Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000885.1 Hibiscus syriacus cultivar Beakdansim tig00001728_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: 1639497
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 7
Found at i:6126 original size:21 final size:21
Alignment explanation
Indices: 6100--6140 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
6090 AGTATGTCCA
6100 GGGGGGTATCGATTCCCCCTG
1 GGGGGGTATCGATTCCCCCTG
6121 GGGGGGTATCGATTCCCCCT
1 GGGGGGTATCGATTCCCCCT
6141 TAAAGGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.10, C:0.29, G:0.37, T:0.24
Consensus pattern (21 bp):
GGGGGGTATCGATTCCCCCTG
Found at i:8350 original size:15 final size:15
Alignment explanation
Indices: 8330--8368 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
8320 AAGACATAAG
8330 CTATGTGAAAATGGT
1 CTATGTGAAAATGGT
8345 CTATGTGAAAATGGT
1 CTATGTGAAAATGGT
8360 CTATGTGAA
1 CTATGTGAA
8369 TAAATATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.26, T:0.33
Consensus pattern (15 bp):
CTATGTGAAAATGGT
Found at i:8502 original size:23 final size:23
Alignment explanation
Indices: 8472--8581 Score: 114
Period size: 23 Copynumber: 4.8 Consensus size: 23
8462 GAGTCGAGGG
*
8472 TTCTACGTGGTCCTTCGGGATAA
1 TTCTACGTGGTCCTTCGGGACAA
*
8495 TTCTACGTGGTCCTTCGGGACAT
1 TTCTACGTGGTCCTTCGGGACAA
* *
8518 TTCTACGCGGTCCTTCAGGACAA
1 TTCTACGTGGTCCTTCGGGACAA
* * ** *
8541 TACTATGTGGTCCTTTAGGACAT
1 TTCTACGTGGTCCTTCGGGACAA
*
8564 TTCTATGTGG-CACTTCGG
1 TTCTACGTGGTC-CTTCGG
8582 TGCAATTTCT
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
22 1 0.01
23 72 0.99
ACGTcount: A:0.17, C:0.24, G:0.25, T:0.35
Consensus pattern (23 bp):
TTCTACGTGGTCCTTCGGGACAA
Found at i:8524 original size:46 final size:46
Alignment explanation
Indices: 8472--8581 Score: 132
Period size: 46 Copynumber: 2.4 Consensus size: 46
8462 GAGTCGAGGG
* * *
8472 TTCTACGTGGTCCTTCGGGATAATTCTACGTGGTCCTTCGGGACAT
1 TTCTACGTGGTCCTTCGGGACAATACTACGTGGTCCTTCAGGACAT
* * * *
8518 TTCTACGCGGTCCTTCAGGACAATACTATGTGGTCCTTTAGGACAT
1 TTCTACGTGGTCCTTCGGGACAATACTACGTGGTCCTTCAGGACAT
*
8564 TTCTATGTGG-CACTTCGG
1 TTCTACGTGGTC-CTTCGG
8582 TGCAATTTCT
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
45 1 0.02
46 52 0.98
ACGTcount: A:0.17, C:0.24, G:0.25, T:0.35
Consensus pattern (46 bp):
TTCTACGTGGTCCTTCGGGACAATACTACGTGGTCCTTCAGGACAT
Found at i:15352 original size:16 final size:16
Alignment explanation
Indices: 15317--15354 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
15307 AGACATAAGC
*
15317 TATGTGAAAAATGGTC
1 TATGTGAAAAATGGTA
15333 TATGTGAATAAAT-GTA
1 TATGTGAA-AAATGGTA
15349 TATGTG
1 TATGTG
15355 GTAAGCTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.37, C:0.03, G:0.24, T:0.37
Consensus pattern (16 bp):
TATGTGAAAAATGGTA
Found at i:15926 original size:19 final size:19
Alignment explanation
Indices: 15902--15940 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
15892 AGATCATAAT
15902 TGATTTAAATAGTAGGTTC
1 TGATTTAAATAGTAGGTTC
15921 TGATTTAAATAGTAGGTTC
1 TGATTTAAATAGTAGGTTC
15940 T
1 T
15941 TTGTTGTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.44
Consensus pattern (19 bp):
TGATTTAAATAGTAGGTTC
Found at i:17689 original size:6 final size:6
Alignment explanation
Indices: 17668--17757 Score: 72
Period size: 6 Copynumber: 15.0 Consensus size: 6
17658 AAGTTGACAC
* * * * *
17668 ACATAT ACATAT ACATAG ACATAT ATATAT ATATAT ATATAT ATATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * * * * * *
17716 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
17758 TAAGTTTAGG
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 81 1.00
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.44
Consensus pattern (6 bp):
ACATAT
Found at i:17695 original size:2 final size:2
Alignment explanation
Indices: 17688--17757 Score: 140
Period size: 2 Copynumber: 35.0 Consensus size: 2
17678 ATACATAGAC
17688 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17730 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17758 TAAGTTTAGG
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18289 original size:20 final size:21
Alignment explanation
Indices: 18251--18289 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
18241 TTTTTTAATT
* *
18251 ATTTTTAAAATTAATAAAATA
1 ATTTTTAAAATAAAGAAAATA
18272 ATTTTTAAAA-AAAGAAAA
1 ATTTTTAAAATAAAGAAAA
18290 AAACGATGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (21 bp):
ATTTTTAAAATAAAGAAAATA
Found at i:24571 original size:20 final size:20
Alignment explanation
Indices: 24546--24594 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
24536 CCCTGATAAC
24546 ATTGATACTGGCCTTGTGGT
1 ATTGATACTGGCCTTGTGGT
24566 ATTGATACTGGCCTTGTGGT
1 ATTGATACTGGCCTTGTGGT
24586 ATTGATACT
1 ATTGATACT
24595 ACCCTGAGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.18, C:0.14, G:0.27, T:0.41
Consensus pattern (20 bp):
ATTGATACTGGCCTTGTGGT
Found at i:40503 original size:15 final size:17
Alignment explanation
Indices: 40459--40511 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 17
40449 TGCTTTAATC
40459 AGTATCGATACCAATGG
1 AGTATCGATACCAATGG
40476 AGTAGCTTCGATACCAA-GG
1 AGTA---TCGATACCAATGG
*
40495 -GTATCGATACTAATGG
1 AGTATCGATACCAATGG
40511 A
1 A
40512 CAAGTATCGG
Statistics
Matches: 30, Mismatches: 1, Indels: 10
0.73 0.02 0.24
Matches are distributed among these distances:
15 9 0.30
16 2 0.07
17 4 0.13
18 3 0.10
19 2 0.07
20 10 0.33
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.25
Consensus pattern (17 bp):
AGTATCGATACCAATGG
Found at i:41201 original size:23 final size:23
Alignment explanation
Indices: 41175--41268 Score: 116
Period size: 23 Copynumber: 4.1 Consensus size: 23
41165 TGTTCTACGC
* *
41175 GGTCCTCTGGGATAATTCTATGT
1 GGTCCTTTGGGACAATTCTATGT
* * *
41198 GGTCCTTTGGGACATTTTTACGT
1 GGTCCTTTGGGACAATTCTATGT
* *
41221 GGTCCTTCGGGACAATACTATGT
1 GGTCCTTTGGGACAATTCTATGT
*
41244 GGTCCTTTGGGACATTTCTATGT
1 GGTCCTTTGGGACAATTCTATGT
41267 GG
1 GG
41269 CACTTCGGTG
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 58 1.00
ACGTcount: A:0.16, C:0.18, G:0.28, T:0.38
Consensus pattern (23 bp):
GGTCCTTTGGGACAATTCTATGT
Found at i:41275 original size:46 final size:46
Alignment explanation
Indices: 41167--41276 Score: 143
Period size: 46 Copynumber: 2.4 Consensus size: 46
41157 GAGTCAAGTG
* * *
41167 TTCTACGCGGTCC-TCTGGGATAATTCTATGTGGTCCTTTGGGACAT
1 TTCTACGTGGTCCTTC-GGGACAATACTATGTGGTCCTTTGGGACAT
*
41213 TTTTACGTGGTCCTTCGGGACAATACTATGTGGTCCTTTGGGACAT
1 TTCTACGTGGTCCTTCGGGACAATACTATGTGGTCCTTTGGGACAT
*
41259 TTCTATGTGG-CACTTCGG
1 TTCTACGTGGTC-CTTCGG
41277 TGCAATTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
45 1 0.02
46 53 0.95
47 2 0.04
ACGTcount: A:0.15, C:0.21, G:0.26, T:0.37
Consensus pattern (46 bp):
TTCTACGTGGTCCTTCGGGACAATACTATGTGGTCCTTTGGGACAT
Found at i:41292 original size:24 final size:24
Alignment explanation
Indices: 41257--41313 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
41247 CCTTTGGGAC
*
41257 ATTTCTATGTGGCACTTCGGTGCA
1 ATTTCTACGTGGCACTTCGGTGCA
*
41281 ATTTCTACGTGGCACTTTGGTGCA
1 ATTTCTACGTGGCACTTCGGTGCA
*
41305 ATTTGTACG
1 ATTTCTACG
41314 ACCTGTGGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.18, C:0.19, G:0.25, T:0.39
Consensus pattern (24 bp):
ATTTCTACGTGGCACTTCGGTGCA
Found at i:48974 original size:16 final size:16
Alignment explanation
Indices: 48953--48986 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
48943 CCACCCTTTG
48953 ATATCTCATTTTCACC
1 ATATCTCATTTTCACC
48969 ATATCTCATTTTCACC
1 ATATCTCATTTTCACC
48985 AT
1 AT
48987 TTTCTTGTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.26, C:0.29, G:0.00, T:0.44
Consensus pattern (16 bp):
ATATCTCATTTTCACC
Found at i:54739 original size:31 final size:31
Alignment explanation
Indices: 54698--54801 Score: 118
Period size: 31 Copynumber: 3.4 Consensus size: 31
54688 TGATAATTTT
* *
54698 ATGATTATTTTGTAATAGTTTGATAAGTTCA
1 ATGATTATTTTGTAATAATTTGATAAATTCA
* *
54729 ATGATCATTTTGTAATAATTTGATAAATTTA
1 ATGATTATTTTGTAATAATTTGATAAATTCA
* * * * *
54760 ATGATTATTTTATAATAAGTTAATATATTTA
1 ATGATTATTTTGTAATAATTTGATAAATTCA
*
54791 ATGAGTATTTT
1 ATGATTATTTT
54802 ATAACTTTTG
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.37, C:0.02, G:0.12, T:0.50
Consensus pattern (31 bp):
ATGATTATTTTGTAATAATTTGATAAATTCA
Found at i:56835 original size:59 final size:59
Alignment explanation
Indices: 56735--56857 Score: 153
Period size: 59 Copynumber: 2.1 Consensus size: 59
56725 AGTTCCCCAT
**
56735 ACTATACTCTCATTTGAAATTGGTTCTTAAACTCTAAAACATTCTATATCGGTCCTCAA
1 ACTATACTCTCATTTGAAATTGGTTCTTAAACTCTAAAACATTCTATATCAATCCTCAA
