Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 205 of 208
Found at i:62452376 original size:32 final size:32
Alignment explanation
Indices: 62452335--62452395 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
62452325 GGGGTTAAGA
62452335 AATTTATAGCATTAAGGTCCCACTAATCTTGT
1 AATTTATAGCATTAAGGTCCCACTAATCTTGT
62452367 AATTTATAGCATTAAGGTCCCACTAATCT
1 AATTTATAGCATTAAGGTCCCACTAATCT
62452396 CATTTTTCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (32 bp):
AATTTATAGCATTAAGGTCCCACTAATCTTGT
Found at i:62456371 original size:31 final size:31
Alignment explanation
Indices: 62456335--62456395 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
62456325 CAAACTGGTC
*
62456335 ACTAAATTATTCGAAAGTTTTCAA-TTAAGTT
1 ACTAAACTATTCGAAAGTTTT-AATTTAAGTT
62456366 ACTAAACTATTCGAAAGTTTTAATTTAAGT
1 ACTAAACTATTCGAAAGTTTTAATTTAAGT
62456396 CGCTGGGTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 2 0.07
31 26 0.93
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (31 bp):
ACTAAACTATTCGAAAGTTTTAATTTAAGTT
Found at i:62465976 original size:39 final size:39
Alignment explanation
Indices: 62465922--62466001 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
62465912 CTAGTAATTA
62465922 TAAATCTATACTAAGGGCCCTTTGAATGGGCAATGCGTT
1 TAAATCTATACTAAGGGCCCTTTGAATGGGCAATGCGTT
62465961 TAAATCTATACTAAGGGCCCTTTGAATGGGCAATGCGTT
1 TAAATCTATACTAAGGGCCCTTTGAATGGGCAATGCGTT
62466000 TA
1 TA
62466002 CCTGCAGTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (39 bp):
TAAATCTATACTAAGGGCCCTTTGAATGGGCAATGCGTT
Found at i:62471544 original size:82 final size:82
Alignment explanation
Indices: 62471447--62471664 Score: 323
Period size: 82 Copynumber: 2.7 Consensus size: 82
62471437 TGGAGCATGT
*
62471447 AGCATGTGCCTTCTTAATGGGACTTTATTAATTGGACCAACGCATGGAACTGCAAAAAAGTTGAA
1 AGCATGTGCCTTCTTAATGGGAGTTTATTAATTGGACCAACGCATGGAACTGCAAAAAAGTTGAA
*
62471512 ATCAAACACAACATTAG-
66 ATC-AACACAACAATAGC
* * * *
62471529 AGCATGTGCCTTCTTAATGGGAGTTTATTAATTGGACCAACACATGGAACTTCAAAAGAGTTGGA
1 AGCATGTGCCTTCTTAATGGGAGTTTATTAATTGGACCAACGCATGGAACTGCAAAAAAGTTGAA
*
62471594 ATCAACACAACAATGGC
66 ATCAACACAACAATAGC
* * *
62471611 A-CATGGGCCTTCTTAATGGGAGTTTATTAATTGGACCAACGCTTGGAATTGCAA
1 AGCATGTGCCTTCTTAATGGGAGTTTATTAATTGGACCAACGCATGGAACTGCAA
62471665 TAGAGTTGGA
Statistics
Matches: 123, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
81 59 0.48
82 64 0.52
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (82 bp):
AGCATGTGCCTTCTTAATGGGAGTTTATTAATTGGACCAACGCATGGAACTGCAAAAAAGTTGAA
ATCAACACAACAATAGC
Found at i:62471650 original size:81 final size:81
Alignment explanation
Indices: 62471447--62471686 Score: 331
Period size: 81 Copynumber: 3.0 Consensus size: 81
62471437 TGGAGCATGT
* * * *
62471447 AGCATGTGCCTTCTTAATGGGACTTTATTAATTGGACCAACGCATGGAACTGCAAAAAAGTTGAA
1 AGCATGTGCCTTCTTAATGGGAGTTTATTAATTGGACCAACGCATGGAACTTCAAAAGAGTTGGA
*
62471512 ATCAAACACAACATTAG
66 ATC-AACACAACAATAG
*
62471529 AGCATGTGCCTTCTTAATGGGAGTTTATTAATTGGACCAACACATGGAACTTCAAAAGAGTTGGA
1 AGCATGTGCCTTCTTAATGGGAGTTTATTAATTGGACCAACGCATGGAACTTCAAAAGAGTTGGA
*
62471594 ATCAACACAACAATGG
66 ATCAACACAACAATAG
* * *
62471610 CA-CATGGGCCTTCTTAATGGGAGTTTATTAATTGGACCAACGCTTGGAA-TTGCAATAGAGTTG
1 -AGCATGTGCCTTCTTAATGGGAGTTTATTAATTGGACCAACGCATGGAACTT-CAAAAGAGTTG
* *
62471673 GAATCGACATAACA
64 GAATCAACACAACA
62471687 TTGGAGTATG
Statistics
Matches: 143, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
80 2 0.01
81 77 0.54
82 64 0.45
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (81 bp):
AGCATGTGCCTTCTTAATGGGAGTTTATTAATTGGACCAACGCATGGAACTTCAAAAGAGTTGGA
ATCAACACAACAATAG
Found at i:62472336 original size:20 final size:20
Alignment explanation
Indices: 62472306--62472383 Score: 88
Period size: 20 Copynumber: 4.0 Consensus size: 20
62472296 CCGATTTAAT
62472306 AAATATATTTTTTAAATTTTA
1 AAATAT-TTTTTTAAATTTTA
** *
62472327 AAATATTTTTACATATTTT-
1 AAATATTTTTTTAAATTTTA
**
62472346 TTA-ATTTTTTTAAATTTTA
1 AAATATTTTTTTAAATTTTA
62472365 AAATATTTTTTTAAATTTT
1 AAATATTTTTTTAAATTTT
62472384 TAATTTTAAA
Statistics
Matches: 45, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
18 12 0.27
19 2 0.04
20 25 0.56
21 6 0.13
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (20 bp):
AAATATTTTTTTAAATTTTA
Found at i:62472354 original size:29 final size:28
Alignment explanation
Indices: 62472305--62472429 Score: 94
Period size: 29 Copynumber: 4.2 Consensus size: 28
62472295 CCCGATTTAA
*
62472305 TAAATATATTTTTTAAATTTTAAAATATTT
1 TAAA-ATATTTTTTAATTTTTAAAA-ATTT
* * **
62472335 TTACATATTTTTTAATTTTTTTAAATTT
1 TAAAATATTTTTTAATTTTTAAAAATTT
62472363 TAAAATATTTTTTTAAATTTTT---AATTT
1 TAAAATA-TTTTTT-AATTTTTAAAAATTT
*
62472390 TAAAATATTTTTAAAATAATTTTTTAAAATTTT
1 TAAAATATTTTT----TAA-TTTTTAAAAATTT
62472423 TAAAATA
1 TAAAATA
62472430 AAAATGGGCC
Statistics
Matches: 77, Mismatches: 8, Indels: 17
0.75 0.08 0.17
Matches are distributed among these distances:
26 5 0.06
27 12 0.16
28 9 0.12
29 25 0.32
30 15 0.19
33 11 0.14
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (28 bp):
TAAAATATTTTTTAATTTTTAAAAATTT
Found at i:62472383 original size:38 final size:36
Alignment explanation
Indices: 62472312--62472425 Score: 129
Period size: 38 Copynumber: 3.0 Consensus size: 36
62472302 TAATAAATAT
** *
62472312 ATTTTTTAAATTTTAAAATATTTTTACATATTTTTTA
1 ATTTTTTAAATTTTAAAATATTTTTTTA-AATTTTTA
62472349 ATTTTTTTAAATTTTAAAATATTTTTTTAAATTTTTA
1 A-TTTTTTAAATTTTAAAATATTTTTTTAAATTTTTA
** *
62472386 ATTTTAAAATATTTTTAAAATAATTTTTTAAAATTTTTA
1 ATTTTTTAA-A-TTTTAAAAT-ATTTTTTTAAATTTTTA
62472425 A
1 A
62472426 AATAAAAATG
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
36 6 0.09
37 10 0.15
38 34 0.51
39 17 0.25
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.61
Consensus pattern (36 bp):
ATTTTTTAAATTTTAAAATATTTTTTTAAATTTTTA
Found at i:62472412 original size:22 final size:22
Alignment explanation
Indices: 62472387--62472430 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
62472377 AAATTTTTAA
62472387 TTTTAAAATATTTTTAAAATAAT
1 TTTTAAAA-ATTTTTAAAATAAT
*
62472410 TTTTTAAAATTTTTAAAATAA
1 TTTTAAAAATTTTTAAAATAA
62472431 AAATGGGCCG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TTTTAAAAATTTTTAAAATAAT
Found at i:62472434 original size:39 final size:38
Alignment explanation
Indices: 62472360--62472434 Score: 105
Period size: 39 Copynumber: 1.9 Consensus size: 38
62472350 TTTTTTTAAA
* ** *
62472360 TTTTAAAATATTTTTTTAAATTTTTAATTTTAAAATAT
1 TTTTAAAATATTTTTTAAAATTTTTAAAATAAAAATAT
62472398 TTTTAAAATAATTTTTTAAAATTTTTAAAATAAAAAT
1 TTTTAAAAT-ATTTTTTAAAATTTTTAAAATAAAAAT
62472435 GGGCCGGGCC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
38 9 0.28
39 23 0.72
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (38 bp):
TTTTAAAATATTTTTTAAAATTTTTAAAATAAAAATAT
Found at i:62481816 original size:107 final size:106
Alignment explanation
Indices: 62481630--62481824 Score: 293
Period size: 107 Copynumber: 1.8 Consensus size: 106
62481620 NNNNNNNCGT
* * **
62481630 TATATTTATATCTGATTCTCACACGTAAAAAAAAGAATTTTTTTTAATTTGTATTGGGTGCCGGC
1 TATATTTATATCTGATTCTCACACGTAAAAAAAAGAATTTTTTTAAATTTGTACTGGGTGCCAAC
* *
62481695 CATTGATAGGCCAGCACCCAAAATTTTTTTTTATTTTTTCG
66 CATTGACAGACCAGCACCCAAAATTTTTTTTTATTTTTTCG
* *
62481736 TATATTTATATCTGATTTTGACACG-AAAAAAAAGAATTTTTTTAAAAATTTGTACTGGGTGCCA
1 TATATTTATATCTGATTCTCACACGTAAAAAAAAGAATTTTTTT--AAATTTGTACTGGGTGCCA
62481800 ACCATTGACAGACCAGCACCCAAAA
64 ACCATTGACAGACCAGCACCCAAAA
62481825 AAATAATTTT
Statistics
Matches: 79, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
105 18 0.23
106 23 0.29
107 38 0.48
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (106 bp):
TATATTTATATCTGATTCTCACACGTAAAAAAAAGAATTTTTTTAAATTTGTACTGGGTGCCAAC
CATTGACAGACCAGCACCCAAAATTTTTTTTTATTTTTTCG
Found at i:62482040 original size:18 final size:18
Alignment explanation
Indices: 62482013--62482054 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
62482003 TTGGTAATTG
*
62482013 TTTTTGAAAT-TGAGTTA
1 TTTTTGAAATATAAGTTA
*
62482030 TTTTTGTAAATATAATTTA
1 TTTTTG-AAATATAAGTTA
62482049 TTTTTG
1 TTTTTG
62482055 GACTATTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 6 0.29
18 4 0.19
19 11 0.52
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.60
Consensus pattern (18 bp):
TTTTTGAAATATAAGTTA
Found at i:62483186 original size:14 final size:14
Alignment explanation
Indices: 62483146--62483187 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
62483136 AATGGGTCCT
62483146 AAATATGTGGTCTG
1 AAATATGTGGTCTG
*
62483160 AAA-ATGATTGTCTG
1 AAATATG-TGGTCTG
62483174 AAATATGTGGTCTG
1 AAATATGTGGTCTG
62483188 TCAGCCACAG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 3 0.12
14 18 0.75
15 3 0.12
ACGTcount: A:0.31, C:0.07, G:0.26, T:0.36
Consensus pattern (14 bp):
AAATATGTGGTCTG
Found at i:62485066 original size:27 final size:27
Alignment explanation
Indices: 62484999--62485074 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 27
62484989 TAGTATTGGC
*
