Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008239.1 Hibiscus syriacus cultivar Beakdansim tig00110886_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 93799
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Found at i:722 original size:21 final size:21
Alignment explanation
Indices: 691--751 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
681 ATCACATTGG
691 GTTTA-GGTTTAGAGTTCATA
1 GTTTAGGGTTTAGAGTTCATA
* * **
711 GTTTAGGGTTTATAGTTTAGG
1 GTTTAGGGTTTAGAGTTCATA
*
732 GTTTAGGGATTAGAGTTCAT
1 GTTTAGGGTTTAGAGTTCAT
752 TATAAAGACA
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
20 5 0.16
21 27 0.84
ACGTcount: A:0.23, C:0.03, G:0.30, T:0.44
Consensus pattern (21 bp):
GTTTAGGGTTTAGAGTTCATA
Found at i:731 original size:14 final size:14
Alignment explanation
Indices: 697--736 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
687 TTGGGTTTAG
* *
697 GTTTAGAGTTCATA
1 GTTTAGGGTTTATA
711 GTTTAGGGTTTATA
1 GTTTAGGGTTTATA
725 GTTTAGGGTTTA
1 GTTTAGGGTTTA
737 GGGATTAGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.23, C:0.03, G:0.28, T:0.47
Consensus pattern (14 bp):
GTTTAGGGTTTATA
Found at i:815 original size:7 final size:7
Alignment explanation
Indices: 803--834 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
793 GTAAGTACAA
803 TTTAGGG
1 TTTAGGG
810 TTTAGGG
1 TTTAGGG
*
817 TTTAGAG
1 TTTAGGG
824 TTTAGGG
1 TTTAGGG
831 TTTA
1 TTTA
835 TTATAAAGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.19, C:0.00, G:0.34, T:0.47
Consensus pattern (7 bp):
TTTAGGG
Found at i:893 original size:11 final size:11
Alignment explanation
Indices: 879--941 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 11
869 GTATTGTAGA
879 ATTTTTAATAT
1 ATTTTTAATAT
890 ATTTTTAA-A-
1 ATTTTTAATAT
899 ATTTTATAAT-T
1 ATTTT-TAATAT
*** * *
910 ATCAATAGTGT
1 ATTTTTAATAT
921 ATTTTTAATAT
1 ATTTTTAATAT
932 ATTTTTAATA
1 ATTTTTAATA
942 ATGTAATTTT
Statistics
Matches: 39, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
9 5 0.13
10 7 0.18
11 27 0.69
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (11 bp):
ATTTTTAATAT
Found at i:1287 original size:62 final size:62
Alignment explanation
Indices: 1210--1344 Score: 236
Period size: 62 Copynumber: 2.2 Consensus size: 62
1200 ACAAACATTC
*
1210 ATGAAAAATAATTAAAACTTTAGAAAATATTCGTCATAACATATTTTCAACATACATGAGAT
1 ATGAAAAATAATTAAAACTTTAGAAAATATTCATCATAACATATTTTCAACATACATGAGAT
*
1272 ATGAAAAATCATTAAAACTTTAGAAAATATTCATCATAACATATTTTCAACATACATGAGAT
1 ATGAAAAATAATTAAAACTTTAGAAAATATTCATCATAACATATTTTCAACATACATGAGAT
1334 A-GAAAATATAA
1 ATGAAAA-ATAA
1345 AATTATTTAA
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
61 5 0.07
62 64 0.93
ACGTcount: A:0.50, C:0.11, G:0.07, T:0.31
Consensus pattern (62 bp):
ATGAAAAATAATTAAAACTTTAGAAAATATTCATCATAACATATTTTCAACATACATGAGAT
Found at i:4768 original size:20 final size:20
Alignment explanation
Indices: 4714--4769 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 20
4704 TTCGTGGAAG
**
4714 AAGTGAAGAAGATGTTCTTA
1 AAGTGAAGAACTTGTTCTTA
*
4734 AGGTGGAA-AACTTGTTCGTTA
1 AAGT-GAAGAACTTGTTC-TTA
4755 AAGTGAAGAA-TTGTT
1 AAGTGAAGAACTTGTT
4770 TTTGTTAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
20 18 0.62
21 11 0.38
ACGTcount: A:0.36, C:0.05, G:0.27, T:0.32
Consensus pattern (20 bp):
AAGTGAAGAACTTGTTCTTA
Found at i:4830 original size:23 final size:18
Alignment explanation
Indices: 4781--4825 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
4771 TTGTTAAGTC
4781 TGGGTGTCTCATTTAATT
1 TGGGTGTCTCATTTAATT
4799 TGGGTGTCTCATTTAATT
1 TGGGTGTCTCATTTAATT
4817 TGGGTGTCT
1 TGGGTGTCT
4826 TGTCTTGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.13, C:0.11, G:0.27, T:0.49
Consensus pattern (18 bp):
TGGGTGTCTCATTTAATT
Found at i:7866 original size:42 final size:42
Alignment explanation
Indices: 7819--8072 Score: 339
Period size: 42 Copynumber: 6.0 Consensus size: 42
7809 CATTGAAGGA
*
7819 AGTTTCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTAT
1 AGTTTCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTAC
* * * *
7861 AGTTTCACAGGTTCCTTTGCTATGTGTACGGGTAAGCCTTAC
1 AGTTTCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTAC
* *
7903 AGTTTCCCAGGTTCCTTTGTTGTGTACAAGGGTAAGCCTTAC
1 AGTTTCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTAC
*
7945 AGTTTCTCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTAC
1 AGTTTCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTAC
* * *
7987 AATTTCCTAGGTTCATTTGCTGTGTGCAAGGGTAAGCCTTAC
1 AGTTTCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTAC
* * * *
8029 AGTTTTCCTAGGCTCCTCTGCTTTGTGCACA-GGTGAAGCCTTAC
1 AG-TTTCCCAGGTTCCTTTGCTGTGTGCA-AGGGT-AAGCCTTAC
8073 CGGTGTACAG
Statistics
Matches: 186, Mismatches: 23, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
42 151 0.81
43 25 0.13
44 10 0.05
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.35
Consensus pattern (42 bp):
AGTTTCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTAC
Found at i:8503 original size:2 final size:2
Alignment explanation
Indices: 8496--8524 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8486 GGATAAATTT
8496 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8525 TAATGAAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9542 original size:543 final size:542
Alignment explanation
Indices: 8055--9702 Score: 2598
Period size: 543 Copynumber: 3.0 Consensus size: 542
8045 TCTGCTTTGT
* * *
8055 GCACAGGTGAAGCCTTACCGGTGTACAGGTGGGTGTATTGTTCGGGTAAACCTAAACATTCTGGT
1 GCACAGGTTAAGCCTTACCGGTGTACAGGTGGGTGTATGGTTCGGGTAAACCTACACATTCTGGT
* *
8120 GATTGG-TTGGGGTAGTGTTCATGTTTTTAAAACATGTTTTGATAAATTGGGTTTTCTTCTGAAT
66 GATTGGATGGGGGTAGTGTTCATGTTTTTAAAACATGTTTTGATAAATTGAGTTTTCTTCTGAAT
* * * *
8184 TACTTTGATCTGTATGTTTGTATACACCACAAGAGCACACTGGGCTTTTTATCTCATTTTGTAAA
131 TACTTTGATCTGTATGTTTTTATACACCACAAGAGCATACTGGGCTTTTTAGCTCATTATGTAAA
* * * *
8249 TTTTACCCTTTTTAGATAACAGCAGACCGTAAGCTAGCATATTTGGCATCAAGGGAGATCAACTA
196 TTTTACCATTTTCAGATAACAGCAGACCGTAAGCTAGCAGATTTGGCATCAGGGGAGATCAACTA
*
8314 CTTTTACTTTGTACGAACGTGTATTCTTATATGTTTTC-TGTTGTATTTGGTGACATGTATTTTG
261 CTTTTACTTTGTACGAACGTATATTCTTATATGTTTTCAT-TTGTATTTGGTGACATGTATTTTG
*
8378 CTATCGTATTGGATATATTCGTATTACTGATAGTTTGTTCCGTAAATGTTTTATATGGTTTTCTA
325 CTATCGTATTGGATATATTCGTATTACTGATATTTTGTTCCGTAAATGTTTTATATGGTTTTCTA
8443 AAATTATGTGTTCATATATGTTTATCATATAAATCTTTATTAGGGATAAATTTTATATATATATA
390 AAATTATGTGTTCATATATGTTTATCATATAAATCTTTATTAGGG-------------ATA-A-A
* * *
8508 TATATATATATATATATTAATGAAACATGGATTTCAACGTTGTTTTAAATATAAAAAGAATATTT
440 T-T-T-CATATATATATTAATGAAACATGGATTTCAACGTTGTTTTAAATATAAAAAGAATCTAT
8573 GAATGGTATATGTGACTGCTTAGGTTTGGGCCTAGCGTTCAA
502 GAATGG-ATATGTGACTGCTTAGGTTTGGGCCTAGCGTTCAA
* *
8615 GCACAGGTTAAGCCTTACCGGTGTACAAGTGGGTGTATGGTTCGGGTCAACCTACACATTCTGGT
1 GCACAGGTTAAGCCTTACCGGTGTACAGGTGGGTGTATGGTTCGGGTAAACCTACACATTCTGGT
*
8680 GATTGGATGGGGGTAGTGTTCATGTTTTTAAAACATGTTTTGATAAATTGAGTTTTCTTCTAAAT
66 GATTGGATGGGGGTAGTGTTCATGTTTTTAAAACATGTTTTGATAAATTGAGTTTTCTTCTGAAT
* * *
8745 TACTTTGATCTGTATGTTTTTATACACCACAAGAGCATATTGTGCTTTTTAGCTCATTCTGTAAA
131 TACTTTGATCTGTATGTTTTTATACACCACAAGAGCATACTGGGCTTTTTAGCTCATTATGTAAA
* * * *
8810 TTTTACCTTTTTCAGATAATAGCAGACTGTAAGCTAGTAGATTTGGCATCAGGGGAGATCAACTA
196 TTTTACCATTTTCAGATAACAGCAGACCGTAAGCTAGCAGATTTGGCATCAGGGGAGATCAACTA
*
8875 CTTTTACTTTGTACGAACGTATATTCTTATATGTTTTCAGTTGTATTTGGTGACATGTATTTTGC
261 CTTTTACTTTGTACGAACGTATATTCTTATATGTTTTCATTTGTATTTGGTGACATGTATTTTGC
* *
8940 TATCGTATTGGATATATTCGTATTACTAATATTTTGTCCCGTAAATGTTTTATATGGTTTTCTAA
326 TATCGTATTGGATATATTCGTATTACTGATATTTTGTTCCGTAAATGTTTTATATGGTTTTCTAA
* *
9005 AATTATGTGCTCATATAAGTTTATCATATAAATCTTTATTAGGGATAAATTTCATATATATATTA
391 AATTATGTGTTCATATATGTTTATCATATAAATCTTTATTAGGGATAAATTTCATATATATATTA
* * *
9070 ATGAAACATGGATTTCAACGTTCTTTTAAATATATAAAGAATCTATGAATGTGATATGTTACTGC
456 ATGAAACATGGATTTCAACGTTGTTTTAAATATAAAAAGAATCTATGAATG-GATATGTGACTGC
* *
9135 TTAGGTTTGGGGCTAGCGTTCAG
520 TTAGGTTTGGGCCTAGCGTTCAA
* * *
9158 GCACATGTTAAGCCTTACCGGTATACAGGTGGGTGTATGGTTCGGGTGAACCTACACATTCTGGT
1 GCACAGGTTAAGCCTTACCGGTGTACAGGTGGGTGTATGGTTCGGGTAAACCTACACATTCTGGT
* *
9223 GATTGGATGGGGGTAGTGTTCTTGTTTTTAAAACATGTTTTGATAAATTAAGTTTTCTTCTGAAT
66 GATTGGATGGGGGTAGTGTTCATGTTTTTAAAACATGTTTTGATAAATTGAGTTTTCTTCTGAAT
* *
9288 TACTTTGATTTGTATGTTTTTATACACCACAAGAGCATACTGGGCTTTTTAGCTCATTATGTACA
131 TACTTTGATCTGTATGTTTTTATACACCACAAGAGCATACTGGGCTTTTTAGCTCATTATGTAAA
