Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008876.1 Hibiscus syriacus cultivar Beakdansim tig00112114_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: 1683876
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 6
Found at i:2996 original size:9 final size:9
Alignment explanation
Indices: 2982--3080 Score: 81
Period size: 10 Copynumber: 10.3 Consensus size: 9
2972 GCTGCTGGAA
2982 ACCGGTTTG
1 ACCGGTTTG
*
2991 ACCGGTTTTCA
1 ACCGG-TTT-G
3002 ACCGGTTCTG
1 ACCGGTT-TG
*
3012 ATCGGTTTG
1 ACCGGTTTG
*
3021 ACCGGTTTCA
1 ACCGGTTT-G
*
3031 ACCGGTTCG
1 ACCGGTTTG
3040 AACCGGTTTG
1 -ACCGGTTTG
*
3050 ACCGGTCTG
1 ACCGGTTTG
*
3059 AATCGGTTTG
1 -ACCGGTTTG
*
3069 ACCGGTCTG
1 ACCGGTTTG
3078 ACC
1 ACC
3081 CGACCCGACC
Statistics
Matches: 71, Mismatches: 13, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
9 32 0.45
10 33 0.46
11 6 0.08
ACGTcount: A:0.15, C:0.26, G:0.28, T:0.30
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:3026 original size:19 final size:19
Alignment explanation
Indices: 2982--3080 Score: 80
Period size: 19 Copynumber: 5.2 Consensus size: 19
2972 GCTGCTGGAA
* *
2982 ACCGGTTTGACCGGTTTTCA
1 ACCGGTTTGACCGGTTCT-G
*
3002 ACCGGTTCTGATCGGTT-TG
1 ACCGGTT-TGACCGGTTCTG
*
3021 ACCGGTTTCAACCGGTTC-G
1 ACCGGTTT-GACCGGTTCTG
3040 AACCGGTTTGACCGG-TCTG
1 -ACCGGTTTGACCGGTTCTG
*
3059 AATCGGTTTGACCGG-TCTG
1 -ACCGGTTTGACCGGTTCTG
3078 ACC
1 ACC
3081 CGACCCGACC
Statistics
Matches: 67, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
18 5 0.07
19 38 0.57
20 16 0.24
21 8 0.12
ACGTcount: A:0.15, C:0.26, G:0.28, T:0.30
Consensus pattern (19 bp):
ACCGGTTTGACCGGTTCTG
Found at i:3046 original size:29 final size:30
Alignment explanation
Indices: 2981--3080 Score: 118
Period size: 29 Copynumber: 3.4 Consensus size: 30
2971 GGCTGCTGGA
2981 AACCGGTTTGACCGGTTTTCAACCGGTTCTG
1 AACCGGTTTGACCGG-TTTCAACCGGTTCTG
*
3012 -ATCGGTTTGACCGGTTTCAACCGGTTC-G
1 AACCGGTTTGACCGGTTTCAACCGGTTCTG
* * *
3040 AACCGGTTTGACCGGTCTGAATCGGTT-TG
1 AACCGGTTTGACCGGTTTCAACCGGTTCTG
*
3069 -ACCGGTCTGACC
1 AACCGGTTTGACC
3081 CGACCCGACC
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
28 12 0.20
29 36 0.59
30 13 0.21
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (30 bp):
AACCGGTTTGACCGGTTTCAACCGGTTCTG
Found at i:3103 original size:22 final size:22
Alignment explanation
Indices: 3077--3119 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
3067 TGACCGGTCT
3077 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
3099 GACCCGACCCGACCGTTGACC
1 GACCCGACCCGACCGTTGACC
3120 GTTGACCGTT
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:0.19, C:0.49, G:0.23, T:0.09
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:5344 original size:49 final size:49
Alignment explanation
Indices: 5285--5403 Score: 125
Period size: 49 Copynumber: 2.4 Consensus size: 49
5275 AAGGCACGCT
* **
5285 CCCTGCAGCGCGTTTTACGCTGATCTGGCAT-CACGTGGGTAAGGCGCCC
1 CCCTGAAGCGCGCCTTACGCTGA-CTGGCATACACGTGGGTAAGGCGCCC
* * * *
5334 CCCTGAAGCGCGCCTTATGCTGACTGGGATACACGTGTGTAAGGCGCGGC
1 CCCTGAAGCGCGCCTTACGCTGACTGGCATACACGTGGGTAAGGCGC-CC
*
5384 CCCTG-GGTCGCGCCTTACGC
1 CCCTGAAG-CGCGCCTTACGC
5404 CATGTAGGGC
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
48 6 0.10
49 35 0.60
50 17 0.29
ACGTcount: A:0.14, C:0.33, G:0.32, T:0.21
Consensus pattern (49 bp):
CCCTGAAGCGCGCCTTACGCTGACTGGCATACACGTGGGTAAGGCGCCC
Found at i:5732 original size:14 final size:15
Alignment explanation
Indices: 5708--5756 Score: 55
Period size: 16 Copynumber: 3.3 Consensus size: 15
5698 TTATAAGATA
*
5708 ATTTTTGTTATAATT
1 ATTTTTATTATAATT
*
5723 -TTTTTATTATACTT
1 ATTTTTATTATAATT
*
5737 ATTGTTTATTATGATT
1 ATT-TTTATTATAATT
5753 ATTT
1 ATTT
5757 GAAAAAATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 12 0.43
15 3 0.11
16 13 0.46
ACGTcount: A:0.24, C:0.02, G:0.06, T:0.67
Consensus pattern (15 bp):
ATTTTTATTATAATT
Found at i:10350 original size:17 final size:16
Alignment explanation
Indices: 10311--10360 Score: 57
Period size: 17 Copynumber: 3.1 Consensus size: 16
10301 TGCAAAAAAA
*
10311 ATTAATTAAA-TACAAT
1 ATTAAATAAATTA-AAT
*
10327 ATTAAATAATTTAAAT
1 ATTAAATAAATTAAAT
10343 ACTTAAATAAATTAAAT
1 A-TTAAATAAATTAAAT
10360 A
1 A
10361 AAAAAATATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
16 12 0.41
17 17 0.59
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (16 bp):
ATTAAATAAATTAAAT
Found at i:15466 original size:24 final size:24
Alignment explanation
Indices: 15439--15511 Score: 67
Period size: 24 Copynumber: 3.0 Consensus size: 24
15429 CGTTCATTTA
15439 CGTTC-GTGAACGTTCGGTTATGTT
1 CGTTCGGT-AACGTTCGGTTATGTT
* * *
15463 CGTTCGGTTATGTTCGTTTATGTT
1 CGTTCGGTAACGTTCGGTTATGTT
* * * *
15487 CGTTCGATTATGTTCGTTTATGTT
1 CGTTCGGTAACGTTCGGTTATGTT
15511 C
1 C
15512 ATTCATTTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
24 42 0.95
25 2 0.05
ACGTcount: A:0.11, C:0.15, G:0.25, T:0.49
Consensus pattern (24 bp):
CGTTCGGTAACGTTCGGTTATGTT
Found at i:15468 original size:14 final size:14
Alignment explanation
Indices: 15449--15504 Score: 75
Period size: 14 Copynumber: 4.3 Consensus size: 14
15439 CGTTCGTGAA
15449 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
15463 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
15477 CG-T---TTATGTT
1 CGTTCGGTTATGTT
*
15487 CGTTCGATTATGTT
1 CGTTCGGTTATGTT
15501 CGTT
1 CGTT
15505 TATGTTCATT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
10 9 0.24
11 1 0.03
13 1 0.03
14 27 0.71
ACGTcount: A:0.09, C:0.14, G:0.25, T:0.52
Consensus pattern (14 bp):
CGTTCGGTTATGTT
Found at i:15521 original size:24 final size:23
Alignment explanation
Indices: 15450--15524 Score: 96
Period size: 24 Copynumber: 3.1 Consensus size: 23
15440 GTTCGTGAAC
* *
15450 GTTCGGTTATGTTCGTTCGGTTAT
1 GTTCGTTTATGTTCGTTC-ATTAT
15474 GTTCGTTTATGTTCGTTCGATTAT
1 GTTCGTTTATGTTCGTTC-ATTAT
*
15498 GTTCGTTTATGTTCATTCATTTAT
1 GTTCGTTTATGTTCGTTCA-TTAT
15522 GTT
1 GTT
15525 TAACCTAATC
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
23 1 0.02
24 46 0.98
ACGTcount: A:0.12, C:0.12, G:0.21, T:0.55
Consensus pattern (23 bp):
GTTCGTTTATGTTCGTTCATTAT
Found at i:16267 original size:10 final size:10
Alignment explanation
Indices: 16252--16326 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
16242 GGGTCTCCAA
16252 CGTTTATGTT
1 CGTTTATGTT
16262 CGTTTATGTT
1 CGTTTATGTT
16272 CGTGTTCAT-TT
1 CGT-TT-ATGTT
* **
16283 ATGTTCGTGTT
1 -CGTTTATGTT
16294 CGTTTATGTT
1 CGTTTATGTT
16304 CG----TGTT
1 CGTTTATGTT
16310 CGTTTATGTT
1 CGTTTATGTT
16320 CGTTTAT
1 CGTTTAT
16327 TTATTAAATG
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
6 6 0.12
10 34 0.67
11 7 0.14
12 4 0.08
ACGTcount: A:0.09, C:0.12, G:0.21, T:0.57
Consensus pattern (10 bp):
CGTTTATGTT
Found at i:16283 original size:16 final size:16
Alignment explanation
Indices: 16258--16322 Score: 121
Period size: 16 Copynumber: 4.1 Consensus size: 16
16248 CCAACGTTTA
16258 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
16274 TGTTCATTTATGTTCG
1 TGTTCGTTTATGTTCG
16290 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
16306 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
16322 T
1 T
16323 TTATTTATTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.08, C:0.12, G:0.23, T:0.57
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:17327 original size:15 final size:15
Alignment explanation
Indices: 17307--17346 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
17297 CAATGGTAAA
17307 ATTGTAATTTTAGTC
1 ATTGTAATTTTAGTC
17322 ATTGTAATTTTAGTC
1 ATTGTAATTTTAGTC
17337 ATTGTAATTT
1 ATTGTAATTT
17347 AGAGTATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.28, C:0.05, G:0.12, T:0.55
Consensus pattern (15 bp):
ATTGTAATTTTAGTC
Found at i:25512 original size:22 final size:22
Alignment explanation
Indices: 25487--25532 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
25477 GATTGAAGGG
* *
25487 TTAAATCTTTCGATGAAAGGAC
1 TTAAACCTTTCAATGAAAGGAC
*
25509 TT-AACCTTTCAATTAAAGGAC
1 TTAAACCTTTCAATGAAAGGAC
25530 TTA
1 TTA
25533 TCCATTTGAG
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (22 bp):
TTAAACCTTTCAATGAAAGGAC
Found at i:25517 original size:21 final size:21
Alignment explanation
Indices: 25493--25560 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
25483 AGGGTTAAAT
25493 CTTTCGATGAAAGGACTTAAC
1 CTTTCGATGAAAGGACTTAAC
* * *
25514 CTTTCAATTAAAGGACTTATC
1 CTTTCGATGAAAGGACTTAAC
* *
25535 CATTT-GAGGAAAAGGGCTTAAC
1 C-TTTCGATG-AAAGGACTTAAC
25557 CTTT
1 CTTT
25561 TCACGATAGG
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
21 23 0.62
22 14 0.38
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (21 bp):
CTTTCGATGAAAGGACTTAAC
Found at i:27116 original size:30 final size:30
Alignment explanation
Indices: 27057--27218 Score: 263
Period size: 30 Copynumber: 5.4 Consensus size: 30
27047 CCCGAAGGAC
* *
27057 CTATCCAGAGGTCACAAAGA-CCCCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
27086 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
27116 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
27146 CTGTCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
27176 CTGTCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
* *
27206 CTGTCCATAGGTC
1 CTATCCAGAGGTC
27219 CCGAAGAACC
Statistics
Matches: 128, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
29 19 0.15
30 109 0.85
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:27235 original size:30 final size:30
Alignment explanation
Indices: 27081--27277 Score: 117
Period size: 30 Copynumber: 6.5 Consensus size: 30
27071 CAAAGACCCC
* * ** * *
27081 GGTAACTATCCAGAGGTCATAAAGATCCTC
1 GGTAACTGTCCATAGGTCACGAAGAACCTA
* * ** * *
27111 GGTAACTATCCAGAGGTCATAAAGATCCTC
1 GGTAACTGTCCATAGGTCACGAAGAACCTA
* ** * *
27141 GGTAACTGTCCAGAGGTCATAAAGATCCTC
1 GGTAACTGTCCATAGGTCACGAAGAACCTA
* ** * *
27171 GGTAACTGTCCAGAGGTCATAAAGATCCTC
1 GGTAACTGTCCATAGGTCACGAAGAACCTA
*
27201 GGTAACTGTCCATAGGTCCCGAAGAACCTA
1 GGTAACTGTCCATAGGTCACGAAGAACCTA
* * *
27231 GGTAAACTGTCCATATGTCTCGAA-AGACATA
1 GGT-AACTGTCCATAGGTCACGAAGA-ACCTA
27262 GGTAAAACTGTCCATA
1 GGT--AACTGTCCATA
27278 TGTTCCGTAG
Statistics
Matches: 154, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
30 117 0.76
31 25 0.16
32 12 0.08
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.23
Consensus pattern (30 bp):
GGTAACTGTCCATAGGTCACGAAGAACCTA
Found at i:27235 original size:90 final size:90
Alignment explanation
Indices: 27060--27243 Score: 262
Period size: 90 Copynumber: 2.0 Consensus size: 90
27050 GAAGGACCTA
27060 TCCAGAGGTCACAAAGACCCCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAACTATCCAGA
1 TCCAGAGGTCACAAAGACCCCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAACTATCCAGA
* * *
27125 GGTCATAAAGATCCTCGGT-AACTG
66 GGTCACAAAGAACCTAGGTAAACTG
* * * * *
27149 TCCAGAGGTCATAAAGATCCTCGGTAACTGTCCAGAGGTCATAAAGATCCTCGGTAACTGTCCAT
1 TCCAGAGGTCACAAAGA-CCCCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAACTATCCAG
* *
27214 AGGTCCCGAAGAACCTAGGTAAACTG
65 AGGTCACAAAGAACCTAGGTAAACTG
27240 TCCA
1 TCCA
27244 TATGTCTCGA
Statistics
Matches: 83, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
89 16 0.19
90 58 0.70
91 9 0.11
ACGTcount: A:0.32, C:0.26, G:0.22, T:0.21
Consensus pattern (90 bp):
TCCAGAGGTCACAAAGACCCCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAACTATCCAGA
GGTCACAAAGAACCTAGGTAAACTG
Found at i:27275 original size:32 final size:31
Alignment explanation
Indices: 27204--27300 Score: 124
Period size: 31 Copynumber: 3.1 Consensus size: 31
27194 GATCCTCGGT
* *
27204 AACTGTCCATAGGTCCCGAAGAACCTAGGTA
1 AACTGTCCATATGTCCCGAAGAACATAGGTA
*
27235 AACTGTCCATATGTCTCGAA-AGACATAGGTAA
1 AACTGTCCATATGTCCCGAAGA-ACATAGGT-A
* *
27267 AACTGTCCATATGTTCCGTAGAACATAGGTA
1 AACTGTCCATATGTCCCGAAGAACATAGGTA
27298 AAC
1 AAC
27301 CCTCGACTCT
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
30 1 0.02
31 29 0.51
32 26 0.46
33 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.24
Consensus pattern (31 bp):
AACTGTCCATATGTCCCGAAGAACATAGGTA
Found at i:27992 original size:22 final size:22
Alignment explanation
Indices: 27948--27989 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
27938 TAAATCAATT
*
27948 TCATATAACTCCTATAATCTTC
1 TCATATAACTCCTATAACCTTC
*
27970 TCATATAACTTC-ATAACCTT
1 TCATATAACTCCTATAACCTT
27990 TCTTATGTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.33, C:0.26, G:0.00, T:0.40
Consensus pattern (22 bp):
TCATATAACTCCTATAACCTTC
Found at i:28466 original size:21 final size:21
Alignment explanation
Indices: 28436--28480 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
28426 ATTCTGTCGT
* *
28436 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
28457 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
28478 TTG
1 TTG
28481 CCCAGAAATC
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:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:30273 original size:21 final size:21
Alignment explanation
Indices: 30225--30274 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
30215 ATGACTATCA
30225 CAATGCGATTTTCCAATTTCG
1 CAATGCGATTTTCCAATTTCG
**
30246 CGTTGCGATTTTCCCAA-TTCG
1 CAATGCGATTTT-CCAATTTCG
30267 CAATGCGA
1 CAATGCGA
30275 ATACGTAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (21 bp):
CAATGCGATTTTCCAATTTCG
Found at i:30289 original size:20 final size:21
Alignment explanation
Indices: 30264--30315 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
30254 TTTTCCCAAT
*
30264 TCGCAATGCGAA-TACGTAAA
1 TCGCAATGCGAATTACGAAAA
**
30284 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTACGAAAA
30305 TCGCAATGCGA
1 TCGCAATGCGA
30316 TACTGACTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTACGAAAA
Found at i:30330 original size:20 final size:20
Alignment explanation
Indices: 30305--30418 Score: 131
Period size: 20 Copynumber: 5.7 Consensus size: 20
30295 ATTTGGAAAA
*
30305 TCGCAATGCGATACTGACTT
1 TCGCAACGCGATACTGACTT
* **
30325 TCGCAACGCGATAAT-ACAAAA
1 TCGCAACGCGATACTGAC--TT
*
30346 TCGCAACGAGATACTGACTT
1 TCGCAACGCGATACTGACTT
30366 TCGCAACGCGATACTGACTT
1 TCGCAACGCGATACTGACTT
* *
30386 TCGCAACGCGATTCTGACTA
1 TCGCAACGCGATACTGACTT
*
30406 TCGCAACGAGATA
1 TCGCAACGCGATA
30419 ATACAGAATC
Statistics
Matches: 78, Mismatches: 13, Indels: 6
0.80 0.13 0.06
Matches are distributed among these distances:
19 2 0.03
20 61 0.78
21 13 0.17
22 2 0.03
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (20 bp):
TCGCAACGCGATACTGACTT
Found at i:30377 original size:41 final size:41
Alignment explanation
Indices: 30301--30438 Score: 154
Period size: 41 Copynumber: 3.4 Consensus size: 41
30291 GCGAATTTGG
*
30301 AAAATCGCAATGCGATACTGACTTTCGCAACGCGATAATAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
* *
30342 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATACTGAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAAT-AC
** * * *
30384 --TTTCGCAACGCGATTCTGACTATCGCAACGAGATAATAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
* * *
30423 AGAATCGTAATGCGAT
1 AAAATCGCAACGCGAT
30439 TTTCAAAGCG
Statistics
Matches: 80, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
39 2 0.03
40 30 0.38
41 46 0.57
42 2 0.03
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.22
Consensus pattern (41 bp):
AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
Found at i:30438 original size:61 final size:60
Alignment explanation
Indices: 30303--30438 Score: 150
Period size: 61 Copynumber: 2.2 Consensus size: 60
30293 GAATTTGGAA
*
30303 AATCGCAATGCGATACTGACTTTCGCAACGCGATAATACAAAATCGCAACGAGATACTGAC
1 AATCGCAATGCGATACTGACTTTCGCAACGCGATAATAC-AAATCGCAACGAGATAATGAC
** * ** *
30364 TTTCGCAACGCGATACTGACTTTCGCAACGCGATTCTGAC-TATCGCAACGAGATAAT-AC
1 AATCGCAATGCGATACTGACTTTCGCAACGCGATAAT-ACAAATCGCAACGAGATAATGAC
*
30423 AGAATCGTAATGCGAT
1 --AATCGCAATGCGAT
30439 TTTCAAAGCG
Statistics
Matches: 61, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
59 2 0.03
60 15 0.25
61 42 0.69
62 2 0.03
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (60 bp):
AATCGCAATGCGATACTGACTTTCGCAACGCGATAATACAAATCGCAACGAGATAATGAC
Found at i:30620 original size:22 final size:22
Alignment explanation
Indices: 30595--30645 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
30585 CTACGGCGAC
30595 ATCCGTCCCCATCTCCGACGAA
1 ATCCGTCCCCATCTCCGACGAA
*
30617 ATCCGTCCCCATCTCCGGCGAA
1 ATCCGTCCCCATCTCCGACGAA
30639 ATCCGTC
1 ATCCGTC
30646 TATCTCCATC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.20
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCGACGAA
Found at i:30997 original size:19 final size:20
Alignment explanation
Indices: 30976--31059 Score: 82
Period size: 20 Copynumber: 4.2 Consensus size: 20
30966 TGAAACCGAG
*
30976 AATCGCAACACG-AAATGAG
1 AATCGCAACACGAAAATGAC
30995 AATCGCAACGA-GAAAATGAC
1 AATCGCAAC-ACGAAAATGAC
* *
31015 TATCGCAACGCGAAAATGAC
1 AATCGCAACACGAAAATGAC
* * *
31035 TATCGCAACGCGGAAATGAC
1 AATCGCAACACGAAAATGAC
*
31055 TATCG
1 AATCG
31060 TAACGAGAGA
Statistics
Matches: 58, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
19 10 0.17
20 48 0.83
ACGTcount: A:0.42, C:0.23, G:0.21, T:0.14
Consensus pattern (20 bp):
AATCGCAACACGAAAATGAC
Found at i:31013 original size:20 final size:20
Alignment explanation
Indices: 30996--31067 Score: 108
Period size: 20 Copynumber: 3.6 Consensus size: 20
30986 CGAAATGAGA
30996 ATCGCAACGAGAAAATGACT
1 ATCGCAACGAGAAAATGACT
*
31016 ATCGCAACGCGAAAATGACT
1 ATCGCAACGAGAAAATGACT
* *
31036 ATCGCAACGCGGAAATGACT
1 ATCGCAACGAGAAAATGACT
*
31056 ATCGTAACGAGA
1 ATCGCAACGAGA
31068 GAATCACAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.40, C:0.22, G:0.22, T:0.15
Consensus pattern (20 bp):
ATCGCAACGAGAAAATGACT
Found at i:31042 original size:40 final size:39
Alignment explanation
Indices: 30977--31064 Score: 113
Period size: 40 Copynumber: 2.2 Consensus size: 39
30967 GAAACCGAGA
* *
30977 ATCGCAACACGAAATGAGAATCGCAACGAGAAAATGACT
1 ATCGCAACGCGAAATGACAATCGCAACGAGAAAATGACT
* * *
31016 ATCGCAACGCGAAAATGACTATCGCAACGCGGAAATGACT
1 ATCGCAACGCG-AAATGACAATCGCAACGAGAAAATGACT
*
31056 ATCGTAACG
1 ATCGCAACG
31065 AGAGAATCAC
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
39 10 0.24
40 32 0.76
ACGTcount: A:0.41, C:0.23, G:0.22, T:0.15
Consensus pattern (39 bp):
ATCGCAACGCGAAATGACAATCGCAACGAGAAAATGACT
Found at i:31104 original size:14 final size:14
Alignment explanation
Indices: 31085--31115 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
31075 AATACGAATT
31085 AAAATCGCAACGAG
1 AAAATCGCAACGAG
*
31099 AAAATCGCAACGCG
1 AAAATCGCAACGAG
31113 AAA
1 AAA
31116 CCAAATTCGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.52, C:0.23, G:0.19, T:0.06
Consensus pattern (14 bp):
AAAATCGCAACGAG
Found at i:31181 original size:32 final size:33
Alignment explanation
Indices: 31127--31199 Score: 103
Period size: 32 Copynumber: 2.2 Consensus size: 33
31117 CAAATTCGCA
* *
31127 TTGCGATTTTCATTTTCGCATTGTGATTTTCTCG
1 TTGCGA-TTTCATATTCGCATTGCGATTTTCTCG
31161 TTGCGATTTCA-ATTCGCATTGCGATTTTCTCG
1 TTGCGATTTCATATTCGCATTGCGATTTTCTCG
*
31193 CTGCGAT
1 TTGCGAT
31200 AGTCATTTCC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
32 25 0.69
33 5 0.14
34 6 0.17
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.47
Consensus pattern (33 bp):
TTGCGATTTCATATTCGCATTGCGATTTTCTCG
Found at i:31217 original size:20 final size:20
Alignment explanation
Indices: 31184--31259 Score: 107
Period size: 20 Copynumber: 3.8 Consensus size: 20
31174 TCGCATTGCG
* *
31184 ATTTTCTCGCTGCGATAGTC
1 ATTTTCGCGTTGCGATAGTC
*
31204 ATTTCCGCGTTGCGATAGTC
1 ATTTTCGCGTTGCGATAGTC
*
31224 ATTTTCGTGTTGCGATAGTC
1 ATTTTCGCGTTGCGATAGTC
*
31244 ATTTTCTCGTTGCGAT
1 ATTTTCGCGTTGCGAT
31260 TTTAAGTTTC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.14, C:0.21, G:0.22, T:0.42
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGTC
Found at i:32545 original size:18 final size:18
Alignment explanation
Indices: 32519--32586 Score: 127
Period size: 18 Copynumber: 3.8 Consensus size: 18
32509 CTCCACTTCG
*
32519 AGAGTCATCACCTCACCC
1 AGAGCCATCACCTCACCC
32537 AGAGCCATCACCTCACCC
1 AGAGCCATCACCTCACCC
32555 AGAGCCATCACCTCACCC
1 AGAGCCATCACCTCACCC
32573 AGAGCCATCACCTC
1 AGAGCCATCACCTC
32587 CACAACGACA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
18 49 1.00
ACGTcount: A:0.28, C:0.47, G:0.12, T:0.13
Consensus pattern (18 bp):
AGAGCCATCACCTCACCC
Found at i:33156 original size:20 final size:20
Alignment explanation
Indices: 33133--33200 Score: 66
Period size: 20 Copynumber: 3.5 Consensus size: 20
33123 GAAACTTAAA
33133 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* * * *
33153 ATCGTAGCGCGGAAATGGCT
1 ATCGCAACGCGAAAATGACT
* **
33173 ATCGCAATGC-AAAATGAAA
1 ATCGCAACGCGAAAATGACT
33192 ATCGCAACG
1 ATCGCAACG
33201 ACAAAATCGC
Statistics
Matches: 36, Mismatches: 12, Indels: 1
0.73 0.24 0.02
Matches are distributed among these distances:
19 13 0.36
20 23 0.64
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:33266 original size:19 final size:19
Alignment explanation
Indices: 33244--33294 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
33234 CGAAACTAAA
33244 TTCGCATTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
33263 TTCGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
33282 TTCGCATTGCGAT
1 TTCGCATTGCGAT
33295 AGCCATTTCC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.14, C:0.22, G:0.20, T:0.45
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:33313 original size:20 final size:19
Alignment explanation
Indices: 33244--33334 Score: 92
Period size: 19 Copynumber: 4.7 Consensus size: 19
33234 CGAAACTAAA
* **
33244 TTCGCATTGCGATTTTCAT
1 TTCGCGTTGCGATAGTCAT
**
33263 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATAGTCAT
* *
33282 TTCGCATTGCGATAGCCAT
1 TTCGCGTTGCGATAGTCAT
33301 TTCCGCGTTGCGATAGTCATT
1 TT-CGCGTTGCGATAGTCA-T
*
33322 TTCTCGTTGCGAT
