Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009089.1 Hibiscus syriacus cultivar Beakdansim tig00112535_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: 147874
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:551 original size:24 final size:20
Alignment explanation
Indices: 496--553 Score: 62
Period size: 24 Copynumber: 2.7 Consensus size: 20
486 AATGAAGGTA
496 TGCATCGATGCACTCTACAG
1 TGCATCGATGCACTCTACAG
* *
516 TGTATCGATGCATCATTTAACATG
1 TGCATCGATGCA-C-TCT-ACA-G
540 TGCATCGATGCACT
1 TGCATCGATGCACT
554 ACCTGTGCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
20 11 0.35
21 1 0.03
22 3 0.10
23 4 0.13
24 12 0.39
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (20 bp):
TGCATCGATGCACTCTACAG
Found at i:3978 original size:64 final size:62
Alignment explanation
Indices: 3755--3978 Score: 234
Period size: 64 Copynumber: 3.5 Consensus size: 62
3745 TGTTTGAATG
** * *
3755 TGCACCGATGCATTGGTAGTGCATCGATGCACTCTTTTAAAATAA-AGACATCGAATGCAATTCA
1 TGCACCGATGCATAAGTAGTGCATCGATGCA-TC--TCAAAATAATAAACATCGAATGCAATTCA
* * ** **
3819 TGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTGATAATGAAACATCGAATGCAATTGG
1 TGCACCGATGCATAAGTAGTGCATCGATGCATCTCA-AAATAAT-AAACATCGAATGCAATTCA
* * * * *
3883 TGCATCGATGCATAAGAAGTGCATCGATGCATCTCAACAATAATACAACATCGAATACATTTTA
1 TGCACCGATGCATAAGTAGTGCATCGATGCATCTCAA-AATAATA-AACATCGAATGCAATTCA
*
3947 TGCACCGATGCATCAGTAGTGCATCGATGCAT
1 TGCACCGATGCATAAGTAGTGCATCGATGCAT
3979 ACCTTTATTA
Statistics
Matches: 134, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
61 1 0.01
62 4 0.03
63 3 0.02
64 126 0.94
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (62 bp):
TGCACCGATGCATAAGTAGTGCATCGATGCATCTCAAAATAATAAACATCGAATGCAATTCA
Found at i:4672 original size:31 final size:31
Alignment explanation
Indices: 4634--4789 Score: 260
Period size: 31 Copynumber: 5.0 Consensus size: 31
4624 AGGGTCGAGG
4634 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
4665 GTTTACCTATGTTCTTCGGGACATATGGATT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
4696 GTTTACCTATGTTCCTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
4727 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
4758 GTTTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
4789 G
1 G
4790 GTCCTTCGGG
Statistics
Matches: 118, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
31 117 0.99
32 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.38
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:8031 original size:64 final size:64
Alignment explanation
Indices: 7958--8178 Score: 195
Period size: 64 Copynumber: 3.5 Consensus size: 64
7948 TTTTTGAATG
* * **
7958 TGCACCGATGCATTGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAAGACATCGAATGCAATTC
1 TGCATCGATGCATAGGTAGTGCATCGATGCATC-CCATTAATAATAAA-ACATCGAATGCAATTC
8021 A
64 A
* * **
8022 TGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATGAAACATCGAATGCAATTGG
1 TGCATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCA
* * * ** * * *
8086 TGCATTGATGCATAAGG-AGTGCATCGATGCGTCTCAACAATAATACAACATCGAATAC-ATT-T
1 TGCATCGATGCAT-AGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCA
* *
8148 TACA-CGATGCATCA-GTAATGCATCGATGCAT
1 TGCATCGATGCAT-AGGTAGTGCATCGATGCAT
8179 ACCTTCATTA
Statistics
Matches: 130, Mismatches: 23, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
60 1 0.01
61 21 0.16
62 3 0.02
63 3 0.02
64 94 0.72
65 8 0.06
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (64 bp):
TGCATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCA
Found at i:8871 original size:31 final size:31
Alignment explanation
Indices: 8833--8988 Score: 199
Period size: 31 Copynumber: 5.0 Consensus size: 31
8823 AGGGTCGAGG
* *
8833 GTTTACCTATGTTATTCAGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
8864 GTTTACCTATGTTCTTTGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
8895 GTTTACCTATGTT-TCTCTGGATATATGGACT
1 GTTTACCTATGTTCT-TCGGGACATATGGACT
* *
8926 ATTTACCTATGTTCTTCGGGACATATGGATT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
8957 GTTTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
8988 G
1 G
8989 GTCATTCAGG
Statistics
Matches: 108, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
30 1 0.01
31 105 0.97
32 2 0.02
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.41
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:11089 original size:20 final size:20
Alignment explanation
Indices: 11039--11193 Score: 128
Period size: 20 Copynumber: 8.1 Consensus size: 20
11029 CACTAAATAT
11039 TTGTCCCGAATG-ACCACT-A
1 TTGTCCCGAA-GAACCACTGA
11058 -TGTCCCGAAGAACCACTGA
1 TTGTCCCGAAGAACCACTGA
* *
11077 TTGTTCTGAAGAACCACT-A
1 TTGTCCCGAAGAACCACTGA
* *
11096 -TGTCCCGAAGGACCACTGT
1 TTGTCCCGAAGAACCACTGA
*
11115 TTGTCCCGAAGGACCACTGA
1 TTGTCCCGAAGAACCACTGA
* * *
11135 TTATTCCAAAGAACCACT-A
1 TTGTCCCGAAGAACCACTGA
* * *
11154 -TGTCCCAAAGGACCACTGT
1 TTGTCCCGAAGAACCACTGA
*
11173 TTGTCCTGAATG-ACCACTGA
1 TTGTCCCGAA-GAACCACTGA
11193 T
1 T
11194 AATCCCTCGA
Statistics
Matches: 110, Mismatches: 18, Indels: 15
0.77 0.13 0.10
Matches are distributed among these distances:
17 1 0.01
18 43 0.39
19 3 0.03
20 62 0.56
21 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (20 bp):
TTGTCCCGAAGAACCACTGA
Found at i:11102 original size:38 final size:38
Alignment explanation
Indices: 11039--11132 Score: 127
Period size: 38 Copynumber: 2.5 Consensus size: 38
11029 CACTAAATAT
11039 TTGTCCCGAATG-ACCACTATGTCCCGAAGAACCACTGA
1 TTGTCCCGAA-GAACCACTATGTCCCGAAGAACCACTGA
* * * *
11077 TTGTTCTGAAGAACCACTATGTCCCGAAGGACCACTGT
1 TTGTCCCGAAGAACCACTATGTCCCGAAGAACCACTGA
*
11115 TTGTCCCGAAGGACCACT
1 TTGTCCCGAAGAACCACT
11133 GATTATTCCA
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
37 1 0.02
38 47 0.98
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (38 bp):
TTGTCCCGAAGAACCACTATGTCCCGAAGAACCACTGA
Found at i:11132 original size:58 final size:58
Alignment explanation
Indices: 11040--11193 Score: 213
Period size: 58 Copynumber: 2.7 Consensus size: 58