*
9353 TTTTACCATTTTCAGATAACAACAGACCGTAAGCTAGCAGATTTGGCATCAGGGGAGATCAACTA
196 TTTTACCATTTTCAGATAACAGCAGACCGTAAGCTAGCAGATTTGGCATCAGGGGAGATCAACTA
* *
9418 CTTTTACTTTGTACGAAAGTATATTCTTATATGTTTTCATTTGTATTTGGTGACATGCATTTTGC
261 CTTTTACTTTGTACGAACGTATATTCTTATATGTTTTCATTTGTATTTGGTGACATGTATTTTGC
* *
9483 TATCGTATTGGATATATTCATATTACTGATATTTTGTTCTGTAAATGTTTTATATGGTTTTCTAA
326 TATCGTATTGGATATATTCGTATTACTGATATTTTGTTCCGTAAATGTTTTATATGGTTTTCTAA
*
9548 AATTATGTGTTCATATATGTTTATTATATAAATCTTTATTAGGGATAAATTTCATATATATATTA
391 AATTATGTGTTCATATATGTTTATCATATAAATCTTTATTAGGGATAAATTTCATATATATATTA
* *
9613 ATGAAACATGGATTTCAACATTGTTTTAAATATAAAAAGAATCTCTGAATGGGATATGTGACTGC
456 ATGAAACATGGATTTCAACGTTGTTTTAAATATAAAAAGAATCTATGAAT-GGATATGTGACTGC
*
9678 TTAGGTTTAGGCCTAGCGTTCAA
520 TTAGGTTTGGGCCTAGCGTTCAA
9701 GC
1 GC
9703 CGGGTCTAGG
Statistics
Matches: 1013, Mismatches: 71, Indels: 25
0.91 0.06 0.02
Matches are distributed among these distances:
543 599 0.59
544 3 0.00
545 1 0.00
546 2 0.00
547 1 0.00
548 3 0.00
560 66 0.07
561 338 0.33
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.41
Consensus pattern (542 bp):
GCACAGGTTAAGCCTTACCGGTGTACAGGTGGGTGTATGGTTCGGGTAAACCTACACATTCTGGT
GATTGGATGGGGGTAGTGTTCATGTTTTTAAAACATGTTTTGATAAATTGAGTTTTCTTCTGAAT
TACTTTGATCTGTATGTTTTTATACACCACAAGAGCATACTGGGCTTTTTAGCTCATTATGTAAA
TTTTACCATTTTCAGATAACAGCAGACCGTAAGCTAGCAGATTTGGCATCAGGGGAGATCAACTA
CTTTTACTTTGTACGAACGTATATTCTTATATGTTTTCATTTGTATTTGGTGACATGTATTTTGC
TATCGTATTGGATATATTCGTATTACTGATATTTTGTTCCGTAAATGTTTTATATGGTTTTCTAA
AATTATGTGTTCATATATGTTTATCATATAAATCTTTATTAGGGATAAATTTCATATATATATTA
ATGAAACATGGATTTCAACGTTGTTTTAAATATAAAAAGAATCTATGAATGGATATGTGACTGCT
TAGGTTTGGGCCTAGCGTTCAA
Found at i:15373 original size:13 final size:13
Alignment explanation
Indices: 15350--15401 Score: 77
Period size: 13 Copynumber: 4.0 Consensus size: 13
15340 TGAACCGATT
*
15350 TGACCCATTGACC
1 TGACCCGTTGACC
*
15363 CGACCCGTTGACC
1 TGACCCGTTGACC
15376 TGACCCGTTGACC
1 TGACCCGTTGACC
*
15389 TGATCCGTTGACC
1 TGACCCGTTGACC
15402 GTTGACTGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 35 1.00
ACGTcount: A:0.17, C:0.38, G:0.21, T:0.23
Consensus pattern (13 bp):
TGACCCGTTGACC
Found at i:15429 original size:25 final size:27
Alignment explanation
Indices: 15382--15439 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 27
15372 GACCTGACCC
*
15382 GTTGACCTGATCCGTTGACCGTTGACT
1 GTTGACCTGATCCATTGACCGTTGACT
*
15409 GTTGACC-GA-CCATTGATCGTTGACT
1 GTTGACCTGATCCATTGACCGTTGACT
15434 -TTGACC
1 GTTGACC
15440 AAAAGTCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 6 0.21
25 14 0.48
26 2 0.07
27 7 0.24
ACGTcount: A:0.17, C:0.26, G:0.24, T:0.33
Consensus pattern (27 bp):
GTTGACCTGATCCATTGACCGTTGACT
Found at i:16337 original size:42 final size:42
Alignment explanation
Indices: 16290--16500 Score: 386
Period size: 42 Copynumber: 5.0 Consensus size: 42
16280 GATTGAAGGA
16290 AGTTTCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTAC
1 AGTTTCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTAC
* *
16332 AGTTTCCCAGGTTTCTTTGTTGTGTGCAAGGGTAAGCCTTAC
1 AGTTTCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTAC
*
16374 AGTTTACCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTAC
1 AGTTTCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTAC
*
16416 AGTTTCCCAGGTTCCTTTGATGTGTGCAAGGGTAAGCCTTAC
1 AGTTTCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTAC
16458 AGTTTCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTAC
1 AGTTTCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTAC
16500 A
1 A
16501 ATTTTCCTAG
Statistics
Matches: 161, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 161 1.00
ACGTcount: A:0.18, C:0.22, G:0.26, T:0.34
Consensus pattern (42 bp):
AGTTTCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTAC
Found at i:20220 original size:20 final size:20
Alignment explanation
Indices: 20195--20232 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
20185 TTTGGTTCAC
*
20195 GGAATATAAGATTACCAGTG
1 GGAATAAAAGATTACCAGTG
20215 GGAATAAAAGATTACCAG
1 GGAATAAAAGATTACCAG
20233 GGAATAGGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.11, G:0.24, T:0.21
Consensus pattern (20 bp):
GGAATAAAAGATTACCAGTG
Found at i:20235 original size:18 final size:19
Alignment explanation
Indices: 20195--20238 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
20185 TTTGGTTCAC
*
20195 GGAATATAAGATTACCAGTG
1 GGAATAAAAGATTACCAG-G
20215 GGAATAAAAGATTACCA-G
1 GGAATAAAAGATTACCAGG
20233 GGAATA
1 GGAATA
20239 GGATTACTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.30
20 16 0.70
ACGTcount: A:0.45, C:0.09, G:0.25, T:0.20
Consensus pattern (19 bp):
GGAATAAAAGATTACCAGG
Found at i:20463 original size:37 final size:37
Alignment explanation
Indices: 20383--20464 Score: 96
Period size: 37 Copynumber: 2.2 Consensus size: 37
20373 TAACAATTTG
* *
20383 AAAAATATTTATATATTTTCTTTAAAAAATTTAAATTC
1 AAAAA-ATTTATATATTTTCTTTAAAAAATTGAAAATC
*
20421 AAAAAATTTATATAATTTT-TTTACAAAATTGAAAAT-
1 AAAAAATTTATAT-ATTTTCTTTAAAAAATTGAAAATC
20457 ATAAAAAT
1 A-AAAAAT
20465 GTTTAATGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
36 1 0.03
37 28 0.72
38 10 0.26
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (37 bp):
AAAAAATTTATATATTTTCTTTAAAAAATTGAAAATC
Found at i:20463 original size:38 final size:38
Alignment explanation
Indices: 20383--20469 Score: 99
Period size: 38 Copynumber: 2.3 Consensus size: 38
20373 TAACAATTTG
*
20383 AAAAATATTTATATATTTTCTTTAAAAAATTTAAATTC
1 AAAAATATTTATATATTTTCTTTAAAAAATTAAAATTC
*
20421 AAAAA-ATTTATATAATTTT-TTTACAAAATTGAAAATAT-
1 AAAAATATTTATAT-ATTTTCTTTAAAAAATT-AAAAT-TC
*
20459 AAAAATGTTTA
1 AAAAATATTTA
20470 ATGAAAGGGT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
37 18 0.43
38 19 0.45
39 5 0.12
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (38 bp):
AAAAATATTTATATATTTTCTTTAAAAAATTAAAATTC
Found at i:21266 original size:26 final size:24
Alignment explanation
Indices: 21216--21270 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 24
21206 TTTGGTAAAT
*
21216 TAAAACTATAATTTTTTATATAAA
1 TAAAACTATAATTTTTTATAAAAA
21240 TAAAATCTACTAATTTTATTA-AAAAA
1 TAAAA-CTA-TAATTTT-TTATAAAAA
21266 TAAAA
1 TAAAA
21271 AAAAATCTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 5 0.19
25 3 0.11
26 16 0.59
27 3 0.11
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (24 bp):
TAAAACTATAATTTTTTATAAAAA
Found at i:22880 original size:5 final size:5
Alignment explanation
Indices: 22870--22900 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
22860 TATCTTAGTC
*
22870 GAATT GAATT GAATT GAATT GAATC GAATT G
1 GAATT GAATT GAATT GAATT GAATT GAATT G
22901 TTTGAACTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.39, C:0.03, G:0.23, T:0.35
Consensus pattern (5 bp):
GAATT
Found at i:25043 original size:2 final size:2
Alignment explanation
Indices: 25036--25064 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
25026 CTAGATGAGT
25036 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
25065 TATTCATCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:25322 original size:2 final size:2
Alignment explanation
Indices: 25315--25346 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
25305 ATTCCATGTC
25315 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25347 TAAATGGACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25686 original size:20 final size:20
Alignment explanation
Indices: 25663--25701 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
25653 ATTTATATTA
25663 AAATTCTAGA-ATTTGTACTT
1 AAATT-TAGATATTTGTACTT
*
25683 AAATTTTGATATTTGTACT
1 AAATTTAGATATTTGTACT
25702 ATCAGTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.33, C:0.08, G:0.10, T:0.49
Consensus pattern (20 bp):
AAATTTAGATATTTGTACTT
Found at i:27059 original size:44 final size:41
Alignment explanation
Indices: 26982--27074 Score: 127
Period size: 44 Copynumber: 2.2 Consensus size: 41
26972 GTAACGCGAT
* *
26982 TTTGAAAAATGTGTTGCGATAGTTAAAATGTGTTGCGATAG
1 TTTGAAAAATGTGTTGCGATAGTGAAAAAGTGTTGCGATAG
27023 TTTGAAAAACGTGTTGTTGCGATAGTGAAAAAGTGTTGCGATAG
1 TTTGAAAAA--TG-TGTTGCGATAGTGAAAAAGTGTTGCGATAG
27067 --TGAAAAAT
1 TTTGAAAAAT
27075 CCAAAATAAG
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
40 1 0.02
41 9 0.19
42 7 0.15
43 2 0.04
44 28 0.60
ACGTcount: A:0.34, C:0.05, G:0.27, T:0.33