* * *
56794 ACTATAAC-CTCATTCT-AAATTGG-TCTGTAAACTTTAGAACATTCTTTATCAATCCTCAA
1 ACTAT-ACTCTCATT-TGAAATTGGTTCT-TAAACTCTAAAACATTCTATATCAATCCTCAA
56853 ACTAT
1 ACTAT
56858 CAATATTATT
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
58 3 0.05
59 50 0.89
60 3 0.05
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.37
Consensus pattern (59 bp):
ACTATACTCTCATTTGAAATTGGTTCTTAAACTCTAAAACATTCTATATCAATCCTCAA
Found at i:56948 original size:24 final size:24
Alignment explanation
Indices: 56921--56981 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 24
56911 GAATTCCTGG
56921 AAATTGAATCTATATCATT-TAAAA
1 AAATTGAATCTATATC-TTCTAAAA
*
56945 AAATTGAA-CATGTTATCTTCTAAAA
1 AAATTGAATC-T-ATATCTTCTAAAA
56970 AAATT-AATCTAT
1 AAATTGAATCTAT
56982 TTTTGAAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
23 2 0.06
24 14 0.45
25 15 0.48
ACGTcount: A:0.48, C:0.10, G:0.05, T:0.38
Consensus pattern (24 bp):
AAATTGAATCTATATCTTCTAAAA
Found at i:57020 original size:21 final size:20
Alignment explanation
Indices: 56981--57020 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
56971 AATTAATCTA
* *
56981 TTTTTGAAGATCCTGAATTT
1 TTTTTGAAGATCATAAATTT
57001 TTTTTAGAAGATCATAAATT
1 TTTTT-GAAGATCATAAATT
57021 CAACTATCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTTTGAAGATCATAAATTT
Found at i:58120 original size:23 final size:23
Alignment explanation
Indices: 58094--58142 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
58084 TCAATCATAA
* *
58094 TAACATATTAGGTAGCG-CTTATT
1 TAACATAATAGATAGCGCCTT-TT
*
58117 TAACGTAATAGATAGCGCCTTTT
1 TAACATAATAGATAGCGCCTTTT
58140 TAA
1 TAA
58143 AGCTGATGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 19 0.86
24 3 0.14
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (23 bp):
TAACATAATAGATAGCGCCTTTT
Found at i:58220 original size:226 final size:226
Alignment explanation
Indices: 57826--58748 Score: 1417
Period size: 226 Copynumber: 4.1 Consensus size: 226
57816 AATATTGACA
** *
57826 ATAACATAACCACTTAATTATTGGAAACATTATCAAAT-ATAATAACATATTAGGTAGCGCTTAT
1 ATAACATAACCGGTTAATTACTGGAAACATTATC-AATCATAATAACATATTAGGTAGCGCTTAT
* *
57890 GTAACGTAATAGGTAGCGCCTTTTTAAAGCTGGTGGGGCCTTAGAAATCCGACGATAACAAAATA
65 GTAACGTAATAGGTAGCGCCTTTTTAAAGCTGATGGGGCTTTAGAAATCCGACGATAACAAAATA
*
57955 GGTTTATTACTTAATTTGTTATCAGTATTATCAACATATTAGGTAACGCCTAAAATGTTACCAAA
130 GGTTAATTACTTAATTTGTTATCAGTATTATCAACATATTAGGTAACGCCTAAAATGTTACCAAA
* *
58020 ATTTAAGCTGATGGAGCCTTAGGAATCCGACG
195 GTTTAAGCTGATGGAGCCTTAGAAATCCGACG
* * * *
58052 ATAACATAATCGGCTAATTGCTGGAAACATTATCAATCATAATAACATATTAGGTAGCGCTTATT
1 ATAACATAACCGGTTAATTACTGGAAACATTATCAATCATAATAACATATTAGGTAGCGCTTATG
* * *
58117 TAACGTAATAGATAGCGCCTTTTTAAAGCTGATGGGGCTTTAAAAATCTGACGATAACAAAATAG
66 TAACGTAATAGGTAGCGCCTTTTTAAAGCTGATGGGGCTTTAGAAATCCGACGATAACAAAATAG
* *
58182 ATTAATTACTTAATTTGTTATCAGTATTATCAACATATTAGGTAACACCTAAAATGTTACCAAAG
131 GTTAATTACTTAATTTGTTATCAGTATTATCAACATATTAGGTAACGCCTAAAATGTTACCAAAG
* *
58247 TTTAAGCTGATGGAGCCTTAGGAATCTGACG
196 TTTAAGCTGATGGAGCCTTAGAAATCCGACG
* *
58278 ATAACATAACCGGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAGTGCTTATG
1 ATAACATAACCGGTTAATTACTGGAAACATTATCAATCATAATAACATATTAGGTAGCGCTTATG
* **
58343 TAACGTAATAGGTAGCGCCTTTTTAAAGCTGATGAGATTTTAGAAATCCGACGATAACAAAATAG
66 TAACGTAATAGGTAGCGCCTTTTTAAAGCTGATGGGGCTTTAGAAATCCGACGATAACAAAATAG
*
58408 GTT-A--A-TTAATTTGTTATTAGTATTATCAACATATTAGGTAACGCCTAAAATGTTACCAAAG
131 GTTAATTACTTAATTTGTTATCAGTATTATCAACATATTAGGTAACGCCTAAAATGTTACCAAAG
* * ** *
58469 TTTAAGCTGATGGAACCTTATAAATATGATG
196 TTTAAGCTGATGGAGCCTTAGAAATCCGACG
* *
58500 ATAACATAACCAGTTAATTACTGGAAACATTATC-ATGTATAATAACATATTAGGTAGCGCTTAT
1 ATAACATAACCGGTTAATTACTGGAAACATTATCAAT-CATAATAACATATTAGGTAGCGCTTAT
* *
58564 GTAACGTAATAGGTAGCTCCTTTTTTAAAGCTGATGGGGCTTTAGAAATCTGACGATAACAAAAT
65 GTAACGTAATAGGTAGCGCC-TTTTTAAAGCTGATGGGGCTTTAGAAATCCGACGATAACAAAAT
* * * *
58629 ATGTTAATTACTTAATTTGTTATTAGTATTATCAACATATTAGGTAACTCCTAAACTGTTACCAA
129 AGGTTAATTACTTAATTTGTTATCAGTATTATCAACATATTAGGTAACGCCTAAAATGTTACCAA
58694 AGTTTAAGCTGATGGAGCCTTAGAAATCCGACG
194 AGTTTAAGCTGATGGAGCCTTAGAAATCCGACG
**
58727 ATAACATAATTGGTTAATTACT
1 ATAACATAACCGGTTAATTACT
58749 TGAATTGTTA
Statistics
Matches: 633, Mismatches: 57, Indels: 13
0.90 0.08 0.02
Matches are distributed among these distances:
221 1 0.00
222 157 0.25
223 45 0.07
224 1 0.00
225 4 0.01
226 326 0.52
227 99 0.16
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.32
Consensus pattern (226 bp):
ATAACATAACCGGTTAATTACTGGAAACATTATCAATCATAATAACATATTAGGTAGCGCTTATG
TAACGTAATAGGTAGCGCCTTTTTAAAGCTGATGGGGCTTTAGAAATCCGACGATAACAAAATAG
GTTAATTACTTAATTTGTTATCAGTATTATCAACATATTAGGTAACGCCTAAAATGTTACCAAAG
TTTAAGCTGATGGAGCCTTAGAAATCCGACG
Found at i:59183 original size:14 final size:14
Alignment explanation
Indices: 59164--59190 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
59154 TATATATGTG
59164 TGTGTGTGTGTATT
1 TGTGTGTGTGTATT
59178 TGTGTGTGTGTAT
1 TGTGTGTGTGTAT
59191 CGATACATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.00, G:0.37, T:0.56
Consensus pattern (14 bp):
TGTGTGTGTGTATT
Found at i:71336 original size:20 final size:20
Alignment explanation
Indices: 71293--71363 Score: 117
Period size: 20 Copynumber: 3.6 Consensus size: 20
71283 CGACCAAGAG
*
71293 CATGTATCTTCATT-AAAAT
1 CATGTATTTTCATTAAAAAT
*
71312 AATGTATTTTCATTAAAAAT
1 CATGTATTTTCATTAAAAAT
71332 CATGTATTTTCATTAAAAAT
1 CATGTATTTTCATTAAAAAT
71352 CATGTATTTTCA
1 CATGTATTTTCA
71364 AAGGGGTTTC
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
19 12 0.25
20 36 0.75
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.45
Consensus pattern (20 bp):
CATGTATTTTCATTAAAAAT
Found at i:72865 original size:3 final size:3
Alignment explanation
Indices: 72853--72890 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
72843 CAAAACATTT
72853 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
72891 AACATTTTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:73623 original size:138 final size:138
Alignment explanation
Indices: 73362--73623 Score: 368
Period size: 138 Copynumber: 1.9 Consensus size: 138
73352 TCGAAGTGTC
* * *
73362 GAAATGGAAATTCACAAACTTATTATGAATTCCATGGATGCACACATAGTACCGAAAGTACACAT
1 GAAATGGAAATTCACAAACTTATTATGAATACCATGGATGCACACATAGTACCAAAAGTACACAC
* * *
73427 AGTACTGATACGAAAATGCACTGTTATGCATTAAACAAAATCCATCGATAACTTTTATACATCAT
66 AATACTGATACGAAAATGCACTGTTATGCATTAAACAAAATCCATCGAGAACTATTATACATCAT
73492 TGTATAAT
131 TGTATAAT
** *
73500 GAAATGGTGATTCACAAACTTATTATGAATACCAT-GATTGCACATC-TAGTGCCAAAAGTACAC
1 GAAATGGAAATTCACAAACTTATTATGAATACCATGGA-TGCACA-CATAGTACCAAAAGTACAC
* * *
73563 ACAATACTGATATGAAAATGCA-TCGTTATGCATTAAACAAAATCGATTGAGAACTATTATA
64 ACAATACTGATACGAAAATGCACT-GTTATGCATTAAACAAAATCCATCGAGAACTATTATA
73624 TACAATTTAT
Statistics
Matches: 109, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
137 3 0.03
138 105 0.96
139 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.29
Consensus pattern (138 bp):
GAAATGGAAATTCACAAACTTATTATGAATACCATGGATGCACACATAGTACCAAAAGTACACAC
AATACTGATACGAAAATGCACTGTTATGCATTAAACAAAATCCATCGAGAACTATTATACATCAT
TGTATAAT
Found at i:75411 original size:200 final size:200
Alignment explanation
Indices: 75068--75964 Score: 1184
Period size: 200 Copynumber: 4.5 Consensus size: 200
75058 ATTGGGGTAT
** * * * **
75068 TACAAAAAGTATATATACTTTATGTTTACGTATTTTGTCATTACACCG-ATATATTTTTATAACT
1 TACAAAAAGTATCGAAACTTTATGTTTACGTATTTTGTCATTA-ACAGTGTATATTTTTACCACT
* *
75132 TACATTGTAAATTTACCTATTACTTTAAATTAATC-AGTTTTGAAGTTTTAATAATCGATACTTT
65 TACATTGTAAATTTACCTATTACTTTAAATTAATCGA-TTTCGAAGTTTTAAGAATCGATACTTT
75196 TCATACGTGTATCGATACTTTCTGCGTACATCT-ACTTTGGGAAGCATACTGGACCAAAAGTATC
129 TCATACGTGTATCGATACTTTCTGCGTACATCTCA-TTTGGGAAGCATACTGGACCAAAAGTATC
75260 GATACATA
193 GATACATA
* * * *
75268 TACAAAATGTATCGAAACTTTATGTTTATGTATTTTTTCATTAACAGTGCT-TATTTTTACCGCT
1 TACAAAAAGTATCGAAACTTTATGTTTACGTATTTTGTCATTAACAGTG-TATATTTTTACCACT
* * * * *
75332 AACATTTTAAATTTATCTATTACTTTAAATTAATCGATTTTGAAGTTTTAGGAATCGATACTTTT
65 TACATTGTAAATTTACCTATTACTTTAAATTAATCGATTTCGAAGTTTTAAGAATCGATACTTTT
* * **
75397 CATAAGTGTATCGATACTTTCTGCGTGCATCTTGTTTGGGAAGCATACTGGACCAAAAGTATCGA
130 CATACGTGTATCGATACTTTCTGCGTACATCTCATTTGGGAAGCATACTGGACCAAAAGTATCGA
75462 TACATA
195 TACATA
* * * *
75468 TATAAAAAGTATCGAAACTTTATGTTTACGTATTTTTTCATTAAACCG-GTATATGTTTA-CAGC
1 TACAAAAAGTATCGAAACTTTATGTTTACGTATTTTGTCATT-AACAGTGTATATTTTTACCA-C
* * *
75531 TTACATAGTAAATTTACCTATTACTTTAAATTAATCGGTTTCGAAGTTTTAAGAATTGATACTTT
64 TTACATTGTAAATTTACCTATTACTTTAAATTAATCGATTTCGAAGTTTTAAGAATCGATACTTT
* * * *
75596 TCATACGTGTATCGATACTTTCTGCGTGCATCTCGTTCGGGAAGCATATTGGA-CAAAGAGTATC
