Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005320.1 Hibiscus syriacus cultivar Beakdansim tig00012040_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: 539900
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 3
Found at i:539 original size:222 final size:223
Alignment explanation
Indices: 1--603 Score: 1059
Period size: 222 Copynumber: 2.7 Consensus size: 223
*
1 GAACTTCTTCTTCCTTCTTCAGA-GAGTTCTTCTCA-TATGAACTTCTCTGGCAAAACTAATCCA
1 GAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGCAAAAATAATCCA
64 TCAAGTGATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCT
66 TCAAGTGATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCT
**
129 TCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAAACTAATCATCAAGTGATGAATTCAGAC
131 TCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAAAAAAATCATCAAGTGATGAATTCAGAC
194 AAAAGGTTGAACAAATTCTTCTCATTAT
196 AAAAGGTTGAACAAATTCTTCTCATTAT
222 GAAC-T-TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGCAAAAATAATCCA
1 GAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGCAAAAATAATCCA
285 TCAAGTGATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCTTCTT
66 TCAAGTGATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTC--CTT
350 CTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAAAAAAATCCATCAAGTGATG-ATTCA
129 CTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAAAAAAAT-CATCAAGTGATGAATTCA
414 GACAAAAGG-TGAACAAATTCTTCTCATTAT
193 GACAAAAGGTTGAACAAATTCTTCTCATTAT
444 GAACTTCTTCTTCCTTCTTCAGATGAGTT-TT-TCATTATGAACCTTCTCTGGCAAAAAT-ATCC
1 GAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA-CTTCTCTGGCAAAAATAATCC
506 ATCAAGTGATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTC-TCCTTC
65 ATCAAGTGATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTC
570 TTCAGATGAG-TCTTCTCATTATGAA-CTTCTCTGG
130 TTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGG
604 AAATGTCAAT
Statistics
Matches: 371, Mismatches: 3, Indels: 20
0.94 0.01 0.05
Matches are distributed among these distances:
217 9 0.02
218 15 0.04
219 30 0.08
220 13 0.04
221 93 0.25
222 97 0.26
223 80 0.22
224 34 0.09
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (223 bp):
GAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGCAAAAATAATCCA
TCAAGTGATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCT
TCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAAAAAAATCATCAAGTGATGAATTCAGAC
AAAAGGTTGAACAAATTCTTCTCATTAT
Found at i:620 original size:110 final size:113
Alignment explanation
Indices: 1--603 Score: 1051
Period size: 110 Copynumber: 5.5 Consensus size: 113
*
1 GAACTTCTTCTTCCTTCTTCAGA-GAGTTCTTCTCA-TATGAA-CTTCTCTGGCAAAACTAATCC
1 GAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAAAAATAATCC
63 ATCAAGTGATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTAT
66 ATCAAGTGATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTAT
*
111 GAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGC-AAACTAAT-C
1 GAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAAAAATAATCC
174 ATCAAGTGATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTAT
66 ATCAAGTGATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTAT
222 GAAC-T-TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA-CTTCTCTGGCAAAAATAATCC
1 GAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAAAAATAATCC
284 ATCAAGTGATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTAT
66 ATCAAGTGATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTAT
332 GAACTTCTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAAAAA-AAT
1 GAACTTCTTCTTC--CTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAAAAATAAT
396 CCATCAAGTGATG-ATTCAGACAAAAGG-TGAACAAATTCTTCTCATTAT
64 CCATCAAGTGATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTAT
444 GAACTTCTTCTTCCTTCTTCAGATGAGTT-TT-TCATTATGAACCTTCTCTGGCAAAAAT-ATCC
1 GAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAAAAATAATCC
506 ATCAAGTGATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTAT
66 ATCAAGTGATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTAT
554 GAACTTCTTC-TCCTTCTTCAGATGAG-TCTTCTCATTATGAA-CTTCTCTGG
1 GAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGG
604 AAATGTCAAT
Statistics
Matches: 477, Mismatches: 1, Indels: 31
0.94 0.00 0.06
Matches are distributed among these distances:
108 52 0.11
109 86 0.18
110 134 0.28
111 66 0.14
112 54 0.11
113 24 0.05
114 46 0.10
115 15 0.03
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (113 bp):
GAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAAAAATAATCC
ATCAAGTGATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTAT
Found at i:1658 original size:162 final size:163
Alignment explanation
Indices: 1339--1789 Score: 791
Period size: 162 Copynumber: 2.8 Consensus size: 163
1329 AGTTCCTACC
* *
1339 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGTTATCAAATTCATCTTCCAAATTCAA
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAACAAATTCATCTTCCAAATTCAA
*
1404 TGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACA
66 TGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACAAA
1469 TTCATCTTCCAAATTCAATGATGGTTCTGTT-A
131 TTCATCTTCCAAATTCAATGATGGTTCTGTTAA
*
1501 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAACACATTCATCTTCCAAATTCAA
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAACAAATTCATCTTCCAAATTCAA
*
1566 TGATTGGTTCTG-CCAAACAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACAAA
66 TGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACAAA
1630 TTCATCTTCCAAATTCAATGATTGGTTCTGTTAAA
131 TTCATCTTCCAAATTCAATGA-TGGTTCTGTT-AA
1665 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA--A-CAAATTCATCTTCCAAATT
1730 CAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTT-CAGAAGATGCTAT
63 CAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1790 TGGCAATTCA
Statistics
Matches: 275, Mismatches: 7, Indels: 9
0.95 0.02 0.03
Matches are distributed among these distances:
161 71 0.26
162 84 0.31
164 43 0.16
166 1 0.00
167 46 0.17
168 30 0.11
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.26
Consensus pattern (163 bp):
AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAACAAATTCATCTTCCAAATTCAA
TGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACAAA
TTCATCTTCCAAATTCAATGATGGTTCTGTTAA
Found at i:1700 original size:85 final size:82
Alignment explanation
Indices: 1339--1789 Score: 727
Period size: 82 Copynumber: 5.5 Consensus size: 82
1329 AGTTCCTACC
*
1339 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG-T-TATCAAATTCATCTTCCAAATTC
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATAACAAATTCATCTTCCAAATTC
*
1402 AATGATTGGTTCTGTCC
66 AATGATTGGTTCTGTCA
*
1419 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT-AACAAATTCATCTTCCAAATT
*
1484 CAATGA-TGGTTCTGTTA
65 CAATGATTGGTTCTGTCA
*
1501 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGC--TAACACATTCATCTTCCAAATTC
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATAACAAATTCATCTTCCAAATTC
*
1564 AATGATTGGTTCTGCCA
66 AATGATTGGTTCTGTCA
1581 AA-CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACAAATTCATCTTCCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT-AACAAATTCATCTTCCAAATT
*
1645 CAATGATTGGTTCTGTTAAA
65 CAATGATTGGTTCTG-T-CA
*
1665 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TAACAAATTCATCTTCCAAATT
*
1730 CAATGATTGGTTCTGTCC
65 CAATGATTGGTTCTGTCA
1748 AACCAGATCAGATAACTCAAAGAACACTT-CAGAAGATGCTAT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1790 TGGCAATTCA
Statistics
Matches: 348, Mismatches: 12, Indels: 21
0.91 0.03 0.06
Matches are distributed among these distances:
79 64 0.18
80 51 0.15
81 3 0.01
82 97 0.28
83 54 0.16
84 4 0.01
85 74 0.21
86 1 0.00
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.26
Consensus pattern (82 bp):
AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATAACAAATTCATCTTCCAAATTC
AATGATTGGTTCTGTCA
Found at i:2914 original size:1 final size:1
Alignment explanation
Indices: 2903--2945 Score: 50
Period size: 1 Copynumber: 43.0 Consensus size: 1
2893 CTTGACCCTC
* * * *
2903 TTTTCTTTTTTTTTCTTTTTTTTTCTTTTTTTTTCTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2946 CTTTCATTCA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (1 bp):
T
Found at i:2921 original size:9 final size:10
Alignment explanation
Indices: 2903--2949 Score: 87
Period size: 10 Copynumber: 4.8 Consensus size: 10
2893 CTTGACCCTC
2903 TTTTCTTTTT
1 TTTTCTTTTT
2913 TTTTCTTTTT
1 TTTTCTTTTT
2923 TTTTCTTTTT
1 TTTTCTTTTT
2933 TTTTC-TTTT
1 TTTTCTTTTT
2942 TTTTCTTT
1 TTTTCTTT
2950 CATTCAGCAT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.25
10 27 0.75
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:14235 original size:14 final size:14
Alignment explanation
Indices: 14218--14248 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
14208 AAACTAAATA
14218 TTAAAATAATTTAT
1 TTAAAATAATTTAT
14232 TTAAAATAATTTAT
1 TTAAAATAATTTAT
14246 TTA
1 TTA
14249 TTATATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TTAAAATAATTTAT
Found at i:15683 original size:3 final size:3
Alignment explanation
Indices: 15675--15741 Score: 118
Period size: 3 Copynumber: 22.7 Consensus size: 3
15665 AATATATATT
*
15675 TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
15723 TAA TAA TAA TAA TAA -AA TA
1 TAA TAA TAA TAA TAA TAA TA
15742 TGGGTAAAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
2 2 0.03
3 59 0.97
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:19033 original size:20 final size:20
Alignment explanation
Indices: 19008--19053 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
18998 GACCTGTCAC
19008 CGGTTCGGGTCAGGTCAAAT
1 CGGTTCGGGTCAGGTCAAAT
*
19028 CGGTTCGGGTTAGGTCAAAT
1 CGGTTCGGGTCAGGTCAAAT
19048 CGGTTC
1 CGGTTC
19054 CAGAAATTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.17, C:0.20, G:0.35, T:0.28
Consensus pattern (20 bp):
CGGTTCGGGTCAGGTCAAAT
Found at i:19791 original size:2 final size:2
Alignment explanation
Indices: 19784--19820 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
19774 TATAACCATG
19784 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
19821 CAGCGCATCC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:22165 original size:3 final size:3
Alignment explanation
Indices: 22157--22185 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
22147 CACGTCATAG
22157 AAT AAT AAT AAT AAT AAT AAT AA- AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
22186 TTGTTGCGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:33354 original size:21 final size:21
Alignment explanation
Indices: 33321--33373 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
33311 ATTCTGACTA
33321 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* * *
33342 TCGCGTTGTGATTTTCCTAAT
1 TCGCATTGCGATTTTCCAAAT
*
33363 TCGCAATGCGA
1 TCGCATTGCGA
33374 ATACGTAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:33388 original size:20 final size:20
Alignment explanation
Indices: 33363--33415 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
33353 TTTTCCTAAT
33363 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
33383 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