Consensus pattern (41 bp):
TTTGAAAAATGTGTTGCGATAGTGAAAAAGTGTTGCGATAG
Found at i:27073 original size:19 final size:20
Alignment explanation
Indices: 26984--27074 Score: 114
Period size: 19 Copynumber: 4.4 Consensus size: 20
26974 AACGCGATTT
26984 TGAAAAATGTGTTGCGATAG
1 TGAAAAATGTGTTGCGATAG
*
27004 T-TAAAATGTGTTGCGATAG
1 TGAAAAATGTGTTGCGATAG
27023 TTTGAAAAACGTGTTGTTGCGATAG
1 --TGAAAAA--TG-TGTTGCGATAG
27048 TGAAAAA-GTGTTGCGATAG
1 TGAAAAATGTGTTGCGATAG
27067 TGAAAAAT
1 TGAAAAAT
27075 CCAAAATAAG
Statistics
Matches: 62, Mismatches: 2, Indels: 14
0.79 0.03 0.18
Matches are distributed among these distances:
19 35 0.56
20 2 0.03
21 1 0.02
22 4 0.06
23 7 0.11
24 2 0.03
25 11 0.18
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.32
Consensus pattern (20 bp):
TGAAAAATGTGTTGCGATAG
Found at i:27451 original size:21 final size:21
Alignment explanation
Indices: 27434--27806 Score: 369
Period size: 21 Copynumber: 18.4 Consensus size: 21
27424 AATTTGGAAA
27434 ATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTGGACT
* **
27455 ATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAACTTGGACT
*
27474 ATCGCAACGC---CTTCGACT
1 ATCGCAACGCGAACTTGGACT
* **
27492 ATCGCAACGCGAATTTGGAAA
1 ATCGCAACGCGAACTTGGACT
*
27513 ATCGCAATGCGAACTTGGACT
1 ATCGCAACGCGAACTTGGACT
**
27534 ATCGCAA--CGAACTTGGAAA
1 ATCGCAACGCGAACTTGGACT
* *
27553 ATCGCAATGCGAACTTCGACT
1 ATCGCAACGCGAACTTGGACT
*
27574 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTGGACT
*
27595 ATCGCAATGCGAACTTGGACT
1 ATCGCAACGCGAACTTGGACT
*
27616 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTGGACT
27637 ATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTGGACT
* **
27658 ATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAACTTGGACT
* *
27677 ATCGCAATGCGAACTTCGACT
1 ATCGCAACGCGAACTTGGACT
* **
27698 ATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAACTTGGACT
27717 ATCGCAA-GCGAACTTGGACT
1 ATCGCAACGCGAACTTGGACT
* **
27737 ATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAACTTGGACT
* * *
27756 ATCACAACGCGAACTTCGATT
1 ATCGCAACGCGAACTTGGACT
* *
27777 ATCGCAACGTGAACTTGGAAT
1 ATCGCAACGCGAACTTGGACT
27798 ATCGCAACG
1 ATCGCAACG
27807 AATTTGGACT
Statistics
Matches: 288, Mismatches: 52, Indels: 24
0.79 0.14 0.07
Matches are distributed among these distances:
18 14 0.05
19 79 0.27
20 16 0.06
21 179 0.62
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.21
Consensus pattern (21 bp):
ATCGCAACGCGAACTTGGACT
Found at i:27469 original size:40 final size:40
Alignment explanation
Indices: 27414--27856 Score: 508
Period size: 40 Copynumber: 11.1 Consensus size: 40
27404 GTTGCGATTT
*
27414 TATCGCAACGAATTTGGAAAATCGCAACGCGAACTTGGAC
1 TATCGCAACGAATTTGGAAAATCGCAATGCGAACTTGGAC
* *
27454 TATCGCAACGAATTTGGAAAATCGCAA--CG-CCTTCGAC
1 TATCGCAACGAATTTGGAAAATCGCAATGCGAACTTGGAC
27491 TATCGCAACGCGAATTTGGAAAATCGCAATGCGAACTTGGAC
1 TATCGCAA--CGAATTTGGAAAATCGCAATGCGAACTTGGAC
* *
27533 TATCGCAACGAACTTGGAAAATCGCAATGCGAACTTCGAC
1 TATCGCAACGAATTTGGAAAATCGCAATGCGAACTTGGAC
* * **
27573 TATCGCAACGCGAACTTCGACTATCGCAATGCGAACTTGGAC
1 TATCGCAA--CGAATTTGGAAAATCGCAATGCGAACTTGGAC
* * ** *
27615 TATCGCAACGCGAACTTCGACTATCGCAACGCGAACTTGGAC
1 TATCGCAA--CGAATTTGGAAAATCGCAATGCGAACTTGGAC
*
27657 TATCGCAACGAATTTGGAAAATCGCAATGCGAACTTCGAC
1 TATCGCAACGAATTTGGAAAATCGCAATGCGAACTTGGAC
27697 TATCGCAACGAATTTGGAAAATCGCAA-GCGAACTTGGAC
1 TATCGCAACGAATTTGGAAAATCGCAATGCGAACTTGGAC
* * * *
27736 TATCGCAACGAATTTGGAAAATCACAACGCGAACTTCGAT
1 TATCGCAACGAATTTGGAAAATCGCAATGCGAACTTGGAC
* * *
27776 TATCGCAACGTGAACTTGGAATATCGCAA--CGAATTTGGAC
1 TATCGCAAC--GAATTTGGAAAATCGCAATGCGAACTTGGAC
** * * *
27816 TAAAG-TA--AATTTGGAAAATTGCAATGCGAACTTAGAC
1 TATCGCAACGAATTTGGAAAATCGCAATGCGAACTTGGAC
27853 TATC
1 TATC
27857 ACAAAATCGC
Statistics
Matches: 354, Mismatches: 37, Indels: 27
0.85 0.09 0.06
Matches are distributed among these distances:
35 14 0.04
37 25 0.07
38 2 0.01
39 57 0.16
40 148 0.42
41 2 0.01
42 106 0.30
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.22
Consensus pattern (40 bp):
TATCGCAACGAATTTGGAAAATCGCAATGCGAACTTGGAC
Found at i:27783 original size:203 final size:200
Alignment explanation
Indices: 27434--27817 Score: 619
Period size: 203 Copynumber: 1.9 Consensus size: 200
27424 AATTTGGAAA
*
27434 ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAAAATCGCAACGCCTTCGACTATCGCAA
1 ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAAAATCGCAACGACTTCGACTATCGCAA
* *
27499 CGCGAATTTGGAAAATCGCAATGCGAACTTGGACTATCGCAACGAACTTGGAAAATCGCAATGCG
66 C-CGAATTTGGAAAATCGCAATGCGAACTTGGACTATCGCAACGAACTTGGAAAATCACAACGCG
*
27564 AACTTCGACTATCGCAACGCGAACTTCGACTATCGCAATGCGAACTTGGACTATCGCAACGCGAA
130 AACTTCGACTATCGCAACGCGAACTTCGAATATCGCAA--CGAACTTGGACTATCGCAACGCGAA
27629 CTTCGACT
193 CTTCGACT
27637 ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAAAATCGCAATGCGAACTTCGACTATCG
1 ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAAAATCGCAA--CG-ACTTCGACTATCG
*
27702 CAA-CGAATTTGGAAAATCGCAA-GCGAACTTGGACTATCGCAACGAATTTGGAAAATCACAACG
63 CAACCGAATTTGGAAAATCGCAATGCGAACTTGGACTATCGCAACGAACTTGGAAAATCACAACG
* * * *
27765 CGAACTTCGATTATCGCAACGTGAACTTGGAATATCGCAACGAATTTGGACTA
128 CGAACTTCGACTATCGCAACGCGAACTTCGAATATCGCAACGAACTTGGACTA
27818 AAGTAAATTT
Statistics
Matches: 169, Mismatches: 9, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
201 12 0.07
203 121 0.72
204 19 0.11
205 2 0.01
206 15 0.09
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.21
Consensus pattern (200 bp):
ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAAAATCGCAACGACTTCGACTATCGCAA
CCGAATTTGGAAAATCGCAATGCGAACTTGGACTATCGCAACGAACTTGGAAAATCACAACGCGA
ACTTCGACTATCGCAACGCGAACTTCGAATATCGCAACGAACTTGGACTATCGCAACGCGAACTT
CGACT
Found at i:27811 original size:61 final size:61
Alignment explanation
Indices: 27414--27817 Score: 355
Period size: 61 Copynumber: 6.7 Consensus size: 61
27404 GTTGCGATTT
* * * * *
27414 TATCGCAAC-GAATTTGGAAAATCGCAACGCGAACTTGGACTATCGCAA--CGAATTTGGAA
1 TATCGCAACGGAACTTGGAATATCGCAA-GCGAACTTCGACTATCGCAACGCGAACTTGGAC
* * * * * * ** *
27473 AATCGCAAC-G-CCTTCGACTATCGCAACGCGAATTTGGAAAATCGCAATGCGAACTTGGAC
1 TATCGCAACGGAACTTGGAATATCGCAA-GCGAACTTCGACTATCGCAACGCGAACTTGGAC
* *
27533 TATCGCAAC-GAACTTGGAAAATCGCAATGCGAACTTCGACTATCGCAACGCGAACTTCGAC
1 TATCGCAACGGAACTTGGAATATCGCAA-GCGAACTTCGACTATCGCAACGCGAACTTGGAC
* *
27594 TATCGCAATGCGAACTTGGACTATCGCAACGCGAACTTCGACTATCGCAACGCGAACTTGGAC
1 TATCGCAACG-GAACTTGGAATATCGCAA-GCGAACTTCGACTATCGCAACGCGAACTTGGAC
* * * *
27657 TATCGCAAC-GAATTTGGAAAATCGCAATGCGAACTTCGACTATCGCAA--CGAATTTGGAA
1 TATCGCAACGGAACTTGGAATATCGCAA-GCGAACTTCGACTATCGCAACGCGAACTTGGAC
* * * * ** * * *
27716 AATCGCAA-GCGAACTTGGACTATCGCAA-CGAATTTGGAAAATCACAACGCGAACTTCGAT
1 TATCGCAACG-GAACTTGGAATATCGCAAGCGAACTTCGACTATCGCAACGCGAACTTGGAC
* *
27776 TATCGCAACGTGAACTTGGAATATCGCAA-CGAATTTGGACTA
1 TATCGCAACG-GAACTTGGAATATCGCAAGCGAACTTCGACTA
27818 AAGTAAATTT
Statistics
Matches: 283, Mismatches: 52, Indels: 18
0.80 0.15 0.05
Matches are distributed among these distances:
58 43 0.15
59 25 0.09
60 48 0.17
61 111 0.39
63 56 0.20
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.22
Consensus pattern (61 bp):
TATCGCAACGGAACTTGGAATATCGCAAGCGAACTTCGACTATCGCAACGCGAACTTGGAC
Found at i:28666 original size:21 final size:21
Alignment explanation
Indices: 28640--28695 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
28630 GACTCAAAAT
*
28640 AATAAAAAAATTATTTTATTC
1 AATAAAAAAATTATTTAATTC
* * *
28661 AATAAAAACATTGACTTAATTG
1 AATAAAAAAATT-ATTTAATTC
28683 AA-AAAAAAATTAT
1 AATAAAAAAATTAT
28696 ATATAGAGGG
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
20 1 0.04
21 19 0.68
22 8 0.29
ACGTcount: A:0.57, C:0.05, G:0.04, T:0.34
Consensus pattern (21 bp):
AATAAAAAAATTATTTAATTC
Found at i:28869 original size:37 final size:38
Alignment explanation
Indices: 28783--28876 Score: 163
Period size: 38 Copynumber: 2.5 Consensus size: 38
28773 TTTTCACTCT
28783 AAACCCGAACCCGACCCGACCCGAATATCACACTTAAAA
1 AAACCCG-ACCCGACCCGACCCGAATATCACACTTAAAA
*
28822 AAACCCGACCCGACTCGACCCGAATATCACACTT-AAA
1 AAACCCGACCCGACCCGACCCGAATATCACACTTAAAA
28859 AAACCCGACCCGACCCGA
1 AAACCCGACCCGACCCGA
28877 ACAATATAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
37 20 0.38
38 26 0.49
39 7 0.13
ACGTcount: A:0.38, C:0.40, G:0.12, T:0.10
Consensus pattern (38 bp):
AAACCCGACCCGACCCGACCCGAATATCACACTTAAAA
Found at i:28953 original size:31 final size:33
