATTCCACACTACA----TGCAA-CTAAATG-AGTTAGAGACAATCTCAAATCCATCTG
66 C-CTTGCAGTCCACACTACACGTGTGCAAGCTAAATGTAGTTAGAGTCGATCTCAAATTCATCTG
10622329 ATGATG
130 ATGATG
10622335 AATC
1 AATC
10622339 TTTTAACAGT
Statistics
Matches: 458, Mismatches: 62, Indels: 50
0.80 0.11 0.09
Matches are distributed among these distances:
129 34 0.07
130 7 0.02
131 5 0.01
134 3 0.01
135 264 0.58
136 7 0.02
138 6 0.01
139 129 0.28
140 3 0.01
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (135 bp):
AATCGATCTTAAATCCATCAGATGATGAATCTTTCAACCGTCAACTATGCTATTAATGAAAATTG
CCTTGCAGTCCACACTACACGTGTGCAAGCTAAATGTAGTTAGAGTCGATCTCAAATTCATCTGA
TGATG
Found at i:10621945 original size:27 final size:27
Alignment explanation
Indices: 10621907--10621962 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
10621897 GTAGTTAGGT
* **
10621907 TCGATCTCAAATTCATTTGATGATGAA
1 TCGATCTCAAATCCATCGGATGATGAA
*
10621934 TCGATCTTAAATCCATCGGATGATGAA
1 TCGATCTCAAATCCATCGGATGATGAA
10621961 TC
1 TC
10621963 TTTCAAGCGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (27 bp):
TCGATCTCAAATCCATCGGATGATGAA
Found at i:10622094 original size:27 final size:27
Alignment explanation
Indices: 10622046--10622097 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
10622036 GTAGTTAGAG
* *
10622046 TCGATCTCAAATATATCTGATGATGAA
1 TCGATCTCAAATACATCAGATGATGAA
* *
10622073 TCGATCTTAAATCCATCAGATGATG
1 TCGATCTCAAATACATCAGATGATG
10622098 GATCTTTGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (27 bp):
TCGATCTCAAATACATCAGATGATGAA
Found at i:10622147 original size:274 final size:274
Alignment explanation
Indices: 10621662--10622268 Score: 904
Period size: 274 Copynumber: 2.2 Consensus size: 274
10621652 AAACAACTAT
* * *
10621662 AATCGATCATAAATCCATTGGATGATGAATCTTTCAACCGTCAAATATGCTATTAATG----TTG
1 AATCGATCTTAAATCCATCGGATGATGAATCTTTCAACCGTCAACTATGCTATTAATGAAAATTG
* * *
10621723 CACTGAAGTCCACATTACGCGTGACACTAACAGATAAATATAGTTAGAGTCGATCTCAAATTTAT
66 CACCGAAGTCCACATTACACGTGACACTAACAGATAAATATAGTTAGAGTCGATCTCAAATATAT
10621788 CTGATCATGAATCGATCTTAAATCCATCGAATGATGGATCCTTGAACCGTAAACTATGCTAATAA
131 CTGATCATGAATCGATCTTAAATCCATCGAATGATGGATCCTTGAACCGTAAACTATGCTAATAA
* *
10621853 TGAAAAATGCCTTGCAGTCCACACTAGA-GTAGTGCAAGCTAAATGTAGTTAG-GTTCGATCTCA
196 TGAAAAATGCCTTGCAGTCCACACTACACGT-GTGCAAGCTAAATGAAGTTAGAG-TCGATCTCA
* *
10621916 AATTCATTTGATGATG
259 AATCCATCTGATGATG
* *
10621932 AATCGATCTTAAATCCATCGGATGATGAATCTTTCAAGCGCCAACTATGCTATTAATGAAAATTG
1 AATCGATCTTAAATCCATCGGATGATGAATCTTTCAACCGTCAACTATGCTATTAATGAAAATTG
* * *
10621997 CACCGAAGTCCACATTACACGTGGCTCTAACAGATAAATGTAGTTAGAGTCGATCTCAAATATAT
66 CACCGAAGTCCACATTACACGTGACACTAACAGATAAATATAGTTAGAGTCGATCTCAAATATAT
* * ** * *
10622062 CTGATGATGAATCGATCTTAAATCCATC-AGATGATGGATCTTTGAACTTTCAACTATGCTATTA
131 CTGATCATGAATCGATCTTAAATCCATCGA-ATGATGGATCCTTGAACCGTAAACTATGCTAATA
* * *
10622126 ATGAAAATTGCGTTGCAGTCCACACTACACGTGTGCAAGCTAAATGAAGTTAGAGTCGATCTCAT
195 ATGAAAAATGCCTTGCAGTCCACACTACACGTGTGCAAGCTAAATGAAGTTAGAGTCGATCTCAA