62484999 GCCTATCTGGGAGGCGTCAATGGTGGT
1 GCCTATCTGGGAGGCGCCAATGGTGGT
*
62485026 GCCTACCTGGGAGGCGCCAATGGTGGT
1 GCCTATCTGGGAGGCGCCAATGGTGGT
* *
62485053 GCC-ATTCTGAGAGGCACCAATG
1 GCCTA-TCTGGGAGGCGCCAATG
62485075 CTGTTATTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 1 0.02
27 42 0.98
ACGTcount: A:0.18, C:0.24, G:0.37, T:0.21
Consensus pattern (27 bp):
GCCTATCTGGGAGGCGCCAATGGTGGT
Found at i:62488524 original size:6 final size:6
Alignment explanation
Indices: 62488513--62488579 Score: 125
Period size: 6 Copynumber: 11.2 Consensus size: 6
62488503 TCTGCCTTTC
62488513 GCTCTG GCTCTG GCTCTG GCTCTG GCTCTG GCTCTG GCTCTG GCTCTG
1 GCTCTG GCTCTG GCTCTG GCTCTG GCTCTG GCTCTG GCTCTG GCTCTG
*
62488561 GCCCTG GCTCTG GCTCTG G
1 GCTCTG GCTCTG GCTCTG G
62488580 TGCATGATGC
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 59 1.00
ACGTcount: A:0.00, C:0.34, G:0.34, T:0.31
Consensus pattern (6 bp):
GCTCTG
Found at i:62490736 original size:21 final size:21
Alignment explanation
Indices: 62490711--62490793 Score: 69
Period size: 23 Copynumber: 3.6 Consensus size: 21
62490701 ATATTACAAC
62490711 ATTCATACAAAAAAATATAAT
1 ATTCATACAAAAAAATATAAT
*
62490732 ATTCATACAAAATTACAAAATTACAAT
1 ATTCATAC--AA--A-AAAA-TATAAT
62490759 ATTCATACAAAAAAA-ATTGCAAT
1 ATTCATACAAAAAAATA-T--AAT
62490782 ATTCATACAAAA
1 ATTCATACAAAA
62490794 CTATAATATT
Statistics
Matches: 51, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
20 1 0.02
21 8 0.16
22 4 0.08
23 18 0.35
25 3 0.06
26 4 0.08
27 13 0.25
ACGTcount: A:0.58, C:0.13, G:0.01, T:0.28
Consensus pattern (21 bp):
ATTCATACAAAAAAATATAAT
Found at i:62490755 original size:48 final size:48
Alignment explanation
Indices: 62490683--62490851 Score: 214
Period size: 48 Copynumber: 3.4 Consensus size: 48
62490673 NNNNNNNNNN
* * *
62490683 TATTCATACAAAATTATAATATTACAACATTCATACAAAAAAATATAA
1 TATTCATACAAAATTACAAAATTACAATATTCATACAAAAAAATATAA
62490731 TATTCATACAAAATTACAAAATTACAATATTCATACAAAAAAA-ATTGCAA
1 TATTCATACAAAATTACAAAATTACAATATTCATACAAAAAAATA-T--AA
* * *
62490781 TATTCATACAAAACTATAATATTATTACAATATTCATACAAAAAATTTATAA
1 TATTCATACAAAATTACAA-A--ATTACAATATTCATACAAAAAA-ATATAA
62490833 TATTCATACAAAATTACAA
1 TATTCATACAAAATTACAA
62490852 TATTCATACA
Statistics
Matches: 105, Mismatches: 8, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
47 1 0.01
48 41 0.39
50 19 0.18
51 1 0.01
52 19 0.18
53 22 0.21
54 1 0.01
55 1 0.01
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.32
Consensus pattern (48 bp):
TATTCATACAAAATTACAAAATTACAATATTCATACAAAAAAATATAA
Found at i:62490769 original size:19 final size:19
Alignment explanation
Indices: 62490745--62490991 Score: 127
Period size: 19 Copynumber: 12.5 Consensus size: 19
62490735 CATACAAAAT
62490745 TACAAAATTACAATATTCA
1 TACAAAATTACAATATTCA
*
62490764 TACAAAAAAAATTGCAATATTCA
1 TAC----AAAATTACAATATTCA
* *
62490787 TACAAAACTATAATATT-A
1 TACAAAATTACAATATTCA
*
62490805 TTACAATATT-C-ATA--CA
1 -TACAAAATTACAATATTCA
*
62490821 -A-AAAATTTATAATATTCA
1 TACAAAA-TTACAATATTCA
62490839 TACAAAATTACAATATTCA
1 TACAAAATTACAATATTCA
* *
62490858 TACAAAAAATTACTA-ATCCAA
1 TAC--AAAATTACAATATTC-A
*
62490879 AACTATAAA-TACAAATTTAATT-A
1 TAC-A-AAATTAC-AA--T-ATTCA
*
62490902 TAAAATAATTACAATATTCA
1 TACAA-AATTACAATATTCA
*
62490922 TACAACATTACAATATTCA
1 TACAAAATTACAATATTCA
* *
62490941 TAAAAAAATTATAATATTCA
1 T-ACAAAATTACAATATTCA
*
62490961 TACAAAAAATTTAAAATATTCA
1 TAC--AAAA-TTACAATATTCA
62490983 TACAAAATT
1 TACAAAATT
62490992 CTAATTTAAA
Statistics
Matches: 174, Mismatches: 25, Indels: 58
0.68 0.10 0.23
Matches are distributed among these distances:
13 3 0.02
14 3 0.02
16 4 0.02
17 3 0.02
18 3 0.02
19 56 0.32
20 37 0.21
21 21 0.12
22 19 0.11
23 23 0.13
25 2 0.01
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (19 bp):
TACAAAATTACAATATTCA
Found at i:62490834 original size:22 final size:21
Alignment explanation
Indices: 62490804--62490989 Score: 133
Period size: 22 Copynumber: 9.0 Consensus size: 21
62490794 CTATAATATT
*
62490804 ATTACAATATTCATACAAAAA
1 ATTATAATATTCATACAAAAA
62490825 ATTTATAATATTCATAC--AAA
1 A-TTATAATATTCATACAAAAA
*
62490845 ATTACAATATTCATACAAAAA
1 ATTATAATATTCATACAAAAA
**
62490866 ATTACTAATCCAAAACTATA-AATACAA
1 ATTA-TAAT---ATTC-ATACAA-A-AA
*
62490893 ATT-T-A-ATT-ATA-AAATA
1 ATTATAATATTCATACAAAAA
* *
62490909 ATTACAATATTCATAC--AAC
1 ATTATAATATTCATACAAAAA
*
62490928 ATTACAATATTCATA-AAAAA
1 ATTATAATATTCATACAAAAA
62490948 ATTATAATATTCATACAAAAA
1 ATTATAATATTCATACAAAAA
*
62490969 ATTTAAAATATTCATACAAAA
1 A-TTATAATATTCATACAAAA
62490990 TTCTAATTTA
Statistics
Matches: 132, Mismatches: 14, Indels: 37
0.72 0.08 0.20
Matches are distributed among these distances:
16 4 0.03
17 1 0.01
18 6 0.05
19 33 0.25
20 24 0.18
21 14 0.11
22 35 0.27
24 1 0.01
25 5 0.04
26 4 0.03
27 5 0.04
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.32
Consensus pattern (21 bp):
ATTATAATATTCATACAAAAA
Found at i:62490849 original size:41 final size:41
Alignment explanation
Indices: 62490804--62490989 Score: 170
Period size: 41 Copynumber: 4.5 Consensus size: 41
62490794 CTATAATATT
62490804 ATTACAATATTCATACAAAAAATTTATAATATTCATAC-AAA
1 ATTACAATATTCATACAAAAAA-TTATAATATTCATACAAAA
* * *
62490845 ATTACAATATTCATACAAAAAATTACT-A-ATCCAAAACTATAA
1 ATTACAATATTCATACAAAAAATTA-TAATATTC-ATAC-AAAA
* * * *
62490887 A-TACAA-ATTTAATTATAAAATAATTACAATATTCATAC-AAC
1 ATTACAATA-TTCA-TACAAAA-AATTATAATATTCATACAAAA
62490928 ATTACAATATTCATA-AAAAAATTATAATATTCATACAAAAA
1 ATTACAATATTCATACAAAAAATTATAATATTCATAC-AAAA
*
62490969 ATTTAAAATATTCATACAAAA
1 A-TTACAATATTCATACAAAA
62490990 TTCTAATTTA
Statistics
Matches: 116, Mismatches: 14, Indels: 28
0.73 0.09 0.18
Matches are distributed among these distances:
39 19 0.16
40 12 0.10
41 38 0.33
42 30 0.26
43 14 0.12
44 3 0.03
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.32
Consensus pattern (41 bp):
ATTACAATATTCATACAAAAAATTATAATATTCATACAAAA
Found at i:62490990 original size:83 final size:84
Alignment explanation
Indices: 62490809--62490990 Score: 198
Period size: 83 Copynumber: 2.2 Consensus size: 84
62490799 ATATTATTAC
*
62490809 AATATTCATACAAAA-AATTTATAATATTCATACAAAATTACAATATTCATACAAAAAATTACTA
1 AATATTCATACAAAATAATTTACAATATTCATACAAAATTACAATATTCATACAAAAAATTACTA
* *
62490873 ATCCAAAACTATAAATACA
66 ATCCAAAACAAAAAATACA
* * *
62490892 AAT-TTAATTATAAAATAA-TTACAATATTCATACAACATTACAATATTCATA-AAAAAATTA-T
1 AATATTCA-TACAAAATAATTTACAATATTCATACAAAATTACAATATTCATACAAAAAATTACT
* *
62490953 AATATTC-ATACAAAAAATTTA-A
65 -A-ATCCAAAACAAAAAA--TACA
62490975 AATATTCATACAAAAT
1 AATATTCATACAAAAT
62490991 TCTAATTTAA
Statistics
Matches: 82, Mismatches: 10, Indels: 14
0.77 0.09 0.13
Matches are distributed among these distances:
81 1 0.01
82 20 0.24
83 54 0.66
84 7 0.09
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.32
Consensus pattern (84 bp):
AATATTCATACAAAATAATTTACAATATTCATACAAAATTACAATATTCATACAAAAAATTACTA
ATCCAAAACAAAAAATACA
Found at i:62491168 original size:3 final size:3
Alignment explanation
Indices: 62491160--62491201 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
62491150 TTTATAAATT
*
62491160 TTC TTC TTC TTC TTC TTC TTC -TC TTC TTC TTC TTC TCC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
62491202 CCTCTTCTCC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
TTC
Found at i:62491186 original size:20 final size:20
Alignment explanation
Indices: 62491161--62491209 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
62491151 TTATAAATTT
*
62491161 TCTTCTTCTTCTTCTTCTTC
1 TCTTCTTCTTCTTCTCCTTC
62491181 TCTTCTTCTTCTTCTCCTTC
1 TCTTCTTCTTCTTCTCCTTC
*
62491201 TCCTCTTCT
1 TCTTCTTCT
62491210 CCTTTCTCTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (20 bp):
TCTTCTTCTTCTTCTCCTTC
Found at i:62493043 original size:25 final size:25
Alignment explanation
Indices: 62492990--62493045 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
62492980 CAACTTGCGT
* * *
62492990 GAGCTTCTCGTTATACAGCTCGCAT
1 GAGCTTCCCGTTATACAGCTCGAAA
* *
62493015 GAGCTTCCCGTTATTCAGCTTGAAA
1 GAGCTTCCCGTTATACAGCTCGAAA
62493040 GAGCTT
1 GAGCTT
62493046 ACTGTTTACA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.32
Consensus pattern (25 bp):
GAGCTTCCCGTTATACAGCTCGAAA
Found at i:62505471 original size:21 final size:21
Alignment explanation
Indices: 62505445--62505489 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
62505435 TAGCTAGAGA
62505445 TCATTTTGTAATTTTTCCTAT
1 TCATTTTGTAATTTTTCCTAT
62505466 TCATTTTGTAATTTTTCCTAT
1 TCATTTTGTAATTTTTCCTAT
62505487 TCA
1 TCA
62505490 GATATTCACG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.20, C:0.16, G:0.04, T:0.60
Consensus pattern (21 bp):
TCATTTTGTAATTTTTCCTAT
Found at i:62506460 original size:19 final size:19
Alignment explanation
Indices: 62506436--62506472 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
62506426 TGTAAATGAA
*
62506436 ATAAATGAAATAGAAATAG
1 ATAAATGAAATAAAAATAG
*
62506455 ATAAATGATATAAAAATA
1 ATAAATGAAATAAAAATA
