Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold219
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: 770726
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
File 5 of 5
Found at i:665838 original size:13 final size:13
Alignment explanation
Indices: 665820--665845 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
665810 CAATTTCTTG
665820 TGTATCGATACAT
1 TGTATCGATACAT
665833 TGTATCGATACAT
1 TGTATCGATACAT
665846 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:665861 original size:32 final size:33
Alignment explanation
Indices: 665800--665863 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
665790 TACAAGCCAA
*
665800 TGTATCGATACAATTTCTTGTGTATCGATACAT
1 TGTATCGATACAATTACTTGTGTATCGATACAT
665833 TGTATCGATAC-A-TACTTGCTGTATCGATACA
1 TGTATCGATACAATTACTTG-TGTATCGATACA
665864 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 5 0.17
32 13 0.45
33 11 0.38
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (33 bp):
TGTATCGATACAATTACTTGTGTATCGATACAT
Found at i:666585 original size:21 final size:21
Alignment explanation
Indices: 666544--666587 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
666534 CTCTCTTTTA
* *
666544 TCTCCCCCATTTATTAATAAT
1 TCTCCCCCATTAATCAATAAT
666565 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCATTAATCAA-TAAT
666586 TC
1 TC
666588 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.27, C:0.32, G:0.02, T:0.39
Consensus pattern (21 bp):
TCTCCCCCATTAATCAATAAT
Found at i:668230 original size:21 final size:21
Alignment explanation
Indices: 668206--668252 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
668196 TTTGATGCTG
668206 ATTTTG-A-TGAAAAACGAAGT
1 ATTTTGAAGTGAAAAAC-AAGT
668226 -TATTTGAAGTGAAAAACAAGT
1 AT-TTTGAAGTGAAAAACAAGT
668247 ATTTTG
1 ATTTTG
668253 CAAAAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
19 1 0.04
20 4 0.17
21 9 0.39
22 9 0.39
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.34
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAACAAGT
Found at i:668391 original size:13 final size:13
Alignment explanation
Indices: 668373--668424 Score: 104
Period size: 13 Copynumber: 4.0 Consensus size: 13
668363 ATAATCACCC
668373 TGTATCGATACAA
1 TGTATCGATACAA
668386 TGTATCGATACAA
1 TGTATCGATACAA
668399 TGTATCGATACAA
1 TGTATCGATACAA
668412 TGTATCGATACAA
1 TGTATCGATACAA
668425 AGAAAAATGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 39 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:670515 original size:15 final size:15
Alignment explanation
Indices: 670495--670525 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
670485 ATTTCGTTTG
*
670495 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
670510 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
670525 G
1 G
670526 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:672358 original size:21 final size:21
Alignment explanation
Indices: 672329--672373 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
672319 AAGTTTTCAT
*
672329 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
672349 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
672371 TTT
1 TTT
672374 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:674610 original size:13 final size:13
Alignment explanation
Indices: 674592--674617 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
674582 CAATTTTTTG
674592 TGTATCGATACAT
1 TGTATCGATACAT
674605 TGTATCGATACAT
1 TGTATCGATACAT
674618 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:676779 original size:21 final size:21
Alignment explanation
Indices: 676755--676801 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
676745 TTTGATGCTG
676755 ATTTTG-A-TGAAAAACGAAGT
1 ATTTTGAAGTGAAAAAC-AAGT
676775 -TATTTGAAGTGAAAAACAAGT
1 AT-TTTGAAGTGAAAAACAAGT
676796 ATTTTG
1 ATTTTG
676802 TAAAAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
19 1 0.04
20 4 0.17
21 9 0.39
22 9 0.39
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.34
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAACAAGT
Found at i:676940 original size:13 final size:13
Alignment explanation
Indices: 676922--676973 Score: 95
Period size: 13 Copynumber: 4.0 Consensus size: 13
676912 ATAATCACCC
*
676922 TGTATCGATACAG
1 TGTATCGATACAA
676935 TGTATCGATACAA
1 TGTATCGATACAA
676948 TGTATCGATACAA
1 TGTATCGATACAA
676961 TGTATCGATACAA
1 TGTATCGATACAA
676974 AGAAAAATGT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 38 1.00
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:676984 original size:20 final size:20
Alignment explanation
Indices: 676959--677037 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
676949 GTATCGATAC
676959 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
676979 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
677004 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
677024 CATGTATCGATACA
1 AATGTATCGATACA
677038 TTTTGGACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:677953 original size:166 final size:166
Alignment explanation
Indices: 677679--678012 Score: 668
Period size: 166 Copynumber: 2.0 Consensus size: 166
677669 TACGGATATA
677679 TATTCCGCCTCGGTTGTGGACAGAGCAACACTATTTTGTTTCTTGGAAAACCATGATATGAGCAT
1 TATTCCGCCTCGGTTGTGGACAGAGCAACACTATTTTGTTTCTTGGAAAACCATGATATGAGCAT
677744 ATTACCAAGAAATTAACAAGTGCCGGAAGTGCTTTTTCTATCTATTTTACAACCACCGAAATCCG
66 ATTACCAAGAAATTAACAAGTGCCGGAAGTGCTTTTTCTATCTATTTTACAACCACCGAAATCCG
677809 CATCGGAGTAAGCATGTAAGGCTAGGGAGGATTCCT
131 CATCGGAGTAAGCATGTAAGGCTAGGGAGGATTCCT
677845 TATTCCGCCTCGGTTGTGGACAGAGCAACACTATTTTGTTTCTTGGAAAACCATGATATGAGCAT
1 TATTCCGCCTCGGTTGTGGACAGAGCAACACTATTTTGTTTCTTGGAAAACCATGATATGAGCAT
677910 ATTACCAAGAAATTAACAAGTGCCGGAAGTGCTTTTTCTATCTATTTTACAACCACCGAAATCCG
66 ATTACCAAGAAATTAACAAGTGCCGGAAGTGCTTTTTCTATCTATTTTACAACCACCGAAATCCG
677975 CATCGGAGTAAGCATGTAAGGCTAGGGAGGATTCCT
131 CATCGGAGTAAGCATGTAAGGCTAGGGAGGATTCCT
678011 TA
1 TA
678013 GGGTACCAAA
Statistics
Matches: 168, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
166 168 1.00
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (166 bp):
TATTCCGCCTCGGTTGTGGACAGAGCAACACTATTTTGTTTCTTGGAAAACCATGATATGAGCAT
ATTACCAAGAAATTAACAAGTGCCGGAAGTGCTTTTTCTATCTATTTTACAACCACCGAAATCCG
CATCGGAGTAAGCATGTAAGGCTAGGGAGGATTCCT
Found at i:679237 original size:15 final size:15
Alignment explanation
Indices: 679217--679247 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
679207 ATTTCGTTTG
*
679217 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
679232 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
679247 G
1 G
679248 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:683332 original size:13 final size:13
Alignment explanation
Indices: 683314--683339 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
683304 CAATTTTTTG
683314 TGTATCGATACAT
1 TGTATCGATACAT
683327 TGTATCGATACAT
1 TGTATCGATACAT
683340 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:683869 original size:205 final size:205
Alignment explanation
Indices: 683517--683926 Score: 703
Period size: 205 Copynumber: 2.0 Consensus size: 205
683507 CCTATGTATC
* *
683517 GATACTTTGATACATTTTAACTTAAAAATCAATCATTTTAAGCCTTGAAAACATTTGTACTTAAC
1 GATACTTAGATACATTTTAACTTAAAAATCAATCATTTTAAGCCTTGAAAACATTTATACTTAAC
** * *
683582 TAGAAAACATTTAGTGAATCAAAAATCATTTGGTACAAAATTTATAAGGCATTTAATTGAATAAA
66 TAGAAAACATTTAGTGAATCAAAAATCATTTGGTACAAAACCTATAAAGCACTTAATTGAATAAA
*
683647 ACATATTATTGTTATTTTCAAAATAATTTCCGGTTTTATTCAATCCTTTGTTATATCAAAACCAA
131 ACACATTATTGTTATTTTCAAAATAATTTCCGGTTTTATTCAATCCTTTGTTATATCAAAACCAA
683712 GATCCTAACA
196 GATCCTAACA
* *
683722 GATACTTAGATATATTTTATCTTAAAAATCAATCATTTTAAGCCTTGAAAACATTTATACTTAAC
1 GATACTTAGATACATTTTAACTTAAAAATCAATCATTTTAAGCCTTGAAAACATTTATACTTAAC
* * *
683787 TAGAAAACATTTGGTGAATCAAAAATCTTTTGGTACAAAACCTATAAAGTACTTAATTGAATAAA
66 TAGAAAACATTTAGTGAATCAAAAATCATTTGGTACAAAACCTATAAAGCACTTAATTGAATAAA
*
683852 ACACATTTTTGTTATTTTCAAAATAATTTCCGGTTTTATTCAATCCTTTGTTATATCAAAACCAA
131 ACACATTATTGTTATTTTCAAAATAATTTCCGGTTTTATTCAATCCTTTGTTATATCAAAACCAA
683917 GATCCTAACA
196 GATCCTAACA
683927 ATCTCCCCCT
Statistics
Matches: 192, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
205 192 1.00
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.38
Consensus pattern (205 bp):
