Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009090.1 Hibiscus syriacus cultivar Beakdansim tig00112536_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: 415979
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:440 original size:29 final size:29
Alignment explanation
Indices: 379--445 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
369 ACCGTTGACC
*** *
379 GGTGCTATTATGGGAATTAATTCGGTTTT
1 GGTGCTATTATGGGAATTAATTCGAAATG
*
408 GGTGCTATTCTGGGAATTAATTCGAAATG
1 GGTGCTATTATGGGAATTAATTCGAAATG
437 GGTGCTATT
1 GGTGCTATT
446 TGGTATTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.22, C:0.09, G:0.28, T:0.40
Consensus pattern (29 bp):
GGTGCTATTATGGGAATTAATTCGAAATG
Found at i:2983 original size:27 final size:28
Alignment explanation
Indices: 2901--3049 Score: 153
Period size: 27 Copynumber: 5.4 Consensus size: 28
2891 TCTTGTTTCC
* *
2901 GTATGAGATTTATTCCTCGATCCGTTCT
1 GTATGAGATTTATTCCCCGATCTGTTCT
*
2929 GTATTAGATTTATTCCCCGATCTGTTCT
1 GTATGAGATTTATTCCCCGATCTGTTCT
* *
2957 ATATGAGATTTA-TCCCCGATCTATTCT
1 GTATGAGATTTATTCCCCGATCTGTTCT
* * *
2984 GTATGAGATTTA-TCCCTGATTTGTTAT
1 GTATGAGATTTATTCCCCGATCTGTTCT
* *
3011 GTATTG-GATTTATTACTC-ATTCTGTTTCT
1 GTA-TGAGATTTATTCCCCGA-TCTG-TTCT
3040 GTATGAGATT
1 GTATGAGATT
3050 ATATATGTAC
Statistics
Matches: 100, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
27 46 0.46
28 44 0.44
29 10 0.10
ACGTcount: A:0.21, C:0.17, G:0.16, T:0.46
Consensus pattern (28 bp):
GTATGAGATTTATTCCCCGATCTGTTCT
Found at i:4280 original size:2 final size:2
Alignment explanation
Indices: 4234--4264 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
4224 TATACAATAC
*
4234 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4265 GTATTTTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:8054 original size:22 final size:22
Alignment explanation
Indices: 8023--8092 Score: 122
Period size: 22 Copynumber: 3.2 Consensus size: 22
8013 CGTACCGAAT
8023 CGCGATTTTGAAACGACTGGAA
1 CGCGATTTTGAAACGACTGGAA
*
8045 CGTGATTTTGAAACGACTGGAA
1 CGCGATTTTGAAACGACTGGAA
*
8067 CACGATTTTGAAACGACTGGAA
1 CGCGATTTTGAAACGACTGGAA
8089 CGCG
1 CGCG
8093 TTCGTACCGC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (22 bp):
CGCGATTTTGAAACGACTGGAA
Found at i:16123 original size:21 final size:21
Alignment explanation
Indices: 16081--16123 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
16071 TTTCTGGGCT
* *
16081 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
* *
16102 AGGGGAATCGATTCCCCCTCA
1 AGGGGAATCGATACCCACTCA
16123 A
1 A
16124 ACGAATATGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.19
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:16176 original size:20 final size:20
Alignment explanation
Indices: 16151--16188 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
16141 GAATGCTAGA
*
16151 GGGGAATCGATACCCCCAGG
1 GGGGAACCGATACCCCCAGG
*
16171 GGGGAACCGATTCCCCCA
1 GGGGAACCGATACCCCCA
16189 TAATGAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.34, G:0.32, T:0.11
Consensus pattern (20 bp):
GGGGAACCGATACCCCCAGG
Found at i:17257 original size:31 final size:30
Alignment explanation
Indices: 17219--17314 Score: 79
Period size: 31 Copynumber: 3.1 Consensus size: 30
17209 GTCAAAGAAC
17219 TACCTATGTCTTTCGAGACATATGGACAGT
1 TACCTATGTCTTTCGAGACATATGGACAGT
*** *
17249 ATACCTATGTTCTAAGGA-ACATATGGATAGTT
1 -TACCTATG-TCTTTCGAGACATATGGACAG-T
* * *
17281 TACCTAGGT-TCTTCGGGACCTATGGACAGT
1 TACCTATGTCT-TTCGAGACATATGGACAGT
17311 TACC
1 TACC
17315 GAGGATCTTT
Statistics
Matches: 50, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
29 1 0.02
30 7 0.14
31 36 0.72
32 6 0.12
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (30 bp):
TACCTATGTCTTTCGAGACATATGGACAGT
Found at i:17331 original size:30 final size:30
Alignment explanation
Indices: 17297--17429 Score: 239
Period size: 30 Copynumber: 4.4 Consensus size: 30
17287 GGTTCTTCGG
* *
17297 GACCTATGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
*
17327 GACCTCTGGATAGTTATCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
17357 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
17387 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
17417 GACCTCTGGATAG
1 GACCTCTGGATAG
17430 GTCCTTCGGA
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 99 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (30 bp):
GACCTCTGGATAGTTACCGAGGATCTTTAT
Found at i:20802 original size:21 final size:21
Alignment explanation
Indices: 20760--20802 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
20750 TTTCTGGGCT
* *
20760 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
* *
20781 AGGGGAATCGATTCCCCCTCA
1 AGGGGAATCGATACCCACTCA
20802 A
1 A
20803 ACGAATATGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.19
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:20855 original size:20 final size:20
Alignment explanation
Indices: 20830--20867 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
20820 GAATGCTAGA
*
20830 GGGGAATCGATACCCCCAGG
1 GGGGAACCGATACCCCCAGG
*
20850 GGGGAACCGATTCCCCCA
1 GGGGAACCGATACCCCCA
20868 TAATGAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.34, G:0.32, T:0.11
Consensus pattern (20 bp):
GGGGAACCGATACCCCCAGG
Found at i:21461 original size:14 final size:13
Alignment explanation
Indices: 21435--21498 Score: 55
Period size: 14 Copynumber: 5.0 Consensus size: 13
21425 ATATGATTTC
21435 ATAAGAATATGAA
1 ATAAGAATATGAA
21448 ATAAGAAGTATGAA
1 ATAAGAA-TATGAA
* *
21462 A-AGGACATA--AG
1 ATAAGA-ATATGAA
21473 A-AAGAATATGAA
1 ATAAGAATATGAA
21485 ATATAGAATATGAA
1 ATA-AGAATATGAA
21499 TATGAAATCA
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
10 3 0.07
11 5 0.12
12 2 0.05
13 13 0.32
14 18 0.44
ACGTcount: A:0.59, C:0.02, G:0.19, T:0.20
Consensus pattern (13 bp):
ATAAGAATATGAA
Found at i:21501 original size:20 final size:19
Alignment explanation
Indices: 21439--21506 Score: 77
Period size: 20 Copynumber: 3.6 Consensus size: 19
21429 GATTTCATAA
21439 GAATATGAAATAAGAAGTAT
1 GAATATGAAATAAGAA-TAT
* * *
21459 GAAAAGGACATAAGAA-A-
1 GAATATGAAATAAGAATAT
21476 GAATATGAAATATAGAATAT
1 GAATATGAAATA-AGAATAT
21496 GAATATGAAAT
1 GAATATGAAAT
21507 CATATGAGGA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
17 9 0.23
18 5 0.13
19 1 0.03
20 24 0.62
ACGTcount: A:0.57, C:0.01, G:0.19, T:0.22
Consensus pattern (19 bp):
GAATATGAAATAAGAATAT
Found at i:21936 original size:31 final size:30
Alignment explanation
Indices: 21898--21993 Score: 79
Period size: 31 Copynumber: 3.1 Consensus size: 30
21888 GTCAAAGAAC
21898 TACCTATGTCTTTCGAGACATATGGACAGT
1 TACCTATGTCTTTCGAGACATATGGACAGT
*** *
21928 ATACCTATGTTCTAAGGA-ACATATGGATAGTT
1 -TACCTATG-TCTTTCGAGACATATGGACAG-T
* * *
21960 TACCTAGGT-TCTTCGGGACCTATGGACAGT
1 TACCTATGTCT-TTCGAGACATATGGACAGT
21990 TACC
1 TACC
21994 GAGGATCTTT
Statistics
Matches: 50, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
29 1 0.02
30 7 0.14
31 36 0.72
32 6 0.12
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (30 bp):
TACCTATGTCTTTCGAGACATATGGACAGT
Found at i:22010 original size:30 final size:30
Alignment explanation
Indices: 21976--22108 Score: 239
Period size: 30 Copynumber: 4.4 Consensus size: 30
21966 GGTTCTTCGG
* *
21976 GACCTATGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
*
22006 GACCTCTAGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
22036 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
22066 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
22096 GACCTCTGGATAG
1 GACCTCTGGATAG
22109 GTCCTTTGGA
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 99 1.00
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (30 bp):
GACCTCTGGATAGTTACCGAGGATCTTTAT
Found at i:24017 original size:29 final size:29
Alignment explanation
Indices: 23984--24052 Score: 120
Period size: 29 Copynumber: 2.4 Consensus size: 29
23974 TATTGCTGAG
*
23984 CTCGACTCAAACTTTAAAAGTAAGCTTAA
1 CTCGACTCAAACTTTAAAAGTAAGCTCAA
*
24013 CTCGACTCAAACTTTAAAAGTAATCTCAA
1 CTCGACTCAAACTTTAAAAGTAAGCTCAA
24042 CTCGACTCAAA
1 CTCGACTCAAA
24053 TTCACGAACT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.41, C:0.25, G:0.09, T:0.26
Consensus pattern (29 bp):
CTCGACTCAAACTTTAAAAGTAAGCTCAA
Found at i:26044 original size:21 final size:21
Alignment explanation
Indices: 26018--26062 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
26008 GATTTATGGG
* *
26018 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
26039 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
26060 CAA
1 CAA
26063 ACGAACAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:27907 original size:23 final size:23
Alignment explanation
Indices: 27874--27936 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
27864 ATTATTATAT
*
27874 GGCACTACGGTGTAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
27897 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
*
27920 GGCACTTCGGTGCAATT
1 GGCACTACGGTGCAATT
27937 ATATGAGCTG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:31662 original size:22 final size:23
Alignment explanation
Indices: 31611--31662 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 23
31601 TGATATACAA
31611 AATTATTTTTTATTAAATATTTTT
1 AATTA-TTTTTATTAAATATTTTT
** *
31635 -GGTATTTTTATTTAAT-TTTTT
1 AATTATTTTTATTAAATATTTTT
31656 AATTATT
1 AATTATT
31663 ATGACGTCGT
Statistics
Matches: 22, Mismatches: 5, Indels: 4
0.71 0.16 0.13
Matches are distributed among these distances:
21 5 0.23
22 15 0.68
23 2 0.09
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (23 bp):
AATTATTTTTATTAAATATTTTT
Found at i:32058 original size:41 final size:41
Alignment explanation
Indices: 31999--32078 Score: 133
Period size: 41 Copynumber: 2.0 Consensus size: 41
31989 AAAAAATACC
*
31999 AATCAAATTATGTAATGCAATAATTTTAATCAATTGATTTT
1 AATCAAATTATATAATGCAATAATTTTAATCAATTGATTTT
* *
32040 AATCAAATTATATCATGCAATAATTTTAATCGATTGATT
1 AATCAAATTATATAATGCAATAATTTTAATCAATTGATT
32079 CAACGATTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.42
Consensus pattern (41 bp):
AATCAAATTATATAATGCAATAATTTTAATCAATTGATTTT
Found at i:36103 original size:19 final size:20
Alignment explanation
Indices: 36079--36120 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
36069 AAAGAACAAC
36079 ACCC-TTTTTAACTAATGAA
1 ACCCTTTTTTAACTAATGAA
*
36098 ACCCTTTTTTAACTACTGAA
1 ACCCTTTTTTAACTAATGAA
36118 ACC
1 ACC