129 TCATACGTGTATCGATACTTTCTGCGTACATCTCATTTGGGAAGCATACTGGACCAAA-AGTATC
75660 GATACATA
193 GATACATA
* * *
75668 TACAAAAAGGATCAAAACTTTATGTTTACGTATTTTGTCATTAA-ATGGGTATATTTTTACCACT
1 TACAAAAAGTATCGAAACTTTATGTTTACGTATTTTGTCATTAACA-GTGTATATTTTTACCACT
* * * *
75732 TACATTGTAAATTTATCTATTACTTTAAATTAATTGGTTTCAAAGTTTTAAGAATCGATACTTTT
65 TACATTGTAAATTTACCTATTACTTTAAATTAATCGATTTCGAAGTTTTAAGAATCGATACTTTT
* * * * * *
75797 TATACGTGTATCAATATTTTCTGCGTACATCTCATTTGGGAAGCATAATGGACAAAAAATATCGA
130 CATACGTGTATCGATACTTTCTGCGTACATCTCATTTGGGAAGCATACTGGACCAAAAGTATCGA
75862 TACATA
195 TACATA
** * *
75868 TACAAAAAGTATCGAAACTTTATGTTTACACATTTTGTCATTAATC-G-ATATATTTTTACCTCT
1 TACAAAAAGTATCGAAACTTTATGTTTACGTATTTTGTCATTAA-CAGTGTATATTTTTACCACT
*
75931 TACGTTGTAAATTTACCTATTACTTTAAATTAAT
65 TACATTGTAAATTTACCTATTACTTTAAATTAAT
75965 AAATGTTGAA
Statistics
Matches: 618, Mismatches: 65, Indels: 29
0.87 0.09 0.04
Matches are distributed among these distances:
199 58 0.09
200 549 0.89
201 11 0.02
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.41
Consensus pattern (200 bp):
TACAAAAAGTATCGAAACTTTATGTTTACGTATTTTGTCATTAACAGTGTATATTTTTACCACTT
ACATTGTAAATTTACCTATTACTTTAAATTAATCGATTTCGAAGTTTTAAGAATCGATACTTTTC
ATACGTGTATCGATACTTTCTGCGTACATCTCATTTGGGAAGCATACTGGACCAAAAGTATCGAT
ACATA
Found at i:75961 original size:18 final size:20
Alignment explanation
Indices: 75922--75961 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
75912 TCGATATATT
*
75922 TTTACCTCTTACGTTGTAAA
1 TTTACCTATTACGTTGTAAA
75942 TTTACCTATTAC-TT-TAAA
1 TTTACCTATTACGTTGTAAA
75960 TT
1 TT
75962 AATAAATGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 2 0.11
20 11 0.58
ACGTcount: A:0.28, C:0.17, G:0.05, T:0.50
Consensus pattern (20 bp):
TTTACCTATTACGTTGTAAA
Found at i:82475 original size:233 final size:233
Alignment explanation
Indices: 82060--82479 Score: 639
Period size: 233 Copynumber: 1.8 Consensus size: 233
82050 ATAGTAAAAC
*
82060 GGTTTCCTTCAAAGGAATGAGAATACTCTCTACTACAAGTATCGATACATTTATAAAACCTACAA
1 GGTTTCCTTCAAAGGAATGAGAATACTCTCTACTACAAGTATCGACACATTTATAAAACCTACAA
*
82125 TATCATTTTCTACCTATAGTATTATATAAAAGTATCAATATTTATTTTCTACCTAGAATATCACT
66 TATCATTTTCTACCTATAATATTATATAAAAGTATCAATATTTATTTTCTACCTAGAATATCACT
* * * *
82190 TTCTAACTCTAATCGGTCCCAAATTCTTCTTTGCTTCGAAATCCCTAAACCCATAAACATTAATC
131 TTCTAACTCTAATCAGTCCCAAATGCTTCTTTACTTCGAAAACCCTAAACCCATAAACATTAATC
82255 CCTATTTCTAAATACTGTAATAATAATAAAAAAACTAG
196 CCTATTTCTAAATACTGTAATAATAATAAAAAAACTAG
* * * *
82293 GGTTTTCTTCAAAGGAATGAGAATACTCTCTACTACAAGTATCGGCACATTTATACAACCTGCAA
1 GGTTTCCTTCAAAGGAATGAGAATACTCTCTACTACAAGTATCGACACATTTATAAAACCTACAA
* * *
82358 TATCATTTTCTATCTATAATATTATATTAAAGTATCAATATTTATTTTTTATCC-AGAATATCAC
66 TATCATTTTCTACCTATAATATTATATAAAAGTATCAATATTTATTTTCTA-CCTAGAATATCAC
* * * *
82422 TTTCTATCTGTAA-CAAGTCCCAAATGCTTCTTTACTTTGAAAA-CATCAAACCCATAAA
130 TTTCTAACTCTAATC-AGTCCCAAATGCTTCTTTACTTCGAAAACCCT-AAACCCATAAA
82480 ACCCCTATTT
Statistics
Matches: 167, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
232 3 0.02
233 162 0.97
234 2 0.01
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.36
Consensus pattern (233 bp):
GGTTTCCTTCAAAGGAATGAGAATACTCTCTACTACAAGTATCGACACATTTATAAAACCTACAA
TATCATTTTCTACCTATAATATTATATAAAAGTATCAATATTTATTTTCTACCTAGAATATCACT
TTCTAACTCTAATCAGTCCCAAATGCTTCTTTACTTCGAAAACCCTAAACCCATAAACATTAATC
CCTATTTCTAAATACTGTAATAATAATAAAAAAACTAG
Found at i:89498 original size:28 final size:29
Alignment explanation
Indices: 89452--89506 Score: 78
Period size: 27 Copynumber: 1.9 Consensus size: 29
89442 ACAAACTGAA
*
89452 AATATTATTATTTTTTATA-TTTAATATT
1 AATATTATTATTTTGTATATTTTAATATT
89480 AATA-TATTATTTTAGTATATTTTAATA
1 AATATTATTATTTT-GTATATTTTAATA
89507 AAATTATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 9 0.38
28 8 0.33
29 7 0.29
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (29 bp):
AATATTATTATTTTGTATATTTTAATATT
Found at i:89514 original size:27 final size:26
Alignment explanation
Indices: 89455--89515 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
89445 AACTGAAAAT
* *
89455 ATTATTATTTTTTATATTTAATATTA
1 ATTATTATTTTGTATATTTAATATAA
89481 ATATATTATTTTAGTATATTTTAATA-AA
1 AT-TATTATTTT-GTATA-TTTAATATAA
89509 ATTATTA
1 ATTATTA
89516 ATTATTAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
26 2 0.07
27 14 0.47
28 7 0.23
29 7 0.23
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (26 bp):
ATTATTATTTTGTATATTTAATATAA
Found at i:90316 original size:20 final size:19
Alignment explanation
Indices: 90280--90318 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
90270 TGCTACACCT
*
90280 TTAAAAATGATCCAACAAC
1 TTAAAAATGATACAACAAC
*
90299 TTAAAAATGAATATAACAAC
1 TTAAAAATG-ATACAACAAC
90319 AAAAGTTTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.56, C:0.15, G:0.05, T:0.23
Consensus pattern (19 bp):
TTAAAAATGATACAACAAC
Found at i:90405 original size:42 final size:42
Alignment explanation
Indices: 90351--90524 Score: 278
Period size: 42 Copynumber: 4.1 Consensus size: 42
90341 ATAAACAAGT
* *
90351 AAATAAAAAACACCATAACACCATTAAGTCTCAATATGTCTA
1 AAATAAATAACACCATAACACCATTAAGTCTCAATAAGTCTA
90393 AAATAAATAACACCATAACACCATTAAGTCTCAATAAGTCTA
1 AAATAAATAACACCATAACACCATTAAGTCTCAATAAGTCTA
*
90435 AAATAAATAACACCATAACACTATTAAGTCTCAATAAGTCTA
1 AAATAAATAACACCATAACACCATTAAGTCTCAATAAGTCTA
* * *
90477 AAATAAATAACAACA-AAGCACCATTAAATCTCAATAAGTTTA
1 AAATAAATAACACCATAA-CACCATTAAGTCTCAATAAGTCTA
90519 AAATAA
1 AAATAA
90525 TAATAAACCT
Statistics
Matches: 124, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
41 2 0.02
42 122 0.98
ACGTcount: A:0.52, C:0.19, G:0.05, T:0.24
Consensus pattern (42 bp):
AAATAAATAACACCATAACACCATTAAGTCTCAATAAGTCTA
Found at i:91486 original size:190 final size:190
Alignment explanation
Indices: 91163--91542 Score: 751
Period size: 190 Copynumber: 2.0 Consensus size: 190
91153 CCTAAAACTT
*
91163 TATTTAAATTAATTACTTACTACTTTAATCAACCTTTAAAAACAAATTTGCTTTCATTACCCTTT
1 TATTTAAATAAATTACTTACTACTTTAATCAACCTTTAAAAACAAATTTGCTTTCATTACCCTTT
91228 AACAAAATCAAATTGTGGACAGACATCAATATTTGGTACTGTAATTATTGATGCAAGTAACGACA
66 AACAAAATCAAATTGTGGACAGACATCAATATTTGGTACTGTAATTATTGATGCAAGTAACGACA
91293 ATATATGCCAAAAAAGTAAAAGGAAAATGGCATGACAAGTACTATCAATGTGCCCTACCA
131 ATATATGCCAAAAAAGTAAAAGGAAAATGGCATGACAAGTACTATCAATGTGCCCTACCA
91353 TATTTAAATAAATTACTTACTACTTTAATCAACCTTTAAAAACAAATTTGCTTTCATTACCCTTT
1 TATTTAAATAAATTACTTACTACTTTAATCAACCTTTAAAAACAAATTTGCTTTCATTACCCTTT
91418 AACAAAATCAAATTGTGGACAGACATCAATATTTGGTACTGTAATTATTGATGCAAGTAACGACA
66 AACAAAATCAAATTGTGGACAGACATCAATATTTGGTACTGTAATTATTGATGCAAGTAACGACA
91483 ATATATGCCAAAAAAGTAAAAGGAAAATGGCATGACAAGTACTATCAATGTGCCCTACCA
131 ATATATGCCAAAAAAGTAAAAGGAAAATGGCATGACAAGTACTATCAATGTGCCCTACCA
91543 CTCACCGTTT
Statistics
Matches: 189, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
190 189 1.00
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.31
Consensus pattern (190 bp):
TATTTAAATAAATTACTTACTACTTTAATCAACCTTTAAAAACAAATTTGCTTTCATTACCCTTT
AACAAAATCAAATTGTGGACAGACATCAATATTTGGTACTGTAATTATTGATGCAAGTAACGACA
ATATATGCCAAAAAAGTAAAAGGAAAATGGCATGACAAGTACTATCAATGTGCCCTACCA
Found at i:92814 original size:40 final size:37
Alignment explanation
Indices: 92770--92849 Score: 115
Period size: 40 Copynumber: 2.1 Consensus size: 37
92760 ATTCCTAAAG
*
92770 TTAGTTTTTGTTTCATTTTAGTACCTCTTCGTTAAAAACT
1 TTAGTTTTTATTTCATTTTAGTACC-C-TCGTTAAAAA-T
*
92810 TTAGTTTTTATTTCATTTTAGTACCCTCGTTCAAAAT
1 TTAGTTTTTATTTCATTTTAGTACCCTCGTTAAAAAT
92847 TTA
1 TTA
92850 ACGTTAAGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
37 4 0.11
38 9 0.24
39 1 0.03
40 24 0.63
ACGTcount: A:0.24, C:0.15, G:0.09, T:0.53
Consensus pattern (37 bp):
TTAGTTTTTATTTCATTTTAGTACCCTCGTTAAAAAT
Found at i:93103 original size:2 final size:2
Alignment explanation
Indices: 93080--93121 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
93070 ATTTAACCCA
* * *
93080 AT AT AA AT AT AT AA AT AA AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
93122 GGCAAAATTG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:93318 original size:39 final size:39
Alignment explanation
Indices: 93275--93362 Score: 149
Period size: 39 Copynumber: 2.3 Consensus size: 39
93265 TGAGTGCACA
*
93275 GAGTCTTCAGGCAAAATAGGAAGACTCCAAGCTTACCTG
1 GAGTCTTCAGGCAAAATAGAAAGACTCCAAGCTTACCTG
93314 GAGTCTTCAGGCAAAATAGAAAGACTCCAAGCTTACCTG
1 GAGTCTTCAGGCAAAATAGAAAGACTCCAAGCTTACCTG
**
93353 TCGTCTTCAG
1 GAGTCTTCAG
93363 TCTATGGTGG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.23
Consensus pattern (39 bp):
GAGTCTTCAGGCAAAATAGAAAGACTCCAAGCTTACCTG
