Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009350.1 Hibiscus syriacus cultivar Beakdansim tig00113145_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: 2139524
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 9
Found at i:668324 original size:67 final size:66
Alignment explanation
Indices: 668218--668433 Score: 222
Period size: 67 Copynumber: 3.3 Consensus size: 66
668208 AAATTTGGGC
* * *
668218 TTCAAG-GAAAATTTTCT-AAGCAAGATGAAACTTTATTTCGAGAGAAACAATCTCAAAGGTTTA
1 TTCAAGAGAAAA-TATCTAAAGCGAG-TGAAACTTTGTTTCGAGAGAAACAATCTCAAAGGTTTA
668281 TGT
64 TGT
** * * * * *
668284 TTCAAGAGAATTTGTCTAAAGTGGGGTGAAACTTTGTTTCGAGCGAAACAATCTCAGAGGTTTAT
1 TTCAAGAGAAAATATCTAAAG-CGAGTGAAACTTTGTTTCGAGAGAAACAATCTCAAAGGTTTAT
668349 GT
65 GT
* ** * *
668351 TTCAAGAGAAAATATCTCAAGCGAGACAAAATTTGTTTCAAGAGAAACAATCTCATAA-GTTTAT
1 TTCAAGAGAAAATATCTAAAGCGAGTGAAACTTTGTTTCGAGAGAAACAATCTCA-AAGGTTTAT
*
668415 AT
65 GT
*
668417 TTCAAGAGAAACTATCT
1 TTCAAGAGAAAATATCT
668434 CAATCGAGAC
Statistics
Matches: 123, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
66 60 0.49
67 62 0.50
68 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (66 bp):
TTCAAGAGAAAATATCTAAAGCGAGTGAAACTTTGTTTCGAGAGAAACAATCTCAAAGGTTTATG
T
Found at i:668413 original size:66 final size:65
Alignment explanation
Indices: 668253--668463 Score: 233
Period size: 66 Copynumber: 3.2 Consensus size: 65
668243 TGAAACTTTA
* ** * * * * ** *
668253 TTTCGAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAATTTGTCTAAAGTGGGGTGAAACTT
1 TTTCAAGAGAAACAATCTCAAA-GTTTATGTTTCAAGAGAAAATATCTCAAG-CGAGACAAAATT
668318 TG
64 TG
* * *
668320 TTTCGAGCGAAACAATCTCAGAGGTTTATGTTTCAAGAGAAAATATCTCAAGCGAGACAAAATTT
1 TTTCAAGAGAAACAATCTCA-AAGTTTATGTTTCAAGAGAAAATATCTCAAGCGAGACAAAATTT
668385 G
65 G
* * *
668386 TTTCAAGAGAAACAATCTCATAAGTTTATATTTCAAGAGAAACTATCTCAATCGAGACAAAATTT
1 TTTCAAGAGAAACAATCTCA-AAGTTTATGTTTCAAGAGAAAATATCTCAAGCGAGACAAAATTT
668451 G
65 G
*
668452 TTCCAAGAGAAA
1 TTTCAAGAGAAA
668464 TTGTCTTAAG
Statistics
Matches: 124, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
66 79 0.64
67 44 0.35
68 1 0.01
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.29
Consensus pattern (65 bp):
TTTCAAGAGAAACAATCTCAAAGTTTATGTTTCAAGAGAAAATATCTCAAGCGAGACAAAATTTG
Found at i:668459 original size:36 final size:36
Alignment explanation
Indices: 668348--668463 Score: 111
Period size: 36 Copynumber: 3.4 Consensus size: 36
668338 CAGAGGTTTA
* *
668348 TGTTTCAAGAGAAAATATCTCAAGCGAGACAAAATT
1 TGTTTCAAGAGAAACTATCTCAATCGAGACAAAATT
* **
668384 TGTTTCAAGAGAAACAATCTC-AT------AAGTTT
1 TGTTTCAAGAGAAACTATCTCAATCGAGACAAAATT
*
668413 ATATTTCAAGAGAAACTATCTCAATCGAGACAAAATT
1 -TGTTTCAAGAGAAACTATCTCAATCGAGACAAAATT
*
668450 TGTTCCAAGAGAAA
1 TGTTTCAAGAGAAA
668464 TTGTCTTAAG
Statistics
Matches: 61, Mismatches: 11, Indels: 16
0.69 0.12 0.18
Matches are distributed among these distances:
29 4 0.07
30 19 0.31
31 2 0.03
35 1 0.02
36 31 0.51
37 4 0.07
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.28
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTATCTCAATCGAGACAAAATT
Found at i:671494 original size:22 final size:22
Alignment explanation
Indices: 671464--671505 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
671454 TCAGCTGTTA
* *
671464 TAACTCCTGAAATTATATCATG
1 TAACCCCTGAAATTAAATCATG
*
671486 TAACCCCTGGAATTAAATCA
1 TAACCCCTGAAATTAAATCA
671506 AATAACTCTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (22 bp):
TAACCCCTGAAATTAAATCATG
Found at i:671511 original size:22 final size:22
Alignment explanation
Indices: 671463--671511 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
671453 TTCAGCTGTT
* * *
671463 ATAACTCCTGAAATTATATCAT
1 ATAACCCCTGAAATTAAATCAA
* *
671485 GTAACCCCTGGAATTAAATCAA
1 ATAACCCCTGAAATTAAATCAA
671507 ATAAC
1 ATAAC
671512 TCTTATAACT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.29
Consensus pattern (22 bp):
ATAACCCCTGAAATTAAATCAA
Found at i:671802 original size:6 final size:6
Alignment explanation
Indices: 671791--671815 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
671781 GACACGTATT
671791 ACCACG ACCACG ACCACG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG A
671816 GCTGAGCCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.48, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:671838 original size:5 final size:5
Alignment explanation
Indices: 671830--671881 Score: 59
Period size: 5 Copynumber: 10.4 Consensus size: 5
671820 AGCCGAGTTA
* * * * *
671830 AGCCG AGCCA AGTCG AGCCG TGCCG TGCCG TGCCG AGCCG AGCCG AGCCG
1 AGCCG AGCCG AGCCG AGCCG AGCCG AGCCG AGCCG AGCCG AGCCG AGCCG
671880 AG
1 AG
671882 ATGAGACGAG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
5 41 1.00
ACGTcount: A:0.17, C:0.37, G:0.38, T:0.08
Consensus pattern (5 bp):
AGCCG
Found at i:685480 original size:105 final size:105
Alignment explanation
Indices: 685295--685576 Score: 397
Period size: 105 Copynumber: 2.7 Consensus size: 105
685285 AAAAGTTGAG
* * * *
685295 CAAGTTCTTCTCATTTTGAACTTCCTCCTTTAAGGCT-AGTTCTTCTCATTATGAACTCTTCTAG
1 CAAGTTCTTCTCATTATGAACTTTCTCCTTTAA-GATGAGTTCTTCTCATTATGAACTCTTCTGG
* * *
685359 AAATGTTGGTTTACCTCATT-ATGCGGTGGATTTGAAAGGAA
65 AAATGTTGATTCACCTCATTCATG-GGTGAATTTGAAAGGAA
* *
685400 TAAGTTCTTCTCATTATGAACTTTCTCCTTTAAGATGAGTTCTTCTCATTATGAACTCTTATGGA
1 CAAGTTCTTCTCATTATGAACTTTCTCCTTTAAGATGAGTTCTTCTCATTATGAACTCTTCTGGA
* *
685465 AATGTTGATTCACCTCCTTCTTGGGTGAATTTGAAAGGAA
66 AATGTTGATTCACCTCATTCATGGGTGAATTTGAAAGGAA
* * **
685505 CAAGTTCTTCTCATTATGAACTTTCTACTTTAGGGCGAGTTCTTCTCATTATGAACTCTTCTGGA
1 CAAGTTCTTCTCATTATGAACTTTCTCCTTTAAGATGAGTTCTTCTCATTATGAACTCTTCTGGA
685570 AATGTTG
66 AATGTTG
685577 GTCCCTCGAG
Statistics
Matches: 158, Mismatches: 17, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
104 2 0.01
105 154 0.97
106 2 0.01
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.41
Consensus pattern (105 bp):
CAAGTTCTTCTCATTATGAACTTTCTCCTTTAAGATGAGTTCTTCTCATTATGAACTCTTCTGGA
AATGTTGATTCACCTCATTCATGGGTGAATTTGAAAGGAA
Found at i:685737 original size:136 final size:129
Alignment explanation
Indices: 685502--685741 Score: 309
Period size: 136 Copynumber: 1.8 Consensus size: 129
685492 AATTTGAAAG
* * * * *
685502 GAACAAGTTCTTCTCATTATGAACTTTCTACTTTAGGGCGAGTTCTTCTCATTATGAACTCTTCT
1 GAACAAGCTCTTCTCATTATGAACTTTCTACTTTAGGACGAGCTCTTCTCATTATAAACTCTACT
**
685567 GGAAATGTTGGTCCCTCGAGTGAGGTGTCACTGATTCAAAATATCATGAATCGAGTGATAGGTT
66 GGAAATGTTAATCCCTCGAGTGAGGTGTCACTGATTCAAAATATCATGAATCGAGTGATAGGTT
* *
685631 GAACAAGCTCTTCTCATTATGAACTTATTCTCCCTTTATCGGATGAGCTCTTCTCATTATAAACT
1 GAACAAGCTCTTCTCATTATGAAC-T-TTCT-ACTTTA--GGACGAGCTCTTCTCATTATAAACT
* **
685696 CTCCACTGGAAATGTTAATCCCTTGAGTGAGGTGTTGCTGATTCAA
61 CT--ACTGGAAATGTTAATCCCTCGAGTGAGGTGTCACTGATTCAA
685742 CTCCATATGT
Statistics
Matches: 92, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
129 23 0.25
130 1 0.01
131 4 0.04
132 5 0.05
134 23 0.25
136 36 0.39
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (129 bp):
GAACAAGCTCTTCTCATTATGAACTTTCTACTTTAGGACGAGCTCTTCTCATTATAAACTCTACT
GGAAATGTTAATCCCTCGAGTGAGGTGTCACTGATTCAAAATATCATGAATCGAGTGATAGGTT
Found at i:685917 original size:126 final size:126
Alignment explanation
Indices: 685687--685925 Score: 397
Period size: 126 Copynumber: 1.9 Consensus size: 126
685677 GCTCTTCTCA
* * *
685687 TTATAAACTCTCCACTGGAAATGTTAATCCCTTGAGTGAGGTGTTGCTGATTCAACTCCATATGT
1 TTATAAACTCTCCACTGGAAATGTTAATCCCTTAAGCGAGGTGTTGCCGATTCAACTCCATATGT
* *
685752 GATGAATCGAGCTAAGATTGAACAATTTCTTCTCATTATGAACTTCTTATCGGATTAATTC
66 GATGAATCAAGCTAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTATCGGATTAATTC
* *
685813 TTATGAACTCTCCACTGGAAATGTTGATCCCTTAAGCGAGGTGTTGCCGATTCAACTCCATATGT
1 TTATAAACTCTCCACTGGAAATGTTAATCCCTTAAGCGAGGTGTTGCCGATTCAACTCCATATGT
* *
685878 GATGAATCAAGCTATGGTTGAACAAGTTCTTCTCATTATGAACTTCTT
66 GATGAATCAAGCTAAGATTGAACAAGTTCTTCTCATTATGAACTTCTT
685926 CTCCCTCATC
Statistics
Matches: 104, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
126 104 1.00
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.36
Consensus pattern (126 bp):
TTATAAACTCTCCACTGGAAATGTTAATCCCTTAAGCGAGGTGTTGCCGATTCAACTCCATATGT
GATGAATCAAGCTAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTATCGGATTAATTC
Found at i:686922 original size:116 final size:112
Alignment explanation
Indices: 686719--686927 Score: 269
Period size: 116 Copynumber: 1.8 Consensus size: 112
686709 ATTTACAGTT
* * *
686719 ATCAAGAAACCCCTAAAATTAGGCTTAGTTTCTTTCAAAAATTCATTTAAAAACATCATGAAACC
1 ATCAAGAAACCCCTAAAATTAGGCTTAGCTTCTTTCAAAAAATCATTTAAAAACATCAAGAAACC
686784 CCTGAAAACCAGGCTTAATTTCTAAAAATATTTCCTTTTCAATTGTC
66 CCTGAAAACCAGGCTTAATTTCTAAAAATATTTCCTTTTCAATTGTC
* * *
686831 ATCAAGGAACCCCTAAAAATTAGGCTTAGCTTCATTT-AAAAAAT-ATTTGGAGATAATCTTCAA
1 ATCAAGAAACCCCT-AAAATTAGGCTTAGCTTC-TTTCAAAAAATCATTT--A-A-AAACATCAA
* * *
686894 GAAACCCCTGAAAATCAGGTTTAGTTTCTAAAAA
60 GAAACCCCTGAAAACCAGGCTTAATTTCTAAAAA
686928 ACTCATTTGA
Statistics
Matches: 82, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
112 17 0.21
113 23 0.28
114 4 0.05
115 1 0.01
116 37 0.45
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.31
Consensus pattern (112 bp):
ATCAAGAAACCCCTAAAATTAGGCTTAGCTTCTTTCAAAAAATCATTTAAAAACATCAAGAAACC
CCTGAAAACCAGGCTTAATTTCTAAAAATATTTCCTTTTCAATTGTC
Found at i:687038 original size:42 final size:42
Alignment explanation
Indices: 686963--687105 Score: 191
Period size: 42 Copynumber: 3.4 Consensus size: 42
686953 AGGTCTTATG
* * * *
686963 GATGGCCCAAAGGAGTT-ATCATCTTGCTCGAAAGACTTA-T
1 GATGGCCCGAAGGACTTAAACATCATGCTCGAAAGACTTACT
* *
687003 AGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACT
1 -GATGGCCCGAAGGACTTAAACATCATGCTCGAAAGACTTACT
**
687046 GATGGCCCGAAGGACTTACTCATCATGCTCGAAAGACTTACT
1 GATGGCCCGAAGGACTTAAACATCATGCTCGAAAGACTTACT
687088 GATGGCCCGAAGGACTTA
1 GATGGCCCGAAGGACTTA
687106 TGATGATTCG
Statistics
Matches: 91, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
41 14 0.15
42 76 0.84
43 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.24
Consensus pattern (42 bp):
GATGGCCCGAAGGACTTAAACATCATGCTCGAAAGACTTACT
Found at i:687061 original size:20 final size:20
Alignment explanation
Indices: 687033--687110 Score: 86
Period size: 20 Copynumber: 3.9 Consensus size: 20
687023 ACATCATGCT
687033 CGAAAGACTTACTGATGGCC
1 CGAAAGACTTACTGATGGCC
* * * *
687053 CGAAGGACTTACTCATCATGCT
1 CGAAAGACTTACTGAT--GGCC
687075 CGAAAGACTTACTGATGGCC
1 CGAAAGACTTACTGATGGCC
*
687095 CGAAGGACTTA-TGATG
1 CGAAAGACTTACTGATG
687111 ATTCGAACTG
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
19 5 0.11
20 26 0.55
22 16 0.34
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.23
Consensus pattern (20 bp):
CGAAAGACTTACTGATGGCC
Found at i:687083 original size:22 final size:22
Alignment explanation
Indices: 687024--687087 Score: 78
Period size: 20 Copynumber: 3.0 Consensus size: 22
687014 AGGATTTAAA
687024 CATCATGCTCGAAAGACTTACT
1 CATCATGCTCGAAAGACTTACT
* * * *
687046 GAT--GGCCCGAAGGACTTACT
1 CATCATGCTCGAAAGACTTACT
687066 CATCATGCTCGAAAGACTTACT
1 CATCATGCTCGAAAGACTTACT
687088 GATGGCCCGA
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