11030 ACTAAATATT
* * * * **
11040 TGTCCCGAATGACCAC--TATGTCCCGAAGAACCACTGATTGTTCTGAAGAACCACTA
1 TGTCCCGAAGGACCACTGTTTGTCCCGAAGGACCACTGATTATTCCAAAGAACCACTA
11096 TGTCCCGAAGGACCACTGTTTGTCCCGAAGGACCACTGATTATTCCAAAGAACCACTA
1 TGTCCCGAAGGACCACTGTTTGTCCCGAAGGACCACTGATTATTCCAAAGAACCACTA
* * *
11154 TGTCCCAAAGGACCACTGTTTGTCCTGAATGACCACTGAT
1 TGTCCCGAAGGACCACTGTTTGTCCCGAAGGACCACTGAT
11194 AATCCCTCGA
Statistics
Matches: 87, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
56 15 0.17
58 72 0.83
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.24
Consensus pattern (58 bp):
TGTCCCGAAGGACCACTGTTTGTCCCGAAGGACCACTGATTATTCCAAAGAACCACTA
Found at i:13693 original size:327 final size:327
Alignment explanation
Indices: 13099--13753 Score: 1310
Period size: 327 Copynumber: 2.0 Consensus size: 327
13089 CGACTACAAA
13099 TATCATCTCTTCAAGCATCTCATTTTTACGTGTCACCGTTTTATTATTAACTGGTTTACTGCCCA
1 TATCATCTCTTCAAGCATCTCATTTTTACGTGTCACCGTTTTATTATTAACTGGTTTACTGCCCA
13164 TTATTTTTATGCGAGTCCTTAAGAACGATTTCGTCAAGTACGATTCATTTTCATATGTATTTGAT
66 TTATTTTTATGCGAGTCCTTAAGAACGATTTCGTCAAGTACGATTCATTTTCATATGTATTTGAT
13229 GCATGGTAATCCATATCTAATTCTCAATTATACTTGGTTTTGTTTTCAAATTCATGTATTCCTTT
131 GCATGGTAATCCATATCTAATTCTCAATTATACTTGGTTTTGTTTTCAAATTCATGTATTCCTTT
13294 ATAGGTATGCACATGATGACAAATCTGCGGATGACCATGAGGAGTCTGGGTGGAATTATATTCAT
196 ATAGGTATGCACATGATGACAAATCTGCGGATGACCATGAGGAGTCTGGGTGGAATTATATTCAT
13359 GGTGATGTGTTCAGGTTCCCCAAGAACAAGTCTTTGTTTGCTACCGCTCTTGGTTGCGGCACCCA
261 GGTGATGTGTTCAGGTTCCCCAAGAACAAGTCTTTGTTTGCTACCGCTCTTGGTTGCGGCACCCA
13424 GC
326 GC
13426 TATCATCTCTTCAAGCATCTCATTTTTACGTGTCACCGTTTTATTATTAACTGGTTTACTGCCCA
1 TATCATCTCTTCAAGCATCTCATTTTTACGTGTCACCGTTTTATTATTAACTGGTTTACTGCCCA
13491 TTATTTTTATGCGAGTCCTTAAGAACGATTTCGTCAAGTACGATTCATTTTCATATGTATTTGAT
66 TTATTTTTATGCGAGTCCTTAAGAACGATTTCGTCAAGTACGATTCATTTTCATATGTATTTGAT
13556 GCATGGTAATCCATATCTAATTCTCAATTATACTTGGTTTTGTTTTCAAATTCATGTATTCCTTT
131 GCATGGTAATCCATATCTAATTCTCAATTATACTTGGTTTTGTTTTCAAATTCATGTATTCCTTT
13621 ATAGGTATGCACATGATGACAAATCTGCGGATGACCATGAGGAGTCTGGGTGGAATTATATTCAT
196 ATAGGTATGCACATGATGACAAATCTGCGGATGACCATGAGGAGTCTGGGTGGAATTATATTCAT
13686 GGTGATGTGTTCAGGTTCCCCAAGAACAAGTCTTTGTTTGCTACCGCTCTTGGTTGCGGCACCCA
261 GGTGATGTGTTCAGGTTCCCCAAGAACAAGTCTTTGTTTGCTACCGCTCTTGGTTGCGGCACCCA
13751 GC
326 GC
13753 T
1 T
13754 CTTTACTCTG
Statistics
Matches: 328, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
327 328 1.00
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.39
Consensus pattern (327 bp):
TATCATCTCTTCAAGCATCTCATTTTTACGTGTCACCGTTTTATTATTAACTGGTTTACTGCCCA
TTATTTTTATGCGAGTCCTTAAGAACGATTTCGTCAAGTACGATTCATTTTCATATGTATTTGAT
GCATGGTAATCCATATCTAATTCTCAATTATACTTGGTTTTGTTTTCAAATTCATGTATTCCTTT
ATAGGTATGCACATGATGACAAATCTGCGGATGACCATGAGGAGTCTGGGTGGAATTATATTCAT
GGTGATGTGTTCAGGTTCCCCAAGAACAAGTCTTTGTTTGCTACCGCTCTTGGTTGCGGCACCCA
GC
Found at i:28152 original size:2 final size:2
Alignment explanation
Indices: 28141--28201 Score: 90
Period size: 2 Copynumber: 31.5 Consensus size: 2
28131 TTAAAAGAAC
28141 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
28182 TG TA TA TA -A TA TA TA AA TA T
1 TA TA TA TA TA TA TA TA TA TA T
28202 TTGAAATAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
1 2 0.04
2 51 0.96
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:28554 original size:2 final size:2
Alignment explanation
Indices: 28547--28829 Score: 210
Period size: 2 Copynumber: 139.5 Consensus size: 2
28537 ATGTATGATG
* *
28547 TA TA TA TA TA -A GTA CA TA TA TA TA TA AA GTA TA -A GTA TA TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA
* *
28588 TA TA TA TA TA TA TA AA GTA TA TA CA TA -A GTA TA TA TA -A GTA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA -TA
*
28629 TA TA TA TA -A GTA TA TA TA -A TA TA TA TA -A T- TA CA 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
** * * *
28668 TA -A CG TA TGA GTA TA TA -A TC TA TA TA GTA TA AA TA TA TA AA
1 TA TA TA TA T-A -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
* * * * *
28709 CTA TA TA GTA TA TA TA TA AA GTA TA TA TG TA TGA TG TA TG TA AA
1 -TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA T-A TA TA TA TA TA
*
28753 TA -A GTG TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
28795 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
28830 CATTAAACAT
Statistics
Matches: 224, Mismatches: 31, Indels: 52
0.73 0.10 0.17
Matches are distributed among these distances:
1 11 0.05
2 195 0.87
3 17 0.08
4 1 0.00
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.42
Consensus pattern (2 bp):
TA
Found at i:29183 original size:20 final size:19
Alignment explanation
Indices: 29134--29182 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
29124 TCTTTCTTTT
*
29134 AATAAATTTTCCCTCTAAA
1 AATAAATTTTCCCTCAAAA
29153 AATAAATTTTCCCTCCAAAA
1 AATAAATTTTCCCT-CAAAA
29173 AATAATATTT
1 AATAA-ATTT
29183 CTTTAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 14 0.52
20 9 0.33
21 4 0.15
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.37
Consensus pattern (19 bp):
AATAAATTTTCCCTCAAAA
Found at i:38586 original size:36 final size:36
Alignment explanation
Indices: 38468--38576 Score: 191
Period size: 36 Copynumber: 3.0 Consensus size: 36
38458 TCCTTACAGG
* *
38468 TTACATGATACACCTATGTTACATACAGTTGAAGCT
1 TTACATGATACACCTATGTTATATACATTTGAAGCT
38504 TTACATGATACACCTATGTTATATACATTTGAAGCT
1 TTACATGATACACCTATGTTATATACATTTGAAGCT
*
38540 TTACATGATACACATATGTTATATACATTTGAAGCT
1 TTACATGATACACCTATGTTATATACATTTGAAGCT
38576 T
1 T
38577 CCTTAGATAC
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 70 1.00
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.38
Consensus pattern (36 bp):
TTACATGATACACCTATGTTATATACATTTGAAGCT
Found at i:41484 original size:32 final size:31
Alignment explanation
Indices: 41445--41505 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 31
41435 CAATAGGTTG
* *
41445 ATGGAACTTATTTTGGATCAAATATGTTGTAT
1 ATGGAACTTATGTTGGAT-AAATATCTTGTAT
*
41477 ATGGAACTTATGTTGTATAAATATCTTGT