33403 TCGCAACGCGAAT
1 TCGCAATGCGAAT
33416 CTGACTATCG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.19
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:33614 original size:22 final size:22
Alignment explanation
Indices: 33586--33649 Score: 101
Period size: 22 Copynumber: 2.9 Consensus size: 22
33576 TCACATCCGA
33586 CCCCATCTCCGACGAAATCAGT
1 CCCCATCTCCGACGAAATCAGT
*
33608 CCCCATCTCCGACGATATCAGT
1 CCCCATCTCCGACGAAATCAGT
* *
33630 CTCCATCTCCGGCGAAATCA
1 CCCCATCTCCGACGAAATCA
33650 TTCACGGTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.25, C:0.41, G:0.14, T:0.20
Consensus pattern (22 bp):
CCCCATCTCCGACGAAATCAGT
Found at i:34053 original size:20 final size:20
Alignment explanation
Indices: 33986--34055 Score: 97
Period size: 20 Copynumber: 3.5 Consensus size: 20
33976 CGATTCTGTC
* *
33986 GTTGTGATTTTCA-TTTCGC
1 GTTGCGATTTTCATTTTCGT
**
34005 GTTGCGATAGTCATTTTCGT
1 GTTGCGATTTTCATTTTCGT
34025 GTTGCGATTTTCATTTTCGT
1 GTTGCGATTTTCATTTTCGT
34045 GTTGCGATTTT
1 GTTGCGATTTT
34056 AAGTTTCAGA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
19 10 0.23
20 34 0.77
ACGTcount: A:0.11, C:0.14, G:0.23, T:0.51
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCGT
Found at i:34062 original size:20 final size:20
Alignment explanation
Indices: 34019--34062 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
34009 CGATAGTCAT
* *
34019 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTAAG
34039 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
34059 TTTC
1 TTTC
34063 AGAAACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.14, G:0.20, T:0.55
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Found at i:35950 original size:20 final size:20
Alignment explanation
Indices: 35925--36061 Score: 95
Period size: 20 Copynumber: 7.5 Consensus size: 20
35915 AGAATAGTTT
35925 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
35945 ACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
35965 ACTATCGCAA--CG-AGA-G
1 ACTATCGCAATGCGAAAATG
*
35981 A--ATCGCAATACG-AAATG
1 ACTATCGCAATGCGAAAATG
**
35998 AAAATCGCAA--C-AACAA--
1 ACTATCGCAATGCGAA-AATG
*
36014 A--ATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
**
36032 ACTATCGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
36052 ACTATCGCAA
1 ACTATCGCAA
36062 CGAAAGAATC
Statistics
Matches: 97, Mismatches: 6, Indels: 28
0.74 0.05 0.21
Matches are distributed among these distances:
14 14 0.14
16 10 0.10
17 8 0.08
18 5 0.05
19 7 0.07
20 53 0.55
ACGTcount: A:0.42, C:0.23, G:0.18, T:0.17
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:36028 original size:33 final size:33
Alignment explanation
Indices: 35948--36028 Score: 90
Period size: 33 Copynumber: 2.4 Consensus size: 33
35938 GAAAATGACT
** * * *
35948 ATCGCAACGCGAAAATGACTATCGCAACGAGAGA
1 ATCGCAACGCG-AAATGAAAATCGCAACAACAAA
**
35982 ATCGCAATACGAAATGAAAATCGCAACAACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACAACAAA
36015 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
36029 ATGACTATCG
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
33 29 0.76
34 9 0.24
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACAACAAA
Found at i:36074 original size:87 final size:87
Alignment explanation
Indices: 35928--36093 Score: 278
Period size: 87 Copynumber: 1.9 Consensus size: 87
35918 ATAGTTTACT
* *
35928 ATCGCAATGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACGAGAGAATCGCAATACG
1 ATCGCAACGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACGAAAGAATCGCAATACG
35993 AAATGAAAATCGCAACAACAAA
66 AAATGAAAATCGCAACAACAAA
* ** *
36015 ATCGCAACGCGAAAATGACTATCGCAATGCGAATTTGACTATCGCAACGAAAGAATCGCAATGCG
1 ATCGCAACGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACGAAAGAATCGCAATACG
36080 AAATGAAAATCGCA
66 AAATGAAAATCGCA
36094 TTGTGATTCT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 73 1.00
ACGTcount: A:0.43, C:0.22, G:0.19, T:0.16
Consensus pattern (87 bp):
ATCGCAACGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACGAAAGAATCGCAATACG
AAATGAAAATCGCAACAACAAA
Found at i:36133 original size:20 final size:20
Alignment explanation
Indices: 36108--36314 Score: 237
Period size: 20 Copynumber: 10.6 Consensus size: 20
36098 GATTCTCTCG
** *
36108 TTGCGATAGTCAAATTCACA
1 TTGCGATAGTCATTTTCGCA
36128 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
36148 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
36168 TTGCGATAGTCATTTTCGCGCA
1 TTGCGATAGTCATTTT--CGCA
*
36190 TTGCGAT--TC--TCTCG--
1 TTGCGATAGTCATTTTCGCA
**
36204 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
** *
36224 TTGCGATAGTCAAATTCGAA
1 TTGCGATAGTCATTTTCGCA
*
36244 TTGCGATAGTTATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
36264 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
*
36284 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
36304 TTGCGATAGTC
1 TTGCGATAGTC
36315 TTCTTCTGCA
Statistics
Matches: 164, Mismatches: 15, Indels: 16
0.84 0.08 0.08
Matches are distributed among these distances:
14 7 0.04
16 4 0.02
18 5 0.03
20 138 0.84
22 10 0.06
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.37
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:36259 original size:76 final size:74
Alignment explanation
Indices: 36128--36270 Score: 205
Period size: 76 Copynumber: 1.9 Consensus size: 74
36118 CAAATTCACA
** ** **
36128 TTGCGATAGTCATTTTCGCATTGCGATAGTCATTTTCGCGTTGCGATAGTCATTTTCGCGCATTG
1 TTGCGATAGTCAAATTCGCATTGCGATAGTCAAATTCGAATTGCGATAGTCATTTT--CGCATTG
36193 CGATTCTCTCG
64 CGATTCTCTCG
*
36204 TTGCGATAGTCAAATTCGCATTGCGATAGTCAAATTCGAATTGCGATAGTTATTTTCGCATTGCG
1 TTGCGATAGTCAAATTCGCATTGCGATAGTCAAATTCGAATTGCGATAGTCATTTTCGCATTGCG
36269 AT
66 AT
36271 AGTCATTTTC
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
74 11 0.18
76 49 0.82
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.38
Consensus pattern (74 bp):
TTGCGATAGTCAAATTCGCATTGCGATAGTCAAATTCGAATTGCGATAGTCATTTTCGCATTGCG
ATTCTCTCG
Found at i:36259 original size:96 final size:96
Alignment explanation
Indices: 36090--36290 Score: 325
Period size: 96 Copynumber: 2.1 Consensus size: 96
36080 AAATGAAAAT
* ** *
36090 CGCATTGTGATTCTCTCGTTGCGATAGTCAAATTCACATTGCGATAGTCATTTTCGCATTGCGAT
1 CGCATTGCGATTCTCTCGTTGCGATAGTCAAATTCACATTGCGATAGTCAAATTCGAATTGCGAT
*
36155 AGTCATTTTCGCGTTGCGATAGTCATTTTCG
66 AGTCATTTTCGCATTGCGATAGTCATTTTCG
*
36186 CGCATTGCGATTCTCTCGTTGCGATAGTCAAATTCGCATTGCGATAGTCAAATTCGAATTGCGAT
1 CGCATTGCGATTCTCTCGTTGCGATAGTCAAATTCACATTGCGATAGTCAAATTCGAATTGCGAT
*
36251 AGTTATTTTCGCATTGCGATAGTCATTTTCG
66 AGTCATTTTCGCATTGCGATAGTCATTTTCG
36282 CG--TTGCGAT
1 CGCATTGCGAT
36291 AGTCATTTTC
Statistics
Matches: 98, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
94 7 0.07
96 91 0.93
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.37
Consensus pattern (96 bp):
CGCATTGCGATTCTCTCGTTGCGATAGTCAAATTCACATTGCGATAGTCAAATTCGAATTGCGAT
AGTCATTTTCGCATTGCGATAGTCATTTTCG
Found at i:36864 original size:21 final size:20
Alignment explanation
Indices: 36776--36877 Score: 82
Period size: 21 Copynumber: 5.0 Consensus size: 20
36766 GACTCACCTG
36776 TCATCGTTCAAGAGG-CCTC
1 TCATCGTTCAAGAGGCCCTC
*
36795 CCTATCGTTCAAGAGGCCC-C
1 TC-ATCGTTCAAGAGGCCCTC
** *
36815 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAG-GCCCTC
* * *
36836 CCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCC-CTC
*
36857 TCATCGTTGAAGAGGTCCCTC
1 TCATCGTTCAAGAGG-CCCTC
36878 CCAACATTCT
Statistics
Matches: 62, Mismatches: 15, Indels: 10
0.71 0.17 0.11
Matches are distributed among these distances:
19 11 0.18
20 20 0.32
21 29 0.47
22 2 0.03
ACGTcount: A:0.21, C:0.37, G:0.20, T:0.23
Consensus pattern (20 bp):
TCATCGTTCAAGAGGCCCTC
Found at i:38279 original size:14 final size:14
Alignment explanation
Indices: 38260--38295 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
38250 ATTGTTTAAT
38260 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
38274 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
38288 TGATTTGT
1 TGATTTGT
38296 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:38503 original size:33 final size:33
Alignment explanation
Indices: 38436--38514 Score: 104
Period size: 33 Copynumber: 2.4 Consensus size: 33
38426 AACGAGAGAA
* ** *
38436 TCGCAATGCGATTCTCTCGTTGCGATTTTTATT
1 TCGCATTGCGATTCTCTCGTTGCGATAGTCATT
38469 TCGCATTGCGATTCTCTCGTTGCGATAGTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATAGTCATT
*
38502 TCCGCGTTGCGAT
1 T-CGCATTGCGAT
38515 AGTCAATTCC
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
33 30 0.75
34 10 0.25
ACGTcount: A:0.14, C:0.24, G:0.22, T:0.41
Consensus pattern (33 bp):
TCGCATTGCGATTCTCTCGTTGCGATAGTCATT
Found at i:38511 original size:20 final size:20
Alignment explanation
Indices: 38486--38574 Score: 144
Period size: 20 Copynumber: 4.5 Consensus size: 20
38476 GCGATTCTCT
*
38486 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCAATTCCG
38506 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCAATTCCG
*
38526 TGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCAATTCCG
38546 CGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCA-ATTCCG
38566 CGTTGCGAT
1 CGTTGCGAT
38575 TTCCGCGTTG
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
20 62 0.95
21 3 0.05
ACGTcount: A:0.18, C:0.22, G:0.26, T:0.34
Consensus pattern (20 bp):
CGTTGCGATAGTCAATTCCG
Found at i:41068 original size:24 final size:24
Alignment explanation
Indices: 41017--41068 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
41007 ATCCGAGTAT
** *
41017 TGACCAAGATCAAAGTCTGGGTAT
1 TGACCAAGATCAAAGTCTGAATAC
* *
41041 TGACCAAGATCAAATTTTGAATAC
1 TGACCAAGATCAAAGTCTGAATAC
41065 TGAC
1 TGAC
41069 TAGTACTCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (24 bp):
TGACCAAGATCAAAGTCTGAATAC
Found at i:41232 original size:19 final size:19
Alignment explanation
Indices: 41208--41251 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
41198 ATTGGAAATG
41208 TGGTGAAACAATATTTGCT
1 TGGTGAAACAATATTTGCT
*
41227 TGGTGAAACAATATTTGTT
1 TGGTGAAACAATATTTGCT
41246 TGGTGA
1 TGGTGA
41252 TGAAATTGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.30, C:0.07, G:0.25, T:0.39
Consensus pattern (19 bp):
TGGTGAAACAATATTTGCT
Found at i:41956 original size:20 final size:20
Alignment explanation
Indices: 41915--41957 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
41905 AAATTCAGTA
*
41915 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCGCG
*
41935 TTGCGATAGTCAGATTCGCG
1 TTGCGATAGTCAGAATCGCG
41955 TTG
1 TTG
41958 TGATTTACGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.33
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCGCG
Found at i:41971 original size:20 final size:20
Alignment explanation
Indices: 41948--42060 Score: 208
Period size: 20 Copynumber: 5.7 Consensus size: 20
41938 CGATAGTCAG
* *
41948 ATTCGCGTTGTGATTTACGT
1 ATTCGCATTGCGATTTACGT
41968 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
41988 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
42008 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
42028 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
42048 ATTCGCATTGCGA
1 ATTCGCATTGCGA
42061 ATTAGGAAAA