20 16 0.50
22 16 0.50
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.25
Consensus pattern (22 bp):
CATCATGCTCGAAAGACTTACT
Found at i:687293 original size:20 final size:20
Alignment explanation
Indices: 687263--687356 Score: 82
Period size: 20 Copynumber: 4.6 Consensus size: 20
687253 CATCATGCTC
*
687263 GAAAGAATTACTGATGGCCT
1 GAAAGACTTACTGATGGCCT
* ** *
687283 GAAAAACTTACAAATGGCTT
1 GAAAGACTTACTGATGGCCT
* * *
687303 GAAGGACTTACACATCAT-GCTT
1 GAAAGACTT--AC-TGATGGCCT
687325 GAAAGACTTACTGATGGCCT
1 GAAAGACTTACTGATGGCCT
687345 GAAAGACTTACT
1 GAAAGACTTACT
687357 CATTAAGAAA
Statistics
Matches: 58, Mismatches: 12, Indels: 8
0.74 0.15 0.10
Matches are distributed among these distances:
19 3 0.05
20 39 0.67
22 14 0.24
23 2 0.03
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (20 bp):
GAAAGACTTACTGATGGCCT
Found at i:687567 original size:53 final size:53
Alignment explanation
Indices: 687404--687646 Score: 269
Period size: 52 Copynumber: 4.5 Consensus size: 53
687394 GTTGTCAAGG
* *
687404 AACCCCTAAAAAGT-AGGCTTAGTTTCCTTTTAAAAACTCA-TTGAAAATCATCATCAAGA
1 AACCCCTGAAAA-TCAGGCTTAGTTT-C-TTT-AAAATTCATTTGAAAA-CAT--T-AAGA
*
687463 AACCCCTGAAAATCAGGCTTAGTTTC-TAAAAATTCATTTGAAAACATTAAGA
1 AACCCCTGAAAATCAGGCTTAGTTTCTTTAAAATTCATTTGAAAACATTAAGA
* * * * *
687515 AATCCCTAAAAATTAGGCTTAATTTCTTTGAAATTCATTTGAAAACATTAAGA
1 AACCCCTGAAAATCAGGCTTAGTTTCTTTAAAATTCATTTGAAAACATTAAGA
* * * * *
687568 AACCCCT-AAAATTAGGCTTAGCTTATTTCAAATTCATTTGAAAACATCAAGA
1 AACCCCTGAAAATCAGGCTTAGTTTCTTTAAAATTCATTTGAAAACATTAAGA
687620 AACCCCTGAAAATCAGGCTTAGTTTCT
1 AACCCCTGAAAATCAGGCTTAGTTTCT
687647 AAAAATCTTT
Statistics
Matches: 162, Mismatches: 18, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
52 73 0.45
53 47 0.29
55 10 0.06
56 8 0.05
58 2 0.01
59 22 0.14
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.31
Consensus pattern (53 bp):
AACCCCTGAAAATCAGGCTTAGTTTCTTTAAAATTCATTTGAAAACATTAAGA
Found at i:688034 original size:37 final size:37
Alignment explanation
Indices: 687987--688166 Score: 137
Period size: 37 Copynumber: 5.1 Consensus size: 37
687977 GTTCCGAAGG
* *
687987 AAAATATCTCAAGTGAGATGAAATTTGTTTTAAAAGA
1 AAAATGTCTCAAGTGAGACGAAATTTGTTTTAAAAGA
* *
688024 AAAATGTCTCAAGTGAGACAAAATTTGTTTT-TAAGA
1 AAAATGTCTCAAGTGAGACGAAATTTGTTTTAAAAGA
* ** ** *
688060 AAAA-----CAACT---TTGAAATTTGTGTTTTGAAGG
1 AAAATGTCTCAAGTGAGACGAAATTTGT-TTTAAAAGA
* * * *
688090 AAAATATCTCAAGTAAGATGAAATTTGTTTTAAGAGA
1 AAAATGTCTCAAGTGAGACGAAATTTGTTTTAAAAGA
* *
688127 AAAATGTCTCAAGTGAGACAAAATTTGTTTT-TAAGA
1 AAAATGTCTCAAGTGAGACGAAATTTGTTTTAAAAGA
688163 AAAA
1 AAAA
688167 CAATTTTGAA
Statistics
Matches: 111, Mismatches: 22, Indels: 21
0.72 0.14 0.14
Matches are distributed among these distances:
28 8 0.07
29 3 0.03
30 7 0.06
31 4 0.04
35 4 0.04
36 15 0.14
37 60 0.54
38 10 0.09
ACGTcount: A:0.44, C:0.07, G:0.17, T:0.33
Consensus pattern (37 bp):
AAAATGTCTCAAGTGAGACGAAATTTGTTTTAAAAGA
Found at i:688089 original size:103 final size:103
Alignment explanation
Indices: 687894--688268 Score: 513
Period size: 103 Copynumber: 3.7 Consensus size: 103
687884 GGAGAATGTA
** * * * * * * * *
687894 TCAAGTGAGACGATGTTTGTTTTGAGAG-AAATTGTCTCACGCGAGACAAAATTTG-GTACAAGT
1 TCAAGTGAGACGAAATTTGTTTTAAAAGAAAAATGTCTCAAGTGAGACAAAATTTGTTTTCAAGA
*
687957 AAAAGAACTTTGAAATTTGTGTTCCGAAGGAAAATATC
66 AAAACAACTTTGAAATTTGTGTTCCGAAGGAAAATATC
* *
687995 TCAAGTGAGATGAAATTTGTTTTAAAAGAAAAATGTCTCAAGTGAGACAAAATTTGTTTTTAAGA
1 TCAAGTGAGACGAAATTTGTTTTAAAAGAAAAATGTCTCAAGTGAGACAAAATTTGTTTTCAAGA
**
688060 AAAACAACTTTGAAATTTGTGTTTTGAAGGAAAATATC
66 AAAACAACTTTGAAATTTGTGTTCCGAAGGAAAATATC
* * * *
688098 TCAAGTAAGATGAAATTTGTTTTAAGAGAAAAATGTCTCAAGTGAGACAAAATTTGTTTTTAAGA
1 TCAAGTGAGACGAAATTTGTTTTAAAAGAAAAATGTCTCAAGTGAGACAAAATTTGTTTTCAAGA
* * *
688163 AAAACAATTTTGAAATTTATGTTCCGAAGGAAAATGTC
66 AAAACAACTTTGAAATTTGTGTTCCGAAGGAAAATATC
*
688201 TCAAGTGAGACGAAATTTGTTTTAAGAA-AAAAATGTCTCAAGAGAGACAAAATTTGTTTTCAAG
1 TCAAGTGAGACGAAATTTGTTTTAA-AAGAAAAATGTCTCAAGTGAGACAAAATTTGTTTTCAAG
688265 AAAA
65 AAAA
688269 CAATGTCTCT
Statistics
Matches: 244, Mismatches: 27, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
101 23 0.09
102 24 0.10
103 196 0.80
104 1 0.00
ACGTcount: A:0.41, C:0.09, G:0.19, T:0.31
Consensus pattern (103 bp):
TCAAGTGAGACGAAATTTGTTTTAAAAGAAAAATGTCTCAAGTGAGACAAAATTTGTTTTCAAGA
AAAACAACTTTGAAATTTGTGTTCCGAAGGAAAATATC
Found at i:688114 original size:66 final size:66
Alignment explanation
Indices: 688005--688130 Score: 164
Period size: 66 Copynumber: 1.9 Consensus size: 66
687995 TCAAGTGAGA
* * *
688005 TGAAATTTGTTTTAAAAGAAAAATGTCTCAAGTGAGACAAAATTTGTTTTTA-AGAAAAACAACT
1 TGAAATTTGTTTTAAAAGAAAAATATCTCAAGTAAGACAAAATTTGTTTTAAGAGAAAAACAACT
688069 T
66 T
** * **
688070 TGAAATTTGTGTTTTGAAGGAAAATATCTCAAGTAAGATGAAATTTGTTTTAAGAGAAAAA
1 TGAAATTTGT-TTTAAAAGAAAAATATCTCAAGTAAGACAAAATTTGTTTTAAGAGAAAAA
688131 TGTCTCAAGT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
65 10 0.20
66 34 0.67
67 7 0.14
ACGTcount: A:0.44, C:0.06, G:0.17, T:0.34
Consensus pattern (66 bp):
TGAAATTTGTTTTAAAAGAAAAATATCTCAAGTAAGACAAAATTTGTTTTAAGAGAAAAACAACT
T
Found at i:688177 original size:65 final size:65
Alignment explanation
Indices: 688108--688231 Score: 178
Period size: 66 Copynumber: 1.9 Consensus size: 65
688098 TCAAGTAAGA
* *
688108 TGAAATTTGTTTTAAG-AGAAAAATGTCTCAAGTGAGACAAAATTTGTTTTTAAGAAAAACAATT
1 TGAAATTTATGTTAAGAAGAAAAATGTCTCAAGTGAGACAAAATTTG-TTTTAAGAAAAACAATT
688172 T
65 T
** * *
688173 TGAAATTTATGTTCCGAAGGAAAATGTCTCAAGTGAGACGAAATTTGTTTTAAGAAAAA
1 TGAAATTTATGTTAAGAAGAAAAATGTCTCAAGTGAGACAAAATTTGTTTTAAGAAAAA
688232 AATGTCTCAA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
65 24 0.46
66 28 0.54
ACGTcount: A:0.42, C:0.07, G:0.18, T:0.33
Consensus pattern (65 bp):
TGAAATTTATGTTAAGAAGAAAAATGTCTCAAGTGAGACAAAATTTGTTTTAAGAAAAACAATTT
Found at i:688236 original size:37 final size:38
Alignment explanation
Indices: 688193--688277 Score: 136
Period size: 37 Copynumber: 2.3 Consensus size: 38
688183 GTTCCGAAGG
* *
688193 AAAATGTCTCAAGTGAGACGAAATTTGTTTT-AAGAAA
1 AAAATGTCTCAAGAGAGACAAAATTTGTTTTCAAGAAA
688230 AAAATGTCTCAAGAGAGACAAAATTTGTTTTCAAGAAA
1 AAAATGTCTCAAGAGAGACAAAATTTGTTTTCAAGAAA
*
688268 ACAATGTCTC
1 AAAATGTCTC
688278 TAACGAGACA
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
37 29 0.66
38 15 0.34
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.28
Consensus pattern (38 bp):
AAAATGTCTCAAGAGAGACAAAATTTGTTTTCAAGAAA
Found at i:692772 original size:41 final size:41
Alignment explanation
Indices: 692725--692806 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
692715 TGAGACATTT
*
692725 AAAGAAAAATAAATAAATACACATATGAATTAAAAAAACAA
1 AAAGAAAAATAAATAAATACACATATGAATAAAAAAAACAA
692766 AAAGAAAAATAAATAAATACACATATGAATAAAAAAAACAA
1 AAAGAAAAATAAATAAATACACATATGAATAAAAAAAACAA
692807 TTTTAAGGTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.72, C:0.07, G:0.05, T:0.16
Consensus pattern (41 bp):
AAAGAAAAATAAATAAATACACATATGAATAAAAAAAACAA
Found at i:692796 original size:20 final size:20
Alignment explanation
Indices: 692732--692798 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
692722 TTTAAAGAAA
692732 AATAAATAAATACACATATG
1 AATAAATAAATACACATATG
* * * * * **
692752 AATTAAAAAAACAAAAAGAAA
1 AA-TAAATAAATACACATATG
692773 AATAAATAAATACACATATG
1 AATAAATAAATACACATATG
692793 AATAAA
1 AATAAA
692799 AAAAACAATT
Statistics
Matches: 32, Mismatches: 14, Indels: 2
0.67 0.29 0.04
Matches are distributed among these distances:
20 19 0.59
21 13 0.41
ACGTcount: A:0.69, C:0.07, G:0.04, T:0.19
Consensus pattern (20 bp):
AATAAATAAATACACATATG
Found at i:694327 original size:14 final size:14
Alignment explanation
Indices: 694289--694330 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
694279 TGGGTTGGTT
*
694289 TTTGGGTTTTTGAGG
1 TTTGGG-TTATGAGG
694304 TTTAGGGTTATGAGG
1 TTT-GGGTTATGAGG
694319 TTTGGGTTATGA
1 TTTGGGTTATGA
694331 AAAATGGTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 9 0.36
15 13 0.52
16 3 0.12
ACGTcount: A:0.14, C:0.00, G:0.38, T:0.48
Consensus pattern (14 bp):
TTTGGGTTATGAGG
Found at i:708343 original size:9 final size:11
Alignment explanation
Indices: 708320--708355 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
708310 GGGTTCAAAT
708320 GAGAAATAGGA
1 GAGAAATAGGA
708331 GAGAAATAGGA
1 GAGAAATAGGA
708342 GAGAAATA-GA
1 GAGAAATAGGA
708352 GAGA
1 GAGA
708356 GGGGGAGAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 6 0.24
11 19 0.76
ACGTcount: A:0.56, C:0.00, G:0.36, T:0.08
Consensus pattern (11 bp):
GAGAAATAGGA
Found at i:709601 original size:30 final size:29
Alignment explanation
Indices: 709567--709652 Score: 91
Period size: 34 Copynumber: 2.7 Consensus size: 29
709557 ATAACTTTTT
709567 ATTTTTATATTTTTAAAACAAATCAAAATA
1 ATTTTTATATTTTTAAAACAAAT-AAAATA
*
709597 ATTTTAATATTTATTTTTAAAACCAAATATAATA
1 ATTTT--TA--TATTTTTAAAA-CAAATAAAATA
*
709631 TTTTTTATATTTTTAAATACAA
1 ATTTTTATATTTTTAAA-ACAA
709653 TTTGTGGAAG
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
30 18 0.38
31 1 0.02
32 4 0.08
34 20 0.42
35 5 0.10
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (29 bp):
ATTTTTATATTTTTAAAACAAATAAAATA
Found at i:709617 original size:34 final size:34
Alignment explanation
Indices: 709574--709642 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 34
709564 TTTATTTTTA
709574 TATTTTTAAAA-CAAATCAAAATAATTTTAATATT
1 TATTTTTAAAACCAAAT-AAAATAATTTTAATATT
* * *
709608 TATTTTTAAAACCAAATATAATATTTTTTATATT
1 TATTTTTAAAACCAAATAAAATAATTTTAATATT
709642 T
1 T
709643 TTAAATACAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
34 26 0.84
35 5 0.16
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (34 bp):
TATTTTTAAAACCAAATAAAATAATTTTAATATT
Found at i:710943 original size:6 final size:6
Alignment explanation
Indices: 710930--712242 Score: 2554
Period size: 6 Copynumber: 218.8 Consensus size: 6
710920 TTTATACATA
* * * * * * * *
710930 TGTATC TATATC TATATC TATATC TATATC TATATC TATATC TATATA
1 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
710978 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
1 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
711026 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
1 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
711074 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
1 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
711122 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
1 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
711170 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
1 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
711218 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
1 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
711266 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
1 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
711314 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
1 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
711362 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
1 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