10622191 ATCCATCTGATGATG
260 ATCCATCTGATGATG
* *
10622206 AATCGATCTTAAATCCATCAGATGATGAATCTTTCAACCGTCAACTATGCTATTAGTGAAAAT
1 AATCGATCTTAAATCCATCGGATGATGAATCTTTCAACCGTCAACTATGCTATTAATGAAAAT
10622269 CACACAGCAT
Statistics
Matches: 302, Mismatches: 28, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
270 53 0.18
273 1 0.00
274 245 0.81
275 3 0.01
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (274 bp):
AATCGATCTTAAATCCATCGGATGATGAATCTTTCAACCGTCAACTATGCTATTAATGAAAATTG
CACCGAAGTCCACATTACACGTGACACTAACAGATAAATATAGTTAGAGTCGATCTCAAATATAT
CTGATCATGAATCGATCTTAAATCCATCGAATGATGGATCCTTGAACCGTAAACTATGCTAATAA
TGAAAAATGCCTTGCAGTCCACACTACACGTGTGCAAGCTAAATGAAGTTAGAGTCGATCTCAAA
TCCATCTGATGATG
Found at i:10622221 original size:27 final size:27
Alignment explanation
Indices: 10622181--10622236 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
10622171 GAAGTTAGAG
* *
10622181 TCGATCTCATATCCATCTGATGATGAA
1 TCGATCTCAAATCCATCAGATGATGAA
*
10622208 TCGATCTTAAATCCATCAGATGATGAA
1 TCGATCTCAAATCCATCAGATGATGAA
10622235 TC
1 TC
10622237 TTTCAACCGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.32
Consensus pattern (27 bp):
TCGATCTCAAATCCATCAGATGATGAA
Found at i:10623877 original size:70 final size:68
Alignment explanation
Indices: 10623783--10623920 Score: 258
Period size: 70 Copynumber: 2.0 Consensus size: 68
10623773 ACCTCATAAT
10623783 GACGTTATTTTGTTCGTAAACCATTCTTTTCAACTTCCGTGAAATCCTCCGGATAAAATTTATTC
1 GACGTTATTTTGTTCGTAAACCATTCTTTTCAACTTCCGTGAAATCC-CCGGATAAAATTT-TTC
10623848 AAAAG
64 AAAAG
10623853 GACGTTATTTTGTTCGTAAACCATTCTTTTCAACTTCCGTGAAATCCCCGGATAAAATTTTTCAA
1 GACGTTATTTTGTTCGTAAACCATTCTTTTCAACTTCCGTGAAATCCCCGGATAAAATTTTTCAA
10623918 AAG
66 AAG
10623921 ATTATAAATG
Statistics
Matches: 68, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
68 8 0.12
69 13 0.19
70 47 0.69
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (68 bp):
GACGTTATTTTGTTCGTAAACCATTCTTTTCAACTTCCGTGAAATCCCCGGATAAAATTTTTCAA
AAG
Found at i:10627717 original size:44 final size:46
Alignment explanation
Indices: 10627611--10627721 Score: 129
Period size: 47 Copynumber: 2.5 Consensus size: 46
10627601 ACATTTATCT
10627611 CATAAGCTCGTAAGCTTATTTTACCAAAATACTTACCATTTAAATTC
1 CATAAGCTCGTAAGCTTATTTTACCAAAATACTTACCATTT-AATTC
* * * * *
10627658 CATAAGCTCGTAAGCTTATTTTTCCTATATAGTTGCCA-TT-ATTC
1 CATAAGCTCGTAAGCTTATTTTACCAAAATACTTACCATTTAATTC
* *
10627702 CGTAAGCTCATAAGC-TATTT
1 CATAAGCTCGTAAGCTTATTT
10627722 GCATGGTTAC
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
43 5 0.09
44 17 0.30
46 2 0.04
47 33 0.58
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.39
Consensus pattern (46 bp):
CATAAGCTCGTAAGCTTATTTTACCAAAATACTTACCATTTAATTC
Found at i:10629848 original size:19 final size:18
Alignment explanation
Indices: 10629816--10629851 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
10629806 TTTATTGTAC
10629816 TTAAATTAAAATATATAA
1 TTAAATTAAAATATATAA
*
