Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 190 of 253
Found at i:62210232 original size:26 final size:26
Alignment explanation
Indices: 62210202--62210259 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
62210192 TTATTGTTAG
* *
62210202 TTATTATTATTGTTTGTAAAAAACTC
1 TTATTATTATTGTTAGTAAAAAACTA
62210228 TTATTATTATTGTTAGTAAAAAACTA
1 TTATTATTATTGTTAGTAAAAAACTA
62210254 TTATTA
1 TTATTA
62210260 GGATTGTTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.38, C:0.05, G:0.07, T:0.50
Consensus pattern (26 bp):
TTATTATTATTGTTAGTAAAAAACTA
Found at i:62210265 original size:26 final size:26
Alignment explanation
Indices: 62210210--62210267 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
62210200 AGTTATTATT
* * **
62210210 ATTGTTTGTAAAAAACTCTTATTATT
1 ATTGTTAGTAAAAAACTATTATTAGG
62210236 ATTGTTAGTAAAAAACTATTATTAGG
1 ATTGTTAGTAAAAAACTATTATTAGG
62210262 ATTGTT
1 ATTGTT
62210268 GGTTATTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.36, C:0.05, G:0.12, T:0.47
Consensus pattern (26 bp):
ATTGTTAGTAAAAAACTATTATTAGG
Found at i:62210313 original size:39 final size:37
Alignment explanation
Indices: 62210228--62210319 Score: 107
Period size: 39 Copynumber: 2.4 Consensus size: 37
62210218 TAAAAAACTC
62210228 TTATTATTATTGTTAGTAAAAAACTATTATTAGGATTG
1 TTATTATTATTGTTAGTAAAAAACTATTATTA-GATTG
*
62210266 TTGGTTATTATTGTTAGTAAAAAACCCTAATTATT-G-TTAG
1 TT-ATTATTATTGTTAGTAAAAAA--CT-ATTATTAGATT-G
62210306 TTATTATTATTGTT
1 TTATTATTATTGTT
62210320 GATTTATATT
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
38 2 0.04
39 33 0.70
40 4 0.09
41 2 0.04
42 6 0.13
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.50
Consensus pattern (37 bp):
TTATTATTATTGTTAGTAAAAAACTATTATTAGATTG
Found at i:62216497 original size:49 final size:49
Alignment explanation
Indices: 62216437--62216610 Score: 176
Period size: 49 Copynumber: 3.6 Consensus size: 49
62216427 CTTGTTGTAT
* * *
62216437 GTCAGTGTAAGACCTATCTGGGACATGGCATC-GACATCGATAGATGAGA
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCAGACA-CAATAGATGAAA
* * * *
62216486 GTCAGTATAAGACCTGTCTAGGACATGGCATCAGCCACAATATATGAAA
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCAGACACAATAGATGAAA
* ** **
62216535 GTCAGTGTAAGACCTGTCTGGGACACGGCATCA-ACTTTAAT-G-TGCTA
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCAGAC-ACAATAGATGAAA
*
62216582 GCCAGTGTAAGACCATGTCTGGGACATGG
1 GTCAGTGTAAGACC-TGTCTGGGACATGG
62216611 TGTCAGCATT
Statistics
Matches: 104, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
47 16 0.15
48 14 0.13
49 71 0.68
50 3 0.03
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (49 bp):
GTCAGTGTAAGACCTGTCTGGGACATGGCATCAGACACAATAGATGAAA
Found at i:62223324 original size:13 final size:13
Alignment explanation
Indices: 62223306--62223330 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
62223296 AGTCCATGGG
62223306 TGTATGGCACGGA
1 TGTATGGCACGGA
62223319 TGTATGGCACGG
1 TGTATGGCACGG
62223331 GCGTGTCGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (13 bp):
TGTATGGCACGGA
Found at i:62231186 original size:13 final size:13
Alignment explanation
Indices: 62231168--62231193 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
62231158 GAGACAAAAT
62231168 TTTTGTGCCCAAG
1 TTTTGTGCCCAAG
62231181 TTTTGTGCCCAAG
1 TTTTGTGCCCAAG
62231194 GATAATAAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.38
Consensus pattern (13 bp):
TTTTGTGCCCAAG
Found at i:62233903 original size:49 final size:49
Alignment explanation
Indices: 62233798--62233927 Score: 138
Period size: 49 Copynumber: 2.7 Consensus size: 49
62233788 CTTGTTGTGT
* * * *
62233798 GTCAGTGTAAGACCTATTTGGGACATGACAACAACACCGATAGATGAGA
1 GTCAGTGTAAGACCTATTTGGGACATGGCATCAACACCGATAGATAAAA
* * * *
62233847 G-CTAGTGTAAGACCTATCTAGGACATGGCATCAGC-CTCGATATATAAAA
1 GTC-AGTGTAAGACCTATTTGGGACATGGCATCAACAC-CGATAGATAAAA
* *
62233896 GTCAGTGTAAGATCTATTTGGGACACGGCATC
1 GTCAGTGTAAGACCTATTTGGGACATGGCATC
62233928 GAATTTAATG
Statistics
Matches: 66, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
48 2 0.03
49 63 0.95
50 1 0.02
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (49 bp):
GTCAGTGTAAGACCTATTTGGGACATGGCATCAACACCGATAGATAAAA
Found at i:62235158 original size:21 final size:20
Alignment explanation
Indices: 62235125--62235163 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
62235115 GTCATAATGG
62235125 CCACACAGACGTGTTGCCCAT
1 CCACACAGACGTG-TGCCCAT
* *
62235146 CCACATAGGCGTGTGCCC
1 CCACACAGACGTGTGCCC
62235164 TGCTTCAAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.21, C:0.38, G:0.23, T:0.18
Consensus pattern (20 bp):
CCACACAGACGTGTGCCCAT
Found at i:62236599 original size:18 final size:18
Alignment explanation
Indices: 62236560--62236599 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
62236550 AATTTCGGTT
62236560 ATTA-ATTTTAATATTCG
1 ATTAGATTTTAATATTCG
62236577 A-TAGATTTTAAATATT-G
1 ATTAGATTTT-AATATTCG
62236594 ATTAGA
1 ATTAGA
62236600 ATAACTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
16 2 0.10
17 8 0.40
18 10 0.50
ACGTcount: A:0.40, C:0.03, G:0.10, T:0.47
Consensus pattern (18 bp):
ATTAGATTTTAATATTCG
Found at i:62237073 original size:12 final size:13
Alignment explanation
Indices: 62237041--62237076 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
62237031 TTTTTTAAAA
62237041 TATATTATTTTCT
1 TATATTATTTTCT
*
62237054 TATTTTATTTT-T
1 TATATTATTTTCT
62237066 TATATTATTTT
1 TATATTATTTT
62237077 AGTACATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (13 bp):
TATATTATTTTCT
Found at i:62237221 original size:12 final size:12
Alignment explanation
Indices: 62237189--62237223 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
62237179 TTTTTTAAAA
62237189 TATATTATTTTT
1 TATATTATTTTT
62237201 TAT-TGTATTTTT
1 TATAT-TATTTTT
62237213 TATATTATTTT
1 TATATTATTTT
62237224 AATACATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 1 0.05
12 19 0.90
13 1 0.05
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (12 bp):
TATATTATTTTT
Found at i:62237521 original size:149 final size:150
Alignment explanation
Indices: 62237010--62237830 Score: 1147
Period size: 151 Copynumber: 5.5 Consensus size: 150
62237000 GTTGGTATTT
* * *
62237010 TTTTTTTATTTTCAGATTTTATTTTTTAAAATATATTATTTTCTTATTTTATTTTTTATATTATT
1 TTTTTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTATT
* * * * *
62237075 TTAGTACATAATGTTGT--AATGCATTATTTAAATGTTTTTTTATTAATTTAATAAATAA-CTCT
66 TTAGTACATAATGTT-TCAAATGTATTATTTTAGTGTTTTTTTAATAATTTAGTAAATAACCT-T
62237137 GATTTTGGCAC-TTTGTTGGTA
129 GATTTTGGCACTTTTGTTGGTA
* * * * *
62237158 TTTTTTTATTTTCGAATTTCATTTTTTAAAATATATTATTTT-TTATTGTATTTTTTATATTATT
1 TTTTTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTATT
* * * * *
62237222 TTAATACATAATGTTTCAAATGTATTATTTAAGTGTTTTTTATATTAATTTAATAAATAACCCTG
66 TTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTT-TAATAATTTAGTAAATAACCTTG
* *
62237287 ATTTTGACACTTTTTGTTGATA
130 ATTTTGGCAC-TTTTGTTGGTA
* *
62237309 TTTTTTTATTTTCGAATTTTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTTATATTAT
1 TTTTTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTA-TTTTTTATATTAT
* **
62237374 TTTAGTACATATTGTTTCAAATGTATTATTTTAGTGTTTTTTTAATAATTTAGTAAGGAACCTTG
65 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTTAATAATTTAGTAAATAACCTTG
62237439 ATTTTGGCAC-TTTGTTGGTA
130 ATTTTGGCACTTTTGTTGGTA
62237459 TTTTTTTATTTTCGGATTTTA-TTTTTAAAATATACTATTTTCGTATTTTATTTTTTTATATTAT
1 TTTTTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTA-TTTTTTATATTAT
* *
62237523 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTTAATAATTTAGTATATAACCCTG
65 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTTAATAATTTAGTAAATAACCTTG
* **
62237588 ATTTTGGC-CATTTGTTTATA
130 ATTTTGGCACTTTTGTTGGTA
* * * *
62237608 TTTTTTTATATTTTTGGATTTTATTTTATAAAATATACTATTTTCCTATTTTATTTTTTGTATTA
1 -TTTTTT-TATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTA
62237673 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTTAATAATTTAGTAAATAACCTT
64 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTTAATAATTTAGTAAATAACCTT
*
62237738 GATTTTGGC-CTTTTGTTTGTA
129 GATTTTGGCACTTTTGTTGGTA
** * *
62237759 TTTTTCAAATTTTTGGATTTTATTTTTTAAAATATACAATTTTCGTATTTTATTTTTTATATTAT
1 TTTTT-TTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
62237824 TTTAGTA
65 TTTAGTA
62237831 AAAAACCCGC
Statistics
Matches: 614, Mismatches: 46, Indels: 24
0.90 0.07 0.04
Matches are distributed among these distances:
146 1 0.00
147 35 0.06
148 61 0.10
149 147 0.24
150 101 0.16
151 157 0.26
152 60 0.10
153 52 0.08
ACGTcount: A:0.27, C:0.06, G:0.08, T:0.59
Consensus pattern (150 bp):
TTTTTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTATT
TTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTTAATAATTTAGTAAATAACCTTGA
TTTTGGCACTTTTGTTGGTA
Found at i:62237574 original size:301 final size:300
Alignment explanation
Indices: 62237009--62237830 Score: 1194
Period size: 301 Copynumber: 2.7 Consensus size: 300
62236999 TGTTGGTATT
*
62237009 TTTTTTTTATTTTC-AGATTTTATTTTTTAAAATATATTATTTTCTTATTTTATTTTTTATATTA
1 TTTTTTTTATTTTCGA-ATTTTATTTTTTAAAATATATTATTTTCCTATTTTATTTTTTATATTA
* * * * *
62237073 TTTTAGTACATAATGTTGT--AATGCATTATTTAAATGTTTTTTTATTAATTTAATAAATAA-CT
65 TTTTAGTACATAATGTT-TCAAATGTATTATTTTAGTGTTTTTTTAATAATTTAGTAAATAACCT
* * *
62237135 CTGATTTTGGCACTTTGTTGGTATTTTTTTATTTTCGAATTTCATTTTTTAAAATATATTATTTT
129 -TGATTTTGGCACTTTGTTGGTATTTTTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTT
* * *
62237200 -TTATTGTATTTTTTATATTATTTTAATACATAATGTTTCAAATGTATTATTTAAGTGTTTTTTA
193 CGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTGTTTTTTA
* *
62237264 TATTAATTTAATAAATAACCCTGATTTTGACACTTTTTGTTGATA
258 TAATAATTTAATAAATAACCCTGATTTTGAC-C-ATTTGTTGATA
*
62237309 -TTTTTTTATTTTCGAATTTTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTTATATTA
1 TTTTTTTTATTTTCGAATTTTATTTTTTAAAATATATTATTTTCCTATTTTA-TTTTTTATATTA
* **
62237373 TTTTAGTACATATTGTTTCAAATGTATTATTTTAGTGTTTTTTTAATAATTTAGTAAGGAACCTT
65 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTTAATAATTTAGTAAATAACCTT
62237438 GATTTTGGCACTTTGTTGGTATTTTTTTATTTTCGGATTTTA-TTTTTAAAATATACTATTTTCG
130 GATTTTGGCACTTTGTTGGTATTTTTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCG
*
62237502 TATTTTATTTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTT-T
195 TATTTTA-TTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTGTTTTTTAT
* * * *
62237566 AATAATTTAGTATATAACCCTGATTTTGGCCATTTGTTTATA
259 AATAATTTAATAAATAACCCTGATTTTGACCATTTGTTGATA
* * * * *
62237608 TTTTTTTATATTTTTGGATTTTATTTTATAAAATATACTATTTTCCTATTTTATTTTTTGTATTA