36121 GTTTAATGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.33, C:0.26, G:0.05, T:0.36
Consensus pattern (20 bp):
ACCCTTTTTTAACTAATGAA
Found at i:40430 original size:21 final size:21
Alignment explanation
Indices: 40404--40448 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
40394 GATTTATGGG
* *
40404 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
40425 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
40446 CAA
1 CAA
40449 ACGAACAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:42288 original size:23 final size:23
Alignment explanation
Indices: 42255--42317 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
42245 ATTATTATAT
*
42255 GGCACTACGGTGTAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
42278 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
*
42301 GGCACTTCGGTGCAATT
1 GGCACTACGGTGCAATT
42318 ATATGAGCTG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:46042 original size:22 final size:23
Alignment explanation
Indices: 45991--46042 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 23
45981 TGATATACAA
45991 AATTATTTTTTATTAAATATTTTT
1 AATTA-TTTTTATTAAATATTTTT
** *
46015 -GGTATTTTTATTTAAT-TTTTT
1 AATTATTTTTATTAAATATTTTT
46036 AATTATT
1 AATTATT
46043 ATGACGTCGT
Statistics
Matches: 22, Mismatches: 5, Indels: 4
0.71 0.16 0.13
Matches are distributed among these distances:
21 5 0.23
22 15 0.68
23 2 0.09
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (23 bp):
AATTATTTTTATTAAATATTTTT
Found at i:46440 original size:41 final size:41
Alignment explanation
Indices: 46381--46460 Score: 133
Period size: 41 Copynumber: 2.0 Consensus size: 41
46371 AAAAAATACC
*
46381 AATCAAATTATGTAATGCAATAATTTTAATCAATTGATTTT
1 AATCAAATTATATAATGCAATAATTTTAATCAATTGATTTT
* *
46422 AATCAAATTATATCATGCAATAATTTTAATCGATTGATT
1 AATCAAATTATATAATGCAATAATTTTAATCAATTGATT
46461 CAACGATTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.42
Consensus pattern (41 bp):
AATCAAATTATATAATGCAATAATTTTAATCAATTGATTTT
Found at i:50464 original size:19 final size:19
Alignment explanation
Indices: 50440--50480 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
50430 AAAGAACAAC
50440 ACCCTTTTTAACTAATGAA
1 ACCCTTTTTAACTAATGAA
*
50459 ACCCTTTTTAACTACTGAA
1 ACCCTTTTTAACTAATGAA
50478 ACC
1 ACC
50481 GTTTAATGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.34
Consensus pattern (19 bp):
ACCCTTTTTAACTAATGAA
Found at i:56545 original size:23 final size:23
Alignment explanation
Indices: 56517--56566 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
56507 CACTACGTGT
56517 AATTCTACGCGGCACTCCGGTGC
1 AATTCTACGCGGCACTCCGGTGC
* *
56540 AATTCTACGTGGCACTTCGGTGC
1 AATTCTACGCGGCACTCCGGTGC
56563 AATT
1 AATT
56567 ATATGAGCTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.20, C:0.28, G:0.24, T:0.28
Consensus pattern (23 bp):
AATTCTACGCGGCACTCCGGTGC
Found at i:60198 original size:19 final size:20
Alignment explanation
Indices: 60156--60198 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
60146 AAATTATTTT
* *
60156 TTATTAAATATTTTTGATTT
1 TTATTAAATATTTTTAATTA
*
60176 TTATTTAAT-TTTTTAATTA
1 TTATTAAATATTTTTAATTA
60195 TTAT
1 TTAT
60199 GACGTCGTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (20 bp):
TTATTAAATATTTTTAATTA
Found at i:60585 original size:41 final size:41
Alignment explanation
Indices: 60526--60605 Score: 133
Period size: 41 Copynumber: 2.0 Consensus size: 41
60516 AAAAAATACC
*
60526 AATCAAATTATGTAATGCAATAATTTTAATCAATTGATTTT
1 AATCAAATTATATAATGCAATAATTTTAATCAATTGATTTT
* *
60567 AATCAAATTATATCATGCAATAATTTTAATCGATTGATT
1 AATCAAATTATATAATGCAATAATTTTAATCAATTGATT
60606 CAACGATTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.42
Consensus pattern (41 bp):
AATCAAATTATATAATGCAATAATTTTAATCAATTGATTTT
Found at i:64598 original size:12 final size:12
Alignment explanation
Indices: 64581--64607 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
64571 CTCAGAAAAC
64581 AACACCCTTTTT
1 AACACCCTTTTT
64593 AACACCCTTTTT
1 AACACCCTTTTT
64605 AAC
1 AAC
64608 TATGAAACCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.33, G:0.00, T:0.37
Consensus pattern (12 bp):
AACACCCTTTTT
Found at i:66839 original size:20 final size:20
Alignment explanation
Indices: 66814--66858 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
66804 AACTATTCAC
* *
66814 TTTCGTTTTTACAACGTGAA
1 TTTCGTTTTCACAACGCGAA
*
66834 TTTCGTTTTCGCAACGCGAA
1 TTTCGTTTTCACAACGCGAA
66854 TTTCG
1 TTTCG
66859 CAAATTAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.42
Consensus pattern (20 bp):
TTTCGTTTTCACAACGCGAA
Found at i:67264 original size:20 final size:22
Alignment explanation
Indices: 67222--67270 Score: 66
Period size: 20 Copynumber: 2.3 Consensus size: 22
67212 GATTTTACAT
*
67222 TTCGCAACATGAATTTGTCAAA
1 TTCGCAACATCAATTTGTCAAA
67244 TTCGCAAC-TCAATTT-TCAAA
1 TTCGCAACATCAATTTGTCAAA
*
67264 TTAGCAA
1 TTCGCAA
67271 ATTCAGATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 11 0.44
21 6 0.24
22 8 0.32
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.33
Consensus pattern (22 bp):
TTCGCAACATCAATTTGTCAAA
Found at i:67378 original size:20 final size:20
Alignment explanation
Indices: 67341--67378 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
67331 ATTCGACTTG
*
67341 CGAAATTCAAGTTGCGAAAA
1 CGAAATTCAAGTTACGAAAA
67361 CGAAATTCACA-TTACGAA
1 CGAAATTCA-AGTTACGAA
67379 TAGTTGTGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 15 0.94
21 1 0.06
ACGTcount: A:0.45, C:0.18, G:0.16, T:0.21
Consensus pattern (20 bp):
CGAAATTCAAGTTACGAAAA
Found at i:67433 original size:22 final size:21
Alignment explanation
Indices: 67408--67451 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
67398 CGGTAATTAG
67408 TATTACGATATTTGTATAAATT
1 TATT-CGATATTTGTATAAATT
* *
67430 TATTGGTTATTTGTATAAATT
1 TATTCGATATTTGTATAAATT
67451 T
1 T
67452 TTAAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.32, C:0.02, G:0.11, T:0.55
Consensus pattern (21 bp):
TATTCGATATTTGTATAAATT
Found at i:72126 original size:31 final size:31
Alignment explanation
Indices: 72080--72149 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 31
72070 ATATAAGTTT
* *
72080 TGGTTACTTTTATTTCATTTTAATTAAAATC
1 TGGTCACTTTCATTTCATTTTAATTAAAATC
* * *
72111 TGGTCACTTTCATTTCGTTTTAATTAAGATG
1 TGGTCACTTTCATTTCATTTTAATTAAAATC
72142 TGGTCACT
1 TGGTCACT
72150 GAAGCTTAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.24, C:0.13, G:0.13, T:0.50
Consensus pattern (31 bp):
TGGTCACTTTCATTTCATTTTAATTAAAATC
Found at i:72326 original size:31 final size:31
Alignment explanation
Indices: 72289--72357 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
72279 AGTTCTGGTG
* ** *
72289 GTCACTTACGTTATTGTTTTATTAAGTTTTA
1 GTCACTTACATTATCATGTTATTAAGTTTTA
72320 GTCACTTACATTATCATGTTATTAAGTTTTA
1 GTCACTTACATTATCATGTTATTAAGTTTTA
72351 GTCACTT
1 GTCACTT
72358 GACCAATTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.25, C:0.13, G:0.12, T:0.51
Consensus pattern (31 bp):
GTCACTTACATTATCATGTTATTAAGTTTTA
Found at i:72379 original size:31 final size:30
Alignment explanation
Indices: 72309--72379 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 30
72299 TTATTGTTTT
*
72309 ATTAAGTTTTAGTCACTTACATTATCATGTT
1 ATTAAGTTTTAGTCACTTACATTA-CATGTC
72340 ATTAAGTTTTAGTCACTTGACCAATTA-ATGTC
1 ATTAAGTTTTAGTCACTT-A-C-ATTACATGTC
72372 ATT-AGTTT
1 ATTAAGTTT
72380 GATGACGTGA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
31 23 0.64
32 8 0.22
33 1 0.03
34 4 0.11
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (30 bp):
ATTAAGTTTTAGTCACTTACATTACATGTC
Found at i:72779 original size:31 final size:31
Alignment explanation
Indices: 72706--72782 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
72696 TTCAACGTCC
*
72706 AAGTGACCAAAACTTAATAAAACTATAACGT
1 AAGTCACCAAAACTTAATAAAACTATAACGT
* * *
72737 AAGTGACCAAAACTTAATAAAA-TAGTGATGT
1 AAGTCACCAAAACTTAATAAAACTA-TAACGT
*
72768 AAGTCAGCAAAACTT
1 AAGTCACCAAAACTT
72783 GTGTTTTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 2 0.05
31 39 0.95
ACGTcount: A:0.49, C:0.14, G:0.13, T:0.23
Consensus pattern (31 bp):
AAGTCACCAAAACTTAATAAAACTATAACGT
Found at i:78140 original size:30 final size:31
Alignment explanation
Indices: 78066--78142 Score: 88
Period size: 30 Copynumber: 2.5 Consensus size: 31
78056 AAAATCATCT
78066 TTTAAATATAA-TTAAAAGATTCAAACTCATG
1 TTTAAATA-AATTTAAAAGATTCAAACTCATG
* * **
78097 TTT-AATTATTTTAAAAGATT-AAACTTTTG
1 TTTAAATAAATTTAAAAGATTCAAACTCATG
78126 TTTAAATAAATTTAAAA
1 TTTAAATAAATTTAAAA
78143 ATAATGAATC
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
29 11 0.29
30 24 0.63
31 3 0.08
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (31 bp):
TTTAAATAAATTTAAAAGATTCAAACTCATG
Found at i:79253 original size:2 final size:2
Alignment explanation
Indices: 79208--79236 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
79198 ATTTTAAAAT
79208 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
79237 TTTAAATAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:79284 original size:16 final size:18
Alignment explanation
Indices: 79250--79285 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
79240 AAATAAGTAT
79250 ATATGAATTATACTTAAA
1 ATATGAATTATACTTAAA
79268 ATAT-AATTATA-TTAAA
1 ATATGAATTATACTTAAA
79284 AT
1 AT
79286 TTTATTTAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.39
17 7 0.39
18 4 0.22
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (18 bp):
ATATGAATTATACTTAAA
Found at i:79510 original size:26 final size:26
Alignment explanation
Indices: 79455--79503 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
79445 AAGCAAAATC
*
79455 AATTTATTTTCTTAAATATCCAATTA
1 AATTTATATTCTTAAATATCCAATTA
*
79481 AATTTATATTC-TAAATATTCAAT
1 AATTTATATTCTTAAATATCCAAT
79504 GTGAATTCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (26 bp):
AATTTATATTCTTAAATATCCAATTA
Found at i:89447 original size:21 final size:21
Alignment explanation
Indices: 89423--89469 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
89413 AGTATCCAAC
*
89423 AATAACAAAATCAGTAGAAAA
1 AATAACAAAACCAGTAGAAAA
*
89444 AATAACAAAACCAGTAGAAAT
1 AATAACAAAACCAGTAGAAAA
89465 AATAA
1 AATAA
89470 TATTTCCGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.66, C:0.11, G:0.09, T:0.15
Consensus pattern (21 bp):
AATAACAAAACCAGTAGAAAA
Found at i:90384 original size:12 final size:12
Alignment explanation
Indices: 90367--90391 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