1 ATGGAACTTATGTTGGATAAATATCTTGT
41506 TTGAATGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 10 0.38
32 16 0.62
ACGTcount: A:0.31, C:0.07, G:0.18, T:0.44
Consensus pattern (31 bp):
ATGGAACTTATGTTGGATAAATATCTTGTAT
Found at i:43887 original size:2 final size:2
Alignment explanation
Indices: 43880--43947 Score: 136
Period size: 2 Copynumber: 34.0 Consensus size: 2
43870 CAATTTCATC
43880 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
43922 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
43948 TGTTAATTAT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 66 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:49629 original size:21 final size:20
Alignment explanation
Indices: 49589--49630 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
49579 CCAACTTACA
*
49589 ATGCATTATGAACCATTATT
1 ATGCATTATCAACCATTATT
*
49609 ATGCATTATACAACTATTATT
1 ATGCATTAT-CAACCATTATT
49630 A
1 A
49631 GTTGTATGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.40
Consensus pattern (20 bp):
ATGCATTATCAACCATTATT
Found at i:49842 original size:21 final size:20
Alignment explanation
Indices: 49802--49843 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
49792 CCAACTTACA
*
49802 ATGCATTATGAACCATTATT
1 ATGCATTATCAACCATTATT
*
49822 ATGCATTATACAACTATTATT
1 ATGCATTAT-CAACCATTATT
49843 A
1 A
49844 GTTGTATGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.40
Consensus pattern (20 bp):
ATGCATTATCAACCATTATT
Found at i:49903 original size:213 final size:213
Alignment explanation
Indices: 49536--49961 Score: 834
Period size: 213 Copynumber: 2.0 Consensus size: 213
49526 TGCCATATCA
49536 CTTTTCAACCATTATTAGTGCCAACTATGAACCATTATTGTTGCCAACTTACAATGCATTATGAA
1 CTTTTCAACCATTATTAGTGCCAACTATGAACCATTATTGTTGCCAACTTACAATGCATTATGAA
49601 CCATTATTATGCATTATACAACTATTATTAGTTGTATGACAACTAATAATTTTGCATGACAACTA
66 CCATTATTATGCATTATACAACTATTATTAGTTGTATGACAACTAATAATTTTGCATGACAACTA
*
49666 ATAATCTCCCACTTGAAGATTTGATTAGAATAATCATATCTTCACACCATTCTTTCTACCTTGTA
131 ATAATCTCCCACTTGAAGATTTGATTAGAATAATCATATCTTCACACCATTATTTCTACCTTGTA
49731 CCTTCATGTTGCTTACGT
196 CCTTCATGTTGCTTACGT
*
49749 CTTTTCAACCATTATTAGTGCCAACTATGAATCATTATTGTTGCCAACTTACAATGCATTATGAA
1 CTTTTCAACCATTATTAGTGCCAACTATGAACCATTATTGTTGCCAACTTACAATGCATTATGAA
49814 CCATTATTATGCATTATACAACTATTATTAGTTGTATGACAACTAATAATTTTGCATGACAACTA
66 CCATTATTATGCATTATACAACTATTATTAGTTGTATGACAACTAATAATTTTGCATGACAACTA
49879 ATAATCTCCCACTTGAAGATTTGATTAGAATAATCATATCTTCACACCATTATTTCTACCTTGTA
131 ATAATCTCCCACTTGAAGATTTGATTAGAATAATCATATCTTCACACCATTATTTCTACCTTGTA
49944 CCTTCATGTTGCTTACGT
196 CCTTCATGTTGCTTACGT
49962 TTCTGATAGG
Statistics
Matches: 211, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
213 211 1.00
ACGTcount: A:0.32, C:0.20, G:0.10, T:0.38
Consensus pattern (213 bp):
CTTTTCAACCATTATTAGTGCCAACTATGAACCATTATTGTTGCCAACTTACAATGCATTATGAA
CCATTATTATGCATTATACAACTATTATTAGTTGTATGACAACTAATAATTTTGCATGACAACTA
ATAATCTCCCACTTGAAGATTTGATTAGAATAATCATATCTTCACACCATTATTTCTACCTTGTA
CCTTCATGTTGCTTACGT
Found at i:59631 original size:23 final size:24
Alignment explanation
Indices: 59592--59644 Score: 58
Period size: 23 Copynumber: 2.2 Consensus size: 24
59582 ACTTTTCAAC
59592 CATTATTAGTGCCAAC-TATGAAT-
1 CATTATTAGTGCCAACTTAT-AATG
*
59615 CATTATT-GTTGCTAACTTATAATG
1 CATTATTAG-TGCCAACTTATAATG
59639 CATTAT
1 CATTAT
59645 GAACCATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 1 0.04
23 16 0.62
24 9 0.35
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (24 bp):
CATTATTAGTGCCAACTTATAATG
Found at i:64354 original size:2 final size:2
Alignment explanation
Indices: 64347--64383 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
64337 GAGTTTTGAT
64347 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
64384 TGTTCTAAGA
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:65059 original size:60 final size:60
Alignment explanation
Indices: 64995--65125 Score: 131
Period size: 60 Copynumber: 2.2 Consensus size: 60
64985 GTTCAGTGAT
* * *
64995 CATTTTGTAACTTTTAATAGTTGGGGGACTTAACAAAGTAACATCC-TATAGTCAAAGGAC
1 CATTTTGTAACTTTTAATAGTTGAGGGACTTAACAAAGCAA-AGCCATATAGTCAAAGGAC
* ** * * * *
65055 CA-TTTATATTTTTTTAATTGTTGAGGGACTTGATAAAGCAAAGCCATATAGTCAGAGGAC
1 CATTTTGTA-ACTTTTAATAGTTGAGGGACTTAACAAAGCAAAGCCATATAGTCAAAGGAC
65115 CATTTGTGTAA
1 CATTT-TGTAA
65126 TTTACCCTAA
Statistics
Matches: 55, Mismatches: 12, Indels: 7
0.74 0.16 0.09
Matches are distributed among these distances:
59 8 0.15
60 42 0.76
61 2 0.04
62 3 0.05
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (60 bp):
CATTTTGTAACTTTTAATAGTTGAGGGACTTAACAAAGCAAAGCCATATAGTCAAAGGAC
Found at i:66506 original size:66 final size:65
Alignment explanation
Indices: 66400--66533 Score: 214
Period size: 66 Copynumber: 2.0 Consensus size: 65
66390 TAGAGGAATT
* * * *
66400 TTGGAAAGAAGATGAGAGAGAGCAAACGAGCTGAAGAAAGGTGGGGATTACACACTCTCACTTTT
1 TTGGAAAGAAGATCAGAGAGAACAAACGAGCTGAAGAAAGGTGGGGATCACACAC-CTCACTTTC
66465 C
65 C
*
66466 TTGGAAAGAAGATCAGAGAGAACAAACGAGTTGAAGAAAGGTGGGGATCACACACCTCACTTTCC
1 TTGGAAAGAAGATCAGAGAGAACAAACGAGCTGAAGAAAGGTGGGGATCACACACCTCACTTTCC
66531 TTG
1 TTG
66534 ATCTCTCTCG
Statistics
Matches: 63, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
65 12 0.19
66 51 0.81
ACGTcount: A:0.37, C:0.16, G:0.28, T:0.19
Consensus pattern (65 bp):
TTGGAAAGAAGATCAGAGAGAACAAACGAGCTGAAGAAAGGTGGGGATCACACACCTCACTTTCC
Found at i:67480 original size:26 final size:26
Alignment explanation
Indices: 67451--67531 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
67441 AATAAAGCAA
67451 TAAAAATACAGTTAGAATGATATATT
1 TAAAAATACAGTTAGAATGATATATT
* * * **
67477 T-AAAA-GCAGTAAG-AT-AAATAACGA
1 TAAAAATACAGTTAGAATGATAT-A-TT
*
67501 TAAAAATACAATTAGAATGATATATT
1 TAAAAATACAGTTAGAATGATATATT
67527 TAAAA
1 TAAAA
67532 GCAGTAAAAT
Statistics
Matches: 38, Mismatches: 11, Indels: 12
0.62 0.18 0.20
Matches are distributed among these distances:
22 3 0.08
23 3 0.08
24 7 0.18
25 8 0.21
26 11 0.29
27 3 0.08
28 3 0.08
ACGTcount: A:0.56, C:0.05, G:0.11, T:0.28