10629834 TTAAGATTAATATATATA
1 TTAA-ATTAAAATATATA
10629852 TATATATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (18 bp):
TTAAATTAAAATATATAA
Found at i:10634296 original size:71 final size:70
Alignment explanation
Indices: 10634208--10634346 Score: 269
Period size: 71 Copynumber: 2.0 Consensus size: 70
10634198 TCCAAAATCC
10634208 CTGCAGATCAACCTTTTATCTTTATACTAAGCTTATTTAATTATTTTATTTGAGATTAATAAAAT
1 CTGCAGATCAACCTTTTATCTTTATACTAAGCTTATTTAATTA-TTTATTTGAGATTAATAAAAT
10634273 TATTGT
65 TATTGT
10634279 CTGCAGATCAACCTTTTATCTTTATACTAAGCTTATTTAATTATTTATTTGAGATTAATAAAATT
1 CTGCAGATCAACCTTTTATCTTTATACTAAGCTTATTTAATTATTTATTTGAGATTAATAAAATT
10634344 ATT
66 ATT
10634347 TGACAATAAA
Statistics
Matches: 68, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 25 0.37
71 43 0.63
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.47
Consensus pattern (70 bp):
CTGCAGATCAACCTTTTATCTTTATACTAAGCTTATTTAATTATTTATTTGAGATTAATAAAATT
ATTGT
Found at i:10636749 original size:2 final size:2
Alignment explanation
Indices: 10636742--10636772 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
10636732 TCACTAACTC
10636742 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10636773 TGTAATAACC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10640498 original size:17 final size:17
Alignment explanation
Indices: 10640462--10640496 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
10640452 TAATAGTGAG
10640462 TTATTATACAATATATT
1 TTATTATACAATATATT
*
10640479 TTATTATA-ATTATATT
1 TTATTATACAATATATT
10640495 TT
1 TT
10640497 TAATTTGTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (17 bp):
TTATTATACAATATATT
Found at i:10641894 original size:28 final size:28
Alignment explanation
Indices: 10641862--10641962 Score: 87
Period size: 28 Copynumber: 3.5 Consensus size: 28
10641852 TGAAAAGTTT
*
10641862 AAATACTTTAGATAACTATTTTAACATA
1 AAATACTTTAGATAACTATTTTAACAAA
* * * *
10641890 AAATATTTTAGGT-ACTAACTTTGACAAA
1 AAATACTTTAGATAACT-ATTTTAACAAA
* **
10641918 AAATAATTTTAGATATTTATTTTAACTAAA
1 AAAT-ACTTTAGATAACTATTTTAAC-AAA
*
10641948 AAATACTTTAAATAA
1 AAATACTTTAGATAA
10641963 TTAAATGAAA
Statistics
Matches: 56, Mismatches: 13, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
27 3 0.05
28 23 0.41
29 22 0.39
30 8 0.14
ACGTcount: A:0.48, C:0.08, G:0.05, T:0.40
Consensus pattern (28 bp):
AAATACTTTAGATAACTATTTTAACAAA
Found at i:10641948 original size:29 final size:27
Alignment explanation
Indices: 10641862--10641965 Score: 73
Period size: 29 Copynumber: 3.7 Consensus size: 27
10641852 TGAAAAGTTT
* *
10641862 AAATACTTTAGATAACTATTTTAACATA
1 AAATATTTTAGATAATTATTTTAACA-A
* * * * *
10641890 AAATATTTTAGGTACTAACTTTGACAAA
1 AAATATTTTAGATAATTATTTTAAC-AA
*
10641918 AAATAATTTTAGATATTTATTTTAACTAAA
1 AAAT-ATTTTAGATAATTATTTTAAC--AA
* *
10641948 AAATACTTTAAATAATTA
1 AAATATTTTAGATAATTA
10641966 AATGAAAAAA
Statistics
Matches: 58, Mismatches: 15, Indels: 5
0.74 0.19 0.06
Matches are distributed among these distances:
28 23 0.40
29 28 0.48
30 7 0.12
ACGTcount: A:0.47, C:0.08, G:0.05, T:0.40
Consensus pattern (27 bp):
AAATATTTTAGATAATTATTTTAACAA
Found at i:10643505 original size:30 final size:30
Alignment explanation
Indices: 10643442--10643505 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
10643432 ATCAAACTTG
* * *
10643442 AATTCTTTGGTGGTAGTAAATTCGAATTCA
1 AATTCTTTGATGGTAGTAAATTCGAACTAA
*
10643472 AATTCTTTGATGGTTGTAAAGTT-GAACTAA
1 AATTCTTTGATGGTAGTAAA-TTCGAACTAA
10643502 AATT
1 AATT
10643506 AATGCCAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 27 0.93
31 2 0.07
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.41
Consensus pattern (30 bp):
AATTCTTTGATGGTAGTAAATTCGAACTAA
Found at i:10645745 original size:14 final size:14
Alignment explanation
Indices: 10645701--10645747 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
10645691 TTTCTCTTTA
*
10645701 TTTATTACTATTAT
1 TTTATTTCTATTAT
*
10645715 TTTCTTT-TATTTAT
1 TTTATTTCTA-TTAT
*
10645729 TTTATTTCTATTCT
1 TTTATTTCTATTAT
10645743 TTTAT
1 TTTAT
10645748 ATACGTTAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
13 2 0.07
14 23 0.85
15 2 0.07
ACGTcount: A:0.19, C:0.09, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTATTTCTATTAT
Found at i:10649602 original size:17 final size:19
Alignment explanation
Indices: 10649580--10649617 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
10649570 ATACTTTGCA
10649580 TTTTATA-TTT-CATGTTT
1 TTTTATATTTTCCATGTTT
10649597 TTTTATATTTTCCATGTTT
1 TTTTATATTTTCCATGTTT
10649616 TT
1 TT
10649618 ACATTCATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 3 0.16
19 9 0.47
ACGTcount: A:0.16, C:0.08, G:0.05, T:0.71
Consensus pattern (19 bp):
TTTTATATTTTCCATGTTT
Found at i:10652480 original size:13 final size:13
Alignment explanation
Indices: 10652480--10652560 Score: 57
Period size: 13 Copynumber: 6.3 Consensus size: 13
10652470 CCGTTGACCC
10652480 GACCCGACCCGTT
1 GACCCGACCCGTT
10652493 GACCCGACCC---
1 GACCCGACCCGTT
10652503 GACCCGTTGACCC---
1 GACCC---GACCCGTT
*
10652516 GACTCGACCCGTT
1 GACCCGACCCGTT
10652529 GACCCGACCCGTT
1 GACCCGACCCGTT
*
10652542 GACCGTTGACCCGTT
1 GACC--CGACCCGTT
10652557 GACC
1 GACC
10652561 GTTGACCGGA
Statistics
Matches: 57, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
10 10 0.18
13 35 0.61
15 12 0.21
ACGTcount: A:0.16, C:0.44, G:0.23, T:0.16
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:10652480 original size:18 final size:18
Alignment explanation
Indices: 10652457--10652539 Score: 157
Period size: 18 Copynumber: 4.6 Consensus size: 18
10652447 CCCACGCGCC
10652457 GACCCGACCCGACCCGTT
1 GACCCGACCCGACCCGTT
10652475 GACCCGACCCGACCCGTT
1 GACCCGACCCGACCCGTT
10652493 GACCCGACCCGACCCGTT
1 GACCCGACCCGACCCGTT
*
10652511 GACCCGACTCGACCCGTT
1 GACCCGACCCGACCCGTT
10652529 GACCCGACCCG
1 GACCCGACCCG
10652540 TTGACCGTTG
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 63 1.00
ACGTcount: A:0.17, C:0.49, G:0.23, T:0.11