Found at i:96814 original size:65 final size:67
Alignment explanation
Indices: 96694--96828 Score: 229
Period size: 65 Copynumber: 2.0 Consensus size: 67
96684 ACCCATTTTG
96694 GCTGAGGATGATGATATTTTTGATGGTGATGAACTTGATATCAATATTGATGAATATCCGACATC
1 GCTGAGGATGATGATATTTTTGA--GTGA-GAACTTGATATCAATATTGATGAATATCCGACATC
96759 GTATC
63 GTATC
96764 GCTGAGGATGATGATATTTTTGA-TG-GAACTTGATATCAATATTGATGAATATCCGACATCGTA
1 GCTGAGGATGATGATATTTTTGAGTGAGAACTTGATATCAATATTGATGAATATCCGACATCGTA
96827 TC
66 TC
96829 AACTACTCCT
Statistics
Matches: 65, Mismatches: 0, Indels: 5
0.93 0.00 0.07
Matches are distributed among these distances:
65 40 0.62
67 2 0.03
70 23 0.35
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.36
Consensus pattern (67 bp):
GCTGAGGATGATGATATTTTTGAGTGAGAACTTGATATCAATATTGATGAATATCCGACATCGTA
TC
Found at i:100156 original size:20 final size:20
Alignment explanation
Indices: 100131--100171 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
100121 TCACATGCAA
*
100131 CTATATGCTCCTAAATACAT
1 CTATATGATCCTAAATACAT
*
100151 CTATATGATCCTAAATGCAT
1 CTATATGATCCTAAATACAT
100171 C
1 C
100172 ATGTACATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.34, C:0.24, G:0.07, T:0.34
Consensus pattern (20 bp):
CTATATGATCCTAAATACAT
Found at i:101114 original size:20 final size:20
Alignment explanation
Indices: 101085--101123 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
101075 ATTCCACCAC
*
101085 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
101105 ATGCATCTATATGATCCTA
1 ATGCAACTATATGATCCTA
101124 CATGGGCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:101117 original size:960 final size:958
Alignment explanation
Indices: 99240--101123 Score: 2741
Period size: 960 Copynumber: 2.0 Consensus size: 958
99230 TAAACAAAAT
* * *
99240 AGATAATAACATAAAAAACAACCATTTATTAAAGTAAAACTTAAATATCCAAAATGAACTCCCTC
1 AGATAATAACATAAAAAACAACCATTCATTAAAATAAAACTTAAATATCCAAAATGAACTCCCAC
99305 CAAATAAGACTAGTTCATGGTGGGGTTCGAATGATTCAAGCACAAAGCAAGAAGTTAATCCGTTC
66 CAAATAAGACTAGTTCATGGTGGGGTTCGAATGATTCAAGCACAAAGCAAGAAGTTAATCCGTTC
99370 CTTACAACCCAAATGATAAAAATAAAAGAAAAGAGCAAAGGGAATGAGGAAAACCCTTCAACGTG
131 CTTACAACCCAAATGATAAAAATAAAAGAAAAGAGCAAAGGGAATGAGGAAAACCCTTCAACGTG
* * * *
99435 CACTGTCGGAGCTTCCTTCGGCCACTACGAACTGTCCTAGAGAGCTAGCTCCTCTTGGACACCTA
196 CACTGTCGGAGCTTCCCTCGACCACCACAAACTGTCCTAGAGAGCTAGCTCCTCTTGGACACCTA
* * ** * *
99500 GTTTGTCACTCCCTCTAGCTTGTCAATTGATGAATGCCACAGAAAATATGATAGGTGGAGAAAGG
261 GTTCGCCACTCCCTCTAGCTTGTCAAGGGATGAATGACACAGAAAATATGATAGGTGGAGAAAGA
* *
99565 AGAGACCTTTTTCCTCCGAATTTTCTCACTTAAGGCGACGTGTGCAATGTCTCTTTTCATGGTGG
326 AGAGACCTTTTTCCTCCGAATTTTCTCACTTAAGGCGACGTGTGCAAAGTCTATTTTCATGGTGG
* *
99630 CTTCATCTCCTATTTATAGGGGGAGAATAAACCTAGGATTTTGTGTCAAAATTCCTAGGATATCC
391 CTTCATCTCCTATTTATAGGGGGAGAATAAACCTAGGAATTTGTGTCAAAATTCCTAGGATACCC
* **
99695 CAAACATGCTTAATTCACGTGAGGAAGGTGAGCAGAGATGGCAATGGTCCCCTCCAGGTGGCTGG
456 CAAACATGCTTAATTCACGTGAGAAAGGTGAGCAGAGATGGCAATGGTCCCCTCCAGGCAGCTGG
* * * * **
99760 CTGAGTACCCGACAAGATCAGGCTGCAGCAGGTTATAGTCCAGCAGAATTAGCTACAGTAGGGCA
521 CTGAGTACCCGACAAGATCAAGCTGCAGCAGGTCATAGTCCAACAGAATCAGCTACAACAGGGCA
* ** *
99825 TGGTCCAGCAGGGTCATCTTTAGCAGTGCATGGTCCTTTCCAGGCAGGTGTCTCCTCTCAGGTAG
586 TGGTCCAGCAGGGTCATCTGTAGCAGTGCATGGTCCCCTCCAGGCAGATGTCTCCTCTCAGGTAG
** * **
99890 AGATCACATGAAGATAGGGACAGTTGGCTCTAAAAAATATCTTCTTTTGTTTTGTTCGCTCTCGA
651 AGATCACATGAAGATAGGGACAACTAGCTCTAAAAAATATCTTCTTTCATTTTGTTCGCTCTCGA
* * **
99955 AATATCAAACGAATCGACATTTGCATTCTGATCAGTAGTCTCATAATGTCACAACACTTCCATTT
716 AATACCAAACAAATCGACATTTGCATTCTGATCAACAGTCTCATAATGTCACAACACTTCCATTT
* * * *
100020 TTCTTTTTCTTGCTCCCAAATCATGTACATCACCAAACAAGCTCATTCCCCATAACGCAACACCG
781 TTCTTTTCCTTGCTCCCAAATCATGCACATCACCAAACAAGATCATTCCCCATAACACAACACCG
*
100085 ATTACAAAATAAAATACCGCGACAAACATAATTCCATCACATGCAACTATATGCTCCTAAATACA
846 ATTACAAAATAAAATACCGCGACAAACATAATTCCACCACATGCAACTATATGCTCCTAAATACA
100150 TCTATATGATCCTAAATGCATCATGTACATTCAATTCTAGCCATAAAC
911 TCTATATGATCCTAAATGCATCATGTACATTCAATTCTAGCCATAAAC
*
100198 AGATAATAACATACAAAAATAACCATTCATTAAAATAAAACTTAAATATCCAAAATGAACTCCCA
1 AGATAATAACATA-AAAAACAACCATTCATTAAAATAAAACTTAAATATCCAAAATGAACTCCCA
* *
100263 CCAAATAAGACTAGTTCATGGTGGGGTTCGAATGTTTCAAGCACAAAGCAAGAAGTTATTCCGTT
65 CCAAATAAGACTAGTTCATGGTGGGGTTCGAATGATTCAAGCACAAAGCAAGAAGTTAATCCGTT
* * * * *
100328 CCTTACAACCCAAATGATAAAAATGAAAGCAAAGAGTAAAGGGAATGAGGAAAAGCCTTCGACGT
130 CCTTACAACCCAAATGATAAAAATAAAAGAAAAGAGCAAAGGGAATGAGGAAAACCCTTCAACGT
* * * * *
100393 GCAGTGTCGGAGCTTCCCTCGACCACCACAAAACTGTCCCTA-CGAGCTAGCTCTTTTTGGACGC
195 GCACTGTCGGAGCTTCCCTCGACCACCAC-AAACTGT-CCTAGAGAGCTAGCTCCTCTTGGACAC
100457 CTAGTTCGCCACTCCCTCTAGCTTGTCAAGGGATGAATGACAC-GACAAATATGATAGGTGGAGA
258 CTAGTTCGCCACTCCCTCTAGCTTGTCAAGGGATGAATGACACAGA-AAATATGATAGGTGGAGA
* * ** * *
100521 AATAAGAGACTTTTTTCCTCCGAATGTTT-TGGCTTAAGGCGGCGTGTGTAAAGTCTATTTTCAT
322 AAGAAGAGACCTTTTTCCTCCGAAT-TTTCTCACTTAAGGCGACGTGTGCAAAGTCTATTTTCAT
* **
100585 GGTGGCTTCATCTCCTATTTATAGGGGGAGAATAAACGTAGGAATTTGTGTTGAAATTCCTAGGA
386 GGTGGCTTCATCTCCTATTTATAGGGGGAGAATAAACCTAGGAATTTGTGTCAAAATTCCTAGGA
* * *
100650 TACCCCAAACATGCTTAATTCACGTGAGAAAGGTGAGCAGAGGTGGCAGTGGTCCCCTCTAGGCA
451 TACCCCAAACATGCTTAATTCACGTGAGAAAGGTGAGCAGAGATGGCAATGGTCCCCTCCAGGCA
* * * * * * * *
100715 GCTGGCTGAGTACCTGACAAGATCAAGCTGTAGTATGTCGTGGTCTAACAGAATCAGTTACAACA
516 GCTGGCTGAGTACCCGACAAGATCAAGCTGCAGCAGGTCATAGTCCAACAGAATCAGCTACAACA
* * *** * *
100780 GGGCGTGGTCTAGCAGGGTCATCTGTAGCAGTTTGTGGTCCCCTCTAGGCAGATGTCTCCTCTCT
581 GGGCATGGTCCAGCAGGGTCATCTGTAGCAGTGCATGGTCCCCTCCAGGCAGATGTCTCCTCTCA
* * * * *
100845 GGTAGAGATCACGTTAATATAGGGACAACTAGCTCTGAAAAATCTCTTCTTTCATTTTGTTCGCT
646 GGTAGAGATCACATGAAGATAGGGACAACTAGCTCTAAAAAATATCTTCTTTCATTTTGTTCGCT
* * * * * * *
100910 CTCGAAATGCCAACCAAATTGGCATTTGCATTCTGCTCAACAGTCTCATCATGTCACGACACTTC
711 CTCGAAATACCAAACAAATCGACATTTGCATTCTGATCAACAGTCTCATAATGTCACAACACTTC
* * *
100975 CCTTTTTCTTTTCCTTGCTCCTAAATCCTGCACATCACCAAACAAGTATC-TTCCCCATAACACA
776 CATTTTTCTTTTCCTTGCTCCCAAATCATGCACATCACCAAACAAG-ATCATTCCCCATAACACA
** ** *
101039 ACACTTATTACAAAATAAAATGTCGTGACAAACATAATTCCACCACATGCAACTATATGCTCCTA
840 ACACCGATTACAAAATAAAATACCGCGACAAACATAATTCCACCACATGCAACTATATGCTCCTA
*
101104 AATGCATCTATATGATCCTA
905 AATACATCTATATGATCCTA
101124 CATGGGCTTT
Statistics
Matches: 815, Mismatches: 105, Indels: 10
0.88 0.11 0.01
Matches are distributed among these distances:
958 13 0.02
959 197 0.24
960 596 0.73
961 9 0.01
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (958 bp):
AGATAATAACATAAAAAACAACCATTCATTAAAATAAAACTTAAATATCCAAAATGAACTCCCAC
CAAATAAGACTAGTTCATGGTGGGGTTCGAATGATTCAAGCACAAAGCAAGAAGTTAATCCGTTC
CTTACAACCCAAATGATAAAAATAAAAGAAAAGAGCAAAGGGAATGAGGAAAACCCTTCAACGTG
CACTGTCGGAGCTTCCCTCGACCACCACAAACTGTCCTAGAGAGCTAGCTCCTCTTGGACACCTA
GTTCGCCACTCCCTCTAGCTTGTCAAGGGATGAATGACACAGAAAATATGATAGGTGGAGAAAGA
AGAGACCTTTTTCCTCCGAATTTTCTCACTTAAGGCGACGTGTGCAAAGTCTATTTTCATGGTGG
CTTCATCTCCTATTTATAGGGGGAGAATAAACCTAGGAATTTGTGTCAAAATTCCTAGGATACCC
CAAACATGCTTAATTCACGTGAGAAAGGTGAGCAGAGATGGCAATGGTCCCCTCCAGGCAGCTGG
CTGAGTACCCGACAAGATCAAGCTGCAGCAGGTCATAGTCCAACAGAATCAGCTACAACAGGGCA
TGGTCCAGCAGGGTCATCTGTAGCAGTGCATGGTCCCCTCCAGGCAGATGTCTCCTCTCAGGTAG
AGATCACATGAAGATAGGGACAACTAGCTCTAAAAAATATCTTCTTTCATTTTGTTCGCTCTCGA
AATACCAAACAAATCGACATTTGCATTCTGATCAACAGTCTCATAATGTCACAACACTTCCATTT
TTCTTTTCCTTGCTCCCAAATCATGCACATCACCAAACAAGATCATTCCCCATAACACAACACCG
ATTACAAAATAAAATACCGCGACAAACATAATTCCACCACATGCAACTATATGCTCCTAAATACA
TCTATATGATCCTAAATGCATCATGTACATTCAATTCTAGCCATAAAC
Found at i:101410 original size:27 final size:27
Alignment explanation
Indices: 101332--101414 Score: 114
Period size: 27 Copynumber: 3.1 Consensus size: 27
101322 TTTTGACTCT
* *
101332 ATATTTTAATGAATGTGATTAATATCA
1 ATATTTGAATGAATGTGATTAATATTA
* *
101359 ATAGTTGAATTAATGTGATTAATATTA
1 ATATTTGAATGAATGTGATTAATATTA
101386 ATATTTGAATGAATGTGA-TAGATATTA
1 ATATTTGAATGAATGTGATTA-ATATTA
101413 AT
1 AT
101415 TCAACTTAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
26 2 0.04
27 47 0.96
ACGTcount: A:0.41, C:0.01, G:0.14, T:0.43
Consensus pattern (27 bp):
ATATTTGAATGAATGTGATTAATATTA
Found at i:103719 original size:104 final size:103
Alignment explanation
Indices: 103530--104088 Score: 461
Period size: 104 Copynumber: 5.2 Consensus size: 103
103520 ACATGTTAAG
* **
103530 TCAAAATAAATAGTCTAATTAATTTATATT-TACAATAAAAACAA-AAAATTAACAAAAAAAATA
1 TCAAAATAAATAGTCTAA-TAATTTATATTAT-CAATAAAAA-AATAAAA--AA-AAATAATTTA
* * *
103593 AACTAAACTTACCAAACCACTCAAATACGATTTAATCTGTAAAA
60 AACTAAACTTACCAAACTACTCAAATACAATTTAATATGTAAAA
103637 TCAAAATAAATAGT-TCAATAATTTATATTACTCAATAAAAAAATAAAAAAAAATAATTTAAACT