1 TTCGCGTTGCGAT
33335 TTTAAATTTC
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
19 35 0.56
20 24 0.39
21 3 0.05
ACGTcount: A:0.14, C:0.23, G:0.21, T:0.42
Consensus pattern (19 bp):
TTCGCGTTGCGATAGTCAT
Found at i:33741 original size:21 final size:20
Alignment explanation
Indices: 33717--33786 Score: 59
Period size: 21 Copynumber: 3.4 Consensus size: 20
33707 CTGTCATCCC
33717 TCAAGAGTCCCCTCCAATCGT
1 TCAAGAGTCCCCTCC-ATCGT
* * **
33738 TCAAGAGGCCCCTATCATCCC
1 TCAAGAGTCCCCT-CCATCGT
* *
33759 TCAAGAGTCACCTCCCACCGT
1 TCAAGAGTCCCCT-CCATCGT
33780 TCAAGAG
1 TCAAGAG
33787 GCCACTGTCA
Statistics
Matches: 37, Mismatches: 11, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
21 36 0.97
22 1 0.03
ACGTcount: A:0.26, C:0.39, G:0.16, T:0.20
Consensus pattern (20 bp):
TCAAGAGTCCCCTCCATCGT
Found at i:33801 original size:21 final size:21
Alignment explanation
Indices: 33733--33808 Score: 55
Period size: 21 Copynumber: 3.6 Consensus size: 21
33723 GTCCCCTCCA
*
33733 ATCGTTCAAGAGGCCCCTATC
1 ATCGTTCAAGAGGCCACTATC
** * **
33754 ATCCCTCAAGA-GTCACCTCCC
1 ATCGTTCAAGAGGCCA-CTATC
* *
33775 ACCGTTCAAGAGGCCACTGTC
1 ATCGTTCAAGAGGCCACTATC
*
33796 ATCGTTGAAGAGG
1 ATCGTTCAAGAGG
33809 TCTCTCCCAC
Statistics
Matches: 39, Mismatches: 14, Indels: 4
0.68 0.25 0.07
Matches are distributed among these distances:
20 2 0.05
21 34 0.87
22 3 0.08
ACGTcount: A:0.25, C:0.33, G:0.21, T:0.21
Consensus pattern (21 bp):
ATCGTTCAAGAGGCCACTATC
Found at i:33819 original size:42 final size:42
Alignment explanation
Indices: 33710--33798 Score: 133
Period size: 42 Copynumber: 2.1 Consensus size: 42
33700 GACTCTCCTG
* * * *
33710 TCATCCCTCAAGAGTCCCCTCCAATCGTTCAAGAGGCCCCTA
1 TCATCCCTCAAGAGTCACCTCCCACCGTTCAAGAGGCCACTA
*
33752 TCATCCCTCAAGAGTCACCTCCCACCGTTCAAGAGGCCACTG
1 TCATCCCTCAAGAGTCACCTCCCACCGTTCAAGAGGCCACTA
33794 TCATC
1 TCATC
33799 GTTGAAGAGG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.24, C:0.40, G:0.15, T:0.21
Consensus pattern (42 bp):
TCATCCCTCAAGAGTCACCTCCCACCGTTCAAGAGGCCACTA
Found at i:35346 original size:20 final size:20
Alignment explanation
Indices: 35321--35359 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
35311 ATGTTGAAGG
35321 CAAAACAGACTATCGCAACA
1 CAAAACAGACTATCGCAACA
*
35341 CAAAACTGACTATCGCAAC
1 CAAAACAGACTATCGCAAC
35360 GAGAGAATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.31, G:0.10, T:0.13
Consensus pattern (20 bp):
CAAAACAGACTATCGCAACA
Found at i:35447 original size:19 final size:19
Alignment explanation
Indices: 35404--35509 Score: 132
Period size: 19 Copynumber: 5.7 Consensus size: 19
35394 CGAAACTAAA
35404 TTCGCATTGCGATTTTCATT
1 TTCGCATTGCGATTTTCA-T
*
35424 TTCGCATTGCGATTATCAT
1 TTCGCATTGCGATTTTCAT
35443 TTCGCATTGCGA--TTC-T
1 TTCGCATTGCGATTTTCAT
* *
35459 CTCG--TTGCAATTTTCATT
1 TTCGCATTGCGATTTTCA-T
35477 TTCGCATTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
35496 TTCGCATTGCGATT
1 TTCGCATTGCGATT
35510 CTCTCGTTGC
Statistics
Matches: 74, Mismatches: 6, Indels: 13
0.80 0.06 0.14
Matches are distributed among these distances:
14 5 0.07
16 7 0.09
17 2 0.03
18 4 0.05
19 28 0.38
20 28 0.38
ACGTcount: A:0.16, C:0.22, G:0.16, T:0.46
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:35482 original size:53 final size:53
Alignment explanation
Indices: 35410--35519 Score: 202
Period size: 53 Copynumber: 2.1 Consensus size: 53
35400 TAAATTCGCA
*
35410 TTGCGATTTTCATTTTCGCATTGCGATTATCATTTCGCATTGCGATTCTCTCG
1 TTGCAATTTTCATTTTCGCATTGCGATTATCATTTCGCATTGCGATTCTCTCG
*
35463 TTGCAATTTTCATTTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCAATTTTCATTTTCGCATTGCGATTATCATTTCGCATTGCGATTCTCTCG
35516 TTGC
1 TTGC
35520 GATAGTCAAA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.15, C:0.23, G:0.16, T:0.46
Consensus pattern (53 bp):
TTGCAATTTTCATTTTCGCATTGCGATTATCATTTCGCATTGCGATTCTCTCG
Found at i:35534 original size:53 final size:53
Alignment explanation
Indices: 35424--35542 Score: 175
Period size: 53 Copynumber: 2.2 Consensus size: 53
35414 GATTTTCATT
** **
35424 TTCGCATTGCGATTATCATTTCGCATTGCGATTCTCTCGTTGCAATTTTCATT
1 TTCGCATTGCGATTATCATTTCGCATTGCGATTCTCTCGTTGCAATAGTCAAA
* *
35477 TTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATAGTCAAA
1 TTCGCATTGCGATTATCATTTCGCATTGCGATTCTCTCGTTGCAATAGTCAAA
*
35530 TTCGCGTTGCGAT
1 TTCGCATTGCGAT
35543 AGCCATTTCC
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
53 59 1.00
ACGTcount: A:0.17, C:0.23, G:0.18, T:0.42
Consensus pattern (53 bp):
TTCGCATTGCGATTATCATTTCGCATTGCGATTCTCTCGTTGCAATAGTCAAA
Found at i:35539 original size:20 final size:20
Alignment explanation
Indices: 35514--35622 Score: 109
Period size: 20 Copynumber: 5.5 Consensus size: 20
35504 GCGATTCTCT
*
35514 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAATTTCG
*
35534 CGTTGCGATAG-CCATTTCCG
1 CGTTGCGATAGTCAATTT-CG
** *
35554 CGTTGCGACGGTCATTTTCG
1 CGTTGCGATAGTCAATTTCG
35574 CGTTGCGATAGTC-ATTTC-
1 CGTTGCGATAGTCAATTTCG
35592 CTTGTTGCGATAGTC-ATATTCG
1 C--GTTGCGATAGTCAAT-TTCG
35614 CGTTGCGAT
1 CGTTGCGAT
35623 TTCCCCGTTG
Statistics
Matches: 74, Mismatches: 9, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
18 1 0.01
19 8 0.11
20 57 0.77
21 7 0.09
22 1 0.01
ACGTcount: A:0.17, C:0.23, G:0.26, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCAATTTCG
Found at i:35550 original size:53 final size:53
Alignment explanation
Indices: 35424--35644 Score: 162
Period size: 53 Copynumber: 4.0 Consensus size: 53
35414 GATTTTCATT
* * ** **
35424 TTCGCATTGCGATTA-TCATTTCGCATTGCGATTCTCTCGTTGCAATTTTCATT
1 TTCGCGTTGCGA-TAGTCATTTCGCATTGCGATTCTCTCGTTGCGATAGTCAAA
* **
35477 TTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATAGTCAAA
1 TTCGCGTTGCGATAGTCATTTCGCATTGCGATTCTCTCGTTGCGATAGTCAAA
* * * * *
35530 TTCGCGTTGCGATAGCCATTTCCGCGTTGCGACGGTCATTTTCGCGTTGCGATAGTC-AT
1 TTCGCGTTGCGATAGTCATTT-CGCATT--G-C-G--ATTCTCTCGTTGCGATAGTCAAA
* *
35589 TTC-CTTGTTGCGATAGTCATATTCGCGTTGCGATT-TCCCCGTTGCGATAGTCAAA
1 TTCGC--GTTGCGATAGTCAT-TTCGCATTGCGATTCT-CTCGTTGCGATAGTCAAA
35644 T
1 T
35645 GAATGTATAA
Statistics
Matches: 138, Mismatches: 17, Indels: 24
0.77 0.09 0.13
Matches are distributed among these distances:
52 1 0.01
53 63 0.46
54 22 0.16
55 2 0.01
56 2 0.01
57 2 0.01
58 3 0.02
59 4 0.03
60 37 0.27
61 2 0.01
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.39
Consensus pattern (53 bp):
TTCGCGTTGCGATAGTCATTTCGCATTGCGATTCTCTCGTTGCGATAGTCAAA
Found at i:35574 original size:40 final size:40
Alignment explanation
Indices: 35514--35622 Score: 146
Period size: 40 Copynumber: 2.7 Consensus size: 40
35504 GCGATTCTCT
* *
35514 CGTTGCGATAGTCAAATTCGCGTTGCGATAGCCATTTCCG
1 CGTTGCGACAGTCATATTCGCGTTGCGATAGCCATTTCCG
* * * *
35554 CGTTGCGACGGTCATTTTCGCGTTGCGATAGTCATTTCCT
1 CGTTGCGACAGTCATATTCGCGTTGCGATAGCCATTTCCG
* *
35594 TGTTGCGATAGTCATATTCGCGTTGCGAT
1 CGTTGCGACAGTCATATTCGCGTTGCGAT
35623 TTCCCCGTTG
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.17, C:0.23, G:0.26, T:0.35
Consensus pattern (40 bp):
CGTTGCGACAGTCATATTCGCGTTGCGATAGCCATTTCCG
Found at i:38145 original size:24 final size:24
Alignment explanation
Indices: 38111--38165 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
38101 CTGAAACATC
*
38111 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTAACCAAG
* *
38135 ATCAAAGTCCGGGTATTAACCAAG
1 ATCAAAATCCGAGTATTAACCAAG
38159 AT-AAAAT
1 ATCAAAAT
38166 TTCGAATACT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
23 4 0.15
24 23 0.85
ACGTcount: A:0.44, C:0.18, G:0.16, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTAACCAAG
Found at i:38936 original size:20 final size:20
Alignment explanation
Indices: 38911--38999 Score: 106
Period size: 20 Copynumber: 4.5 Consensus size: 20
38901 TGTATTATCT
*
38911 CGTTGCGATAGGCAGAATTG
1 CGTTGCGATAGGCAGAATCG
38931 CGTTGCGATAGGCAGAATCG
1 CGTTGCGATAGGCAGAATCG
* * *
38951 CGTTGCGAAAGTCAGTATCG
1 CGTTGCGATAGGCAGAATCG
* * *
38971 CGTTGCGAAAGTCAGTATCG
1 CGTTGCGATAGGCAGAATCG
*
38991 CATTGCGAT
1 CGTTGCGAT
39000 TTTCCAAATT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 63 1.00
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (20 bp):
CGTTGCGATAGGCAGAATCG
Found at i:39053 original size:20 final size:21
Alignment explanation
Indices: 38988--39060 Score: 112
Period size: 21 Copynumber: 3.5 Consensus size: 21
38978 AAAGTCAGTA
38988 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
39009 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* **
39030 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCAAAT
39050 TCGCATTGCGA
1 TCGCATTGCGA
39061 ATTGGGAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
20 17 0.35
21 32 0.65
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:39075 original size:41 final size:42
Alignment explanation
Indices: 38987--39075 Score: 99
Period size: 41 Copynumber: 2.1 Consensus size: 42
38977 GAAAGTCAGT
* * *
38987 ATCGCATTGCGATTTTCCAAATTCGCATTGCGATTTTCCAAA
1 ATCGCATTGCGATTTTACAAATTCGCATTGCGAATTGCCAAA
* ** **
39029 TTCGCATTGCGA-TTTACTTATTCGCATTGCGAATTGGGAAA
1 ATCGCATTGCGATTTTACAAATTCGCATTGCGAATTGCCAAA
39070 ATCGCA
1 ATCGCA
39076 ACGCGAAATT
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
41 27 0.71
42 11 0.29
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (42 bp):
ATCGCATTGCGATTTTACAAATTCGCATTGCGAATTGCCAAA
Found at i:39102 original size:21 final size:22
Alignment explanation
Indices: 39050--39102 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
39040 ATTTACTTAT
39050 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
**
39071 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTGGGAAAA
39092 TCGCATTGCGA
1 TCGCATTGCGA
39103 TAGTCATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:40283 original size:22 final size:22
Alignment explanation
Indices: 40257--40302 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
40247 CCTTTCAATT
* *
40257 AAATGACTTATCCTTTTGATGA
1 AAATGACTTAACCTTTTCATGA
*
40279 AAATGGCTTAACCTTTTCATGA
1 AAATGACTTAACCTTTTCATGA
40301 AA
1 AA
40303 GGATTTAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (22 bp):
AAATGACTTAACCTTTTCATGA
Found at i:42143 original size:15 final size:16
Alignment explanation
Indices: 42107--42144 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
42097 AATTTTAAGG
*
42107 ATTAAATTGAACAAAC
1 ATTAAATTGAACAAAA
*
42123 ATTAAATTTAA-AAAA
1 ATTAAATTGAACAAAA
42138 ATTAAAT
1 ATTAAAT
42145 AATGCGTAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.32
Consensus pattern (16 bp):
ATTAAATTGAACAAAA
Found at i:42256 original size:24 final size:25
Alignment explanation
Indices: 42229--42281 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
42219 ATTTGAAAAG
*
42229 TTGGTGAATAAAAT-TTTATAGAGT
1 TTGGAGAATAAAATATTTATAGAGT
* * *
42253 TTGGAGATTACAATATTTATAGGGT
1 TTGGAGAATAAAATATTTATAGAGT
42278 TTGG
1 TTGG
42282 GGTTTATTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 11 0.46
25 13 0.54
ACGTcount: A:0.32, C:0.02, G:0.25, T:0.42