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 91 1.00
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.40
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:42093 original size:20 final size:21
Alignment explanation
Indices: 42057--42101 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
42047 TATTCGCATT
42057 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* *
42078 GCGAATTTGG-AAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
42098 GCGA
1 GCGA
42102 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.38, C:0.18, G:0.27, T:0.18
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:42559 original size:45 final size:45
Alignment explanation
Indices: 42508--42606 Score: 116
Period size: 45 Copynumber: 2.2 Consensus size: 45
42498 AAAACAAATG
*
42508 AAATAAAGAAGAT-AAGATAAAGA-AAGTAAAAAAAGATAAAT-AA-AA
1 AAATAAAAAAGATAAAG-TAAAGATAA--AAAAAAAGA-AAATGAATAA
42553 AAATAAAAAAGATAAAGTAAAGATAAAAAAAAAGAAAATGGAATAA
1 AAATAAAAAAGATAAAGTAAAGATAAAAAAAAAGAAAAT-GAATAA
42599 AAATAAAA
1 AAATAAAA
42607 TAAAAAAATA
Statistics
Matches: 48, Mismatches: 1, Indels: 9
0.83 0.02 0.16
Matches are distributed among these distances:
43 4 0.08
44 9 0.19
45 20 0.42
46 15 0.31
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.13
Consensus pattern (45 bp):
AAATAAAAAAGATAAAGTAAAGATAAAAAAAAAGAAAATGAATAA
Found at i:42573 original size:14 final size:13
Alignment explanation
Indices: 42534--42789 Score: 67
Period size: 15 Copynumber: 17.9 Consensus size: 13
42524 ATAAAGAAAG
42534 TAAAAAAAGATAAA
1 TAAAAAAA-ATAAA
42548 T-AAAAAAATAAA
1 TAAAAAAAATAAA
*
42560 -AAAGATAAAGTAAAGA
1 TAAA-A-AAAAT-AA-A
*
42576 TAAAAAAAAAGAAAA
1 T-AAAAAAAA-TAAA
*
42591 TGGAATAAAAATAAAA
1 T--AAAAAAAAT-AAA
*
42607 TAAAAAAATACCAAA
1 TAAAAAAA-A-TAAA
*
42622 TAAAGAAAATAATA
1 TAAAAAAAATAA-A
*
42636 GTAAAAATAATATATA
1 -TAAAAA-AA-ATAAA
42652 TAATAAATAAATAAA
1 TAA-AAA-AAATAAA
* *
42667 TAAATAACAACAAGA
1 TAAA-AAAAATAA-A
*
42682 -AGAAAATAA-AAA
1 TA-AAAAAAATAAA
42694 TAAAAAATATATAAA
1 TAAAAAA-A-ATAAA
*
42709 -AAAACAAATGAAA
1 TAAAAAAAAT-AAA
*
42722 TAAAGATAAAAAAAA
1 TAAA-A-AAAATAAA
*
42737 TAAAATAAGATAAA
1 TAAAA-AAAATAAA
* *
42751 TAAGATAAAGAGAAA
1 TAA-A-AAAAATAAA
42766 -AAAAATAAA-AAA
1 TAAAAA-AAATAAA
42778 TAAAAAAAATAA
1 TAAAAAAAATAA
42790 TATATATATA
Statistics
Matches: 185, Mismatches: 24, Indels: 67
0.67 0.09 0.24
Matches are distributed among these distances:
12 22 0.12
13 27 0.15
14 45 0.24
15 54 0.29
16 30 0.16
17 4 0.02
18 3 0.02
ACGTcount: A:0.75, C:0.02, G:0.07, T:0.16
Consensus pattern (13 bp):
TAAAAAAAATAAA
Found at i:42660 original size:57 final size:54
Alignment explanation
Indices: 42595--42717 Score: 133
Period size: 56 Copynumber: 2.2 Consensus size: 54
42585 AGAAAATGGA
* * *
42595 ATAAAAATAAAATAAAAAAATACCAA-ATA-AAGAAAATAATAGTAAAAATAATATAT
1 ATAAAAAT-AAATAAAAAAATAACAACA-AGAAGAAAATAAAAAT-AAAA-AATATAT
*
42651 ATAATAAATAAATAAATAAATAACAACAAGAAGAAAATAAAAATAAAAAATATAT
1 ATAA-AAATAAATAAAAAAATAACAACAAGAAGAAAATAAAAATAAAAAATATAT
* *
42706 AAAAAAACAAAT
1 ATAAAAATAAAT
42718 GAAATAAAGA
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
54 7 0.12
55 10 0.17
56 24 0.41
57 17 0.29
ACGTcount: A:0.73, C:0.04, G:0.03, T:0.20
Consensus pattern (54 bp):
ATAAAAATAAATAAAAAAATAACAACAAGAAGAAAATAAAAATAAAAAATATAT
Found at i:42737 original size:20 final size:20
Alignment explanation
Indices: 42708--42750 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 20
42698 AAATATATAA
*
42708 AAAAACAAATGAAATAAAGAT
1 AAAAACAAATAAAAT-AAGAT
42729 AAAAA-AAATAAAATAAGAT
1 AAAAACAAATAAAATAAGAT
42748 AAA
1 AAA
42751 TAAGATAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.38
20 8 0.38
21 5 0.24
ACGTcount: A:0.77, C:0.02, G:0.07, T:0.14
Consensus pattern (20 bp):
AAAAACAAATAAAATAAGAT
Found at i:42741 original size:9 final size:9
Alignment explanation
Indices: 42479--42789 Score: 58
Period size: 9 Copynumber: 32.1 Consensus size: 9
42469 GTTTATTTTT
42479 AAAAAAATA
1 AAAAAAATA
*
42488 AAGAAAATAA
1 AAAAAAAT-A
*
42498 AAAACAAATG
1 AAAA-AAATA
* *
42508 AAATAAAGA
1 AAAAAAATA
* *
42517 AGATAAGATA
1 A-AAAAAATA
* *
42527 AAGAAAGTA
1 AAAAAAATA
42536 AAAAAAGATAAA
1 AAAAAA-AT--A
42548 TAAAAAAATA
1 -AAAAAAATA
*
42558 AAAAAGATA
1 AAAAAAATA
*
42567 AAGTAAAGATA
1 AA--AAAAATA
42578 AAAAAAA-A
1 AAAAAAATA
* ***
42586 GAAAATGGA
1 AAAAAAATA
*
42595 ATAAAAATA
1 AAAAAAATA
42604 AAATAAAA-A
1 AAA-AAAATA
*
42613 AATACCAAATA
1 AA-A-AAAATA
*
42624 AAGAAAATA
1 AAAAAAATA
42633 ATAGTAAAAATA
1 A-A--AAAAATA
* * *
42645 ATATATATA
1 AAAAAAATA
42654 ATAAATAAATA
1 A-AAA-AAATA
*
42665 AATAAATAACA
1 AA-AAA-AATA
42676 ACAAGAAGAA-A
1 A-AA-AA-AATA
*
42687 ATAAAAATA
1 AAAAAAATA
*
42696 AAAAATATA
1 AAAAAAATA
*
42705 TAAAAAAACA
1 -AAAAAAATA
**
42715 AATGAAATA
1 AAAAAAATA
42724 AAGATAAAA-A
1 AA-A-AAAATA
42734 AAATAAAATA
1 AAA-AAAATA
* *
42744 AGATAAATA
1 AAAAAAATA
* *
42753 AGATAAAGAGA
1 A-A-AAAAATA
42764 AAAAAAAT-
1 AAAAAAATA
42772 -AAAAAATA
1 AAAAAAATA
42780 AAAAAAATA
1 AAAAAAATA
42789 A
1 A
42790 TATATATATA
Statistics
Matches: 214, Mismatches: 57, Indels: 62
0.64 0.17 0.19
Matches are distributed among these distances:
7 7 0.03
8 7 0.03
9 100 0.47
10 41 0.19
11 38 0.18
12 15 0.07
13 6 0.03
ACGTcount: A:0.75, C:0.02, G:0.08, T:0.15
Consensus pattern (9 bp):
AAAAAAATA
Found at i:42825 original size:4 final size:4
Alignment explanation
Indices: 42640--42781 Score: 54
Period size: 4 Copynumber: 35.8 Consensus size: 4
42630 ATAATAGTAA
* *
42640 AAAT -AAT ATAT ATAAT AAAT AAAT AAAT AAAT AACA- ACAAG AAGA-
1 AAAT AAAT AAAT A-AAT AAAT AAAT AAAT AAAT AA-AT A-AAT AA-AT
* * * *
42685 AAAT -AA- AAAT AAA- AAAT ATAT AAAA AAAC AAAT GAAAT AAAG ATAA-
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAAT A-AAT
*
42731 AAA- AAAT AAAAT AAGAT AAAT AAGAT AAAG AGAA- AAA- AAAT AAA-
1 AAAT AAAT -AAAT AA-AT AAAT AA-AT AAAT A-AAT AAAT AAAT AAAT
42775 AAAT AAA
1 AAAT AAA
42782 AAAAATAATA
Statistics
Matches: 110, Mismatches: 9, Indels: 38
0.70 0.06 0.24
Matches are distributed among these distances:
3 24 0.22
4 59 0.54
5 27 0.25
ACGTcount: A:0.75, C:0.02, G:0.06, T:0.18
Consensus pattern (4 bp):
AAAT
Found at i:43306 original size:24 final size:25
Alignment explanation
Indices: 43274--43328 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
43264 TATAATATGT
*
43274 ATTTATCTCACT-AT-AATTTTATAA
1 ATTTATCTC-CTAATAAATTTTAAAA
*
43298 ATTTATCTCTTAATAAATTTTAAAA
1 ATTTATCTCCTAATAAATTTTAAAA
43323 ATTTAT
1 ATTTAT
43329 TATTTAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 1 0.04
24 11 0.41
25 15 0.56
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (25 bp):
ATTTATCTCCTAATAAATTTTAAAA
Found at i:44170 original size:12 final size:11
Alignment explanation
Indices: 44143--44167 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
44133 GATATTTTAA
44143 TTTAATTTTTT
1 TTTAATTTTTT
44154 TTTAATTTTTT
1 TTTAATTTTTT
44165 TTT
1 TTT
44168 TAAATATTGA
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTAATTTTTT
Found at i:45474 original size:24 final size:24
Alignment explanation
Indices: 45447--45499 Score: 90
Period size: 23 Copynumber: 2.2 Consensus size: 24
45437 GAAGTGCCAT
*
45447 ATAGAATTTGTCTCGAAGGACCAC
1 ATAGAATTTGTCCCGAAGGACCAC
45471 ATAG-ATTTGTCCCGAAGGACCAC
1 ATAGAATTTGTCCCGAAGGACCAC
45494 ATAGAA
1 ATAGAA
45500 CCCTTGACTC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 22 0.81
24 5 0.19
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.23
Consensus pattern (24 bp):
ATAGAATTTGTCCCGAAGGACCAC
Found at i:45753 original size:20 final size:20
Alignment explanation
Indices: 45728--45766 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
45718 ACATGTTCAT
45728 ATATATATATATATAGTATA
1 ATATATATATATATAGTATA
*
45748 ATATATATATTTATAGTAT
1 ATATATATATATATAGTAT
45767 TTCCATATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (20 bp):
ATATATATATATATAGTATA
Found at i:46335 original size:20 final size:20
Alignment explanation
Indices: 46310--46362 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
46300 TTTCAATTAC
46310 AGTATCGATACCTTACTCTT
1 AGTATCGATACCTTACTCTT
*
46330 AGTATCAATACCTTACTCTT
1 AGTATCGATACCTTACTCTT
*
46350 GGTATCGATACCT
1 AGTATCGATACCT
46363 CCACATCAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.26, C:0.25, G:0.11, T:0.38
Consensus pattern (20 bp):
AGTATCGATACCTTACTCTT
Found at i:47653 original size:11 final size:11
Alignment explanation
Indices: 47637--47663 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
47627 GAAATATCAC
47637 CTTAAGGTTAT
1 CTTAAGGTTAT
47648 CTTAAGGTTAT
1 CTTAAGGTTAT
47659 CTTAA
1 CTTAA
47664 ATAATCTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.44
Consensus pattern (11 bp):
CTTAAGGTTAT
Found at i:49492 original size:46 final size:46
Alignment explanation
Indices: 49431--49546 Score: 178
Period size: 46 Copynumber: 2.5 Consensus size: 46
49421 CATTTGTGGT
* *
49431 ATCCTTTCATGCCAATTATGCACTGTTATACATTTTTATTTAAGGC
1 ATCCTTTCATGCCAATTATGCACTGTTATACACTTTCATTTAAGGC
* * *
49477 ATCCTTGCATACCAATTATGCACTGTTATACACTTTCATTTATGGC
1 ATCCTTTCATGCCAATTATGCACTGTTATACACTTTCATTTAAGGC
*
49523 ATCCTTTCATGCCAATTATACACT
1 ATCCTTTCATGCCAATTATGCACT
49547 TTTCTTCATC
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 62 1.00
ACGTcount: A:0.27, C:0.23, G:0.09, T:0.41
Consensus pattern (46 bp):
ATCCTTTCATGCCAATTATGCACTGTTATACACTTTCATTTAAGGC
Found at i:50026 original size:57 final size:56
Alignment explanation
Indices: 49838--50063 Score: 314
Period size: 55 Copynumber: 4.1 Consensus size: 56
49828 GCACATCCAC
* * * *
49838 TACCAATACG-AAATTCATAAACTTATTATGAATTTCTTAG-TTTTGTATACACAG
1 TACCCATACGAAAATTCATAAACTCATTATGAATTTCTTAGTTTTTGCACACACAG
* * *
49892 TGCCCATACGAAAATTCATAAACTTATTATGAATTTCTTAATTTTT-CACACACAG
1 TACCCATACGAAAATTCATAAACTCATTATGAATTTCTTAGTTTTTGCACACACAG
** * *
49947 TGTCCATACGGAAATTCATAAACTCATTATGAATTTCTTAGTTTTTTGCACACAAAG
1 TACCCATACGAAAATTCATAAACTCATTATGAATTTCTTAG-TTTTTGCACACACAG
*
50004 TACCCATACGAAAATTTATAAACTCATTATGAATTTCTTAGTTTTTGCACACACAG
1 TACCCATACGAAAATTCATAAACTCATTATGAATTTCTTAGTTTTTGCACACACAG
50060 TACC
1 TACC
50064 ATTTGGTAAT
Statistics
Matches: 153, Mismatches: 15, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
54 8 0.05
55 73 0.48
56 27 0.18
57 45 0.29
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (56 bp):
TACCCATACGAAAATTCATAAACTCATTATGAATTTCTTAGTTTTTGCACACACAG
Found at i:50042 original size:112 final size:110
Alignment explanation
Indices: 49843--50060 Score: 330
Period size: 112 Copynumber: 2.0 Consensus size: 110
49833 TCCACTACCA
* * * * *
49843 ATACGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGTATACACAGTGCCCATACGAAAATT
1 ATACGAAATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTACCCATACGAAAATT
*
49908 CATAAACTTATTATGAATTTCTTAATTTTT-CACACACAGTGTCC
66 CATAAACTCATTATGAATTTCTTAATTTTTGCACACACAGTGTCC
49952 ATACGGAAATTCATAAACTCATTATGAATTTCTTAGTTTTTTGCACACAAAGTACCCATACGAAA
1 ATAC-GAAATTCATAAACTCATTATGAATTTCTTAG--TTTTGCACACAAAGTACCCATACGAAA
* *
50017 ATTTATAAACTCATTATGAATTTCTTAGTTTTTGCACACACAGT
63 ATTCATAAACTCATTATGAATTTCTTAATTTTTGCACACACAGT
50061 ACCATTTGGT
Statistics
Matches: 97, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
109 4 0.04
110 30 0.31
112 53 0.55
113 10 0.10
