Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001049.1 Hibiscus syriacus cultivar Beakdansim tig00002079_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: 123034
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:2947 original size:14 final size:16
Alignment explanation
Indices: 2928--2959 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
2918 CTAAGTAAGG
2928 TTACCA-GTGAG-GCA
1 TTACCATGTGAGTGCA
2942 TTACCATGTGAGTGCA
1 TTACCATGTGAGTGCA
2958 TT
1 TT
2960 TTACTTACAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 5 0.31
16 5 0.31
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (16 bp):
TTACCATGTGAGTGCA
Found at i:3485 original size:82 final size:81
Alignment explanation
Indices: 3362--3525 Score: 256
Period size: 82 Copynumber: 2.0 Consensus size: 81
3352 ACTTAGAACG
* * *
3362 TCTAATGTTACTTATGTGACAGTGTGCTAATGTACATTCCGAATACATTTATGGCACATATTTGA
1 TCTAACGTTACTTATGTGACAGTGTGCTAATGTACATTCCGAATACATTTATGACACATATGTGA
*
3427 TATTGGTACTCGCACA
66 TATTGGTACCCGCACA
** *
3443 TCTAACGTTACTTATGTGATGGTGGTGCTAATGTACATTCCGAATACATTTATGACACGTATGTG
1 TCTAACGTTACTTATGTGACAGT-GTGCTAATGTACATTCCGAATACATTTATGACACATATGTG
3508 ATATTGGTACCCGCACA
65 ATATTGGTACCCGCACA
3525 T
1 T
3526 ATGTGATGTT
Statistics
Matches: 75, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
81 20 0.27
82 55 0.73
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (81 bp):
TCTAACGTTACTTATGTGACAGTGTGCTAATGTACATTCCGAATACATTTATGACACATATGTGA
TATTGGTACCCGCACA
Found at i:3732 original size:26 final size:27
Alignment explanation
Indices: 3703--3753 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
3693 AGGCACAAGT
3703 TTGAAATGAAAT-GAAAAGTACAAGAA
1 TTGAAATGAAATGGAAAAGTACAAGAA
* *
3729 TTGAAGTGAGATGGAAAAGTACAAG
1 TTGAAATGAAATGGAAAAGTACAAG
3754 TTTGATCTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.51, C:0.04, G:0.25, T:0.20
Consensus pattern (27 bp):
TTGAAATGAAATGGAAAAGTACAAGAA
Found at i:3758 original size:26 final size:25
Alignment explanation
Indices: 3697--3758 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 25
3687 AGTGAAAGGC
3697 ACAAGTTTGAAATGAAATGAAAAGT
1 ACAAGTTTGAAATGAAATGAAAAGT
* * *
3722 ACAAGAATTGAAGTGAGATGGAAAAGT
1 ACAAG-TTTGAAATGAAAT-GAAAAGT
3749 ACAAGTTTGA
1 ACAAGTTTGA
3759 TCTACTTACG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
25 5 0.16
26 14 0.45
27 12 0.39
ACGTcount: A:0.48, C:0.05, G:0.24, T:0.23
Consensus pattern (25 bp):
ACAAGTTTGAAATGAAATGAAAAGT
Found at i:7024 original size:2 final size:2
Alignment explanation
Indices: 7017--7046 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7007 TAAAGGAACT
7017 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
7047 AAGAAATGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:7100 original size:164 final size:164
Alignment explanation
Indices: 6882--7210 Score: 626
Period size: 164 Copynumber: 2.0 Consensus size: 164
6872 AAAATCAAAA
6882 GAAGAAATGAGTAAAAACAAGAGCATTATGTATGATCTGAGAATTTGTTTGATCCTGGCAAAATA
1 GAAGAAATGAGTAAAAACAAGAGCATTATGTATGATCTGAGAATTTGTTTGATCCTGGCAAAATA
6947 AACAATCAAGATCATTGTTTGTTTGATCTGAGAATTTGAACAGTTTTACTTCTAATTAGTTAAAG
66 AACAATCAAGATCATTGTTTGTTTGATCTGAGAATTTGAACAGTTTTACTTCTAATTAGTTAAAG
7012 GAACTTGTGTGTGTGTGTGTGTGTGTGTGTGTGT
131 GAACTTGTGTGTGTGTGTGTGTGTGTGTGTGTGT
7046 GAAGAAATGAGT-AAAACAAGAGCATTATATGTATGATCTGAGAATTTG-TTGATCCTGGCAAAA
1 GAAGAAATGAGTAAAAACAAGAGCA-T-TATGTATGATCTGAGAATTTGTTTGATCCTGGCAAAA
7109 TAAACAATCAAGATCATTGTTTGTTTGATCTGAGAATTTGAACAGTTTTACTTCTAATTAGTTAA
64 TAAACAATCAAGATCATTGTTTGTTTGATCTGAGAATTTGAACAGTTTTACTTCTAATTAGTTAA
7174 AGGAACTTGTGTGTGTGTGTGTGTGTGTGTGTGTGT
129 AGGAACTTGTGTGTGTGTGTGTGTGTGTGTGTGTGT
7210 G
1 G
7211 TGTGTGTGTG
Statistics
Matches: 163, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
163 12 0.07
164 130 0.80
165 21 0.13
ACGTcount: A:0.31, C:0.09, G:0.24, T:0.36
Consensus pattern (164 bp):
GAAGAAATGAGTAAAAACAAGAGCATTATGTATGATCTGAGAATTTGTTTGATCCTGGCAAAATA
AACAATCAAGATCATTGTTTGTTTGATCTGAGAATTTGAACAGTTTTACTTCTAATTAGTTAAAG
GAACTTGTGTGTGTGTGTGTGTGTGTGTGTGTGT
Found at i:7188 original size:2 final size:2
Alignment explanation
Indices: 7181--7242 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
7171 TAAAGGAACT
7181 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
7223 TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG
7243 GAAGAGTATA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:7382 original size:182 final size:182
Alignment explanation
Indices: 7194--7724 Score: 957
Period size: 167 Copynumber: 3.0 Consensus size: 182
7184 GTGTGTGTGT
7194 GTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGGAAGAGTATACTATAA
1 GTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGGAAGAGTATACTATAA
7259 TTATTTTTTTTTAATCCTTAGAAGTTTTTGGATCATATTACTAATTTTTTTGGTTTGAATGTGGA
66 TTATTTTTTTTTAATCCTTAGAAGTTTTTGGATCATATTACTAATTTTTTTGGTTTGAATGTGGA
7324 TTGCAGAGTTTCTTTCCTGCAATGACAAAAATTGTGGGGACACTCGGTCCGA
131 TTGCAGAGTTTCTTTCCTGCAATGACAAAAATTGTGGGGACACTCGGTCCGA
7376 --------------GTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGGAAGAGTATACTATAA
1 GTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGGAAGAGTATACTATAA
7427 TTA-TTTTTTTTAATCCTTAGAAGTTTTTGGATCATATTACTAATTTTTTTGGTTTGAATGTGGA
66 TTATTTTTTTTTAATCCTTAGAAGTTTTTGGATCATATTACTAATTTTTTTGGTTTGAATGTGGA
7491 TTGCAGAGTTTCTTTCCTGCAATGACAAAAATTGTGGGGACACTCGGTCCGA
131 TTGCAGAGTTTCTTTCCTGCAATGACAAAAATTGTGGGGACACTCGGTCCGA
7543 GTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGGAAGAGTATACTATAA
1 GTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGGAAGAGTATACTATAA
7608 TTATTTTTTTTTAATCCTTAGAAGTTTTTGGATCATATTACTAATTTTTTTGGTTTGAATGTGGA
66 TTATTTTTTTTTAATCCTTAGAAGTTTTTGGATCATATTACTAATTTTTTTGGTTTGAATGTGGA
7673 TTGCAGAGTTTCTTTCCTGCAATGACAAAAATTGTGGGGACACTCGGTCCGA
131 TTGCAGAGTTTCTTTCCTGCAATGACAAAAATTGTGGGGACACTCGGTCCGA
7725 ATTCGCAATC
Statistics
Matches: 334, Mismatches: 0, Indels: 30
0.92 0.00 0.08
Matches are distributed among these distances:
167 113 0.34
168 54 0.16
181 54 0.16
182 113 0.34
ACGTcount: A:0.20, C:0.09, G:0.27, T:0.43
Consensus pattern (182 bp):
GTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGGAAGAGTATACTATAA
TTATTTTTTTTTAATCCTTAGAAGTTTTTGGATCATATTACTAATTTTTTTGGTTTGAATGTGGA
TTGCAGAGTTTCTTTCCTGCAATGACAAAAATTGTGGGGACACTCGGTCCGA
Found at i:7383 original size:2 final size:2
Alignment explanation
Indices: 7376--7410 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
7366 CTCGGTCCGA
7376 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
7411 GAAGAGTATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.51, T:0.49
Consensus pattern (2 bp):
GT
Found at i:7550 original size:2 final size:2
Alignment explanation
Indices: 7543--7591 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
7533 CTCGGTCCGA
7543 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
7585 GT GT GT G
1 GT GT GT G
7592 GAAGAGTATA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.00, C:0.00, G:0.51, T:0.49
Consensus pattern (2 bp):
GT
Found at i:14811 original size:60 final size:59
Alignment explanation
Indices: 14649--14815 Score: 158
Period size: 60 Copynumber: 2.8 Consensus size: 59
14639 ATTATGATCC
* * * * * * *
14649 TCATTTTAAATTGGTCACTAAACTTTTAAACATTATAAATTCATCCCTAAAATATGATAA
1 TCATTCTAAATTAGCCACTAAACTTTTAAATATT-TAATTTCATCCCCAAAATATGACAA
* * ** * *
14709 TCATTCTAAATTAATCC-TTAAACTTTTAAATATTTTTGTTTCATCCCCAAGATATGACAT
1 TCATTCTAAATT-AGCCACTAAACTTTTAAATA-TTTAATTTCATCCCCAAAATATGACAA
14769 TCATTCTAAATT-GCCACTAAACTTTTTAAATATTTCAATTTCATCCC
