Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008747.1 Hibiscus syriacus cultivar Beakdansim tig00111837_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 12616935
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 51
Found at i:2636603 original size:19 final size:20
Alignment explanation
Indices: 2636579--2636626 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
2636569 AACGATTTTC
* *
2636579 TTTTGAAAGCAAAAATG-TA
1 TTTTGAAAACAAAAATGAAA
*
2636598 TTTTGAAAACCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
2636618 TTTTGAAAA
1 TTTTGAAAA
2636627 AAAGATTTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.31
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:2637759 original size:21 final size:21
Alignment explanation
Indices: 2637733--2637772 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2637723 AAACAATTGG
*
2637733 TAACAATTGATATCATTTTGT
1 TAACAAATGATATCATTTTGT
*
2637754 TAACAAATGATATCTTTTT
1 TAACAAATGATATCATTTT
2637773 CATTAAACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.10, G:0.07, T:0.47
Consensus pattern (21 bp):
TAACAAATGATATCATTTTGT
Found at i:2638021 original size:20 final size:20
Alignment explanation
Indices: 2637996--2638073 Score: 84
Period size: 20 Copynumber: 3.8 Consensus size: 20
2637986 AGGGTGTCAA
*
2637996 AGTGCATCCATGCACCCTGC
1 AGTGCATCCATGCACCATGC
*
2638016 AGTGCATCCATGCACCTATAAC
1 AGTGCATCCATGCACC-AT-GC
** *
2638038 TAGTGCATTGATGCACCATGT
1 -AGTGCATCCATGCACCATGC
2638059 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
2638074 TCCATTTCGA
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
20 29 0.62
21 1 0.02
22 3 0.06
23 14 0.30
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (20 bp):
AGTGCATCCATGCACCATGC
Found at i:2638727 original size:21 final size:21
Alignment explanation
Indices: 2638701--2638800 Score: 123
Period size: 21 Copynumber: 4.7 Consensus size: 21
2638691 AGGGTGCCAA
2638701 AGTGCATCCATGCACCCCTAC
1 AGTGCATCCATGCACCCCTAC
2638722 AGTGCATCCATGCACCCCTAC
1 AGTGCATCCATGCACCCCTAC
2638743 AGTGCATCCATGCACCTGCC-AC
1 AGTGCATCCATGCACC--CCTAC
* * **
2638765 TAGTGCATCGATGCA-CCATGT
1 -AGTGCATCCATGCACCCCTAC
2638786 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
2638801 TCCATTTTGA
Statistics
Matches: 69, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
20 14 0.20
21 37 0.54
22 3 0.04
23 15 0.22
ACGTcount: A:0.24, C:0.37, G:0.18, T:0.21
Consensus pattern (21 bp):
AGTGCATCCATGCACCCCTAC
Found at i:2642630 original size:54 final size:54
Alignment explanation
Indices: 2642571--2642793 Score: 284
Period size: 54 Copynumber: 4.1 Consensus size: 54
2642561 AATGAACTCG
* * * * * * *
2642571 TAGTGCCCATACGGTCATTCATAAACATATTATGAATTATGTGGTTTGCACACT
1 TAGTGCCGAAACGGTTATTCATCAACATATGATGAATTTTGTGATTTGCACACT
* * * *
2642625 TAGTGCCGAAATGGTTATTCATCAACATATTATGAATTCTATGATTTGCACACT
1 TAGTGCCGAAACGGTTATTCATCAACATATGATGAATTTTGTGATTTGCACACT
* * *
2642679 TAGTGCTGAAATGGTTATTCATCAATATATGATGAATTTTGTGATTTGCACACT
1 TAGTGCCGAAACGGTTATTCATCAACATATGATGAATTTTGTGATTTGCACACT
* ** *
2642733 TAGTACCGAAACGGTTATTCATCAACATATGATGAATTTTGTGATTTTTAGACT
1 TAGTGCCGAAACGGTTATTCATCAACATATGATGAATTTTGTGATTTGCACACT
2642787 TAGTGCC
1 TAGTGCC
2642794 TATTTGGTAA
Statistics
Matches: 148, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 148 1.00
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (54 bp):
TAGTGCCGAAACGGTTATTCATCAACATATGATGAATTTTGTGATTTGCACACT
Found at i:2642865 original size:15 final size:15
Alignment explanation
Indices: 2642845--2642876 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
2642835 TGACTAGTAT
2642845 AACATATAGTTACAC
1 AACATATAGTTACAC
2642860 AACATATAGTTACAC
1 AACATATAGTTACAC
2642875 AA
1 AA
2642877 TTAAATGCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.19, G:0.06, T:0.25
Consensus pattern (15 bp):
AACATATAGTTACAC
Found at i:2647861 original size:206 final size:205
Alignment explanation
Indices: 2647509--2647910 Score: 763
Period size: 206 Copynumber: 2.0 Consensus size: 205
2647499 ATTTGCAATG
2647509 ACATATATTTAAAGGATAATTGAATGAGCAATGATGATATTTGTTTAAAATATAAATTCACTATG
1 ACATATATTTAAAGGATAATTGAATGAGCAATGATGATATTTGTTTAAAATATAAATTCACTATG
2647574 CAATTGTTGAAGACGGATTTGGTAGTTATTATGATTTGGTTATTGTTAAAAGGAGAGTAATTCTC
66 CAATTGTTGAAGACGGATTTGGTAGTTATTATGATTTGGTTATTGTTAAAAGGAGAGTAATTCTC
2647639 TATAAACTTATATATTTTCTCTAGGATTTGTTACATATTTATGTACAAG-TTTAATCTTAACTTA
131 TATAAACTTATATATTTTCTCTAGGATTTGTTACATATTTATGTACAAGTTTTAATCTTAACTTA
2647703 GGAACTCTTA
196 GGAACTCTTA
2647713 ACATATATTTAAAGGATAA-TGAATGAGCAATTGATGATATTTGTTTAAAATATAAATTCACTAT
1 ACATATATTTAAAGGATAATTGAATGAGCAA-TGATGATATTTGTTTAAAATATAAATTCACTAT
2647777 GCAATTGTTTGAAGACGGATTTTGGTAGTTATTATGATTTGGTTATTGTTAAAAGGAGAGTAATT
65 GCAATTG-TTGAAGACGGA-TTTGGTAGTTATTATGATTTGGTTATTGTTAAAAGGAGAGTAATT
2647842 CTCTATAAACTTATATATTTTCTCTAGGATTTGTTACATATTTATGTACAAGTTTTAATCTTAAC
128 CTCTATAAACTTATATATTTTCTCTAGGATTTGTTACATATTTATGTACAAGTTTTAATCTTAAC
2647907 TTAG
193 TTAG
2647911 ATATTCACAT
Statistics
Matches: 194, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
203 11 0.06
204 59 0.30
205 11 0.06
206 97 0.50
207 16 0.08
ACGTcount: A:0.35, C:0.08, G:0.16, T:0.42
Consensus pattern (205 bp):
ACATATATTTAAAGGATAATTGAATGAGCAATGATGATATTTGTTTAAAATATAAATTCACTATG
CAATTGTTGAAGACGGATTTGGTAGTTATTATGATTTGGTTATTGTTAAAAGGAGAGTAATTCTC
TATAAACTTATATATTTTCTCTAGGATTTGTTACATATTTATGTACAAGTTTTAATCTTAACTTA
GGAACTCTTA
Found at i:2652835 original size:15 final size:16
Alignment explanation
Indices: 2652815--2652845 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2652805 GTAAGAGTCA
2652815 TTTCTT-TTTCTTTTT
1 TTTCTTCTTTCTTTTT
2652830 TTTCTTCTTTCTTTTT
1 TTTCTTCTTTCTTTTT
2652846 GTTTTGTTGC
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:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTCTTCTTTCTTTTT
Found at i:2658335 original size:29 final size:29
Alignment explanation
Indices: 2658267--2658428 Score: 175
Period size: 29 Copynumber: 5.6 Consensus size: 29
2658257 TTGTATTTTA
* **
2658267 TTGTACTTTATTGTAAATTCCAAAAACAAT
1 TTGTCCTTTATTGTAAATTCCAAAAA-GTT
*
2658297 TTG-CATTTTATTGTAAATTCCAAAAAGTT
1 TTGTC-CTTTATTGTAAATTCCAAAAAGTT
* **
2658326 TTGTCCTTTATTGTAAATTACAATTAGTT
1 TTGTCCTTTATTGTAAATTCCAAAAAGTT
** *
2658355 TTGTTTTTTATTGTAAATTTCAAAAAGTT
1 TTGTCCTTTATTGTAAATTCCAAAAAGTT
*
2658384 TTGTCCTTTATTGTAAATTTCAAAAAGTT
1 TTGTCCTTTATTGTAAATTCCAAAAAGTT
*
2658413 TT-ACCTTTTATTGTAA
1 TTGTCC-TTTATTGTAA
2658429 TTTCATATTT
Statistics
Matches: 113, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
28 2 0.02
29 87 0.77
30 24 0.21
ACGTcount: A:0.32, C:0.10, G:0.09, T:0.49
Consensus pattern (29 bp):
TTGTCCTTTATTGTAAATTCCAAAAAGTT
Found at i:2658413 original size:58 final size:58
Alignment explanation
Indices: 2658267--2658433 Score: 210
Period size: 58 Copynumber: 2.9 Consensus size: 58
2658257 TTGTATTTTA
* * ** *
2658267 TTGTACTTTATTGTAAATTCCAAAAACAATTTGCATTTTATTGTAAATTCCAAAAAGTT
1 TTGTCCTTTATTGTAAATTACAAAAA-GTTTTGCATTTTATTGTAAATTTCAAAAAGTT
** **
2658326 TTGTCCTTTATTGTAAATTACAATTAGTTTTGTTTTTTATTGTAAATTTCAAAAAGTT
1 TTGTCCTTTATTGTAAATTACAAAAAGTTTTGCATTTTATTGTAAATTTCAAAAAGTT
* * *
2658384 TTGTCCTTTATTGTAAATTTCAAAAAGTTTTACCTTTTATTGT-AATTTCA
1 TTGTCCTTTATTGTAAATTACAAAAAGTTTTGCATTTTATTGTAAATTTCA
2658434 TATTTTTTAT
Statistics
Matches: 93, Mismatches: 15, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
57 7 0.08
58 64 0.69
59 22 0.24
ACGTcount: A:0.32, C:0.10, G:0.09, T:0.49
Consensus pattern (58 bp):
TTGTCCTTTATTGTAAATTACAAAAAGTTTTGCATTTTATTGTAAATTTCAAAAAGTT
Found at i:2668102 original size:23 final size:23
Alignment explanation
Indices: 2668076--2668123 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
2668066 CATTTTAATG
2668076 TTATAATAGTATATAAAT-TTATA
1 TTATAATAGTATAT-AATGTTATA
*
2668099 TTATTATAGTATATAATGTTATA
1 TTATAATAGTATATAATGTTATA
2668122 TT
1 TT
2668124 TTATTTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 3 0.13
23 20 0.87
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (23 bp):
TTATAATAGTATATAATGTTATA
Found at i:2668169 original size:17 final size:18
Alignment explanation
Indices: 2668147--2668182 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
2668137 TATATAATAA
2668147 ATTATTGA-TAATTTCAT
1 ATTATTGATTAATTTCAT
*
2668164 ATTATTTATTAATTTCAT
1 ATTATTGATTAATTTCAT
2668182 A
1 A
2668183 AAAATAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.56
Consensus pattern (18 bp):
ATTATTGATTAATTTCAT
Found at i:2668275 original size:14 final size:15
Alignment explanation
Indices: 2668258--2668286 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
2668248 AATAATTTTA
2668258 TTTTAAT-TTATAAT
1 TTTTAATGTTATAAT
2668272 TTTTAATGTTATAAT
1 TTTTAATGTTATAAT
2668287 AATATTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (15 bp):
TTTTAATGTTATAAT
Found at i:2668619 original size:13 final size:13
Alignment explanation
Indices: 2668601--2668625 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2668591 TAGTATTAAA
2668601 GGAAAGGGAAAGG
1 GGAAAGGGAAAGG
2668614 GGAAAGGGAAAG
1 GGAAAGGGAAAG
2668626 CTAAGTCATA
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:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (13 bp):
GGAAAGGGAAAGG
Found at i:2669313 original size:19 final size:19
Alignment explanation
Indices: 2669289--2669328 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
2669279 ACCTAAAATT
2669289 GGTATCGATACCGTAATGG
1 GGTATCGATACCGTAATGG
2669308 GGTATCGATACCGTAATGG
1 GGTATCGATACCGTAATGG
2669327 GG
1 GG
2669329 GATCAATATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.35, T:0.25
Consensus pattern (19 bp):
GGTATCGATACCGTAATGG
Found at i:2669720 original size:59 final size:59
Alignment explanation
Indices: 2669655--2669831 Score: 293
Period size: 59 Copynumber: 3.0 Consensus size: 59
2669645 ATTATCAAAT
*
2669655 GGCACTTCGTGTGCTAAAATGTTAAGAAATTCATAATAAGTGTATGAATTTCCGTATAG
1 GGCACTTCGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAG
*
2669714 GGCACTTCGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATGG
1 GGCACTTCGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAG
* * * *
2669773 GGCACTTTGTGTGCTAAAA-GATAAGAAACTCATACTAAGTGTATGAATTTCCATATAG
1 GGCACTTCGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAG
2669831 G
1 G
2669832 AAATATATGT
Statistics
Matches: 111, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
58 36 0.32
59 75 0.68
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (59 bp):
GGCACTTCGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAG
Found at i:2670157 original size:68 final size:68
Alignment explanation
Indices: 2670045--2670454 Score: 604
Period size: 68 Copynumber: 6.0 Consensus size: 68
2670035 AAAGATTAAT
* *
2670045 AGGCCTAACTATGCATTTGACAGAAAAGTGTCATTTATGTCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTATGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
2670110 TTG
66 TTG
* * * *
2670113 AAGCCTAACTGTGCATTTGATAGAAAGGTGTCATTTATGCCAGTTGGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTATGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
2670178 TTG
66 TTG
* * *
2670181 AGGCGTAACTTTACATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTATGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
2670246 TTG
66 TTG
* * *
2670249 AGGCCGAACTATGCATTTGACAGAAAGGTATCATTTATGCTAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTATGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
2670314 TTG
66 TTG
* ** *
2670317 AGGCCGAACTATGCATTTGACAGAAAGGAATCATTTATGCCAGTTAGATGAAAGGCTAAGTGTCT
1 AGGCCTAACTATGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
*
2670382 TTA
66 TTG
* * * * * * *
2670385 AGGCCTAACTGTACATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCG
1 AGGCCTAACTATGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
2670450 TTG
66 TTG
2670453 AG
1 AG
2670455 TAAAAGAATA
Statistics
Matches: 308, Mismatches: 34, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
68 308 1.00
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.30
Consensus pattern (68 bp):
AGGCCTAACTATGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
TTG
Found at i:2670615 original size:81 final size:81
Alignment explanation
Indices: 2670388--2670605 Score: 355
Period size: 81 Copynumber: 2.7 Consensus size: 81
2670378 GTCTTTAAGG
* *
2670388 CCTAACTGTACATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCGTTG
1 CCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCGTTG
*
2670453 AGTAAAAGAATAATGG
66 AGTAAAAGAATAATGA
* * *
2670469 CCTAGTTGTGCATTTGACAAAAAGGTGTCAATTATGCCAGTTGGATGAACGGTTAAGTACCGTTG
1 CCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCGTTG
*
2670534 ATTAAAAGAATAATGA
66 AGTAAAAGAATAATGA
* *
2670550 CCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCACTTAGATGAACAGTTAA
1 CCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAA
2670606 ACACTGTTGA
Statistics
Matches: 125, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 125 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.28
Consensus pattern (81 bp):
CCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCGTTG
AGTAAAAGAATAATGA
Found at i:2670650 original size:29 final size:29
Alignment explanation
Indices: 2670592--2670652 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
2670582 TATGCCACTT
*
2670592 AGATGAACAGTTAAACACTGTTGACCAAA
1 AGATGAACAGTTAAACACTGTTGAACAAA
*
2670621 AGATGAAC-GTTTAAACACTGTTGAATAAA
1 AGATGAACAG-TTAAACACTGTTGAACAAA
2670650 AGA
1 AGA
2670653 ATAATGAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 1 0.03
29 28 0.97
ACGTcount: A:0.46, C:0.13, G:0.18, T:0.23
Consensus pattern (29 bp):
AGATGAACAGTTAAACACTGTTGAACAAA
Found at i:2670733 original size:110 final size:110
Alignment explanation
Indices: 2670512--2670716 Score: 268
Period size: 110 Copynumber: 1.9 Consensus size: 110
2670502 ATGCCAGTTG
** * * * *
2670512 GATGAACGGTTAAGTACCGTTGATTAAAAGAATAATGACCTAGCTGTGCATTTGACAGAAAGGTG
1 GATGAACGGTTAAACACCGTTGAATAAAAGAATAATGAACTAGCTGTACATTTGACAGAAAAGTG
* * *
2670577 TCAATTATGCCACTTAGATGAACAGTTAAACACTGTTGACCAAAA
66 TCAAATATGCAACTTAGATGAACAGCTAAACACTGTTGACCAAAA
* * * *
2670622 GATGAACGTTTAAACACTGTTGAATAAAAGAATAATGAATTAGTTGTACATTTGACAGAAAAGTG
1 GATGAACGGTTAAACACCGTTGAATAAAAGAATAATGAACTAGCTGTACATTTGACAGAAAAGTG
*
2670687 TCAAATATGCAAGTTAGATGAA-AGGCTAAA
66 TCAAATATGCAACTTAGATGAACA-GCTAAA
2670717 TACCTTTGGG
Statistics
Matches: 80, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
109 1 0.01
110 79 0.99
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.27
Consensus pattern (110 bp):
GATGAACGGTTAAACACCGTTGAATAAAAGAATAATGAACTAGCTGTACATTTGACAGAAAAGTG
TCAAATATGCAACTTAGATGAACAGCTAAACACTGTTGACCAAAA
Found at i:2671887 original size:17 final size:17
Alignment explanation
Indices: 2671865--2671897 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
2671855 TACATAATTG
2671865 CAATCT-TAGATTATATA
1 CAATCTATA-ATTATATA
2671882 CAATCTATAATTATAT
1 CAATCTATAATTATAT
2671898 TTGATATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.42, C:0.12, G:0.03, T:0.42