1 TCAAAATAAATAGTCT-AATAATTTATATTA-TCAATAAAAAAATAAAAAAAAATAATTTAAACT
* *
103701 AAACTTACCAAACTACTCAAATACAACTTAATATATAAAA
64 AAACTTACCAAACTACTCAAATACAATTTAATATGTAAAA
* *
103741 TCAAAATAAATAGTCTAATAA-TTATAATT-TAAATTAAAAAATTATATTAAAAATTACACGAAA
1 TCAAAATAAATAGTCTAATAATTTAT-ATTATCAA-TAAAAAA--ATA--AAAAA--A-A--ATA
* * * * * * * * *
103804 ATTTAAATTTAACATACTAAACCACTCGAATTCAGTTTAATCTGTAAAA
55 ATTTAAACTAAACTTACCAAACTACTCAAATACAATTTAATATGTAAAA
* * *
103853 TCAAAATAAATAGTCTAATTAGTTTATTTTAACAATAAAAACACA-AAATAAAACAATAAATTTT
1 TCAAAATAAATAGTCTAA-TAATTTATATTATCAATAAAAA-A-ATAAA-AAAA-AAT-AA-TTT
** *
103917 AAACTAAACTTACCAAGGTACTCAAATACGATTTAATATGTAAAA
59 AAACTAAACTTACCAAACTACTCAAATACAATTTAATATGTAAAA
* * *** *
103962 T-AAACATAATTAGTCTAATAATTTATATTACTTAATAAAAAAAT--AATGTAATAATTTAAACC
1 TCAAA-ATAAATAGTCTAATAATTTATATTA-TCAATAAAAAAATAAAAAAAAATAATTTAAACT
* ** *
104024 ACACTTACCAAGTTTTACTCAAATACAACTTAATATGTAAAA
64 AAACTTACCAA--ACTACTCAAATACAATTTAATATGTAAAA
*
104066 TTAAAATAAATAGTCTAATAATT
1 TCAAAATAAATAGTCTAATAATT
104089 ATAATTTAAA
Statistics
Matches: 369, Mismatches: 54, Indels: 61
0.76 0.11 0.13
Matches are distributed among these distances:
102 20 0.05
103 13 0.04
104 114 0.31
105 10 0.03
106 15 0.04
107 36 0.10
108 17 0.05
109 61 0.17
110 3 0.01
111 3 0.01
112 59 0.16
113 11 0.03
114 7 0.02
ACGTcount: A:0.53, C:0.12, G:0.04, T:0.31
Consensus pattern (103 bp):
TCAAAATAAATAGTCTAATAATTTATATTATCAATAAAAAAATAAAAAAAAATAATTTAAACTAA
ACTTACCAAACTACTCAAATACAATTTAATATGTAAAA
Found at i:107418 original size:19 final size:19
Alignment explanation
Indices: 107380--107419 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
107370 AAAAATCATG
* * *
107380 AATTTATTAAATTAATATT
1 AATTCATTAAATAAAAATT
107399 AATTCATTAAATAAAAATT
1 AATTCATTAAATAAAAATT
107418 AA
1 AA
107420 CTTTTTCTGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (19 bp):
AATTCATTAAATAAAAATT
Found at i:108276 original size:3 final size:3
Alignment explanation
Indices: 108264--108320 Score: 107
Period size: 3 Copynumber: 19.3 Consensus size: 3
108254 TTAATCCGAG
108264 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
108311 ATA ATA ATA A
1 ATA ATA ATA A
108321 ATATTATTAT
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 51 0.96
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:108805 original size:18 final size:18
Alignment explanation
Indices: 108782--108816 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
108772 GTTAAAACAT
*
108782 TTCATGAAAATAATTGTA
1 TTCATGAAAAGAATTGTA
108800 TTCATGAAAAGAATTGT
1 TTCATGAAAAGAATTGT
108817 TGAAACGCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.06, G:0.14, T:0.37
Consensus pattern (18 bp):
TTCATGAAAAGAATTGTA
Found at i:108916 original size:35 final size:35
Alignment explanation
Indices: 108866--108934 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
108856 AACTAAAAAA
108866 TAAGTCTATTCACCAAGTGACATGACTTATTATAG
1 TAAGTCTATTCACCAAGTGACATGACTTATTATAG
* *
108901 TAAGTCTATTTACCAAGTGGCATGACTTATTATA
1 TAAGTCTATTCACCAAGTGACATGACTTATTATA
108935 AATAGCATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.36
Consensus pattern (35 bp):
TAAGTCTATTCACCAAGTGACATGACTTATTATAG
Found at i:111207 original size:21 final size:21
Alignment explanation
Indices: 111183--111272 Score: 72
Period size: 21 Copynumber: 4.3 Consensus size: 21
111173 GTTCTACACA
**
111183 ATCCTTTGGGTCATATATGTG
1 ATCCTTTGGAACATATATGTG
*
111204 ATCCTTTGGAACATATATGCG
1 ATCCTTTGGAACATATATGTG
* ** * * *
111225 GTCCTCCGGGATATATATTTG
1 ATCCTTTGGAACATATATGTG
* *
111246 GTCCTTTAGAACATATATGTG
1 ATCCTTTGGAACATATATGTG
*
111267 GTCCTT
1 ATCCTT
111273 AGGGACAATT
Statistics
Matches: 53, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 53 1.00
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.39
Consensus pattern (21 bp):
ATCCTTTGGAACATATATGTG
Found at i:111351 original size:23 final size:23
Alignment explanation
Indices: 111261--111348 Score: 133
Period size: 23 Copynumber: 3.8 Consensus size: 23
111251 TTAGAACATA
111261 TATGTGGTCCTTAGGGACAATTC
1 TATGTGGTCCTTAGGGACAATTC
111284 TATGTGGTCCTTAGGGACAATTC
1 TATGTGGTCCTTAGGGACAATTC
*
111307 TATGTGGTCCTTCA-GGACATTTC
1 TATGTGGTCCTT-AGGGACAATTC
* *
111330 TACGTGGTCCTTCGGGACA
1 TATGTGGTCCTTAGGGACA
111349 TTTTATATGG
Statistics
Matches: 60, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
23 59 0.98
24 1 0.02
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.34
Consensus pattern (23 bp):
TATGTGGTCCTTAGGGACAATTC
Found at i:115561 original size:21 final size:21
Alignment explanation
Indices: 115503--115565 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
115493 AGGGTTCTAC
115503 GCGGTCCTTCGGGACATATAT
1 GCGGTCCTTCGGGACATATAT
* * ** *
115524 GTGATCCTTTAGAACATATAT
1 GCGGTCCTTCGGGACATATAT
*
115545 GCGGTACTTCGGGACATATAT
1 GCGGTCCTTCGGGACATATAT
115566 TTGGTCCATT
Statistics
Matches: 31, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (21 bp):
GCGGTCCTTCGGGACATATAT
Found at i:115585 original size:42 final size:42
Alignment explanation
Indices: 115503--115587 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 42
115493 AGGGTTCTAC
* *
115503 GCGGTCCTTCGGGACATATATGTGATCCTTTAGAACATATAT
1 GCGGTACTTCGGGACATATATGTGATCCATTAGAACATATAT
* * * *
115545 GCGGTACTTCGGGACATATATTTGGTCCATTGGAATATATAT
1 GCGGTACTTCGGGACATATATGTGATCCATTAGAACATATAT
115587 G
1 G
115588 TGGTCATTAG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (42 bp):
GCGGTACTTCGGGACATATATGTGATCCATTAGAACATATAT
Found at i:115601 original size:42 final size:42
Alignment explanation
Indices: 115503--115629 Score: 105
Period size: 42 Copynumber: 3.0 Consensus size: 42
115493 AGGGTTCTAC
* * * * * * *
115503 GCGGTCCTTCGGGACATATATGTGATCCTTTAGAACATATAT
1 GCGGTACTTAGGGACATATATTTGGTCCATTGGAATATATAT
*
115545 GCGGTACTTCGGGACATATATTTGGTCCATTGGAATATATAT
1 GCGGTACTTAGGGACATATATTTGGTCCATTGGAATATATAT
* * *
115587 GTGGT-CATTAGGGACAATTCTATTTGGT-CATTAGGGATATATA
1 GCGGTAC-TTAGGGAC-A-TATATTTGGTCCATT-GGAATATATA
115630 CGTAGTCCTT
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
41 1 0.01
42 47 0.66
43 5 0.07
44 18 0.25
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (42 bp):
GCGGTACTTAGGGACATATATTTGGTCCATTGGAATATATAT
Found at i:117933 original size:22 final size:21
Alignment explanation
Indices: 117901--117941 Score: 73
Period size: 22 Copynumber: 1.9 Consensus size: 21
117891 CGGTACCGTA
117901 ATAGAGTATCGATACCATGTT
1 ATAGAGTATCGATACCATGTT
117922 ATAGTAGTATCGATACCATG
1 ATAG-AGTATCGATACCATG
117942 GTAAGGGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.32
Consensus pattern (21 bp):
ATAGAGTATCGATACCATGTT
Found at i:118369 original size:56 final size:56
Alignment explanation
Indices: 118284--118436 Score: 222
Period size: 56 Copynumber: 2.8 Consensus size: 56
118274 AATGGAACTA
*
118284 TGTGTGAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTTC-ATAAGGGCACTT
1 TGTGTGAAAAGTTAAGAAATTCATAATAAGTTTATTAATTTTCTATAAGGGCACTT
* *
118339 TGTGTGTAAAAGTTAAGAAATTCATAATAAGTTTATTAA-TTTCTGTATGGGCACTT
1 TGTGTG-AAAAGTTAAGAAATTCATAATAAGTTTATTAATTTTCTATAAGGGCACTT
* *
118395 TGTGTGCAAAA-ATAATAAATTCATAATAAGTTTATTAATTTT
1 TGTGTG-AAAAGTTAAGAAATTCATAATAAGTTTATTAATTTT
118437 GGTATTTGTA
Statistics
Matches: 89, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
55 35 0.39
56 54 0.61
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.40
Consensus pattern (56 bp):
TGTGTGAAAAGTTAAGAAATTCATAATAAGTTTATTAATTTTCTATAAGGGCACTT
Found at i:118469 original size:55 final size:55
Alignment explanation
Indices: 118300--118458 Score: 160
Period size: 55 Copynumber: 2.9 Consensus size: 55
118290 AAAAGTTAAG
* * * * * * * *
118300 AAATTCATAATAAGTTTATGAATTT-TCATAAGGGCACTTTGTGTGTAAAAGTTAAG
1 AAATTCATAATAAGTTTATTAATTTCT-GTATGGGCAATGTGTGTGCAAAA-ATAAT
* *
118356 AAATTCATAATAAGTTTATTAATTTCTGTATGGGCACTTTGTGTGCAAAAATAAT
1 AAATTCATAATAAGTTTATTAATTTCTGTATGGGCAATGTGTGTGCAAAAATAAT
** *
118411 AAATTCATAATAAGTTTATTAATTT-TGGTATTTGTAATGTGTGTGCAA
1 AAATTCATAATAAGTTTATTAATTTCT-GTATGGGCAATGTGTGTGCAA
118459 CTTACGTAAA
Statistics
Matches: 90, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
54 1 0.01
55 44 0.49
56 44 0.49
57 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.16, T:0.41
Consensus pattern (55 bp):
AAATTCATAATAAGTTTATTAATTTCTGTATGGGCAATGTGTGTGCAAAAATAAT
Found at i:118691 original size:81 final size:81
Alignment explanation
Indices: 118588--119325 Score: 1026
Period size: 81 Copynumber: 9.1 Consensus size: 81
118578 ACTATTCCAA
* * *
118588 AGTAAAAGATTAATGGCCTAGCTATGCATTTGGTAGAAAGGTGTCAATTATGCCAGTTATATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