GATACTTAGATACATTTTAACTTAAAAATCAATCATTTTAAGCCTTGAAAACATTTATACTTAAC
TAGAAAACATTTAGTGAATCAAAAATCATTTGGTACAAAACCTATAAAGCACTTAATTGAATAAA
ACACATTATTGTTATTTTCAAAATAATTTCCGGTTTTATTCAATCCTTTGTTATATCAAAACCAA
GATCCTAACA
Found at i:686770 original size:84 final size:84
Alignment explanation
Indices: 686615--686773 Score: 198
Period size: 84 Copynumber: 1.9 Consensus size: 84
686605 CATTTTCCAC
* * * *
686615 TTGCAACTCATTTCTTTTCTCCTCTAATTCATTTATTTTCTTTTTAAAAGAATTATTTTCTAAAC
1 TTGCAACTCATTTCTATTCTCCTCTAATTCACTTAATTTCTTTTTAAAAGAATTATTCTCTAAAC
686680 TCATTGATTTACTTTCATT
66 TCATTGATTTACTTTCATT
* *
686699 TTGCAACTC-TTTCATATTCTTCTCTAATTCACTTAATTTC-TTTT-CAAGAATATCATTCTCTA
1 TTGCAACTCATTTC-TATTCTCCTCTAATTCACTTAATTTCTTTTTAAAAGAAT-T-ATTCTCTA
* *
686761 CACTTATTGATTT
63 AACTCATTGATTT
686774 GTTTTCTTCT
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
82 6 0.09
83 9 0.14
84 49 0.77
ACGTcount: A:0.25, C:0.19, G:0.04, T:0.52
Consensus pattern (84 bp):
TTGCAACTCATTTCTATTCTCCTCTAATTCACTTAATTTCTTTTTAAAAGAATTATTCTCTAAAC
TCATTGATTTACTTTCATT
Found at i:688850 original size:13 final size:13
Alignment explanation
Indices: 688832--688857 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
688822 CAATTTTTTG
688832 TGTATCGATACAT
1 TGTATCGATACAT
688845 TGTATCGATACAT
1 TGTATCGATACAT
688858 ACTTTGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:690063 original size:20 final size:19
Alignment explanation
Indices: 690015--690068 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 19
690005 GTATCAATAC
***
690015 ATTGTATCGATACATACTC
1 ATTGTATCGATACATAAGA
*
690034 ATTATATCGATACATAAAGA
1 ATTGTATCGATACAT-AAGA
690054 ATTGTATCGATACAT
1 ATTGTATCGATACAT
690069 GAAACTGGCA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (19 bp):
ATTGTATCGATACATAAGA
Found at i:694252 original size:42 final size:42
Alignment explanation
Indices: 694193--694277 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
694183 TTAGAACAAT
694193 CATCATACAAGGAGCAAGAGGATAACATTCAAATCGAAGAAG
1 CATCATACAAGGAGCAAGAGGATAACATTCAAATCGAAGAAG
*
694235 CATCATACAAGGAGCAAGAGGATAACATTCAAATTGAAGAAG
1 CATCATACAAGGAGCAAGAGGATAACATTCAAATCGAAGAAG
694277 C
1 C
694278 TCCAAAAGAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.47, C:0.16, G:0.21, T:0.15
Consensus pattern (42 bp):
CATCATACAAGGAGCAAGAGGATAACATTCAAATCGAAGAAG
Found at i:696528 original size:10 final size:10
Alignment explanation
Indices: 696499--696532 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
696489 CAGTCCTCAT
696499 TTTTTTCAAA
1 TTTTTTCAAA
696509 TCTTTTTCAAA
1 T-TTTTTCAAA
*
696520 TTTTATCAAA
1 TTTTTTCAAA
696530 TTT
1 TTT
696533 ACATCATTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.29, C:0.12, G:0.00, T:0.59
Consensus pattern (10 bp):
TTTTTTCAAA
Found at i:699834 original size:20 final size:20
Alignment explanation
Indices: 699809--699983 Score: 109
Period size: 20 Copynumber: 7.7 Consensus size: 20
699799 TTTTAACTAG
699809 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
699829 ATGTATCGATACATCTGGGTAAAAAGACAGA
1 ATGTATCGATACAT-T--G-----A-A-A-A
699860 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
* *
699880 ATGTATCGATACATTCG-TAC
1 ATGTATCGATACATT-GAAAA
*
699900 ATGTATCAATACATTGAAAA
1 ATGTATCGATACATTGAAAA
699920 ATGTATCGATACATCTGAGTAAAAGACAGA
1 ATGTATCGATACAT-T--G----A-A-A-A
699950 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
*
699970 ATGTATCAATACAT
1 ATGTATCGATACAT
699984 CTAGGTAAAA
Statistics
Matches: 125, Mismatches: 7, Indels: 46
0.70 0.04 0.26
Matches are distributed among these distances:
19 1 0.01
20 73 0.58
21 5 0.04
22 2 0.02
23 4 0.03
27 2 0.02
28 3 0.02
29 3 0.02
30 17 0.14
31 15 0.12
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.29
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:699982 original size:90 final size:91
Alignment explanation
Indices: 699809--699983 Score: 316
Period size: 90 Copynumber: 1.9 Consensus size: 91
699799 TTTTAACTAG
* *
699809 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAGACAGAATGTATCGATACAT
1 ATGTATCAATACATTGAAAAATGTATCGATACATCTGAGTAAAAAGACAGAATGTATCGATACAT
*
699874 TGAAAAATGTATCGATACATTCGTAC
66 TGAAAAATGTATCAATACATTCGTAC
699900 ATGTATCAATACATTGAAAAATGTATCGATACATCTGAGT-AAAAGACAGAATGTATCGATACAT
1 ATGTATCAATACATTGAAAAATGTATCGATACATCTGAGTAAAAAGACAGAATGTATCGATACAT
699964 TGAAAAATGTATCAATACAT
66 TGAAAAATGTATCAATACAT
699984 CTAGGTAAAA
Statistics
Matches: 81, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
90 43 0.53
91 38 0.47
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.29
Consensus pattern (91 bp):
ATGTATCAATACATTGAAAAATGTATCGATACATCTGAGTAAAAAGACAGAATGTATCGATACAT
TGAAAAATGTATCAATACATTCGTAC
Found at i:702968 original size:20 final size:21
Alignment explanation
Indices: 702937--702975 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
702927 AGGTCAAAAC
702937 CCTAGAAAGTATCGATACAGG
1 CCTAGAAAGTATCGATACAGG
702958 CCTAG-AAGTATCGATACA
1 CCTAGAAAGTATCGATACA
702976 TATTGCTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (21 bp):
CCTAGAAAGTATCGATACAGG
Found at i:703123 original size:20 final size:20
Alignment explanation
Indices: 703080--703131 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
703070 ACCAGTATTT
**
703080 GTATTGATACATGGGACATT
1 GTATTGATACATGGGACAAA
703100 GTATTGATACATGGTGA-AAA
1 GTATTGATACATGG-GACAAA
*
703120 GTATCGATACAT
1 GTATTGATACAT
703132 TGTGCCTAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 26 0.93
21 2 0.07
ACGTcount: A:0.35, C:0.10, G:0.23, T:0.33
Consensus pattern (20 bp):
GTATTGATACATGGGACAAA
Found at i:704035 original size:13 final size:13
Alignment explanation
Indices: 704017--704042 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
704007 TTCTACAATT
704017 TGTATCGATACAA
1 TGTATCGATACAA
704030 TGTATCGATACAA
1 TGTATCGATACAA
704043 AACTACCTTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:707547 original size:52 final size:52
Alignment explanation
Indices: 707491--707597 Score: 187
Period size: 52 Copynumber: 2.1 Consensus size: 52
707481 GTTGGACTCA
*
707491 ATGTATCGATACTATTCACAATGTATCGATACATGAATAGTGATGAACAGTG
1 ATGTATCGATACTATTCACAATGTATCGATACATGAACAGTGATGAACAGTG
* *
707543 ATGTATCGATACTATTCATAATGTATCGATACATGAACAGTGATGAATAGTG
1 ATGTATCGATACTATTCACAATGTATCGATACATGAACAGTGATGAACAGTG
707595 ATG
1 ATG
707598 AACAGTGAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (52 bp):
ATGTATCGATACTATTCACAATGTATCGATACATGAACAGTGATGAACAGTG
Found at i:707594 original size:10 final size:10
Alignment explanation
Indices: 707575--707605 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
707565 GTATCGATAC
707575 ATGAACAGTG
1 ATGAACAGTG
*
707585 ATGAATAGTG
1 ATGAACAGTG
707595 ATGAACAGTG
1 ATGAACAGTG
707605 A
1 A
707606 AAAATGAGAT
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:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:712954 original size:67 final size:67
Alignment explanation
Indices: 712865--712990 Score: 153
Period size: 67 Copynumber: 1.9 Consensus size: 67
712855 ATGTAGAATA
*
712865 ATGGTGTAGCAACTCCAAGTACTGTACTTAGCTACTCTTATTGCCATTGGTTCTGCCATACAAAG
1 ATGGTGTAGCAACTCCAAGTACTGTACCTAGCTACTCTTATTGCCATTGGTTCTGCCATACAAAG
712930 TT
66 TT
* ** * * * * * * *
712932 ATGGTGTAGCAATTTTAGGTACTGTGCCTAGCTGCTTTTGTTGCCGTTGGTTTTGCCAT
1 ATGGTGTAGCAACTCCAAGTACTGTACCTAGCTACTCTTATTGCCATTGGTTCTGCCAT
712991 GCAGAGTAGT
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
67 48 1.00
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (67 bp):
ATGGTGTAGCAACTCCAAGTACTGTACCTAGCTACTCTTATTGCCATTGGTTCTGCCATACAAAG
TT
Found at i:713793 original size:32 final size:32
Alignment explanation
Indices: 713671--713804 Score: 108
Period size: 32 Copynumber: 4.2 Consensus size: 32
713661 GCTTATTGTA
** * *
713671 GACTAAGGTAGGTAAGTGTCCT-GTTTTTTAG
1 GACTAAGGTAGGTAAGCATCCTACTCTTTTAG
* * * * **
713702 GACTGAGGTAGGTAAACATCTTATTCTTCGAG
1 GACTAAGGTAGGTAAGCATCCTACTCTTTTAG
* *
713734 GACTAAGGTAGGCAAGCATCCTGCTCTTTTAG
1 GACTAAGGTAGGTAAGCATCCTACTCTTTTAG
* ** *
713766 GACTAAGGTTGGTAAGTGTCCTACTCTTTAAG
1 GACTAAGGTAGGTAAGCATCCTACTCTTTTAG
*
713798 AACTAAG
1 GACTAAG
713805 ATGACTAAAT
Statistics
Matches: 78, Mismatches: 24, Indels: 1
0.76 0.23 0.01
Matches are distributed among these distances:
31 17 0.22