Consensus pattern (17 bp):
CAATCTATAATTATATA
Found at i:2675607 original size:22 final size:20
Alignment explanation
Indices: 2675582--2675641 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 20
2675572 TTCTTCACAT
2675582 TTTTCTTTTTTTATTCGAACTA
1 TTTTCTTTTTTT-TTCGAAC-A
* *
2675604 TTTTCTTCTTTTTTTAGCACA
1 TTTTCTT-TTTTTTTCGAACA
2675625 TTTTCCTTTTTTTTTCG
1 TTTT-CTTTTTTTTTCG
2675642 TGTAACTTGT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
21 13 0.39
22 15 0.45
23 5 0.15
ACGTcount: A:0.12, C:0.17, G:0.05, T:0.67
Consensus pattern (20 bp):
TTTTCTTTTTTTTTCGAACA
Found at i:2677535 original size:20 final size:20
Alignment explanation
Indices: 2677510--2677582 Score: 112
Period size: 20 Copynumber: 3.6 Consensus size: 20
2677500 AATGCAATTA
2677510 GTGCATCGATGCATCCTACT
1 GTGCATCGATGCATCCTACT
2677530 GTGCATCGATGCATCCTGA-T
1 GTGCATCGATGCATCCT-ACT
*
2677550 GTGCATCGATGCATCCTGCT
1 GTGCATCGATGCATCCTACT
*
2677570 GTGCATCCATGCA
1 GTGCATCGATGCA
2677583 CCAAGGCTGC
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
20 48 0.98
21 1 0.02
ACGTcount: A:0.19, C:0.29, G:0.23, T:0.29
Consensus pattern (20 bp):
GTGCATCGATGCATCCTACT
Found at i:2684450 original size:56 final size:54
Alignment explanation
Indices: 2684296--2684519 Score: 340
Period size: 54 Copynumber: 4.1 Consensus size: 54
2684286 CACCTAATTA
* * * *
2684296 TCGATATGGAAATTCGCAAACTGATTATGAATTCCATGGGTTGCACAAATAGTG
1 TCGATATGGTAATTCACAAACTCATTATGAATTCCATGGGTTGCACACATAGTG
2684350 TCGATATGGTAATTCACAAACTCATTATGAATTCCATGGGTTGCACACATAGTG
1 TCGATATGGTAATTCACAAACTCATTATGAATTCCATGGGTTGCACACATAGTG
* * *
2684404 TCGATATGGTAATTCAAAAACACACATTATGAAATCCATGGGTTGCACACATAGTG
1 TCGATATGGTAATTC-ACAA-ACTCATTATGAATTCCATGGGTTGCACACATAGTG
* *
2684460 TTGATATGGTAATTCACAAACTGATTATGAATTCCATGGGTTGCACACATAGTG
1 TCGATATGGTAATTCACAAACTCATTATGAATTCCATGGGTTGCACACATAGTG
*
2684514 CCGATA
1 TCGATA
2684520 GTACACCTAG
Statistics
Matches: 154, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
54 101 0.66
55 6 0.04
56 47 0.31
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (54 bp):
TCGATATGGTAATTCACAAACTCATTATGAATTCCATGGGTTGCACACATAGTG
Found at i:2684512 original size:110 final size:110
Alignment explanation
Indices: 2684319--2684519 Score: 357
Period size: 110 Copynumber: 1.8 Consensus size: 110
2684309 TCGCAAACTG
*
2684319 ATTATGAATTCCATGGGTTGCACAAATAGTGTCGATATGGTAATTCACAAACTCATTATGAATTC
1 ATTATGAAATCCATGGGTTGCACAAATAGTGTCGATATGGTAATTCACAAACTCATTATGAATTC
*
2684384 CATGGGTTGCACACATAGTGTCGATATGGTAATTCAAAAACACAC
66 CATGGGTTGCACACATAGTGCCGATATGGTAATTCAAAAACACAC
* * *
2684429 ATTATGAAATCCATGGGTTGCACACATAGTGTTGATATGGTAATTCACAAACTGATTATGAATTC
1 ATTATGAAATCCATGGGTTGCACAAATAGTGTCGATATGGTAATTCACAAACTCATTATGAATTC
2684494 CATGGGTTGCACACATAGTGCCGATA
66 CATGGGTTGCACACATAGTGCCGATA
2684520 GTACACCTAG
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
110 86 1.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.30
Consensus pattern (110 bp):
ATTATGAAATCCATGGGTTGCACAAATAGTGTCGATATGGTAATTCACAAACTCATTATGAATTC
CATGGGTTGCACACATAGTGCCGATATGGTAATTCAAAAACACAC
Found at i:2685153 original size:20 final size:20
Alignment explanation
Indices: 2685124--2685175 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
2685114 TTCTTATTAC
2685124 GGTATCGATACCTTCATCTT
1 GGTATCGATACCTTCATCTT
* *
2685144 GGTATTGATA-CTTCCTCTT
1 GGTATCGATACCTTCATCTT
2685163 GGTATCGATACCT
1 GGTATCGATACCT
2685176 ACACCTCAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 17 0.61
20 11 0.39
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.40
Consensus pattern (20 bp):
GGTATCGATACCTTCATCTT
Found at i:2687062 original size:9 final size:9
Alignment explanation
Indices: 2687048--2687141 Score: 53
Period size: 10 Copynumber: 9.8 Consensus size: 9
2687038 GGCTGCTGGA
2687048 AACCGGTTT
1 AACCGGTTT
2687057 AACCGGTTTT
1 AACCGG-TTT
2687067 CAACCGGTTCT
1 -AACCGGTT-T
* *
2687078 GACTGGTTT
1 AACCGGTTT
*
2687087 GACCGGTTT
1 AACCGGTTT
* *
2687096 CGACCGGTTCG
1 -AACCGGTT-T
2687107 AACCGGTTT
1 AACCGGTTT
* *
2687116 GACCGGTCTG
1 AACCGGT-TT
*
2687126 AATCGGTTT
1 AACCGGTTT
*
2687135 GACCGGT
1 AACCGGT
2687142 CCGACCCGAC
Statistics
Matches: 66, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
9 27 0.41
10 32 0.48
11 7 0.11
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (9 bp):
AACCGGTTT
Found at i:2687100 original size:10 final size:10
Alignment explanation
Indices: 2687049--2687122 Score: 59
Period size: 9 Copynumber: 7.6 Consensus size: 10
2687039 GCTGCTGGAA
*
2687049 ACCGGTTT-A
1 ACCGGTTTCG
*
2687058 ACCGGTTTTCA
1 ACCGG-TTTCG
2687069 ACCGG-TTCTG
1 ACCGGTTTC-G
*
2687079 ACTGGTTT-G
1 ACCGGTTTCG
2687088 ACCGGTTTCG
1 ACCGGTTTCG
2687098 ACCGG-TTCG
1 ACCGGTTTCG
2687107 AACCGGTTT-G
1 -ACCGGTTTCG
2687117 ACCGGT
1 ACCGGT
2687123 CTGAATCGGT
Statistics
Matches: 55, Mismatches: 3, Indels: 14
0.76 0.04 0.19
Matches are distributed among these distances:
9 26 0.47
10 19 0.35
11 10 0.18
ACGTcount: A:0.15, C:0.26, G:0.28, T:0.31
Consensus pattern (10 bp):
ACCGGTTTCG
Found at i:2687104 original size:19 final size:19
Alignment explanation
Indices: 2687048--2687141 Score: 100
Period size: 19 Copynumber: 4.8 Consensus size: 19
2687038 GGCTGCTGGA
* *
2687048 AACCGGTTTAACCGGTTTTC
1 AACCGGTTTGACCGG-TTTG
*
2687068 AACCGGTTCTGACTGGTTTG
1 AACCGGTT-TGACCGGTTTG
*
2687088 -ACCGGTTTCGACCGGTTCG
1 AACCGGTTT-GACCGGTTTG
*
2687107 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTTTG
*
2687126 AATCGGTTTGACCGGT
1 AACCGGTTTGACCGGT
2687142 CCGACCCGAC
Statistics
Matches: 63, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
18 1 0.02
19 38 0.60
20 19 0.30
21 5 0.08
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (19 bp):
AACCGGTTTGACCGGTTTG
Found at i:2687114 original size:29 final size:30
Alignment explanation
Indices: 2687048--2687122 Score: 100
Period size: 29 Copynumber: 2.5 Consensus size: 30
2687038 GGCTGCTGGA
*
2687048 AACCGGTTTAACCGGTTTTCAACCGGTTCTG
1 AACCGGTTTGACCGG-TTTCAACCGGTTCTG
* *
2687079 -ACTGGTTTGACCGGTTTCGACCGGTTC-G
1 AACCGGTTTGACCGGTTTCAACCGGTTCTG
2687107 AACCGGTTTGACCGGT
1 AACCGGTTTGACCGGT
2687123 CTGAATCGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
28 1 0.03
29 26 0.67
30 12 0.31
ACGTcount: A:0.16, C:0.25, G:0.28, T:0.31
Consensus pattern (30 bp):
AACCGGTTTGACCGGTTTCAACCGGTTCTG
Found at i:2687181 original size:22 final size:22
Alignment explanation
Indices: 2687156--2687199 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
2687146 CCCGACCGAT
2687156 CGACCCGACCCGACCGTTGACC
1 CGACCCGACCCGACCGTTGACC
*
2687178 CGACCCGACCGGACCGTTGACC
1 CGACCCGACCCGACCGTTGACC
2687200 GTTAACCGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.48, G:0.25, T:0.09
Consensus pattern (22 bp):
CGACCCGACCCGACCGTTGACC
Found at i:2687199 original size:17 final size:18
Alignment explanation
Indices: 2687142--2687188 Score: 78
Period size: 17 Copynumber: 2.7 Consensus size: 18
2687132 TTTGACCGGT
2687142 CCGACCCGACCGATCGAC
1 CCGACCCGACCGATCGAC
*
2687160 CCGACCCGACCG-TTGAC
1 CCGACCCGACCGATCGAC
2687177 CCGACCCGACCG
1 CCGACCCGACCG
2687189 GACCGTTGAC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
17 16 0.57
18 12 0.43
ACGTcount: A:0.19, C:0.51, G:0.23, T:0.06
Consensus pattern (18 bp):
CCGACCCGACCGATCGAC
Found at i:2687201 original size:7 final size:7
Alignment explanation
Indices: 2687189--2687219 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
2687179 GACCCGACCG
2687189 GACCGTT
1 GACCGTT
2687196 GACCGTT
1 GACCGTT
*
2687203 AACCGTT
1 GACCGTT
2687210 GACCGTT
1 GACCGTT
2687217 GAC
1 GAC
2687220 TTTCTTTGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.19, C:0.29, G:0.26, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:2691732 original size:16 final size:16
Alignment explanation
Indices: 2691698--2691731 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
2691688 CACGTGAGGA
2691698 TTATTTTCTTTTTATT
1 TTATTTTCTTTTTATT
2691714 TTATTTATCTTTTTATT
1 TTATTT-TCTTTTTATT
2691731 T
1 T
2691732 ACTGTCTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (16 bp):
TTATTTTCTTTTTATT
Found at i:2693696 original size:24 final size:24
Alignment explanation
Indices: 2693669--2693719 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
2693659 CTGGAAAAGA
*
2693669 TGATTCTAATCCCACTACTGAAGC
1 TGATTCTAATCCCACTACTGAAAC
2693693 TGATTCTAATCCCACTACTGAAAC
1 TGATTCTAATCCCACTACTGAAAC
2693717 TGA
1 TGA
2693720 ATTACAAGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.29
Consensus pattern (24 bp):
TGATTCTAATCCCACTACTGAAAC
Found at i:2693961 original size:54 final size:55
Alignment explanation
Indices: 2693799--2694005 Score: 321
Period size: 55 Copynumber: 3.8 Consensus size: 55
2693789 CAAGGCAAAA
* *
2693799 GAAAATGGGTTCGCTCCCTATTCTTTCAGGGAGTATAGAACTCAAACAATCTTAT
1 GAAAATGGGTTCGCTCCCTATTCTTTCAGGGAGTATAGAACTCGAACAATCTTCT
*
2693854 GAAAATGGGTTCGCTCTCTATTCTTTCAGGGAGTATAGAACTCGAACAATCTTCT
1 GAAAATGGGTTCGCTCCCTATTCTTTCAGGGAGTATAGAACTCGAACAATCTTCT
* * *
2693909 AAAAATGGGTTCGCTCCCTATTCTTT-TGGGAGTACAGAACTCGAACAATCTTCT
1 GAAAATGGGTTCGCTCCCTATTCTTTCAGGGAGTATAGAACTCGAACAATCTTCT
* *
2693963 GAAAATGGG--CGCTCCCTATTCTTTCAGGGAGTCTAGGACTCGA
1 GAAAATGGGTTCGCTCCCTATTCTTTCAGGGAGTATAGAACTCGA
2694006 TCTTGATTTA
Statistics
Matches: 139, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
52 15 0.11
53 14 0.10
54 34 0.24
55 76 0.55
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (55 bp):
GAAAATGGGTTCGCTCCCTATTCTTTCAGGGAGTATAGAACTCGAACAATCTTCT
Found at i:2694091 original size:36 final size:36
Alignment explanation
Indices: 2694009--2694202 Score: 266
Period size: 36 Copynumber: 5.3 Consensus size: 36
2693999 GACTCGATCT
* *
2694009 TGATTTACTTCACTACTCTTCCCTGAAGGCTTATAGA
1 TGATTTGCTTCACTACTCTTCCGTGAAGGCTTAT-GA
* *
2694046 TGATTTGCTTCACTAATCTTCTGTGAAGGCTTATGA
1 TGATTTGCTTCACTACTCTTCCGTGAAGGCTTATGA
*
2694082 TGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGA
1 TGATTTGCTTCACTACTCTTCCGTGAAGGCTTATGA
* *
2694118 TGATTTGCTCCACTACTCTTCCATGAAGGCTTAAT-A
1 TGATTTGCTTCACTACTCTTCCGTGAAGGCTT-ATGA
*
2694154 TGATTTGCTTCACTACTCTTCTGTGAAGGCTTAAT-A
1 TGATTTGCTTCACTACTCTTCCGTGAAGGCTT-ATGA
2694190 TTGATTTGCTTCA
1 -TGATTTGCTTCA
2694203 AAGGTCGAAC
Statistics
Matches: 142, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
36 99 0.70
37 43 0.30
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.40
Consensus pattern (36 bp):
TGATTTGCTTCACTACTCTTCCGTGAAGGCTTATGA
Found at i:2697162 original size:2 final size:2
Alignment explanation
Indices: 2697155--2697209 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
2697145 AGCTTTATTG
2697155 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2697197 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
2697210 CTCCTTTATC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2697397 original size:245 final size:243
Alignment explanation
Indices: 2696950--2697411 Score: 708
Period size: 245 Copynumber: 1.9 Consensus size: 243
2696940 AGCTTTATTG
* *
2696950 TATATTTATTATAATCGCCTTTATCGAACTAGCTGAAGGGTTCATCTCATCACAGAGTCTTCGAA
1 TATATATATTATAATCGCCTTTATCGAACTAGCTGAAGGGTTCATCTCATCACAAAGTCTTCGAA
* * * * *
2697015 TTGATAATTACAGTGGATCAAACACCGAACTGCCAAGTATCCGAGCAATGTCATGTTTTGAATAC
66 CTGACAATTACAGTGGAGCAAACACCGAACTACCAAGTATCCGAGCAATGTCATGGTTTGAATAC
* *
2697080 AATCTATTCATAAAGCCAGGGCTTTTGAGTTTCATCTATAACCAATTGCTTTAGTGGAATAGCTC
131 AATCTATTCATAAAGCCAGGGCTTCTGAGTTTCATCTATAACCAACTGCTTTAGTGGAATAGCTC
*
2697145 AGCTTTATTGTATATATATATATATATATATATATATATATATATATA
196 AGCTTTATTGTATACATATATATATATATATATATATATATATATATA
* **
2697193 TATATATATATATATATCTCCTTTATCGGGCTAGCTGAAGGGTTCATCTCATCACAAAGTCTTCG
1 TATATATAT-TATA-ATCGCCTTTATCGAACTAGCTGAAGGGTTCATCTCATCACAAAGTCTTCG
* * * *
2697258 ACCTGACAATTGCAGTGGAGCAAACACCGAACTACCAAGTATTCGAGCATTGTCATGGTTTGAAT
64 AACTGACAATTACAGTGGAGCAAACACCGAACTACCAAGTATCCGAGCAATGTCATGGTTTGAAT
* ** * *
2697323 ACAATCTATTGATAAATTCAGGGCTTCTGAGTTTCCTCTATAACCAACTGCTTTATTGGAATAGC
129 ACAATCTATTCATAAAGCCAGGGCTTCTGAGTTTCATCTATAACCAACTGCTTTAGTGGAATAGC
2697388 TCAGCTTTATTGTATACATATATA
194 TCAGCTTTATTGTATACATATATA
2697412 ATTACATTAT
Statistics
Matches: 195, Mismatches: 22, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
243 8 0.04
244 4 0.02
245 183 0.94
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (243 bp):
TATATATATTATAATCGCCTTTATCGAACTAGCTGAAGGGTTCATCTCATCACAAAGTCTTCGAA
CTGACAATTACAGTGGAGCAAACACCGAACTACCAAGTATCCGAGCAATGTCATGGTTTGAATAC
AATCTATTCATAAAGCCAGGGCTTCTGAGTTTCATCTATAACCAACTGCTTTAGTGGAATAGCTC
AGCTTTATTGTATACATATATATATATATATATATATATATATATATA
Found at i:2700216 original size:15 final size:15
Alignment explanation
Indices: 2700198--2700231 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
2700188 TTATATATTC
*
2700198 TTTCTTTTTTCTTTT
1 TTTCTTTTTCCTTTT
2700213 TTTCTTTTTCCTTTT
1 TTTCTTTTTCCTTTT
2700228 TTTC
1 TTTC
2700232 ATTTCTAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTCTTTTTCCTTTT
Found at i:2705972 original size:25 final size:25
Alignment explanation
Indices: 2705944--2706001 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
2705934 CACATGCTGG
*
2705944 CTACCCAATCATACTTTAGTATATC
1 CTACCCAATCATACTTTAGTAGATC
*
2705969 CTACCCAATCATGCTTTAGTAGATC
1 CTACCCAATCATACTTTAGTAGATC
*
2705994 ATACCCAA
1 CTACCCAA
2706002 CATGGTATCT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.33, C:0.29, G:0.07, T:0.31
Consensus pattern (25 bp):
CTACCCAATCATACTTTAGTAGATC
Found at i:2714339 original size:2 final size:2
Alignment explanation
Indices: 2714328--2714391 Score: 121
Period size: 2 Copynumber: 32.5 Consensus size: 2
2714318 ATACATTGCT
2714328 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2714369 TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
2714392 TACGTTTTAA
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 60 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2715106 original size:3 final size:3
Alignment explanation
Indices: 2715094--2715131 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
2715084 TTCTTTTTTG
*
2715094 ATA ATAA ATA ATA ATA ATA ATA ATA ATA TTA ATA ATA A
1 ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
2715132 CCTGGATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:2715370 original size:56 final size:55
Alignment explanation
Indices: 2715286--2715391 Score: 176
Period size: 56 Copynumber: 1.9 Consensus size: 55
2715276 TCGGATCTTT
* * *
2715286 TTTGGAAGACGGTTCTGCTCCACTCTTCTTTCAGTGGAGATCAGACTTGATTTGTC
1 TTTGGAAAACGATTCTGCTCCACTCTTCTTTCAG-GGAGATAAGACTTGATTTGTC
2715342 TTTGGAAAACGATTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTTGAT
1 TTTGGAAAACGATTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTTGAT
2715392 ATGTTCATCT
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
55 15 0.32
56 32 0.68
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.36
Consensus pattern (55 bp):
TTTGGAAAACGATTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTTGATTTGTC
Found at i:2715514 original size:55 final size:54
