Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003802.1 Hibiscus syriacus cultivar Beakdansim tig00008138_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: 270865
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:774 original size:18 final size:19
Alignment explanation
Indices: 751--786 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
741 AACAATAAAT
751 TAGCAAT-TAATAAAAAAC
1 TAGCAATATAATAAAAAAC
*
769 TAGCAATATGATAAAAAA
1 TAGCAATATAATAAAAAA
787 TTTGAACTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.61, C:0.08, G:0.08, T:0.22
Consensus pattern (19 bp):
TAGCAATATAATAAAAAAC
Found at i:10108 original size:54 final size:54
Alignment explanation
Indices: 10050--10207 Score: 194
Period size: 54 Copynumber: 2.9 Consensus size: 54
10040 TCTTTTGCCT
* *
10050 ACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTTGAAAATCTTCTGCAA
1 ACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAAAATCTTCTGAAA
* *
10104 ACGGGTTCGCTCCCACTTTCTTCAGGGAGTATAGAACTCGAAAATCTTTTGAAA
1 ACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAAAATCTTCTGAAA
* * * * *
10158 ACGTG-TCTGCTCCCTATTCCTTCAGAGAGTA-CGAGACTCGAACAATCTTC
1 ACGGGTTC-GCTCCCTCTTTCTTCAGGGAGTATAGA-ACTCGAA-AATCTTC
10208 AACAATCGTG
Statistics
Matches: 90, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
53 4 0.04
54 80 0.89
55 6 0.07
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (54 bp):
ACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAAAATCTTCTGAAA
Found at i:10226 original size:55 final size:55
Alignment explanation
Indices: 10159--10382 Score: 340
Period size: 55 Copynumber: 4.0 Consensus size: 55
10149 CTTTTGAAAA
*
10159 CGTGTCTGCTCCCTATTCCTTCAGAGAGTACGAGACTCGAACAATCTTCAACAAT
1 CGTGTCTGCTCCCTATTCCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAAT
* * *
10214 CGTGTCTACTCCCTATTCTTTCAGAGAGTATGAGACTCGAATAATCTTCAACAAT
1 CGTGTCTGCTCCCTATTCCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAAT
* *
10269 CGTGTCTGCTCCCTATTCTTTCAGAGAGTATAAGAGACTCGAACAAACTTCAACAAT
1 CGTGTCTGCTCCCTATTCCTTCAGAGAGTAT--GAGACTCGAACAATCTTCAACAAT
* * * *
10326 CGCGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGAT
1 CGTGTCTGCTCCCTATTCCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAAT
10381 CG
1 CG
10383 CTGGGAAACC
Statistics
Matches: 154, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
55 104 0.68
57 50 0.32
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (55 bp):
CGTGTCTGCTCCCTATTCCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAAT
Found at i:10333 original size:57 final size:56
Alignment explanation
Indices: 10124--10383 Score: 329
Period size: 55 Copynumber: 4.7 Consensus size: 56
10114 TCCCACTTTC
* * * *
10124 TTCAGGGAGTATAGA-ACTCGAA-AATCTTTTGAA-AA-CGTGTCTGCTCCCTATTCC
1 TTCAGAGAGTATAGAGACTCGAACAATC--TTCAACAATCGCGTCTGCTCCCTATTCT
* * *
10178 TTCAGAGAGTA-CGAGACTCGAACAATCTTCAACAATCGTGTCTACTCCCTATTCT
1 TTCAGAGAGTATAGAGACTCGAACAATCTTCAACAATCGCGTCTGCTCCCTATTCT
* *
10233 TTCAGAGAGTAT-GAGACTCGAATAATCTTCAACAATCGTGTCTGCTCCCTATTCT
1 TTCAGAGAGTATAGAGACTCGAACAATCTTCAACAATCGCGTCTGCTCCCTATTCT
*
10288 TTCAGAGAGTATAAGAGACTCGAACAAACTTCAACAATCGCGTCTGCTCCCTATT-T
1 TTCAGAGAGTAT-AGAGACTCGAACAATCTTCAACAATCGCGTCTGCTCCCTATTCT
*
10344 CTTCAGAGAGTATA-AGACTCGAACAATCTTCAACGATCGC
1 -TTCAGAGAGTATAGAGACTCGAACAATCTTCAACAATCGC
10384 TGGGAAACCT
Statistics
Matches: 186, Mismatches: 12, Indels: 15
0.87 0.06 0.07
Matches are distributed among these distances:
53 6 0.03
54 19 0.10
55 109 0.59
56 2 0.01
57 50 0.27
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.29
Consensus pattern (56 bp):
TTCAGAGAGTATAGAGACTCGAACAATCTTCAACAATCGCGTCTGCTCCCTATTCT
Found at i:10338 original size:112 final size:110
Alignment explanation
Indices: 10120--10382 Score: 347
Period size: 112 Copynumber: 2.4 Consensus size: 110
10110 TCGCTCCCAC
* *
10120 TTTCTTCAGGGAGTAT-AGAACTCGAA-AATCTTTTGAA-AA-CGTGTCTGCTCCCTATTCCTTC
1 TTTCTTCAGAGAGTATAAG-ACTCGAACAATC--TTCAACAATCGTGTCTGCTCCCTATTCCTTC
* * *
10181 AGAGAGTACGAGACTCGAACAATCTTCAACAATCGTGTCTACTCCCTA
63 AGAGAGTAAGAGACTCGAACAAACTTCAACAATCGCGTCTACTCCCTA
* * *
10229 -TTCTTTCAGAGAGTATGAGACTCGAATAATCTTCAACAATCGTGTCTGCTCCCTATTCTTTCAG
1 TTTC-TTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAG
*
10293 AGAGTATAAGAGACTCGAACAAACTTCAACAATCGCGTCTGCTCCCTA
65 AGAG--TAAGAGACTCGAACAAACTTCAACAATCGCGTCTACTCCCTA
*
10341 TTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATCG
1 TTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCG
10383 CTGGGAAACC
Statistics
Matches: 136, Mismatches: 10, Indels: 13
0.86 0.06 0.08
Matches are distributed among these distances:
108 7 0.05
109 20 0.15
110 33 0.24
112 73 0.54
113 3 0.02
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (110 bp):
TTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGA
GAGTAAGAGACTCGAACAAACTTCAACAATCGCGTCTACTCCCTA
Found at i:11394 original size:8 final size:8
Alignment explanation
Indices: 11381--11430 Score: 56
Period size: 8 Copynumber: 6.9 Consensus size: 8
11371 TCTTGAACCC
11381 TCATTTTT
1 TCATTTTT
11389 TCATTTTT
1 TCATTTTT
11397 TCA----T
1 TCATTTTT
11401 TCATTTTT
1 TCATTTTT
*
11409 TAATTTTT
1 TCATTTTT
11417 T-ATTTTT
1 TCATTTTT
11424 TCATTTT
1 TCATTTT
11431 CACTCATTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
4 4 0.11
7 7 0.19
8 25 0.69
ACGTcount: A:0.16, C:0.10, G:0.00, T:0.74
Consensus pattern (8 bp):
TCATTTTT
Found at i:21419 original size:16 final size:16
Alignment explanation
Indices: 21395--21427 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
21385 AACCTTATTC
*
21395 ACATGATATCTACCCA
1 ACATAATATCTACCCA
21411 ACATAATATCTACCCA
1 ACATAATATCTACCCA
21427 A
1 A
21428 TCATGCTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.42, C:0.30, G:0.03, T:0.24
Consensus pattern (16 bp):
ACATAATATCTACCCA
Found at i:28668 original size:41 final size:36
Alignment explanation
Indices: 28586--28667 Score: 137
Period size: 36 Copynumber: 2.3 Consensus size: 36
28576 AGTTAGTTTC
*
28586 TTCTTTTCTTGTAATTTATTTGTTGAAACTTCTGCT
1 TTCTTTTCTTGTAATATATTTGTTGAAACTTCTGCT
* *
28622 TTCTTTTCTTGTAATATATTTGTTGAACCTTCTGTT
1 TTCTTTTCTTGTAATATATTTGTTGAAACTTCTGCT
28658 TTCTTTTCTT
1 TTCTTTTCTT
28668 TGCATTTTGA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 43 1.00
ACGTcount: A:0.15, C:0.15, G:0.10, T:0.61
Consensus pattern (36 bp):
TTCTTTTCTTGTAATATATTTGTTGAAACTTCTGCT
Found at i:40190 original size:19 final size:19
Alignment explanation
Indices: 40163--40206 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
40153 ACGTAGTTCC
40163 GATACTGTTCTTCAGTATA
1 GATACTGTTCTTCAGTATA
*
40182 GATATTGTTCTTCAGTATA
1 GATACTGTTCTTCAGTATA
40201 GATACT
1 GATACT
40207 ACATGAACAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.43
Consensus pattern (19 bp):
GATACTGTTCTTCAGTATA
Found at i:55179 original size:8 final size:8
Alignment explanation
Indices: 55166--55191 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
55156 GCAGGCACAC
55166 GGCGAGTG
1 GGCGAGTG
55174 GGCGAGTG
1 GGCGAGTG
55182 GGCGAGTG
1 GGCGAGTG
55190 GG
1 GG
55192 AAACTCCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.12, G:0.65, T:0.12
Consensus pattern (8 bp):
GGCGAGTG
Found at i:56977 original size:4 final size:4
Alignment explanation
Indices: 56970--57154 Score: 125
Period size: 4 Copynumber: 47.8 Consensus size: 4
56960 GAAAATGTGT
* * * * * *
56970 GTGC GTGC GCGT GTGC GTGC GCGC GTGT GTGT GTGC GCGC GTGC --GC
1 GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC
* * * * * * *
57016 GTGC GTGT GCGC GTGC GTGC GCGT GTGC GTGC GTGC GCGT GCGC GTGC
1 GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC
* * * *
57064 GTGCAC GTGC GTGT GCGC GTGC GTGC --GC GTGT GTGC GTGC GCGC GTGC
1 GTG--C GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC
* *
57112 GT-- GTGT GTGC GCGC GTGC GTGC GT-- GTGC GTGC GTGC GTGC GTG
1 GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTG
57155 TGTGTGTGTC
Statistics
Matches: 138, Mismatches: 33, Indels: 20
0.72 0.17 0.10
Matches are distributed among these distances:
2 8 0.06
4 126 0.91
6 4 0.03
ACGTcount: A:0.01, C:0.25, G:0.50, T:0.24
Consensus pattern (4 bp):
GTGC
Found at i:56989 original size:16 final size:16
Alignment explanation
Indices: 56965--57158 Score: 147
Period size: 16 Copynumber: 12.2 Consensus size: 16
56955 TGATTGAAAA
*
56965 TGTGTGTGCGTGCGCG
1 TGTGCGTGCGTGCGCG
56981 TGTGCGTGC--GCGCG
1 TGTGCGTGCGTGCGCG
*
56995 TGT--GTGTGTGCGCG
1 TGTGCGTGCGTGCGCG
* *
57009 CGTGC--GCGTGCGTG
1 TGTGCGTGCGTGCGCG
*
57023 TGCGCGTGCGTGCGCG
1 TGTGCGTGCGTGCGCG
57039 TGTGCGTGCGTGCGCG
1 TGTGCGTGCGTGCGCG
*
57055 TGCGCGTGCGTGCACGTGCG
1 TGTGCGTGCGTG--C--GCG
57075 TGTGCGCGTGCGTGCGCG
1 TGT--GCGTGCGTGCGCG
57093 TGT--GTGCGTGCGCG
1 TGTGCGTGCGTGCGCG
* *
57107 CGTGCGTGTGTGTGCGCG
1 TGTGC--GTGCGTGCGCG
* *
57125 CGTGCGTGCGTGTGC-
1 TGTGCGTGCGTGCGCG
*
57140 -GTGCGTGCGTGCGTG
1 TGTGCGTGCGTGCGCG
57155 TGTG
1 TGTG
57159 TGTGTCTGTG
Statistics
Matches: 143, Mismatches: 17, Indels: 36
0.73 0.09 0.18
Matches are distributed among these distances:
12 3 0.02
14 50 0.35
16 53 0.37
18 22 0.15
20 6 0.04
22 9 0.06
ACGTcount: A:0.01, C:0.24, G:0.49, T:0.26
Consensus pattern (16 bp):
TGTGCGTGCGTGCGCG
Found at i:57018 original size:22 final size:22
Alignment explanation
Indices: 56990--57163 Score: 114
Period size: 22 Copynumber: 7.6 Consensus size: 22
56980 GTGTGCGTGC
56990 GCGCGTGTGTGTGTGCGCGCGT
1 GCGCGTGTGTGTGTGCGCGCGT
* * *
57012 GCGCGTGCGTGTGCGCGTGCGT
1 GCGCGTGTGTGTGTGCGCGCGT
* * *
57034 GCGCGTGTGCGTGCGTGCGCGT
1 GCGCGTGTGTGTGTGCGCGCGT
* *
57056 GCGCGTGCGTGCACGTGCGTGTGCGCGT
1 GCGCGT--GT----GTGTGTGCGCGCGT
* * * * *
57084 GCGTGCGCGTGTGTGCGTGCGC
1 GCGCGTGTGTGTGTGCGCGCGT
* *
57106 GCGTGCGTGTGTGTGCGCGCGT
1 GCGCGTGTGTGTGTGCGCGCGT
* * * *
57128 GCGTGCGTGTGCGTGCGTGCGT
1 GCGCGTGTGTGTGTGCGCGCGT
*
57150 GCGTGTGTGTGTGT
1 GCGCGTGTGTGTGT
57164 CTGTGTGTGC
Statistics
Matches: 122, Mismatches: 24, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
22 104 0.85
24 2 0.02
26 1 0.01
28 15 0.12
ACGTcount: A:0.01, C:0.24, G:0.49, T:0.26
Consensus pattern (22 bp):
GCGCGTGTGTGTGTGCGCGCGT
Found at i:57483 original size:8 final size:8
Alignment explanation
Indices: 57472--57529 Score: 59
Period size: 8 Copynumber: 7.2 Consensus size: 8
57462 AAAAACTAAC
57472 CGGGTACT
1 CGGGTACT
57480 CGGGTAAC-
1 CGGGT-ACT
57488 CGGGTACT
1 CGGGTACT
*
57496 CGAGTAAC-
1 CGGGT-ACT
57504 CGGGTACT
1 CGGGTACT
57512 CGGGTAAC-
1 CGGGT-ACT
57520 CGGGTACT
1 CGGGTACT
57528 CG
1 CG
57530 AGTAACCAGG
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
7 6 0.14
8 30 0.71
9 6 0.14
ACGTcount: A:0.19, C:0.26, G:0.36, T:0.19
Consensus pattern (8 bp):
CGGGTACT
Found at i:57489 original size:16 final size:16
Alignment explanation
Indices: 57468--57542 Score: 123
Period size: 16 Copynumber: 4.7 Consensus size: 16
57458 AAATAAAAAC
*
57468 TAACCGGGTACTCGGG
1 TAACCGGGTACTCGAG
57484 TAACCGGGTACTCGAG
1 TAACCGGGTACTCGAG
*
57500 TAACCGGGTACTCGGG
1 TAACCGGGTACTCGAG
57516 TAACCGGGTACTCGAG
1 TAACCGGGTACTCGAG
*
57532 TAACCAGGTAC
1 TAACCGGGTAC