32 61 0.78
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (32 bp):
GACTAAGGTAGGTAAGCATCCTACTCTTTTAG
Found at i:713892 original size:35 final size:34
Alignment explanation
Indices: 713847--713975 Score: 116
Period size: 35 Copynumber: 3.7 Consensus size: 34
713837 GTGGGTAATT
* *
713847 GTCTTGCTCTTTGAAGACTAAAAAGGAAAGAAGGT
1 GTCTTACTCTTTGAAGACTAAAAAGGAAA-AAGGC
* * *
713882 GTCTTACTCTTTCAGGACTAAAAA-GAGAAAGGC
1 GTCTTACTCTTTGAAGACTAAAAAGGAAAAAGGC
* * ** *
713915 GCCCTACTCTTCAAAGACTAAAAAAGGGAAAAAGAC
1 GTCTTACTCTTTGAAGACT-AAAAA-GGAAAAAGGC
* *
713951 GTCTTACTCTTTGAGGATTAAAAAG
1 GTCTTACTCTTTGAAGACTAAAAAG
713976 ATATGCGTTT
Statistics
Matches: 73, Mismatches: 18, Indels: 7
0.74 0.18 0.07
Matches are distributed among these distances:
33 18 0.25
34 9 0.12
35 26 0.36
36 20 0.27
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (34 bp):
GTCTTACTCTTTGAAGACTAAAAAGGAAAAAGGC
Found at i:714773 original size:20 final size:20
Alignment explanation
Indices: 714748--714787 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
714738 GCATTATCAA
714748 TTAAATAATAAATATGATGC
1 TTAAATAATAAATATGATGC
*
714768 TTAAATGATAAATATGATGC
1 TTAAATAATAAATATGATGC
714788 AACAAAGGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.35
Consensus pattern (20 bp):
TTAAATAATAAATATGATGC
Found at i:720374 original size:7 final size:7
Alignment explanation
Indices: 720362--720399 Score: 51
Period size: 7 Copynumber: 5.3 Consensus size: 7
720352 AATTTTCTTC
720362 TTCTTTT
1 TTCTTTT
720369 TTCTTTT
1 TTCTTTT
720376 TTCTTTTT
1 TTC-TTTT
720384 TTCTCTTT
1 TTCT-TTT
720392 TT-TTTT
1 TTCTTTT
720398 TT
1 TT
720400 TTGAAAATCC
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
6 5 0.17
7 12 0.41
8 12 0.41
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (7 bp):
TTCTTTT
Found at i:720381 original size:14 final size:15
Alignment explanation
Indices: 720357--720399 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
720347 ATTTGAATTT
*
720357 TCTTCTTCTTTTTTC
1 TCTTTTTCTTTTTTC
720372 T-TTTTTCTTTTTTTC
1 TCTTTTTC-TTTTTTC
720387 TCTTTTT-TTTTTT
1 TCTTTTTCTTTTTT
720400 TTGAAAATCC
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 11 0.44
15 9 0.36
16 5 0.20
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (15 bp):
TCTTTTTCTTTTTTC
Found at i:720385 original size:15 final size:15
Alignment explanation
Indices: 720365--720400 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
720355 TTTCTTCTTC
720365 TTTTTTCT-TTTTTCT
1 TTTTTTCTCTTTTT-T
720380 TTTTTTCTCTTTTTT
1 TTTTTTCTCTTTTTT
720395 TTTTTT
1 TTTTTT
720401 TGAAAATCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 15 0.75
16 5 0.25
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (15 bp):
TTTTTTCTCTTTTTT
Found at i:720385 original size:17 final size:17
Alignment explanation
Indices: 720354--720401 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 17
720344 CATATTTGAA
720354 TTTTCTTCTTCTTTTT-TC
1 TTTT-TTCTT-TTTTTCTC
720372 TTTTTTCTTTTTTTCTC
1 TTTTTTCTTTTTTTCTC
720389 TTTTTT-TTTTTTT
1 TTTTTTCTTTTTTT
720402 GAAAATCCAG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
16 12 0.41
17 13 0.45
18 4 0.14
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTTTCTTTTTTTCTC
Found at i:723470 original size:13 final size:13
Alignment explanation
Indices: 723452--723477 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
723442 TACAGCAAGT
723452 ATGTATCGATACA
1 ATGTATCGATACA
723465 ATGTATCGATACA
1 ATGTATCGATACA
723478 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:725728 original size:21 final size:21
Alignment explanation
Indices: 725695--725744 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
725685 TTGCAAGTTG
*
725695 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
725717 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
725738 AAATAAA
1 AAATAAA
725745 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:727118 original size:13 final size:13
Alignment explanation
Indices: 727100--727124 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
727090 CATAAAATGT
727100 TGTATCGATACAA
1 TGTATCGATACAA
727113 TGTATCGATACA
1 TGTATCGATACA
727125 TATTTTTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:727140 original size:32 final size:33
Alignment explanation
Indices: 727080--727145 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
727070 TTCAACGATT
727080 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
** *
727113 TGTATCGATACAT-ATTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
727145 T
1 T
727146 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.57
33 13 0.43
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:727207 original size:13 final size:13
Alignment explanation
Indices: 727189--727213 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
727179 ATTACTCACA
727189 TGTATCGATACAT
1 TGTATCGATACAT
727202 TGTATCGATACA
1 TGTATCGATACA
727214 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:727350 original size:52 final size:52
Alignment explanation
Indices: 727222--727342 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
727212 CACTGATCTT
*
727222 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
727274 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
727326 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
727343 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:735641 original size:30 final size:31
Alignment explanation
Indices: 735605--735686 Score: 112
Period size: 30 Copynumber: 2.7 Consensus size: 31
735595 ATACCTTTTT
735605 AAAGTCCACGACTCAGTGGCATTTTGTC-TC
1 AAAGTCCACGACTCAGTGGCATTTTGTCTTC
* *
735635 AAAGTCCACGACTCAGTGGCATTTTTTCTTT
1 AAAGTCCACGACTCAGTGGCATTTTGTCTTC
* * *
735666 AAAGCCCACAACTCCGTGGCA
1 AAAGTCCACGACTCAGTGGCA
735687 CCTTGTTCCT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 27 0.59
31 19 0.41
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCATTTTGTCTTC
Found at i:735770 original size:34 final size:34
Alignment explanation
Indices: 735635--736825 Score: 1218
Period size: 34 Copynumber: 35.8 Consensus size: 34
735625 ATTTTGTCTC
* * *
735635 AAAGTCCACGACTCAGTGGCA--TTTTT-TCTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTCTTT
*
735666 AAAGCCCACAACTCCGTGGCACCTTGTTC-CTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTCTTT
* *
735699 TAAGTCCACAACTCCGTGGCACC-----CT-TTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTCTTT
* *
735727 AAAGCCCACAATTCCGTGGCACTTTTTTCATCTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTC-TCTTT
*
735762 -AAGTCCACAACTCCGTGGCACC-----CT-TTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTCTTT
* *
735789 AAAGCCCACAATTCCGTGGCACTTTTTTCATCTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTC-TCTTT
*
735824 -AAGTCCACAACTCCGTGGCACC-----CT-TTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTCTTT
* *
735851 AAAGCCCACAATTCCGTGGCACTTTTTTCATCTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTC-TCTTT
*
735886 -AAGTCCACAACTCCGTGGCACC-----CT-TTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTCTTT
* * *
735913 AAAGCCCACAATTCTGTGGCACTTTTTTCATCTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTC-TCTTT
* *
735948 -AAGTCCACAACTCCGTGGCACC-----C-GTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTCTTT
*
735975 -AAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTCTTT
*
736008 AAAGCCCACAACTACGTGGCACCTTTTTCT-TTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTCTTT
* *
736041 AAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCTC-TTT
*
736077 CAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCTCTTT
*
736112 AAAGCCCACAACTCTGTGGCACTCTTTTTCTCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCTC-TTT
*
736148 CAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCTCTTT
736183 AAAGCCCACAACTCCGTGGCACCTTTTTCT-TTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTCTTT
* * *
736216 AAATCCCACAACTCTGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCTC-TTT
*
736252 CAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCTCTTT
*
736287 AAAGCCCACAACTCTGTGGCACTCTTTTTCTCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCTC-TTT
*
736323 CAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCTCTTT
*
736358 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCTC-TTT