Consensus pattern (26 bp):
TAAAAATACAGTTAGAATGATATATT
Found at i:67509 original size:50 final size:50
Alignment explanation
Indices: 67450--67545 Score: 174
Period size: 50 Copynumber: 1.9 Consensus size: 50
67440 AAATAAAGCA
* *
67450 ATAAAAATACAGTTAGAATGATATATTTAAAAGCAGTAAGATAAATAACG
1 ATAAAAATACAATTAGAATGATATATTTAAAAGCAGTAAAATAAATAACG
67500 ATAAAAATACAATTAGAATGATATATTTAAAAGCAGTAAAATAAAT
1 ATAAAAATACAATTAGAATGATATATTTAAAAGCAGTAAAATAAAT
67546 GAACACATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.56, C:0.05, G:0.11, T:0.27
Consensus pattern (50 bp):
ATAAAAATACAATTAGAATGATATATTTAAAAGCAGTAAAATAAATAACG
Found at i:68339 original size:15 final size:14
Alignment explanation
Indices: 68315--68356 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
68305 CCTCGGTAAG
*
68315 TTTCTCTTCTTTCTT
1 TTTCTTTTCTTTC-T
68330 TTTCTTTTCTTTCT
1 TTTCTTTTCTTTCT
68344 TTTCTGTTTCTTT
1 TTTCT-TTTCTTT
68357 GCTGCTGAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 6 0.24
15 19 0.76
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.76
Consensus pattern (14 bp):
TTTCTTTTCTTTCT
Found at i:68347 original size:20 final size:20
Alignment explanation
Indices: 68315--68356 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
68305 CCTCGGTAAG
*
68315 TTTCTCTTCTTTCTTTTTCT
1 TTTCTCTTCTTTCTGTTTCT
68335 TTTCT-TTCTTTTCTGTTTCT
1 TTTCTCTTC-TTTCTGTTTCT
68355 TT
1 TT
68357 GCTGCTGAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.76
Consensus pattern (20 bp):
TTTCTCTTCTTTCTGTTTCT
Found at i:68870 original size:3 final size:3
Alignment explanation
Indices: 68862--68921 Score: 111
Period size: 3 Copynumber: 20.0 Consensus size: 3
68852 TTAATATATT
*
68862 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA AAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
68910 TAA TAA TAA TAA
1 TAA TAA TAA TAA
68922 ATCAATATGG
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:69379 original size:113 final size:113
Alignment explanation
Indices: 69181--69946 Score: 1078
Period size: 113 Copynumber: 6.8 Consensus size: 113
69171 TCTTGATGAG
*
69181 TTCTTCTCATTATGAACTTCTTCATCCTTCTTTC-GATGAGTTCTTCTCATTATGAACTTTCTCT
1 TTCTTCTCATTATGAACTTCTTCATCCTTC-TTCAGATGAGTTCTTCTCATTATGAACTCTCTCT
* * * * * *
69245 AGAAAAGTTGATCCATCAAGTGATGGATT-TGAGCAAAA-ATCTGAACAAA
65 GGAAAAGCTAATCCATCAAGTGATGAATTCAG-GCAAAAGGT-TGAACAAA
* ***
69294 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCGAACTG
1 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCTG
* * *
69359 GAAAAGCTAATCTATCAAGTGATAGATTTGA-GCAAAAGGTTGAACAAA
66 GAAAAGCTAATCCATCAAGTGAT-GAATTCAGGCAAAAGGTTGAACAAA
* ***
69407 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCGAACTG
1 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCTG
* * *
69472 GAAAAGCTAATCTATCAAGTGATAGATTTGA-GCAAAAGGTTGAACAAA
66 GAAAAGCTAATCCATCAAGTGAT-GAATTCAGGCAAAAGGTTGAACAAA
*
69520 TTCTTCTCATTATGAACTTCTT-ATTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTTCT
1 TTCTTCTCATTATGAACTTCTTCA-TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCT
*
69584 GGAAAAGATAATCCATCAAGTGATGAATTCAGGCAAAAGGTTGAACAAA
65 GGAAAAGCTAATCCATCAAGTGATGAATTCAGGCAAAAGGTTGAACAAA
* *
69633 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCTG
* * * * *
69698 GAAAGGCTGATCCATCAATTGATGAATTCAGGTAAAAGGTTGAACAAG
66 GAAAAGCTAATCCATCAAGTGATGAATTCAGGCAAAAGGTTGAACAAA
* * *
69746 TTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCTG
*
69811 GAAAAGCTGATCCATCAAGTGATGAATTCAGGCAAAAGGTTGAACAAA
66 GAAAAGCTAATCCATCAAGTGATGAATTCAGGCAAAAGGTTGAACAAA
* *
69859 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCTG
* *
69924 GAAATG-TCAATCCATCAAATGAT
66 GAAAAGCT-AATCCATCAAGTGAT
69947 AGATTTGAAT
Statistics
Matches: 606, Mismatches: 39, Indels: 16
0.92 0.06 0.02
Matches are distributed among these distances:
112 10 0.02
113 592 0.98
114 4 0.01
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.37
Consensus pattern (113 bp):
TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCTG
GAAAAGCTAATCCATCAAGTGATGAATTCAGGCAAAAGGTTGAACAAA
Found at i:71085 original size:83 final size:83
Alignment explanation
Indices: 70744--71088 Score: 627
Period size: 83 Copynumber: 4.2 Consensus size: 83
70734 CTTATTTCTA
* *
70744 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTATGCCAAACCAGATCAGATAACTCAAA
70809 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
* *
70827 CTATTAGCAAATTCATCTTCCAAATTCAATGATTGGTTATGCCAAACCAGATCAGATAACTCAAA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTATGCCAAACCAGATCAGATAACTCAAA
70892 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
*
70910 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTATGCCAAACCAGATTAGATAACTCAAA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTATGCCAAACCAGATCAGATAACTCAAA
70975 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
*
70993 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTATGCCAAACCAGATCAGATAACTCAAA
71058 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
*
71076 CTATAAGCACATT
1 CTATGAGCACATT
71089 GCATTTATTC
Statistics
Matches: 254, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
83 254 1.00
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (83 bp):
CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTATGCCAAACCAGATCAGATAACTCAAA
GAACACTTCCAGAAGATG
Found at i:72250 original size:7 final size:7
Alignment explanation
Indices: 72238--72309 Score: 60
Period size: 7 Copynumber: 10.3 Consensus size: 7
72228 TGACCCCCCT
72238 TTTTTTC
1 TTTTTTC
72245 TTTTTTCTC
1 -TTTTT-TC
72254 TTTTTTTC
1 -TTTTTTC
72262 TTTTTTC
1 TTTTTTC
* *
72269 TCTCTTC
1 TTTTTTC
72276 TTTTTT-
1 TTTTTTC
*
72282 TTCTTT-
1 TTTTTTC
*
72288 TTCTTT-
1 TTTTTTC
72294 TTTTTTC
1 TTTTTTC
72301 TTTTTTC
1 TTTTTTC
72308 TT
1 TT
72310 CAAGCATAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
6 16 0.29
7 25 0.45
8 7 0.12
9 8 0.14
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTTTTC
Found at i:72279 original size:31 final size:32
Alignment explanation