1 TCATTCTAAATTAGCCACTAAAC-TTTTAAATATTT-AATTTCATCCC
14816 AAACTATATG
Statistics
Matches: 85, Mismatches: 17, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
58 2 0.02
59 8 0.09
60 72 0.85
61 3 0.04
ACGTcount: A:0.36, C:0.19, G:0.04, T:0.41
Consensus pattern (59 bp):
TCATTCTAAATTAGCCACTAAACTTTTAAATATTTAATTTCATCCCCAAAATATGACAA
Found at i:15110 original size:60 final size:60
Alignment explanation
Indices: 14955--15100 Score: 166
Period size: 60 Copynumber: 2.4 Consensus size: 60
14945 ATTTATGGGG
* * *
14955 TGAAATTGGAAGATTCAAAAGTTTAGGGACAAATTTAGAATAAAACTCATAGTGTGGGGA
1 TGAAATTGGAAGATTCAAAAGTTTAAGGACAAATTTAGAATAAAACTCATAATGTGAGGA
* * * ** * * * * * *
15015 TAAAATTTGAATATTCAAAAAATTAAGGACTAATTTAGAATGAGAGTCATAATTTGAGTA
1 TGAAATTGGAAGATTCAAAAGTTTAAGGACAAATTTAGAATAAAACTCATAATGTGAGGA
15075 TGAAATTGGAAGATTCAAAAGTTTAA
1 TGAAATTGGAAGATTCAAAAGTTTAA
15101 TAACCAATTT
Statistics
Matches: 67, Mismatches: 19, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
60 67 1.00
ACGTcount: A:0.45, C:0.05, G:0.20, T:0.30
Consensus pattern (60 bp):
TGAAATTGGAAGATTCAAAAGTTTAAGGACAAATTTAGAATAAAACTCATAATGTGAGGA
Found at i:21525 original size:59 final size:59
Alignment explanation
Indices: 21433--21546 Score: 210
Period size: 59 Copynumber: 1.9 Consensus size: 59
21423 ACTCGAAATT
21433 AGTCTTTTCATCACTCTTTCTCTCCTTTGAACTGTTGTAGGCAAGGCAATCCCTCTGAC
1 AGTCTTTTCATCACTCTTTCTCTCCTTTGAACTGTTGTAGGCAAGGCAATCCCTCTGAC
**
21492 AGTCTTTTCATCACTCTTTCTCTTTTTTGAACTGTTGTAGGCAAGGCAATCCCTC
1 AGTCTTTTCATCACTCTTTCTCTCCTTTGAACTGTTGTAGGCAAGGCAATCCCTC
21547 ATTGTCAGAG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 53 1.00
ACGTcount: A:0.18, C:0.27, G:0.15, T:0.39
Consensus pattern (59 bp):
AGTCTTTTCATCACTCTTTCTCTCCTTTGAACTGTTGTAGGCAAGGCAATCCCTCTGAC
Found at i:22891 original size:60 final size:60
Alignment explanation
Indices: 22795--22920 Score: 164
Period size: 60 Copynumber: 2.1 Consensus size: 60
22785 AATGATCCTC
* * ** * * *
22795 GATTATAGGATGTTGTTTTGTTGAGTCTTCTGATTATTAAAAGTTATGAAAT-ATTTCTTT
1 GATTATAGGATATTATTTTGTTGAGTCCCCTAATTATTAAAAGTTATAAAATAATTAC-TT
*
22855 GATTATAGGGTATTATTTTGTTGAGTCCCCTAATTATTAAAAGTTATAAAATAATTACTT
1 GATTATAGGATATTATTTTGTTGAGTCCCCTAATTATTAAAAGTTATAAAATAATTACTT
22915 GATTAT
1 GATTAT
22921 TCATGTCTTA
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
60 53 0.93
61 4 0.07
ACGTcount: A:0.31, C:0.06, G:0.16, T:0.47
Consensus pattern (60 bp):
GATTATAGGATATTATTTTGTTGAGTCCCCTAATTATTAAAAGTTATAAAATAATTACTT
Found at i:27139 original size:21 final size:21
Alignment explanation
Indices: 27114--27158 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
27104 ACCATGTAGC
*
27114 ACATTCTCATCATATATATGT
1 ACATTCACATCATATATATGT
27135 ACATTCACATCATATATATGT
1 ACATTCACATCATATATATGT
27156 ACA
1 ACA
27159 AACATGTGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.38, C:0.20, G:0.04, T:0.38
Consensus pattern (21 bp):
ACATTCACATCATATATATGT
Found at i:27163 original size:19 final size:20
Alignment explanation
Indices: 27121--27163 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
27111 AGCACATTCT
*
27121 CATCATATATATGTACATTCA
1 CATCATATATATGTACA-TAA
27142 CATCATATATATGTACA-AA
1 CATCATATATATGTACATAA
27161 CAT
1 CAT
27164 GTGCATTCAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
21 17 0.81
ACGTcount: A:0.42, C:0.19, G:0.05, T:0.35
Consensus pattern (20 bp):
CATCATATATATGTACATAA
Found at i:36110 original size:15 final size:15
Alignment explanation
Indices: 36090--36120 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
36080 AGGGTAAATT
36090 ACATAAATATATAAA
1 ACATAAATATATAAA
36105 ACATAAATATATAAA
1 ACATAAATATATAAA
36120 A
1 A
36121 ACAATTACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
ACATAAATATATAAA
Found at i:36461 original size:29 final size:29
Alignment explanation
Indices: 36390--36476 Score: 95
Period size: 31 Copynumber: 2.9 Consensus size: 29
36380 AACCATTTAA
*
36390 GGCCCCGATTTTTTTATATTTATAATTAG
1 GGCCCCAATTTTTTTATATTTATAATTAG
* **
36419 GTCTCTGAATTTTTTTTATATTTATAATTAG
1 GGC-CCCAA-TTTTTTTATATTTATAATTAG
*
36450 GGCCCCAATTTTTATA-ATTTCATAATT
1 GGCCCCAATTTTTTTATATTT-ATAATT
36477 TTGTTTAGTT
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
28 4 0.09
29 15 0.32
30 5 0.11
31 23 0.49
ACGTcount: A:0.26, C:0.13, G:0.10, T:0.51
Consensus pattern (29 bp):
GGCCCCAATTTTTTTATATTTATAATTAG
Found at i:38223 original size:33 final size:33
Alignment explanation
Indices: 38186--38257 Score: 144
Period size: 33 Copynumber: 2.2 Consensus size: 33
38176 ATTGTAAGAC
38186 TTATGTCTCTAATTGAGGGACAAACACATGAGT
1 TTATGTCTCTAATTGAGGGACAAACACATGAGT
38219 TTATGTCTCTAATTGAGGGACAAACACATGAGT
1 TTATGTCTCTAATTGAGGGACAAACACATGAGT
38252 TTATGT
1 TTATGT
38258 TAAAGGGGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.33
Consensus pattern (33 bp):
TTATGTCTCTAATTGAGGGACAAACACATGAGT
Found at i:40719 original size:60 final size:60
Alignment explanation
Indices: 40639--40767 Score: 222
Period size: 60 Copynumber: 2.1 Consensus size: 60
40629 TAAACGGTTC
*
40639 AATTTCATCCCGAAACTATGACTCTCATTCTAAATTAGTCCTCAAACTTTTAAATATTTT
1 AATTTCATCCCGAAACTATGACTCTCATTCTAAATTAGTCATCAAACTTTTAAATATTTT
* * *
40699 AATTTCATCCCTAAACTATGACTCTCATTTTAAATTAGTCATCACACTTTTAAATATTTT
1 AATTTCATCCCGAAACTATGACTCTCATTCTAAATTAGTCATCAAACTTTTAAATATTTT
40759 AATTTCATC
1 AATTTCATC
40768 TCAAATGATC
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 65 1.00
ACGTcount: A:0.33, C:0.21, G:0.04, T:0.42
Consensus pattern (60 bp):
AATTTCATCCCGAAACTATGACTCTCATTCTAAATTAGTCATCAAACTTTTAAATATTTT
Found at i:40729 original size:31 final size:31
Alignment explanation
Indices: 40639--40731 Score: 77
Period size: 31 Copynumber: 3.1 Consensus size: 31
40629 TAAACGGTTC
* *
40639 AATTTCATCCCGAAACTATGACTCTCATTCT
1 AATTTCATCCCTAAACTATGACTCTCATTTT
* * * **
40670 AAATT-AGT-CCTCAAACTTTTA-AAT-ATTTT
1 AATTTCA-TCCCT-AAACTATGACTCTCATTTT
40699 AATTTCATCCCTAAACTATGACTCTCATTTT
1 AATTTCATCCCTAAACTATGACTCTCATTTT
40730 AA
1 AA
40732 ATTAGTCATC
Statistics
Matches: 44, Mismatches: 12, Indels: 12
0.65 0.18 0.18
Matches are distributed among these distances:
29 16 0.36
30 9 0.20
31 19 0.43
ACGTcount: A:0.33, C:0.23, G:0.04, T:0.40
Consensus pattern (31 bp):
AATTTCATCCCTAAACTATGACTCTCATTTT
Found at i:41119 original size:20 final size:20
Alignment explanation
Indices: 41096--41147 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
41086 AACGCGATCC
41096 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
41116 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
41136 CCAAAATCGCAA
1 CCAGAATCGCAA
41148 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:41286 original size:60 final size:60
Alignment explanation
Indices: 41203--41391 Score: 243
Period size: 60 Copynumber: 3.1 Consensus size: 60
41193 GATTTTCCAT
* ** * *
41203 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* * *** *
41263 AATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* **
41323 TATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGTA
41384 AATCGCAA
1 AATCGCAA
41392 TGCGATATTT
Statistics
Matches: 107, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 80 0.75
61 27 0.25
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.20
Consensus pattern (60 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
Found at i:41297 original size:20 final size:20
Alignment explanation
Indices: 41203--41391 Score: 211
Period size: 20 Copynumber: 9.4 Consensus size: 20
41193 GATTTTCCAT
* ** *