*
736394 CAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCTCTTT
736429 AAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCTC-TTT
* *
736465 CAAAGCCTACGACTCCGTGGCA-------CTCTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCTCTTT
*
736493 AAAGCCCACAACTCCGTGGCACCTTCTTCT-TTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTCTTT
* *
736526 CAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTT
1 -AAAGCCCACAACTCCGTGGCAC-CTTTTTCTC-TTT
*
736563 CAAAGCCCACAACTCCGTGGCACCTTCTTCT-TTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCTCTTT
* *
736597 CAAAGCCCACAACTCTGTGGCACCTTCTTCT-TTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCTCTTT
* * *
736631 CAAAGCCCACGACTCTGTGGCA-C----TCTTTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCTCTTT
*
736661 AAAGCCCACAACTCCGTGGCACCTTTTTCTGTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTCTTT
*
736695 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCTC-TTT
*
736731 CAAAGCCCACAACTCCGTGGCACTTTTTTCT-TTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCTCTTT
*
736765 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCTCTTT
* * *
736800 TAAGTCCACAACTCCGTGGCATCTTT
1 AAAGCCCACAACTCCGTGGCACCTTT
736826 CTCCCTTCTC
Statistics
Matches: 989, Mismatches: 87, Indels: 165
0.80 0.07 0.13
Matches are distributed among these distances:
27 52 0.05
28 85 0.09
29 29 0.03
30 4 0.00
31 18 0.02
32 1 0.00
33 108 0.11
34 358 0.36
35 93 0.09
36 70 0.07
37 171 0.17
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (34 bp):
AAAGCCCACAACTCCGTGGCACCTTTTTCTCTTT
Found at i:735983 original size:27 final size:27
Alignment explanation
Indices: 735945--735996 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
735935 TTTTTTCATC
*
735945 TTTAAGTCCACAACTCCGTGGCACCCG
1 TTTAAGCCCACAACTCCGTGGCACCCG
735972 TTTAAGCCCACAACTCCGTGGCACC
1 TTTAAGCCCACAACTCCGTGGCACC
735997 TTTTTCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.23, C:0.38, G:0.17, T:0.21
Consensus pattern (27 bp):
TTTAAGCCCACAACTCCGTGGCACCCG
Found at i:736147 original size:71 final size:68
Alignment explanation
Indices: 735635--736846 Score: 1223
Period size: 71 Copynumber: 18.1 Consensus size: 68
735625 ATTTTGTCTC
* * * * *
735635 AAAGTCCACGACTCAGTGGCA-TTTTTTC-TTTAAAGCCCACAACTCCGTGGCACCTTGTTC-CT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTCT
735697 TTT
66 TTT
* * *
735700 -AAGTCCACAACTCCGTGGCACC-----CTTTTAAAGCCCACAATTCCGTGGCACTTTTTTCATC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTC-TC
735759 -TTT
65 TTTT
* * *
735762 -AAGTCCACAACTCCGTGGCACC-----CTTTTAAAGCCCACAATTCCGTGGCACTTTTTTCATC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTC-TC
735821 -TTT
65 TTTT
* * *
735824 -AAGTCCACAACTCCGTGGCACC-----CTTTTAAAGCCCACAATTCCGTGGCACTTTTTTCATC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTC-TC
735883 -TTT
65 TTTT
* * * *
735886 -AAGTCCACAACTCCGTGGCACC-----CTTTTAAAGCCCACAATTCTGTGGCACTTTTTTCATC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTC-TC
735945 -TTT
65 TTTT
* *
735948 -AAGTCCACAACTCCGTGGCACC-----CGTTT-AAGCCCACAACTCCGTGGCACCTTTTTCT-T
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTCT
736005 TTT
66 TTT
* * *
736008 AAAGCCCACAACTACGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCAC-CTTTTTCTC
736073 TTTT
65 TTTT
*
736077 CAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCTGTGGCACTCTTTTTC
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTAAAGCCCACAACTCCGTGGCAC-CTTTTTC
736142 TCTTTT
63 TCTTTT
736148 CAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACC-TTTT-T
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTAAAGCCCACAACTCCGTGGCACCTTTTTCT
736211 CTTTT
64 CTTTT
* *
736216 AAATCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTT-AAAGCCCACAACTCCGTGGCACCTTTTT
*
736281 CT-GTTT
62 CTCTTTT
*
736287 AAAGCCCACAACTCTGTGGCACTCTTTTTCTCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTT
1 AAAGCCCACAACTCCGTGGCAC-C-TTTT-TCTTTT-AAAGCCCACAACTCCGTGGCACCTTTTT
*
736352 CT-GTTT
62 CTCTTTT
736358 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTT-AAAGCCCACAACTCCGTGGCACCTTTTT
*
736423 CT-GTTT
62 CTCTTTT
* *
736429 AAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCTACGACTCCGTGGCA-------
1 AAAGCCCACAACTCCGTGGCAC-C-TTTT-TCTTTT-AAAGCCCACAACTCCGTGGCACCTTTTT
736487 CTC-TTT
62 CTCTTTT
* * *
736493 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCTGTGGCACTCTTTTTCC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT-AAAGCCCACAACTCCGTGGCAC-CTTTTTCT
736558 CTTTT
64 CTTTT
* * *
736563 CAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCTGTGGCACCTTCTTCT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT-AAAGCCCACAACTCCGTGGCACCTTTTTCT
*
736628 -TTTC
64 CTTTT
* * * *
736632 AAAGCCCACGACTCTGTGGCA-C--TCT-TTTTAAAGCCCACAACTCCGTGGCACCTTTTTCT-G
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTCT
736692 TTT
66 TTT
736695 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCA-CTTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTT-AAAGCCCACAACTCCGTGGCACCTTTTT
736759 -TCTTTT
62 CTCTTTT
* * *
736765 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT-AAGTCCACAACTCCGTGGCATCTTTCTC
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTTAAAGCCCACAACTCCGTGGCACCTTTTTC
*
736829 CCTTCTCT
63 TCTT-T-T
736837 AAAGCCCACA
1 AAAGCCCACA
736847 CAAGTCGGTG
Statistics
Matches: 1046, Mismatches: 49, Indels: 97
0.88 0.04 0.08
Matches are distributed among these distances:
60 5 0.00
61 99 0.09
62 217 0.21
63 51 0.05
64 49 0.05
65 2 0.00
66 4 0.00
67 43 0.04
68 57 0.05
69 23 0.02
70 120 0.11
71 354 0.34
72 20 0.02
73 2 0.00
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.33
Consensus pattern (68 bp):
AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTCT
TTT
Found at i:736266 original size:175 final size:174
Alignment explanation
Indices: 735635--736846 Score: 1248
Period size: 175 Copynumber: 7.3 Consensus size: 174
735625 ATTTTGTCTC
* * * *
735635 AAAGTCCACGACTCAGTGGCAT-TTTT-TC-TTT-AAAGCCCACAACTCCGTGGCACCTTGTTCC
1 AAAGCCCACAACTCTGTGGCATCTTTTCTCTTTTCAAAGCCCACAACTCCGTGGCACCTT-TTTC
* *
735696 T-TTT-AAGTCCACAACTCCGTGGCA--C-----CCTTTT-AAAGCCCACAATTCCGTGGCACT-
65 TGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCACTC
*
735750 TTTTTCATCTTT--AAGTCCACAACTCCGTGGCACC-----CT-TTT
130 TTTTTC-T-TTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTT
* * * *
735789 AAAGCCCACAATTCCGTGGCA-CTTTTTTCATCTTT--AAGTCCACAACTCCGTGGCACC-----
1 AAAGCCCACAACTCTGTGGCATCTTTTCTC-T-TTTCAAAGCCCACAACTCCGTGGCACCTTTTT
* * *
735846 CT-TTTAAAGCCCACAATTCCGTGGCACT-TTTTTCATCTTT--AAGTCCACAACTCCGTGGCAC
64 CTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCT-TTTCAAAGCCCACAACTCCGTGGCAC
* * * *
735907 -C-----CTTTT-AAAGCCCACAATTCTGTGGCACTTTTTTCATCTTT
128 TCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTC-TGTTT
* * *
735948 -AAGTCCACAACTCCGTGGCA-C----C-CGTTT--AAGCCCACAACTCCGTGGCACCTTTTTCT
1 AAAGCCCACAACTCTGTGGCATCTTTTCTCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCT
* * *
736004 TTTTAAAGCCCACAACTACGTGGCAC-CTTTTT-CTTTT-AAAGCCCACAACTCTGTGGCACTCT
66 GTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCACTCT
736066 TTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTT
131 TTTT--CTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTT
736112 AAAGCCCACAACTCTGTGGCACTCTTTTTCTCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTT
1 AAAGCCCACAACTCTGTGGCA-TC-TTTTCTCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTT
* *
736177 CTGTTTAAAGCCCACAACTCCGTGGCAC-CTTTTT-CTTTT-AAATCCCACAACTCTGTGGCACT
64 CTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCACT
736239 CTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTT
129 CTTTTT--CTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTT
736287 AAAGCCCACAACTCTGTGGCACTCTTTTTCTCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTT
1 AAAGCCCACAACTCTGTGGCA-TC-TTTTCTCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTT
736352 CTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCAC
64 CTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTT-CCTTTTCAAAGCCCACAACTCCGTGGCAC
*
736417 -CTTTTTCTGTTT-AAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTT
128 TCTTTTTCT-TTTCAAAGCCCACAACTCCGTGGCAC-CTTTTTCT-GTTT