1 TTTTTTT-TATTTTCGAATTTTATTTTTTAAAATATATTATTTTCCTATTTTATTTTTTATATTA
62237673 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTTAATAATTTAGTAAATAACCTT
65 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTTAATAATTTAGTAAATAACCTT
* ** * *
62237738 GATTTTGGC-CTTTTGTTTGTATTTTTCAAATTTTTGGATTTTATTTTTTAAAATATACAATTTT
130 GATTTTGGCAC-TTTGTTGGTATTTTT-TTATTTTCGGATTTTATTTTTTAAAATATACTATTTT
62237802 CGTATTTTATTTTTTATATTATTTTAGTA
193 CGTATTTTATTTTTTATATTATTTTAGTA
62237831 AAAAACCCGC
Statistics
Matches: 474, Mismatches: 36, Indels: 23
0.89 0.07 0.04
Matches are distributed among these distances:
299 59 0.12
300 151 0.32
301 181 0.38
302 83 0.18
ACGTcount: A:0.27, C:0.06, G:0.08, T:0.59
Consensus pattern (300 bp):
TTTTTTTTATTTTCGAATTTTATTTTTTAAAATATATTATTTTCCTATTTTATTTTTTATATTAT
TTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTTAATAATTTAGTAAATAACCTTG
ATTTTGGCACTTTGTTGGTATTTTTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGT
ATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTGTTTTTTATAA
TAATTTAATAAATAACCCTGATTTTGACCATTTGTTGATA
Found at i:62237885 original size:17 final size:17
Alignment explanation
Indices: 62237863--62237895 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
62237853 CCCGAATTTT
62237863 TTTCGTATTTTATTTCC
1 TTTCGTATTTTATTTCC
*
62237880 TTTCGTATTTTTTTTC
1 TTTCGTATTTTATTTC
62237896 ATTAAGATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.09, C:0.15, G:0.06, T:0.70
Consensus pattern (17 bp):
TTTCGTATTTTATTTCC
Found at i:62238464 original size:16 final size:17
Alignment explanation
Indices: 62238443--62238476 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
62238433 TTCTCCTTCC
62238443 TCTTCTTCT-CTTCTTT
1 TCTTCTTCTCCTTCTTT
62238459 TCTTCTTCTCCTTCTTT
1 TCTTCTTCTCCTTCTTT
62238476 T
1 T
62238477 TTTCCCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (17 bp):
TCTTCTTCTCCTTCTTT
Found at i:62238472 original size:22 final size:20
Alignment explanation
Indices: 62238438--62238480 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 20
62238428 CCTCCTTCTC
*
62238438 CTTCCTCTTCTTCTCTTCTTTT
1 CTTCCTCTCCTTCT-TT-TTTT
*
62238460 CTTCTTCTCCTTCTTTTTTT
1 CTTCCTCTCCTTCTTTTTTT
62238480 C
1 C
62238481 CCAAAATGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 5 0.26
21 2 0.11
22 12 0.63
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (20 bp):
CTTCCTCTCCTTCTTTTTTT
Found at i:62238600 original size:27 final size:27
Alignment explanation
Indices: 62238559--62238620 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
62238549 GTCTAATAGA
* * * *
62238559 CGGTGCCGCCTCTGCCAGAGTCATAAT
1 CGGTGTCGCCCCTGCCAGAGGCACAAT
*
62238586 CGGTGTCGCCCCTGCCCGAGGCACAAT
1 CGGTGTCGCCCCTGCCAGAGGCACAAT
62238613 CGGTGTCG
1 CGGTGTCG
62238621 GGCCAGAGGC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.15, C:0.35, G:0.31, T:0.19
Consensus pattern (27 bp):
CGGTGTCGCCCCTGCCAGAGGCACAAT
Found at i:62238704 original size:17 final size:17
Alignment explanation
Indices: 62238666--62238707 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
62238656 CCTCCATCCC
62238666 CTTTTTTTCAGATTTTTA
1 CTTTTTTTCA-ATTTTTA
62238684 -TTTTTTTC-ATTTTTAA
1 CTTTTTTTCAATTTTT-A
62238700 CTTTTTTT
1 CTTTTTTT
62238708 TAAATAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 6 0.27
16 1 0.05
17 15 0.68
ACGTcount: A:0.14, C:0.10, G:0.02, T:0.74
Consensus pattern (17 bp):
CTTTTTTTCAATTTTTA
Found at i:62240390 original size:51 final size:51
Alignment explanation
Indices: 62240330--62240516 Score: 284
Period size: 51 Copynumber: 3.7 Consensus size: 51
62240320 TACAAATCAA
* * *
62240330 ATCTCTAAGAATATAAAATTATATCTTCTAAGATTACATATCATATCTAAG
1 ATCTCTAAGAATATAAAATAATATCTTATAAGATTCCATATCATATCTAAG
*
62240381 ATCTCTAAGAATATAATATAATATCTTATAAGATTCCATATCATATCTAAG
1 ATCTCTAAGAATATAAAATAATATCTTATAAGATTCCATATCATATCTAAG
* *
62240432 ATCTCTAAGATTATAATATAATATCTTATAAGATTCCATATCATATCTAAG
1 ATCTCTAAGAATATAAAATAATATCTTATAAGATTCCATATCATATCTAAG
* * * *
62240483 ATCTCTAAGATTATAAAATCATATATTTTAAGAT
1 ATCTCTAAGAATATAAAATAATATCTTATAAGAT
62240517 CATGTTTCCA
Statistics
Matches: 127, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 127 1.00
ACGTcount: A:0.43, C:0.13, G:0.06, T:0.39
Consensus pattern (51 bp):
ATCTCTAAGAATATAAAATAATATCTTATAAGATTCCATATCATATCTAAG
Found at i:62240399 original size:29 final size:29
Alignment explanation
Indices: 62240367--62240457 Score: 72
Period size: 29 Copynumber: 3.4 Consensus size: 29
62240357 CTAAGATTAC
*
62240367 ATATCATATCTAAGATCTCTAAGAATATA
1 ATATAATATCTAAGATCTCTAAGAATATA
* *
62240396 ATATAATATC-----T-TATAAG-AT-TCC
1 ATATAATATCTAAGATCTCTAAGAATAT-A
* *
62240418 ATATCATATCTAAGATCTCTAAGATTATA
1 ATATAATATCTAAGATCTCTAAGAATATA
62240447 ATATAATATCT
1 ATATAATATCT
62240458 TATAAGATTC
Statistics
Matches: 45, Mismatches: 8, Indels: 18
0.63 0.11 0.25
Matches are distributed among these distances:
21 1 0.02
22 11 0.24
23 5 0.11
24 1 0.02
27 1 0.02
28 5 0.11
29 20 0.44
30 1 0.02
ACGTcount: A:0.43, C:0.13, G:0.05, T:0.38
Consensus pattern (29 bp):
ATATAATATCTAAGATCTCTAAGAATATA
Found at i:62240421 original size:22 final size:22
Alignment explanation
Indices: 62240396--62240479 Score: 60
Period size: 22 Copynumber: 3.5 Consensus size: 22
62240386 TAAGAATATA
62240396 ATATAATATCTTATAAGATTCC
1 ATATAATATCTTATAAGATTCC
* * **
62240418 ATATCATATCTAAGATCTCTAAGATTATA
1 ATATAATATC-----T-TATAAGATT-CC
62240447 ATATAATATCTTATAAGATTCC
1 ATATAATATCTTATAAGATTCC
*
62240469 ATATCATATCT
1 ATATAATATCT
62240480 AAGATCTCTA
Statistics
Matches: 46, Mismatches: 9, Indels: 14
0.67 0.13 0.20
Matches are distributed among these distances:
22 19 0.41
23 8 0.17
24 1 0.02
27 1 0.02
28 8 0.17
29 9 0.20
ACGTcount: A:0.40, C:0.14, G:0.05, T:0.40
Consensus pattern (22 bp):
ATATAATATCTTATAAGATTCC
Found at i:62241587 original size:96 final size:96
Alignment explanation
Indices: 62241421--62241614 Score: 239
Period size: 96 Copynumber: 2.0 Consensus size: 96
62241411 TCGCTTCTTT
* * * * * *
62241421 TTGCTCCTTTTAGCCCTCTTGGCTTCGACTTTACGCTTGCTCGAACTAAGCTTCTTGGGCTCCTT
1 TTGCTCCTTTTAGCCCTCTTGGCTTCAACTTTACGCTTACTCAAACCAAGCTTCCTGGGCTCCGT
* * *
62241486 GTCTGCTCCAT-ATTTCCCTTCGATAACAGAC
66 ATCTGCTCCATCA-TTCCCATCAATAACAGAC
* * *
62241517 TTGCTCCTCTTT-GCCCTTTTGGCTTCAACTTTTCTCTTACTCAAACCAAGCTTCCTGGGCTCCG
1 TTGCTCCT-TTTAGCCCTCTTGGCTTCAACTTTACGCTTACTCAAACCAAGCTTCCTGGGCTCCG
*
62241581 TATCTGCTCGATCATTCCCATCAATAACAGAC
65 TATCTGCTCCATCATTCCCATCAATAACAGAC
62241613 TT
1 TT
62241615 CATTGGACAC
Statistics
Matches: 83, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
96 79 0.95
97 4 0.05
ACGTcount: A:0.16, C:0.32, G:0.14, T:0.37
Consensus pattern (96 bp):
TTGCTCCTTTTAGCCCTCTTGGCTTCAACTTTACGCTTACTCAAACCAAGCTTCCTGGGCTCCGT
ATCTGCTCCATCATTCCCATCAATAACAGAC
Found at i:62243331 original size:51 final size:51
Alignment explanation
Indices: 62243271--62243457 Score: 266
Period size: 51 Copynumber: 3.7 Consensus size: 51
62243261 TACAAATCAA
* * * * *
62243271 ATCTCTAAGAATATAAAATCATATATTCTAAGATTACATATAATATCTAAG
1 ATCTCTAAGAATATAAAATAATATCTTATAAGATTCCATATCATATCTAAG
*
62243322 ATCTCTAAGAATATAATATAATATCTTATAAGATTCCATATCATATCTAAG
1 ATCTCTAAGAATATAAAATAATATCTTATAAGATTCCATATCATATCTAAG
* * *
62243373 ATCTCTAAGATTAGAATATAATATCTTATAAGATTCCATATCATATCTAAG
1 ATCTCTAAGAATATAAAATAATATCTTATAAGATTCCATATCATATCTAAG
* * *
62243424 ATCTCTAAGATTATAAAATCATATCTTTTAAGAT
1 ATCTCTAAGAATATAAAATAATATCTTATAAGAT
62243458 CATGTTTCTA
Statistics
Matches: 124, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 124 1.00
ACGTcount: A:0.43, C:0.13, G:0.06, T:0.37
Consensus pattern (51 bp):
ATCTCTAAGAATATAAAATAATATCTTATAAGATTCCATATCATATCTAAG
Found at i:62243362 original size:22 final size:22
Alignment explanation
Indices: 62243337--62243420 Score: 60
Period size: 22 Copynumber: 3.5 Consensus size: 22
62243327 TAAGAATATA
62243337 ATATAATATCTTATAAGATTCC
1 ATATAATATCTTATAAGATTCC
* * **
62243359 ATATCATATCTAAGATCTCTAAGATTAGA
1 ATATAATATC-----T-TATAAGATT-CC
62243388 ATATAATATCTTATAAGATTCC
1 ATATAATATCTTATAAGATTCC
*
62243410 ATATCATATCT
1 ATATAATATCT
62243421 AAGATCTCTA
Statistics
Matches: 46, Mismatches: 9, Indels: 14
0.67 0.13 0.20
Matches are distributed among these distances:
22 19 0.41
23 8 0.17
24 1 0.02
27 1 0.02
28 8 0.17
29 9 0.20
ACGTcount: A:0.40, C:0.14, G:0.06, T:0.39
Consensus pattern (22 bp):
ATATAATATCTTATAAGATTCC
Found at i:62243391 original size:29 final size:29
Alignment explanation
Indices: 62243297--62243449 Score: 93
Period size: 29 Copynumber: 5.8 Consensus size: 29
62243287 AATCATATAT
*
62243297 TCTAAGATTAC-ATATAATATCTAAGATC
1 TCTAAGATTACAATATCATATCTAAGATC
* * *
62243325 TCTAAGAATATAATATAATATC-----T-
1 TCTAAGATTACAATATCATATCTAAGATC
* *
62243348 TATAAGATT-CCATATCATATCTAAGATC
1 TCTAAGATTACAATATCATATCTAAGATC
* *
62243376 TCTAAGATTAGAATATAATATC-----T-
1 TCTAAGATTACAATATCATATCTAAGATC
* *
62243399 TATAAGATT-CCATATCATATCTAAGATC
1 TCTAAGATTACAATATCATATCTAAGATC
* *
62243427 TCTAAGATTATAAAATCATATCT
1 TCTAAGATTACAATATCATATCT
62243450 TTTAAGATCA
Statistics
Matches: 91, Mismatches: 19, Indels: 29
0.65 0.14 0.21
Matches are distributed among these distances:
22 18 0.20
23 15 0.16
24 2 0.02
27 2 0.02
28 25 0.27
29 29 0.32
ACGTcount: A:0.42, C:0.14, G:0.07, T:0.37
Consensus pattern (29 bp):
TCTAAGATTACAATATCATATCTAAGATC
Found at i:62254812 original size:33 final size:33
Alignment explanation
Indices: 62254767--62254984 Score: 147
Period size: 33 Copynumber: 6.7 Consensus size: 33
62254757 TTCGAGGTGC
*
62254767 ACAT-TCCTTTTTCAAGTGGTACACACGAAGTGT
1 ACATATCC-TTTTCAAGTGGTACACACAAAGTGT
* * * * * *
62254800 ACATACCCTTTTCAATTTGTACACTCAAAATGC
1 ACATATCCTTTTCAAGTGGTACACACAAAGTGT
* * * *
62254833 ACATAACTTTTTCAAGT-GTACACATATAGTGT
1 ACATATCCTTTTCAAGTGGTACACACAAAGTGT
* * * ** *
62254865 ACCTTTCCTTTTCAAGTGGTATATGCAAAGTAT
1 ACATATCCTTTTCAAGTGGTACACACAAAGTGT
* * * * * *
62254898 ACCTTTCCTTTTCATA-TGGCATACAAAAAGTAT
1 ACATATCCTTTTCA-AGTGGTACACACAAAGTGT
* *
62254931 ACCTTTCCTTTTCAAGT-GTACACACAAAGTGT
1 ACATATCCTTTTCAAGTGGTACACACAAAGTGT
* *
62254963 ACATAACCTTTTCAAGTTGTAC
1 ACATATCCTTTTCAAGTGGTAC
62254985 CATTTGAATA
Statistics
Matches: 144, Mismatches: 36, Indels: 10
0.76 0.19 0.05
Matches are distributed among these distances:
32 49 0.34
33 92 0.64
34 3 0.02
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.36
Consensus pattern (33 bp):
ACATATCCTTTTCAAGTGGTACACACAAAGTGT
Found at i:62255378 original size:26 final size:26
Alignment explanation
Indices: 62255349--62255430 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