711410 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
1 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
711458 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
1 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
711506 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
1 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
711554 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
1 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
711602 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
1 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
711650 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
1 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
711698 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
1 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
711746 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
1 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
711794 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
1 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
711842 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
1 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
711890 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
1 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
711938 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
1 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
711986 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
1 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
712034 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
1 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
712082 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
1 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
712130 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
1 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
712178 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
1 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
712226 TGTATC TGTATC TGTAT
1 TGTATC TGTATC TGTAT
712243 ATTATATAGT
Statistics
Matches: 1303, Mismatches: 4, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 1303 1.00
ACGTcount: A:0.17, C:0.17, G:0.16, T:0.50
Consensus pattern (6 bp):
TGTATC
Found at i:712317 original size:37 final size:36
Alignment explanation
Indices: 712263--712664 Score: 353
Period size: 37 Copynumber: 10.9 Consensus size: 36
712253 TTGCAAACGG
712263 TTTTTGAAAATACGTATATAATATATAGTTTTTAAAATCA
1 TTTTTGAAAAT---TATATAATATATAGTTTTTAAAA-CA
712303 -TTTTGAAAATGTATATAATATATAGTTTTTAAAACA
1 TTTTTGAAAAT-TATATAATATATAGTTTTTAAAACA
* * *
712339 CTTTTGAAAACTATATAATATATAGTTTTTGAAACA
1 TTTTTGAAAATTATATAATATATAGTTTTTAAAACA
* * *
712375 TTTTAGAAAATATATATAATATATGGTTTTAAAAATCA
1 TTTTTGAAAAT-TATATAATATATAGTTTTTAAAA-CA
*
712413 -TGTTGAAAACTTATATAATATATAGTTTTTGAAAACA
1 TTTTTGAAAA-TTATATAATATATAGTTTTT-AAAACA
712450 TTTTTGAAAACTTATATAATATATAGTTTTTGAAAACA
1 TTTTTGAAAA-TTATATAATATATAGTTTTT-AAAACA
712488 TTTTTGAAAACTTATATATAATATATA-TTTTTAAAACA
1 TTTTTGAAAA--T-TATATAATATATAGTTTTTAAAACA
*
712526 TTTTTG--AA--A-AT--TATATAGTTTTTAAAAACG
1 TTTTTGAAAATTATATAATATATAGTTTTT-AAAACA
* * * ****
712556 TTTTTGAAAATTATATAGTTTTTA--AAAAAAAACA
1 TTTTTGAAAATTATATAATATATAGTTTTTAAAACA
*
712590 TTTTTTGAAAGTTTATAAATAATATATAGTTTTTAAAAAACA
1 -TTTTTGAAA-ATTAT--ATAATATATAGTTTTT--AAAACA
* * *
712632 TTTTTAAAAATT-TATATTATATAGTTTTAAAAA
1 TTTTTGAAAATTATATAATATATAGTTTTTAAAA
712665 AAATACTTTT
Statistics
Matches: 303, Mismatches: 34, Indels: 55
0.77 0.09 0.14
Matches are distributed among these distances:
28 6 0.02
29 5 0.02
30 13 0.04
31 1 0.00
32 2 0.01
34 6 0.02
35 15 0.05
36 40 0.13
37 97 0.32
38 72 0.24
39 17 0.06
40 15 0.05
41 8 0.03
42 6 0.02
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (36 bp):
TTTTTGAAAATTATATAATATATAGTTTTTAAAACA
Found at i:712455 original size:12 final size:12
Alignment explanation
Indices: 712438--712498 Score: 54
Period size: 12 Copynumber: 4.9 Consensus size: 12
712428 TAATATATAG
712438 TTTTTGAAAACA
1 TTTTTGAAAACA
712450 TTTTTGAAAAC-
1 TTTTTGAAAACA
* *
712461 TTATAT-AATATATA
1 TT-TTTGAA-A-ACA
712475 GTTTTTGAAAACA
1 -TTTTTGAAAACA
712488 TTTTTGAAAAC
1 TTTTTGAAAAC
712499 TTATATATAA
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
11 4 0.10
12 25 0.64
13 3 0.08
14 3 0.08
15 4 0.10
ACGTcount: A:0.41, C:0.07, G:0.08, T:0.44
Consensus pattern (12 bp):
TTTTTGAAAACA
Found at i:712466 original size:38 final size:37
Alignment explanation
Indices: 712263--712542 Score: 358
Period size: 37 Copynumber: 7.5 Consensus size: 37
712253 TTGCAAACGG
*
712263 TTTTTGAAAATACGTATATAATATATAGTTTTTAAAATCA
1 TTTTTG-AAA-ACTTATATAATATATAGTTTTTAAAA-CA
712303 -TTTTGAAAA-TGTATATAATATATAGTTTTTAAAACA
1 TTTTTGAAAACT-TATATAATATATAGTTTTTAAAACA
* *
712339 CTTTTGAAAAC-TATATAATATATAGTTTTTGAAACA
1 TTTTTGAAAACTTATATAATATATAGTTTTTAAAACA
* * *
712375 TTTTAGAAAA-TATATATAATATATGGTTTTAAAAATCA
1 TTTTTGAAAACT-TATATAATATATAGTTTTTAAAA-CA
*
712413 -TGTTGAAAACTTATATAATATATAGTTTTTGAAAACA
1 TTTTTGAAAACTTATATAATATATAGTTTTT-AAAACA
712450 TTTTTGAAAACTTATATAATATATAGTTTTTGAAAACA
1 TTTTTGAAAACTTATATAATATATAGTTTTT-AAAACA
712488 TTTTTGAAAACTTATATATAATATATA-TTTTTAAAACA
1 TTTTTGAAAAC-T-TATATAATATATAGTTTTTAAAACA
712526 TTTTTGAAAA-TTATATA
1 TTTTTGAAAACTTATATA
712543 GTTTTTAAAA
Statistics
Matches: 217, Mismatches: 12, Indels: 27
0.85 0.05 0.11
Matches are distributed among these distances:
35 6 0.03
36 35 0.16
37 79 0.36
38 73 0.34
39 11 0.05
40 13 0.06
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (37 bp):
TTTTTGAAAACTTATATAATATATAGTTTTTAAAACA
Found at i:712554 original size:30 final size:30
Alignment explanation
Indices: 712509--712583 Score: 127
Period size: 30 Copynumber: 2.6 Consensus size: 30
712499 TTATATATAA
712509 TATATA-TTTTT-AAAACATTTTTGAAAAT
1 TATATAGTTTTTAAAAACATTTTTGAAAAT
*
712537 TATATAGTTTTTAAAAACGTTTTTGAAAAT
1 TATATAGTTTTTAAAAACATTTTTGAAAAT
712567 TATATAGTTTTTAAAAA
1 TATATAGTTTTTAAAAA
712584 AAAACATTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
28 6 0.14
29 5 0.11
30 33 0.75
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.48
Consensus pattern (30 bp):
TATATAGTTTTTAAAAACATTTTTGAAAAT
Found at i:712688 original size:3 final size:3
Alignment explanation
Indices: 712682--712724 Score: 59
Period size: 3 Copynumber: 13.7 Consensus size: 3
712672 TTTTTTATAT
*
712682 TTA TTA TTA TTA TTA TTA TTA TTTA TTA TTA CTTA TTT TTA TT
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA -TTA TTA TTA TT
712725 TTTTGTTTCA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
3 30 0.83
4 6 0.17
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:712694 original size:9 final size:9
Alignment explanation
Indices: 712682--712724 Score: 59
Period size: 10 Copynumber: 4.6 Consensus size: 9
712672 TTTTTTATAT
712682 TTATTATTA
1 TTATTATTA
712691 TTATTATTA
1 TTATTATTA
712700 TTATTTATTA
1 TTA-TTATTA
*
712710 TTACTTATTT
1 TTA-TTATTA
712720 TTATT
1 TTATT
712725 TTTTGTTTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
9 14 0.45
10 17 0.55
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (9 bp):
TTATTATTA
Found at i:713923 original size:11 final size:11
Alignment explanation
Indices: 713909--713977 Score: 61
Period size: 11 Copynumber: 6.1 Consensus size: 11
713899 TTATTTTGGT
713909 TTTTTATTATA
1 TTTTTATTATA
*
713920 TTTTCATTAT-
1 TTTTTATTATA
*
713930 TCTTTTATTTTA
1 T-TTTTATTATA
*
713942 TTTTTATCTCTA
1 TTTTTAT-TATA
713954 TTTTTTATTATA
1 -TTTTTATTATA
713966 TTATTT-TTATA
1 TT-TTTATTATA
713977 T
1 T
713978 ATATATATTT
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
10 1 0.02
11 30 0.62
12 10 0.21
13 7 0.15
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (11 bp):
TTTTTATTATA
Found at i:713938 original size:22 final size:23
Alignment explanation
Indices: 713908--713967 Score: 70
Period size: 22 Copynumber: 2.6 Consensus size: 23
713898 TTTATTTTGG
713908 TTTTTTATTATATTTTCA-T-TA
1 TTTTTTATTATATTTTCACTCTA
* *
713929 TTCTTTTATTTTATTTTTATCTCTA
1 TT-TTTTATTATATTTTCA-CTCTA
713954 TTTTTTATTATATT
1 TTTTTTATTATATT
713968 ATTTTTATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
21 2 0.06
22 14 0.44
24 12 0.38
25 4 0.12
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (23 bp):
TTTTTTATTATATTTTCACTCTA
Found at i:714096 original size:18 final size:18
Alignment explanation
Indices: 714073--714108 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
714063 TGATTTATTT
*
714073 TTTATTTTTATTTTCTTA
1 TTTATTATTATTTTCTTA
*
714091 TTTATTATTGTTTTCTTA
1 TTTATTATTATTTTCTTA
714109 GGAATTATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.06, G:0.03, T:0.75
Consensus pattern (18 bp):
TTTATTATTATTTTCTTA
Found at i:714149 original size:24 final size:25
Alignment explanation
Indices: 714113--714164 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
714103 TTCTTAGGAA
* *
714113 TTATTTAATATTTATTTAC-CTTTT
1 TTATCTAACATTTATTTACTCTTTT
*
714137 TTATCTAACATTTTTTTACTCTTTT
1 TTATCTAACATTTATTTACTCTTTT
714162 TTA
1 TTA
714165 GAGAAATTCC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 16 0.67
25 8 0.33
ACGTcount: A:0.23, C:0.12, G:0.00, T:0.65
Consensus pattern (25 bp):
TTATCTAACATTTATTTACTCTTTT
Found at i:717941 original size:84 final size:84
Alignment explanation
Indices: 717785--718543 Score: 971
Period size: 84 Copynumber: 9.0 Consensus size: 84
717775 TTAACTATCA
* ** * * * * *
717785 GCAGCATAACTCAAGGGGAGAAGGGTTATCTGTCAGCC-AAGACCTTCGAGTTTGACCACACTCA
1 GCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCA
* *
717849 GCTACAAGGCACACCATTT
66 GCTCCAAGGCACATCATTT
* * *
717868 GTAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTTGACTACGCTCA
1 GCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCA
*
717933 CCTCCAAGGCACATCATTT
66 GCTCCAAGGCACATCATTT
* * * * *
717952 GCAGTATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
1 GCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCA
718017 GCTCCAAGGCACATCATTT
66 GCTCCAAGGCACATCATTT
* * * * * *
718036 ACAGCATAGCTTAAGTCGAAAAGGGCTATCTGCCAACCAAAGACCTTCGATTTTGACTACGCTCA
1 GCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCA
718101 GCTCCAAGGCACATCATTT
66 GCTCCAAGGCACATCATTT
* * * * *
718120 GCACCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
1 GCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCA
* *
718185 GCTCCAAGGCATATTATTT
66 GCTCCAAGGCACATCATTT
** * * * * * *
718204 ATAGCATAGCTTAAGTCAATAAGGGTTATCTGCCAACCAAAGACCTTAGAGTTCGACTATGTTCA
1 GCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCA
*
718269 GCTCCAAGGCACACCATTT
66 GCTCCAAGGCACATCATTT
* * * * *
718288 GCAACATAGCTTAAGTCGAGAAGGGCTATCTTCCAACCAAAGACCTTCGAGTTCGATTACGCTCA
1 GCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCA
*
718353 GCTCCAAGGCACACCATTT
66 GCTCCAAGGCACATCATTT
* * * * * *
718372 ACAACATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAATACCTTCGAGTTTGACTACGCTCA
1 GCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCA
718437 GCTCCAAGGCACATCATTT
66 GCTCCAAGGCACATCATTT