Alignment explanation
Indices: 28860--28954 Score: 90
Period size: 31 Copynumber: 2.9 Consensus size: 33
28850 ACACTTAAAA
** *
28860 AACCCGACCCGACCCGAACAAT-ATAAAGTTTC
1 AACCCGACCCGACCCGAACAATAATAAAAATCC
* *
28892 -ATCCGACCCGACCCGAATATATGAATTAAAAATCC
1 AACCCGACCCGACCCGAACA-AT-AA-TAAAAATCC
28927 AACCCGACCCGACCC-AA-AATAATAAAAA
1 AACCCGACCCGACCCGAACAATAATAAAAA
28955 ATTATTTTTA
Statistics
Matches: 52, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
31 23 0.44
32 4 0.08
33 2 0.04
34 2 0.04
35 8 0.15
36 13 0.25
ACGTcount: A:0.43, C:0.32, G:0.11, T:0.15
Consensus pattern (33 bp):
AACCCGACCCGACCCGAACAATAATAAAAATCC
Found at i:31567 original size:2 final size:2
Alignment explanation
Indices: 31556--31584 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
31546 AGGAATATCC
31556 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
31585 TGAAAATCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:33259 original size:36 final size:36
Alignment explanation
Indices: 33219--33297 Score: 140
Period size: 36 Copynumber: 2.2 Consensus size: 36
33209 TTTTAGTATA
33219 TAAACCTATATAAGGAATTACCAGCTTGATCAGAGC
1 TAAACCTATATAAGGAATTACCAGCTTGATCAGAGC
*
33255 TAAACCTATATAAGGAATTACTAGCTTGATCAGAGC
1 TAAACCTATATAAGGAATTACCAGCTTGATCAGAGC
*
33291 TGAACCT
1 TAAACCT
33298 GCAGAGACTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (36 bp):
TAAACCTATATAAGGAATTACCAGCTTGATCAGAGC
Found at i:34653 original size:2 final size:2
Alignment explanation
Indices: 34646--34674 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
34636 CACAAGTAAC
34646 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
34675 TCAACCATGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:36392 original size:38 final size:40
Alignment explanation
Indices: 36328--36404 Score: 104
Period size: 38 Copynumber: 2.0 Consensus size: 40
36318 TGGACCTTTC
* * * *
36328 ATTTCTAATTTATTGCACTTTTATTATTTTGTTTTATTTT
1 ATTTCTAATTTAGTGCACTATTATTATTCTGATTTATTTT
36368 ATTT-TAATTTAGT-CACTATTATTATTCTGATTTATTT
1 ATTTCTAATTTAGTGCACTATTATTATTCTGATTTATTT
36405 GAATTTAGTC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 21 0.64
39 8 0.24
40 4 0.12
ACGTcount: A:0.23, C:0.08, G:0.05, T:0.64
Consensus pattern (40 bp):
ATTTCTAATTTAGTGCACTATTATTATTCTGATTTATTTT
Found at i:36662 original size:11 final size:11
Alignment explanation
Indices: 36646--36705 Score: 52
Period size: 11 Copynumber: 5.5 Consensus size: 11
36636 AATTAGGTCC
36646 TTATTTTATGT
1 TTATTTTATGT
* *
36657 TTATTTCATTT
1 TTATTTTATGT
*
36668 TTATTATATG-
1 TTATTTTATGT
36678 TT-TTTTACTGT
1 TTATTTTA-TGT
*
36689 TTATTTTTATTT
1 TTA-TTTTATGT
36701 TTATT
1 TTATT
36706 ATTTGTTAGT
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
9 4 0.11
10 4 0.11
11 20 0.53
12 5 0.13
13 5 0.13
ACGTcount: A:0.18, C:0.03, G:0.05, T:0.73
Consensus pattern (11 bp):
TTATTTTATGT
Found at i:36705 original size:33 final size:31
Alignment explanation
Indices: 36649--36712 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 31
36639 TAGGTCCTTA
36649 TTTTATGTTTATTTCATTTTTATTATATGTT
1 TTTTATGTTTATTTCATTTTTATTATATGTT
* *
36680 TTTTACTGTTTATTTTTATTTTTATTATTTGTT
1 TTTTA-TGTTTA-TTTCATTTTTATTATATGTT
36713 AGTTTATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 5 0.17
32 6 0.21
33 18 0.62
ACGTcount: A:0.17, C:0.03, G:0.06, T:0.73
Consensus pattern (31 bp):
TTTTATGTTTATTTCATTTTTATTATATGTT
Found at i:39167 original size:58 final size:59
Alignment explanation
Indices: 39021--39176 Score: 233
Period size: 59 Copynumber: 2.7 Consensus size: 59
39011 TATGATATCA
* * * *
39021 TTAAAGAAACTAAGTTTTATTTTCAAAGGTTTCTTGACATGATGTTTTAAAATGTTATT
1 TTAAAGAAACTAAGTCTGATTTTCAGAGGTTTCTTGACATGATGTTTTAAAATGTAATT
* *
39080 TTAAAGAAACTAGGTCTGATTTTCAGAGGTTTCTTGACATGATGTTTTTAAATG-AATT
1 TTAAAGAAACTAAGTCTGATTTTCAGAGGTTTCTTGACATGATGTTTTAAAATGTAATT
* *
39138 TTAAAGAAGCTAAGTCTGATTTTTAGAGGTTTCTTGACA
1 TTAAAGAAACTAAGTCTGATTTTCAGAGGTTTCTTGACA
39177 ATTACTCAAC
Statistics
Matches: 88, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
58 39 0.44
59 49 0.56
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.42
Consensus pattern (59 bp):
TTAAAGAAACTAAGTCTGATTTTCAGAGGTTTCTTGACATGATGTTTTAAAATGTAATT
Found at i:39316 original size:42 final size:42
Alignment explanation
Indices: 39254--39357 Score: 127
Period size: 42 Copynumber: 2.5 Consensus size: 42
39244 GATTAGTAAG
**
39254 TCCTTCGGGCCATCAATAAGTCTTTCGAGCATAATGATTAAA
1 TCCTTCGGGCCATCAATAAGTCTCACGAGCATAATGATTAAA
* * * * *
39296 TCCTTCGGGTCATTAGTAAGTCTCACGAGCATGATGATTAAT
1 TCCTTCGGGCCATCAATAAGTCTCACGAGCATAATGATTAAA
* *
39338 TCTTTCGGGCCATCTATAAG
1 TCCTTCGGGCCATCAATAAG
39358 ACATTTGGGC
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (42 bp):
TCCTTCGGGCCATCAATAAGTCTCACGAGCATAATGATTAAA
Found at i:42830 original size:10 final size:10
Alignment explanation
Indices: 42786--42907 Score: 54
Period size: 11 Copynumber: 11.4 Consensus size: 10
42776 CACAGAGAGA
42786 AAAAAGAAA-
1 AAAAAGAAAG
*
42795 AAATATAGCAAG
1 AAA-A-AGAAAG
* *
42807 AAAAAGACAT
1 AAAAAGAAAG
*
42817 AAAAAGATAG
1 AAAAAGAAAG
42827 -AAAAGAAAG
1 AAAAAGAAAG
42836 AAAAAAGGAAAAG
1 -AAAAA-G-AAAG
42849 AAAAAGAAA-
1 AAAAAGAAAG
*
42858 AAACGAAAAAACG
1 AAA--AAGAAA-G
*
42871 AAAAAAGAAAAT
1 -AAAAAG-AAAG
42883 AAAAAGAAAG
1 AAAAAGAAAG
42893 AAGAAA-AGAAG
1 AA-AAAGA-AAG
42904 AAAA
1 AAAA
42908 TAAACAGATC
Statistics
Matches: 87, Mismatches: 11, Indels: 29
0.69 0.09 0.23
Matches are distributed among these distances:
9 14 0.16
10 23 0.26
11 29 0.33
12 11 0.13
13 7 0.08
14 3 0.03
ACGTcount: A:0.76, C:0.03, G:0.16, T:0.04
Consensus pattern (10 bp):
AAAAAGAAAG
Found at i:42860 original size:8 final size:8
Alignment explanation
Indices: 42825--42907 Score: 53
Period size: 8 Copynumber: 10.1 Consensus size: 8
42815 ATAAAAAGAT
42825 AGAAAAGAA
1 AGAAAA-AA
42834 AGAAAAAA
1 AGAAAAAA
*
42842 GGAAAAGAAAA
1 --AGAA-AAAA
42853 AGAAAAAA
1 AGAAAAAA
*
42861 CGAAAAAA
1 AGAAAAAA
*
42869 CG-AAAAA
1 AGAAAAAA
*
42876 AGAAAATA
1 AGAAAAAA
*
42884 A-AAAGAA
1 AGAAAAAA
*
42891 AGAAGAAA
1 AGAAAAAA
*
42899 AGAAGAAA
1 AGAAAAAA
42907 A
1 A
42908 TAAACAGATC
Statistics
Matches: 60, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
7 11 0.18
8 33 0.55
9 9 0.15
10 3 0.05
11 4 0.07
ACGTcount: A:0.78, C:0.02, G:0.18, T:0.01
Consensus pattern (8 bp):
AGAAAAAA
Found at i:42886 original size:26 final size:26
Alignment explanation
Indices: 42832--42911 Score: 94
Period size: 26 Copynumber: 3.0 Consensus size: 26
42822 GATAGAAAAG
42832 AAAGAAAAAAGGAAAAGAA-AAAGA-AA
1 AAAGAAAAAA-GAAAAGAAGAAA-ATAA
42858 AAACGAAAAAACGAAAA-AAGAAAATAA
1 AAA-GAAAAAA-GAAAAGAAGAAAATAA
*
42885 AAAGAAAGAAGAAAAGAAGAAAATAA
1 AAAGAAAAAAGAAAAGAAGAAAATAA
42911 A
1 A
42912 CAGATCTAAC
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
25 5 0.10
26 23 0.48
27 20 0.42
ACGTcount: A:0.79, C:0.03, G:0.16, T:0.03
Consensus pattern (26 bp):
AAAGAAAAAAGAAAAGAAGAAAATAA
Found at i:42899 original size:23 final size:22
Alignment explanation
Indices: 42819--42907 Score: 76
Period size: 23 Copynumber: 3.9 Consensus size: 22
42809 AAAGACATAA
42819 AAAGATAGAAAAGAAAGAAAAAAG
1 AAAGA-AGAAAAGAAA-AAAAAAG
*
42843 GAA-AAGAAAAAGAAAAAACGAAA-
1 AAAGAAG-AAAAGAAAAAA--AAAG
42866 AAACGAA-AAAAGAAAATAAAAAG
1 AAA-GAAGAAAAGAAAA-AAAAAG
*
42889 AAAGAAGAAAAGAAGAAAA
1 AAAGAAGAAAAGAAAAAAA
42908 TAAACAGATC
Statistics
Matches: 54, Mismatches: 3, Indels: 18
0.72 0.04 0.24
Matches are distributed among these distances:
22 14 0.26
23 31 0.57
24 7 0.13
25 2 0.04
ACGTcount: A:0.78, C:0.02, G:0.18, T:0.02
Consensus pattern (22 bp):
AAAGAAGAAAAGAAAAAAAAAG
Found at i:54273 original size:58 final size:55
Alignment explanation
Indices: 54119--54290 Score: 174
Period size: 51 Copynumber: 3.1 Consensus size: 55
54109 CCCAAACAAC
54119 ATGATATTTTCAAAAGAAATATTTTAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTG
1 ATGATATTTTC-AAAG-AAT-TTTT-AAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTG
* * * * * *
54178 AT--T-TTTGCAAATG-ATTTTT-AGAAACTAAGCTTGATTTTCAGGGTTTTCTTG
1 ATGATATTTTCAAA-GAATTTTTAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTG
*
54229 ATGATGATTTTCAAAGAATTTTTAATGGAAGCTAAGCCTAATTTTTAGGGGTTCCTTG
1 ATGAT-ATTTTCAAAGAATTTTTAA--GAAGCTAAGCCTAATTTTTAGGGGTTTCTTG
54287 ATGA
1 ATGA
54291 CAACTAAGAA
Statistics
Matches: 91, Mismatches: 13, Indels: 19
0.74 0.11 0.15
Matches are distributed among these distances:
51 29 0.32
53 5 0.05
54 3 0.03
55 16 0.18
56 6 0.07
57 1 0.01
58 29 0.32
59 2 0.02
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (55 bp):
ATGATATTTTCAAAGAATTTTTAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTG
Found at i:55559 original size:91 final size:91
Alignment explanation
Indices: 55356--55883 Score: 814
Period size: 91 Copynumber: 5.8 Consensus size: 91
55346 ACATTTTTTA
*
55356 TGGAGAGTTCATAATGAGAAGAACTCATTCAACGAGGGAGAAAAAGTTCATAAT---AAGAACTT
1 TGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAAAAGTTCATAATGAGAAGAACTT
* *
55418 GTTCAATCTTGGCTCAACATTTCCAG
66 GTTCAACCTTGGATCAACATTTCCAG
*
55444 TGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAGAAGAACTT
1 TGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAAAAGTTCATAATGAGAAGAACTT
** *
55509 GTTCAACCTTTAATCAACGTTTCCAG
66 GTTCAACCTTGGATCAACATTTCCAG
* * * * *
55535 TAGAGAGTTCATAATGAGAAGAACTCATCCAATGAGAGAGAAGAAGTTTATAATGAGAAGAACTT
1 TGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAAAAGTTCATAATGAGAAGAACTT
* *
55600 GTTCAACCATGGATCAACATTTCAAG
66 GTTCAACCTTGGATCAACATTTCCAG
*
55626 TGGAGAGTTCATAATGAGAAGAACTCGA--CAACGAGGGAGAACAAGTTCATAATGAGAAGAACT
1 TGGAGAGTTCATAATGAGAAGAACTC-ATCCAACGAGGGAGAAAAAGTTCATAATGAGAAGAACT
* * *
55689 TCTTCAATCTTGGCTCAACATTTCCAG
65 TGTTCAACCTTGGATCAACATTTCCAG
*
55716 TGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAATAAGTTCATAATGAGAAGAACTT
1 TGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAAAAGTTCATAATGAGAAGAACTT
*
55781 GTTCAACCTTGGATTAACATTTCCAG
66 GTTCAACCTTGGATCAACATTTCCAG
* *
55807 TGGAGAGTTCATAATGAGAATAACTCATCCAACGAGGGAGAAAAAGTTCATAATGAGAAAAACTT
1 TGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAAAAGTTCATAATGAGAAGAACTT
55872 GTTCAACCTTGG
66 GTTCAACCTTGG
55884 TGAAACCATC
Statistics
Matches: 400, Mismatches: 34, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
88 52 0.13
89 1 0.00
90 79 0.20
91 267 0.67
92 1 0.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (91 bp):
TGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAAAAGTTCATAATGAGAAGAACTT
GTTCAACCTTGGATCAACATTTCCAG
Found at i:55708 original size:272 final size:269
Alignment explanation
Indices: 55356--55879 Score: 870
Period size: 272 Copynumber: 1.9 Consensus size: 269
55346 ACATTTTTTA
*
55356 TGGAGAGTTCATAATGAGAAGAACTCATTCAACGAGGGAGAAAAAGTTCATAATAAGAACTTGTT
1 TGGAGAGTTCATAATGAGAAGAACTCA-TCAACGAGGGAGAAAAAGTTCATAATAAGAACTTCTT
55421 CAATCTTGGCTCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAA
65 CAATCTTGGCTCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAA
* *
55486 GAAGTTCATAATGAGAAGAACTTGTTCAACCTTTAATCAACGTTTCCAGTAGAGAGTTCATAATG
130 GAAGTTCATAATGAGAAGAACTTGTTCAACCTTGAATCAACATTTCCAGTAGAGAGTTCATAATG
* * * *
55551 AGAAGAACTCATCCAATGAGAGAGAAGAAGTTTATAATGAGAAGAACTTGTTCAACCATGGATCA
195 AGAAGAACTCATCCAACGAGAGAGAAAAAGTTCATAATGAGAAAAACTTGTTCAACCATGGATCA
55616 ACATTTCAAG
260 ACATTTCAAG
*
55626 TGGAGAGTTCATAATGAGAAGAACTCGA-CAACGAGGGAGAACAAGTTCATAATGAGAAGAACTT
1 TGGAGAGTTCATAATGAGAAGAACTC-ATCAACGAGGGAGAAAAAGTTCATAAT---AAGAACTT
55690 CTTCAATCTTGGCTCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGA
62 CTTCAATCTTGGCTCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGA
* * * *
55755 GAATAAGTTCATAATGAGAAGAACTTGTTCAACCTTGGATTAACATTTCCAGTGGAGAGTTCATA
127 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTGAATCAACATTTCCAGTAGAGAGTTCATA
* *
55820 ATGAGAATAACTCATCCAACGAGGGAGAAAAAGTTCATAATGAGAAAAACTTGTTCAACC
192 ATGAGAAGAACTCATCCAACGAGAGAGAAAAAGTTCATAATGAGAAAAACTTGTTCAACC
55880 TTGGTGAAAC
Statistics
Matches: 236, Mismatches: 14, Indels: 6
0.92 0.05 0.02
Matches are distributed among these distances:
269 24 0.10
270 26 0.11
271 1 0.00
272 185 0.78
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (269 bp):
TGGAGAGTTCATAATGAGAAGAACTCATCAACGAGGGAGAAAAAGTTCATAATAAGAACTTCTTC
AATCTTGGCTCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAG
AAGTTCATAATGAGAAGAACTTGTTCAACCTTGAATCAACATTTCCAGTAGAGAGTTCATAATGA
GAAGAACTCATCCAACGAGAGAGAAAAAGTTCATAATGAGAAAAACTTGTTCAACCATGGATCAA
CATTTCAAG
Found at i:55726 original size:181 final size:181
Alignment explanation
Indices: 55356--55883 Score: 803
Period size: 181 Copynumber: 2.9 Consensus size: 181
55346 ACATTTTTTA
*
55356 TGGAGAGTTCATAATGAGAAGAACTCATTCAACGAGGGAGAAAAAGTTCATAAT---AAGAACTT
1 TGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAAAAGTTCATAATGAGAAGAACTT
* *
55418 GTTCAATCTTGGCTCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGA
66 GTTCAACCTTGGATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCA-CCAACGAGGGA
* ** *
55483 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTAATCAACGTTTCCAG
130 GAAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTGGATCAACATTTCCAG
* * * * *
55535 TAGAGAGTTCATAATGAGAAGAACTCATCCAATGAGAGAGAAGAAGTTTATAATGAGAAGAACTT
1 TGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAAAAGTTCATAATGAGAAGAACTT
* *
55600 GTTCAACCATGGATCAACATTTCAAGTGGAGAGTTCATAATGAGAAGAACTCGA-CAACGAGGGA
66 GTTCAACCTTGGATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTC-ACCAACGAGGGA
* * * *
55664 GAACAAGTTCATAATGAGAAGAACTTCTTCAATCTTGGCTCAACATTTCCAG
130 GAAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTGGATCAACATTTCCAG
*
55716 TGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAATAAGTTCATAATGAGAAGAACTT
1 TGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAAAAGTTCATAATGAGAAGAACTT
* *
55781 GTTCAACCTTGGATTAACATTTCCAGTGGAGAGTTCATAATGAGAATAACTCATCCAACGAGGGA
66 GTTCAACCTTGGATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCA-CCAACGAGGGA
*
55846 GAAAAAGTTCATAATGAGAAAAACTTGTTCAACCTTGG
130 GAAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTGG
55884 TGAAACCATC
Statistics
Matches: 313, Mismatches: 30, Indels: 9
0.89 0.09 0.03
Matches are distributed among these distances:
179 48 0.15
180 1 0.00
181 163 0.52
182 100 0.32
183 1 0.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (181 bp):
TGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAAAAGTTCATAATGAGAAGAACTT
GTTCAACCTTGGATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCACCAACGAGGGAG
AAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTGGATCAACATTTCCAG
Found at i:57009 original size:21 final size:21
Alignment explanation
Indices: 56976--57043 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
56966 ACCACTCCTT
* *
56976 AAGGATCACATATATATTCCA
1 AAGGACCACATATATGTTCCA
* * *
56997 AAGGACCAAATATGTGTCCCA
1 AAGGACCACATATATGTTCCA
* *
57018 AAGAACCGCATATATGTTCCA
1 AAGGACCACATATATGTTCCA
57039 AAGGA
1 AAGGA
57044 TTACATTTAT
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.41, C:0.21, G:0.16, T:0.22
Consensus pattern (21 bp):
AAGGACCACATATATGTTCCA
Found at i:57699 original size:19 final size:19
Alignment explanation
Indices: 57661--57699 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
57651 CCATAGTTGT
* *
57661 GGTATCGATACCGAGCTTG
1 GGTATCGATACCCAACTTG
*
57680 GGTATCGATACCCAATTTG
1 GGTATCGATACCCAACTTG
57699 G
1 G
57700 ATTCTGGAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (19 bp):
GGTATCGATACCCAACTTG
Found at i:64092 original size:18 final size:18
Alignment explanation
Indices: 64044--64094 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 18
64034 AGGATCGCAT
*
64044 ATATATTCTAAAGACCAA
1 ATATATTCCAAAGACCAA
*
64062 ATATATGTCCCAAAGAACC-C
1 ATATAT-T-CCAAAG-ACCAA
64082 ATATATTCCAAAG
1 ATATATTCCAAAG
64095 GATTACATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
18 12 0.43
19 2 0.07
20 11 0.39
21 3 0.11
ACGTcount: A:0.45, C:0.22, G:0.08, T:0.25
Consensus pattern (18 bp):
ATATATTCCAAAGACCAA
Found at i:64123 original size:21 final size:21
Alignment explanation
Indices: 64041--64124 Score: 77
Period size: 20 Copynumber: 4.2 Consensus size: 21
64031 TTAAGGATCG
*
64041 CATATATATTCTAAA-GACCA
1 CATATATATCCTAAAGGACCA
* * * *
64061 AATATATGTCCCAAAGAACC-
1 CATATATATCCTAAAGGACCA
**
64081 CATATAT-TCC-AAAGGATTA
1 CATATATATCCTAAAGGACCA
64100 CATATATATCCTAAAGGACCA
1 CATATATATCCTAAAGGACCA
64121 CATA
1 CATA
64125 GAACCCTCGA
Statistics
Matches: 49, Mismatches: 11, Indels: 7
0.73 0.16 0.10
Matches are distributed among these distances:
18 5 0.10
19 10 0.20
20 20 0.41
21 14 0.29
ACGTcount: A:0.44, C:0.21, G:0.08, T:0.26
Consensus pattern (21 bp):
CATATATATCCTAAAGGACCA
Found at i:66687 original size:29 final size:30
Alignment explanation
