Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008243.1 Hibiscus syriacus cultivar Beakdansim tig00110893_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: 10265705
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 49
Found at i:1582719 original size:10 final size:10
Alignment explanation
Indices: 1582704--1582804 Score: 55
Period size: 10 Copynumber: 10.1 Consensus size: 10
1582694 CAAAAGAACG
1582704 AGAAAAAAAA
1 AGAAAAAAAA
1582714 AG-AAAAAAA
1 AGAAAAAAAA
* * *
1582723 GGAAAAACAT
1 AGAAAAAAAA
* *
1582733 ATAAAAATAA
1 AGAAAAAAAA
*
1582743 ATAAAAATAAA
1 AGAAAAA-AAA
* *
1582754 A-TAAAAACA
1 AGAAAAAAAA
*
1582763 ATAAAAAAAA
1 AGAAAAAAAA
*
1582773 AGAAAATCAAA
1 AGAAAA-AAAA
*
1582784 GGAAAAATAAA
1 AGAAAAA-AAA
1582795 A-AAAAAAAA
1 AGAAAAAAAA
1582804 A
1 A
1582805 AATAATGATA
Statistics
Matches: 69, Mismatches: 17, Indels: 11
0.71 0.18 0.11
Matches are distributed among these distances:
9 15 0.22
10 40 0.58
11 14 0.20
ACGTcount: A:0.81, C:0.03, G:0.07, T:0.09
Consensus pattern (10 bp):
AGAAAAAAAA
Found at i:1582742 original size:6 final size:6
Alignment explanation
Indices: 1582733--1582809 Score: 51
Period size: 6 Copynumber: 13.7 Consensus size: 6
1582723 GGAAAAACAT
*
1582733 ATAAAA AT--AA ATAAAA AT-AAA ATAAAA ACAATAA A-AAAA A-AGAAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAA-AA ATAAAA ATA-AAA
* **
1582778 ATCAAA GGAAAA ATAAAA A-AAAA A-AAAA ATAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAA
1582810 TGATAATAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
4 4 0.07
5 19 0.33
6 31 0.54
7 3 0.05
ACGTcount: A:0.82, C:0.03, G:0.04, T:0.12
Consensus pattern (6 bp):
ATAAAA
Found at i:1582752 original size:16 final size:16
Alignment explanation
Indices: 1582733--1582874 Score: 64
Period size: 16 Copynumber: 8.6 Consensus size: 16
1582723 GGAAAAACAT
1582733 ATAAAAATAAATAAAA
1 ATAAAAATAAATAAAA
*
1582749 AT-AAAATAAA-AACA
1 ATAAAAATAAATAAAA
1582763 ATAAAAA-AAA-AGAAA
1 ATAAAAATAAATA-AAA
1582778 ATCAAAGGAA-AAATAAAA
1 AT-AAA--AATAAATAAAA
* *
1582796 AAAAAAAAAAATAATGATA
1 ATAAAAATAAATAA--A-A
* *
1582815 ATAAAAAATTGAATAAAC
1 AT-AAAAA-TAAATAAAA
1582833 A-AAAAATAATATAAAA
1 ATAAAAATAA-ATAAAA
* *
1582849 A-AAATATATAATAATA
1 ATAAAAATA-AATAAAA
*
1582865 ATAATAATAA
1 ATAAAAATAA
1582875 TAAGATGTAA
Statistics
Matches: 98, Mismatches: 13, Indels: 30
0.70 0.09 0.21
Matches are distributed among these distances:
14 9 0.09
15 20 0.20
16 35 0.36
17 9 0.09
18 11 0.11
19 4 0.04
20 5 0.05
21 5 0.05
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.18
Consensus pattern (16 bp):
ATAAAAATAAATAAAA
Found at i:1582769 original size:30 final size:28
Alignment explanation
Indices: 1582706--1582809 Score: 104
Period size: 30 Copynumber: 3.6 Consensus size: 28
1582696 AAAGAACGAG
*
1582706 AAAAAAAAAGAAAA-AAAGGAAAAACATAT
1 AAAAAAAAA-AAAATAAAAGAAAAACA-AT
*
1582735 AAAAATAAATAAAAATAAAATAAAAACAAT
1 AAAAA-AAA-AAAAATAAAAGAAAAACAAT
* *
1582765 AAAAAAAAAGAAAATCAAAGGAAAAATAA-
1 AAAAAAAAA-AAAAT-AAAAGAAAAACAAT
1582794 AAAAAAAAAAAAATAA
1 AAAAAAAAAAAAATAA
1582810 TGATAATAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
27 2 0.03
28 6 0.09
29 22 0.34
30 24 0.37
31 11 0.17
ACGTcount: A:0.82, C:0.03, G:0.06, T:0.10
Consensus pattern (28 bp):
AAAAAAAAAAAAATAAAAGAAAAACAAT
Found at i:1582822 original size:32 final size:30
Alignment explanation
Indices: 1582735--1582854 Score: 89
Period size: 32 Copynumber: 3.7 Consensus size: 30
1582725 AAAAACATAT
1582735 AAAAATAA-ATAAAAATAAAATAAAAACAATAAAA
1 AAAAATAATAT-AAAA-AAAAT-AAAA-AA-AAAA
* *
1582769 AAAAAGAAAATCAAAGGAAAAATAAAAAAAAAA
1 AAAAATAATAT-AAA--AAAAATAAAAAAAAAA
** * *
1582802 AAAAATAATGATAATAAAAAATTGAATAAACA
1 AAAAATAAT-ATAA-AAAAAATAAAAAAAAAA
1582834 AAAAATAATATAAAAAAAATA
1 AAAAATAATATAAAAAAAATA
1582855 TATAATAATA
Statistics
Matches: 72, Mismatches: 9, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
30 7 0.10
31 4 0.06
32 21 0.29
33 13 0.18
34 12 0.17
35 9 0.12
36 5 0.07
37 1 0.01
ACGTcount: A:0.78, C:0.03, G:0.04, T:0.15
Consensus pattern (30 bp):
AAAAATAATATAAAAAAAATAAAAAAAAAA
Found at i:1584188 original size:37 final size:37
Alignment explanation
Indices: 1584104--1584358 Score: 275
Period size: 37 Copynumber: 6.8 Consensus size: 37
1584094 CTATAATATT
* * * *
1584104 TTTTAAAAATTATATATTTTATGTATTTTCCAAAAACG
1 TTTTAAAAACTATATATTATATATATTTT-CAAAAATG
*
1584142 TTTTAAAAAACTATATAATATATATATTTTCAAAAATG
1 TTTT-AAAAACTATATATTATATATATTTTCAAAAATG
*
1584180 TTTTAAAAAACTATATATTATATATA-TTTCCAAAATG
1 TTTT-AAAAACTATATATTATATATATTTTCAAAAATG
* *
1584217 TTTTCAAAAACTATATAATATATAAATGTTTTC-AAAATG
1 TTTT-AAAAACTATAT-AT-TATATATATTTTCAAAAATG
* *
1584256 TTTTCAAAACTATATATTATATAAATTTTCAAAAATG
1 TTTTAAAAACTATATATTATATATATTTTCAAAAATG
* *
1584293 TTTTCAAAACTATATATTGTATA-AGTTTTC-AAAATG
1 TTTTAAAAACTATATATTATATATA-TTTTCAAAAATG
* * *
1584329 AATTTAAAAACTATATAGTACATATATTTT
1 -TTTTAAAAACTATATATTATATATATTTT
1584359 ATAAATATAT
Statistics
Matches: 189, Mismatches: 20, Indels: 17
0.84 0.09 0.08
Matches are distributed among these distances:
36 17 0.09
37 82 0.43
38 49 0.26
39 37 0.20
40 4 0.02
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (37 bp):
TTTTAAAAACTATATATTATATATATTTTCAAAAATG
Found at i:1584195 original size:75 final size:72
Alignment explanation
Indices: 1584071--1584344 Score: 252
Period size: 75 Copynumber: 3.7 Consensus size: 72
1584061 AAAACAATTC
* * * *
1584071 AAAAAC-ATATAATATAT-TAATTTCTATAATATTTTTTAAAAATTATATATTTTATGTATTTTC
1 AAAAACTATATAATATATATATTTTC-A-AA-ATGTTTTAAAAA--CTATATTTTATATATTTTC
*
1584134 CAAAAACGTTTT
61 CAAAAATGTTTT
*
1584146 AAAAAACTATATAATATATATATTTTCAAAAATGTTTTAAAAAACTATATATTATATATATTTCC
1 -AAAAACTATATAATATATATATTTTC-AAAATGTTTT-AAAAACTATATTTTATATAT-TTTCC
1584211 -AAAATGTTTT
62 AAAAATGTTTT
* * *
1584221 CAAAAACTATATAATATATAAATGTTTTCAAAATGTTTTCAAAACTATATATTATATAAATTTT-
1 -AAAAACTATATAATATAT--ATATTTTCAAAATGTTTTAAAAACTATAT-TT-TATATATTTTC
1584285 CAAAAATGTTTT
61 CAAAAATGTTTT
* * * *
1584297 CAAAACTATATATTGTATA-AGTTTTCAAAATGAATTTAAAAACTATAT
1 AAAAACTATATAATATATATA-TTTTCAAAATG-TTTTAAAAACTATAT
1584345 AGTACATATA
Statistics
Matches: 169, Mismatches: 18, Indels: 24
0.80 0.09 0.11
Matches are distributed among these distances:
73 12 0.07
74 13 0.08
75 65 0.38
76 41 0.24
77 31 0.18
78 7 0.04
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.43
Consensus pattern (72 bp):
AAAAACTATATAATATATATATTTTCAAAATGTTTTAAAAACTATATTTTATATATTTTCCAAAA
ATGTTTT
Found at i:1584256 original size:11 final size:11
Alignment explanation
Indices: 1584240--1584264 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1584230 TATAATATAT
1584240 AAATGTTTTCA
1 AAATGTTTTCA
1584251 AAATGTTTTCA
1 AAATGTTTTCA
1584262 AAA
1 AAA
1584265 CTATATATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (11 bp):
AAATGTTTTCA
Found at i:1584437 original size:39 final size:37
Alignment explanation
Indices: 1584363--1584452 Score: 103
Period size: 39 Copynumber: 2.4 Consensus size: 37
1584353 TATTTTATAA
1584363 ATATATTATATA-GTTTTCAAAAATGTTTTAAAAACT
1 ATATATTATATATGTTTTCAAAAATGTTTTAAAAACT
**
1584399 ATATATTATATATGTATTTTCAAAAATCG-TTTGCAAACT
1 ATATATTATATATG--TTTTCAAAAAT-GTTTTAAAAACT
1584438 ATAATATATATATAT
1 AT-ATAT-TATATAT
1584453 ATATATAAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
36 12 0.26
37 1 0.02
39 21 0.46
40 5 0.11
41 7 0.15
ACGTcount: A:0.43, C:0.07, G:0.06, T:0.44
Consensus pattern (37 bp):
ATATATTATATATGTTTTCAAAAATGTTTTAAAAACT
Found at i:1584448 original size:2 final size:2
Alignment explanation
Indices: 1584437--1584483 Score: 60
Period size: 2 Copynumber: 24.0 Consensus size: 2
1584427 GTTTGCAAAC
* * *
1584437 TA TA -A TA TA TA TA TA TA TA TA TA AA TA TA TA AA TA TA TA AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1584478 TA TA TA
1 TA TA TA
1584484 AATAAAATAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (2 bp):
TA
Found at i:1584449 original size:95 final size:98
Alignment explanation
Indices: 1584267--1584466 Score: 243
Period size: 95 Copynumber: 2.1 Consensus size: 98
1584257 TTTCAAAACT
* *
1584267 ATATATTATATAAATTTTCAAAAATGTTTTCAAAACTATATATTGTATAAGTTTTCAAAATGAAT
1 ATATATTATATAAATTTTCAAAAATGTTTTAAAAACTATATATTATATAAGTTTTCAAAATG-AT
1584332 TTAAAAACTATATAGTACATATAT-T-T-TATAA
65 TTAAAAACTATATAGTACATATATATATATATAA
* *
1584363 ATATATTATAT-AGTTTTCAAAAATGTTTTAAAAACTATATATTATATATGTATTTTCAAAAATC
1 ATATATTATATAAATTTTCAAAAATGTTTTAAAAACTATATATTATATAAG--TTTTC-AAAAT-
** *
1584427 G-TTTGCAAACTATA-A-TATATATATATATATATAA
62 GATTTAAAAACTATATAGTACATATATATATATATAA
1584461 ATATAT
1 ATATAT
1584467 AAATATATAA
Statistics
Matches: 90, Mismatches: 7, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
95 43 0.48
96 13 0.14
97 17 0.19
98 16 0.18
99 1 0.01
ACGTcount: A:0.46, C:0.06, G:0.05, T:0.43
Consensus pattern (98 bp):
ATATATTATATAAATTTTCAAAAATGTTTTAAAAACTATATATTATATAAGTTTTCAAAATGATT
TAAAAACTATATAGTACATATATATATATATAA
Found at i:1584454 original size:8 final size:8
Alignment explanation
Indices: 1584445--1584487 Score: 77
Period size: 8 Copynumber: 5.4 Consensus size: 8
1584435 ACTATAATAT
*
1584445 ATATATAT
1 ATATATAA
1584453 ATATATAA
1 ATATATAA
1584461 ATATATAA
1 ATATATAA
1584469 ATATATAA
1 ATATATAA
1584477 ATATATAA
1 ATATATAA
1584485 ATA
1 ATA
1584488 AAATAAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 34 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
ATATATAA
Found at i:1585170 original size:84 final size:85
Alignment explanation
Indices: 1585082--1585888 Score: 435
Period size: 84 Copynumber: 9.7 Consensus size: 85
1585072 AAATTTGGTT
* * * * **
1585082 TGCCTCT-GAGCTGAGTGTAATCGAAATCGAAGGTCTTCGGTTGGCAGATAGCTTTTCTTGACTT
1 TGCCTCTAGAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTTGACTT
*
1585146 AGGATATGCTATAAATAATA
66 AGGATATGCTATAAATAATG
* * * * * *
1585166 TGCCT-TGGAGCTGAGCGTAGTCGAACTTGAAGGTCTTTTGG-TGACAGATAACCCTTCTAGCCT
1 TGCCTCTAGAGCTGAGCGTAATCGAACTCGAAGGTC-TTTGGTTGGCAGATAACCCTTCTTGACT
* *
1585229 T-GAGTTATGCTGTAAATAATG
65 TAG-GATATGCTATAAATAATG
* ** *
1585250 TGCC-CTCAAAGCTGAATGTAATCGAACTCGAGGGTC--T--TTGGCAGATAACCCTTCTTGACT
1 TGCCTCT-AGAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTTGACT
* *
1585310 TA-AACTATGCTATAAATGATG
65 TAGGA-TATGCTATAAATAATG
* * * * * *
1585331 TG-CTTTAGAGTTGAGCGTAGTCCAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGAGTT
1 TGCCTCTAGAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTTGACTT
* * ** * *
1585395 AAGTTATGCTGCAAATGATA
66 AGGATATGCTATAAATAATG
* * ** * *
1585415 TGCCT-TGGAGCTGAGCGTAGTCGAACTTAAAGGTCTTTTGG-TGACAGATAACCCTT-TTAGCC
1 TGCCTCTAGAGCTGAGCGTAATCGAACTCGAAGGTC-TTTGGTTGGCAGATAACCCTTCTT-GAC
* * * *
1585477 TT-GAGTTATACTGTAAATGATG
64 TTAG-GATATGCTATAAATAATG
* * * * * * * *
1585499 TGCC-CTCGAATCTGAGTGTAATCAAACTTGAGGGTC--T--TTGGCAGATAGCCCTTCTCGACT
1 TGCCTCTAG-AGCTGAGCGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTTGACT
* * * *
1585559 TAAGCTATGCTACAAATGATG
65 TAGGATATGCTATAAATAATG
* * * * * **
1585580 TGCCT-TGGGAGCTGAGCGTAGTCGAACTCAAAAGTCTTTGGTTGACAGATAACCCTTCACGACT
1 TGCCTCT-AGAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTTGACT
* * * ** * *
1585644 TAAGTTATGTTGCAAATGATA
65 TAGGATATGCTATAAATAATG
* * * * * * *
1585665 TGCCT-TGGAGCTGAGTGTAGTCGAACTCGAAGGTCTTTTGG-AGACAGATAACCCTTCTAGCCT
1 TGCCTCTAGAGCTGAGCGTAATCGAACTCGAAGGTC-TTTGGTTGGCAGATAACCCTTCTTGACT
* * *
1585728 T-GAGTTATGCTGTAAATGATG
65 TAG-GATATGCTATAAATAATG
* * * * * * * * *
1585749 TGCC-CTCGAAGCTGAGTGCAATCGAACTCGAAGGTCTTCGATTGGTAGATAGCTCTTCTCGACT
1 TGCCTCTAG-AGCTGAGCGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTTGACT
** ** *
1585813 TAATATATGCTGCAAATGATG
65 TAGGATATGCTATAAATAATG
* * * * *
1585834 TGCCT-TGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTGGCTGACAGACAACCCTT
1 TGCCTCTAGAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTT
1585889 GAGTTATGAT
Statistics
Matches: 560, Mismatches: 127, Indels: 73
0.74 0.17 0.10
Matches are distributed among these distances:
80 23 0.04
81 92 0.16
82 5 0.01
83 16 0.03
84 260 0.46
85 164 0.29
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (85 bp):
TGCCTCTAGAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTTGACTT
AGGATATGCTATAAATAATG
Found at i:1585719 original size:250 final size:249
Alignment explanation
Indices: 1585089--1585888 Score: 1100