Indices: 72242--72301 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 32
72232 CCCCCTTTTT
72242 TTCTTTTTTCTCTTTTT-TTCTTTTTTCTCTC
1 TTCTTTTTTCTCTTTTTCTTCTTTTTTCTCTC
* *
72273 TTCTTTTTTTTCTTTTTCTTTTTTTTTCT
1 TTCTTTTTTCTCTTTTTCTTCTTTTTTCT
72302 TTTTTCTTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 16 0.62
32 10 0.38
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (32 bp):
TTCTTTTTTCTCTTTTTCTTCTTTTTTCTCTC
Found at i:72307 original size:17 final size:17
Alignment explanation
Indices: 72237--72309 Score: 83
Period size: 17 Copynumber: 4.0 Consensus size: 17
72227 TTGACCCCCC
*
72237 TTTTTTTCTTTTTTCTC
1 TTTTTTTCTTTTTTCTT
72254 TTTTTTTCTTTTTTCTCTCT
1 TTTTTTTC-TTTTT-TCT-T
*
72274 TCTTTTTTTTCTTTTTCTT
1 T-TTTTTTCT-TTTTTCTT
72293 TTTTTTTCTTTTTTCTT
1 TTTTTTTCTTTTTTCTT
72310 CAAGCATAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
17 16 0.33
18 12 0.25
19 5 0.10
20 5 0.10
21 10 0.21
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTTTTTCTTTTTTCTT
Found at i:83006 original size:24 final size:23
Alignment explanation
Indices: 82979--83045 Score: 73
Period size: 23 Copynumber: 2.9 Consensus size: 23
82969 ATGTAATATT
82979 AATAATATATATAAATACTATAAA
1 AATAATATATATAAATA-TATAAA
* *
83003 AATAATATGTATATATATATAAA
1 AATAATATATATAAATATATAAA
* *
83026 AA-ATTATAAATTAAATATAT
1 AATAATATATA-TAAATATAT
83046 GAATTTTTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
22 5 0.14
23 16 0.44
24 15 0.42
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (23 bp):
AATAATATATATAAATATATAAA
Found at i:84461 original size:13 final size:13
Alignment explanation
Indices: 84443--84473 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
84433 CGGTGTTCGT
84443 CCGCCGCCAGCCA
1 CCGCCGCCAGCCA
*
84456 CCGCCGCCGGCCA
1 CCGCCGCCAGCCA
84469 CCGCC
1 CCGCC
84474 TTCGGTGGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.10, C:0.65, G:0.26, T:0.00
Consensus pattern (13 bp):
CCGCCGCCAGCCA
Found at i:85197 original size:3 final size:3
Alignment explanation
Indices: 85189--85281 Score: 159
Period size: 3 Copynumber: 31.0 Consensus size: 3
85179 ATTTAATATT
*
85189 TAA TAA TAA TAA TAA TAA TAA TGA 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
* *
85237 TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA AAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
85282 ATCAATATGG
Statistics
Matches: 84, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 84 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:89946 original size:60 final size:61
Alignment explanation
Indices: 89875--90036 Score: 188
Period size: 60 Copynumber: 2.7 Consensus size: 61
89865 AAAGTATGAC
* * * *
89875 ATCATTTTAAATTAGTCCCTAAACTTTTAAATATTTCAA-TTCAATTCCTAAATTATGA-TT
1 ATCATTCTAAATTAGTCCCTAAACTTTTAAACATTTCAATTTC-ATCCCTAAACTATGACTT
* * *
89935 ATCATTCTAAATTAGTCCATAAAGTTTTGAACATTTCAATTTCATCCCTAAACTATGACTT
1 ATCATTCTAAATTAGTCCCTAAACTTTTAAACATTTCAATTTCATCCCTAAACTATGACTT
* * *
89996 -T-ATTCTAAATTGGTCCCTAAACTTTTTGAACATTCCAATTT
1 ATCATTCTAAATTAGTCCCTAAAC-TTTTAAACATTTCAATTT
90037 TAGCACAAAC
Statistics
Matches: 88, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
59 18 0.20
60 65 0.74
61 5 0.06
ACGTcount: A:0.34, C:0.18, G:0.06, T:0.43
Consensus pattern (61 bp):
ATCATTCTAAATTAGTCCCTAAACTTTTAAACATTTCAATTTCATCCCTAAACTATGACTT
Found at i:90319 original size:59 final size:59
Alignment explanation
Indices: 90165--90338 Score: 215
Period size: 60 Copynumber: 2.9 Consensus size: 59
90155 TATTTAGATG
* * * ** *
90165 AATTTGAGGATGAAATTGGAAGACTCAAAAGTTTGGGGACCAATTTAGAAAGAGAGTCAT
1 AATTT-AGGATGAAATTGAAATATTCAAAAGTTTAAGGACCAATTTAGAATGAGAGTCAT
* *
90225 ACTTTATGGATGAAATT-AGAATATTCAAAAGTTTAAGGACTAATTTAGAATGAGAGTCAT
1 AATTTA-GGATGAAATTGA-AATATTCAAAAGTTTAAGGACCAATTTAGAATGAGAGTCAT
* * *
90285 AATTTAGGATGAAATTGAAATATTTAAAATTTTAAGGACCAATTTAAAATGAGA
1 AATTTAGGATGAAATTGAAATATTCAAAAGTTTAAGGACCAATTTAGAATGAGA
90339 ATTATAGTTT
Statistics
Matches: 98, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
59 43 0.44
60 55 0.56
ACGTcount: A:0.43, C:0.06, G:0.20, T:0.30
Consensus pattern (59 bp):
AATTTAGGATGAAATTGAAATATTCAAAAGTTTAAGGACCAATTTAGAATGAGAGTCAT
Found at i:102279 original size:16 final size:15
Alignment explanation
Indices: 102242--102281 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
102232 AAAATTATAT
*
102242 AAAAAGTAAAACTTA
1 AAAAAATAAAACTTA
*
102257 ACAAAATAAAACTTA
1 AAAAAATAAAACTTA
102272 AAACAAATAA
1 AAA-AAATAA
102282 TATAGATTAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 15 0.71
16 6 0.29
ACGTcount: A:0.70, C:0.10, G:0.03, T:0.17
Consensus pattern (15 bp):
AAAAAATAAAACTTA
Found at i:105735 original size:6 final size:6
Alignment explanation
Indices: 105724--105749 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
105714 CCAAACTGTT
105724 TTTTCA TTTTCA TTTTCA TTTTCA TT
1 TTTTCA TTTTCA TTTTCA TTTTCA TT
105750 CCAGATCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTTCA
Found at i:110651 original size:32 final size:32
Alignment explanation
Indices: 110615--110773 Score: 165
Period size: 32 Copynumber: 5.0 Consensus size: 32
110605 AATATATTGA
* * *
110615 GGCCTGAGAGCCTACCCAAGGGAGTACCTTAG
1 GGCCTAAGAGCCTACCTAAGGAAGTACCTTAG
* *
110647 GGCCTAAGAGCTTACCTAAGGAAGTACCTTAA
1 GGCCTAAGAGCCTACCTAAGGAAGTACCTTAG
* * * * * * * *
110679 GGCTTTAGAGTCTACTTAAGGAAATGCCCTGG
1 GGCCTAAGAGCCTACCTAAGGAAGTACCTTAG
* * *
110711 GGCCTGAGAGCCTACCCAAGGGAGTACCTTAG
1 GGCCTAAGAGCCTACCTAAGGAAGTACCTTAG
*
110743 GGCCTAAGAGCTTACCTAAGGAAGTACCTTA
1 GGCCTAAGAGCCTACCTAAGGAAGTACCTTA
110774 AGGCTTCAGA
Statistics
Matches: 98, Mismatches: 29, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
32 98 1.00
ACGTcount: A:0.28, C:0.24, G:0.27, T:0.21
Consensus pattern (32 bp):
GGCCTAAGAGCCTACCTAAGGAAGTACCTTAG
Found at i:110763 original size:96 final size:96
Alignment explanation
Indices: 110615--110816 Score: 368
Period size: 96 Copynumber: 2.1 Consensus size: 96
110605 AATATATTGA
110615 GGCCTGAGAGCCTACCCAAGGGAGTACCTTAGGGCCTAAGAGCTTACCTAAGGAAGTACCTTAAG