Alignment explanation
Indices: 2715435--2716275 Score: 593
Period size: 55 Copynumber: 15.4 Consensus size: 54
2715425 TGGAAGATGA
* * * *
2715435 GTCTTCTCCACTCTTGTTTTAGGGAGATAAGACTTGAGAAATCTTTGGAAAATGG
1 GTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAGAAATCTTT-GAAAATGG
* *
2715490 GTCTGCTCCACTATTTTTTCAGGGAGATAAGACTCGAGAAATCTTTAGAAAATGG
1 GTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAGAAATCTTT-GAAAATGG
* * *
2715545 GTCTGCTCTACTATTCTTTCAGGGAGATAAGACTCGAGAAATCTTTTGAAGACT-G
1 GTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAGAAATC-TTTGAA-AATGG
* ***
2715600 ATCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTTGAAAACAA
1 GTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAGAAATC-TTTGAAAATGG
* * ** *
2715655 GTTTGCTCCACTCTTCTTTCAGTGAGATAAGACTCGAGATGTCTTCTAAAAATGG
1 GTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAGAAATCTT-TGAAAATGG
* * * * ** * *
2715710 AT-TCACTCC-CTATTCTTTCAGGGAGATATGACTTAAGAAATCTTTTGATAACGG
1 GTCT-GCTCCACTCTTCTTTCAGGGAGATAAGACTCGAGAAATC-TTTGAAAATGG
* * *
2715764 GTC-GCTCCACTCTTCTTTCAGTGAGACAAGACTCGAGAAATCATTTGAAGATGG
1 GTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAGAAATC-TTTGAAAATGG
* * *
2715818 GTCTTCTCCACTCTTCTTTTAGGGAGATAAGGCTCGAGAAATCTGTT-AAAGATGG
1 GTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAGAAATCT-TTGAAA-ATGG
*
2715873 GTCTGCTCCACTCTTCTTTCAGAGAGATAAGACTCGAGAAATCTTTTGAAAAACT-G
1 GTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAGAAATC-TTTG-AAAA-TGG
* * * * * *
2715929 GT-TTCTCCACTATTCTCTT-AGGAAGATAAGACTTGAGAAATATTGTGAAAACGG
1 GTCTGCTCCACTCTTCT-TTCAGGGAGATAAGACTCGAGAAATCTT-TGAAAATGG
* * * *
2715983 GT-TCGCACC-CTATTCTTTCAGAGAG-TATAGAACTCGA-ACAATCTTATGAAAATAG
1 GTCT-GCTCCACTCTTCTTTCAGGGAGATA-AG-ACTCGAGA-AATCTT-TGAAAATGG
* *
2716038 GT-TCGCTCC-CTATTCTTTCAGGGAG-TATAGAACTCGA-ACAATCTTCTGAAAACGG
1 GTCT-GCTCCACTCTTCTTTCAGGGAGATA-AG-ACTCGAGA-AATCTT-TGAAAATGG
* * * * *
2716093 GT-TCGCT-CTCTATTCTTTCGGGGAGTATAAAACTC-AAACAATCTTATGAAAATGG
1 GTCT-GCTCCACTCTTCTTTCAGGGAG-ATAAGACTCGAGA-AATCTT-TGAAAATGG
* * * * *
2716148 GT-TCGCT-CTCTATTCTTTCAGGGAG-TATAGAACTCGA-ACAATCATCTCAAAACGG
1 GTCT-GCTCCACTCTTCTTTCAGGGAGATA-AG-ACTCGAGA-AATC-TTTGAAAATGG
* * * *
2716203 GTCCGCTCC-CTATTCTTTCAGGGAG-TATAGAACTCGA-ACAATATTTTGAAAACGG
1 GTCTGCTCCACTCTTCTTTCAGGGAGATA-AG-ACTCGAGA-AAT-CTTTGAAAATGG
* *
2716258 GTCTTCTCC-CTATTCTTT
1 GTCTGCTCCACTCTTCTTT
2716276 TAGGAAGTAC
Statistics
Matches: 658, Mismatches: 94, Indels: 68
0.80 0.11 0.08
Matches are distributed among these distances:
53 10 0.02
54 105 0.16
55 521 0.79
56 16 0.02
57 6 0.01
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.32
Consensus pattern (54 bp):
GTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTGAAAATGG
Found at i:2715651 original size:110 final size:109
Alignment explanation
Indices: 2715435--2716349 Score: 703
Period size: 110 Copynumber: 8.3 Consensus size: 109
2715425 TGGAAGATGA
* * * * * *
2715435 GTCTTCTCCACTCTTGTTTTAGGGAGATAAGACTTGAGAAATCTTTGGAAAATGGGTCTGCTCCA
1 GTCTGCTCCACTATTCTTTCAGGGAGATAAGACTCGAGAAATCTTTTGAAAATGGGT-TGCTCCA
* * *
2715500 CTATTTTTTCAGGGAGATAAGACTCGAGAAATCTTTAGAAAATGG
65 CTATTCTTTCAGGGAGATAAGACTCGAGAAATCTTTTGAAAACGG
* * *
2715545 GTCTGCTCTACTATTCTTTCAGGGAGATAAGACTCGAGAAATCTTTTGAAGACT-GATCTGCTCC
1 GTCTGCTCCACTATTCTTTCAGGGAGATAAGACTCGAGAAATCTTTTGAA-AATGGGT-TGCTCC
* **
2715609 ACTCTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTTGAAAACAA
64 ACTATTCTTTCAGGGAGATAAGACTCGAGAAATCTTTTGAAAACGG
* * * ** * * * *
2715655 GTTTGCTCCACTCTTCTTTCAGTGAGATAAGACTCGAGATGTCTTCTAAAAATGGATTCACTCC-
1 GTCTGCTCCACTATTCTTTCAGGGAGATAAGACTCGAGAAATCTTTTGAAAATGGGTT-GCTCCA
* ** *
2715719 CTATTCTTTCAGGGAGATATGACTTAAGAAATCTTTTGATAACGG
65 CTATTCTTTCAGGGAGATAAGACTCGAGAAATCTTTTGAAAACGG
* * * * * *
2715764 GTC-GCTCCACTCTTCTTTCAGTGAGACAAGACTCGAGAAATCATTTGAAGATGGGTCTTCTCCA
1 GTCTGCTCCACTATTCTTTCAGGGAGATAAGACTCGAGAAATCTTTTGAAAATGGGT-TGCTCCA
* * * * *
2715828 CTCTTCTTTTAGGGAGATAAGGCTCGAGAAATCTGTT-AAAGATGG
65 CTATTCTTTCAGGGAGATAAGACTCGAGAAATCTTTTGAAA-ACGG
* * *
2715873 GTCTGCTCCACTCTTCTTTCAGAGAGATAAGACTCGAGAAATCTTTTGAAAAACT-GGTTTCTCC
1 GTCTGCTCCACTATTCTTTCAGGGAGATAAGACTCGAGAAATCTTTTG-AAAA-TGGGTTGCTCC
* * * *
2715937 ACTATTCTCTT-AGGAAGATAAGACTTGAGAAATATTGTGAAAACGG
64 ACTATTCT-TTCAGGGAGATAAGACTCGAGAAATCTTTTGAAAACGG
* * * *
2715983 GT-TCGCACC-CTATTCTTTCAGAGAG-TATAGAACTCGA-ACAATCTTATGAAAATAGGTTCGC
1 GTCT-GCTCCACTATTCTTTCAGGGAGATA-AG-ACTCGAGA-AATCTTTTGAAAATGGGTT-GC
*
2716044 TCC-CTATTCTTTCAGGGAG-TATAGAACTCGA-ACAATCTTCTGAAAACGG
61 TCCACTATTCTTTCAGGGAGATA-AG-ACTCGAGA-AATCTTTTGAAAACGG
* * * * *
2716093 GT-TCGCT-CTCTATTCTTTCGGGGAGTATAAAACTC-AAACAATCTTATGAAAATGGGTTCGCT
1 GTCT-GCTCCACTATTCTTTCAGGGAG-ATAAGACTCGAGA-AATCTTTTGAAAATGGGTT-GCT
* * * *
2716155 -CTCTATTCTTTCAGGGAG-TATAGAACTCGA-ACAATCATCTCAAAACGG
62 CCACTATTCTTTCAGGGAGATA-AG-ACTCGAGA-AATCTTTTGAAAACGG
* * * *
2716203 GTCCGCTCC-CTATTCTTTCAGGGAG-TATAGAACTCGA-ACAATATTTTGAAAACGGGTCTTCT
1 GTCTGCTCCACTATTCTTTCAGGGAGATA-AG-ACTCGAGA-AATCTTTTGAAAATGGGT-TGCT
* * * * **
2716265 CC-CTATTCTTTTAGGAAG-TACAGAGCTCGA-ACAATCTTCTAAAAACAT
62 CCACTATTCTTTCAGGGAGATA-AGA-CTCGAGA-AATCTTTTGAAAACGG
** *
2716313 GTCCACTCC-CTATTCTTTCAGGGAGTATAGGACTCGA
1 GTCTGCTCCACTATTCTTTCAGGGAG-ATAAGACTCGA
2716350 TCTTGATTTG
Statistics
Matches: 675, Mismatches: 94, Indels: 72
0.80 0.11 0.09
Matches are distributed among these distances:
108 60 0.09
109 127 0.19
110 464 0.69
111 19 0.03
112 5 0.01
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.31
Consensus pattern (109 bp):
GTCTGCTCCACTATTCTTTCAGGGAGATAAGACTCGAGAAATCTTTTGAAAATGGGTTGCTCCAC
TATTCTTTCAGGGAGATAAGACTCGAGAAATCTTTTGAAAACGG
Found at i:2715996 original size:273 final size:274
Alignment explanation
Indices: 2715455--2716003 Score: 723
Period size: 273 Copynumber: 2.0 Consensus size: 274
2715445 CTCTTGTTTT
* * * *
2715455 AGGGAGATAAGACTTGAGAAATCTTTGGAAAATGGGTCTGCTCCACTATTTTTTCAGGGAGATAA
1 AGGGAGATAAGACTTAAGAAATCTTTGGAAAACGGGTCTGCTCCACTATTCTTTCAGGGAGACAA
*
2715520 GACTCGAGAAATCTTTAGAAAATGGGTCTGCTCTACTATTCTTTCAGGGAGATAAGACTCGAGAA
66 GACTCGAGAAATCTTTAGAAAATGGGTCTGCTCCACTATTCTTTCAGGGAGATAAGACTCGAGAA
* * *
2715585 ATCTTTTGAAGACTGATCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTTGAA
131 ATCTGTTAAAGACTGATCTGCTCCACTCTTCTTTCAGAGAGATAAGACTCGAGAAATCTTTTGAA
* ** * *
2715650 AACAAGTTTGCTCCACTCTTCTTTCAGTGAGATAAGACTCGAGATGTCTTCTAAAAATGGATTCA
196 AACAAGTTTGCTCCACTATTCTTTCAGTGAGATAAGACTCGAGAAATATTCTAAAAACGGATTCA
*
2715715 CTCCCTATTCTTTC
261 CACCCTATTCTTTC
* * * * *
2715729 AGGGAGATATGACTTAAGAAATCTTTTGATAACGGGTC-GCTCCACTCTTCTTTCAGTGAGACAA
1 AGGGAGATAAGACTTAAGAAATCTTTGGAAAACGGGTCTGCTCCACTATTCTTTCAGGGAGACAA
* * * * *
2715793 GACTCGAGAAATCATTT-GAAGATGGGTCTTCTCCACTCTTCTTTTAGGGAGATAAGGCTCGAGA
66 GACTCGAGAAATC-TTTAGAAAATGGGTCTGCTCCACTATTCTTTCAGGGAGATAAGACTCGAGA
*
2715857 AATCTGTTAAAGA-TGGGTCTGCTCCACTCTTCTTTCAGAGAGATAAGACTCGAGAAATCTTTTG
130 AATCTGTTAAAGACT-GATCTGCTCCACTCTTCTTTCAGAGAGATAAGACTCGAGAAATCTTTTG
** * * *
2715921 AAAAACTGGTTT-CTCCACTATTCTCTT-AG-GAAGATAAGACTTGAGAAATATTGTGAAAACGG
194 -AAAACAAGTTTGCTCCACTATTCT-TTCAGTG-AGATAAGACTCGAGAAATATTCTAAAAACGG
* *
2715983 GTTCGCACCCTATTCTTTC
256 ATTCACACCCTATTCTTTC
2716002 AG
1 AG
2716004 AGAGTATAGA
Statistics
Matches: 238, Mismatches: 32, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
272 2 0.01
273 189 0.79
274 47 0.20
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (274 bp):
AGGGAGATAAGACTTAAGAAATCTTTGGAAAACGGGTCTGCTCCACTATTCTTTCAGGGAGACAA
GACTCGAGAAATCTTTAGAAAATGGGTCTGCTCCACTATTCTTTCAGGGAGATAAGACTCGAGAA
ATCTGTTAAAGACTGATCTGCTCCACTCTTCTTTCAGAGAGATAAGACTCGAGAAATCTTTTGAA
AACAAGTTTGCTCCACTATTCTTTCAGTGAGATAAGACTCGAGAAATATTCTAAAAACGGATTCA
CACCCTATTCTTTC
Found at i:2716049 original size:328 final size:328
Alignment explanation
Indices: 2715440--2716282 Score: 823
Period size: 328 Copynumber: 2.6 Consensus size: 328
2715430 GATGAGTCTT
* * * *
2715440 CTCCACTCTTGTTTTAGGGAGATAAGACTTGAGAAATCTTTGGAAAATGGGTCTGCTCCACTATT
1 CTCCACTCTTCTTTCAGGGAGACAAGACTCGAGAAATCTTTGGAAAATGGGTCTGCTCCACTATT
* *
2715505 TTTTCAGGGAGATAAGACTCGAGAAATCTTTAGAAAATGGGTCTGCTCTACTATTCTTTCAGGGA
66 TTTTCAGGGAGATAAGACTCGAGAAATCTTTAGAAAATGGGTCTGCTCCACTATTCTTTCAGAGA
* * *
2715570 GATAAGACTCGAGAAATCTTTTGAAGACTGATCTGCTCCACTCTTCTTTCAGGGAGATAAGACTC
131 GATAAGACTCGAGAAATCTTTTGAAAACTGATCTGCTCCACTATTCTTTCAGGAAGATAAGACTC
* * * * * * **
2715635 GAGAAATCTTTTGAAAACAAGTTTGCTCCACTCTTCTTTCAGTGAGATAAGACTCGAGATGTCTT
196 GAGAAATATTGTGAAAACAAGTTCGCACCACTATTCTTTCAGAGAGATAAGACTCGAGAAATCTT
*
2715700 CTAAAAATGGATTCACTCCCTATTCTTTCAGGGAGATATGACTTAAGAAATCTTTTGATAACGGG
261 ATAAAAATGGATTCACTCCCTATTCTTTCAGGGAGATATGACTTAAGAAATCTTTTGATAACGGG
2715765 TCG
326 TCG
* * * *
2715768 CTCCACTCTTCTTTCAGTGAGACAAGACTCGAGAAATCATTT-GAAGATGGGTCTTCTCCACTCT
1 CTCCACTCTTCTTTCAGGGAGACAAGACTCGAGAAATC-TTTGGAAAATGGGTCTGCTCCACTAT
* * *
2715832 TCTTTT-AGGGAGATAAGGCTCGAGAAATCTGTTA-AAGATGGGTCTGCTCCACTCTTCTTTCAG
65 T-TTTTCAGGGAGATAAGACTCGAGAAATCT-TTAGAAAATGGGTCTGCTCCACTATTCTTTCAG
* *
2715895 AGAGATAAGACTCGAGAAATCTTTTGAAAAACTGGT-TTCTCCACTATTCTCTT-AGGAAGATAA
128 AGAGATAAGACTCGAGAAATCTTTTG-AAAACTGATCTGCTCCACTATTCT-TTCAGGAAGATAA
* **
2715958 GACTTGAGAAATATTGTGAAAACGGGTTCGCACC-CTATTCTTTCAGAGAG-TATAGAACTCGA-
191 GACTCGAGAAATATTGTGAAAACAAGTTCGCACCACTATTCTTTCAGAGAGATA-AG-ACTCGAG
* * * *
2716020 ACAATCTTATGAAAATAGG-TTCGCTCCCTATTCTTTCAGGGAG-TATAGAACTCGAA-CAATCT
254 A-AATCTTATAAAAAT-GGATTCACTCCCTATTCTTTCAGGGAGATAT-G-ACT-TAAGAAATCT
* *
2716082 TCTGAAAACGGGTTCG
314 TTTGATAACGGG-TCG
* * * * * * *
2716098 CT-CTCTATTCTTTCGGGGAGTATAAAACTC-AAACAATCTTAT-GAAAATGGGT-TCGCT-CTC
1 CTCCACTCTTCTTTCAGGGAG-ACAAGACTCGAGA-AATCTT-TGGAAAATGGGTCT-GCTCCAC
* * * * *
2716158 TATTCTTTCAGGGAG-TATAGAACTCGA-ACAATCATCT-CAAAACGGGTCCGCTCC-CTATTCT
62 TATTTTTTCAGGGAGATA-AG-ACTCGAGA-AATC-TTTAGAAAATGGGTCTGCTCCACTATTCT
* * * * * *
2716219 TTCAGGGAG-TATAGAACTCGA-ACAATATTTTGAAAACGGGTCTTCTCC-CTATTCTTTTAGGA
123 TTCAGAGAGATA-AG-ACTCGAGA-AATCTTTTGAAAACTGATCTGCTCCACTATTCTTTCAGGA
2716281 AG
185 AG
2716283 TACAGAGCTC
Statistics
Matches: 430, Mismatches: 57, Indels: 55
0.79 0.11 0.10
Matches are distributed among these distances:
326 2 0.00
327 20 0.05
328 224 0.52
329 110 0.26
330 73 0.17
331 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (328 bp):
CTCCACTCTTCTTTCAGGGAGACAAGACTCGAGAAATCTTTGGAAAATGGGTCTGCTCCACTATT
TTTTCAGGGAGATAAGACTCGAGAAATCTTTAGAAAATGGGTCTGCTCCACTATTCTTTCAGAGA
GATAAGACTCGAGAAATCTTTTGAAAACTGATCTGCTCCACTATTCTTTCAGGAAGATAAGACTC
GAGAAATATTGTGAAAACAAGTTCGCACCACTATTCTTTCAGAGAGATAAGACTCGAGAAATCTT
ATAAAAATGGATTCACTCCCTATTCTTTCAGGGAGATATGACTTAAGAAATCTTTTGATAACGGG
TCG
Found at i:2716294 original size:55 final size:55
Alignment explanation
Indices: 2715967--2716349 Score: 446
Period size: 55 Copynumber: 7.0 Consensus size: 55
2715957 AGACTTGAGA
* * *
2715967 AATATTGTGAAAACGGGTTCGCACCCTATTCTTTCAGAGAGTATAGAACTCGAAC
1 AATATTATGAAAACGGGTTCGCTCCCTATTCTTTCAGGGAGTATAGAACTCGAAC
* **
2716022 AATCTTATGAAAATAGGTTCGCTCCCTATTCTTTCAGGGAGTATAGAACTCGAAC
1 AATATTATGAAAACGGGTTCGCTCCCTATTCTTTCAGGGAGTATAGAACTCGAAC
* * * * * *
2716077 AATCTTCTGAAAACGGGTTCGCTCTCTATTCTTTCGGGGAGTATAAAACTCAAAC
1 AATATTATGAAAACGGGTTCGCTCCCTATTCTTTCAGGGAGTATAGAACTCGAAC
* * *
2716132 AATCTTATGAAAATGGGTTCGCTCTCTATTCTTTCAGGGAGTATAGAACTCGAAC
1 AATATTATGAAAACGGGTTCGCTCCCTATTCTTTCAGGGAGTATAGAACTCGAAC
* * *
2716187 AATCA-TCTCAAAACGGGTCCGCTCCCTATTCTTTCAGGGAGTATAGAACTCGAAC
1 AAT-ATTATGAAAACGGGTTCGCTCCCTATTCTTTCAGGGAGTATAGAACTCGAAC
* * * * * *
2716242 AATATTTTGAAAACGGG-TCTTCTCCCTATTCTTTTAGGAAGTACAGAGCTCGAAC
1 AATATTATGAAAACGGGTTC-GCTCCCTATTCTTTCAGGGAGTATAGAACTCGAAC
* * * ** * * *
2716297 AATCTTCTAAAAACATGTCCACTCCCTATTCTTTCAGGGAGTATAGGACTCGA
1 AATATTATGAAAACGGGTTCGCTCCCTATTCTTTCAGGGAGTATAGAACTCGA
2716350 TCTTGATTTG
Statistics
Matches: 280, Mismatches: 44, Indels: 8
0.84 0.13 0.02
Matches are distributed among these distances:
54 2 0.01
55 277 0.99
56 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (55 bp):
AATATTATGAAAACGGGTTCGCTCCCTATTCTTTCAGGGAGTATAGAACTCGAAC
Found at i:2716400 original size:36 final size:36
Alignment explanation
Indices: 2716353--2716798 Score: 599
Period size: 36 Copynumber: 12.3 Consensus size: 36
2716343 GACTCGATCT
*
2716353 TGATTTGCTTCACTACTCTTCTATGAAGGCTTAAGA
1 TGATTTGCTTCACTACTCTTCCATGAAGGCTTAAGA
* * **
2716389 TGATTTACTTCACTACACTTCTGTGAAGGCTTAAGA
1 TGATTTGCTTCACTACTCTTCCATGAAGGCTTAAGA
*
2716425 TTGATTTGCTTCACTACTCTTTCATGAAGGCTTAAGA
1 -TGATTTGCTTCACTACTCTTCCATGAAGGCTTAAGA
* *
2716462 TGATTTGTTTCACTACTCTTCCGTGAAGGCTTAAGA
1 TGATTTGCTTCACTACTCTTCCATGAAGGCTTAAGA
* *
2716498 TTGATTTGCTTCACTACTCTTCCGTGGAGGAC-TAAGA
1 -TGATTTGCTTCACTACTCTTCCATGAAGG-CTTAAGA
* * * *
2716535 TTGATTTGTTTCACTACTATTCCGTGAAGGATTAAGA
1 -TGATTTGCTTCACTACTCTTCCATGAAGGCTTAAGA
* *
2716572 TTGATTTGCTTCACTACTCTTACGTGAAGGCTTAAGA
1 -TGATTTGCTTCACTACTCTTCCATGAAGGCTTAAGA
*
2716609 TGATTTGCTTCACTACTCTTCCATGTAGGCTTAAGA
1 TGATTTGCTTCACTACTCTTCCATGAAGGCTTAAGA
* **
2716645 TGATTTGCTTCAATACTCTTCTTTGAAGGCTTAAGA
1 TGATTTGCTTCACTACTCTTCCATGAAGGCTTAAGA
* * *
2716681 TGATTTCCTTCACTACTCTTTCATAAAGGCTTAAGA
1 TGATTTGCTTCACTACTCTTCCATGAAGGCTTAAGA
* * *
2716717 TAATTTCCTTCACTACTCTTCCATGAAGTCTTAAGA
1 TGATTTGCTTCACTACTCTTCCATGAAGGCTTAAGA
2716753 TGATTTGCTTCACTACTCTTCCATGAAGGCTTAAGA
1 TGATTTGCTTCACTACTCTTCCATGAAGGCTTAAGA
2716789 TGATTT-CTTC
1 TGATTTGCTTC
2716799 GAATGTTGAA
Statistics
Matches: 365, Mismatches: 41, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
35 4 0.01
36 232 0.64
37 128 0.35
38 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (36 bp):
TGATTTGCTTCACTACTCTTCCATGAAGGCTTAAGA
Found at i:2718531 original size:29 final size:29
Alignment explanation
Indices: 2718488--2718612 Score: 223
Period size: 29 Copynumber: 4.3 Consensus size: 29
2718478 CAAATATTTC
2718488 CAAAATATCTGTAGATATGAAACTCCTCT
1 CAAAATATCTGTAGATATGAAACTCCTCT
*
2718517 CAAAATATCTATAGATATGAAACTCCTCT
1 CAAAATATCTGTAGATATGAAACTCCTCT
*
2718546 CAAAATATCTGTAGATCTGAAACTCCTCT
1 CAAAATATCTGTAGATATGAAACTCCTCT
*
2718575 CTAAATATCTGTAGATATGAAACTCCTCT
1 CAAAATATCTGTAGATATGAAACTCCTCT
2718604 CAAAATATC
1 CAAAATATC
2718613 AAAATCTTGT
Statistics
Matches: 90, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 90 1.00
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (29 bp):
CAAAATATCTGTAGATATGAAACTCCTCT
Found at i:2720514 original size:2 final size:2
Alignment explanation
Indices: 2720503--2720571 Score: 131
Period size: 2 Copynumber: 35.0 Consensus size: 2
2720493 ATACATTGCT
2720503 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2720544 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2720572 CGTTTTAACT
Statistics
Matches: 66, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 65 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:2721659 original size:55 final size:55
Alignment explanation
Indices: 2721589--2721939 Score: 450
Period size: 55 Copynumber: 6.4 Consensus size: 55
2721579 CTATGTGTAC
*
2721589 TACAGGCACCTTGTGTGCATATCCACGAAATTCATCATGGGTTGATGAATCACCG