Period size: 249 Copynumber: 3.2 Consensus size: 249
1585079 GTTTGCCTCT
* * * * * * ** ** * *
1585089 GAGCTGAGTGTAATCGAAATCGAAGGTCTTCGGTTGGCAGATAGCTTTTCTTGACTTAGGATATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGACAGATAACCCTTCACGACTTAAGTTATG
** *
1585154 CTATAAATAATATGCCTTGGAGCTGAGCGTAGTCGAACTTGAAGGTCTTTTGGTGACAGATAACC
66 CTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTTGAAGGTCTTTTGGTGACAGATAACC
* * *
1585219 CTTCTAGCCTTGAGTTATGCTGTAAATAATGTGCCCTCAAAGCTGAATGTAATCGAACTCGAGGG
131 CTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGG
* * * * *
1585284 TCTTTGGCAGATAACCCTTCTTGACTTAAACTATGCTATAAATGATGTGCTTTA
196 TCTTTGGCAGATAGCCCTTCTCGACTTAAACTATGCTACAAATGATGTGCCTTG
* * * * *
1585338 GAGTTGAGCGTAGTCCAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGAGTTAAGTTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGACAGATAACCCTTCACGACTTAAGTTATG
*
1585403 CTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTTAAAGGTCTTTTGGTGACAGATAACC
66 CTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTTGAAGGTCTTTTGGTGACAGATAACC
* * * * *
1585468 CTTTTAGCCTTGAGTTATACTGTAAATGATGTGCCCTCGAATCTGAGTGTAATCAAACTTGAGGG
131 CTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGG
*
1585533 TCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTACAAATGATGTGCCTTGG
196 TCTTTGGCAGATAGCCCTTCTCGACTTAAACTATGCTACAAATGATGTGCCTT-G
* *
1585588 GAGCTGAGCGTAGTCGAACTCAAAAGTCTTTGGTTGACAGATAACCCTTCACGACTTAAGTTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGACAGATAACCCTTCACGACTTAAGTTATG
* * * *
1585653 TTGCAAATGATATGCCTTGGAGCTGAGTGTAGTCGAACTCGAAGGTCTTTTGGAGACAGATAACC
66 CTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTTGAAGGTCTTTTGGTGACAGATAACC
* *
1585718 CTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGCAATCGAACTCGAAGG
131 CTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGG
* * *
1585783 TCTTCGATTGGTAGATAGCTCTTCTCGACTTAATA-TATGCTGCAAATGATGTGCCTTG
196 TC-T---TTGGCAGATAGCCCTTCTCGACTTAA-ACTATGCTACAAATGATGTGCCTTG
* *
1585841 GAGCTGAGCGTAGTCGAACTCGAAGGTC-TTGGCTGACAGACAACCCTT
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGACAGATAACCCTT
1585889 GAGTTATGAT
Statistics
Matches: 487, Mismatches: 58, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
249 218 0.45
250 178 0.37
251 1 0.00
252 18 0.04
253 27 0.06
254 45 0.09
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.30
Consensus pattern (249 bp):
GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGACAGATAACCCTTCACGACTTAAGTTATG
CTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTTGAAGGTCTTTTGGTGACAGATAACC
CTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGG
TCTTTGGCAGATAGCCCTTCTCGACTTAAACTATGCTACAAATGATGTGCCTTG
Found at i:1592411 original size:18 final size:17
Alignment explanation
Indices: 1592388--1592431 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
1592378 AAAAAGGAAT
1592388 TAAATAAATAAGAAATAA
1 TAAATAAATAA-AAATAA
*
1592406 TAAATAAATAAAAGTAA
1 TAAATAAATAAAAATAA
*
1592423 TAAAAAAAT
1 TAAATAAAT
1592432 TCAAAAACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.23
Consensus pattern (17 bp):
TAAATAAATAAAAATAA
Found at i:1592509 original size:38 final size:38
Alignment explanation
Indices: 1592466--1592843 Score: 206
Period size: 39 Copynumber: 9.7 Consensus size: 38
1592456 TCTTAAATAT
* * **
1592466 TTTTTAAAAATTATATATTATACGTATTTTCCAAAAACG
1 TTTTAAAAAACTATATATTATATATATTTT-CAAAAACG
*
1592505 TTTTAAAAAACTATATAATATATATATATTTTCAAAAATG
1 TTTTAAAAAACTATAT-AT-TATATATATTTTCAAAAACG
* **
1592545 TTTTAAAAAACTATACATTATATATATTTTCAAAAATAT
1 TTTTAAAAAACTATATATTATATATATTTTCAAAAA-CG
* * * * *
1592584 TTTTCAAAAACTGTATAATATATAAATGTTTTC--AAATG
1 TTTTAAAAAACTATAT-AT-TATATATATTTTCAAAAACG
** * ** *
1592622 TTTTCAAAATGTTTTCAAAAATATA-TATTATATAAATTTTCAAAAATG
1 TTTT-AAAA-------AACTATATATTA-TATAT-ATTTTCA-AAAACG
* *
1592670 TTTT-CAAAACTATATATTATATA-AGTTTTC-AAAATG
1 TTTTAAAAAACTATATATTATATATA-TTTTCAAAAACG
*
1592706 ATTTT-AAAAACTATATATTATATATATTTT-ATAAAATG
1 -TTTTAAAAAACTATATATTATATATATTTTCA-AAAACG
* *
1592744 TTTT-AAAAA-TATATATTATATA-GTTTTCAAAAATG
1 TTTTAAAAAACTATATATTATATATATTTTCAAAAACG
* *
1592779 TTTTTAAAAACTATATATTATATACATATTTTCAAAATCG
1 TTTTAAAAAACTATATATTATAT--ATATTTTCAAAAACG
** *
1592819 -TTT-GCAAACTATATAATATATATAT
1 TTTTAAAAAACTATATATTATATATAT
1592844 AGATATATAT
Statistics
Matches: 273, Mismatches: 36, Indels: 63
0.73 0.10 0.17
Matches are distributed among these distances:
35 14 0.05
36 29 0.11
37 48 0.18
38 47 0.17
39 50 0.18
40 38 0.14
41 21 0.08
43 2 0.01
44 4 0.01
45 4 0.01
46 7 0.03
48 9 0.03
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (38 bp):
TTTTAAAAAACTATATATTATATATATTTTCAAAAACG
Found at i:1592520 original size:39 final size:37
Alignment explanation
Indices: 1592467--1592843 Score: 270
Period size: 37 Copynumber: 9.7 Consensus size: 37
1592457 CTTAAATATT
* ** *
1592467 TTTTAAAAATTATATATTATACGTATTTTCCAAAAACG
1 TTTTAAAAACTATATATTATATATATTTT-CAAAAATG
1592505 TTTTAAAAAACTATATAATATATATATATTTTCAAAAATG
1 TTTT-AAAAACTATAT-AT-TATATATATTTTCAAAAATG
* *
1592545 TTTTAAAAAACTATACATTATATATATTTTCAAAAATAT
1 TTTT-AAAAACTATATATTATATATATTTTCAAAAAT-G
* * *
1592584 TTTTCAAAAACTGTATAATATATAAATGTTTTCAAATGTTTTCAAAATG
1 TTTT-AAAAACTATAT-AT-TATATATATTTTC--A-------AAAATG
* * **
1592633 TTTTCAAAA--ATATA-TATTATATAAATTTTCAAAAATG
1 TTTTAAAAACTATATATTA-TATAT-ATTTTCAAAAA-TG
*
1592670 TTTTCAAAACTATATATTATATA-AGTTTTC-AAAATG
1 TTTTAAAAACTATATATTATATATA-TTTTCAAAAATG
1592706 ATTTTAAAAACTATATATTATATATATTTT-ATAAAATG
1 -TTTTAAAAACTATATATTATATATATTTTCA-AAAATG
*
1592744 TTTTAAAAA-TATATATTATATA-GTTTTCAAAAATG
1 TTTTAAAAACTATATATTATATATATTTTCAAAAATG
1592779 TTTTTAAAAACTATATATTATATACATATTTTC-AAAATCG
1 -TTTTAAAAACTATATATTATAT--ATATTTTCAAAAAT-G
** *
1592819 -TTTGCAAACTATATAATATATATAT
1 TTTTAAAAACTATATATTATATATAT
1592844 AGATATATAT
Statistics
Matches: 279, Mismatches: 27, Indels: 68
0.75 0.07 0.18
Matches are distributed among these distances:
35 10 0.04
36 33 0.12
37 63 0.23
38 51 0.18
39 40 0.14
40 34 0.12
41 21 0.08
43 3 0.01
44 4 0.01
45 4 0.01
46 3 0.01
48 4 0.01
49 4 0.01
50 5 0.02
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (37 bp):
TTTTAAAAACTATATATTATATATATTTTCAAAAATG
Found at i:1592622 original size:10 final size:10
Alignment explanation
Indices: 1592607--1592640 Score: 59
Period size: 10 Copynumber: 3.3 Consensus size: 10
1592597 TATAATATAT
1592607 AAATGTTTTC
1 AAATGTTTTC
1592617 AAATGTTTTC
1 AAATGTTTTC
1592627 AAAATGTTTTC
1 -AAATGTTTTC
1592638 AAA
1 AAA
1592641 AATATATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 13 0.57
11 10 0.43
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.44
Consensus pattern (10 bp):
AAATGTTTTC
Found at i:1592633 original size:11 final size:11
Alignment explanation
Indices: 1592607--1592641 Score: 63
Period size: 11 Copynumber: 3.3 Consensus size: 11
1592597 TATAATATAT
1592607 AAATGTTTTC-
1 AAATGTTTTCA
1592617 AAATGTTTTCA
1 AAATGTTTTCA
1592628 AAATGTTTTCA
1 AAATGTTTTCA
1592639 AAA
1 AAA
1592642 ATATATATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 10 0.42
11 14 0.58
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.43
Consensus pattern (11 bp):
AAATGTTTTCA
Found at i:1592669 original size:48 final size:48
Alignment explanation
Indices: 1592584--1592678 Score: 131
Period size: 48 Copynumber: 2.0 Consensus size: 48
1592574 TCAAAAATAT
*
1592584 TTTTCAAAAACTGTATAATATATAAATGTTTTCAAATGTTTTCAAAATG
1 TTTTCAAAAACTATATAATATATAAA-GTTTTCAAATGTTTTCAAAATG
*
1592633 TTTTCAAAAA-TATATATTATATAAA-TTTTCAAAAATGTTTTCAAAA
1 TTTTCAAAAACTATATAATATATAAAGTTTTC--AAATGTTTTCAAAA
1592679 CTATATATTA
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
46 5 0.12
48 27 0.64
49 10 0.24
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.43
Consensus pattern (48 bp):
TTTTCAAAAACTATATAATATATAAAGTTTTCAAATGTTTTCAAAATG
Found at i:1592715 original size:73 final size:73
Alignment explanation
Indices: 1592621--1592840 Score: 290
Period size: 73 Copynumber: 3.0 Consensus size: 73
1592611 GTTTTCAAAT
1592621 GTTTTCAAAATGTTTTCAAAAA-TATATATTATATAAATTTTCAAAAATGTTTTCAAAACTATAT
1 GTTTTCAAAATGTTTT-AAAAACTATATATTATATAAATTTTCAAAAATGTTTTCAAAACTATAT
1592685 ATTATATAA
65 ATTATATAA
* *
1592694 GTTTTCAAAATGATTTTAAAAACTATATATTATATATATTTT-ATAAAATGTTTT-AAAAATATA
1 GTTTTCAAAATG-TTTTAAAAACTATATATTATATAAATTTTCA-AAAATGTTTTCAAAACTATA
1592757 TATTATAT-A
64 TATTATATAA
*
1592766 GTTTTCAAAAATGTTTTTAAAAACTATATATTATATACATATTTTC-AAAATCGTTTGC-AAACT
1 GTTTTC-AAAATG-TTTTAAAAACTATATATTATATA-A-ATTTTCAAAAAT-GTTTTCAAAACT
*
1592829 ATATAATATATA
61 ATATATTATATA
1592841 TATAGATATA
Statistics
Matches: 130, Mismatches: 7, Indels: 17
0.84 0.05 0.11
Matches are distributed among these distances:
72 7 0.05
73 63 0.48
74 37 0.28
75 23 0.18
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.45
Consensus pattern (73 bp):
GTTTTCAAAATGTTTTAAAAACTATATATTATATAAATTTTCAAAAATGTTTTCAAAACTATATA
TTATATAA
Found at i:1601145 original size:17 final size:17
Alignment explanation
Indices: 1601125--1601163 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
1601115 TTATTAATAA
1601125 AAAATATA-AAAATACTT
1 AAAATATATAAAA-ACTT
*
1601142 AAAATATATAAAAATTT
1 AAAATATATAAAAACTT
1601159 AAAAT
1 AAAAT
1601164 TTTCAAGGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAATATATAAAAACTT
Found at i:1610422 original size:64 final size:64
Alignment explanation
Indices: 1610334--1610556 Score: 232
Period size: 64 Copynumber: 3.5 Consensus size: 64
1610324 TGTTTGAATG
* ** * **
1610334 TGCACCGATGCATTGGTAGTGCATCGATGCACTCTTTTAA-AATAAAGACATCGAATGCAATTCA
1 TGCATCGATGCATAAGTAGTGCATCGATGCACCCCATTAATAATAAA-ACATCGAATGCAATTCA
* * **
1610398 TGCATCGATGCATAAGTAGTGCATCGATGCACCCCATTAATAATGAAACTTCGAATGCAATTGG
1 TGCATCGATGCATAAGTAGTGCATCGATGCACCCCATTAATAATAAAACATCGAATGCAATTCA
* * ** ** * ** *
1610462 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCAGCAATAATACTACATCGAATACCTTTTA
1 TGCATCGATGCATAAGTAGTGCATCGATGCACCCCATTAATAATAAAACATCGAATGCAATTCA
* *
1610526 TGCACCGATGCATCAGTAGTGCATCGATGCA
1 TGCATCGATGCATAAGTAGTGCATCGATGCA
1610557 TACCTTCATT
Statistics
Matches: 132, Mismatches: 26, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
64 127 0.96
65 5 0.04
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (64 bp):
TGCATCGATGCATAAGTAGTGCATCGATGCACCCCATTAATAATAAAACATCGAATGCAATTCA
Found at i:1610883 original size:12 final size:12
Alignment explanation
Indices: 1610866--1610900 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
1610856 ATATATGTTC
1610866 ATGTGATATGAT
1 ATGTGATATGAT
1610878 ATGTGATATGAT
1 ATGTGATATGAT
1610890 ATGTGATATGA
1 ATGTGATATGA
1610901 GAACATGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.26, T:0.40
Consensus pattern (12 bp):
ATGTGATATGAT
Found at i:1610958 original size:29 final size:29
Alignment explanation
Indices: 1610916--1610989 Score: 141
Period size: 29 Copynumber: 2.6 Consensus size: 29
1610906 TGATATAAAG
1610916 TGACATGAGCTACATGATCACAAGAGAAA
1 TGACATGAGCTACATGATCACAAGAGAAA
1610945 TGACATGAGCTACATGATCACAAGAGAAA
1 TGACATGAGCTACATGATCACAAGAGAAA
1610974 TGACATGAG-TACATGA
1 TGACATGAGCTACATGA
1610990 ACATATGAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
28 7 0.16
29 38 0.84
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.19
Consensus pattern (29 bp):
TGACATGAGCTACATGATCACAAGAGAAA
Found at i:1615093 original size:19 final size:20
Alignment explanation
Indices: 1615056--1615093 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1615046 TTTTTTTATA
*
1615056 TGGGGGAATCGGTTCCCCCC
1 TGGGGGAATCGATTCCCCCC
*
1615076 TGGGGGTATCGATTCCCC
1 TGGGGGAATCGATTCCCC
1615094 TCTAGCATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.32, G:0.34, T:0.24
Consensus pattern (20 bp):
TGGGGGAATCGATTCCCCCC
Found at i:1615144 original size:21 final size:21
Alignment explanation
Indices: 1615120--1615161 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1615110 TTCATATTCG
* *
1615120 TTGAGGGGGTATCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
1615141 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
1615162 CAGCCCAGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.26, G:0.29, T:0.29
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:1620755 original size:23 final size:23
Alignment explanation