62506473 ATACTAATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.11, T:0.24
Consensus pattern (19 bp):
ATAAATGAAATAAAAATAG
Found at i:62510527 original size:21 final size:21
Alignment explanation
Indices: 62510458--62510528 Score: 58
Period size: 20 Copynumber: 3.4 Consensus size: 21
62510448 TCACAGCGTG
*
62510458 ATATGTAATAAAAAATTATAAAA
1 ATATTTAAT-AAAAA-TATAAAA
* * *
62510481 A-AATCAATAAAAAT-TATTAA
1 ATATTTAATAAAAATATA-AAA
62510501 AT-TTTAATAAAAATATAAAA
1 ATATTTAATAAAAATATAAAA
62510521 ATATTTAA
1 ATATTTAA
62510529 ATTTTATTAA
Statistics
Matches: 37, Mismatches: 7, Indels: 10
0.69 0.13 0.19
Matches are distributed among these distances:
19 2 0.05
20 18 0.49
21 12 0.32
22 4 0.11
23 1 0.03
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (21 bp):
ATATTTAATAAAAATATAAAA
Found at i:62510528 original size:28 final size:29
Alignment explanation
Indices: 62510470--62510541 Score: 87
Period size: 28 Copynumber: 2.5 Consensus size: 29
62510460 ATGTAATAAA
*
62510470 AAATTATAA-AAAAATCAATAAAAATTATT
1 AAATTTTAATAAAAAT-AATAAAAATTATT
62510499 AAATTTTAATAAAAAT-ATAAAAA-TATTT
1 AAATTTTAATAAAAATAATAAAAATTA-TT
*
62510527 AAATTTTATTAAAAA
1 AAATTTTAATAAAAA
62510542 CTAGAAACTT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
27 2 0.05
28 23 0.59
29 8 0.21
30 6 0.15
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.36
Consensus pattern (29 bp):
AAATTTTAATAAAAATAATAAAAATTATT
Found at i:62510667 original size:21 final size:21
Alignment explanation
Indices: 62510619--62510683 Score: 62
Period size: 21 Copynumber: 3.0 Consensus size: 21
62510609 AATACGAATC
* *
62510619 TTTTACGAATTTTAT-ATTTT
1 TTTTACTATTTTTATAATTTT
62510639 ACTTTTAC-ATTATTTATAATTTT
1 --TTTTACTATT-TTTATAATTTT
*
62510662 TTTTACTATTTTTATGATTTT
1 TTTTACTATTTTTATAATTTT
62510683 T
1 T
62510684 ATAAAGTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
21 19 0.50
22 14 0.37
23 5 0.13
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.66
Consensus pattern (21 bp):
TTTTACTATTTTTATAATTTT
Found at i:62510736 original size:11 final size:10
Alignment explanation
Indices: 62510722--62510776 Score: 62
Period size: 11 Copynumber: 5.6 Consensus size: 10
62510712 ATTTTTCTTC
62510722 ATTTTTAATAA
1 ATTTTTAAT-A
62510733 ATTTTTAAT-
1 ATTTTTAATA
62510742 ATTTTT-AT-
1 ATTTTTAATA
62510750 ATTTTTAATA
1 ATTTTTAATA
*
62510760 ATTTTTTTATA
1 A-TTTTTAATA
62510771 ATTTTT
1 ATTTTT
62510777 TGTTAACAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
8 8 0.20
9 8 0.20
10 6 0.15
11 18 0.45
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:62510751 original size:8 final size:8
Alignment explanation
Indices: 62510661--62510756 Score: 50
Period size: 9 Copynumber: 10.8 Consensus size: 8
62510651 TTTATAATTT
62510661 TTTTTACTA
1 TTTTTA-TA
62510670 TTTTTATGA
1 TTTTTAT-A
62510679 TTTTTATAAA
1 TTTTTAT--A
*
62510689 GTTTTATA
1 TTTTTATA
*
62510697 GTTTTT-GA
1 -TTTTTATA
*
62510705 TTTTTACA
1 TTTTTATA
*
62510713 TTTTTCTTCA
1 TTTTT-AT-A
62510723 TTTTTAATAAA
1 TTTTT-AT--A
62510734 TTTTTAATA
1 TTTTT-ATA
62510743 TTTTTATA
1 TTTTTATA
62510751 TTTTTA
1 TTTTTA
62510757 ATAATTTTTT
Statistics
Matches: 70, Mismatches: 10, Indels: 15
0.74 0.11 0.16
Matches are distributed among these distances:
7 5 0.07
8 18 0.26
9 24 0.34
10 14 0.20
11 9 0.13
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.66
Consensus pattern (8 bp):
TTTTTATA
Found at i:62510754 original size:28 final size:29
Alignment explanation
Indices: 62510722--62510776 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
62510712 ATTTTTCTTC
62510722 ATTTTTAATAAATTTTTAAT-ATTTTTAT
1 ATTTTTAATAAATTTTTAATAATTTTTAT
* *
62510750 ATTTTTAATAATTTTTTTATAATTTTT
1 ATTTTTAATAAATTTTTAATAATTTTT
62510777 TGTTAACAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 18 0.75
29 6 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (29 bp):
ATTTTTAATAAATTTTTAATAATTTTTAT
Found at i:62510766 original size:20 final size:21
Alignment explanation
Indices: 62510722--62510776 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
62510712 ATTTTTCTTC
*
62510722 ATTTTTAATAAATTTT--TAAT
1 ATTTTT-ATAATTTTTAATAAT
62510742 ATTTTTAT-ATTTTTAATAAT
1 ATTTTTATAATTTTTAATAAT
*
62510762 TTTTTTATAATTTTT
1 ATTTTTATAATTTTT
62510777 TGTTAACAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 5 0.17
19 2 0.07
20 17 0.57
21 6 0.20
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
ATTTTTATAATTTTTAATAAT
Found at i:62511842 original size:22 final size:23
Alignment explanation
Indices: 62511791--62511842 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 23
62511781 AATAGAAAAG
62511791 ATAAATAATATAAAAATGATATT
1 ATAAATAATATAAAAATGATATT
* ***
62511814 A-ATATAATATCCTAAT-ATATT
1 ATAAATAATATAAAAATGATATT
62511835 ATAAATAA
1 ATAAATAA
62511843 AATATATAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
21 6 0.26
22 16 0.70
23 1 0.04
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.37
Consensus pattern (23 bp):
ATAAATAATATAAAAATGATATT
Found at i:62515370 original size:7 final size:7
Alignment explanation
Indices: 62515358--62515393 Score: 63
Period size: 7 Copynumber: 5.1 Consensus size: 7
62515348 TCCCTTCCCA
62515358 TCCCACC
1 TCCCACC
62515365 TCCCACC
1 TCCCACC
62515372 TCCCACC
1 TCCCACC
62515379 TCCCACC
1 TCCCACC
*
62515386 TCTCACC
1 TCCCACC
62515393 T
1 T
62515394 ACCCCAAACC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.14, C:0.67, G:0.00, T:0.19
Consensus pattern (7 bp):
TCCCACC
Found at i:62516998 original size:17 final size:17
Alignment explanation
Indices: 62516976--62517107 Score: 72
Period size: 18 Copynumber: 7.5 Consensus size: 17
62516966 ACATATAATA
62516976 AAAAATTATAAAAAAAT
1 AAAAATTATAAAAAAAT
**
62516993 AAAAATTATTAAATTTTAAT
1 AAAAATTA-TAAA--AAAAT
*
62517013 AAAAA-TATAAAAATATTT
1 AAAAATTATAAAAA-A-AT
** * *
62517031 AAATTTTATTAAAAACT
1 AAAAATTATAAAAAAAT
*
62517048 AGAAAATTATAAAAATAT
1 A-AAAATTATAAAAAAAT
* **
62517066 -AAACTT-TAAATTAAT
1 AAAAATTATAAAAAAAT
*
62517081 AAAAATTATAAAAATAT
1 AAAAATTATAAAAAAAT
62517098 AAAATATTAT
1 AAAA-ATTAT
62517108 TTTAAATACG
Statistics
Matches: 83, Mismatches: 22, Indels: 19
0.67 0.18 0.15
Matches are distributed among these distances:
15 6 0.07
16 10 0.12
17 21 0.25
18 29 0.35
19 9 0.11
20 8 0.10
ACGTcount: A:0.63, C:0.02, G:0.01, T:0.35
Consensus pattern (17 bp):
AAAAATTATAAAAAAAT
Found at i:62517054 original size:28 final size:28
Alignment explanation
Indices: 62516983--62517045 Score: 92
Period size: 28 Copynumber: 2.2 Consensus size: 28
62516973 ATAAAAAATT
*
62516983 ATAAAAAAATAAAAAT-TATTAAATTTTA
1 ATAAAAATATAAAAATAT-TTAAATTTTA
62517011 ATAAAAATATAAAAATATTTAAATTTTA
1 ATAAAAATATAAAAATATTTAAATTTTA
*
62517039 TTAAAAA
1 ATAAAAA
62517046 CTAGAAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 31 0.97
29 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (28 bp):
ATAAAAATATAAAAATATTTAAATTTTA
Found at i:62517060 original size:27 final size:25
Alignment explanation
Indices: 62516987--62517060 Score: 76
Period size: 28 Copynumber: 2.7 Consensus size: 25
62516977 AAAATTATAA
*
62516987 AAAAATAAAAATTATTAAATTTTAATA
1 AAAAATAAAAATTA-TAAATTTT-ATT
*
62517014 AAAATATAAAAATATTTAAATTTTATT
1 AAAA-ATAAAAAT-TATAAATTTTATT
62517041 AAAAACTAGAAAATTATAAA
1 AAAAA-TA-AAAATTATAAA
62517061 AATATAAACT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
26 1 0.03
27 17 0.43
28 21 0.52
29 1 0.03
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (25 bp):
AAAAATAAAAATTATAAATTTTATT
Found at i:62517070 original size:23 final size:24
Alignment explanation
Indices: 62517038--62517092 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 24
62517028 TTTAAATTTT
*
62517038 ATTAAAAACTAGAAAATT-ATAAAA
1 ATTATAAACT-GAAAATTAATAAAA
**
62517062 A-TATAAACTTTAAATTAATAAAA
1 ATTATAAACTGAAAATTAATAAAA
62517085 ATTATAAA
1 ATTATAAA
62517093 AATATAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 5 0.19
23 14 0.54
24 7 0.27
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.31
Consensus pattern (24 bp):
ATTATAAACTGAAAATTAATAAAA
Found at i:62517075 original size:15 final size:16
Alignment explanation
Indices: 62516972--62517102 Score: 77
Period size: 17 Copynumber: 7.6 Consensus size: 16
62516962 CGTGACATAT
*
62516972 AATAAAAAATTATAAA
1 AATATAAAATTATAAA
*
62516988 AAAATAAAAATTATTAAA
1 AATAT-AAAATTA-TAAA
** *
62517006 TTTTAATAAAAATATAAA
1 -AAT-ATAAAATTATAAA
*
62517024 AATATTTAAATTTTATTAAA
1 AATA--TAAA-ATTA-TAAA
*
62517044 AACTAGAAAATTATAAA
1 AA-TATAAAATTATAAA
*
62517061 AATATAAACTT-TAAA
1 AATATAAAATTATAAA
62517076 TTAATA-AAAATTATAAA
1 --AATATAAAATTATAAA
62517093 AATATAAAAT
1 AATATAAAAT
62517103 ATTATTTTAA
Statistics
Matches: 87, Mismatches: 15, Indels: 26
0.68 0.12 0.20
Matches are distributed among these distances:
15 8 0.09
16 21 0.24
17 22 0.25
18 15 0.17
19 11 0.13
20 8 0.09
21 2 0.02
ACGTcount: A:0.64, C:0.02, G:0.01, T:0.34
Consensus pattern (16 bp):
AATATAAAATTATAAA
Found at i:62517088 original size:10 final size:9
Alignment explanation