57543 CCGGAAAAAC
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 55 1.00
ACGTcount: A:0.24, C:0.25, G:0.32, T:0.19
Consensus pattern (16 bp):
TAACCGGGTACTCGAG
Found at i:57509 original size:32 final size:32
Alignment explanation
Indices: 57468--57542 Score: 141
Period size: 32 Copynumber: 2.3 Consensus size: 32
57458 AAATAAAAAC
57468 TAACCGGGTACTCGGGTAACCGGGTACTCGAG
1 TAACCGGGTACTCGGGTAACCGGGTACTCGAG
57500 TAACCGGGTACTCGGGTAACCGGGTACTCGAG
1 TAACCGGGTACTCGGGTAACCGGGTACTCGAG
*
57532 TAACCAGGTAC
1 TAACCGGGTAC
57543 CCGGAAAAAC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.24, C:0.25, G:0.32, T:0.19
Consensus pattern (32 bp):
TAACCGGGTACTCGGGTAACCGGGTACTCGAG
Found at i:57829 original size:2 final size:2
Alignment explanation
Indices: 57822--57914 Score: 186
Period size: 2 Copynumber: 46.5 Consensus size: 2
57812 ATGGAAATTG
57822 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
57864 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
57906 AT AT AT AT A
1 AT AT AT AT A
57915 GGAATGAACA
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 91 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:59964 original size:13 final size:14
Alignment explanation
Indices: 59938--59967 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
59928 GTTCATCTTT
59938 TTATTTTAAAATAA
1 TTATTTTAAAATAA
59952 TTATTTT-AAATAA
1 TTATTTTAAAATAA
59965 TTA
1 TTA
59968 AATTGTAGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TTATTTTAAAATAA
Found at i:62271 original size:23 final size:23
Alignment explanation
Indices: 62240--62320 Score: 135
Period size: 23 Copynumber: 3.5 Consensus size: 23
62230 CATTATTATA
62240 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
*
62263 CGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
*
62286 TGGCACTTCGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
*
62309 TGGCACTTCGGT
1 TGGCACTACGGT
62321 ACATTTATAT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 55 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTACG
Found at i:67777 original size:15 final size:14
Alignment explanation
Indices: 67742--67800 Score: 55
Period size: 14 Copynumber: 4.1 Consensus size: 14
67732 GTAATTGGTT
*
67742 TTCTGGAAATTGAA
1 TTCTGGAAAATGAA
*
67756 TTGTGGAAAATGAA
1 TTCTGGAAAATGAA
* **
67770 TTATTGGAATTTGAA
1 TT-CTGGAAAATGAA
*
67785 TTCTAGAAAATGAA
1 TTCTGGAAAATGAA
67799 TT
1 TT
67801 ACATTTCCAG
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
14 24 0.69
15 11 0.31
ACGTcount: A:0.39, C:0.03, G:0.20, T:0.37
Consensus pattern (14 bp):
TTCTGGAAAATGAA
Found at i:67793 original size:29 final size:29
Alignment explanation
Indices: 67745--67801 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
67735 ATTGGTTTTC
* *
67745 TGGAAATTGAATTGTGGAAAATGAATTAT
1 TGGAAATTGAATTCTAGAAAATGAATTAT
*
67774 TGGAATTTGAATTCTAGAAAATGAATTA
1 TGGAAATTGAATTCTAGAAAATGAATTA
67802 CATTTCCAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.42, C:0.02, G:0.21, T:0.35
Consensus pattern (29 bp):
TGGAAATTGAATTCTAGAAAATGAATTAT
Found at i:68174 original size:23 final size:23
Alignment explanation
Indices: 68125--68175 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
68115 GTGTTATATT
**
68125 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAAAATATTAATTAAA
* * *
68148 ATATTTTAAATATCTTTATTAAA
1 ATATTTTAAAAATATTAATTAAA
68171 ATATT
1 ATATT
68176 ATTAGACTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATTTTAAAAATATTAATTAAA
Found at i:68337 original size:53 final size:53
Alignment explanation
Indices: 68280--68381 Score: 131
Period size: 53 Copynumber: 1.9 Consensus size: 53
68270 ATTTTTATTA
*
68280 ATAATTTATTATATATTATTA-AA-A-TAAAAA-ATAATATCTAATATTATTATAAT
1 ATAATTGATTAT-T-TTATTATAATATTAAAAATATAATAT-T-ATATTATTATAAT
68333 ATAATTGATTATTTTATTATAATATTAAAAATATAATATTATATTATTA
1 ATAATTGATTATTTTATTATAATATTAAAAATATAATATTATATTATTA
68382 GAAATATTAA
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
51 6 0.14
52 3 0.07
53 21 0.48
54 7 0.16
55 7 0.16
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (53 bp):
ATAATTGATTATTTTATTATAATATTAAAAATATAATATTATATTATTATAAT
Found at i:68369 original size:32 final size:32
Alignment explanation
Indices: 68319--68399 Score: 94
Period size: 32 Copynumber: 2.5 Consensus size: 32
68309 AATAATATCT
* * *
68319 AATATTATTATAATATAATTGATTATTTTATTA-T
1 AATATTAATA-AATATAA-T-ATTATATTATTAGA
68353 AATATTAA-AAATATAATATTATATTATTAGA
1 AATATTAATAAATATAATATTATATTATTAGA
68384 AATATTAATAAATATA
1 AATATTAATAAATATA
68400 TTTTAAATAT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
30 11 0.26
31 9 0.21
32 14 0.33
33 1 0.02
34 7 0.17
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (32 bp):
AATATTAATAAATATAATATTATATTATTAGA
Found at i:68375 original size:22 final size:23
Alignment explanation
Indices: 68347--68393 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
68337 TTGATTATTT
68347 TATTATAATATTAAAAATA-TAA
1 TATTATAATATTAAAAATATTAA
* *
68369 TATTATATTATTAGAAATATTAA
1 TATTATAATATTAAAAATATTAA
68392 TA
1 TA
68394 AATATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (23 bp):
TATTATAATATTAAAAATATTAA
Found at i:68398 original size:22 final size:22
Alignment explanation
Indices: 68355--68398 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
68345 TTTATTATAA
*
68355 TATTAAAAATATAATATTATAT
1 TATTAAAAATATAATATAATAT
*
68377 TATTAGAAATATTAATA-AATAT
1 TATTAAAAATA-TAATATAATAT
68399 ATTTTAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
TATTAAAAATATAATATAATAT
Found at i:68935 original size:20 final size:22
Alignment explanation
Indices: 68919--68958 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
68909 TACCAATTGA
68919 ATCTA-CT-ATCTGTCAATTAG
1 ATCTATCTAATCTGTCAATTAG
*
68939 ATCTATTTAATCTGTCAATT
1 ATCTATCTAATCTGTCAATT
68959 TATAAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 1 0.06
22 11 0.65
ACGTcount: A:0.30, C:0.17, G:0.07, T:0.45
Consensus pattern (22 bp):
ATCTATCTAATCTGTCAATTAG
Found at i:71532 original size:12 final size:12
Alignment explanation
Indices: 71510--71542 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
71500 TATTTCTAAT
71510 AAAAATT-ATAA
1 AAAAATTAATAA
71521 AAAAATTAAT-A
1 AAAAATTAATAA
71532 AAAAATTAATA
1 AAAAATTAATA
71543 TTTTAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 18 0.90
12 2 0.10
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (12 bp):
AAAAATTAATAA
Found at i:75077 original size:16 final size:16
Alignment explanation
Indices: 75056--75089 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
75046 TGTGGTGAAA
*
75056 AAAGTGATTGTAATAC
1 AAAGTGATTATAATAC
75072 AAAGTGATTATAATAC
1 AAAGTGATTATAATAC
75088 AA
1 AA
75090 GAGGTGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.50, C:0.06, G:0.15, T:0.29
Consensus pattern (16 bp):
AAAGTGATTATAATAC
Found at i:77697 original size:19 final size:20
Alignment explanation
Indices: 77673--77718 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
77663 TATTAGTTTA
77673 ATATTTAAA-AATATTATAC
1 ATATTTAAATAATATTATAC
* *
77692 ATATTTAAATAGTATTCTAC
1 ATATTTAAATAATATTATAC
77712 -TATTTAA
1 ATATTTAA
77719 TGTGTTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.46
Consensus pattern (20 bp):
ATATTTAAATAATATTATAC
Found at i:80809 original size:21 final size:22
Alignment explanation
Indices: 80770--80810 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
80760 TTTTATTTTA
*
80770 TTTATTTAAATTGAGAATTATG
1 TTTATTTAAATTGACAATTATG
*
80792 TTTATTT-ATTTGACAATTA
1 TTTATTTAAATTGACAATTA
80811 CGATGCTTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.34, C:0.02, G:0.10, T:0.54
Consensus pattern (22 bp):
TTTATTTAAATTGACAATTATG
Found at i:85285 original size:21 final size:21
Alignment explanation
Indices: 85237--85285 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
85227 ATTGAACATA
* *
85237 AACATTGATAGCTTCAATTGG
1 AACATTGATAGCTTCAAATGC
*
85258 AAGATTGATAGCTTCCAAAT-C
1 AACATTGATAGCTT-CAAATGC
85279 AACATTG
1 AACATTG
85286 GGTGACAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (21 bp):
AACATTGATAGCTTCAAATGC
Found at i:91270 original size:148 final size:147
Alignment explanation
Indices: 91108--91385 Score: 459
Period size: 148 Copynumber: 1.9 Consensus size: 147
91098 AATCCAACAC
*
91108 AGAGAAACAGTAATACCCAACTTTCAGCAAGAATGAAACTGACAATTTAAGCACCAAAACAATCC
1 AGAGAAACAGTAATACCCAACTTTCAGCAAGAATGAAACTGACAACTTAAGCACCAAAACAATCC
* *
91173 ACTTCCT-CGAATTAGAATGCTCTTGTTTCTCACTTTAGCCACTTCATTTTATGCTCCAGAAAAA
66 AATT-CTACGAACTAG-ATGCTCTTGTTTCTCACTTTAGCCACTTCATTTTATGCTCCAGAAAAA
91237 AAAAACCATATTTCAGCAA
129 AAAAACCATATTTCAGCAA
* *
91256 AGAGAAACAGTAATACCCAACTTTCAGCAAGAATGACACTGACAGCTTAAGCACCAAAACAATCC
1 AGAGAAACAGTAATACCCAACTTTCAGCAAGAATGAAACTGACAACTTAAGCACCAAAACAATCC
* * *
91321 AATTCTACTAACTAGATGCTCTTGTTTCTCACTTTAGCCACTTTATTTTATGCTCCAGAAGAAAA
66 AATTCTACGAACTAGATGCTCTTGTTTCTCACTTTAGCCACTTCATTTTATGCTCCAGAAAAAAA
91386 GGCCATATAT
Statistics
Matches: 121, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
147 50 0.41
148 71 0.59
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.27
Consensus pattern (147 bp):
AGAGAAACAGTAATACCCAACTTTCAGCAAGAATGAAACTGACAACTTAAGCACCAAAACAATCC
AATTCTACGAACTAGATGCTCTTGTTTCTCACTTTAGCCACTTCATTTTATGCTCCAGAAAAAAA
AAACCATATTTCAGCAA
Found at i:93242 original size:19 final size:19
Alignment explanation
Indices: 93199--93242 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
93189 AAATAACCAA
*
93199 CAAATTCGTAACGCGATCT
1 CAAATTCGTAACGCGAACT
* *
93218 GAAATTCGTAACGTGAACT
1 CAAATTCGTAACGCGAACT
*
93237 CCAATT
1 CAAATT
93243 TCGCAACACA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (19 bp):
CAAATTCGTAACGCGAACT
Found at i:93276 original size:20 final size:20
Alignment explanation
Indices: 93253--93290 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
93243 TCGCAACACA
93253 ATTTCCAAATTCACAACGTG
1 ATTTCCAAATTCACAACGTG
* *
93273 ATTTTCAAATTCGCAACG
1 ATTTCCAAATTCACAACG
93291 CTAATTACCG
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:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (20 bp):
ATTTCCAAATTCACAACGTG
Found at i:93773 original size:14 final size:14
Alignment explanation
Indices: 93754--93783 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
93744 TTGTCGAATT
*
93754 CGGATTTTTTTTAC
1 CGGATTTTTTCTAC
93768 CGGATTTTTTCTAC
1 CGGATTTTTTCTAC
93782 CG
1 CG
93784 TGTTTACCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.13, C:0.20, G:0.17, T:0.50
Consensus pattern (14 bp):
CGGATTTTTTCTAC
Found at i:96908 original size:16 final size:16
Alignment explanation
Indices: 96883--96947 Score: 103
Period size: 16 Copynumber: 4.1 Consensus size: 16
96873 CCAACGTTTA
96883 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
* *
96899 TGTTCATTTATGTCCG
1 TGTTCGTTTATGTTCG
96915 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
96931 CGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
96947 T
1 T
96948 TTATTTATTA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.08, C:0.15, G:0.23, T:0.54