1 TACAGGCACTTTGTGTGCATATCCACGAAATTCATCATGGGTTGATGAATCACCG
* * * *
2721644 TATAGGCACTTTGTGTGCATATTCACGAAATTCATCAAGAGTTGATGAATCACCG
1 TACAGGCACTTTGTGTGCATATCCACGAAATTCATCATGGGTTGATGAATCACCG
* * *
2721699 TACAAGCACTTTGTGTGCATATTCACGGAATTCATCATGGGTTGATGAATCACCG
1 TACAGGCACTTTGTGTGCATATCCACGAAATTCATCATGGGTTGATGAATCACCG
* ** * * *
2721754 TACAAGCACTTTGTGTGCATATTGACGGAATTCATCATGTGTTGATGAATCACCA
1 TACAGGCACTTTGTGTGCATATCCACGAAATTCATCATGGGTTGATGAATCACCG
* * * *
2721809 TATAGGTACTTTGTGTGCATATCCACGAAATTCATCATGGGTTGATGAATAACCA
1 TACAGGCACTTTGTGTGCATATCCACGAAATTCATCATGGGTTGATGAATCACCG
* * * * ** *
2721864 TACAGGCACTGTGTGTACAAATCTACGAAATTCATCATAAGTTGATGAATAACCG
1 TACAGGCACTTTGTGTGCATATCCACGAAATTCATCATGGGTTGATGAATCACCG
* * *
2721919 TATAGGCACTATGTGTACATA
1 TACAGGCACTTTGTGTGCATA
2721940 ACACGGGATT
Statistics
Matches: 263, Mismatches: 33, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
55 263 1.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.30
Consensus pattern (55 bp):
TACAGGCACTTTGTGTGCATATCCACGAAATTCATCATGGGTTGATGAATCACCG
Found at i:2721975 original size:54 final size:55
Alignment explanation
Indices: 2721613--2722007 Score: 228
Period size: 55 Copynumber: 7.2 Consensus size: 55
2721603 GTGCATATCC
* ** * * * *
2721613 ACGAAATTCATCATGGGTTGATGAATCACCGTATAGGCACTTTGTGTGCATAT-T
1 ACGAAATTCATAATAAGTTGATGAATAACCGTATAGGCACTATGTGTACAAATCT
* * * * * * *
2721667 CACGAAATTCATCAA-GAGTTGATGAATCACCGTACAAGCACTTTGTGTGCATAT-T
1 -ACGAAATTCAT-AATAAGTTGATGAATAACCGTATAGGCACTATGTGTACAAATCT
* * ** * * * * * *
2721722 CACGGAATTCATCATGGGTTGATGAATCACCGTACAAGCACTTTGTGTGCATAT-T
1 -ACGAAATTCATAATAAGTTGATGAATAACCGTATAGGCACTATGTGTACAAATCT
* * ** * * * * * * *
2721777 GACGGAATTCATCATGTGTTGATGAATCACCATATAGGTACTTTGTGTGCATATCC
1 -ACGAAATTCATAATAAGTTGATGAATAACCGTATAGGCACTATGTGTACAAATCT
* ** * * *
2721833 ACGAAATTCATCATGGGTTGATGAATAACCATACAGGCACTGTGTGTACAAATCT
1 ACGAAATTCATAATAAGTTGATGAATAACCGTATAGGCACTATGTGTACAAATCT
*
2721888 ACGAAATTCATCATAAGTTGATGAATAACCGTATAGGCACTATGTGTACATAA-C-
1 ACGAAATTCATAATAAGTTGATGAATAACCGTATAGGCACTATGTGTACA-AATCT
** * * * * * *
2721942 ACGGGATTCATAATATGTTTATGAATAATCGTATAGGAACTACGTGTACGAA-CT
1 ACGAAATTCATAATAAGTTGATGAATAACCGTATAGGCACTATGTGTACAAATCT
* *
2721996 AAGAGATTCATA
1 ACGAAATTCATA
2722008 CTAATTGTAG
Statistics
Matches: 296, Mismatches: 39, Indels: 11
0.86 0.11 0.03
Matches are distributed among these distances:
53 3 0.01
54 52 0.18
55 238 0.80
56 3 0.01
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.30
Consensus pattern (55 bp):
ACGAAATTCATAATAAGTTGATGAATAACCGTATAGGCACTATGTGTACAAATCT
Found at i:2722469 original size:45 final size:44
Alignment explanation
Indices: 2722333--2722457 Score: 178
Period size: 45 Copynumber: 2.8 Consensus size: 44
2722323 GATGTATAAC
*
2722333 AATGTATAATAATGTATAAAAGGCATGAAAGGATGCCATAAATGA
1 AATGTATAATAGTGTATAAAA-GCATGAAAGGATGCCATAAATGA
*
2722378 AATATATAATAGTGTATAAAAGTCATGAAAGGATGCCATAAATGA
1 AATGTATAATAGTGTATAAAAG-CATGAAAGGATGCCATAAATGA
* * *
2722423 AATGTATAATAGTGCATTATAAGCATGAAGGGATG
1 AATGTATAATAGTGTA-TAAAAGCATGAAAGGATG
2722458 TTATCAATGA
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
44 1 0.01
45 66 0.92
46 5 0.07
ACGTcount: A:0.46, C:0.06, G:0.21, T:0.26
Consensus pattern (44 bp):
AATGTATAATAGTGTATAAAAGCATGAAAGGATGCCATAAATGA
Found at i:2728655 original size:59 final size:59
Alignment explanation
Indices: 2728545--2728886 Score: 404
Period size: 59 Copynumber: 5.8 Consensus size: 59
2728535 TGGCACTATA
* * *
2728545 TGTGCTAAAATGATAAGG-AATCATATTGAATGTATGAATTCCCATATGGAGCACTGAG
1 TGTGCTAAAATGATAAGGAAATCATATTGAGTGTATGGATTTCCATATGGAGCACTGAG
* *
2728603 TGTGCTAAAATGATAAGGAAATCATAATGTGTGTATGGATTTCCATATGGAGCACTGAG
1 TGTGCTAAAATGATAAGGAAATCATATTGAGTGTATGGATTTCCATATGGAGCACTGAG
*
2728662 TGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATATGGAGCACTGAG
1 TGTGCTAAAATGATAAGGAAATCATATTGAGTGTATGGATTTCCATATGGAGCACTGAG
* * * * *
2728721 TGTGCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCAGATAGG-GCA-TTATA
1 TGTGCTAAAATGATAAGGAAATCATATTGAGTGTATGGATTTCCATAT-GGAGCACTGA-G
* * * * *** * *
2728780 TGTGCTAAAATGGTAAGGGAATCATAGTGAGTGTATGGATTTCCAGAAAAATCACTAAG
1 TGTGCTAAAATGATAAGGAAATCATATTGAGTGTATGGATTTCCATATGGAGCACTGAG
* * * * *
2728839 GGTGCTAAAAGGATAAGGAAATCATACT-AATAGTATGGATTTTCATAT
1 TGTGCTAAAATGATAAGGAAATCATATTGAGT-GTATGGATTTCCATAT
2728887 ATGGCACTTC
Statistics
Matches: 245, Mismatches: 33, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
58 22 0.09
59 219 0.89
60 4 0.02
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (59 bp):
TGTGCTAAAATGATAAGGAAATCATATTGAGTGTATGGATTTCCATATGGAGCACTGAG
Found at i:2728846 original size:177 final size:173
Alignment explanation
Indices: 2728545--2729096 Score: 508
Period size: 177 Copynumber: 3.1 Consensus size: 173
2728535 TGGCACTATA
* * * *
2728545 TGTGCTAAAATGATAAGGAATCATATTGAATGTAT-GAATTCCCATATGGAGCACTGAGTGTGCT
1 TGTGCTAAAATGATAAGGAATCATATTGAATGTATGGATTTCCAATA-GG-GCACTTAATGTGCT
* * * * *** *
2728609 AAAATGATAAGGAAATCATAATGTGTGTATGGATTTCCATATGGAGCACTGAGTGTGCTAAAATG
64 AAAATGGTAAGGGAATCAT-ATGAGTGTATGGATTTCCAGAAAAAGCACTAAGTGTGCTAAAATG
*
2728674 ATAAGGAAATCATACTGAGTGTATGGATTTCCATATGGAGCACTGAG
128 ATAAGGAAATCATACT-AGTGTATGGATTTCCATATAGAGCACTGAG
*
2728721 TGTGCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCAGATAGGGCA-TTATATGTGC
1 TGTGCTAAAATGATAAGG-AATCATATTGAATGTATGGATTTCCA-ATAGGGCACTTA-ATGTGC
* * *
2728785 TAAAATGGTAAGGGAATCATAGTGAGTGTATGGATTTCCAGAAAAATCACTAAGGGTGCTAAAAG
63 TAAAATGGTAAGGGAATCATA-TGAGTGTATGGATTTCCAGAAAAAGCACTAAGTGTGCTAAAAT
* * *
2728850 GATAAGGAAATCATACTAATAGTATGGATTTTCATATATG-GCACTTCA-
127 GATAAGGAAATCATACTAGT-GTATGGATTTCCATATA-GAGCAC-TGAG
* ** * * *
2728898 TGTGCTAAAAATGGTAAAGGGGTCATACT-AATGGTATGGATTCTCGAATAGGGCACTTCATGTG
1 TGTGCT-AAAATGAT-AAGGAATCATATTGAAT-GTATGGATT-TCCAATAGGGCACTTAATGTG
* * * * * **
2728962 CTAAAAATGGTAAAGGAATCACATTAATGGTATGGA-TTCTC-GAATAAGGCACTTCGTGTGCTA
62 CT-AAAATGGTAAGGGAATCATATGAGT-GTATGGATTTC-CAGAA-AAAGCACTAAGTGTGCTA
* * *
2729025 AAATGAGAAGGAAATCATACTAAGTATAT-GATATTCCAGATAGAGCACTGAG
123 AAATGATAAGGAAATCATACT-AGTGTATGGAT-TTCCATATAGAGCACTGAG
* * *
2729077 AGTGCTAATATTATAAGGAA
1 TGTGCTAAAATGATAAGGAA
2729097 ATTATACGAA
Statistics
Matches: 306, Mismatches: 49, Indels: 41
0.77 0.12 0.10
Matches are distributed among these distances:
176 23 0.08
177 125 0.41
178 67 0.22
179 89 0.29
180 2 0.01
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.29
Consensus pattern (173 bp):
TGTGCTAAAATGATAAGGAATCATATTGAATGTATGGATTTCCAATAGGGCACTTAATGTGCTAA
AATGGTAAGGGAATCATATGAGTGTATGGATTTCCAGAAAAAGCACTAAGTGTGCTAAAATGATA
AGGAAATCATACTAGTGTATGGATTTCCATATAGAGCACTGAG
Found at i:2728901 original size:118 final size:117
Alignment explanation
Indices: 2728536--2729098 Score: 475
Period size: 118 Copynumber: 4.8 Consensus size: 117
2728526 ATTACCAAAT
* * * *
2728536 GGCACTATATGTGCTAAAATGATAA-GGAATCATATTGAATGTATGAATTCCCATATGGAGCACT
1 GGCACT-TATGTGCTAAAATGATAAGGGAATCATACTGAGTGTATGGATTTCCATATGGAGCACT
* *
2728600 GAGTGTGCTAAAATGATAAGGAAATCATAAT-GTGTGTATGGATTTCCATAT-G
65 GAGTGTGCTAAAATGATAAGGAAATCATAATAAT-AGTATGGATTTCCATATAG
* *
2728652 GAGCACTGAGTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATATGGAGCAC
1 G-GCACTTA-TGTGCTAAAATGATAAGGGAATCATACTGAGTGTATGGATTTCCATATGGAGCAC
* *
2728717 TGAGTGTGCTAAAATGATAAGGAAATCATATTGAATA-TATGGATTTCCAGATAG
64 TGAGTGTGCTAAAATGATAAGGAAATCATAAT-AATAGTATGGATTTCCATATAG
* * * * *** *
2728771 GGCATTATATGTGCTAAAATGGTAAGGGAATCATAGTGAGTGTATGGATTTCCAGAAAAATCACT
1 GGCACT-TATGTGCTAAAATGATAAGGGAATCATACTGAGTGTATGGATTTCCATATGGAGCACT
* * * * * *
2728836 AAGGGTGCTAAAAGGATAAGGAAATCATACTAATAGTATGGATTTTCATATAT
65 GAGTGTGCTAAAATGATAAGGAAATCATAATAATAGTATGGATTTCCATATAG
* * * *
2728889 GGCACTTCATGTGCTAAAAATGGTAAAGGG-GTCATACT-AATGGTATGGATTCTCGA-ATAGG-
1 GGCACTT-ATGTGCT-AAAATGAT-AAGGGAATCATACTGAGT-GTATGGATT-TCCATAT-GGA
* * * * * * *
2728950 GCACTTCA-TGTGCTAAAAATGGTAAAGG-AATCACATTAATGGTATGGATTCTCGA-ATAA
60 GCAC-TGAGTGTGCT-AAAATGAT-AAGGAAATCATAATAATAGTATGGATT-TCCATATAG
* * * * * * *
2729009 GGCACTTCGTGTGCTAAAATGAGAAGGAAATCATACTAAGTATAT-GATATTCCAGATAGAGCAC
1 GGCACTT-ATGTGCTAAAATGATAAGGGAATCATACTGAGTGTATGGAT-TTCCATATGGAGCAC
* * *
2729073 TGAGAGTGCTAATATTATAAGGAAAT
64 TGAGTGTGCTAAAATGATAAGGAAAT
2729099 TATACGAATT
Statistics
Matches: 362, Mismatches: 60, Indels: 48
0.77 0.13 0.10
Matches are distributed among these distances:
116 2 0.01
117 30 0.08
118 206 0.57
119 63 0.17
120 55 0.15
121 6 0.02
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.29
Consensus pattern (117 bp):
GGCACTTATGTGCTAAAATGATAAGGGAATCATACTGAGTGTATGGATTTCCATATGGAGCACTG
AGTGTGCTAAAATGATAAGGAAATCATAATAATAGTATGGATTTCCATATAG
Found at i:2728903 original size:59 final size:58
Alignment explanation
Indices: 2728536--2729051 Score: 369
Period size: 59 Copynumber: 8.8 Consensus size: 58
2728526 ATTACCAAAT
* * *
2728536 GGCACTAT-ATGTGCTAAAATGATAAGG-AATCATATTGAATGTATGAATTCCCATAT-G
1 GGCACT-TCATGTGCTAAAATGATAAGGAAATCATACT-AATGTATGGATTTCCATATAG
* * **
2728593 GAGCAC-TGAGTGTGCTAAAATGATAAGGAAATCATAATGTGTGTATGGATTTCCATAT-G
1 G-GCACTTCA-TGTGCTAAAATGATAAGGAAATCATACT-AATGTATGGATTTCCATATAG
* *
2728652 GAGCAC-TGAGTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATAT-G
1 G-GCACTTCA-TGTGCTAAAATGATAAGGAAATCATACT-AATGTATGGATTTCCATATAG
* * * *
2728711 GAGCAC-TGAGTGTGCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCAGATAG
1 G-GCACTTCA-TGTGCTAAAATGATAAGGAAATCATACT-AATGTATGGATTTCCATATAG
* * * * * * * *
2728771 GGCA-TTATATGTGCTAAAATGGTAAGGGAATCATAGTGAGTGTATGGATTTCCAGAAAA
1 GGCACTT-CATGTGCTAAAATGATAAGGAAATCATACT-AATGTATGGATTTCCATATAG
** * * * * *
2728830 ATCAC-TAAGGGTGCTAAAAGGATAAGGAAATCATACTAATAGTATGGATTTTCATATAT
1 GGCACTTCA-TGTGCTAAAATGATAAGGAAATCATACTAAT-GTATGGATTTCCATATAG
* ** *
2728889 GGCACTTCATGTGCTAAAAATGGTAAAGG-GGTCATACTAATGGTATGGATTCTCGA-ATAG
1 GGCACTTCATGTGCT-AAAATGAT-AAGGAAATCATACTAAT-GTATGGATT-TCCATATAG
* * * * *
2728949 GGCACTTCATGTGCTAAAAATGGTAAAGG-AATCACATTAATGGTATGGATTCTCGA-ATAA
1 GGCACTTCATGTGCT-AAAATGAT-AAGGAAATCATACTAAT-GTATGGATT-TCCATATAG
* *
2729009 GGCACTTCGTGTGCTAAAATGAGAAGGAAATCATACTAA-GTAT
1 GGCACTTCATGTGCTAAAATGATAAGGAAATCATACTAATGTAT
2729052 ATGATATTCC
Statistics
Matches: 390, Mismatches: 54, Indels: 30
0.82 0.11 0.06
Matches are distributed among these distances:
56 1 0.00
57 6 0.02
58 29 0.07
59 246 0.63
60 102 0.26
61 6 0.02
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.29
Consensus pattern (58 bp):
GGCACTTCATGTGCTAAAATGATAAGGAAATCATACTAATGTATGGATTTCCATATAG
Found at i:2728939 original size:60 final size:60
Alignment explanation
Indices: 2728853--2729047 Score: 245
Period size: 60 Copynumber: 3.2 Consensus size: 60
2728843 CTAAAAGGAT
* * *
2728853 AAGGAAATCATACTAATAGTATGGATTTTC-ATATATGGCACTTCATGTGCTAAAAATGGTA
1 AAGG-AATCATACTAATGGTATGGATTCTCGA-ATAAGGCACTTCATGTGCTAAAAATGGTA
** *
2728914 AAGGGGTCATACTAATGGTATGGATTCTCGAATAGGGCACTTCATGTGCTAAAAATGGTA
1 AAGGAATCATACTAATGGTATGGATTCTCGAATAAGGCACTTCATGTGCTAAAAATGGTA
* * *
2728974 AAGGAATCACATTAATGGTATGGATTCTCGAATAAGGCACTTCGTGTGCT-AAAAT-G-A
1 AAGGAATCATACTAATGGTATGGATTCTCGAATAAGGCACTTCATGTGCTAAAAATGGTA
2729031 GAAGGAAATCATACTAA
1 -AAGG-AATCATACTAA
2729048 GTATATGATA
Statistics
Matches: 118, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
57 1 0.01
58 5 0.04
59 14 0.12
60 93 0.79
61 5 0.04
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.29
Consensus pattern (60 bp):
AAGGAATCATACTAATGGTATGGATTCTCGAATAAGGCACTTCATGTGCTAAAAATGGTA
Found at i:2729243 original size:44 final size:44
Alignment explanation
Indices: 2729180--2729580 Score: 513
Period size: 44 Copynumber: 9.0 Consensus size: 44
2729170 TCAGTGATGC
*
2729180 AATTATAGTAAGTATATTGGAAAAATAAGCTTACGAGCTTATGA
1 AATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGA
2729224 AATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGAAATTATGA
1 AATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGC--------TTATGA
*
2729276 AATTATAGTAAGCATATTGGTAAAAT-AGCTTACGAGCTTATGA
1 AATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGA
2729319 AATTATAGTAAGTATATTGGT-AAA-AAGCTTACGAGCTTATGA
1 AATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGA
*
2729361 AATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGG
1 AATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGA
* * *
2729405 AATAAT-GATAAGTATATTGGTAAAATAAGCTTATGAGCTTATGG
1 AATTATAG-TAAGTATATTGGTAAAATAAGCTTACGAGCTTATGA
* * * * *
2729449 AATAATGGTAAGTATATTCGTAAAATAAGCTTATGAGCTTATGG
1 AATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGA
* * * * *
2729493 AATAATGGTAAGTATATTGGCAAAATAAGCTTACGAGCTTAGGG
1 AATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGA
* * *
2729537 ATTTAATGGTAAGTATATTGGTAAATTAAGCTTACGAGCTTATG
1 AATT-ATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
2729581 GATTAAATAG
Statistics
Matches: 327, Mismatches: 16, Indels: 27
0.88 0.04 0.07
Matches are distributed among these distances:
42 41 0.13
43 30 0.09
44 177 0.54
45 37 0.11
51 11 0.03
52 31 0.09
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (44 bp):
AATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGA
Found at i:2730784 original size:22 final size:22
Alignment explanation
Indices: 2730756--2730798 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
2730746 CCGATAGGAT
2730756 TGTGTTGTAGTTCACGTTGAGA
1 TGTGTTGTAGTTCACGTTGAGA
2730778 TGTGTTGTAGTTCACGTTGAG
1 TGTGTTGTAGTTCACGTTGAG
2730799 TCGTATTGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.16, C:0.09, G:0.33, T:0.42
Consensus pattern (22 bp):
TGTGTTGTAGTTCACGTTGAGA
Found at i:2730807 original size:22 final size:22
Alignment explanation
Indices: 2730760--2730810 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 22
2730750 TAGGATTGTG
*
2730760 TTGTAGTTCACGTTGAGATGTG
1 TTGTAGTTCACGTTGAGATGTA
2730782 TTGTAGTTCACGTTGAG-TCGTA
1 TTGTAGTTCACGTTGAGAT-GTA
2730804 TTGTAGT
1 TTGTAGT
2730811 AGCATTTTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 1 0.04
22 26 0.96
ACGTcount: A:0.18, C:0.10, G:0.29, T:0.43
Consensus pattern (22 bp):
TTGTAGTTCACGTTGAGATGTA
Found at i:2731038 original size:24 final size:23
Alignment explanation
Indices: 2731011--2731071 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
2731001 AGTTCAACTT
*
2731011 TATTTTGCTTTAACATT-TTTC-A
1 TATTTT-CTTCAACATTCTTTCAA
2731033 TATATTTCTTCAACATTCTTTCAA
1 TAT-TTTCTTCAACATTCTTTCAA
* *
2731057 TATTTGCTACAACAT
1 TATTTTCTTCAACAT
2731072 CTTACTTCCA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
22 12 0.36
23 17 0.52
24 4 0.12
ACGTcount: A:0.28, C:0.18, G:0.03, T:0.51
Consensus pattern (23 bp):
TATTTTCTTCAACATTCTTTCAA
Found at i:2731048 original size:22 final size:23
Alignment explanation
Indices: 2731022--2731071 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
2731012 ATTTTGCTTT
*
2731022 AACATT-TTTCATATATTT-CTTC
1 AACATTCTTTCA-ATATTTGCTAC
2731044 AACATTCTTTCAATATTTGCTAC
1 AACATTCTTTCAATATTTGCTAC
2731067 AACAT
1 AACAT