Indices: 1620729--1620773 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1620719 CACCACAGCT
*
1620729 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
* *
1620752 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
1620774 ATATAATAAT
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:0.27, G:0.27, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:1621455 original size:19 final size:20
Alignment explanation
Indices: 1621418--1621455 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1621408 TTTTTTTATA
*
1621418 TGGGGGAATCGGTTCCCCCC
1 TGGGGGAATCGATTCCCCCC
*
1621438 TGGGGGTATCGATTCCCC
1 TGGGGGAATCGATTCCCC
1621456 TCTAGCATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.32, G:0.34, T:0.24
Consensus pattern (20 bp):
TGGGGGAATCGATTCCCCCC
Found at i:1621506 original size:21 final size:21
Alignment explanation
Indices: 1621482--1621523 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1621472 TTCATATTCG
* *
1621482 TTGAGGGGGTATCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
1621503 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
1621524 CAGCCCAGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.26, G:0.29, T:0.29
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:1625802 original size:64 final size:64
Alignment explanation
Indices: 1625713--1625853 Score: 187
Period size: 64 Copynumber: 2.2 Consensus size: 64
1625703 TGTTTGAATG
* ** *
1625713 TGCACCGATGCATTGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAAGACATCGAATGCAATTC
1 TGCATCGATGCATAAGTAGTGCATCGATGCATC-CTATTAATAATAAA-ACATCGAATGCAATTC
1625776 A
64 A
* **
1625777 TGCATCGATGCATAAGTAGTGCATCGATGCATCCTATTAATAATGAAACATCGAATGCAATTGG
1 TGCATCGATGCATAAGTAGTGCATCGATGCATCCTATTAATAATAAAACATCGAATGCAATTCA
1625841 TGCATCGATGCAT
1 TGCATCGATGCAT
1625854 CCCAACAATA
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
64 62 0.91
65 6 0.09
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (64 bp):
TGCATCGATGCATAAGTAGTGCATCGATGCATCCTATTAATAATAAAACATCGAATGCAATTCA
Found at i:1626243 original size:12 final size:12
Alignment explanation
Indices: 1626226--1626260 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
1626216 ATATATGTTC
1626226 ATGTGATATGAT
1 ATGTGATATGAT
1626238 ATGTGATATGAT
1 ATGTGATATGAT
1626250 ATGTGATATGA
1 ATGTGATATGA
1626261 GAACATGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.26, T:0.40
Consensus pattern (12 bp):
ATGTGATATGAT
Found at i:1626318 original size:29 final size:29
Alignment explanation
Indices: 1626276--1626347 Score: 128
Period size: 29 Copynumber: 2.5 Consensus size: 29
1626266 TGATATGAAG
1626276 TGACATGAGCTACATAATCACAAGAGAAA
1 TGACATGAGCTACATAATCACAAGAGAAA
*
1626305 TGACATGAGCTACATGATCACAAGAGAAA
1 TGACATGAGCTACATAATCACAAGAGAAA
1626334 TGACATGAG-TACAT
1 TGACATGAGCTACAT
1626348 GAACATATGA
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
28 5 0.12
29 37 0.88
ACGTcount: A:0.44, C:0.17, G:0.19, T:0.19
Consensus pattern (29 bp):
TGACATGAGCTACATAATCACAAGAGAAA
Found at i:1626452 original size:15 final size:15
Alignment explanation
Indices: 1626434--1626466 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
1626424 GAGGGTATAA
1626434 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGACG
*
1626449 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGACG
1626464 TAG
1 TAG
1626467 GAGTTCTACG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.21, G:0.33, T:0.30
Consensus pattern (15 bp):
TAGTCCTTCGGGACG
Found at i:1634262 original size:26 final size:26
Alignment explanation
Indices: 1634218--1634277 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
1634208 CATTCAAATT
* *
1634218 TATGATTATCATTGTTTGATTCAGAC
1 TATGATTATCATTGATTGATTAAGAC
** *
1634244 TATGATTATTGTTGATTGATTAAGAT
1 TATGATTATCATTGATTGATTAAGAC
1634270 TATG-TTAT
1 TATGATTAT
1634278 GACTTTTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 4 0.14
26 25 0.86
ACGTcount: A:0.28, C:0.05, G:0.17, T:0.50
Consensus pattern (26 bp):
TATGATTATCATTGATTGATTAAGAC
Found at i:1634444 original size:3 final size:3
Alignment explanation
Indices: 1634436--1634463 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
1634426 TTTATAGAAC
1634436 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1634464 TGTAATTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:1643469 original size:22 final size:22
Alignment explanation
Indices: 1643443--1643498 Score: 112
Period size: 22 Copynumber: 2.5 Consensus size: 22
1643433 TTCAGTATTT
1643443 GTCCCGAAGGACCACTGGATAC
1 GTCCCGAAGGACCACTGGATAC
1643465 GTCCCGAAGGACCACTGGATAC
1 GTCCCGAAGGACCACTGGATAC
1643487 GTCCCGAAGGAC
1 GTCCCGAAGGAC
1643499 TAATATACCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.27, C:0.32, G:0.29, T:0.12
Consensus pattern (22 bp):
GTCCCGAAGGACCACTGGATAC
Found at i:1645732 original size:31 final size:32
Alignment explanation
Indices: 1645683--1645778 Score: 149
Period size: 32 Copynumber: 3.0 Consensus size: 32
1645673 CCCACCTAAA
*
1645683 GGAGTACCTTGGGGCCTTAGCGCCTACCCAAG
1 GGAGTACCTTGGGGCCTTAGAGCCTACCCAAG
* *
1645715 GGAGAACCTT-GGGCCTTAGAGCCTACCCAAT
1 GGAGTACCTTGGGGCCTTAGAGCCTACCCAAG
*
1645746 GGAGTACCTTGGGGCCTAAGAGCCTACCCAAG
1 GGAGTACCTTGGGGCCTTAGAGCCTACCCAAG
1645778 G
1 G
1645779 ATCACTTAGG
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
31 28 0.49
32 29 0.51
ACGTcount: A:0.23, C:0.29, G:0.30, T:0.18
Consensus pattern (32 bp):
GGAGTACCTTGGGGCCTTAGAGCCTACCCAAG
Found at i:1647452 original size:18 final size:20
Alignment explanation
Indices: 1647415--1647452 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
1647405 ATTATGTTAG
*
1647415 AAACAAAATTTAATCAGGAA
1 AAACAAAATTGAATCAGGAA
1647435 AAAC-AAATTGAATC-GGAA
1 AAACAAAATTGAATCAGGAA
1647453 CATAAAATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 9 0.53
20 4 0.24
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (20 bp):
AAACAAAATTGAATCAGGAA
Found at i:1649879 original size:32 final size:31
Alignment explanation
Indices: 1649831--1649922 Score: 82
Period size: 32 Copynumber: 2.9 Consensus size: 31
1649821 CCAATGGATA
*
1649831 ACCTT-GGGACT-TAAGCCTACGCAAGGGAT-T
1 ACCTTGGGGACTAAAAGCCTAC-CAAGGG-TGT
* *
1649861 ACTTTGGGGCCTAAAAGCCTACCTAAGGGTGT
1 ACCTTGGGGACTAAAAGCCTACC-AAGGGTGT
* *
1649893 GCCTTGGGGACTAAGAGCCTACCCAAGGGT
1 ACCTTGGGGACTAAAAGCCTA-CCAAGGGT
1649923 CACTTTAGGT
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
30 4 0.08
31 7 0.14
32 37 0.74
33 2 0.04
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (31 bp):
ACCTTGGGGACTAAAAGCCTACCAAGGGTGT
Found at i:1651833 original size:17 final size:17
Alignment explanation
Indices: 1651808--1651841 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1651798 TTATTTAATC
*
1651808 TAGGTCATTTGAGTATT
1 TAGGCCATTTGAGTATT
*
1651825 TAGGCCATTTTAGTATT
1 TAGGCCATTTGAGTATT
1651842 AGAGGTTATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.09, G:0.21, T:0.47
Consensus pattern (17 bp):
TAGGCCATTTGAGTATT
Found at i:1651861 original size:27 final size:27
Alignment explanation
Indices: 1651831--1651891 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
1651821 TATTTAGGCC
* *
1651831 ATTTTAGTATTAGAGGTTATTTTGGTT
1 ATTTCAGTATTAGAGATTATTTTGGTT
*
1651858 ATTTCATTATTAGAGATTATTTTGGTT
1 ATTTCAGTATTAGAGATTATTTTGGTT
1651885 ATTTCAG
1 ATTTCAG
1651892 AGCTAATGGG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.25, C:0.03, G:0.18, T:0.54
Consensus pattern (27 bp):
ATTTCAGTATTAGAGATTATTTTGGTT
Found at i:1655534 original size:3 final size:3
Alignment explanation
Indices: 1655526--1655560 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
1655516 CTTTATTTAT
*
1655526 TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1655561 TGTAATTTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:1657314 original size:135 final size:134
Alignment explanation
Indices: 1657063--1657352 Score: 310
Period size: 135 Copynumber: 2.1 Consensus size: 134
1657053 TATATATTTT
* * * **
1657063 ATTTATAAATAAGATATTTATTTACTTTGAAATATTAGAAAAGAACTTCTAGGTGCTTTAAGAGT
1 ATTTATAAATAGGATATTTATTTA-TTTAAAATATCAGAAAAGAACTTCTAGGTGCTTTAAGAAA
*
1657128 CCATTTCTTAATATTAAACATAAATACATATTAATAAAACATTTCTATAAAAATAA-TTACAATT
65 CCATTTCTTAATATTAAACATAAATACATATTAATAAAACATTTCTATAAAAATAATTTA-AATA
1657192 AA-TATA
129 AATTA-A
1657198 ATTTATAAATAGGATATTTATTT-TTTAAGAATATCAGAAAATG-ACTTCTAGGTGCTTTAAGAC
1 ATTTATAAATAGGATATTTATTTATTTAA-AATATCAGAAAA-GAACTTCTAGGTGCTTTAAGA-
** * *
1657261 AACTCATTTCTTAATATT-AA-A-AAATA-ATTATTAA-AATGATTATTTTCTCTAAAAGTAATT
63 AAC-CATTTCTTAATATTAAACATAAATACA-TATTAATAA--AACA-TTTCTATAAAAATAATT
*
1657321 TATATAAATTAA
123 TAAATAAATTAA
*
1657333 ATTTATAAATAGGATTTTTA
1 ATTTATAAATAGGATATTTA
1657353 ATGTATAAAA
Statistics
Matches: 133, Mismatches: 12, Indels: 20
0.81 0.07 0.12
Matches are distributed among these distances:
132 3 0.02
133 15 0.11
134 33 0.25
135 63 0.47
136 19 0.14
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.41
Consensus pattern (134 bp):
ATTTATAAATAGGATATTTATTTATTTAAAATATCAGAAAAGAACTTCTAGGTGCTTTAAGAAAC
CATTTCTTAATATTAAACATAAATACATATTAATAAAACATTTCTATAAAAATAATTTAAATAAA
TTAA
Found at i:1658889 original size:3 final size:3
Alignment explanation
Indices: 1658881--1658960 Score: 70
Period size: 3 Copynumber: 26.3 Consensus size: 3
1658871 TTATTTTATT
* * * * *
1658881 TAA TAA TAA TAA CAA TAA TAA TAA TTA TAA TAA TAC TAC TAA TATT
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
* ** *
1658927 TAA TAT TAA TAA TAA TAA TCT TAA AAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1658961 TTAAGTAAAA
Statistics
Matches: 60, Mismatches: 16, Indels: 2
0.77 0.21 0.03
Matches are distributed among these distances:
3 58 0.97
4 2 0.03
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:1659269 original size:45 final size:45
Alignment explanation
Indices: 1659196--1659443 Score: 433
Period size: 45 Copynumber: 5.5 Consensus size: 45
1659186 TCAAAAAGCT
* *
1659196 CCCGAATGCTTTTGAAAATATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAA-GGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
* * *
1659242 CTCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTATAAATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1659287 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1659332 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1659377 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
*
1659422 CCCGAAGGTTTTGAAAATATCA
1 CCCGAAGGTTTTGAAAACATCA
1659444 AAAAAACTCC
Statistics
Matches: 193, Mismatches: 9, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
45 188 0.97
46 5 0.03
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (45 bp):
CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
Found at i:1659506 original size:166 final size:162
Alignment explanation
Indices: 1659287--1659701 Score: 598
Period size: 166 Copynumber: 2.5 Consensus size: 162
1659277 TTATAAATGA
* *
1659287 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
1 CCCGAAGCTTTTGAAAACATCATGCACTCAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
1659352 CATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACA
66 CATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACA
* * * *
1659417 GATGACCCGAAGGTTTTGAAAATATCAAAAAAACT
131 GATGAACCAAAGGCTTTG-AAACATC--AAAAACT
* *
1659452 CCCGAAGTCTTTTGAAAACATCATGCACTCAAGGGCTTACAGATGACTCGAAGGTTTTAAAAACA
1 CCCGAAG-CTTTTGAAAACATCATGCACTCAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACA
* * *
1659517 TCCTGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGTACTGAAGGTCTTAC
65 TCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTAC
*
1659582 AGATGAACCAAAGGCTTTGAAACATCAAAAGCT
130 AGATGAACCAAAGGCTTTGAAACATCAAAAACT
* * * **
1659615 CCCGAAGGCTTCTTAAAAACATCCTGCACTGC-AGGTCTTATGGATGACCCGAAGGTTTTGAAAA
1 CCCGAA-GCTT-TTGAAAACATCATGCACT-CAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
*
1659679 CATCATGCACTGAAGGTCTTACA
63 CATCATGCACTGAAGGGCTTACA
1659702 AATATGGGAA
Statistics
Matches: 225, Mismatches: 21, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
163 15 0.07
164 65 0.29
165 14 0.06
166 131 0.58
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (162 bp):
CCCGAAGCTTTTGAAAACATCATGCACTCAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
CATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACA
GATGAACCAAAGGCTTTGAAACATCAAAAACT