Consensus pattern (25 bp):
TTGGAGAATAAAATATTTATAGAGT
Found at i:42511 original size:6 final size:6
Alignment explanation
Indices: 42486--42542 Score: 51
Period size: 7 Copynumber: 8.8 Consensus size: 6
42476 AAATTTTGAT
* * *
42486 TAAATA TTAATA TTAATA TAAATA TAACATA TAACCTA TAAAGTA TAAAGTA
1 TAAATA TAAATA TAAATA TAAATA TAA-ATA TAA-ATA TAAA-TA TAAA-TA
42538 TAAAT
1 TAAAT
42543 GTTGATTTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
6 20 0.44
7 25 0.56
ACGTcount: A:0.56, C:0.05, G:0.04, T:0.35
Consensus pattern (6 bp):
TAAATA
Found at i:43241 original size:16 final size:16
Alignment explanation
Indices: 43201--43249 Score: 64
Period size: 16 Copynumber: 3.0 Consensus size: 16
43191 GTTGGATAAT
*
43201 TTACATGTTCGA-TCAA
1 TTACATGTT-GAGTAAA
43217 TTAACATGTTGAGTAAA
1 TT-ACATGTTGAGTAAA
43234 TTACATGTTGAGTAAA
1 TTACATGTTGAGTAAA
43250 ATCAAATCTC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 18 0.60
17 12 0.40
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (16 bp):
TTACATGTTGAGTAAA
Found at i:53507 original size:14 final size:14
Alignment explanation
Indices: 53488--53536 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
53478 GTATTCAGTT
53488 TTATAAATTTTTAA
1 TTATAAATTTTTAA
53502 TTATAAA-TTTT-A
1 TTATAAATTTTTAA
*
53514 TTATCAGATTTTTAA
1 TTAT-AAATTTTTAA
*
53529 CTATAAAT
1 TTATAAAT
53537 ATAATATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
12 5 0.17
13 6 0.21
14 14 0.48
15 4 0.14
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (14 bp):
TTATAAATTTTTAA
Found at i:58294 original size:10 final size:10
Alignment explanation
Indices: 58279--58304 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
58269 AGTTTTTTTT
58279 AAAAAAATAA
1 AAAAAAATAA
58289 AAAAAAATAA
1 AAAAAAATAA
58299 AAAAAA
1 AAAAAA
58305 TATTTAAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (10 bp):
AAAAAAATAA
Found at i:59582 original size:32 final size:32
Alignment explanation
Indices: 59543--59603 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
59533 GTGTAAATAC
*
59543 ATTATATAATGTAACAACATTAAAGGACATAT
1 ATTATATAATGCAACAACATTAAAGGACATAT
59575 ATTATATAATGCAACAACATTAAAGGACA
1 ATTATATAATGCAACAACATTAAAGGACA
59604 AAATTTGGTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.51, C:0.11, G:0.10, T:0.28
Consensus pattern (32 bp):
ATTATATAATGCAACAACATTAAAGGACATAT
Found at i:59800 original size:29 final size:28
Alignment explanation
Indices: 59768--59825 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 28
59758 ACTAAACTTC
*
59768 TGGAATTTACAATAAAGGATAAAACATTT
1 TGGAAATTACAATAAAGGA-AAAACATTT
*
59797 TGGAAATTATAATAAAGGAAAAACATTT
1 TGGAAATTACAATAAAGGAAAAACATTT
59825 T
1 T
59826 ATAATTTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 10 0.37
29 17 0.63
ACGTcount: A:0.50, C:0.05, G:0.14, T:0.31
Consensus pattern (28 bp):
TGGAAATTACAATAAAGGAAAAACATTT
Found at i:59873 original size:29 final size:29
Alignment explanation
Indices: 59842--60006 Score: 197
Period size: 29 Copynumber: 5.7 Consensus size: 29
59832 TTCAGTTACA
*
59842 TACAAAACTATTTATAAATTACAATAAAA
1 TACAAAACTATTTATAAATTACAATAAAG
* * **
59871 TACAAAACTTTTTGTAAATTACAATAATT
1 TACAAAACTATTTATAAATTACAATAAAG
*** * *
59900 TACAATTTTTTTTATAAATTATAATAAAG
1 TACAAAACTATTTATAAATTACAATAAAG
*
59929 TACAAAACTA-TTATAAATTATAATAAAG
1 TACAAAACTATTTATAAATTACAATAAAG
*
59957 TACATAACTATTTATAAATTACAATAAAG
1 TACAAAACTATTTATAAATTACAATAAAG
* *
59986 TACATAATTATTTATAAATTA
1 TACAAAACTATTTATAAATTA
60007 TGATAAATGT
Statistics
Matches: 117, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
28 27 0.23
29 90 0.77
ACGTcount: A:0.51, C:0.08, G:0.02, T:0.39
Consensus pattern (29 bp):
TACAAAACTATTTATAAATTACAATAAAG
Found at i:59919 original size:115 final size:115
Alignment explanation
Indices: 59800--60006 Score: 269
Period size: 115 Copynumber: 1.8 Consensus size: 115
59790 AACATTTTGG
* * * *
59800 AAATTATAATAAAGGA-AAAAC-ATTTTATAATTTTCAGTTACA-TACAAAACTATTTATAAATT
1 AAATTATAATAAAGGACAAAACTATTATA-AATTAT-A-ATAAAGTACAAAACTATTTATAAATT
*
59862 ACAATAAAATACAAAACTT-TTTGTAAATTACAATAATTTACAATTTTTTTTAT
63 ACAATAAAATACAAAA-TTATTTATAAATTACAATAATTTACAATTTTTTTTAT
* *
59915 AAATTATAATAAAGTACAAAACTATTATAAATTATAATAAAGTACATAACTATTTATAAATTACA
1 AAATTATAATAAAGGACAAAACTATTATAAATTATAATAAAGTACAAAACTATTTATAAATTACA
* *
59980 ATAAAGTACATAATTATTTATAAATTA
66 ATAAAATACAAAATTATTTATAAATTA
60007 TGATAAATGT
Statistics
Matches: 79, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
114 5 0.06
115 59 0.75
116 10 0.13
117 5 0.06
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.38
Consensus pattern (115 bp):
AAATTATAATAAAGGACAAAACTATTATAAATTATAATAAAGTACAAAACTATTTATAAATTACA
ATAAAATACAAAATTATTTATAAATTACAATAATTTACAATTTTTTTTAT
Found at i:60000 original size:86 final size:87
Alignment explanation
Indices: 59842--60013 Score: 231
Period size: 86 Copynumber: 2.0 Consensus size: 87
59832 TTCAGTTACA
* * ** *
59842 TACAAAACTATTTATAAATTACAATAAAATACAAAACTTTTTGTAAATTACAATAATTTACAATT
1 TACAAAACTATTTATAAATTACAATAAAATACAAAACTATTTATAAATTACAATAAAGTACAATA
*
59907 TTTTTTATAAATTATAATAAAG
66 TTATTTATAAATTATAATAAAG
* * *
59929 TACAAAACTA-TTATAAATTATAATAAAGTACATAACTATTTATAAATTACAATAAAGTAC-ATA
1 TACAAAACTATTTATAAATTACAATAAAATACAAAACTATTTATAAATTACAATAAAGTACAAT-
*
59992 ATTATTTATAAATTATGATAAA
65 ATTATTTATAAATTATAATAAA
60014 TGTTTGTCCC
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
85 2 0.03
86 62 0.84
87 10 0.14
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.38
Consensus pattern (87 bp):
TACAAAACTATTTATAAATTACAATAAAATACAAAACTATTTATAAATTACAATAAAGTACAATA
TTATTTATAAATTATAATAAAG
Found at i:64745 original size:24 final size:24
Alignment explanation
Indices: 64708--64756 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
64698 TAATAACAAA
* *
64708 ATTAAAAAATTAAAATATATATAT
1 ATTAAAAAATTAAAACAAATATAT
64732 ATTAAAATAA-TAAAACAAATATAT
1 ATTAAAA-AATTAAAACAAATATAT
64756 A
1 A
64757 AAACATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 20 0.91
25 2 0.09
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (24 bp):
ATTAAAAAATTAAAACAAATATAT
Found at i:66364 original size:32 final size:31
Alignment explanation
Indices: 66325--66389 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
66315 TCTAAGCACC
66325 TAAA-TTATT-TTTT-GTCAAAACAAATATT
1 TAAAGTTATTATTTTGGTCAAAACAAATATT
*
66353 TAAAGTTATTATTTTGGTCAAAATAAATATT
1 TAAAGTTATTATTTTGGTCAAAACAAATATT
66384 TAAAGT
1 TAAAGT
66390 ATTTTCATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
28 4 0.12
29 5 0.15
30 4 0.12
31 20 0.61
ACGTcount: A:0.43, C:0.05, G:0.08, T:0.45
Consensus pattern (31 bp):
TAAAGTTATTATTTTGGTCAAAACAAATATT
Found at i:68718 original size:17 final size:17
Alignment explanation
Indices: 68691--68729 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
68681 AATTTACAAT
68691 TAATT-TAAATAATATC
1 TAATTATAAATAATATC
68707 TAATTATAAATAATATC
1 TAATTATAAATAATATC
68724 TAATTA
1 TAATTA
68730 ATTTGATTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATTATAAATAATATC
Found at i:68924 original size:30 final size:30
Alignment explanation
Indices: 68888--68956 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
68878 TCGAACCGAA
*
68888 TTAACCGTTAACCGAATTTTAAAAAAATCC
1 TTAACCGTTAACCGAATTTCAAAAAAATCC
*
68918 TTAACCGTTAACCGAATTTCAAAAAAATCT
1 TTAACCGTTAACCGAATTTCAAAAAAATCC
68948 TTAACCGTT
1 TTAACCGTT
68957 CCCCGACCGA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (30 bp):
TTAACCGTTAACCGAATTTCAAAAAAATCC
Found at i:69447 original size:51 final size:50
Alignment explanation
Indices: 69342--69458 Score: 128
Period size: 51 Copynumber: 2.3 Consensus size: 50
69332 AATCAAATCT
* * * ***
69342 TTCAATTTATTAAATATTTTTCACTCTTCTTCTCCAATATCAATTCATTC
1 TTCAATTTATTAAATATTTTTAACTCTTCTTCTCCAATACCAATCCACAA
*
69392 TTCAATTTATTAAATATTTTTTAACTCTTCTTCTTC-ATACCATATCCACAA
1 TTCAATTTATTAAATA-TTTTTAACTCTTCTTCTCCAATACCA-ATCCACAA
*
69443 TTCAATTCATTCAAAT
1 TTCAATTTATT-AAAT
69459 TCGAGAAGAA
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
50 21 0.38
51 31 0.55
52 4 0.07
ACGTcount: A:0.31, C:0.21, G:0.00, T:0.48
Consensus pattern (50 bp):
TTCAATTTATTAAATATTTTTAACTCTTCTTCTCCAATACCAATCCACAA
Found at i:83721 original size:138 final size:139
Alignment explanation
Indices: 83546--83829 Score: 543
Period size: 138 Copynumber: 2.1 Consensus size: 139
83536 TTTAATGAGG
*
83546 CATCCTATTCCTATAAAAAAAAAATAGAAAACCTGTAATCGTATGACCTTTACAAACCCATTATT
1 CATCCTATTCCTATAAAAAAAAAATAGAAAACCTGTAATCATATGACCTTTACAAACCCATTATT
*
83611 GCACATTCTGAATTTTGTAAAGAACAGCTCACTTGCCCAAAAATAAAACTTATATGAAACAACAA
66 GCACATTCTGAATTTTGAAAAGAACAGCTCACTTGCCCAAAAATAAAACTTATATGAAACAACAA
83676 TTGTAATGT
131 TTGTAATGT
83685 CATCCTATTCCTAT-AAAAAAAAATAGAAAACCTGTAATCATATGACCTTTACAAACCCATTATT
1 CATCCTATTCCTATAAAAAAAAAATAGAAAACCTGTAATCATATGACCTTTACAAACCCATTATT
83749 GCACATTCTGAATTTTGAAAAGAACAGCTCACTTGCCCAAAAATAAAACTTATATGAAACAACAA
66 GCACATTCTGAATTTTGAAAAGAACAGCTCACTTGCCCAAAAATAAAACTTATATGAAACAACAA
83814 TTGTAATGT
131 TTGTAATGT
83823 CATCCTA
1 CATCCTA
83830 GTACTACATG
Statistics
Matches: 143, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
138 129 0.90
139 14 0.10
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.29
Consensus pattern (139 bp):
CATCCTATTCCTATAAAAAAAAAATAGAAAACCTGTAATCATATGACCTTTACAAACCCATTATT
GCACATTCTGAATTTTGAAAAGAACAGCTCACTTGCCCAAAAATAAAACTTATATGAAACAACAA
TTGTAATGT
Found at i:86080 original size:22 final size:22
Alignment explanation
Indices: 86053--86115 Score: 117
Period size: 22 Copynumber: 2.9 Consensus size: 22
86043 AACACTTGAA
86053 CTCGATTGAAACACAAACTTAG
1 CTCGATTGAAACACAAACTTAG
86075 CTCGATTGAAACACAAACTTAG
1 CTCGATTGAAACACAAACTTAG
*
86097 CTCGATTGAAACTCAAACT
1 CTCGATTGAAACACAAACT
86116 CAATCTCGGT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.40, C:0.24, G:0.13, T:0.24
Consensus pattern (22 bp):
CTCGATTGAAACACAAACTTAG
Found at i:88083 original size:46 final size:46
Alignment explanation
Indices: 88016--88105 Score: 171
Period size: 46 Copynumber: 2.0 Consensus size: 46
88006 ATTACTTTTT
*
88016 AAAGTTTTAGGCTTCAGCATTACGTATGGAGAAATAGATACAAGTA
1 AAAGTTTTAGGCTTCAGCATTACGTATGAAGAAATAGATACAAGTA
88062 AAAGTTTTAGGCTTCAGCATTACGTATGAAGAAATAGATACAAG
1 AAAGTTTTAGGCTTCAGCATTACGTATGAAGAAATAGATACAAG
88106 ATTTATGTTA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.40, C:0.11, G:0.21, T:0.28
Consensus pattern (46 bp):
AAAGTTTTAGGCTTCAGCATTACGTATGAAGAAATAGATACAAGTA
Found at i:91146 original size:12 final size:13
Alignment explanation
Indices: 91120--91148 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
91110 TTAATTTTTG
91120 ATTTTTTAAATAA
1 ATTTTTTAAATAA
91133 ATTTTTTAAA-AA
1 ATTTTTTAAATAA
91145 ATTT
1 ATTT
91149 AAGCATGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
ATTTTTTAAATAA
Found at i:95888 original size:14 final size:14
Alignment explanation
Indices: 95860--95909 Score: 57
Period size: 14 Copynumber: 3.5 Consensus size: 14