2731072 CTTACTTCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 12 0.48
23 13 0.52
ACGTcount: A:0.32, C:0.20, G:0.02, T:0.46
Consensus pattern (23 bp):
AACATTCTTTCAATATTTGCTAC
Found at i:2731074 original size:22 final size:22
Alignment explanation
Indices: 2731022--2731074 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
2731012 ATTTTGCTTT
* *
2731022 AACATTTTTCATATATTTCTTC
1 AACATCTTTCATATATTTCTAC
2731044 AACATTCTTTCA-ATATTTGCTAC
1 AACA-TCTTTCATATATTT-CTAC
2731067 AACATCTT
1 AACATCTT
2731075 ACTTCCATAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 14 0.52
23 13 0.48
ACGTcount: A:0.30, C:0.21, G:0.02, T:0.47
Consensus pattern (22 bp):
AACATCTTTCATATATTTCTAC
Found at i:2750957 original size:15 final size:16
Alignment explanation
Indices: 2750919--2750958 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
2750909 TTGGTTCGGG
2750919 TATCGGGTCGGATTAA
1 TATCGGGTCGGATTAA
*
2750935 TATCGGGTCGG-TTGA
1 TATCGGGTCGGATTAA
*
2750950 TTTCGGGTC
1 TATCGGGTC
2750959 AGATCAAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.15, C:0.15, G:0.35, T:0.35
Consensus pattern (16 bp):
TATCGGGTCGGATTAA
Found at i:2755351 original size:23 final size:25
Alignment explanation
Indices: 2755302--2755352 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
2755292 TGTATAATTT
* *
2755302 TAAATAATATATTAATATGTGATTG
1 TAAATAATATATAAATATATGATTG
2755327 TAAATAATAT-TAAATATATGA-TG
1 TAAATAATATATAAATATATGATTG
2755350 TAA
1 TAA
2755353 TATTGTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 5 0.21
24 9 0.38
25 10 0.42
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (25 bp):
TAAATAATATATAAATATATGATTG
Found at i:2757909 original size:13 final size:13
Alignment explanation
Indices: 2757891--2757918 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2757881 AATGTGGAAG
2757891 GAAAATCCTTTGA
1 GAAAATCCTTTGA
2757904 GAAAATCCTTTGA
1 GAAAATCCTTTGA
2757917 GA
1 GA
2757919 TTTTGCTACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (13 bp):
GAAAATCCTTTGA
Found at i:2768658 original size:39 final size:39
Alignment explanation
Indices: 2768613--2768693 Score: 144
Period size: 39 Copynumber: 2.1 Consensus size: 39
2768603 TTATAGGAAA
*
2768613 ATATGATCCCGAGTCTAGGATTGAGTCACTGGACGATTC
1 ATATGATCCCGAGTCTAGGATTGAGTCACTGGACGACTC
*
2768652 ATATGATCCCGAGTCTGGGATTGAGTCACTGGACGACTC
1 ATATGATCCCGAGTCTAGGATTGAGTCACTGGACGACTC
2768691 ATA
1 ATA
2768694 GGAAAATATG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (39 bp):
ATATGATCCCGAGTCTAGGATTGAGTCACTGGACGACTC
Found at i:2781551 original size:13 final size:12
Alignment explanation
Indices: 2781529--2781568 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
2781519 ACGAGGAGAA
2781529 GATTGTAATAAT
1 GATTGTAATAAT
2781541 GATTAGTAATAAT
1 GATT-GTAATAAT
*
2781554 GTATTGTGATAAT
1 G-ATTGTAATAAT
2781567 GA
1 GA
2781569 GAATTGAAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 5 0.20
13 17 0.68
14 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (12 bp):
GATTGTAATAAT
Found at i:2785639 original size:21 final size:20
Alignment explanation
Indices: 2785613--2785664 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
2785603 TTTTTTACAT
* *
2785613 TATATAGTATATTTGATAATA
1 TATATAATATATTT-AAAATA
2785634 TATATAATA-ATTTAAAATA
1 TATATAATATATTTAAAATA
2785653 TATATAATATAT
1 TATATAATATAT
2785665 ATAATTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 14 0.50
20 6 0.21
21 8 0.29
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (20 bp):
TATATAATATATTTAAAATA
Found at i:2785642 original size:9 final size:9
Alignment explanation
Indices: 2785628--2785669 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
2785618 AGTATATTTG
2785628 ATAATATAT
1 ATAATATAT
*
2785637 ATAATAATTT
1 ATAAT-ATAT
*
2785647 AAAATATAT
1 ATAATATAT
2785656 ATAATATAT
1 ATAATATAT
2785665 ATAAT
1 ATAAT
2785670 TTTTAAAGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
9 21 0.75
10 7 0.25
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (9 bp):
ATAATATAT
Found at i:2785731 original size:13 final size:13
Alignment explanation
Indices: 2785713--2785762 Score: 82
Period size: 13 Copynumber: 3.8 Consensus size: 13
2785703 TAATATATAG
2785713 TTTTTAAAATCGA
1 TTTTTAAAATCGA
2785726 TTTTTAAAATCGA
1 TTTTTAAAATCGA
*
2785739 TTTTTAAAATCGG
1 TTTTTAAAATCGA
2785752 TTTTTGAAAAT
1 TTTTT-AAAAT
2785763 ATATATCATA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
13 30 0.86
14 5 0.14
ACGTcount: A:0.36, C:0.06, G:0.10, T:0.48
Consensus pattern (13 bp):
TTTTTAAAATCGA
Found at i:2785795 original size:14 final size:14
Alignment explanation
Indices: 2785776--2785802 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2785766 TATCATATAG
2785776 TTTTTGAAAACATT
1 TTTTTGAAAACATT
2785790 TTTTTGAAAACAT
1 TTTTTGAAAACAT
2785803 ATAATATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.48
Consensus pattern (14 bp):
TTTTTGAAAACATT
Found at i:2785799 original size:38 final size:37
Alignment explanation
Indices: 2785752--2785880 Score: 168
Period size: 38 Copynumber: 3.4 Consensus size: 37
2785742 TTAAAATCGG
* *
2785752 TTTTTGAAAATATATATCATATAGTTTTTGAAAACATT
1 TTTTTGAAAACATATAT-ATATAGTTTTTGAAAACATA
* * *
2785790 TTTTTGAAAACATATAATATATAGTTTTTAAAAAAACA
1 TTTTTGAAAACATAT-ATATATAGTTTTTGAAAACATA
* *
2785828 ATTTTGAAAAAATATATAATATAGTTTTTGAAAACATA
1 TTTTTGAAAACATATAT-ATATAGTTTTTGAAAACATA
2785866 TTTTTGAAAACATAT
1 TTTTTGAAAACATAT
2785881 TTTTGAAAAC
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
37 2 0.03
38 73 0.95
39 2 0.03
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.43
Consensus pattern (37 bp):
TTTTTGAAAACATATATATATAGTTTTTGAAAACATA
Found at i:2785871 original size:14 final size:14
Alignment explanation
Indices: 2785852--2785894 Score: 86
Period size: 14 Copynumber: 3.1 Consensus size: 14
2785842 TATAATATAG
2785852 TTTTTGAAAACATA
1 TTTTTGAAAACATA
2785866 TTTTTGAAAACATA
1 TTTTTGAAAACATA
2785880 TTTTTGAAAACATA
1 TTTTTGAAAACATA
2785894 T
1 T
2785895 AATATATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.44
Consensus pattern (14 bp):
TTTTTGAAAACATA
Found at i:2785875 original size:90 final size:91
Alignment explanation
Indices: 2785776--2785972 Score: 308
Period size: 90 Copynumber: 2.2 Consensus size: 91
2785766 TATCATATAG
*
2785776 TTTTTGAAAACATTTTTTTGAAAACATATAATATAT-AGTTTTTAAAAAAACAATTTTGAAAAAA
1 TTTTTGAAAACATATTTTTGAAAACATATAATATATAAGTTTTTAAAAAAA-AATTTTGAAAAAA
2785840 TATATAATATAGTTTTTGAAAACATA-
65 TATATAATATAGTTTTTGAAAACATAT
* ** *
2785866 TTTTTGAAAACATATTTTTGAAAACATATAATATATAATTTTTTAAAAAAAGGTTTTGAAAACAT
1 TTTTTGAAAACATATTTTTGAAAACATATAATATATAAGTTTTTAAAAAAAAATTTTGAAAAAAT
*
2785931 ATATATTATAGTTTTTGAAAACATAT
66 ATATAATATAGTTTTTGAAAACATAT
2785957 TATTTTGAAAACATAT
1 T-TTTTGAAAACATAT
2785973 ATATTTATAG
Statistics
Matches: 98, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
90 70 0.71
91 14 0.14
92 14 0.14
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.42
Consensus pattern (91 bp):
TTTTTGAAAACATATTTTTGAAAACATATAATATATAAGTTTTTAAAAAAAAATTTTGAAAAAAT
ATATAATATAGTTTTTGAAAACATAT
Found at i:2785885 original size:52 final size:52
Alignment explanation
Indices: 2785822--2785932 Score: 131
Period size: 52 Copynumber: 2.2 Consensus size: 52
2785812 AGTTTTTAAA
* * *
2785822 AAAACA-A-TTTTGAAAAAATAT-ATAATATAGTTTTTGAAAACATA-TTTTTG
1 AAAACATATTTTTGAAAAAATATAAT-ATATAATTTTTGAAAA-AAAGGTTTTG
* *
2785872 AAAACATATTTTTGAAAACATATAATATATAATTTTTTAAAAAAAGGTTTTG
1 AAAACATATTTTTGAAAAAATATAATATATAATTTTTGAAAAAAAGGTTTTG
2785924 AAAACATAT
1 AAAACATAT
2785933 ATATTATAGT
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
50 6 0.12
51 3 0.06
52 41 0.79
53 2 0.04
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.39
Consensus pattern (52 bp):
AAAACATATTTTTGAAAAAATATAATATATAATTTTTGAAAAAAAGGTTTTG
Found at i:2785907 original size:38 final size:40
Alignment explanation
Indices: 2785865--2786029 Score: 141
Period size: 38 Copynumber: 4.2 Consensus size: 40
2785855 TTGAAAACAT
2785865 ATTTTTGAAAACATA-TTTTTGAAAACATATAATA-TATA
1 ATTTTTGAAAACATAGTTTTTGAAAACATATAATATTATA
* * *
2785903 ATTTTTTAAAA-AAAGGTTTTGAAAACATAT-ATATTATA
1 ATTTTTGAAAACATAGTTTTTGAAAACATATAATATTATA
* *
2785941 GTTTTTGAAAACATATTATTTTGAAAACATAT-ATATT-T-
1 ATTTTTGAAAACATAGT-TTTTGAAAACATATAATATTATA
** *
2785979 ATAGTT-AAAA-AAAGGTTTTTGAAAACATATATAATATATATA
1 ATTTTTGAAAACATA-GTTTTTGAAAAC--ATATAATAT-TATA
*
2786021 ATATTTGAA
1 ATTTTTGAA
2786030 GATATATTAT
Statistics
Matches: 101, Mismatches: 14, Indels: 19
0.75 0.10 0.14
Matches are distributed among these distances:
36 12 0.12
37 10 0.10
38 44 0.44
39 7 0.07
40 20 0.20
41 1 0.01
42 5 0.05
43 2 0.02
ACGTcount: A:0.47, C:0.04, G:0.08, T:0.42
Consensus pattern (40 bp):
ATTTTTGAAAACATAGTTTTTGAAAACATATAATATTATA
Found at i:2785946 original size:76 final size:76
Alignment explanation
Indices: 2785866--2786016 Score: 218
Period size: 76 Copynumber: 2.0 Consensus size: 76
2785856 TGAAAACATA
**
2785866 TTTTTGAAAACATA-T-TTTTGAAAACATATAATATATAATTTTTTAAAAAAAGG-TTTTGAAAA
1 TTTTTGAAAACATATTATTTTGAAAACATAT-ATAT-TAA-TAGTTAAAAAAAGGTTTTTGAAAA
*
2785928 CATATATATTATAG
63 CATATATAATATAG
*
2785942 TTTTTGAAAACATATTATTTTGAAAACATATATATTTATAGTTAAAAAAAGGTTTTTGAAAACAT
1 TTTTTGAAAACATATTATTTTGAAAACATATATATTAATAGTTAAAAAAAGGTTTTTGAAAACAT
2786007 ATATAATATA
66 ATATAATATA
2786017 TATAATATTT
Statistics
Matches: 68, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
75 12 0.18
76 37 0.54
77 5 0.07
78 14 0.21
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.42
Consensus pattern (76 bp):
TTTTTGAAAACATATTATTTTGAAAACATATATATTAATAGTTAAAAAAAGGTTTTTGAAAACAT
ATATAATATAG
Found at i:2785963 original size:40 final size:38
Alignment explanation
Indices: 2785866--2785984 Score: 143
Period size: 38 Copynumber: 3.1 Consensus size: 38
2785856 TGAAAACATA
*
2785866 TTTTTGAAAACATATTTTTGAAAACATATA-ATATATAA
1 TTTTTGAAAACATATTTTTGAAAACATATATAT-TATAG
* * *
2785904 TTTTTTAAAA-AAAGGTTTTGAAAACATATATATTATAG
1 TTTTTGAAAACATA-TTTTTGAAAACATATATATTATAG
2785942 TTTTTGAAAACATATTATTTTGAAAACATATATATTTATAG
1 TTTTTGAAAACATA-T-TTTTGAAAACATATATA-TTATAG
2785983 TT
1 TT
2785985 AAAAAAAGGT
Statistics
Matches: 68, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
37 2 0.03
38 37 0.54
39 4 0.06
40 17 0.25
41 8 0.12
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.45
Consensus pattern (38 bp):
TTTTTGAAAACATATTTTTGAAAACATATATATTATAG
Found at i:2785964 original size:16 final size:17
Alignment explanation
Indices: 2785943--2785978 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
2785933 ATATTATAGT
2785943 TTTTGAAAACATAT-TA
1 TTTTGAAAACATATATA
2785959 TTTTGAAAACATATATA
1 TTTTGAAAACATATATA
2785976 TTT
1 TTT
2785979 ATAGTTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.47
Consensus pattern (17 bp):
TTTTGAAAACATATATA
Found at i:2786040 original size:24 final size:22
Alignment explanation
Indices: 2786007--2786069 Score: 65
Period size: 24 Copynumber: 2.8 Consensus size: 22
2785997 TTGAAAACAT
*
2786007 ATATAATATATATAATATTTGAA
1 ATATATTATATAT-ATATTTGAA
*
2786030 GATATATTATATATAT-TTTTAA
1 -ATATATTATATATATATTTGAA
*
2786052 ATATATTATGTATTATAT
1 ATATATTATATA-TATAT
2786070 AGTTTTAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
21 11 0.32
22 8 0.24
23 3 0.09
24 12 0.35
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (22 bp):
ATATATTATATATATATTTGAA
Found at i:2786045 original size:21 final size:20
Alignment explanation
Indices: 2786011--2786060 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
2786001 AAACATATAT
2786011 AATATA-TATAATA-TTTGA
1 AATATATTATAATATTTTGA
*
2786029 AGATATATTATATATATTTTTA
1 A-ATATATTATA-ATATTTTGA
2786051 AATATATTAT
1 AATATATTAT
2786061 GTATTATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 1 0.04
19 5 0.19
20 4 0.15
21 12 0.44
22 5 0.19
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (20 bp):
AATATATTATAATATTTTGA
Found at i:2786119 original size:4 final size:4
Alignment explanation
Indices: 2786112--2786142 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
2786102 TATCTTTCTT
2786112 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
2786143 TATATAATTA
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:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:2786768 original size:16 final size:16
Alignment explanation
Indices: 2786747--2786781 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
2786737 TTAATATTTG
2786747 TTTATTATTT-TTCATT
1 TTTATTATTTATT-ATT
2786763 TTTATTATTTATTATT
1 TTTATTATTTATTATT
2786779 TTT
1 TTT
2786782 TTAATATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTATTATTTATTATT
Found at i:2786782 original size:18 final size:18
Alignment explanation
Indices: 2786735--2786803 Score: 54
Period size: 18 Copynumber: 3.9 Consensus size: 18
2786725 ATTTCTCTTA
* *
2786735 ATTTAATATTTGTTTATT
1 ATTTATTATTTTTTTATT
2786753 ATTT-TTCA--TTTTTATT
1 ATTTATT-ATTTTTTTATT
*
2786769 ATTTATTATTTTTTTAAT
1 ATTTATTATTTTTTTATT
* *
2786787 ATTAATTTGTTTTTTTA
1 ATTTA-TTATTTTTTTA
2786804 GGACAATTCT
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
16 12 0.29
17 3 0.07
18 16 0.39
19 10 0.24
ACGTcount: A:0.25, C:0.01, G:0.03, T:0.71
Consensus pattern (18 bp):
ATTTATTATTTTTTTATT
Found at i:2788536 original size:200 final size:199
Alignment explanation
Indices: 2788116--2788594 Score: 617
Period size: 200 Copynumber: 2.4 Consensus size: 199
2788106 TTTACCGATA
* * * *
2788116 ACATTGCAAATTTACCTATTACATTATAATTATCGATTTCGATGTTTTTGGGATCGATACAATTT
1 ACATTGTAAATATACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATAC-TTTT
*
2788181 --TAAATGTATCGACACTTTATGCGTGCACCTCGTTGGACATTAATTTTGGAAAAAAGTATCGAC
65 AATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGACATTAATTCTGGAAAAAAGTATCGAC
* * * *
2788244 ACATATTTAAAAAGTGTAGATATATTATGTTGACCTATTCTCTCATAAAACCGGTATATTTATAC
130 ACAAATTCAAAAAGTGTAGATACATTATGTTGACCTATTCTCTAATAAAACCGGTATATTTATAC
2788309 CGGTT
195 CGGTT
* *
2788314 ACATTGTAAATTTACCTATTACATCATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTA
1 ACATTGTAAATATACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTA
* * * * *
2788379 ATAAATGTATCGGCACTTTATGTGTGCACCTCGTTTGGGCATTCATTCTGGACAATAAGTATCGA
66 ATAAATGTATCGACACTTTATGCGTGCACCTCG-TTGGACATTAATTCTGGA-AAAAAGTATCGA
* * * * * * * * * *
2788444 CACAAATTCCACAAGTGTCGATACATTATGTTTACCTGTTTTGTAAT-TAACCTGTATATTTATG
129 CACAAATTCAAAAAGTGTAGATACATTATGTTGACCTATTCTCTAATAAAACCGGTATATTTATA
2788508 CCGGTT
194 CCGGTT
* *
2788514 ACATTGTTAAA-ATACCTATTACATTATAATTATTGGTTTCGATGTTTTTGGGGTCGATACTTTT
1 ACATTG-TAAATATACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTT
*
2788578 AGA-AAATGTATTGACAC
65 A-ATAAATGTATCGACAC
2788595 ATATTTTTAC
Statistics
Matches: 245, Mismatches: 30, Indels: 10
0.86 0.11 0.04
Matches are distributed among these distances:
197 3 0.01
198 57 0.23
199 30 0.12
200 103 0.42
201 52 0.21
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.39
Consensus pattern (199 bp):
ACATTGTAAATATACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTA
ATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGACATTAATTCTGGAAAAAAGTATCGACA
CAAATTCAAAAAGTGTAGATACATTATGTTGACCTATTCTCTAATAAAACCGGTATATTTATACC
GGTT
Found at i:2791336 original size:19 final size:19
Alignment explanation
Indices: 2791312--2791359 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
2791302 TTACATTCAC
2791312 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
* *
2791331 ATACAAAATTATGAATTGT
1 ATACAAAATTATAAATCGT
2791350 ATACAAAATT
1 ATACAAAATT
2791360 TCCTCTACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.52, C:0.08, G:0.06, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:2793616 original size:199 final size:196
Alignment explanation
Indices: 2792733--2794517 Score: 2417
Period size: 199 Copynumber: 9.0 Consensus size: 196
2792723 GGGTAGTTTA
* *
2792733 AAAAAGTATCGACACAACTTTAAACAGTGTCGATACATTATGTAGACCTATTTT-TAATTAACCG
1 AAAAAGTATCGACACAA-TTTAAAAAGTGTCGATATATTATGTAGACCTATTTTCTAATTAACCG
* * * *
2792797 GTATATTTCTACCAGTTACATTGAAAATTTACCTATTACATTATATTTATCGGT-TTCGATGTTT
65 GTATATTTCTACCGGTTACATTGTAAA-TTACCTATTACATTATAATTATC-TTATTCGATGTTT
* * * * * *
2792861 ATGGGATCGATACTTTTTATAAATATATCGACACTTTATTCGTACACCACGTTACGCATTCTTTC
128 TTGGGATCGATACTTTTTATAAATGTATCGACACTTTATTCGTGCACCTCGTT-GGCATTCATTC
*
2792926 TGGTC
192 TGGAC
* *
2792931 AAAACGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
1 AAAAAGTATCGACAC-AATTTAAAAAGTGTCGATATATTATGTAGACCTATTTTCTAATTAACCG
*
2792996 ATATATTTCTACCGGTTACATTGTAAAGTTACCTATTACATTATAATTATCAGTT-TT-GATGTT
65 GTATATTTCTACCGGTTACATTGTAAA-TTACCTATTACATTATAATTATC--TTATTCGATGTT
** * * * * *
2793059 TTTGGGATCGATACAATTT-TAAATGTATTGACACTTTATGCATGCA-ATCTTTTAGGCATTCAT
127 TTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATTCGTGCACCTC-GTT-GGCATTCAT
*
2793122 TCCGGAC
190 TCTGGAC
* ** * * *
2793129 AAAAAGTTTCGACACAAATTCCACAAGTGTCGATATATGATCTAGACCTATTTTCTAATTAACCG
1 AAAAAGTATCGACAC-AATTTAAAAAGTGTCGATATATTATGTAGACCTATTTTCTAATTAACCG
* *
2793194 GTATATTTCTACCGGTTACATTGTAAAGTTACATATTACATTATAATTATCGGT-TTCGATGTTT
65 GTATATTTCTACCGGTTACATTGTAAA-TTACCTATTACATTATAATTATC-TTATTCGATGTTT
** * * *
2793258 TTGGGATCGATACAATTT-TAAATGTATCGACACTTTATTCGTACACCCCGTTAGGCATTCTTTC
128 TTGGGATCGATACTTTTTATAAATGTATCGACACTTTATTCGTGCACCTCGTT-GGCATTCATTC
* *
2793322 TAGTC
192 TGGAC
* * * * *
2793327 AAAACGTATTGACACAAATTTTAAAAGTATCGATACATTATGTAGACCTATTTTCTAATTAACCG
1 AAAAAGTATCGACAC-AATTTAAAAAGTGTCGATATATTATGTAGACCTATTTTCTAATTAACCG
*
2793392 GTATATTTCTACCGGTTACATTGTAAATTGACCTATTACATTATAATTATCTTATTCGATATTTT
65 GTATATTTCTACCGGTTACATTGTAAATT-ACCTATTACATTATAATTATCTTATTCGATGTTTT
* * *
2793457 TGGGATCGATACTTTTTATAAATGTATCAACACTTTATCCATGCACCTCGGTTGGTCATTCATTC
129 TGGGATCGATACTTTTTATAAATGTATCGACACTTTATTCGTGCACCTC-GTTGG-CATTCATTC
2793522 TGGAC
192 TGGAC
*
2793527 AAAAAGTATTGACACAATTTAAAAAGTGTCGATATATTATGTAGACCTATTTTCTAATTAACCGG
1 AAAAAGTATCGACACAATTTAAAAAGTGTCGATATATTATGTAGACCTATTTTCTAATTAACCGG
*
2793592 TATATATCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCTTATTCGATGTTTTT
66 TATATTTCTACCGGTTACATTGTAAA-TTACCTATTACATTATAATTATCTTATTCGATGTTTTT
**
2793657 GGGATCGATA-TTTTTAATAAATGTATCGACACTTTATTCAAGCACCTCGTTGGGCATTCATTCT
130 GGGATCGATACTTTTT-ATAAATGTATCGACACTTTATTCGTGCACCTCGTT-GGCATTCATTCT
**
2793721 GGTT
193 GGAC
* * * *
2793725 AAAACGTATCGACATAAATTTAAAAAGTGTTGATACATTATGTAGACCTATTTTCTAATTAACCG
1 AAAAAGTATCGACA-CAATTTAAAAAGTGTCGATATATTATGTAGACCTATTTTCTAATTAACCG
*
2793790 GTATATTTCTACCGGTTACATTGGAAATTGACCTATTACATTATAATTATCTTATTCGATGTTTT
65 GTATATTTCTACCGGTTACATTGTAAATT-ACCTATTACATTATAATTATCTTATTCGATGTTTT
*
2793855 TGGGATCGATACTTTTTATAAATGTATCGACACTTTATTCGTGCACCTCGATTGGGTATTCATTC
129 TGGGATCGATACTTTTTATAAATGTATCGACACTTTATTCGTGCACCTCG-TT-GGCATTCATTC
*
2793920 TAGAC
192 TGGAC
* *
2793925 AAAAAGTATTGACACAATTTAAAAAGTGTCGATATATTATGTAAACCTATTTTCTAATTAACCGG
1 AAAAAGTATCGACACAATTTAAAAAGTGTCGATATATTATGTAGACCTATTTTCTAATTAACCGG
*
2793990 TATATATCTACCGGTTACATTGT--ATTACCTATTACATTATAATTATCTTATTCGATGTTTTTG
66 TATATTTCTACCGGTTACATTGTAAATTACCTATTACATTATAATTATCTTATTCGATGTTTTTG
*
2794053 GGATCGATA-TTTTTAATAAATGTATCGACACTTTATTCATGCACCTCGTTGGGCATTCATTCTG
131 GGATCGATACTTTTT-ATAAATGTATCGACACTTTATTCGTGCACCTCGTT-GGCATTCATTCTG
**
2794117 GTT
194 GAC
* * *
2794120 AAAACGTATCAACACAAATTTAAAAAGTGTCGATATATTATGTAGACATATTTTCTAATTAACCG
1 AAAAAGTATCGACAC-AATTTAAAAAGTGTCGATATATTATGTAGACCTATTTTCTAATTAACCG
* * *
2794185 GTATATTTCTACCGGTTACATTGGAAATTGACCTATTACATCATGATTATCTTATTCGATGTTTT
65 GTATATTTCTACCGGTTACATTGTAAATT-ACCTATTACATTATAATTATCTTATTCGATGTTTT
*
2794250 TGGGATCGATACTTTTTATAAATGTATCGAAACTTTATTCGTGCACCTCAGTTGGTCATTCATTC
129 TGGGATCGATACTTTTTATAAATGTATCGACACTTTATTCGTGCACCTC-GTTGG-CATTCATTC
*
2794315 TAGAC
192 TGGAC
* * *
2794320 AAAAAGTATCGACGCAATTTAAAAAGTGTCGATATATTATGTAGACCTATTTTCGAATTAATCGG
1 AAAAAGTATCGACACAATTTAAAAAGTGTCGATATATTATGTAGACCTATTTTCTAATTAACCGG
* * *
2794385 TATATATCTACCGGTTACATTGTGAATTTACCTATTACATTATAATTATCTTATTTGATGTTTTT
66 TATATTTCTACCGGTTACATTGT-AAATTACCTATTACATTATAATTATCTTATTCGATGTTTTT
* *
2794450 GGGATCGATA-TTTTTAATAAATGTATCGACACTTTATTCGTGCAACTCGGTTGGGCATTCATTT
130 GGGATCGATACTTTTT-ATAAATGTATCGACACTTTATTCGTGCACCTC-GTT-GGCATTCATTC
2794514 TGGA
192 TGGA
2794518 GATTACTGAA
Statistics
Matches: 1422, Mismatches: 136, Indels: 57
0.88 0.08 0.04
Matches are distributed among these distances:
195 32 0.02
196 147 0.10
197 11 0.01
198 424 0.30
199 705 0.50
200 103 0.07
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (196 bp):
AAAAAGTATCGACACAATTTAAAAAGTGTCGATATATTATGTAGACCTATTTTCTAATTAACCGG
TATATTTCTACCGGTTACATTGTAAATTACCTATTACATTATAATTATCTTATTCGATGTTTTTG
GGATCGATACTTTTTATAAATGTATCGACACTTTATTCGTGCACCTCGTTGGCATTCATTCTGGA
C
Found at i:2794184 original size:594 final size:593
Alignment explanation
Indices: 2792733--2794512 Score: 2535
Period size: 594 Copynumber: 3.0 Consensus size: 593
2792723 GGGTAGTTTA
* *
2792733 AAAAAGTATCGACACAACTTTAAACAGTGTCGATACATTATGTAGACCTATTTT-TAATTAACCG
1 AAAAAGTATTGACACAA-TTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
* * * *
2792797 GTATATTTCTACCAGTTACATTGAAAATTTACCTATTACATTATATTTATCGGT-TTCGATGTTT
65 GTATATTTCTACCGGTTACATTG--TA-TTACCTATTACATTATAATTATC-TTATTCGATGTTT
* * * * * ** *
2792861 ATGGGATCGATACTTTTTATAAATATATCGACACTTTATTCGTACACCACGTTACGCATTCTTTC
126 TTGGGATCGATACTTTTTATAAATGTATCGACACTTTATTCATGCACCTCGTTGGGCATTCATTC
*
2792926 TGGTCAAAACGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATT
191 TGGTCAAAACGTATCGACACAAATTTAAAAAGTGTCGATATATTATGTAGACCTATTTTCTAATT
* *
2792991 AACCGATATATTTCTACCGGTTACATTGTAAAGTTACCTATTACATTATAATTATCAGTT-TT-G
256 AACCGGTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATC--TTATTCG
** * * * ** *
2793054 ATGTTTTTGGGATCGATACAATTT-TAAATGTATTGACACTTTATGCATGCA-ATCTTTTAGGCA
319 ATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATTCATGCACCTCAGTTGGGCA
* * ** * * *
2793117 TTCATTCCGGACAAAAAGTTTCGACACAAATTCCACAAGTGTCGATATATGATCTAGACCTATTT
384 TTCATTCTGGACAAAAAGTATCGACACAAATTTAAAAAGTGTCGATATATTATGTAGACCTATTT
* * *
2793182 TCTAATTAACCGGTATATTTCTACCGGTTACATTGTAAAGTTACATATTACATTATAATTATCGG
449 TCTAATTAACCGGTATATTTCTACCGGTTACATTGGAAA-TTACCTATTACATTATAATTATC-T
** * *
2793247 T-TTCGATGTTTTTGGGATCGATACAATTT-TAAATGTATCGACACTTTATTCGTACACCCCGTT
512 TATTCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATTCGTGCACCTCGTT
* * *
2793310 AGGCATTCTTTCTAGTC
577 GGGCATTCATTCTAGAC
* * *
2793327 AAAACGTATTGACACAAATTTTAAAAGTATCGATACATTATGTAGACCTATTTTCTAATTAACCG
1 AAAAAGTATTGACAC-AATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
*
2793392 GTATATTTCTACCGGTTACATTGTAAATTGACCTATTACATTATAATTATCTTATTCGATATTTT
65 GTATATTTCTACCGGTTACATTGT--ATT-ACCTATTACATTATAATTATCTTATTCGATGTTTT
* * *
2793457 TGGGATCGATACTTTTTATAAATGTATCAACACTTTATCCATGCACCTCGGTTGGTCATTCATTC
127 TGGGATCGATACTTTTTATAAATGTATCGACACTTTATTCATGCACCTC-GTTGGGCATTCATTC
* * *
2793522 TGGACAAAAAGTATTGACAC-AATTTAAAAAGTGTCGATATATTATGTAGACCTATTTTCTAATT
191 TGGTCAAAACGTATCGACACAAATTTAAAAAGTGTCGATATATTATGTAGACCTATTTTCTAATT
*
2793586 AACCGGTATATATCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCTTATTCGAT
256 AACCGGTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCTTATTCGAT
*
2793651 GTTTTTGGGATCGATA-TTTTTAATAAATGTATCGACACTTTATTCAAGCACCTC-GTTGGGCAT
321 GTTTTTGGGATCGATACTTTTT-ATAAATGTATCGACACTTTATTCATGCACCTCAGTTGGGCAT
** * * * *
2793714 TCATTCTGGTTAAAACGTATCGACATAAATTTAAAAAGTGTTGATACATTATGTAGACCTATTTT
385 TCATTCTGGACAAAAAGTATCGACACAAATTTAAAAAGTGTCGATATATTATGTAGACCTATTTT
2793779 CTAATTAACCGGTATATTTCTACCGGTTACATTGGAAATTGACCTATTACATTATAATTATCTTA
450 CTAATTAACCGGTATATTTCTACCGGTTACATTGGAAATT-ACCTATTACATTATAATTATCTTA
2793844 TTCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATTCGTGCACCTCGATTG
514 TTCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATTCGTGCACCTCG-TTG
*
2793909 GGTATTCATTCTAGAC
578 GGCATTCATTCTAGAC
* *
2793925 AAAAAGTATTGACACAATTTAAAAAGTGTCGATATATTATGTAAACCTATTTTCTAATTAACCGG
1 AAAAAGTATTGACACAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCGG
*
2793990 TATATATCTACCGGTTACATTGTATTACCTATTACATTATAATTATCTTATTCGATGTTTTTGGG
66 TATATTTCTACCGGTTACATTGTATTACCTATTACATTATAATTATCTTATTCGATGTTTTTGGG
2794055 ATCGATA-TTTTTAATAAATGTATCGACACTTTATTCATGCACCTCGTTGGGCATTCATTCTGGT
131 ATCGATACTTTTT-ATAAATGTATCGACACTTTATTCATGCACCTCGTTGGGCATTCATTCTGGT
* * *
2794119 TAAAACGTATCAACACAAATTTAAAAAGTGTCGATATATTATGTAGACATATTTTCTAATTAACC
195 CAAAACGTATCGACACAAATTTAAAAAGTGTCGATATATTATGTAGACCTATTTTCTAATTAACC
* * * *
2794184 GGTATATTTCTACCGGTTACATTGGAAATTGACCTATTACATCATGATTATCTTATTCGATGTTT
260 GGTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCTTATTCGATGTTT
* * *
2794249 TTGGGATCGATACTTTTTATAAATGTATCGAAACTTTATTCGTGCACCTCAGTTGGTCATTCATT
325 TTGGGATCGATACTTTTTATAAATGTATCGACACTTTATTCATGCACCTCAGTTGGGCATTCATT
* * *
2794314 CTAGACAAAAAGTATCGACGC-AATTTAAAAAGTGTCGATATATTATGTAGACCTATTTTCGAAT
390 CTGGACAAAAAGTATCGACACAAATTTAAAAAGTGTCGATATATTATGTAGACCTATTTTCTAAT
* * * *
2794378 TAATCGGTATATATCTACCGGTTACATTGTGAATTTACCTATTACATTATAATTATCTTATTTGA
455 TAACCGGTATATTTCTACCGGTTACATTG-GAAATTACCTATTACATTATAATTATCTTATTCGA
*
2794443 TGTTTTTGGGATCGATA-TTTTTAATAAATGTATCGACACTTTATTCGTGCAACTCGGTTGGGCA
519 TGTTTTTGGGATCGATACTTTTT-ATAAATGTATCGACACTTTATTCGTGCACCTC-GTTGGGCA
2794507 TTCATT
582 TTCATT
2794513 TTGGAGATTA
Statistics
Matches: 1063, Mismatches: 100, Indels: 46
0.88 0.08 0.04
Matches are distributed among these distances:
593 41 0.04
594 432 0.41
595 267 0.25
596 194 0.18
597 100 0.09
598 29 0.03
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (593 bp):
AAAAAGTATTGACACAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCGG
TATATTTCTACCGGTTACATTGTATTACCTATTACATTATAATTATCTTATTCGATGTTTTTGGG
ATCGATACTTTTTATAAATGTATCGACACTTTATTCATGCACCTCGTTGGGCATTCATTCTGGTC
AAAACGTATCGACACAAATTTAAAAAGTGTCGATATATTATGTAGACCTATTTTCTAATTAACCG
GTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCTTATTCGATGTTTT
TGGGATCGATACTTTTTATAAATGTATCGACACTTTATTCATGCACCTCAGTTGGGCATTCATTC
TGGACAAAAAGTATCGACACAAATTTAAAAAGTGTCGATATATTATGTAGACCTATTTTCTAATT
AACCGGTATATTTCTACCGGTTACATTGGAAATTACCTATTACATTATAATTATCTTATTCGATG
TTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATTCGTGCACCTCGTTGGGCATTCA
TTCTAGAC
Found at i:2794326 original size:793 final size:792
Alignment explanation
Indices: 2792733--2794512 Score: 2668
Period size: 793 Copynumber: 2.2 Consensus size: 792
2792723 GGGTAGTTTA
* *
2792733 AAAAAGTATCGACACAACTTTAAACAGTGTCGATACATTATGTAGACCTATTTT-TAATTAACCG
1 AAAAAGTATCGACACAA-TTTAAAAAGTGTCGATATATTATGTAGACCTATTTTCTAATTAACCG
* * * * *
2792797 GTATATTTCTACCAGTTACATTGAAAATTTACCTATTACATTATATTTATCGGT-TTCGATGTTT
65 GTATATATCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATC-TTATTCGATGTTT
* * * * ** *
2792861 ATGGGATCGATACTTTTT-ATAAATATATCGACACTTTATTCGTA-CACCACGTTACGCATTCTT
129 TTGGGATCGATA-TTTTTAATAAATGTATCGACACTTTATTC-AAGCACCTCGTTGGGCATTCAT
2792924 TCTGGTCAAAACGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAA
192 TCTGGTCAAAACGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAA
*
2792989 TTAACCGATATATTTCTACCGGTTACATTGTAAAGTTACCTATTACATTATAATTATCAGTTTTG
257 TTAACCGATATATTTCTACCGGTTACATTGGAAAGTTACCTATTACATTATAATTATCA-TTTTG
* **
2793054 ATGTTTTTGGGATCGATACAATTTTAAATGTATTGACACTTTATGCATGCAATCTTTTAGGCATT
321 ATGTTTTTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCATGCAATCGATTAGGCATT
* * * *
2793119 CATTCCGGACAAAAAGTTTCGACACAAATTCCACAAGTGTCGATATATGATCTAGACCTATTTTC
386 CATTCCAGACAAAAAGTTTCGACACAAATTCAAAAAGTGTCGATATATGATCTAAACCTATTTTC
*
2793184 TAATTAACCGGTATATTTCTACCGGTTACATTGTAAAGTTACATATTACATTATAATTATCGGTT
451 TAATTAACCGGTATATATCTACCGGTTACATTGT-AAGTTACATATTACATTATAATTATCGGTT
*
2793249 TCGATGTTTTTGGGATCGATACAATTTTAAATGTATCGACACTTTATTCGTACACCCCGTTAGGC
515 TCGATGTTTTTGGGATCGATACAATTTTAAATGTATCGACACTTTATTCATACACCCCGTTAGGC
* ** * *
2793314 ATTCTTTCTAGTCAAAACGTATTGACACAAATTTTAAAAGTATCGATACATTATGTAGACCTATT
580 ATTCATTCTAGTCAAAACGTATCAACACAAATTTAAAAAGTATCGATACATTATGTAGACATATT
* *
2793379 TTCTAATTAACCGGTATATTTCTACCGGTTACATTGTAAATTGACCTATTACATTATAATTATCT
645 TTCTAATTAACCGGTATATTTCTACCGGTTACATTGGAAATTGACCTATTACATCATAATTATCT
*
2793444 TATTCGATATTTTTGGGATCGATACTTTTTATAAATGTATCAACACTTTATCCATGCACCTCGGT
710 TATTCGATATTTTTGGGATCGATACTTTTTATAAATGTATCAACACTTTATCCATGCACCTCAGT
*
2793509 TGGTCATTCATTCTGGAC
775 TGGTCATTCATTCTAGAC
*
2793527 AAAAAGTATTGACACAATTTAAAAAGTGTCGATATATTATGTAGACCTATTTTCTAATTAACCGG
1 AAAAAGTATCGACACAATTTAAAAAGTGTCGATATATTATGTAGACCTATTTTCTAATTAACCGG
2793592 TATATATCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCTTATTCGATGTTTTT
66 TATATATCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCTTATTCGATGTTTTT
2793657 GGGATCGATATTTTTAATAAATGTATCGACACTTTATTCAAGCACCTCGTTGGGCATTCATTCTG
131 GGGATCGATATTTTTAATAAATGTATCGACACTTTATTCAAGCACCTCGTTGGGCATTCATTCTG
* * *
2793722 GTTAAAACGTATCGACATAAATTTAAAAAGTGTTGATACATTATGTAGACCTATTTTCTAATTAA
196 GTCAAAACGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAA
*
2793787 CCGGTATATTTCTACCGGTTACATTGGAAA-TTGACCTATTACATTATAATTATC-TTATTCGAT
261 CCGATATATTTCTACCGGTTACATTGGAAAGTT-ACCTATTACATTATAATTATCATT-TT-GAT
** * * * * *
2793850 GTTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATTCGTGCACCTCGATTGGGTATT
323 GTTTTTGGGATCGATACAATTT-TAAATGTATCGACACTTTATGCATGCA-ATCGATTAGGCATT
* * * *
2793915 CATTCTAGACAAAAAGTATT-GACAC-AATTTAAAAAGTGTCGATATATTATGTAAACCTATTTT
386 CATTCCAGACAAAAAGT-TTCGACACAAATTCAAAAAGTGTCGATATATGATCTAAACCTATTTT
* *
2793978 CTAATTAACCGGTATATATCTACCGGTTACATTGT-A-TTACCTATTACATTATAATTATC-TTA
450 CTAATTAACCGGTATATATCTACCGGTTACATTGTAAGTTACATATTACATTATAATTATCGGT-
** * * *
2794040 TTCGATGTTTTTGGGATCGATA-TTTTTAATAAATGTATCGACACTTTATTCATGCACCTCGTTG
514 TTCGATGTTTTTGGGATCGATACAATTT--TAAATGTATCGACACTTTATTCATACACCCCGTTA
* * * *
2794104 GGCATTCATTCTGGTTAAAACGTATCAACACAAATTTAAAAAGTGTCGATATATTATGTAGACAT
577 GGCATTCATTCTAGTCAAAACGTATCAACACAAATTTAAAAAGTATCGATACATTATGTAGACAT
*
2794169 ATTTTCTAATTAACCGGTATATTTCTACCGGTTACATTGGAAATTGACCTATTACATCATGATTA
642 ATTTTCTAATTAACCGGTATATTTCTACCGGTTACATTGGAAATTGACCTATTACATCATAATTA
* * *