* * * *
736465 CAAAGCCTACGACTCCGTGGCA------CTC-TTT-AAAGCCCACAACTCCGTGGCACCTTCTTC
1 -AAAGCCCACAACTCTGTGGCATCTTTTCTCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTC
*
736522 T-TTTCAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCAC
65 TGTTT-AAAGCCCACAACTCCGTGGCACTCTTTTT-CCTTTTCAAAGCCCACAACTCCGTGGCAC
* * *
736586 -CTTCTTCTTTTCAAAGCCCACAACTCTGTGGCACCTTCTTCT-TTT
128 TCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTT
*
736631 CAAAGCCCACGACTCTGTGGCA-C---TCT-TTTT-AAAGCCCACAACTCCGTGGCACCTTTTTC
1 -AAAGCCCACAACTCTGTGGCATCTTTTCTCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTC
736690 TGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACT
65 TGTTTAAAGCCCACAACTCCGTGGCACTCTTTTT-CCTTTTCAAAGCCCACAACTCCGTGGCACT
**
736755 -TTTTTCTTTT-AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT
129 CTTTTTCTTTTCAAAGCCCACAACTCCGTGGCAC-CTTTTTCTGTTT
* * * * *
736800 TAAGTCCACAACTCCGTGGCATCTTTCTCCCTTCTCTAAAGCCCACA
1 AAAGCCCACAACTCTGTGGCATCTTT-TCTCTTTTC-AAAGCCCACA
736847 CAAGTCGGTG
Statistics
Matches: 923, Mismatches: 59, Indels: 130
0.83 0.05 0.12
Matches are distributed among these distances:
151 32 0.03
152 37 0.04
153 2 0.00
154 21 0.02
155 5 0.01
156 22 0.02
157 51 0.06
158 44 0.05
159 6 0.01
164 9 0.01
165 44 0.05
166 23 0.02
167 22 0.02
168 137 0.15
169 122 0.13
170 3 0.00
171 3 0.00
172 1 0.00
173 6 0.01
174 3 0.00
175 227 0.25
176 40 0.04
177 11 0.01
178 14 0.02
179 38 0.04
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.33
Consensus pattern (174 bp):
AAAGCCCACAACTCTGTGGCATCTTTTCTCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCT
GTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCACTCT
TTTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTT
Found at i:736669 original size:97 final size:99
Alignment explanation
Indices: 735633--736846 Score: 897
Period size: 105 Copynumber: 12.1 Consensus size: 99
735623 GCATTTTGTC
* * * * * *
735633 TCAAAGTCCACGACTCAGTGGCATTTTTTCTTTAAAGCCCACAACTCCGTGGCACCTTGTTCCTT
1 TCAAAGCCCACAACTCCGTGGCACTTCTT-TTTAAAGCCCACAACTCCGTGGCACCTT-TTTCTT
*
735698 TT-AAGTCCACAACTCCGTGGCA-----C--CCTTT
64 TTAAAGCCCACAACTCCGTGGCACTCTTCTTCCTTT
* * * *
735726 T-AAAGCCCACAATTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACC-----C
1 TCAAAGCCCACAACTCCGTGGCAC-TTCTT--T-TTAAAGCCCACAACTCCGTGGCACCTTTTTC
* * *
735785 TTTTAAAGCCCACAATTCCGTGGCACT-TTTTTCATCTT
62 TTTTAAAGCCCACAACTCCGTGGCACTCTTCTTCCT-TT
* * * *
735823 T--AAGTCCACAACTCCGTGGCAC--CCTTTTAAAGCCCACAATTCCGTGGCACTTTTTTCATCT
1 TCAAAGCCCACAACTCCGTGGCACTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTC-T-T
*
735884 TT-AAGTCCACAACTCCGTGGCA-----C--CCTTT
64 TTAAAGCCCACAACTCCGTGGCACTCTTCTTCCTTT
* * * * *
735912 T-AAAGCCCACAATTCTGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACC-----C
1 TCAAAGCCCACAACTCCGTGGCAC-TTCTT--T-TTAAAGCCCACAACTCCGTGGCACCTTTTTC
* *
735971 GTTT-AAGCCCACAACTCCGTGGCAC-CTT-TTTCTTT
62 TTTTAAAGCCCACAACTCCGTGGCACTCTTCTTCCTTT
* * * *
736006 TTAAAGCCCACAACTACGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTC
1 TCAAAGCCCACAACTCCGTGGCA-C-TTCT-TTTTAAAGCCCACAACTCCGTGGCAC-CTTTTT-
*
736071 CCTTTTCAAAGCCCACAACTCCGTGGCAC-CTT-TTTCTGTT
61 -CTTTT-AAAGCCCACAACTCCGTGGCACTCTTCTTCCT-TT
*
736111 T-AAAGCCCACAACTCTGTGGCACTCTTTTTCTCTTTTCAAAGCCCACAACTCCGTGGCACCTTT
1 TCAAAGCCCACAACTCCGTGGCA--C---TTCT-TTTT-AAAGCCCACAACTCCGTGGCACCTTT
*
736175 TTCTGTTTAAAGCCCACAACTCCGTGGCAC-CTT-TTTCTTT
59 TTCT-TTTAAAGCCCACAACTCCGTGGCACTCTTCTTCCTTT
* * *
736215 T-AAATCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTT
1 TCAAAGCCCACAACTCCGTGGCA--C---TT--CTTTTTAAAGCCCACAACTCCGTGGCACCTTT
* *
736279 TTCTGTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCTCTTT
59 TTCT-TTTAAAGCCCACAACTCCGTGGCACTCTTCTTC-CTTT
*
736322 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 TCAAAGCCCACAACTCCGTGGCA-C---TTCTTTTTAAAGCCCACAACTCCGTGGCAC-CTTTTT
*
736387 CCCTTTTCAAAGCCCACAACTCCGTGGCAC-CTT-TTTCTGTT
61 --CTTTT-AAAGCCCACAACTCCGTGGCACTCTTCTTCCT-TT
* *
736428 T-AAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCTACGACTCCGTGGCA-C---
1 TCAAAGCCCACAACTCCGTGGCA--C---TTCT-TTTT-AAAGCCCACAACTCCGTGGCACCTTT
736488 -TC-TTTAAAGCCCACAACTCCGTGGCAC-CTTCTT-CTTT
59 TTCTTTTAAAGCCCACAACTCCGTGGCACTCTTCTTCCTTT
* * *
736525 TCAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTC
1 TCAAAGCCCACAACTCCGTGGCA--C---TT--CTTTTTAAAGCCCACAACTCCGTGGCACCTTT
*
736590 TTCTTTTCAAAGCCCACAACTCTGTGGCAC-CTTCTT-CTTT
59 TTCTTTT-AAAGCCCACAACTCCGTGGCACTCTTCTTCCTTT
* *
736630 TCAAAGCCCACGACTCTGTGGCAC-TCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTGTT
1 TCAAAGCCCACAACTCCGTGGCACTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCT-TT
*
736694 TAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT
65 TAAAGCCCACAACTCCGTGGCACTCTTCTT-CCTTT
*
736730 TCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
1 TCAAAGCCCACAACTCCGTGGCAC--TTCT-TTTTAAAGCCCACAACTCCGTGGCAC-CTTTTT-
* * *
736795 CCTTTT-AAGTCCACAACTCCGTGGCA-TCTTTCTCCCTTC
61 -CTTTTAAAGCCCACAACTCCGTGGCACTC-TTCTTCCTTT
736834 TCTAAAGCCCACA
1 TC-AAAGCCCACA
736847 CAAGTCGGTG
Statistics
Matches: 953, Mismatches: 80, Indels: 164
0.80 0.07 0.14
Matches are distributed among these distances:
89 30 0.03
90 59 0.06
91 2 0.00
92 17 0.02
93 8 0.01
94 27 0.03
95 45 0.05
96 67 0.07
97 65 0.07
98 82 0.09
99 10 0.01
100 29 0.03
102 5 0.01
103 5 0.01
104 171 0.18
105 182 0.19
106 30 0.03
107 37 0.04
108 82 0.09
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.33
Consensus pattern (99 bp):
TCAAAGCCCACAACTCCGTGGCACTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
AAAGCCCACAACTCCGTGGCACTCTTCTTCCTTT
Found at i:736942 original size:33 final size:34
Alignment explanation
Indices: 736828--736968 Score: 241
Period size: 34 Copynumber: 4.2 Consensus size: 34
736818 GCATCTTTCT
736828 CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
1 CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
736862 CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
1 CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
* *
736896 CCCTTCTCCAAAGCCCACACAAGTTGGTGGC-AA
1 CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
*
736929 CCATTCTCTAAAGCCCACACAAGTCGGTGGC-AA
1 CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
736962 CCCTTCT
1 CCCTTCT
736969 AAGCCCAATA
Statistics
Matches: 101, Mismatches: 6, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
33 38 0.38
34 63 0.62
ACGTcount: A:0.28, C:0.36, G:0.17, T:0.19
Consensus pattern (34 bp):
CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
Found at i:737026 original size:49 final size:49
Alignment explanation
Indices: 736963--737888 Score: 985
Period size: 49 Copynumber: 18.9 Consensus size: 49
736953 CGGTGGCAAC
* *
736963 CCTTCTAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCACCTTCA
1 CCTT-TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* * *
737013 CCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* *
737062 CCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* * * *
737111 TCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* * *
737160 CTTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGTACCTTTTCCA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CA
* * * * *
737212 TCTTTAAGTTCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* *
737261 CCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* * * * *
737310 TCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* * *
737359 --TTAAAAAAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-T--
1 CCTT----TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* *
737406 --TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* * * *
737453 TCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGG------CA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCA
*
737496 CCTTTAAGTCCAATATAGCTGGCCTTGACTCAGCATATTGGCACCTTTTTCA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC---TTCA
* * *
737548 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-T--
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* *
737593 --TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCA
*
737640 TCC-TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTA
1 -CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* * * *