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (110 bp):
ATACGAAATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTACCCATACGAAAATT
CATAAACTCATTATGAATTTCTTAATTTTTGCACACACAGTGTCC
Found at i:54395 original size:46 final size:46
Alignment explanation
Indices: 54272--54402 Score: 156
Period size: 46 Copynumber: 2.8 Consensus size: 46
54262 ATCGCTATGT
* * * * * * * * *
54272 ATTTTCATTTGTGGTATCATTTCATGCCAATAAAGTATTGTTATAT
1 ATTTTCATTTATGGCATCCTTTCATGCCAATTATGCACTATTATAC
*
54318 ATTTTCATTTATGGCATCCTTTCATACCAATTATGCACTATTATAC
1 ATTTTCATTTATGGCATCCTTTCATGCCAATTATGCACTATTATAC
54364 ATTTTCATTTATGG-ATCCCTTTCATGCCAATTATGCACT
1 ATTTTCATTTATGGCAT-CCTTTCATGCCAATTATGCACT
54403 GTTCTTCATC
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
45 2 0.03
46 71 0.97
ACGTcount: A:0.27, C:0.18, G:0.10, T:0.45
Consensus pattern (46 bp):
ATTTTCATTTATGGCATCCTTTCATGCCAATTATGCACTATTATAC
Found at i:54940 original size:164 final size:165
Alignment explanation
Indices: 54704--55248 Score: 751
Period size: 164 Copynumber: 3.3 Consensus size: 165
54694 ACTAATAAAG
* *
54704 AAATTCATAAACTTATTATGAATTTCTTA-ATTTT-CACACACAGTTCCCATACGGAAATTCATA
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACACAGTGCCCATACGGAAATTCATA
54767 AACTTATTATGAATTTCTTAGTTTTGCATACACAATGCCCACACAGAAATTCATAAACATATTAT
66 AACTTATTATGAATTTCTTAGTTTTGCATACACAATGCCCACACAGAAATTCATAAAC-TATTAT
* * *
54832 GAATTTTTTAATTTTTCACACATAGTGCCCATACAA
130 GAATTTCTTAATTTTTCACACAAAGTGCCCATACGA
* *
54868 AAATTCATAAACTTATTATGAATTT-TTAG-TTTTGCACACACAATGCCCATAAGGAAATTCATA
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACACAGTGCCCATACGGAAATTCATA
* *
54931 AACTTATTATGAATTTCTTAGTTTTGCACACACAATGCCCACACGGAAATTCATAAACTTATTAT
66 AACTTATTATGAATTTCTTAGTTTTGCATACACAATGCCCACACAGAAATTCATAAAC-TATTAT
* *
54996 GAATTTCTTAGTTTTGCACACACAA-TGCCCATACGA
130 GAATTTCTTAATTTTTCACACA-AAGTGCCCATACGA
* * * *
55032 AAATTCATAAAATTATTATGAATTTCTTAGTTTTTTGCACACACGGTGCCCATACGAAAACTCAT
1 AAATTCATAAACTTATTATGAATTTCTTAG-TTTTTGCACACACAGTGCCCATACGGAAATTCAT
* * *
55097 AAACTCATTATGAATTTCTTAGTTTTTTGCATACA-AAGTGCCCATACAAAAATTCATAAACTCA
65 AAACTTATTATGAATTTCTTAG--TTTTGCATACACAA-TGCCCACACAGAAATTCATAAACT-A
* *
55161 TTATGAATTTCTTAGTTTTTTACATACAAAGTGCCCATACGA
126 TTATGAATTTCTTA-ATTTTT-CACACAAAGTGCCCATACGA
* * *
55203 AAATTCATAGACTCATTATGAATTTCCTAGTTTTTGCACACACAGT
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACACAGT
55249 ACCATTTGGT
Statistics
Matches: 338, Mismatches: 30, Indels: 20
0.87 0.08 0.05
Matches are distributed among these distances:
163 7 0.02
164 166 0.49
165 5 0.01
167 49 0.14
168 3 0.01
169 45 0.13
170 21 0.06
171 42 0.12
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (165 bp):
AAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACACAGTGCCCATACGGAAATTCATA
AACTTATTATGAATTTCTTAGTTTTGCATACACAATGCCCACACAGAAATTCATAAACTATTATG
AATTTCTTAATTTTTCACACAAAGTGCCCATACGA
Found at i:55075 original size:57 final size:56
Alignment explanation
Indices: 54704--55246 Score: 694
Period size: 55 Copynumber: 9.8 Consensus size: 56
54694 ACTAATAAAG
* * * *
54704 AAATTCATAAACTTATTATGAATTTCTTA-ATTTT-CACACACAGTTCCCATACGG
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACACAATGCCCATACGA
* *
54758 AAATTCATAAACTTATTATGAATTTCTTAG-TTTTGCATACACAATGCCCACAC-A
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACACAATGCCCATACGA
* * * * * *
54812 GAAATTCATAAACATATTATGAATTTTTTAATTTTT-CACACATAGTGCCCATACAA
1 -AAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACACAATGCCCATACGA
* *
54868 AAATTCATAAACTTATTATGAATTT-TTAG-TTTTGCACACACAATGCCCATAAGG
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACACAATGCCCATACGA
* *
54922 AAATTCATAAACTTATTATGAATTTCTTAG-TTTTGCACACACAATGCCCACACGG
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACACAATGCCCATACGA
54977 AAATTCATAAACTTATTATGAATTTCTTAG-TTTTGCACACACAATGCCCATACGA
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACACAATGCCCATACGA
* **
55032 AAATTCATAAAATTATTATGAATTTCTTAGTTTTTTGCACACACGGTGCCCATACGA
1 AAATTCATAAACTTATTATGAATTTCTTAG-TTTTTGCACACACAATGCCCATACGA
* * * *
55089 AAACTCATAAACTCATTATGAATTTCTTAGTTTTTTGCATACA-AAGTGCCCATACAA
1 AAATTCATAAACTTATTATGAATTTCTTAG-TTTTTGCACACACAA-TGCCCATACGA
* * *
55146 AAATTCATAAACTCATTATGAATTTCTTAGTTTTT-TACATACAAAGTGCCCATACGA
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACAC-AA-TGCCCATACGA
* * *
55203 AAATTCATAGACTCATTATGAATTTCCTAGTTTTTGCACACACA
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACACA
55247 GTACCATTTG
Statistics
Matches: 434, Mismatches: 42, Indels: 23
0.87 0.08 0.05
Matches are distributed among these distances:
53 4 0.01
54 76 0.18
55 191 0.44
56 10 0.02
57 148 0.34
58 5 0.01
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (56 bp):
AAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACACAATGCCCATACGA
Found at i:60266 original size:59 final size:59
Alignment explanation
Indices: 60156--60454 Score: 440
Period size: 59 Copynumber: 5.1 Consensus size: 59
60146 ATACATTATT
* * *
60156 TTTCATCTAACTTGCATTAATGG-ACATTTATGCCAAATGCACAGTTAGGCATTTAACC
1 TTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGGCATTTAACC
***
60214 TTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGTGTAGTTAGGCATTTAACC
1 TTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGGCATTTAACC
* * *
60273 TTTCATCTAACTTGCATTATAGGCACCTTTCTGCCAAATACACAGTTAGACATTTAA-C
1 TTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGGCATTTAACC
* * * *
60331 TTTCATATAACTTGCATTATTGACACCTTTTTGCCAAATGCACAGTTAGGCATTTAATC
1 TTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGGCATTTAACC
* * *
60390 TTTCATCTAACTTGCATTATTGGCATCTTTCTACCAAATGCACCGTTAGGCATTTAACC
1 TTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGGCATTTAACC
60449 TTTCAT
1 TTTCAT
60455 TTTAGAGAAA
Statistics
Matches: 214, Mismatches: 25, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
58 74 0.35
59 140 0.65
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.37
Consensus pattern (59 bp):
TTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGGCATTTAACC
Found at i:60296 original size:32 final size:32
Alignment explanation
Indices: 60201--60297 Score: 82
Period size: 32 Copynumber: 3.2 Consensus size: 32
60191 AATGCACAGT
60201 TAGGCATTTAACCTTTCATCTAACTTGCATTA
1 TAGGCATTTAACCTTTCATCTAACTTGCATTA
* * * * *
60233 TTGGC-----ACCTTTC-TGCCAAATGTGTAGT-
1 TAGGCATTTAACCTTTCAT-CTAACT-TGCATTA
60260 TAGGCATTTAACCTTTCATCTAACTTGCATTA
1 TAGGCATTTAACCTTTCATCTAACTTGCATTA
60292 TAGGCA
1 TAGGCA
60298 CCTTTCTGCC
Statistics
Matches: 46, Mismatches: 10, Indels: 18
0.62 0.14 0.24
Matches are distributed among these distances:
26 1 0.02
27 15 0.33
28 4 0.09
31 4 0.09
32 21 0.46
33 1 0.02
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.38
Consensus pattern (32 bp):
TAGGCATTTAACCTTTCATCTAACTTGCATTA
Found at i:60366 original size:117 final size:118
Alignment explanation
Indices: 60156--60454 Score: 433
Period size: 117 Copynumber: 2.6 Consensus size: 118
60146 ATACATTATT
* *
60156 TTTCATCTAACTTGCATTA-ATGG-ACATTTATGCCAAATGCACAGTTAGGCATTTAACCTTTCA
1 TTTCATCTAACTTGCATTATA-GGCACCTTTCTGCCAAATGCACAGTTAGGCATTTAACCTTTCA
* * ***
60219 TCTAACTTGCATTATTGGCACCTTTCTGCCAAATGTGTAGTTAGGCATTTAACC
65 TATAACTTGCATTATTGACACCTTTCTGCCAAATGCACAGTTAGGCATTTAACC
* *
60273 TTTCATCTAACTTGCATTATAGGCACCTTTCTGCCAAATACACAGTTAGACATTTAA-CTTTCAT
1 TTTCATCTAACTTGCATTATAGGCACCTTTCTGCCAAATGCACAGTTAGGCATTTAACCTTTCAT
* *
60337 ATAACTTGCATTATTGACACCTTTTTGCCAAATGCACAGTTAGGCATTTAATC
66 ATAACTTGCATTATTGACACCTTTCTGCCAAATGCACAGTTAGGCATTTAACC
* * * *
60390 TTTCATCTAACTTGCATTATTGGCATCTTTCTACCAAATGCACCGTTAGGCATTTAACCTTTCAT
1 TTTCATCTAACTTGCATTATAGGCACCTTTCTGCCAAATGCACAGTTAGGCATTTAACCTTTCAT
60455 TTTAGAGAAA
Statistics
Matches: 162, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
117 125 0.77
118 37 0.23
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.37
Consensus pattern (118 bp):
TTTCATCTAACTTGCATTATAGGCACCTTTCTGCCAAATGCACAGTTAGGCATTTAACCTTTCAT
ATAACTTGCATTATTGACACCTTTCTGCCAAATGCACAGTTAGGCATTTAACC
Found at i:66901 original size:13 final size:14
Alignment explanation
Indices: 66877--66920 Score: 54
Period size: 17 Copynumber: 3.0 Consensus size: 14
66867 TGTTAAGTAC
66877 AAGAATATATGAAT
1 AAGAATATATGAAT
66891 AAGAAATATGAATGAAT
1 AAG-AATAT--ATGAAT
66908 AAGAA-ATATGAAT
1 AAGAATATATGAAT
66921 GAATATAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
13 6 0.22
14 3 0.11
15 7 0.26
16 2 0.07
17 9 0.33
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (14 bp):
AAGAATATATGAAT
Found at i:66907 original size:17 final size:17
Alignment explanation
Indices: 66885--66925 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
66875 ACAAGAATAT
66885 ATGAATAAGAAATATGA
1 ATGAATAAGAAATATGA
66902 ATGAATAAGAAATATGA
1 ATGAATAAGAAATATGA
66919 ATGAATA
1 ATGAATA
66926 TAATAAAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.17, T:0.24
Consensus pattern (17 bp):
ATGAATAAGAAATATGA
Found at i:70152 original size:20 final size:18
Alignment explanation
Indices: 70092--70158 Score: 59
Period size: 15 Copynumber: 3.6 Consensus size: 18
70082 TGTTCATGGG
70092 GTATCGATACCTTGGAAGGTA
1 GTATCGATACC-T--AAGGTA
70113 GTATCGATACC-AA-G-A
1 GTATCGATACCTAAGGTA
70128 GTATCGATACCATAAGGTTA
1 GTATCGATACC-TAAGG-TA
*
70148 GTATCGGTACC
1 GTATCGATACC
70159 CATTTTTGAA
Statistics
Matches: 40, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
15 12 0.30
16 1 0.03
17 4 0.10
18 1 0.03
20 11 0.28
21 11 0.28
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (18 bp):
GTATCGATACCTAAGGTA
Found at i:74222 original size:13 final size:12
Alignment explanation
Indices: 74196--74261 Score: 66
Period size: 11 Copynumber: 5.6 Consensus size: 12
74186 TTTTACTTAA
*
74196 ATTATTATTATT
1 ATTATTAATATT
74208 ATTATTAAATATT
1 ATTATT-AATATT
74221 ATTATT-ATATT
1 ATTATTAATATT
*
74232 ATATATTATTATT
1 AT-TATTAATATT
*
74245 A-TATTAA-ATA
1 ATTATTAATATT
74255 ATTATTA
1 ATTATTA
74262 CAAGCCCAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
10 3 0.07
11 17 0.37
12 10 0.22
13 16 0.35
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
ATTATTAATATT
Found at i:74222 original size:16 final size:18
Alignment explanation
Indices: 74192--74261 Score: 104
Period size: 18 Copynumber: 3.7 Consensus size: 18
74182 TTCATTTTAC
74192 TTAAATTATTATTATTATTA
1 TTAAA-TATTATTATTA-TA
74212 TTAAATATTATTATTATA
1 TTAAATATTATTATTATA
*
74230 TTATATATTATTATTATA
1 TTAAATATTATTATTATA
74248 TTAAATAATTATTA
1 TTAAAT-ATTATTA
74262 CAAGCCCAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
18 24 0.51
19 18 0.38
20 5 0.11
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTAAATATTATTATTATA
Found at i:74261 original size:3 final size:3
Alignment explanation
Indices: 74196--74250 Score: 69
Period size: 3 Copynumber: 18.3 Consensus size: 3
74186 TTTTACTTAA
*
74196 ATT ATT ATT ATT ATT ATT AAAT ATT ATT ATT A-T ATT ATAT ATT ATT
1 ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT AT-T ATT ATT
74242 ATT A-T ATT A
1 ATT ATT ATT A
74251 AATAATTATT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
2 4 0.09
3 37 0.80
4 5 0.11
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:75600 original size:15 final size:15