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:97038 original size:16 final size:16
Alignment explanation
Indices: 97017--97047 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
97007 AAAAAAAATT
97017 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
97033 TGTTCGTTTATGTTC
1 TGTTCGTTTATGTTC
97048 ATTTATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.13, G:0.23, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:98004 original size:14 final size:14
Alignment explanation
Indices: 97985--98013 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
97975 CTGTAAGTAT
97985 TATTAAAAATAATA
1 TATTAAAAATAATA
97999 TATTAAAAATAATA
1 TATTAAAAATAATA
98013 T
1 T
98014 GCCAAACATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
TATTAAAAATAATA
Found at i:108787 original size:125 final size:125
Alignment explanation
Indices: 108573--108838 Score: 388
Period size: 125 Copynumber: 2.1 Consensus size: 125
108563 AAAAAAATGG
* * * * * * * *
108573 TACCGATTTTATTATTGTTATGTATAATAAAATTAGTAAAAATTATCGTAAACATTATTATTTCT
1 TACCGGTTTTGTTATTGTTATGCATAACAAAACTAGTAAAAAATATCGAAAACATCATTATTTCT
*
108638 ACTGATTTTATTATTATTTTGACATTTTACCAGGTTTCTTAACAAAACCGGTAAAAACGT
66 ACTGATTTTATTATTATTTTGACATTTTACCAGGTTTCTTAACAAAACCGATAAAAACGT
* *
108698 TACCGGTTTTGTTATTGTTGTGCATAACAAAACTGGTAAAAAATATCGAAAACATCATTATTTCT
1 TACCGGTTTTGTTATTGTTATGCATAACAAAACTAGTAAAAAATATCGAAAACATCATTATTTCT
* * * *
108763 ATTGGTTTTATTATTATTTTGACATTTTACCGGGTTTCTTAACAAAACCGATAAAAGCGT
66 ACTGATTTTATTATTATTTTGACATTTTACCAGGTTTCTTAACAAAACCGATAAAAACGT
*
108823 TATCGGTTTTGTTATT
1 TACCGGTTTTGTTATT
108839 TTTTTTACCG
Statistics
Matches: 125, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
125 125 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (125 bp):
TACCGGTTTTGTTATTGTTATGCATAACAAAACTAGTAAAAAATATCGAAAACATCATTATTTCT
ACTGATTTTATTATTATTTTGACATTTTACCAGGTTTCTTAACAAAACCGATAAAAACGT
Found at i:109255 original size:23 final size:23
Alignment explanation
Indices: 109205--109249 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
109195 TATCTATTTT
*
109205 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGCTACCTAATAC
*
109228 ATTATATAAGCGGTACCTAATA
1 ATTATATAAGCGCTACCTAATA
109250 TGTTATTGTA
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:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:109368 original size:77 final size:77
Alignment explanation
Indices: 109236--109437 Score: 334
Period size: 77 Copynumber: 2.6 Consensus size: 77
109226 ACATTATATA
* * *
109236 AGCGGTACCTAATATGTTATTGTACTTGATAATATTTTCGGTTAAATGTCAATTTTATTATATAA
1 AGCGCTACCTAATATGTTATTGTACTTGATAATATTTTCGTTTAAATGCCAATTTTATTATATAA
109301 GC-AATGCCTATT
66 GCGAA-GCCTATT
*
109313 AGCGCTACCTAACATGTTATTGTACTTGATAATATTTTCGTTTAAATGCCAATTTTATTATATAA
1 AGCGCTACCTAATATGTTATTGTACTTGATAATATTTTCGTTTAAATGCCAATTTTATTATATAA
*
109378 GCGCAGCCTATT
66 GCGAAGCCTATT
*
109390 AGCGCTACCTAATATGTTATTGTACTTAATAATATTTTCGTTTAAATG
1 AGCGCTACCTAATATGTTATTGTACTTGATAATATTTTCGTTTAAATG
109438 ATATAACATA
Statistics
Matches: 117, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
77 116 0.99
78 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.13, T:0.42
Consensus pattern (77 bp):
AGCGCTACCTAATATGTTATTGTACTTGATAATATTTTCGTTTAAATGCCAATTTTATTATATAA
GCGAAGCCTATT
Found at i:111402 original size:13 final size:14
Alignment explanation
Indices: 111384--111419 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
111374 GGAATGCATT
*
111384 TTTTTATTT-ATTA
1 TTTTTATTTAATCA
111397 TTTTTATTTAATCA
1 TTTTTATTTAATCA
111411 TTTTTATTT
1 TTTTTATTT
111420 TATTTATTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTTTATTTAATCA
Found at i:118385 original size:19 final size:18
Alignment explanation
Indices: 118353--118388 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
118343 TTAGTAACAC
*
118353 ATAAAAAATTATATAAAT
1 ATAAAAAATAATATAAAT
118371 ATAAAAATATAATATAAA
1 ATAAAAA-ATAATATAAA
118389 ATCTAAGGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
ATAAAAAATAATATAAAT
Found at i:119620 original size:18 final size:18
Alignment explanation
Indices: 119579--119636 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
119569 GTACATTTTA
* **
119579 TATAATATTTTAAATTAT
1 TATAATATTATAAAAAAT
*
119597 TTTAATATTATAAAAAAT
1 TATAATATTATAAAAAAT
119615 TATAAT-TTA-AGAAAAAT
1 TATAATATTATA-AAAAAT
119632 T-TAAT
1 TATAAT
119637 TTAATTAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
16 5 0.15
17 10 0.29
18 19 0.56
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
TATAATATTATAAAAAAT
Found at i:119647 original size:16 final size:17
Alignment explanation
Indices: 119609--119640 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
119599 TAATATTATA
119609 AAAAATTATAATTTAAG
1 AAAAATTATAATTTAAG
119626 AAAAATT-TAATTTAA
1 AAAAATTATAATTTAA
119641 TTAAAATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
AAAAATTATAATTTAAG
Found at i:120036 original size:58 final size:60
Alignment explanation
Indices: 119937--120121 Score: 175
Period size: 58 Copynumber: 3.1 Consensus size: 60
119927 GCATCATTTA
* * * *
119937 TCCCTAAACTATAACCCTAATTT-TAAATTAGTCCTTGAACTTTTGAATGTTCCAATTTCAT
1 TCCC-AAACTATGACCC-CATTTCTAAATTAGTCCTTAAACTTTTGAATATTCCAATTTCAT
* * * *
119998 TCCCAAACTATGA-CTCA-TTCTAACTTAGTCCTTAAACTTTTGAACATTCTAATTTCA-
1 TCCCAAACTATGACCCCATTTCTAAATTAGTCCTTAAACTTTTGAATATTCCAATTTCAT
* * * *
120055 TCTCTAAACTATGACCCCATTTCTAAATTAGTTCC-AAAAC-TTTAAATCTTCCAATTTCAT
1 TC-CCAAACTATGACCCCATTTCTAAATTAG-TCCTTAAACTTTTGAATATTCCAATTTCAT
*
120115 CCCCAAA
1 TCCCAAA
120122 TTCATCCAAT
Statistics
Matches: 100, Mismatches: 18, Indels: 14
0.76 0.14 0.11
Matches are distributed among these distances:
57 4 0.04
58 43 0.43
59 23 0.23
60 23 0.23
61 7 0.07
ACGTcount: A:0.32, C:0.25, G:0.05, T:0.38
Consensus pattern (60 bp):
TCCCAAACTATGACCCCATTTCTAAATTAGTCCTTAAACTTTTGAATATTCCAATTTCAT
Found at i:121281 original size:11 final size:11
Alignment explanation
Indices: 121265--121290 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
121255 AGTAAATAAA
121265 ACATAATAATT
1 ACATAATAATT
121276 ACATAATAATT
1 ACATAATAATT
121287 ACAT
1 ACAT
121291 GCCACTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.35
Consensus pattern (11 bp):
ACATAATAATT
Found at i:125248 original size:24 final size:24
Alignment explanation
Indices: 125216--125267 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
125206 TTTATCTAAT
* *
125216 TTCTATTATAATTTCTGATCCGGA
1 TTCTATTATAATATCTGATACGGA
* *
125240 TTCTATTATGATATCTGATATGGA
1 TTCTATTATAATATCTGATACGGA
125264 TTCT
1 TTCT
125268 GTTGTGATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.13, G:0.13, T:0.48
Consensus pattern (24 bp):
TTCTATTATAATATCTGATACGGA
Found at i:125275 original size:24 final size:25
Alignment explanation
Indices: 125228--125304 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 25
125218 CTATTATAAT
** *
125228 TTCTGATCCGGATTCTATTATGATA
1 TTCTGATATGGATTCTGTTATGATA
*
125253 -TCTGATATGGATTCTGTTGTGATA
1 TTCTGATATGGATTCTGTTATGATA
* * * *
125277 TTTTGATCTGAATTCTGTTCTGAT-
1 TTCTGATATGGATTCTGTTATGATA
125301 TTCT
1 TTCT
125305 TATTTCTGTT
Statistics
Matches: 42, Mismatches: 9, Indels: 3
0.78 0.17 0.06
Matches are distributed among these distances:
24 23 0.55
25 19 0.45
ACGTcount: A:0.19, C:0.13, G:0.18, T:0.49
Consensus pattern (25 bp):
TTCTGATATGGATTCTGTTATGATA
Found at i:125503 original size:31 final size:32
Alignment explanation
Indices: 125448--125519 Score: 112
Period size: 32 Copynumber: 2.3 Consensus size: 32
125438 AAGGCGACCA
*
125448 TTGGGTAGG-CTCTGCGGCCTTGAG-ATTTTC
1 TTGGGTAGGCCTCTGCGGCCATGAGAATTTTC
*
125478 TTGGGTAGGCCTCTGTGGCCATGAGAATTTTC
1 TTGGGTAGGCCTCTGCGGCCATGAGAATTTTC
125510 TTGGGTAGGC
1 TTGGGTAGGC
125520 TCGCAGGCCC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 9 0.24
31 13 0.34
32 16 0.42
ACGTcount: A:0.12, C:0.18, G:0.35, T:0.35
Consensus pattern (32 bp):
TTGGGTAGGCCTCTGCGGCCATGAGAATTTTC
Found at i:125796 original size:22 final size:22
Alignment explanation
Indices: 125769--125811 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
125759 TTTTAGAGAC
125769 TAATTTATAAATTTGAATATTA
1 TAATTTATAAATTTGAATATTA
125791 TAATTTATAAATTTGAATATT
1 TAATTTATAAATTTGAATATT
125812 GTATAATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (22 bp):
TAATTTATAAATTTGAATATTA
Found at i:128592 original size:60 final size:59
Alignment explanation
Indices: 128479--128592 Score: 160
Period size: 60 Copynumber: 1.9 Consensus size: 59
128469 ACAAAAGGTC
* * *
128479 ATAGTTTGGGGATGAAATTGAATTTTCAAAAGTTTGAAGACTAATTTAGAATGATAGTT
1 ATAGTTTAGGGATGAAATTGAATTTTCAAAAGTTTGAAGACCAATTTAAAATGATAGTT
128538 ATAGTTTAGGGATGAAATTGTAATATTT-AAAAGTTT-AAGGACCAATTTAAAATGA
1 ATAGTTTAGGGATGAAATTG-AAT-TTTCAAAAGTTTGAA-GACCAATTTAAAATGA
128593 AGGTCATACT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
59 21 0.43
60 25 0.51
61 3 0.06
ACGTcount: A:0.40, C:0.04, G:0.20, T:0.36
Consensus pattern (59 bp):
ATAGTTTAGGGATGAAATTGAATTTTCAAAAGTTTGAAGACCAATTTAAAATGATAGTT
Found at i:133526 original size:63 final size:63
Alignment explanation
Indices: 133448--133571 Score: 221
Period size: 63 Copynumber: 2.0 Consensus size: 63
133438 CTCCACCGCC
* *
133448 GCCGCCATCTGCACCTCCACCGCCACCTTCACCATCATTGTCAGCACCATTTCCTACACCAAT
1 GCCGCCATCTACACCTCCACCGCCACCTTCACCATCATTGTCAGCACCATGTCCTACACCAAT
*
133511 GCCGCCATCTACACCTCCACCGCCACCTTCACCATCATTGTCAGCACCATGTCCTCCACCA
1 GCCGCCATCTACACCTCCACCGCCACCTTCACCATCATTGTCAGCACCATGTCCTACACCA
133572 CCATCGTCGC
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 58 1.00
ACGTcount: A:0.22, C:0.48, G:0.10, T:0.21
Consensus pattern (63 bp):
GCCGCCATCTACACCTCCACCGCCACCTTCACCATCATTGTCAGCACCATGTCCTACACCAAT
Found at i:137550 original size:26 final size:26
Alignment explanation
Indices: 137521--137594 Score: 139
Period size: 26 Copynumber: 2.8 Consensus size: 26
137511 ACATATCCAT
137521 GTCGAATCAATCTGCCGACTAAGATA
1 GTCGAATCAATCTGCCGACTAAGATA
*
137547 GTCGAATCAATCTGCCAACTAAGATA
1 GTCGAATCAATCTGCCGACTAAGATA
137573 GTCGAATCAATCTGCCGACTAA
1 GTCGAATCAATCTGCCGACTAA
137595 AAACCTTCTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (26 bp):
GTCGAATCAATCTGCCGACTAAGATA
Found at i:138739 original size:31 final size:31
Alignment explanation
Indices: 138632--138743 Score: 102
Period size: 31 Copynumber: 3.6 Consensus size: 31
138622 AAATTAATTT
*
138632 TTAATTTTAACTCCT-AATTTTAAATAAAATA
1 TTAA-TTTAACTCTTAAATTTTAAATAAAATA
* * * *
138663 TTAATTTAA-TATCATAACTTTAGATAAAATA
1 TTAATTTAACTCTTA-AATTTTAAATAAAATA
* * *
138694 TTATTTTTATTCTTAAATTTTAAATAAAATA
1 TTAATTTAACTCTTAAATTTTAAATAAAATA
* *
138725 TCAAATTAACTCTTAAATT
1 TTAATTTAACTCTTAAATT
138744 CAATTAAAAT
Statistics
Matches: 62, Mismatches: 16, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
29 1 0.02
30 5 0.08
31 53 0.85
32 3 0.05
ACGTcount: A:0.45, C:0.08, G:0.01, T:0.46
Consensus pattern (31 bp):
TTAATTTAACTCTTAAATTTTAAATAAAATA
Found at i:140551 original size:29 final size:28
Alignment explanation
Indices: 140498--140679 Score: 163
Period size: 29 Copynumber: 6.2 Consensus size: 28