95850 TTTATTTATT
*
95860 TAATGATATATTTTA
1 TAAT-ATATAATTTA
95875 TAATATATAATTTA
1 TAATATATAATTTA
*
95889 TAAAATA-ATATTTA
1 TAATATATA-ATTTA
95903 TAATATA
1 TAATATA
95910 GATTGTGATG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
13 1 0.03
14 26 0.84
15 4 0.13
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (14 bp):
TAATATATAATTTA
Found at i:97712 original size:167 final size:168
Alignment explanation
Indices: 97436--97772 Score: 642
Period size: 167 Copynumber: 2.0 Consensus size: 168
97426 GAAAACCCTT
97436 TCTAATATCCAAAGCGCTTTTTCCTGAGCCTTTACACTTGCACATTCCATGATCTTAATGATCGC
1 TCTAATATCCAAAGCGCTTTTTCCTGAGCCTTTACACTTGCACATTCCATGATCTTAATGATCGC
97501 TTCAACGCCTCCTTTTTTAGCAAGCAATCACTTCCATTTTCCCAGATTTCGTCTTGCAGAAGCGT
66 TTCAACGCCTCCTTTTTTAGCAAGCAATCACTTCCATTTTCCCAGATTTCGTCTTGCAGAAGCGT
97566 CGCCATCGCGTTCAAAACTGCTTCATC-CTTCCCTTTC
131 CGCCATCGCGTTCAAAACTGCTTCATCACTTCCCTTTC
97603 TCTAATATCCAAAGCGCTTTTTCCTGAGCCTTTACACTTGCACATTCCATGATCTTAATGATCGC
1 TCTAATATCCAAAGCGCTTTTTCCTGAGCCTTTACACTTGCACATTCCATGATCTTAATGATCGC
97668 TTCAACGCCTCCTTTTTTAGCAATGCAATCACTTCCA-TTTCCCAGATTTCGTCTTGCAGAAGCG
66 TTCAACGCCTCCTTTTTTAGCAA-GCAATCACTTCCATTTTCCCAGATTTCGTCTTGCAGAAGCG
97732 TCGCCATCGCGTTCAAAACTGCTTCATCAGCTTCCCTTTC
130 TCGCCATCGCGTTCAAAACTGCTTCATCA-CTTCCCTTTC
97772 T
1 T
97773 TTGCCTTCCA
Statistics
Matches: 167, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
167 143 0.86
168 13 0.08
169 11 0.07
ACGTcount: A:0.22, C:0.31, G:0.13, T:0.35
Consensus pattern (168 bp):
TCTAATATCCAAAGCGCTTTTTCCTGAGCCTTTACACTTGCACATTCCATGATCTTAATGATCGC
TTCAACGCCTCCTTTTTTAGCAAGCAATCACTTCCATTTTCCCAGATTTCGTCTTGCAGAAGCGT
CGCCATCGCGTTCAAAACTGCTTCATCACTTCCCTTTC
Found at i:101545 original size:23 final size:23
Alignment explanation
Indices: 101510--101557 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
101500 ATCAAGTACA
* *
101510 ATAATATATTAGGTAGCGCTTAT
1 ATAATATAATAGGTAACGCTTAT
* *
101533 ATAATGTAATAGGTAACGTTTAT
1 ATAATATAATAGGTAACGCTTAT
101556 AT
1 AT
101558 TGACTTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.40
Consensus pattern (23 bp):
ATAATATAATAGGTAACGCTTAT
Found at i:102500 original size:180 final size:181
Alignment explanation
Indices: 102183--102626 Score: 619
Period size: 181 Copynumber: 2.5 Consensus size: 181
102173 TTACTATCGA
* *
102183 TTTTGTCATTTCAAGATCAATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCAAGACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACA-T
* *
102248 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTATTTTCTTTTAAATTCCAAAAGTGTCGA
65 TTTATAAAGTATCGACACTTTATTAGCGCTATAACTTATTCTCTTTTAAATTCCAAAAGTGTCGA
* * ** ** *
102313 AACTTATAATAAA-TATCGACACTTTTAACATATCCGGTAGCTCTTTACCGG
130 AACTTATAATAAAGTATCGACACTATCAACATATCCAATAGCGATTTACAGG
* * * *
102364 TTTTATCATTTCGAGACCGATTTTGTCATATTTTTATCTGTTATATTGTTATAGATCGATACATT
1 TTTTGTCATTTCAAGACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
* * * *
102429 TTATAAAGTATCGATATTTTATTAGCGCTATAATTTATTCTCTTTTAAATTCCAAAAGTGTCGAT
66 TTATAAAGTATCGACACTTTATTAGCGCTATAACTTATTCTCTTTTAAATTCCAAAAGTGTCGAA
* *
102494 ACTTATAATAAAGTATCGACACTATCAACATATCTAATAGCGATTTACATG
131 ACTTATAATAAAGTATCGACACTATCAACATATCCAATAGCGATTTACAGG
* *
102545 TTTTGTCATTT-ATAGACCGGTTTTGTCATTTTTTTACCTG-T-TA-TGTTATGGATCGATACAT
1 TTTTGTCATTTCA-AGACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACAT
*
102606 TTTATTAAGTATCGACACTTT
65 TTTATAAAGTATCGACACTTT
102627 CAATATAGGT
Statistics
Matches: 231, Mismatches: 30, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
178 35 0.15
179 2 0.01
180 74 0.32
181 120 0.52
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (181 bp):
TTTTGTCATTTCAAGACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
TTATAAAGTATCGACACTTTATTAGCGCTATAACTTATTCTCTTTTAAATTCCAAAAGTGTCGAA
ACTTATAATAAAGTATCGACACTATCAACATATCCAATAGCGATTTACAGG
Found at i:102773 original size:111 final size:111
Alignment explanation
Indices: 102501--103060 Score: 786
Period size: 111 Copynumber: 5.1 Consensus size: 111
102491 GATACTTATA
* * ** * *
102501 ATAAAGTATCGACACTATCAACATATCTAATAGCGATTTACATGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
*
102566 TTTGTCATTTTTTTACCTG-T-TA-TGTTATGGATCGATACATTTT
66 TTTGTCATTTTTTTACATGTTATATTGTTATGGATCGATACATTTT
* *
102609 ATTAAGTATCGACACTTTCAATATA---GGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGAT
1 ATAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
102671 TTTGTCA-TTTTTTACATGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTTACATGTTATATTGTTATGGATCGATACA-TTTT
102717 ATAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
*
102782 TTTGTCATTTTTTTTACCTG-T-TATTGTTATGGATCGATACATTTT
66 TTTGTCA-TTTTTTTACATGTTATATTGTTATGGATCGATACATTTT
* * *
102827 ATAAAGTATGGACACTTTC-A-ATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGATCGGT
1 ATAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* * *
102890 TGTGTCATTTTTTTACATGTTATATTGTTATGGATCAATATATTTTT
66 TTTGTCATTTTTTTACATGTTATATTGTTATGGATCGATACA-TTTT
* * * *
102937 ATAAAGTATCGATATTTTTAATATATCTGGTAGCGTTTTACCTG-TTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* ** *
103001 TTTGTCATTTTTTTACATATTATATTGTTATGGATTAATATATTTT
66 TTTGTCATTTTTTTACATGTTATATTGTTATGGATCGATACATTTT
103047 -TAAAGTATCGACAC
1 ATAAAGTATCGACAC
103061 AACCCGACAA
Statistics
Matches: 407, Mismatches: 31, Indels: 27
0.88 0.07 0.06
Matches are distributed among these distances:
104 10 0.02
105 40 0.10
106 2 0.00
107 28 0.07
108 98 0.24
109 31 0.08
110 45 0.11
111 122 0.30
112 21 0.05
113 10 0.02
ACGTcount: A:0.26, C:0.13, G:0.15, T:0.46
Consensus pattern (111 bp):
ATAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
TTTGTCATTTTTTTACATGTTATATTGTTATGGATCGATACATTTT
Found at i:103010 original size:219 final size:217
Alignment explanation
Indices: 102501--103060 Score: 847
Period size: 220 Copynumber: 2.6 Consensus size: 217
102491 GATACTTATA
* * ** *
102501 ATAAAGTATCGACACTATCAACATATCTAATAGCGATTTACATGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCTGGTAGCGATTTACCTGTTTTGTCATTTATAGACCGGT
*
102566 TTTGTCATTTTTTTACCTGTTA-TGTTATGGATCGATACATTTTATTAAGTATCGACACTTTCAA
66 TTTGTCATTTTTTTACCTGTTATTGTTATGGATCGATACATTTTATAAAGTATCGACACTTTCAA
*
102630 TATAGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGATTTTGTCATTTTTTACATGTTATAT
131 TATAGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGATTGTGTCATTTTTTACATGTTATAT
*
102695 TGTTATGGATCGATACATTTTT
196 TGTTATGGATCAATACATTTTT
*
102717 ATAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCTGGTAGCGATTTACCTGTTTTGTCATTTATAGACCGGT
*
102782 TTTGTCATTTTTTTTACCTGTTATTGTTATGGATCGATACATTTTATAAAGTATGGACACTTTCA
66 TTTGTCA-TTTTTTTACCTGTTATTGTTATGGATCGATACATTTTATAAAGTATCGACACTTTCA
* * *
102847 ATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGATCGGTTGTGTCATTTTTTTACATGTTA
130 ATAT-AGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGATTGTGTCA-TTTTTTACATGTTA
*
102912 TATTGTTATGGATCAATATATTTTT
193 TATTGTTATGGATCAATACATTTTT
* * * *
102937 ATAAAGTATCGATATTTTTAATATATCTGGTAGCGTTTTACCTG-TTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCTGGTAGCGATTTACCTGTTTTGTCATTTATAGACCGGT
* * ** *
103001 TTTGTCATTTTTTTACATATTATATTGTTATGGATTAATATATTTT-TAAAGTATCGACAC
66 TTTGTCATTTTTTTACCT-GT-TATTGTTATGGATCGATACATTTTATAAAGTATCGACAC
103061 AACCCGACAA
Statistics
Matches: 314, Mismatches: 24, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
216 66 0.21
217 15 0.05
218 53 0.17
219 82 0.26
220 98 0.31
ACGTcount: A:0.26, C:0.13, G:0.15, T:0.46
Consensus pattern (217 bp):
ATAAAGTATCGACACTTTCAATATATCTGGTAGCGATTTACCTGTTTTGTCATTTATAGACCGGT
TTTGTCATTTTTTTACCTGTTATTGTTATGGATCGATACATTTTATAAAGTATCGACACTTTCAA
TATAGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGATTGTGTCATTTTTTACATGTTATAT
TGTTATGGATCAATACATTTTT
Found at i:105961 original size:57 final size:58
Alignment explanation
Indices: 105881--105992 Score: 156
Period size: 57 Copynumber: 1.9 Consensus size: 58
105871 ACAAATGATC
** *
105881 CCCTTGACTATAGGACATCTC-TT-TTGAATTTCTGAATATTAAAAGTTACAAAATAGT
1 CCCTTGACTATAGGACATCTCTTTGTTGAATCCCGGAATATT-AAAGTTACAAAATAGT
* *
105938 CCCTTGACTATAGGGCATTTCTTTGTTGAATCCCGGAATATTAAAGTTACAAAAT
1 CCCTTGACTATAGGACATCTCTTTGTTGAATCCCGGAATATTAAAGTTACAAAAT
105993 GGTTCCTCGA
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
57 19 0.40
58 15 0.31
59 14 0.29
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (58 bp):
CCCTTGACTATAGGACATCTCTTTGTTGAATCCCGGAATATTAAAGTTACAAAATAGT
Found at i:111487 original size:3 final size:3
Alignment explanation
Indices: 111479--111514 Score: 54
Period size: 3 Copynumber: 11.3 Consensus size: 3
111469 TTATCCATTA
111479 ATT ATT ATT ATT ATT ATT ATTT ATT ATTT ATT ATT A
1 ATT ATT ATT ATT ATT ATT A-TT ATT A-TT ATT ATT A
111515 ATATATAGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 25 0.81
4 6 0.19
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:111502 original size:7 final size:7
Alignment explanation
Indices: 111475--111513 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
111465 AATTTTATCC
*
111475 ATTAATT
1 ATTATTT
111482 ATTA-TT
1 ATTATTT
111488 ATTA-TT
1 ATTATTT
111494 ATTATTT
1 ATTATTT
111501 ATTATTT
1 ATTATTT
111508 ATTATT
1 ATTATT
111514 AATATATAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 12 0.39
7 19 0.61
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (7 bp):
ATTATTT
Found at i:111691 original size:13 final size:13
Alignment explanation
Indices: 111673--111699 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
111663 GAGACGAAGT
111673 AACAGTGACTCAA
1 AACAGTGACTCAA
111686 AACAGTGACTCAA
1 AACAGTGACTCAA
111699 A
1 A
111700 TCAAATAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.22, G:0.15, T:0.15
Consensus pattern (13 bp):
AACAGTGACTCAA
Found at i:119949 original size:19 final size:18
Alignment explanation
Indices: 119913--119955 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 18
119903 ACCCGTTAAT
119913 TTTGACTTGCTCGTTGAC
1 TTTGACTTGCTCGTTGAC
119931 TTTGACTATGACT-GTTGAC
1 TTTGACT-TG-CTCGTTGAC
119950 TTTGAC
1 TTTGAC
119956 CAAAAAGTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.30
19 14 0.61
20 2 0.09
ACGTcount: A:0.16, C:0.19, G:0.21, T:0.44
Consensus pattern (18 bp):
TTTGACTTGCTCGTTGAC
Found at i:123431 original size:9 final size:8
Alignment explanation
Indices: 123409--123529 Score: 57
Period size: 7 Copynumber: 15.4 Consensus size: 8
123399 CGAACTCAAA
*
123409 AATATTAT
1 AATATAAT
123417 ATATATAATT
1 A-ATATAA-T
*
123427 AATATAAAA
1 AATAT-AAT
123436 AATATAA-
1 AATATAAT
123443 AATAT-AT
1 AATATAAT
123450 -ATATAAATT
1 AATAT-AA-T
123459 AATATAA-
1 AATATAAT
123466 AATATAA-
1 AATATAAT
123473 AATATATAT
1 AATATA-AT
123482 AAT-TAAT
1 AATATAAT
123489 -ATA-AA-
1 AATATAAT
123494 AATATAA-
1 AATATAAT
*
123501 AATATTAT
1 AATATAAT
123509 -ATATATAT
1 AATATA-AT
123517 ATATATATAT
1 A-ATATA-AT
123527 AAT
1 AAT
123530 CGGGGCGGGG
Statistics
Matches: 92, Mismatches: 4, Indels: 33