62255339 TGATAAAAAT
*
62255349 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
62255375 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
62255401 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
62255427 TGAT
1 TGAT
62255431 GGGCATTTCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.32, C:0.07, G:0.26, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:62257107 original size:54 final size:54
Alignment explanation
Indices: 62257025--62257168 Score: 236
Period size: 54 Copynumber: 2.7 Consensus size: 54
62257015 TGGAGGAAGC
*
62257025 GTCCTGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
62257079 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* * *
62257133 GTTCTGGTGGCTCTGCTACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
62257169 ACTTCCTCAC
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
53 6 0.07
54 79 0.93
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:62257164 original size:32 final size:27
Alignment explanation
Indices: 62257028--62257168 Score: 173
Period size: 27 Copynumber: 5.2 Consensus size: 27
62257018 AGGAAGCGTC
*
62257028 CTGGTGGCTATGCCACA-ATTATCTGAT
1 CTGGTGGCTCTGCCACATA-TATCTGAT
*
62257055 TTGGTGGCTCTGCCACATATATCTG-T
1 CTGGTGGCTCTGCCACATATATCTGAT
*
62257081 CCTGGTGGCTATGCCACA-ATTATCTGAT
1 -CTGGTGGCTCTGCCACATA-TATCTGAT
*
62257109 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
*
62257136 CTGGTGGCTCTGCTACA-ATATCTGTAT
1 CTGGTGGCTCTGCCACATATATCTG-AT
62257163 CTGGTG
1 CTGGTG
62257169 ACTTCCTCAC
Statistics
Matches: 100, Mismatches: 8, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
26 9 0.09
27 88 0.88
28 3 0.03
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGAT
Found at i:62257180 original size:27 final size:28
Alignment explanation
Indices: 62257028--62257186 Score: 158
Period size: 27 Copynumber: 5.9 Consensus size: 28
62257018 AGGAAGCGTC
*
62257028 CTGGTGGCTATGC-CACAATTATCTG-AT
1 CTGGTGGCTCTGCTCACAA-TATCTGTAT
* *
62257055 TTGGTGGCTCTGC-CACATATATCTGT-C
1 CTGGTGGCTCTGCTCACA-ATATCTGTAT
*
62257082 CTGGTGGCTATGC-CACAATTATCTG-AT
1 CTGGTGGCTCTGCTCACAA-TATCTGTAT
62257109 CTGGTGGCTCTGC-CACATATATCTGT-T
1 CTGGTGGCTCTGCTCACA-ATATCTGTAT
62257136 CTGGTGGCTCTGCT-ACAATATCTGTAT
1 CTGGTGGCTCTGCTCACAATATCTGTAT
* *
62257163 CTGGTGACT-TCCTCACAATATCTG
1 CTGGTGGCTCTGCTCACAATATCTG
62257187 GCAGCCTCGC
Statistics
Matches: 114, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
26 12 0.11
27 100 0.88
28 2 0.02
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (28 bp):
CTGGTGGCTCTGCTCACAATATCTGTAT
Found at i:62257180 original size:81 final size:80
Alignment explanation
Indices: 62257028--62257186 Score: 200
Period size: 81 Copynumber: 2.0 Consensus size: 80
62257018 AGGAAGCGTC
*
62257028 CTGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
*
62257093 GCCACAATTATCTGAT
66 CCCACAA-TATCTGAT
* * *
62257109 CTGGTGGCTCTGCCAC-ATATATCTG-TTCTGGTGGCTCTGCTACA-ATATCTGTATCTGGTGAC
1 CTGGTGGCTATGCCACAAT-TATCTGATT-TGGTGGCTCTGCCACATATATCTGT-CCTGGTGAC
62257171 T-TCCTCACAATATCTG
63 TATCC-CACAATATCTG
62257187 GCAGCCTCGC
Statistics
Matches: 69, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
80 20 0.29
81 49 0.71
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
CCCACAATATCTGAT
Found at i:62265461 original size:33 final size:32
Alignment explanation
Indices: 62265412--62265527 Score: 103
Period size: 33 Copynumber: 3.6 Consensus size: 32
62265402 ATGGAATTTT
* *
62265412 CCTTTTCTAGTTGTACACTCAAGATGCACATT
1 CCTTTTCAAGTTGTACACTCAAGATGCACATA
* * *
62265444 CTCTTTTCAAGTGGTACACACGAAG-TGTACATA
1 C-CTTTTCAAGTTGTACACTC-AAGATGCACATA
* *
62265477 CCCTTTTCAATTTGTACATTCAA-AGTGCACATAA
1 -CCTTTTCAAGTTGTACACTCAAGA-TGCACAT-A
62265511 CCTTTTCAAG-TGTACAC
1 CCTTTTCAAGTTGTACAC
62265528 ATATAGTGTA
Statistics
Matches: 66, Mismatches: 12, Indels: 12
0.73 0.13 0.13
Matches are distributed among these distances:
32 9 0.14
33 52 0.79
34 5 0.08
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.34
Consensus pattern (32 bp):
CCTTTTCAAGTTGTACACTCAAGATGCACATA
Found at i:62265578 original size:33 final size:32
Alignment explanation
Indices: 62265511--62265632 Score: 156
Period size: 33 Copynumber: 3.8 Consensus size: 32
62265501 GTGCACATAA
* * *
62265511 CCTTTTCAAGTGTACACATATAGTGTACCTTT
1 CCTTTTCAAGTGTACACACAAAGTATACCTTT
*
62265543 CCTTTTCAAGTGGTATACACAAAGTATACCTTT
1 CCTTTTCAAGT-GTACACACAAAGTATACCTTT
* *
62265576 CCTTTTCATA-TGGTATACGCAAAGTATACCTTT
1 CCTTTTCA-AGT-GTACACACAAAGTATACCTTT
62265609 CCTTTTCAAGTGTACACACAAAGT
1 CCTTTTCAAGTGTACACACAAAGT
62265633 GTACATAACT
Statistics
Matches: 80, Mismatches: 7, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
32 23 0.29
33 56 0.70
34 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (32 bp):
CCTTTTCAAGTGTACACACAAAGTATACCTTT
Found at i:62268769 original size:22 final size:22
Alignment explanation
Indices: 62268739--62268798 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
62268729 TTATAAACCT
62268739 AAAAAAATAAAAATAAG-CTTA
1 AAAAAAATAAAAATAAGTCTTA
*
62268760 AAGAAAAATAAACAGT-AGTCTTA
1 AA-AAAAATAAA-AATAAGTCTTA
*
62268783 AAAAAAATAAGAATAA
1 AAAAAAATAAAAATAA
62268799 AAACATAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
21 4 0.12
22 20 0.62
23 8 0.25
ACGTcount: A:0.68, C:0.05, G:0.08, T:0.18
Consensus pattern (22 bp):
AAAAAAATAAAAATAAGTCTTA
Found at i:62277873 original size:42 final size:42
Alignment explanation
Indices: 62277826--62278023 Score: 123
Period size: 43 Copynumber: 4.7 Consensus size: 42
62277816 TAGTAAGATC
*
62277826 TCAATGCCATATCCCAGATATGGTCTTACATG-GGATCACATA
1 TCAATGCCATATCCCAGATATGGTCTTACACGAGG-TCACATA
* * * *
62277868 TCAATGCCA-ATGGCTCAGCTATGGTCTTACACGATGTCTCATA
1 TCAATGCCATAT--CCCAGATATGGTCTTACACGAGGTCACATA
* * * * * * *
62277911 TCGATGCCATATCCTAGATATGGTCTTATACAAAGTCTCATTT
1 TCAATGCCATATCCCAGATATGGTCTTACACGAGGTCACA-TA
* ** ** ** *
62277954 TCGAA-GCCATGTCCCAGACGTGGTCTTACACGAAATTGCATG
1 TC-AATGCCATATCCCAGATATGGTCTTACACGAGGTCACATA
* * *
62277996 CCGATGCCATATCCCAAATATGGTCTTA
1 TCAATGCCATATCCCAGATATGGTCTTA
62278024 TATGGAATCT
Statistics
Matches: 119, Mismatches: 30, Indels: 14
0.73 0.18 0.09
Matches are distributed among these distances:
41 3 0.03
42 52 0.44
43 60 0.50
44 4 0.03
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.30
Consensus pattern (42 bp):
TCAATGCCATATCCCAGATATGGTCTTACACGAGGTCACATA
Found at i:62293846 original size:83 final size:83
Alignment explanation
Indices: 62293703--62293878 Score: 255
Period size: 83 Copynumber: 2.1 Consensus size: 83
62293693 GTGGAGCAAG
*
62293703 GTGGGGTGGGGTAAGAATGGATGCACCAACATCCCATGGAAATGGTAGTAGTTTTCAAAATTATA
1 GTGGGGTGGGGTAAGAATGGATGCACCAACATCCCATGGAAATGATAGTAGTTTTCAAAATTATA
* * *
62293768 TATCCATAGTAAAGTGGA
66 CATCCATAATAAAGTAGA
* * *
62293786 GTGGGGTGGGGTTAGAATGGATGCACCAACATCCCATGGAAGTGATAGT-GATTTTTAAAATTAT
1 GTGGGGTGGGGTAAGAATGGATGCACCAACATCCCATGGAAATGATAGTAG-TTTTCAAAATTAT
*
62293850 ACATCCATAATGAAGTAGA
65 ACATCCATAATAAAGTAGA
*
62293869 GTGGGTTGGG
1 GTGGGGTGGG
62293879 ATGGGGTGGA
Statistics
Matches: 83, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
82 1 0.01
83 82 0.99
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.27
Consensus pattern (83 bp):
GTGGGGTGGGGTAAGAATGGATGCACCAACATCCCATGGAAATGATAGTAGTTTTCAAAATTATA
CATCCATAATAAAGTAGA
Found at i:62295845 original size:15 final size:15
Alignment explanation
Indices: 62295798--62295849 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
62295788 TATATTTTGA
*
62295798 TTAAA-TACATAGTT
1 TTAAATTACATATTT
*
62295812 TTACTAATTATATTATTT
1 TTA--AATTACA-TATTT
62295830 TTAAATTACATATTT
1 TTAAATTACATATTT
62295845 TTAAA
1 TTAAA
62295850 AAAAGTATAC
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
14 3 0.10
15 10 0.32
16 8 0.26
17 3 0.10
18 7 0.23
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.52
Consensus pattern (15 bp):
TTAAATTACATATTT
Found at i:62298321 original size:53 final size:52
Alignment explanation
Indices: 62298243--62298396 Score: 184
Period size: 53 Copynumber: 2.9 Consensus size: 52
62298233 TACACGGGAG
* *
62298243 CACTTATCACTTTTCTCCGATGCCATAGCCCAGCTATGGTCTTATACG-GAT
1 CACTTATCACTTTTATCCGATGCCATAGCCCAGCTATGGTCTTATACGAAAT
* * * * *
62298294 CACTTGTATCACTTTAATCCGAAGCCATAACCCAACTATGATCTTATACGAAAAT
1 CAC-T-TATCACTTTTATCCGATGCCATAGCCCAGCTATGGTCTTATACG-AAAT
* *
62298349 CACTTATCACTTGTTTTTCGATGCCATAGCCCAGCTATGGTCTTATAC
1 CACTTATCACTT-TTATCCGATGCCATAGCCCAGCTATGGTCTTATAC
62298397 AGATATAGCT
Statistics
Matches: 84, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
51 3 0.04
52 1 0.01
53 46 0.55
54 29 0.35
55 5 0.06
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.33
Consensus pattern (52 bp):
CACTTATCACTTTTATCCGATGCCATAGCCCAGCTATGGTCTTATACGAAAT
Found at i:62298416 original size:54 final size:52
Alignment explanation
Indices: 62298244--62298418 Score: 167
Period size: 53 Copynumber: 3.3 Consensus size: 52
62298234 ACACGGGAGC
* *
62298244 ACTTATCACTT-TTCTCCGATGCCATAGCCCAGCTATGGTCTTATACGGAT-C
1 ACTTATCACTTGTTATCCGATGCCATAGCCCAGCTATGGTCTTATAC-GATAT
* * * * * *
62298295 ACTTGTATCACTT-TAATCCGAAGCCATAACCCAACTATGATCTTATACGAAAAT
1 AC-T-TATCACTTGTTATCCGATGCCATAGCCCAGCTATGGTCTTATACG-ATAT
* *
62298349 CACTTATCACTTGTTTTTCGATGCCATAGCCCAGCTATGGTCTTATACAGATAT
1 -ACTTATCACTTGTTATCCGATGCCATAGCCCAGCTATGGTCTTATAC-GATAT
*
62298403 AGCTTATCTCTTGTTA
1 A-CTTATCACTTGTTA
62298419 CCATGGTCCA
Statistics
Matches: 98, Mismatches: 18, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
51 2 0.02
52 2 0.02
53 47 0.48
54 44 0.45
55 3 0.03
ACGTcount: A:0.27, C:0.25, G:0.13, T:0.35
Consensus pattern (52 bp):
ACTTATCACTTGTTATCCGATGCCATAGCCCAGCTATGGTCTTATACGATAT
Found at i:62299975 original size:19 final size:19
Alignment explanation
Indices: 62299953--62299993 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
62299943 TTTATTGATA
62299953 TTTTTA-TATTTAATCTAG
1 TTTTTATTATTTAATCTAG
* *
62299971 TTTTTATTATTTATTTTAG
1 TTTTTATTATTTAATCTAG
62299990 TTTT
1 TTTT
62299994 GATTCTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.71
Consensus pattern (19 bp):
TTTTTATTATTTAATCTAG
Found at i:62310013 original size:114 final size:114
Alignment explanation
Indices: 62309813--62310050 Score: 404
Period size: 114 Copynumber: 2.1 Consensus size: 114
62309803 GACAGGGACA
** * *
62309813 TGCCCGTGTATGATTACTTCAGGACGTGGTCAATCCTGTTAAATAGGCACGGGCGTGTGGTCTAC
1 TGCCCGTGTGCGATTACTTCAGGACATGGTCAAGCCTGTTAAATAGGCACGGGCGTGTGGTCTAC
* *
62309878 CCGTGTGGGTCGTGCTTCGATTCTGCCAAATTGATACGGCCGTGTGGTC
66 CCGTGTGAGTCGTGCTTCGATTCTGCCAAATTGACACGGCCGTGTGGTC