118653 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* ** * *
118669 AGTAAAAGATTAATGGCTTAGCTGTGCATTTGATAGAAAGGTGTTAATTATGCCAGTTTGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
118734 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
*
118750 AGTAAAAGATTAATGGCCTAGCTGTACATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
118815 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
** * * * *
118831 AGTAAAAGATTAATTTCATAGTTGTGCATTTGGAAGAAAGATGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
**
118896 AGGTTAAATATATTTG
66 AGGTTAAATACCTTTG
* * * * *
118912 GGTAAAAGATTAATGGCCTAGCTTTGCATTTGGTAGAAAGGTGTAAATTATGCCAGTTATATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
*
118977 ATGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* *
118993 AGTAAAAGATTAATGGCCTAGCTGCGCATTTGGCAGAAAGGTGTCAATTATGCTAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
119058 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* * * *
119074 AGTAAAAGATTAACGACTTAGCTGTGCATTTGGCAGAAAGATGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
*
119139 AGGTTATATACCTTTG
66 AGGTTAAATACCTTTG
* * * * * * *
119155 AGTAAAAGATTAATGTCCTAGCTGTGTATTTGGCAAAAAGGTGTCAGTTATGCAAGTTATATGAG
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
*
119220 AGGTTAAATACATTTG
66 AGGTTAAATACCTTTG
* * * * ** * * *
119236 AGTAAAATATTAACGGCCTAGCTATTCATTTGATAGGAAGGTGTCAATCATGCAAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
* * *
119301 AGGCTATATGCCTTTG
66 AGGTTAAATACCTTTG
119317 AGTAAAAGA
1 AGTAAAAGA
119326 CTAAATGCTT
Statistics
Matches: 577, Mismatches: 80, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 577 1.00
ACGTcount: A:0.35, C:0.10, G:0.23, T:0.32
Consensus pattern (81 bp):
AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
AGGTTAAATACCTTTG
Found at i:125075 original size:23 final size:24
Alignment explanation
Indices: 125030--125076 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
125020 CCACTAGGCG
125030 CACGTAGAAATTGTACCGAAGGAC
1 CACGTAGAAATTGTACCGAAGGAC
*
125054 CACGTAGAAA-TGTCCCGAAGGAC
1 CACGTAGAAATTGTACCGAAGGAC
125077 TACATATAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.36, C:0.23, G:0.26, T:0.15
Consensus pattern (24 bp):
CACGTAGAAATTGTACCGAAGGAC
Found at i:125178 original size:21 final size:21
Alignment explanation
Indices: 125152--125202 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
125142 AATAAGTGTA
* *
125152 CCAAAGTACTGCATATATGTT
1 CCAAAGGACTACATATATGTT
*
125173 CCAAAGGATTACATATATGTT
1 CCAAAGGACTACATATATGTT
*
125194 CCGAAGGAC
1 CCAAAGGAC
125203 AACGTTGAAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (21 bp):
CCAAAGGACTACATATATGTT
Found at i:125564 original size:13 final size:13
Alignment explanation
Indices: 125548--125583 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
125538 GATCATCATC
125548 ATATAACATATAT
1 ATATAACATATAT
*
125561 ATATAGCATATAT
1 ATATAACATATAT
*
125574 ATATCACATA
1 ATATAACATA
125584 ATTACCTAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.50, C:0.11, G:0.03, T:0.36
Consensus pattern (13 bp):
ATATAACATATAT
Found at i:129117 original size:23 final size:23
Alignment explanation
Indices: 129070--129147 Score: 66
Period size: 23 Copynumber: 3.1 Consensus size: 23
129060 CCACTAGAGT
* * *
129070 CACGTAGAAATTGTCCCAAATGAC
1 CACGTA-AAAATGTCCCGAAGGAC
129094 CACGTAAAAATGTCCCGAAGGAC
1 CACGTAAAAATGTCCCGAAGGAC
*
129117 CACATATAACACATATGTCCCGAAGGAC
1 CAC--GTAA-A-A-ATGTCCCGAAGGAC
129145 CAC
1 CAC
129148 TCCTTAAGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
23 17 0.38
24 6 0.13
25 3 0.07
26 1 0.02
27 1 0.02
28 17 0.38
ACGTcount: A:0.38, C:0.28, G:0.17, T:0.17
Consensus pattern (23 bp):
CACGTAAAAATGTCCCGAAGGAC
Found at i:129218 original size:21 final size:21
Alignment explanation
Indices: 129192--129248 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
129182 AATAATTGTA
*
129192 CCAAAGTACTACATATATGTT
1 CCAAAGGACTACATATATGTT
* *
129213 CCAAAGGATTATATATATGTT
1 CCAAAGGACTACATATATGTT
* *
129234 CCGAAGGACAACATA
1 CCAAAGGACTACATA
129249 GAACCCTCGA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (21 bp):
CCAAAGGACTACATATATGTT
Found at i:129604 original size:13 final size:13
Alignment explanation
Indices: 129588--129623 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
129578 GACCATCATC
129588 ATATAACATATAT
1 ATATAACATATAT
129601 ATATAACATATAT
1 ATATAACATATAT
*
129614 ATATCACATA
1 ATATAACATA
129624 ATTACCTAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (13 bp):
ATATAACATATAT
Found at i:133159 original size:23 final size:23
Alignment explanation
Indices: 133112--133189 Score: 66
Period size: 23 Copynumber: 3.1 Consensus size: 23
133102 CCACTAGAGT
* * *
133112 CACGTAGAAATTGTCCCAAATGAC
1 CACGTA-AAAATGTCCCGAAGGAC
133136 CACGTAAAAATGTCCCGAAGGAC
1 CACGTAAAAATGTCCCGAAGGAC
*
133159 CACATATAACACATATGTCCCGAAGGAC
1 CAC--GTAA-A-A-ATGTCCCGAAGGAC
133187 CAC
1 CAC
133190 TCCTTAAGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
23 17 0.38
24 6 0.13
25 3 0.07
26 1 0.02
27 1 0.02
28 17 0.38
ACGTcount: A:0.38, C:0.28, G:0.17, T:0.17
Consensus pattern (23 bp):
CACGTAAAAATGTCCCGAAGGAC
Found at i:133260 original size:21 final size:21
Alignment explanation
Indices: 133234--133290 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
133224 AATAATTGTA
*
133234 CCAAAGTACTACATATATGTT
1 CCAAAGGACTACATATATGTT
* *
133255 CCAAAGGATTATATATATGTT
1 CCAAAGGACTACATATATGTT
* *
133276 CCGAAGGACAACATA
1 CCAAAGGACTACATA
133291 GAACCCTCGA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (21 bp):
CCAAAGGACTACATATATGTT
Found at i:133645 original size:13 final size:13
Alignment explanation
Indices: 133629--133664 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
133619 GACCATCATC
133629 ATATAACATATAT
1 ATATAACATATAT
133642 ATATAACATATAT
1 ATATAACATATAT
*
133655 ATATCACATA
1 ATATAACATA
133665 ATTACCTAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (13 bp):
ATATAACATATAT
Found at i:135871 original size:22 final size:21
Alignment explanation
Indices: 135842--135903 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 21
135832 CGGTGACGTA
* *
135842 ATAGAGTATTGGTACCATGGT
1 ATAGAGTATCGATACCATGGT
135863 ATAGTAGTATCGATACCATGGT
1 ATAG-AGTATCGATACCATGGT
* *
135885 A-GGGGTATCGATACTCATG
1 ATAGAGTATCGATAC-CATG
135904 AGCCAACAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
20 10 0.29
21 9 0.26
22 16 0.46
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (21 bp):
ATAGAGTATCGATACCATGGT
Found at i:136315 original size:56 final size:54
Alignment explanation
Indices: 136239--136377 Score: 197
Period size: 56 Copynumber: 2.5 Consensus size: 54
136229 TGCAAAGTCA
* * *
136239 AAAAATTCATAATAAGTTTATGAATTTCCGTATGGGCGCTTTGTGTGCAAAAGCT
1 AAAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTACAAAA-AT
* **
136294 ATAAAATTCATAATAAATTTATGAATTTTTGTATGGGCACTTTGTGTACAAAAAT
1 A-AAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTACAAAAAT
136349 AATAAATTCATAATAAGTTTATGAATTTC
1 AA-AAATTCATAATAAGTTTATGAATTTC
136378 GATATTTGTA
Statistics
Matches: 74, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
54 1 0.01
55 27 0.36
56 46 0.62
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.38
Consensus pattern (54 bp):
AAAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTACAAAAAT
Found at i:137283 original size:81 final size:81
Alignment explanation
Indices: 136530--137264 Score: 1056
Period size: 81 Copynumber: 9.1 Consensus size: 81
136520 ATTCCAAAGC
* * *
136530 AAAAGATTAATGGCATAGTTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAAAGG
1 AAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
*
136595 TTAAATACCTTTGAGC
66 TTAAATACCTTTGAGT
* * * * * *
136611 AAAAGATTAATGACCTAGTTGTGCATTTGGTAGAAATGTGTCAATTATGCCAGTTTGATGAAATG
1 AAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
136676 TTAAATACCTTTGAGT
66 TTAAATACCTTTGAGT
* * * * *
136692 AAAAGATTAATAGCCTAGTTGTACATTTGGCAGAAAGGTGTCAATTATGCTAGTTAGATGAAATG
1 AAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
*
136757 TTAAATACCTTTGGGT
66 TTAAATACCTTTGAGT
* * * * *
136773 AAAAGATTAATGGCCTAGGTGTGCGTTTGGCCGAAAGGTGTCAATTATGCCAGGTAAATGAAAGG
1 AAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
136838 TTAAATACCTTTGAGT
66 TTAAATACCTTTGAGT
** * * * * *
136854 AAAAGATTAATAACCTAGCTGTGCATTTGACAAAAATGTGTCAGTTATGCTAGTTAGATGAAAGG
1 AAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
136919 TTAAATACCTTTGAGT
66 TTAAATACCTTTGAGT
*
136935 AAAAGATTAATGGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
1 AAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