Indices: 62516976--62517107 Score: 66
Period size: 8 Copynumber: 15.0 Consensus size: 9
62516966 ACATATAATA
62516976 AAAAATTAT
1 AAAAATTAT
*
62516985 AAAAA-AAT
1 AAAAATTAT
62516993 AAAAATTATT
1 AAAAATTA-T
**
62517003 AAATTTTAAT
1 AAAAATT-AT
62517013 AAAAA-TAT
1 AAAAATTAT
*
62517021 AAAAATATTT
1 AAAAAT-TAT
**
62517031 AAATTTTATT
1 AAAAATTA-T
*
62517041 AAAAACTA-
1 AAAAATTAT
*
62517049 GAAAATTAT
1 AAAAATTAT
62517058 AAAAA-TAT
1 AAAAATTAT
*
62517066 -AAACTT-T
1 AAAAATTAT
62517073 --AAATTAAT
1 AAAAATT-AT
62517081 AAAAATTAT
1 AAAAATTAT
62517090 AAAAA-TAT
1 AAAAATTAT
62517098 AAAATATTAT
1 AAAA-ATTAT
62517108 TTTAAATACG
Statistics
Matches: 91, Mismatches: 18, Indels: 27
0.67 0.13 0.20
Matches are distributed among these distances:
6 4 0.04
7 4 0.04
8 32 0.35
9 20 0.22
10 30 0.33
11 1 0.01
ACGTcount: A:0.63, C:0.02, G:0.01, T:0.35
Consensus pattern (9 bp):
AAAAATTAT
Found at i:62517161 original size:9 final size:9
Alignment explanation
Indices: 62517149--62517200 Score: 52
Period size: 9 Copynumber: 5.6 Consensus size: 9
62517139 TATTTTAAAT
62517149 TTTTTATAA
1 TTTTTATAA
62517158 TTTTT-TACTA
1 TTTTTATA--A
*
62517168 TTTTTATGA
1 TTTTTATAA
62517177 TTTTTATAAA
1 TTTTTAT-AA
*
62517187 GTTTTATAA
1 TTTTTATAA
62517196 TTTTT
1 TTTTT
62517201 TATTAAAAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
8 2 0.06
9 19 0.54
10 13 0.37
11 1 0.03
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (9 bp):
TTTTTATAA
Found at i:62517163 original size:19 final size:19
Alignment explanation
Indices: 62517141--62517202 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
62517131 TTATATTTTA
62517141 TTTTAAATTTTTTATAATT
1 TTTTAAATTTTTTATAATT
* *
62517160 TTTT-ACTATTTTTATGATT
1 TTTTAAAT-TTTTTATAATT
*
62517179 TTTATAAA-GTTTTATAATT
1 TTT-TAAATTTTTTATAATT
62517198 TTTTA
1 TTTTA
62517203 TTAAAAACAA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
18 4 0.11
19 29 0.83
20 1 0.03
21 1 0.03
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (19 bp):
TTTTAAATTTTTTATAATT
Found at i:62517172 original size:11 final size:10
Alignment explanation
Indices: 62517141--62517203 Score: 62
Period size: 10 Copynumber: 6.6 Consensus size: 10
62517131 TTATATTTTA
62517141 TTTTA-AATT
1 TTTTATAATT
62517150 TTTTATAATT
1 TTTTATAATT
62517160 TTTTACT-A-T
1 TTTTA-TAATT
*
62517169 TTTTATGA-T
1 TTTTATAATT
**
62517178 TTTTATAAAG
1 TTTTATAATT
62517188 TTTTATAATT
1 TTTTATAATT
62517198 TTTTAT
1 TTTTAT
62517204 TAAAAACAAG
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
8 1 0.02
9 20 0.43
10 24 0.52
11 1 0.02
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.67
Consensus pattern (10 bp):
TTTTATAATT
Found at i:62523094 original size:55 final size:55
Alignment explanation
Indices: 62523028--62523138 Score: 213
Period size: 55 Copynumber: 2.0 Consensus size: 55
62523018 GGTATCAGTT
62523028 TGCTACAGAGAATCATAATAATAAAGCACATAAATAATACAGTTTCTTATCGTAA
1 TGCTACAGAGAATCATAATAATAAAGCACATAAATAATACAGTTTCTTATCGTAA
*
62523083 TGCTACAGAGAATCATAATAATAAAGCACGTAAATAATACAGTTTCTTATCGTAA
1 TGCTACAGAGAATCATAATAATAAAGCACATAAATAATACAGTTTCTTATCGTAA
62523138 T
1 T
62523139 AACCGTGATA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (55 bp):
TGCTACAGAGAATCATAATAATAAAGCACATAAATAATACAGTTTCTTATCGTAA
Found at i:62533922 original size:23 final size:24
Alignment explanation
Indices: 62533882--62533929 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 24
62533872 CTTCATCATG
62533882 AGTGAAATCAAAAACCCCATAAAA
1 AGTGAAATCAAAAACCCCATAAAA
*
62533906 AGTGAAAT-TAAAACCCCATAAAA
1 AGTGAAATCAAAAACCCCATAAAA
62533929 A
1 A
62533930 CTTGTCATAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.58, C:0.19, G:0.08, T:0.15
Consensus pattern (24 bp):
AGTGAAATCAAAAACCCCATAAAA
Found at i:62548036 original size:787 final size:778
Alignment explanation
Indices: 62546474--62548041 Score: 3046
Period size: 787 Copynumber: 2.0 Consensus size: 778
62546464 TATGTCCTTA
62546474 TCACACGGAAAGGTTGCGTCGTAAGAGAGGGGGTGGCCGGGGGGGGGGGTTTGGCTCTCCAAAAA
1 TCACACGGAAAGGTTGCGTCGTAAGAGAGGGGGTGGCCGGGGGGGGGGGTTTGGCTCTCCAAAAA
*
62546539 TGATGAACTTATAGTTTGGTCAATCTAGAAATTATAAAATTTTAAGTTAATATAATGGTAAAGTT
66 TGATGAACTTATAGTTTGGGCAATCTAGAAATTATAAAATTTTAAGTTAATATAATGGTAAAGTT
62546604 GTAATTTGCAAGAAAAGTTTTTGGTTTCACCCTTAACCGCACGGACAACTTGGATATAATGAGTC
131 GTAATTTGCAAGAAAAGTTTTTGGTTTCACCCTTAACCGCACGGACAACTTGGATATAATGAGTC
62546669 AAAAAAAAATGTCAATAAAATTTAGGAGGACTATAGGGGTGAGTGTTCAATCGAATCGAGTGAAA
196 AAAAAAAAATGTCAATAAAATTTAGGAGGACTATAGGGGTGAGTGTTCAATCGAATCGAGTGAAA
62546734 AAATTTCGAGTTAATCGAATTCACGAGTCCTATTTTATAATCCTAACTCAATTTGAATTTTTTTT
261 AAATTTCGAGTTAATCGAATTCACGAGTCCTATTTTATAATCCTAACTCAATTTGAATTTTTTTT
62546799 TAATTGAGTAGAGTGAAATGAAATTTGAGTCGAATCAAGTAAAATTATTCGAGTTTAATTAAAAA
326 TAATTGAGTAGAGTGAAATGAAATTTGAGTCGAATCAAGTAAAATTATTCGAGTTTAATTAAAAA
62546864 ATTAAAAATGTGAAATAAAAATATTGTTACAGTATGACTATTTTTATGTTAGAGCACATAAATTT
391 ATTAAAAATGTGAAATAAAAATATTGTTACAGTATGACTATTTTTATGTTAGAGCACATAAATTT
62546929 GAAGCCATATATATTTGAAATTTTTTTAAAGCAAAATAATAAAAAAATAAGATACTTGAGTATGA
456 GAAGCCATATATATTTGAAATTTTTTTAAAGCAAAATAATAAAAAAATAAGATACTTGAGTATGA
62546994 TAAATTTGAATCATTAATTAGGTCCCAAAATTATTATTTAAAATTTTTTTGGAGGAATTTTTTTA
521 TAAATTTGAATCATTAATTAGGTCCCAAAATTATTATTTAAAATTTTTTTGGAGGAATTTTTTTA
62547059 AAATATTATTTTTTATATATTTTTTAGAATTTTTTAAAAATATAAATTTTGAAATTTTTATAAAT
586 AAATATTATTTTTTATATATTTTTTAGAATTTTTTAAAAATATAAATTTTGAAATTTTTATAAAT
62547124 ATTTTGAATTTTTTTTGTAATTTTTTTTGAGAGAGACCAATTTACTTATTTTCAAAATTGATAGT
651 ATTTTGAATTTTTTTTGTAATTTTTTTTGAGAGAGACCAATTTACTTATTTTCAAAATTGATAGT
62547189 GACCAAAAGGGTATTTACACCAATATGTTATTCAAATTATTCGAGTTATTCAAATTGTGAAAT
716 GACCAAAAGGGTATTTACACCAATATGTTATTCAAATTATTCGAGTTATTCAAATTGTGAAAT
62547252 TCACACGGAAAGGTTGCGTCGTAAGAGAGGGGGTGGCCGGGGGGGGGGAAGTAAGGGTTTTGGCT
1 TCACACGGAAAGGTTGCGTCGTAAGAGAGGGGGTGGCC---GGGGGGG--G---GGG-TTTGGCT
62547317 CTCCAAAAATGATGAACTTATAGTTTGGGCAATCTAGAAATTATAAAATTTTAAGTTAATATAAT
57 CTCCAAAAATGATGAACTTATAGTTTGGGCAATCTAGAAATTATAAAATTTTAAGTTAATATAAT
62547382 GGTAAAGTTGTAATTTGCAAGAAAAGTTTTTGGTTTCACCCTTAACCGCACGGACAACTTGGATA
122 GGTAAAGTTGTAATTTGCAAGAAAAGTTTTTGGTTTCACCCTTAACCGCACGGACAACTTGGATA
62547447 TAATGAGTCAAAAAAAAATGTCAATAAAATTTAGGAGGACTATAGGGGTGAGTGTTCAATCGAAT
187 TAATGAGTCAAAAAAAAATGTCAATAAAATTTAGGAGGACTATAGGGGTGAGTGTTCAATCGAAT
62547512 CGAGTGAAAAAATTTCGAGTTAATCGAATTCACGAGTCCTATTTTATAATCCTAACTCAATTTGA
252 CGAGTGAAAAAATTTCGAGTTAATCGAATTCACGAGTCCTATTTTATAATCCTAACTCAATTTGA
62547577 ATTTTTTTTTAATTGAGTAGAGTGAAATGAAATTTGAGTCGAATCAAGTAAAATTATTCGAGTTT
317 ATTTTTTTTTAATTGAGTAGAGTGAAATGAAATTTGAGTCGAATCAAGTAAAATTATTCGAGTTT
62547642 AATTAAAAAATTAAAAATGTGAAATAAAAATATTGTTACAGTATGACTATTTTTATGTTAGAGCA
382 AATTAAAAAATTAAAAATGTGAAATAAAAATATTGTTACAGTATGACTATTTTTATGTTAGAGCA
62547707 CATAAATTTGAAGCCATATATATTTGAAATTTTTTTAAAGCAAAATAATAAAAAAATAAGATACT
447 CATAAATTTGAAGCCATATATATTTGAAATTTTTTTAAAGCAAAATAATAAAAAAATAAGATACT
62547772 TGAGTATGATAAATTTGAATCATTAATTAGGTCCCAAAATTATTATTTAAAATTTTTTTGGAGGA
512 TGAGTATGATAAATTTGAATCATTAATTAGGTCCCAAAATTATTATTTAAAATTTTTTTGGAGGA
62547837 ATTTTTTTAAAATATTATTTTTTATATATTTTTTAGAATTTTTTAAAAATATAAATTTTGAAATT
577 ATTTTTTTAAAATATTATTTTTTATATATTTTTTAGAATTTTTTAAAAATATAAATTTTGAAATT
62547902 TTTATAAATATTTTGAATTTTTTTTGTAATTTTTTTTGAGAGAGACCAATTTACTTATTTTCAAA
642 TTTATAAATATTTTGAATTTTTTTTGTAATTTTTTTTGAGAGAGACCAATTTACTTATTTTCAAA
62547967 ATTGATAGTGACCAAAAGGGTATTTACACCAATATGTTATTCAAATTATTCGAGTTATTCAAATT
707 ATTGATAGTGACCAAAAGGGTATTTACACCAATATGTTATTCAAATTATTCGAGTTATTCAAATT
62548032 GTGAAAT
772 GTGAAAT
62548039 TCA
1 TCA
62548042 ACTCGACTCG
Statistics
Matches: 780, Mismatches: 1, Indels: 9
0.99 0.00 0.01
Matches are distributed among these distances:
778 38 0.05
781 7 0.01
783 1 0.00
786 3 0.00
787 731 0.94
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (778 bp):
TCACACGGAAAGGTTGCGTCGTAAGAGAGGGGGTGGCCGGGGGGGGGGGTTTGGCTCTCCAAAAA
TGATGAACTTATAGTTTGGGCAATCTAGAAATTATAAAATTTTAAGTTAATATAATGGTAAAGTT
GTAATTTGCAAGAAAAGTTTTTGGTTTCACCCTTAACCGCACGGACAACTTGGATATAATGAGTC
AAAAAAAAATGTCAATAAAATTTAGGAGGACTATAGGGGTGAGTGTTCAATCGAATCGAGTGAAA
AAATTTCGAGTTAATCGAATTCACGAGTCCTATTTTATAATCCTAACTCAATTTGAATTTTTTTT
TAATTGAGTAGAGTGAAATGAAATTTGAGTCGAATCAAGTAAAATTATTCGAGTTTAATTAAAAA
ATTAAAAATGTGAAATAAAAATATTGTTACAGTATGACTATTTTTATGTTAGAGCACATAAATTT
GAAGCCATATATATTTGAAATTTTTTTAAAGCAAAATAATAAAAAAATAAGATACTTGAGTATGA
TAAATTTGAATCATTAATTAGGTCCCAAAATTATTATTTAAAATTTTTTTGGAGGAATTTTTTTA
AAATATTATTTTTTATATATTTTTTAGAATTTTTTAAAAATATAAATTTTGAAATTTTTATAAAT
ATTTTGAATTTTTTTTGTAATTTTTTTTGAGAGAGACCAATTTACTTATTTTCAAAATTGATAGT
GACCAAAAGGGTATTTACACCAATATGTTATTCAAATTATTCGAGTTATTCAAATTGTGAAAT
Found at i:62549796 original size:22 final size:20
Alignment explanation
Indices: 62549752--62549798 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 20
62549742 AGAAGCGAAT
62549752 GGAAAGTAAAAAAAAAAAAA
1 GGAAAGTAAAAAAAAAAAAA
* *
62549772 GGAAAGTTAAAAGAATATAAAA
1 GGAAAG-TAAAA-AAAAAAAAA
62549794 GGAAA
1 GGAAA