737689 TCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* *
737738 CTTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CA
* * * * *
737790 TCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC---TTCA
* * * * *
737843 TCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCA
1 -C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
737889 TCTTTATCAC
Statistics
Matches: 744, Mismatches: 94, Indels: 70
0.82 0.10 0.08
Matches are distributed among these distances:
43 113 0.15
44 2 0.00
45 2 0.00
47 5 0.01
48 1 0.00
49 413 0.56
50 7 0.01
51 42 0.06
52 118 0.16
53 4 0.01
54 4 0.01
56 33 0.04
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (49 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCA
Found at i:737142 original size:98 final size:98
Alignment explanation
Indices: 736963--737896 Score: 1127
Period size: 98 Copynumber: 9.5 Consensus size: 98
736953 CGGTGGCAAC
* * * *
736963 CCTTCTAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCACCTTCACCTTTAAGTCCAATG
1 CCTT-TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATG
737028 TAGCTGGCCTTGACTCAGCACATTGGCACCTTCA
65 TAGCTGGCCTTGACTCAGCACATTGGCACCTTCA
*
737062 CCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
737127 AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
66 AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
* * * *
737160 CTTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGTACCTTTTCCATCTTTAAGTTCAA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTT--ATCTTTAAGTCCAA
737225 TGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCA
63 TGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCA
*
737261 CCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
*
737326 AGCTGGCCTTGACTCAGCACATTGGCACCTTTA
66 AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
* * *
737359 --TTAAAAAAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C----T-TTTAAGTCCA
1 CCTT----TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCA
* * * * *
737416 ATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCA
62 ATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCA
* * * * *
737453 TCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-C-----CTTTAAGTCCAATAT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
*
737512 AGCTGGCCTTGACTCAGCATATTGGCACCTTTTTCA
66 AGCTGGCCTTGACTCAGCACATTGGCACC---TTCA
* * * *
737548 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C----T-TTTAAGTCCAATAT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
* * * *
737607 CGCTGGCCTTGAATCAGCATATTGGCATCTTCA
66 AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
737640 TCC-TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATG
1 -CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATG
737704 TAGCTGGCCTTGACTCAGCACATTGGCACCTTCA
65 TAGCTGGCCTTGACTCAGCACATTGGCACCTTCA
* * *
737738 CTTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTTTAAGTTCAA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTT--ATCTTTAAGTCCAA
* *
737803 TGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCA
63 TGTAGCTGGCCTTGACTCAGCACATTGGCA-CC---TTCA
* * * * * *
737843 TCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATC
1 -C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
737897 ACTTTTCTCA
Statistics
Matches: 747, Mismatches: 56, Indels: 58
0.87 0.07 0.07
Matches are distributed among these distances:
92 120 0.16
93 2 0.00
94 41 0.05
95 88 0.12
96 3 0.00
97 2 0.00
98 262 0.35
99 10 0.01
100 39 0.05
101 131 0.18
102 2 0.00
105 7 0.01
106 1 0.00
107 3 0.00
108 36 0.05
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (98 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
Found at i:738035 original size:170 final size:170
Alignment explanation
Indices: 737832--738147 Score: 580
Period size: 170 Copynumber: 1.9 Consensus size: 170
737822 GCACATTGAC
737832 ATCCTTTTTCATCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATC
1 ATCCTTTTTCATCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATC
* *
737897 ACTTTTCTCATCTTCATCTTTAAGTCCAATGTCGCTGACCTTGAATCAGCACATTGGCACCTTTA
66 ACTTTTCTCATCTTCATCTTTAAGTCCAATGTAGCTGACCTTGAATCAGCACATTGGCACCTTCA
737962 -TCTTTAAGTCCAATATCGCTAGCCGCATATTGGCTCTTTT
131 CT-TTTAAGTCCAATATCGCTAGCCGCATATTGGCTCTTTT
738002 ATCCTTTTTCATCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATC
1 ATCCTTTTTCATCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATC
* *
738067 ACTTTTCTCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCA
66 ACTTTTCTCATCTTCATCTTTAAGTCCAATGTAGCTGACCTTGAATCAGCACATTGGCACCTTCA
738132 CTTTTAAGTCCAATAT
131 CTTTTAAGTCCAATAT
738148 AGCTGGCCTT
Statistics
Matches: 141, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
170 140 0.99
171 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.38
Consensus pattern (170 bp):
ATCCTTTTTCATCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATC
ACTTTTCTCATCTTCATCTTTAAGTCCAATGTAGCTGACCTTGAATCAGCACATTGGCACCTTCA
CTTTTAAGTCCAATATCGCTAGCCGCATATTGGCTCTTTT
Found at i:738106 original size:67 final size:63
Alignment explanation
Indices: 737987--738125 Score: 147
Period size: 67 Copynumber: 2.2 Consensus size: 63
737977 TCGCTAGCCG
* *
737987 CATATTGGC-TCTTTTATCCTTTTTCATCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAA
1 CATATTGGCATCTTTTATCCTTTTTCATCATCTTTAAGCCCAATATAGCTGGCCGTGAATCAA
* * * *
738049 CATATTGGCATC-TTTATCACTTTTCTCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACT
1 CATATTGGCATCTTTTATC-CTTTT-TCA---TCATCTTTAAGCCCAATATAGCTGGCCGTGAAT
*
738113 CAG
61 CAA
*
738116 CACATTGGCA
1 CATATTGGCA
738126 CCTTCACTTT
Statistics
Matches: 63, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
62 15 0.24
63 7 0.11
64 3 0.05
67 38 0.60
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.39
Consensus pattern (63 bp):
CATATTGGCATCTTTTATCCTTTTTCATCATCTTTAAGCCCAATATAGCTGGCCGTGAATCAA
Found at i:738151 original size:49 final size:51
Alignment explanation
Indices: 738081--738287 Score: 204
Period size: 49 Copynumber: 4.0 Consensus size: 51
738071 TTCTCATCTT
*
738081 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACC-TT-
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTC
* * *
738130 CA-CTTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTC
1 CATC-TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TTTC
* *
738182 CATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTC
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CC--TTTC
* * * * * * * *
738236 ATCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTT
1 --CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTT
738288 ATCACTTTTC
Statistics
Matches: 130, Mismatches: 19, Indels: 14
0.80 0.12 0.09
Matches are distributed among these distances:
48 1 0.01
49 41 0.32
51 2 0.02
52 38 0.29
53 6 0.05
54 5 0.04
55 1 0.01
56 36 0.28
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.34
Consensus pattern (51 bp):
CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTC
Found at i:738416 original size:394 final size:394
Alignment explanation
Indices: 737688--738541 Score: 1656
Period size: 394 Copynumber: 2.2 Consensus size: 394
737678 TGGCACCTTT
737688 ATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACTTTTAAGTCCAATA
1 ATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACTTTTAAGTCCAATA
737753 TAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGA
66 TAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGA
737818 ATCAGCACATTGACATCCTTTTTCATCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATA
131 ATCAGCACATTGACATCCTTTTTCATCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATA
737883 TTGGCATCTTTATCACTTTTCTCATCTTCATCTTTAAGTCCAATGTCGCTGACCTTGAATCAGCA
196 TTGGCATCTTTATCACTTTTCTCATCTTCATCTTTAAGTCCAATGTCGCTGACCTTGAATCAGCA
737948 CATTGGCACCTTTATCTTTAAGTCCAATATCGCTAGCCGCATATTGGCTCTTTTATCCTTTTTCA
261 CATTGGCACCTTTATCTTTAAGTCCAATATCGCTAGCCGCATATTGGCTCTTTTATCCTTTTTCA
738013 TCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTCTCAT
326 TCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTCTCAT
738078 CTTC
391 CTTC
738082 ATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACTTTTAAGTCCAATA
1 ATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACTTTTAAGTCCAATA
738147 TAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGA
66 TAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGA
738212 ATCAGCACATTGACATCCTTTTTCATCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATA
131 ATCAGCACATTGACATCCTTTTTCATCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATA
738277 TTGGCATCTTTATCACTTTTCTCATCTTCATCTTTAAGTCCAATGTCGCTGACCTTGAATCAGCA
196 TTGGCATCTTTATCACTTTTCTCATCTTCATCTTTAAGTCCAATGTCGCTGACCTTGAATCAGCA
738342 CATTGGCACCTTTATCTTTAAGTCCAATATCGCTAGCCGCATATTGGCTCTTTTATCCTTTTTCA
261 CATTGGCACCTTTATCTTTAAGTCCAATATCGCTAGCCGCATATTGGCTCTTTTATCCTTTTTCA
738407 TCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTCTCAT
326 TCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTCTCAT
738472 CTTC
391 CTTC
* * * *
738476 ATCTTTAAGTCCAATGTCGCTGACCTTGAATCAGCACATTGGCACCTTTA-TCTTTAAGTCCAAT
1 ATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACT-TTTAAGTCCAAT
738540 AT
65 AT
738542 CGCTAGCCGC
Statistics
Matches: 455, Mismatches: 4, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
393 1 0.00
394 454 1.00
ACGTcount: A:0.24, C:0.26, G:0.14, T:0.36
Consensus pattern (394 bp):
ATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACTTTTAAGTCCAATA
TAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGA
ATCAGCACATTGACATCCTTTTTCATCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATA
TTGGCATCTTTATCACTTTTCTCATCTTCATCTTTAAGTCCAATGTCGCTGACCTTGAATCAGCA
CATTGGCACCTTTATCTTTAAGTCCAATATCGCTAGCCGCATATTGGCTCTTTTATCCTTTTTCA
TCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTCTCAT
CTTC
Found at i:738429 original size:170 final size:170
Alignment explanation
Indices: 738226--738690 Score: 763
Period size: 170 Copynumber: 2.7 Consensus size: 170
738216 GCACATTGAC
738226 ATCCTTTTTCATCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATC
1 ATCCTTTTTCATCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATC
738291 ACTTTTCTCATCTTCATCTTTAAGTCCAATGTCGCTGACCTTGAATCAGCACATTGGCACCTTTA
66 ACTTTTCTCATCTTCATCTTTAAGTCCAATGTCGCTGACCTTGAATCAGCACATTGGCACCTTTA
738356 TCTTTAAGTCCAATATCGCTAGCCGCATATTGGCTCTTTT
131 TCTTTAAGTCCAATATCGCTAGCCGCATATTGGCTCTTTT
738396 ATCCTTTTTCATCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATC
1 ATCCTTTTTCATCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATC
738461 ACTTTTCTCATCTTCATCTTTAAGTCCAATGTCGCTGACCTTGAATCAGCACATTGGCACCTTTA
66 ACTTTTCTCATCTTCATCTTTAAGTCCAATGTCGCTGACCTTGAATCAGCACATTGGCACCTTTA
738526 TCTTTAAGTCCAATATCGCTAGCCGCATATTGGCTCTTTT
131 TCTTTAAGTCCAATATCGCTAGCCGCATATTGGCTCTTTT
** * * *
738566 ATCCTTTTTC-TCATCTTTAAATCCAATATCCTTGGCCGTGAATCAACGTATTGGTCCT-TTTAT
1 ATCCTTTTTCATCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGG-CATCTTTAT
* * * * * * * * * *
738629 CGCTCTTCATCCTCATCATCTTTAAGTCCAGTGTGGCAGGCCTTGAATCTGCACAGTGGCAC
65 CACTTTTC-TCATCTTCATCTTTAAGTCCAATGTCGCTGACCTTGAATCAGCACATTGGCAC
738691 ACTGCAAGAC
Statistics
Matches: 278, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
169 51 0.18
170 227 0.82
ACGTcount: A:0.22, C:0.26, G:0.14, T:0.38
Consensus pattern (170 bp):
ATCCTTTTTCATCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATC
ACTTTTCTCATCTTCATCTTTAAGTCCAATGTCGCTGACCTTGAATCAGCACATTGGCACCTTTA
TCTTTAAGTCCAATATCGCTAGCCGCATATTGGCTCTTTT
Found at i:738459 original size:62 final size:65
Alignment explanation
Indices: 738381--738527 Score: 167
Period size: 67 Copynumber: 2.3 Consensus size: 65
738371 TCGCTAGCCG
* *
738381 CATATTGGC-TCTTTTATC-CTTTT-TCA-TCATCTTTAAGCCCAATATCGTTGGCCGTGAATCA
1 CATATTGGCATC-TTTATCACTTTTCTCATTCATCTTTAAGCCCAATATCGCTGACCGTGAATCA
738442 A
65 A
* * *
738443 CATATTGGCATCTTTATCACTTTTCTCATCTTCATCTTTAAGTCCAATGTCGCTGACCTTGAATC
1 CATATTGGCATCTTTATCACTTTTCTCA--TTCATCTTTAAGCCCAATATCGCTGACCGTGAATC
*
738508 AG
64 AA
* *
738510 CACATTGGCACCTTTATC
1 CATATTGGCATCTTTATC
738528 TTTAAGTCCA
Statistics
Matches: 71, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
62 15 0.21
63 7 0.10
64 3 0.04
67 46 0.65
ACGTcount: A:0.22, C:0.26, G:0.12, T:0.39
Consensus pattern (65 bp):
CATATTGGCATCTTTATCACTTTTCTCATTCATCTTTAAGCCCAATATCGCTGACCGTGAATCAA
Found at i:739308 original size:33 final size:33
Alignment explanation
Indices: 739271--739337 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
739261 TTCAACGATT
739271 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
739304 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
739337 T
1 T
739338 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:739309 original size:13 final size:13
Alignment explanation
Indices: 739291--739315 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
739281 CATAAAATGT
739291 TGTATCGATACAA
1 TGTATCGATACAA
739304 TGTATCGATACA
1 TGTATCGATACA
739316 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:739399 original size:13 final size:13
Alignment explanation
Indices: 739381--739405 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
739371 ATTACTCACA
739381 TGTATCGATACAT
1 TGTATCGATACAT
739394 TGTATCGATACA
1 TGTATCGATACA
739406 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:739542 original size:52 final size:52
Alignment explanation
Indices: 739414--739534 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
739404 CACTGATCTT
*
739414 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
739466 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
739518 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
739535 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:743339 original size:15 final size:15
Alignment explanation
Indices: 743319--743349 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
743309 TAAAAATGTC
*
743319 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
743334 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
743349 C
1 C
743350 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:745389 original size:20 final size:20
Alignment explanation
Indices: 745363--745440 Score: 75
Period size: 20 Copynumber: 3.6 Consensus size: 20
745353 AATGTCCAAA
745363 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATGTTTCT
* *
745383 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACA--T-G--TTTCT
*
745408 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATGTTTCT
*
745428 TTGTATCGATACA
1 ATGTATCGATACA
745441 GGGTGATTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
20 28 0.60
22 1 0.02
23 2 0.04
25 16 0.34
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATGTTTCT
Found at i:745585 original size:21 final size:21
Alignment explanation
Indices: 745561--745607 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
745551 AAATCTTTTG
745561 CAAAAT-ACTT-GTTTTTCACTT
1 CAAAATAACTTCGTTTTTCA--T
745582 C-AAATAACTTCGTTTTTCAT
1 CAAAATAACTTCGTTTTTCAT
745602 CAAAAT
1 CAAAAT
745608 CAGAATCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.43
Consensus pattern (21 bp):
CAAAATAACTTCGTTTTTCAT
Found at i:745604 original size:20 final size:19
Alignment explanation
Indices: 745563--745605 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
745553 ATCTTTTGCA
745563 AAATACTTGTTTTTCACTTC
1 AAATACTTGTTTTTCAC-TC
745583 AAATAACTTCGTTTTTCA-TC
1 AAAT-ACTT-GTTTTTCACTC
745603 AAA
1 AAA
745606 ATCAGAATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.43
21 4 0.19
22 8 0.38
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.44
Consensus pattern (19 bp):
AAATACTTGTTTTTCACTC
Found at i:748000 original size:13 final size:13
Alignment explanation
Indices: 747982--748007 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
747972 TACAGCAAGT
747982 ATGTATCGATACA
1 ATGTATCGATACA
747995 ATGTATCGATACA
1 ATGTATCGATACA
748008 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:750127 original size:33 final size:33
Alignment explanation
Indices: 750090--750156 Score: 109
Period size: 33 Copynumber: 2.0 Consensus size: 33
750080 TGTTGGGCAT
*
750090 AATGTATCGATACAAT-TCTTTATGTATTGATAC
1 AATGTATCGATACAATGTC-CTATGTATTGATAC
750123 AATGTATCGATACAATGTCCTATGTATTGATAC
1 AATGTATCGATACAATGTCCTATGTATTGATAC
750156 A
1 A
750157 TTTTACTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 30 0.94
34 2 0.06
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.39
Consensus pattern (33 bp):
AATGTATCGATACAATGTCCTATGTATTGATAC
Found at i:750129 original size:13 final size:13