Found at i:1659524 original size:45 final size:45
Alignment explanation
Indices: 1659452--1659608 Score: 208
Period size: 45 Copynumber: 3.5 Consensus size: 45
1659442 CAAAAAAACT
* *
1659452 CCCGAAGTCTTTTGAAAACATCATGCACTCAAGGGCTTACAGATGA
1 CCCGAAG-GTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
* * *
1659498 CTCGAAGGTTTTAAAAACATCCTGCACTGAAGGGCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
* *
1659543 CCCGAAGGTTTTGAAAACATCATGTACTGAAGGTCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
* * *
1659588 ACCAAAGGCTTTG-AAACATCA
1 CCCGAAGGTTTTGAAAACATCA
1659609 AAAGCTCCCG
Statistics
Matches: 98, Mismatches: 13, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
44 8 0.08
45 84 0.86
46 6 0.06
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.24
Consensus pattern (45 bp):
CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
Found at i:1659554 original size:121 final size:120
Alignment explanation
Indices: 1659332--1659564 Score: 403
Period size: 121 Copynumber: 1.9 Consensus size: 120
1659322 TTACAGATGA
* * *
1659332 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
1 CCCGAAGCTTTTGAAAACATCATGCACTCAAGGGCTTACAGATGACCCGAAGGTTTTAAAAACAT
*
1659397 CATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAATATCAAAAAAACT
66 CATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAAACT
*
1659452 CCCGAAGTCTTTTGAAAACATCATGCACTCAAGGGCTTACAGATGACTCGAAGGTTTTAAAAACA
1 CCCGAAG-CTTTTGAAAACATCATGCACTCAAGGGCTTACAGATGACCCGAAGGTTTTAAAAACA
*
1659517 TCCTGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCA
65 TCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCA
1659565 TGTACTGAAG
Statistics
Matches: 106, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
120 7 0.07
121 99 0.93
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (120 bp):
CCCGAAGCTTTTGAAAACATCATGCACTCAAGGGCTTACAGATGACCCGAAGGTTTTAAAAACAT
CATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAAACT
Found at i:1659583 original size:256 final size:254
Alignment explanation
Indices: 1659118--1659608 Score: 822
Period size: 256 Copynumber: 1.9 Consensus size: 254
1659108 GGTCTTATGA
*
1659118 ATGACCTGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAA
1 ATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAA
* * *
1659183 ATATCAAAAAGCTCCCGAATGCTTTTGAAAATATCATGCACTGAAGGGCTTACAGATGACTCGAA
66 ATATCAAAAAACTCCCGAATGCTTTTGAAAACATCATGCACTCAAGGGCTTACAGATGACTCGAA
* *
1659248 GGTTTTGAAAACATCATGCACTGAAGGGCTTATAAATGACCCGAAGGTTTTGAAAACATCATGCA
131 GGTTTTAAAAACATCATGCACTGAAGGGCTTACAAATGACCCGAAGGTTTTGAAAACATCATGCA
* * *
1659313 CTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAG
196 CTGAAGGGCTTACAGATGAACCAAAGGCTTTG-AAACATCATGCACTGAAGGGCTTACAG
*
1659373 ATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAA
1 ATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAA
1659438 ATATCAAAAAAACTCCCGAA-GTCTTTTGAAAACATCATGCACTCAAGGGCTTACAGATGACTCG
66 ATATC-AAAAAACTCCCGAATG-CTTTTGAAAACATCATGCACTCAAGGGCTTACAGATGACTCG
* *
1659502 AAGGTTTTAAAAACATCCTGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATG
129 AAGGTTTTAAAAACATCATGCACTGAAGGGCTTACAAATGACCCGAAGGTTTTGAAAACATCATG
* *
1659567 TACTGAAGGTCTTACAGATGAACCAAAGGCTTTGAAACATCA
194 CACTGAAGGGCTTACAGATGAACCAAAGGCTTTGAAACATCA
1659609 AAAGCTCCCG
Statistics
Matches: 220, Mismatches: 14, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
255 77 0.35
256 143 0.65
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (254 bp):
ATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAA
ATATCAAAAAACTCCCGAATGCTTTTGAAAACATCATGCACTCAAGGGCTTACAGATGACTCGAA
GGTTTTAAAAACATCATGCACTGAAGGGCTTACAAATGACCCGAAGGTTTTGAAAACATCATGCA
CTGAAGGGCTTACAGATGAACCAAAGGCTTTGAAACATCATGCACTGAAGGGCTTACAG
Found at i:1659677 original size:74 final size:73
Alignment explanation
Indices: 1659543--1659683 Score: 176
Period size: 74 Copynumber: 1.9 Consensus size: 73
1659533 TTACAGATGA
* *
1659543 CCCGAAGGTTTTGAAAACATCATGTACTGAAGGTCTTACAGATGAACCAAAGGCTTTG-AAACAT
1 CCCGAAGGTTTTAAAAACATCATGCACTGAAGGTCTTACAGATGAACCAAAGGCTTTGAAAACAT
1659607 CAAAAGCT
66 CAAAAGCT
* * ** * * *
1659615 CCCGAAGGCTTCTTAAAAACATCCTGCACTGCAGGTCTTATGGATGACCCGAAGGTTTTGAAAAC
1 CCCGAAGG-TT-TTAAAAACATCATGCACTGAAGGTCTTACAGATGAACCAAAGGCTTTGAAAAC
1659680 ATCA
64 ATCA
1659684 TGCACTGAAG
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
72 8 0.14
73 2 0.04
74 39 0.68
75 8 0.14
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (73 bp):
CCCGAAGGTTTTAAAAACATCATGCACTGAAGGTCTTACAGATGAACCAAAGGCTTTGAAAACAT
CAAAAGCT
Found at i:1660861 original size:54 final size:54
Alignment explanation
Indices: 1660779--1660976 Score: 272
Period size: 54 Copynumber: 3.7 Consensus size: 54
1660769 CGTAAAACAT
* * * *
1660779 TTTGACAACACATTCATCCTTTTATGTGGTTTCTGCTCAGATGTTCACAAAGTA
1 TTTGACAACACATTCATCCTTTCATGTGGTTTCTGCTCAAATGTTCATAAAGCA
* * * *
1660833 TTTGACAACATATTCATCCTTTCATGTGGTTTCTGCCCATATGTTCGTAAAGCA
1 TTTGACAACACATTCATCCTTTCATGTGGTTTCTGCTCAAATGTTCATAAAGCA
* * *
1660887 TTTGACAACACATTCATCATTTCCTGTGGTTTCTGCTCAAATGTT-AGTAAAACA
1 TTTGACAACACATTCATCCTTTCATGTGGTTTCTGCTCAAATGTTCA-TAAAGCA
*
1660941 TTTGACAACACATTCATCCTTTCATGTGGCTTCTGC
1 TTTGACAACACATTCATCCTTTCATGTGGTTTCTGC
1660977 CCATATTTCT
Statistics
Matches: 126, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
54 126 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.38
Consensus pattern (54 bp):
TTTGACAACACATTCATCCTTTCATGTGGTTTCTGCTCAAATGTTCATAAAGCA
Found at i:1660915 original size:108 final size:109
Alignment explanation
Indices: 1660766--1660982 Score: 321
Period size: 108 Copynumber: 2.0 Consensus size: 109
1660756 AAAATAACTG
* * *
1660766 GTTCGTAAAACATTTTGACAACACATTCATCCTTTTATGTGGTTTCTGCTCAGATGTTCA-CAAA
1 GTTCGTAAAACATTTTGACAACACATTCATCATTTCATGTGGTTTCTGCTCAAATGTT-AGCAAA
** * *
1660830 GTATTTGACAACATATTCATCCTTTCATGTGGTTTCTGCCCATAT
65 ACATTTGACAACACATTCATCCTTTCATGTGGCTTCTGCCCATAT
* * *
1660875 GTTCGTAAAGCA-TTTGACAACACATTCATCATTTCCTGTGGTTTCTGCTCAAATGTTAGTAAAA
1 GTTCGTAAAACATTTTGACAACACATTCATCATTTCATGTGGTTTCTGCTCAAATGTTAGCAAAA
1660939 CATTTGACAACACATTCATCCTTTCATGTGGCTTCTGCCCATAT
66 CATTTGACAACACATTCATCCTTTCATGTGGCTTCTGCCCATAT
1660983 TTCTCATCAG
Statistics
Matches: 97, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
107 1 0.01
108 85 0.88
109 11 0.11
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.38
Consensus pattern (109 bp):
GTTCGTAAAACATTTTGACAACACATTCATCATTTCATGTGGTTTCTGCTCAAATGTTAGCAAAA
CATTTGACAACACATTCATCCTTTCATGTGGCTTCTGCCCATAT
Found at i:1662067 original size:36 final size:35
Alignment explanation
Indices: 1661957--1662086 Score: 109
Period size: 36 Copynumber: 3.5 Consensus size: 35
1661947 CTTATTGTTG
* * *
1661957 ATGAGCCTCCAAAAATGCTAAAATATTCATA-TTACT
1 ATGAGCCTTC-AAAATGCTCAAATATTCATACTGA-T
* *
1661993 ATGAGCCTTCAAAATGCATTCAAAGTTGTTTTCTTACTGAT
1 ATGAGCCTTCAAAATGC--TCAAA----TATTCATACTGAT
*
1662034 ATGAGCCTTCAAGAATGCTCAAATATTCATACTGTT
1 ATGAGCCTTCAA-AATGCTCAAATATTCATACTGAT
*
1662070 TTGAGCCTTCAAAATGC
1 ATGAGCCTTCAAAATGC
1662087 CCTACATGGA
Statistics
Matches: 77, Mismatches: 9, Indels: 17
0.75 0.09 0.17
Matches are distributed among these distances:
35 12 0.16
36 30 0.39
37 4 0.05
40 5 0.06
41 19 0.25
42 7 0.09
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (35 bp):
ATGAGCCTTCAAAATGCTCAAATATTCATACTGAT
Found at i:1669265 original size:43 final size:44
Alignment explanation
Indices: 1669201--1669286 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 44
1669191 TCGTGCATCA
* * *
1669201 AACAAAACTTTTACATGTAGGGGATAGCTTTCAGTCCTAACTTT
1 AACAAAACTTTTACATATAGGGGATAACTTTCACTCCTAACTTT
*
1669245 AACAAAAC-TTTACATATAGGGGATAACTTTCTCTCCTAACTT
1 AACAAAACTTTTACATATAGGGGATAACTTTCACTCCTAACTT
1669287 CTATAAAGCC
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
43 30 0.79
44 8 0.21
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.34
Consensus pattern (44 bp):
AACAAAACTTTTACATATAGGGGATAACTTTCACTCCTAACTTT
Found at i:1673840 original size:3 final size:3
Alignment explanation
Indices: 1673834--1673913 Score: 70
Period size: 3 Copynumber: 26.3 Consensus size: 3
1673824 TTTTTTTATT
* * * *
1673834 TAA TAA TAA TAA TAA TTA TAA TAA TTA TAA TAA TAA TAC TAA TATT
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
* * ** *
1673880 TAA TAT TAA TAA TAG TAA TCT TAA AAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1673914 TTAAGTAAAA
Statistics
Matches: 58, Mismatches: 18, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
3 56 0.97
4 2 0.03
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:1676658 original size:41 final size:39
Alignment explanation
Indices: 1676613--1676715 Score: 124
Period size: 36 Copynumber: 2.7 Consensus size: 39
1676603 AAAGTTGAAC
* *
1676613 ATTTTTATTAATAATTATATATATATATA-TTAACTCAATTT
1 ATTTTTATT-A-AA-TATATATATATATACTTAAATCAAATT
1676654 ATTTTTATTAAATAT-TA-A-ATATACTTAAATCAAATT
1 ATTTTTATTAAATATATATATATATACTTAAATCAAATT
*
1676690 ACTTTTATTAAATATATATATATATA
1 ATTTTTATTAAATATATATATATATA
1676716 ATTATTTATA
Statistics
Matches: 55, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
35 5 0.09
36 25 0.45
37 4 0.07
38 4 0.07
39 7 0.13
40 1 0.02
41 9 0.16
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (39 bp):
ATTTTTATTAAATATATATATATATACTTAAATCAAATT
Found at i:1689786 original size:76 final size:75
Alignment explanation
Indices: 1689689--1689839 Score: 284
Period size: 76 Copynumber: 2.0 Consensus size: 75
1689679 TTTTAGAAAC
1689689 TTTACCGATCTAGCACCCTTTACAGAAAGGCTCGGATCATCATTTGCGCCTTACACTAATGTGTG
1 TTTACCGATCTAGCACCCTTTACAGAAAGGCTCGGATCATCATTTGCGCCTTACACTAATGTG-G
1689754 GGCCAACTCGA
65 GGCCAACTCGA
*
1689765 TTTACCGATCTAGCACCCTTTACAGAAAGGCTCGGATCATCATTTGCGCCTTACACTAATGTGGT
1 TTTACCGATCTAGCACCCTTTACAGAAAGGCTCGGATCATCATTTGCGCCTTACACTAATGTGGG
1689830 GCCAACTCGA
66 GCCAACTCGA
1689840 ATAAATTACA
Statistics
Matches: 74, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
75 11 0.15
76 63 0.85
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (75 bp):
TTTACCGATCTAGCACCCTTTACAGAAAGGCTCGGATCATCATTTGCGCCTTACACTAATGTGGG
GCCAACTCGA
Found at i:1691158 original size:54 final size:54
Alignment explanation
Indices: 1691095--1691202 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
1691085 GATAAAATCT
1691095 CACTATACGGAGGTGGTACTTGGTCTTCTGTTGTGTGAAGTAGAAGATGTCACA
1 CACTATACGGAGGTGGTACTTGGTCTTCTGTTGTGTGAAGTAGAAGATGTCACA
1691149 CACTATACGGAGGTGGTACTTGGTCTTCTGTTGTGTGAAGTAGAAGATGTCACA
1 CACTATACGGAGGTGGTACTTGGTCTTCTGTTGTGTGAAGTAGAAGATGTCACA
1691203 GTAATGGGTC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.31
Consensus pattern (54 bp):
CACTATACGGAGGTGGTACTTGGTCTTCTGTTGTGTGAAGTAGAAGATGTCACA
Found at i:1692963 original size:2 final size:2
Alignment explanation
Indices: 1692956--1692985 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1692946 CCATAAAATG
1692956 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
1692986 TGCTTTCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1695289 original size:112 final size:114
Alignment explanation
Indices: 1695129--1695345 Score: 341
Period size: 112 Copynumber: 1.9 Consensus size: 114
1695119 TTCGTATACC
* * *
1695129 GGAACTGGTGGAGGCAATGGTTTTATATATACGGGAACTGGCGGAGGCTTGTAGATTGGAACTGG
1 GGAACTGGAGGAGGCAATGGTTTTATATACACCGGAACTGGCGGAGGCTTGTAGATTGGAACTGG
*
1695194 AGGGGGAAGTGGCTTCTTATACACCGGAACTGGCGGAGGCTTGTAGATT
66 AGGAGGAAGTGGCTTCTTATACACCGGAACTGGCGGAGGCTTGTAGATT
*
1695243 GGAAC-GGAGGAGG-AATGGTTTCT-TATACACCGGAACTGGTGGAGGCTTGTAGATTGGAACTG
1 GGAACTGGAGGAGGCAATGGTTT-TATATACACCGGAACTGGCGGAGGCTTGTAGATTGGAACTG
* *
1695305 GAGGAGGAAGTGGCTTCTTATACACTGGAACTGGTGGAGGC
65 GAGGAGGAAGTGGCTTCTTATACACCGGAACTGGCGGAGGC
1695346 AATGGCTTCT
Statistics
Matches: 95, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
112 82 0.86
113 8 0.08
114 5 0.05
ACGTcount: A:0.24, C:0.13, G:0.38, T:0.24
Consensus pattern (114 bp):
GGAACTGGAGGAGGCAATGGTTTTATATACACCGGAACTGGCGGAGGCTTGTAGATTGGAACTGG
AGGAGGAAGTGGCTTCTTATACACCGGAACTGGCGGAGGCTTGTAGATT
Found at i:1695291 original size:55 final size:57
Alignment explanation
Indices: 1695162--1695345 Score: 309
Period size: 57 Copynumber: 3.3 Consensus size: 57
1695152 TATATATACG
*
1695162 GGAACTGGCGGAGGCTTGTAGATTGGAACTGGAGGGGGAAGTGGCTTCTTATACACC
1 GGAACTGGCGGAGGCTTGTAGATTGGAACTGGAGGAGGAAGTGGCTTCTTATACACC
*