62549799 AAAAATAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 6 0.26
21 5 0.22
22 12 0.52
ACGTcount: A:0.70, C:0.00, G:0.19, T:0.11
Consensus pattern (20 bp):
GGAAAGTAAAAAAAAAAAAA
Found at i:62558676 original size:4 final size:4
Alignment explanation
Indices: 62558669--62558706 Score: 62
Period size: 4 Copynumber: 10.0 Consensus size: 4
62558659 CCAAGGTAGG
62558669 TACA TACA TACA TACA TACA T--A TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
62558707 CTCTTTCATG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
4 30 0.94
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
TACA
Found at i:62558695 original size:14 final size:14
Alignment explanation
Indices: 62558676--62558704 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
62558666 AGGTACATAC
62558676 ATACATACATACAT
1 ATACATACATACAT
62558690 ATACATACATACAT
1 ATACATACATACAT
62558704 A
1 A
62558705 CACTCTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (14 bp):
ATACATACATACAT
Found at i:62558695 original size:18 final size:18
Alignment explanation
Indices: 62558672--62558706 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
62558662 AGGTAGGTAC
62558672 ATACATACATACATACAT
1 ATACATACATACATACAT
62558690 ATACATACATACATACA
1 ATACATACATACATACA
62558707 CTCTTTCATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (18 bp):
ATACATACATACATACAT
Found at i:62570154 original size:14 final size:14
Alignment explanation
Indices: 62570135--62570164 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
62570125 TTTTTTCTTA
62570135 AATTGCATTAGAAG
1 AATTGCATTAGAAG
62570149 AATTGCATTAGAAG
1 AATTGCATTAGAAG
62570163 AA
1 AA
62570165 ATTATGTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.47, C:0.07, G:0.20, T:0.27
Consensus pattern (14 bp):
AATTGCATTAGAAG
Found at i:62571883 original size:2 final size:2
Alignment explanation
Indices: 62571876--62571917 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
62571866 TATTGAGAAA
62571876 AT AT AT AT AT 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 AT AT AT AT AT
62571918 TTAAAATGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:62573849 original size:22 final size:22
Alignment explanation
Indices: 62573818--62573864 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
62573808 CATAACTCAA
*
62573818 TATCACATTCACTTCAATTCTC
1 TATCACATTCACTTCAATTATC
*
62573840 TATCATATTCACTTCAATTATC
1 TATCACATTCACTTCAATTATC
62573862 TAT
1 TAT
62573865 TAATCATTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.30, C:0.26, G:0.00, T:0.45
Consensus pattern (22 bp):
TATCACATTCACTTCAATTATC
Found at i:62575832 original size:102 final size:102
Alignment explanation
Indices: 62575642--62575834 Score: 278
Period size: 102 Copynumber: 1.9 Consensus size: 102
62575632 TGGTTTTTCA
* *
62575642 ATTTTCAATATTTATGCACCTTTAAAAATAATATAATAAACCCAAAATAATATTATTAAATATGG
1 ATTTTCAATATTTATGCACCTATAAAAATAATATAATAAACCCAAAATAACATTATTAAATATGG
*
62575707 TTAGATATAATATATTTATTATATACATGTAAACACT
66 TTAGATATAATATATATATTATATACATGTAAACACT
* * * * * * *
62575744 ATTTTCAATATTTATTCAGCTATAAAAATGATATAATAAATCCACAATGACATTATTAAATATTG
1 ATTTTCAATATTTATGCACCTATAAAAATAATATAATAAACCCAAAATAACATTATTAAATATGG
62575809 TTAGATATATATATATATATATATAT
66 TTAGATATA-ATATATATAT-TATAT
62575835 GAAAAAAAAT
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
102 65 0.82
103 9 0.11
104 5 0.06
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.40
Consensus pattern (102 bp):
ATTTTCAATATTTATGCACCTATAAAAATAATATAATAAACCCAAAATAACATTATTAAATATGG
TTAGATATAATATATATATTATATACATGTAAACACT
Found at i:62576996 original size:86 final size:83
Alignment explanation
Indices: 62576764--62577060 Score: 334
Period size: 86 Copynumber: 3.5 Consensus size: 83
62576754 TGTATGAAAG
* * * *
62576764 CATTGGTTTATGGTTGAAATAGGAGAAAAGGGTTGTTGGAAATGTTGATATTCGAATCTTAGACT
1 CATTGG-TTATGGTTGAAATAGGAG-AAAGGGTTGTTGTAAATGTTGAGATTCGAATATTGGACT
* *
62576829 TACGAAAGT-TGTGTATCAAA
64 TACGAAAATATG-ATATCAAA
* * * *
62576849 CATTGGTTTTGGTTGAAATAAGAGAAAGGGGTTCTTGTAAATGTTGAGATTCGAATGTTGGACTT
1 CATTGGTTATGGTTGAAATAGGAGAAA-GGGTTGTTGTAAATGTTGAGATTCGAATATTGGACTT
**
62576914 ATTAAAATATGAATAT-AACA
65 ACGAAAATATG-ATATCAA-A
* *
62576934 CATTAGTTATGGTTGAAATAGGAGAAAGGGTTGGGTTGTAAATGTTGAGATTCGAATATTGGATT
1 CATTGGTTATGGTTGAAATAGGAGAAAGGGTT--GTTGTAAATGTTGAGATTCGAATATTGGACT
*
62576999 TACGAAAAGCTAT-ATATGAAA
64 TACGAAAA--TATGATATCAAA
62577020 CATTGGTTATGGTTGAAATAGGAGAAAGGG--GTTGTAAATGT
1 CATTGGTTATGGTTGAAATAGGAGAAAGGGTTGTTGTAAATGT
62577061 CAAAATTCTA
Statistics
Matches: 183, Mismatches: 21, Indels: 19
0.82 0.09 0.09
Matches are distributed among these distances:
82 11 0.06
83 3 0.02
84 60 0.33
85 36 0.20
86 68 0.37
87 2 0.01
88 3 0.02
ACGTcount: A:0.34, C:0.05, G:0.27, T:0.34
Consensus pattern (83 bp):
CATTGGTTATGGTTGAAATAGGAGAAAGGGTTGTTGTAAATGTTGAGATTCGAATATTGGACTTA
CGAAAATATGATATCAAA
Found at i:62579571 original size:4 final size:4
Alignment explanation
Indices: 62579562--62579668 Score: 187
Period size: 4 Copynumber: 26.8 Consensus size: 4
62579552 GCTAAGAAGG
62579562 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* *
62579610 TACA TACA TACA TACA TACA TACA TACA TACA TGCA TACA TACA TACG
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
62579658 CACA TACA TAC
1 TACA TACA TAC
62579669 GAATCCGAAA
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 97 1.00
ACGTcount: A:0.48, C:0.26, G:0.02, T:0.24
Consensus pattern (4 bp):
TACA
Found at i:62580170 original size:20 final size:20
Alignment explanation
Indices: 62580141--62580179 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
62580131 GCAAAAGTTT
62580141 TATATACATATATGCATATG
1 TATATACATATATGCATATG
*
62580161 TATATGCATATATGCATAT
1 TATATACATATATGCATAT
62580180 TCTATATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.41
Consensus pattern (20 bp):
TATATACATATATGCATATG
Found at i:62587123 original size:23 final size:25
Alignment explanation
Indices: 62587064--62587126 Score: 71
Period size: 23 Copynumber: 2.7 Consensus size: 25
62587054 AAATACTATC
*
62587064 AAAATCAATCCATTAATCTATATAA
1 AAAATCAATCAATTAATCTATATAA
*
62587089 AAAA--AATGAATTAAT-TAT-TAA
1 AAAATCAATCAATTAATCTATATAA
*
62587110 AAAATCAATTAATTAAT
1 AAAATCAATCAATTAAT
62587127 ATTTCATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
21 7 0.21
22 3 0.09
23 19 0.58
25 4 0.12
ACGTcount: A:0.57, C:0.08, G:0.02, T:0.33
Consensus pattern (25 bp):
AAAATCAATCAATTAATCTATATAA
Found at i:62606543 original size:22 final size:21
Alignment explanation
Indices: 62606512--62606561 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 21
62606502 CCAATTATGG
*
62606512 AATAAATTTATTGCTTTGTAA
1 AATAAATTTATTGCTTTATAA
*
62606533 AATAATATTTATTTCTTTATAA
1 AATAA-ATTTATTGCTTTATAA
62606555 AATAAAT
1 AATAAAT
62606562 GAGTTTTTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 7 0.27
22 19 0.73
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (21 bp):
AATAAATTTATTGCTTTATAA
Found at i:62606733 original size:20 final size:18
Alignment explanation
Indices: 62606707--62606755 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 18
62606697 CATAACGTAA
62606707 TAAATAAATTTAAAATAGT
1 TAAATAAATTTAAAATA-T
* *
62606726 TAAAATAACTTGAAAATAT
1 T-AAATAAATTTAAAATAT
*
62606745 TATATAAATTT
1 TAAATAAATTT
62606756 TTTAAAAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
18 7 0.29
19 3 0.12
20 14 0.58
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.39
Consensus pattern (18 bp):
TAAATAAATTTAAAATAT
Found at i:62607498 original size:4 final size:4
Alignment explanation
Indices: 62607489--62607518 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
62607479 ATTAAACAAT
62607489 ATTA ATTA ATTA ATTA ATTA ATTA ATTA AT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA AT
62607519 GTGGGTGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:62613265 original size:6 final size:6
Alignment explanation
Indices: 62613256--62613290 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
62613246 TTAAGGTTTT
* *
62613256 GTATAC GTATAC GTATAC GTATAT GTATAT GTATA
1 GTATAC GTATAC GTATAC GTATAC GTATAC GTATA
62613291 TCTTTGATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (6 bp):
GTATAC
Found at i:62614869 original size:21 final size:20
Alignment explanation
Indices: 62614842--62614895 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
62614832 ACAACAGTGA
*
62614842 CGGTGAGATTAATTATTGTAG
1 CGGTGAGATTAA-TACTGTAG
*
62614863 TGGTGAGATTCAATACTGTAG
1 CGGTGAGATT-AATACTGTAG
62614884 CGGTGAGATTAA
1 CGGTGAGATTAA
62614896 AAACAACGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.07
21 25 0.86
22 2 0.07
ACGTcount: A:0.30, C:0.07, G:0.30, T:0.33
Consensus pattern (20 bp):
CGGTGAGATTAATACTGTAG
Found at i:62618570 original size:24 final size:24
Alignment explanation
Indices: 62618542--62618590 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
62618532 AATGATGTGC
*
62618542 TTAATTATTCTTAATTTTTCACTT
1 TTAATTATTCTTAATTGTTCACTT