*
137000 TTAAATTCCTTTGAGT
66 TTAAATACCTTTGAGT
* * *
137016 AAAAGATTAATGGTCTAGATGTGCATGTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
1 AAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
137081 TTAAATACCTTTGAGT
66 TTAAATACCTTTGAGT
* *
137097 AAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAGTTATGCCAGTTAGATGAGAGG
1 AAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
137162 TTAAATACCTTTGAGT
66 TTAAATACCTTTGAGT
* * * * * * * *
137178 AAAATATTAACGACATAGCTGTGCATTTGACAGGAAGGTGTCAATCATGCAAGTTAGATGAAAGG
1 AAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
* * *
137243 CTATATGCCTTTGAGT
66 TTAAATACCTTTGAGT
137259 AAAAGA
1 AAAAGA
137265 CTAAATGCTT
Statistics
Matches: 585, Mismatches: 69, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 585 1.00
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.31
Consensus pattern (81 bp):
AAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
TTAAATACCTTTGAGT
Found at i:139315 original size:13 final size:13
Alignment explanation
Indices: 139294--139323 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
139284 ACTTTGTGAA
*
139294 TTGTTTCTCAAAG
1 TTGTATCTCAAAG
139307 TTGTATCTCAAAG
1 TTGTATCTCAAAG
139320 TTGT
1 TTGT
139324 GTCTAAGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.23, C:0.13, G:0.17, T:0.47
Consensus pattern (13 bp):
TTGTATCTCAAAG
Found at i:139548 original size:35 final size:34
Alignment explanation
Indices: 139473--139548 Score: 98
Period size: 35 Copynumber: 2.2 Consensus size: 34
139463 TTTAAACTAA
* *
139473 AAATAAGTTTATTCACCTAGTGACATAACTTATT
1 AAATAAGTCTATTCACCAAGTGACATAACTTATT
* *
139507 ATAATAAGTCTATTTACCAAGTGACATGACTTATAT
1 A-AATAAGTCTATTCACCAAGTGACATAACTTAT-T
139543 AAATAA
1 AAATAA
139549 CATCAATTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
34 1 0.03
35 33 0.92
36 2 0.06
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.36
Consensus pattern (34 bp):
AAATAAGTCTATTCACCAAGTGACATAACTTATT
Found at i:139714 original size:35 final size:35
Alignment explanation
Indices: 139675--139746 Score: 108
Period size: 35 Copynumber: 2.1 Consensus size: 35
139665 TTAAACTAAA
* *
139675 AATAAGTTTATTCACCTAGTGACATAACTTATTAT
1 AATAAGTCTATTCACCAAGTGACATAACTTATTAT
* *
139710 AATAAGTCTATTTACCAAGTGACATGACTTATTAT
1 AATAAGTCTATTCACCAAGTGACATAACTTATTAT
139745 AA
1 AA
139747 ATAACATCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.38
Consensus pattern (35 bp):
AATAAGTCTATTCACCAAGTGACATAACTTATTAT
Found at i:139790 original size:16 final size:16
Alignment explanation
Indices: 139769--139803 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
139759 TTATTCAATT
139769 AAAAAAATAATTA-GA
1 AAAAAAATAATTAGGA
139784 AAAAAAATAATTAGGA
1 AAAAAAATAATTAGGA
139800 AAAA
1 AAAA
139804 CAAAGATTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (16 bp):
AAAAAAATAATTAGGA
Found at i:142077 original size:34 final size:34
Alignment explanation
Indices: 142039--142103 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
142029 GTTCACACCT
*
142039 CTAACATTTTTTGTGTTTGAAT-TCAAAACCTTAA
1 CTAACATTTTTTGTGCTTGAATCT-AAAACCTTAA
142073 CTAACATTTTTTGTGCTTGAATCTAAAACCT
1 CTAACATTTTTTGTGCTTGAATCTAAAACCT
142104 AGAGAAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 28 0.97
35 1 0.03
ACGTcount: A:0.31, C:0.17, G:0.09, T:0.43
Consensus pattern (34 bp):
CTAACATTTTTTGTGCTTGAATCTAAAACCTTAA
Found at i:144183 original size:21 final size:21
Alignment explanation
Indices: 144131--144187 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
144121 TCTAGGTTGA
* * *
144131 AGTATCAATACTGCCAAGGTG
1 AGTATCGATACTTCCAAGGGG
144152 AGTATCGATACTTCCAAGGGG
1 AGTATCGATACTTCCAAGGGG
**
144173 AGTATTTATACTTCC
1 AGTATCGATACTTCC
144188 CCTGCAGTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (21 bp):
AGTATCGATACTTCCAAGGGG
Found at i:146217 original size:21 final size:21
Alignment explanation
Indices: 146193--146239 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
146183 GGTAGTATAA
*
146193 ATACTCCCCTTAGAAGTATCG
1 ATACTCACCTTAGAAGTATCG
* * *
146214 ATACTCACCTTGGCAGTATTG
1 ATACTCACCTTAGAAGTATCG
146235 ATACT
1 ATACT
146240 TCAACCTAGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.32
Consensus pattern (21 bp):
ATACTCACCTTAGAAGTATCG
Found at i:177117 original size:21 final size:21
Alignment explanation
Indices: 177091--177135 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
177081 GGCTATGGAG
177091 AAAATGA-AGAAAGAAAAAGAA
1 AAAATGAGAGAAA-AAAAAGAA
*
177112 AAAATGAGAGATAAAAAAGAA
1 AAAATGAGAGAAAAAAAAGAA
177133 AAA
1 AAA
177136 GTTAAAAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.07
Consensus pattern (21 bp):
AAAATGAGAGAAAAAAAAGAA
Found at i:177429 original size:12 final size:13
Alignment explanation
Indices: 177414--177442 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
177404 AATTATCTAC
177414 AAAAT-AAAATAA
1 AAAATAAAAATAA
177426 AAAATAAAAATAA
1 AAAATAAAAATAA
177439 AAAA
1 AAAA
177443 AGGAAAGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.31
13 11 0.69
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (13 bp):
AAAATAAAAATAA
Found at i:185299 original size:19 final size:19
Alignment explanation
Indices: 185254--185299 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
185244 ATGATAGATT
*
185254 TACAAATATCAAGGCAAAA
1 TACAAATATCAAAGCAAAA
*
185273 TTCAAATATCAAAG-AAAA
1 TACAAATATCAAAGCAAAA
185291 TACACAATA
1 TACA-AATA
185300 CACTAAAACA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.59, C:0.15, G:0.07, T:0.20
Consensus pattern (19 bp):
TACAAATATCAAAGCAAAA
Found at i:186541 original size:23 final size:23
Alignment explanation
Indices: 186515--186573 Score: 109
Period size: 23 Copynumber: 2.6 Consensus size: 23
186505 GTTCTCTTTG
186515 TTTTTCTTTCTTTGCACATTGTT
1 TTTTTCTTTCTTTGCACATTGTT
186538 TTTTTCTTTCTTTGCACATTGTT
1 TTTTTCTTTCTTTGCACATTGTT
*
186561 TTTTTCTTGCTTT
1 TTTTTCTTTCTTT
186574 TTTTCTCTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.07, C:0.17, G:0.08, T:0.68
Consensus pattern (23 bp):
TTTTTCTTTCTTTGCACATTGTT
Found at i:186568 original size:19 final size:21
Alignment explanation
Indices: 186492--186563 Score: 90
Period size: 23 Copynumber: 3.2 Consensus size: 21
186482 TCTTCTTGTC
* *
186492 TTTTTCTTTCTTTGTTCTCTTTG
1 TTTTTCTTTCTTTG--CACATTG
186515 TTTTTCTTTCTTTGCACATTG
1 TTTTTCTTTCTTTGCACATTG
186536 TTTTTTTCTTTCTTTGCACATTG
1 --TTTTTCTTTCTTTGCACATTG
186559 TTTTT
1 TTTTT
186564 TTCTTGCTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
21 10 0.22
23 35 0.78
ACGTcount: A:0.06, C:0.17, G:0.08, T:0.69
Consensus pattern (21 bp):
TTTTTCTTTCTTTGCACATTG
Found at i:189410 original size:19 final size:19
Alignment explanation
Indices: 189386--189422 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
189376 TATGAAAGTG
*
189386 TTATATGAGTTATATGTTA
1 TTATATGAGTGATATGTTA
*
189405 TTATATGTGTGATATGTT
1 TTATATGAGTGATATGTT
189423 TTGTATGAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (19 bp):
TTATATGAGTGATATGTTA
Found at i:189870 original size:32 final size:32
Alignment explanation
Indices: 189822--189902 Score: 83
Period size: 31 Copynumber: 2.6 Consensus size: 32
189812 ACCTATGTCT
* * *
189822 TTCGAGACATAAGGACAGGATTATATAAGTCC
1 TTCGGGACATATGGACAGGATTACATAAGTCC
* * * *
189854 TTCGGGACATATGGACA-GTTTACCTAGGTTC
1 TTCGGGACATATGGACAGGATTACATAAGTCC
*
189885 TTCGGGACCTATGGACAG
1 TTCGGGACATATGGACAG
189903 TTGTCGAGGT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 25 0.62
32 15 0.38
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (32 bp):
TTCGGGACATATGGACAGGATTACATAAGTCC
Found at i:189915 original size:30 final size:30
Alignment explanation
Indices: 189853--189916 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 30
189843 TATATAAGTC
*
189853 CTTCGGGACATATGGACAGTTTACCTAGGTT
1 CTTCGGGACATATGGACAGTTTA-CGAGGTT
*
189884 CTTCGGGACCTATGGACAGTTGT-CGAGGTT
1 CTTCGGGACATATGGACAGTT-TACGAGGTT
189914 CTT
1 CTT
189917 TATGACATCT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 9 0.30
31 20 0.67
32 1 0.03
ACGTcount: A:0.19, C:0.20, G:0.28, T:0.33
Consensus pattern (30 bp):
CTTCGGGACATATGGACAGTTTACGAGGTT
Found at i:192715 original size:27 final size:27
Alignment explanation
Indices: 192685--192752 Score: 102
Period size: 27 Copynumber: 2.6 Consensus size: 27
192675 AGAATGTATT
* *
192685 AAAGTTAAAGGATTTGTATGTTTGCCG
1 AAAGTTAAAGGATTTGTATGTTCGACG
192712 AAAGTTAAAGGATTTGTATGTTCGACG
1 AAAGTTAAAGGATTTGTATGTTCGACG
*
192739 TAAGTTAAA-GATTT
1 AAAGTTAAAGGATTT
192753 ACCGAAAAGT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
26 5 0.13
27 33 0.87