1695219 GGAACTGGCGGAGGCTTGTAGATTGGAAC-GGAGGAGGAA-TGGTTTCTTATACACC
1 GGAACTGGCGGAGGCTTGTAGATTGGAACTGGAGGAGGAAGTGGCTTCTTATACACC
* *
1695274 GGAACTGGTGGAGGCTTGTAGATTGGAACTGGAGGAGGAAGTGGCTTCTTATACACT
1 GGAACTGGCGGAGGCTTGTAGATTGGAACTGGAGGAGGAAGTGGCTTCTTATACACC
*
1695331 GGAACTGGTGGAGGC
1 GGAACTGGCGGAGGC
1695346 AATGGCTTCT
Statistics
Matches: 120, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
55 43 0.36
56 19 0.16
57 58 0.48
ACGTcount: A:0.24, C:0.14, G:0.39, T:0.23
Consensus pattern (57 bp):
GGAACTGGCGGAGGCTTGTAGATTGGAACTGGAGGAGGAAGTGGCTTCTTATACACC
Found at i:1695334 original size:33 final size:33
Alignment explanation
Indices: 1695297--1695495 Score: 165
Period size: 33 Copynumber: 6.4 Consensus size: 33
1695287 GCTTGTAGAT
1695297 TGGAACTGGAGGAGGAAGTGGCTTCTTATACAC
1 TGGAACTGGAGGAGGAAGTGGCTTCTTATACAC
* *
1695330 TGGAACTGGTGGAGGCAA-TGGCTTCTTATATAC
1 TGGAACTGGAGGAGG-AAGTGGCTTCTTATACAC
* * * *
1695363 GGGAACT---GGAGG-A-------CTTGTAGAT
1 TGGAACTGGAGGAGGAAGTGGCTTCTTATACAC
* *
1695385 TGGAACTGGTGGAGGAAGTGG-TTCTTATATAC
1 TGGAACTGGAGGAGGAAGTGGCTTCTTATACAC
* * *
1695417 TGGAACCGGAGGAGGATGT-GCTTCTTGTACAC
1 TGGAACTGGAGGAGGAAGTGGCTTCTTATACAC
*
1695449 TGGAACTGGAGGAGGAAGTGGTTTCTTATACAC
1 TGGAACTGGAGGAGGAAGTGGCTTCTTATACAC
* *
1695482 CGGAACTGGTGGAG
1 TGGAACTGGAGGAG
1695496 TTTATAGATT
Statistics
Matches: 132, Mismatches: 21, Indels: 26
0.74 0.12 0.15
Matches are distributed among these distances:
22 12 0.09
25 5 0.04
26 1 0.01
28 1 0.01
30 5 0.04
31 1 0.01
32 48 0.36
33 57 0.43
34 2 0.02
ACGTcount: A:0.25, C:0.14, G:0.35, T:0.26
Consensus pattern (33 bp):
TGGAACTGGAGGAGGAAGTGGCTTCTTATACAC
Found at i:1695431 original size:32 final size:32
Alignment explanation
Indices: 1695385--1695495 Score: 141
Period size: 32 Copynumber: 3.4 Consensus size: 32
1695375 ACTTGTAGAT
* *
1695385 TGGAACTGGTGGAGGAAGTGGTTCTTATATAC
1 TGGAACTGGAGGAGGAAGTGGTTCTTATACAC
* * * *
1695417 TGGAACCGGAGGAGGATGTGCTTCTTGTACAC
1 TGGAACTGGAGGAGGAAGTGGTTCTTATACAC
1695449 TGGAACTGGAGGAGGAAGTGGTTTCTTATACAC
1 TGGAACTGGAGGAGGAAGTGG-TTCTTATACAC
* *
1695482 CGGAACTGGTGGAG
1 TGGAACTGGAGGAG
1695496 TTTATAGATT
Statistics
Matches: 66, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
32 44 0.67
33 22 0.33
ACGTcount: A:0.24, C:0.14, G:0.36, T:0.26
Consensus pattern (32 bp):
TGGAACTGGAGGAGGAAGTGGTTCTTATACAC
Found at i:1695450 original size:119 final size:120
Alignment explanation
Indices: 1695297--1695882 Score: 397
Period size: 111 Copynumber: 5.1 Consensus size: 120
1695287 GCTTGTAGAT
* *
1695297 TGGAACTGGAGGAGGAAGTGGCTTCTTATACACTGGAACTGGTGGAGGCAA-TGGCTTCTTATAT
1 TGGAACTGGAGGAGGAAGTGGCTTCTTATACACTGGAACTGGAGGAGG-AAGTGGCTTCTTATAC
* *
1695361 ACGGGAACTGGAGGA-CTTGTAGATTGGAACTGGTGGAGGAAGTGG-TTCTTATATAC
65 ACCGGAACTGGAGGAGCTTATAGATTGGAACTGG-GGAGGAAGTGGCTT-TTATATAC
* * * *
1695417 TGGAACCGGAGGAGGATGT-GCTTCTTGTACACTGGAACTGGAGGAGGAAGTGGTTTCTTATACA
1 TGGAACTGGAGGAGGAAGTGGCTTCTTATACACTGGAACTGGAGGAGGAAGTGGCTTCTTATACA
* * *
1695481 CCGGAACTGGTGGAGTTTATAGATTGGAACTGGGGAGGAAGTGGCTTTTGTATAC
66 CCGGAACTGGAGGAGCTTATAGATTGGAACTGGGGAGGAAGTGGCTTTTATATAC
* * * * * *
1695536 TGGAACT---GGCGG-A--GG---CTTATAGA-T-GAACAGGTGGAGGAAGTGGCTTCTTGTA-T
1 TGGAACTGGAGGAGGAAGTGGCTTCTTATACACTGGAACTGGAGGAGGAAGTGGCTTCTTATACA
* * * **
1695589 CTGGAACTGGCGGAGGCTTATAGATCGGAACTGGTGGA-GAAGTGGCTTCTGGTATAC
66 CCGGAACTGGAGGA-GCTTATAGATTGGAACTGG-GGAGGAAGTGGCTT-TTATATAC
* * * *
1695646 TGGAAC---CGGTGG-A--GG---CTTATA-ACCGGAACTGGAGGAGGAAGTGGTTTCTTATACA
1 TGGAACTGGAGGAGGAAGTGGCTTCTTATACACTGGAACTGGAGGAGGAAGTGGCTTCTTATACA
* * * *
1695701 CCGGAACTGGTGGAGGTTTATAGATTGGAACTGGTGGAGGAAGTGGTTTCTTATACAC
66 CCGGAACTGGAGGA-GCTTATAGATTGGAACTGG-GGAGGAAGTGGCTT-TTATATAC
* * * * * * * *
1695759 CGGAACT---GGTGG-A--GG--T-TTAT-GATTGGAA-TGGTGGAGG-AGTGGCTTTTTGTATA
1 TGGAACTGGAGGAGGAAGTGGCTTCTTATACACTGGAACTGGAGGAGGAAGTGGCTTCTTATACA
* * * * *
1695812 CTGGAACTGGCGGAGGCTTATAGATTGGAACAGGTGGAGGAAGTGGCTTCTGTATAC
66 CCGGAACTGGAGGA-GCTTATAGATTGGAACTGG-GGAGGAAGTGGCTTTTATATAC
*
1695869 T-GAACTGGCGGAGG
1 TGGAACTGGAGGAGG
1695883 CTTATAGATC
Statistics
Matches: 389, Mismatches: 59, Indels: 44
0.79 0.12 0.09
Matches are distributed among these distances:
108 12 0.03
109 57 0.15
110 35 0.09
111 86 0.22
112 46 0.12
113 37 0.10
114 1 0.00
116 4 0.01
118 2 0.01
119 74 0.19
120 35 0.09
ACGTcount: A:0.24, C:0.12, G:0.36, T:0.27
Consensus pattern (120 bp):
TGGAACTGGAGGAGGAAGTGGCTTCTTATACACTGGAACTGGAGGAGGAAGTGGCTTCTTATACA
CCGGAACTGGAGGAGCTTATAGATTGGAACTGGGGAGGAAGTGGCTTTTATATAC
Found at i:1695522 original size:55 final size:57
Alignment explanation
Indices: 1695449--1695963 Score: 642
Period size: 55 Copynumber: 9.3 Consensus size: 57
1695439 TCTTGTACAC
* * * * * *
1695449 TGGAACTGGAGGAGGAAGTGGTTTCTTATACACCGGAACTGGTGGA-GTTTATAGAT
1 TGGAACTGGTGGAGGAAGTGGCTTCTTGTATACTGGAACTGGTGGAGGCTTATAGAT
*
1695505 TGGAACTGG-GGAGGAAGTGGCTT-TTGTATACTGGAACTGGCGGAGGCTTATAGA-
1 TGGAACTGGTGGAGGAAGTGGCTTCTTGTATACTGGAACTGGTGGAGGCTTATAGAT
* *
1695559 T-GAACAGGTGGAGGAAGTGGCTTCTTGTAT-CTGGAACTGGCGGAGGCTTATAGAT
1 TGGAACTGGTGGAGGAAGTGGCTTCTTGTATACTGGAACTGGTGGAGGCTTATAGAT
* * * *
1695614 CGGAACTGGTGGA-GAAGTGGCTTCTGGTATACTGGAACCGGTGGAGGCTTATA-AC
1 TGGAACTGGTGGAGGAAGTGGCTTCTTGTATACTGGAACTGGTGGAGGCTTATAGAT
* * * * * * *
1695669 CGGAACTGGAGGAGGAAGTGGTTTCTTATACACCGGAACTGGTGGAGGTTTATAGAT
1 TGGAACTGGTGGAGGAAGTGGCTTCTTGTATACTGGAACTGGTGGAGGCTTATAGAT
* * * * *
1695726 TGGAACTGGTGGAGGAAGTGGTTTCTTATACACCGGAACTGGTGGAGGTTTAT-GAT
1 TGGAACTGGTGGAGGAAGTGGCTTCTTGTATACTGGAACTGGTGGAGGCTTATAGAT
* *
1695782 TGGAA-TGGTGGAGG-AGTGGCTTTTTGTATACTGGAACTGGCGGAGGCTTATAGAT
1 TGGAACTGGTGGAGGAAGTGGCTTCTTGTATACTGGAACTGGTGGAGGCTTATAGAT
* *
1695837 TGGAACAGGTGGAGGAAGTGGCTTC-TGTATACT-GAACTGGCGGAGGCTTATAGAT
1 TGGAACTGGTGGAGGAAGTGGCTTCTTGTATACTGGAACTGGTGGAGGCTTATAGAT
* * *
1695892 CGGAACTGGTGGAGGAAGTGGCTTCTTGTATACTGGAACCGGTGGAGGCTTATAGAC
1 TGGAACTGGTGGAGGAAGTGGCTTCTTGTATACTGGAACTGGTGGAGGCTTATAGAT
*
1695949 CGGAACTGGTGGAGG
1 TGGAACTGGTGGAGG
1695964 GAGATTTTCG
Statistics
Matches: 408, Mismatches: 38, Indels: 25
0.87 0.08 0.05
Matches are distributed among these distances:
53 6 0.01
54 86 0.21
55 118 0.29
56 104 0.25
57 94 0.23
ACGTcount: A:0.24, C:0.12, G:0.37, T:0.27
Consensus pattern (57 bp):
TGGAACTGGTGGAGGAAGTGGCTTCTTGTATACTGGAACTGGTGGAGGCTTATAGAT
Found at i:1695705 original size:33 final size:33
Alignment explanation
Indices: 1695661--1695773 Score: 120
Period size: 33 Copynumber: 3.7 Consensus size: 33
1695651 CCGGTGGAGG
*
1695661 CTTATA-ACCGGAACTGGAGGAGGAAGTGGTTT
1 CTTATACACCGGAACTGGTGGAGGAAGTGGTTT
1695693 CTTATACACCGGAACTGGT---GG-A--GG--T
1 CTTATACACCGGAACTGGTGGAGGAAGTGGTTT
* **
1695718 -TTATAGATTGGAACTGGTGGAGGAAGTGGTTT
1 CTTATACACCGGAACTGGTGGAGGAAGTGGTTT
1695750 CTTATACACCGGAACTGGTGGAGG
1 CTTATACACCGGAACTGGTGGAGG
1695774 TTTATGATTG
Statistics
Matches: 64, Mismatches: 7, Indels: 19
0.71 0.08 0.21
Matches are distributed among these distances:
24 15 0.23
25 1 0.02
27 4 0.06
28 1 0.02
29 1 0.02
30 4 0.06
32 7 0.11
33 31 0.48
ACGTcount: A:0.26, C:0.13, G:0.35, T:0.27
Consensus pattern (33 bp):
CTTATACACCGGAACTGGTGGAGGAAGTGGTTT
Found at i:1695721 original size:24 final size:24
Alignment explanation
Indices: 1695694--1695740 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
1695684 AAGTGGTTTC
1695694 TTATACACCGGAACTGGTGGAGGT
1 TTATACACCGGAACTGGTGGAGGT
* **
1695718 TTATAGATTGGAACTGGTGGAGG
1 TTATACACCGGAACTGGTGGAGG
1695741 AAGTGGTTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.26, C:0.11, G:0.36, T:0.28
Consensus pattern (24 bp):
TTATACACCGGAACTGGTGGAGGT
Found at i:1695832 original size:277 final size:280
Alignment explanation
Indices: 1695449--1695963 Score: 902
Period size: 277 Copynumber: 1.9 Consensus size: 280
1695439 TCTTGTACAC
1695449 TGGAACTGGAGGAGGAAGTGGTTTCTTATACACCGGAACTGGTGGAGTTTATAGATTGGAACTGG
1 TGGAACTGGAGGAGGAAGTGGTTTCTTATACACCGGAACTGGTGGAGTTTATAGATTGGAACTGG
1695514 GGAGGAAGTGGCTTTTGTATACTGGAACTGGCGGAGGCTTATAGA-T-GAACAGGTGGAGGAAGT
66 GGAGGAAGTGGCTTTTGTATACTGGAACTGGCGGAGGCTTATAGATTGGAACAGGTGGAGGAAGT
1695577 GGCTTCTTGTAT-CTGGAACTGGCGGAGGCTTATAGATCGGAACTGGTGGA-GAAGTGGCTTCTG
131 GGCTTC-TGTATACT-GAACTGGCGGAGGCTTATAGATCGGAACTGGTGGAGGAAGTGGCTTCTG
1695640 GTATACTGGAACCGGTGGAGGCTTATA-ACCGGAACTGGAGGAGGAAGTGGTTTCTTATACACCG
194 GTATACTGGAACCGGTGGAGGCTTATAGACCGGAACTGGAGGAGGAAGTGGTTTCTTATACACCG
1695704 GAACTGGTGGAGGTTTATAGAT
259 GAACTGGTGGAGGTTTATAGAT
*
1695726 TGGAACTGGTGGAGGAAGTGGTTTCTTATACACCGGAACTGGTGGAGGTTTAT-GATTGGAA-TG
1 TGGAACTGGAGGAGGAAGTGGTTTCTTATACACCGGAACTGGTGGA-GTTTATAGATTGGAACTG
1695789 GTGGAGG-AGTGGCTTTTTGTATACTGGAACTGGCGGAGGCTTATAGATTGGAACAGGTGGAGGA
65 G-GGAGGAAGTGGC-TTTTGTATACTGGAACTGGCGGAGGCTTATAGATTGGAACAGGTGGAGGA
1695853 AGTGGCTTCTGTATACTGAACTGGCGGAGGCTTATAGATCGGAACTGGTGGAGGAAGTGGCTTCT
128 AGTGGCTTCTGTATACTGAACTGGCGGAGGCTTATAGATCGGAACTGGTGGAGGAAGTGGCTTCT
* *
1695918 TGTATACTGGAACCGGTGGAGGCTTATAGACCGGAACTGGTGGAGG
193 GGTATACTGGAACCGGTGGAGGCTTATAGACCGGAACTGGAGGAGG
1695964 GAGATTTTCG
Statistics
Matches: 227, Mismatches: 3, Indels: 13
0.93 0.01 0.05
Matches are distributed among these distances:
276 9 0.04
277 91 0.40
278 47 0.21
279 64 0.28
280 16 0.07
ACGTcount: A:0.24, C:0.12, G:0.37, T:0.27
Consensus pattern (280 bp):
TGGAACTGGAGGAGGAAGTGGTTTCTTATACACCGGAACTGGTGGAGTTTATAGATTGGAACTGG
GGAGGAAGTGGCTTTTGTATACTGGAACTGGCGGAGGCTTATAGATTGGAACAGGTGGAGGAAGT
GGCTTCTGTATACTGAACTGGCGGAGGCTTATAGATCGGAACTGGTGGAGGAAGTGGCTTCTGGT
ATACTGGAACCGGTGGAGGCTTATAGACCGGAACTGGAGGAGGAAGTGGTTTCTTATACACCGGA
ACTGGTGGAGGTTTATAGAT
Found at i:1695850 original size:223 final size:225
Alignment explanation
Indices: 1695321--1695963 Score: 774
Period size: 223 Copynumber: 2.9 Consensus size: 225
1695311 GAAGTGGCTT
* * * * *
1695321 CTTATACACTGGAACTGGTGGAGGCAA-TGGCTTCTTATATACGGGAACTGGAGGA--CTTGTAG
1 CTTATAGA-TGGAACTGGTGGAGG-AAGTGGCTTCTTGTATACTGGAACTGGCGGAGGCTTATAG
* *
1695383 ATTGGAACTGGTGGAGGAAGTGG-TTCTTATATACTGGAACCGGAGGAGGATGTGCTTCTTGTAC
64 ATTGGAACTGGTGGAGGAAGTGGCTTC-TGTATACTGGAACC---GGAGGA-G-G---CTTATAC
*
1695447 ACTGGAACTGGAGGAGGAAGTGGTTTCTTATACACCGGAACTGGTGGA-GTTTATAGATTGGAAC
120 ACCGGAACTGGAGGAGGAAGTGGTTTCTTATACACCGGAACTGGTGGAGGTTTATAGATTGGAAC
* * *
1695511 TGG-GGAGGAAGTGGCTTTTGTATACTGGAACTGGCGGAGG
185 TGGTGGAGGAAGTGGCTTTTATACACCGGAACTGGCGGAGG
*
1695551 CTTATAGAT-GAACAGGTGGAGGAAGTGGCTTCTTGTAT-CTGGAACTGGCGGAGGCTTATAGAT
1 CTTATAGATGGAACTGGTGGAGGAAGTGGCTTCTTGTATACTGGAACTGGCGGAGGCTTATAGAT
* *
1695614 CGGAACTGGTGGA-GAAGTGGCTTCTGGTATACTGGAACCGGTGGAGGCTTATA-ACCGGAACTG
66 TGGAACTGGTGGAGGAAGTGGCTTCT-GTATACTGGAACCGGAGGAGGCTTATACACCGGAACTG
1695677 GAGGAGGAAGTGGTTTCTTATACACCGGAACTGGTGGAGGTTTATAGATTGGAACTGGTGGAGGA
130 GAGGAGGAAGTGGTTTCTTATACACCGGAACTGGTGGAGGTTTATAGATTGGAACTGGTGGAGGA
* *
1695742 AGTGGTTTCTTATACACCGGAACTGGTGGAGG
195 AGTGGCTT-TTATACACCGGAACTGGCGGAGG
* *
1695774 TTTAT-GATTGGAA-TGGTGGAGG-AGTGGCTTTTTGTATACTGGAACTGGCGGAGGCTTATAGA
1 CTTATAGA-TGGAACTGGTGGAGGAAGTGGCTTCTTGTATACTGGAACTGGCGGAGGCTTATAGA
* * * * *
1695836 TTGGAACAGGTGGAGGAAGTGGCTTCTGTATACT-GAACTGGCGGAGGCTTATAGATCGGAACTG
65 TTGGAACTGGTGGAGGAAGTGGCTTCTGTATACTGGAACCGGAGGAGGCTTATACACCGGAACTG
* * * * * * * **
1695900 GTGGAGGAAGTGGCTTCTTGTATACTGGAACCGGTGGAGGCTTATAGACCGGAACTGGTGGAGG
130 GAGGAGGAAGTGGTTTCTTATACACCGGAACTGGTGGAGGTTTATAGATTGGAACTGGTGGAGG
1695964 GAGATTTTCG
Statistics
Matches: 367, Mismatches: 33, Indels: 33
0.85 0.08 0.08
Matches are distributed among these distances:
220 47 0.13
221 24 0.07
222 46 0.13
223 139 0.38
224 16 0.04
225 1 0.00
226 5 0.01
227 14 0.04
228 32 0.09
229 36 0.10
230 7 0.02
ACGTcount: A:0.24, C:0.13, G:0.36, T:0.27
Consensus pattern (225 bp):
CTTATAGATGGAACTGGTGGAGGAAGTGGCTTCTTGTATACTGGAACTGGCGGAGGCTTATAGAT
TGGAACTGGTGGAGGAAGTGGCTTCTGTATACTGGAACCGGAGGAGGCTTATACACCGGAACTGG
AGGAGGAAGTGGTTTCTTATACACCGGAACTGGTGGAGGTTTATAGATTGGAACTGGTGGAGGAA
GTGGCTTTTATACACCGGAACTGGCGGAGG
Found at i:1696115 original size:22 final size:23
Alignment explanation
Indices: 1696061--1696120 Score: 86
Period size: 22 Copynumber: 2.6 Consensus size: 23
1696051 AGAGGAAACG
* *
1696061 TTGGCAAAGGAGGATGGTTCCAC
1 TTGGCAATGGAGGATGGTGCCAC
1696084 TTAGGCAATGGAGGAT-GTGCCAC
1 TT-GGCAATGGAGGATGGTGCCAC
1696107 TTGGCAATGGAGGA
1 TTGGCAATGGAGGA
1696121 CTTAAAGTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
22 12 0.35
23 10 0.29