41203 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
41223 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
41243 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
41263 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
41283 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
41303 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
41323 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* * *
41343 AATCGCAACG-ATAATACATAA
1 AATCGCAACGCGT-ATCCGT-A
41364 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
41384 AATCGCAA
1 AATCGCAA
41392 TGCGATATTT
Statistics
Matches: 141, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 121 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:41815 original size:33 final size:33
Alignment explanation
Indices: 41776--41846 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
41766 TTCACTTAGA
*
41776 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
41809 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
41842 TTTCA
1 TTTCA
41847 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:42003 original size:19 final size:19
Alignment explanation
Indices: 41979--42023 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
41969 GCAACGAGAG
**
41979 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAACCAA
41998 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACCAA
42017 AATCGCA
1 AATCGCA
42024 TTGCGATTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.47, C:0.27, G:0.18, T:0.09
Consensus pattern (19 bp):
AATCGCAACGCGAAACCAA
Found at i:42071 original size:33 final size:33
Alignment explanation
Indices: 42024--42137 Score: 185
Period size: 33 Copynumber: 3.5 Consensus size: 33
42014 CAAAATCGCA
* *
42024 TTGCGA-TTTCATTTCGCGTTACGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
42056 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
42089 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
42122 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
42138 AACCAAAAGA
Statistics
Matches: 75, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
32 6 0.08
33 69 0.92
ACGTcount: A:0.11, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:42078 original size:19 final size:18
Alignment explanation
Indices: 42019--42115 Score: 75
Period size: 19 Copynumber: 5.7 Consensus size: 18
42009 GAAACCAAAA
*
42019 TCGCATTGCGATTTCATT
1 TCGCGTTGCGATTTCATT
* *
42037 TCGCGTTACGA-TTC-TG
1 TCGCGTTGCGATTTCATT
42053 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGA-TTTCATT
42070 TCGCGTTGCGA-TTC---
1 TCGCGTTGCGATTTCATT
* *
42084 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATT-TCATT
42103 TCGCGTTGCGATT
1 TCGCGTTGCGATT
42116 CTCTCGTTGC
Statistics
Matches: 62, Mismatches: 7, Indels: 19
0.70 0.08 0.22
Matches are distributed among these distances:
14 17 0.27
15 1 0.02
16 7 0.11
17 8 0.13
18 9 0.15
19 20 0.32
ACGTcount: A:0.11, C:0.24, G:0.23, T:0.42
Consensus pattern (18 bp):
TCGCGTTGCGATTTCATT
Found at i:42092 original size:14 final size:14
Alignment explanation
Indices: 42073--42129 Score: 69
Period size: 14 Copynumber: 3.7 Consensus size: 14
42063 TTTCATTTCG
42073 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
42087 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
42104 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
42120 CGTTGCGATT
1 CGTTGCGATT
42130 TTCATTTCAA
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
14 18 0.47
15 1 0.03
16 5 0.13
17 5 0.13
18 1 0.03
19 8 0.21
ACGTcount: A:0.09, C:0.26, G:0.25, T:0.40
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:44141 original size:184 final size:186
Alignment explanation
Indices: 43832--44303 Score: 921
Period size: 184 Copynumber: 2.5 Consensus size: 186
43822 TAGATTGCTT
*
43832 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
43897 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
43962 GTGTATTCTTTAACACTGTGAAATA-TATTTGTCTTTG-TTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
44016 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
44081 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
44146 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
44202 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
44267 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTT
44304 ATCCATTCAA
Statistics
Matches: 285, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
184 154 0.54
185 12 0.04
186 119 0.42
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (186 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:44158 original size:93 final size:93
Alignment explanation
Indices: 43832--44303 Score: 921
Period size: 93 Copynumber: 5.1 Consensus size: 93
43822 TAGATTGCTT
*
43832 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
43897 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
43925 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
43989 TTTGTCTTTG-TTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
44016 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
44081 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
44109 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
44174 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
44202 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
44267 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
44295 AGTAAATTT
1 AGTAAATTT
44304 ATCCATTCAA
Statistics
Matches: 376, Mismatches: 1, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
91 79 0.21
92 24 0.06
93 273 0.73
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:44387 original size:19 final size:19
Alignment explanation
Indices: 44347--44474 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
44337 TAGTTTACTT
* *
44347 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
44367 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
44386 TCGCAACGCGAAA-TGAAA
1 TCGCAACGCGAAACCAAAA
*
44404 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
44418 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
44437 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
44451 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
44470 TCGCA
1 TCGCA
44475 TTGCGATTTT
Statistics
Matches: 88, Mismatches: 10, Indels: 21
0.74 0.08 0.18
Matches are distributed among these distances:
14 19 0.22
15 1 0.01
16 6 0.07
17 2 0.02
18 11 0.12
19 36 0.41
20 13 0.15
ACGTcount: A:0.45, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:44443 original size:33 final size:32
Alignment explanation
Indices: 44383--44474 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 32
44373 CGCGAAACCA
**
44383 AAATCGCAACGCGAAA-TGAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
44414 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
44447 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
44475 TTGCGATTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
31 1 0.02
32 16 0.29
33 39 0.70
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:44492 original size:19 final size:18
Alignment explanation
Indices: 44470--44569 Score: 99
Period size: 19 Copynumber: 5.8 Consensus size: 18
44460 GAAACCAAAA
44470 TCGCATTGCGATTTTCATT
1 TCGC-TTGCGATTTTCATT
44489 TCGCGTTGCGA--TTC-TT
1 TCGC-TTGCGATTTTCATT
44505 TCG-TTGCGATTTTCATT
1 TCGCTTGCGATTTTCATT
*
44522 TCGCATTGCGA--TTC-TG
1 TCGC-TTGCGATTTTCATT
44538 TCG-TTGCGATTTTCATT
1 TCGCTTGCGATTTTCATT
44555 TCGCGTTGCGATTTT
1 TCGC-TTGCGATTTT
44570 GGTTCGCGTT
Statistics
Matches: 68, Mismatches: 3, Indels: 20