140488 TTTACACATT
140498 TATCACCCTTTTT-AAAAAAATTTACAAAGA
1 TATCA-CCTTTTTCAAAAAAA-TTACAAA-A
*
140528 TATCACCTTTTTCAAAATAATTACTAAAA
1 TATCACCTTTTTCAAAAAAATTAC-AAAA
* **
140557 TATCA-CTTTTTTAAAAAAATTACGAATT
1 TATCACCTTTTTCAAAAAAATTAC-AAAA
* * *
140585 TATCACTTTTTTTAAAAAAAATTATGAAAA
1 TATCAC-CTTTTTCAAAAAAATTA-CAAAA
* *
140615 TAGCACCTTTTTCAAAATAATTACCAAAA
1 TATCACCTTTTTCAAAAAAATTA-CAAAA
*
140644 TATCA-CTATTTTCAAAATAATTACTAAAA
1 TATCACCT-TTTTCAAAAAAATTAC-AAAA
140673 TATCACC
1 TATCACC
140680 CGATCAACGG
Statistics
Matches: 126, Mismatches: 18, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
28 26 0.21
29 63 0.50
30 37 0.29
ACGTcount: A:0.46, C:0.15, G:0.02, T:0.37
Consensus pattern (28 bp):
TATCACCTTTTTCAAAAAAATTACAAAA
Found at i:140569 original size:58 final size:56
Alignment explanation
Indices: 140506--140678 Score: 188
Period size: 58 Copynumber: 3.0 Consensus size: 56
140496 TTTATCACCC
140506 TTTTTAAAAAAATTTACAAAGATATCACCTTTTTCAAAATAATTACTAAAATATCACT
1 TTTTTAAAAAAA-TTACAAA-ATATCACCTTTTTCAAAATAATTACTAAAATATCACT
** * * * *
140564 TTTTTAAAAAAATTACGAATTTATCACTTTTTTTAAAAAAAATTA-TGAAAATAGCACCT
1 TTTTTAAAAAAATTAC-AAAATATCAC-CTTTTTCAAAATAATTACT-AAAATATCA-CT
* *
140623 TTTTCAAAATAATTACCAAAATATCA-CTATTTTCAAAATAATTACTAAAATATCAC
1 TTTTTAAAAAAATTA-CAAAATATCACCT-TTTTCAAAATAATTACTAAAATATCAC
140679 CCGATCAACG
Statistics
Matches: 94, Mismatches: 14, Indels: 15
0.76 0.11 0.12
Matches are distributed among these distances:
57 13 0.14
58 57 0.61
59 23 0.24
60 1 0.01
ACGTcount: A:0.47, C:0.13, G:0.02, T:0.38
Consensus pattern (56 bp):
TTTTTAAAAAAATTACAAAATATCACCTTTTTCAAAATAATTACTAAAATATCACT
Found at i:140597 original size:87 final size:88
Alignment explanation
Indices: 140495--140667 Score: 251
Period size: 87 Copynumber: 2.0 Consensus size: 88
140485 CATTTTACAC
* * *
140495 ATTTATCACCCTTTTTAAAAAAATTTA-CAAAGATATCACCTTTTTCAAAATAATTACTAAAATA
1 ATTTATCACCCTTTTTAAAAAAAATTATCAAA-ATAGCACCTTTTTCAAAATAATTACCAAAATA
*
140559 TCACT-TTTTTAAAAAAATTACGA
65 TCACTATTTTCAAAAAAATTACGA
** *
140582 ATTTATCACTTTTTTTAAAAAAAATTATGAAAATAGCACCTTTTTCAAAATAATTACCAAAATAT
1 ATTTATCACCCTTTTTAAAAAAAATTATCAAAATAGCACCTTTTTCAAAATAATTACCAAAATAT
*
140647 CACTATTTTCAAAATAATTAC
66 CACTATTTTCAAAAAAATTAC
140668 TAAAATATCA
Statistics
Matches: 76, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
87 59 0.78
88 17 0.22
ACGTcount: A:0.45, C:0.14, G:0.02, T:0.38
Consensus pattern (88 bp):
ATTTATCACCCTTTTTAAAAAAAATTATCAAAATAGCACCTTTTTCAAAATAATTACCAAAATAT
CACTATTTTCAAAAAAATTACGA
Found at i:142147 original size:31 final size:31
Alignment explanation
Indices: 142071--142148 Score: 97
Period size: 31 Copynumber: 2.5 Consensus size: 31
142061 AGATTCAAGG
* *
142071 GTTAAATTGATATTTTGTCTAAAATTTAAGT
1 GTTAAGTTGATATTTTATCTAAAATTTAAGT
*
142102 GTTATGTTGATATTTTATCTAAAATTT-AGT
1 GTTAAGTTGATATTTTATCTAAAATTTAAGT
142132 GATTAAGTT-AGTATTTT
1 G-TTAAGTTGA-TATTTT
142149 CTTTAAACTT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
30 5 0.12
31 36 0.88
ACGTcount: A:0.32, C:0.03, G:0.14, T:0.51
Consensus pattern (31 bp):
GTTAAGTTGATATTTTATCTAAAATTTAAGT
Found at i:144676 original size:17 final size:17
Alignment explanation
Indices: 144635--144679 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
144625 CCCTACTTGA
144635 TTAAATATTTAATAAAT
1 TTAAATATTTAATAAAT
** **
144652 TTTTATATTTTTTAAAT
1 TTAAATATTTAATAAAT
144669 TTAAATATTTA
1 TTAAATATTTA
144680 TTTTTACAAT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTAAATATTTAATAAAT
Found at i:146297 original size:14 final size:14
Alignment explanation
Indices: 146278--146312 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
146268 GTTAATTGAC
146278 TTATGTGATTCAAG
1 TTATGTGATTCAAG
146292 TTATGTGATTCAAG
1 TTATGTGATTCAAG
146306 TTATGTG
1 TTATGTG
146313 TCACCATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.26, C:0.06, G:0.23, T:0.46
Consensus pattern (14 bp):
TTATGTGATTCAAG
Found at i:152915 original size:19 final size:19
Alignment explanation
Indices: 152891--152932 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
152881 CTACACCAAA
152891 AGCTAGTTGATAGTGTTCT
1 AGCTAGTTGATAGTGTTCT
152910 AGCTAGTTGATAGTGTTCT
1 AGCTAGTTGATAGTGTTCT
152929 AGCT
1 AGCT
152933 TATTAGGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.21, C:0.12, G:0.26, T:0.40
Consensus pattern (19 bp):
AGCTAGTTGATAGTGTTCT
Found at i:153204 original size:2 final size:2
Alignment explanation
Indices: 153197--153227 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
153187 TTTTTATCAA
153197 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
153228 AATGAGAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:153494 original size:24 final size:26
Alignment explanation
Indices: 153433--153489 Score: 78
Period size: 30 Copynumber: 2.0 Consensus size: 26
153423 ATCTTATAAA
153433 AGAAGTTACTTTATTATTCTTAGGATG
1 AGAAGTTACTTTATTATTCTTAGGA-G
153460 AGTATAAGTTACTTTATTATTCTTAGGAG
1 AG---AAGTTACTTTATTATTCTTAGGAG
153489 A
1 A
153490 AGTTAGGCAG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
27 2 0.07
29 2 0.07
30 23 0.85
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.44
Consensus pattern (26 bp):
AGAAGTTACTTTATTATTCTTAGGAG
Found at i:157624 original size:2 final size:2
Alignment explanation
Indices: 157617--157641 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
157607 GACAATATTA
157617 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 A
157642 ATACTAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:165950 original size:16 final size:16
Alignment explanation
Indices: 165926--165959 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
165916 GAATTTTTAA
165926 TAAACTTTATTAAAAT
1 TAAACTTTATTAAAAT
* *
165942 TAAATTTTATTAGAAT
1 TAAACTTTATTAAAAT
165958 TA
1 TA
165960 TTATCATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (16 bp):
TAAACTTTATTAAAAT
Found at i:166573 original size:21 final size:21
Alignment explanation
Indices: 166531--166574 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
166521 TTTTTGTGAA
* *
166531 ATTATATTTTTATCTTTAAAT
1 ATTATATTTTCATATTTAAAT
166552 ATTATATTTTCA-ATTTACAAT
1 ATTATATTTTCATATTTA-AAT
166573 AT
1 AT
166575 AATGTCTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTATATTTTCATATTTAAAT
Found at i:168281 original size:59 final size:59
Alignment explanation
Indices: 168130--168311 Score: 206
Period size: 60 Copynumber: 3.1 Consensus size: 59
168120 TTTGGATGAA
* * *
168130 TTTAGGGATGAAATTGAAATATTCAAAAGTTTGAGGACTAATTTAGAA-AGAGGGTCACAA
1 TTTAGGGATGAAATTGAAATATTCAAAAGTTTAAGGACTAATTTAGAATAGA--GTCATAG
* * * * *
168190 TTTAGGGTTAAAATT-AGAATGTTAAAAAGTTTAAAGACTAATTTAGAATAGAGTCATAG
1 TTTAGGGATGAAATTGA-AATATTCAAAAGTTTAAGGACTAATTTAGAATAGAGTCATAG
* * * *
168249 TTTAGGGATGGAATTGAAATATTCAAAAGTTTAAGGACCAATTTAAAATGAGAGTTATAG
1 TTTAGGGATGAAATTGAAATATTCAAAAGTTTAAGGACTAATTTAGAAT-AGAGTCATAG
168309 TTT
1 TTT
168312 GGGGCATATG
Statistics
Matches: 101, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
59 45 0.45
60 53 0.52
61 3 0.03
ACGTcount: A:0.42, C:0.05, G:0.21, T:0.32
Consensus pattern (59 bp):
TTTAGGGATGAAATTGAAATATTCAAAAGTTTAAGGACTAATTTAGAATAGAGTCATAG
Found at i:178942 original size:23 final size:24
Alignment explanation
Indices: 178914--178962 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
178904 CGGGACATAC
* *
178914 AGTGGTCTTTCAGGAC-ATTTCAT
1 AGTGGTCCTTCAGGACAAATTCAT
*
178937 AGTGGTCCTTCGGGACAAATTCAT
1 AGTGGTCCTTCAGGACAAATTCAT
178961 AG
1 AG
178963 CCCCTAGTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.33
Consensus pattern (24 bp):
AGTGGTCCTTCAGGACAAATTCAT
Found at i:196767 original size:60 final size:61
Alignment explanation
Indices: 196651--196777 Score: 138
Period size: 60 Copynumber: 2.1 Consensus size: 61
196641 GACAATTTTG
* * * *
196651 TAACTTTTAATAGTTAAGAGACTCAACAAAATAACGTTATATAGTCGATGATTCA-TTGTA
1 TAACTTTTAATAGTCAAGAGACTCAACAAAACAACATTATATAGTCGAGGATTCATTTGTA
* *
196711 TAACTTTTAATAGTACAAG-GACTCAACAAAACAATATCT-TATAGTTGGAGGA-TCATTTGTA
1 TAACTTTTAATAGT-CAAGAGACTCAACAAAACAACAT-TATATAG-TCGAGGATTCATTTGTA
196772 T-ACTTT
1 TAACTTT
196778 ATCTAATATA
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
60 42 0.74
61 15 0.26
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (61 bp):
TAACTTTTAATAGTCAAGAGACTCAACAAAACAACATTATATAGTCGAGGATTCATTTGTA
Found at i:197032 original size:14 final size:14
Alignment explanation
Indices: 197010--197051 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
197000 AAATTCACAC
* *
197010 TCACGTCATCAATT
1 TCACTTCATTAATT
*
197024 TCACTTCATTATTT
1 TCACTTCATTAATT
197038 TCACTTCATTAATT
1 TCACTTCATTAATT
197052 AGTGATCATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.26, C:0.24, G:0.02, T:0.48
Consensus pattern (14 bp):
TCACTTCATTAATT
Found at i:197461 original size:14 final size:14
Alignment explanation
Indices: 197444--197476 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
197434 ACTAATCAAA
197444 AATATTTAATATGT
1 AATATTTAATATGT
197458 AATATTTAATATGT
1 AATATTTAATATGT
197472 AATAT
1 AATAT
197477 AAATTATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (14 bp):
AATATTTAATATGT
Found at i:213400 original size:36 final size:36
Alignment explanation
Indices: 213245--213433 Score: 202
Period size: 36 Copynumber: 5.2 Consensus size: 36
213235 AAGTCAATCC
213245 TAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCT
1 TAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCT
* * *
213281 GAAGCCTTCA-CGGAGAATAGTGAAGCAATCAATCT
1 TAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCT
* * *
213316 GAATCCTTCACCGGAGAATAGTGAAGCAAACCATCA
1 TAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCT
* * * **
213352 CAAGTCTTCACCAGAGGGTAGTGAAGCAAACCATCT
1 TAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCT
* * * * *
213388 TAAGTCTTCACC-AAAAAGTAGTGAAGCAGATCCATTT
1 TAAGCCTTCACCGGAGAA-TAGTGAAGCA-AACCATCT
213425 TAAGCCTTC
1 TAAGCCTTC
213434 TCATAAGAGT
Statistics
Matches: 128, Mismatches: 22, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
35 33 0.26
36 81 0.63
37 14 0.11
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (36 bp):
TAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCT
Found at i:213415 original size:72 final size:71
Alignment explanation
Indices: 213249--213415 Score: 176
Period size: 71 Copynumber: 2.3 Consensus size: 71
213239 CAATCCTAAG
* * ** * *
213249 CCTTCACCGGAGAATAGTGAAGCAAACCATCTGAAGCCTTCACGGAGAATAGTGAAGCAATCAAT
1 CCTTCACCGAAAAATAGTGAAGCAAACCATCACAAGCCTTCACAGAGAATAGTGAAGCAAACAAT
213314 CTGAAT
66 CTGAAT
* * * ** *
213320 CCTTCACCGGAGAATAGTGAAGCAAACCATCACAAGTCTTCACCAGAGGGTAGTGAAGCAAACCA
1 CCTTCACCGAAAAATAGTGAAGCAAACCATCACAAGCCTTCA-CAGAGAATAGTGAAGCAAACAA
*
213385 TCTTAAGT
65 TCTGAA-T
213393 -CTTCACC-AAAAAGTAGTGAAGCA
1 CCTTCACCGAAAAA-TAGTGAAGCA
213416 GATCCATTTT
Statistics
Matches: 82, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
71 42 0.51
72 39 0.48
73 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.19
Consensus pattern (71 bp):
CCTTCACCGAAAAATAGTGAAGCAAACCATCACAAGCCTTCACAGAGAATAGTGAAGCAAACAAT