Indices: 66628--66687 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 30
66618 TAGGTCCTTA
*
66628 TTTTATGTTTATTTCATTTTTATTCTATGT
1 TTTTATGTTTATTTCATTTTTATTATATGT
*
66658 TTTTACTGTTTA-TT-ATTTTTATTATTTGT
1 TTTTA-TGTTTATTTCATTTTTATTATATGT
66687 T
1 T
66688 AGTTTATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 14 0.52
30 7 0.26
31 6 0.22
ACGTcount: A:0.17, C:0.05, G:0.07, T:0.72
Consensus pattern (30 bp):
TTTTATGTTTATTTCATTTTTATTATATGT
Found at i:69104 original size:59 final size:59
Alignment explanation
Indices: 69026--69188 Score: 240
Period size: 59 Copynumber: 2.8 Consensus size: 59
69016 CCCAATCGAT
* * * *
69026 ATGATATCTTTAAATAAACTAAGTCTAATTTTCAAAGGTTTCTTGACATGATGTTTTCAA
1 ATGATAT-TTTAAAGAAACTAAGTCTGATTTTCAGAGGTTTCTTGACACGATGTTTTCAA
* *
69086 ATGATATTTTAAAGAAACTAGGTTTGATTTTCAGAGGTTTCTTGACACGATGTTTTCAA
1 ATGATATTTTAAAGAAACTAAGTCTGATTTTCAGAGGTTTCTTGACACGATGTTTTCAA
*
69145 ATGA-ATTTTAAAGAAGCTAAGTCTGA-TTTCAGAGGTTTCTTGAC
1 ATGATATTTTAAAGAAACTAAGTCTGATTTTCAGAGGTTTCTTGAC
69189 GATTACTCAA
Statistics
Matches: 94, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
57 18 0.19
58 19 0.20
59 50 0.53
60 7 0.07
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.40
Consensus pattern (59 bp):
ATGATATTTTAAAGAAACTAAGTCTGATTTTCAGAGGTTTCTTGACACGATGTTTTCAA
Found at i:69313 original size:42 final size:42
Alignment explanation
Indices: 69266--69348 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 42
69256 GATTAGTAAG
* *
69266 TCCTTCGGGCCATCAGTAAG-CTTTTCGAGCATGATGATTAAA
1 TCCTTCGAGCCATCAGTAAGTCTTTT-GAGCATAATGATTAAA
*
69308 TCCTTCGAGTCATCAGTAAGTCTTTTGAGCATAATGATTAA
1 TCCTTCGAGCCATCAGTAAGTCTTTTGAGCATAATGATTAA
69349 GTCTTTCATG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 32 0.86
43 5 0.14
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (42 bp):
TCCTTCGAGCCATCAGTAAGTCTTTTGAGCATAATGATTAAA
Found at i:69981 original size:258 final size:256
Alignment explanation
Indices: 69502--70343 Score: 1199
Period size: 258 Copynumber: 3.3 Consensus size: 256
69492 TTCTTACTTA
* * * * *
69502 GTAAATCCTTCGGGCCATCAGTAAGTTTTTCGAGCATGATG-TCTAAATCCTTCGGGTCATATAT
1 GTAAGTCCTTTGGGCCATCAGTAAGTCTTTCGAGCATGATGAT-TAAATCCTTCGGGTCATCTGT
* * * * *
69566 AAGCCTTTCGAGTAAGATGATAAGTCCTTCGAGCCATCCACAAGACCTTCGGGTAAGATGT-TTT
65 CAGTCTTTCGAGTAAGATGATAAGTCCTTCGAGCCATCTATAAGACCTTCGGGCAAGAT-TCTTT
* * * *
69630 CACATG--ATTTGAAAAATAAAAAATCGATTTTCAAAGTTTCTCATTTAGTATTTTCAAAAAATG
129 CATATGAAATTTGAAAAAT-AAGAAGCGATTTTCAAAGTTTCTCATTTAGTATTTTCAGAAAATG
*
69693 AAATTTTTGAAAAGTAAGAAAGTTATTTCCAAAGTTTCTTAACTAGTAAACTATTTCCAAAATTG
193 AAATTTTTGAAAAGTAAGAAAG-TATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTG
*
69758 GTAAGTCCTTTGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTTGGGTCATCTGTC
1 GTAAGTCCTTTGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTC
* * ** * * *
69823 AGTCTTTCGAGTAAGATGACAAGTCTTTAAAGCTATCTATAAGACTTTCAGGCAAGATTCTTTCA
66 AGTCTTTCGAGTAAGATGATAAGTCCTTCGAGCCATCTATAAGACCTTCGGGCAAGATTCTTTCA
* *
69888 TATGAAAAATTGAAAAATAAGAAGCGATTTTCAAAGTTTCTTATTTAGTATTTTCAGAAAATGAA
131 TATG-AAATTTGAAAAATAAGAAGCGATTTTCAAAGTTTCTCATTTAGTATTTTCAGAAAATGAA
* *
69953 ATTTTTGAAAAGTAAGAAAGTGATTTCCAAAGTTTCTTACCTAGTGAATTATTTCCAAAATTG
195 ATTTTTGAAAAGTAAGAAAGT-ATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTG
*
70016 GTAAGTCCTCTGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTC
1 GTAAGTCCTTTGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTC
* *
70081 AGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCTATAAGACCTTCGGGCAAGATTCTTTCA
66 AGTCTTTCGAGTAAGATGATAAGTCCTTCGAGCCATCTATAAGACCTTCGGGCAAGATTCTTTCA
* * *
70146 TATGATAATTTGAAAAATGAGAAAGTGATTTTCAAAGTTTCTCATTTAGTATTTTCAGAAAATAA
131 TATGA-AATTTGAAAAATAAG-AAGCGATTTTCAAAGTTTCTCATTTAGTATTTTCAGAAAATGA
* * * * *
70211 AATTTTT-TAAAGTAAAAAAACTATTTTCAAAGTTTCTTACCTAGTAAACTATTTTCAAAATTG
194 AATTTTTGAAAAGT-AAGAAAGTATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTG
* * *
70274 GTAAGTCCTTTGGGTCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCAGGTCATCTGGC
1 GTAAGTCCTTTGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTC
70339 AGTCT
66 AGTCT
70344 CACTTGAGAA
Statistics
Matches: 523, Mismatches: 54, Indels: 16
0.88 0.09 0.03
Matches are distributed among these distances:
255 1 0.00
256 111 0.21
257 3 0.01
258 345 0.66
259 63 0.12
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.35
Consensus pattern (256 bp):
GTAAGTCCTTTGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTC
AGTCTTTCGAGTAAGATGATAAGTCCTTCGAGCCATCTATAAGACCTTCGGGCAAGATTCTTTCA
TATGAAATTTGAAAAATAAGAAGCGATTTTCAAAGTTTCTCATTTAGTATTTTCAGAAAATGAAA
TTTTTGAAAAGTAAGAAAGTATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTG
Found at i:70099 original size:42 final size:41
Alignment explanation
Indices: 70027--70118 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 41
70017 TAAGTCCTCT
* * *
70027 GGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTC
1 GGGCCATCTGTCAGTCTTTCGAGCAAGATGA-TAAATCCTTC
* *
70069 GGGTCATCTGTCAGTCTTTCGAGCAAGATGATAAGTCCTTC
1 GGGCCATCTGTCAGTCTTTCGAGCAAGATGATAAATCCTTC
70110 GGGCCATCT
1 GGGCCATCT
70119 ATAAGACCTT
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 17 0.39
42 27 0.61
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30
Consensus pattern (41 bp):
GGGCCATCTGTCAGTCTTTCGAGCAAGATGATAAATCCTTC
Found at i:70136 original size:41 final size:42
Alignment explanation
Indices: 70017--70138 Score: 133
Period size: 41 Copynumber: 2.9 Consensus size: 42
70007 CCAAAATTGG
*
70017 TAAGTCC-TCTGGGCCATC-AGTAAGTCTTTCGAGCATGATGAT
1 TAAGTCCTTC-GGGCCATCTA-TAAGTCTTTCGAGCAAGATGAT
* * * *
70059 TAAATCCTTCGGGTCATCTGTCAGTCTTTCGAGCAAGATGA-
1 TAAGTCCTTCGGGCCATCTATAAGTCTTTCGAGCAAGATGAT
* * *
70100 TAAGTCCTTCGGGCCATCTATAAGACCTTCGGGCAAGAT
1 TAAGTCCTTCGGGCCATCTATAAGTCTTTCGAGCAAGAT
70139 TCTTTCATAT
Statistics
Matches: 66, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
41 32 0.48
42 32 0.48
43 2 0.03
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.30
Consensus pattern (42 bp):
TAAGTCCTTCGGGCCATCTATAAGTCTTTCGAGCAAGATGAT
Found at i:74106 original size:30 final size:30
Alignment explanation
Indices: 74070--74129 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
74060 GTTCGTTTAA
* *
74070 ATTTTTAATAGT-TTTCTTGTTCGTTTATTT
1 ATTTTTAAAAGTGTTT-GTGTTCGTTTATTT
74100 ATTTTTAAAAGTGTTTGTGTTCGTTTATTT
1 ATTTTTAAAAGTGTTTGTGTTCGTTTATTT
74130 GTTGTTCGCG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 24 0.89
31 3 0.11
ACGTcount: A:0.18, C:0.05, G:0.13, T:0.63
Consensus pattern (30 bp):
ATTTTTAAAAGTGTTTGTGTTCGTTTATTT
Found at i:76407 original size:200 final size:200
Alignment explanation
Indices: 75972--77453 Score: 1591
Period size: 200 Copynumber: 7.4 Consensus size: 200
75962 GAAAATGTCC
** * * *
75972 AAGTATCGATAC-TTTTATATTCGTATCGATACTTTTATTCTAGTATGGTTCTCAAAGAATTTGT
1 AAGTATCGATACTTTTTATATAGGTATCGATACTTTTATTCCAGTATGCTTCTCAAACAATTTG-
** *
76036 C-CATAACAAAGTATCGATACACATGTATAAAATATCGATACTCT-GAATTTCGAAACCGATTAC
65 CACGCAA-AAAGTATCGATACACATGTATAAAATATCGATACT-TGGAATTTCGAAACCTATTAC
** *
76099 TTTAAAGTAATAATTAAATTTACAATGTAAACGGTAAAAGTCTATC-AGTATAATGATAATA-GC
128 TTTAAAGTAATAGGTAAATTTACAATGTAAACGGTAAAAGTCTATCGA-TTTAATGATAATAGGC
*
76162 GTAAACACA
192 ATAAACACA
** * * * * *
76171 TCGTATCGATACTTTGTTATATCGGTATTGATACTTTAATTCCATTATGCATCTCAAACAATTTG
1 AAGTATCGATACTTT-TTATATAGGTATCGATACTTTTATTCCAGTATGCTTCTCAAACAATTTG
* * *
76236 CACGCAAAAAGTATCTATACACATATATAAAATATTGATACTTGGAATTTCGAAACCTATTACTT
65 CACGCAAAAAGTATCGATACACATGTATAAAATATCGATACTTGGAATTTCGAAACCTATTACTT
* * * *
76301 TAAAGTAATAGATAAATTTACAATGTAAACGGTAAAAATTTACCGATTTAATGATAATAGGCATA
130 TAAAGTAATAGGTAAATTTACAATGTAAACGGTAAAAGTCTATCGATTTAATGATAATAGGCATA
*
76366 AACATA
195 AACACA
* * * * * * *
76372 AAGTATTGATAATTTTTATATAGGTATCAATACTTTTATTCTAGTATACTTCTCAAATAATTTAC
1 AAGTATCGATACTTTTTATATAGGTATCGATACTTTTATTCCAGTATGCTTCTCAAACAATTTGC
* * * * *
76437 ACGCAAAAAGTATCGATACACATGTACAAAGTATAGATACTTGGAATTTCGAAA-CTATAACTAT
66 ACGCAAAAAGTATCGATACACATGTATAAAATATCGATACTTGGAATTTCGAAACCTATTACTTT
* * * * * *
76501 AAAGTAATAGGTAAATTAACAATGTAAAAGGTAAAAGTTTATCGGTATAATGATAATAGGTGTAT
131 AAAGTAATAGGTAAATTTACAATGTAAACGGTAAAAGTCTATCGATTTAATGATAATA-G-GCAT
*
76566 ATA-AC-
194 AAACACA
* * ** ** * * * *
76571 AAGTATCGATACGTTATATATAGG--T-G-TAAATCAAGTCCAATATGCTTCTC-AATAATTTAC
1 AAGTATCGATACTTTTTATATAGGTATCGATACTTTTATTCCAGTATGCTTCTCAAACAATTTGC