* *
62309927 TGCCCGTGTGCGATTACTTCAGGCCATGGTCAAGCCTGTTAAATAGGCATGGGCGTGTGGTCTAC
1 TGCCCGTGTGCGATTACTTCAGGACATGGTCAAGCCTGTTAAATAGGCACGGGCGTGTGGTCTAC
62309992 CCGTGTGAGTCGTGCTTCGATTCTGCCAAATTGACACGGCCGTGTGGTC
66 CCGTGTGAGTCGTGCTTCGATTCTGCCAAATTGACACGGCCGTGTGGTC
62310041 TGCCCGTGTG
1 TGCCCGTGTG
62310051 AGGAAGTCTA
Statistics
Matches: 116, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
114 116 1.00
ACGTcount: A:0.16, C:0.24, G:0.31, T:0.29
Consensus pattern (114 bp):
TGCCCGTGTGCGATTACTTCAGGACATGGTCAAGCCTGTTAAATAGGCACGGGCGTGTGGTCTAC
CCGTGTGAGTCGTGCTTCGATTCTGCCAAATTGACACGGCCGTGTGGTC
Found at i:62314273 original size:36 final size:35
Alignment explanation
Indices: 62314240--62314309 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
62314230 TAAAGAAGTT
* *
62314240 AATATTGTTAGTGCTCGGGCTGCCTTCCAAGAAGCG
1 AATATT-TAAGTGCTCGGGCTGCCTCCCAAGAAGCG
** *
62314276 CTTATTTAAGTGCTCGGGTTGCCTCCCAAGAAGC
1 AATATTTAAGTGCTCGGGCTGCCTCCCAAGAAGC
62314310 ACTTATTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
35 25 0.86
36 4 0.14
ACGTcount: A:0.21, C:0.24, G:0.26, T:0.29
Consensus pattern (35 bp):
AATATTTAAGTGCTCGGGCTGCCTCCCAAGAAGCG
Found at i:62314289 original size:35 final size:35
Alignment explanation
Indices: 62314249--62314318 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
62314239 TAATATTGTT
* *
62314249 AGTGCTCGGGCTGCCTTCCAAGAAGCGCTTATTTA
1 AGTGCTCGGGCTGCCTCCCAAGAAGCACTTATTTA
*
62314284 AGTGCTCGGGTTGCCTCCCAAGAAGCACTTATTTA
1 AGTGCTCGGGCTGCCTCCCAAGAAGCACTTATTTA
62314319 TAGTCTAAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.29
Consensus pattern (35 bp):
AGTGCTCGGGCTGCCTCCCAAGAAGCACTTATTTA
Found at i:62322052 original size:41 final size:42
Alignment explanation
Indices: 62321958--62322106 Score: 126
Period size: 43 Copynumber: 3.5 Consensus size: 42
62321948 TACAATTTCA
* **
62321958 ATGTCCCAGACATGGTCTTACATGCTATCTCATATCAATGCC
1 ATGTCCCAGACATGGTCTTACATGCAATCAAATATCAATGCC
*
62322000 ACTGTCCCAGACA-GGATCTTACATG-AATCAAATAT-GATGCC
1 A-TGTCCCAGACATGG-TCTTACATGCAATCAAATATCAATGCC
* * * *
62322041 GATGTCCCAGACATGGTCTTAC-TCGTAACCACATATCGATGCC
1 -ATGTCCCAGACATGGTCTTACAT-GCAATCAAATATCAATGCC
* * *
62322084 AACGTCCCAAACGTGGTCTTACA
1 -ATGTCCCAGACATGGTCTTACA
62322107 CAAAAACACA
Statistics
Matches: 89, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
40 1 0.01
41 23 0.26
42 21 0.24
43 44 0.49
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (42 bp):
ATGTCCCAGACATGGTCTTACATGCAATCAAATATCAATGCC
Found at i:62322146 original size:45 final size:45
Alignment explanation
Indices: 62322073--62322164 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
62322063 TCGTAACCAC
* *
62322073 ATATCGATGCCAACGTCCCAAACGTGGTCTTACACAAAAACACAT
1 ATATCGATACCAACATCCCAAACGTGGTCTTACACAAAAACACAT
* * * **
62322118 ATATTGATACCAACATCCCAGATGTGGTCTTACATGAAAACACAT
1 ATATCGATACCAACATCCCAAACGTGGTCTTACACAAAAACACAT
62322163 AT
1 AT
62322165 CAGAATTCTA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.24
Consensus pattern (45 bp):
ATATCGATACCAACATCCCAAACGTGGTCTTACACAAAAACACAT
Found at i:62342452 original size:29 final size:29
Alignment explanation
Indices: 62342418--62342476 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
62342408 AAATAATAAG
62342418 AAAGTGAGAAAATTGAAGTGAATCCACTA
1 AAAGTGAGAAAATTGAAGTGAATCCACTA
62342447 AAAGTGAGAAAATTGAAGTGAATCCACTA
1 AAAGTGAGAAAATTGAAGTGAATCCACTA
62342476 A
1 A
62342477 TTGATTATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.49, C:0.10, G:0.20, T:0.20
Consensus pattern (29 bp):
AAAGTGAGAAAATTGAAGTGAATCCACTA
Found at i:62354842 original size:19 final size:20
Alignment explanation
Indices: 62354815--62354854 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
62354805 TTTGAAATAT
*
62354815 TTTTATATATTGTT-TTTAA
1 TTTTATATATTATTGTTTAA
*
62354834 TTTTCTATATTATTGTTTAA
1 TTTTATATATTATTGTTTAA
62354854 T
1 T
62354855 AAATTTTAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.25, C:0.03, G:0.05, T:0.68
Consensus pattern (20 bp):
TTTTATATATTATTGTTTAA
Found at i:62362818 original size:47 final size:47
Alignment explanation
Indices: 62362765--62362873 Score: 182
Period size: 47 Copynumber: 2.3 Consensus size: 47
62362755 TTAGGATTTT
62362765 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
62362812 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGTCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
62362859 ATGTGGTGAATGTGA
1 ATGTGATGAATGTGA
62362874 CAGCCCAAAG
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 58 1.00
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:62364438 original size:40 final size:40
Alignment explanation
Indices: 62364354--62364578 Score: 249
Period size: 40 Copynumber: 5.7 Consensus size: 40
62364344 TTGAATACTG
* * * * *
62364354 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAA
** * *
62364394 TCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAA
* * *
62364434 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAA
*
62364474 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAA
* *
62364514 TCCGGGTTAAGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAA
* * *
62364553 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
62364579 AACGAGGAGC
Statistics
Matches: 157, Mismatches: 24, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
39 34 0.22
40 115 0.73
41 8 0.05
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAA
Found at i:62364491 original size:80 final size:79
Alignment explanation
Indices: 62364354--62364578 Score: 283
Period size: 80 Copynumber: 2.8 Consensus size: 79
62364344 TTGAATACTG
* * * * *
62364354 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGACTATATCCGGACTAAGAT-CCGAAGGTAT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGA-T-ACTAAATCCGGGCTAAG-TCCCGAAGGCAT
*
62364417 TTGTGCGAGTTATTAAT
63 TTGTGCGAGTTATTAAA
* *
62364434 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGG-CTTTGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTT
62364499 GTGCGAGTTATTAAA
65 GTGCGAGTTATTAAA
* * * * *
62364514 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
62364579 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
79 39 0.31
80 77 0.61
81 10 0.08
82 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTTATTAAA
Found at i:62364596 original size:79 final size:80
Alignment explanation
Indices: 62364434--62364611 Score: 209
Period size: 79 Copynumber: 2.2 Consensus size: 80
62364424 AGTTATTAAT
* * *
62364434 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
62364499 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
62364514 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
62364578 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
62364593 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
62364612 TACGTGATTT
Statistics
Matches: 84, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.57
80 20 0.24
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:62365997 original size:25 final size:25
Alignment explanation
Indices: 62365969--62366039 Score: 71
Period size: 25 Copynumber: 3.0 Consensus size: 25
62365959 ACAGTGAATA
62365969 TGAACATGCATATATGTGAT-AAGG
1 TGAACATGCATATATGTGATGAAGG
* *
62365993 CTG-A-ATGGC--CTATGTGATGAATG
1 -TGAACAT-GCATATATGTGATGAAGG
62366016 TGAACATGCATATATGTGATGAAG
1 TGAACATGCATATATGTGATGAAG
62366040 CCGAATGGCC
Statistics
Matches: 36, Mismatches: 4, Indels: 12
0.69 0.08 0.23
Matches are distributed among these distances:
22 10 0.28
23 8 0.22
24 5 0.14
25 13 0.36
ACGTcount: A:0.34, C:0.10, G:0.27, T:0.30
Consensus pattern (25 bp):
TGAACATGCATATATGTGATGAAGG
Found at i:62366019 original size:22 final size:23
Alignment explanation
Indices: 62365981--62366062 Score: 64
Period size: 22 Copynumber: 3.6 Consensus size: 23
62365971 AACATGCATA
*
62365981 TATGTGAT-AAGGCTGAATGGCC
1 TATGTGATGAATGCTGAATGGCC
*
62366003 TATGTGATGAATG-TGAACAT-GCATA
1 TATGTGATGAATGCTG-A-ATGGC--C
*
62366028 TATGTGATGAA-GCCGAATGGCC
1 TATGTGATGAATGCTGAATGGCC
*
62366050 AATGTGATGAATG
1 TATGTGATGAATG
62366063 TGAGCATGCA
Statistics
Matches: 47, Mismatches: 5, Indels: 15
0.70 0.07 0.22
Matches are distributed among these distances:
22 20 0.43
23 9 0.19
24 6 0.13
25 12 0.26
ACGTcount: A:0.32, C:0.11, G:0.29, T:0.28
Consensus pattern (23 bp):
TATGTGATGAATGCTGAATGGCC
Found at i:62366032 original size:47 final size:47
Alignment explanation
Indices: 62365963--62366283 Score: 464
Period size: 47 Copynumber: 6.8 Consensus size: 47
62365953 GGTGTTACAG
* * *
62365963 TGAATATGAACATGCATATATGTGATAAGGCTGAATGGCCTATGTGA
1 TGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGA
62366010 TGAATGTGAACATGCATATATGTGATGAA-GCCGAATGGCCAATGTGA
1 TGAATGTGAACATGCATATATGTGAT-AAGGCCGAATGGCCAATGTGA
* * *
62366057 TGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGG
1 TGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGA
* *
62366104 TGAATGTGAACATGCCTATATGTGATGAGGCCGAATGGCCAATGTGA
1 TGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGA
* *
62366151 TAAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCAATGTGA
1 TGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGA
* * *
62366198 TGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGG
1 TGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGA
* * * * *
62366245 TGAATATGAAAATGCATATATGCGGTAAAGCCGAATGGC
1 TGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
62366284 TAGTGTGAAA
Statistics
Matches: 247, Mismatches: 25, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
46 2 0.01
47 243 0.98
48 2 0.01
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.26
Consensus pattern (47 bp):
TGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGA
Found at i:62366216 original size:141 final size:141
Alignment explanation
Indices: 62365962--62366283 Score: 529
Period size: 141 Copynumber: 2.3 Consensus size: 141
62365952 GGGTGTTACA
* * *
62365962 GTGAATATGAACATGCATATATGTGATAAGGCTGAATGGCCTATGTGATGAATGTGAACATGCAT
1 GTGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATAAATGTGAACATGCAT
62366027 ATATGTGATGAAGCCGAATGGCCAATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAA
66 ATATGTGATGAAGCCGAATGGCCAATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAA
62366092 TGGCCAATGTG
131 TGGCCAATGTG
* * * *
62366103 GTGAATGTGAACATGCCTATATGTGATGAGGCCGAATGGCCAATGTGATAAATGTGAGCATGCAT
1 GTGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATAAATGTGAACATGCAT
62366168 ATATGTGAT-AAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGA
66 ATATGTGATGAA-GCCGAATGGCCAATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGA
62366232 ATGGCCAATGTG
130 ATGGCCAATGTG
* * * *
62366244 GTGAATATGAAAATGCATATATGCGGTAAAGCCGAATGGC
1 GTGAATATGAACATGCATATATGTGATAAGGCCGAATGGC
62366284 TAGTGTGAAA
Statistics
Matches: 166, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
140 2 0.01
141 164 0.99
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.26
Consensus pattern (141 bp):
GTGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATAAATGTGAACATGCAT
ATATGTGATGAAGCCGAATGGCCAATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAA
TGGCCAATGTG
Found at i:62366247 original size:25 final size:25
Alignment explanation
Indices: 62366172--62366247 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
62366162 ATGCATATAT
62366172 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
62366197 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
62366219 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
62366244 GTGA
1 GTGA
62366248 ATATGAAAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:62366496 original size:37 final size:37
Alignment explanation
Indices: 62366446--62366554 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
62366436 GGAAATATAT
*
62366446 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
62366483 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
62366520 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTA
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTA
62366555 CTTCCGAGCT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:62367890 original size:40 final size:40
Alignment explanation
Indices: 62367847--62368175 Score: 444
Period size: 40 Copynumber: 8.2 Consensus size: 40
62367837 GGCTAAATCT
*
62367847 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTT
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
62367887 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
* * * * * *
62367927 TGAAGAGCATTCGTGCTAATGATATATCCGGGCTAAATCC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
62367967 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
* * * *
62368007 CGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
62368047 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
* ***
62368087 CGAAGAGCATTCGTGCTAGTGATATATCCGTG-CTAAACCC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCG-GACTAAGTTC
* * * * * * *
62368127 CGAAGAGCATTTGTGCTGGTGTTATATCCGGGCTAGGTCC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
62368167 CGAAGAGCA
1 CGAAGAGCA
62368176 ATCATGCTGG
Statistics
Matches: 256, Mismatches: 31, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
39 1 0.00
40 254 0.99
41 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
Found at i:62367957 original size:80 final size:80
Alignment explanation
Indices: 62367847--62368175 Score: 514
Period size: 80 Copynumber: 4.1 Consensus size: 80
62367837 GGCTAAATCT
* * * **
62367847 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTTCGAAGAGCATTCGTGCTAGTGATGT
1 CGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGT
62367912 ATCCGGACTAAGTTC
66 ATCCGGACTAAGTTC
* *
62367927 TGAAGAGCATTCGTGCTAATGATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGT
1 CGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGT
62367992 ATCCGGACTAAGTTC
66 ATCCGGACTAAGTTC
62368007 CGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGT
1 CGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGT
62368072 ATCCGGACTAAGTTC
66 ATCCGGACTAAGTTC
* * * * * *
62368087 CGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAAACCCCGAAGAGCATTTGTGCTGGTGTTAT
1 CGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGT
* * *
62368152 ATCCGGGCTAGGTCC
66 ATCCGGACTAAGTTC
62368167 CGAAGAGCA
1 CGAAGAGCA
62368176 ATCATGCTGG
Statistics
Matches: 231, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
80 231 1.00
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (80 bp):
CGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGT
ATCCGGACTAAGTTC
Found at i:62368052 original size:120 final size:120
Alignment explanation
Indices: 62367833--62368175 Score: 490
Period size: 120 Copynumber: 2.9 Consensus size: 120
62367823 GAGTGAAATG
* *
62367833 TCCGGGCTAAATCTCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTTCGAAGAGCATT
1 TCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATT
* * * *
62367898 CGTGCTAGTGATGTATCCGGACTAAGTTCTGAAGAGCATTCGTGCTAATGATATA
66 CGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAATGATATA
62367953 TCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATT
1 TCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATT
* * *
62368018 CGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGTA
66 CGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAATGATATA
* * * * ***
62368073 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGTG-CTAAACCCCGAAGAGCAT
1 TCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGTATCCG-GACTAAGTTCCGAAGAGCAT
* * * *
62368137 TTGTGCTGGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
65 TCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCA
62368176 ATCATGCTGG
Statistics
Matches: 201, Mismatches: 21, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
120 200 1.00
121 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (120 bp):
TCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATT
CGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAATGATATA
Found at i:62391506 original size:70 final size:72
Alignment explanation
Indices: 62391392--62391542 Score: 243
Period size: 71 Copynumber: 2.1 Consensus size: 72
62391382 GGGGAATCAT
* *
62391392 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTT-TCATTTCAAATATACAATG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATG
62391456 GATATCG
66 GATATCG
***
62391463 CACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATG
62391527 GATATCG
66 GATATCG
62391534 CACTTAGCA
1 CACTTAGCA
62391543 CCACCAATGA
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 28 0.38
71 46 0.62
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (72 bp):
CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATG
GATATCG
Found at i:62391646 original size:104 final size:103
Alignment explanation
Indices: 62391462--62391684 Score: 367
Period size: 104 Copynumber: 2.2 Consensus size: 103
62391452 AATGGATATC
62391462 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
* *
62391527 GATATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GATATCGCACATAGCACCACCAATAAACCGGGGAATCA
62391565 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
62391630 GGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCA
65 GGAT-ATCGCACATAGCACCACCAATAAACCGGGGAATCA
**
62391669 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
62391685 TTTATATACA
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 17 0.15
104 94 0.84
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (103 bp):
GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
GATATCGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:62392046 original size:29 final size:29
Alignment explanation
Indices: 62392013--62392076 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
62392003 TAATCCACCA
62392013 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
62392042 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
62392072 CCCAA
1 CCCAA
62392077 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:62392050 original size:30 final size:30
Alignment explanation
Indices: 62392020--62392076 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
62392010 CCACCCAACT
62392020 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
62392049 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
62392077 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:62399059 original size:70 final size:72
Alignment explanation
Indices: 62398945--62399095 Score: 243
Period size: 71 Copynumber: 2.1 Consensus size: 72
62398935 GGGGAATCAT
* *
62398945 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTT-TCATTTCAAATATACAATG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATG
62399009 GATATCG
66 GATATCG
***
62399016 CACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATG
62399080 GATATCG
66 GATATCG
62399087 CACTTAGCA
1 CACTTAGCA
62399096 CCACCAATGA
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 28 0.38
71 46 0.62
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (72 bp):
CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATG
GATATCG
Found at i:62399199 original size:104 final size:103
Alignment explanation
Indices: 62399015--62399237 Score: 367
Period size: 104 Copynumber: 2.2 Consensus size: 103
62399005 AATGGATATC
62399015 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
* *
62399080 GATATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GATATCGCACATAGCACCACCAATAAACCGGGGAATCA
62399118 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
62399183 GGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCA
65 GGAT-ATCGCACATAGCACCACCAATAAACCGGGGAATCA
**
62399222 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
62399238 TTTATATACA
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 17 0.15
104 94 0.84
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (103 bp):
GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
GATATCGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:62399599 original size:29 final size:29
Alignment explanation
Indices: 62399566--62399629 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
62399556 TAATCCACCA
62399566 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
62399595 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
62399625 CCCAA
1 CCCAA
62399630 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:62399603 original size:30 final size:30
Alignment explanation
Indices: 62399573--62399629 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
62399563 CCACCCAACT
62399573 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
62399602 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
62399630 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:62417436 original size:296 final size:296
Alignment explanation
Indices: 62416902--62417474 Score: 952
Period size: 296 Copynumber: 1.9 Consensus size: 296
62416892 TAGCATATCG
*
62416902 TACCATGCAATGCTAAACTTGGTCTTCCACTGTCTACACTCTTATCACTATTTATCCCTTCTTGA
1 TACCATGCAATGCTAAACTTGGTCTTCCACTGTCTACACTCTTATCACTATTTATCCCATCTTGA
*
62416967 AAGCTAGAAGTTGGATACATAACAAGACTATTCCAATTATTAGCATCAAAGTATTGGTCCATACT