CTGAAT
Found at i:213880 original size:51 final size:51
Alignment explanation
Indices: 213815--214293 Score: 473
Period size: 51 Copynumber: 9.3 Consensus size: 51
213805 AAGATTATTT
* * * *
213815 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCTGTTTGAAGATGTCC
1 GAGTTCTATACTCCCTAGAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
* * * * * *
213866 GAGTCCCATACTCCCTAGAGAAGGAAGGAGCGAACCCGTGTGAAGATATGC
1 GAGTTCTATACTCCCTAGAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
* * * *
213917 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTAAAGATGTCC
1 GAGTTCTATACTCCCTAGAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
* * * * *
213968 GAGTTCCATACTCCCTAGAGAAGGAAGGAGCGAACCCGTGTGAAGATATGC
1 GAGTTCTATACTCCCTAGAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
* * * *
214019 GAGTTCTATAATCCTTAAAGAAAGAAGGAGCGAACCCGTTTAAAGATGTTC
1 GAGTTCTATACTCCCTAGAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
** * * * ** * *
214070 GAGTTCTATACTCTTTAAAGAGAGAATGAGCGAACCCGTAAGAAGAAGATTTTT
1 GAGTTCTATACTCCCTAGAGAAAGAAGGAGCGAACCCGT---TTGAAGATGTTC
*
214124 GAGTTCTATACTCCCT-GAAGAAAGAGGGAGCGAACCCAG-TTGAAGATGTTC
1 GAGTTCTATACTCCCTAG-AGAAAGAAGGAGCGAACCC-GTTTGAAGATGTTC
* *
214175 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCG--TGAAGAGATGTTC
1 GAGTTCTATACTCCCTAGAGAAAGAAGGAGCGAACCCGTTTG-A-AGATGTTC
* * *
214226 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCATTTGTTGAAGATTGTTC
1 GAGTTCTATACTCCCTAGAGAAAGAAGGAGCGAACCC--GT-TTGAAGA-TGTTC
214281 GAG-TCTTATACTC
1 GAGTTC-TATACTC
214294 TCTGAAGAAA
Statistics
Matches: 357, Mismatches: 56, Indels: 26
0.81 0.13 0.06
Matches are distributed among these distances:
49 2 0.01
50 2 0.01
51 291 0.82
52 1 0.00
54 42 0.12
55 17 0.05
56 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (51 bp):
GAGTTCTATACTCCCTAGAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
Found at i:213947 original size:102 final size:102
Alignment explanation
Indices: 213815--214262 Score: 571
Period size: 102 Copynumber: 4.4 Consensus size: 102
213805 AAGATTATTT
* * * * *
213815 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCTGTTTGAAGATGTCCGAGTCCCATACTCC
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTAAAGATGTCCGAGTTCCATACTCC
213880 CTAGAGAAGGAAGGAGCGAACCCGTGTGAAGATATGC
66 CTAGAGAAGGAAGGAGCGAACCCGTGTGAAGATATGC
* *
213917 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTAAAGATGTCCGAGTTCCATACTCC
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTAAAGATGTCCGAGTTCCATACTCC
213982 CTAGAGAAGGAAGGAGCGAACCCGTGTGAAGATATGC
66 CTAGAGAAGGAAGGAGCGAACCCGTGTGAAGATATGC
* * * * * *
214019 GAGTTCTATAATCCTTAAAGAAAGAAGGAGCGAACCCGTTTAAAGATGTTCGAGTTCTATACTCT
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTAAAGATGTCCGAGTTCCATACTCC
* * * * * **
214084 TTAAAG-AGAGAATGAGCGAACCCGTAAGAAGAAGATTTTT
66 CTAGAGAAG-GAAGGAGCGAACCCGT--G-TGAAGATATGC
* * *
214124 GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCAG-TTGAAGATGTTCGAGTTCCATACTC
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCC-GTTTAAAGATGTCCGAGTTCCATACTC
* * *
214188 CCTAGAGAAAGAGGGAGCGAACCC--GTGAAGAGATGTTC
65 CCTAGAGAAGGAAGGAGCGAACCCGTGTGAAGATATG--C
214226 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCC
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCC
214263 ATTTGTTGAA
Statistics
Matches: 302, Mismatches: 36, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
100 6 0.02
101 3 0.01
102 211 0.70
104 1 0.00
105 79 0.26
106 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.21
Consensus pattern (102 bp):
GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTAAAGATGTCCGAGTTCCATACTCC
CTAGAGAAGGAAGGAGCGAACCCGTGTGAAGATATGC
Found at i:214185 original size:207 final size:203
Alignment explanation
Indices: 213815--214262 Score: 569
Period size: 207 Copynumber: 2.2 Consensus size: 203
213805 AAGATTATTT
* * * *
213815 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCTGTTTGAAGATGTCCGAGTCCCATACTCC
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTAAAGATGTCCGAGTCCCATACTCC
* * *
213880 CTAGAGAAGGAAGGAGCGAACCCGTGTGAAGATATGCGAGTTCTATACTCCTTAAAGAAAGAAGG
66 CTAAAGAAGGAAGGAGCGAACCCGTGAGAAGATATGCGAGTTCTATACTCCCTAAAGAAAGAAGG
*
213945 AGCGAACCCGTTTAAAGATGTCCGAGTTCCATACTCCCTAGAGAAGGAAGGAGCGAACCCGTGTG
131 AGCGAACCCGTTTAAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAAGGAGCGAACCC--GTG
*
214010 AAGATATG-C
194 AAGAGATGTC
* * * * * * *
214019 GAGTTCTATAATCCTTAAAGAAAGAAGGAGCGAACCCGTTTAAAGATGTTCGAGTTCTATACTCT
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTAAAGATGTCCGAGTCCCATACTCC
* * * ** *
214084 TTAAAG-AGAGAATGAGCGAACCCGTAAGAAGAAGATTTTTGAGTTCTATACTCCCTGAAGAAAG
66 CTAAAGAAG-GAAGGAGCGAACCCGT--G-AGAAGATATGCGAGTTCTATACTCCCTAAAGAAAG
* * * *
214148 AGGGAGCGAACCCAG-TTGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCC
127 AAGGAGCGAACCC-GTTTAAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAAGGAGCGAACCC
214212 GTGAAGAGATGTTC
191 GTGAAGAGATG-TC
214226 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCC
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCC
214263 ATTTGTTGAA
Statistics
Matches: 208, Mismatches: 29, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
203 2 0.01
204 73 0.35
205 10 0.05
206 1 0.00
207 121 0.58
208 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.21
Consensus pattern (203 bp):
GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTAAAGATGTCCGAGTCCCATACTCC
CTAAAGAAGGAAGGAGCGAACCCGTGAGAAGATATGCGAGTTCTATACTCCCTAAAGAAAGAAGG
AGCGAACCCGTTTAAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAAGGAGCGAACCCGTGAA
GAGATGTC
Found at i:214302 original size:55 final size:54
Alignment explanation
Indices: 214267--214773 Score: 623
Period size: 55 Copynumber: 9.3 Consensus size: 54
214257 GAACCCATTT
214267 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATC
1 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGAC-CGATC
* *
214322 GTTGAAGATATATT-GAGTCTTATACTCTCTGAAGATATAGGGGGCAGACACGATC
1 GTTGAAGAT-TGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGAC-CGATC
* *
214377 GTTGAAGATTGTTCTAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATT
1 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGAC-CGATC
* * * *
214432 GATGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATA
1 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGAC-CGATC
* * * * *
214485 GTTGAAGATTGTTCGGGTCTTTTACTCTCTGAAGATATAGGGGGCAGATACAATC
1 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGA-CCGATC
* *
214540 GTTGAAGATCGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATT
1 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGAC-CGATC
* * * *
214595 GATGAAGATTG-T-GGGTCTTATACTCTCTAAAGATATAGGGGGCAGACACGATC
1 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGAC-CGATC
* * * *
214648 ATTGAAGATTGTTCGAGTCTTATACTCTCTGAGGAAATAGGGGGCAGATGCGATT
1 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGA-CCGATC
* * *
214703 GATGAAGATTG-TGGA-TCTTATACTCTCTGAAGAAATAGGGGGCAGACACGATT
1 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGAC-CGATC
* *
214756 GTTAAAGATTATTCGAGT
1 GTTGAAGATTGTTCGAGT
214774 TCCATACTCC
Statistics
Matches: 391, Mismatches: 49, Indels: 24
0.84 0.11 0.05
Matches are distributed among these distances:
53 135 0.35
54 13 0.03
55 240 0.61
56 3 0.01
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (54 bp):
GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACCGATC
Found at i:214462 original size:163 final size:163
Alignment explanation
Indices: 214269--214765 Score: 739
Period size: 163 Copynumber: 3.0 Consensus size: 163
214259 ACCCATTTGT
* *
214269 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATATA
1 TGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGAT-TG
* *
214334 TT-GAGTCTTATACTCTCTGAAGATATAGGGGGCAGACACGATCGTTGAAGATTGTTCTAGTCTT
63 TTCGAGTCTTATACTCTCTGAAGATATAGGGGGCAGATACGATCGTTGAAGATTGTTCGAGTCTT
214398 ATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGA
128 ATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGA
* *
214434 TGAAGATTGTGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATAGTTGAAGATTGTTC
1 TGAAGATTGTGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTGTTC
* * * *
214499 GGGTCTTTTACTCTCTGAAGATATAGGGGGCAGATACAATCGTTGAAGATCGTTCGAGTCTTATA
66 GAGTCTTATACTCTCTGAAGATATAGGGGGCAGATACGATCGTTGAAGATTGTTCGAGTCTTATA
214564 CTCTCTGAAGAAATAGGGGGCAGACGCGATTGA
131 CTCTCTGAAGAAATAGGGGGCAGACGCGATTGA
* * * *
214597 TGAAGATTGTGGGTCTTATACTCTCTAAAGATATAGGGGGCAGACACGATCATTGAAGATTGTTC
1 TGAAGATTGTGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTGTTC
* * * * * *
214662 GAGTCTTATACTCTCTGAGGAAATAGGGGGCAGATGCGATTGATGAAGATTG-TGGA-TCTTATA
66 GAGTCTTATACTCTCTGAAGATATAGGGGGCAGATACGATCGTTGAAGATTGTTCGAGTCTTATA
* *
214725 CTCTCTGAAGAAATAGGGGGCAGACACGATTGT
131 CTCTCTGAAGAAATAGGGGGCAGACGCGATTGA
*
214758 TAAAGATT
1 TGAAGATT
214766 ATTCGAGTTC
Statistics
Matches: 302, Mismatches: 29, Indels: 6
0.90 0.09 0.02
Matches are distributed among these distances:
161 45 0.15
162 6 0.02
163 241 0.80
164 1 0.00
165 9 0.03
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (163 bp):
TGAAGATTGTGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTGTTC
GAGTCTTATACTCTCTGAAGATATAGGGGGCAGATACGATCGTTGAAGATTGTTCGAGTCTTATA
CTCTCTGAAGAAATAGGGGGCAGACGCGATTGA
Found at i:214505 original size:108 final size:110
Alignment explanation
Indices: 214265--214773 Score: 681
Period size: 108 Copynumber: 4.7 Consensus size: 110
214255 GCGAACCCAT
* * *
214265 TTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGA
1 TTGTTGAAGATTGTTCGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACGATTGTTGAAGA
* * *
214330 TATATT-GAGTCTTATACTCTCTGAAGATATAGGGGGCAGACACGA
66 T-TGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGA
* ** * *
214375 TCGTTGAAGATTGTTCTAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGA
1 TTGTTGAAGATTGTTCGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACGATTGTTGAAGA
* *
214440 TTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAA
66 TTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGA
* * * * * *
214483 TAGTTGAAGATTGTTCGGGTCTTTTACTCTCTGAAGATATAGGGGGCAGATACAATCGTTGAAGA
1 TTGTTGAAGATTGTTCGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACGATTGTTGAAGA
*
214548 TCGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGA
66 TTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGA
* * * **
214593 TTGATGAAGATTG-T-GGGTCTTATACTCTCTAAAGATATAGGGGGCAGACACGATCATTGAAGA
1 TTGTTGAAGATTGTTCGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACGATTGTTGAAGA
* *
214656 TTGTTCGAGTCTTATACTCTCTGAGGAAATAGGGGGCAGATGCGA
66 TTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGA
* * *
214701 TTGATGAAGATTG-T-GGATCTTATACTCTCTGAAGAAATAGGGGGCAGACACGATTGTTAAAGA
1 TTGTTGAAGATTGTTCGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACGATTGTTGAAGA
*
214764 TTATTCGAGT
66 TTGTTCGAGT
214774 TCCATACTCC
Statistics
Matches: 358, Mismatches: 39, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