62618566 TTAATTATTCTTAATTGTTCACTT
1 TTAATTATTCTTAATTGTTCACTT
62618590 T
1 T
62618591 AAAAATTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.24, C:0.12, G:0.02, T:0.61
Consensus pattern (24 bp):
TTAATTATTCTTAATTGTTCACTT
Found at i:62627355 original size:4 final size:4
Alignment explanation
Indices: 62627346--62627376 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
62627336 CATAGTCAAA
*
62627346 ACAT ACAT ACAT ACAT ACAT ACAT ATAT ACA
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA
62627377 CCAAAAGGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ACAT
Found at i:62636094 original size:2 final size:2
Alignment explanation
Indices: 62636087--62636124 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
62636077 CCATAGTATG
*
62636087 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA TA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
62636125 TACATACATA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.47, G:0.00, T:0.03
Consensus pattern (2 bp):
CA
Found at i:62636129 original size:4 final size:4
Alignment explanation
Indices: 62636122--62636212 Score: 164
Period size: 4 Copynumber: 22.8 Consensus size: 4
62636112 ACACACATAC
* *
62636122 ACAT ACAT ACAT ACAT GCAT GCAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
62636170 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA
62636213 GTCTATGTTG
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
4 85 1.00
ACGTcount: A:0.48, C:0.25, G:0.02, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:62639392 original size:3 final size:3
Alignment explanation
Indices: 62639379--62639439 Score: 113
Period size: 3 Copynumber: 20.3 Consensus size: 3
62639369 AAATAAAATG
*
62639379 TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
62639427 TAA TAA TAA TAA T
1 TAA TAA TAA TAA T
62639440 TCAAGCTCAA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:62641252 original size:2 final size:2
Alignment explanation
Indices: 62641247--62641273 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
62641237 TAACCCTTAA
62641247 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
62641274 ACAAATGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:62646754 original size:14 final size:15
Alignment explanation
Indices: 62646726--62646754 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
62646716 TCAATGATTT
62646726 TGCCTAGGCTTGACA
1 TGCCTAGGCTTGACA
62646741 TGCCTAGG-TTGACA
1 TGCCTAGGCTTGACA
62646755 AATGACCGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.28
Consensus pattern (15 bp):
TGCCTAGGCTTGACA
Found at i:62648173 original size:16 final size:18
Alignment explanation
Indices: 62648147--62648180 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
62648137 TTCTTTTTTC
62648147 TTTTATTTATT-TGTGAA
1 TTTTATTTATTGTGTGAA
62648164 TTTT-TTTATTGTGTGAA
1 TTTTATTTATTGTGTGAA
62648181 AGTTATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.21, C:0.00, G:0.15, T:0.65
Consensus pattern (18 bp):
TTTTATTTATTGTGTGAA
Found at i:62649354 original size:16 final size:16
Alignment explanation
Indices: 62649333--62649377 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
62649323 CTAATAAACA
*
62649333 AAAATATCTCAAACTT
1 AAAATAACTCAAACTT
* *
62649349 AAAATAACTCGAATTT
1 AAAATAACTCAAACTT
62649365 AAAATAA-TCAAAC
1 AAAATAACTCAAAC
62649378 AAGAAATTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
15 4 0.17
16 20 0.83
ACGTcount: A:0.56, C:0.16, G:0.02, T:0.27
Consensus pattern (16 bp):
AAAATAACTCAAACTT
Found at i:62650308 original size:20 final size:19
Alignment explanation
Indices: 62650281--62650333 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 19
62650271 TACAAAATAA
62650281 TCAAAATAATTTTCATAAAT
1 TCAAAATAATTTTCA-AAAT
* *
62650301 TTAAAATAATTTTTAAAAT
1 TCAAAATAATTTTCAAAAT
62650320 TCAAAATAAATTTT
1 TCAAAAT-AATTTT
62650334 AAATTTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 10 0.34
20 19 0.66
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (19 bp):
TCAAAATAATTTTCAAAAT
Found at i:62650325 original size:19 final size:19
Alignment explanation
Indices: 62650281--62650336 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
62650271 TACAAAATAA
*
62650281 TCAAAATAATTTTCATAAAT
1 TCAAAATAATTTTTA-AAAT
*
62650301 TTAAAATAATTTTTAAAAT
1 TCAAAATAATTTTTAAAAT
*
62650320 TCAAAATAAATTTTAAA
1 TCAAAATAATTTTTAAA
62650337 TTTTTTTCTA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 19 0.59
20 13 0.41
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (19 bp):
TCAAAATAATTTTTAAAAT
Found at i:62663447 original size:4 final size:4
Alignment explanation
Indices: 62663438--62663497 Score: 120
Period size: 4 Copynumber: 15.0 Consensus size: 4
62663428 AAAAGGCTAA
62663438 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
62663486 TATG TATG TATG
1 TATG TATG TATG
62663498 AAACAATGCA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 56 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:62663646 original size:4 final size:4
Alignment explanation
Indices: 62663637--62663777 Score: 102
Period size: 4 Copynumber: 34.2 Consensus size: 4
62663627 CCTCTCTCAG
* * * * *
62663637 GTAT GTAT GTAT GTAT GTAT ATAT GTAT GTAT GCGTGT GTGT GTGT GTGT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT --GTAT GTAT GTAT GTAT
* * * * * * * * * *
62663687 GTGT GTGT GTGT GTGT GTCAGT GTAT ATCT GTCT GTGT GTAT GTGT GCAT
1 GTAT GTAT GTAT GTAT GT-A-T GTAT GTAT GTAT GTAT GTAT GTAT GTAT
*
62663737 GTAT GTAT GTAT GTAT GTAT GTAT GTAC GTAT GTAT GTAT G
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT G
62663778 AATGAATGAT
Statistics
Matches: 118, Mismatches: 15, Indels: 8
0.84 0.11 0.06
Matches are distributed among these distances:
4 111 0.94
5 1 0.01
6 6 0.05
ACGTcount: A:0.17, C:0.04, G:0.32, T:0.47
Consensus pattern (4 bp):
GTAT
Found at i:62663676 original size:2 final size:2
Alignment explanation
Indices: 62663671--62663704 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
62663661 GTATGTATGC
62663671 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
62663705 CAGTGTATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:62664163 original size:4 final size:4
Alignment explanation
Indices: 62664156--62664186 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
62664146 TATTTCACAC
62664156 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA
62664187 CTTACAAGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.23
Consensus pattern (4 bp):
ACAT
Found at i:62674929 original size:10 final size:9
Alignment explanation
Indices: 62674913--62674938 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
62674903 TCGACTTTAG
62674913 CTTTTTTTT
1 CTTTTTTTT
62674922 CTTTTTTTT
1 CTTTTTTTT
62674931 CTTTTTTT
1 CTTTTTTT
62674939 GAATGAGTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (9 bp):
CTTTTTTTT
Found at i:62690401 original size:26 final size:26
Alignment explanation
Indices: 62690372--62690424 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
62690362 GATTGCAATG
* * * *
62690372 ACTGGTTTGATCAATTGATTCTGTTA
1 ACTGATTTGACCAACTGATTCTATTA
62690398 ACTGATTTGACCAACTGATTCTATTA
1 ACTGATTTGACCAACTGATTCTATTA
62690424 A
1 A
62690425 TTAATTATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (26 bp):
ACTGATTTGACCAACTGATTCTATTA
Found at i:62694250 original size:41 final size:41
Alignment explanation
Indices: 62694204--62694287 Score: 141
Period size: 41 Copynumber: 2.0 Consensus size: 41
62694194 TAAAAAATAT
* * *
62694204 TTATATTAAAAAACATTACCATTAATATAATAAATGTTTTA
1 TTATATTAAAAAACACTACCATAAATATAATAAATATTTTA
62694245 TTATATTAAAAAACACTACCATAAATATAATAAATATTTTA
1 TTATATTAAAAAACACTACCATAAATATAATAAATATTTTA
62694286 TT
1 TT
62694288 GTATCAAACA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.50, C:0.08, G:0.01, T:0.40
Consensus pattern (41 bp):
TTATATTAAAAAACACTACCATAAATATAATAAATATTTTA
Found at i:62698035 original size:38 final size:38
Alignment explanation
Indices: 62697992--62698069 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
62697982 TATGAGGATT
62697992 AATTTCCACATCCCTTTACAATTCGTTATGAGCAAATC
1 AATTTCCACATCCCTTTACAATTCGTTATGAGCAAATC
62698030 AATTTCCACATCCCTTTACAATTCGTTATGAGCAAATC
1 AATTTCCACATCCCTTTACAATTCGTTATGAGCAAATC
62698068 AA
1 AA
62698070 AGTTTCACAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.33, C:0.26, G:0.08, T:0.33
Consensus pattern (38 bp):
AATTTCCACATCCCTTTACAATTCGTTATGAGCAAATC
Found at i:62703651 original size:2 final size:2
Alignment explanation
Indices: 62703644--62703675 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
62703634 TGAAATTATG
62703644 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
62703676 CTTACATTAA
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:62705353 original size:18 final size:18
Alignment explanation
Indices: 62705326--62705367 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
62705316 GTTCTTTTAC
* *
62705326 ATATACATATGTCTATAT
1 ATATATATATATCTATAT