66 AAGCTAAAAGTTGGATACATAACAAGACTATTCCAATTATTAGCATCAAAGTATTGGTCCATACT
*
62417032 CTGACTATTACTACCTTCGATGATGTTAGTAGAATTCACTTAATTTAGGTTTGCTAATTCATTCC
131 CTGACTATTACTACCTTCGATGATGTTAGTAGAATTCACTTAATTCAGGTTTGCTAATTCATTCC
* * * *** * *
62417097 AATTTAGAGTAAAATTTATTCTTACAGCCTCTATTTTGAGTCTACGAGACCCTAAAAATAGTCTA
196 AATTCAGAATAAAAGTTACAATTACAGCCTCTATTTCGAGTCTACAAGACCCTAAAAATAGTCTA
62417162 AAAACT-GGCAAGGACTAGTAACCAAATAGTGTACCA
261 AAAA-TAGGCAAGGACTAGTAACCAAATAGTGTACCA
* *
62417198 TACCATGCAATGCTAAACTTGGTTTTCCACTGTCTACACTCTTCTCACTATTTATCCCATCTTGA
1 TACCATGCAATGCTAAACTTGGTCTTCCACTGTCTACACTCTTATCACTATTTATCCCATCTTGA
* * *
62417263 AAGCTAAAAGTTGGATGCATAACAATACTATTCCAATTATTAGCATCAGAGTATTGGTCCATACT
66 AAGCTAAAAGTTGGATACATAACAAGACTATTCCAATTATTAGCATCAAAGTATTGGTCCATACT
*
62417328 -TCGACTATTACTACCTTCGATGATTTTAGTAGAATTCACTTAATTCAGGTTTGCTAATTCATTC
131 CT-GACTATTACTACCTTCGATGATGTTAGTAGAATTCACTTAATTCAGGTTTGCTAATTCATTC
*
62417392 CAATTCAGAATAAAAGTTACAATTATAGCCTCTATTTCGAGTCTACAAGACCCTAAAAATAGTCT
195 CAATTCAGAATAAAAGTTACAATTACAGCCTCTATTTCGAGTCTACAAGACCCTAAAAATAGTCT
62417457 AAAAATAGGCAAGGACTA
260 AAAAATAGGCAAGGACTA
62417475 ATTTGGAGCA
Statistics
Matches: 257, Mismatches: 18, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
295 2 0.01
296 255 0.99
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.34
Consensus pattern (296 bp):
TACCATGCAATGCTAAACTTGGTCTTCCACTGTCTACACTCTTATCACTATTTATCCCATCTTGA
AAGCTAAAAGTTGGATACATAACAAGACTATTCCAATTATTAGCATCAAAGTATTGGTCCATACT
CTGACTATTACTACCTTCGATGATGTTAGTAGAATTCACTTAATTCAGGTTTGCTAATTCATTCC
AATTCAGAATAAAAGTTACAATTACAGCCTCTATTTCGAGTCTACAAGACCCTAAAAATAGTCTA
AAAATAGGCAAGGACTAGTAACCAAATAGTGTACCA
Found at i:62422414 original size:28 final size:27
Alignment explanation
Indices: 62422347--62422416 Score: 86
Period size: 28 Copynumber: 2.6 Consensus size: 27
62422337 GGAATATGAT
* *
62422347 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTAACCATGCA
* *
62422374 GCACTAAGTGTGCGAATCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TAACCATGCA
*
62422402 GCACTAAGGGTGCGA
1 GCACTAAGTGTGCGA
62422417 TTTGATTACG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 17 0.46
28 20 0.54
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTAACCATGCA
Found at i:62422432 original size:55 final size:53
Alignment explanation
Indices: 62422292--62422443 Score: 178
Period size: 55 Copynumber: 2.8 Consensus size: 53
62422282 TAAATTGTAC
* * *
62422292 AGCACTAAGTGTGCGATTCGATTATGTTGCACTAAGTGTGCGAAAGGAATATG
1 AGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGAAACGAATATG
* ** * * *
62422345 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAATCTAACTATG
1 A-GCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGAAACGAA-TATG
* *
62422400 TAGCACTAAGGGTGCGATTTGATTACGTGGCACTAAGTGTGCGA
1 -AGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGA
62422444 GTTGAGTGAA
Statistics
Matches: 81, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
53 1 0.01
54 39 0.48
55 40 0.49
56 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.27
Consensus pattern (53 bp):
AGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGAAACGAATATG
Found at i:62422448 original size:27 final size:27
Alignment explanation
Indices: 62422293--62422448 Score: 145
Period size: 27 Copynumber: 5.7 Consensus size: 27
62422283 AAATTGTACA
* *
62422293 GCACTAAGTGTGCG-ATTCGATTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
** *
62422320 GCACTAAGTGTGCGAAAGGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
62422347 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* *
62422374 GCACTAAGTGTGCGAATCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * * *
62422402 GCACTAAGGGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
62422429 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
62422449 GTGAATAGCA
Statistics
Matches: 105, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
27 82 0.78
28 23 0.22
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:62426291 original size:25 final size:25
Alignment explanation
Indices: 62426219--62426285 Score: 125
Period size: 25 Copynumber: 2.7 Consensus size: 25
62426209 TCTTGATCCA
62426219 TATAACGGGGAGCTCATGTGAGCTG
1 TATAACGGGGAGCTCATGTGAGCTG
62426244 TATAACGGGGAGCTCATGTGAGCTG
1 TATAACGGGGAGCTCATGTGAGCTG
*
62426269 TATAACGGGAAGCTCAT
1 TATAACGGGGAGCTCAT
62426286 AAGAGCCATA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (25 bp):
TATAACGGGGAGCTCATGTGAGCTG
Found at i:62426330 original size:24 final size:25
Alignment explanation
Indices: 62426219--62426316 Score: 117
Period size: 25 Copynumber: 4.0 Consensus size: 25
62426209 TCTTGATCCA
*
62426219 TATAACGGGGAGCTCATGTGAGCTG
1 TATAACGGGAAGCTCATGTGAGCTG
*
62426244 TATAACGGGGAGCTCATGTGAGCTG
1 TATAACGGGAAGCTCATGTGAGCTG
** **
62426269 TATAACGGGAAGCTCATAAGAGCCA
1 TATAACGGGAAGCTCATGTGAGCTG
* *
62426294 TAT-CCAGGAAGCTCATGTGAGCT
1 TATAACGGGAAGCTCATGTGAGCT
62426317 AATAACAGGT
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
24 15 0.24
25 48 0.76
ACGTcount: A:0.29, C:0.18, G:0.31, T:0.22
Consensus pattern (25 bp):
TATAACGGGAAGCTCATGTGAGCTG
Found at i:62426351 original size:49 final size:49
Alignment explanation
Indices: 62426254--62426356 Score: 131
Period size: 49 Copynumber: 2.1 Consensus size: 49
62426244 TATAACGGGG
* *
62426254 AGCTCATGTGAGCTGTATAACGGGAAGCTCATAAGAGCCATATCCAGGA
1 AGCTCATGTGAGCTGAATAACAGGAAGCTCATAAGAGCCATATCCAGGA
*
62426303 AGCTCATGTGAGCT-AATAACAGGTAGCTTCA-AAGAGCCATTAGT-CAGGA
1 AGCTCATGTGAGCTGAATAACAGGAAGC-TCATAAGAGCCA-TA-TCCAGGA
62426352 AGCTC
1 AGCTC
62426357 CAGATAGCCA
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
48 18 0.38
49 29 0.60
50 1 0.02
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.21
Consensus pattern (49 bp):
AGCTCATGTGAGCTGAATAACAGGAAGCTCATAAGAGCCATATCCAGGA
Found at i:62426355 original size:25 final size:24
Alignment explanation
Indices: 62426322--62426467 Score: 82
Period size: 25 Copynumber: 5.9 Consensus size: 24
62426312 GAGCTAATAA
* *
62426322 CAGGTAGCTTCAAAGAGCCATTAGT
1 CAGGAAGCTCCAAAGAGCCATTA-T
* *
62426347 CAGGAAGCTCCAGATAGCCATTTAT
1 CAGGAAGCTCCAAAGAGCCA-TTAT
* *
62426372 C-GAGAAG-TTCAAGTGAGCCA-TAT
1 CAG-GAAGCTCCAA-AGAGCCATTAT
*
62426395 CAGGAAGCTCCGAAGAGCCATTAAT
1 CAGGAAGCTCCAAAGAGCCATT-AT
** **
62426420 CAAAAAGCTCACAAAGAGCTTTTAAT
1 CAGGAAGCTC-CAAAGAGCCATT-AT
* *
62426446 CGGGAAGCTCACGAAGAGCCAT
1 CAGGAAGCTC-CAAAGAGCCAT
62426468 ATATAGGGAA
Statistics
Matches: 91, Mismatches: 22, Indels: 15
0.71 0.17 0.12
Matches are distributed among these distances:
23 14 0.15
24 9 0.10
25 37 0.41
26 31 0.34
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.20
Consensus pattern (24 bp):
CAGGAAGCTCCAAAGAGCCATTAT
Found at i:62426444 original size:26 final size:26
Alignment explanation
Indices: 62426415--62426464 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
62426405 CGAAGAGCCA
62426415 TTAATCAAAAAGCTCACAAAGAGCTT
1 TTAATCAAAAAGCTCACAAAGAGCTT
*** *
62426441 TTAATCGGGAAGCTCACGAAGAGC
1 TTAATCAAAAAGCTCACAAAGAGC
62426465 CATATATAGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (26 bp):
TTAATCAAAAAGCTCACAAAGAGCTT
Found at i:62431696 original size:21 final size:22
Alignment explanation
Indices: 62431655--62431696 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
62431645 AAAATATAAA
*
62431655 TTATAACTTATAAATATTTTTT
1 TTATAACTTATAAATAATTTTT
*
62431677 TTATAATTTAT-AATAATTTT
1 TTATAACTTATAAATAATTTT
62431697 CTCAAATTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (22 bp):
TTATAACTTATAAATAATTTTT
Found at i:62432398 original size:50 final size:50
Alignment explanation
Indices: 62432336--62432470 Score: 218
Period size: 50 Copynumber: 2.7 Consensus size: 50
62432326 CACATAGTAA
* *
62432336 GATGCCAATGCCATATCCCAGATATGGTCTTACAT-GGATTCACACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-TCACACATATC
62432386 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACACATATC
* *
62432436 GATTCCAATGCCATGTACCAGACATGGTCTTACAT
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACAT
62432471 TAGATCTCAT
Statistics
Matches: 80, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
50 77 0.96
51 3 0.04
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (50 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACACATATC
Found at i:62433933 original size:74 final size:74
Alignment explanation
Indices: 62433812--62433958 Score: 294
Period size: 74 Copynumber: 2.0 Consensus size: 74
62433802 TCAGATACAT
62433812 AGTTCGGCCAAATCTACCGAATAATACATCTGCACATACAAAAATAATCATACGGACTTTCATCA
1 AGTTCGGCCAAATCTACCGAATAATACATCTGCACATACAAAAATAATCATACGGACTTTCATCA
62433877 TCAATCTAC
66 TCAATCTAC
62433886 AGTTCGGCCAAATCTACCGAATAATACATCTGCACATACAAAAATAATCATACGGACTTTCATCA
1 AGTTCGGCCAAATCTACCGAATAATACATCTGCACATACAAAAATAATCATACGGACTTTCATCA
62433951 TCAATCTA
66 TCAATCTA
62433959 TCACAATCCA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 73 1.00
ACGTcount: A:0.39, C:0.25, G:0.10, T:0.26
Consensus pattern (74 bp):
AGTTCGGCCAAATCTACCGAATAATACATCTGCACATACAAAAATAATCATACGGACTTTCATCA
TCAATCTAC
Found at i:62439287 original size:5 final size:5
Alignment explanation
Indices: 62439270--62439318 Score: 71
Period size: 5 Copynumber: 9.2 Consensus size: 5
62439260 TAAAAGAGAG
62439270 ATAAA ATTAAA ATAAA ATAAAGA ATAAA ATAAA ATAAA ATAAA ATAAA
1 ATAAA A-TAAA ATAAA AT-AA-A ATAAA ATAAA ATAAA ATAAA ATAAA
62439318 A
1 A
62439319 AGAAAACAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
5 29 0.71
6 9 0.22
7 3 0.07
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:62439288 original size:27 final size:24
Alignment explanation
Indices: 62439258--62439313 Score: 71
Period size: 22 Copynumber: 2.3 Consensus size: 24
62439248 ATAAAGGATG
62439258 AATAAAAGAGAGATAAAATTAAAATAA
1 AATAAAA-AGA-ATAAAA-TAAAATAA
62439285 AAT--AAAGAATAAAATAAAATAA
1 AATAAAAAGAATAAAATAAAATAA
62439307 AATAAAA
1 AATAAAA
62439314 TAAAAAGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
22 11 0.41
23 6 0.22
24 5 0.19
25 2 0.07
27 3 0.11
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18
Consensus pattern (24 bp):
AATAAAAAGAATAAAATAAAATAA
Found at i:62439309 original size:22 final size:23
Alignment explanation
Indices: 62439270--62439312 Score: 79
Period size: 22 Copynumber: 1.9 Consensus size: 23
62439260 TAAAAGAGAG
62439270 ATAAAATTAAAATAAAATAAAGA
1 ATAAAATTAAAATAAAATAAAGA
62439293 ATAAAA-TAAAATAAAATAAA
1 ATAAAATTAAAATAAAATAAA
62439313 ATAAAAAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (23 bp):
ATAAAATTAAAATAAAATAAAGA
Found at i:62441156 original size:36 final size:36