Alignment explanation
Indices: 75580--75650 Score: 56
Period size: 15 Copynumber: 4.6 Consensus size: 15
75570 ATCTATTAGT
75580 TTTTAATATTATTAC
1 TTTTAATATTATTAC
* *
75595 TTTTAAT-TTCTTTC
1 TTTTAATATTATTAC
75609 ATTTTAATTATTATTA-
1 -TTTTAA-TATTATTAC
*
75625 TTTTATTTTATTATTAC
1 TTTTA--ATATTATTAC
*
75642 GTTTAATAT
1 TTTTAATAT
75651 ATGTTTAAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 12
0.69 0.11 0.19
Matches are distributed among these distances:
14 5 0.12
15 21 0.49
16 9 0.21
17 8 0.19
ACGTcount: A:0.28, C:0.06, G:0.01, T:0.65
Consensus pattern (15 bp):
TTTTAATATTATTAC
Found at i:76582 original size:28 final size:29
Alignment explanation
Indices: 76550--76605 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 29
76540 TAATTCTTTC
*
76550 TTTTCA-AAT-TTTTTATATATACTTATTA
1 TTTTCATAATATTTATATATATA-TTATTA
*
76578 TTTTCATAATATTTATATGTATATTATT
1 TTTTCATAATATTTATATATATATTATT
76606 TTATTAATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 6 0.25
29 8 0.33
30 10 0.42
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (29 bp):
TTTTCATAATATTTATATATATATTATTA
Found at i:79006 original size:36 final size:36
Alignment explanation
Indices: 78961--79044 Score: 91
Period size: 36 Copynumber: 2.3 Consensus size: 36
78951 ACATTTTTGT
* * *
78961 ATCTGTGCATTTC-CATTTTGTATTCTTACTTTTTAC
1 ATCTTTGCATTTCACAGTTTGCATTCTTA-TTTTTAC
* *
78997 ATCTTTGCATTACACAGTTTGCATTCTTATTTTTGC
1 ATCTTTGCATTTCACAGTTTGCATTCTTATTTTTAC
79033 AT-TTATGCATTT
1 ATCTT-TGCATTT
79045 TCGCATTTAC
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
35 2 0.05
36 25 0.62
37 13 0.32
ACGTcount: A:0.19, C:0.18, G:0.10, T:0.54
Consensus pattern (36 bp):
ATCTTTGCATTTCACAGTTTGCATTCTTATTTTTAC
Found at i:81592 original size:27 final size:28
Alignment explanation
Indices: 81561--81616 Score: 105
Period size: 27 Copynumber: 2.0 Consensus size: 28
81551 TATTATACTC
81561 ATCCAGCAAAGAAA-GAAAAAAGAAAAA
1 ATCCAGCAAAGAAAGGAAAAAAGAAAAA
81588 ATCCAGCAAAGAAAGGAAAAAAGAAAAA
1 ATCCAGCAAAGAAAGGAAAAAAGAAAAA
81616 A
1 A
81617 GAGAAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 14 0.50
28 14 0.50
ACGTcount: A:0.70, C:0.11, G:0.16, T:0.04
Consensus pattern (28 bp):
ATCCAGCAAAGAAAGGAAAAAAGAAAAA
Found at i:81615 original size:7 final size:7
Alignment explanation
Indices: 81603--81668 Score: 53
Period size: 7 Copynumber: 8.9 Consensus size: 7
81593 GCAAAGAAAG
81603 GAAAAAA
1 GAAAAAA
81610 GAAAAAA
1 GAAAAAA
81617 GAGAAAAA
1 GA-AAAAA
*
81625 -AAGGGAAA
1 GAA--AAAA
81633 GAAATAGAA
1 GAAA-A-AA
*
81642 AAAAAAA
1 GAAAAAA
*
81649 CAAAAAA
1 GAAAAAA
81656 GAAAAAA
1 GAAAAAA
81663 GAAAAA
1 GAAAAA
81669 CAAAAAATTG
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
6 1 0.02
7 30 0.62
8 10 0.21
9 7 0.15
ACGTcount: A:0.80, C:0.02, G:0.17, T:0.02
Consensus pattern (7 bp):
GAAAAAA
Found at i:81669 original size:20 final size:20
Alignment explanation
Indices: 81604--81675 Score: 65
Period size: 20 Copynumber: 3.3 Consensus size: 20
81594 CAAAGAAAGG
81604 AAAAAAGAAAAAAGAGAAAA-
1 AAAAAAGAAAAAAGA-AAAAC
*
81624 AAAGGGAAAGAAATAGAAAAAAAAAC
1 AAA---AAAG-AA-A-AAAGAAAAAC
81650 AAAAAAGAAAAAAGAAAAAC
1 AAAAAAGAAAAAAGAAAAAC
81670 AAAAAA
1 AAAAAA
81676 TTGAATCAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 14
0.73 0.03 0.24
Matches are distributed among these distances:
20 18 0.42
21 1 0.02
22 2 0.05
23 8 0.19
24 2 0.05
25 5 0.12
26 7 0.16
ACGTcount: A:0.82, C:0.03, G:0.14, T:0.01
Consensus pattern (20 bp):
AAAAAAGAAAAAAGAAAAAC
Found at i:86062 original size:54 final size:54
Alignment explanation
Indices: 85980--86135 Score: 249
Period size: 54 Copynumber: 2.9 Consensus size: 54
85970 AGAAATCTTG
* *
85980 GCAGAAGCCACAAGAAAGGATGAATGTGTTATCAAATGTTTTACGAACGTCTGA
1 GCAGAAGCCACAAGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGA
*
86034 GCAGAAACCACAAGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGA
1 GCAGAAGCCACAAGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGA
* * * *
86088 GCAGAAGCCACAAGAGATGATGAATGAGCTGTCAAATGTTTTACGAAC
1 GCAGAAGCCACAAGAAAGGATGAATGTGTTGTCAAATGTTTTACGAAC
86136 CTGCTATTCT
Statistics
Matches: 94, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 94 1.00
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (54 bp):
GCAGAAGCCACAAGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGA
Found at i:86532 original size:22 final size:23
Alignment explanation
Indices: 86500--86556 Score: 91
Period size: 22 Copynumber: 2.6 Consensus size: 23
86490 ACATCTACAC
*
86500 TCTTCAAAGATGATAGATTCTCT
1 TCTTAAAAGATGATAGATTCTCT
86523 TCTT-AAAGATGATAGATTCTCT
1 TCTTAAAAGATGATAGATTCTCT
86545 T-TTAAAAGATGA
1 TCTTAAAAGATGA
86557 AAGCTTTATG
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
21 2 0.06
22 27 0.82
23 4 0.12
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (23 bp):
TCTTAAAAGATGATAGATTCTCT
Found at i:87357 original size:76 final size:76
Alignment explanation
Indices: 87231--87756 Score: 948
Period size: 76 Copynumber: 6.9 Consensus size: 76
87221 CTATTTCCCA
*
87231 CATCTGTAATTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
87296 AGCCTTAGGGT
66 AGCCTTAGGGT
*
87307 CATCTGTAAGTCCTGCAGTGCATAATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
87372 AGCCTTAGGGT
66 AGCCTTAGGGT
* * *
87383 CATCTGTAAGTTCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
87448 AGCCTTAGGGT
66 AGCCTTAGGGT
87459 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
87524 AGCCTTAGGGT
66 AGCCTTAGGGT
*
87535 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
87600 AGCCTTAGGGT
66 AGCCTTAGGGT
*
87611 CATCTATAA-TACCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGT-CCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
87675 AAGCCTTAGGGT
65 AAGCCTTAGGGT
87687 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGA-GATTTTC
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATG-TTTTC
87751 AAAGCC
64 AAAGCC
87757 CTTCAGTGCA
Statistics
Matches: 433, Mismatches: 13, Indels: 7
0.96 0.03 0.02
Matches are distributed among these distances:
75 1 0.00
76 396 0.91
77 36 0.08
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (76 bp):
CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:87950 original size:20 final size:19
Alignment explanation
Indices: 87925--87996 Score: 101
Period size: 20 Copynumber: 3.7 Consensus size: 19
87915 TTCATTTTAC
87925 TTAAATTATTATTATTATTA
1 TTAAATTATTATTATTA-TA
87945 TTAAA-TATTATTATTATA
1 TTAAATTATTATTATTATA
*
87963 TTATATATATTATTATTATA
1 TTAAAT-TATTATTATTATA
*
87983 TTAAATAATTATTA
1 TTAAATTATTATTA
87997 CAAGCCCAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
18 6 0.13
19 18 0.38
20 23 0.49
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TTAAATTATTATTATTATA
Found at i:87955 original size:13 final size:13
Alignment explanation
Indices: 87937--87996 Score: 54
Period size: 13 Copynumber: 4.6 Consensus size: 13
87927 AAATTATTAT
87937 TATTATTATTAAA
1 TATTATTATTAAA
87950 TATTATTATT--A
1 TATTATTATTAAA
* *
87961 TATTATATATATTAT
1 TATTAT-TAT-TAAA
87976 TATTA-TATTAAA
1 TATTATTATTAAA
87988 TAATTATTA
1 T-ATTATTA
87997 CAAGCCCAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 11
0.73 0.06 0.21
Matches are distributed among these distances:
11 7 0.18
12 6 0.16
13 18 0.47
14 2 0.05
15 5 0.13
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
TATTATTATTAAA
Found at i:87996 original size:3 final size:3
Alignment explanation
Indices: 87929--87985 Score: 66
Period size: 3 Copynumber: 19.3 Consensus size: 3
87919 TTTTACTTAA
*
87929 ATT ATT ATT ATT ATT ATT AAAT ATT ATT ATT A-T ATT A-T ATAT ATT
1 ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT AT-T ATT
87974 ATT ATT A-T ATT A
1 ATT ATT ATT ATT A
87986 AATAATTATT
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
2 6 0.13
3 36 0.77
4 5 0.11
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:89308 original size:15 final size:15
Alignment explanation
Indices: 89284--89355 Score: 58
Period size: 15 Copynumber: 4.7 Consensus size: 15
89274 TGATATGATC
*
89284 TATTAGTTTTAATAT
1 TATTACTTTTAATAT
89299 TATTACTTTTAAT-T
1 TATTACTTTTAATAT
* *
89313 TCTTTCATTTTAATTAT
1 TATTAC-TTTTAA-TAT
*
89330 TATTA-TTTTATTTAT
1 TATTACTTTTA-ATAT
*
89345 TATTACGTTTA
1 TATTACTTTTA
89356 TATGTTTAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
14 5 0.11
15 31 0.69
16 5 0.11
17 4 0.09
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.64
Consensus pattern (15 bp):
TATTACTTTTAATAT
Found at i:96527 original size:46 final size:46
Alignment explanation
Indices: 96471--96603 Score: 232
Period size: 46 Copynumber: 2.9 Consensus size: 46
96461 GCATAGAATT
*
96471 TGTCCCGTAGGACCACTATGTCCCGTAGGACCACGTAGAACACATA
1 TGTCCTGTAGGACCACTATGTCCCGTAGGACCACGTAGAACACATA
*
96517 TGTCCTGTAGGACCACTATGTCCTGTAGGACCACGTAGAACACATA
1 TGTCCTGTAGGACCACTATGTCCCGTAGGACCACGTAGAACACATA
96563 TGT-CTCGTAGGACCACTATGTCCCGTAGGACCACGTAGAAC
1 TGTCCT-GTAGGACCACTATGTCCCGTAGGACCACGTAGAAC
96604 CCTCGACTCT
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
45 2 0.02
46 81 0.98
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.22
Consensus pattern (46 bp):
TGTCCTGTAGGACCACTATGTCCCGTAGGACCACGTAGAACACATA
Found at i:96536 original size:18 final size:18
Alignment explanation
Indices: 96515--96550 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
96505 GTAGAACACA
96515 TATGTCCTGTAGGACCAC
1 TATGTCCTGTAGGACCAC
96533 TATGTCCTGTAGGACCAC
1 TATGTCCTGTAGGACCAC
96551 GTAGAACACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (18 bp):
TATGTCCTGTAGGACCAC
Found at i:96582 original size:18 final size:18
Alignment explanation
Indices: 96561--96596 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
96551 GTAGAACACA
*
96561 TATGTCTCGTAGGACCAC
1 TATGTCCCGTAGGACCAC
96579 TATGTCCCGTAGGACCAC
1 TATGTCCCGTAGGACCAC
96597 GTAGAACCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.25
Consensus pattern (18 bp):
TATGTCCCGTAGGACCAC
Found at i:97106 original size:25 final size:25
Alignment explanation
Indices: 97078--97127 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
97068 TTTAGCACCA
97078 TATCACTACATGTTTATGCTTCAGT
1 TATCACTACATGTTTATGCTTCAGT
*
97103 TATCCCTACATGTTTATGCTTCAGT
1 TATCACTACATGTTTATGCTTCAGT
97128 ACCCCTAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.44
Consensus pattern (25 bp):
TATCACTACATGTTTATGCTTCAGT
Found at i:100564 original size:46 final size:46
Alignment explanation
Indices: 100512--100644 Score: 230
Period size: 46 Copynumber: 2.9 Consensus size: 46
100502 GCGTAGAATT
*
100512 TGTCCCGTAGGACCACTATGTCCCATAGGACCACGTAGAACACATA
1 TGTCCCGTAGGACCACTATGTCCCGTAGGACCACGTAGAACACATA
*
100558 TGTCCCGTAGTACCACTATGTCCCGTAGGACCACGTAGAACACATA
1 TGTCCCGTAGGACCACTATGTCCCGTAGGACCACGTAGAACACATA
* *
100604 TATCCCGTATGACCACTATGTCCCGTAGGACCACGTAGAAC
1 TGTCCCGTAGGACCACTATGTCCCGTAGGACCACGTAGAAC
100645 CCTCGACTCT
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 82 1.00
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.21
Consensus pattern (46 bp):
TGTCCCGTAGGACCACTATGTCCCGTAGGACCACGTAGAACACATA
Found at i:100577 original size:18 final size:18
Alignment explanation
Indices: 100556--100591 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