0.71 0.03 0.26
Matches are distributed among these distances:
6 12 0.13
7 32 0.35
8 9 0.10
9 22 0.24
10 17 0.18
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
AATATAAT
Found at i:123449 original size:2 final size:2
Alignment explanation
Indices: 123444--123527 Score: 51
Period size: 2 Copynumber: 46.5 Consensus size: 2
123434 AAAATATAAA
* * *
123444 AT AT AT AT AT AA AT -T A- AT AT A- AA AT AT A- AA 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
* * *
123482 A- AT -T A- AT AT AA AA AT AT A- AA AT AT -T 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
123519 AT AT AT AT A
1 AT AT AT AT A
123528 ATCGGGGCGG
Statistics
Matches: 66, Mismatches: 7, Indels: 18
0.73 0.08 0.20
Matches are distributed among these distances:
1 9 0.14
2 57 0.86
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (2 bp):
AT
Found at i:123518 original size:28 final size:27
Alignment explanation
Indices: 123406--123528 Score: 108
Period size: 28 Copynumber: 4.4 Consensus size: 27
123396 TCCCGAACTC
* *
123406 AAAAATATTATATATATA-AT-TAATAT
1 AAAAATATAAAATATATATATAT-ATAT
*
123432 AAAAAATATAAAATATATATATAAATTAAT
1 -AAAAATATAAAATATATATATATA-T-AT
123462 ATAAAATATAAAATATATATA-ATTAATAT
1 A-AAAATATAAAATATATATATA-T-ATAT
123491 AAAAATATAAAATATTATATATATATAT
1 AAAAATATAAAATA-TATATATATATAT
* *
123519 ATATATATAA
1 AAAAATATAA
123529 TCGGGGCGGG
Statistics
Matches: 81, Mismatches: 6, Indels: 17
0.78 0.06 0.16
Matches are distributed among these distances:
27 16 0.20
28 28 0.35
29 13 0.16
30 23 0.28
31 1 0.01
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (27 bp):
AAAAATATAAAATATATATATATATAT
Found at i:128964 original size:15 final size:15
Alignment explanation
Indices: 128944--128978 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
128934 TTTTTATCGA
128944 ATTATGTAGAGGTTT
1 ATTATGTAGAGGTTT
128959 ATTATGTAGAGGTTT
1 ATTATGTAGAGGTTT
128974 ATTAT
1 ATTAT
128979 AGGATGATCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.49
Consensus pattern (15 bp):
ATTATGTAGAGGTTT
Found at i:129845 original size:60 final size:60
Alignment explanation
Indices: 129752--129875 Score: 248
Period size: 60 Copynumber: 2.1 Consensus size: 60
129742 GGTGTTAGTT
129752 ACAATGTCGGTAGAAAGACACGCAGATTATATGACGTCTTTAAGAAGATGTCTGGAAGAC
1 ACAATGTCGGTAGAAAGACACGCAGATTATATGACGTCTTTAAGAAGATGTCTGGAAGAC
129812 ACAATGTCGGTAGAAAGACACGCAGATTATATGACGTCTTTAAGAAGATGTCTGGAAGAC
1 ACAATGTCGGTAGAAAGACACGCAGATTATATGACGTCTTTAAGAAGATGTCTGGAAGAC
129872 ACAA
1 ACAA
129876 CGTCTTCTCC
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 64 1.00
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (60 bp):
ACAATGTCGGTAGAAAGACACGCAGATTATATGACGTCTTTAAGAAGATGTCTGGAAGAC
Found at i:130249 original size:43 final size:43
Alignment explanation
Indices: 130184--130547 Score: 261
Period size: 43 Copynumber: 8.6 Consensus size: 43
130174 TTTTTTATTC
* * * *
130184 TCACTTTATACATTTACAATTGAGACTCATAAGTTTTTCAATA
1 TCACTTTTTACTTTTATAATTGAGACTCATAATTTTTTCAATA
* * * *
130227 TCACTTTCTACTTTTATGATTGA-AGCTCCTAATTTTTT-TAT-
1 TCACTTTTTACTTTTATAATTGAGA-CTCATAATTTTTTCAATA
*
130268 TCACTTTTTA-TCTTTATAATTGAGAC-CCTAATTTTTTCAAT-
1 TCACTTTTTACT-TTTATAATTGAGACTCATAATTTTTTCAATA
* * * *
130309 CCAACTTTTTATTTTTATAATTGATG-CCCATAATTTTTTCAATC
1 TC-ACTTTTTACTTTTATAATTGA-GACTCATAATTTTTTCAATA
* *
130353 TCACATTTTAGC-TTTATAATTGAAGTCTC-TAATTTTTT-AATA
1 TCACTTTTTA-CTTTTATAATTG-AGACTCATAATTTTTTCAATA
* * ** *
130395 TCACTTTTTACCTTTATAAATGAGGTTCTTAATTCTTTT-AATA
1 TCACTTTTTACTTTTATAATTGAGACTCATAATT-TTTTCAATA
* * * *
130438 TCATTTTTTA-TCTTTATAATTGAGGCCCCA-AATTTTTTCAATC
1 TCACTTTTTACT-TTTATAATTGA-GACTCATAATTTTTTCAATA
* * * ** * *
130481 TCACTTTCTACCTTTACAAATAAAGCCTC-TAATTTTTTTAATA
1 TCACTTTTTACTTTTA-TAATTGAGACTCATAATTTTTTCAATA
130524 TCACTTTTTACTTTTATAATTGAG
1 TCACTTTTTACTTTTATAATTGAG
130548 GCTTTCAATC
Statistics
Matches: 257, Mismatches: 43, Indels: 43
0.75 0.13 0.13
Matches are distributed among these distances:
40 12 0.05
41 28 0.11
42 59 0.23
43 148 0.58
44 10 0.04
ACGTcount: A:0.28, C:0.16, G:0.06, T:0.49
Consensus pattern (43 bp):
TCACTTTTTACTTTTATAATTGAGACTCATAATTTTTTCAATA
Found at i:130477 original size:128 final size:126
Alignment explanation
Indices: 130123--130548 Score: 386
Period size: 128 Copynumber: 3.3 Consensus size: 126
130113 GGGTGCACGT
* * * * * *
130123 CTCTAATTTTTATAATCTCA-TTATTTACCTTCATAATTGA-GACCTTTAGTTTTTTTTATTCTC
1 CTCTAATTTTT-TAATATCACTT-TTTACCTTTATAATTGAGGACC-CTA-ATTTTTTCAATC-C
* * * * * * *
130186 -ACTTTATA-CATTTACAATTGAGACTCATAAGTTTTTCAATATCACTTTCTACTTTTATGATTG
61 AACTTTTTATC-TTTATAATTGAGGCCCATAATTTTTTCAATCTCACTTTCTAC-TTTATAATTG
130249 AAG
124 AAG
* *
130252 CTCCTAATTTTTTTAT-TCACTTTTTATCTTTATAATTGA-GACCCTAATTTTTTCAATCCAACT
1 CT-CTAATTTTTTAATATCACTTTTTACCTTTATAATTGAGGACCCTAATTTTTTCAATCCAACT
* *
130315 TTTTATTTTTATAATTGATGCCCATAATTTTTTCAATCTCACATTT-TAGCTTTATAATTGAAG
65 TTTTATCTTTATAATTGAGGCCCATAATTTTTTCAATCTCAC-TTTCTA-CTTTATAATTGAAG
* ** * *
130378 TCTCTAATTTTTTAATATCACTTTTTACCTTTATAAATGAGGTTCTTAATTCTTTT-AATATC-A
1 -CTCTAATTTTTTAATATCACTTTTTACCTTTATAATTGAGGACCCTAATT-TTTTCAAT-CCAA
* * * *
130441 TTTTTTATCTTTATAATTGAGGCCCCA-AATTTTTTCAATCTCACTTTCTACCTTTACAAATAAA
63 CTTTTTATCTTTATAATTGAGG-CCCATAATTTTTTCAATCTCACTTTCTA-CTTTATAATTGAA
130505 G
126 G
*
130506 CCTCTAATTTTTTTAATATCACTTTTTACTTTTATAATTGAGG
1 -CTCTAA-TTTTTTAATATCACTTTTTACCTTTATAATTGAGG
130549 CTTTCAATCT
Statistics
Matches: 250, Mismatches: 33, Indels: 28
0.80 0.11 0.09
Matches are distributed among these distances:
125 1 0.00
126 71 0.28
127 32 0.13
128 88 0.35
129 49 0.20
130 9 0.04
ACGTcount: A:0.28, C:0.16, G:0.06, T:0.50
Consensus pattern (126 bp):
CTCTAATTTTTTAATATCACTTTTTACCTTTATAATTGAGGACCCTAATTTTTTCAATCCAACTT
TTTATCTTTATAATTGAGGCCCATAATTTTTTCAATCTCACTTTCTACTTTATAATTGAAG
Found at i:130540 original size:86 final size:86
Alignment explanation
Indices: 130173--130637 Score: 312
Period size: 85 Copynumber: 5.6 Consensus size: 86
130163 GACCTTTAGT
* * * * * * *
130173 TTTTTTTATTCTCACTTTATACATTTACAATTGAGACTCATAAGTTTTTCAATATCACTTTCTAC
1 TTTTTTTAATATCACTTTTTACTTTTATAATTGAGACCCA-AATTTTTTCAATATCACTTTCTAC
* * * *
130238 TTTTATGATTGAAG-CTCCTAA
65 CTTTATAAATGAAGCCTCATAA
* * *
130259 TTTTTTT-AT-TCACTTTTTA-TCTTTATAATTGAGACCCTAATTTTTTCAAT-CCAACTTTTTA
1 TTTTTTTAATATCACTTTTTACT-TTTATAATTGAGACCCAAATTTTTTCAATATC-ACTTTCTA
** * *
130320 TTTTTATAATTGATGCC-CATAA
64 CCTTTATAAATGAAGCCTCATAA
* * * * * * *
130342 TTTTTTCAATCTCACATTTTAGC-TTTATAATTGAAGTCTCTAATTTTTT-AATATCACTTTTTA
1 TTTTTTTAATATCACTTTTTA-CTTTTATAATTG-AGACCCAAATTTTTTCAATATCACTTTCTA
** *
130405 CCTTTATAAATG-AGGTTCTTAA
64 CCTTTATAAATGAAGCCTCATAA
* * * *
130427 TTCTTTTAATATCATTTTTTA-TCTTTATAATTGAGGCCCCAAATTTTTTCAATCTCACTTTCTA
1 TTTTTTTAATATCACTTTTTACT-TTTATAATTGA-GACCCAAATTTTTTCAATATCACTTTCTA
* *
130491 CCTTTACAAATAAAGCCTC-TAA
64 CCTTTATAAATGAAGCCTCATAA
* *
130513 TTTTTTTAATATCACTTTTTACTTTTATAATTGAG--GC------TTTCAATCTCACCTTT-TAC
1 TTTTTTTAATATCACTTTTTACTTTTATAATTGAGACCCAAATTTTTTCAATATCA-CTTTCTAC
*
130569 CTTTATAATTGAAGTCC-C-T-A
65 CTTTATAAATGAAG-CCTCATAA
* *
130589 TTTTTTTAATCTCACTTTTTA-TATTTATAATTGAGACCCTTAATTTTTT
1 TTTTTTTAATATCACTTTTTACT-TTTATAATTGAGACCC-AAATTTTTT
130638 TTAATTTTAC
Statistics
Matches: 304, Mismatches: 47, Indels: 57
0.75 0.12 0.14
Matches are distributed among these distances:
75 1 0.00
76 33 0.11
77 27 0.09
78 7 0.02
82 1 0.00
83 41 0.13
84 28 0.09
85 85 0.28
86 76 0.25
87 5 0.02
ACGTcount: A:0.27, C:0.17, G:0.06, T:0.50
Consensus pattern (86 bp):
TTTTTTTAATATCACTTTTTACTTTTATAATTGAGACCCAAATTTTTTCAATATCACTTTCTACC
TTTATAAATGAAGCCTCATAA
Found at i:130616 original size:42 final size:41
Alignment explanation
Indices: 130554--130734 Score: 152
Period size: 42 Copynumber: 4.3 Consensus size: 41
130544 TGAGGCTTTC
* *
130554 AATCTCACCTTTTACCTTTATAATTGAAGTCCCTATTTTTTT
1 AATCTCACTTTTTACATTTATAATTG-AGTCCCTATTTTTTT
* *
130596 AATCTCACTTTTTATATTTATAATTGAGACCCTTAATTTTTTTT
1 AATCTCACTTTTTACATTTATAATTGAGTCCC-T-A-TTTTTTT
* * **
130640 AATTTTACTTTTTACATTTATAATT-TTTCCCTATTTTTTT
1 AATCTCACTTTTTACATTTATAATTGAGTCCCTATTTTTTT
* * * * * *
130680 AAACTTATTTTTTAGC-TTTATAGTTGAGGTCCCCAATTTTTT
1 AATCTCACTTTTTA-CATTTATAATTGA-GTCCCTATTTTTTT
*
130722 AATC-CAATTTTTA
1 AATCTCACTTTTTA
130735 GTTTCATAAT
Statistics
Matches: 112, Mismatches: 21, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
40 26 0.23
41 14 0.12
42 39 0.35
43 4 0.04
44 29 0.26
ACGTcount: A:0.25, C:0.15, G:0.05, T:0.54
Consensus pattern (41 bp):
AATCTCACTTTTTACATTTATAATTGAGTCCCTATTTTTTT
Found at i:130616 original size:76 final size:77
Alignment explanation
Indices: 130473--130623 Score: 211
Period size: 76 Copynumber: 2.0 Consensus size: 77
130463 CCCCAAATTT
130473 TTTCAATCTCACTTTCTACCTTTACAAATAAAGCCTCTAATTTTTTTAATATCACTTTTTACTTT
1 TTTCAATCTCACTTTCTACCTTTACAAATAAAGCCTCTAATTTTTTTAATATCACTTTTTACTTT
130538 TATAATTGAGGC
66 TATAATTGAGGC
* * * *
130550 TTTCAATCTCACCTTT-TACCTTTATAATTGAAGTCC-CT-ATTTTTTTAATCTCACTTTTTA-T
1 TTTCAATCTCA-CTTTCTACCTTTACAAATAAAG-CCTCTAATTTTTTTAATATCACTTTTTACT
130611 ATTTATAATTGAG
64 -TTTATAATTGAG
130624 ACCCTTAATT
Statistics
Matches: 67, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
75 1 0.01
76 33 0.49
77 27 0.40
78 6 0.09
ACGTcount: A:0.27, C:0.19, G:0.05, T:0.49
Consensus pattern (77 bp):
TTTCAATCTCACTTTCTACCTTTACAAATAAAGCCTCTAATTTTTTTAATATCACTTTTTACTTT
TATAATTGAGGC
Found at i:130660 original size:120 final size:120
Alignment explanation
Indices: 130443--130664 Score: 277
Period size: 120 Copynumber: 1.9 Consensus size: 120
130433 TAATATCATT
* * * *
130443 TTTTATCTTTATAATTGAGGCCCCAAATTTTTTCAATCTCACTTTCTACCTTTACAAATAAAGCC
1 TTTTACCTTTATAATTGAAGCCCCAAATTTTTTCAATCTCACTTTCTACATTTACAAATAAACCC
*
130508 TCTAATTTTTTTAATATCACTTTTTACTTTTATAATTGAGGCTTTCAATCTCACC
66 TCTAATTTTTTTAATATCACTTTTTACATTTATAATTGAGGCTTTCAATCTCACC
* * * * * * * *
130563 TTTTACCTTTATAATTGAAGTCCC-TATTTTTTTAATCTCACTTTTTATATTTATAATTGAGACC
1 TTTTACCTTTATAATTGAAGCCCCAAATTTTTTCAATCTCACTTTCTACATTTACAAAT-AAACC
* *
130627 CT-TAATTTTTTTTAATTTTACTTTTTACATTTATAATT
65 CTCTAA-TTTTTTTAATATCACTTTTTACATTTATAATT
130665 TTTCCCTATT
Statistics
Matches: 85, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
119 30 0.35
120 55 0.65
ACGTcount: A:0.27, C:0.17, G:0.05, T:0.51
Consensus pattern (120 bp):
TTTTACCTTTATAATTGAAGCCCCAAATTTTTTCAATCTCACTTTCTACATTTACAAATAAACCC
TCTAATTTTTTTAATATCACTTTTTACATTTATAATTGAGGCTTTCAATCTCACC
Found at i:136431 original size:30 final size:31
Alignment explanation
Indices: 136395--136458 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
136385 AACTCGTACC
*
136395 TAAGGTTA-TTTTTTAGATTTGACTTAAAAA
1 TAAGGTTATTTTTTTAGATTTAACTTAAAAA
*
136425 TAAGGTTATTTTTTTATATTTAACTTAAAAA
1 TAAGGTTATTTTTTTAGATTTAACTTAAAAA
136456 TAA
1 TAA
136459 TAATAATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 8 0.26
31 23 0.74
ACGTcount: A:0.39, C:0.03, G:0.09, T:0.48
Consensus pattern (31 bp):