108 245 0.68
109 3 0.01
110 110 0.31
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (110 bp):
TTGTTGAAGATTGTTCGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACGATTGTTGAAGA
TTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGA
Found at i:227844 original size:36 final size:36
Alignment explanation
Indices: 227602--227828 Score: 339
Period size: 36 Copynumber: 6.3 Consensus size: 36
227592 AGTCAATCCT
227602 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTG
1 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTG
* *
227638 AAGCCTTCACCGGAGAATAGTGAAGCAATCAATCTG
1 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTG
227674 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTG
1 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTG
* * * *
227710 AAGCCTTCATCGGAGAATAGGGAAGCAATCAATCTG
1 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTG
227746 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCAT-
1 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATC-TG
* * * *
227782 AAGTCTTCACCAGAGAGTAGTGAAGCAAACCATCTT
1 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTG
*
227818 AAGTCTTCACC
1 AAGCCTTCACC
227829 AAAAAGTAGT
Statistics
Matches: 174, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
35 1 0.01
36 172 0.99
37 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.19
Consensus pattern (36 bp):
AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTG
Found at i:228309 original size:51 final size:51
Alignment explanation
Indices: 228232--228884 Score: 591
Period size: 51 Copynumber: 12.5 Consensus size: 51
228222 GTGAAGCAAA
* *
228232 TGAAGATTATTTGAGTTCCATACTCCCTAGAGAAAGAAGGAGCGAACCCGTT
1 TGAAGATT-TTCGAGTTCTATACTCCCTAGAGAAAGAAGGAGCGAACCCGTT
* *
228284 TGAAGATTTTCGAGTTCTATACTCCCT-GAAGAAAGAGGGAGAGAACCCGTTT
1 TGAAGATTTTCGAGTTCTATACTCCCTAG-AGAAAGAAGGAGCGAACCCG-TT
* * * *
228336 TCAGAAGATCATTCAAGTTCTATACTTCCTTAAAGAAAGAAGGAGCGAACCCGTT
1 T--GAAGAT-TTTCGAGTTCTATAC-TCCCTAGAGAAAGAAGGAGCGAACCCGTT
* * * ** *
228391 TAAAGATGTTCGAGTTCCATACTCTTTAAAGAAAGAAGGAGCGAACCCGTT
1 TGAAGATTTTCGAGTTCTATACTCCCTAGAGAAAGAAGGAGCGAACCCGTT
* * * ** *
228442 TGAAGAGATGTCTGAGTTCCATACTCCCTAGAGAAAGCGGGAGCGAACCCGTG
1 TGAAGA-TTTTC-GAGTTCTATACTCCCTAGAGAAAGAAGGAGCGAACCCGTT
* * * *
228495 TGAAGATATGCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTT
1 TGAAGATTTTCGAGTTCTATACTCCCTAGAGAAAGAAGGAGCGAACCCGTT
* * * * *
228546 TGAAGAGATGTCTGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTG
1 TGAAGA-TTTTC-GAGTTCTATACTCCCTAGAGAAAGAAGGAGCGAACCCGTT
* * * *
228599 TGAAGATATCCGAGTTCCATACTCCTTA-ATGAAAGAAGGAGCGAACCCGTT
1 TGAAGATTTTCGAGTTCTATACTCCCTAGA-GAAAGAAGGAGCGAACCCGTT
* ** * * *
228650 TGAAGATGTTCGAGTTCTATACTCTTTAAAGAGAGAAGGAGCGAACCCGTAAGA
1 TGAAGATTTTCGAGTTCTATACTCCCTAGAGAAAGAAGGAGCGAACCCGT---T
* * *
228704 AGAAGATTTTTGAGTTCTATACTCCCT-GAAGAAAGAGGGAGCGAACCCAG-T
1 TGAAGATTTTCGAGTTCTATACTCCCTAG-AGAAAGAAGGAGCGAACCC-GTT
* * * *
228755 TGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAAGCCG--
1 TGAAGATTTTCGAGTTCTATACTCCCTAGAGAAAGAAGGAGCGAACCCGTT
* * * *
228804 TGAAGAGATGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCATTTGT
1 TG-A-AGATTTTCGAGTTCTATACTCCCTAGAGAAAGAAGGAGCGAACCC--GT-T
228860 TGAAGATTGTTCGAG-TCTTATACTC
1 TGAAGATT-TTCGAGTTC-TATACTC
228885 TCTGAAGAAA
Statistics
Matches: 497, Mismatches: 76, Indels: 53
0.79 0.12 0.08
Matches are distributed among these distances:
49 2 0.00
50 4 0.01
51 269 0.54
52 30 0.06
53 86 0.17
54 51 0.10
55 31 0.06
56 24 0.05
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (51 bp):
TGAAGATTTTCGAGTTCTATACTCCCTAGAGAAAGAAGGAGCGAACCCGTT
Found at i:228509 original size:104 final size:104
Alignment explanation
Indices: 228243--228858 Score: 685
Period size: 104 Copynumber: 5.9 Consensus size: 104
228233 GAAGATTATT
* *
228243 TGAGTTCCATACTCCCTAGAGAAAGAAGGAGCGAACCCGTTTGAAGATTTTCGAGTTCTATACTC
1 TGAGTTCCATACTCCCTAGAGAAAGAAGGAGCGAACCCGTGTGAAGATATTCGAGTTCTATACTC
* * * *
228308 CCTGAAGAAAGAGGGAGAGAACCCGTTTTCAGAAGATCAT-TC
66 CCTAAAGAAAGAAGGAGCGAACCCG-TTT--GAAGA-GATGTC
* * * * * * * *
228350 -AAGTTCTATACTTCCTTAAAGAAAGAAGGAGCGAACCCGTTTAAAGATGTTCGAGTTCCATACT
1 TGAGTTCCATAC-TCCCTAGAGAAAGAAGGAGCGAACCCGTGTGAAGATATTCGAGTTCTATACT
**
228414 CTTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTC
65 CCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTC
** *
228454 TGAGTTCCATACTCCCTAGAGAAAGCGGGAGCGAACCCGTGTGAAGATATGCGAGTTCTATACTC
1 TGAGTTCCATACTCCCTAGAGAAAGAAGGAGCGAACCCGTGTGAAGATATTCGAGTTCTATACTC
*
228519 CTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTC
66 CCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTC
* * *
228558 TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATCCGAGTTCCATACTC
1 TGAGTTCCATACTCCCTAGAGAAAGAAGGAGCGAACCCGTGTGAAGATATTCGAGTTCTATACTC
* *
228623 CTTAATGAAAGAAGGAGCGAACCCGTTTG-A-AGATGT-
66 CCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTC
* ** * * * * *
228659 TCGAGTTCTATACTCTTTAAAGAGAGAAGGAGCGAACCCGTAAGAAGAAGATTTTTGAGTTCTAT
1 T-GAGTTCCATACTCCCTAGAGAAAGAAGGAGCGAACCCGT--G-TGAAGATATTCGAGTTCTAT
* *
228724 ACTCCCTGAAGAAAGAGGGAGCGAACCCAG-TTG-A-AGATGT-
62 ACTCCCTAAAGAAAGAAGGAGCGAACCC-GTTTGAAGAGATGTC
* * * *
228764 TCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAAGCCGTG-AAGAGATGTTCGAGTTCTATAC
1 T-GAGTTCCATACTCCCTAGAGAAAGAAGGAGCGAACCCGTGTGA-AGATATTCGAGTTCTATAC
* *
228828 TCCCTAAAGAAAGAGGGAGCGAACCCATTTG
64 TCCCTAAAGAAAGAAGGAGCGAACCCGTTTG
228859 TTGAAGATTG
Statistics
Matches: 443, Mismatches: 56, Indels: 25
0.85 0.11 0.05
Matches are distributed among these distances:
101 2 0.00
102 84 0.19
103 4 0.01
104 180 0.41
105 92 0.21
106 13 0.03
107 68 0.15
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (104 bp):
TGAGTTCCATACTCCCTAGAGAAAGAAGGAGCGAACCCGTGTGAAGATATTCGAGTTCTATACTC
CCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTC
Found at i:228790 original size:156 final size:154
Alignment explanation
Indices: 228241--228853 Score: 731
Period size: 156 Copynumber: 3.9 Consensus size: 154
228231 ATGAAGATTA
* *
228241 TTTGAGTTCCATACTCCCTAGAGAAAGAAGGAGCGAACCCGTTTGAAGATTTTCGAGTTCTATAC
1 TTTGAGTTCCATACTCCCTAGAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTCGAGTTCCATAC
* *
228306 TCCCT-GAAGAAAGAGGGAGAGAACCCGTTTTCAGAAGATCATTCAAGTTCTATACTTCCTTAAA
66 TCCCTAG-AGAAAGAGGGAGCGAACCCG-TTT--GAAGAT-ATTCGAGTTCTATAC-TCCTTAAA
**
228370 GAAAGAAGGAGCGAACCCGTTTA-AAGATG
125 GAAAGAAGGAGCGAACCCGTGAAGAAGATG
* ** *
228399 TTCGAGTTCCATACTCTTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGA-GATGTCTGAGTTCCA
1 TTTGAGTTCCATACTCCCTAGAGAAAGAAGGAGCGAACCCGTTTGAAGATG-T-TC-GAGTTCCA
* * *
228463 TACTCCCTAGAGAAAGCGGGAGCGAACCCGTGTGAAGATATGCGAGTTCTATACTCCTTAAAGAA
63 TACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATATTCGAGTTCTATACTCCTTAAAGAA
228528 AGAAGGAGCGAACCCGTTTGAAG-AGATG
128 AGAAGGAGCGAACCCG--TGAAGAAGATG
* * * * *
228556 TCTGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATCCGAGTTCCATAC
1 TTTGAGTTCCATACTCCCTAGAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTCGAGTTCCATAC
* * * * *
228621 TCCTTA-ATGAAAGAAGGAGCGAACCCGTTTGAAGATGTTCGAGTTCTATACTCTTTAAAGAGAG
66 TCCCTAGA-GAAAGAGGGAGCGAACCCGTTTGAAGATATTCGAGTTCTATACTCCTTAAAGAAAG
*
228685 AAGGAGCGAACCCGTAAGAAGAAGATT
130 AAGGAGCGAACCCGT--GAAGAAGATG
* *
228712 TTTGAGTTCTATACTCCCT-GAAGAAAGAGGGAGCGAACCCAG-TTGAAGATGTTCGAGTTCCAT
1 TTTGAGTTCCATACTCCCTAG-AGAAAGAAGGAGCGAACCC-GTTTGAAGATGTTCGAGTTCCAT
* * *
228775 ACTCCCTAGAGAAAGAGGGAGCGAAGCCG--TGAAGAGATGTTCGAGTTCTATACTCCCTAAAGA
64 ACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG-A-AGATATTCGAGTTCTATACTCCTTAAAGA
*
228838 AAGAGGGAGCGAACCC
127 AAGAAGGAGCGAACCC
228854 ATTTGTTGAA
Statistics
Matches: 395, Mismatches: 43, Indels: 36
0.83 0.09 0.08
Matches are distributed among these distances:
153 1 0.00
154 3 0.01
155 112 0.28
156 137 0.35
157 58 0.15
158 46 0.12
159 4 0.01
160 33 0.08
161 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (154 bp):
TTTGAGTTCCATACTCCCTAGAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTCGAGTTCCATAC
TCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATATTCGAGTTCTATACTCCTTAAAGAAAGA
AGGAGCGAACCCGTGAAGAAGATG
Found at i:228893 original size:55 final size:54
Alignment explanation
Indices: 228232--229168 Score: 481
Period size: 51 Copynumber: 17.7 Consensus size: 54
228222 GTGAAGCAAA
* * * * * *
228232 TGAAGATTATTTGAGTTCCATACTCCCT-AGAGAAAGAAGGAGCGAACCC-GT-T
1 TGAAGATTGTTCGAGTTCTATACTCTCTGA-AGAAAGAGGGAGCGAACCCATTGT
* * *
228284 TGAAGATT-TTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGAGAACCCGTT-T
1 TGAAGATTGTTCGAGTTCTATACTCTCTGAAGAAAGAGGGAGCGAACCCATTGT
** * * * *
228336 TCAGAAGATCATTCAAGTTCTATACT-TCCTTAAAGAAAGAAGGAGCGAACCC-GT-T
1 T--GAAGATTGTTCGAGTTCTATACTCT-C-TGAAGAAAGAGGGAGCGAACCCATTGT
* * * * * *
228391 TAAAGA-TGTTCGAGTTCCATACTCTTTAAAGAAAGAAGGAGCGAACCC-GT-T
1 TGAAGATTGTTCGAGTTCTATACTCTCTGAAGAAAGAGGGAGCGAACCCATTGT
* * * * *
228442 TGAAGAGATG-TCTGAGTTCCATACTCCCT-AGAGAAAGCGGGAGCGAACCC-GTG-
1 TGAAGA-TTGTTC-GAGTTCTATACTCTCTGA-AGAAAGAGGGAGCGAACCCATTGT
* * *
228495 TGAAGATATG--CGAGTTCTATACTC-CTTAAAGAAAGAAGGAGCGAACCC-GT-T
1 TGAAGAT-TGTTCGAGTTCTATACTCTC-TGAAGAAAGAGGGAGCGAACCCATTGT
* * * *
228546 TGAAGAGATG-TCTGAGTTCCATACTCCCT-AGAGAAAGAGGGAGCGAACCC-GTG-
1 TGAAGA-TTGTTC-GAGTTCTATACTCTCTGA-AGAAAGAGGGAGCGAACCCATTGT
* * * * * *
228599 TGAAGA-TATCCGAGTTCCATACTC-CTTAATGAAAGAAGGAGCGAACCC-GT-T
1 TGAAGATTGTTCGAGTTCTATACTCTCTGAA-GAAAGAGGGAGCGAACCCATTGT
* * * * * * *
228650 TGAAGA-TGTTCGAGTTCTATACTCTTTAAAGAGAGAAGGAGCGAACCCGTAAGA
1 TGAAGATTGTTCGAGTTCTATACTCTCTGAAGAAAGAGGGAGCGAACCCAT-TGT
* * *
228704 AGAAGATT-TTTGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCA--GT
1 TGAAGATTGTTCGAGTTCTATACTCTCTGAAGAAAGAGGGAGCGAACCCATTGT
* * *
228755 TGAAGA-TGTTCGAGTTCCATACTCCCT-AGAGAAAGAGGGAGCGAAGCC---G-
1 TGAAGATTGTTCGAGTTCTATACTCTCTGA-AGAAAGAGGGAGCGAACCCATTGT
* * *
228804 TGAAGAGATGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCATTTGT
1 TGAAGA-TTGTTCGAGTTCTATACTCTCTGAAGAAAGAGGGAGCGAACCCA-TTGT
* * * *
228860 TGAAGATTGTTCGAG-TCTTATACTCTCTGAAGAAATAGGGGGC-AGACGCGA-TGA
1 TGAAGATTGTTCGAGTTC-TATACTCTCTGAAGAAAGAGGGAGCGA-AC-CCATTGT
* * * * *
228914 TGAAGATTG-T-G-GGTCTATACTCTCTGAAGAAATAGGGGGC-AGACGCAATCGT
1 TGAAGATTGTTCGAGTTCTATACTCTCTGAAGAAAGAGGGAGCGA-AC-CCATTGT
* * * *
228966 TGAAGATTGTTCGAG-TCTTATACTCTCTGAAGAAATAGGGGGC-AGACGCAATTGA
1 TGAAGATTGTTCGAGTTC-TATACTCTCTGAAGAAAGAGGGAGCGA-AC-CCATTGT
* * * *
229021 TGAAGATTG-T-G-GGTCTTATACTCTCTGAAGAAATAGGG-G-GTAGACACAATCGT
1 TGAAGATTGTTCGAGTTC-TATACTCTCTGAAGAAAGAGGGAGCG-A-AC-CCATTGT
* * * * *
229074 TGAGGATTGTTCGAG-TCTTATACTCTCTGAAGAAATAGGGGGC-AGACGCAATCGT
1 TGAAGATTGTTCGAGTTC-TATACTCTCTGAAGAAAGAGGGAGCGA-AC-CCATTGT
*
229129 TGAAGATTGTTCGAG-TCTTATACTCTCTGAAGAAATAGGG
1 TGAAGATTGTTCGAGTTC-TATACTCTCTGAAGAAAGAGGG
229169 GGCAGACAAG
Statistics
Matches: 751, Mismatches: 75, Indels: 115
0.80 0.08 0.12
Matches are distributed among these distances:
49 6 0.01
50 7 0.01
51 288 0.38
52 52 0.07
53 132 0.18
54 65 0.09
55 172 0.23
56 29 0.04