100546 GTAGAACACA
*
100556 TATGTCCCGTAGTACCAC
1 TATGTCCCGTAGGACCAC
100574 TATGTCCCGTAGGACCAC
1 TATGTCCCGTAGGACCAC
100592 GTAGAACACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.33, G:0.19, T:0.25
Consensus pattern (18 bp):
TATGTCCCGTAGGACCAC
Found at i:101145 original size:25 final size:25
Alignment explanation
Indices: 101117--101166 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
101107 TTTAGCACCA
101117 TATCACTACATGTTTATGCTTCAGT
1 TATCACTACATGTTTATGCTTCAGT
*
101142 TATCCCTACATGTTTATGCTTCAGT
1 TATCACTACATGTTTATGCTTCAGT
101167 ACCCCTAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.44
Consensus pattern (25 bp):
TATCACTACATGTTTATGCTTCAGT
Found at i:111530 original size:59 final size:59
Alignment explanation
Indices: 111456--111756 Score: 467
Period size: 59 Copynumber: 5.1 Consensus size: 59
111446 ATACACTATT
* * *
111456 TTTCAACTAACTTGCATTAGTGGCACCTTTATGCCAAATGCACAGTTAGGCATTTAACC
1 TTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGGCATTTAACC
* * * *
111515 TTTCATTTAACTTGCATTATTGGAACCTTTCTGCCAAATGAATAGTTAGGCATTTAACC
1 TTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGGCATTTAACC
*
111574 TTTCATCTAACTTGCATTATTGGCACCTTTCTGTCAAATGCACAGTTAGGCATTTAACC
1 TTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGGCATTTAACC
* * * **
111633 TTTCATCTAACTTGCATTATTGGAACCTTTTTTCCAAACACACAGTTAGGCATTTAACC
1 TTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGGCATTTAACC
* *
111692 TTTCATCTAACTTGCATTATTGACACGTTTCTGCCAAATGCACAGTTAGGCATTTAACC
1 TTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGGCATTTAACC
111751 TTTCAT
1 TTTCAT
111757 TTTAGAGAAA
Statistics
Matches: 217, Mismatches: 25, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
59 217 1.00
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.37
Consensus pattern (59 bp):
TTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGGCATTTAACC
Found at i:118690 original size:2 final size:2
Alignment explanation
Indices: 118683--118710 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
118673 TTGTAGAGTA
118683 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
118711 TGTGAAAGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:122759 original size:113 final size:114
Alignment explanation
Indices: 122588--122886 Score: 336
Period size: 113 Copynumber: 2.6 Consensus size: 114
122578 AACCGATAAC
* * * * * *
122588 ATCGAAT-TCTTCAGATGTTTCATTACTGCTTATCTACCAAGTATCAAGCAAGGTAGAGTATCTG
1 ATCGAATCT-TTCA-ATGTTTCATCACTACATATCTAACAACTATCAAGCAAGATAGAGTATCTG
* *
122652 AAGAATTCAAAGTTAACATAAATGCAAAATAACAACTCTGCAATC-G-ATAA
64 AAGAATTCAAAGCTAACATAAATGCAAAATAACAACTCTGCAAACAGTA-AA
*
122702 ATCGAATCTTTCAATGTTTCA-CAGCTACATATCTAACAACTATCAAGCAAGCTAGAGTATCTGA
1 ATCGAATCTTTCAATGTTTCATCA-CTACATATCTAACAACTATCAAGCAAGATAGAGTATCTGA
** * *
122766 AGAATTTGAAGCTACCATAGATGCAAAATAACAACTCTGCAAACAGTAAA
65 AGAATTCAAAGCTAACATAAATGCAAAATAACAACTCTGCAAACAGTAAA
** * * * * * * *
122816 ATCGAATCTTTTGATGTTTCATTACTATATATATAGCAACTATCAAGAAAGATCGAGTATCAGAA
1 ATCGAATCTTTCAATGTTTCATCACTACATATCTAACAACTATCAAGCAAGATAGAGTATCTGAA
122881 GAATTC
66 GAATTC
122887 GAAGATACCA
Statistics
Matches: 157, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
112 1 0.01
113 81 0.52
114 72 0.46
115 3 0.02
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.29
Consensus pattern (114 bp):
ATCGAATCTTTCAATGTTTCATCACTACATATCTAACAACTATCAAGCAAGATAGAGTATCTGAA
GAATTCAAAGCTAACATAAATGCAAAATAACAACTCTGCAAACAGTAAA
Found at i:122882 original size:114 final size:113
Alignment explanation
Indices: 122571--122905 Score: 356
Period size: 114 Copynumber: 2.9 Consensus size: 113
122561 ATCAAATTAC
* * * * *
122571 ACTCAGCAACCGATAACATCGAAT-TCTTCAGATGTTTCATTACTGCT-TATCTACCAAGTATCA
1 ACTCTGCAAACGATAA-ATCGAATCT-TTC-GATGTTTCATTACT-ATATATCTAACAACTATCA
* * * * *
122634 AGCAAGGTAGAGTATCTGAAGAATTCAAAGTTAACATAAATGCAAAATAACA
62 AGCAAGATAGAGTATCTGAAGAATTCGAAGATACCATAGATGCAAAATAACA
* * * *
122686 ACTCTGCAATCGATAAATCGAATCTTTCAATGTTTCA-CAGCTACATATCTAACAACTATCAAGC
1 ACTCTGCAAACGATAAATCGAATCTTTCGATGTTTCATTA-CTATATATCTAACAACTATCAAGC
* * *
122750 AAGCTAGAGTATCTGAAGAATTTGAAGCTACCATAGATGCAAAATAACA
65 AAGATAGAGTATCTGAAGAATTCGAAGATACCATAGATGCAAAATAACA
* * *
122799 ACTCTGCAAAC-AGTAAAATCGAATCTTTTGATGTTTCATTACTATATATATAGCAACTATCAAG
1 ACTCTGCAAACGA-T-AAATCGAATCTTTCGATGTTTCATTACTATATATCTAACAACTATCAAG
* * *
122863 AAAGATCGAGTATCAGAAGAATTCGAAGATACCAT-GAGTGCAA
64 CAAGATAGAGTATCTGAAGAATTCGAAGATACCATAGA-TGCAA
122906 CTATACATTC
Statistics
Matches: 186, Mismatches: 27, Indels: 15
0.82 0.12 0.07
Matches are distributed among these distances:
112 2 0.01
113 83 0.45
114 85 0.46
115 16 0.09
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.27
Consensus pattern (113 bp):
ACTCTGCAAACGATAAATCGAATCTTTCGATGTTTCATTACTATATATCTAACAACTATCAAGCA
AGATAGAGTATCTGAAGAATTCGAAGATACCATAGATGCAAAATAACA
Found at i:125756 original size:2 final size:2
Alignment explanation
Indices: 125744--126706 Score: 177
Period size: 2 Copynumber: 476.0 Consensus size: 2
125734 ATTAAGTATG
* * * *
125744 TA TA CTA TA TA TA TA AA CTA TA TA GTT TA TA TA TG TA GTT TA TA
1 TA TA -TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA -TA TA TA
* * * *
125788 TA TA GTA TA TA TA GTT TA T- TA -A TA TA AA T- TA TA CA -A TT TA
1 TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * *
125828 TA TA TA AA T- TA TA TA TA AA CTA TA CA -A TT TA TA TT TA CA TA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
* *
125869 T- TA TA TA TA -A T- TA TA AA T- TA TA TA TA CTA TA TA TA AA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
* * *
125907 TA TA TA TT TA T- TA -A TA TA AA CTA TA TA TA TA TA TA TA TGA TT
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA T-A TA
** * * * * *
125949 TA GGG T- TA -A TT TA TG TA -A TA TA TG TA CTT TA TA TA CA TA TA
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
* * * * *
125990 TA AA CTA TA TA CTA TA TA GTT TA TA TA TA -A AA TA TG TA TA CA
1 TA TA -TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
* *
126032 -A T- TA TA TA TA TA TA TA TA TA TA TA AA CTA CA TA -A TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
* * * *
126071 T- TGA TA TT TA TA TA CTA TA TA AA CTA TA GTT TA TA TT TA TA TA
1 TA T-A TA TA TA TA TA -TA TA TA TA -TA TA -TA TA TA TA TA TA TA
*
126114 CTA TA TA CTA TA GT- TGA TA TT TA TA TA CTA TA TA T- TA TA TA TA
1 -TA TA TA -TA TA -TA T-A TA TA TA TA TA -TA TA TA TA TA TA TA TA
* * * *
126157 AA T- TA TA TA TA CA -A TA TA T- TT TA CA TA TGA -A CTA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA -TA TA TA TA
* * * * * *
126197 AA AA CTA TA TA TA TA AA CTA TA TA AA CTA TA GTG TA 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
*
126241 CTA TA TA CTA TA GT- TGA TA TT TA TA TA -A TA TA TA CTA TA -A T-
1 -TA TA TA -TA TA -TA T-A TA TA TA TA TA TA TA TA TA -TA TA TA TA
* * *
126282 TGA TA TT TA TA TA CTA TA -A TA TA TA -A TT TA TA CTA TA TA AA
1 T-A TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
* * * *
126323 T- TCA AA GTA TA TA T- TA TA TG TA AA TA CTA TA TA -A T- TA AA
1 TA T-A TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
* * *
126362 TA AA T- TA -A T- TA -A TA AA T- TA TT TA TA TA -A TA TA TA CTA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
* * *
126399 CA TA TA TA TA CTA TA TA TA CTA TA TA TA CTA TA TA GTT TA CA TA
1 TA TA TA TA TA -TA TA TA TA -TA TA TA TA -TA TA TA -TA TA TA TA
* * * * *
126443 TGA -A CTA TA TA AA AA CTA TA CTA CA GT- TGA AA TT TA TA TA CTA
1 T-A TA -TA TA TA TA TA -TA TA -TA TA -TA T-A TA TA TA TA TA -TA
* * * * *
126486 TA -A TA TA TA TA -A TT TA CA TA TA AA CTA TA TA -A TT TA CA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
* *
126526 TGA -A CTG TA CA TA TA GT- TA T- TA -A TGA -A CTA TA TA -A CTA
1 T-A TA -TA TA TA TA TA -TA TA TA TA TA T-A TA -TA TA TA TA -TA
* * *
126564 TT TA TA TA GTA TA TA CTA TA TA TA AA CTA TA TA TA TA TA -A TT
1 TA TA TA TA -TA TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA TA
* ** *
126606 TA CA TA TGA GC TA TA -A AA CTA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA T-A TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
*
126649 CTA TA TA TA TA TA AA CTA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 -TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
126693 TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
126707 GTTGAGTTCT
Statistics
Matches: 684, Mismatches: 152, Indels: 250
0.63 0.14 0.23
Matches are distributed among these distances:
1 57 0.08
2 541 0.79
3 86 0.13
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (2 bp):
TA
Found at i:125776 original size:11 final size:11
Alignment explanation
Indices: 125762--125806 Score: 58
Period size: 13 Copynumber: 4.1 Consensus size: 11
125752 ATATATAAAC
125762 TATATAGTTTA
1 TATATAGTTTA
125773 TATATGTAGTTTA
1 TATA--TAGTTTA
125786 TATATAG--TA
1 TATATAGTTTA
125795 TATATAGTTTA
1 TATATAGTTTA
125806 T
1 T
125807 TAATATAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
9 9 0.30
11 10 0.33
13 11 0.37
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (11 bp):
TATATAGTTTA
Found at i:125833 original size:13 final size:11
Alignment explanation
Indices: 125805--125944 Score: 70
Period size: 11 Copynumber: 13.8 Consensus size: 11
125795 TATATAGTTT
125805 ATTA-ATATAA
1 ATTATATATAA
*
125815 A-T-TATACAA
1 ATTATATATAA
*
125824 TTTATATATAA
1 ATTATATATAA
125835 ATTATATATAA
1 ATTATATATAA
* *
125846 A--CTATACAA
1 ATTATATATAA
* * *
125855 TTTATATTTAC
1 ATTATATATAA
*
125866 A-TAT-TATAT
1 ATTATATATAA
*
125875 ATAAT-TATAA
1 ATTATATATAA
125885 ATTATATAT--
1 ATTATATATAA
*
125894 ACTATATATAA
1 ATTATATATAA
**
125905 ATTATATATTT
1 ATTATATATAA
125916 ATTA-ATATAA
1 ATTATATATAA
* *
125926 ACTATATATAT
1 ATTATATATAA
125937 A-TATATAT
1 ATTATATAT
125945 GATTTAGGGT
Statistics
Matches: 95, Mismatches: 25, Indels: 20
0.68 0.18 0.14
Matches are distributed among these distances:
9 24 0.25
10 29 0.31
11 42 0.44
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.46
Consensus pattern (11 bp):
ATTATATATAA
Found at i:126029 original size:29 final size:27
Alignment explanation
Indices: 125977--126055 Score: 72
Period size: 29 Copynumber: 2.9 Consensus size: 27
125967 TATATGTACT
* * *
125977 TTATATACATATATAAACTATATACTA
1 TTATATATATATATAAAATATATACAA
*
126004 -TATAGTTTATATATAAAATATGTATACAA
1 TTATA-TATATATATAAAATA--TATACAA
*
126033 TTATATATATATAT-ATATATATA
1 TTATATATATATATAAAATATATA
126056 AACTACATAA
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
26 8 0.19
27 12 0.29
28 4 0.10
29 14 0.33
30 4 0.10
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (27 bp):
TTATATATATATATAAAATATATACAA
Found at i:126167 original size:29 final size:28
Alignment explanation
Indices: 125995--126706 Score: 147
Period size: 27 Copynumber: 25.5 Consensus size: 28
125985 ATATATAAAC
125995 TATATACTATATAGTTTATATATAAA-ATA
1 TATATACTATATA--TTATATATAAATATA
* * *
126024 TGTATACAAT-TATATATATATATATATA
1 TATATACTATATAT-TATATATAAATATA
* * * ** *
126052 TATAAACTACATAATATA-ATTGATATT
1 TATATACTATATATTATATATAAATATA
* ** *
126079 TATATACTATATA-AACTATAGTTTATATT
1 TATATACTATATATTA-TATA-TAAATATA