** * * * * *
718456 ATAGCATAACTGAAGGCTAGAAGGGTTATATGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
1 GCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCA
718521 GCTCCAAGGCACATCATTT
66 GCTCCAAGGCACATCATTT
718540 GCAG
1 GCAG
718544 TGCACATCAT
Statistics
Matches: 585, Mismatches: 90, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
83 31 0.05
84 554 0.95
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.23
Consensus pattern (84 bp):
GCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCA
GCTCCAAGGCACATCATTT
Found at i:718067 original size:168 final size:168
Alignment explanation
Indices: 717785--718539 Score: 1091
Period size: 168 Copynumber: 4.5 Consensus size: 168
717775 TTAACTATCA
** * * * * * *
717785 GCAGCATAACTCAAGGGGAGAAGGGTTATCTGTCAGC-CAAGACCTTCGAGTTTGACCACACTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
* * ** * *
717849 GCTACAAGGCACACCATTTGTAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCT
66 GCTCCAAGGCACATCATTTACAGCATAGCTTAAGTCGAAAAGGGCTATCTGCCAACCAAAGACCT
*
717914 TCGAGTTTGACTACGCTCACCTCCAAGGCACATCATTT
131 TCGAGTTTGACTACGCTCAGCTCCAAGGCACATCATTT
*
717952 GCAGTATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
718017 GCTCCAAGGCACATCATTTACAGCATAGCTTAAGTCGAAAAGGGCTATCTGCCAACCAAAGACCT
66 GCTCCAAGGCACATCATTTACAGCATAGCTTAAGTCGAAAAGGGCTATCTGCCAACCAAAGACCT
*
718082 TCGATTTTGACTACGCTCAGCTCCAAGGCACATCATTT
131 TCGAGTTTGACTACGCTCAGCTCCAAGGCACATCATTT
*
718120 GCACCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
* * * *
718185 GCTCCAAGGCATATTATTTATAGCATAGCTTAAGTC-AATAAGGGTTATCTGCCAACCAAAGACC
66 GCTCCAAGGCACATCATTTACAGCATAGCTTAAGTCGAA-AAGGGCTATCTGCCAACCAAAGACC
* * * * *
718249 TTAGAGTTCGACTATGTTCAGCTCCAAGGCACACCATTT
130 TTCGAGTTTGACTACGCTCAGCTCCAAGGCACATCATTT
* * * * * * * * *
718288 GCAACATAGCTTAAGTCGAGAAGGGCTATCTTCCAACCAAAGACCTTCGAGTTCGATTACGCTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
* * * *
718353 GCTCCAAGGCACACCATTTACAACATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAATACCT
66 GCTCCAAGGCACATCATTTACAGCATAGCTTAAGTCGAAAAGGGCTATCTGCCAACCAAAGACCT
718418 TCGAGTTTGACTACGCTCAGCTCCAAGGCACATCATTT
131 TCGAGTTTGACTACGCTCAGCTCCAAGGCACATCATTT
** * *
718456 ATAGCATAACTGAAGGCTAGAAGGGTTATATGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
718521 GCTCCAAGGCACATCATTT
66 GCTCCAAGGCACATCATTT
718540 GCAGTGCACA
Statistics
Matches: 521, Mismatches: 64, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
167 34 0.07
168 486 0.93
169 1 0.00
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.23
Consensus pattern (168 bp):
GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
GCTCCAAGGCACATCATTTACAGCATAGCTTAAGTCGAAAAGGGCTATCTGCCAACCAAAGACCT
TCGAGTTTGACTACGCTCAGCTCCAAGGCACATCATTT
Found at i:718541 original size:252 final size:252
Alignment explanation
Indices: 717802--718542 Score: 1072
Period size: 252 Copynumber: 2.9 Consensus size: 252
717792 AACTCAAGGG
* * * * *
717802 GAGAAGGGTTATCTGT-CAGCC-AAGACCTTCGAGTTTGACCACACTCAGCTACAAGGCACACCA
1 GAGAAGGGCTATCT-TCCAACCAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCACACCA
* *
717865 TTTGTAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTTGACTACGC
65 TTTGCAACATAACTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTTGACTACGC
* ** *
717930 TCACCTCCAAGGCACATCATTTGCAGTATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGA
130 TCAGCTCCAAGGCACATCATTTATAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGA
* *
717995 CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAGCTTAAGTC
195 CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAACATAGCTTAAGTC
* * * *
718053 GAAAAGGGCTATCTGCCAACCAAAGACCTTCGATTTTGACTACGCTCAGCTCCAAGGCACATCAT
1 GAGAAGGGCTATCTTCCAACCAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCACACCAT
* * * * * * *
718118 TTGCACCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCT
66 TTGCAACATAACTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTTGACTACGCT
* * * * * * * *
718183 CAGCTCCAAGGCATATTATTTATAGCATAGCTTAAGTCAATAAGGGTTATCTGCCAACCAAAGAC
131 CAGCTCCAAGGCACATCATTTATAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGAC
* * * *
718248 CTTAGAGTTCGACTATGTTCAGCTCCAAGGCACACCATTTGCAACATAGCTTAAGTC
196 CTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAACATAGCTTAAGTC
* *
718305 GAGAAGGGCTATCTTCCAACCAAAGACCTTCGAGTTCGATTACGCTCAGCTCCAAGGCACACCAT
1 GAGAAGGGCTATCTTCCAACCAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCACACCAT
* * *
718370 TTACAACATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAATACCTTCGAGTTTGACTACGCT
66 TTGCAACATAACTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTTGACTACGCT
* *
718435 CAGCTCCAAGGCACATCATTTATAGCATAACTGAAGGCTAGAAGGGTTATATGCCAACAAAAGAC
131 CAGCTCCAAGGCACATCATTTATAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGAC
718500 CTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCA
196 CTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCA
718543 GTGCACATCA
Statistics
Matches: 424, Mismatches: 64, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
251 16 0.04
252 408 0.96
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.23
Consensus pattern (252 bp):
GAGAAGGGCTATCTTCCAACCAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCACACCAT
TTGCAACATAACTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTTGACTACGCT
CAGCTCCAAGGCACATCATTTATAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGAC
CTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAACATAGCTTAAGTC
Found at i:718882 original size:19 final size:19
Alignment explanation
Indices: 718858--718897 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
718848 AATAAATTTA
718858 ATTTAAATAAAAAATATAT
1 ATTTAAATAAAAAATATAT
* * *
718877 ATTTAATTTAAATATATAT
1 ATTTAAATAAAAAATATAT
718896 AT
1 AT
718898 ACCCGGCCCG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTTAAATAAAAAATATAT
Found at i:718941 original size:12 final size:12
Alignment explanation
Indices: 718924--718961 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
718914 AGCCCAATAT
718924 CGACCCAATACC
1 CGACCCAATACC
718936 CGACCCAATACC
1 CGACCCAATACC
* *
718948 TGGCCCAATACC
1 CGACCCAATACC
718960 CG
1 CG
718962 TTTAAATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.29, C:0.47, G:0.13, T:0.11
Consensus pattern (12 bp):
CGACCCAATACC
Found at i:718942 original size:23 final size:24
Alignment explanation
Indices: 718916--718961 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
718906 CGATTCCTAG
*
718916 CCCAATATC-GACCCAATACCCGA
1 CCCAATACCTGACCCAATACCCGA
*
718939 CCCAATACCTGGCCCAATACCCG
1 CCCAATACCTGACCCAATACCCG
718962 TTTAAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.30, C:0.46, G:0.11, T:0.13
Consensus pattern (24 bp):
CCCAATACCTGACCCAATACCCGA
Found at i:719287 original size:85 final size:83
Alignment explanation
Indices: 719144--719445 Score: 290
Period size: 85 Copynumber: 3.6 Consensus size: 83
719134 TTCCATCCCT
* * * *
719144 AAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGTAGCATAACTTAAGTCGAGAAGGGTTAT
1 AAGTTCGACTACGCTCAGCTCCAAGGAACATCATTTATAGCATAACTCAAGGCGAGAAGGGTTAT
719209 CTGTCAACCAAAGACCTTC
66 CTGTCAA-CAAAGACCTTC
* * * * *
719228 AAGTTCGATTACACTCAGCTTCGAGGGAACATCATTTATAGCATAACTCAAGGCTAGAAGGGTTA
1 AAGTTCGACTACGCTCAGC-TCCAAGGAACATCATTTATAGCATAACTCAAGGCGAGAAGGGTTA
*
719293 TCTGTCAACAAAGACCTTT
65 TCTGTCAACAAAGACCTTC
* * * ** * * * * *
719312 GAGTTCGACTACGCTCAACT-CAACGACACATCATTTGCAGTATAACTTAAGGCAAGAAGAGCTA
1 AAGTTCGACTACGCTCAGCTCCAAGGA-ACATCATTTATAGCATAACTCAAGGCGAGAAGGGTTA
719376 TCTG-C--CAAAGACCTTC
65 TCTGTCAACAAAGACCTTC
* * * * *
719392 GAGTTCGACTATGCTTAGCT-CAAGGACACATCAAATTTATATCATAGCTCAAGG
1 AAGTTCGACTACGCTCAGCTCCAAGGA-ACATC--ATTTATAGCATAACTCAAGG
719446 AAAGAAGGCT
Statistics
Matches: 179, Mismatches: 35, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
80 38 0.21
82 18 0.10
83 35 0.20
84 42 0.23
85 46 0.26
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (83 bp):
AAGTTCGACTACGCTCAGCTCCAAGGAACATCATTTATAGCATAACTCAAGGCGAGAAGGGTTAT
CTGTCAACAAAGACCTTC
Found at i:719420 original size:80 final size:81
Alignment explanation
Indices: 719145--719424 Score: 296
Period size: 84 Copynumber: 3.4 Consensus size: 81
719135 TCCATCCCTA
* *
719145 AGTTCGACTACGCTCAGCTCCAAGG-CACATCATTTGTAGCATAACTTAAGTCGAGAAGGGTTAT
1 AGTTCGACTACGCTCAGCT-CAAGGACACATCATTTGTAGCATAACTTAAGGCAAGAAGGGTTAT
*
719209 CTGTCAACCAAAGACCTTCA
65 CTG---ACCAAAGACCTTCG
* * * * * *
719229 AGTTCGATTACACTCAGCTTCGAGGGA-ACATCATTTATAGCATAACTCAAGGCTAGAAGGGTTA
1 AGTTCGACTACGCTCAGC-TC-AAGGACACATCATTTGTAGCATAACTTAAGGCAAGAAGGGTTA
* *
719293 TCTGTCAACAAAGACCTTTG
64 TCTG--ACCAAAGACCTTCG
* * * * * *
719313 AGTTCGACTACGCTCAACTCAACGACACATCATTTGCAGTATAACTTAAGGCAAGAAGAGCTATC
1 AGTTCGACTACGCTCAGCTCAAGGACACATCATTTGTAGCATAACTTAAGGCAAGAAGGGTTATC
719378 TG-CCAAAGACCTTCG
66 TGACCAAAGACCTTCG
* *
719393 AGTTCGACTATGCTTAGCTCAAGGACACATCA
1 AGTTCGACTACGCTCAGCTCAAGGACACATCA
719425 AATTTATATC
Statistics
Matches: 162, Mismatches: 30, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
80 39 0.24
82 3 0.02
83 36 0.22
84 43 0.27
85 41 0.25
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (81 bp):
AGTTCGACTACGCTCAGCTCAAGGACACATCATTTGTAGCATAACTTAAGGCAAGAAGGGTTATC
TGACCAAAGACCTTCG
Found at i:721255 original size:2 final size:2
Alignment explanation
Indices: 721250--721284 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
721240 ACACACACAC
721250 AT AT AT AT 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 AT AT AT AT A
721285 ACTGAAAATA
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:724408 original size:23 final size:23
Alignment explanation
Indices: 724378--724427 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
724368 ACCCAGACTT
724378 TATATTGCTTCTTTAAGGGATGG
1 TATATTGCTTCTTTAAGGGATGG
724401 TATATTGCTTCTTTAAGGGATGG
1 TATATTGCTTCTTTAAGGGATGG
724424 TATA
1 TATA
724428 CAAGGACTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.24, C:0.08, G:0.24, T:0.44
Consensus pattern (23 bp):
TATATTGCTTCTTTAAGGGATGG
Found at i:730170 original size:22 final size:22
Alignment explanation
Indices: 730135--730207 Score: 105
Period size: 23 Copynumber: 3.3 Consensus size: 22
730125 CACCGAAGTT
730135 CCACATA-TTTGTCCC-AAGGA
1 CCACATAGTTTGTCCCAAAGGA
730155 CCACATAGGTTTGTCCCAAAGGA
1 CCACATA-GTTTGTCCCAAAGGA
*
730178 CCACATAGATTTGTCCCGAAGGA
1 CCACATAG-TTTGTCCCAAAGGA
730201 CCACATA
1 CCACATA
730208 TGACCCTCGA
Statistics
Matches: 48, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
20 7 0.15
22 9 0.19
23 32 0.67
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.22
Consensus pattern (22 bp):
CCACATAGTTTGTCCCAAAGGA
Found at i:732789 original size:22 final size:22
Alignment explanation
Indices: 732744--732794 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
732734 CTACGGCGAC
* * *
732744 ATCCGTCCCCATCTCTGGCAAA
1 ATCCATCCCCATCTCCGACAAA
*
732766 ATCCATCCCCATCTCCGACGAA
1 ATCCATCCCCATCTCCGACAAA
732788 ATCCATC
1 ATCCATC
732795 TATCTCAATC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.25, C:0.43, G:0.10, T:0.22
Consensus pattern (22 bp):
ATCCATCCCCATCTCCGACAAA
Found at i:734615 original size:42 final size:42