0.75 0.03 0.22
Matches are distributed among these distances:
14 12 0.18
16 15 0.22
17 15 0.22
19 26 0.38
ACGTcount: A:0.11, C:0.21, G:0.21, T:0.47
Consensus pattern (18 bp):
TCGCTTGCGATTTTCATT
Found at i:44511 original size:14 final size:14
Alignment explanation
Indices: 44492--44548 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
44482 TTTCATTTCG
44492 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
44506 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
44523 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
44539 CGTTGCGATT
1 CGTTGCGATT
44549 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:44517 original size:33 final size:33
Alignment explanation
Indices: 44475--44567 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
44465 CAAAATCGCA
*
44475 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
44508 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
44541 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
44568 TTGGTTCGCG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:44577 original size:18 final size:19
Alignment explanation
Indices: 44470--44586 Score: 85
Period size: 19 Copynumber: 6.7 Consensus size: 19
44460 GAAACCAAAA
* *
44470 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCAGT
44489 TCGCGTTGCGA--TTC--T
1 TCGCGTTGCGATTTTCAGT
* *
44504 T-TCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCAGT
* *
44522 TCGCATTGCGA--TTCTG-
1 TCGCGTTGCGATTTTCAGT
*
44538 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCAGT
*
44555 TCGCGTTGCGATTTT-GGT
1 TCGCGTTGCGATTTTCAGT
44573 TCGCGTTGCGATTT
1 TCGCGTTGCGATTT
44587 AAGTTTCGTG
Statistics
Matches: 77, Mismatches: 11, Indels: 21
0.71 0.10 0.19
Matches are distributed among these distances:
14 15 0.19
15 2 0.03
16 7 0.09
17 7 0.09
18 17 0.22
19 29 0.38
ACGTcount: A:0.10, C:0.21, G:0.23, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCAGT
Found at i:44599 original size:19 final size:18
Alignment explanation
Indices: 44539--44602 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 18
44529 GCGATTCTGT
44539 CGTTGCGATTTTCA-TTTCG
1 CGTTGCGA-TTT-AGTTTCG
* *
44558 CGTTGCGATTTTGGTTCG
1 CGTTGCGATTTAGTTTCG
44576 CGTTGCGATTTAAGTTTCG
1 CGTTGCGATTT-AGTTTCG
*
44595 TGTTGCGA
1 CGTTGCGA
44603 AAGTAAACTA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
18 18 0.47
19 20 0.53
ACGTcount: A:0.11, C:0.17, G:0.28, T:0.44
Consensus pattern (18 bp):
CGTTGCGATTTAGTTTCG
Found at i:46545 original size:14 final size:14
Alignment explanation
Indices: 46526--46561 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
46516 ATTGTTTAAT
46526 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
46540 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
46554 TGATTTGT
1 TGATTTGT
46562 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:46684 original size:19 final size:19
Alignment explanation
Indices: 46668--46769 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
46658 AAAAATGACT
46668 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
46687 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
46706 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
46720 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
46739 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
46759 ATCGCAATGCG
1 ATCGCAATGCG
46770 TTTATAATTT
Statistics
Matches: 75, Mismatches: 2, Indels: 12
0.84 0.02 0.13
Matches are distributed among these distances:
14 10 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 40 0.53
20 19 0.25
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:46818 original size:33 final size:33
Alignment explanation
Indices: 46776--47099 Score: 154
Period size: 33 Copynumber: 9.5 Consensus size: 33
46766 TGCGTTTATA
46776 ATTTCGCATTGCGATTATCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTC
*
46809 ATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC
1 ATTTCGCATTGCGA--TT-ATCTCG--TTGCGATTTTC
*
46845 -TTTCG--TTGCGATTTTCATTTCGCATTGCGA--TTC
1 ATTTCGCATTGCGA--TT-ATCTCG--TTGCGATTTTC
* * *
46878 -TTTCG--TTGCGATTTTCATTTCGCATTACGATTTTA
1 ATTTCGCATTGCGA--TT-ATCTCG--TTGCGATTTTC
* * *
46913 ATTTCGCATTACGATTCTGTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTC
*
46946 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 ATTTCGCATTGCGA--TT-ATCTCG--TTGCGATT-T-TC
* * * * * *
46986 GTTGCG-ATTTTC-ATT-TCGCATTGCGATTTTT
1 ATTTCGCA-TTGCGATTATCTCGTTGCGATTTTC
*
47017 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTC
* *
47050 ATTTCCGCATTGCGATTTTCAT-GTTGGGATTTTC
1 ATTT-CGCATTGCGATTATC-TCGTTGCGATTTTC
*
47084 ATTTCGCGTTGCGATT
1 ATTTCGCATTGCGATT
47100 GTATTTCCGT
Statistics
Matches: 241, Mismatches: 27, Indels: 46
0.77 0.09 0.15
Matches are distributed among these distances:
31 8 0.03
32 5 0.02
33 129 0.54
34 29 0.12
35 18 0.07
36 19 0.08
37 2 0.01
38 19 0.08
39 3 0.01
40 9 0.04
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.47
Consensus pattern (33 bp):
ATTTCGCATTGCGATTATCTCGTTGCGATTTTC
Found at i:46838 original size:52 final size:52
Alignment explanation
Indices: 46776--47071 Score: 228
Period size: 52 Copynumber: 5.6 Consensus size: 52
46766 TGCGTTTATA
46776 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATT-T-TC
1 ATTTCG-ATTGCGATT-TCTCGTTGCGATTTTCATTTCGCATTGCGATTCTCTC
* *
46828 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTCTTTC
1 ATTTCG-ATTGCGATT-TCTCGTTGCGATTTTCATTTCGCATTGCGATTCTCTC
* * * * * * * * *
46882 GTTGCGATTTTC-ATTTCGCATTACGATTTTAATTTCGCATTACGATTCTGTC
1 ATTTCGA-TTGCGATTTCTCGTTGCGATTTTCATTTCGCATTGCGATTCTCTC
* * * * *
46934 GTTGCGATTTTC-ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 ATTTCGA-TTGCGATTTCTCGTTGCGATTTTCATTTCGCATTGCGATTCTCTC
* * * * * *
46986 GTTGCGATTTTC-ATTTCGCATTGCGATTTTTATTTCGCATTGCGATTCTCTC
1 ATTTCGA-TTGCGATTTCTCGTTGCGATTTTCATTTCGCATTGCGATTCTCTC
* * *
47038 GTTGCGATTTTC-ATTTC-CGCATTGCGATTTTCAT
1 ATTTCGA-TTGCGATTTCTCG--TTGCGATTTTCAT
47072 GTTGGGATTT
Statistics
Matches: 220, Mismatches: 19, Indels: 9
0.89 0.08 0.04
Matches are distributed among these distances:
51 1 0.00
52 193 0.88
53 17 0.08
54 9 0.04
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (52 bp):
ATTTCGATTGCGATTTCTCGTTGCGATTTTCATTTCGCATTGCGATTCTCTC
Found at i:46855 original size:14 final size:14
Alignment explanation
Indices: 46836--46890 Score: 65
Period size: 14 Copynumber: 3.6 Consensus size: 14
46826 TCATTTCGCA
46836 TTGCGATTCTTTCG
1 TTGCGATTCTTTCG
46850 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TTTCG
46867 CATTGCGATTCTTTCG
1 --TTGCGATTCTTTCG
46883 TTGCGATT
1 TTGCGATT
46891 TTCATTTCGC
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 14 0.39
16 8 0.22
17 8 0.22
19 6 0.17
ACGTcount: A:0.11, C:0.20, G:0.20, T:0.49
Consensus pattern (14 bp):
TTGCGATTCTTTCG
Found at i:46884 original size:85 final size:85
Alignment explanation
Indices: 46776--47013 Score: 333
Period size: 85 Copynumber: 2.8 Consensus size: 85
46766 TGCGTTTATA
* *
46776 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
1 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
*
46841 ATTCTTTCGTTGCGATTTTC
66 ATTCTGTCGTTGCGATTTTC
* * *
46861 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTACGATTTTAATTTCGCATTACG
1 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
46926 ATTCTGTCGTTGCGATTTTC
66 ATTCTGTCGTTGCGATTTTC
*
46946 ATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCA
1 ATTTCGCATTGCGA--TTC-TTTCG--TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
47006 TTGCGATT
61 TTGCGATT
47014 TTTATTTCGC