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.25
Consensus pattern (54 bp):
TGAAGATTGTTCGAGTTCTATACTCTCTGAAGAAAGAGGGAGCGAACCCATTGT
Found at i:228934 original size:106 final size:107
Alignment explanation
Indices: 228719--229214 Score: 470
Period size: 106 Copynumber: 4.7 Consensus size: 107
228709 ATTTTTGAGT
*
228719 TCTATACTCCCTGAAGAAAGAGGGAGCGA-ACCC-A--GTTGAAGA-TGTTCGAGT-TCCATACT
1 TCTATACTCCCTGAAGAAAGAGGGAGCGAGACCCAATCGTTGAAGATTGTTCGAGTCT-TATACT
* * * * ** * *
228778 CCCT-AGAGAAAGAGGGAGC-GAAGCCGTGAAG-AGA-TGTTCGAGT
65 CTCTGA-AGAAATAGGGGGCAGACGCAATGATGAAGATTG-T-G-GG
* * *
228821 TCTATACTCCCTAAAGAAAGAGGGAGCGA-ACCCATTTGTTGAAGATTGTTCGAGTCTTATACTC
1 TCTATACTCCCTGAAGAAAGAGGGAGCGAGACCCAATCGTTGAAGATTGTTCGAGTCTTATACTC
*
228885 TCTGAAGAAATAGGGGGCAGACGCGATGATGAAGATTGTGGG
66 TCTGAAGAAATAGGGGGCAGACGCAATGATGAAGATTGTGGG
* * * *
228927 TCTATACTCTCTGAAGAAATAGGGGGC-AGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTC
1 TCTATACTCCCTGAAGAAAGAGGGAGCGAGACCCAATCGTTGAAGATTGTTCGAGTCTTATACTC
228991 TCTGAAGAAATAGGGGGCAGACGCAATTGATGAAGATTGTGGG
66 TCTGAAGAAATAGGGGGCAGACGCAA-TGATGAAGATTGTGGG
* * * *
229034 TCTTATACTCTCTGAAGAAATAGGG-G-GTAGACACAATCGTTGAGGATTGTTCGAGTCTTATAC
1 TC-TATACTCCCTGAAGAAAGAGGGAGCG-AGACCCAATCGTTGAAGATTGTTCGAGTCTTATAC
* *
229097 TCTCTGAAGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAG
64 TCTCTGAAGAAATAGGGGGCAGACGCAAT-GATGAAGATTG-T-GGG
* * * * *
229144 TCTTATACTCTCTGAAGAAATAGGGGGC-AGA--CAAGTGTGTTGAAGA-TGATTCAAGTCTTAT
1 TC-TATACTCCCTGAAGAAAGAGGGAGCGAGACCCAA-T-CGTTGAAGATTG-TTCGAGTCTTAT
*
229205 ACCCTCTGAA
62 ACTCTCTGAA
229215 CAATATGGAG
Statistics
Matches: 345, Mismatches: 27, Indels: 36
0.85 0.07 0.09
Matches are distributed among these distances:
102 32 0.09
105 9 0.03
106 109 0.32
107 31 0.09
108 100 0.29
109 6 0.02
110 57 0.17
111 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.26
Consensus pattern (107 bp):
TCTATACTCCCTGAAGAAAGAGGGAGCGAGACCCAATCGTTGAAGATTGTTCGAGTCTTATACTC
TCTGAAGAAATAGGGGGCAGACGCAATGATGAAGATTGTGGG
Found at i:229094 original size:108 final size:108
Alignment explanation
Indices: 228858--229214 Score: 551
Period size: 108 Copynumber: 3.3 Consensus size: 108
228848 GAACCCATTT
*
228858 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGA-TGATGAAGATT
1 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATTGATGAAGATT
*
228922 GTGGGTC-TATACTCTCTGAAGAAATAGGGGGCAGACGCAATC
66 GTGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACAATC
228964 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATTGATGAAGATT
1 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATTGATGAAGATT
*
229029 GTGGGTCTTATACTCTCTGAAGAAATAGGGGGTAGACACAATC
66 GTGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACAATC
* * *
229072 GTTGAGGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATCGTTGAAGATT
1 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATTGATGAAGATT
* * *
229137 GTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACA-AGTGT
66 G-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACAAT-C
* *
229182 GTTGAAGA-TGATTCAAGTCTTATACCCTCTGAA
1 GTTGAAGATTG-TTCGAGTCTTATACTCTCTGAA
229215 CAATATGGAG
Statistics
Matches: 232, Mismatches: 13, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
106 52 0.22
107 18 0.08
108 96 0.41
109 5 0.02
110 61 0.26
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (108 bp):
GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATTGATGAAGATT
GTGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACAATC
Found at i:229119 original size:163 final size:161
Alignment explanation
Indices: 228812--229214 Score: 523
Period size: 163 Copynumber: 2.5 Consensus size: 161
228802 CGTGAAGAGA
* * * * * *
228812 TGTTCGAGT-TCTATACTCCCTAAAGAAAGAGGGAGC-GAACCCATTTGTTGAAGATTGTTCGAG
1 TGTTCGAGTCT-TATACTCTCTGAAGAAATAGGGGGCAG-ACCCAATTGATGAAGATTGTTCGAG
* * *
228875 TCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATGATGAAGATTGTGGGTCTATACTCTCTG
64 TCTTATACTCTCTGAAGAAATAGGGGGCAGACACAATGATGAAGATTGTGAGTCTATACTCTCTG
228940 AAGAAATAGGGGGCAGACGCAATCGTTGAAGAT
129 AAGAAATAGGGGGCAGACGCAATCGTTGAAGAT
* *
228973 TGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATTGATGAAGATTG-T-GGGTC
1 TGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACCCAATTGATGAAGATTGTTCGAGTC
* * *
229036 TTATACTCTCTGAAGAAATAGGGGGTAGACACAATCGTTGAGGATTGTTCGAGTCTTATACTCTC
66 TTATACTCTCTGAAGAAATAGGGGGCAGACACAAT-GATGAAGATTG-T-GAGTC-TATACTCTC
229101 TGAAGAAATAGGGGGCAGACGCAATCGTTGAAGAT
127 TGAAGAAATAGGGGGCAGACGCAATCGTTGAAGAT
* *
229136 TGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGA--CAAGTGTGTTGAAGA-TGATTCAA
1 TGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACCCAA-T-TGATGAAGATTG-TTCGA
*
229198 GTCTTATACCCTCTGAA
63 GTCTTATACTCTCTGAA
229215 CAATATGGAG
Statistics
Matches: 213, Mismatches: 18, Indels: 18
0.86 0.07 0.07
Matches are distributed among these distances:
159 36 0.17
160 10 0.05
161 50 0.23
162 9 0.04
163 91 0.43
164 1 0.00
165 16 0.08
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.28
Consensus pattern (161 bp):
TGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACCCAATTGATGAAGATTGTTCGAGTC
TTATACTCTCTGAAGAAATAGGGGGCAGACACAATGATGAAGATTGTGAGTCTATACTCTCTGAA
GAAATAGGGGGCAGACGCAATCGTTGAAGAT
Found at i:229169 original size:55 final size:55
Alignment explanation
Indices: 228858--229214 Score: 516
Period size: 55 Copynumber: 6.6 Consensus size: 55
228848 GAACCCATTT
*
228858 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGAT-
1 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATC
* *
228912 GATGAAGATTG-T-GGGTC-TATACTCTCTGAAGAAATAGGGGGCAGACGCAATC
1 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATC
*
228964 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATT
1 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATC
* * * *
229019 GATGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGTAGACACAATC
1 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATC
*
229072 GTTGAGGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATC
1 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATC
*
229127 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGA--CAAGTGT
1 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAA-T-C
* *
229182 GTTGAAGA-TGATTCAAGTCTTATACCCTCTGAA
1 GTTGAAGATTG-TTCGAGTCTTATACTCTCTGAA
229215 CAATATGGAG
Statistics
Matches: 274, Mismatches: 20, Indels: 17
0.88 0.06 0.05
Matches are distributed among these distances:
51 33 0.12
52 14 0.05
53 51 0.19
54 19 0.07
55 157 0.57
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (55 bp):
GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATC
Found at i:235301 original size:24 final size:24
Alignment explanation
Indices: 235269--235325 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
235259 GATATCAGAA
* *
235269 ATCAAAACAGAATCCAGATCATAT
1 ATCAGAACAGAATCCAGATAATAT
* * *
235293 ATTAGAACAGAATTCAGGTAATAT
1 ATCAGAACAGAATCCAGATAATAT
235317 ATCAGAACA
1 ATCAGAACA
235326 TAATTCAAGT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.49, C:0.16, G:0.12, T:0.23
Consensus pattern (24 bp):
ATCAGAACAGAATCCAGATAATAT
Found at i:235656 original size:26 final size:26
Alignment explanation
Indices: 235624--235681 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
235614 TCGAGTAATC
235624 GAACAACTTGAGACGAATAGCTCTCA
1 GAACAACTTGAGACGAATAGCTCTCA
*
235650 TAACAACTTGAGACGAATAGCTCTCA
1 GAACAACTTGAGACGAATAGCTCTCA
235676 GAACAA
1 GAACAA
235682 ATGTTTGTCG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.41, C:0.22, G:0.17, T:0.19
Consensus pattern (26 bp):
GAACAACTTGAGACGAATAGCTCTCA
Found at i:237086 original size:17 final size:19
Alignment explanation
Indices: 237054--237091 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
237044 TAAAACTAAC
237054 ATTTCTTATGCACATCAAT
1 ATTTCTTATGCACATCAAT
237073 ATTT-TTAT-CACATCAAT
1 ATTTCTTATGCACATCAAT
237090 AT
1 AT
237092 GTTTGTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 11 0.58
18 4 0.21
19 4 0.21
ACGTcount: A:0.34, C:0.18, G:0.03, T:0.45
Consensus pattern (19 bp):
ATTTCTTATGCACATCAAT
Found at i:237912 original size:10 final size:10
Alignment explanation
Indices: 237899--237929 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
237889 GTCAAAGTTC
237899 TGGTCAACTG
1 TGGTCAACTG
*
237909 TGGTCAGCTG
1 TGGTCAACTG
237919 TGGTCAACTG
1 TGGTCAACTG
237929 T
1 T
237930 CGACCATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.16, C:0.19, G:0.32, T:0.32
Consensus pattern (10 bp):
TGGTCAACTG
Found at i:239026 original size:55 final size:55
Alignment explanation
Indices: 238941--239331 Score: 422
Period size: 55 Copynumber: 7.2 Consensus size: 55
238931 GTTTTAGCTT
* * * *
238941 CCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGCGTCTGCCC
1 CCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTC
* * * ** *
238996 CCTATTTCTTCAGAGAGTATAAGACCCGAACAATCTTCAACTATTGCATCTGCCC
1 CCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTC
* *
239051 CCTATTTCTTCAGAGAGTATAAGAC-CG-ACAATCTTCAACAATCGGGT-TCGTTC
1 CCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCT-GCTC
* * * * *
239104 CCTCTTTCTCCAGGGAGTAT-AGAACTCGAA-AATCTTTTGAA-AA-CGTGTATGCTC
1 CCTATTTCTTCAGAGAGTATAAG-ACTCGAACAATC--TTCAACAATCGTGTCTGCTC
* * * *
239158 CCTATTCCTTTAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTACTC
1 CCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTC
* * *
239213 CCTA-TTCTTTCAGAGAGTATGAGACTCGAATAATCTTCAACAATCGTGTCTGTTC
1 CCTATTTC-TTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTC
* * *
239268 CCTA-TTCTTTCAGAGAGTATAAGACTCGAACAAACTTCAACAATCGGGTCTACTC
1 CCTATTTC-TTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTC
239323 CCTATTTCT
1 CCTATTTCT
239332 CTAGGGATTA
Statistics
Matches: 289, Mismatches: 34, Indels: 26
0.83 0.10 0.07
Matches are distributed among these distances:
52 3 0.01
53 41 0.14
54 41 0.14
55 197 0.68
56 7 0.02
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.31
Consensus pattern (55 bp):
CCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTC
Found at i:239632 original size:109 final size:108
Alignment explanation
Indices: 239320--240034 Score: 674
Period size: 109 Copynumber: 6.8 Consensus size: 108
239310 ATCGGGTCTA
* * * ** *
239320 CTCCCTATTTC-TCTAGGGATTATGGAACTCGAACATCTTCTTCTTACAGGTTCGCTCCCTCTTT
1 CTCCCTCTTTCTTC-AGGGAGTATAGAACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTT
* * * * **
239384 CTCTAGGGAGTATAGAACTTGAATAATCTTCTGTAAGC-GAAT--
65 CTCTAGGGAGTATAGAACTCGAA-CATCTTCTGAAAACGGGTTCG
* * * * * *
239426 -TCCCTTTTTCTTTAAGGAGTATAGAACTCGAATAATCTT-TTGGAAACGGGTTTGCTCCCTCTT
1 CTCCCTCTTTCTTCAGGGAGTATAGAACTCGAA-CATCTTCTT-CAAACGGGTTCGCTCCCTCTT
* * * *
239489 TCTTTCAGGAAGTATAGAACTCGAATGATCTTCTGAAAACGGGCTCG
64 TCTCT-AGGGAGTATAGAACTCGAA-CATCTTCTGAAAACGGGTTCG
* ** *
239536 CTCCCTCTTTCTTCAGGGAGTATAGAACTCGAAGATCTTCTTCTTAC-GGTTCGCTTCGCTCTTT
1 CTCCCTCTTTCTTCAGGGAGTATAGAACTCGAACATCTTCTTCAAACGGGTTCGC-TCCCTCTTT
* *
239600 CTCCAGGAAGTATAGAACTCGAACAATCTTCTGAAAACGGGTTCG