Alignment explanation
Indices: 734523--734621 Score: 126
Period size: 42 Copynumber: 2.4 Consensus size: 42
734513 ACCCCCACTT
* * ** * *
734523 CGAGAGCCATCACCTGATCTAGCCGATTCTACTGCTCGACAC
1 CGAGAGCCATCACCTGATCGAGCCGATTATACACCTCCACAA
* *
734565 CCATAGCCATCACCTGATCGAGCCGATTATACACCTCCACAA
1 CGAGAGCCATCACCTGATCGAGCCGATTATACACCTCCACAA
734607 CGAGAGCCATCACCT
1 CGAGAGCCATCACCT
734622 ATTCCATCAC
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.27, C:0.37, G:0.16, T:0.19
Consensus pattern (42 bp):
CGAGAGCCATCACCTGATCGAGCCGATTATACACCTCCACAA
Found at i:734784 original size:21 final size:21
Alignment explanation
Indices: 734736--734785 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
734726 GTTAGGGGAG
* *
734736 TTACGTGATGAGGTTAGTGCT
1 TTACGTGATGAGGTTAGTACA
*
734757 TTGCGTGATGAGG-TAGGTACA
1 TTACGTGATGAGGTTA-GTACA
734778 TTACGTGA
1 TTACGTGA
734786 CGACAATGGT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 2 0.08
21 22 0.92
ACGTcount: A:0.22, C:0.10, G:0.34, T:0.34
Consensus pattern (21 bp):
TTACGTGATGAGGTTAGTACA
Found at i:735221 original size:21 final size:20
Alignment explanation
Indices: 735194--735332 Score: 134
Period size: 21 Copynumber: 6.7 Consensus size: 20
735184 ATTCATTTGT
735194 CATCGTTCAAGAGGTCCCTCC
1 CATCGTTCAAGAGG-CCCTCC
* * *
735215 TATCGTTCAAGAGGCCATTCT
1 CATCGTTCAAGAGGCC-CTCC
735236 CATCGTTCAAGAGGCACCTCC
1 CATCGTTCAAGAGGC-CCTCC
* *
735257 CACCATTCAAGAGGCCCCTCC
1 CATCGTTCAAGAGG-CCCTCC
* * **
735278 CACCATTCAAGAGGCCCCTGT
1 CATCGTTCAAGAGG-CCCTCC
*
735299 CATCATTCAAGAGGTCCCTCC
1 CATCGTTCAAGAGG-CCCTCC
735320 CATCGTTCAAGAG
1 CATCGTTCAAGAG
735333 CCCGATTCAC
Statistics
Matches: 100, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
20 2 0.02
21 96 0.96
22 2 0.02
ACGTcount: A:0.24, C:0.36, G:0.18, T:0.22
Consensus pattern (20 bp):
CATCGTTCAAGAGGCCCTCC
Found at i:735302 original size:63 final size:63
Alignment explanation
Indices: 735199--735332 Score: 162
Period size: 63 Copynumber: 2.1 Consensus size: 63
735189 TTTGTCATCG
* * * * * *
735199 TTCAAGAGGTCCCTCCTATCGTTCAAGAGGCCATTCTCATCGTTCAAGAGG-CACCTCCCACCA
1 TTCAAGAGGCCCCTCCCACCATTCAAGAGGCCACTCTCATCATTCAAGAGGTC-CCTCCCACCA
* * * *
735262 TTCAAGAGGCCCCTCCCACCATTCAAGAGGCCCCTGTCATCATTCAAGAGGTCCCTCCCATCG
1 TTCAAGAGGCCCCTCCCACCATTCAAGAGGCCACTCTCATCATTCAAGAGGTCCCTCCCACCA
735325 TTCAAGAG
1 TTCAAGAG
735333 CCCGATTCAC
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
63 59 0.98
64 1 0.02
ACGTcount: A:0.24, C:0.36, G:0.18, T:0.22
Consensus pattern (63 bp):
TTCAAGAGGCCCCTCCCACCATTCAAGAGGCCACTCTCATCATTCAAGAGGTCCCTCCCACCA
Found at i:736908 original size:29 final size:29
Alignment explanation
Indices: 736884--736939 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
736874 TTTCGCATTT
736884 CGAATTTGACTTTCGCAACAATCGCAATG
1 CGAATTTGACTTTCGCAACAATCGCAATG
736913 CGAATTTGACTTTCGCAACAATCGCAA
1 CGAATTTGACTTTCGCAACAATCGCAA
736940 CAAAAAATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (29 bp):
CGAATTTGACTTTCGCAACAATCGCAATG
Found at i:739522 original size:24 final size:24
Alignment explanation
Indices: 739455--739514 Score: 93
Period size: 24 Copynumber: 2.5 Consensus size: 24
739445 CTGAAACATC
739455 ATCAAAATTCGAGTATTGACCAAG
1 ATCAAAATTCGAGTATTGACCAAG
* *
739479 ATCAAAGTCCGAGTATTGACCAAG
1 ATCAAAATTCGAGTATTGACCAAG
*
739503 ATCAAATTTCGA
1 ATCAAAATTCGA
739515 ATACTGACTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.25
Consensus pattern (24 bp):
ATCAAAATTCGAGTATTGACCAAG
Found at i:740504 original size:20 final size:20
Alignment explanation
Indices: 740468--740558 Score: 69
Period size: 20 Copynumber: 4.5 Consensus size: 20
740458 TTAAATTCGT
*
740468 GTTGCGAATTC-GAAAATTGA
1 GTTGCGAATTCAG-AAATCGA
740488 GTTGCGAATTCAGAAATCGA
1 GTTGCGAATTCAGAAATCGA
* * * *
740508 ATTACGAATTTA-AAATTCAGT
1 GTTGCGAATTCAGAAA-TC-GA
** *
740529 GTTGCGAATTTGGAAATCGC
1 GTTGCGAATTCAGAAATCGA
740549 GTTGCGAATT
1 GTTGCGAATT
740559 TGGAAACTGT
Statistics
Matches: 58, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
19 3 0.05
20 39 0.67
21 13 0.22
22 3 0.05
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.32
Consensus pattern (20 bp):
GTTGCGAATTCAGAAATCGA
Found at i:740557 original size:41 final size:40
Alignment explanation
Indices: 740468--740600 Score: 115
Period size: 40 Copynumber: 3.3 Consensus size: 40
740458 TTAAATTCGT
* ** * ** *
740468 GTTGCGAATTCGAAAATTGAGTTGCGAATTCAGAAATCGA
1 GTTGCGAATTTGAAAACAGTGTTGCGAATTTGGAAATCGC
* *
740508 ATTACGAATTT-AAAATTCAGTGTTGCGAATTTGGAAATCGC
1 GTTGCGAATTTGAAAA--CAGTGTTGCGAATTTGGAAATCGC
* * * **
740549 GTTGCGAATTTGGAAACTGTGTTGCGAAATTGGAGTTCGC
1 GTTGCGAATTTGAAAACAGTGTTGCGAATTTGGAAATCGC
740589 GTTGCGAATTTG
1 GTTGCGAATTTG
740601 TTGGTCATTT
Statistics
Matches: 74, Mismatches: 16, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
39 4 0.05
40 40 0.54
41 27 0.36
42 3 0.04
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.32
Consensus pattern (40 bp):
GTTGCGAATTTGAAAACAGTGTTGCGAATTTGGAAATCGC
Found at i:740559 original size:20 final size:20
Alignment explanation
Indices: 740529--740600 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
740519 AAAATTCAGT
740529 GTTGCGAATTTGGAAATCGC
1 GTTGCGAATTTGGAAATCGC
*
740549 GTTGCGAATTTGGAAA-CTGT
1 GTTGCGAATTTGGAAATC-GC
* **
740569 GTTGCGAAATTGGAGTTCGC
1 GTTGCGAATTTGGAAATCGC
740589 GTTGCGAATTTG
1 GTTGCGAATTTG
740601 TTGGTCATTT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
19 1 0.02
20 42 0.95
21 1 0.02
ACGTcount: A:0.22, C:0.12, G:0.32, T:0.33
Consensus pattern (20 bp):
GTTGCGAATTTGGAAATCGC
Found at i:740964 original size:30 final size:31
Alignment explanation
Indices: 740908--740976 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 31
740898 AACCATTCAT
* *
740908 AACTTTTCCAAAATTACTAAATTGGTCCCCC
1 AACTTTTCAAAAATTACTAAATTGGTCCCCA
740939 AACTTTTCAAAAATTA-TAGAA-TGGTCCCCA
1 AACTTTTCAAAAATTACTA-AATTGGTCCCCA
*
740969 AATTTTTC
1 AACTTTTC
740977 TAAGGCTTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 17 0.50
31 17 0.50
ACGTcount: A:0.35, C:0.23, G:0.07, T:0.35
Consensus pattern (31 bp):
AACTTTTCAAAAATTACTAAATTGGTCCCCA
Found at i:741348 original size:18 final size:18
Alignment explanation
Indices: 741325--741364 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
741315 TTTCATGAAA
741325 CCTATCATGAACATAAAC
1 CCTATCATGAACATAAAC
741343 CCTATCATGAACATAAAC
1 CCTATCATGAACATAAAC
741361 CCTA
1 CCTA
741365 CAATTTGGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.30, G:0.05, T:0.23
Consensus pattern (18 bp):
CCTATCATGAACATAAAC
Found at i:743214 original size:26 final size:25
Alignment explanation
Indices: 743185--743344 Score: 248
Period size: 26 Copynumber: 6.2 Consensus size: 25
743175 ACTGAAGTGC
* *
743185 TACAAATAAGGTCATGCCCACCATAA
1 TACACATAAGGTCGTGCCCACCAT-A
743211 TACACATAAGGTCGTGCCCACCATA
1 TACACATAAGGTCGTGCCCACCATA
*
743236 TTACACATAAGGTCATGCCCACCATA
1 -TACACATAAGGTCGTGCCCACCATA
743262 TTACACATAAGGTCGTGCCCACCATA
1 -TACACATAAGGTCGTGCCCACCATA
743288 TACCACATAAGGTCGTGCCCACCATA
1 TA-CACATAAGGTCGTGCCCACCATA
743314 TACCACATAAGGTCGTGCCCACCATA
1 TA-CACATAAGGTCGTGCCCACCATA
743340 TACAC
1 TACAC
743345 TTAGTGTCCT
Statistics
Matches: 128, Mismatches: 4, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
25 6 0.05
26 122 0.95
ACGTcount: A:0.34, C:0.32, G:0.14, T:0.21
Consensus pattern (25 bp):
TACACATAAGGTCGTGCCCACCATA
Found at i:745231 original size:26 final size:26
Alignment explanation
Indices: 745172--745231 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
745162 AGATTTTCTT
*
745172 GAATTTTCTATTCGATCCGATTTACC
1 GAATTTTTTATTCGATCCGATTTACC
**
745198 GAATTTTTTATTCGATTTGATTTACC
1 GAATTTTTTATTCGATCCGATTTACC
745224 GAATTTTT
1 GAATTTTT
745232 CCTCAACTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.23, C:0.15, G:0.12, T:0.50
Consensus pattern (26 bp):
GAATTTTTTATTCGATCCGATTTACC
Found at i:745376 original size:31 final size:31
Alignment explanation
Indices: 745341--745430 Score: 87
Period size: 31 Copynumber: 3.0 Consensus size: 31
745331 GCCAAAATGT
* *
745341 AACTTTTTTAAAA-TTACCAATTTGGTCTCTA
1 AACTTTTTCAAAATTTA-CAATTTGGTCACTA
* *
745372 AACTTTTTCAAAATTTATACTTTGGTCACTA
1 AACTTTTTCAAAATTTACAATTTGGTCACTA
* **
745403 AAC--TTTAAAAATTTGTAATTTGGTCACT
1 AACTTTTTCAAAATTTACAATTTGGTCACT
745431 CACTAAATCC
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
29 22 0.43
31 26 0.51
32 3 0.06
ACGTcount: A:0.33, C:0.14, G:0.08, T:0.44
Consensus pattern (31 bp):
AACTTTTTCAAAATTTACAATTTGGTCACTA
Found at i:745424 original size:29 final size:30
Alignment explanation
Indices: 745359--745430 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 30
745349 TAAAATTACC
* *
745359 AATTTGGTCTCTAAACTTTTTCAAAATTTAT
1 AATTTGGTCACTAAAC-TTTTAAAAATTTAT
* *
745390 ACTTTGGTCACTAAAC-TTTAAAAATTTGT
1 AATTTGGTCACTAAACTTTTAAAAATTTAT
745419 AATTTGGTCACT
1 AATTTGGTCACT
745431 CACTAAATCC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
29 22 0.61
31 14 0.39
ACGTcount: A:0.32, C:0.14, G:0.10, T:0.44
Consensus pattern (30 bp):
AATTTGGTCACTAAACTTTTAAAAATTTAT
Found at i:751047 original size:11 final size:11
Alignment explanation
Indices: 751033--751058 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
751023 TATATAAATT
751033 AATTATAGTAG
1 AATTATAGTAG
751044 AATTATAGTAG
1 AATTATAGTAG
751055 AATT
1 AATT
751059 CAACTAGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.38
Consensus pattern (11 bp):
AATTATAGTAG
Found at i:758973 original size:91 final size:90
Alignment explanation
Indices: 758862--759027 Score: 228
Period size: 91 Copynumber: 1.8 Consensus size: 90
758852 GGTGCACTAA
* *
758862 GAGTGCATAGATGCATAAAATGCATTCGATGTTTTGAAAAAGCAA-GAGTTCATCGATGCATGG-
1 GAGTGCATAGATGCATAAAATGCATTCGATG-TTTGAAAAAACAATG-GTGCATCGATGCATGGA
758925 TCTTGTGCATCGATGCATCAAATGCACT
64 T-TTGTGCATCGATGCATCAAATGCACT
* * * *
758953 GAGTGCATCGATTCATAAAATGCATTTGATGTTTGAAAAAATAATTGGTGCATCGATGCATGGAT
1 GAGTGCATAGATGCATAAAATGCATTCGATGTTTGAAAAAACAA-TGGTGCATCGATGCATGGAT
759018 TTGTGCATCG
65 TTGTGCATCG
759028 GTGGATCACT
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
90 11 0.17
91 53 0.80
92 2 0.03
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.31
Consensus pattern (90 bp):
GAGTGCATAGATGCATAAAATGCATTCGATGTTTGAAAAAACAATGGTGCATCGATGCATGGATT
TGTGCATCGATGCATCAAATGCACT
Found at i:765652 original size:22 final size:21
Alignment explanation
Indices: 765610--765649 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
765600 GAGTTTATTT
*
765610 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
765631 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
765650 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:767754 original size:91 final size:89
Alignment explanation
Indices: 767592--767757 Score: 212
Period size: 91 Copynumber: 1.8 Consensus size: 89
767582 GGTGCACTAA
* *
767592 GAGTGCATGGATGCATAAAATGCATTCGATGTTTTGAAAAAGCCAGAATGCATCGATGCATGGTC
1 GAGTGCATCGATGCATAAAATACATTCGATGTTTTGAAAAA--CAGAATGCATCGATGCATGGTC
*
767657 TTGTGCATCGATGCATCAAATGCACT
64 TGGTGCATCGATGCATCAAATGCACT
*
767683 GAGTGCATCGATGCATAAAATACATTCGATG-TTTGAAAAA-ATAATTGGTTCATCGATGCATGG