Statistics
Matches: 138, Mismatches: 10, Indels: 10
0.87 0.06 0.06
Matches are distributed among these distances:
85 117 0.85
87 7 0.05
88 8 0.06
90 6 0.04
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (85 bp):
ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
ATTCTGTCGTTGCGATTTTC
Found at i:46958 original size:104 final size:105
Alignment explanation
Indices: 46850--47071 Score: 392
Period size: 104 Copynumber: 2.1 Consensus size: 105
46840 GATTCTTTCG
*
46850 TTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTACGATTTTAAT
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTACGATTTTAAT
*
46915 TTCGCATTACGATTCTGTCGTTGCGATTTTCATTT-CGCA
66 TTCGCATTACGATTCTCTCGTTGCGATTTTCATTTCCGCA
* *
46954 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTTAT
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTACGATTTTAAT
*
47019 TTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCA
66 TTCGCATTACGATTCTCTCGTTGCGATTTTCATTTCCGCA
47059 TTGCGATTTTCAT
1 TTGCGATTTTCAT
47072 GTTGGGATTT
Statistics
Matches: 112, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
104 95 0.85
105 17 0.15
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (105 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTACGATTTTAAT
TTCGCATTACGATTCTCTCGTTGCGATTTTCATTTCCGCA
Found at i:49397 original size:12 final size:12
Alignment explanation
Indices: 49380--49404 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
49370 TCTTCGGGGA
49380 CTTTTTCTTCTT
1 CTTTTTCTTCTT
49392 CTTTTTCTTCTT
1 CTTTTTCTTCTT
49404 C
1 C
49405 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:49613 original size:24 final size:24
Alignment explanation
Indices: 49579--49625 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
49569 CTGAAACATC
49579 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
49603 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
49626 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:50336 original size:20 final size:20
Alignment explanation
Indices: 50308--50676 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
50298 AAATTTCAGT
* * * *
50308 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
50328 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
50348 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
50368 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
50388 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
50408 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
50428 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
50448 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
50468 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
50488 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
*
50508 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATACGC
50528 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
50548 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
50568 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
50588 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
50608 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
50628 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
50648 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
50668 GTTGCGATT
1 GTTGCGATT
50677 ATGGAAAATC
Statistics
Matches: 309, Mismatches: 32, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.02
20 299 0.97
21 5 0.02
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:53223 original size:30 final size:31
Alignment explanation
Indices: 53157--53228 Score: 119
Period size: 31 Copynumber: 2.4 Consensus size: 31
53147 GTTAACAATC
* *
53157 ATTTTGTAATAGTTTCATAAGTTTAATGATT
1 ATTTTATAATAGTTTAATAAGTTTAATGATT
53188 ATTTTATAATAGTTTAATAAGTTTAATGA-T
1 ATTTTATAATAGTTTAATAAGTTTAATGATT
53218 ATTTTATAATA
1 ATTTTATAATA
53229 TAATGAACAT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
30 12 0.31
31 27 0.69
ACGTcount: A:0.38, C:0.01, G:0.10, T:0.51
Consensus pattern (31 bp):
ATTTTATAATAGTTTAATAAGTTTAATGATT
Found at i:56936 original size:35 final size:32
Alignment explanation
Indices: 56901--56981 Score: 83
Period size: 35 Copynumber: 2.3 Consensus size: 32
56891 TTTGGTTAAT
56901 TTTGTT-TATTACCATTTAATATCAGTTATTGTAA
1 TTTGTTATATTACCATTTAATA-C--TTATTGTAA
56935 TTTGTTTATCATTTACCATTTAATACTTATTGTAA
1 TTTG-TTAT-A-TTACCATTTAATACTTATTGTAA
*
56970 GTTTGTTGTATT
1 -TTTGTTATATT
56982 TAAAATTATA
Statistics
Matches: 41, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
33 2 0.05
34 5 0.12
35 14 0.34
36 5 0.12
37 2 0.05
38 13 0.32
ACGTcount: A:0.26, C:0.09, G:0.10, T:0.56
Consensus pattern (32 bp):
TTTGTTATATTACCATTTAATACTTATTGTAA
Found at i:61579 original size:18 final size:18
Alignment explanation
Indices: 61553--61600 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
61543 ATACAATATT
61553 CCAGTAATCTTATTTCCG
1 CCAGTAATCTTATTTCCG
* *
61571 CCGGTAATCCTATTTCCG
1 CCAGTAATCTTATTTCCG
61589 CCAGTAATCTTA
1 CCAGTAATCTTA
61601 CATTTCGTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.23, C:0.29, G:0.12, T:0.35
Consensus pattern (18 bp):
CCAGTAATCTTATTTCCG
Found at i:62279 original size:18 final size:18
Alignment explanation
Indices: 62256--62298 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
62246 TGAGAATTCT
*
62256 CACGACCCTGACCACGAC
1 CACGACCCCGACCACGAC
*
62274 CACGACCCCGACCCCGAC
1 CACGACCCCGACCACGAC
62292 C-CGACCC
1 CACGACCC
62299 GAGACGAGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 6 0.26
18 17 0.74
ACGTcount: A:0.23, C:0.58, G:0.16, T:0.02
Consensus pattern (18 bp):
CACGACCCCGACCACGAC
Found at i:63038 original size:29 final size:29
Alignment explanation
Indices: 62973--63030 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
62963 TGGTTAAAAT
62973 CGTATATTATAAGGCATTTTTGGTCACTG
1 CGTATATTATAAGGCATTTTTGGTCACTG
63002 CGTATATTATAAGGCATTTTTGGTCACTG
1 CGTATATTATAAGGCATTTTTGGTCACTG
63031 AGGTTATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.24, C:0.14, G:0.21, T:0.41
Consensus pattern (29 bp):
CGTATATTATAAGGCATTTTTGGTCACTG
Found at i:63366 original size:32 final size:32
Alignment explanation
Indices: 63300--63432 Score: 122
Period size: 32 Copynumber: 4.2 Consensus size: 32
63290 ATATAATAAC
* ** * *
63300 TTATGAACACGTGGTATGTGTCATATCATTAT
1 TTATGAACATGTGACATATGTCATGTCATTAT
* * *
63332 TTATGAACATGTGATATATGTTATGTCATCAT
1 TTATGAACATGTGACATATGTCATGTCATTAT
* * * * * *
63364 TTACGTACATGTGACATGTATCTTGTCATTAC
1 TTATGAACATGTGACATATGTCATGTCATTAT
* *
63396 TAATGTACATGTGACATATGTCATGTCATTAT
1 TTATGAACATGTGACATATGTCATGTCATTAT
63428 TTATG
1 TTATG
63433 TATACGTAAC
Statistics
Matches: 79, Mismatches: 22, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
32 79 1.00
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.42
Consensus pattern (32 bp):
TTATGAACATGTGACATATGTCATGTCATTAT
Found at i:63434 original size:32 final size:32
Alignment explanation
Indices: 63318--63434 Score: 135
Period size: 32 Copynumber: 3.7 Consensus size: 32
63308 ACGTGGTATG
* * *
63318 TGTCATATCATTATTTATGAACATGTGATATA
1 TGTCATGTCATTATTTATGTACATGTGACATA
* * * *
63350 TGTTATGTCATCATTTACGTACATGTGACATG
1 TGTCATGTCATTATTTATGTACATGTGACATA
* * * *
63382 TATCTTGTCATTACTAATGTACATGTGACATA
1 TGTCATGTCATTATTTATGTACATGTGACATA
63414 TGTCATGTCATTATTTATGTA
1 TGTCATGTCATTATTTATGTA
63435 TACGTAACAT
Statistics
Matches: 66, Mismatches: 19, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
32 66 1.00
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.44
Consensus pattern (32 bp):