2794234 TCTTATTCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGAA-ACTTTATTCGTGCACCT
707 TCTTATTCGATATTTTTGGGATCGATACTTTTTATAAATGTATC-AACACTTTATCCATGCACCT
2794298 CAGTTGGTCATTCATTCTAGAC
771 CAGTTGGTCATTCATTCTAGAC
* * *
2794320 AAAAAGTATCGACGCAATTTAAAAAGTGTCGATATATTATGTAGACCTATTTTCGAATTAATCGG
1 AAAAAGTATCGACACAATTTAAAAAGTGTCGATATATTATGTAGACCTATTTTCTAATTAACCGG
* *
2794385 TATATATCTACCGGTTACATTGTGAATTTACCTATTACATTATAATTATCTTATTTGATGTTTTT
66 TATATATCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCTTATTCGATGTTTTT
** *
2794450 GGGATCGATATTTTTAATAAATGTATCGACACTTTATTCGTGCAACTCGGTTGGGCATTCATT
131 GGGATCGATATTTTTAATAAATGTATCGACACTTTATTCAAGCACCTC-GTTGGGCATTCATT
2794513 TTGGAGATTA
Statistics
Matches: 898, Mismatches: 73, Indels: 30
0.90 0.07 0.03
Matches are distributed among these distances:
791 4 0.00
792 46 0.05
793 442 0.49
794 285 0.32
795 90 0.10
796 29 0.03
797 2 0.00
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (792 bp):
AAAAAGTATCGACACAATTTAAAAAGTGTCGATATATTATGTAGACCTATTTTCTAATTAACCGG
TATATATCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCTTATTCGATGTTTTT
GGGATCGATATTTTTAATAAATGTATCGACACTTTATTCAAGCACCTCGTTGGGCATTCATTCTG
GTCAAAACGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAA
CCGATATATTTCTACCGGTTACATTGGAAAGTTACCTATTACATTATAATTATCATTTTGATGTT
TTTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCATGCAATCGATTAGGCATTCATTC
CAGACAAAAAGTTTCGACACAAATTCAAAAAGTGTCGATATATGATCTAAACCTATTTTCTAATT
AACCGGTATATATCTACCGGTTACATTGTAAGTTACATATTACATTATAATTATCGGTTTCGATG
TTTTTGGGATCGATACAATTTTAAATGTATCGACACTTTATTCATACACCCCGTTAGGCATTCAT
TCTAGTCAAAACGTATCAACACAAATTTAAAAAGTATCGATACATTATGTAGACATATTTTCTAA
TTAACCGGTATATTTCTACCGGTTACATTGGAAATTGACCTATTACATCATAATTATCTTATTCG
ATATTTTTGGGATCGATACTTTTTATAAATGTATCAACACTTTATCCATGCACCTCAGTTGGTCA
TTCATTCTAGAC
Found at i:2794913 original size:138 final size:136
Alignment explanation
Indices: 2794628--2794913 Score: 416
Period size: 138 Copynumber: 2.1 Consensus size: 136
2794618 GTCTCGTTAT
2794628 ACAGAGAAGAAAATATGGATATAAAAGCCCGACCAATCACCAACAACAATTCGGAGATCAATGTC
1 ACAGAGAAGAAAATATGGATATAAAAGCCCGACCAATCACCAACAACAATTCGGAGATCAATGTC
2794693 GTTATATATTCGGCGCATCAACCTAAATGAAACGCGAGGAAATCCTGACCATCATCCTCAAATGT
66 GTTATATATTCGGCGCATCAACCTAAATGAAACGCGAGGAAATCCTGACCATCA--CTCAAATGT
** *** *
2794758 CTCGTTAT
129 AGCAACAA
2794766 ACAGAGAAGAAAATATGGATATAAAAGCCCGACCAATCAACCAACAACAATTCGGAGATCAAATG
1 ACAGAGAAGAAAATATGGATATAAAAGCCCGACCAATC-ACCAACAACAATTCGGAGATC-AATG
*
2794831 TCGTTATATATTCGGCGCAATCAACCTAAATGAAACGCGAGGGAAATCCTGACCATCA-T-AATT
64 TCGTTATATATTCGGCGC-ATCAACCTAAATGAAACGCGA-GGAAATCCTGACCATCACTCAAAT
*
2794894 TTGAGCAACAA
127 GT-AGCAACAA
2794905 ACAG-GAAGA
1 ACAGAGAAGA
2794914 CTGGAAAGGT
Statistics
Matches: 135, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
138 47 0.35
139 28 0.21
140 22 0.16
141 21 0.16
142 17 0.13
ACGTcount: A:0.41, C:0.22, G:0.17, T:0.20
Consensus pattern (136 bp):
ACAGAGAAGAAAATATGGATATAAAAGCCCGACCAATCACCAACAACAATTCGGAGATCAATGTC
GTTATATATTCGGCGCATCAACCTAAATGAAACGCGAGGAAATCCTGACCATCACTCAAATGTAG
CAACAA
Found at i:2796497 original size:6 final size:6
Alignment explanation
Indices: 2796485--2796518 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
2796475 ATCATTATCA
* *
2796485 TCATCT TCTTCT TCATCT TCATCG TCATCT TCAT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCAT
2796519 TGACCGCTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.15, C:0.32, G:0.03, T:0.50
Consensus pattern (6 bp):
TCATCT
Found at i:2797686 original size:18 final size:18
Alignment explanation
Indices: 2797665--2797709 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
2797655 GAAGCGATTG
2797665 GTTGAGAAGGAGGTTTTC
1 GTTGAGAAGGAGGTTTTC
*
2797683 GTTGAGAATGAGGTTTTC
1 GTTGAGAAGGAGGTTTTC
2797701 GTTGAGAAG
1 GTTGAGAAG
2797710 AGCTTGGTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.24, C:0.04, G:0.38, T:0.33
Consensus pattern (18 bp):
GTTGAGAAGGAGGTTTTC
Found at i:2797721 original size:15 final size:15
Alignment explanation
Indices: 2797701--2797744 Score: 79
Period size: 15 Copynumber: 2.9 Consensus size: 15
2797691 TGAGGTTTTC
2797701 GTTGAGAAGAGCTTG
1 GTTGAGAAGAGCTTG
*
2797716 GTTGAGAAGACCTTG
1 GTTGAGAAGAGCTTG
2797731 GTTGAGAAGAGCTT
1 GTTGAGAAGAGCTT
2797745 TGAGAAAGAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.27, C:0.09, G:0.36, T:0.27
Consensus pattern (15 bp):
GTTGAGAAGAGCTTG
Found at i:2798441 original size:201 final size:201
Alignment explanation
Indices: 2798079--2799245 Score: 1616
Period size: 201 Copynumber: 5.8 Consensus size: 201
2798069 GCAAAATTTA
* * * *
2798079 AAAAAATATCGACACAAGCA-TAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCTTAAAAC
1 AAAAAGTATCGACACAA-AATTAAAAAGTGTCGATACATTATGTAGAACTATTCTCTCATAAAAC
* * * * * *
2798143 TAGTATATTTATA-CAGATCACAATAAAAAATTACCTATTACATTATAATTATGAGTTTCGATGT
65 TGGTATATTTATACCAG-TTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATAT
* * * * *
2798207 TTTTGGGATCGTTACTTTTCATAAATGTATCGACACTTTATGCATGCACCTAGTTTGGGCCTTCA
129 TTTTGGGATCGATACTTTTTATAAATATATCGACACTTTATGCGTGCACCTAGTTTGGGCATTCA
*
2798272 TTTTGGAC
194 TTCTGGAC
* * * *
2798280 AAAAAGTATCGACACAAAATTAAAAAGTATTGATACAATATGTAGAACTATTCTCTCTTAAAACC
1 AAAAAGTATCGACACAAAATTAAAAAGTGTCGATACATTATGTAGAACTATTCTCTCATAAAA-C
*
2798345 T-GTATATTTATACCTGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATATT
65 TGGTATATTTATACCAGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATATT
* *
2798409 TTTGGGATCGATACTTTTTATAAATATATCGACATTTTATGTGTGCACCTAGTTTGGGCATTCAT
130 TTTGGGATCGATACTTTTTATAAATATATCGACACTTTATGCGTGCACCTAGTTTGGGCATTCAT
*
2798474 TCTGAAC
195 TCTGGAC
* * *
2798481 AAAAAGTATGGACACAAACTTAAAAAGTGTTGATACA-T-TGTAG-ACATATTCTCTCATAAAAC
1 AAAAAGTATCGACACAAAATTAAAAAGTGTCGATACATTATGTAGAAC-TATTCTCTCATAAAAC
* *
2798543 CGGTATATTTATACCAGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTTGATATT
65 TGGTATATTTATACCAGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATATT
** *
2798608 TTTGGGATCGATACAATTTATAAATATATCGACACTTTATGCGTGCACCTAGTTTGGGTATTCAT
130 TTTGGGATCGATACTTTTTATAAATATATCGACACTTTATGCGTGCACCTAGTTTGGGCATTCAT
2798673 TCTGGAC
195 TCTGGAC
* * *
2798680 GAAAAGTATCGACACAAACTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACT
1 AAAAAGTATCGACACAAAATTAAAAAGTGTCGATACATTATGTAGAACTATTCTCTCATAAAACT
*
2798745 GGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATATTT
66 GGTATATTTATACCAGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATATTT
* * * * * *
2798810 TTGGGATCGATACTTTTTATAAATATATCAACACTTTTTGCTTGCACCTACTTTGAGTATTCATT
131 TTGGGATCGATACTTTTTATAAATATATCGACACTTTATGCGTGCACCTAGTTTGGGCATTCATT
*
2798875 CTAGAC
196 CTGGAC
* * *
2798881 GAAAAGTATCGACACAAACTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACT
1 AAAAAGTATCGACACAAAATTAAAAAGTGTCGATACATTATGTAGAACTATTCTCTCATAAAACT
* ** *
2798946 GGAATATTTATACTGGTTACATTAAAAAAATTACCTATTACATTATAATTATGGGTTTCGATATT
66 GGTATATTTATACCAGTTACATT-GAAAAATTACCTATTACATTATAATTATGGGTTTCGATATT
*
2799011 TTT-GGATCGATACTTTTTATAAATATATCGACACTTTATGCGTACACCTAGTTTGGGCATTCAT
130 TTTGGGATCGATACTTTTTATAAATATATCGACACTTTATGCGTGCACCTAGTTTGGGCATTCAT
*
2799075 TTTGGAC
195 TCTGGAC
* *
2799082 AAAAAGTATCGACACAAACA-TAAAAAGTGTTGATACATTATGTAG-ACTTATTCTCTCTTAAAA
1 AAAAAGTATCGACACAAA-ATTAAAAAGTGTCGATACATTATGTAGAAC-TATTCTCTCATAAAA
*** * * * **
2799145 CCAATATATATATACCGGTTACATTGAAAAATTACATATTACATTATAATTATAAGTTTCGAT-T
64 CTGGTATATTTATACCAGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATAT
* *
2799209 GTTTTGGGATCGATACTTTTCATAAATGTATCGACAC
129 -TTTTGGGATCGATACTTTTTATAAATATATCGACAC
2799246 ATCTGTTTAC
Statistics
Matches: 875, Mismatches: 78, Indels: 26
0.89 0.08 0.03
Matches are distributed among these distances:
198 3 0.00
199 181 0.21
200 42 0.05
201 601 0.69
202 48 0.05
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (201 bp):
AAAAAGTATCGACACAAAATTAAAAAGTGTCGATACATTATGTAGAACTATTCTCTCATAAAACT
GGTATATTTATACCAGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATATTT
TTGGGATCGATACTTTTTATAAATATATCGACACTTTATGCGTGCACCTAGTTTGGGCATTCATT
CTGGAC
Found at i:2798859 original size:400 final size:401
Alignment explanation
Indices: 2798079--2799245 Score: 1731
Period size: 400 Copynumber: 2.9 Consensus size: 401
2798069 GCAAAATTTA
* * * *
2798079 AAAAAATATCGACACAAGCATAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCTTAAAACT
1 AAAAAGTATCGACACAAACTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACT
* * * * *
2798144 AGTATATTTATA-CAGATCACAATAAAAAATTACCTATTACATTATAATTATGAGTTTCGATGTT
66 GGTATATTTATACCAG-TTACATTAAAAAATTACCTATTACATTATAATTATGGGTTTCGATATT
* * * *
2798208 TTTGGGATCGTTACTTTTCATAAATGTATCGACACTTTATGCATGCACCTAGTTTGGGCCTTCAT
130 TTTGGGATCGATACTTTT-ATAAATATATCGACACTTTATGCGTGCACCTAGTTTGGGCATTCAT
* * * *
2798273 TTTGGACAAAAAGTATCGACACAAAATTAAAAAGTATTGATACAATATGTAGAACTATTCTCTCT
194 TTTGGACAAAAAGTATCGACACAAACTTAAAAAGTGTTGATACATTATGTAGACCTATTCTCTCT
*
2798338 TAAAACCTGTATATTTATACCTGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTC
259 TAAAA-CTGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTC
* *
2798403 GATATTTTTGGGATCGATACTTTTTATAAATATATCGACA-TTTTATGTGTGCACCTAGTTTGGG
323 GATATTTTTGGGATCGATACTTTTTATAAATATATCGACACTTTTATGTGTGCACCTACTTTGAG
2798467 CATTCATTCT-GAAC
388 CATTCATTCTAG-AC
* * * *
2798481 AAAAAGTATGGACACAAACTTAAAAAGTGTTGATACA-T-TGTAGACATATTCTCTCATAAAACC
1 AAAAAGTATCGACACAAACTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACT
* *
2798544 GGTATATTTATACCAGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTTGATATTT
66 GGTATATTTATACCAGTTACATTAAAAAATTACCTATTACATTATAATTATGGGTTTCGATATTT
* *
2798609 TTGGGATCGATACAATTTATAAATATATCGACACTTTATGCGTGCACCTAGTTTGGGTATTCATT
131 TTGGGATCGATAC-TTTTATAAATATATCGACACTTTATGCGTGCACCTAGTTTGGGCATTCATT
* * * *
2798674 CTGGACGAAAAGTATCGACACAAACTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCAT
195 TTGGACAAAAAGTATCGACACAAACTTAAAAAGTGTTGATACATTATGTAGACCTATTCTCTCTT
2798739 AAAACTGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCG
260 AAAACT-GTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCG
*
2798804 ATATTTTTGGGATCGATACTTTTTATAAATATATCAACACTTTT-TGCT-TGCACCTACTTTGAG
324 ATATTTTTGGGATCGATACTTTTTATAAATATATCGACACTTTTATG-TGTGCACCTACTTTGAG
*
2798867 TATTCATTCTAGAC
388 CATTCATTCTAGAC
*
2798881 GAAAAGTATCGACACAAACTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACT
1 AAAAAGTATCGACACAAACTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACT
* **
2798946 GGAATATTTATACTGGTTACATTAAAAAAATTACCTATTACATTATAATTATGGGTTTCGATATT
66 GGTATATTTATACCAGTTACATT-AAAAAATTACCTATTACATTATAATTATGGGTTTCGATATT
*
2799011 TTT-GGATCGATACTTTTTATAAATATATCGACACTTTATGCGTACACCTAGTTTGGGCATTCAT
130 TTTGGGATCGATAC-TTTTATAAATATATCGACACTTTATGCGTGCACCTAGTTTGGGCATTCAT
* *
2799075 TTTGGACAAAAAGTATCGACACAAACATAAAAAGTGTTGATACATTATGTAGACTTATTCTCTCT
194 TTTGGACAAAAAGTATCGACACAAACTTAAAAAGTGTTGATACATTATGTAGACCTATTCTCTCT
** * * **
2799140 TAAAACCAATATATATATACCGGTTACATTGAAAAATTACATATTACATTATAATTATAAGTTTC
259 TAAAA-CTGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTC
* *
2799205 GAT-TGTTTTGGGATCGATACTTTTCATAAATGTATCGACAC
323 GATAT-TTTTGGGATCGATACTTTTTATAAATATATCGACAC
2799246 ATCTGTTTAC
Statistics
Matches: 691, Mismatches: 63, Indels: 22
0.89 0.08 0.03
Matches are distributed among these distances:
399 2 0.00
400 347 0.50
401 15 0.02
402 284 0.41
403 43 0.06
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (401 bp):
AAAAAGTATCGACACAAACTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACT
GGTATATTTATACCAGTTACATTAAAAAATTACCTATTACATTATAATTATGGGTTTCGATATTT
TTGGGATCGATACTTTTATAAATATATCGACACTTTATGCGTGCACCTAGTTTGGGCATTCATTT
TGGACAAAAAGTATCGACACAAACTTAAAAAGTGTTGATACATTATGTAGACCTATTCTCTCTTA
AAACTGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGAT
ATTTTTGGGATCGATACTTTTTATAAATATATCGACACTTTTATGTGTGCACCTACTTTGAGCAT
TCATTCTAGAC
Found at i:2799717 original size:19 final size:19
Alignment explanation
Indices: 2799693--2799739 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
2799683 TTACATTCAC
2799693 ATACAAAATTATAAACCAT
1 ATACAAAATTATAAACCAT
* *
2799712 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAACCAT
2799731 ATACAAAAT
1 ATACAAAAT
2799740 GAACCCTAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (19 bp):
ATACAAAATTATAAACCAT
Found at i:2801664 original size:15 final size:15
Alignment explanation
Indices: 2801646--2801687 Score: 75
Period size: 15 Copynumber: 2.8 Consensus size: 15
2801636 TTTCCCTCAT
*
2801646 CGTCATCTCCCTGAC
1 CGTCATCCCCCTGAC
2801661 CGTCATCCCCCTGAC
1 CGTCATCCCCCTGAC
2801676 CGTCATCCCCCT
1 CGTCATCCCCCT
2801688 ACAACCATCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.12, C:0.52, G:0.12, T:0.24
Consensus pattern (15 bp):
CGTCATCCCCCTGAC
Found at i:2804238 original size:182 final size:182
Alignment explanation
Indices: 2803927--2804767 Score: 1228
Period size: 182 Copynumber: 4.6 Consensus size: 182
2803917 TACGCATACT
* *
2803927 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTGTCATTTCGAGACCG
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGAGATTTACCGGTTTTGTCATTTCGAGACCG
*
2803992 GTTTTGTCATATTTTTACCTGTTATATCGTTATGAATCGATACATTTTTATAAAGTATCGACACT
66 GTTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTTTTATAAAGTATCGACACT
*
2804057 TTATAGGCGCTATTACTGCTTCTGTTTTAAATTCCCAAAGTGTCGATACTTA
131 TTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCCAAAGTGTCGATACTTA
* *
2804109 TATAAAAGTATCGACACTTTCAATATATCCGGTAGAGATTTACCGGTTTCGTCATTTCGAGACCG
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGAGATTTACCGGTTTTGTCATTTCGAGACCG
* *
2804174 ATTTTGTCATATTTTTACCTGTTATATCGTTATGGGTCGATACATTTTTATAAAGTATCGACACT
66 GTTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTTTTATAAAGTATCGACACT
* *
2804239 TTATAGGCGCTACTACTTCTTCTCTTTTAAATTCCCAAAGTGTCGATACTTA
131 TTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCCAAAGTGTCGATACTTA
* ** * *
2804291 TATTAAAGTATCGACACTTTCAATATATCTGGTCTAGATTTACCGGTTTTGTCATTTTGAGACAG
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGAGATTTACCGGTTTTGTCATTTCGAGACCG
* * * * * *
2804356 ATTTTTTCATATTTTTACCTATTATATTGTTATGG--GGATACATTTTTTATAAAGTATCAACAC
66 GTTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACA-TTTTTATAAAGTATCGACAC
*
2804419 TTTATAGGCGCTATTACTGCGTCTCTTTTAAATTCCCAAAGTGTCGATACTTA
130 TTTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCCAAAGTGTCGATACTTA
* * * * *
2804472 TATTAAAGTATCAACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTGCCTTTTCGAGACCG
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGAGATTTACCGGTTTTGTCATTTCGAGACCG
* *
2804537 GTTTTGTCAAATTTTTACCTGTTATATCGTTATGGATCGATACATTTTTATAAACTATCGACACT
66 GTTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTTTTATAAAGTATCGACACT
2804602 TTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCCAAAGTGTCGATACTTA
131 TTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCCAAAGTGTCGATACTTA
** * * * *
2804654 T-TTCAATCTAATCGATACTTTCAACATATCAGGTAGCA-TTTTACCGGTTTTGTCATAATT--A
1 TATT-AAAGT-ATCGACACTTTCAATATATCCGGTAG-AGATTTACCGGTTTTGTCAT--TTCGA