24 12 0.35
ACGTcount: A:0.27, C:0.15, G:0.37, T:0.22
Consensus pattern (23 bp):
TTGGCAATGGAGGATGGTGCCAC
Found at i:1705809 original size:23 final size:24
Alignment explanation
Indices: 1705783--1705839 Score: 89
Period size: 23 Copynumber: 2.4 Consensus size: 24
1705773 TTGAAAAGTG
*
1705783 ACTTTTAAAAGTATGGT-AAAATA
1 ACTTTTAAAAGTATAGTAAAAATA
1705806 ACTTTTAAAAGTATAGTAGAAAATA
1 ACTTTTAAAAGTATAGTA-AAAATA
1705831 ACTTTTAAA
1 ACTTTTAAA
1705840 GTGTTGTGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 16 0.52
25 15 0.48
ACGTcount: A:0.49, C:0.05, G:0.11, T:0.35
Consensus pattern (24 bp):
ACTTTTAAAAGTATAGTAAAAATA
Found at i:1708765 original size:21 final size:21
Alignment explanation
Indices: 1708739--1708780 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1708729 ATTTGAATAT
*
1708739 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
1708760 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
1708781 CCCATTCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:1708842 original size:21 final size:21
Alignment explanation
Indices: 1708809--1708848 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
1708799 TTTTTGCAGA
*
1708809 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
1708831 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
1708849 AGATATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:1717371 original size:26 final size:26
Alignment explanation
Indices: 1717331--1717382 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
1717321 AATAGAACAA
*
1717331 GGAGAAAAGATAAGGAAAACGGCAGC
1 GGAGAAAAGAGAAGGAAAACGGCAGC
* * *
1717357 GGAGAGAAGAGAAGGAGAGCGGCAGC
1 GGAGAAAAGAGAAGGAAAACGGCAGC
1717383 TACTTACCTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.44, C:0.12, G:0.42, T:0.02
Consensus pattern (26 bp):
GGAGAAAAGAGAAGGAAAACGGCAGC
Found at i:1717572 original size:14 final size:14
Alignment explanation
Indices: 1717545--1717598 Score: 72
Period size: 14 Copynumber: 3.8 Consensus size: 14
1717535 AATACATATG
*
1717545 TAAATAAATTTAAA
1 TAAATAAATATAAA
* *
1717559 TGAATAGATATAAA
1 TAAATAAATATAAA
1717573 TAAATAAATATAAA
1 TAAATAAATATAAA
1717587 TAAATGAAATAT
1 TAAAT-AAATAT
1717599 TGAAAGTTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
14 28 0.82
15 6 0.18
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (14 bp):
TAAATAAATATAAA
Found at i:1722839 original size:3 final size:3
Alignment explanation
Indices: 1722831--1722871 Score: 73
Period size: 3 Copynumber: 13.3 Consensus size: 3
1722821 ACCTACTAAT
1722831 TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA T
1722872 AAAAACGAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 34 0.92
4 3 0.08
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1730243 original size:19 final size:19
Alignment explanation
Indices: 1730204--1730243 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
1730194 AAATAGAGAT
*
1730204 ATCAGAAATCAGAGCAAAA
1 ATCAGAAATCAGAACAAAA
* *
1730223 ATCAGATATCAGAACAGAA
1 ATCAGAAATCAGAACAAAA
1730242 AT
1 AT
1730244 AAGAGAAAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.15, G:0.15, T:0.15
Consensus pattern (19 bp):
ATCAGAAATCAGAACAAAA
Found at i:1733391 original size:18 final size:18
Alignment explanation
Indices: 1733370--1733408 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
1733360 TTAATCGATT
*
1733370 GAATCGGTTCGATCGGTC
1 GAATCGATTCGATCGGTC
1733388 GAATCGATTCGATCGGTC
1 GAATCGATTCGATCGGTC
1733406 GAA
1 GAA
1733409 AGAATCAGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.26
Consensus pattern (18 bp):
GAATCGATTCGATCGGTC
Found at i:1734679 original size:21 final size:21
Alignment explanation
Indices: 1734655--1734697 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
1734645 AAATTTTTAG
*
1734655 TAAGCTTAACGAGTAACGAGT
1 TAAGCTTAACGAGCAACGAGT
1734676 TAAGCTTAACGAGCAACGAGT
1 TAAGCTTAACGAGCAACGAGT
1734697 T
1 T
1734698 GAGTTGATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.23
Consensus pattern (21 bp):
TAAGCTTAACGAGCAACGAGT
Found at i:1735103 original size:23 final size:24
Alignment explanation
Indices: 1735077--1735137 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 24
1735067 ATTATAAAAT
**
1735077 ATTATTTATTTTAAATATTT-TTA
1 ATTATTTATAATAAATATTTATTA
*
1735100 ATTATTTAATAATAAATATTTATTC
1 ATTATTT-ATAATAAATATTTATTA
1735125 ATTATATTATAAT
1 ATTAT-TTATAAT
1735138 TGTTGGTGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 7 0.22
24 11 0.34
25 12 0.38
26 2 0.06
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (24 bp):
ATTATTTATAATAAATATTTATTA
Found at i:1735351 original size:15 final size:15
Alignment explanation
Indices: 1735333--1735370 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
1735323 GATTTATAAA
*
1735333 TAATTTATTATTATT
1 TAATTTATTATCATT
*
1735348 TAATTTATAATCATT
1 TAATTTATTATCATT
1735363 T-ATTTATT
1 TAATTTATT
1735371 GAAATGGTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (15 bp):
TAATTTATTATCATT
Found at i:1738333 original size:16 final size:17
Alignment explanation
Indices: 1738304--1738338 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
1738294 CTCACTCCAT
1738304 TGTTGAATATTATTTTG
1 TGTTGAATATTATTTTG
1738321 TGTTGAA-ATTATTTTG
1 TGTTGAATATTATTTTG
1738337 TG
1 TG
1738339 GAACTTTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.23, C:0.00, G:0.20, T:0.57
Consensus pattern (17 bp):
TGTTGAATATTATTTTG
Found at i:1749835 original size:17 final size:17
Alignment explanation
Indices: 1749813--1749846 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1749803 GAAGTTTAGA
1749813 CGTTAAAATAAAATTTT
1 CGTTAAAATAAAATTTT
1749830 CGTTAAAATAAAATTTT
1 CGTTAAAATAAAATTTT
1749847 ACCCTTTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (17 bp):
CGTTAAAATAAAATTTT
Found at i:1750500 original size:38 final size:38
Alignment explanation
Indices: 1750417--1750643 Score: 120
Period size: 38 Copynumber: 6.1 Consensus size: 38
1750407 TAACATCATT
* *
1750417 TTTTGAAAATGCTTTTG-AAATGATAT-AATATATA-A-
1 TTTTGAAAACGGTTTTGAAAAT-ATATAAATATATATAG
* *
1750452 TTTCCAGAAAACGGTTTTCGAAAATGTATAAAT-TATATAG
1 TTT--TGAAAACGGTTTT-GAAAATATATAAATATATATAG
* *
1750492 TTTTGAAAAC-GTTTTTAAAATATATATATCATATATAG
1 TTTTGAAAACGGTTTTGAAAATATATAAAT-ATATATAG
* ** * *
1750530 TTTTGAAAACGATTTTTTG-GGATATATATAT-TATATAA
1 TTTTGAAAACG--GTTTTGAAAATATATAAATATATATAG
* * *
1750568 TTTTTAAAAC-ATTTTGAAAATAAAT-AATATATAT--
1 TTTTGAAAACGGTTTTGAAAATATATAAATATATATAG
** * *
1750602 TTTTGAAAAAACATTTTTTAAAATATATATAT-TATATAG
1 TTTTG--AAAACGGTTTTGAAAATATATAAATATATATAG
1750641 TTT
1 TTT
1750644 AAAAAAATTA
Statistics
Matches: 148, Mismatches: 24, Indels: 36
0.71 0.12 0.17
Matches are distributed among these distances:
34 4 0.03
35 10 0.07
36 26 0.18
37 32 0.22
38 48 0.32
39 11 0.07
40 13 0.09
41 4 0.03
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.44
Consensus pattern (38 bp):
TTTTGAAAACGGTTTTGAAAATATATAAATATATATAG
Found at i:1750558 original size:40 final size:38
Alignment explanation
Indices: 1750458--1750643 Score: 170
Period size: 38 Copynumber: 5.0 Consensus size: 38
1750448 ATAATTTCCA
* ** * *
1750458 GAAAACGGTTTTCGAAAATGTATAAATTATATAGTTTT
1 GAAAACGATTTTTTAAAATATATATATTATATAGTTTT
1750496 GAAAACG--TTTTTAAAATATATATATCATATATAGTTTT
1 GAAAACGATTTTTTAAAATATATATAT--TATATAGTTTT
*** *
1750534 GAAAACGATTTTTTGGGATATATATATTATATAATTTT
1 GAAAACGATTTTTTAAAATATATATATTATATAGTTTT
* * * *
1750572 TAAAAC-A-TTTTGAAAATA-A-ATAATATATATTTTT
1 GAAAACGATTTTTTAAAATATATATATTATATAGTTTT
1750606 GAAAAAAC-ATTTTTTAAAATATATATATTATATAGTTT
1 G--AAAACGATTTTTTAAAATATATATATTATATAGTTT
1750644 AAAAAAATTA
Statistics
Matches: 120, Mismatches: 19, Indels: 17
0.77 0.12 0.11
Matches are distributed among these distances:
34 13 0.11
35 1 0.01
36 27 0.22
37 11 0.09
38 41 0.34
39 12 0.10
40 15 0.12
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.44
Consensus pattern (38 bp):
GAAAACGATTTTTTAAAATATATATATTATATAGTTTT
Found at i:1750648 original size:36 final size:36
Alignment explanation
Indices: 1750472--1750666 Score: 128
Period size: 36 Copynumber: 5.3 Consensus size: 36
1750462 ACGGTTTTCG
* * * *
1750472 AAAATGTATAAATTATATAGTTTTGAAAAC-GTTTTT
1 AAAATATATATATTATATAG-TTTAAAAACATTTTTT
*
1750508 AAAATATATATATCATATATAGTTTTGAAAACGATTTTTT
1 AAAATATATATAT--TATATAG-TTTAAAAAC-ATTTTTT
*** * * *
1750548 GGGATATATATATTATATAATTTTTAAAACA-TTTTG
1 AAAATATATATATTATAT-AGTTTAAAAACATTTTTT
* *
1750584 AAAATA-A-ATAATATATATTTTTGAAAAAACATTTTTT
1 AAAATATATATATTATATA-GTTT--AAAAACATTTTTT
* * *
1750621 AAAATATATATATTATATAGTTTAAAAAAATTATAT
1 AAAATATATATATTATATAGTTTAAAAACATTTTTT
*
1750657 ATAATATATA
1 AAAATATATA
1750667 GGTTTTGAAA
Statistics
Matches: 127, Mismatches: 21, Indels: 22
0.75 0.12 0.13
Matches are distributed among these distances:
33 1 0.01
34 12 0.09
35 1 0.01
36 43 0.34
37 11 0.09
38 34 0.27
39 10 0.08
40 15 0.12
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.44
Consensus pattern (36 bp):
AAAATATATATATTATATAGTTTAAAAACATTTTTT
Found at i:1750677 original size:27 final size:25
Alignment explanation
Indices: 1750616--1750678 Score: 63
Period size: 27 Copynumber: 2.4 Consensus size: 25
1750606 GAAAAAACAT
* *
1750616 TTTTTAAAATATATATATTATATAG
1 TTTTAAAAATATATATAATATATAG
*
1750641 TTTAAAAAAATTATATATAATATATAGG
1 TTT-TAAAAA-TATATATAATATATA-G
1750669 TTTTGAAAAA
1 TTTT-AAAAA
1750679 CATTTAAAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
25 3 0.10
26 4 0.13
27 14 0.47
28 9 0.30
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.44
Consensus pattern (25 bp):
TTTTAAAAATATATATAATATATAG
Found at i:1750790 original size:32 final size:33
Alignment explanation
Indices: 1750689--1750795 Score: 128
Period size: 34 Copynumber: 3.2 Consensus size: 33
1750679 CATTTAAAGA
* *
1750689 AATATAGTTTTCAAAACATTTTTGAAAAATTATAT
1 AATATAG-TTTAAAAACATTTTTG-AAAACTATAT
*
1750724 AATATAGTTTAAAAACATTTTTTAAAACTCATAT
1 AATATAGTTTAAAAACATTTTTGAAAACT-ATAT
*
1750758 AATAT-TTTTAAAATAC-TTTTTGAAAACTATAT
1 AATATAGTTTAAAA-ACATTTTTGAAAACTATAT
1750790 AATATA
1 AATATA
1750796 TAGTTTTGGA
Statistics
Matches: 64, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
32 9 0.14
33 23 0.36
34 25 0.39
35 7 0.11
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.43
Consensus pattern (33 bp):
AATATAGTTTAAAAACATTTTTGAAAACTATAT
Found at i:1750824 original size:32 final size:33
Alignment explanation
Indices: 1750788--1750860 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 33
1750778 TGAAAACTAT
**
1750788 ATAATATATAGTTTTGGAAAAT-TTTTAGAAAA
1 ATAATATATAGTTTTAAAAAATGTTTTAGAAAA
* * *
1750820 ATAATATAAAGTTTTAAAAAATGTTTTTGAAAC
1 ATAATATATAGTTTTAAAAAATGTTTTAGAAAA
1750853 AT-ATATAT
1 ATAATATAT
1750861 TATATATATT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
32 24 0.71
33 10 0.29
ACGTcount: A:0.48, C:0.01, G:0.10, T:0.41
Consensus pattern (33 bp):
ATAATATATAGTTTTAAAAAATGTTTTAGAAAA
Found at i:1750867 original size:9 final size:9
Alignment explanation
Indices: 1750853--1750884 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
1750843 TTTTTGAAAC
1750853 ATATATATT
1 ATATATATT
1750862 ATATATATT
1 ATATATATT
1750871 ATAT-TATT
1 ATATATATT
1750879 AT-TATA
1 ATATATA
1750885 ATAATTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
7 1 0.05
8 8 0.36
9 13 0.59
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
ATATATATT
Found at i:1750884 original size:18 final size:18
Alignment explanation
Indices: 1750853--1750906 Score: 58
Period size: 18 Copynumber: 3.0 Consensus size: 18
1750843 TTTTTGAAAC
1750853 ATATATATTA-TATATATT
1 ATAT-TATTATTATATATT
*
1750871 ATATTATTATTATA-ATA
1 ATATTATTATTATATATT
*
1750888 ATTATTATTATTATTTATT
1 A-TATTATTATTATATATT
1750907 TACTTCCCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
17 8 0.27
18 20 0.67
19 2 0.07
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
ATATTATTATTATATATT
Found at i:1752078 original size:12 final size:12
Alignment explanation
Indices: 1752063--1752093 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
1752053 TTTATTTATT
1752063 TATATATGTATG
1 TATATATGTATG
1752075 TATATATGTATG
1 TATATATGTATG
1752087 TATATAT
1 TATATAT
1752094 TTTATGGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (12 bp):
TATATATGTATG
Found at i:1752170 original size:15 final size:14
Alignment explanation