90357 TTTTTAATGA
90367 AAATAATATTTT
1 AAATAATATTTT
90379 AAATAATATTTT
1 AAATAATATTTT
90391 A
1 A
90392 CAGAAAACGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AAATAATATTTT
Found at i:90449 original size:17 final size:16
Alignment explanation
Indices: 90429--90468 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
90419 ACTTAATATT
90429 AATATTTTTTATTAAAA
1 AATATTTTTTATT-AAA
*
90446 AATAATATTTTATTAAA
1 AAT-ATTTTTTATTAAA
90463 AATATT
1 AATATT
90469 AAAAAATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 2 0.10
17 9 0.45
18 9 0.45
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AATATTTTTTATTAAA
Found at i:93648 original size:91 final size:91
Alignment explanation
Indices: 93487--93652 Score: 226
Period size: 91 Copynumber: 1.8 Consensus size: 91
93477 GACCTGTGAT
* * * * * *
93487 TTTATAAAACAAATTGAAGCATTTCAAGAGAGATGAGCGTTTGGTTCTGTTAGCATAACTAGTAG
1 TTTATAAAACAAATTGAAGAATGTCAAGAGAAATAAGCGTATGATTCTGTTAGCATAACTAGTAG
93552 AAATCATATCTGTTTAAACATGTGGC
66 AAATCATATCTGTTTAAACATGTGGC
* * *
93578 TTTATAAAACAAATTGAAGTAATGT-AAGATAAATAAGTGTATGATTCTGTTAGCATAACTAGTT
1 TTTATAAAACAAATTGAAG-AATGTCAAGAGAAATAAGCGTATGATTCTGTTAGCATAACTAGTA
*
93642 GCAATCATATC
65 GAAATCATATC
93653 CATTTCTGTT
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
91 61 0.95
92 3 0.05
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (91 bp):
TTTATAAAACAAATTGAAGAATGTCAAGAGAAATAAGCGTATGATTCTGTTAGCATAACTAGTAG
AAATCATATCTGTTTAAACATGTGGC
Found at i:107538 original size:18 final size:16
Alignment explanation
Indices: 107515--107549 Score: 52
Period size: 18 Copynumber: 2.1 Consensus size: 16
107505 GACCATTTTA
107515 TAACTTTATCCTTATTAT
1 TAACTTTAT--TTATTAT
107533 TAACTTTATTTATTAT
1 TAACTTTATTTATTAT
107549 T
1 T
107550 TGTATTAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
18 9 0.53
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.60
Consensus pattern (16 bp):
TAACTTTATTTATTAT
Found at i:107691 original size:15 final size:16
Alignment explanation
Indices: 107673--107722 Score: 59
Period size: 17 Copynumber: 3.2 Consensus size: 16
107663 TTATTTAATT
107673 AATTTTTAAAT-TAAA
1 AATTTTTAAATATAAA
*
107688 AA-TTTTAATTATAATA
1 AATTTTTAAATATAA-A
*
107704 AATTTTTTAATATAAA
1 AATTTTTAAATATAAA
107720 AAT
1 AAT
107723 AATTAACTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 7 0.24
15 5 0.17
16 7 0.24
17 10 0.34
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AATTTTTAAATATAAA
Found at i:107708 original size:31 final size:30
Alignment explanation
Indices: 107661--107722 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 30
107651 AGTAGAAATC
*
107661 TTTTATTTAATTAATTTTTAAAT-TAAAAA
1 TTTTATTTAATAAATTTTTAAATATAAAAA
*
107690 TTTTAATTATAATAAATTTTTTAATATAAAAA
1 TTTT-ATT-TAATAAATTTTTAAATATAAAAA
107722 T
1 T
107723 AATTAACTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 4 0.14
30 3 0.11
31 14 0.50
32 7 0.25
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (30 bp):
TTTTATTTAATAAATTTTTAAATATAAAAA
Found at i:107711 original size:18 final size:16
Alignment explanation
Indices: 107673--107722 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
107663 TTATTTAATT
*
107673 AATTTTTAAAT-TAAA
1 AATTTTTTAATATAAA
107688 AA--TTTTAATTATAATA
1 AATTTTTTAA-TATAA-A
107704 AATTTTTTAATATAAA
1 AATTTTTTAATATAAA
107720 AAT
1 AAT
107723 AATTAACTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
13 5 0.17
14 1 0.03
15 5 0.17
16 7 0.24
17 5 0.17
18 6 0.21
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AATTTTTTAATATAAA
Found at i:107717 original size:17 final size:17
Alignment explanation
Indices: 107690--107722 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
107680 AAATTAAAAA
107690 TTTTAATTATAATAAATT
1 TTTTAATTATAA-AAATT
107708 TTTTAA-TATAAAAAT
1 TTTTAATTATAAAAAT
107723 AATTAACTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 5 0.33
18 6 0.40
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TTTTAATTATAAAAATT
Found at i:108994 original size:2 final size:2
Alignment explanation
Indices: 108987--109030 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
108977 TAATTTAATA
108987 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
109029 AT
1 AT
109031 TAATAATATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:109397 original size:19 final size:19
Alignment explanation
Indices: 109369--109567 Score: 91
Period size: 21 Copynumber: 10.2 Consensus size: 19
109359 TCCAAGTTCG
109369 CGTTGCGATTTTCCAAATT
1 CGTTGCGATTTTCCAAATT
*
109388 CGTTGTGATTTTCCAAA-T
1 CGTTGCGATTTTCCAAATT
* * *
109406 --TTACG-TTAGTCTAAATT
1 CGTTGCGATT-TTCCAAATT
* ** *
109423 CGTTGTGATAGTCCAAGTT
1 CGTTGCGATTTTCCAAATT
** * *
109442 CGCGTTGCGATAGTCGAAGTT
1 --CGTTGCGATTTTCCAAATT
109463 CGCGTTGCGATTTTCCAAATT
1 --CGTTGCGATTTTCCAAATT
** *
109484 CGTTGCGATAGTCCAAGTT
1 CGTTGCGATTTTCCAAATT
*
109503 CACGTTGCGATTTTTCAAATT
1 --CGTTGCGATTTTCCAAATT
* ** * *
109524 CGTTGCGGTAGTCGAAGTT
1 CGTTGCGATTTTCCAAATT
*
109543 CGCGTTGCGATTTTCCAAGTT
1 --CGTTGCGATTTTCCAAATT
109564 CGTT
1 CGTT
109568 AAGAATTTTC
Statistics
Matches: 136, Mismatches: 33, Indels: 22
0.71 0.17 0.12
Matches are distributed among these distances:
15 2 0.01
16 8 0.06
17 1 0.01
18 1 0.01
19 59 0.43
20 1 0.01
21 64 0.47
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (19 bp):
CGTTGCGATTTTCCAAATT
Found at i:109488 original size:40 final size:40
Alignment explanation
Indices: 109444--109567 Score: 203
Period size: 40 Copynumber: 3.1 Consensus size: 40
109434 TCCAAGTTCG
109444 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATT
* * *
109484 CGTTGCGATAGTCCAAGTTCACGTTGCGATTTTTCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATT
* *
109524 CGTTGCGGTAGTCGAAGTTCGCGTTGCGATTTTCCAAGTT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATT
109564 CGTT
1 CGTT
109568 AAGAATTTTC
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 76 1.00
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.36
Consensus pattern (40 bp):
CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATT
Found at i:112622 original size:29 final size:29
Alignment explanation
Indices: 112577--112679 Score: 181
Period size: 29 Copynumber: 3.6 Consensus size: 29
112567 TTTCATATGT
*
112577 TCATGTA-CTCATATCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
*
112605 TCATGTATCTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
112634 TCATGTAGCTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
112663 TCATGTAGCTCATGTCA
1 TCATGTAGCTCATGTCA
112680 CTTCATATCA
Statistics
Matches: 72, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
28 7 0.10
29 65 0.90
ACGTcount: A:0.19, C:0.21, G:0.15, T:0.45
Consensus pattern (29 bp):
TCATGTAGCTCATGTCATTTCTCTTGTGA
Found at i:112712 original size:12 final size:12
Alignment explanation
Indices: 112695--112730 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
112685 TATCAGGTTC
112695 TCATATCACATG
1 TCATATCACATG
*
112707 TCATATCACATA
1 TCATATCACATG
112719 TCATATCACATG
1 TCATATCACATG
112731 AACATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (12 bp):
TCATATCACATG
Found at i:113146 original size:64 final size:64
Alignment explanation
Indices: 113038--113214 Score: 230
Period size: 64 Copynumber: 2.8 Consensus size: 64
113028 TAATGAAGGT
* * ** * *
113038 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAAGGTATTCGATGTAGT-ATTATTGCCGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCATAAATTGCATTCGATGT-GTCATTATTACCGGG
* ** * *
113102 ATGCATCGATGCACTCCTTATGCATCGATGCACCAATTGCATTCGATGTTTCATTATTACTGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCATAAATTGCATTCGATGTGTCATTATTACCGGG
*
113166 ATGCATCGATGCACTACTTATGCATCGATGCATGAATTGCATTCGATGT
1 ATGCATCGATGCACTACTTATGCATCGATGCATAAATTGCATTCGATGT
113215 CTTTATTTTA
Statistics
Matches: 98, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
63 1 0.01
64 97 0.99
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.32
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCATAAATTGCATTCGATGTGTCATTATTACCGGG
Found at i:113235 original size:64 final size:64
Alignment explanation
Indices: 113038--113262 Score: 204
Period size: 64 Copynumber: 3.5 Consensus size: 64
113028 TAATGAAGGT
* * ** ** * * *** *
113038 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAAGGTATTCGATGTAGT-ATTATTGCCGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACCAATTGCATTCGATGT-TTCATTATTAAAGAG
* ** *
113102 ATGCATCGATGCACTCCTTATGCATCGATGCACCAATTGCATTCGATGTTTCATTATTACTGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACCAATTGCATTCGATGTTTCATTATTAAAGAG
** *
113166 ATGCATCGATGCACTACTTATGCATCGATGCATGAATTGCATTCGATGTCTTTATT-TTAAA-AG
1 ATGCATCGATGCACTACTTATGCATCGATGCACCAATTGCATTCGATGT-TTCATTATTAAAGAG
** *
113229 AGTGCATCGATGCACTACCAATGCATCGGTGCAC
1 A-TGCATCGATGCACTACTTATGCATCGATGCAC
113263 ATTCAAACAA
Statistics
Matches: 136, Mismatches: 22, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
63 3 0.02
64 128 0.94
65 5 0.04
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACCAATTGCATTCGATGTTTCATTATTAAAGAG
Found at i:114776 original size:160 final size:161
Alignment explanation
Indices: 114492--114908 Score: 462
Period size: 160 Copynumber: 2.6 Consensus size: 161
114482 TCTTCAAACG
* * * * * ** *
114492 ACGGGTCCGCTCCCTATTCTTTTAGGGAGTATAAGACTTGGACAATCTTCGGCAAACGTGTCTGC
1 ACGGGTCCGCTCCCTATTCCTTCAGAGAGAAAAAGAC-T---CAATCTTCAACAAACGTGTCCGC
* * * * * ** ** *
114557 TCCCTATTCATTCAGGGAGTATAAGACTCAAACAATCTTCAATAAACGTGTTTGCTCCCTGTTCG
62 TCCCTATTCCTTCAGAGAGTATAGGACTCGAACAATCTTCAACAAACAAGTCCGCTCCCTATTCG
*
114622 TTCAGGGAGTATA-AGACTCGAATAATCTTCA-ACAA
127 TTCAGGGAGTATAGA-ACTCGAACAATCTTCATA-AA
* * * *
114657 ACGGGTCTGCTCCCTATTTCTTCAGAGA-AAAAAGACTCAATCTTCAATAAACGTATCCGCTCCC
1 ACGGGTCCGCTCCCTATTCCTTCAGAGAGAAAAAGACTCAATCTTCAACAAACGTGTCCGCTCCC
*
114721 TATTCCTTCAGAGAGTATAGGACTCGAACAATTTTCAACAAACAAGTCCGCTCCCTATTCGTTCA
66 TATTCCTTCAGAGAGTATAGGACTCGAACAATCTTCAACAAACAAGTCCGCTCCCTATTCGTTCA
114786 GGGAGTATAGAACTCGAACAATCTTCATAAA
131 GGGAGTATAGAACTCGAACAATCTTCATAAA
* * * * * * * **
114817 ACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGGACTCGATCTTCAGCAAACGGGTCCGCTCTA
1 ACGGGTCCGCTCCCTATTCCTTCAGAGAGAAAAAGACTCAATCTTCAACAAACGTGTCCGCTCCC
114882 TATTCCTTCAGAGAGTATAGGACTCGA
66 TATTCCTTCAGAGAGTATAGGACTCGA
114909 TCTTCATAAA
Statistics
Matches: 212, Mismatches: 37, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
160 127 0.60
161 55 0.26