1 GAGTGCATCGATGCATAAAATACATTCGATGTTTTGAAAAACAGAA-T-G--CATCGATGCATGG
767746 AT-TGGTGCATCG
62 -TCTGGTGCATCG
767758 GTGTATCACT
Statistics
Matches: 66, Mismatches: 4, Indels: 10
0.82 0.05 0.12
Matches are distributed among these distances:
87 3 0.05
88 1 0.02
89 1 0.02
90 9 0.14
91 51 0.77
92 1 0.02
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (89 bp):
GAGTGCATCGATGCATAAAATACATTCGATGTTTTGAAAAACAGAATGCATCGATGCATGGTCTG
GTGCATCGATGCATCAAATGCACT
Found at i:770183 original size:13 final size:13
Alignment explanation
Indices: 770127--770193 Score: 55
Period size: 14 Copynumber: 4.9 Consensus size: 13
770117 ATATATATAA
770127 ATAAAATATAAAAT
1 ATAAAA-ATAAAAT
770141 ATAAAAACTAAAA-
1 ATAAAAA-TAAAAT
* *
770154 ATTATAATTAAATAT
1 A-TAAAAATAAA-AT
**
770169 ATGCAAATAAAAT
1 ATAAAAATAAAAT
770182 ATAAAAATAAAA
1 ATAAAAATAAAA
770194 CTAATGGTAT
Statistics
Matches: 42, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
13 18 0.43
14 23 0.55
15 1 0.02
ACGTcount: A:0.69, C:0.03, G:0.01, T:0.27
Consensus pattern (13 bp):
ATAAAAATAAAAT
Found at i:773186 original size:5 final size:5
Alignment explanation
Indices: 773176--773248 Score: 146
Period size: 5 Copynumber: 14.6 Consensus size: 5
773166 ACTATTTCCT
773176 TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA
1 TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA
773226 TATGA TATGA TATGA TATGA TAT
1 TATGA TATGA TATGA TATGA TAT
773249 AATTTAAGGT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 68 1.00
ACGTcount: A:0.40, C:0.00, G:0.19, T:0.41
Consensus pattern (5 bp):
TATGA
Found at i:775298 original size:21 final size:21
Alignment explanation
Indices: 775258--775298 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
775248 AAGTGGAGAG
775258 CTATTTTAGGGAGTATGTTAC
1 CTATTTTAGGGAGTATGTTAC
775279 CTATATTTAGGGAGTA-GTTA
1 CTAT-TTTAGGGAGTATGTTA
775299 GAGCGAATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.27, C:0.07, G:0.24, T:0.41
Consensus pattern (21 bp):
CTATTTTAGGGAGTATGTTAC
Found at i:776985 original size:96 final size:96
Alignment explanation
Indices: 776885--777077 Score: 341
Period size: 96 Copynumber: 2.0 Consensus size: 96
776875 AGTAAGATAG
776885 GCACAAAAGAATGGTATTGTAGTTGATGTAATGATGTTAAGGGCAGGCTAAAAAGATGATAGAGT
1 GCACAAAAGAATGGTATTGTAGTTGATGTAATGATGTTAAGGGCAGGCTAAAAAGATGATAGAGT
*
776950 ATGCAACAAAATGGGTTGCTTTAGGCGTGGT
66 ATGCAACAAAATGGGTTACTTTAGGCGTGGT
* * *
776981 GCACAAAAGAATGGTATTGTAGTTGATGTAATGATTTTAAGGGCGGGCTAAAAAGCTGATAGAGT
1 GCACAAAAGAATGGTATTGTAGTTGATGTAATGATGTTAAGGGCAGGCTAAAAAGATGATAGAGT
*
777046 ATGCAACAAAATGGGTTATTTTAGGCGTGGT
66 ATGCAACAAAATGGGTTACTTTAGGCGTGGT
777077 G
1 G
777078 GTTACAAAAC
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
96 92 1.00
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (96 bp):
GCACAAAAGAATGGTATTGTAGTTGATGTAATGATGTTAAGGGCAGGCTAAAAAGATGATAGAGT
ATGCAACAAAATGGGTTACTTTAGGCGTGGT
Found at i:777119 original size:19 final size:19
Alignment explanation
Indices: 777095--777132 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
777085 AACAATGGAT
777095 GGGCTATGATAATATCTTA
1 GGGCTATGATAATATCTTA
*
777114 GGGCTATGATAGTATCTTA
1 GGGCTATGATAATATCTTA
777133 AGAAAATAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.11, G:0.24, T:0.37
Consensus pattern (19 bp):
GGGCTATGATAATATCTTA
Found at i:779260 original size:15 final size:16
Alignment explanation
Indices: 779233--779262 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
779223 AATCATGTAA
779233 ATGGATATATTTATTT
1 ATGGATATATTTATTT
779249 ATGGAT-TATTTATT
1 ATGGATATATTTATT
779263 ACTTATTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (16 bp):
ATGGATATATTTATTT
Found at i:779328 original size:12 final size:13
Alignment explanation
Indices: 779300--779330 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
779290 TAACATATTG
779300 AAATCATATACTA
1 AAATCATATACTA
779313 AAATCATATA-TA
1 AAATCATATACTA
779325 AAATCA
1 AAATCA
779331 CATTAAAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 8 0.44
13 10 0.56
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (13 bp):
AAATCATATACTA
Found at i:779995 original size:44 final size:43
Alignment explanation
Indices: 779888--779995 Score: 112
Period size: 44 Copynumber: 2.4 Consensus size: 43
779878 GAGACAACGC
* *
779888 TGATTCACCTCTTTTTATGATGAAATCGAGAAAAATGACAGTGT
1 TGATCCACCTC-TTTTGTGATGAAATCGAGAAAAATGACAGTGT
* * *
779932 TGATCCACATTCTTCTGTGATGAAATCGA-ACAAAATGTC-GATGT
1 TGATCCAC-CTCTTTTGTGATGAAATCGAGA-AAAATGACAG-TGT
779976 TGATCCACCTCATTTTGTGA
1 TGATCCACCTC-TTTTGTGA
779996 CGGAGTCAAT
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
43 4 0.08
44 47 0.89
45 2 0.04
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.34
Consensus pattern (43 bp):
TGATCCACCTCTTTTGTGATGAAATCGAGAAAAATGACAGTGT
Found at i:781851 original size:17 final size:17
Alignment explanation
Indices: 781831--781873 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
781821 TAGTTTGTTA
*
781831 AATGAACTAGT-TAAATG
1 AATGAACTAGTGT-AATC
781848 AATGAACTAGTGTAATC
1 AATGAACTAGTGTAATC
781865 AATGAACTA
1 AATGAACTA
781874 ACTTTATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 23 0.96
18 1 0.04
ACGTcount: A:0.47, C:0.09, G:0.16, T:0.28
Consensus pattern (17 bp):
AATGAACTAGTGTAATC
Found at i:781938 original size:34 final size:35
Alignment explanation
Indices: 781865--781942 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 35
781855 TAGTGTAATC
* *
781865 AATGAACTAACTTTATTAAATGGACTAGATGCATG
1 AATGAACTAACTTTATTAAATGGACTAAATGCATA
* * *
781900 AATGAAGTAGCTTT-TTAAAT-GATCTAAATGTATA
1 AATGAACTAACTTTATTAAATGGA-CTAAATGCATA
781934 AATGAACTA
1 AATGAACTA
781943 CTTCCCTAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
33 2 0.06
34 22 0.61
35 12 0.33
ACGTcount: A:0.42, C:0.09, G:0.15, T:0.33
Consensus pattern (35 bp):
AATGAACTAACTTTATTAAATGGACTAAATGCATA
Found at i:782492 original size:24 final size:24
Alignment explanation
Indices: 782465--782516 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
782455 CATCTTAAAC
782465 CCTCCTTT-TATTTTTTCTATTTTT
1 CCTCCTTTCTATTTTTTCT-TTTTT
* *
782489 CCTCTTTTCTTTTTTTTCTTTTTT
1 CCTCCTTTCTATTTTTTCTTTTTT
782513 CCTC
1 CCTC
782517 TTTAAGGGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 16 0.64
25 9 0.36
ACGTcount: A:0.04, C:0.25, G:0.00, T:0.71
Consensus pattern (24 bp):
CCTCCTTTCTATTTTTTCTTTTTT
Found at i:782512 original size:16 final size:16
Alignment explanation
Indices: 782470--782513 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
782460 TAAACCCTCC
*
782470 TTTTATTTTTTCTATT
1 TTTTCTTTTTTCTATT
* * *
782486 TTTCCTCTTTTCTTTT
1 TTTTCTTTTTTCTATT
782502 TTTTCTTTTTTC
1 TTTTCTTTTTTC
782514 CTCTTTAAGG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTCTTTTTTCTATT
Found at i:783633 original size:21 final size:22
Alignment explanation
Indices: 783607--783647 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
783597 TGAATATTTA
783607 ATTTAAATAAATT-AAATAAAG
1 ATTTAAATAAATTGAAATAAAG
* *
783628 ATTTAATTAATTTGAAATAA
1 ATTTAAATAAATTGAAATAA
783648 TAAAATACCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (22 bp):
ATTTAAATAAATTGAAATAAAG
Found at i:786137 original size:25 final size:24
Alignment explanation
Indices: 786099--786158 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
786089 AAATGAAAGG
* *
786099 GAAAGTAAAAGGTAGAGGAAAAGTC
1 GAAAGGAAAAGGTA-AGGAAAAGCC
* * *
786124 TAAAGGAAATGGTAAGGCAAAGCC
1 GAAAGGAAAAGGTAAGGAAAAGCC
786148 GAAAGGAAAAG
1 GAAAGGAAAAG
786159 ATTCATTGAA
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
24 17 0.61
25 11 0.39
ACGTcount: A:0.52, C:0.07, G:0.32, T:0.10
Consensus pattern (24 bp):
GAAAGGAAAAGGTAAGGAAAAGCC
Found at i:786851 original size:24 final size:25
Alignment explanation
Indices: 786809--786868 Score: 77
Period size: 24 Copynumber: 2.4 Consensus size: 25
786799 AAATGAAAGG
* *
786809 GAAAGAAAAAGGTAGAGGCAAAGTC
1 GAAAGGAAAAGGTAGAGGCAAAGCC
* *
786834 TAAAGGAAATGGTA-AGGCAAAGCC
1 GAAAGGAAAAGGTAGAGGCAAAGCC
786858 GAAAGGAAAAG
1 GAAAGGAAAAG
786869 ATTCATTGAA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
24 18 0.62
25 11 0.38
ACGTcount: A:0.52, C:0.08, G:0.32, T:0.08
Consensus pattern (25 bp):
GAAAGGAAAAGGTAGAGGCAAAGCC
Found at i:787420 original size:710 final size:710
Alignment explanation
Indices: 786061--787485 Score: 2672
Period size: 710 Copynumber: 2.0 Consensus size: 710
786051 AGGTTAGACC
*
786061 TAAGTCCATTCAGATGGTCTACAAGGAAAAATGAAAGGGAAAGTAAAAGGTAGAGGAAAAGTCTA
1 TAAGTCCATTCAGATGGTCTACAAGGAAAAATGAAAGGGAAAGAAAAAGGTAGAGGAAAAGTCTA
786126 AAGGAAATGGTAAGGCAAAGCCGAAAGGAAAAGATTCATTGAAACCCAAAGGGGGAGTTAGCAAG
66 AAGGAAATGGTAAGGCAAAGCCGAAAGGAAAAGATTCATTGAAACCCAAAGGGGGAGTTAGCAAG
786191 GAAGAAAAATGTTTCCATTGCAATAAGACCGGACACTGGAAGAGAAACTGCCCTGTTTACCTTGA
131 GAAGAAAAATGTTTCCATTGCAATAAGACCGGACACTGGAAGAGAAACTGCCCTGTTTACCTTGA
786256 AGAGGCCAAGAAGGCAAAAGTAAACGGAACGTTTGTTTCAGGTATTTATGTTATTGATGTTAATT
196 AGAGGCCAAGAAGGCAAAAGTAAACGGAACGTTTGTTTCAGGTATTTATGTTATTGATGTTAATT
* *
786321 TGTTAACATCTACTTCTTGGGTATTAGATATCAGTTGAGGTTCTCATAGTTGTACTTCTATACAT
261 TGTCAACATCTACTTCTTGGGTATTAGATATCAGTTGAGGTTCTCATAGTTGTACTTCTATACAG
786386 GGACTACAAAAGAGAAGGAATCTGCTTAAAAGAGACGTAGACTTACGAGTGAGAAATGGAGCAAG
326 GGACTACAAAAGAGAAGGAATCTGCTTAAAAGAGACGTAGACTTACGAGTGAGAAATGGAGCAAG
786451 AGTTGTTGCATTAGCTATAGGGACATATGTTTTATCTTTGCCTAGTGGACTTGATTTAAATTTAA
391 AGTTGTTGCATTAGCTATAGGGACATATGTTTTATCTTTGCCTAGTGGACTTGATTTAAATTTAA
786516 ATGATTATTATTTTATGCCTAATTTGACTAAGAACATTATTTCTATCTCTTGTTTGGACAATATT
456 ATGATTATTATTTTATGCCTAATTTGACTAAGAACATTATTTCTATCTCTTGTTTGGACAATATT
* *
786581 GGTTTTGAGATTATTATTAAGAATAATTGCTGTTCTTTTTATATCGGTAATGTTTTTTATGGTTT
521 GGTTTTGAGATTATTATTAAGAATAATTACTGTTCTTTTTATATCGGTAATGTTTTTTATGGTTC
* *
786646 CGCATAATTGGTTAATGGTATCTATATTTTGGATCAAGAAAATACCATTTATAACATAAATACTA
586 CGCACAATTGGTTAATGGTATCTATATTTTGGATCAAGAAAACACCATTTATAACATAAATACTA
786711 AAAGATCAAAAACAAATGACTCGAATCAAACATATCTTTGGCATTGTCGTTTAGGCCATA
651 AAAGATCAAAAACAAATGACTCGAATCAAACATATCTTTGGCATTGTCGTTTAGGCCATA
* *
786771 TAAGTCCATTCTGATGGTCTACAAGGAAAAATGAAAGGGAAAGAAAAAGGTAGAGGCAAAGTCTA
1 TAAGTCCATTCAGATGGTCTACAAGGAAAAATGAAAGGGAAAGAAAAAGGTAGAGGAAAAGTCTA
786836 AAGGAAATGGTAAGGCAAAGCCGAAAGGAAAAGATTCATTGAAACCCAAAGGGGGAGTTAGCAAG
66 AAGGAAATGGTAAGGCAAAGCCGAAAGGAAAAGATTCATTGAAACCCAAAGGGGGAGTTAGCAAG
* *
786901 GAAGAAAAATGTTTCCATTGCGATAAGACTGGACACTGGAAGAGAAACTGCCCTGTTTACCTTGA
131 GAAGAAAAATGTTTCCATTGCAATAAGACCGGACACTGGAAGAGAAACTGCCCTGTTTACCTTGA
786966 AGAGGCCAAGAAGGCAAAAGTAAACGGAACGTTTGTTTCAGGTATTTATGTTATTGATGTTAATT
196 AGAGGCCAAGAAGGCAAAAGTAAACGGAACGTTTGTTTCAGGTATTTATGTTATTGATGTTAATT
*
787031 TGTCAACATCTACTTCTTGGGTATTAGATATC-GATTGTGGTTCTCATAGTTGTACTTCTATACA
261 TGTCAACATCTACTTCTTGGGTATTAGATATCAG-TTGAGGTTCTCATAGTTGTACTTCTATACA
* * * *
787095 GGGACTACAAAAGAGAAGGAATCTGGTTAAAATAGACGTAGAGTTACGAGTGAGAAATGGGGCAA
325 GGGACTACAAAAGAGAAGGAATCTGCTTAAAAGAGACGTAGACTTACGAGTGAGAAATGGAGCAA
787160 GAGTTGTTGCATTAGCTATAGGGACATATGTTTTATCTTTGCCTAGTGGACTTGATTTAAATTTA
390 GAGTTGTTGCATTAGCTATAGGGACATATGTTTTATCTTTGCCTAGTGGACTTGATTTAAATTTA
*