Alignment explanation
Indices: 750111--750140 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
750101 ACAATTCTTT
*
750111 ATGTATTGATACA
1 ATGTATCGATACA
750124 ATGTATCGATACA
1 ATGTATCGATACA
750137 ATGT
1 ATGT
750141 CCTATGTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:754542 original size:13 final size:13
Alignment explanation
Indices: 754524--754587 Score: 68
Period size: 13 Copynumber: 5.4 Consensus size: 13
754514 TGATACATAG
754524 TACATTGTATCGA
1 TACATTGTATCGA
*
754537 TACATTGTATTGA
1 TACATTGTATCGA
754550 TACA-TG----G-
1 TACATTGTATCGA
*
754557 GACATTGTATCGA
1 TACATTGTATCGA
754570 TACATTGTATCGA
1 TACATTGTATCGA
754583 TACAT
1 TACAT
754588 GAAGAATTGT
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
7 3 0.07
8 3 0.07
12 3 0.07
13 33 0.79
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:754546 original size:33 final size:32
Alignment explanation
Indices: 754509--754608 Score: 139
Period size: 33 Copynumber: 3.0 Consensus size: 32
754499 CTAAGTGAAA
754509 TGTATTGATACATAGTACATTGTATCGATACAT
1 TGTATTGATACATAG-ACATTGTATCGATACAT
*
754542 TGTATTGATACATGGGACATTGTATCGATACAT
1 TGTATTGATACAT-AGACATTGTATCGATACAT
*
754575 TGTATCGATACATGAAGA-ATTGTATCGATACAT
1 TGTATTGATACAT--AGACATTGTATCGATACAT
754608 T
1 T
754609 ATGCCCAACG
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
33 58 0.95
34 3 0.05
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (32 bp):
TGTATTGATACATAGACATTGTATCGATACAT
Found at i:757567 original size:33 final size:32
Alignment explanation
Indices: 757530--757593 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
757520 CACACTCAGA
*
757530 TGTATCGATACATATTGCTTAGTATCGATACAT
1 TGTATCGATACATATT-CTTAGTATCAATACAT
* * *
757563 TGTATCGATGCATGTTCTTTGTATCAATACA
1 TGTATCGATACATATTCTTAGTATCAATACA
757594 CCATAAAAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.41
Consensus pattern (32 bp):
TGTATCGATACATATTCTTAGTATCAATACAT
Found at i:759828 original size:3 final size:3
Alignment explanation
Indices: 759822--759867 Score: 74
Period size: 3 Copynumber: 15.3 Consensus size: 3
759812 ACCATTAATA
* *
759822 ATG ATG AAG ATG ATA ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
759868 AGTTGACTCA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.39, C:0.00, G:0.30, T:0.30
Consensus pattern (3 bp):
ATG
Found at i:764834 original size:34 final size:33
Alignment explanation
Indices: 764793--764862 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 33
764783 CCGTTACAAG
* *
764793 CAATGTATAGATACAATT-TCCTCATGTATTGATA
1 CAATGTATAGATAC-ATTGTCC-CACGTATCGATA
*
764827 CAATGTATCGATACATTGTCCCACGTATCGATA
1 CAATGTATAGATACATTGTCCCACGTATCGATA
764860 CAA
1 CAA
764863 ACAGTGGTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
33 16 0.50
34 16 0.50
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.33
Consensus pattern (33 bp):
CAATGTATAGATACATTGTCCCACGTATCGATA
Found at i:765003 original size:13 final size:13
Alignment explanation
Indices: 764962--765010 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
764952 CCGTTACAAG
*
764962 CAATGTATTGATA
1 CAATGTATCGATA
764975 CAAT-T-TC-AT-
1 CAATGTATCGATA
764984 C-ATGTATCGATA
1 CAATGTATCGATA
764996 CAATGTATCGATA
1 CAATGTATCGATA
765009 CA
1 CA
765011 TTGTCCCACG
Statistics
Matches: 30, Mismatches: 1, Indels: 10
0.73 0.02 0.24
Matches are distributed among these distances:
8 2 0.07
9 2 0.07
10 4 0.13
11 3 0.10
12 2 0.07
13 17 0.57
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:765056 original size:169 final size:169
Alignment explanation
Indices: 764777--765093 Score: 573
Period size: 169 Copynumber: 1.9 Consensus size: 169
764767 TAATTTGAAA
* *
764777 TTATAGCCGTTACAAGCAATGTATAGATACAATTTCCTCATGTATTGATACAATGTATCGATACA
1 TTATAGCCGTTACAAGCAATGTATAGATACAATTTCATCATGTATCGATACAATGTATCGATACA
764842 TTGTCCCACGTATCGATACAAACAGTGGTAGGGTAGCTACTACCAATCTCATGTATCGATACAAT
66 TTGTCCCACGTATCGATACAAACAGTGGTAGGGTAGCTACTACCAATCTCATGTATCGATACAAT
764907 TCAT-AATGTATCGATACATTAATTTGAAATTATAGTCGT
131 T-ATCAATGTATCGATACATTAATTTGAAATTATAGTCGT
*
764946 TTATAGCCGTTACAAGCAATGTATTGATACAATTTCATCATGTATCGATACAATGTATCGATACA
1 TTATAGCCGTTACAAGCAATGTATAGATACAATTTCATCATGTATCGATACAATGTATCGATACA
765011 TTGTCCCACGTATCGATACAAACAGTGGTAGGGTAGCTACTACCAATCTCATGTATCGATACAAT
66 TTGTCCCACGTATCGATACAAACAGTGGTAGGGTAGCTACTACCAATCTCATGTATCGATACAAT
* *
765076 TGTCCATGTATCGATACA
131 TATCAATGTATCGATACA
765094 ATGAGCATGT
Statistics
Matches: 142, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
168 1 0.01
169 141 0.99
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (169 bp):
TTATAGCCGTTACAAGCAATGTATAGATACAATTTCATCATGTATCGATACAATGTATCGATACA
TTGTCCCACGTATCGATACAAACAGTGGTAGGGTAGCTACTACCAATCTCATGTATCGATACAAT
TATCAATGTATCGATACATTAATTTGAAATTATAGTCGT
Found at i:765104 original size:19 final size:19
Alignment explanation
Indices: 765060--765115 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
765050 CTACCAATCT
*
765060 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAC
*
765080 CATGTATCGATACAATGAG
1 CATGTATCGATACAATGAC
*
765099 CATGTATTGATACAATG
1 CATGTATCGATACAATG
765116 TATCGATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAC
Found at i:765138 original size:169 final size:166
Alignment explanation
Indices: 764732--765145 Score: 499
Period size: 169 Copynumber: 2.5 Consensus size: 166
764722 TTCCCATAGC
* ** *
764732 CATGTATCGATACAATTCATAATGTATCGATACATTAATTTGAAATTATAGC-------CGTTAC
1 CATGTATCGATACAATTCATAATGTATCGATACATGAACATGAAATTATAGCATGTATACGATAC
* *
764790 AAGCAATGTATAGATACAATTTCCTCATGTATTGATACAATGTATCGATACATTGTCCCACGTAT
66 AAGCAATGTATAGATACAATTTCATCATGTATCGATACAATGTATCGATACATTGTCCCACGTAT
764855 CGATACAAACAGTGGTAGGGTAGCTACTACCAATCT
131 CGATACAAACAGTGGTAGGGTAGCTACTACCAATCT
* ** * * *
764891 CATGTATCGATACAATTCATAATGTATCGATACATTAATTTGAAATTATAGTCGTTTATAGCCGT
1 CATGTATCGATACAATTCATAATGTATCGATACATGAACATGAAATTATAG-CATGTATA--CGA
*
764956 TACAAGCAATGTATTGATACAATTTCATCATGTATCGATACAATGTATCGATACATTGTCCCACG
63 TACAAGCAATGTATAGATACAATTTCATCATGTATCGATACAATGTATCGATACATTGTCCCACG
765021 TATCGATACAAACAGTGGTAGGGTAGCTACTACCAATCT
128 TATCGATACAAACAGTGGTAGGGTAGCTACTACCAATCT
* * * *
765060 CATGTATCGATACAATT-GTCCATGTATCGATACAATGAGCATG-TATTGATA-CAATGTAT-CG
1 CATGTATCGATACAATTCAT-AATGTATCGATAC-ATGAACATGAAATT-ATAGC-ATGTATACG
*
765121 ATACAAAGCATAATGTATCGATACA
62 ATAC-AAGC--AATGTATAGATACA
765146 TCTGGGAGTG
Statistics
Matches: 224, Mismatches: 14, Indels: 24
0.85 0.05 0.09
Matches are distributed among these distances:
159 51 0.23
160 1 0.00
166 5 0.02
167 4 0.02
168 2 0.01
169 153 0.68
170 8 0.04
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (166 bp):
CATGTATCGATACAATTCATAATGTATCGATACATGAACATGAAATTATAGCATGTATACGATAC
AAGCAATGTATAGATACAATTTCATCATGTATCGATACAATGTATCGATACATTGTCCCACGTAT
CGATACAAACAGTGGTAGGGTAGCTACTACCAATCT
Found at i:765698 original size:22 final size:22
Alignment explanation
Indices: 765673--765742 Score: 78
Period size: 22 Copynumber: 3.4 Consensus size: 22
765663 TTTCATTTTA
765673 CTCTCCCTTAATTAAAAAATTT
1 CTCTCCCTTAATTAAAAAATTT
765695 CTCT-CCTT--TT-AAAAA-TT
1 CTCTCCCTTAATTAAAAAATTT
* * *
765712 CTCCCCCTTAATCAAAGAATTT
1 CTCTCCCTTAATTAAAAAATTT
765734 CTCTCCCTT
1 CTCTCCCTT
765743 TGTCAAATAA
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
17 5 0.13
18 9 0.23
19 2 0.05
20 1 0.03
21 8 0.21
22 14 0.36
ACGTcount: A:0.29, C:0.30, G:0.01, T:0.40
Consensus pattern (22 bp):
CTCTCCCTTAATTAAAAAATTT
Found at i:767121 original size:21 final size:20
Alignment explanation
Indices: 767092--767134 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
767082 GATAGGTGTG
* *
767092 GGGACTGCCCGGTTGCGACCT
1 GGGACTG-CCGATCGCGACCT
*
767113 GGGAGTGCCGATCGCGACCT
1 GGGACTGCCGATCGCGACCT
767133 GG
1 GG
767135 ATAGGGTTGC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.12, C:0.30, G:0.42, T:0.16
Consensus pattern (20 bp):
GGGACTGCCGATCGCGACCT
Found at i:767588 original size:13 final size:13
Alignment explanation
Indices: 767570--767598 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
767560 AAATATTACC
767570 CAATGTATCGATA
1 CAATGTATCGATA
767583 CAATGTATCGATA
1 CAATGTATCGATA
767596 CAA
1 CAA
767599 GGAATGTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (13 bp):
CAATGTATCGATA
Done.