163 1 0.00
164 6 0.03
165 23 0.11
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (161 bp):
ACGGGTCCGCTCCCTATTCCTTCAGAGAGAAAAAGACTCAATCTTCAACAAACGTGTCCGCTCCC
TATTCCTTCAGAGAGTATAGGACTCGAACAATCTTCAACAAACAAGTCCGCTCCCTATTCGTTCA
GGGAGTATAGAACTCGAACAATCTTCATAAA
Found at i:114856 original size:55 final size:55
Alignment explanation
Indices: 114470--114908 Score: 389
Period size: 55 Copynumber: 8.1 Consensus size: 55
114460 TAGATAAGCG
* * * * * *
114470 AGACTTGAAAAATCTTCAA-ACGACGGGTCCGCTCCCTATTCTTTTAGGGAGTATA
1 AGACTCGAACAATCTTCAACA-AACGGGTCCGCTCCCTATTCCTTCAGAGAGTATA
* * ** * * * *
114525 AGACTTGGACAATCTTCGGCAAACGTGTCTGCTCCCTATTCATTCAGGGAGTATA
1 AGACTCGAACAATCTTCAACAAACGGGTCCGCTCCCTATTCCTTCAGAGAGTATA
* * * ** * * *
114580 AGACTCAAACAATCTTCAATAAACGTGTTTGCTCCCTGTTCGTTCAGGGAGTATA
1 AGACTCGAACAATCTTCAACAAACGGGTCCGCTCCCTATTCCTTCAGAGAGTATA
* * * * *
114635 AGACTCGAATAATCTTCAACAAACGGGTCTGCTCCCTATTTCTTCAGAGA-AAAA
1 AGACTCGAACAATCTTCAACAAACGGGTCCGCTCCCTATTCCTTCAGAGAGTATA
* **
114689 AGACT----CAATCTTCAATAAACGTATCCGCTCCCTATTCCTTCAGAGAGTATA
1 AGACTCGAACAATCTTCAACAAACGGGTCCGCTCCCTATTCCTTCAGAGAGTATA
* * ** * *
114740 GGACTCGAACAATTTTCAACAAACAAGTCCGCTCCCTATTCGTTCAGGGAGTAT-
1 AGACTCGAACAATCTTCAACAAACGGGTCCGCTCCCTATTCCTTCAGAGAGTATA
*
114794 AGAACTCGAACAATCTTCATA-AAACGGGTCCGCTCTCTATTCCTTCAGAGAGTATA
1 AG-ACTCGAACAATCTTCA-ACAAACGGGTCCGCTCCCTATTCCTTCAGAGAGTATA
* * **
114850 GGACTCG----ATCTTCAGCAAACGGGTCCGCTCTATATTCCTTCAGAGAGTATA
1 AGACTCGAACAATCTTCAACAAACGGGTCCGCTCCCTATTCCTTCAGAGAGTATA
*
114901 GGACTCGA
1 AGACTCGA
114909 TCTTCATAAA
Statistics
Matches: 318, Mismatches: 55, Indels: 25
0.80 0.14 0.06
Matches are distributed among these distances:
50 35 0.11
51 54 0.17
54 8 0.03
55 218 0.69
56 3 0.01
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (55 bp):
AGACTCGAACAATCTTCAACAAACGGGTCCGCTCCCTATTCCTTCAGAGAGTATA
Found at i:114857 original size:215 final size:211
Alignment explanation
Indices: 114497--114895 Score: 487
Period size: 215 Copynumber: 1.9 Consensus size: 211
114487 AAACGACGGG
* * * * * ** ** *
114497 TCCGCTCCCTATTCTTTTAGGGAGTATAAGACTTGGACAATCTTCGGCAAACGTGTCTGCTCCCT
1 TCCGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACAAGTCCGCTCCCT
* ** * *
114562 ATTCATTCAGGGAGTATAAGACTCAAACAATCTTCAATAAACGTGTTTGCTCCCTGTTCGTTCAG
66 ATTCATTCAGGGAGTATAAGACTCAAACAATCTTCAATAAACGGGTCCGCTCCCTATTCCTTCAG
* * * *
114627 GGAGTATAAGACTCGAATAATCTTCAACAAACGGGTCTGCTCCCTATTTCTTCAGAGAAAAAAGA
131 AGAGTATAAGACTCG----ATCTTCAACAAACGGGTCCGCTCCATATTCCTTCAGAGAAAAAAGA
114692 CTCAATCTTCAATAAACGTA
192 CTCAATCTTCAATAAACGTA
* *
114712 TCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCGAACAATTTTCAACAAACAAGTCCGCTCCCT
1 TCCGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACAAGTCCGCTCCCT
* * *
114777 ATTCGTTCAGGGAGTAT-AGAACTCGAACAATCTTC-ATAAAACGGGTCCGCTCTCTATTCCTTC
66 ATTCATTCAGGGAGTATAAG-ACTCAAACAATCTTCAAT-AAACGGGTCCGCTCCCTATTCCTTC
* * *
114840 AGAGAGTATAGGACTCGATCTTCAGCAAACGGGTCCGCTCTATATTCCTTCAGAGA
129 AGAGAGTATAAGACTCGATCTTCAACAAACGGGTCCGCTCCATATTCCTTCAGAGA
114896 GTATAGGACT
Statistics
Matches: 155, Mismatches: 27, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
211 34 0.22
214 4 0.03
215 117 0.75
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.29
Consensus pattern (211 bp):
TCCGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACAAGTCCGCTCCCT
ATTCATTCAGGGAGTATAAGACTCAAACAATCTTCAATAAACGGGTCCGCTCCCTATTCCTTCAG
AGAGTATAAGACTCGATCTTCAACAAACGGGTCCGCTCCATATTCCTTCAGAGAAAAAAGACTCA
ATCTTCAATAAACGTA
Found at i:114966 original size:37 final size:38
Alignment explanation
Indices: 114917--114990 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 38
114907 GATCTTCATA
114917 AAATGAGTTTGCTTCACAACTCTTCCGTGAAGGCTTAT
1 AAATGAGTTTGCTTCACAACTCTTCCGTGAAGGCTTAT
*
114955 AAATGA-TTTGCTTCACTACTCTTCCGTGAAGGCTTA
1 AAATGAGTTTGCTTCACAACTCTTCCGTGAAGGCTTA
114991 AGATTGAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
37 29 0.83
38 6 0.17
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.35
Consensus pattern (38 bp):
AAATGAGTTTGCTTCACAACTCTTCCGTGAAGGCTTAT
Found at i:116342 original size:48 final size:50
Alignment explanation
Indices: 116277--116419 Score: 145
Period size: 48 Copynumber: 2.8 Consensus size: 50
116267 CTTTTATTTC
*
116277 TTTTTCTT-TTTTCTTCTTTTTTTCATTTTTCATTTTTT-T-ATTTTTCAT
1 TTTTTCTTCATTT-TTCTTTTTTTCATTTTTCATTTTTTCTCATTTTTCAT
116325 TTTTTCTTCATTTTTCTTTTTTTCACCATTTTTCATTTTTTTTCTCATTTTTCAT
1 TTTTTCTTCATTTTTCTTTTTTT---CATTTTTCA--TTTTTTCTCATTTTTCAT
*
116380 TTTCT-TTCATTTTTCCTCCTTTTTTCA-TTTTC-TTTTTTCT
1 TTTTTCTTCATTTTT-CT--TTTTTTCATTTTTCATTTTTTCT
116420 TTCTTTTTTT
Statistics
Matches: 82, Mismatches: 2, Indels: 20
0.79 0.02 0.19
Matches are distributed among these distances:
48 18 0.22
49 3 0.04
50 8 0.10
51 9 0.11
53 11 0.13
54 12 0.15
55 15 0.18
57 6 0.07
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.74
Consensus pattern (50 bp):
TTTTTCTTCATTTTTCTTTTTTTCATTTTTCATTTTTTCTCATTTTTCAT
Found at i:116347 original size:41 final size:40
Alignment explanation
Indices: 116268--116349 Score: 105
Period size: 41 Copynumber: 2.0 Consensus size: 40
116258 TGAACCCTCC
*
116268 TTTTATTTCTTTTTCTTTTTTCTTCTTTTTTTCATTTTTCA
1 TTTTATTTATTTTTCTTTTTTCTTCTTTTTTT-ATTTTTCA
116309 TTTT-TTTATTTTTCATTTTTTCTTCATTTTTCTT-TTTTTCA
1 TTTTATTTATTTTTC-TTTTTTCTTC-TTTTT-TTATTTTTCA
116350 CCATTTTTCA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
40 9 0.24
41 21 0.57
42 5 0.14
43 2 0.05
ACGTcount: A:0.09, C:0.13, G:0.00, T:0.78
Consensus pattern (40 bp):
TTTTATTTATTTTTCTTTTTTCTTCTTTTTTTATTTTTCA
Found at i:116366 original size:10 final size:10
Alignment explanation
Indices: 116268--116393 Score: 58
Period size: 10 Copynumber: 13.1 Consensus size: 10
116258 TGAACCCTCC
116268 TTTT-ATTTCT
1 TTTTCATTT-T
116278 TTTTC-TTTT
1 TTTTCATTTT
116287 TTCTTC--TTT
1 TT-TTCATTTT
116296 TTTTCATTTT
1 TTTTCATTTT
*
116306 TCATTT-TTTTAT
1 T--TTTCATTT-T
116318 TTTTCATTTT
1 TTTTCATTTT
116328 TTCTTCA---T
1 TT-TTCATTTT
116336 TTTTC--TTT
1 TTTTCATTTT
***
116344 TTTTCACCAT
1 TTTTCATTTT
116354 TTTTCATTTT
1 TTTTCATTTT
**
116364 TTTTC-TCAT
1 TTTTCATTTT
116373 TTTTCATTTT
1 TTTTCATTTT
*
116383 CTTTCATTTT
1 TTTTCATTTT
116393 T
1 T
116394 CCTCCTTTTT
Statistics
Matches: 89, Mismatches: 13, Indels: 28
0.68 0.10 0.22
Matches are distributed among these distances:
7 3 0.03
8 12 0.13
9 15 0.17
10 44 0.49
11 10 0.11
12 5 0.06
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.75
Consensus pattern (10 bp):
TTTTCATTTT
Found at i:116392 original size:28 final size:28
Alignment explanation
Indices: 116361--116435 Score: 84
Period size: 28 Copynumber: 2.8 Consensus size: 28
116351 CATTTTTCAT
*
116361 TTTTTTTCTCATTTTTCATTTTCTTTCA
1 TTTTTTTCTCTTTTTTCATTTTCTTTCA
*
116389 -TTTTTCCTCCTTTTTTCATTTTCTTT--
1 TTTTTTTCT-CTTTTTTCATTTTCTTTCA
* *
116415 TTTCTTTCTTTTTTTTCATTT
1 TTTTTTTCTCTTTTTTCATTT
116436 CTTCTTCAAG
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
26 11 0.28
27 13 0.32
28 16 0.40
ACGTcount: A:0.07, C:0.19, G:0.00, T:0.75
Consensus pattern (28 bp):
TTTTTTTCTCTTTTTTCATTTTCTTTCA
Found at i:116410 original size:7 final size:7
Alignment explanation
Indices: 116295--116382 Score: 60
Period size: 7 Copynumber: 12.6 Consensus size: 7
116285 TTTTCTTCTT
116295 TTTTTCA
1 TTTTTCA
116302 TTTTTCA
1 TTTTTCA
*
116309 TTTTTTTA
1 -TTTTTCA
116317 TTTTTCA
1 TTTTTCA
116324 -TTTT--
1 TTTTTCA
*
116328 TTCTTCA
1 TTTTTCA
*
116335 TTTTTCTT
1 TTTTTC-A
116343 TTTTTCACCA
1 TTTTT---CA
116353 TTTTTCA
1 TTTTTCA
116360 TTTTT--
1 TTTTTCA
*
116365 TTTCTCA
1 TTTTTCA
116372 TTTTTCA
1 TTTTTCA
116379 TTTT
1 TTTT
116383 CTTTCATTTT
Statistics
Matches: 63, Mismatches: 8, Indels: 20
0.69 0.09 0.22
Matches are distributed among these distances:
5 7 0.11
6 4 0.06
7 35 0.56
8 11 0.17
10 5 0.08
11 1 0.02
ACGTcount: A:0.11, C:0.15, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTTTCA
Found at i:116416 original size:13 final size:14
Alignment explanation
Indices: 116398--116437 Score: 57
Period size: 13 Copynumber: 3.0 Consensus size: 14
116388 ATTTTTCCTC
116398 CTTTTTTCATTT-T
1 CTTTTTTCATTTCT
116411 CTTTTTTC-TTTCT
1 CTTTTTTCATTTCT
*
116424 TTTTTTTCATTTCT
1 CTTTTTTCATTTCT
116438 TCTTCAAGCG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 3 0.12
13 16 0.67
14 5 0.21
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.78
Consensus pattern (14 bp):
CTTTTTTCATTTCT
Found at i:116428 original size:18 final size:17
Alignment explanation
Indices: 116277--116427 Score: 130
Period size: 18 Copynumber: 8.7 Consensus size: 17
116267 CTTTTATTTC
*
116277 TTTTTCTTTTTTCTTCTT
1 TTTTTCATTTTTCTT-TT
*
116295 TTTTTCATTTTTC-ATT
1 TTTTTCATTTTTCTTTT
116311 TTTTT-ATTTTTCATTTT
1 TTTTTCATTTTTC-TTTT
*
116328 TTCTTCATTTTTCTTTT
1 TTTTTCATTTTTCTTTT
**
116345 TTTCACCATTTTTCATTTT
1 TTT-TTCATTTTTC-TTTT
*
116364 TTTTCTCATTTTTCATTT
1 TTTT-TCATTTTTCTTTT
* **
116382 TCTTTCATTTTTCCTCCT
1 TTTTTCATTTTT-CTTTT
116400 TTTTTCA-TTTTCTTTT
1 TTTTTCATTTTTCTTTT
116416 TTCTTTC-TTTTT
1 TT-TTTCATTTTT
116428 TTTCATTTCT
Statistics
Matches: 107, Mismatches: 17, Indels: 19
0.75 0.12 0.13
Matches are distributed among these distances:
15 7 0.07
16 12 0.11
17 32 0.30
18 41 0.38
19 15 0.14
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTTCATTTTTCTTTT
Found at i:126113 original size:16 final size:16
Alignment explanation
Indices: 126094--126131 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
126084 AAATCTTAAC
126094 CGCATGATATCTAATT
1 CGCATGATATCTAATT
126110 CGCATGATATCTAATT
1 CGCATGATATCTAATT
126126 CGCATG
1 CGCATG
126132 CTTGTTCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (16 bp):
CGCATGATATCTAATT
Found at i:129591 original size:44 final size:41
Alignment explanation
Indices: 129540--129621 Score: 110
Period size: 44 Copynumber: 1.9 Consensus size: 41
129530 TTTTTTACTA
* * *
129540 TCGCAACACTTTTTCATTATCGCAACAACACGTTTTTCAAACTC
1 TCGCAACACATTTTAACTATCGCAAC-ACA--TTTTTCAAACTC
129584 TCGCAACACATTTTAACTATCGCAACACATTTTTCAAA
1 TCGCAACACATTTTAACTATCGCAACACATTTTTCAAA
129622 ATCGCGTTGC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
41 9 0.26
43 3 0.09
44 23 0.66
ACGTcount: A:0.33, C:0.28, G:0.06, T:0.33
Consensus pattern (41 bp):
TCGCAACACATTTTAACTATCGCAACACATTTTTCAAACTC
Found at i:129606 original size:19 final size:19
Alignment explanation
Indices: 129531--129616 Score: 73
Period size: 19 Copynumber: 4.2 Consensus size: 19