* * * * *
76631 ACGCAAAATGTATCGATACACATGTATAAAGTATCGATACTCTGATGATTTTCGAAACCGACTAC
66 ACGCAAAAAGTATCGATACACATGTATAAAATATCGATACT-TG--GAATTTCGAAACCTATTAC
* * *
76696 TTTAAAGTAATAGGTAAATTTATAATGTAAACGGTAAAAGTCTATTG-TTATATTGATAATAGGC
128 TTTAAAGTAATAGGTAAATTTACAATGTAAACGGTAAAAGTCTATCGATT-TAATGATAATAGGC
* *
76760 ATAAATACC
192 ATAAACACA
* * *
76769 AAGTATCGATACTATCTATATAGGTATCGATACTTTTATTCCAGTATGCATCTCAAACAATTTGC
1 AAGTATCGATACTTTTTATATAGGTATCGATACTTTTATTCCAGTATGCTTCTCAAACAATTTGC
* * * *
76834 ACACAAAAAGTATCGATACACATATATAAATTATCTATACTTGGAATTTCGAAACCTATTACTTT
66 ACGCAAAAAGTATCGATACACATGTATAAAATATCGATACTTGGAATTTCGAAACCTATTACTTT
* * *
76899 AAAGTAATAGGTAAATTTACAATGTAAACGGTAAAAATCTATC-ATTCTAATGATAAAAGGCGTA
131 AAAGTAATAGGTAAATTTACAATGTAAACGGTAAAAGTCTATCGATT-TAATGATAATAGGCATA
**
76963 AACGTA
195 AACACA
* * *
76969 AAGTATCGATACTTTTTATATAGGTATCGATA-TTATTATTCAAGTATGCTTCTCAAACAGTTTA
1 AAGTATCGATACTTTTTATATAGGTATCGATACTT-TTATTCCAGTATGCTTCTCAAACAATTTG
* * * * *
77033 CACGCAAAAA-TATCAATACACGTGTACAAAATATTGATACTTGGAATTT-GAAACCTATTACTA
65 CACGCAAAAAGTATCGATACACATGTATAAAATATCGATACTTGGAATTTCGAAACCTATTACTT
* * * * * *
77096 TAAAGTAATAGGTAAATTAACAATGTAAAGGGTAAAAGTTTATCGGTATAATGATAATAGGTATA
130 TAAAGTAATAGGTAAATTTACAATGTAAACGGTAAAAGTCTATCGATTTAATGATAATAGGCATA
* * *
77161 TAGACC
195 AACACA
* * * * * *
77167 AAGTATCGATACGTTATATATAGGTATCGATACTTTTAGTCTAATATGCTTCTC-AATAATTTGC
1 AAGTATCGATACTTTTTATATAGGTATCGATACTTTTATTCCAGTATGCTTCTCAAACAATTTGC
* * * ***
77231 ACGTAAAATGTATCGATACACATGTATAAAGTATCGATACTCTGATGAATTTCGAAACCGGCTAC
66 ACGCAAAAAGTATCGATACACATGTATAAAATATCGATACT-TG--GAATTTCGAAACCTATTAC
* * * *
77296 TTTAAAGTAATAGGTAAATTTATAATGTAAACAGTAAAAGTCTATTG-TTATATTGATAATAGGC
128 TTTAAAGTAATAGGTAAATTTACAATGTAAACGGTAAAAGTCTATCGATT-TAATGATAATAGGC
* *
77360 ATAAATACC
192 ATAAACACA
* * * **
77369 AAGTATCGATACTGTCTATATAGGTATCGATATTTTTATTTTAGTATGCTTCTCAAACAATTTGC
1 AAGTATCGATACTTTTTATATAGGTATCGATACTTTTATTCCAGTATGCTTCTCAAACAATTTGC
* *
77434 ACACAAAATGTATCGATACA
66 ACGCAAAAAGTATCGATACA
77454 TGTAACACCT
Statistics
Matches: 1066, Mismatches: 186, Indels: 58
0.81 0.14 0.04
Matches are distributed among these distances:
194 48 0.05
195 18 0.02
196 5 0.00
197 29 0.03
198 216 0.20
199 129 0.12
200 339 0.32
201 77 0.07
202 134 0.13
203 71 0.07
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.34
Consensus pattern (200 bp):
AAGTATCGATACTTTTTATATAGGTATCGATACTTTTATTCCAGTATGCTTCTCAAACAATTTGC
ACGCAAAAAGTATCGATACACATGTATAAAATATCGATACTTGGAATTTCGAAACCTATTACTTT
AAAGTAATAGGTAAATTTACAATGTAAACGGTAAAAGTCTATCGATTTAATGATAATAGGCATAA
ACACA
Found at i:77015 original size:20 final size:21
Alignment explanation
Indices: 76969--77015 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
76959 CGTAAACGTA
*
76969 AAGTATCGATACTTTTTATAT
1 AAGTATCGATACTTATTATAT
*
76990 AGGTATCGATA-TTATTAT-T
1 AAGTATCGATACTTATTATAT
77009 CAAGTAT
1 -AAGTAT
77016 GCTTCTCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 1 0.05
20 11 0.50
21 10 0.45
ACGTcount: A:0.34, C:0.09, G:0.13, T:0.45
Consensus pattern (21 bp):
AAGTATCGATACTTATTATAT
Found at i:77397 original size:600 final size:601
Alignment explanation
Indices: 75970--77453 Score: 2167
Period size: 597 Copynumber: 2.5 Consensus size: 601
75960 ATGAAAATGT
* ** * * * *
75970 CCAAGTATCGATAC-TTTTATATTCGTATCGATACTTTTATTCTAGTATGGTTCTCAAAGAATTT
1 CCAAGTATCGATACGTTATATATAGGTATCGATACTTTTAGTCTAATATGCTTCTC-AATAATTT
* * *
76034 GTC-CATAACAAAGTATCGATACACATGTATAAAATATCGATACTC---TGAATTTCGAAACCGA
65 G-CACGTAA-AATGTATCGATACACATGTATAAAGTATCGATACTCTGATGAATTTCGAAACCGA
* ** * * *
76095 TTACTTTAAAGTAATAATTAAATTTACAATGTAAACGGTAAAAGTCTATCAG-TATAATGATAAT
128 CTACTTTAAAGTAATAGGTAAATTTATAATGTAAACGGTAAAAGTCTAT-TGTTATATTGATAAT
* * * * * * *
76159 A-GCGTAAACA-CATCGTATCGATACTTTGT-TATATCGGTATTGATACTTTAATTCCATTATGC
192 AGGCATAAATACCA-AGTATCGATAC--TGTCTATATAGGTATCGATACTTTTATTCCAGTATGC
* *
76221 ATCTCAAACAATTTGCACGCAAAAAGTATCTATACACATATATAAAATATTGATACTTGGAATTT
254 ATCTCAAACAATTTGCACACAAAAAGTATCGATACACATATATAAAATATTGATACTTGGAATTT
*
76286 CGAAACCTATTACTTTAAAGTAATAGATAAATTTACAATGTAAACGGTAAAAATTTACCGATTTA
319 CGAAACCTATTACTTTAAAGTAATAGATAAATTTACAATGTAAACGGTAAAAATCTACCGATTTA
* * *
76351 ATGATAATAGGCATAAACATAAAGTATTGATAATTTTTATATAGGTATCAATACTTTTATTCTAG
384 ATGATAAAAGGCATAAACATAAAGTATCGATAATTTTTATATAGGTATCAATACTTTTATTCAAG
* * *
76416 TATACTTCTCAAATAATTTACACGCAAAAAGTATCGATACACATGTACAAAGTATAGATACTTGG
449 TATACTTCTCAAACAATTTACACGCAAAAAGTATCAATACACATGTACAAAATATAGATACTTGG
76481 AATTTCGAAACTATAACTATAAAGTAATAGGTAAATTAACAATGTAAAAGGTAAAAGTTTATCGG
514 AATTTCGAAACTATAACTATAAAGTAATAGGTAAATTAACAATGTAAAAGGTAAAAGTTTATCGG
* *
76546 TATAATGATAATAGGTGTATATA
579 TATAATGATAATAGGTATATAGA
* ** ** * *
76569 ACAAGTATCGATACGTTATATATAGG--T-G-TAAATCAAGTCCAATATGCTTCTCAATAATTTA
1 CCAAGTATCGATACGTTATATATAGGTATCGATACTTTTAGTCTAATATGCTTCTCAATAATTTG
* *
76630 CACGCAAAATGTATCGATACACATGTATAAAGTATCGATACTCTGATGATTTTCGAAACCGACTA
66 CACGTAAAATGTATCGATACACATGTATAAAGTATCGATACTCTGATGAATTTCGAAACCGACTA
76695 CTTTAAAGTAATAGGTAAATTTATAATGTAAACGGTAAAAGTCTATTGTTATATTGATAATAGGC
131 CTTTAAAGTAATAGGTAAATTTATAATGTAAACGGTAAAAGTCTATTGTTATATTGATAATAGGC
*
76760 ATAAATACCAAGTATCGATACTATCTATATAGGTATCGATACTTTTATTCCAGTATGCATCTCAA
196 ATAAATACCAAGTATCGATACTGTCTATATAGGTATCGATACTTTTATTCCAGTATGCATCTCAA
*
76825 ACAATTTGCACACAAAAAGTATCGATACACATATATAAATTATCT-ATACTTGGAATTTCGAAAC
261 ACAATTTGCACACAAAAAGTATCGATACACATATATAAAATAT-TGATACTTGGAATTTCGAAAC
* *
76889 CTATTACTTTAAAGTAATAGGTAAATTTACAATGTAAACGGTAAAAATCTATC-ATTCTAATGAT
325 CTATTACTTTAAAGTAATAGATAAATTTACAATGTAAACGGTAAAAATCTACCGATT-TAATGAT
* * * * *
76953 AAAAGGCGTAAACGTAAAGTATCGATACTTTTTATATAGGTATCGATA-TTATTATTCAAGTATG
389 AAAAGGCATAAACATAAAGTATCGATAATTTTTATATAGGTATCAATACTT-TTATTCAAGTATA
* * *
77017 CTTCTCAAACAGTTTACACGCAAAAA-TATCAATACACGTGTACAAAATATTGATACTTGGAATT
453 CTTCTCAAACAATTTACACGCAAAAAGTATCAATACACATGTACAAAATATAGATACTTGGAATT
* *
77081 T-GAAACCTATTACTATAAAGTAATAGGTAAATTAACAATGTAAAGGGTAAAAGTTTATCGGTAT
518 TCGAAA-CTATAACTATAAAGTAATAGGTAAATTAACAATGTAAAAGGTAAAAGTTTATCGGTAT
77145 AATGATAATAGGTATATAGA
582 AATGATAATAGGTATATAGA
77165 CCAAGTATCGATACGTTATATATAGGTATCGATACTTTTAGTCTAATATGCTTCTCAATAATTTG
1 CCAAGTATCGATACGTTATATATAGGTATCGATACTTTTAGTCTAATATGCTTCTCAATAATTTG
*
77230 CACGTAAAATGTATCGATACACATGTATAAAGTATCGATACTCTGATGAATTTCGAAACCGGCTA
66 CACGTAAAATGTATCGATACACATGTATAAAGTATCGATACTCTGATGAATTTCGAAACCGACTA
*
77295 CTTTAAAGTAATAGGTAAATTTATAATGTAAACAGTAAAAGTCTATTGTTATATTGATAATAGGC
131 CTTTAAAGTAATAGGTAAATTTATAATGTAAACGGTAAAAGTCTATTGTTATATTGATAATAGGC
* ** *
77360 ATAAATACCAAGTATCGATACTGTCTATATAGGTATCGATATTTTTATTTTAGTATGCTTCTCAA
196 ATAAATACCAAGTATCGATACTGTCTATATAGGTATCGATACTTTTATTCCAGTATGCATCTCAA
*
77425 ACAATTTGCACACAAAATGTATCGATACA
261 ACAATTTGCACACAAAAAGTATCGATACA
77454 TGTAACACCT
Statistics
Matches: 794, Mismatches: 74, Indels: 33
0.88 0.08 0.04
Matches are distributed among these distances:
594 35 0.04
595 14 0.02
596 158 0.20
597 302 0.38
598 20 0.03
599 16 0.02
600 249 0.31
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.34
Consensus pattern (601 bp):
CCAAGTATCGATACGTTATATATAGGTATCGATACTTTTAGTCTAATATGCTTCTCAATAATTTG
CACGTAAAATGTATCGATACACATGTATAAAGTATCGATACTCTGATGAATTTCGAAACCGACTA
CTTTAAAGTAATAGGTAAATTTATAATGTAAACGGTAAAAGTCTATTGTTATATTGATAATAGGC
ATAAATACCAAGTATCGATACTGTCTATATAGGTATCGATACTTTTATTCCAGTATGCATCTCAA
ACAATTTGCACACAAAAAGTATCGATACACATATATAAAATATTGATACTTGGAATTTCGAAACC
TATTACTTTAAAGTAATAGATAAATTTACAATGTAAACGGTAAAAATCTACCGATTTAATGATAA
AAGGCATAAACATAAAGTATCGATAATTTTTATATAGGTATCAATACTTTTATTCAAGTATACTT
CTCAAACAATTTACACGCAAAAAGTATCAATACACATGTACAAAATATAGATACTTGGAATTTCG
AAACTATAACTATAAAGTAATAGGTAAATTAACAATGTAAAAGGTAAAAGTTTATCGGTATAATG
ATAATAGGTATATAGA
Found at i:78381 original size:36 final size:36
Alignment explanation
Indices: 78297--78426 Score: 131
Period size: 35 Copynumber: 3.7 Consensus size: 36
78287 CCTTAGATCC
* * * **
78297 ATAAGGAATTACCAGCTCGATCG-GTCTGAATATAT
1 ATAAGGAATTACCAGTTTGATCGAGTATGAACCTAT
* *
78332 ATAAGGAAATACCAATTTGATCGAGT-TGAACCTAT
1 ATAAGGAATTACCAGTTTGATCGAGTATGAACCTAT
* * * *
78367 CGTAAGGAATTACCAGTTCGATC-AGTATGAACTTGT
1 -ATAAGGAATTACCAGTTTGATCGAGTATGAACCTAT
78403 ATAAGGAATTACCAGTTTGATCGA
1 ATAAGGAATTACCAGTTTGATCGA
78427 ACTAAACCTG
Statistics
Matches: 77, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
35 49 0.64
36 28 0.36