Alignment explanation
Indices: 62441107--62441179 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
62441097 ACCTGTTTTC
*
62441107 ACTTACAATCTTGAGATCAAAGTTTAGAAACTTTAT
1 ACTTACAAGCTTGAGATCAAAGTTTAGAAACTTTAT
62441143 ACTTACAAGCTTGAGATCAAAGTTTAGAAACTTTAT
1 ACTTACAAGCTTGAGATCAAAGTTTAGAAACTTTAT
62441179 A
1 A
62441180 GCCCAGAATG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (36 bp):
ACTTACAAGCTTGAGATCAAAGTTTAGAAACTTTAT
Found at i:62446235 original size:94 final size:93
Alignment explanation
Indices: 62446081--62446263 Score: 212
Period size: 94 Copynumber: 1.9 Consensus size: 93
62446071 CAGATATTAA
* *
62446081 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTTCACGATGTGACTGATGCATGTCCCAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTTCACAAAGT-ACTGATGCATGT-CCAG
*
62446146 ACCTGTCTTACACTAGCACACATATCTCGAG
64 ACAT-TCTTACACTAGCACACATATCTCGAG
* *
62446177 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCGTCTCAAAGT-C-GATGCATGTCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCT-T--TCACAAAGTACTGATGCATGTCCA
* * *
62446238 GACATTCTTACATTGGCGCACATATC
63 GACATTCTTACACTAGCACACATATC
62446264 ACCTGCACTG
Statistics
Matches: 76, Mismatches: 8, Indels: 10
0.81 0.09 0.11
Matches are distributed among these distances:
92 18 0.24
93 7 0.09
94 22 0.29
95 16 0.21
96 7 0.09
97 6 0.08
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (93 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTTCACAAAGTACTGATGCATGTCCAGAC
ATTCTTACACTAGCACACATATCTCGAG
Found at i:62450505 original size:6 final size:6
Alignment explanation
Indices: 62450494--62450525 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
62450484 GATTTATTTA
62450494 TTATGT TTATGT TTATGT TTATGT TTATGT TT
1 TTATGT TTATGT TTATGT TTATGT TTATGT TT
62450526 TATATTGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.69
Consensus pattern (6 bp):
TTATGT
Found at i:62450538 original size:18 final size:18
Alignment explanation
Indices: 62450492--62450539 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
62450482 AAGATTTATT
62450492 TATT-ATGTTTATGTTTA
1 TATTGATGTTTATGTTTA
* *
62450509 TGTTTATGTTTATGTTTTA
1 TATTGATGTTTATG-TTTA
62450528 TATTGAT-TTTAT
1 TATTGATGTTTAT
62450540 ATTGTTTATG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 3 0.12
18 14 0.54
19 9 0.35
ACGTcount: A:0.21, C:0.00, G:0.12, T:0.67
Consensus pattern (18 bp):
TATTGATGTTTATGTTTA
Found at i:62453414 original size:25 final size:25
Alignment explanation
Indices: 62453376--62453445 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
62453366 CTCTTTTAAT
*
62453376 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
* * *
62453401 AATTTGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
62453426 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
62453446 GCACTTCCTC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:62453504 original size:10 final size:10
Alignment explanation
Indices: 62453491--62453530 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
62453481 CATATATGAA
62453491 CATATCATGG
1 CATATCATGG
* *
62453501 CATATTAGGTG
1 CATATCATG-G
62453512 CATATCATGG
1 CATATCATGG
62453522 CATATCATG
1 CATATCATG
62453531 TACAAAACTG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
10 17 0.68
11 8 0.32
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (10 bp):
CATATCATGG
Found at i:62453598 original size:25 final size:25
Alignment explanation
Indices: 62453570--62453618 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
62453560 ATCACATATC
* *
62453570 CCTAGGGGTATAATGGTCATTTTCA
1 CCTAGGGGCAAAATGGTCATTTTCA
62453595 CCTAGGGGCAAAATGGTCATTTTC
1 CCTAGGGGCAAAATGGTCATTTTC
62453619 GCATTATGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTCA
Found at i:62454746 original size:11 final size:11
Alignment explanation
Indices: 62454723--62454760 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
62454713 AGAGAAGAAG
62454723 AAAG-AAAAGA
1 AAAGAAAAAGA
*
62454733 AAAGAAAAACA
1 AAAGAAAAAGA
62454744 AAAGAAAAAGA
1 AAAGAAAAAGA
62454755 AAAGAA
1 AAAGAA
62454761 TAATCCTATG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 4 0.16
11 21 0.84
ACGTcount: A:0.82, C:0.03, G:0.16, T:0.00
Consensus pattern (11 bp):
AAAGAAAAAGA
Found at i:62454752 original size:17 final size:16
Alignment explanation
Indices: 62454717--62454757 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
62454707 TCGACTAGAG
*
62454717 AAGAAGAAAGAAAAGAA
1 AAGAA-AAACAAAAGAA
62454734 AAGAAAAACAAAAGAAA
1 AAGAAAAACAAAAG-AA
62454751 AAGAAAA
1 AAGAAAA
62454758 GAATAATCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.80, C:0.02, G:0.17, T:0.00
Consensus pattern (16 bp):
AAGAAAAACAAAAGAA
Found at i:62461310 original size:6 final size:5
Alignment explanation
Indices: 62461285--62461316 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
62461275 AGAGAAGAAG
62461285 AAAGA AAAGA AAAGA AAAGAA AAAGA AAAGA A
1 AAAGA AAAGA AAAGA AAAG-A AAAGA AAAGA A
62461317 TAATCCTATG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:62461310 original size:11 final size:11
Alignment explanation
Indices: 62461279--62461316 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
62461269 TCGGCTAGAG
62461279 AAGAAGAAAGAA
1 AAGAA-AAAGAA
62461291 AAG-AAAAGAA
1 AAGAAAAAGAA
62461301 AAGAAAAAGAA
1 AAGAAAAAGAA
62461312 AAGAA
1 AAGAA
62461317 TAATCCTATG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 9 0.36
11 13 0.52
12 3 0.12
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (11 bp):
AAGAAAAAGAA
Found at i:62464213 original size:23 final size:23
Alignment explanation
Indices: 62464183--62464229 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
62464173 GTTGAAAAAT
*
62464183 ATTTTAATGAATTTCAAGAGAAA
1 ATTTTAATAAATTTCAAGAGAAA
62464206 ATTTTAATAAATTTCAAGAGAAA
1 ATTTTAATAAATTTCAAGAGAAA
62464229 A
1 A
62464230 CATTCATTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.51, C:0.04, G:0.11, T:0.34
Consensus pattern (23 bp):
ATTTTAATAAATTTCAAGAGAAA
Found at i:62466688 original size:46 final size:47
Alignment explanation
Indices: 62466621--62466822 Score: 168
Period size: 46 Copynumber: 4.3 Consensus size: 47
62466611 CCAATGTAAA
62466621 ATGTCT-GGAGCATGGCATCGGCATTGAGACTAGTACTAGTGTAAGA-C
1 ATGTCTGGGA-CAT-GCATCGGCATTGAGACTAGTACTAGTGTAAGACC
* * *
62466668 ATGTTTGGGACATGCATCGGCCTCGAGACGTAAGT-C-AGTGTAAGA-C
1 ATGTCTGGGACATGCATCGGCATTGAGAC-T-AGTACTAGTGTAAGACC
* * *
62466714 ATGTCTGGGACATGCATCGGC-TATGAGA-T-GTGCAAGTGTAAGATC
1 ATGTCTGGGACATGCATCGGCAT-TGAGACTAGTACTAGTGTAAGACC
* ** * * *
62466759 ATGTATGGGACATGACATCGGCACAGATATGCTAGAACTCGTGTAAGACC
1 ATGTCTGGGACATG-CATCGGCATTGAGA--CTAGTACTAGTGTAAGACC
62466809 ATGTCTGGGACATG
1 ATGTCTGGGACATG
62466823 GCTTCGACAC
Statistics
Matches: 127, Mismatches: 15, Indels: 23
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 1 0.01
44 10 0.08
45 15 0.12
46 58 0.46
47 10 0.08
48 6 0.05
49 1 0.01
50 24 0.19
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.25
Consensus pattern (47 bp):
ATGTCTGGGACATGCATCGGCATTGAGACTAGTACTAGTGTAAGACC
Found at i:62470363 original size:25 final size:25
Alignment explanation
Indices: 62470317--62470365 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
62470307 CTGTTTTTGA
*
62470317 TAGTATATCTTGAAACTGCTATAGG
1 TAGTATATCTTGAAACTACTATAGG
*
62470342 TAGTATATGCTT-AGACTACTATAG
1 TAGTATAT-CTTGAAACTACTATAG
62470366 ATAGACTGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 18 0.86
26 3 0.14
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (25 bp):
TAGTATATCTTGAAACTACTATAGG
Found at i:62472367 original size:16 final size:16
Alignment explanation
Indices: 62472346--62472384 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
62472336 GTTTGGGATT
62472346 CAGCTCCTTCCTAGTA
1 CAGCTCCTTCCTAGTA
*
62472362 CAGCTCCTTCCTGGTA
1 CAGCTCCTTCCTAGTA
62472378 CAGCTCC
1 CAGCTCC
62472385 AGTGTCCACC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.15, C:0.41, G:0.15, T:0.28
Consensus pattern (16 bp):
CAGCTCCTTCCTAGTA
Found at i:62476138 original size:21 final size:21
Alignment explanation
Indices: 62476113--62476160 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
62476103 ACGATACACA
62476113 GGCGTGTAATCAACGAGCCAG
1 GGCGTGTAATCAACGAGCCAG
* *
62476134 GGCGTGTGATCAATGAGCCAG
1 GGCGTGTAATCAACGAGCCAG
*
62476155 GCCGTG
1 GGCGTG
62476161 CGAGCATGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.23, C:0.23, G:0.38, T:0.17
Consensus pattern (21 bp):
GGCGTGTAATCAACGAGCCAG
Found at i:62489341 original size:109 final size:108
Alignment explanation
Indices: 62489150--62489387 Score: 361
Period size: 109 Copynumber: 2.2 Consensus size: 108
62489140 TTATACATAG
* * *
62489150 ATTCATGTATTGTGATCTGCTAATTTGATTTACACATTTTGAAGGCTACACCATGAACATTCAAA
1 ATTCATGTATTGTGATCTGC-AATTTGATTAACAAATTTCGAAGGCTACACCATGAACATTCAAA
*
62489215 TAGACATATTTTGCCATGGGTCTTAACCACATGATCTTACACAC
65 TAGACATATTTTGCCATGGGTCGTAACCACATGATCTTACACAC
* *
62489259 ATTCATGTATCGTGATCTGTCAATTTGATTAACAAATTTCGAAGGCTACACCATGAACATTCATA
1 ATTCATGTATTGTGATCTG-CAATTTGATTAACAAATTTCGAAGGCTACACCATGAACATTCAAA
* *
62489324 TAGACATATCTTT-CCATGGGTCGTAACTACATGGTCTTACACAC
65 TAGACATAT-TTTGCCATGGGTCGTAACCACATGATCTTACACAC
*
62489368 ATTCATGTATTATGATCTGC
1 ATTCATGTATTGTGATCTGC
62489388 CAATCCAACC
Statistics
Matches: 117, Mismatches: 10, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
108 1 0.01
109 112 0.96
110 4 0.03
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (108 bp):
ATTCATGTATTGTGATCTGCAATTTGATTAACAAATTTCGAAGGCTACACCATGAACATTCAAAT
AGACATATTTTGCCATGGGTCGTAACCACATGATCTTACACAC
Found at i:62491280 original size:17 final size:18
Alignment explanation
Indices: 62491255--62491293 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
62491245 TAAAAATAAA
62491255 ATATGTTAAAACA-TTTT
1 ATATGTTAAAACATTTTT
* *
62491272 ATATTTTAAAATATTTTT
1 ATATGTTAAAACATTTTT
62491290 ATAT
1 ATAT
62491294 AATTTTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (18 bp):
ATATGTTAAAACATTTTT
Found at i:62493110 original size:27 final size:27
Alignment explanation
Indices: 62493030--62493144 Score: 101
Period size: 27 Copynumber: 4.2 Consensus size: 27
62493020 ATAACAGTCG
* * * *
62493030 TTCTTTCAGAGTACACCACAAAGGC-A
1 TTCTTTCAGAATTCGCCACGAAGGCTA
*
62493056 TTTCTTTCA-AATTATCGCCACGAGGGCTA
1 -TTCTTTCAGAA-T-TCGCCACGAAGGCTA
62493085 TTCTTTCAGAGATT-GCCACGAAGGCTA
1 TTCTTTCAGA-ATTCGCCACGAAGGCTA
* * *
62493112 TTCTTTCATAATTCGCCACAAAGGTTA
1 TTCTTTCAGAATTCGCCACGAAGGCTA
62493139 TTCTTT
1 TTCTTT
62493145 TATGTCGTGT
Statistics
Matches: 73, Mismatches: 9, Indels: 12