62705344 ATATATATATATCTATAT
1 ATATATATATATCTATAT
*
62705362 GTATAT
1 ATATAT
62705368 TTGTGTATGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.48
Consensus pattern (18 bp):
ATATATATATATCTATAT
Found at i:62715032 original size:21 final size:22
Alignment explanation
Indices: 62715007--62715047 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
62714997 TAAATAACAA
* *
62715007 TTAATATCTCAAATC-CATAAT
1 TTAATAACTAAAATCACATAAT
62715028 TTAATAACTAAAATCACATA
1 TTAATAACTAAAATCACATA
62715048 GATTCATCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.34
Consensus pattern (22 bp):
TTAATAACTAAAATCACATAAT
Found at i:62736558 original size:103 final size:103
Alignment explanation
Indices: 62736379--62736581 Score: 388
Period size: 103 Copynumber: 2.0 Consensus size: 103
62736369 AGTAATATGT
62736379 ACATACATATTATCAGTTGAAAACACTGACCTCTCTAGCAACGGAAGTGGCAACCATATTGGAAG
1 ACATACATATTATCAGTTGAAAACACTGACCTCTCTAGCAACGGAAGTGGCAACCATATTGGAAG
*
62736444 TAGGAACAGAAAGGAACATAAAAACATAGCTCATACAA
66 TAGCAACAGAAAGGAACATAAAAACATAGCTCATACAA
*
62736482 ACATACATATTATCAGTTGAAAACACTGACCTCTCTAGCAAGGGAAGTGGCAACCATATTGGAAG
1 ACATACATATTATCAGTTGAAAACACTGACCTCTCTAGCAACGGAAGTGGCAACCATATTGGAAG
62736547 TAGCAACAGAAAGGAACATAAAAACATAGCTCATA
66 TAGCAACAGAAAGGAACATAAAAACATAGCTCATA
62736582 TAATCACAAA
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 98 1.00
ACGTcount: A:0.43, C:0.19, G:0.18, T:0.20
Consensus pattern (103 bp):
ACATACATATTATCAGTTGAAAACACTGACCTCTCTAGCAACGGAAGTGGCAACCATATTGGAAG
TAGCAACAGAAAGGAACATAAAAACATAGCTCATACAA
Found at i:62747238 original size:15 final size:16
Alignment explanation
Indices: 62747218--62747248 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
62747208 TCTTCTCCAT
62747218 CACATG-ATAGATAAA
1 CACATGAATAGATAAA
62747233 CACATGAATAGATAAA
1 CACATGAATAGATAAA
62747249 ATCAGGTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.55, C:0.13, G:0.13, T:0.19
Consensus pattern (16 bp):
CACATGAATAGATAAA
Found at i:62751926 original size:2 final size:2
Alignment explanation
Indices: 62751919--62751948 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
62751909 AAACTAGTTC
62751919 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
62751949 TTATGATACG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:62770126 original size:2 final size:2
Alignment explanation
Indices: 62770119--62770153 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
62770109 TTGTATTTAA
62770119 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
62770154 GTTTTTTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:62770964 original size:2 final size:2
Alignment explanation
Indices: 62770957--62770981 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
62770947 AAACAGCTAT
62770957 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 T
62770982 TGTATTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:62771099 original size:16 final size:16
Alignment explanation
Indices: 62771078--62771110 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
62771068 AAATTAATTC
*
62771078 TTTTAGTTCAAACCTT
1 TTTTAGTTCAAAACTT
62771094 TTTTAGTTCAAAACTT
1 TTTTAGTTCAAAACTT
62771110 T
1 T
62771111 AAATTAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.27, C:0.15, G:0.06, T:0.52
Consensus pattern (16 bp):
TTTTAGTTCAAAACTT
Found at i:62771373 original size:14 final size:14
Alignment explanation
Indices: 62771350--62771380 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
62771340 TTAAGATTAG
62771350 TATTTATTTAAAAA
1 TATTTATTTAAAAA
*
62771364 TATTTTTTTAAAAA
1 TATTTATTTAAAAA
62771378 TAT
1 TAT
62771381 AATACACTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TATTTATTTAAAAA
Found at i:62771621 original size:19 final size:20
Alignment explanation
Indices: 62771597--62771643 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
62771587 AAATACAAAT
62771597 ATATATAAAATTATT-TAAC
1 ATATATAAAATTATTATAAC
* *
62771616 ATATATAATATTTTTATAAC
1 ATATATAAAATTATTATAAC
62771636 ATAATATA
1 AT-ATATA
62771644 GGTAAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 13 0.54
20 6 0.25
21 5 0.21
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (20 bp):
ATATATAAAATTATTATAAC
Found at i:62772506 original size:31 final size:32
Alignment explanation
Indices: 62772455--62772517 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
62772445 AATTTACAAA
* *
62772455 AAAAAAATTTAAAGAGTTTAACTAAAACTTTT
1 AAAAAAATTGAAAGAGTTTAACTAAAAATTTT
* *
62772487 AAAAAAATTGAATGA-TTTAATTAAAAATTTT
1 AAAAAAATTGAAAGAGTTTAACTAAAAATTTT
62772518 GATTGCTCGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
31 14 0.52
32 13 0.48
ACGTcount: A:0.54, C:0.03, G:0.06, T:0.37
Consensus pattern (32 bp):
AAAAAAATTGAAAGAGTTTAACTAAAAATTTT
Found at i:62773152 original size:22 final size:22
Alignment explanation
Indices: 62773127--62773169 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
62773117 AAAGTGATTG
* *
62773127 TTTAAAAAAATTATAATATATA
1 TTTAAAAAAATCAAAATATATA
*
62773149 TTTAAATAAATCAAAATATAT
1 TTTAAAAAAATCAAAATATAT
62773170 TAAATAAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTAAAAAAATCAAAATATATA
Found at i:62774394 original size:17 final size:17
Alignment explanation
Indices: 62774372--62774407 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
62774362 TGGAGTTTGC
*
62774372 ATTATAGGAAGGTACCA
1 ATTATAGGAAGGGACCA
*
62774389 ATTATATGAAGGGACCA
1 ATTATAGGAAGGGACCA
62774406 AT
1 AT
62774408 CGTTATAATT
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:0.42, C:0.11, G:0.22, T:0.25
Consensus pattern (17 bp):
ATTATAGGAAGGGACCA
Found at i:62775246 original size:19 final size:20
Alignment explanation
Indices: 62775217--62775255 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
62775207 CATATTTTTT
*
62775217 TAAATAAATAATTAAGAAAA
1 TAAATAAATAATAAAGAAAA
62775237 TAAA-AAATAATAAAGAAAA
1 TAAATAAATAATAAAGAAAA
62775256 AAGTAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (20 bp):
TAAATAAATAATAAAGAAAA
Found at i:62776162 original size:21 final size:21
Alignment explanation
Indices: 62776139--62776177 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
62776129 TTTTCTTGTT
*
62776139 TTTTC-ATGCATTTTTTTGAA
1 TTTTCAATGCATTCTTTTGAA
62776159 TTTTCAATGCATTCTTTTG
1 TTTTCAATGCATTCTTTTG
62776178 CCGGCGATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.18, C:0.13, G:0.10, T:0.59
Consensus pattern (21 bp):
TTTTCAATGCATTCTTTTGAA
Found at i:62776386 original size:13 final size:13
Alignment explanation
Indices: 62776370--62776394 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
62776360 GTTTTTCTTG
62776370 GTTTTTTTTTTAT
1 GTTTTTTTTTTAT
62776383 GTTTTTTTTTTA
1 GTTTTTTTTTTA
62776395 ATTTGTTGAT
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:0.08, C:0.00, G:0.08, T:0.84
Consensus pattern (13 bp):
GTTTTTTTTTTAT
Found at i:62777341 original size:11 final size:11
Alignment explanation
Indices: 62777325--62777349 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
62777315 AATTTCTACT
62777325 TTTATTATTAA
1 TTTATTATTAA
62777336 TTTATTATTAA
1 TTTATTATTAA
62777347 TTT
1 TTT
62777350 TTAAAAATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTATTATTAA
Found at i:62787306 original size:19 final size:17
Alignment explanation
Indices: 62787275--62787321 Score: 60
Period size: 19 Copynumber: 2.7 Consensus size: 17
62787265 TCCAGAAATT
62787275 AAAAAAAGAAAAATTCAG
1 AAAAAAAGAAAAATT-AG
*
62787293 AAAAATAAGTAAAATTAG
1 AAAAA-AAGAAAAATTAG
62787311 -AAAAAAGAAAA
1 AAAAAAAGAAAA
62787322 GAAAAAAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 6 0.23
17 4 0.15
18 7 0.27
19 9 0.35
ACGTcount: A:0.74, C:0.02, G:0.11, T:0.13
Consensus pattern (17 bp):
AAAAAAAGAAAAATTAG
Found at i:62796951 original size:68 final size:69
Alignment explanation
Indices: 62796820--62796951 Score: 248
Period size: 68 Copynumber: 1.9 Consensus size: 69
62796810 TGCACTGATA
62796820 ATTTGTTTTCAAAGATGATGAAACATTTACACCCCCAGAGTTCATCAATGAAGAAACATAGACTC
1 ATTTGTTTTCAAAGATGATGAAACATTTACACCCCCAGAGTTCATCAATGAAGAAACATAGACTC
62796885 GATT
66 GATT
*
62796889 ATTTGTTTTCAAAGATGATGAAACATTTACA-TCCCAGAGTTCATCAATGAAGAAACATAGACT
1 ATTTGTTTTCAAAGATGATGAAACATTTACACCCCCAGAGTTCATCAATGAAGAAACATAGACT
62796952 AGAAACAATC
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
68 31 0.50
69 31 0.50
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (69 bp):
ATTTGTTTTCAAAGATGATGAAACATTTACACCCCCAGAGTTCATCAATGAAGAAACATAGACTC
GATT
Found at i:62799992 original size:21 final size:21
Alignment explanation
Indices: 62799968--62800012 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
62799958 CTCCTCTGTA
*
62799968 TCCTCCGTCTCCTCTGCGGCC
1 TCCTCCGTCTCCTCTGCAGCC
*
62799989 TCCTCTGTCTCCTCTGCAGCC
1 TCCTCCGTCTCCTCTGCAGCC
62800010 TCC
1 TCC
62800013 AATTCCAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.02, C:0.51, G:0.16, T:0.31
Consensus pattern (21 bp):
TCCTCCGTCTCCTCTGCAGCC
Found at i:62807210 original size:34 final size:34