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.29
Consensus pattern (36 bp):
ATAAGGAATTACCAGTTTGATCGAGTATGAACCTAT
Found at i:78435 original size:71 final size:71
Alignment explanation
Indices: 78298--78435 Score: 179
Period size: 71 Copynumber: 1.9 Consensus size: 71
78288 CTTAGATCCA
* * ** *
78298 TAAGGAATTACCAGCTCGATCGGTCTGAATATATATAAGGAAATACCAATTTGATCGAGTTGAAC
1 TAAGGAATTACCAGCTCGATCAGTATGAATATATATAAGGAAATACCAATTTGATCGAACTAAAC
78363 CTATCG
66 CTATCG
* * * *
78369 TAAGGAATTACCAGTTCGATCAGTATGAACT-TGTATAAGGAATTACCAGTTTGATCGAACTAAA
1 TAAGGAATTACCAGCTCGATCAGTATGAA-TATATATAAGGAAATACCAATTTGATCGAACTAAA
78433 CCT
65 CCT
78436 GCAAAGACTT
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
71 56 0.98
72 1 0.02
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.29
Consensus pattern (71 bp):
TAAGGAATTACCAGCTCGATCAGTATGAATATATATAAGGAAATACCAATTTGATCGAACTAAAC
CTATCG
Found at i:79551 original size:28 final size:27
Alignment explanation
Indices: 79502--79563 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
79492 ATTATTGCCT
* *
79502 TTTTACCCTATAAGGGTATTTTTGTAA
1 TTTTACCCCATAAAGGTATTTTTGTAA
79529 TTTTACCCCATAAAGGTATTTTTGTAA
1 TTTTACCCCATAAAGGTATTTTTGTAA
79556 TTTTACCC
1 TTTTACCC
79564 AACCGAAGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.26, C:0.16, G:0.11, T:0.47
Consensus pattern (27 bp):
TTTTACCCCATAAAGGTATTTTTGTAA
Found at i:80181 original size:19 final size:18
Alignment explanation
Indices: 80157--80221 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 18
80147 GGTTAGACCG
80157 GTCAACATGTTAGGTCAAA
1 GTCAACATGTT-GGTCAAA
**
80176 GTCAACGGGTTGGTTCAAA
1 GTCAACATGTTGG-TCAAA
*
80195 GTCAATATGTTGGGGTCAAA
1 GTCAACATGTT--GGTCAAA
80215 GTCAACA
1 GTCAACA
80222 GGTCGGGTTG
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
18 2 0.05
19 22 0.59
20 11 0.30
21 2 0.05
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.26
Consensus pattern (18 bp):
GTCAACATGTTGGTCAAA
Found at i:82633 original size:226 final size:225
Alignment explanation
Indices: 81360--82655 Score: 1792
Period size: 226 Copynumber: 5.7 Consensus size: 225
81350 ATGTACACGG
* * * * * *
81360 TAATATATTGATAATATTGAAAACAAATCAAGTAATTAATTTATTTTGTTATCGTCAGATTTCTA
1 TAATATGTTGATAATATTGATAATAAATCAAGTAGTTAACTTATTTTGTTATCGTCGGATTTCTA
* * * ** * *
81425 AGGCCCTATCAGCTTTAAATAGGCAATATCTATTACATTAAATAAGTGCTACTTGTTATGTTATT
66 AGTCCC-ATCAGCTTTAAACATGCGCTACCTATTACATTAAATAAGCGCTACTTGTTATGTTATT
* * *
81490 ATGATTGATAATGTTTACAGTAATTAACCTATTTT-TTATCATCGAATTT-TTGGGGTCCATCAG
130 ATGGTTGATAATGTTTACAGTAATTAACCTATTTTGTTATCGTCGAATTTCTAGGGGTCCATCAG
*
81553 CTTAAAATTTGGTAACATTTTAGGCACTACC
195 CTTAAACTTTGGTAACATTTTAGGCACTACC
* *
81584 TAATATGTTGATAATATTGATAATAAATCAAGTAGTTAATTTATTTTGTTATCGTCAGATTTCTA
1 TAATATGTTGATAATATTGATAATAAATCAAGTAGTTAACTTATTTTGTTATCGTCGGATTTCTA
* * * ** * **
81649 AGGTCCTATCAGCTTTAAATAGGCAATATCTATTACATTAAATAAGTACTACTTGTTATGTTATT
66 A-GTCCCATCAGCTTTAAACATGCGCTACCTATTACATTAAATAAGCGCTACTTGTTATGTTATT
* * * *
81714 ATGGTTGATAATGTTTACAGTAATTAACTTATTTTGTTATCATCGAATTT-TTGGGGTTCATCAG
130 ATGGTTGATAATGTTTACAGTAATTAACCTATTTTGTTATCGTCGAATTTCTAGGGGTCCATCAG
*
81778 CTTAAAATTTGGTAACATTTTAGGCACTACC
195 CTTAAACTTTGGTAACATTTTAGGCACTACC
* *
81809 TAATATGTTGATAATATTGATAATAAATCAAGTAGTTAACCTATTTTGTTATCGTCGGATTTTTA
1 TAATATGTTGATAATATTGATAATAAATCAAGTAGTTAACTTATTTTGTTATCGTCGGATTTCTA
*
81874 AGTCTCAATCAGCTTTAAACATGCGCTACCTATTACATTAAATAAGCGCTACTTGTTATGTTATT
66 AGTC-CCATCAGCTTTAAACATGCGCTACCTATTACATTAAATAAGCGCTACTTGTTATGTTATT
* *
81939 ATGGTTGATAATGTTTACAGTAATTAACATATTTTGTTATCGTCGAATTTCTAGGGGTCCATCAT
130 ATGGTTGATAATGTTTACAGTAATTAACCTATTTTGTTATCGTCGAATTTCTAGGGGTCCATCAG
* ***
82004 CTTAAACTTTGGTAACATTTTAAGCACTGTA
195 CTTAAACTTTGGTAACATTTTAGGCACTACC
* *
82035 TAATATGTTGATAATTTTGATAATAAATCAAGTAGTTAACCTATTTTGTTATCGTCGGATTTCTA
1 TAATATGTTGATAATATTGATAATAAATCAAGTAGTTAACTTATTTTGTTATCGTCGGATTTCTA
* * * *
82100 AGTCACAATCAGTTTTAAACATGTGCTACCTATTACATTAAATAAGTGCTACTTGTTATGTTATT
66 AGTC-CCATCAGCTTTAAACATGCGCTACCTATTACATTAAATAAGCGCTACTTGTTATGTTATT
* * *
82165 ATGGTTGATAATGTTTACAGTAATTAACCAATTTTGTTATCGTCGAATTTCTAGGGGTCTATCAA
130 ATGGTTGATAATGTTTACAGTAATTAACCTATTTTGTTATCGTCGAATTTCTAGGGGTCCATCAG
82230 CTTAAACTTTGGTAACATTTTAGGCACTACC
195 CTTAAACTTTGGTAACATTTTAGGCACTACC
* * * *
82261 CAATATATTAATAATATTGATAATAAATGAAGTAGTTAACTTATTTTGTTATCGTCGGATTTCTA
1 TAATATGTTGATAATATTGATAATAAATCAAGTAGTTAACTTATTTTGTTATCGTCGGATTTCTA
*
82326 AGTCCCCATCAGCTTTAAACATGCTCTACCTATTACATTAAATAAGCGCTACTTGTTATGTTATT
66 AGT-CCCATCAGCTTTAAACATGCGCTACCTATTACATTAAATAAGCGCTACTTGTTATGTTATT
* * * * * *
82391 ATGGTTGATAATGTTTCCAGTAATTAACCTATTTTGTTATTGTCGGATTTCCAAGGCTCCATCAG
130 ATGGTTGATAATGTTTACAGTAATTAACCTATTTTGTTATCGTCGAATTTCTAGGGGTCCATCAG
*
82456 CTTAAACTTTGGTAACATTTTAGGCGCTACC
195 CTTAAACTTTGGTAACATTTTAGGCACTACC
* * * *
82487 TAATATGTTGATAATATTAATAACAAATCAAGTAATTAACATATTTTGTTATCGTCGGATTTCTA
1 TAATATGTTGATAATATTGATAATAAATCAAGTAGTTAACTTATTTTGTTATCGTCGGATTTCTA
* * * * * *
82552 AGTCTCCATCATCTTTAAAAATGTGTTACCTATTACGTTACATAAGCGCTACATT-TTATGTTAT
66 AGTC-CCATCAGCTTTAAACATGCGCTACCTATTACATTAAATAAGCGCTAC-TTGTTATGTTAT
* * * * *
82616 TATGGTCGTTAATGTTT-CAAATAATTAACCTGTTATGTTA
129 TATGGTTGATAATGTTTAC-AGTAATTAACCTATTTTGTTA
82656 AAGTCAATAT
Statistics
Matches: 977, Mismatches: 87, Indels: 14
0.91 0.08 0.01
Matches are distributed among these distances:
224 155 0.16
225 225 0.23
226 594 0.61
227 3 0.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.41
Consensus pattern (225 bp):
TAATATGTTGATAATATTGATAATAAATCAAGTAGTTAACTTATTTTGTTATCGTCGGATTTCTA
AGTCCCATCAGCTTTAAACATGCGCTACCTATTACATTAAATAAGCGCTACTTGTTATGTTATTA
TGGTTGATAATGTTTACAGTAATTAACCTATTTTGTTATCGTCGAATTTCTAGGGGTCCATCAGC
TTAAACTTTGGTAACATTTTAGGCACTACC
Found at i:85025 original size:2 final size:2
Alignment explanation
Indices: 85018--85047 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
85008 AAAATGCCAA
85018 AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
85048 CACATACTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:86065 original size:85 final size:85
Alignment explanation
Indices: 85922--86092 Score: 333
Period size: 85 Copynumber: 2.0 Consensus size: 85
85912 ATTATATAGG
85922 CCTTCATTGTCATTAATCATCTACAGGTTCGATTATGAATGGGTTTTAGGCTATTTTTACTAGCA
1 CCTTCATTGTCATTAATCATCTACAGGTTCGATTATGAATGGGTTTTAGGCTATTTTTACTAGCA
85987 ATAACTGCATGGGTTAAATA
66 ATAACTGCATGGGTTAAATA
*
86007 CCTTCATTGTCATTAATCCTCTACAGGTTCGATTATGAATGGGTTTTAGGCTATTTTTACTAGCA
1 CCTTCATTGTCATTAATCATCTACAGGTTCGATTATGAATGGGTTTTAGGCTATTTTTACTAGCA
86072 ATAACTGCATGGGTTAAATA
66 ATAACTGCATGGGTTAAATA
86092 C
1 C
86093 ACATGCATGC
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 85 1.00
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (85 bp):
CCTTCATTGTCATTAATCATCTACAGGTTCGATTATGAATGGGTTTTAGGCTATTTTTACTAGCA
ATAACTGCATGGGTTAAATA
Found at i:87566 original size:17 final size:17
Alignment explanation
Indices: 87534--87569 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
87524 TGTCACCCAT
**
87534 AACTATAATGTGTACAA
1 AACTATAATGCATACAA
87551 AACTATAATGCATACAA
1 AACTATAATGCATACAA
87568 AA
1 AA
87570 TCCTTCTGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.14, G:0.08, T:0.25
Consensus pattern (17 bp):
AACTATAATGCATACAA
Found at i:89094 original size:52 final size:52
Alignment explanation
Indices: 89032--89134 Score: 197
Period size: 52 Copynumber: 2.0 Consensus size: 52
89022 AAATTGGACA
89032 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
1 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
*
89084 CATAGAAATAGGAGACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAG
1 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAG
89135 AATATTATAA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (52 bp):
CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
Found at i:93643 original size:52 final size:52
Alignment explanation
Indices: 93581--93683 Score: 197
Period size: 52 Copynumber: 2.0 Consensus size: 52
93571 AAATTGGACA
93581 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
1 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
*
93633 CATAGAAATAGGAGACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAG
1 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAG
93684 AATATTATAA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (52 bp):
CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
Done.