65 CTCTAGGGAGTATAGAACTCGAAC-ATCTTCTGAAAACGGGTTCG
* * *
239645 CTCCCTCTTTCTTCAGGGAGTATGGAACTCGAACATATTCTTCAAACGGGTTCGCTCCCCCTTTC
1 CTCCCTCTTTCTTCAGGGAGTATAGAACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTC
239710 TCTAGGGAGTATAGAACTCGAACATCTTC---AAACGGGTTCG
66 TCTAGGGAGTATAGAACTCGAACATCTTCTGAAAACGGGTTCG
* * * *
239750 CTCCCTCTTTCTTTAGGGAGTATAGAACTCG--GAT-ATCTTCACACGGGTTCGCTCCCTCTTTC
1 CTCCCTCTTTCTTCAGGGAGTATAGAACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTC
* **
239812 TCTAGGGAGTATGGAACTC-AGACATC-TCTTCAAACGGGTTCG
66 TCTAGGGAGTATAGAACTCGA-ACATCTTCTGAAAACGGGTTCG
* * * * *
239854 CTCCTTCTTTCTTTAAGGAGTATGGAACTCGAACA---TCTTC-AACGGGTTCGCTCCTTCTTTC
1 CTCCCTCTTTCTTCAGGGAGTATAGAACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTC
* * * * *
239915 TTTAAGGAGTATAGAACTCGCATATCTTC---ACAC-GGTTCG
66 TCTAGGGAGTATAGAACTCGAACATCTTCTGAAAACGGGTTCG
* * * *
239954 CTCCTTCTTTC-TCTAGGGAGTATGGAACTCGGACA---TCTTCAAACGGGTTCGCTCCCTCTCT
1 CTCCCTCTTTCTTC-AGGGAGTATAGAACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTT
*
240015 CTCTAGGGAGTATGGAACTC
65 CTCTAGGGAGTATAGAACTC
240035 AAATAATCTT
Statistics
Matches: 519, Mismatches: 68, Indels: 49
0.82 0.11 0.08
Matches are distributed among these distances:
99 1 0.00
100 41 0.08
101 41 0.08
102 48 0.09
103 41 0.08
104 46 0.09
105 67 0.13
106 27 0.05
107 29 0.06
108 8 0.02
109 115 0.22
110 24 0.05
111 31 0.06
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (108 bp):
CTCCCTCTTTCTTCAGGGAGTATAGAACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTC
TCTAGGGAGTATAGAACTCGAACATCTTCTGAAAACGGGTTCG
Found at i:239760 original size:51 final size:51
Alignment explanation
Indices: 239320--240034 Score: 631
Period size: 51 Copynumber: 13.6 Consensus size: 51
239310 ATCGGGTCTA
* * * ** *
239320 CTCCCTATTTCTCTAGGGATTATGGAACTCGAACATCTTCTTCTTACAGGTTCG
1 CTCCCTCTTTCTCTAGGGAGTATAGAACTCGAACA---TCTTCAAACGGGTTCG
* * * **
239374 CTCCCTCTTTCTCTAGGGAGTATAGAACTTGAATAATCTTCTGTAA-GCGAAT--
1 CTCCCTCTTTCTCTAGGGAGTATAGAACTCGAA-CATCTTC--AAACG-GGTTCG
* * * * * *
239426 -TCCCTTTTTCTTTAAGGAGTATAGAACTCGAATAATCTTTTGGAAACGGGTTTG
1 CTCCCTCTTTCTCTAGGGAGTATAGAACTCGAA-CATC--TT-CAAACGGGTTCG
* * * *
239480 CTCCCTCTTTCTTTCAGGAAGTATAGAACTCGAATGATCTTCTGAAAACGGGCTCG
1 CTCCCTCTTTCTCT-AGGGAGTATAGAACTCGAA-CATCTTC---AAACGGGTTCG
* **
239536 CTCCCTCTTTCT-TCAGGGAGTATAGAACTCGAAGATCTTCTTCTTAC-GGTTCG
1 CTCCCTCTTTCTCT-AGGGAGTATAGAACTCG-A-A-CATCTTCAAACGGGTTCG
* * *
239589 CTTCGCTCTTTCTCCAGGAAGTATAGAACTCGAACAATCTTCTGAAAACGGGTTCG
1 C-TCCCTCTTTCTCTAGGGAGTATAGAACTCGAAC-ATCTTC---AAACGGGTTCG
*
239645 CTCCCTCTTTCT-TCAGGGAGTATGGAACTCGAACATATTCTTCAAACGGGTTCG
1 CTCCCTCTTTCTCT-AGGGAGTATAGAACTCGAAC--A-TCTTCAAACGGGTTCG
*
239699 CTCCCCCTTTCTCTAGGGAGTATAGAACTCGAACATCTTCAAACGGGTTCG
1 CTCCCTCTTTCTCTAGGGAGTATAGAACTCGAACATCTTCAAACGGGTTCG
* * * *
239750 CTCCCTCTTTCTTTAGGGAGTATAGAACTCGGATATCTTCACACGGGTTCG
1 CTCCCTCTTTCTCTAGGGAGTATAGAACTCGAACATCTTCAAACGGGTTCG
*
239801 CTCCCTCTTTCTCTAGGGAGTATGGAACTC-AGACATCTCTTCAAACGGGTTCG
1 CTCCCTCTTTCTCTAGGGAGTATAGAACTCGA-ACA--TCTTCAAACGGGTTCG
* * * *
239854 CTCCTTCTTTCTTTAAGGAGTATGGAACTCGAACATCTTC-AACGGGTTCG
1 CTCCCTCTTTCTCTAGGGAGTATAGAACTCGAACATCTTCAAACGGGTTCG
* * * * * *
239904 CTCCTTCTTTCTTTAAGGAGTATAGAACTCGCATATCTTCACAC-GGTTCG
1 CTCCCTCTTTCTCTAGGGAGTATAGAACTCGAACATCTTCAAACGGGTTCG
* * *
239954 CTCCTTCTTTCTCTAGGGAGTATGGAACTCGGACATCTTCAAACGGGTTCG
1 CTCCCTCTTTCTCTAGGGAGTATAGAACTCGAACATCTTCAAACGGGTTCG
* *
240005 CTCCCTCTCTCTCTAGGGAGTATGGAACTC
1 CTCCCTCTTTCTCTAGGGAGTATAGAACTC
240035 AAATAATCTT
Statistics
Matches: 559, Mismatches: 68, Indels: 71
0.80 0.10 0.10
Matches are distributed among these distances:
50 91 0.16
51 167 0.30
52 16 0.03
53 55 0.10
54 105 0.19
55 62 0.11
56 51 0.09
57 12 0.02
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (51 bp):
CTCCCTCTTTCTCTAGGGAGTATAGAACTCGAACATCTTCAAACGGGTTCG
Found at i:240474 original size:36 final size:36
Alignment explanation
Indices: 240416--240606 Score: 222
Period size: 36 Copynumber: 5.2 Consensus size: 36
240406 ACTCTTCTGA
* * **
240416 GAAGGCTTAAAATGGATCTGCTTCACTACTT-TTTGGT
1 GAAGGCTTAAGATGG-TTTGCTTCACTA-TTCTCCGGT
* * *
240453 GAAGACTTAAGATGGTTTGCTTCACTACTCTCTGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
* *
240489 GAAGACTTATGATGGTTTGCTTCACTATTCTCCGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
* * * *
240525 GAAGGCTTCAGATTGATTGCTTCACTATTCACCGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
*
240561 GAAGGCTTCAGATGGTTTGCTTCACTATTCTCCGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
240597 GAAGGGCTTA
1 GAA-GGCTTA
240607 GGATTGACTT
Statistics
Matches: 134, Mismatches: 18, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
35 1 0.01
36 115 0.86
37 18 0.13
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (36 bp):
GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
Found at i:245398 original size:20 final size:21
Alignment explanation
Indices: 245373--245475 Score: 83
Period size: 21 Copynumber: 5.0 Consensus size: 21
245363 AATGTGAAGT
*
245373 GGTCTTCAT-GTCGTTTTG-AA
1 GGTCTTC-TCGTCGTTATGAAA
245393 GGTCTTCTCGTCGTTATGAAA
1 GGTCTTCTCGTCGTTATGAAA
*
245414 GGTCTTCTCGTC-TTGATGAAT
1 GGTCTTCTCGTCGTT-ATGAAA
* *
245435 GGCCTTCTCGTC-TTGATGAAT
1 GGTCTTCTCGTCGTT-ATGAAA
245456 GG-CATTCTCGTC-TTGATGAA
1 GGTC-TTCTCGTCGTT-ATGAA
245476 TGACATTCTC
Statistics
Matches: 76, Mismatches: 3, Indels: 7
0.88 0.03 0.08
Matches are distributed among these distances:
19 1 0.01
20 18 0.24
21 57 0.75
ACGTcount: A:0.17, C:0.19, G:0.24, T:0.40
Consensus pattern (21 bp):
GGTCTTCTCGTCGTTATGAAA
Found at i:245497 original size:21 final size:21
Alignment explanation
Indices: 245397--245498 Score: 145
Period size: 21 Copynumber: 4.9 Consensus size: 21
245387 TTTGAAGGTC
*
245397 TTCTCGTCGTT-ATGAAAGGTC-
1 TTCTCGTC-TTGATGAATGG-CA
*
245418 TTCTCGTCTTGATGAATGGCC
1 TTCTCGTCTTGATGAATGGCA
245439 TTCTCGTCTTGATGAATGGCA
1 TTCTCGTCTTGATGAATGGCA
*
245460 TTCTCGTCTTGATGAATGACA
1 TTCTCGTCTTGATGAATGGCA
245481 TTCTCGTCTTGATGAATG
1 TTCTCGTCTTGATGAATG
245499 CTCTTATCGT
Statistics
Matches: 76, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
20 3 0.04
21 73 0.96
ACGTcount: A:0.19, C:0.20, G:0.23, T:0.39
Consensus pattern (21 bp):
TTCTCGTCTTGATGAATGGCA
Found at i:251104 original size:24 final size:24
Alignment explanation
Indices: 251057--251120 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 24
251047 GATATCATAA
* * *
251057 ATCAAAACAGAATCCAGATCATAT
1 ATCAGAACAGAATTCAGATAATAT
* *
251081 ATTAGAACAGAATTCAGGTAATAT
1 ATCAGAACAGAATTCAGATAATAT
*
251105 ATCAGAACATAATTCA
1 ATCAGAACAGAATTCA
251121 AGTCGGAAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.48, C:0.16, G:0.11, T:0.25
Consensus pattern (24 bp):
ATCAGAACAGAATTCAGATAATAT
Found at i:251445 original size:26 final size:26
Alignment explanation
Indices: 251413--251496 Score: 159
Period size: 26 Copynumber: 3.2 Consensus size: 26
251403 TCGAGTAATC
251413 GAACAACTTGAGACGAATAGCTCTCA
1 GAACAACTTGAGACGAATAGCTCTCA
*
251439 TAACAACTTGAGACGAATAGCTCTCA
1 GAACAACTTGAGACGAATAGCTCTCA
251465 GAACAACTTGAGACGAATAGCTCTCA
1 GAACAACTTGAGACGAATAGCTCTCA
251491 GAACAA
1 GAACAA
251497 ATGTTTGTCG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.40, C:0.23, G:0.18, T:0.19
Consensus pattern (26 bp):
GAACAACTTGAGACGAATAGCTCTCA
Found at i:252903 original size:17 final size:19
Alignment explanation
Indices: 252871--252908 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
252861 TAAAACTAAC
252871 ATTTCTTATGCACATCAAT
1 ATTTCTTATGCACATCAAT
252890 ATTT-TTAT-CACATCAAT
1 ATTTCTTATGCACATCAAT
252907 AT
1 AT
252909 GTTTGTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 11 0.58
18 4 0.21
19 4 0.21
ACGTcount: A:0.34, C:0.18, G:0.03, T:0.45
Consensus pattern (19 bp):
ATTTCTTATGCACATCAAT
Found at i:253733 original size:10 final size:10
Alignment explanation
Indices: 253720--253750 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
253710 GTCAAAGTTC
253720 TGGTCAACTG
1 TGGTCAACTG
*
253730 TGGTCAGCTG
1 TGGTCAACTG
253740 TGGTCAACTG
1 TGGTCAACTG
253750 T
1 T
253751 CGACCATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.16, C:0.19, G:0.32, T:0.32
Consensus pattern (10 bp):
TGGTCAACTG
Found at i:256846 original size:3 final size:3
Alignment explanation
Indices: 256838--256862 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
256828 GAATTGGGTT
256838 TTG TTG TTG TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG T
256863 ATCAAGCAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:257845 original size:33 final size:34
Alignment explanation
Indices: 257791--257854 Score: 78
Period size: 33 Copynumber: 1.9 Consensus size: 34
257781 GATATTTGAA
*
257791 AATTTTAAAGATCTATCTTATAGT-AATTTATGG
1 AATTTTAAAGATCTATCTTATAATAAATTTATGG
* *
257824 AATTTTAAATAT-TATTTTTATAATAAATTTA
1 AATTTTAAAGATCTA-TCTTATAATAAATTTA
257855 AAAAAATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
32 2 0.08
33 18 0.69
34 6 0.23
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (34 bp):
AATTTTAAAGATCTATCTTATAATAAATTTATGG
Found at i:258539 original size:25 final size:25
Alignment explanation
Indices: 258505--258557 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
258495 ATGTTAAAAA
258505 AAATAATTTTTAAAAGTTCAACAGT
1 AAATAATTTTTAAAAGTTCAACAGT
*
258530 AAATAATTTTTAAAAGTTCAATAGT
1 AAATAATTTTTAAAAGTTCAACAGT
258555 AAA
1 AAA
258558 ATTAATATAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.51, C:0.06, G:0.08, T:0.36
Consensus pattern (25 bp):
AAATAATTTTTAAAAGTTCAACAGT
Found at i:262791 original size:2 final size:2
Alignment explanation
Indices: 262784--262815 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
262774 GGAGAGTTGG
262784 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
262816 AGCATGAGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:264343 original size:13 final size:13
Alignment explanation
Indices: 264327--264351 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
264317 TTAATAAATT
264327 AAATTAAAATTTG
1 AAATTAAAATTTG
264340 AAATTAAAATTT
1 AAATTAAAATTT
264352 AATTTTTTTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (13 bp):
AAATTAAAATTTG
Found at i:266181 original size:21 final size:20
Alignment explanation
Indices: 266140--266179 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
266130 AAACATCGTA
266140 TATCAAATTATATTATAAAT
1 TATCAAATTATATTATAAAT
*
266160 TATCAATATTTTATTGATAA
1 TATCAA-ATTATATT-ATAA
266180 TTTGTAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 7 0.41
22 4 0.24
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (20 bp):
TATCAAATTATATTATAAAT
Found at i:267934 original size:17 final size:17
Alignment explanation
Indices: 267908--267944 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
267898 TCAAACAAAC
267908 AATCTCGATGGTAAAAG
1 AATCTCGATGGTAAAAG
*
267925 AATCTTGATGGTAAAAG
1 AATCTCGATGGTAAAAG
267942 AAT
1 AAT
267945 GTAAATTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.43, C:0.08, G:0.22, T:0.27
Consensus pattern (17 bp):
AATCTCGATGGTAAAAG
Done.