1 GGCCTGAGAGCCTACCCAAGGGAGTACCTTAGGGCCTAAGAGCTTACCTAAGGAAGTACCTTAAG
* *
110680 GCTTTAGAGTCTACTTAAGGAAATGCCCTGG
66 GCTTCAGAGTCTACTCAAGGAAATGCCCTGG
110711 GGCCTGAGAGCCTACCCAAGGGAGTACCTTAGGGCCTAAGAGCTTACCTAAGGAAGTACCTTAAG
1 GGCCTGAGAGCCTACCCAAGGGAGTACCTTAGGGCCTAAGAGCTTACCTAAGGAAGTACCTTAAG
*
110776 GCTTCAGAGTCTACTCAAGGAAATGCCTTGG
66 GCTTCAGAGTCTACTCAAGGAAATGCCCTGG
*
110807 GGCCTCAGAG
1 GGCCTGAGAG
110817 TTTGCCCAAG
Statistics
Matches: 102, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
96 102 1.00
ACGTcount: A:0.28, C:0.24, G:0.28, T:0.21
Consensus pattern (96 bp):
GGCCTGAGAGCCTACCCAAGGGAGTACCTTAGGGCCTAAGAGCTTACCTAAGGAAGTACCTTAAG
GCTTCAGAGTCTACTCAAGGAAATGCCCTGG
Found at i:110827 original size:32 final size:32
Alignment explanation
Indices: 110615--110816 Score: 143
Period size: 32 Copynumber: 6.3 Consensus size: 32
110605 AATATATTGA
* * *
110615 GGCCTGAGAGCCTACCCAAGGGAGTACCTTAG
1 GGCCTCAGAGCCTACCCAAGGAAATACCTTAG
* * * * *
110647 GGCCTAAGAGCTTACCTAAGGAAGTACCTTAA
1 GGCCTCAGAGCCTACCCAAGGAAATACCTTAG
* * * ** * * *
110679 GGCTTTAGAGTCTACTTAAGGAAATGCCCTGG
1 GGCCTCAGAGCCTACCCAAGGAAATACCTTAG
* * *
110711 GGCCTGAGAGCCTACCCAAGGGAGTACCTTAG
1 GGCCTCAGAGCCTACCCAAGGAAATACCTTAG
* * * * *
110743 GGCCTAAGAGCTTACCTAAGGAAGTACCTTAA
1 GGCCTCAGAGCCTACCCAAGGAAATACCTTAG
* * * * *
110775 GGCTTCAGAGTCTACTCAAGGAAATGCCTTGG
1 GGCCTCAGAGCCTACCCAAGGAAATACCTTAG
110807 GGCCTCAGAG
1 GGCCTCAGAG
110817 TTTGCCCAAG
Statistics
Matches: 129, Mismatches: 41, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
32 129 1.00
ACGTcount: A:0.28, C:0.24, G:0.28, T:0.21
Consensus pattern (32 bp):
GGCCTCAGAGCCTACCCAAGGAAATACCTTAG
Found at i:111942 original size:28 final size:28
Alignment explanation
Indices: 111911--111977 Score: 109
Period size: 27 Copynumber: 2.4 Consensus size: 28
111901 ATAGGGATTG
111911 GGGGTATTTTAGGTCATTTTACACTTCA
1 GGGGTATTTTAGGTCATTTTACACTTCA
*
111939 GGGGTATTTT-GGTCATTTTACAGTTCA
1 GGGGTATTTTAGGTCATTTTACACTTCA
*
111966 AGGGTATTTTAG
1 GGGGTATTTTAG
111978 TCTTTTCTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 25 0.69
28 11 0.31
ACGTcount: A:0.21, C:0.10, G:0.25, T:0.43
Consensus pattern (28 bp):
GGGGTATTTTAGGTCATTTTACACTTCA
Found at i:115305 original size:16 final size:16
Alignment explanation
Indices: 115266--115308 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
115256 GTGTATAATT
* *
115266 ATAATAATTT-AAGTG
1 ATAATAATTTAAAATA
115281 ATAATTAATTTAAAATA
1 ATAA-TAATTTAAAATA
115298 ATAATAATTTA
1 ATAATAATTTA
115309 TTCTTGATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 4 0.17
16 13 0.54
17 7 0.29
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (16 bp):
ATAATAATTTAAAATA
Found at i:115738 original size:11 final size:11
Alignment explanation
Indices: 115719--115756 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
115709 AAGAAAAGAA
*
115719 AATTCTTTTTG
1 AATTGTTTTTG
115730 AATTGTTTTTG
1 AATTGTTTTTG
*
115741 AGTTG-TTTTG
1 AATTGTTTTTG
115751 AATTGT
1 AATTGT
115757 GTTTAACCTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.18, C:0.03, G:0.18, T:0.61
Consensus pattern (11 bp):
AATTGTTTTTG
Found at i:116218 original size:43 final size:43
Alignment explanation
Indices: 116164--116503 Score: 389
Period size: 43 Copynumber: 7.9 Consensus size: 43
116154 AAGCCACAAT
116164 AGGTCAAGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAA
1 AGGTCAAGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAA
* *
116207 AGGTCGAGATCTATAGTGGCGTTTTTGGAACAAACGCCGCAAA
1 AGGTCAAGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAA
* *
116250 AGGTCAACATCTATAGCGGCGTTTTTGTAACAAACGCCGCAAA
1 AGGTCAAGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAA
* * * * * * *
116293 AGGTCAACATATATAGCGACATTTTTGTAACACACGTCGCAAA
1 AGGTCAAGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAA
* * *
116336 AGGTC-AGATCTATAGCGGCATTTTTGGAATAAACGCCGTAAA
1 AGGTCAAGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAA
* * * *
116378 AGGTCGATATATATAGCGGCGTTTTTGGAATAAACGCCGCAAA
1 AGGTCAAGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAA
** * * *
116421 A-GTTGATATCTATAGCGGCGTTTTCGGGAAAAAAACGCCGCAAA
1 AGGTCAAGATCTATAGCGGCGTTTT-TGG-AACAAACGCCGCAAA
* * * *
116465 ATGAC-AGATCTATAGAGGCGTTTTTGGATTCAAACGCCG
1 AGGTCAAGATCTATAGCGGCGTTTTTGGA-ACAAACGCCG
116504 TTAGTTACCT
Statistics
Matches: 258, Mismatches: 34, Indels: 10
0.85 0.11 0.03
Matches are distributed among these distances:
42 56 0.22
43 169 0.66
44 32 0.12
45 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (43 bp):
AGGTCAAGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAA
Found at i:119992 original size:86 final size:84
Alignment explanation
Indices: 119860--120037 Score: 230
Period size: 86 Copynumber: 2.1 Consensus size: 84
119850 TAAACTTTAG
* * * *
119860 CGGCGTTTTTAAACACAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTATAAACACAAACGC
1 CGGCGTTTTAAAACACAAACACCACTAAAATACAAGTCTATAGCGGCGTTTATAAA-A-AAACGC
*
119925 CACTAAAGTATGAGTTTATAA
64 CACTAAAGTATGAGTCTATAA
* * * *
119946 CGGCGTTTTAAAATATAAACACCACTAAAATACAAGTCTATAGCGGCGTTTGTATAAAAACGCCA
1 CGGCGTTTTAAAACACAAACACCACTAAAATACAAGTCTATAGCGGCGTTTATAAAAAAACGCCA
* * *
120011 TTAGAGTATGAGTCTATAG
66 CTAAAGTATGAGTCTATAA
120030 CGGCGTTT
1 CGGCGTTT
120038 GTATAAAAAT
Statistics
Matches: 80, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
84 31 0.39
85 1 0.01
86 48 0.60
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (84 bp):
CGGCGTTTTAAAACACAAACACCACTAAAATACAAGTCTATAGCGGCGTTTATAAAAAAACGCCA
CTAAAGTATGAGTCTATAA
Found at i:120028 original size:41 final size:41
Alignment explanation
Indices: 119857--120220 Score: 240
Period size: 41 Copynumber: 8.8 Consensus size: 41
119847 CTTTAAACTT
* * *
119857 TAGCGGCGTTTTTAAACACAAACGCCACTAAAGTACGAGTCTA
1 TAGCGGCGTTTGTATA-A-AAACGCCACTAAAGTATGAGTCTA
* * *
119900 TAGCGGCGTTTATAAACACAAACGCCACTAAAGTATGAGTTTA
1 TAGCGGCGTTTGTATA-A-AAACGCCACTAAAGTATGAGTCTA
* * * * **
119943 TAACGGCGTTT-TAAAATATAAACACCACTAAAATACAAGTCTA
1 TAGCGGCGTTTGT---ATAAAAACGCCACTAAAGTATGAGTCTA