TGTCATGTCATTATTTATGTACATGTGACATA
Found at i:63838 original size:32 final size:32
Alignment explanation
Indices: 63774--63866 Score: 96
Period size: 32 Copynumber: 2.9 Consensus size: 32
63764 TGTACGTAAG
* * * * *
63774 TGATAACATAATACATGTTACATGTACGTAAA
1 TGATAACATAATACATATCACATATTCATAAA
63806 TGATAACATAATACATATCACATATTCATAAA
1 TGATAACATAATACATATCACATATTCATAAA
* * * *
63838 TGATGACATGACACCATATCACGTATTCA
1 TGATAACATAATA-CATATCACATATTCA
63867 GGAGTGATAA
Statistics
Matches: 51, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
32 37 0.73
33 14 0.27
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.30
Consensus pattern (32 bp):
TGATAACATAATACATATCACATATTCATAAA
Found at i:67219 original size:10 final size:10
Alignment explanation
Indices: 67204--67257 Score: 55
Period size: 10 Copynumber: 5.8 Consensus size: 10
67194 CCCATCTTCT
67204 TTTTCTTCAC
1 TTTTCTTCAC
67214 TTTTCTT--C
1 TTTTCTTCAC
*
67222 --TTCTT-TC
1 TTTTCTTCAC
67229 TTTCTCTTCAC
1 TTT-TCTTCAC
67240 TTTTCTTCAC
1 TTTTCTTCAC
67250 TTTTCTTC
1 TTTTCTTC
67258 TTTTCCAATG
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
6 5 0.13
7 1 0.03
8 1 0.03
9 1 0.03
10 26 0.68
11 4 0.11
ACGTcount: A:0.06, C:0.30, G:0.00, T:0.65
Consensus pattern (10 bp):
TTTTCTTCAC
Found at i:67254 original size:26 final size:26
Alignment explanation
Indices: 67200--67256 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
67190 ATTCCCCATC
* *
67200 TTCTTTTTCTTCACTTTTCTTCTTCT
1 TTCTTTCTCTTCACTTTTCTTCCTCT
67226 TTCTTTCTCTTCACTTTTCTTCACT-T
1 TTCTTTCTCTTCACTTTTCTTC-CTCT
67252 TTCTT
1 TTCTT
67257 CTTTTCCAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 27 0.96
27 1 0.04
ACGTcount: A:0.05, C:0.28, G:0.00, T:0.67
Consensus pattern (26 bp):
TTCTTTCTCTTCACTTTTCTTCCTCT
Found at i:67979 original size:29 final size:29
Alignment explanation
Indices: 67944--68007 Score: 128
Period size: 29 Copynumber: 2.2 Consensus size: 29
67934 AACGATAACG
67944 TTAGTGACCGATTTGTAACTTTTGAAACA
1 TTAGTGACCGATTTGTAACTTTTGAAACA
67973 TTAGTGACCGATTTGTAACTTTTGAAACA
1 TTAGTGACCGATTTGTAACTTTTGAAACA
68002 TTAGTG
1 TTAGTG
68008 GTGAAAACAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (29 bp):
TTAGTGACCGATTTGTAACTTTTGAAACA
Found at i:84078 original size:14 final size:14
Alignment explanation
Indices: 84059--84091 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
84049 TGATTGGCTC
84059 CCAACACCTAAATT
1 CCAACACCTAAATT
*
84073 CCAACACCTGAATT
1 CCAACACCTAAATT
84087 CCAAC
1 CCAAC
84092 CTTTTGGACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.39, C:0.39, G:0.03, T:0.18
Consensus pattern (14 bp):
CCAACACCTAAATT
Found at i:95073 original size:2 final size:2
Alignment explanation
Indices: 95066--95092 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
95056 CCCAAAATCA
95066 AT 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 AT A
95093 CACACACACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:98959 original size:148 final size:150
Alignment explanation
Indices: 98665--98963 Score: 485
Period size: 148 Copynumber: 2.0 Consensus size: 150
98655 CCTTTATATG
*
98665 ATCAGATAAATAATTTAGTGGGTTAATGATTATAGATATATATCTTAATTATATGTTAATTTTAA
1 ATCAGATAAATAATTTAGTGGGTTAATGATTATAGACATATATCTTAATTATATGTTAATTTTAA
* ** **
98730 TATTAATTTTTTTAAAATTAGTCACTTCTATTTACATTAAAAAAATTATAGCTCAAAGACTTATG
66 TATTAATCTTTAAAAAAAAAGTCACTTCTATTTACATTAAAAAAATTATAGCTCAAAGACTTATG
98795 TATCATGCACTGTTTTTCCA
131 TATCATGCACTGTTTTTCCA
* *
98815 ATCA-ATAACTAATTTATTGGGTTAATGATTATAGACATATATCTTAATTATATGTTAATTTTAA
1 ATCAGATAAATAATTTAGTGGGTTAATGATTATAGACATATATCTTAATTATATGTTAATTTTAA
* * *
98879 TATTAA-CTTTAAAAAAAAAGTCACTTCTATTTACATTAAAAGAATTATGGTTCAAAGACTTATG
66 TATTAATCTTTAAAAAAAAAGTCACTTCTATTTACATTAAAAAAATTATAGCTCAAAGACTTATG
98943 TATCATGCACTGTTTTTCCA
131 TATCATGCACTGTTTTTCCA
98963 A
1 A
98964 CTTGATACTT
Statistics
Matches: 138, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
148 71 0.51
149 63 0.46
150 4 0.03
ACGTcount: A:0.38, C:0.10, G:0.09, T:0.42
Consensus pattern (150 bp):
ATCAGATAAATAATTTAGTGGGTTAATGATTATAGACATATATCTTAATTATATGTTAATTTTAA
TATTAATCTTTAAAAAAAAAGTCACTTCTATTTACATTAAAAAAATTATAGCTCAAAGACTTATG
TATCATGCACTGTTTTTCCA
Found at i:100454 original size:19 final size:19
Alignment explanation
Indices: 100430--100470 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
100420 GTACTTAATG
100430 TTACTCAAATTTTTCTCAC
1 TTACTCAAATTTTTCTCAC
100449 TTACTCAAATTTTTCTCAC
1 TTACTCAAATTTTTCTCAC
100468 TTA
1 TTA
100471 AACTTGGACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.27, C:0.24, G:0.00, T:0.49
Consensus pattern (19 bp):
TTACTCAAATTTTTCTCAC
Found at i:100531 original size:2 final size:2
Alignment explanation
Indices: 100524--100555 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
100514 CATGAACATG
100524 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
100556 TAAAGACTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:102397 original size:24 final size:24
Alignment explanation
Indices: 102370--102470 Score: 114
Period size: 24 Copynumber: 4.2 Consensus size: 24
102360 ATTTCCGATT
* *
102370 TGAATTCTGTTATGATACATGACC
1 TGAATTCTGATCTGATACATGACC
*
102394 TGAATTCTGATCTGATAC-TGACA
1 TGAATTCTGATCTGATACATGACC
* * *
102417 TGGATTTTGATCTGATACATGATC
1 TGAATTCTGATCTGATACATGACC
* * *
102441 TGGATTCTGATCTAATACTTGACC
1 TGAATTCTGATCTGATACATGACC
102465 TGAATT
1 TGAATT
102471 ATGTTTTGAT
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
23 20 0.31
24 44 0.69
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.39
Consensus pattern (24 bp):
TGAATTCTGATCTGATACATGACC
Found at i:104210 original size:28 final size:28
Alignment explanation
Indices: 104150--104211 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
104140 CAAGATCGAT
*
104150 TATATATCATTCAGGCGACAGAGCCAAC
1 TATATATCAATCAGGCGACAGAGCCAAC
* * *
104178 CATATATCAATCAGGTGACATG-GTCAAC
1 TATATATCAATCAGGCGACA-GAGCCAAC
104206 TATATA
1 TATATA
104212 ATACAACTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
28 27 0.96
29 1 0.04
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (28 bp):
TATATATCAATCAGGCGACAGAGCCAAC
Found at i:106675 original size:30 final size:30
Alignment explanation
Indices: 106635--106691 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
106625 CTTAAAAGAG
* *
106635 TTTTGCAATACTGAGATTTAAATAATTTTA
1 TTTTACAATACTGAAATTTAAATAATTTTA
106665 TTTTACAATACTGAAATTTAAATAATT
1 TTTTACAATACTGAAATTTAAATAATT
106692 CATACAACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.46
Consensus pattern (30 bp):
TTTTACAATACTGAAATTTAAATAATTTTA
Found at i:106766 original size:22 final size:22
Alignment explanation
Indices: 106717--106765 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
106707 ATAAATTATT
* **
106717 TAAAATAAATCAATCTATATTT
1 TAAAATAAATCAATCCATATAA
106739 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
106762 TAAA
1 TAAA
106766 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:106827 original size:77 final size:77
Alignment explanation
Indices: 106724--107016 Score: 410
Period size: 77 Copynumber: 3.9 Consensus size: 77
106714 ATTTAAAATA
* *
106724 AATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTCAT
1 AATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT
106789 ACAACTACATAAT
66 ACAA-TACATAAT
106802 AATCAATCCATA-TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT
1 AATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT
106866 AC-A-AC-T-AT
66 ACAATACATAAT
* *
106874 AATCAATCCATATTTT----TAAATCAATCCATACAAATAAATTATTTAAAAT-AATCAATCAAT