0.78 0.10 0.13
Matches are distributed among these distances:
26 4 0.05
27 47 0.64
28 18 0.25
29 3 0.04
30 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (27 bp):
TTCTTTCAGAATTCGCCACGAAGGCTA
Found at i:62495012 original size:43 final size:43
Alignment explanation
Indices: 62494951--62495072 Score: 190
Period size: 43 Copynumber: 2.8 Consensus size: 43
62494941 CTCCGATATG
*
62494951 TGATTTCATGTAAGACCACGTCTGGGACGTTGGCATAGATACT
1 TGATTACATGTAAGACCACGTCTGGGACGTTGGCATAGATACT
* * * *
62494994 TGATTACATGTAAGACCACGTCTGGGACATTGGCTTCGATAGT
1 TGATTACATGTAAGACCACGTCTGGGACGTTGGCATAGATACT
*
62495037 TGATTACATGTAAGACTACGTCTGGGACGTTGGCAT
1 TGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
62495073 TGTACGAGTT
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 71 1.00
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.30
Consensus pattern (43 bp):
TGATTACATGTAAGACCACGTCTGGGACGTTGGCATAGATACT
Found at i:62504546 original size:79 final size:82
Alignment explanation
Indices: 62504435--62504619 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
62504425 GCTACTCGTT
* * *
62504435 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
62504498 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* * **
62504515 CAAATGCCTTCAGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
62504578 GATATAGTAACTTAGCA
66 GATATAGTAACTTAGCA
62504595 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
62504620 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 33 0.36
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:62504619 original size:40 final size:40
Alignment explanation
Indices: 62504416--62504619 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
62504406 CGGAATTTAA
** *
62504416 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
62504456 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
62504496 CCGGATTTAGTAACTCGCACAAATGCCTTCAGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
62504535 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
*
62504575 CCGGATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
62504615 CCGGA
1 CCGGA
62504620 CATCATTCAA
Statistics
Matches: 140, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 93 0.66
41 12 0.09
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:62512286 original size:79 final size:81
Alignment explanation
Indices: 62512185--62512369 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
62512175 GCTACTCGTT
* * *
62512185 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
62512248 AAATTTAGTAAC-TCGCA
64 AAATATAGTAACTTAGCA
* ** **
62512265 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCAA
62512329 ATATAGTAACTTAGCA
66 ATATAGTAACTTAGCA
62512345 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
62512370 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCAA
ATATAGTAACTTAGCA
Found at i:62512369 original size:40 final size:40
Alignment explanation
Indices: 62512166--62512369 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
62512156 CGGAATTTAA
** *
62512166 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
62512206 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
** *
62512246 CCAAATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
62512285 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
*
62512325 CCGGATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
62512365 CCGGA
1 CCGGA
62512370 CATCATTCAA
Statistics
Matches: 137, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.01
39 31 0.23
40 92 0.67
41 12 0.09
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:62521797 original size:16 final size:16
Alignment explanation
Indices: 62521776--62521816 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
62521766 GTTGTTATAC
62521776 CATTCTTCCTTTCTAA
1 CATTCTTCCTTTCTAA
62521792 CATTCTTCCTTTCTAA
1 CATTCTTCCTTTCTAA
*
62521808 CCTTCTTCC
1 CATTCTTCC
62521817 CGCCACTTCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.15, C:0.37, G:0.00, T:0.49
Consensus pattern (16 bp):
CATTCTTCCTTTCTAA
Found at i:62524218 original size:23 final size:24
Alignment explanation
Indices: 62524191--62524244 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
62524181 TACTTGATTT
*
62524191 ATTTAAATT-ATTCGAATTTAAAA
1 ATTTAAATTGATTCAAATTTAAAA
* *
62524214 ATTTAATTTGATTTAAATTTAAAA
1 ATTTAAATTGATTCAAATTTAAAA
*
62524238 TTTTAAA
1 ATTTAAA
62524245 AAAAATGAGT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 8 0.32
24 17 0.68
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (24 bp):
ATTTAAATTGATTCAAATTTAAAA
Found at i:62527238 original size:23 final size:23
Alignment explanation
Indices: 62527211--62527256 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
62527201 GTTGGTTTGA
*
62527211 AAATTTTAAGATTTGTTATATTT
1 AAATTGTAAGATTTGTTATATTT
62527234 AAATTGTAAGATTTGTTATATTT
1 AAATTGTAAGATTTGTTATATTT
62527257 GTTTTTCAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (23 bp):
AAATTGTAAGATTTGTTATATTT
Found at i:62528062 original size:10 final size:10
Alignment explanation
Indices: 62528047--62528077 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
62528037 CACAATACTT
62528047 TATATATGTG
1 TATATATGTG
*
62528057 TATATATGTA
1 TATATATGTG
62528067 TATATATGTG
1 TATATATGTG
62528077 T
1 T
62528078 GAGGGGAGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (10 bp):
TATATATGTG
Found at i:62529608 original size:46 final size:46
Alignment explanation
Indices: 62529558--62529733 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
62529548 TGGTTGAGCA
62529558 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
62529604 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
62529649 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
62529697 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
62529734 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:62529714 original size:93 final size:93
Alignment explanation
Indices: 62529555--62529726 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
62529545 GGATGGTTGA
* *
62529555 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
62529620 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
62529648 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
62529713 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
62529727 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:62537153 original size:46 final size:46
Alignment explanation
Indices: 62537103--62537278 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
62537093 TGGTTGAGCA
62537103 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
62537149 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
62537194 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
62537242 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
62537279 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:62537259 original size:93 final size:93
Alignment explanation
Indices: 62537100--62537271 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
62537090 GGATGGTTGA
* *
62537100 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
62537165 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
62537193 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
62537258 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
62537272 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:62545751 original size:54 final size:53
Alignment explanation
Indices: 62545669--62545802 Score: 196
Period size: 54 Copynumber: 2.5 Consensus size: 53
62545659 TCGTTAAAAA
* * *
62545669 GGGATTTAGCCTGGACTGGCAATCCCGACATTACTCTATTAGTTACTACTACGG
1 GGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATAAGTTACTACTAC-G
* *
62545723 GGGATTTAGCCTGAACTGGTAATCCCGACAATGCTCTATAAGTTACTACTACG
1 GGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATAAGTTACTACTACG
* *
62545776 GGAATTTAGCCTGGACTAGTAATCCCG
1 GGGATTTAGCCTGGACTGGTAATCCCG
62545803 TTGTAAGATA
Statistics
Matches: 72, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
53 25 0.35
54 47 0.65
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.28
Consensus pattern (53 bp):
GGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATAAGTTACTACTACG
Found at i:62549184 original size:42 final size:42
Alignment explanation
Indices: 62549001--62549194 Score: 192
Period size: 42 Copynumber: 4.6 Consensus size: 42
62548991 AAAGCTGAAT
* * *
62549001 AGAAGCTCATGAA-AGCTAAATAGAAACCCATAAGGGTTGAAC
1 AGAAGCTCAT-AAGAGCTGAATGGAAACCCATAAGGGTTAAAC
* * * *
62549043 ATAAGCTCGTAAGAACTGAACGGAAACCCATAAGGGTTAAAC
1 AGAAGCTCATAAGAGCTGAATGGAAACCCATAAGGGTTAAAC
* * * *
62549085 AGAAGCTCAAAAGAGTTGAATGGAAACCCGTAAGGGTCAAAC
1 AGAAGCTCATAAGAGCTGAATGGAAACCCATAAGGGTTAAAC
* * * * *
62549127 AGAAGCTTAAAAGAGCTGAATGGAAACTCATATGAGTTAAAC
1 AGAAGCTCATAAGAGCTGAATGGAAACCCATAAGGGTTAAAC
* * * *
62549169 AGAAGCTCGTGAGAGCTAAAAGGAAA
1 AGAAGCTCATAAGAGCTGAATGGAAA
62549195 GTAAACACAA
Statistics
Matches: 123, Mismatches: 28, Indels: 2
0.80 0.18 0.01
Matches are distributed among these distances:
41 2 0.02
42 121 0.98
ACGTcount: A:0.44, C:0.15, G:0.24, T:0.16
Consensus pattern (42 bp):
AGAAGCTCATAAGAGCTGAATGGAAACCCATAAGGGTTAAAC
Found at i:62559296 original size:29 final size:29
Alignment explanation
Indices: 62559262--62559320 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
62559252 AAATAATAAG
62559262 AAAGTGAGAAAATTGAAGTGAATCCACTA
1 AAAGTGAGAAAATTGAAGTGAATCCACTA
62559291 AAAGTGAGAAAATTGAAGTGAATCCACTA
1 AAAGTGAGAAAATTGAAGTGAATCCACTA
62559320 A
1 A
62559321 TTGATTATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.49, C:0.10, G:0.20, T:0.20
Consensus pattern (29 bp):
AAAGTGAGAAAATTGAAGTGAATCCACTA
Found at i:62561706 original size:21 final size:22
Alignment explanation
Indices: 62561680--62561726 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
62561670 CTCTGCTCAA
*
62561680 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
62561701 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
62561723 ACTC
1 ACTC
62561727 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:62569659 original size:22 final size:21
Alignment explanation
Indices: 62569609--62569659 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
62569599 TTACTTTTCA
62569609 TTTAATTT-TGTTTATGAATTC
1 TTTAATTTCT-TTTATGAATTC
62569630 TTTAATTTCTTTTATAGAATT-
1 TTTAATTTCTTTTAT-GAATTC
62569651 TTTAGATTT
1 TTTA-ATTT
62569660 AAAAAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
21 17 0.63
22 10 0.37
ACGTcount: A:0.25, C:0.04, G:0.08, T:0.63
Consensus pattern (21 bp):
TTTAATTTCTTTTATGAATTC
Done.