129521 ATTTTGGATT
* *
129531 TTTTTACTATCGCAACACT
1 TTTTAACTATCGCAACACA
* *
129550 TTTTCATTATCGCAACAACA
1 TTTTAACTATCGCAAC-ACA
*
129570 CGTTTTTCAAACTCTCGCAACACA
1 ---TTTT--AACTATCGCAACACA
129594 TTTTAACTATCGCAACACA
1 TTTTAACTATCGCAACACA
129613 TTTT
1 TTTT
129617 TCAAAATCGC
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
19 32 0.59
20 2 0.04
21 4 0.07
23 4 0.07
24 3 0.06
25 9 0.17
ACGTcount: A:0.30, C:0.27, G:0.06, T:0.37
Consensus pattern (19 bp):
TTTTAACTATCGCAACACA
Found at i:130694 original size:37 final size:37
Alignment explanation
Indices: 130653--130723 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
130643 AATAGTCGAA
* *
130653 TAATAATTTCATTTACTTTATCCTAACCTTTAACGAT
1 TAATAATTTCATTTACTTTACCCTAACATTTAACGAT
*
130690 TAATAATTTCGTTTACTTTACCCTAACATTTAAC
1 TAATAATTTCATTTACTTTACCCTAACATTTAAC
130724 AAATTTTAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.32, C:0.20, G:0.03, T:0.45
Consensus pattern (37 bp):
TAATAATTTCATTTACTTTACCCTAACATTTAACGAT
Found at i:137892 original size:10 final size:9
Alignment explanation
Indices: 137877--137930 Score: 63
Period size: 10 Copynumber: 5.7 Consensus size: 9
137867 TGCTGGAAAA
137877 ACCGGTTTTG
1 ACCGG-TTTG
137887 ACCGGTTTG
1 ACCGGTTTG
*
137896 ACCGGTTCG
1 ACCGGTTTG
137905 AACCGGTTTG
1 -ACCGGTTTG
*
137915 ACCCGATTTG
1 A-CCGGTTTG
137925 ACCGGT
1 ACCGGT
137931 CAGACCCGAC
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
9 17 0.45
10 21 0.55
ACGTcount: A:0.15, C:0.26, G:0.30, T:0.30
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:137901 original size:19 final size:18
Alignment explanation
Indices: 137877--137930 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 18
137867 TGCTGGAAAA
137877 ACCGGTTTTGACCGGTTTG
1 ACCGG-TTTGACCGGTTTG
*
137896 ACCGGTTCGAACCGGTTTG
1 ACCGGTTTG-ACCGGTTTG
*
137915 ACCCGATTTGACCGGT
1 A-CCGGTTTGACCGGT
137931 CAGACCCGAC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 3 0.10
19 21 0.70
20 6 0.20
ACGTcount: A:0.15, C:0.26, G:0.30, T:0.30
Consensus pattern (18 bp):
ACCGGTTTGACCGGTTTG
Found at i:152047 original size:3 final size:3
Alignment explanation
Indices: 152039--152066 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
152029 ATGCCCCTAT
152039 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
152067 GTTTACATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:162447 original size:31 final size:32
Alignment explanation
Indices: 162404--162505 Score: 100
Period size: 31 Copynumber: 3.2 Consensus size: 32
162394 TAAAATAAAG
*
162404 ATAATTTTTATAAGTTTAAGAATTGTTTTATA
1 ATAATTTTTATAAATTTAAGAATTGTTTTATA
* *
162436 ATAA-TTTTATAAATTTAATACTTGTTTTATA
1 ATAATTTTTATAAATTTAAGAATTGTTTTATA
* * ** *
162467 ATAA-CTTAATAAAATTTAATTATTATTTTATA
1 ATAATTTTTAT-AAATTTAAGAATTGTTTTATA
*
162499 ATTATTT
1 ATAATTT
162506 AAAAATAATT
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
31 32 0.55
32 25 0.43
33 1 0.02
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (32 bp):
ATAATTTTTATAAATTTAAGAATTGTTTTATA
Found at i:162496 original size:32 final size:31
Alignment explanation
Indices: 162429--162500 Score: 92
Period size: 32 Copynumber: 2.3 Consensus size: 31
162419 TTAAGAATTG
* * *
162429 TTTTATAATAATTTTATAAATTTAATACTTG
1 TTTTATAATAACTTAATAAATTTAATACTTA
162460 TTTTATAATAACTTAATAAAATTTAATTA-TTA
1 TTTTATAATAACTTAAT-AAATTTAA-TACTTA
162492 TTTTATAAT
1 TTTTATAAT
162501 TATTTAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
31 15 0.42
32 19 0.53
33 2 0.06
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (31 bp):
TTTTATAATAACTTAATAAATTTAATACTTA
Found at i:167352 original size:4 final size:4
Alignment explanation
Indices: 167343--172496 Score: 9787
Period size: 4 Copynumber: 1302.5 Consensus size: 4
167333 ATTATTGGAT
167343 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
167391 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
167439 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
167487 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
167535 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
167583 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
167631 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
*
167679 TAGA TAGA TAGA TAGA TAGA TAGA TGATA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA T-AGA TAGA TAGA TAGA TAGA TAGA
167728 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
167776 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
167824 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
167872 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
167920 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
167968 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
*
168016 TAGA TAGA TATA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
168064 TAGA TAGA TAGA TAGA TAG- -AGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
168110 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
168158 TAGA TAGA TAGA TAGA TAGA TAGA TAGA T--A TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
168204 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
168252 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
168300 TAGA TAG- -AGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA T--A TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
168344 TAGA TAGA TAGA TAGA TAGA TA-A TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
168391 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TA-A TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
168438 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
168486 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
168534 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
168582 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
168630 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
168678 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA T-GA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
168725 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
168773 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
168821 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
168869 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
168917 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
168965 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
*
169013 TAGA TAGA TAGA T--A TAGA TAGA TAGA TAGA TAGA TAGA TATA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
169059 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
169107 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
*
169155 TAGA TAGA TAGA TAGA GAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
169203 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
169251 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
169299 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
169347 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
169395 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
169443 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
169491 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
169539 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
169587 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
169635 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAG- TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
169682 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
169730 TAGA TAGA TAGA TAGA TAGA TAGA TAGA T-GA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
169777 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
169825 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
169873 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
169921 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
169969 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
170017 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
170065 TAGA TAGA TAGA TAG- -AGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
170111 TAGA TAGA TAGA TAGA TAGA TAGA TA-A TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
*
170158 TAGA TAGA GAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
170206 TAGA TAGA TAGA TAGA TAGA TAGA TAGA T--A TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
170252 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
170300 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
170348 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA T--A TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
170394 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
170442 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
170490 TAGA TAGA TAGA TAGA TAGA TAG- -AGA TAGA TAGA TAGA T--A TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
170534 TAGA TAGA TAGA TAGA TAG- -AGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
170580 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
*
170628 TAGA TAGA TAGA TATA TAGA TAGA TAGA TAGA TAGA T--A TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
*
170674 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGC TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
170722 TAGA TAGA TAGA TAGA TAGA TAGA T--A TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
170768 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
170816 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
170864 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
170912 TAGA TAGA T--A TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
170958 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
171006 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA T--A TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
171052 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
171100 TAGA TAGA TAGA TAGA T--A TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
171146 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
171194 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
171242 TAGA TAGA TAGA TAGA TAGA T--A TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
171288 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
171336 TAGA TAGA TAGA TAGA TAG- TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
171383 TAGA TAGA TAGA TAGA T--A TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
171429 TAGA T-GA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