* * *
126108 TATATACTATATACTATAGT-T-GATATT
1 TATATACTATATATTATA-TATAAATATA
126135 TATATACTATATATTATATATAAAT-TA
1 TATATACTATATATTATATATAAATATA
* * *
126162 TATATACAATATATTTTACATATGAACTATA
1 TATATAC--TATATATTATATAT-AAATATA
*
126193 TATA-A--AAACTA-TATATATAAACTATA
1 TATATACTATA-TATTATATATAAA-TATA
*
126219 TA-A-ACTATAGT-GTATATATAAACTATA
1 TATATACTATA-TATTATATATAAA-TATA
*
126246 TACTATAGT-TGATATT-TATAT-AATATA
1 TA-TATACTAT-ATATTATATATAAATATA
*
126273 TACTATAAT-TGATATTTATATACTATAATATA
1 TA-TATACTAT-ATA-TTATATA-TA-AATATA
* *
126305 TAATTTATACTATATAAATTCAAAGTATATATTATATG
1 T-A--TATACTATAT--ATT---A-TATATA-AATATA
*
126343 TAAATACTATATAATTA-A-ATAAAT-TA
1 TATATACTATAT-ATTATATATAAATATA
* *
126369 -AT-TA--ATAAATTAT-T-TATATA-A
1 TATATACTATATATTATATATAAATATA
* *
126390 TATATACTACATATATATACTATATATACTA
1 TATATACTATATAT-TATA-TATAAATA-TA
* *
126421 TATATACTATATAGTTTACATATGAACTATA
1 TATATACTATATA--TTATATAT-AAATATA
* * * *
126452 TAAAAACTATACTA-CAGT-T-GAAAT-T-
1 TATATACTATA-TATTA-TATATAAATATA
* *
126477 TATATACTATA-A-TATATATAATTTACA
1 TATATACTATATATTATATATAA-ATATA
* * * *
126504 TATAAACTATATAATTTACATATGAACTGTA
1 TATATACTATAT-A-TTATATAT-AAATATA
* * * * *
126535 CATATAGT-TATTAATGAACTATATAACTATT
1 TATATACTATA-T-AT-TA-TATATAAATATA
* *
126566 TATATAGTATATACTATATATAAACTATA
1 TATATACTATATATTATATATAAA-TATA
* **
126595 TATATA-TA-AT-TTACATATGAGCTATA
1 TATATACTATATATTATATAT-AAATATA
126621 -A-A-ACTATATA-TATATAT--ATATA
1 TATATACTATATATTATATATAAATATA
*
126643 TATATACTATATA-TATATA-AACTATA
1 TATATACTATATATTATATATAAATATA
*
126669 TATATA-TATATA-TATATATATATATA
1 TATATACTATATATTATATATAAATATA
126695 TATATA-TATATA
1 TATATACTATATA
126707 GTTGAGTTCT
Statistics
Matches: 516, Mismatches: 86, Indels: 165
0.67 0.11 0.22
Matches are distributed among these distances:
21 9 0.02
22 10 0.02
23 7 0.01
24 8 0.02
25 54 0.10
26 59 0.11
27 115 0.22
28 36 0.07
29 76 0.15
30 15 0.03
31 64 0.12
32 23 0.04
33 2 0.00
34 11 0.02
35 12 0.02
36 1 0.00
37 1 0.00
38 9 0.02
39 4 0.01
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.43
Consensus pattern (28 bp):
TATATACTATATATTATATATAAATATA
Found at i:126204 original size:13 final size:13
Alignment explanation
Indices: 126186--126220 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
126176 TTTACATATG
126186 AACTATATATAAA
1 AACTATATATAAA
*
126199 AACTATATATATA
1 AACTATATATAAA
126212 AACTATATA
1 AACTATATA
126221 AACTATAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (13 bp):
AACTATATATAAA
Found at i:126403 original size:9 final size:9
Alignment explanation
Indices: 126383--126433 Score: 75
Period size: 9 Copynumber: 5.4 Consensus size: 9
126373 ATAAATTATT
*
126383 TATATAATA
1 TATATACTA
126392 TATACTACATA
1 TATA-TAC-TA
126403 TATATACTA
1 TATATACTA
126412 TATATACTA
1 TATATACTA
126421 TATATACTA
1 TATATACTA
126430 TATA
1 TATA
126434 GTTTACATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
9 28 0.72
10 5 0.13
11 6 0.15
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.43
Consensus pattern (9 bp):
TATATACTA
Found at i:126405 original size:13 final size:13
Alignment explanation
Indices: 126389--126422 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
126379 TATTTATATA
126389 ATATATACTACAT
1 ATATATACTACAT
*
126402 ATATATACTATAT
1 ATATATACTACAT
126415 ATACTATA
1 ATA-TATA
126423 TATACTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (13 bp):
ATATATACTACAT
Found at i:126620 original size:63 final size:59
Alignment explanation
Indices: 126548--126704 Score: 176
Period size: 59 Copynumber: 2.6 Consensus size: 59
126538 ATAGTTATTA
*
126548 ATGAACTATATAACTATTTATATAGTATATACTATATATAAACTATATATATATAATTTACAT
1 ATGAACTATAAAACTA--TATATA-TATATA-TATATATAAACTATATATATATAATTTACAT
* * ** *
126611 ATGAGCTATAAAACTATATATATATATATATATATATACTATATATATATAAACTATAT
1 ATGAACTATAAAACTATATATATATATATATATATAAACTATATATATATAATTTACAT
*
126670 AT-ATA-TATATATA-TATATATATATATATATATATA
1 ATGA-ACTATA-AAACTATATATATATATATATATATA
126705 TAGTTGAGTT
Statistics
Matches: 84, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
58 27 0.32
59 31 0.37
60 6 0.07
61 6 0.07
63 14 0.17
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.43
Consensus pattern (59 bp):
ATGAACTATAAAACTATATATATATATATATATATAAACTATATATATATAATTTACAT
Found at i:127578 original size:19 final size:19
Alignment explanation
Indices: 127556--127594 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
127546 AGAGGGTGCT
*
127556 GACCGGCTGAACTGGTCTG
1 GACCGACTGAACTGGTCTG
*
127575 GACCGACTGGACTGGTCTG
1 GACCGACTGAACTGGTCTG
127594 G
1 G
127595 TTTGGTCTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.15, C:0.26, G:0.38, T:0.21
Consensus pattern (19 bp):
GACCGACTGAACTGGTCTG
Found at i:127691 original size:29 final size:29
Alignment explanation
Indices: 127649--127715 Score: 125
Period size: 29 Copynumber: 2.3 Consensus size: 29
127639 CATTGACCTA
127649 GTCGTTGACCGTTGACCAGGCGTTGATCG
1 GTCGTTGACCGTTGACCAGGCGTTGATCG
127678 GTCGTTGACCGTTGACCAGGCGTTGATCG
1 GTCGTTGACCGTTGACCAGGCGTTGATCG
*
127707 GCCGTTGAC
1 GTCGTTGAC
127716 TTTTTTTGGG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.13, C:0.25, G:0.34, T:0.27
Consensus pattern (29 bp):
GTCGTTGACCGTTGACCAGGCGTTGATCG
Found at i:146757 original size:14 final size:14
Alignment explanation
Indices: 146725--146758 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
146715 TTGAAGATTT
*
146725 ATAACATAAGAATC
1 ATAATATAAGAATC
146739 ATAATATAAGAATC
1 ATAATATAAGAATC
146753 ATAATA
1 ATAATA
146759 AATATAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.59, C:0.09, G:0.06, T:0.26
Consensus pattern (14 bp):
ATAATATAAGAATC
Found at i:146786 original size:29 final size:28
Alignment explanation
Indices: 146754--146809 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
146744 ATAAGAATCA
146754 TAATAAATATAATAAATATATTTATTATT
1 TAATAAATATAATAAATAT-TTTATTATT
* * *
146783 TAATTATTATAATTAATATTTTATTAT
1 TAATAAATATAATAAATATTTTATTAT
146810 AACATTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 8 0.33
29 16 0.67
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (28 bp):
TAATAAATATAATAAATATTTTATTATT
Found at i:148166 original size:22 final size:21
Alignment explanation
Indices: 148145--148186 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
148135 TATCGTAAAT
* *
148145 TCACGTTGTGATAGTTGAAAA
1 TCACGTTGCGATAGTTAAAAA
*
148166 TCGCGTTGCGATAGTTAAAAA
1 TCACGTTGCGATAGTTAAAAA
148187 AAAAAGATTT
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:0.33, C:0.12, G:0.24, T:0.31
Consensus pattern (21 bp):
TCACGTTGCGATAGTTAAAAA
Found at i:148780 original size:6 final size:6
Alignment explanation
Indices: 148759--148791 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
148749 TCTCGTCTCG
148759 GGTCG- GGTCG- GGTCGC GGTCGC GGTCGC GGTCG
1 GGTCGC GGTCGC GGTCGC GGTCGC GGTCGC GGTCG
148792 TCCGCGCGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 10 0.37
6 17 0.63
ACGTcount: A:0.00, C:0.27, G:0.55, T:0.18
Consensus pattern (6 bp):
GGTCGC
Found at i:148880 original size:19 final size:19
Alignment explanation
Indices: 148856--148921 Score: 69
Period size: 19 Copynumber: 3.3 Consensus size: 19
148846 TAAACTATCA
148856 CAACGAATTTGGAAAATCG
1 CAACGAATTTGGAAAATCG
* * **
148875 CAACGACAACTGTAGACTATCG
1 CAACG--AA-TTTGGAAAATCG
148897 CAACGAATTTGGAAAATCG
1 CAACGAATTTGGAAAATCG
148916 CAACGA
1 CAACGA
148922 TAACTGTAGA
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
19 19 0.53
20 2 0.06
21 2 0.06
22 13 0.36
ACGTcount: A:0.41, C:0.21, G:0.20, T:0.18
Consensus pattern (19 bp):
CAACGAATTTGGAAAATCG
Found at i:148894 original size:41 final size:41
Alignment explanation
Indices: 148849--148942 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
148839 CTTTTTTTAA
*
148849 ACTATCACAACGAATTTGGAAAATCGCAACGACAACTGTAG
1 ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
*
148890 ACTATCGCAACGAATTTGGAAAATCGCAACGATAACTGTAG
1 ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
148931 ACTATCGCAACG
1 ACTATCGCAACG
148943 CGAACTGAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.20
Consensus pattern (41 bp):
ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
Found at i:148948 original size:22 final size:22
Alignment explanation
Indices: 148871--148989 Score: 76
Period size: 22 Copynumber: 5.7 Consensus size: 22
148861 AATTTGGAAA
148871 ATCGCAACGAC-AACTGTAGACT
1 ATCGCAACG-CGAACTGTAGACT
* * **
148893 ATCGCAA--CGAA-TTTGGAAA
1 ATCGCAACGCGAACTGTAGACT
**
148912 ATCGCAACGATAACTGTAGACT
1 ATCGCAACGCGAACTGTAGACT
*
148934 ATCGCAACGCGAACTG-A-A-A
1 ATCGCAACGCGAACTGTAGACT
* *
148953 ATCGCAACGCG-ATTTTCA-ACT
1 ATCGCAACGCGAACTGT-AGACT
148974 ATCGCAACGCGAACTG
1 ATCGCAACGCGAACTG
148990 GAAAATCGTT
Statistics
Matches: 71, Mismatches: 18, Indels: 16
0.68 0.17 0.15
Matches are distributed among these distances:
18 2 0.03
19 23 0.32
20 5 0.07
21 14 0.20
22 27 0.38
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.19
Consensus pattern (22 bp):
ATCGCAACGCGAACTGTAGACT
Found at i:148953 original size:41 final size:42
Alignment explanation
Indices: 148865--148997 Score: 168
Period size: 41 Copynumber: 3.2 Consensus size: 42
148855 ACAACGAATT
*
148865 TGGAAAATCGCAACGACAACTGTAGACTATCGCAA--CGAATT
1 TGGAAAATCGCAACGACAACTGTAGACTATCGCAACGCGAA-C
*
148906 TGGAAAATCGCAACGATAACTGTAGACTATCGCAACGCGAAC
1 TGGAAAATCGCAACGACAACTGTAGACTATCGCAACGCGAAC
* * *
148948 T-GAAAATCGCAACG-CGATTTTCA-ACTATCGCAACGCGAAC
1 TGGAAAATCGCAACGACAACTGT-AGACTATCGCAACGCGAAC
148988 TGGAAAATCG
1 TGGAAAATCG
148998 TTGCGATTTT
Statistics
Matches: 82, Mismatches: 6, Indels: 8
0.85 0.06 0.08
Matches are distributed among these distances:
40 21 0.26
41 56 0.68
42 1 0.01
43 4 0.05
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.19
Consensus pattern (42 bp):
TGGAAAATCGCAACGACAACTGTAGACTATCGCAACGCGAAC
Found at i:148958 original size:19 final size:19
Alignment explanation
Indices: 148934--148997 Score: 65
Period size: 21 Copynumber: 3.2 Consensus size: 19
148924 ACTGTAGACT
148934 ATCGCAACGCGAACTGAAA
1 ATCGCAACGCGAACTGAAA
** * *
148953 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGA-ACTGAA-A
148974 ATCGCAACGCGAACTGGAAA
1 ATCGCAACGCGAACT-GAAA
148994 ATCG
1 ATCG
148998 TTGCGATTTT
Statistics
Matches: 34, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
19 12 0.35
20 8 0.24
21 14 0.41
ACGTcount: A:0.36, C:0.27, G:0.20, T:0.17
Consensus pattern (19 bp):
ATCGCAACGCGAACTGAAA
Found at i:148979 original size:21 final size:21
Alignment explanation
Indices: 148953--149045 Score: 93
Period size: 21 Copynumber: 4.6 Consensus size: 21
148943 CGAACTGAAA
148953 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
** ** *
148974 ATCGCAACGCGAACTGGAA-A
1 ATCGCAACGCGATTTTCAACT
**
148994 ATCG--TTGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
*
149013 ATCGCAACGCGATTTTCAATT
1 ATCGCAACGCGATTTTCAACT
149034 ATCGCAACGCGA
1 ATCGCAACGCGA
149046 AATGCAACGC
Statistics
Matches: 54, Mismatches: 15, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
18 7 0.13
19 4 0.07
20 4 0.07
21 39 0.72
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (21 bp):
ATCGCAACGCGATTTTCAACT
Found at i:149015 original size:39 final size:39