Indices: 1752128--1752171 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 14
1752118 TTTATAGCAA
1752128 TTTTCATTATTATT
1 TTTTCATTATTATT
1752142 TTTTC-TCTATTTATT
1 TTTTCAT-TA-TTATT
1752157 TATTTCATTATTATT
1 T-TTTCATTATTATT
1752172 ATTATATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
13 1 0.04
14 7 0.27
15 11 0.42
16 6 0.23
17 1 0.04
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTTCATTATTATT
Found at i:1752334 original size:19 final size:18
Alignment explanation
Indices: 1752298--1752339 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
1752288 GTTCTTATTT
1752298 ATTTT-ATTTATTTTAAC
1 ATTTTGATTTATTTTAAC
*
1752315 ATTTTGATTTTTTATTAAC
1 ATTTTGATTTATT-TTAAC
1752334 ATTTTG
1 ATTTTG
1752340 CCCCTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.23
18 6 0.27
19 11 0.50
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.64
Consensus pattern (18 bp):
ATTTTGATTTATTTTAAC
Found at i:1757792 original size:83 final size:82
Alignment explanation
Indices: 1757546--1758259 Score: 671
Period size: 83 Copynumber: 8.7 Consensus size: 82
1757536 TTAAAGATAA
* * ** * *
1757546 CATTTGCAGCATAGA-TTAAGTCGAGAAGGGCTATCTGC--CAAAGACCCACGAGTTCGATTACA
1 CATTTGCAGCATA-ACTTAAGTCGAGAAGGGTTATCTTCAACAAAGACCTTCGAGTTCGACTACG
* * *
1757608 CTCAGCTTCGAGG-GCAT
65 CTCAGCTCCAAGGCACAT
* * * * * *
1757625 CATTTACA-CATAACTCAAGGCTAGAAGGGTTATTTGTCACCAAAGACCTTCGAGTTCGACTACG
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCT-TCAACAAAGACCTTCGAGTTCGACTACG
*
1757689 CTCAGCTCCAAGGCATAT
65 CTCAGCTCCAAGGCACAT
* *
1757707 CATTTGCATCATAACTTAAGTCGAGAAGGGTTATCTTCCAACTAAAGACCTTTGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTT-CAAC-AAAGACCTTCGAGTTCGACTAC
1757772 GCTCAGCT-CAAGGCACAT
64 GCTCAGCTCCAAGGCACAT
* * * * * *
1757790 CATTTGCAGCATAACTTAAGTCGAGAAGGGCTATATGC--CAAAGACCCTCGAGTTCGATTACAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTTCAACAAAGACCTTCGAGTTCGACTACGC
* * *
1757853 TCAGCTTCGAGG-GCA-
66 TCAGCTCCAAGGCACAT
* * * * *
1757868 CA-TTACAGCATAACTCAAGGCTAGAAGGGTTATCTATCACCAAAAGACCTTCGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCT-TCAAC-AAAGACCTTCGAGTTCGACTAC
*
1757932 GCTCAGCTCCAAGGCATAT
64 GCTCAGCTCCAAGGCACAT
* * * *
1757951 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAGTCCTTCGAGTACGACTACG
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCT-TCAACAAAGACCTTCGAGTTCGACTACG
* *
1758016 CTCAGTTCCAAGGCATAT
65 CTCAGCTCCAAGGCACAT
* * * * * * * *
1758034 CTTTTGCAGTATAATTTAAGTCGAGAAGGGCTATC-T-ACCAAAGACCCTCGAGTTCGATTACAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTTCAACAAAGACCTTCGAGTTCGACTACGC
* *
1758097 TCAGCTTCGAGGGCACAT
66 TCAGC-TCCAAGGCACAT
* ** * * * *
1758115 CATTTACAATATAACTCAAGTCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTTGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCT-TCAAC-AAAGACCTTCGAGTTCGACTAC
*
1758180 GCTCAGCTCCAAGGAACAT
64 GCTCAGCTCCAAGGCACAT
* * * * *
1758199 CATTTGCAACATAGCTTAAGTCAAGAAGGGTTATCTGCCAACCGAAGACCTTCGAGTTCGA
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCT-TCAA-CAAAGACCTTCGAGTTCGA
1758260 TTACATTCAA
Statistics
Matches: 518, Mismatches: 95, Indels: 39
0.79 0.15 0.06
Matches are distributed among these distances:
77 28 0.05
78 23 0.04
79 36 0.07
80 31 0.06
81 99 0.19
82 12 0.02
83 139 0.27
84 124 0.24
85 26 0.05
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (82 bp):
CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTTCAACAAAGACCTTCGAGTTCGACTACGC
TCAGCTCCAAGGCACAT
Found at i:1757975 original size:244 final size:244
Alignment explanation
Indices: 1757546--1758259 Score: 1103
Period size: 244 Copynumber: 2.9 Consensus size: 244
1757536 TTAAAGATAA
*
1757546 CATTTGCAGCATAGATTAAGTCGAGAAGGGCTATCTGCCAAAGACCCACGAGTTCGATTACACTC
1 CATTTGCAGCATA-ATTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTC
*
1757611 AGCTTCGAGGGCATCATTTACACATAACTCAAGGCTAGAAGGGTTATTTGTCACC-AAAGACCTT
65 AGCTTCGAGGGCATCATTTACACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTT
*
1757675 CGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCATCATAACTTAAGTCGAGAAGGGTTA
130 CGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAACATAACTTAAGTCGAGAAGGGTTA
* *
1757740 TCTTCCAACTAAAGACCTTTGAGTTCGACTACGCTCAGCT-CAAGGCACAT
195 TCTGCCAAC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACAT
*
1757790 CATTTGCAGCATAACTTAAGTCGAGAAGGGCTATATGCCAAAGACCCTCGAGTTCGATTACACTC
1 CATTTGCAGCATAA-TTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTC
*
1757855 AGCTTCGAGGGCA-CA-TTACAGCATAACTCAAGGCTAGAAGGGTTATCTATCACCAAAAGACCT
65 AGCTTCGAGGGCATCATTTACA-CATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCT
* *
1757918 TCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTACAGCATAACTTAAGTCGAGAAGGGTT
129 TCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAACATAACTTAAGTCGAGAAGGGTT
* * * *
1757983 ATCTGCCAACAAAGTCCTTCGAGTACGACTACGCTCAGTTCCAAGGCATAT
194 ATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACAT
* * *
1758034 CTTTTGCAGTATAATTTAAGTCGAGAAGGGCTATCTACCAAAGACCCTCGAGTTCGATTACACTC
1 CATTTGCAGCATAA-TTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTC
* *
1758099 AGCTTCGAGGGCACATCATTTACAATATAACTCAAGTCTAGAAGGGTTATCTGTCACCAAAAGAC
65 AGCTTCGAGGG--CATCATTTAC-ACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGAC
* * * * *
1758164 CTTCGAGTTTGACTACGCTCAGCTCCAAGGAACATCATTTGCAACATAGCTTAAGTCAAGAAGGG
127 CTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAACATAACTTAAGTCGAGAAGGG
*
1758229 TTATCTGCCAACCGAAGACCTTCGAGTTCGA
192 TTATCTGCCAA-CAAAGACCTTCGAGTTCGA
1758260 TTACATTCAA
Statistics
Matches: 430, Mismatches: 30, Indels: 15
0.91 0.06 0.03
Matches are distributed among these distances:
242 5 0.01
243 60 0.14
244 234 0.54
246 2 0.00
247 2 0.00
248 110 0.26
249 17 0.04
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (244 bp):
CATTTGCAGCATAATTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCA
GCTTCGAGGGCATCATTTACACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTC
GAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAACATAACTTAAGTCGAGAAGGGTTAT
CTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACAT
Found at i:1758996 original size:36 final size:37
Alignment explanation
Indices: 1758942--1759177 Score: 152
Period size: 36 Copynumber: 6.6 Consensus size: 37
1758932 ATAATTTCCA
* *
1758942 GAAAACGATTTTCGAAAATGTATA-AATTATATAGTTTT
1 GAAAACGATTTT-TAAAATATATATAA-TATATAGTTTT
*
1758980 GAAAACG-TTTTTAAAATATATATCATATATAGTTTT
1 GAAAACGATTTTTAAAATATATATAATATATAGTTTT
* *
1759016 GAAAACGATTTTTTGGGAAATATATAT--TATATAATTTT
1 GAAAACGA-TTTTT--AAAATATATATAATATATAGTTTT
* *
1759054 TAAAA--A-TTTGAAAATA-A-ATAATATAT--TTTT
1 GAAAACGATTTTTAAAATATATATAATATATAGTTTT
1759084 GAAAAAAC-ATTTTTTAAAATATATAT--TATATAGTTTT
1 G--AAAACGA-TTTTTAAAATATATATAATATATAGTTTT
*
1759121 TAATAAC-ATTTTT----TATATATAATATATAGTTTTT
1 GAA-AACGATTTTTAAAATATATATAATATATAG-TTTT
*
1759155 GAAAAAC-ATTTTGAAAATATATA
1 G-AAAACGATTTTTAAAATATATA
1759178 GTTTTAAAAA
Statistics
Matches: 160, Mismatches: 13, Indels: 50
0.72 0.06 0.22
Matches are distributed among these distances:
30 6 0.04
31 8 0.05
32 14 0.09
33 8 0.05
34 15 0.09
35 23 0.14
36 33 0.21
37 11 0.07
38 32 0.20
40 10 0.06
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.44
Consensus pattern (37 bp):
GAAAACGATTTTTAAAATATATATAATATATAGTTTT
Found at i:1759114 original size:35 final size:34
Alignment explanation
Indices: 1758971--1759245 Score: 120
Period size: 32 Copynumber: 8.1 Consensus size: 34
1758961 GTATAAATTA
* *
1758971 TATAGTTTTG-AAAAC-GTTTTTAAAATATATAT
1 TATATTTTTGAAAAACATTTTTTAAAATATATAT
*
1759003 CATATATAGTTTTG-AAAACGATTTTTTGGGAAATATATAT
1 --TATAT--TTTTGAAAAAC-ATTTTTT--AAAATATATAT
* * * *
1759043 TATATAATTTT-TAAAA-A--TTTGAAAATAAATAA
1 TATAT--TTTTGAAAAACATTTTTTAAAATATATAT
1759075 TATATTTTTGAAAAAACATTTTTTAAAATATATAT
1 TATATTTTTG-AAAAACATTTTTTAAAATATATAT
* * *
1759110 TATATAGTTTTTAATAACATTTTTT-ATATATA-AT
1 TATAT--TTTTGAAAAACATTTTTTAAAATATATAT
*
1759144 ATATAGTTTTTGAAAAACA--TTTT-GAA-A-ATA-
1 -TATA-TTTTTGAAAAACATTTTTTAAAATATATAT
* *
1759174 TATAGTTTT-AAAAACATTTTTGAAAACTCATATA-
1 TATATTTTTGAAAAACATTTTTTAAAA-T-ATATAT
* * *
1759208 -ATATTTTT-AAAATCATTTTTGAAAACTATATAA
1 TATATTTTTGAAAAACATTTTTTAAAA-TATATAT
1759241 TATAT
1 TATAT
1759246 AGTTTTGGAA
Statistics
Matches: 191, Mismatches: 24, Indels: 52
0.72 0.09 0.19
Matches are distributed among these distances:
27 7 0.04
28 4 0.02
29 7 0.04
30 7 0.04
31 2 0.01
32 27 0.14
33 27 0.14
34 26 0.14
35 27 0.14
36 24 0.13
37 4 0.02
38 19 0.10
40 10 0.05
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (34 bp):
TATATTTTTGAAAAACATTTTTTAAAATATATAT
Found at i:1759207 original size:61 final size:63
Alignment explanation
Indices: 1759110--1759239 Score: 153
Period size: 61 Copynumber: 2.1 Consensus size: 63
1759100 AAATATATAT
* * *
1759110 TATATAGTTTTTAATAACATTTTTTATATATAATAT-ATAGTTTTTGAAAAACA-TTTTGAAAA-
1 TATATAGTTTTTAAAAACATTTTTGATAAATAATATAATA-TTTTT-AAAAACATTTTTGAAAAC
* *
1759172 TATATAG-TTTTAAAAACATTTTTGA-AAACTCATATAATATTTTTAAAATCATTTTTGAAAAC
1 TATATAGTTTTTAAAAACATTTTTGATAAA-TAATATAATATTTTTAAAAACATTTTTGAAAAC
1759234 TATATA
1 TATATA
1759240 ATATATAGTT
Statistics
Matches: 59, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
60 8 0.14
61 35 0.59
62 16 0.27
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.46
Consensus pattern (63 bp):
TATATAGTTTTTAAAAACATTTTTGATAAATAATATAATATTTTTAAAAACATTTTTGAAAAC
Found at i:1759216 original size:33 final size:32
Alignment explanation
Indices: 1759076--1759243 Score: 125
Period size: 33 Copynumber: 5.1 Consensus size: 32
1759066 AATAAATAAT
* *
1759076 ATATTTTTGAAAAAACATTTTTTAAAATATATATTA
1 ATATTTTT--AAAAACATTTTTGAAAA-CTATA-TA
* * *
1759112 TATAGTTTTTAATAACATTTTT-TATA-TATAATA
1 -ATA-TTTTTAAAAACATTTTTGAAAACTAT-ATA
1759145 TATAGTTTTTGAAAAACA-TTTTG-AAA--ATAT-
1 -ATA-TTTTT-AAAAACATTTTTGAAAACTATATA
*
1759175 ATAGTTTTAAAAACATTTTTGAAAACTCATATA
1 ATATTTTTAAAAACATTTTTGAAAACT-ATATA
*
1759208 ATATTTTTAAAATCATTTTTGAAAACTATATA
1 ATATTTTTAAAAACATTTTTGAAAACTATATA
1759240 ATAT
1 ATAT
1759244 ATAGTTTTGG
Statistics
Matches: 113, Mismatches: 8, Indels: 25
0.77 0.05 0.17
Matches are distributed among these distances:
27 7 0.06
28 9 0.08
29 6 0.05
31 2 0.02
32 15 0.13
33 46 0.41
34 7 0.06
35 2 0.02
36 11 0.10
37 3 0.03
38 5 0.04
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (32 bp):
ATATTTTTAAAAACATTTTTGAAAACTATATA
Found at i:1759305 original size:67 final size:69
Alignment explanation
Indices: 1759170--1759315 Score: 167
Period size: 67 Copynumber: 2.1 Consensus size: 69
1759160 ACATTTTGAA
* **
1759170 AATATATAGTTTTAAAAACATTTTTGAAAACTCATATAATATTTTTAAAATCATTTTTGAAAACT
1 AATATATAGTTTTAAAAACATTTTTGAAAACTAATATAATATTTAAAAAATCATTTTTGAAAACT
1759235 ATAT
66 ATAT
** *
1759239 AATATATAGTTTTGGAAA-ATTTTTAGAAAA-TAATATAA-AGTTTAAAAAAT-GTTTTTG-AAA
1 AATATATAGTTTTAAAAACATTTTT-GAAAACTAATATAATA-TTTAAAAAATCATTTTTGAAAA
1759299 CATATAT
64 C-TATAT
*
1759306 ATTATATAGT
1 AATATATAGT
1759316 ACATATTTAT
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
66 4 0.06
67 21 0.31
68 21 0.31
69 21 0.31
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.42
Consensus pattern (69 bp):
AATATATAGTTTTAAAAACATTTTTGAAAACTAATATAATATTTAAAAAATCATTTTTGAAAACT
ATAT
Found at i:1760538 original size:34 final size:33
Alignment explanation
Indices: 1760500--1760585 Score: 79
Period size: 34 Copynumber: 2.5 Consensus size: 33
1760490 TTATGGTTTC
*
1760500 TTTTTTGTTAATTTTTTATAGCAATTT-ATTATTA
1 TTTTTTATTAATTTTTTAT--CAATTTCATTATTA
* *
1760534 TTTTTTCTCT-ATTTATTTATCTATTTCATTATTA
1 TTTTTTAT-TAATTT-TTTATCAATTTCATTATTA
1760568 -TTTTTATTATATTTTTTA
1 TTTTTTATTA-ATTTTTTA
1760586 CCTTTTTGAC
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
32 1 0.02
33 15 0.34
34 22 0.50
35 6 0.14
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.69
Consensus pattern (33 bp):
TTTTTTATTAATTTTTTATCAATTTCATTATTA
Found at i:1760743 original size:22 final size:21
Alignment explanation
Indices: 1760704--1760745 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1760694 ATTATTATTC
*
1760704 TTAACATTTTTGATTTTTTTA
1 TTAACATTTTTGACTTTTTTA
*
1760725 TTAACATTTTTGCCCTTTTTT
1 TTAACATTTTTG-ACTTTTTT
1760746 TATAAGAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.19, C:0.12, G:0.05, T:0.64
Consensus pattern (21 bp):