787225 AATGATTATTATTTTATGCCTAGTTTGACTAAGAACATTATTTCTATCTCTTGTTTGGACAATAT
455 AATGATTATTATTTTATGCCTAATTTGACTAAGAACATTATTTCTATCTCTTGTTTGGACAATAT
787290 TGGTTTTGAGATTATTATTAAGAATAATTACTGTTCTTTTTATATCGGTAATGTTTTTTATGGTT
520 TGGTTTTGAGATTATTATTAAGAATAATTACTGTTCTTTTTATATCGGTAATGTTTTTTATGGTT
787355 CCGCACAATTGGTTAATGGTATCTATATTTTGGATCAAGAAAACACCATTTATAACATAAATACT
585 CCGCACAATTGGTTAATGGTATCTATATTTTGGATCAAGAAAACACCATTTATAACATAAATACT
*
787420 AAAAGATCAAAAACAAATGACTCGAATCAAACTTATCTTTGGCATTGTCGTTTAGGCCATA
650 AAAAGATCAAAAACAAATGACTCGAATCAAACATATCTTTGGCATTGTCGTTTAGGCCATA
787481 TAAGT
1 TAAGT
787486 GAGAAATGCA
Statistics
Matches: 696, Mismatches: 18, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
709 1 0.00
710 695 1.00
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (710 bp):
TAAGTCCATTCAGATGGTCTACAAGGAAAAATGAAAGGGAAAGAAAAAGGTAGAGGAAAAGTCTA
AAGGAAATGGTAAGGCAAAGCCGAAAGGAAAAGATTCATTGAAACCCAAAGGGGGAGTTAGCAAG
GAAGAAAAATGTTTCCATTGCAATAAGACCGGACACTGGAAGAGAAACTGCCCTGTTTACCTTGA
AGAGGCCAAGAAGGCAAAAGTAAACGGAACGTTTGTTTCAGGTATTTATGTTATTGATGTTAATT
TGTCAACATCTACTTCTTGGGTATTAGATATCAGTTGAGGTTCTCATAGTTGTACTTCTATACAG
GGACTACAAAAGAGAAGGAATCTGCTTAAAAGAGACGTAGACTTACGAGTGAGAAATGGAGCAAG
AGTTGTTGCATTAGCTATAGGGACATATGTTTTATCTTTGCCTAGTGGACTTGATTTAAATTTAA
ATGATTATTATTTTATGCCTAATTTGACTAAGAACATTATTTCTATCTCTTGTTTGGACAATATT
GGTTTTGAGATTATTATTAAGAATAATTACTGTTCTTTTTATATCGGTAATGTTTTTTATGGTTC
CGCACAATTGGTTAATGGTATCTATATTTTGGATCAAGAAAACACCATTTATAACATAAATACTA
AAAGATCAAAAACAAATGACTCGAATCAAACATATCTTTGGCATTGTCGTTTAGGCCATA
Found at i:795968 original size:26 final size:26
Alignment explanation
Indices: 795932--795992 Score: 104
Period size: 26 Copynumber: 2.3 Consensus size: 26
795922 GGTTCAAGAA
*
795932 CCATTCAGCCTAGAGATATGACCCCT
1 CCATTCAGCCTAGAGACATGACCCCT
*
795958 CCATTCAGCCTAGAGACATGCCCCCT
1 CCATTCAGCCTAGAGACATGACCCCT
795984 CCATTCAGC
1 CCATTCAGC
795993 TGAAACATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.25, C:0.39, G:0.15, T:0.21
Consensus pattern (26 bp):
CCATTCAGCCTAGAGACATGACCCCT
Found at i:796007 original size:26 final size:26
Alignment explanation
Indices: 795932--796000 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 26
795922 GGTTCAAGAA
* * *
795932 CCATTCAGCCTAGAGATATGACCCCT
1 CCATTCAGCCTAGAAACATGCCCCCT
*
795958 CCATTCAGCCTAGAGACATGCCCCCT
1 CCATTCAGCCTAGAAACATGCCCCCT
795984 CCATTCAG-CT-GAAACAT
1 CCATTCAGCCTAGAAACAT
796001 TATCCCCTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
24 6 0.15
25 2 0.05
26 32 0.80
ACGTcount: A:0.28, C:0.36, G:0.14, T:0.22
Consensus pattern (26 bp):
CCATTCAGCCTAGAAACATGCCCCCT
Found at i:827082 original size:102 final size:103
Alignment explanation
Indices: 826906--827094 Score: 362
Period size: 102 Copynumber: 1.8 Consensus size: 103
826896 TTGGGCAGAA
826906 GCTTGTTATGCTATTAATCGAGTAACGATTAGGCCTATTTTGAAGAAAACTCCATATGAAATTTT
1 GCTTGTTATGCTATTAATCGAGTAACGATTAGGCCTATTTTGAAGAAAACTCCATATGAAATTTT
826971 CAAAAAT-AAAAGCCTAACATTTGGAGCTTCAAATACC
66 CAAAAATAAAAAGCCTAACATTTGGAGCTTCAAATACC
*
827008 GCTTGTTATGCTATTAATCGAGTAACGATTAGGCCTATTTTGATGAAAACTCCATATGAAATTTT
1 GCTTGTTATGCTATTAATCGAGTAACGATTAGGCCTATTTTGAAGAAAACTCCATATGAAATTTT
827073 CAAAAATAAAAAGCCTAACATT
66 CAAAAATAAAAAGCCTAACATT
827095 AGCTATTTTC
Statistics
Matches: 85, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
102 71 0.84
103 14 0.16
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (103 bp):
GCTTGTTATGCTATTAATCGAGTAACGATTAGGCCTATTTTGAAGAAAACTCCATATGAAATTTT
CAAAAATAAAAAGCCTAACATTTGGAGCTTCAAATACC
Found at i:829088 original size:22 final size:22
Alignment explanation
Indices: 829027--829078 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
829017 GCTTAATCAG
*
829027 TCATTTGT-TAGCTCATATGCAT
1 TCATTT-TATAGCTCATGTGCAT
829049 TCATTTTATAGCTCATGTGCAT
1 TCATTTTATAGCTCATGTGCAT
829071 TCATTTTA
1 TCATTTTA
829079 ACTCCTATGT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
21 1 0.04
22 27 0.96
ACGTcount: A:0.23, C:0.17, G:0.12, T:0.48
Consensus pattern (22 bp):
TCATTTTATAGCTCATGTGCAT
Found at i:830526 original size:11 final size:11
Alignment explanation
Indices: 830510--830534 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
830500 TACAAAAAAA
830510 GAAGTGCAAGT
1 GAAGTGCAAGT
830521 GAAGTGCAAGT
1 GAAGTGCAAGT
830532 GAA
1 GAA
830535 AGAAATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.08, G:0.36, T:0.16
Consensus pattern (11 bp):
GAAGTGCAAGT
Found at i:830574 original size:19 final size:21
Alignment explanation
Indices: 830552--830595 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 21
830542 AAAAATCAGC
830552 AAAGAAATTG-AAGCACTCAAA
1 AAAGAAATTGTAAGCACTC-AA
830573 AGAAGAAATTGTAAGCACTCAA
1 A-AAGAAATTGTAAGCACTCAA
830595 A
1 A
830596 GGAACAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 1 0.05
22 12 0.57
23 8 0.38
ACGTcount: A:0.55, C:0.14, G:0.16, T:0.16
Consensus pattern (21 bp):
AAAGAAATTGTAAGCACTCAA
Found at i:830580 original size:22 final size:23
Alignment explanation
Indices: 830553--830595 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
830543 AAAATCAGCA
830553 AAGAAATTG-AAGCACTCAAAAG
1 AAGAAATTGTAAGCACTCAAAAG
830575 AAGAAATTGTAAGCACTCAAA
1 AAGAAATTGTAAGCACTCAAA
830596 GGAACAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.53, C:0.14, G:0.16, T:0.16
Consensus pattern (23 bp):
AAGAAATTGTAAGCACTCAAAAG
Found at i:831841 original size:48 final size:48
Alignment explanation
Indices: 831744--831841 Score: 115
Period size: 48 Copynumber: 2.0 Consensus size: 48
831734 TTCAAGAAAC
* * * *
831744 ATGTCTTTTGAGGAACCAATAGTCATGACCTTTGGTGATCCACACGAT
1 ATGTCTTTTGAAGAACCAATAGTCATGACCCTTGATGATCCAAACGAT
* * * * *
831792 ATGTCTTTTGAAGATCCAATAGTTATGTCCCTTGATGTTCCAAAGGAT
1 ATGTCTTTTGAAGAACCAATAGTCATGACCCTTGATGATCCAAACGAT
831840 AT
1 AT
831842 ACCACTTTAA
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (48 bp):
ATGTCTTTTGAAGAACCAATAGTCATGACCCTTGATGATCCAAACGAT
Found at i:835294 original size:23 final size:23
Alignment explanation
Indices: 835264--835324 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
835254 CGATACACTA
835264 TGAAAGTGTACCGATGCATTTCT
1 TGAAAGTGTACCGATGCATTTCT
*
835287 TGAAAGTGTACTGATGCATTTCT
1 TGAAAGTGTACCGATGCATTTCT
* *
835310 TGAATGTGTATCGAT
1 TGAAAGTGTACCGAT
835325 TTAGGCTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (23 bp):
TGAAAGTGTACCGATGCATTTCT
Found at i:837128 original size:13 final size:13
Alignment explanation
Indices: 837106--837139 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
837096 AGGGGGAGTA
*
837106 ATTTTCAAAATTG
1 ATTTTCAAAAATG
837119 A-TTTCAAAAATG
1 ATTTTCAAAAATG
837131 ATTTTCAAA
1 ATTTTCAAA
837140 GAAAATCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (13 bp):
ATTTTCAAAAATG
Found at i:837258 original size:18 final size:18
Alignment explanation
Indices: 837224--837277 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
837214 ATACAACAAA
* *
837224 TAAAGTATTATTGGATTT
1 TAAATTATTATTCGATTT
837242 TAAGATT-TTATTCGATTT
1 TAA-ATTATTATTCGATTT
837260 TAAATTATATATTCGATT
1 TAAATTAT-TATTCGATT
837278 AAATTACTCG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
17 3 0.10
18 17 0.55
19 11 0.35
ACGTcount: A:0.33, C:0.04, G:0.11, T:0.52
Consensus pattern (18 bp):
TAAATTATTATTCGATTT
Found at i:839316 original size:41 final size:40
Alignment explanation
Indices: 839271--839398 Score: 100
Period size: 41 Copynumber: 3.1 Consensus size: 40
839261 TTTATAACTA
839271 AAACGCCGTAATAGAGTTGTTTATAGTGACGTTTCTTCAAC
1 AAACGCCGTAATAGAGTTGTTTATAGTGACGTTT-TTCAAC
* * * ** *
839312 AAACGCCGCAATAG-TTTGTTAATTTTGCAGCGTTTTT-ATAA
1 AAACGCCGTAATAGAGTTGTTTATAGTG-A-CGTTTTTCA-AC
* * *
839353 AAACGTCGTGATA-ATGTTGTTTATAGTGGCGTTTGTTCAAC
1 AAACGCCGTAATAGA-GTTGTTTATAGTGACGTTT-TTCAAC
839394 AAACG
1 AAACG
839399 ACGCTATATA
Statistics
Matches: 65, Mismatches: 15, Indels: 14
0.69 0.16 0.15
Matches are distributed among these distances:
40 15 0.23
41 35 0.54
42 15 0.23
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (40 bp):
AAACGCCGTAATAGAGTTGTTTATAGTGACGTTTTTCAAC
Found at i:839427 original size:82 final size:81
Alignment explanation
Indices: 839226--839430 Score: 202
Period size: 82 Copynumber: 2.5 Consensus size: 81
839216 CCTTTTTTTA
*
839226 AACAAACGACG-TAATAGAGTGGTAATTTAGCGGCGTTTATAACTAAAACGCCGTAATAGAGTTG
1 AACAAACGACGCTAATAGA--AGTAATTTAGCGGCGTTTATAAC-AAAACGCCGTAATAGAGTTG
839290 TTTATAGTGACGTTTCTTC
63 TTTATAGTGACGTTTCTTC
* ** * * * * *
839309 AACAAACGCCGC-AATAGTTTGTTAATTTTGCAGCGTTTTTATA-AAAACGTCGTGATA-ATGTT
1 AACAAACGACGCTAATAG-AAG-TAATTTAGCGGCGTTTATA-ACAAAACGCCGTAATAGA-GTT
* *
839371 GTTTATAGTGGCGTTTGTTC
62 GTTTATAGTGACGTTTCTTC
*
839391 AACAAACGACGCTATATAGAAGTAATTTAGTGGCGTTTAT
1 AACAAACGACGCTA-ATAGAAGTAATTTAGCGGCGTTTAT
839431 CAAAGAAATA
Statistics
Matches: 98, Mismatches: 17, Indels: 15
0.75 0.13 0.12
Matches are distributed among these distances:
81 1 0.01
82 59 0.60
83 33 0.34
84 5 0.05
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.34
Consensus pattern (81 bp):
AACAAACGACGCTAATAGAAGTAATTTAGCGGCGTTTATAACAAAACGCCGTAATAGAGTTGTTT
ATAGTGACGTTTCTTC
Found at i:839993 original size:22 final size:22
Alignment explanation
Indices: 839967--840011 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
839957 AAGTGTTTTT
839967 TTGCTTTCGAATAGAAAAATAA
1 TTGCTTTCGAATAGAAAAATAA
* *
839989 TTGCTTTCTAATAGGAAAATAA
1 TTGCTTTCGAATAGAAAAATAA
840011 T
1 T
840012 ACCTTCTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.42, C:0.09, G:0.13, T:0.36
Consensus pattern (22 bp):
TTGCTTTCGAATAGAAAAATAA
Found at i:841358 original size:41 final size:41
Alignment explanation
Indices: 841310--841418 Score: 128
Period size: 41 Copynumber: 2.7 Consensus size: 41
841300 ATATGATTAA
* *
841310 TTTAGTGGCATTTGTGAGAAAATGCCGAAATAGCAATAAAC
1 TTTAGTGGCGTTTGTGAGAAAACGCCGAAATAGCAATAAAC
* * * ** *
841351 TTTAGTGGCGTTTTTGAGAAAACGCCGCAATATCCTTATAC
1 TTTAGTGGCGTTTGTGAGAAAACGCCGAAATAGCAATAAAC
**
841392 TTTAGTGGCGTTTGTGACCAAACGCCG
1 TTTAGTGGCGTTTGTGAGAAAACGCCG
841419 TTATATCCAT
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 57 1.00
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.30
Consensus pattern (41 bp):
TTTAGTGGCGTTTGTGAGAAAACGCCGAAATAGCAATAAAC
Found at i:842618 original size:14 final size:14
Alignment explanation
Indices: 842599--842633 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
842589 CTTTCACTTC
842599 ATAAGTTCCCAAAT
1 ATAAGTTCCCAAAT
842613 ATAAGTTCCCAAAT
1 ATAAGTTCCCAAAT
842627 ATAAGTT
1 ATAAGTT
842634 GATATAACGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.31
Consensus pattern (14 bp):
ATAAGTTCCCAAAT
Found at i:850006 original size:42 final size:41
Alignment explanation
Indices: 849923--850042 Score: 134
Period size: 42 Copynumber: 2.9 Consensus size: 41
849913 ATGAAGCAAG
* * * *
849923 GGAAGCAGAGAGAGCAGCAGCGGAAGCAGCTAGAG-CAGCAGC
1 GGAAGCAGAGAGAGAAGCAGTGGCAGCA-C-AGAGAGAGCAGC
849965 GGAAGCAGAGAGAGAAGCAGTGGCAGCACAGAGAGAGGCAGC
1 GGAAGCAGAGAGAGAAGCAGTGGCAGCACAGAGAGA-GCAGC
* * * *
850007 GGTAGCACAAAGAGAAGCAGTGGCAGCATAGAGAGA
1 GGAAGCAGAGAGAGAAGCAGTGGCAGCACAGAGAGA
850043 AGTAATATAT
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
40 4 0.06