Alignment explanation
Indices: 62807167--62807231 Score: 130
Period size: 34 Copynumber: 1.9 Consensus size: 34
62807157 ATTAAAACTC
62807167 ACCCGATCTTGGATCCTACGTGATGACCCGAAAT
1 ACCCGATCTTGGATCCTACGTGATGACCCGAAAT
62807201 ACCCGATCTTGGATCCTACGTGATGACCCGA
1 ACCCGATCTTGGATCCTACGTGATGACCCGA
62807232 TCTTGGATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.25, C:0.31, G:0.22, T:0.23
Consensus pattern (34 bp):
ACCCGATCTTGGATCCTACGTGATGACCCGAAAT
Found at i:62808629 original size:22 final size:22
Alignment explanation
Indices: 62808597--62808681 Score: 116
Period size: 22 Copynumber: 3.9 Consensus size: 22
62808587 GTCTAGTCGG
*
62808597 ATGTTTCACGTACTAAGCTCTC
1 ATGTTTAACGTACTAAGCTCTC
62808619 ATGTTTAACGTACTAAGCTCTC
1 ATGTTTAACGTACTAAGCTCTC
* * *
62808641 ATGTTTAACGAACTAAACCCTC
1 ATGTTTAACGTACTAAGCTCTC
**
62808663 ATGGCTAACGTACTAAGCT
1 ATGTTTAACGTACTAAGCT
62808682 TAATTTCTAT
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 54 1.00
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (22 bp):
ATGTTTAACGTACTAAGCTCTC
Found at i:62811733 original size:17 final size:17
Alignment explanation
Indices: 62811706--62811746 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
62811696 CATGGATACT
62811706 TTATA-CTTACACGTCA
1 TTATATCTTACACGTCA
62811722 TTATATCTTACACGTCA
1 TTATATCTTACACGTCA
62811739 TTATATCT
1 TTATATCT
62811747 AAATCTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.21
17 19 0.79
ACGTcount: A:0.29, C:0.22, G:0.05, T:0.44
Consensus pattern (17 bp):
TTATATCTTACACGTCA
Found at i:62812992 original size:18 final size:20
Alignment explanation
Indices: 62812954--62812991 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
62812944 TTTGTTTTAG
62812954 TTTAAATATATTATTAAAAA
1 TTTAAATATATTATTAAAAA
*
62812974 TTTAAATATCTT-TTAAAA
1 TTTAAATATATTATTAAAA
62812992 TGTTCTACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (20 bp):
TTTAAATATATTATTAAAAA
Found at i:62819086 original size:257 final size:257
Alignment explanation
Indices: 62818630--62819148 Score: 876
Period size: 257 Copynumber: 2.0 Consensus size: 257
62818620 TTGTCACTTT
62818630 TCAATTTTAAAGTGAAACAAAGACTATGGGGCATAGTTTTACGACAGTTTGCTTAATTAGATTCA
1 TCAATTTTAAAGTGAAACAAAGACTATGGGGCATAGTTTTACGACAGTTTGCTTAATTAGATTCA
* * *
62818695 GTGTTGAATTTTTCTCAATGACACTAATATGTGAATAATTATTTACTATATTCTTTAGGGATAAC
66 GTGTTGAATCTTTCTCAATGACACCAATATGTGAATAACTATTTACTATATTCTTTAGGGATAAC
* *
62818760 TATTCATATCCAGTTGGAGTTGAAGTAATCATTACCACAATAGTGTCTTCAAGTACAGGATATTG
131 TATTCATATCCAGTTGGAGTTGAAGTAATCATTACCACAATAATGTCTTCAAGTACAGAATATTG
* *
62818825 ATGATGTAGAAAAAGGCAATGTCTTGTTAAACTATTGTCACCTACTATATTTGCTCAACTCA
196 ATGATGTAGAAAAAGACAATGTCTTGTTAAACTATTGTCACCCACTATATTTGCTCAACTCA
* * *
62818887 TCAATTTTAAATTGAAACAAAGACTGTGGGGCATAGTTTTATGACAGTTTGCTTAATTAGATTCA
1 TCAATTTTAAAGTGAAACAAAGACTATGGGGCATAGTTTTACGACAGTTTGCTTAATTAGATTCA
* * *
62818952 GTGTTGAATCTTTCTCATTGACACCAATATTTGAATAACTATTTACTATATTCTTTAGGGATAAT
66 GTGTTGAATCTTTCTCAATGACACCAATATGTGAATAACTATTTACTATATTCTTTAGGGATAAC
* * * * *
62819017 TATTCATATCCGGTTGGATTTGTAGTAATCATTACTACAATAATGTGTTCAAGTACAGAATATTG
131 TATTCATATCCAGTTGGAGTTGAAGTAATCATTACCACAATAATGTCTTCAAGTACAGAATATTG
62819082 ATGATGTAGAAAAAGACAATGTCTTGTTAAACTATTGTCACCCACTATATTTGCTCAACTCA
196 ATGATGTAGAAAAAGACAATGTCTTGTTAAACTATTGTCACCCACTATATTTGCTCAACTCA
62819144 TCAAT
1 TCAAT
62819149 GTTTTGCTAT
Statistics
Matches: 244, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
257 244 1.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (257 bp):
TCAATTTTAAAGTGAAACAAAGACTATGGGGCATAGTTTTACGACAGTTTGCTTAATTAGATTCA
GTGTTGAATCTTTCTCAATGACACCAATATGTGAATAACTATTTACTATATTCTTTAGGGATAAC
TATTCATATCCAGTTGGAGTTGAAGTAATCATTACCACAATAATGTCTTCAAGTACAGAATATTG
ATGATGTAGAAAAAGACAATGTCTTGTTAAACTATTGTCACCCACTATATTTGCTCAACTCA
Found at i:62823995 original size:30 final size:31
Alignment explanation
Indices: 62823953--62824013 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 31
62823943 GGGTTGGGAG
* *
62823953 GGGAAGGGAGTAAAAGTTTTGGGGGAGAAGT
1 GGGAAGGGAGTAAAAGTTTTGAGGGAAAAGT
62823984 GGGAA-GGAGTAAAAGTTTTGAGGGAAAAGT
1 GGGAAGGGAGTAAAAGTTTTGAGGGAAAAGT
62824014 AAAAAGGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 23 0.82
31 5 0.18
ACGTcount: A:0.36, C:0.00, G:0.44, T:0.20
Consensus pattern (31 bp):
GGGAAGGGAGTAAAAGTTTTGAGGGAAAAGT
Found at i:62838272 original size:23 final size:23
Alignment explanation
Indices: 62838242--62838287 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
62838232 GAATTTAATT
62838242 TTAAAATTGTATA-AATAAATATA
1 TTAAAATT-TATACAATAAATATA
*
62838265 TTAAAATTTTTACAATAAATATA
1 TTAAAATTTATACAATAAATATA
62838288 AAAATATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 3 0.14
23 18 0.86
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (23 bp):
TTAAAATTTATACAATAAATATA
Found at i:62850869 original size:10 final size:10
Alignment explanation
Indices: 62850846--62850879 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
62850836 ACTATGGGTT
*
62850846 TAAAAATTAA
1 TAAAAATAAA
62850856 -AAAAATAAA
1 TAAAAATAAA
62850865 TAAAAATAAA
1 TAAAAATAAA
62850875 TAAAA
1 TAAAA
62850880 CATATAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (10 bp):
TAAAAATAAA
Found at i:62850870 original size:19 final size:20
Alignment explanation
Indices: 62850846--62850890 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
62850836 ACTATGGGTT
*
62850846 TAAAAATTAAA-AAAATAAA
1 TAAAAATTAAATAAAACAAA
*
62850865 TAAAAA-TAAATAAAACATA
1 TAAAAATTAAATAAAACAAA
62850884 TAAAAAT
1 TAAAAAT
62850891 CTCTTAATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (20 bp):
TAAAAATTAAATAAAACAAA
Found at i:62856489 original size:18 final size:18
Alignment explanation
Indices: 62856468--62856510 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
62856458 TAAAAATAAT
*
62856468 TTAAAATATATAAATTTA
1 TTAAAATATATAAATATA
* *
62856486 TTAATATATATCAATATA
1 TTAAAATATATAAATATA
62856504 TGTAAAA
1 T-TAAAA
62856511 ACAATTTTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (18 bp):
TTAAAATATATAAATATA
Found at i:62864697 original size:14 final size:13
Alignment explanation
Indices: 62864672--62864701 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
62864662 TTAGTTTAAG
62864672 TTTAAATTTAATT
1 TTTAAATTTAATT
62864685 TTTAAATTTTAATT
1 TTTAAA-TTTAATT
62864699 TTT
1 TTT
62864702 TAGTGATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTAAATTTAATT
Found at i:62866655 original size:22 final size:21
Alignment explanation
Indices: 62866623--62866663 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
62866613 AATTATAAAG
62866623 TTTTTAAAAATATTATTTTTTA
1 TTTTTAAAAATA-TATTTTTTA
*
62866645 TTTTTATAAATATATTTTT
1 TTTTTAAAAATATATTTTT
62866664 ATTAAACATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTTTAAAAATATATTTTTTA
Found at i:62872039 original size:69 final size:69
Alignment explanation
Indices: 62871928--62872067 Score: 280
Period size: 69 Copynumber: 2.0 Consensus size: 69
62871918 GCAGTTTCTT
62871928 TCTGTGACTGATAATCGCCCGAGTAGCCAAATGTGGCTTTCGAATATTGAAAATAGTTGGATTTG
1 TCTGTGACTGATAATCGCCCGAGTAGCCAAATGTGGCTTTCGAATATTGAAAATAGTTGGATTTG
62871993 AGAA
66 AGAA
62871997 TCTGTGACTGATAATCGCCCGAGTAGCCAAATGTGGCTTTCGAATATTGAAAATAGTTGGATTTG
1 TCTGTGACTGATAATCGCCCGAGTAGCCAAATGTGGCTTTCGAATATTGAAAATAGTTGGATTTG
62872062 AGAA
66 AGAA
62872066 TC
1 TC
62872068 CTGTAACCAT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 71 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (69 bp):
TCTGTGACTGATAATCGCCCGAGTAGCCAAATGTGGCTTTCGAATATTGAAAATAGTTGGATTTG
AGAA
Found at i:62875169 original size:31 final size:30
Alignment explanation
Indices: 62875134--62875215 Score: 83
Period size: 31 Copynumber: 2.6 Consensus size: 30
62875124 AATTAAAGGG
62875134 TTAATATATCATTTGGTACCTATATTTGGTT
1 TTAATAT-TCATTTGGTACCTATATTTGGTT
* * ** *
62875165 TTAATGTTCAAATCAGTACCTATGTTTGGTT
1 TTAATATTC-ATTTGGTACCTATATTTGGTT
*
62875196 TTAGTATTCATTTTGGTACC
1 TTAATATTCA-TTTGGTACC
62875216 CAAACTAAAC
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
30 3 0.08
31 36 0.92
ACGTcount: A:0.24, C:0.12, G:0.15, T:0.49
Consensus pattern (30 bp):
TTAATATTCATTTGGTACCTATATTTGGTT
Found at i:62876708 original size:20 final size:20
Alignment explanation
Indices: 62876675--62876713 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
62876665 TCAAAATTAA
*
62876675 TATGGAATATATTTAAAATT
1 TATGGAATAAATTTAAAATT
* *
62876695 TATGGATTAAATTTTAAAT
1 TATGGAATAAATTTAAAAT
62876714 ATATATATAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (20 bp):
TATGGAATAAATTTAAAATT
Found at i:62877117 original size:18 final size:18
Alignment explanation
Indices: 62877080--62877114 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
62877070 AGGAAACAAT
*
62877080 TAATAGTACCATTAAAAA
1 TAATAGTACAATTAAAAA
62877098 TAATAGTA-AATTAAAAA
1 TAATAGTACAATTAAAAA
62877115 ATATTATTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.29
Consensus pattern (18 bp):
TAATAGTACAATTAAAAA
Done.