171476 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
171524 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
171572 TAGA TAGA TAGA T--A TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
*
171618 TGAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TCGA TAGA
1 T-AGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
171667 TAGA TAGTA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAG-A TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
171716 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
171764 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
171812 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
171860 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
171908 TAGA TAGA TAGA TAGA TAGA T--A TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
171954 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
172002 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
172050 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA T-GA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
172097 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
172145 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA T--A
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
*
172191 TAGA TAGA TAGA TAGA TAGA TAGA TCGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
172239 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
172287 TAGA TAGA T--A TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
172333 TAGA TAGA TAGA TAGA T--A TAGA TAGA TAGA TAGA TAGA TA-A TA-A
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
172377 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA T--A TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
172423 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
172471 TAGA TAGA TAGA TAGA TAGA TAGA TA
1 TAGA TAGA TAGA TAGA TAGA TAGA TA
172497 ACGTGAGAGA
Statistics
Matches: 5071, Mismatches: 18, Indels: 122
0.97 0.00 0.02
Matches are distributed among these distances:
2 48 0.01
3 33 0.01
4 4979 0.98
5 11 0.00
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (4 bp):
TAGA
Found at i:179229 original size:27 final size:27
Alignment explanation
Indices: 179171--179228 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
179161 TTTATAAATA
*
179171 AAAATAAAAATATTAATATATTCTATT
1 AAAATAAAAATATTAAAATATTCTATT
179198 AAAATAAAAATATTATAAATTATT-TATT
1 AAAATAAAAATATTA-AAA-TATTCTATT
179226 AAA
1 AAA
179229 TTAATTATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 15 0.54
28 9 0.32
29 4 0.14
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (27 bp):
AAAATAAAAATATTAAAATATTCTATT
Found at i:181667 original size:21 final size:21
Alignment explanation
Indices: 181625--181668 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
181615 AATCTATTTC
* *
181625 AATTAATTTTTTATTTTCAAA
1 AATTAATTTTTTATATTAAAA
181646 AATT-ATTTTTTAATATTAAAA
1 AATTAATTTTTT-ATATTAAAA
181667 AA
1 AA
181669 CATGTCAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
AATTAATTTTTTATATTAAAA
Found at i:184588 original size:55 final size:54
Alignment explanation
Indices: 184529--184808 Score: 186
Period size: 54 Copynumber: 5.1 Consensus size: 54
184519 AGACTTGAAA
* *
184529 AATCTTCAAATGATAA-GTCTGCTCCCTATTCC-TTCAGGGAGTATA-AGACTCGATC
1 AATCTTCAAAT-A-AAGGTCCGCTCCCTA-TCCGTTCAGGGAGTATAGA-ACTCGAAC
184584 AATCTTC-AATAAACGGGTCCGCTCCCTATCCGTTCAGGGAGTATAGAACTCGAAC
1 AATCTTCAAATAAA--GGTCCGCTCCCTATCCGTTCAGGGAGTATAGAACTCGAAC
* * *
184639 AATCTTCATAA-AACGGGTCCGCTCTCTATTCC-TTCAGAGAGTATAGAACTCGAAC
1 AATCTTCA-AATAA-AGGTCCGCTCCCTA-TCCGTTCAGGGAGTATAGAACTCGAAC
*** ** * * *
184694 -ATCTTCTTCTTACGGGTTCGCTCCCTTTTTC-TTCAGGGAGTATAGAACTCGAAC
1 AATCTTC-AAATAAAGGTCCGCTCCC-TATCCGTTCAGGGAGTATAGAACTCGAAC
* ** * * *
184748 AACTTCTTC--TTACGGGTTCGCTCCCTCTTAC-TTCAGGGAGTATAGAACTCGAAC
1 AA--TCTTCAAATAAAGGTCCGCTCCCT-ATCCGTTCAGGGAGTATAGAACTCGAAC
184802 AATCTTC
1 AATCTTC
184809 TTCTAACGGG
Statistics
Matches: 194, Mismatches: 15, Indels: 35
0.80 0.06 0.14
Matches are distributed among these distances:
52 7 0.04
53 2 0.01
54 90 0.46
55 82 0.42
56 6 0.03
57 7 0.04
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.30
Consensus pattern (54 bp):
AATCTTCAAATAAAGGTCCGCTCCCTATCCGTTCAGGGAGTATAGAACTCGAAC
Found at i:184728 original size:54 final size:54
Alignment explanation
Indices: 184616--184974 Score: 463
Period size: 54 Copynumber: 6.6 Consensus size: 54
184606 TCCCTATCCG
* *** * * * *
184616 TTCAGGGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCCGCTCTCTATTCC
1 TTCAGGGAGTATAGAACTCGAAC-ATCTTCTTCTTACGGGTTCGCTCCCTCTTTC
* *
184671 TTCAGAGAGTATAGAACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTTTTTC
1 TTCAGGGAGTATAGAACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTC
* *
184725 TTCAGGGAGTATAGAACTCGAACAACTTCTTCTTACGGGTTCGCTCCCTCTTAC
1 TTCAGGGAGTATAGAACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTC
*
184779 TTCAGGGAGTATAGAACTCGAACAATCTTCTTCTAACGGGTTCGCTCCCTCTTTC
1 TTCAGGGAGTATAGAACTCGAAC-ATCTTCTTCTTACGGGTTCGCTCCCTCTTTC
* * * * *
184834 -TCTAGGAAGTATGGAACTCGAACATATTCTTCTTACTGGTTCGCTCTCTCTTTC
1 TTC-AGGGAGTATAGAACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTC
* *
184888 -TCTAGGGAGTATGGAACTCGAACATCTTCTTCTTACGGGTTCGCTCCTTCTTTC
1 TTC-AGGGAGTATAGAACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTC
*
184942 -TCTAGGGAGTATGGAACTCGAACATCTTCTTCT
1 TTC-AGGGAGTATAGAACTCGAACATCTTCTTCT
184975 GCTTTACTAT
Statistics
Matches: 275, Mismatches: 27, Indels: 5
0.90 0.09 0.02
Matches are distributed among these distances:
54 207 0.75
55 68 0.25
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (54 bp):
TTCAGGGAGTATAGAACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTC
Found at i:184737 original size:109 final size:106
Alignment explanation
Indices: 184619--184972 Score: 455
Period size: 109 Copynumber: 3.3 Consensus size: 106
184609 CTATCCGTTC
* * * * *
184619 AGGGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCCGCTCTCTATTCCTTCAGAGAGTATA
1 AGGGAGTATAGAACTCGAACAATCTTC-T--TACGGGTTCGCTCTCTCTTACTTCAGGGAGTATA
184684 GAACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTTTTTCT-T
63 GAACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTTTTTCTCT
*
184727 CAGGGAGTATAGAACTCGAACAACTTCTTCTTACGGGTTCGCTCCCTCTTACTTCAGGGAGTATA
1 -AGGGAGTATAGAACTCGAACAA--TCTTCTTACGGGTTCGCTCTCTCTTACTTCAGGGAGTATA
* *
184792 GAACTCGAACAATCTTCTTCTAACGGGTTCGCTCCCTCTTTCTCT
63 GAACTCGAAC-ATCTTCTTCTTACGGGTTCGCTCCCTTTTTCTCT
* * * * *
184837 AGGAAGTATGGAACTCGAACATATTCTTCTTACTGGTTCGCTCTCTCTTTC-TCTAGGGAGTATG
1 AGGGAGTATAGAACTCGAACA-A-TCTTCTTACGGGTTCGCTCTCTCTTACTTC-AGGGAGTATA
184901 GAACTCGAACATCTTCTTCTTACGGGTTCGCT-CCTTCTTTCTCT
63 GAACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTT-TTTCTCT
*
184945 AGGGAGTATGGAACTCGAAC-ATCTTCTT
1 AGGGAGTATAGAACTCGAACAATCTTCTT
184973 CTGCTTTACT
Statistics
Matches: 221, Mismatches: 17, Indels: 18
0.86 0.07 0.07
Matches are distributed among these distances:
105 7 0.03
106 1 0.00
107 3 0.01
108 87 0.39
109 115 0.52
110 3 0.01
111 5 0.02
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (106 bp):
AGGGAGTATAGAACTCGAACAATCTTCTTACGGGTTCGCTCTCTCTTACTTCAGGGAGTATAGAA
CTCGAACATCTTCTTCTTACGGGTTCGCTCCCTTTTTCTCT
Found at i:184853 original size:163 final size:163
Alignment explanation
Indices: 184616--184974 Score: 494
Period size: 163 Copynumber: 2.2 Consensus size: 163
184606 TCCCTATCCG
* ** *
184616 TTCAGGGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCCGCTCTCTATTCCTTCAGAGAGT
1 TTCAGGGAGTATAGAACTCGAACAATCTTCTTCTAACGGGTCCGCTCCCTATTCCTTCAGAGAGT
* *
184681 ATAGAACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTTTTTCT-TCAGGGAGTATAGAACTCG
66 ATAGAACTCGAACATATTCTTCTTACGGGTTCGCTCCCTCTTTCTCT-AGGGAGTATAGAACTCG
184745 AACAACTTCTTCTTACGGGTTCGCTCCCTCTTAC
130 AACAACTTCTTCTTACGGGTTCGCTCCCTCTTAC
* * *
184779 TTCAGGGAGTATAGAACTCGAACAATCTTCTTCTAACGGGTTCGCTCCCTCTTTC-TCTAG-GAA
1 TTCAGGGAGTATAGAACTCGAACAATCTTCTTCTAACGGGTCCGCTCCCTATTCCTTC-AGAG-A
* * * *
184842 GTATGGAACTCGAACATATTCTTCTTACTGGTTCGCTCTCTCTTTCTCTAGGGAGTATGGAACTC
64 GTATAGAACTCGAACATATTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTC
* * *
184907 GAACATCTTCTTCTTACGGGTTCGCTCCTTCTTTC
129 GAACAACTTCTTCTTACGGGTTCGCTCCCTCTTAC
*
184942 -TCTAGGGAGTATGGAACTCGAAC-ATCTTCTTCT
1 TTC-AGGGAGTATAGAACTCGAACAATCTTCTTCT
184975 GCTTTACTAT
Statistics
Matches: 175, Mismatches: 17, Indels: 9
0.87 0.08 0.04
Matches are distributed among these distances:
162 15 0.09
163 159 0.91
164 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (163 bp):
TTCAGGGAGTATAGAACTCGAACAATCTTCTTCTAACGGGTCCGCTCCCTATTCCTTCAGAGAGT
ATAGAACTCGAACATATTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGA
ACAACTTCTTCTTACGGGTTCGCTCCCTCTTAC
Found at i:185426 original size:36 final size:37
Alignment explanation
Indices: 185351--185474 Score: 169
Period size: 37 Copynumber: 3.4 Consensus size: 37
185341 TTACTCCAAC
* * * *
185351 ACTCTTCTGAGAAGGCTTAAAAAGGATATGCTTCACT
1 ACTCTTCGGTGAAGGCTTAAAATGGATTTGCTTCACT
*
185388 ACTCTTCGGTGAAGGCTTAAGATGG-TTTGCTTCACT
1 ACTCTTCGGTGAAGGCTTAAAATGGATTTGCTTCACT
* *
185424 ACTCTTTGGTGAAGGCTCAAAATGGATTTGCTTCACT
1 ACTCTTCGGTGAAGGCTTAAAATGGATTTGCTTCACT
*
185461 ACTCTTTGGTGAAG
1 ACTCTTCGGTGAAG
185475 ACTTGGCTTT
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
36 32 0.41
37 46 0.59
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.34
Consensus pattern (37 bp):
ACTCTTCGGTGAAGGCTTAAAATGGATTTGCTTCACT
Found at i:186906 original size:125 final size:125
Alignment explanation
Indices: 186682--186930 Score: 309
Period size: 125 Copynumber: 2.0 Consensus size: 125
186672 TAATGCCGCA
* * * *
186682 ACATTATCTTATTCAGGTACGAGCCTTCAAAATGCTCAAACACCTCAAATTATAAGGCTCATTTT
1 ACATTATCTCATACAGGTACGAGCCTTCAAAATGCCCAAACACCTCAAATTATAAGGCTCATTCT
* *** *
186747 TAATGACTTCTTGGTGTGAACCTTATCATCTCAACATAATGTGGGTTCAGTCATGCCCCG
66 TAATGACTCCTTGGTCCAAACCTTATCATATCAACATAATGTGGGTTCAGTCATGCCCCG
* * * * * * *
186807 ACATTATCTCATACTGGTACGGGCCTTCAAAATGCCCCATCATCTCAATTTGTAAGGCTCATTCT
1 ACATTATCTCATACAGGTACGAGCCTTCAAAATGCCCAAACACCTCAAATTATAAGGCTCATTCT
* * * * *
186872 TCATGACTCCTTGGTCCAAATCTTTTCATATCAACATGATGTGGGTTTAGTCATGCCCC
66 TAATGACTCCTTGGTCCAAACCTTATCATATCAACATAATGTGGGTTCAGTCATGCCCC
186931 AATGTGGGTA
Statistics
Matches: 103, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
125 103 1.00