41 2 0.03
42 62 0.91
ACGTcount: A:0.38, C:0.17, G:0.40, T:0.04
Consensus pattern (41 bp):
GGAAGCAGAGAGAGAAGCAGTGGCAGCACAGAGAGAGCAGC
Found at i:850042 original size:21 final size:21
Alignment explanation
Indices: 849926--850044 Score: 105
Period size: 21 Copynumber: 5.7 Consensus size: 21
849916 AAGCAAGGGA
* * *
849926 AGCAGAGAGAGCAGCAGCGGA
1 AGCACAGAGAGAAGCAGCGGC
* * *
849947 AGCAGC-TAGAGCAGCAGCGGA
1 AGCA-CAGAGAGAAGCAGCGGC
* *
849968 AGCAGAGAGAGAAGCAGTGGC
1 AGCACAGAGAGAAGCAGCGGC
* *
849989 AGCACAGAGAGAGGCAGCGGT
1 AGCACAGAGAGAAGCAGCGGC
* *
850010 AGCACAAAGAGAAGCAGTGGC
1 AGCACAGAGAGAAGCAGCGGC
*
850031 AGCATAGAGAGAAG
1 AGCACAGAGAGAAG
850045 TAATATATCA
Statistics
Matches: 79, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
21 79 1.00
ACGTcount: A:0.39, C:0.18, G:0.39, T:0.04
Consensus pattern (21 bp):
AGCACAGAGAGAAGCAGCGGC
Found at i:850444 original size:43 final size:42
Alignment explanation
Indices: 850340--850522 Score: 117
Period size: 43 Copynumber: 4.3 Consensus size: 42
850330 GTGTTATTTA
* * *
850340 GCGGCGTTTGTAACAAAAAACGCTGC-AATA-TACTATACAT-TT
1 GCGGCGTTTGT-AGAAAAAACGCCGCTAA-ACT-CAATACATATT
* ** *
850382 AGCGGCGTTTTTATCAAAAATGCCGCTAAATCTCAATACATATT
1 -GCGGCGTTTGTAGAAAAAACGCCGCTAAA-CTCAATACATATT
* * *
850426 GCGGCGTTTGTAGGAAAAACGTCAG-TAAAAATCAATATC-TATT
1 GCGGCGTTTGTAGAAAAAACG-CCGCT-AAACTCAATA-CATATT
* * *
850469 GCGACGTTTGT-GAAGAAAACGCCGCTAAACATCAACACCTATT
1 GCGGCGTTTGTAGAA-AAAACGCCGCTAAAC-TCAATACATATT
850512 GCGGCGTTTGT
1 GCGGCGTTTGT
850523 TTGCCAAACG
Statistics
Matches: 111, Mismatches: 18, Indels: 22
0.74 0.12 0.15
Matches are distributed among these distances:
42 19 0.17
43 83 0.75
44 9 0.08
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (42 bp):
GCGGCGTTTGTAGAAAAAACGCCGCTAAACTCAATACATATT
Found at i:850532 original size:86 final size:86
Alignment explanation
Indices: 850398--850565 Score: 205
Period size: 86 Copynumber: 2.0 Consensus size: 86
850388 GTTTTTATCA
* * *
850398 AAAATGCCGCTAAATCTCAATACATATTGCGGCGTTTGTAGGAAAAACGTCAG-TAAAAATCAAT
1 AAAACGCCGCTAAATCTCAACACATATTGCGGCGTTTGTAGGAAAAACG-CAGTTAAAAATCAAA
*
850462 ATCTATTGCGACGTTTGTGAAG
65 ACCTATTGCGACGTTTGTGAAG
* ** ** * *
850484 AAAACGCCGCTAAA-CATCAACACCTATTGCGGCGTTTGTTTGCCAAACGCCGTTAAATATCAAA
1 AAAACGCCGCTAAATC-TCAACACATATTGCGGCGTTTGTAGGAAAAACGCAGTTAAAAATCAAA
850548 ACCTATTGCGACGTTTGT
65 ACCTATTGCGACGTTTGT
850566 CTTTACGCCG
Statistics
Matches: 69, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
85 3 0.04
86 66 0.96
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.27
Consensus pattern (86 bp):
AAAACGCCGCTAAATCTCAACACATATTGCGGCGTTTGTAGGAAAAACGCAGTTAAAAATCAAAA
CCTATTGCGACGTTTGTGAAG
Found at i:856007 original size:28 final size:28
Alignment explanation
Indices: 855964--856123 Score: 93
Period size: 28 Copynumber: 5.6 Consensus size: 28
855954 TATTATTTAA
* * *
855964 TACTTTACATAACTATGTATACT-TATAC
1 TACTTT-CAAAACTATATATAATATATAC
*
855992 TTATTTTCAAAACTATATATAATATATAC
1 -TACTTTCAAAACTATATATAATATATAC
*
856021 TACTTTCAAAAGTATATATATAATATATAC
1 TACTTTCAAAA--CTATATATAATATATAC
* * * *
856051 TATTTTATAAAATTATATAATATAATATAATATA
1 TACTTT-CAAAA--CTAT-ATATAATAT-ATA-C
856085 TAC-TT-AAAA--ATATAT-A-ATATA-
1 TACTTTCAAAACTATATATAATATATAC
856106 TACTTTCAAAACTATATA
1 TACTTTCAAAACTATATA
856124 ATATATTTAA
Statistics
Matches: 109, Mismatches: 11, Indels: 26
0.75 0.08 0.18
Matches are distributed among these distances:
21 3 0.03
22 2 0.02
23 7 0.06
24 2 0.02
25 6 0.06
26 4 0.04
27 2 0.02
28 23 0.21
29 10 0.09
30 21 0.19
31 13 0.12
32 9 0.08
33 5 0.05
34 2 0.02
ACGTcount: A:0.47, C:0.09, G:0.01, T:0.42
Consensus pattern (28 bp):
TACTTTCAAAACTATATATAATATATAC
Found at i:856041 original size:32 final size:31
Alignment explanation
Indices: 856005--856079 Score: 107
Period size: 30 Copynumber: 2.4 Consensus size: 31
855995 TTTTCAAAAC
856005 TATATATAATATATACTACTTT-CAAAAGTA
1 TATATATAATATATACTACTTTACAAAAGTA
* * *
856035 TATATATAATATATACTATTTTATAAAATTA
1 TATATATAATATATACTACTTTACAAAAGTA
856066 TATAATATAATATA
1 TAT-ATATAATATA
856080 ATATATACTT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 21 0.52
31 9 0.22
32 10 0.25
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.44
Consensus pattern (31 bp):
TATATATAATATATACTACTTTACAAAAGTA
Found at i:856093 original size:31 final size:32
Alignment explanation
Indices: 856008--856105 Score: 98
Period size: 31 Copynumber: 3.2 Consensus size: 32
855998 TCAAAACTAT
* *
856008 ATATAATATATAC--TACTTTCAAAAGTATAT-
1 ATATAATATATACTATACTAT-AAAAATATATA
** *
856038 ATATAATATATACTATTTTATAAAATTATATA
1 ATATAATATATACTATACTATAAAAATATATA
856070 ATATAATATAATA-TATACT-TAAAAATATATA
1 ATATAATAT-ATACTATACTATAAAAATATATA
856101 ATATA
1 ATATA
856106 TACTTTCAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
30 13 0.23
31 25 0.44
32 16 0.28
33 3 0.05
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (32 bp):
ATATAATATATACTATACTATAAAAATATATA
Found at i:856101 original size:21 final size:23
Alignment explanation
Indices: 856075--856129 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
856065 ATATAATATA
856075 ATATAATATATAC-TT-AAAAAT
1 ATATAATATATACTTTCAAAAAT
*
856096 ATATAATATATACTTTCAAAACT
1 ATATAATATATACTTTCAAAAAT
856119 ATATAATATAT
1 ATATAATATAT
856130 TTAAAAGAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 13 0.42
22 2 0.06
23 16 0.52
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (23 bp):
ATATAATATATACTTTCAAAAAT
Found at i:856129 original size:30 final size:30
Alignment explanation
Indices: 855987--856129 Score: 90
Period size: 30 Copynumber: 4.9 Consensus size: 30
855977 TATGTATACT
*
855987 TATACTTATTTTCAAAACTATATATA-AT-A
1 TATAC-TACTTTCAAAACTATATATATATAA
*
856016 TATACTACTTTCAAAAGTATATATATA-ATA
1 TATACTACTTTCAAAACTATATATATATA-A
* * *
856046 TATACTATTTTATAAAATTATATA-ATATAA
1 TATACTACTTT-CAAAACTATATATATATAA
* * * *
856076 TATA--A-TAT--ATACTTAAAAATATATAA
1 TATACTACTTTCAAAAC-TATATATATATAA
856102 TATA-TACTTTCAAAACTATATAATATAT
1 TATACTACTTTCAAAACTATAT-ATATAT
856130 TTAAAAGAAG
Statistics
Matches: 88, Mismatches: 14, Indels: 23
0.70 0.11 0.18
Matches are distributed among these distances:
24 2 0.02
25 4 0.05
26 10 0.11
27 3 0.03
28 21 0.24
29 9 0.10
30 28 0.32
31 11 0.12
ACGTcount: A:0.49, C:0.08, G:0.01, T:0.43
Consensus pattern (30 bp):
TATACTACTTTCAAAACTATATATATATAA
Found at i:856280 original size:16 final size:15
Alignment explanation
Indices: 856258--856301 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
856248 GTTGATCCAA
856258 CTCTTTTTTCTTCACAT
1 CTCTTTTTTCTTC-C-T
*
856275 -TCTTTTTTCCTCCT
1 CTCTTTTTTCTTCCT
856289 CTCTTTTTTCTTC
1 CTCTTTTTTCTTC
856302 TCCCTTTCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 1 0.04
15 12 0.50
16 11 0.46
ACGTcount: A:0.05, C:0.32, G:0.00, T:0.64
Consensus pattern (15 bp):
CTCTTTTTTCTTCCT
Found at i:857491 original size:22 final size:23
Alignment explanation
Indices: 857449--857491 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
857439 AGGTTGAACG
*
857449 ATTTATTAATTAGTTATATAAGT
1 ATTTATTAATTAGATATATAAGT
*
857472 ATTTGTTAA-TAGATATATAA
1 ATTTATTAATTAGATATATAA
857492 ATGTTAATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (23 bp):
ATTTATTAATTAGATATATAAGT
Found at i:857498 original size:18 final size:17
Alignment explanation
Indices: 857475--857517 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 17
857465 TATAAGTATT
857475 TGTTAATAG-ATATATAAA
1 TGTTAAT-GTATAT-TAAA
857493 TGTTAATGTATATTAAA
1 TGTTAATGTATATTAAA
857510 TGCTTAAT
1 TG-TTAAT
857518 TTTGAAACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.42, C:0.02, G:0.12, T:0.44
Consensus pattern (17 bp):
TGTTAATGTATATTAAA
Found at i:858800 original size:15 final size:15
Alignment explanation
Indices: 858780--858820 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
858770 TTTCACCTCT
* *
858780 TTTCATTTTTTTTTG
1 TTTCATTTTATTTTA
858795 TTTCATTTTATTTTA
1 TTTCATTTTATTTTA
*
858810 TTTTATTTTAT
1 TTTCATTTTAT
858821 CTTTGCGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.78
Consensus pattern (15 bp):
TTTCATTTTATTTTA
Found at i:866142 original size:14 final size:15
Alignment explanation
Indices: 866123--866151 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
866113 GTGCAAAGTA
866123 TATCGATAC-CTATG
1 TATCGATACACTATG
866137 TATCGATACACTATG
1 TATCGATACACTATG
866152 AATATGTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (15 bp):
TATCGATACACTATG
Found at i:866159 original size:21 final size:20
Alignment explanation
Indices: 866133--866192 Score: 59
Period size: 23 Copynumber: 2.8 Consensus size: 20
866123 TATCGATACC
866133 TATGTATCGATACACTATGAA
1 TATGTATCGATACACT-TGAA
866154 TATGTA-CTGATACATTCCTTGAA
1 TATGTATC-GATACA---CTTGAA
*
866177 TGTGTATCGATACACT
1 TATGTATCGATACACT
866193 CAGGAGTGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 11
0.73 0.02 0.24
Matches are distributed among these distances:
20 3 0.09
21 12 0.36
23 15 0.45
24 3 0.09
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.37
Consensus pattern (20 bp):
TATGTATCGATACACTTGAA
Found at i:868418 original size:12 final size:14
Alignment explanation
Indices: 868389--868423 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
868379 AGAGGGAGTA
868389 ATTTTCAAAAATTG
1 ATTTTCAAAAATTG
868403 A-TTTCAAAAATT-
1 ATTTTCAAAAATTG
868415 ATTTTCAAA
1 ATTTTCAAA
868424 GAAAATCTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 1 0.05
13 18 0.90
14 1 0.05
ACGTcount: A:0.46, C:0.09, G:0.03, T:0.43
Consensus pattern (14 bp):
ATTTTCAAAAATTG
Found at i:868566 original size:17 final size:18
Alignment explanation
Indices: 868524--868569 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
868514 ATTATTGAAT
*
868524 TTTAAGATTTTATATTCAA
1 TTTAA-ATTATATATTCAA
*
868543 TTTAAATTATATATTCGA
1 TTTAAATTATATATTCAA
868561 -TTAAATTAT
1 TTTAAATTAT
868570 TCGAATATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 9 0.36
18 11 0.44
19 5 0.20
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.52
Consensus pattern (18 bp):
TTTAAATTATATATTCAA
Found at i:868747 original size:20 final size:19
Alignment explanation
Indices: 868722--868775 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 19
868712 TTACAAAGGG
868722 ATGTACCGATACACTCCAG-T
1 ATGTACCGATACACT--AGCT
868742 ATGTACCGATACA-TAGCCT
1 ATGTACCGATACACTAG-CT
868761 ATGTACCGATACACT
1 ATGTACCGATACACT
868776 TCTATCTCTG
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
17 2 0.06
19 15 0.48
20 14 0.45
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (19 bp):
ATGTACCGATACACTAGCT
Found at i:871755 original size:14 final size:13
Alignment explanation
Indices: 871729--871794 Score: 60
Period size: 13 Copynumber: 4.9 Consensus size: 13
871719 AGGCGGGGAT
*
871729 AAAAGCTAAGAAA
1 AAAAGCAAAGAAA
*
871742 AAGAGCAAAAGAAA
1 AAAAGC-AAAGAAA
*
871756 AAAATCAAAGAAA
1 AAAAGCAAAGAAA
*
871769 AAAGAACAAAGAAA
1 AAA-AGCAAAGAAA
* *
871783 GAAAGAAAAGAA
1 AAAAGCAAAGAA
871795 GACAAGAAGC
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
13 22 0.51
14 21 0.49
ACGTcount: A:0.74, C:0.06, G:0.17, T:0.03
Consensus pattern (13 bp):
AAAAGCAAAGAAA
Done.