TAAGGTTATTTTTTTAGATTTAACTTAAAAA
Found at i:141207 original size:14 final size:14
Alignment explanation
Indices: 141190--141243 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
141180 CAATCCATAC
141190 AAATAAATTATTTA
1 AAATAAATTATTTA
*
141204 AAATAAATCAATCTATA
1 AAATAAAT-TAT-T-TA
*
141221 CTAATAAATTATTTA
1 -AAATAAATTATTTA
141236 AAATAAAT
1 AAATAAAT
141244 CAATTCATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 15 0.47
15 4 0.12
16 2 0.06
17 4 0.12
18 7 0.22
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATAAATTATTTA
Found at i:141207 original size:32 final size:32
Alignment explanation
Indices: 141168--141631 Score: 372
Period size: 32 Copynumber: 16.4 Consensus size: 32
141158 CAATCCATAT
*
141168 TTTAAAATAAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
141200 TTTAAAATAAATCAATCTATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
141232 TTTAAAATAAATCAAT---T-C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
141254 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
141286 TTTAAAATAAATCAATCTATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
141316 --T--AATAAATCAATCC--A-T-AT------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
141334 TTTAAAATAAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
141366 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
141398 TTTAAAATAAATCAAT---T-C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
141420 TTTAAAATAAATCAATTCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
141452 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
141474 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
141506 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
141536 --T--AATAAATCAATCC--A-T-AT------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
141554 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
141586 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
141618 TTTAAAATAAATCA
1 TTTAAAATAAATCA
141632 TTTTAAAATA
Statistics
Matches: 360, Mismatches: 10, Indels: 124
0.73 0.02 0.25
Matches are distributed among these distances:
20 2 0.01
22 76 0.21
23 6 0.02
24 7 0.02
25 3 0.01
26 38 0.11
28 11 0.03
29 2 0.01
30 5 0.01
31 8 0.02
32 202 0.56
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.34
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:141215 original size:54 final size:54
Alignment explanation
Indices: 141151--141608 Score: 171
Period size: 54 Copynumber: 8.3 Consensus size: 54
141141 CAACTACAAT
141151 AATAAATCAATCCATA-TTTTAAAATAAATCAATCCATACAAATAAATTATTTAA
1 AATAAATCAATCCATACTTTTAAAATAAATCAATCCATACAAATAAA-TATTTAA
* ** * ** * ** **
141205 AATAAATCAATCTATACTAATAAATTATTTAAAATAAAT-C-AATTCATATTTTAA
1 AATAAATCAATCCATACTTTTAAAATAAAT-CAATCCATACAAATAAATA-TTTAA
* * *
141259 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCTATACAACTACA-A--T--
1 AATAAATCAATCCATAC--------T-TTTAAAATAAATCAATCCATACAAATAAATATTTAA
141317 AATAAATCAATCCATA-TTTTAAAATAAATCAATCCATACAAATAAATTATTTAA
1 AATAAATCAATCCATACTTTTAAAATAAATCAATCCATACAAATAAA-TATTTAA
* ** * ** * ** **
141371 AATAAATCAATTCATACTAATAAATTATTTAAAATAAAT-C-AATTCATATTTTAA
1 AATAAATCAATCCATACTTTTAAAATAAAT-CAATCCATACAAATAAATA-TTTAA
* *** * ** * ** **
141425 AATAAATCAATTCATACAAATAAATTATTTAAAATAAAT-C-AATCCATATTTTAA
1 AATAAATCAATCCATACTTTTAAAATAAAT-CAATCCATACAAATAAATA-TTTAA
* *
141479 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACA-A--T--
1 AATAAATCAATCCATAC--------T-TTTAAAATAAATCAATCCATACAAATAAATATTTAA
*
141537 AATAAATCAATCCATA-TTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATACTTTTAAAATAAATCAATCCATACAAATAAA-TATTTAA
*
141591 AATAAATCAATTCATACT
1 AATAAATCAATCCATACT
141609 AATAAATTAT
Statistics
Matches: 309, Mismatches: 54, Indels: 81
0.70 0.12 0.18
Matches are distributed among these distances:
48 52 0.17
49 2 0.01
50 2 0.01
52 2 0.01
53 4 0.01
54 147 0.48
55 19 0.06
56 10 0.03
58 32 0.10
60 2 0.01
62 11 0.04
63 18 0.06
64 8 0.03
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (54 bp):
AATAAATCAATCCATACTTTTAAAATAAATCAATCCATACAAATAAATATTTAA
Found at i:141258 original size:22 final size:22
Alignment explanation
Indices: 141232--141274 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
141222 TAATAAATTA
*
141232 TTTAAAATAAATCAATTCATAT
1 TTTAAAATAAATCAATCCATAT
141254 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
141275 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:141267 original size:86 final size:86
Alignment explanation
Indices: 141055--141468 Score: 583
Period size: 86 Copynumber: 4.9 Consensus size: 86
141045 ACAACTACAA
* *
141055 TAATAAATTATTTAAAATAAATCAA-TCTATATTTTAAAAATAAATCAATACATACTAATAAATT
1 TAATAAATTATTTAAAATAAATCAATTC-ATATTTT-AAAATAAATCAATCCATACAAATAAATT
141119 ATTTAAAATAAATCAATTCT-TAC
64 ATTTAAAATAAATCAA-TCTATAC
* *
141142 -AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTA
1 TAA-TAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATACAAATAAATTA
141200 TTTAAAATAAATCAATCTATAC
65 TTTAAAATAAATCAATCTATAC
*
141222 TAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATACAAATAAATTAT
141287 TTAAAATAAATCAATCTATAC
66 TTAAAATAAATCAATCTATAC
* *
141308 -AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTA
1 TAA-TAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATACAAATAAATTA
141366 TTTAAAATAAATCAAT-TCATAC
65 TTTAAAATAAATCAATCT-ATAC
*
141388 TAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATTCATACAAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATACAAATAAATTAT
141453 TTAAAATAAATCAATC
66 TTAAAATAAATCAATC
141469 CATATTTTAA
Statistics
Matches: 294, Mismatches: 13, Indels: 40
0.85 0.04 0.12
Matches are distributed among these distances:
79 4 0.01
80 118 0.40
81 21 0.07
82 4 0.01
83 1 0.00
84 3 0.01
85 3 0.01
86 137 0.47
87 3 0.01
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (86 bp):
TAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATACAAATAAATTAT
TTAAAATAAATCAATCTATAC
Found at i:141283 original size:22 final size:22
Alignment explanation
Indices: 141234--141282 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
141224 ATAAATTATT
* **
141234 TAAAATAAATCAATTCATATTT
1 TAAAATAAATCAATCCATATAA
141256 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
141279 TAAA
1 TAAA
141283 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:141294 original size:166 final size:167
Alignment explanation
Indices: 141055--141467 Score: 744
Period size: 166 Copynumber: 2.5 Consensus size: 167
141045 ACAACTACAA
141055 TAATAAATTATTTAAAATAAATCAA-TCTATATTTTAAAAATAAATCAATACATACTAATAAATT
1 TAATAAATTATTTAAAATAAATCAATTC-ATATTTT-AAAATAAATCAATACATACTAATAAATT
141119 ATTTAAAATAAATCAATTCT-TACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAA
64 ATTTAAAATAAATCAATTCTATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAA
141183 TCCATACAAATAAATTATTTAAAATAAATCAA-TCTATAC
129 TCCATACAAATAAATTATTTAAAATAAATCAATTC-ATAC
*
141222 TAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATACATACTAATAAATTAT
141287 TTAAAATAAATCAA-TCTATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATC
66 TTAAAATAAATCAATTCTATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATC
141351 CATACAAATAAATTATTTAAAATAAATCAATTCATAC
131 CATACAAATAAATTATTTAAAATAAATCAATTCATAC
* *
141388 TAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATTCATACAAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATACATACTAATAAATTAT
141453 TTAAAATAAATCAAT
66 TTAAAATAAATCAAT
141468 CCATATTTTA
Statistics
Matches: 239, Mismatches: 3, Indels: 8
0.96 0.01 0.03
Matches are distributed among these distances:
165 3 0.01
166 200 0.84
167 34 0.14
168 2 0.01
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.35
Consensus pattern (167 bp):
TAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATACATACTAATAAATTAT
TTAAAATAAATCAATTCTATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATC
CATACAAATAAATTATTTAAAATAAATCAATTCATAC
Found at i:141373 original size:14 final size:14
Alignment explanation
Indices: 141356--141409 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
141346 CAATCCATAC
141356 AAATAAATTATTTA
1 AAATAAATTATTTA
*
141370 AAATAAATCAATTCATA
1 AAATAAAT-TATT--TA
*
141387 CTAATAAATTATTTA
1 -AAATAAATTATTTA
141402 AAATAAAT
1 AAATAAAT
141410 CAATTCATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 15 0.47
15 5 0.16
17 5 0.16
18 7 0.22
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATAAATTATTTA
Found at i:141424 original size:22 final size:22
Alignment explanation
Indices: 141398--141440 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
141388 TAATAAATTA
141398 TTTAAAATAAATCAATTCATAT
1 TTTAAAATAAATCAATTCATAT
141420 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATTCATA
141441 CAAATAAATT
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:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTAAAATAAATCAATTCATAT
Found at i:141449 original size:22 final size:22
Alignment explanation
Indices: 141400--141448 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
141390 ATAAATTATT
***
141400 TAAAATAAATCAATTCATATTT
1 TAAAATAAATCAATTCATAAAA
141422 TAAAATAAATCAATTCATACAAA
1 TAAAATAAATCAATTCATA-AAA
141445 TAAA
1 TAAA
141449 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATTCATAAAA
Found at i:141449 original size:220 final size:213
Alignment explanation
Indices: 141190--141737 Score: 844
Period size: 220 Copynumber: 2.6 Consensus size: 213
141180 CAATCCATAC
* *
141190 AAATAAATTA-TTTAAAATAAATCAA-TCTATACTAATAAATTATTTAAAATAAATCAATTCATA
1 AAATAAATCATTTTAAAATAAATCAATTC-ATACTAATAAATTATTTAAAATAAATCAATCCATA
*
141253 TTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCTATACAACTACAATA
65 TTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATA
141318 ATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATT
130 ATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATT
141383 CATACTAATAAATTATTTA
195 CATACTAATAAATTATTTA
*
141402 AAATAAATCAATTCATATTTTAAAATAAATCAATTCATACAAATAAATTATTTAAAATAAATCAA
1 AAAT--A--AA-TC--ATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAA
141467 TCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACT
59 TCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACT
*
141532 ACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA
124 ACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAA
141597 TCAATTCATACTAATAAATTATTTA
189 TCAATTCATACTAATAAATTATTTA
*
141622 AAATAAATCATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAAT--A--AAT-C--AT
1 AAATAAATCATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATAT
* *
141680 TTTAAAATAAATCAATCCATATTTTATAATAATTTATTTTAAAATAAATCAATCCATA
66 TTTAAAATAAATCAATCCATA----CTAATAAATTA-TTTAAAATAAATCAATCCATA
141738 TTTTATAATA
Statistics
Matches: 313, Mismatches: 9, Indels: 29
0.89 0.03 0.08
Matches are distributed among these distances:
206 23 0.07
208 1 0.00
209 3 0.01
210 9 0.03
211 22 0.07
212 4 0.01
213 40 0.13