TTAACATTTTTGACTTTTTTA
Found at i:1767889 original size:24 final size:24
Alignment explanation
Indices: 1767838--1767891 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
1767828 GTATTCGAAA
*
1767838 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCAGAC
* * *
1767862 TTTGATCTTGTTCAATACTCAGAT
1 TTTGATCTTGGTCAATACCCAGAC
1767886 TTTGAT
1 TTTGAT
1767892 GATTTTTCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.22, C:0.19, G:0.17, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCAGAC
Found at i:1770463 original size:33 final size:33
Alignment explanation
Indices: 1770421--1770540 Score: 213
Period size: 33 Copynumber: 3.6 Consensus size: 33
1770411 GACTATCGTT
*
1770421 ATGCGAAATGAAAATCGCAACAAGAGAATCGCA
1 ATGCGAAATGAAAATCGCAACAAGGGAATCGCA
*
1770454 ATGCGAAATGAAAATCGCAACGAGGGAATCGCA
1 ATGCGAAATGAAAATCGCAACAAGGGAATCGCA
1770487 ATGCGAAATGAAAATCGCAACAAGGGAATCGCA
1 ATGCGAAATGAAAATCGCAACAAGGGAATCGCA
*
1770520 AAGCGAAATGAAAATCGCAAC
1 ATGCGAAATGAAAATCGCAAC
1770541 GCGAATTTAG
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 83 1.00
ACGTcount: A:0.47, C:0.18, G:0.23, T:0.12
Consensus pattern (33 bp):
ATGCGAAATGAAAATCGCAACAAGGGAATCGCA
Found at i:1770471 original size:19 final size:18
Alignment explanation
Indices: 1770423--1770545 Score: 81
Period size: 19 Copynumber: 7.3 Consensus size: 18
1770413 CTATCGTTAT
1770423 GCGAAATGAAAATCGCAA
1 GCGAAATGAAAATCGCAA
*
1770441 -C--AA-GAGAATCGCAA
1 GCGAAATGAAAATCGCAA
1770455 TGCGAAATGAAAATCGCAA
1 -GCGAAATGAAAATCGCAA
**
1770474 -CG--A-GGGAATCGCAA
1 GCGAAATGAAAATCGCAA
1770488 TGCGAAATGAAAATCGCAA
1 -GCGAAATGAAAATCGCAA
**
1770507 -C--AA-GGGAATCGCAAA
1 GCGAAATGAAAATCGC-AA
1770522 GCGAAATGAAAATCGCAA
1 GCGAAATGAAAATCGCAA
1770540 CGCGAA
1 -GCGAA
1770546 TTTAGTTTCG
Statistics
Matches: 79, Mismatches: 10, Indels: 31
0.66 0.08 0.26
Matches are distributed among these distances:
14 26 0.33
15 7 0.09
16 4 0.05
17 4 0.05
18 7 0.09
19 31 0.39
ACGTcount: A:0.46, C:0.19, G:0.24, T:0.11
Consensus pattern (18 bp):
GCGAAATGAAAATCGCAA
Found at i:1770594 original size:19 final size:19
Alignment explanation
Indices: 1770570--1770624 Score: 110
Period size: 19 Copynumber: 2.9 Consensus size: 19
1770560 GCAATTTTGT
1770570 CGTTGCGATTTTCATTTCA
1 CGTTGCGATTTTCATTTCA
1770589 CGTTGCGATTTTCATTTCA
1 CGTTGCGATTTTCATTTCA
1770608 CGTTGCGATTTTCATTT
1 CGTTGCGATTTTCATTT
1770625 TTGCCTTCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 36 1.00
ACGTcount: A:0.15, C:0.20, G:0.16, T:0.49
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCA
Found at i:1772644 original size:19 final size:19
Alignment explanation
Indices: 1772622--1772743 Score: 128
Period size: 19 Copynumber: 6.6 Consensus size: 19
1772612 AAAAATGACT
1772622 ATCGCAACGCGAAATAAAA
1 ATCGCAACGCGAAATAAAA
* *
1772641 ATCGCAACGAGAGAATGAAA
1 ATCGCAACGCGA-AATAAAA
**
1772661 ATCGCAACGCGAAACGAAA
1 ATCGCAACGCGAAATAAAA
*
1772680 ATCGCAACGCAAAATAAAA
1 ATCGCAACGCGAAATAAAA
*
1772699 ATCGCAA--CG--AT-ATA
1 ATCGCAACGCGAAATAAAA
* *
1772713 ATCGCAATGCGAAATTAAA
1 ATCGCAACGCGAAATAAAA
1772732 ATCGCAACGCGA
1 ATCGCAACGCGA
1772744 TTATAGTTTC
Statistics
Matches: 86, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
14 9 0.10
15 2 0.02
16 2 0.02
17 1 0.01
18 2 0.02
19 53 0.62
20 17 0.20
ACGTcount: A:0.48, C:0.21, G:0.18, T:0.12
Consensus pattern (19 bp):
ATCGCAACGCGAAATAAAA
Found at i:1772658 original size:39 final size:40
Alignment explanation
Indices: 1772598--1772707 Score: 127
Period size: 39 Copynumber: 2.8 Consensus size: 40
1772588 TTTGGAACTT
* ** *
1772598 AAAATCGCAACGTGAAAAATGACTATCGCAACGCGAAATA
1 AAAATCGCAACGAGAAAAATGAAAATCGCAACGCGAAACA
* *
1772638 AAAATCGCAACGAG-AGAATGAAAATCGCAACGCGAAACG
1 AAAATCGCAACGAGAAAAATGAAAATCGCAACGCGAAACA
* *
1772677 AAAATCGCAAC--GCAAAATAAAAATCGCAACG
1 AAAATCGCAACGAGAAAAATGAAAATCGCAACG
1772708 ATATAATCGC
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
37 1 0.02
38 16 0.26
39 31 0.51
40 13 0.21
ACGTcount: A:0.50, C:0.21, G:0.18, T:0.11
Consensus pattern (40 bp):
AAAATCGCAACGAGAAAAATGAAAATCGCAACGCGAAACA
Found at i:1772774 original size:20 final size:19
Alignment explanation
Indices: 1772749--1772857 Score: 138
Period size: 19 Copynumber: 5.9 Consensus size: 19
1772739 CGCGATTATA
1772749 GTTTCGCGTTGCGATTTTT
1 GTTTCGCGTTGCGATTTTT
*
1772768 GGTTTCGCATTGCGA-TTTT
1 -GTTTCGCGTTGCGATTTTT
*
1772787 G--T--CGTTGCGATTTTC
1 GTTTCGCGTTGCGATTTTT
*
1772802 ATTTCGCGTTGCGATTTTT
1 GTTTCGCGTTGCGATTTTT
1772821 GTTTCGCGTTGCGATTTTT
1 GTTTCGCGTTGCGATTTTT
*
1772840 TTTTCGCGTTGCGATTTT
1 GTTTCGCGTTGCGATTTT
1772858 CATTTCAACC
Statistics
Matches: 77, Mismatches: 7, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
14 7 0.09
15 3 0.04
16 1 0.01
17 1 0.01
18 1 0.01
19 51 0.66
20 13 0.17
ACGTcount: A:0.07, C:0.17, G:0.25, T:0.51
Consensus pattern (19 bp):
GTTTCGCGTTGCGATTTTT
Found at i:1773179 original size:91 final size:92
Alignment explanation
Indices: 1772955--1773366 Score: 591
Period size: 91 Copynumber: 4.6 Consensus size: 92
1772945 GATTGCTGCA
* * * *
1772955 TTACTTCAACCAAAAGACAAAAC-AAGATAAATACT--CTTTAGAGTATTAAAG-AT--ACAG-T
1 TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTT
*
1773013 TAGCAAAATTGGCAGCAAACGAACAAAT
66 TAGC-AAATTGGCAGCAACCGAACAAAT
1773041 TTACTTTCAACC-AAAGACAAAACAAAGAC-AATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
1773104 TTAGC-AGTTGGCAGCAACCGAACAAAT
65 TTAGCAAATTGGCAGCAACCGAACAAAT
1773131 TTACTTTCAACCAAAAGAC-AAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
1773195 TTAGCCGAATTGGCAGCAACCGAACAAAT
65 TTAG-CAAATTGGCAGCAACCGAACAAAT
*
1773224 TTACTTC-ACCAAAAGACAAAACAAAGACAAATACT-ACTTCACAGTGTTAAAGAATACACGGTT
1 TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTT
*
1773287 TAGCAGAATT-GCAGCAACCGAATAAAT
66 TAGCA-AATTGGCAGCAACCGAACAAAT
1773314 TTACTTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTTAA
1 TTACTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAA
1773367 TAAATTTAGC
Statistics
Matches: 299, Mismatches: 10, Indels: 27
0.89 0.03 0.08
Matches are distributed among these distances:
86 21 0.07
87 11 0.04
88 13 0.04
89 2 0.01
90 66 0.22
91 107 0.36
92 39 0.13
93 40 0.13
ACGTcount: A:0.47, C:0.20, G:0.12, T:0.21
Consensus pattern (92 bp):
TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTT
TAGCAAATTGGCAGCAACCGAACAAAT
Found at i:1775070 original size:19 final size:20
Alignment explanation
Indices: 1775041--1775183 Score: 95
Period size: 19 Copynumber: 8.0 Consensus size: 20
1775031 TTTTGGTTGA
*
1775041 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGCGAG
1775061 AATG-AAATCGCAACGCG-G
1 AATGAAAATCGCAACGCGAG
** *
1775079 AAATGACTATCGCAA--CTAG
1 -AATGAAAATCGCAACGCGAG
1775098 -A-G--AATCGCAACGCGA-
1 AATGAAAATCGCAACGCGAG
*
1775113 AATGAAAATCCCAACGCGA-
1 AATGAAAATCGCAACGCGAG
1775132 AATGAAAATCGCAA--CGA-
1 AATGAAAATCGCAACGCGAG
*
1775149 AA-G--AATCGCAACGC-AA
1 AATGAAAATCGCAACGCGAG
*
1775165 AATGAAAATCGCAATGCGA
1 AATGAAAATCGCAACGCGA
1775184 TTTTGGTTTC
Statistics
Matches: 98, Mismatches: 9, Indels: 32
0.71 0.06 0.23
Matches are distributed among these distances:
14 15 0.15
15 1 0.01
16 8 0.08
17 8 0.08
18 2 0.02
19 52 0.53
20 12 0.12
ACGTcount: A:0.46, C:0.21, G:0.21, T:0.12
Consensus pattern (20 bp):
AATGAAAATCGCAACGCGAG
Found at i:1775082 original size:39 final size:37
Alignment explanation
Indices: 1775039--1775183 Score: 112
Period size: 33 Copynumber: 4.1 Consensus size: 37
1775029 TCTTTTGGTT
1775039 GAAATGAAAATCGCAACGAGAGAATGAAATCGCAACGC
1 GAAATGAAAATCGCAACG-GAGAATGAAATCGCAACGC
** *
1775077 GGAAATGACTATCGCAAC-TAG-A-G-AATCGCAACGC
1 -GAAATGAAAATCGCAACGGAGAATGAAATCGCAACGC
*
1775111 GAAATGAAAATCCCAACGCGA-AATGAAAATCGCAA--C
1 GAAATGAAAATCGCAACG-GAGAATG-AAATCGCAACGC
* * *
1775147 GAAA-G--AATCGCAACGCAAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGGAGAATG-AAATCGCAACGC
1775182 GA
1 GA
1775184 TTTTGGTTTC
Statistics
Matches: 88, Mismatches: 9, Indels: 22
0.74 0.08 0.18
Matches are distributed among these distances:
32 1 0.01
33 37 0.42
34 11 0.12
35 7 0.08
36 7 0.08
37 2 0.02
38 8 0.09
39 15 0.17
ACGTcount: A:0.46, C:0.21, G:0.21, T:0.12
Consensus pattern (37 bp):
GAAATGAAAATCGCAACGGAGAATGAAATCGCAACGC
Found at i:1775143 original size:52 final size:52
Alignment explanation
Indices: 1775047--1775183 Score: 177
Period size: 52 Copynumber: 2.6 Consensus size: 52
1775037 TTGAAATGAA
* ** * *
1775047 AATCGCAACGAGAGAATG-AAATCGCAACGCGGAAATGACTATCGCAACTAGAG
1 AATCGCAACGCGA-AATGAAAATCGCAACGC-GAAATGAAAATCGCAACGAAAG
*
1775100 AATCGCAACGCGAAATGAAAATCCCAACGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGAAAG
* *
1775152 AATCGCAACGCAAAATGAAAATCGCAATGCGA
1 AATCGCAACGCGAAATGAAAATCGCAACGCGA
1775184 TTTTGGTTTC
Statistics
Matches: 74, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
52 51 0.69
53 23 0.31
ACGTcount: A:0.45, C:0.22, G:0.21, T:0.12
Consensus pattern (52 bp):
AATCGCAACGCGAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:1775195 original size:19 final size:19
Alignment explanation
Indices: 1775179--1775286 Score: 108
Period size: 20 Copynumber: 5.5 Consensus size: 19
1775169 AAAATCGCAA
**
1775179 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTCATTTCGCGT
1775198 TGCGATTTTCATTTCGCGT
1 TGCGATTTTCATTTCGCGT
*
1775217 TGCGATTTTCATTTCTCTCGT
1 TGCGATTTTCA-TT-TCGCGT
** *
1775238 TGCGATAGTCATTTTCGTGT
1 TGCGATTTTCA-TTTCGCGT
**
1775258 TGCGATTTTCATTTTCATGT
1 TGCGATTTTCA-TTTCGCGT
1775278 TGCGATTTT
1 TGCGATTTT
1775287 AAGTTTAGAA
Statistics
Matches: 77, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
19 28 0.36
20 32 0.42
21 17 0.22
ACGTcount: A:0.11, C:0.18, G:0.21, T:0.50
Consensus pattern (19 bp):
TGCGATTTTCATTTCGCGT
Found at i:1775261 original size:20 final size:20
Alignment explanation
Indices: 1775190--1775286 Score: 117
Period size: 20 Copynumber: 4.8 Consensus size: 20
1775180 GCGATTTTGG
*
1775190 TTTCGCGTTGCGATTTTCA-
1 TTTCGTGTTGCGATTTTCAT
*
1775209 TTTCGCGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTCAT
**
1775229 TTCTC-TCGTTGCGATAGTCAT
1 TT-TCGT-GTTGCGATTTTCAT
1775250 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTCAT
*
1775270 TTTCATGTTGCGATTTT
1 TTTCGTGTTGCGATTTT
1775287 AAGTTTAGAA
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
19 19 0.28
20 32 0.47
21 17 0.25
ACGTcount: A:0.11, C:0.19, G:0.20, T:0.51
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTCAT
Found at i:1775835 original size:20 final size:20
Alignment explanation
Indices: 1775810--1775901 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
1775800 GCTATGTAAA
*
1775810 TCGCATTGCGATAGT-CAAAT
1 TCGCATTGCGAT-TTACAAAT
**
1775830 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTACAAAT
* *
1775850 TCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGA-TTTACAAAT
**
1775871 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTACAAAT
1775891 TCGCATTGCGA
1 TCGCATTGCGA
1775902 ATTAGGAAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
19 1 0.02
20 43 0.70
21 17 0.28
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.37
Consensus pattern (20 bp):
TCGCATTGCGATTTACAAAT
Found at i:1775879 original size:41 final size:40
Alignment explanation
Indices: 1775810--1775901 Score: 148
Period size: 41 Copynumber: 2.3 Consensus size: 40
1775800 GCTATGTAAA
1775810 TCGCATTGCGATAGTCAAATTCGCATTGCGATTTACGTAT
1 TCGCATTGCGATAGTCAAATTCGCATTGCGATTTACGTAT
** *
1775850 TCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGTAT
1 TCGCATTGCGATAGT-CAAATTCGCATTGCGATTTACGTAT
1775891 TCGCATTGCGA
1 TCGCATTGCGA
1775902 ATTAGGAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
40 13 0.27
41 35 0.73
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.37
Consensus pattern (40 bp):
TCGCATTGCGATAGTCAAATTCGCATTGCGATTTACGTAT
Found at i:1775916 original size:41 final size:41
Alignment explanation
Indices: 1775825--1775922 Score: 124
Period size: 41 Copynumber: 2.4 Consensus size: 41
1775815 TTGCGATAGT
* * *
1775825 CAAATTCGCATTGCGATTTACGTATTCGCATTGCGATTTTC
1 CAAAATCGCATTGCGATTTACGTATTCGCATTGCGAATTAC
* * *
1775866 CTAATTCGCATTGCGATTTACGTATTCGCATTGCGAATTAG
1 CAAAATCGCATTGCGATTTACGTATTCGCATTGCGAATTAC
* *
1775907 GAAAATCGCAATGCGA
1 CAAAATCGCATTGCGA
1775923 ATTTGGGAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (41 bp):
CAAAATCGCATTGCGATTTACGTATTCGCATTGCGAATTAC
Done.