* * * *
2804715 AACCGGTTTTGTCATA-TTTTACATGTTATATTGATATGGATCGATACATTTTT
61 GACCGGTTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTTTT
2804768 TATTTGGATC
Statistics
Matches: 592, Mismatches: 59, Indels: 16
0.89 0.09 0.02
Matches are distributed among these distances:
180 6 0.01
181 156 0.26
182 370 0.62
183 58 0.10
185 2 0.00
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (182 bp):
TATTAAAGTATCGACACTTTCAATATATCCGGTAGAGATTTACCGGTTTTGTCATTTCGAGACCG
GTTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTTTTATAAAGTATCGACACT
TTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCCAAAGTGTCGATACTTA
Found at i:2804598 original size:363 final size:362
Alignment explanation
Indices: 2803927--2804770 Score: 1223
Period size: 363 Copynumber: 2.3 Consensus size: 362
2803917 TACGCATACT
* * *
2803927 TATTAAAGTATCGACACTTTCAATATATCCGG-TAGCGCTTTACCGGTTTTGTCATTTCGAGACC
1 TATTAAAGTATCGACACTTTCAATATATCAGGTTA--GATTTACCGGTTTTGTCATTTTGAGACC
* * *
2803991 GGTTTTGTCATATTTTTACCTGTTATATCGTTATGAATCGATACA-TTTTTATAAAGTATCGACA
64 GGTTTTGTCATATTTTTACCTGTTATATTGTTATG--GCGATACATTTTTTATAAAGTATCAACA
* *
2804055 CTTTATAGGCGCTATTACTGCTTCTGTTTTAAATTCCCAAAGTGTCGATACTTATATAAAAGTAT
127 CTTTATAGGCGCTATTACTGCGTCTCTTTTAAATTCCCAAAGTGTCGATACTTATATAAAAGTAT
* * *
2804120 CGACACTTTCAATATATCCGGTAGAGATTTACCGGTTTCGTCATTTCGAGACCGATTTTGTCATA
192 CAACACTTTCAATATATCCGGTAGAGATTTACCGGTTTCGCCATTTCGAGACCGATTTTGTCAAA
* *
2804185 TTTTTACCTGTTATATCGTTATGGGTCGATACATTTTTATAAAGTATCGACACTTTATAGGCGCT
257 TTTTTACCTGTTATATCGTTATGGATCGATACATTTTTATAAACTATCGACACTTTATAGGCGCT
*
2804250 ACTACTTCTTCTCTTTTAAATTCCCAAAGTGTCGATACTTA
322 ACTACTGCTTCTCTTTTAAATTCCCAAAGTGTCGATACTTA
* *
2804291 TATTAAAGTATCGACACTTTCAATATATCTGGTCTAGATTTACCGGTTTTGTCATTTTGAGACAG
1 TATTAAAGTATCGACACTTTCAATATATCAGGT-TAGATTTACCGGTTTTGTCATTTTGAGACCG
* * * *
2804356 ATTTTTTCATATTTTTACCTATTATATTGTTATGGGGATACATTTTTTATAAAGTATCAACACTT
65 GTTTTGTCATATTTTTACCTGTTATATTGTTATGGCGATACATTTTTTATAAAGTATCAACACTT
*
2804421 TATAGGCGCTATTACTGCGTCTCTTTTAAATTCCCAAAGTGTCGATACTTATATTAAAGTATCAA
130 TATAGGCGCTATTACTGCGTCTCTTTTAAATTCCCAAAGTGTCGATACTTATATAAAAGTATCAA
* * * * *
2804486 CACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTGCCTTTTCGAGACCGGTTTTGTCAAATTT
195 CACTTTCAATATATCCGGTAGAGATTTACCGGTTTCGCCATTTCGAGACCGATTTTGTCAAATTT
*
2804551 TTACCTGTTATATCGTTATGGATCGATACATTTTTATAAACTATCGACACTTTATAGGCGCTATT
260 TTACCTGTTATATCGTTATGGATCGATACATTTTTATAAACTATCGACACTTTATAGGCGCTACT
2804616 ACTGCTTCTCTTTTAAATTCCCAAAGTGTCGATACTTA
325 ACTGCTTCTCTTTTAAATTCCCAAAGTGTCGATACTTA
** * * * *
2804654 T-TTCAATCTAATCGATACTTTCAACATATCAGG-TAGCATTTTACCGGTTTTGTCATAATT-AA
1 TATT-AAAGT-ATCGACACTTTCAATATATCAGGTTAG-A-TTTACCGGTTTTGTCAT-TTTGAG
* *
2804716 ACCGGTTTTGTCATA-TTTTACATGTTATATTGATATGGATCGATACATTTTTTAT
61 ACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGG--CGATACATTTTTTAT
2804771 TTGGATCGAC
Statistics
Matches: 430, Mismatches: 40, Indels: 19
0.88 0.08 0.04
Matches are distributed among these distances:
362 11 0.03
363 264 0.61
364 137 0.32
365 16 0.04
366 2 0.00
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (362 bp):
TATTAAAGTATCGACACTTTCAATATATCAGGTTAGATTTACCGGTTTTGTCATTTTGAGACCGG
TTTTGTCATATTTTTACCTGTTATATTGTTATGGCGATACATTTTTTATAAAGTATCAACACTTT
ATAGGCGCTATTACTGCGTCTCTTTTAAATTCCCAAAGTGTCGATACTTATATAAAAGTATCAAC
ACTTTCAATATATCCGGTAGAGATTTACCGGTTTCGCCATTTCGAGACCGATTTTGTCAAATTTT
TACCTGTTATATCGTTATGGATCGATACATTTTTATAAACTATCGACACTTTATAGGCGCTACTA
CTGCTTCTCTTTTAAATTCCCAAAGTGTCGATACTTA
Found at i:2804940 original size:11 final size:12
Alignment explanation
Indices: 2804917--2804950 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
2804907 ATATATCCGG
2804917 TAACGTCGTATAT
1 TAAC-TCGTATAT
2804930 TAACT-GTATAT
1 TAACTCGTATAT
2804941 TAACTCGTAT
1 TAACTCGTAT
2804951 TTCCTGAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 11 0.55
12 5 0.25
13 4 0.20
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (12 bp):
TAACTCGTATAT
Found at i:2805594 original size:23 final size:23
Alignment explanation
Indices: 2805567--2805656 Score: 162
Period size: 23 Copynumber: 3.9 Consensus size: 23
2805557 AATATATTAG
2805567 GTAGCGCTTATATAATGTAATAT
1 GTAGCGCTTATATAATGTAATAT
*
2805590 ATAGCGCTTATATAATGTAATAT
1 GTAGCGCTTATATAATGTAATAT
*
2805613 GTAGCACTTATATAATGTAATAT
1 GTAGCGCTTATATAATGTAATAT
2805636 GTAGCGCTTATATAATGTAAT
1 GTAGCGCTTATATAATGTAAT
2805657 TGGCATTTAA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 63 1.00
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.39
Consensus pattern (23 bp):
GTAGCGCTTATATAATGTAATAT
Found at i:2805605 original size:46 final size:46
Alignment explanation
Indices: 2805555--2805656 Score: 150
Period size: 46 Copynumber: 2.2 Consensus size: 46
2805545 ATAAAGTACA
* *
2805555 ATAATATATTAGGTAGCGCTTATATAATGTAATATATAGCGCTTAT
1 ATAATATAATAGGTAGCACTTATATAATGTAATATATAGCGCTTAT
* * *
2805601 ATAATGTAATATGTAGCACTTATATAATGTAATATGTAGCGCTTAT
1 ATAATATAATAGGTAGCACTTATATAATGTAATATATAGCGCTTAT
*
2805647 ATAATGTAAT
1 ATAATATAAT
2805657 TGGCATTTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 51 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.39
Consensus pattern (46 bp):
ATAATATAATAGGTAGCACTTATATAATGTAATATATAGCGCTTAT
Found at i:2805723 original size:23 final size:23
Alignment explanation
Indices: 2805688--2805732 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
2805678 ATCAAATACA
*
2805688 ATAACATATTAGGTAGCACTTAC
1 ATAACATAATAGGTAGCACTTAC
* *
2805711 ATAATATAATAGGTAGCGCTTA
1 ATAACATAATAGGTAGCACTTA
2805733 TATTGATCTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (23 bp):
ATAACATAATAGGTAGCACTTAC
Found at i:2808719 original size:201 final size:201
Alignment explanation
Indices: 2808374--2808818 Score: 763
Period size: 201 Copynumber: 2.2 Consensus size: 201
2808364 ATTTACAAAT
* *
2808374 TTTACCTATTATATTATACTTATGGATGCATATGTTTCTAGGATCGACACTTTTTGAAAATGTAT
1 TTTACCTATTACATTATACTTATGGATGCATATGTTTCTGGGATCGACACTTTTTGAAAATGTAT
* * * *
2808439 CGACCCTTTATGCGTTCACCCTTTTTGGCATCCATTATGGAGCAAAAGTATCGACACAAAATTAA
66 CGACACTTTATACGTTCACCCTTTTTGGCAGCCATTATGGACCAAAAGTATCGACACAAAATTAA
*
2808504 ACAAATGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGTATATTTATACCGGTTACAT
131 ACAAATGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGTATATTTATACCAGTTACAT
2808569 TGTAAA
196 TGTAAA
2808575 TTTACCTATTACATTATACTTATGGATGCATATGTTTCTGGGATCGACACTTTTTGAAAATGTAT
1 TTTACCTATTACATTATACTTATGGATGCATATGTTTCTGGGATCGACACTTTTTGAAAATGTAT
*
2808640 CGACACTTTATACGTTCACCCTTTTTGGCAGCCATTCTGGACCAAAAGTATCGACACAAAATTAA
66 CGACACTTTATACGTTCACCCTTTTTGGCAGCCATTATGGACCAAAAGTATCGACACAAAATTAA
* * *
2808705 ACAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAATCGGTATATTTATACTAGTTACAT
131 ACAAATGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGTATATTTATACCAGTTACAT
2808770 TGTAAA
196 TGTAAA
2808776 TTTACCTATTACA-T-TA--TATGGATGCATATGTTTCTGGGATCGA
1 TTTACCTATTACATTATACTTATGGATGCATATGTTTCTGGGATCGA
2808819 TAAATTTTAC
Statistics
Matches: 233, Mismatches: 11, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
197 27 0.12
199 2 0.01
200 1 0.00
201 203 0.87
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (201 bp):
TTTACCTATTACATTATACTTATGGATGCATATGTTTCTGGGATCGACACTTTTTGAAAATGTAT
CGACACTTTATACGTTCACCCTTTTTGGCAGCCATTATGGACCAAAAGTATCGACACAAAATTAA
ACAAATGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGTATATTTATACCAGTTACAT
TGTAAA
Found at i:2810725 original size:20 final size:20
Alignment explanation
Indices: 2810700--2810770 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
2810690 GCGCTTTATT
*
2810700 GGTTTTATCATTTTGATATC
1 GGTTTTATCATTTTGATACC
2810720 GGTTTTATCATTTTGATACC
1 GGTTTTATCATTTTGATACC
2810740 GGTTTTATCATTTTGATACC
1 GGTTTTATCATTTTGATACC
*
2810760 GATTTTATCAT
1 GGTTTTATCAT
2810771 ATTTTTACCT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.21, C:0.13, G:0.14, T:0.52
Consensus pattern (20 bp):
GGTTTTATCATTTTGATACC
Found at i:2813715 original size:2 final size:2
Alignment explanation
Indices: 2813708--2813757 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
2813698 CGACTCAATA
2813708 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
2813750 AT AT AT AT
1 AT AT AT AT
2813758 TCATTTTTAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2815938 original size:26 final size:26
Alignment explanation
Indices: 2815909--2816009 Score: 175
Period size: 26 Copynumber: 3.9 Consensus size: 26
2815899 TGAGCAGAGA
*
2815909 AGGATCTCTCGGCGTCTTGGGCATGC
1 AGGATCTCTCGGCGTCTTGTGCATGC
*
2815935 AGGATCTCTCGGCGTCTTGTGCATGG
1 AGGATCTCTCGGCGTCTTGTGCATGC
*
2815961 AGTATCTCTCGGCGTCTTGTGCATGC
1 AGGATCTCTCGGCGTCTTGTGCATGC
2815987 AGGATCTCTCGGCGTCTTGTGCA
1 AGGATCTCTCGGCGTCTTGTGCA
2816010 GGGAGTAAGC
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 70 1.00
ACGTcount: A:0.12, C:0.26, G:0.32, T:0.31
Consensus pattern (26 bp):
AGGATCTCTCGGCGTCTTGTGCATGC
Found at i:2816085 original size:36 final size:36
Alignment explanation
Indices: 2816037--2816127 Score: 127
Period size: 36 Copynumber: 2.6 Consensus size: 36
2816027 ATGCAGGATC
2816037 TCTCGGCGTCTTC-T--TCAGCCTT-GTGGGTGGAGT
1 TCTCGGCGTCTTCTTCATCAGCCTTGGT-GGTGGAGT
*
2816070 TCTCGGCGTCTTCTTCACCAGCCTTGGTGGTGGAGT
1 TCTCGGCGTCTTCTTCATCAGCCTTGGTGGTGGAGT
*
2816106 TCTCGGTGTCTTCTTCATCAGC
1 TCTCGGCGTCTTCTTCATCAGC
2816128 ATCATTCATC
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
33 13 0.25
34 1 0.02
36 35 0.69
37 2 0.04
ACGTcount: A:0.08, C:0.27, G:0.29, T:0.36
Consensus pattern (36 bp):
TCTCGGCGTCTTCTTCATCAGCCTTGGTGGTGGAGT
Found at i:2820292 original size:19 final size:21
Alignment explanation
Indices: 2820247--2820298 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
2820237 TTTAATTAAA
* *
2820247 TAATTATAAAAATCAACAAAT
1 TAATAATATAAATCAACAAAT
2820268 TAATAA-ATAAAT-AACAATAT
1 TAATAATATAAATCAACAA-AT
2820288 T-ATAATATAAA
1 TAATAATATAAA
2820299 CATAATAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 9 0.33
20 13 0.48
21 5 0.19
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (21 bp):
TAATAATATAAATCAACAAAT
Found at i:2820303 original size:22 final size:21
Alignment explanation
Indices: 2820240--2820303 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 21
2820230 GTTATTATTT
2820240 AATTAAATAATTATAAAAATCAACA
1 AATT-AATAA-TAT-AAAAT-AACA
2820265 AATTAATAA-AT-AAATAACA
1 AATTAATAATATAAAATAACA
2820284 ATATT-ATAATATAAACATAA
1 A-ATTAATAATATAAA-ATAA
2820304 TAAAAAATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
19 9 0.26
20 9 0.26
21 2 0.06
22 6 0.17
24 5 0.14
25 4 0.11
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (21 bp):
AATTAATAATATAAAATAACA
Found at i:2821791 original size:173 final size:173
Alignment explanation
Indices: 2821498--2821857 Score: 596
Period size: 173 Copynumber: 2.1 Consensus size: 173
2821488 CATCAAATAT
* *
2821498 AAAATGATCCTTAATTACTATTTGCTTCTCAACATTTTCAAACTTTGCAATTTAATCACTAAATT
1 AAAATGATCCCTAATTACTATTTGCTTCTCAACATTTTCAAACTTAGCAATTTAATCACTAAATT
* *
2821563 TATAAATTCTTTCAAATTTAACCAATTAAGCATATTAATACTAAATTCAAGCATAGTATACCAAC
66 TATAAATTCTTTCAAATTTAACCAATTAAGCATACTAATACTAAATTCAAGCATAGTACACCAAC
*
2821628 TTTTTATAATTTACTCTAATTCCTTAAATTCCTCAAATTTTAC
131 TTTTAATAATTTACTCTAATTCCTTAAATTCCTCAAATTTTAC
*
2821671 AAAATGATCCCTAATTACTATTTGGTTCTCAACATTTTCAAACTTAGCAATTTAAT-ACCTAAAT
1 AAAATGATCCCTAATTACTATTTGCTTCTCAACATTTTCAAACTTAGCAATTTAATCA-CTAAAT
* *
2821735 TTATAAATTCTTTCAAATTTAACCAATTAAGCATACTAATACTAAATTCCAGCATAGTACAGCAA
65 TTATAAATTCTTTCAAATTTAACCAATTAAGCATACTAATACTAAATTCAAGCATAGTACACCAA
* *
2821800 CTTTTAATAATTTACTCTTATTCCTTAAATTCCTTAAATTTTAC
130 CTTTTAATAATTTACTCTAATTCCTTAAATTCCTCAAATTTTAC
* *
2821844 AAAACGGTCCCTAA
1 AAAATGATCCCTAA
2821858 AACTTTACAA
Statistics
Matches: 174, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
172 1 0.01
173 173 0.99
ACGTcount: A:0.38, C:0.19, G:0.04, T:0.39
Consensus pattern (173 bp):
AAAATGATCCCTAATTACTATTTGCTTCTCAACATTTTCAAACTTAGCAATTTAATCACTAAATT
TATAAATTCTTTCAAATTTAACCAATTAAGCATACTAATACTAAATTCAAGCATAGTACACCAAC
TTTTAATAATTTACTCTAATTCCTTAAATTCCTCAAATTTTAC
Found at i:2822472 original size:34 final size:34
Alignment explanation
Indices: 2822427--2822511 Score: 152
Period size: 34 Copynumber: 2.5 Consensus size: 34
2822417 CATGCACAGC
*
2822427 ACTGAAGACGCCGAGATTTCCTATGAAGAATCCA
1 ACTGAAGACGCCGAGAGTTCCTATGAAGAATCCA
*
2822461 ATTGAAGACGCCGAGAGTTCCTATGAAGAATCCA
1 ACTGAAGACGCCGAGAGTTCCTATGAAGAATCCA
2822495 ACTGAAGACGCCGAGAG
1 ACTGAAGACGCCGAGAG
2822512 ATCAATCATA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 48 1.00
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (34 bp):
ACTGAAGACGCCGAGAGTTCCTATGAAGAATCCA
Found at i:2825361 original size:18 final size:18
Alignment explanation
Indices: 2825303--2825364 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 18
2825293 TTTATTTTTA
*
2825303 TTTTATTTTTC-TCGTTAT
1 TTTTATTTTTCTTCATT-T
* **
2825321 CTTTATTTTGATT-ATTT
1 TTTTATTTTTCTTCATTT
2825338 TATTTATTTTTCTTCATTT
1 T-TTTATTTTTCTTCATTT
2825357 TTTTATTT
1 TTTTATTT
2825365 CTTTTGTTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
17 1 0.03
18 27 0.79
19 6 0.18
ACGTcount: A:0.15, C:0.08, G:0.03, T:0.74
Consensus pattern (18 bp):
TTTTATTTTTCTTCATTT
Found at i:2825412 original size:21 final size:22
Alignment explanation
Indices: 2825371--2825413 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
2825361 ATTTCTTTTG
*
2825371 TTTTTTATGTTCTTTATTTTAT
1 TTTTTTATGTTCTTTACTTTAT
*
2825393 TTTTTTATG-TCTTTCCTTTAT
1 TTTTTTATGTTCTTTACTTTAT
2825414 CTTATTTTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.12, C:0.09, G:0.05, T:0.74
Consensus pattern (22 bp):
TTTTTTATGTTCTTTACTTTAT
Found at i:2825430 original size:23 final size:23
Alignment explanation
Indices: 2825404--2825458 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
2825394 TTTTTATGTC
*
2825404 TTTCCTTTATCTTAT-TTTCCTTT
1 TTTCATTTAT-TTATATTTCCTTT
*
2825427 TTTCATTTATTTTTATTTCCTTT
1 TTTCATTTATTTATATTTCCTTT
*
2825450 ATTTTATTT
1 -TTTCATTT
2825459 TTCTTTAGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 3 0.11
23 17 0.63
24 7 0.26
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.73
Consensus pattern (23 bp):
TTTCATTTATTTATATTTCCTTT
Found at i:2825849 original size:55 final size:55
Alignment explanation
Indices: 2825765--2825915 Score: 241
Period size: 55 Copynumber: 2.7 Consensus size: 55
2825755 AAGTTTTTGG
* * *
2825765 TATATTTTTTGGTAA-TTAATTGACATACTTTAATTGGGATGTATCGAAATATTGC
1 TATATCTTTTGGTAACTT-ATTAACATACTTTGATTGGGATGTATCGAAATATTGC
2825820 TATATCTTTTGGTAACTTATTAACATACTTTGATTGGGATGTATCGAAATATTGC
1 TATATCTTTTGGTAACTTATTAACATACTTTGATTGGGATGTATCGAAATATTGC
* *
2825875 TCTATCTTTTGGTAACTTATTAACATATTTTGATTGGGATG
1 TATATCTTTTGGTAACTTATTAACATACTTTGATTGGGATG
2825916 ATTTTAACTT
Statistics
Matches: 90, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
55 88 0.98
56 2 0.02
ACGTcount: A:0.28, C:0.09, G:0.17, T:0.46
Consensus pattern (55 bp):
TATATCTTTTGGTAACTTATTAACATACTTTGATTGGGATGTATCGAAATATTGC
Done.