214 1 0.00
215 2 0.01
216 4 0.01
217 1 0.00
218 1 0.00
219 1 0.00
220 199 0.64
221 2 0.01
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.36
Consensus pattern (213 bp):
AAATAAATCATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATAT
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
TAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATTC
ATACTAATAAATTATTTA
Found at i:141478 original size:22 final size:22
Alignment explanation
Indices: 141452--141494 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
141442 AAATAAATTA
141452 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
141474 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
141495 CTAATAAATT
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:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:141503 original size:22 final size:22
Alignment explanation
Indices: 141454--141502 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
141444 ATAAATTATT
**
141454 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
141476 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
141499 TAAA
1 TAAA
141503 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:141543 original size:166 final size:163
Alignment explanation
Indices: 141055--141631 Score: 670
Period size: 166 Copynumber: 3.5 Consensus size: 163
141045 ACAACTACAA
*
141055 TAATAAATTATTTAAAATAAATCAA-TCTATATTTTAAAAATAAATCAATACATACTAATAAATT
1 TAATAAATTATTTAAAATAAATCAATTC-ATATTTT-AAAATAAATCAATTCATACTAATAAATT
* * * *
141119 ATTTAAAATAAATCAATTCTTACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAAT
64 ATTTAAAATAAATCAATCCATACAACTAAAATAATAAATCAATCAATATTTTAAAATAAATCAAT
141184 CCATACAAATAAATTATTTAAAATAAATCAA-TCTATAC
129 CCATACAAATAAA-TA-TT-AAATAAATCAATTC-ATAC
*
141222 TAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATTCATACTAATAAATTAT
* * *
141287 TTAAAATAAATCAATCTATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
66 TTAAAATAAATCAATCCATACAACTAAAATAATAAATCAATCAATATTTTAAAATAAATCAATCC
141352 ATACAAATAAATTATTTAAAATAAATCAATTCATAC
131 ATACAAATAAA-TA-TT-AAATAAATCAATTCATAC
*
141388 TAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATTCATACAAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATTCATACTAATAAATTAT
*** * *
141453 TTAAAATAAATCAATCCATA-TTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA
66 TTAAAATAAATCAATCCATACAACTAAAAT-AATAAATCAAT-C-AAT--A-T-TTTAAAATAAA
* * * *
141517 TCAATCCATACAACTACAATAATAAATCAATCCATATT-TTA-
124 TCAATCCATACAAATA-AATATTAAATAAAT-CA-ATTCATAC
* * ** * * *
141558 AAATAAATCAATCCATACT-AAT-AAAT--TA-TTTAAAATAAATCAATTCATACTAATAAATTA
1 TAATAAAT-TATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATTCATACTAATAAATTA
141618 TTTAAAATAAATCA
65 TTTAAAATAAATCA
141632 TTTTAAAATA
Statistics
Matches: 371, Mismatches: 26, Indels: 27
0.88 0.06 0.06
Matches are distributed among these distances:
165 5 0.01
166 260 0.70
167 37 0.10
168 4 0.01
169 3 0.01
170 18 0.05
171 11 0.03
172 31 0.08
173 2 0.01
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (163 bp):
TAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATTCATACTAATAAATTAT
TTAAAATAAATCAATCCATACAACTAAAATAATAAATCAATCAATATTTTAAAATAAATCAATCC
ATACAAATAAATATTAAATAAATCAATTCATAC
Found at i:141559 original size:80 final size:80
Alignment explanation
Indices: 141420--141678 Score: 348
Period size: 80 Copynumber: 3.2 Consensus size: 80
141410 CAATTCATAT
* *
141420 TTTAAAATAAATCAATTCATACAAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAAT-AA--A-TT--AATAAATCAATCCATATTTTAAAATAAA
141485 TCAATCCATACTAATAAATTA
60 TCAATCCATACTAATAAATTA
141506 TTTAAAATAAATCAATCCATAC-AACTACAA-TAATAAATCAATCCATATTTTAAAATAAATCAA
1 TTTAAAATAAATCAATCCATACTAA-TA-AATTAATAAATCAATCCATATTTTAAAATAAATCAA
141569 TCCATACTAATAAATTA
64 TCCATACTAATAAATTA
* * *
141586 TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAAT-C--ATTTTAAAATAAATCAA
1 TTTAAAATAAATCAATCCATACTAATAAATTA-AT-AAATCAATCCATATTTTAAAATAAATCAA
141648 TCCATACTAATAAATTA
64 TCCATACTAATAAATTA
141665 TTTAAAATAAATCA
1 TTTAAAATAAATCA
141679 TTTTAAAATA
Statistics
Matches: 163, Mismatches: 4, Indels: 19
0.88 0.02 0.10
Matches are distributed among these distances:
79 50 0.31
80 74 0.45
81 4 0.02
82 8 0.05
84 1 0.01
85 3 0.02
86 23 0.14
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.34
Consensus pattern (80 bp):
TTTAAAATAAATCAATCCATACTAATAAATTAATAAATCAATCCATATTTTAAAATAAATCAATC
CATACTAATAAATTA
Found at i:141583 original size:22 final size:23
Alignment explanation
Indices: 141508--141582 Score: 82
Period size: 22 Copynumber: 3.2 Consensus size: 23
141498 ATAAATTATT
141508 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
**
141530 CTACAATAATAAATCAATCCATA-TTT
1 -T--AA-AATAAATCAATCCATACTAA
141556 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
141579 TAAA
1 TAAA
141583 TTATTTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
22 16 0.37
23 8 0.19
25 3 0.07
26 16 0.37
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:141710 original size:22 final size:22
Alignment explanation
Indices: 141678--141748 Score: 75
Period size: 22 Copynumber: 3.5 Consensus size: 22
141668 AAAATAAATC
141678 ATTTTAAAATAAATCAATCCAT
1 ATTTTAAAATAAATCAATCCAT
*
141700 ATTTT---AT-AAT-AAT--TT
1 ATTTTAAAATAAATCAATCCAT
141715 ATTTTAAAATAAATCAATCCAT
1 ATTTTAAAATAAATCAATCCAT
*
141737 ATTTTATAATAA
1 ATTTTAAAATAA
141749 TTTATTTTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 14
0.70 0.05 0.25
Matches are distributed among these distances:
15 6 0.15
17 3 0.08
18 5 0.13
19 5 0.13
20 3 0.08
22 17 0.44
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (22 bp):
ATTTTAAAATAAATCAATCCAT
Found at i:141715 original size:47 final size:47
Alignment explanation
Indices: 141577--141700 Score: 223
Period size: 47 Copynumber: 2.7 Consensus size: 47
141567 AATCCATACT
* *
141577 AATAAATTA-TTTAAAATAAATCAATTCATACTAATAAATTATTTAA
1 AATAAATCATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
141623 AATAAATCATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
141670 AATAAATCATTTTAAAATAAATCAATCCATA
1 AATAAATCATTTTAAAATAAATCAATCCATA
141701 TTTTATAATA
Statistics
Matches: 75, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
46 8 0.11
47 67 0.89
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.36
Consensus pattern (47 bp):
AATAAATCATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
Found at i:141719 original size:37 final size:37
Alignment explanation
Indices: 141678--141795 Score: 178
Period size: 37 Copynumber: 3.4 Consensus size: 37
141668 AAAATAAATC
141678 ATTTTAAAATAAATCAATCCATATTTTATAATAATTT
1 ATTTTAAAATAAATCAATCCATATTTTATAATAATTT
141715 ATTTTAAAATAAATCAATCCATATTTTATAATAATTT
1 ATTTTAAAATAAATCAATCCATATTTTATAATAATTT
*
141752 ATTTTAAAAT--A--AAT---TATTTTATAATAAATT
1 ATTTTAAAATAAATCAATCCATATTTTATAATAATTT
141782 ATTTTAAAATAAAT
1 ATTTTAAAATAAAT
141796 AACCTTATTA
Statistics
Matches: 77, Mismatches: 1, Indels: 10
0.88 0.01 0.11
Matches are distributed among these distances:
30 25 0.32
32 1 0.01
33 3 0.04
35 1 0.01
37 47 0.61
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.47
Consensus pattern (37 bp):
ATTTTAAAATAAATCAATCCATATTTTATAATAATTT
Found at i:141794 original size:15 final size:15
Alignment explanation
Indices: 141577--141795 Score: 111
Period size: 15 Copynumber: 13.5 Consensus size: 15
141567 AATCCATACT
141577 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
* * *
141591 AATAAATCAATTCATACT
1 AATAAAT-TATT-TTA-A
141609 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
*
141623 AATAAATCATTTTAA
1 AATAAATTATTTTAA
* ** *
141638 AATAAATCAATCCATACT
1 AATAAAT-TAT-TTTA-A
141656 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
*
141670 AATAAATCATTTTAA
1 AATAAATTATTTTAA
*
141685 AATAAATCAATCCATATTTTAT
1 AAT--A--AAT---TATTTTAA
*
141707 AATAATTTATTTTAA
1 AATAAATTATTTTAA
*
141722 AATAAATCAATCCATATTTTAT
1 AAT--A--AAT---TATTTTAA
*
141744 AATAATTTATTTTAA
1 AATAAATTATTTTAA
*
141759 AATAAATTATTTTAT
1 AATAAATTATTTTAA
141774 AATAAATTATTTTAA
1 AATAAATTATTTTAA
141789 AATAAAT
1 AATAAAT
141796 AACCTTATTA
Statistics
Matches: 155, Mismatches: 27, Indels: 45
0.68 0.12 0.20
Matches are distributed among these distances:
14 23 0.15
15 76 0.49
16 4 0.03
17 8 0.05
18 18 0.12
19 5 0.03
20 2 0.01
22 19 0.12
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:146846 original size:81 final size:81
Alignment explanation
Indices: 146752--146902 Score: 189
Period size: 83 Copynumber: 1.8 Consensus size: 81
146742 CTCCATTAAT
* * * * *
146752 ACTCAATAGCGGCGTTTGT-ATAAAACGCCGCTAAATGGCTACTCTTTTGTTGCGTTTTTT-TAT
1 ACTCAATACCGGCGTTTGTCAT-AAACGCCGCTAAATGACCACTCTATTGTAGCGTTTTTTGTA-
146815 AAAACACCACTATAAATA
64 AAAACACCACTATAAATA
* *
146833 ACTCTATACCGGCGTTTGTGCCATAAACGCCGCTAAATTACCACTCTATTGTAGCGTTTTTTGTA
1 ACTCAATACCGGCGTTTGT--CATAAACGCCGCTAAATGACCACTCTATTGTAGCGTTTTTTGTA
146898 AAAAC
64 AAAAC
146903 GTCGCTATAT
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
81 17 0.29
83 38 0.64
84 4 0.07
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (81 bp):
ACTCAATACCGGCGTTTGTCATAAACGCCGCTAAATGACCACTCTATTGTAGCGTTTTTTGTAAA
AACACCACTATAAATA
Found at i:147326 original size:51 final size:50
Alignment explanation
Indices: 147263--147389 Score: 148
Period size: 51 Copynumber: 2.5 Consensus size: 50
147253 TTAGCAGTAA
** *
147263 AGCGCGCCCCCTGCGCCGCGCTATACGATGATTTGGCGCCACGTGGAGTAT
1 AGCGCGCCCCCTGCGCCGCGCTATACGATGAGCTGGCGCCACGTAG-GTAT
* * * *
147314 AGTGCGCCCCCTGCACCGCTCTATACGGTGAGCTGGCGCCACGTAGGTAT
1 AGCGCGCCCCCTGCGCCGCGCTATACGATGAGCTGGCGCCACGTAGGTAT
* *
147364 AGCGCGTCCCTTGCAG-CGCGCTATAC
1 AGCGCGCCCCCTGC-GCCGCGCTATAC
147390 CTGTATATCT
Statistics
Matches: 63, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
50 24 0.38
51 39 0.62
ACGTcount: A:0.16, C:0.35, G:0.30, T:0.20
Consensus pattern (50 bp):
AGCGCGCCCCCTGCGCCGCGCTATACGATGAGCTGGCGCCACGTAGGTAT
Found at i:149529 original size:47 final size:49
Alignment explanation
Indices: 149412--149534 Score: 151
Period size: 47 Copynumber: 2.5 Consensus size: 49
149402 AGTTATACAA
*
149412 AACGCGATACCTGCCCCGCGCTATATAAAATTATGTCAGGAGTAAAGGTAT
1 AACGCGGTACCTGCCCCGCGCTATATAAAATTATGTC--GAGTAAAGGTAT
** * *
149463 GTCACGGTTCCTGCCCCGCGCTATATAAAATTATG-C-AGTAAAGGTAT
1 AACGCGGTACCTGCCCCGCGCTATATAAAATTATGTCGAGTAAAGGTAT
**
149510 AACGCGGTACCTGATCCGCGCTATA
1 AACGCGGTACCTGCCCCGCGCTATA
149535 CCCCTACGTG
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
47 30 0.49
50 1 0.02
51 30 0.49
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.24
Consensus pattern (49 bp):
AACGCGGTACCTGCCCCGCGCTATATAAAATTATGTCGAGTAAAGGTAT
Found at i:153438 original size:2 final size:2
Alignment explanation
Indices: 153433--153467 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
153423 GATGTAATAT
153433 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
153468 ATATATATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Done.