Alignment explanation
Indices: 148931--149024 Score: 145
Period size: 39 Copynumber: 2.4 Consensus size: 39
148921 ATAACTGTAG
148931 ACTATCGCAACGCGAACTGAAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAACTGAAAATCG-AACGCGATTTTCA
**
148971 ACTATCGCAACGCGAACTGGAAAATCG-TTGCGATTTTCA
1 ACTATCGCAACGCGAACT-GAAAATCGAACGCGATTTTCA
149010 ACTATCGCAACGCGA
1 ACTATCGCAACGCGA
149025 TTTTCAATTA
Statistics
Matches: 51, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
39 25 0.49
40 18 0.35
41 8 0.16
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (39 bp):
ACTATCGCAACGCGAACTGAAAATCGAACGCGATTTTCA
Found at i:149962 original size:16 final size:15
Alignment explanation
Indices: 149941--149972 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
149931 TAATAAATAG
149941 ACGAACATAAACGAAC
1 ACGAACAT-AACGAAC
149957 ACGAACATAACGAAC
1 ACGAACATAACGAAC
149972 A
1 A
149973 AATTTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.56, C:0.25, G:0.12, T:0.06
Consensus pattern (15 bp):
ACGAACATAACGAAC
Found at i:150051 original size:10 final size:10
Alignment explanation
Indices: 150036--150110 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
150026 CATTTAATAA
150036 ATAAACGAAC
1 ATAAACGAAC
150046 ATAAACGAAC
1 ATAAACGAAC
150056 ----ACGAAC
1 ATAAACGAAC
150062 ATAAACGAAC
1 ATAAACGAAC
* *
150072 ATGAAC-ATAA
1 ATAAACGA-AC
150082 ATGAATACGAAC
1 AT-AA-ACGAAC
150094 ATAAACGAAC
1 ATAAACGAAC
*
150104 ATCAACG
1 ATAAACG
150111 TTGGAGACCC
Statistics
Matches: 52, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
6 6 0.12
9 1 0.02
10 36 0.69
11 3 0.06
12 5 0.10
13 1 0.02
ACGTcount: A:0.56, C:0.20, G:0.12, T:0.12
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:150061 original size:16 final size:16
Alignment explanation
Indices: 150040--150104 Score: 103
Period size: 16 Copynumber: 4.1 Consensus size: 16
150030 TAATAAATAA
150040 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
150056 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
* * *
150072 ATGAACATAAATGAAT
1 ACGAACATAAACGAAC
150088 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
150104 A
1 A
150105 TCAACGTTGG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.57, C:0.20, G:0.12, T:0.11
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:151117 original size:10 final size:10
Alignment explanation
Indices: 151102--151149 Score: 51
Period size: 10 Copynumber: 4.4 Consensus size: 10
151092 ATAAATGAAA
151102 GAACATAAAC
1 GAACATAAAC
151112 GAACATAATCGAAC
1 GAACAT-A---AAC
151126 GAACATAAAC
1 GAACATAAAC
*
151136 GAACATAACC
1 GAACATAAAC
151146 GAAC
1 GAAC
151150 GAATATAACC
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
10 22 0.67
11 1 0.03
13 1 0.03
14 9 0.27
ACGTcount: A:0.54, C:0.23, G:0.12, T:0.10
Consensus pattern (10 bp):
GAACATAAAC
Found at i:151117 original size:24 final size:25
Alignment explanation
Indices: 151089--151143 Score: 87
Period size: 24 Copynumber: 2.3 Consensus size: 25
151079 GATTGGGTTA
151089 AACATAAAT-GAAAGAACATAAACG
1 AACATAAATCGAAAGAACATAAACG
*
151113 AACAT-AATCGAACGAACATAAACG
1 AACATAAATCGAAAGAACATAAACG
151137 AACATAA
1 AACATAA
151144 CCGAACGAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 3 0.11
24 24 0.86
25 1 0.04
ACGTcount: A:0.60, C:0.16, G:0.11, T:0.13
Consensus pattern (25 bp):
AACATAAATCGAAAGAACATAAACG
Found at i:151126 original size:14 final size:14
Alignment explanation
Indices: 151109--151164 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
151099 AAAGAACATA
*
151109 AACGAACATAATCG
1 AACGAACATAACCG
151123 AACGAACAT-A---
1 AACGAACATAACCG
151133 AACGAACATAACCG
1 AACGAACATAACCG
*
151147 AACGAATATAACCG
1 AACGAACATAACCG
151161 AACG
1 AACG
151165 TTCACGAACG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
10 9 0.24
11 1 0.03
13 1 0.03
14 26 0.70
ACGTcount: A:0.52, C:0.23, G:0.14, T:0.11
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:151148 original size:24 final size:24
Alignment explanation
Indices: 151102--151163 Score: 97
Period size: 24 Copynumber: 2.6 Consensus size: 24
151092 ATAAATGAAA
*
151102 GAACATAAACGAACATAATCGAAC
1 GAACATAAACGAACATAACCGAAC
151126 GAACATAAACGAACATAACCGAAC
1 GAACATAAACGAACATAACCGAAC
* *
151150 GAATATAACCGAAC
1 GAACATAAACGAAC
151164 GTTCACGAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.53, C:0.23, G:0.13, T:0.11
Consensus pattern (24 bp):
GAACATAAACGAACATAACCGAAC
Found at i:156262 original size:21 final size:19
Alignment explanation
Indices: 156238--156285 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 19
156228 GTTGAATACA
156238 AATATTTTAATATTTAATTTG
1 AATATTTTAA-ATTTAA-TTG
*
156259 AATAATTTTAACTTTAATTG
1 AAT-ATTTTAAATTTAATTG
156279 AAT-TTTT
1 AATATTTT
156286 TTATTTGTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 4 0.16
20 6 0.24
21 8 0.32
22 7 0.28
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (19 bp):
AATATTTTAAATTTAATTG
Found at i:156288 original size:20 final size:21
Alignment explanation
Indices: 156241--156281 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
156231 GAATACAAAT
*
156241 ATTTTAATATTTAATTTGAATA
1 ATTTTAA-CTTTAATTTGAATA
156263 ATTTTAACTTTAA-TTGAAT
1 ATTTTAACTTTAATTTGAAT
156282 TTTTTTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 5 0.28
22 7 0.39
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (21 bp):
ATTTTAACTTTAATTTGAATA
Found at i:158117 original size:26 final size:26
Alignment explanation
Indices: 158087--158166 Score: 97
Period size: 26 Copynumber: 3.0 Consensus size: 26
158077 AGATGCTTGG
* *
158087 ATTTGAAGTTAAATAGCAATGGACCA
1 ATTTGAAGTTAAATGGCAAAGGACCA
* *
158113 TTTTGAAGTTAAATGGCAAGGGACCACA
1 ATTTGAAGTTAAATGGCAAAGGA-C-CA
*
158141 ATTAGAAGTTAAATGGCAAAGGACCA
1 ATTTGAAGTTAAATGGCAAAGGACCA
158167 CAATTAGAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
26 22 0.48
27 2 0.04
28 22 0.48
ACGTcount: A:0.41, C:0.12, G:0.23, T:0.24
Consensus pattern (26 bp):
ATTTGAAGTTAAATGGCAAAGGACCA
Found at i:158154 original size:28 final size:28
Alignment explanation
Indices: 158091--158175 Score: 111
Period size: 28 Copynumber: 3.1 Consensus size: 28
158081 GCTTGGATTT
* * * *
158091 GAAGTTAAATAGCAATGGA-C-CATTTT
1 GAAGTTAAATGGCAAAGGACCACAATTA
*
158117 GAAGTTAAATGGCAAGGGACCACAATTA
1 GAAGTTAAATGGCAAAGGACCACAATTA
158145 GAAGTTAAATGGCAAAGGACCACAATTA
1 GAAGTTAAATGGCAAAGGACCACAATTA
158173 GAA
1 GAA
158176 ATATGACTTG
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
26 17 0.33
27 1 0.02
28 34 0.65
ACGTcount: A:0.44, C:0.13, G:0.22, T:0.21
Consensus pattern (28 bp):
GAAGTTAAATGGCAAAGGACCACAATTA
Found at i:166379 original size:17 final size:18
Alignment explanation
Indices: 166357--166391 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
166347 GAACACATAT
166357 ATTT-AATATAAAAAATA
1 ATTTAAATATAAAAAATA
166374 ATTTAAATATAAAAAATA
1 ATTTAAATATAAAAAATA
166392 CAAAATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
ATTTAAATATAAAAAATA
Found at i:168137 original size:3 final size:3
Alignment explanation
Indices: 168118--168191 Score: 112
Period size: 3 Copynumber: 24.0 Consensus size: 3
168108 CAAAAACATG
*
168118 TAA TAC TAA TAAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
168164 TAA TAA TAA TAAA TAT TAA TAA TAA TAA
1 TAA TAA TAA T-AA TAA TAA TAA TAA TAA
168192 CCCATACAAA
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
3 59 0.91
4 6 0.09
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:168875 original size:258 final size:257
Alignment explanation
Indices: 168314--169141 Score: 1015
Period size: 258 Copynumber: 3.2 Consensus size: 257
168304 CAAGTGAAAG
* ** *
168314 TGACAGATAACCCGAAGGATTTAATCATCATGCTCAAAAGACTTGTTGATGGCCCGAAGGACTT-
1 TGACAGATGACCCGAAGGATTTAATCATCATGCTCAAAAGACTTACTGATGGCCCGAATGACTTA
* *
168378 --ATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATTGTTTTCTTACTTTTCAAAAATTT
66 CAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATTGCTTTCTTACTTTTAAAAAATTT
* * * *
168441 CATTTTATAAAAAAATTAAATGA-AAAGCTTTGAAAATTGCTTTTCTCATTTTTCAAAAACATCA
131 -ATTTTCTGAAAATATTAAATGAGAAA-CTTTGAAAATTACTTTTCTCATTTTTC-AAAA-ATCA
* * * * * *
168505 TATGAAAGCA-TCTTGCCCAAAGGTCTTATTGATGGCCCAAAGGACTTATCATCTCGCTCGAAAG
192 TGTGAAAACATTC-TGCCCAAATGTCTTATAGATGGCTCAAAGGACTTATCATCTAGCTCGAAAG
168569 AC
256 AC
* * * * *
168571 TGATAGATGACCTGAAGCATTTAATCATCATTCTCAAAAGACTTACTGATGGCCCGGATGACTTA
1 TGACAGATGACCCGAAGGATTTAATCATCATGCTCAAAAGACTTACTGATGGCCCGAATGACTTA
* * * * * ***
168636 CAAATTTAGGGAATAGTCTACTGGGTAAGAAACTTTGGAAATCGCTTTCTTA-TTTTTTTAAATT
66 C-AATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATTGCTTTCTTACTTTTAAAAAATT
*
168700 CTATTTTCTGAAAATATTAAATGAGAAAATTTGAAAATTACTTTTCTCATTTTTCAAAAATCATG
130 -TATTTTCTGAAAATATTAAATGAGAAACTTTGAAAATTACTTTTCTCATTTTTCAAAAATCATG
* * * *
168765 TGAAAACATTCTACCCGAATGTCTTATAGATGGCTCAAATGACTTATTC-TCTAGCTCGAAAGAT
194 TGAAAACATTCTGCCCAAATGTCTTATAGATGGCTCAAAGGACTTA-TCATCTAGCTCGAAAGAC
* * * * * *
168829 TGACAGATGATCCGAAGGATTTAATCACCATGCTCGAAATACTTACTAACGGCCCGAATGACTTA
1 TGACAGATGACCCGAAGGATTTAATCATCATGCTCAAAAGACTTACTGATGGCCCGAATGACTTA
* *
168894 CCAATTTTGGAAATAGTTTACTAGGTAAGAAACTGTGGAAATTGCTTTCTTACTTTTCAAAAAAA
66 -CAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATTGCTTTCTTACTTTT-AAAAAAT
* **
168959 TTATTTTCTGAAAATATTAAATGAGAAACTTTGAAAATTACTTTTATCATTTTTTTGAAAATCAT
129 TTATTTTCTGAAAATATTAAATGAGAAACTTTGAAAATTACTTTTCTCA-TTTTTCAAAAATCAT
* * * * *
169024 GTAAAAACATCCTGCCCAAATGTCTTATAGATGGCTCGAAGGACTTATCATCTTGCTCGAGAGAC
193 GTGAAAACATTCTGCCCAAATGTCTTATAGATGGCTCAAAGGACTTATCATCTAGCTCGAAAGAC
* * * *
169089 TAACAGATGACCCGAA-GATTTAATCATCAAGCTCGAAAGACTTATTGATGGCC
1 TGACAGATGACCCGAAGGATTTAATCATCATGCTCAAAAGACTTACTGATGGCC
169142 TGAAGGGCTT
Statistics
Matches: 483, Mismatches: 75, Indels: 24
0.83 0.13 0.04
Matches are distributed among these distances:
257 55 0.11
258 152 0.31
259 92 0.19
260 137 0.28
261 47 0.10
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.33
Consensus pattern (257 bp):
TGACAGATGACCCGAAGGATTTAATCATCATGCTCAAAAGACTTACTGATGGCCCGAATGACTTA
CAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATTGCTTTCTTACTTTTAAAAAATTT
ATTTTCTGAAAATATTAAATGAGAAACTTTGAAAATTACTTTTCTCATTTTTCAAAAATCATGTG
AAAACATTCTGCCCAAATGTCTTATAGATGGCTCAAAGGACTTATCATCTAGCTCGAAAGAC
Found at i:180522 original size:18 final size:18
Alignment explanation
Indices: 180501--180541 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
180491 TAATAGTGAG
180501 TTATTATAAAATATAT-TT
1 TTATTAT-AAATATATCTT
*
180519 TTATTATAATTATATCTT
1 TTATTATAAATATATCTT
180537 TTATT
1 TTATT
180542 TATATTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (18 bp):
TTATTATAAATATATCTT
Found at i:180563 original size:19 final size:18
Alignment explanation
Indices: 180501--180564 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 18
180491 TAATAGTGAG
*
180501 TTATTATAAAATATAT-TT
1 TTATTAT-AATTATATCTT
180519 TTATTATAATTATATCTT
1 TTATTATAATTATATCTT
* * *
180537 TTATTTATATTTTTATGTCT
1 TTA-TTATAATTATATCT-T
180557 TTATTATA
1 TTATTATA
180565 GTTTAAATTG
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
17 7 0.18
18 12 0.31
19 16 0.41
20 4 0.10
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (18 bp):
TTATTATAATTATATCTT
Done.