1 AATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT
106934 ACTAATAACTATTAAAAT
66 AC-AAT-AC-A-T--AAT
106952 AATCAATCCATATTTTAAAA-AAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT
1 AATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT
107016 A
66 A
107017 TTTTAAAATA
Statistics
Matches: 193, Mismatches: 6, Indels: 28
0.85 0.03 0.12
Matches are distributed among these distances:
68 12 0.06
69 32 0.17
70 1 0.01
72 16 0.08
73 4 0.02
74 2 0.01
75 1 0.01
76 1 0.01
77 53 0.27
78 29 0.15
81 31 0.16
82 11 0.06
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (77 bp):
AATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT
ACAATACATAAT
Found at i:106828 original size:21 final size:21
Alignment explanation
Indices: 106767--106834 Score: 66
Period size: 21 Copynumber: 3.1 Consensus size: 21
106757 ACTAATAAAT
*
106767 TATTTAAAATAAATCAATTCA
1 TATTTAAAATAAATCAATCCA
**
106788 TACAACTACATAAT-AATCAATCCA
1 T--ATTTA-A-AATAAATCAATCCA
106812 TATTTAAAATAAATCAATCCA
1 TATTTAAAATAAATCAATCCA
106833 TA
1 TA
106835 CTAATAAATT
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
20 3 0.08
21 14 0.38
22 3 0.08
23 3 0.08
24 11 0.30
25 3 0.08
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.32
Consensus pattern (21 bp):
TATTTAAAATAAATCAATCCA
Found at i:106853 original size:32 final size:32
Alignment explanation
Indices: 106812--107150 Score: 190
Period size: 32 Copynumber: 11.8 Consensus size: 32
106802 AATCAATCCA
106812 TATTTAAAATAAATCAATCCATACTAATAAAT
1 TATTTAAAATAAATCAATCCATACTAATAAAT
106844 TATTTAAAATAAATCAATCCATAC-AACTATAAT
1 TATTTAAAATAAATCAATCCATACTAA-TA-AAT
* * *** *
106877 CAATCCATATTTTTAAATCAATCCATACAAATAAAT
1 -TAT--TTA-AAATAAATCAATCCATACTAATAAAT
* *
106913 TATTTAAAAT-AATCAATCAATACTAAT-AAC
1 TATTTAAAATAAATCAATCCATACTAATAAAT
106943 TA-TTAAAAT-AATCAAT-C---C--AT--A-
1 TATTTAAAATAAATCAATCCATACTAATAAAT
106964 T-TTTAAAA-AAATCAATCCATACTAATAAAT
1 TATTTAAAATAAATCAATCCATACTAATAAAT
106994 TATTTAAAATAAATCAAT-C---C--AT--A-
1 TATTTAAAATAAATCAATCCATACTAATAAAT
*
107017 T-TTTAAAATAAATCAATTCATACTAATAAAT
1 TATTTAAAATAAATCAATCCATACTAATAAAT
* *
107048 TA-TTAAAATAAATTAATCCATAC-AACTACA-
1 TATTTAAAATAAATCAATCCATACTAA-TAAAT
107078 -A--T--AATAAATCAATCC--A-T-AT----
1 TATTTAAAATAAATCAATCCATACTAATAAAT
107097 --TTTAAAATAAATCAATCCATACTAATAAAT
1 TATTTAAAATAAATCAATCCATACTAATAAAT
* *
107127 TATTTAAAATAAATTAATCAATAC
1 TATTTAAAATAAATCAATCCATAC
107151 AACTACAATA
Statistics
Matches: 241, Mismatches: 20, Indels: 92
0.68 0.06 0.26
Matches are distributed among these distances:
20 1 0.00
21 14 0.06
22 32 0.13
23 5 0.02
24 3 0.01
25 3 0.01
26 17 0.07
27 2 0.01
28 4 0.02
29 16 0.07
30 8 0.03
31 48 0.20
32 55 0.23
33 5 0.02
34 2 0.01
35 2 0.01
36 5 0.02
37 17 0.07
38 2 0.01
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (32 bp):
TATTTAAAATAAATCAATCCATACTAATAAAT
Found at i:106969 original size:21 final size:21
Alignment explanation
Indices: 106945--106984 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
106935 CTAATAACTA
*
106945 TTAAAATAATCAATCCATATT
1 TTAAAAAAATCAATCCATATT
106966 TTAAAAAAATCAATCCATA
1 TTAAAAAAATCAATCCATA
106985 CTAATAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.33
Consensus pattern (21 bp):
TTAAAAAAATCAATCCATATT
Found at i:107022 original size:22 final size:22
Alignment explanation
Indices: 106996--107038 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
106986 TAATAAATTA
106996 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
107018 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATA
107039 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:107047 original size:22 final size:22
Alignment explanation
Indices: 106998--107046 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
106988 ATAAATTATT
**
106998 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
107020 TAAAATAAATCAATTCATACTAA
1 TAAAATAAATCAATCCATA-TAA
107043 TAAA
1 TAAA
107047 TTATTAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:107126 original size:22 final size:22
Alignment explanation
Indices: 107051--107125 Score: 69
Period size: 22 Copynumber: 3.2 Consensus size: 22
107041 AATAAATTAT
* *
107051 TAAAATAAATTAATCCATACAA
1 TAAAATAAATCAATCCATATAA
**
107073 CTACAATAATAAATCAATCCATATTT
1 -T--AA-AATAAATCAATCCATATAA
107099 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
107122 TAAA
1 TAAA
107126 TTATTTAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
22 16 0.38
23 8 0.19
25 3 0.07
26 15 0.36
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:107181 original size:80 final size:80
Alignment explanation
Indices: 107001--107304 Score: 513
Period size: 80 Copynumber: 3.8 Consensus size: 80
106991 AATTATTTAA
* * *
107001 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTA-TTAAAATAAATTAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAAT
107065 CCATACAACTACAAT
66 CCATACAACTACAAT
* *
107080 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATTAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAAT
*
107145 CAATACAACTACAAT
66 CCATACAACTACAAT
*
107160 AATAAATCAATCTATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAAT
*
107225 CCATAAAACTACAAT
66 CCATACAACTACAAT
*
107240 AATAAATCAATCCATATTTT-CAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAAT
107304 C
66 C
107305 TATTTTAAAA
Statistics
Matches: 215, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
79 92 0.43
80 123 0.57
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (80 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAAT
CCATACAACTACAAT
Found at i:107181 original size:159 final size:159
Alignment explanation
Indices: 107001--107304 Score: 520
Period size: 159 Copynumber: 1.9 Consensus size: 159
106991 AATTATTTAA
* * *
107001 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTA-TTAAAATAAATTAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAAT
* *
107065 CCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
66 CCATAAAACTACAATAATAAATCAATCCATATTTT-AAATAAATCAATCCATACAAATAAATTAT
*
107130 TTAAAATAAATTAATCAATACAACTACAAT
130 TTAAAATAAATCAATCAATACAACTACAAT
*
107160 AATAAATCAATCTATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAAT
*
107225 CCATAAAACTACAATAATAAATCAATCCATATTTTCAATAAATCAATCCATACAAATAAATTATT
66 CCATAAAACTACAATAATAAATCAATCCATATTTTAAATAAATCAATCCATACAAATAAATTATT
107290 TAAAATAAATCAATC
131 TAAAATAAATCAATC
107305 TATTTTAAAA
Statistics
Matches: 136, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
159 88 0.65
160 48 0.35
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (159 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAAT
CCATAAAACTACAATAATAAATCAATCCATATTTTAAATAAATCAATCCATACAAATAAATTATT
TAAAATAAATCAATCAATACAACTACAAT
Found at i:107335 original size:52 final size:52
Alignment explanation
Indices: 107240--107476 Score: 300
Period size: 52 Copynumber: 4.7 Consensus size: 52
107230 AAACTACAAT
* *
107240 AATAAATCAATCCATATTTT-CAATAAATCAATCCATACAAATAAATTATTTAA
1 AATAAATCAAT-C-TATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
*
107293 AATAAATCAATCTATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
1 AATAAATCAATCTATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* *
107345 AATAAATCAATCCATATTT-AAATAAATCAATCGATACTAATAAA-T-TTTAA
1 AATAAATCAATCTAT-TTTAAAATAAATCAATCCATACTAATAAATTATTTAA
107395 AATAAATCAATCCATATTTTAAAAT-AATCAATCCATACTAA-AAATTA-TTAA
1 AATAAATCAAT-C-TATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
107446 AAT--A--AAT-TATTTTAAAATAAATCAATCCATA