* *
119986 TAGCGGCGTTTGTATAAAAACGCCATTAGAGTATGAGTCTA
1 TAGCGGCGTTTGTATAAAAACGCCACTAAAGTATGAGTCTA
* *
120027 TAGCGGCGTTTGTATAAAAATGCCACTAAAGTACT-ACTCTA
1 TAGCGGCGTTTGTATAAAAACGCCACTAAAGTA-TGAGTCTA
* * * * *
120068 TTGCAGCGTTTGT-TGAAAAATGCCACTATAG-ATGAATCTA
1 TAGCGGCGTTTGTAT-AAAAACGCCACTAAAGTATGAGTCTA
* * * * * * *
120108 TTGTGGCGTTTTTATATAAACGCCGCTAAAGTACT-ACTCTG
1 TAGCGGCGTTTGTATAAAAACGCCACTAAAGTA-TGAGTCTA
* ** **
120149 TCA-CGACGTTTGT-TAAAAAACGCCACTACTG-ATGAACCTA
1 T-AGCGGCGTTTGTAT-AAAAACGCCACTAAAGTATGAGTCTA
* * *
120189 TTGCGACGTTTGTATAAAAACGCCGCTAAAGT
1 TAGCGGCGTTTGTATAAAAACGCCACTAAAGT
120221 TACCATTTTG
Statistics
Matches: 254, Mismatches: 51, Indels: 34
0.75 0.15 0.10
Matches are distributed among these distances:
39 2 0.01
40 58 0.23
41 109 0.43
42 3 0.01
43 79 0.31
44 1 0.00
45 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.28
Consensus pattern (41 bp):
TAGCGGCGTTTGTATAAAAACGCCACTAAAGTATGAGTCTA
Found at i:120138 original size:81 final size:80
Alignment explanation
Indices: 119962--120220 Score: 254
Period size: 81 Copynumber: 3.2 Consensus size: 80
119952 TTTAAAATAT
* * * * * * * * *
119962 AAACACCACTAAAATACAAGTCTATAGCGGCGTTTGTATAAAAACGCCATTAGAGTATGAGTCTA
1 AAACGCCACTAAAGTACTACTCTATTGCAGCGTTTGT-TAAAAACGCCACTATAG-ATGAATCTA
*
120027 TAGCGGCGTTTGTATAA
64 TTGCGGCGTTTGTATAA
* *
120044 AAATGCCACTAAAGTACTACTCTATTGCAGCGTTTGTTGAAAAATGCCACTATAGATGAATCTAT
1 AAACGCCACTAAAGTACTACTCTATTGCAGCGTTTGTT-AAAAACGCCACTATAGATGAATCTAT
* * *
120109 TGTGGCGTTTTTATAT
65 TGCGGCGTTTGTATAA
* * *
120125 AAACGCCGCTAAAGTACTACTCT-GT-CACGACGTTTGTTAAAAAACGCCACTACT-GATGAACC
1 AAACGCCACTAAAGTACTACTCTATTGCA-G-CGTTTGTT-AAAAACGCCACTA-TAGATGAATC
*
120187 TATTGCGACGTTTGTATAA
62 TATTGCGGCGTTTGTATAA
*
120206 AAACGCCGCTAAAGT
1 AAACGCCACTAAAGT
120221 TACCATTTTG
Statistics
Matches: 148, Mismatches: 25, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
79 2 0.01
80 2 0.01
81 100 0.68
82 44 0.30
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (80 bp):
AAACGCCACTAAAGTACTACTCTATTGCAGCGTTTGTTAAAAACGCCACTATAGATGAATCTATT
GCGGCGTTTGTATAA
Found at i:121199 original size:2 final size:2
Alignment explanation
Indices: 121194--121252 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
121184 ATAATTATTA
121194 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
121236 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
121253 CACATATAAG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:129091 original size:16 final size:17
Alignment explanation
Indices: 129065--129100 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
129055 TCTACTAAAG
129065 CATGATTGGGTAGATAT
1 CATGATTGGGTAGATAT
129082 CATG-TTGGGTAGATAT
1 CATGATTGGGTAGATAT
129098 CAT
1 CAT
129101 ATGAATAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.28, C:0.08, G:0.28, T:0.36
Consensus pattern (17 bp):
CATGATTGGGTAGATAT
Found at i:138989 original size:24 final size:23
Alignment explanation
Indices: 138962--139037 Score: 77
Period size: 24 Copynumber: 3.2 Consensus size: 23
138952 ATTTTGCTTG
*
138962 AAAAAAATAATGAAAAAATGAAA
1 AAAAAAAGAATGAAAAAATGAAA
138985 TAAAAAAGGAGAA--AAAAAATGAAAA
1 -AAAAAA--AGAATGAAAAAATG-AAA
139010 AGAAAAAAGAATG-AAAAATGAAA
1 A-AAAAAAGAATGAAAAAATGAAA
139033 AAAAA
1 AAAAA
139038 GAAGGGTTCA
Statistics
Matches: 45, Mismatches: 1, Indels: 14
0.75 0.02 0.23
Matches are distributed among these distances:
22 4 0.09
23 8 0.18
24 22 0.49
25 8 0.18
26 3 0.07
ACGTcount: A:0.78, C:0.00, G:0.13, T:0.09
Consensus pattern (23 bp):
AAAAAAAGAATGAAAAAATGAAA
Found at i:139022 original size:17 final size:16
Alignment explanation
Indices: 138994--139037 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 16
138984 ATAAAAAAGG
138994 AGAAAAAAAATGAAAA
1 AGAAAAAAAATGAAAA
139010 AGAAAAAAGAATGAAAA
1 AGAAAAAA-AATGAAAA
139027 ATGAAAAAAAA
1 A-GAAAAAAAA
139038 GAAGGGTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.31
17 11 0.42
18 7 0.27
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.07
Consensus pattern (16 bp):
AGAAAAAAAATGAAAA
Found at i:140108 original size:55 final size:55
Alignment explanation
Indices: 140018--140632 Score: 893
Period size: 55 Copynumber: 11.3 Consensus size: 55
140008 AGATTTCCCA
* *
140018 ACGATTATTGAAGATTGATCG-GTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
*
140072 GCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAG-AATA-GGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* *
140125 GCGATTGTTGAAGATTGTTTGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * * *
140180 ACGATTGTTGAAAATTGTTCGAGTCTTATACTCTATGCAGAAATATGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* *
140235 ACGA-CGTTGAAGATTGTTCGAGTCTTATACTCTCTGTAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * *
140289 ACGATTGATGAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATGGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * *
140344 ACGATTGATGAAAATTGTTCGAGTCTTATACTCTCTGCAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
** * *
140399 ACGACAG-TGAAGATTGTTGGAGTCTTATACTCTCTGCAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * *
140453 ACGATTGATGAAGATTGTTCAAGTCTTATACTCTCTGAAGGAAT-GGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* *
140507 ACGATTGATG-AGATTGTTCGGGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * * *
140561 AAGATTTGTTGAAGATTGTTTGGGTCTTATACTCTCTGAGGAAATAGGGAGCAGAC
1 ACGA-TTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
*
140617 ACGATTGATGAAGATT
1 ACGATTGTTGAAGATT
140633 CTTCAAGTTC
Statistics
Matches: 510, Mismatches: 43, Indels: 15
0.90 0.08 0.03
Matches are distributed among these distances:
53 78 0.15
54 158 0.31
55 229 0.45
56 45 0.09
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (55 bp):
ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
Found at i:140640 original size:164 final size:165
Alignment explanation
Indices: 140018--140640 Score: 913
Period size: 164 Copynumber: 3.8 Consensus size: 165
140008 AGATTTCCCA
* * *