Consensus pattern (18 bp):
GACCCGACCCGACCCGTT
Found at i:10652514 original size:8 final size:8
Alignment explanation
Indices: 10652503--10652567 Score: 68
Period size: 8 Copynumber: 8.5 Consensus size: 8
10652493 GACCCGACCC
10652503 GACCCGTT
1 GACCCGTT
*
10652511 GACCCGACTC
1 GACCCG--TT
10652521 GACCCGTT
1 GACCCGTT
10652529 GACCC---
1 GACCCGTT
10652534 GACCCGTT
1 GACCCGTT
10652542 GA-CCGTT
1 GACCCGTT
10652549 GACCCGTT
1 GACCCGTT
10652557 GA-CCGTT
1 GACCCGTT
10652564 GACC
1 GACC
10652568 GGAGTTGACC
Statistics
Matches: 48, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
5 5 0.10
7 14 0.29
8 22 0.46
10 7 0.15
ACGTcount: A:0.15, C:0.40, G:0.25, T:0.20
Consensus pattern (8 bp):
GACCCGTT
Found at i:10652539 original size:5 final size:5
Alignment explanation
Indices: 10652455--10652508 Score: 54
Period size: 5 Copynumber: 9.6 Consensus size: 5
10652445 CCCCCACGCG
10652455 CCGAC CCGAC CCGAC CCGTTGAC CCGAC CCGAC CCGTTGAC CCGAC CCGAC
1 CCGAC CCGAC CCGAC CC---GAC CCGAC CCGAC CC---GAC CCGAC CCGAC
10652506 CCG
1 CCG
10652509 TTGACCCGAC
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
5 33 0.77
8 10 0.23
ACGTcount: A:0.17, C:0.54, G:0.22, T:0.07
Consensus pattern (5 bp):
CCGAC
Found at i:10652549 original size:7 final size:7
Alignment explanation
Indices: 10652537--10652568 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
10652527 TTGACCCGAC
10652537 CCGTTGA
1 CCGTTGA
10652544 CCGTTGA
1 CCGTTGA
10652551 CCCGTTGA
1 -CCGTTGA
10652559 CCGTTGA
1 CCGTTGA
10652566 CCG
1 CCG
10652569 GAGTTGACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.12, C:0.34, G:0.28, T:0.25
Consensus pattern (7 bp):
CCGTTGA
Found at i:10652554 original size:15 final size:15
Alignment explanation
Indices: 10652521--10652567 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
10652511 GACCCGACTC
*
10652521 GACCCGTTGACC--C
1 GACCCGTTGACCGTT
10652534 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
10652549 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
10652564 GACC
1 GACC
10652568 GGAGTTGACC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 12 0.39
15 19 0.61
ACGTcount: A:0.15, C:0.38, G:0.26, T:0.21
Consensus pattern (15 bp):
GACCCGTTGACCGTT
Found at i:10655137 original size:24 final size:24
Alignment explanation
Indices: 10655016--10655130 Score: 162
Period size: 24 Copynumber: 4.8 Consensus size: 24
10655006 TCGATTTGAT
10655016 TTCTGATCTGATACTTGACATGGA
1 TTCTGATCTGATACTTGACATGGA
10655040 TTCTGATCTGATA-TCTGACATGGA
1 TTCTGATCTGATACT-TGACATGGA
*
10655064 TTCTGATCTGATACTTGACTTGGA
1 TTCTGATCTGATACTTGACATGGA
* *
10655088 TTCTGATCTGTTACTTGACCT-GA
1 TTCTGATCTGATACTTGACATGGA
*
10655111 TTTCTGATATGATACTTGAC
1 -TTCTGATCTGATACTTGAC
10655131 CTGATTTATG
Statistics
Matches: 83, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
23 3 0.04
24 79 0.95
25 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.41
Consensus pattern (24 bp):
TTCTGATCTGATACTTGACATGGA
Done.