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (125 bp):
ACATTATCTCATACAGGTACGAGCCTTCAAAATGCCCAAACACCTCAAATTATAAGGCTCATTCT
TAATGACTCCTTGGTCCAAACCTTATCATATCAACATAATGTGGGTTCAGTCATGCCCCG
Found at i:190367 original size:72 final size:72
Alignment explanation
Indices: 190250--190388 Score: 242
Period size: 72 Copynumber: 1.9 Consensus size: 72
190240 CCCCTAACAG
* *
190250 GTTCTTGATCAGTTGCTATCATCACATTGGCTGTACCACTAACATTCAGATTCTCACCCGAAGTC
1 GTTCTTGATCAGTTGCTATCATCACATTGACTGCACCACTAACATTCAGATTCTCACCCGAAGTC
190315 TTCATCT
66 TTCATCT
* *
190322 GTTCTTGATCATTTGCTATCATCACATTGATTGCACCACTAACATTCAGATTCTCACCCGAAGTC
1 GTTCTTGATCAGTTGCTATCATCACATTGACTGCACCACTAACATTCAGATTCTCACCCGAAGTC
190387 TT
66 TT
190389 ATATTTTCTT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 63 1.00
ACGTcount: A:0.24, C:0.27, G:0.13, T:0.35
Consensus pattern (72 bp):
GTTCTTGATCAGTTGCTATCATCACATTGACTGCACCACTAACATTCAGATTCTCACCCGAAGTC
TTCATCT
Found at i:191533 original size:46 final size:46
Alignment explanation
Indices: 191483--191570 Score: 158
Period size: 46 Copynumber: 1.9 Consensus size: 46
191473 GCTTTGTTTG
* *
191483 AAAAAAATAAACCTAGCCGCATGATTTCTAGTTCGCATACATGCTC
1 AAAAAAATAAACCTAACCGCATGATTTCTAGTTCACATACATGCTC
191529 AAAAAAATAAACCTAACCGCATGATTTCTAGTTCACATACAT
1 AAAAAAATAAACCTAACCGCATGATTTCTAGTTCACATACAT
191571 TTATTCAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.41, C:0.23, G:0.10, T:0.26
Consensus pattern (46 bp):
AAAAAAATAAACCTAACCGCATGATTTCTAGTTCACATACATGCTC
Found at i:198521 original size:23 final size:23
Alignment explanation
Indices: 198460--198547 Score: 94
Period size: 23 Copynumber: 3.9 Consensus size: 23
198450 CAACTCGTAA
* *
198460 TTTACACCGAAGTTCCACATA-A
1 TTTACACCGAAGTGCCACATAGG
198482 TTGT-C-CCGAAG-GACCACATAGG
1 TT-TACACCGAAGTG-CCACATAGG
*
198504 TTTGCACCGAAGTGCCACATAGG
1 TTTACACCGAAGTGCCACATAGG
*
198527 TTTACATCGAAGTGCCACATA
1 TTTACACCGAAGTGCCACATA
198548 TTTGTCTCGA
Statistics
Matches: 56, Mismatches: 4, Indels: 11
0.79 0.06 0.15
Matches are distributed among these distances:
21 14 0.25
22 6 0.11
23 35 0.62
24 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (23 bp):
TTTACACCGAAGTGCCACATAGG
Found at i:198744 original size:21 final size:21
Alignment explanation
Indices: 198720--198770 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
198710 CATAGAGTTT
*
198720 GTTCACATTCACTGGTTTAAA
1 GTTCACATTCACTGGTTCAAA
*
198741 GTTCACATTCACTTGTTCAAA
1 GTTCACATTCACTGGTTCAAA
198762 GTTCACATT
1 GTTCACATT
198771 TCCATAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.27, C:0.22, G:0.12, T:0.39
Consensus pattern (21 bp):
GTTCACATTCACTGGTTCAAA
Found at i:199220 original size:54 final size:54
Alignment explanation
Indices: 199162--199290 Score: 168
Period size: 54 Copynumber: 2.4 Consensus size: 54
199152 CCCTTCAATT
* *
199162 GTATCGATACCTCCTCATGGTACTGATATCAAAATAACATTCGATGTTTCAAGG
1 GTATCGATACCTCCTCAGGGTACTGATACCAAAATAACATTCGATGTTTCAAGG
** ** *
199216 GTATCGATACCTCCTCAGGGTACTGATACCAATCTGGCATTCGATGTTTTAAGG
1 GTATCGATACCTCCTCAGGGTACTGATACCAAAATAACATTCGATGTTTCAAGG
*
199270 GTATCAATACCATCCTTCAGG
1 GTATCGATACC-TCC-TCAGG
199291 TATCGATACT
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
54 57 0.88
55 3 0.05
56 5 0.08
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (54 bp):
GTATCGATACCTCCTCAGGGTACTGATACCAAAATAACATTCGATGTTTCAAGG
Found at i:199294 original size:20 final size:21
Alignment explanation
Indices: 199269--199323 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
199259 ATGTTTTAAG
*
199269 GGTATCAATACCATCCTT-CA
1 GGTATCGATACCATCCTTACA
* *
199289 GGTATCGATACTACCCTTACA
1 GGTATCGATACCATCCTTACA
199310 -GTATCGATACCATC
1 GGTATCGATACCATC
199324 AATAGGTGTC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 27 0.93
21 2 0.07
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.29
Consensus pattern (21 bp):
GGTATCGATACCATCCTTACA
Found at i:199345 original size:39 final size:40
Alignment explanation
Indices: 199270--199348 Score: 106
Period size: 39 Copynumber: 2.0 Consensus size: 40
199260 TGTTTTAAGG
** *
199270 GTATCAATACCATCCTTCAGGTATCGATACTACCCTTACA
1 GTATCAATACCATCAATCAGGTATCGATACAACCCTTACA
* *
199310 GTATCGATACCATCAAT-AGGTGTCGATACAACCCTTACA
1 GTATCAATACCATCAATCAGGTATCGATACAACCCTTACA
199349 AATACTCATA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
39 20 0.59
40 14 0.41
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.28
Consensus pattern (40 bp):
GTATCAATACCATCAATCAGGTATCGATACAACCCTTACA
Found at i:199397 original size:21 final size:21
Alignment explanation
Indices: 199371--199424 Score: 108
Period size: 21 Copynumber: 2.6 Consensus size: 21
199361 TAACCCAAGA
199371 GGTATCGATACTGTTCATAAG
1 GGTATCGATACTGTTCATAAG
199392 GGTATCGATACTGTTCATAAG
1 GGTATCGATACTGTTCATAAG
199413 GGTATCGATACT
1 GGTATCGATACT
199425 CTAAGCCCAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (21 bp):
GGTATCGATACTGTTCATAAG
Found at i:201726 original size:23 final size:23
Alignment explanation
Indices: 201700--201768 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
201690 CACCACAGCT
201700 CGTATAATTGCACCGAAGTGCCA
1 CGTATAATTGCACCGAAGTGCCA
* * *
201723 CGTAGAATTGCACCGGAGTGCCG
1 CGTATAATTGCACCGAAGTGCCA
* *
201746 CATATAATTGCACCGTAGTGCCA
1 CGTATAATTGCACCGAAGTGCCA
201769 TATAATAATG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.28, C:0.26, G:0.25, T:0.22
Consensus pattern (23 bp):
CGTATAATTGCACCGAAGTGCCA
Found at i:201957 original size:103 final size:103
Alignment explanation
Indices: 201784--201996 Score: 372
Period size: 103 Copynumber: 2.1 Consensus size: 103
201774 TAATGTCCAT
* *
201784 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
*
201849 GACTTCACACATGTTCTAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
* *
201887 AAGGACCACATATCATTCTTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
*
201952 TACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
201990 AAGGACC
1 AAGGACC
201997 GCGTAGACCC
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 104 1.00
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:203548 original size:65 final size:65
Alignment explanation
Indices: 203388--203548 Score: 195
Period size: 64 Copynumber: 2.5 Consensus size: 65
203378 TTGTTTAAGG
* * * ** *
203388 TGCATCGATGCACATGCAGTGCATCGATGCAT--GAATTTAAATAGAAAACATCGAATAGGATTT
1 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCA-TTAAATAGAAAACACCGAATAGGATTT
203451 A
65 A
*
203452 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATA-CAAACACCGAATAGGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATAGAAAACACCGAATAGGATTTA
*
203516 TGCATCGATGCAT-GGTGTAGTGCATCGATGCAT
1 TGCATCGATGCATAAG-G-AGTGCATCGATGCAT
203549 ACCTTTATTA
Statistics
Matches: 85, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
63 1 0.01
64 61 0.72
65 22 0.26
66 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.26
Consensus pattern (65 bp):
TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATAGAAAACACCGAATAGGATTTA
Found at i:204063 original size:18 final size:18
Alignment explanation
Indices: 204040--204074 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
204030 CTAGGAGATT
204040 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
204058 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
204075 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:205130 original size:149 final size:149
Alignment explanation
Indices: 204956--205270 Score: 578
Period size: 149 Copynumber: 2.1 Consensus size: 149
204946 GAGTCGAGGA
204956 TCTACGCGGTCCTTCGGGATATATATATATTCTTTGGAACATATGTGAAGTCTGGTGAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTTTGGAACATATGTGAAGTCTGGTGAGACACAT
205021 ATATGATCCCTAACATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ATATGATCCCTAACATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
*
205086 TATGGCACTACGGTGTAAT
131 TATGGCACTACGGTGCAAT
*
205105 TCTACGCGGTCCTTCGGGATATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTTTGGAACATATGTGAAGTCTGGTGAGACACAT
* *
205170 ATATGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATTATTA
66 ATATGATCCCTAACATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
205235 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
205254 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
205271 TGCAATTATA
Statistics
Matches: 161, Mismatches: 4, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
148 1 0.01
149 160 0.99
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGATATATATATATTCTTTGGAACATATGTGAAGTCTGGTGAGACACAT
ATATGATCCCTAACATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:205271 original size:23 final size:23
Alignment explanation
Indices: 205238--205282 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
205228 ATTATTATAT
*
205238 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
*
205261 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
205283 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:206708 original size:22 final size:21
Alignment explanation
Indices: 206683--206742 Score: 95
Period size: 20 Copynumber: 2.9 Consensus size: 21
206673 GTCGCTTGAG
*
206683 GGGTATCGATTCCCCATTGAAT
1 GGGTACCGATTCCCC-TTGAAT
206705 GGGTACCGATT-CCCTTGAAT
1 GGGTACCGATTCCCCTTGAAT
206725 GGGTACCGATTCCCCTTG
1 GGGTACCGATTCCCCTTG
206743 CCCAGAAATC
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
20 17 0.47
21 9 0.25
22 10 0.28
ACGTcount: A:0.18, C:0.27, G:0.25, T:0.30
Consensus pattern (21 bp):
GGGTACCGATTCCCCTTGAAT
Found at i:207672 original size:16 final size:16
Alignment explanation
Indices: 207633--207675 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
207623 AGCATTAGTT
*
207633 CTTATCACTCAAAATA
1 CTTATCAATCAAAATA
* *
207649 ATTAATCAATCAAATTA
1 CTT-ATCAATCAAAATA
207666 CTTATCAATC
1 CTTATCAATC
207676 TTTAATTACC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.35
Consensus pattern (16 bp):
CTTATCAATCAAAATA
Found at i:210396 original size:23 final size:24
Alignment explanation
Indices: 210370--210439 Score: 72
Period size: 23 Copynumber: 3.0 Consensus size: 24
210360 CACCACAGCT
*
210370 CGTATAATTGCACCGAAGTG-CCA
1 CGTAGAATTGCACCGAAGTGTCCA
* * * *
210393 CGTAGAATTTCACCGGAGTGTTCG
1 CGTAGAATTGCACCGAAGTGTCCA
*
210417 CGTAGAATTGCACCGTAGT-TCCA
1 CGTAGAATTGCACCGAAGTGTCCA
210440 TATAATAATG
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
23 19 0.51
24 18 0.49
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (24 bp):