1 AATAAATCAATCTATTTTAAAATAAATCAATCCATA
107477 TTTTATAATA
Statistics
Matches: 168, Mismatches: 8, Indels: 24
0.84 0.04 0.12
Matches are distributed among these distances:
44 11 0.07
45 12 0.07
47 3 0.02
49 1 0.01
50 19 0.11
51 34 0.20
52 74 0.44
53 14 0.08
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.35
Consensus pattern (52 bp):
AATAAATCAATCTATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
Found at i:107364 original size:21 final size:20
Alignment explanation
Indices: 107338--107376 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
107328 ACTAATAAAT
107338 TATTTAAAATAAATCAATCCA
1 TATTT-AAATAAATCAATCCA
107359 TATTTAAATAAATCAATC
1 TATTTAAATAAATCAATC
107377 GATACTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (20 bp):
TATTTAAATAAATCAATCCA
Found at i:107399 original size:30 final size:29
Alignment explanation
Indices: 107364--107452 Score: 88
Period size: 30 Copynumber: 3.3 Consensus size: 29
107354 ATCCATATTT
107364 AAATAAATCAATCGATACTAATAAATTTTA
1 AAATAAATCAATC-ATACTAATAAATTTTA
107394 AAATAAATCAATC---C--AT--ATTTTA
1 AAATAAATCAATCATACTAATAAATTTTA
107416 AAAT-AATCAATCCATACTAA-AAATTATTA
1 AAATAAATCAAT-CATACTAATAAATT-TTA
107445 AAATAAAT
1 AAATAAAT
107453 TATTTTAAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 20
0.71 0.00 0.29
Matches are distributed among these distances:
21 7 0.14
22 11 0.22
24 2 0.04
25 1 0.02
26 1 0.02
27 1 0.02
28 3 0.06
29 7 0.14
30 16 0.33
ACGTcount: A:0.55, C:0.11, G:0.01, T:0.33
Consensus pattern (29 bp):
AAATAAATCAATCATACTAATAAATTTTA
Found at i:107425 original size:21 final size:21
Alignment explanation
Indices: 107388--107488 Score: 87
Period size: 22 Copynumber: 4.6 Consensus size: 21
107378 ATACTAATAA
107388 ATTTTAAAATAAATCAATCCAT
1 ATTTTAAAAT-AATCAATCCAT
107410 ATTTTAAAATAATCAATCCAT
1 ATTTTAAAATAATCAATCCAT
* * * * **
107431 A-CTAAAAATTATTAAAATAAATT
1 ATTTTAAAA-TAAT-CAATCCA-T
107454 ATTTTAAAATAAATCAATCCAT
1 ATTTTAAAAT-AATCAATCCAT
*
107476 ATTTTATAATAAT
1 ATTTTAAAATAAT
107489 TTATTTTAAA
Statistics
Matches: 61, Mismatches: 13, Indels: 11
0.72 0.15 0.13
Matches are distributed among these distances:
20 5 0.08
21 18 0.30
22 24 0.39
23 7 0.11
24 7 0.11
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (21 bp):
ATTTTAAAATAATCAATCCAT
Found at i:107460 original size:15 final size:15
Alignment explanation
Indices: 107442--107590 Score: 162
Period size: 15 Copynumber: 9.7 Consensus size: 15
107432 CTAAAAATTA
107442 TTAAAATAAATTATT
1 TTAAAATAAATTATT
107457 TTAAAATAAATCAATCCATATT
1 TTAAAAT--A--AAT---TATT
* *
107479 TTATAATAATTTATT
1 TTAAAATAAATTATT
107494 TTAAAATAAATTATT
1 TTAAAATAAATTATT
*
107509 TTATAATAAATTATT
1 TTAAAATAAATTATT
*
107524 TTATAATAAATTATT
1 TTAAAATAAATTATT
107539 TTAAAATAAATTATT
1 TTAAAATAAATTATT
*
107554 TTATAATAAATTA-T
1 TTAAAATAAATTATT
107568 TTAAAAT-AA--ATT
1 TTAAAATAAATTATT
107580 TTAAAATAAAT
1 TTAAAATAAAT
107591 AAACCTTATT
Statistics
Matches: 116, Mismatches: 8, Indels: 21
0.80 0.06 0.14
Matches are distributed among these distances:
11 1 0.01
12 8 0.07
13 4 0.03
14 7 0.06
15 79 0.68
17 1 0.01
18 2 0.02
19 3 0.03
20 1 0.01
22 10 0.09
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
TTAAAATAAATTATT
Found at i:107539 original size:45 final size:45
Alignment explanation
Indices: 107475--107590 Score: 186
Period size: 45 Copynumber: 2.7 Consensus size: 45
107465 AATCAATCCA
*
107475 TATTTTATAATAATTTATTTTAAAATAAATTATTTTATAATAAAT
1 TATTTTATAATAAATTATTTTAAAATAAATTATTTTATAATAAAT
107520 TATTTTATAATAAATTATTTTAAAATAAATTATTTTATAATAAAT
1 TATTTTATAATAAATTATTTTAAAATAAATTATTTTATAATAAAT
*
107565 TA-TTTAAAAT-AA--ATTTTAAAATAAAT
1 TATTTTATAATAAATTATTTTAAAATAAAT
107591 AAACCTTATT
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
41 14 0.20
43 2 0.03
44 7 0.10
45 46 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (45 bp):
TATTTTATAATAAATTATTTTAAAATAAATTATTTTATAATAAAT
Found at i:107584 original size:12 final size:12
Alignment explanation
Indices: 107536--107590 Score: 56
Period size: 12 Copynumber: 4.2 Consensus size: 12
107526 ATAATAAATT
107536 ATTTTAAAATAAA
1 ATTTTAAAAT-AA
*
107549 TTATTTTATAATAA
1 --ATTTTAAAATAA
107563 ATTATTTAAAATAA
1 A-T-TTTAAAATAA
107577 ATTTTAAAATAA
1 ATTTTAAAATAA
107589 AT
1 AT
107591 AAACCTTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
12 13 0.36
13 2 0.06
14 12 0.33
15 9 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
ATTTTAAAATAA
Found at i:108353 original size:121 final size:125
Alignment explanation
Indices: 108155--108403 Score: 400
Period size: 120 Copynumber: 2.0 Consensus size: 125
108145 ATAATTCTAA
* *
108155 TTGGGATTTAATTTTATTTATGTTTTATTACTGACATGATAATTACATCATCTTACGCTATTCTA
1 TTGGAATTTAATTTTATTTATGTTTTATTACTGACATGATAATTA-ATCATCTTA-GATATTCTA
*
108220 TAAAAATTAATTTTAAAAATTATATATTTTTTATAAATTTAAAATTATTTTCTGATATAATAT
64 TAAAAATCAATTTTAAAAATTATATA-TTTTTATAAATTTAAAATTATTTTCTGATATAATAT
*
108283 TTGGAATTTAATTTTATTTATGTTTTATTA-TGACATGATAATT-A-CATC-T-GATGTTCTATA
1 TTGGAATTTAATTTTATTTATGTTTTATTACTGACATGATAATTAATCATCTTAGATATTCTATA
108343 AAAATCAATTTTAAAAATTATATATTTTTATAAATTTAAAATTATTTTCTGATATAATAT
66 AAAATCAATTTTAAAAATTATATATTTTTATAAATTTAAAATTATTTTCTGATATAATAT
108403 T
1 T
108404 GTATCACGTT
Statistics
Matches: 117, Mismatches: 4, Indels: 8
0.91 0.03 0.06
Matches are distributed among these distances:
120 37 0.32
121 32 0.27
123 1 0.01
124 4 0.03
125 1 0.01
127 13 0.11
128 29 0.25
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.50
Consensus pattern (125 bp):
TTGGAATTTAATTTTATTTATGTTTTATTACTGACATGATAATTAATCATCTTAGATATTCTATA
AAAATCAATTTTAAAAATTATATATTTTTATAAATTTAAAATTATTTTCTGATATAATAT
Found at i:109729 original size:2 final size:2
Alignment explanation
Indices: 109722--109764 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
109712 TTACTTTGAT
* * *
109722 TG TG TG TG TG TG TG TG TG TG CG TG TG TG TT TG TG TT TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
109764 T
1 T
109765 AAATGGCTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.02, G:0.44, T:0.53
Consensus pattern (2 bp):
TG
Found at i:113306 original size:16 final size:15
Alignment explanation
Indices: 113261--113307 Score: 71
Period size: 14 Copynumber: 3.2 Consensus size: 15
113251 TTTAATATAA
113261 AAATAAAATGT-TAG
1 AAATAAAATGTCTAG
113275 AAATAAAATG-CTAG
1 AAATAAAATGTCTAG
113289 AAATAAAATGCTCTAG
1 AAATAAAATG-TCTAG
113305 AAA
1 AAA
113308 GAAATGAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
14 23 0.77
16 7 0.23
ACGTcount: A:0.57, C:0.06, G:0.13, T:0.23
Consensus pattern (15 bp):
AAATAAAATGTCTAG
Found at i:120012 original size:13 final size:13
Alignment explanation
Indices: 119991--120030 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
119981 AGAAAACACA
119991 AAGAAAAGAGAGG
1 AAGAAAAGAGAGG
*
120004 AAGATAAGAGAGG
1 AAGAAAAGAGAGG
*
120017 AAGCAAAGGAGAGG
1 AAG-AAAAGAGAGG
120031 GAAGTGGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
13 15 0.65
14 8 0.35
ACGTcount: A:0.55, C:0.03, G:0.40, T:0.03
Consensus pattern (13 bp):
AAGAAAAGAGAGG
Found at i:122979 original size:23 final size:23
Alignment explanation
Indices: 122953--123000 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
122943 TTAAAGTACA
*
122953 ATAATATATTAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
* *
122976 ATAATGTAATAGGTAGTGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
122999 AT
1 AT
123001 TGACATATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.40
Consensus pattern (23 bp):
ATAATATAATAGGTAGCGCTTAT
Done.