140018 ACGATT-ATTGAAGATTGATCG-GTCTTATACTCTCTGAAGAAATAGGGAGCAGACGCGATTGTT
1 ACGATTGA-TGAAAATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTT
* * *
140081 GAAGATTGTTCGAGTCTTATACTCTCTGAAG-AATA-GGAGCAGACGCGATTGTTGAAGATTGTT
65 GAAGATTGTTCGAGTCTTATACTCTCTGCAGAAATAGGGAGCAGACACGATTGATGAAGATTGTT
** *
140144 TGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
130 CAAGTCTTATACTCTCTGAAGGAATAGGGAGCAGAC
* * * * *
140180 ACGATTGTTGAAAATTGTTCGAGTCTTATACTCTATGCAGAAATATGGAGCAGACACGA-CGTTG
1 ACGATTGATGAAAATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTG
*
140244 AAGATTGTTCGAGTCTTATACTCTCTGTAGAAATAGGGAGCAGACACGATTGATGAAGATTGTTC
66 AAGATTGTTCGAGTCTTATACTCTCTGCAGAAATAGGGAGCAGACACGATTGATGAAGATTGTTC
* *
140309 GAGTCTTATACTCTCTGAAGGAATGGGGAGCAGAC
131 AAGTCTTATACTCTCTGAAGGAATAGGGAGCAGAC
* **
140344 ACGATTGATGAAAATTGTTCGAGTCTTATACTCTCTGCAGAAATAGGGAGCAGACACGACAG-TG
1 ACGATTGATGAAAATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTG
*
140408 AAGATTGTTGGAGTCTTATACTCTCTGCAGAAATAGGGAGCAGACACGATTGATGAAGATTGTTC
66 AAGATTGTTCGAGTCTTATACTCTCTGCAGAAATAGGGAGCAGACACGATTGATGAAGATTGTTC
140473 AAGTCTTATACTCTCTGAAGGAAT-GGGAGCAGAC
131 AAGTCTTATACTCTCTGAAGGAATAGGGAGCAGAC
* * *
140507 ACGATTGATG-AGATTGTTCGGGTCTTATACTCTCTGAAGAAATAGGGAGCAGACAAGATTTGTT
1 ACGATTGATGAAAATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGA-TTGTT
* * *
140571 GAAGATTGTTTGGGTCTTATACTCTCTG-AGGAAATAGGGAGCAGACACGATTGATGAAGATTCT
65 GAAGATTGTTCGAGTCTTATACTCTCTGCA-GAAATAGGGAGCAGACACGATTGATGAAGATTGT
140635 TCAAGT
129 TCAAGT
140641 TCCTACTCCC
Statistics
Matches: 423, Mismatches: 30, Indels: 14
0.91 0.06 0.03
Matches are distributed among these distances:
162 94 0.22
163 59 0.14
164 269 0.64
165 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.29
Consensus pattern (165 bp):
ACGATTGATGAAAATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTG
AAGATTGTTCGAGTCTTATACTCTCTGCAGAAATAGGGAGCAGACACGATTGATGAAGATTGTTC
AAGTCTTATACTCTCTGAAGGAATAGGGAGCAGAC
Found at i:140664 original size:109 final size:110
Alignment explanation
Indices: 140018--140632 Score: 902
Period size: 109 Copynumber: 5.6 Consensus size: 110
140008 AGATTTCCCA
* * * *
140018 ACGATTATTGAAGATTGATCG-GTCTTATACTCTCTGAAGAAATAGGGAGCAGACGCGATTGTTG
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGATG
140082 AAGATTGTTCGAGTCTTATACTCTCTGAAG-AATA-GGAGCAGAC
66 AAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * *
140125 GCGATTGTTGAAGATTGTTTGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTG
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGATG
* * * *
140190 AAAATTGTTCGAGTCTTATACTCTATGCAGAAATATGGAGCAGAC
66 AAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* *
140235 ACGA-CGTTGAAGATTGTTCGAGTCTTATACTCTCTGTAGAAATAGGGAGCAGACACGATTGATG
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGATG
* *
140299 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATGGGGAGCAGAC
66 AAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * * **
140344 ACGATTGATGAAAATTGTTCGAGTCTTATACTCTCTGCAGAAATAGGGAGCAGACACGACAG-TG
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGATG
* *
140408 AAGATTGTTGGAGTCTTATACTCTCTGCAGAAATAGGGAGCAGAC
66 AAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * *
140453 ACGATTGATGAAGATTGTTCAAGTCTTATACTCTCTGAAGGAAT-GGGAGCAGACACGATTGATG
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGATG
*
140517 -AGATTGTTCGGGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
66 AAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * * *
140561 AAGATTTGTTGAAGATTGTTTGGGTCTTATACTCTCTGAGGAAATAGGGAGCAGACACGATTGAT
1 ACGA-TTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGAT
140626 GAAGATT
65 GAAGATT
140633 CTTCAAGTTC
Statistics
Matches: 455, Mismatches: 45, Indels: 12
0.89 0.09 0.02
Matches are distributed among these distances:
107 17 0.04
108 128 0.28
109 222 0.49
110 83 0.18
111 5 0.01
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (110 bp):
ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGATG
AAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
Found at i:140717 original size:54 final size:55
Alignment explanation
Indices: 140626--140758 Score: 184
Period size: 55 Copynumber: 2.5 Consensus size: 55
140616 CACGATTGAT
* * * *
140626 GAAGATTCTTCAAGTTC-CTACT-CCCTAAGAAAGAGGGAGTGAAC-CGTT-GACA
1 GAAGATTGTTCGAGTTCTATACTCCCCGAAGAAAGAGGGAGTGAACTCGTTCG-CA
140678 GAAGATTGTTCGAGTTCTATACTCCCCGAAGAAAGAGGGAGTGAACTCGTTCGCA
1 GAAGATTGTTCGAGTTCTATACTCCCCGAAGAAAGAGGGAGTGAACTCGTTCGCA
*
140733 GAAAATTGTTCGAGTTCTATACTCCC
1 GAAGATTGTTCGAGTTCTATACTCCC
140759 TAAAAATGAG
Statistics
Matches: 72, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
52 15 0.21
53 4 0.06
54 21 0.29
55 31 0.43
56 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (55 bp):
GAAGATTGTTCGAGTTCTATACTCCCCGAAGAAAGAGGGAGTGAACTCGTTCGCA
Found at i:140770 original size:54 final size:53
Alignment explanation
Indices: 140644--140778 Score: 193
Period size: 54 Copynumber: 2.5 Consensus size: 53
140634 TTCAAGTTCC
*
140644 TACTCCCTAAGAAAGAGGGAGTGAACCGTTGACAGAAGATTGTTCGAGTTCTA
1 TACTCCCTAAGAAAGAGGGAGTGAACCGTTGACAGAAAATTGTTCGAGTTCTA
*
140697 TACTCCCCGAAGAAAGAGGGAGTGAACTCGTTCG-CAGAAAATTGTTCGAGTTCTA
1 TACT-CCCTAAGAAAGAGGGAGTGAAC-CGTT-GACAGAAAATTGTTCGAGTTCTA
*
140752 TACTCCCTAA-AAATGAGGGAGCGAACC
1 TACTCCCTAAGAAA-GAGGGAGTGAACC
140779 CGTTTTCCGA
Statistics
Matches: 74, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
53 8 0.11
54 37 0.50
55 28 0.38
56 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.22
Consensus pattern (53 bp):
TACTCCCTAAGAAAGAGGGAGTGAACCGTTGACAGAAAATTGTTCGAGTTCTA
Found at i:141021 original size:2 final size:2
Alignment explanation
Indices: 141016--141081 Score: 125
Period size: 2 Copynumber: 33.5 Consensus size: 2
141006 ATAATTATTA
141016 AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
141057 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
141082 ATAGATAAAT
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 62 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.