CGTAGAATTGCACCGAAGTGTCCA
Found at i:210628 original size:103 final size:103
Alignment explanation
Indices: 210455--210672 Score: 364
Period size: 103 Copynumber: 2.1 Consensus size: 103
210445 TAATGTCCAT
* * * *
210455 AAGGACCACATATCATTCCTTAATAATCATATACATATACTAGGGATCAAGTATGTGTCTTACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
* *
210520 TACTTCATACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
210558 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
210623 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
210661 AAGGACCGCATA
1 AAGGACCACATA
210673 GACCCTCGGC
Statistics
Matches: 107, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
103 107 1.00
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:212838 original size:64 final size:61
Alignment explanation
Indices: 212769--212948 Score: 175
Period size: 64 Copynumber: 2.8 Consensus size: 61
212759 TTGGAATCCT
* * *
212769 AGTGCATCGGTGCACTAAGAGTGCATCGATGCATGAAGTGTATTCGATGTTTGAA-AAATAGCCT
1 AGTGCATCGATGCA-T-AGAGTGCATCGATGCATGAA-TGCATTCGATGTTTGAATAAA-AG-CA
212833 G
61 G
* * * *
212834 -GTGCATCGATGCATGGATTGTGCATCGATGCATCAAATGCATTCGATGTTTTAATTAAAGCAG
1 AGTGCATCGATGCATAGA--GTGCATCGATGCAT-GAATGCATTCGATGTTTGAATAAAAGCAG
*
212897 AGTGCATCGATGCATGGAGAGTGCATCGGTGCATGGAATGCATTCGATGTTT
1 AGTGCATCGATGCAT--AGAGTGCATCGATGCAT-GAATGCATTCGATGTTT
212949 CAATTTATTC
Statistics
Matches: 97, Mismatches: 11, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
62 2 0.02
63 3 0.03
64 86 0.89
65 4 0.04
66 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (61 bp):
AGTGCATCGATGCATAGAGTGCATCGATGCATGAATGCATTCGATGTTTGAATAAAAGCAG
Found at i:212919 original size:19 final size:19
Alignment explanation
Indices: 212895--212945 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
212885 TAATTAAAGC
212895 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
212914 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
212933 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
212946 TTTCAATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:212983 original size:21 final size:21
Alignment explanation
Indices: 212959--212998 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
212949 CAATTTATTC
212959 ATTGATGCATCGATGCATGGT
1 ATTGATGCATCGATGCATGGT
*
212980 ATTGATGCATCGGTGCATG
1 ATTGATGCATCGATGCATG
212999 CCTTTGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.33
Consensus pattern (21 bp):
ATTGATGCATCGATGCATGGT
Found at i:215610 original size:24 final size:23
Alignment explanation
Indices: 215539--215618 Score: 85
Period size: 24 Copynumber: 3.5 Consensus size: 23
215529 CATGGTCTTG
**
215539 TGCATCGATGCACATTCAAGTCA
1 TGCATCGATGCACATTCAAGGGA
* *
215562 TGCATCGGTG--CA-TCATGCGGA
1 TGCATCGATGCACATTCAAG-GGA
215583 TGCATCGATGCACATTCAAAGGGA
1 TGCATCGATGCACATTC-AAGGGA
215607 TGCATCGATGCA
1 TGCATCGATGCA
215619 TTATTAAGTG
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
20 4 0.09
21 12 0.26
23 11 0.24
24 17 0.37
25 2 0.04
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.24
Consensus pattern (23 bp):
TGCATCGATGCACATTCAAGGGA
Found at i:215631 original size:44 final size:41
Alignment explanation
Indices: 215516--215638 Score: 120
Period size: 44 Copynumber: 2.8 Consensus size: 41
215506 AAAACCCGAC
*
215516 GGATGCATCGATGCATGGTCTTGTGCATCGATGCACATTCAAG
1 GGATGCATCGATGCAT--TATTGTGCATCGATGCACATTCAAG
** * * *
215559 TCATGCATCGGTGCATCATGCGGATGCATCGATGCACATTCAAAG
1 GGATGCATCGATGCATTAT--TG-TGCATCGATGCACATTC-AAG
215604 GGATGCATCGATGCATTATTAAGTGCATCGATGCA
1 GGATGCATCGATGCATTATT--GTGCATCGATGCA
215639 TTAAGCACAA
Statistics
Matches: 63, Mismatches: 11, Indels: 11
0.74 0.13 0.13
Matches are distributed among these distances:
41 1 0.02
43 14 0.22
44 29 0.46
45 19 0.30
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (41 bp):
GGATGCATCGATGCATTATTGTGCATCGATGCACATTCAAG
Found at i:221408 original size:18 final size:17
Alignment explanation
Indices: 221354--221402 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
221344 TTGGACTCCT
* *
221354 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TGA
221372 GAGTGCATCGATGCATGA
1 -AGTGCATCGATGCATGA
221390 AGTGCATTCGATG
1 AGTGCA-TCGATG
221403 TTTGAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATGA
Found at i:221459 original size:63 final size:64
Alignment explanation
Indices: 221354--221531 Score: 204
Period size: 63 Copynumber: 2.8 Consensus size: 64
221344 TTGGACTCCT
* * *
221354 AGTGCATCGGTGCACT-AAGAGTGCATCGATGCATGAAGTGCATTCGATGTTTGAA-AAATAGCC
1 AGTGCATCGATGCA-TGGAGAGTGCATCGATGCATGAAATGCATTCGATGTTTGAATAAA-AG-C
*
221417 TG
63 AG
* * * *
221419 -GTGCATCGATGCATGGA-TGTGCATCGATGCATCAAATGCATTCGATGTTTTAATTAAAGCAG
1 AGTGCATCGATGCATGGAGAGTGCATCGATGCATGAAATGCATTCGATGTTTGAATAAAAGCAG
* *
221481 AGTGCATCGATGCATGGAGAGTGCATCGGTGCATGGAA-GCATTCGATGTTT
1 AGTGCATCGATGCATGGAGAGTGCATCGATGCATGAAATGCATTCGATGTTT
221532 CAATTTATTC
Statistics
Matches: 97, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
62 2 0.02
63 65 0.67
64 30 0.31
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (64 bp):
AGTGCATCGATGCATGGAGAGTGCATCGATGCATGAAATGCATTCGATGTTTGAATAAAAGCAG
Found at i:221503 original size:19 final size:19
Alignment explanation
Indices: 221479--221517 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
221469 TAATTAAAGC
221479 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
221498 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
221517 A
1 A
221518 AGCATTCGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.15, G:0.38, T:0.21
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:221554 original size:64 final size:63
Alignment explanation
Indices: 221373--221561 Score: 177
Period size: 63 Copynumber: 3.0 Consensus size: 63
221363 GTGCACTAAG
* * * * * *
221373 AGTGCATCGATGCATGAAGTGCATTCGATGTTTGAA-AAATAGCCTG-GTGCATCGATGCATGGA
1 AGTGCATCGATGCATCAAATGCATTCGATGTTTCAATTAA-AG-CAGAATGCATCGATGCATGGA
* * *
221436 TGTGCATCGATGCATCAAATGCATTCGATGTTTTAATTAAAGCAGAGTGCATCGATGCATGGA
1 AGTGCATCGATGCATCAAATGCATTCGATGTTTCAATTAAAGCAGAATGCATCGATGCATGGA
* ** * ** *
221499 GAGTGCATCGGTGCATGGAA-GCATTCGATGTTTCAATTTATTCATTAATGCATCGATGCATGG
1 -AGTGCATCGATGCATCAAATGCATTCGATGTTTCAATTAAAGCA-GAATGCATCGATGCATGG
221562 TATTGATGCA
Statistics
Matches: 106, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
62 2 0.02
63 71 0.67
64 33 0.31
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (63 bp):
AGTGCATCGATGCATCAAATGCATTCGATGTTTCAATTAAAGCAGAATGCATCGATGCATGGA
Found at i:239625 original size:2 final size:2
Alignment explanation
Indices: 239618--239670 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
239608 GAAACAATTA
239618 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
*
239660 AT AT AT TT AT A
1 AT AT AT AT AT A
239671 CACTTATTTA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:240092 original size:26 final size:24
Alignment explanation
Indices: 240030--240092 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 24
240020 CATTTTAATC
240030 AAAATAT-TAATTATTAAAATATTT
1 AAAATATAT-ATTATTAAAATATTT
*
240054 AAAATATAT-TTATTAATAT-TTCT
1 AAAATATATATTATTAAAATATT-T
240077 AATAATATAATATTAT
1 AA-AATAT-ATATTAT
240093 ATTTTTAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
22 2 0.06
23 12 0.36
24 12 0.36
25 3 0.09
26 4 0.12
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
AAAATATATATTATTAAAATATTT
Found at i:240094 original size:22 final size:23
Alignment explanation
Indices: 240064--240110 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
240054 AAAATATATT
240064 TATTAATATTTCTAATAATATAA
1 TATTAATATTTCTAATAATATAA
* *
240087 TATT-ATATTTTTAATATTATAA
1 TATTAATATTTCTAATAATATAA
240109 TA
1 TA
240111 AAATAATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
TATTAATATTTCTAATAATATAA
Found at i:240124 original size:32 final size:32
Alignment explanation
Indices: 240058--240137 Score: 92
Period size: 32 Copynumber: 2.5 Consensus size: 32
240048 ATATTTAAAA
* *
240058 TATATTTATTAATATTTCTAATAATATAATAT
1 TATATTTATTAATATTTATAATAAAATAATAT
240090 TATATTT-TTAATA-TTATAATAAAATAATCAAT
1 TATATTTATTAATATTTATAATAAAATAAT--AT
*
240122 TATATTATAATAATAT
1 TATATT-TATTAATAT
240138 AAGATGTTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
30 13 0.32
31 6 0.15
32 15 0.38
33 1 0.03
34 5 0.12
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (32 bp):
TATATTTATTAATATTTATAATAAAATAATAT
Found at i:243656 original size:19 final size:19
Alignment explanation
Indices: 243628--243665 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
243618 ACTTCGAATG
*
243628 TAGGTTGTGTACCGATACA
1 TAGGTAGTGTACCGATACA
*
243647 TAGGTAGTGTATCGATACA
1 TAGGTAGTGTACCGATACA
243666 CACGTTAAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (19 bp):
TAGGTAGTGTACCGATACA
Found at i:244890 original size:64 final size:64
Alignment explanation
Indices: 244807--245030 Score: 263
Period size: 64 Copynumber: 3.5 Consensus size: 64
244797 TGTTTGAATG
** **
244807 TGCACCGATGCATTGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAAGACATCGAATGCAATTC
1 TGCACCGATGCATAAGTAGTGCATCGATGCATC-CCATTAATAATAAA-ACATCGAATGCAATTC
244870 A
64 A
* * **
244871 TGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGTAATTGG
1 TGCACCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCA
* * ** * * ** *
244935 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCAGCAATAATAATACATCGAATACCTTTTA
1 TGCACCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCA
244999 TGCACCGATGCATAAGTAGTGCATCGATGCAT
1 TGCACCGATGCATAAGTAGTGCATCGATGCAT
245031 ACCTTCATTA
Statistics
Matches: 138, Mismatches: 20, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
64 131 0.95
65 7 0.05
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.27
Consensus pattern (64 bp):
TGCACCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCA
Found at i:245419 original size:29 final size:29
Alignment explanation
Indices: 245377--245450 Score: 132
Period size: 29 Copynumber: 2.6 Consensus size: 29
245367 TGATATGAAG
*
245377 TGACATGAGCTACATGATCACAAGATAAA
1 TGACATGAGCTACATGATCACAAGAGAAA
245406 TGACATGAGCTACATGATCACAAGAGAAA
1 TGACATGAGCTACATGATCACAAGAGAAA
245435 TGACATGAG-TACATGA
1 TGACATGAGCTACATGA
245451 ACATATGAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
28 7 0.16
29 37 0.84
ACGTcount: A:0.43, C:0.16, G:0.20, T:0.20
Consensus pattern (29 bp):
TGACATGAGCTACATGATCACAAGAGAAA
Done.