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.37
Consensus pattern (27 bp):
AAAGTTAAAGGATTTGTATGTTCGACG
Found at i:194268 original size:21 final size:21
Alignment explanation
Indices: 194238--194288 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
194228 TAATTTGTTA
* *
194238 GTATCGAATTACAAGGTATAT
1 GTATCAAATTACAAGGTATAG
194259 GTATCAAATTACAAGGTATAG
1 GTATCAAATTACAAGGTATAG
194280 GTATCAAAT
1 GTATCAAAT
194289 AATTGCCTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.31
Consensus pattern (21 bp):
GTATCAAATTACAAGGTATAG
Found at i:194673 original size:2 final size:2
Alignment explanation
Indices: 194666--194718 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
194656 TTTTGTATGC
194666 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
194708 AT AT AT AT AT A
1 AT AT AT AT AT A
194719 CTAGTGTGAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:194767 original size:2 final size:2
Alignment explanation
Indices: 194762--194790 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
194752 GATATATATA
194762 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
194791 TTACATAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:195163 original size:31 final size:31
Alignment explanation
Indices: 195085--195179 Score: 109
Period size: 31 Copynumber: 3.0 Consensus size: 31
195075 GAGTCGAGGG
* * * * *
195085 TTACCTATGTCTTTCGAGCCATATGGACAGGA
1 TTACCTAGGTCCTTCGGGACATATGGACA-GT
*
195117 TTACCTATGTCCTTCGGGACATATGGACAGT
1 TTACCTAGGTCCTTCGGGACATATGGACAGT
* *
195148 TTACCTAGGTTCTTCGGGACCTATGGACAGT
1 TTACCTAGGTCCTTCGGGACATATGGACAGT
195179 T
1 T
195180 GTCGAGGTTC
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
31 30 0.54
32 26 0.46
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.33
Consensus pattern (31 bp):
TTACCTAGGTCCTTCGGGACATATGGACAGT
Found at i:195190 original size:30 final size:30
Alignment explanation
Indices: 195128--195191 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 30
195118 TACCTATGTC
*
195128 CTTCGGGACATATGGACAGTTTACCTAGGTT
1 CTTCGGGACATATGGACAGTTTA-CGAGGTT
*
195159 CTTCGGGACCTATGGACAGTTGT-CGAGGTT
1 CTTCGGGACATATGGACAGTT-TACGAGGTT
195189 CTT
1 CTT
195192 TATGACCTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 9 0.30
31 20 0.67
32 1 0.03
ACGTcount: A:0.19, C:0.20, G:0.28, T:0.33
Consensus pattern (30 bp):
CTTCGGGACATATGGACAGTTTACGAGGTT
Found at i:197990 original size:27 final size:27
Alignment explanation
Indices: 197960--198027 Score: 111
Period size: 27 Copynumber: 2.6 Consensus size: 27
197950 AGAATGTATT
*
197960 AAAGTTAAAGGATTTGTATGTTTGACG
1 AAAGTTAAAGGATTTGTATGTTCGACG
197987 AAAGTTAAAGGATTTGTATGTTCGACG
1 AAAGTTAAAGGATTTGTATGTTCGACG
*
198014 GAAGTTAAA-GATTT
1 AAAGTTAAAGGATTT
198028 ACCGAAAAGT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
26 5 0.13
27 34 0.87
ACGTcount: A:0.35, C:0.04, G:0.25, T:0.35
Consensus pattern (27 bp):
AAAGTTAAAGGATTTGTATGTTCGACG
Found at i:199534 original size:21 final size:21
Alignment explanation
Indices: 199504--199554 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
199494 TAATTTGTTA
* *
199504 GTATCGAATTACAAGGTATAT
1 GTATCAAATTACAAGGTATAG
199525 GTATCAAATTACAAGGTATAG
1 GTATCAAATTACAAGGTATAG
199546 GTATCAAAT
1 GTATCAAAT
199555 AATTGCCTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.31
Consensus pattern (21 bp):
GTATCAAATTACAAGGTATAG
Found at i:200001 original size:2 final size:2
Alignment explanation
Indices: 199996--200078 Score: 166
Period size: 2 Copynumber: 41.5 Consensus size: 2
199986 GATATATATA
199996 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
200038 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
200079 TTACATAAGT
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 81 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:200414 original size:32 final size:32
Alignment explanation
Indices: 200373--200465 Score: 93
Period size: 32 Copynumber: 2.9 Consensus size: 32
200363 GAGTCGAGGG
200373 TTACCTATGTCTTTCGAGCCATATGGACAGGA
1 TTACCTATGTCTTTCGAGCCATATGGACAGGA
* * * * *
200405 TTACCTATGTCCTTCGGGACATATGAACA-GT
1 TTACCTATGTCTTTCGAGCCATATGGACAGGA
*
200436 TTACCTAGGT-TCTTCGAGACC-TATGGACAG
1 TTACCTATGTCT-TTCGAG-CCATATGGACAG
200466 TTGTCGAGGT
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
31 22 0.46
32 26 0.54
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.31
Consensus pattern (32 bp):
TTACCTATGTCTTTCGAGCCATATGGACAGGA
Found at i:200451 original size:31 final size:31
Alignment explanation
Indices: 200373--200467 Score: 91
Period size: 31 Copynumber: 3.0 Consensus size: 31
200363 GAGTCGAGGG
* * * * *
200373 TTACCTATGTCTTTCGAGCCATATGGACAGGA
1 TTACCTAGGTCCTTCGAGACATATGAACA-GT
* *
200405 TTACCTATGTCCTTCGGGACATATGAACAGT
1 TTACCTAGGTCCTTCGAGACATATGAACAGT
* * *
200436 TTACCTAGGTTCTTCGAGACCTATGGACAGT
1 TTACCTAGGTCCTTCGAGACATATGAACAGT
200467 T
1 T
200468 GTCGAGGTTC
Statistics
Matches: 53, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
31 28 0.53
32 25 0.47
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (31 bp):
TTACCTAGGTCCTTCGAGACATATGAACAGT
Found at i:203428 original size:29 final size:30
Alignment explanation
Indices: 203362--203437 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 30
203352 GAACAATAAA
* * * * *
203362 AAATTTAAGGGACCAAAATATGATTAACAT
1 AAATTTAAAGGACCAAAAAATCATAAAAAT
*
203392 AAACTTAAAGGACCAAAAAATCA-AAAAAT
1 AAATTTAAAGGACCAAAAAATCATAAAAAT
*
203421 AAATTTAAAGGTCCAAA
1 AAATTTAAAGGACCAAA
203438 GTTGAAAAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
29 19 0.50
30 19 0.50
ACGTcount: A:0.57, C:0.12, G:0.11, T:0.21
Consensus pattern (30 bp):
AAATTTAAAGGACCAAAAAATCATAAAAAT
Found at i:204642 original size:64 final size:64
Alignment explanation
Indices: 204571--204751 Score: 209
Period size: 64 Copynumber: 2.8 Consensus size: 64
204561 TTGGAACACT
* **
204571 TGATGCATCGGTGCACCAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTAAAAAATAGCC
1 TGATGCATCGATGCATGAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTAAAAAATAGCC
* * * ** **
204635 TGATGCATCGATGCATGTATTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTC
1 TGATGCATCGATGCATGAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTAAAAAATAGCC
* * * * * *
204699 AGAGTGCATCGATGCATGGAGAGTGCATCGGTGCATGGAATACATTCGATGTT
1 TGA-TGCATCGATGCATGAAGTGTGCATCGATGCATGAAATGCATTCGATGTT
204752 CAATTAATTC
Statistics
Matches: 98, Mismatches: 18, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
64 56 0.57
65 42 0.43
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.30
Consensus pattern (64 bp):
TGATGCATCGATGCATGAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTAAAAAATAGCC
Found at i:204723 original size:19 final size:19
Alignment explanation
Indices: 204699--204737 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
204689 GAAAATATTC
204699 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
204718 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
204737 A
1 A
204738 ATACATTCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.15, G:0.38, T:0.21
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:204734 original size:65 final size:64
Alignment explanation
Indices: 204592--204751 Score: 203
Period size: 65 Copynumber: 2.5 Consensus size: 64
204582 TGCACCAAGT
* * **
204592 GTGCATCGATGCATGAAATGCATTCGATGTTTAAAAAATAGCCTGATGCATCGATGCATGTATT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTAAAAAATAGCCAGATGCATCGATGCATGGAGA
* ** **
204656 GTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGGAGA
1 GTGCATCGATGCATGAAATGCATTCGATGTTTAAAAAATAGCCAGA-TGCATCGATGCATGGAGA
* * *
204721 GTGCATCGGTGCATGGAATACATTCGATGTT
1 GTGCATCGATGCATGAAATGCATTCGATGTT
204752 CAATTAATTC
Statistics
Matches: 82, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
64 40 0.49
65 42 0.51
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (64 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTAAAAAATAGCCAGATGCATCGATGCATGGAGA
Found at i:204791 original size:65 final size:63
Alignment explanation
Indices: 204593--204799 Score: 179
Period size: 65 Copynumber: 3.2 Consensus size: 63
204583 GCACCAAGTG
* * * * ** *
204593 TGCATCGATGCATGAAATGCATTCGATGTTTAAAAAATAGCCTGATGCATCGATGCATGTATTG-
1 TGCATCGGTGCATCAAATACATTCGATGTTT-CAAAATATTCAGATGCATCGATGCATGTA-TGA
* * * *
204657 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGGA-GA
1 TGCATCGGTGCATCAAATACATTCGATG-TTTCAAAATATTCAGA-TGCATCGATGCATGTATGA
** *
204721 GTGCATCGGTGCATGGAATACATTCGATG-TTC-AATTAATTCATCGATGCATCGATGCATGTAC
1 -TGCATCGGTGCATCAAATACATTCGATGTTTCAAAAT-ATTCA--GATGCATCGATGCATGTA-
204784 TGA
61 TGA
204787 TGCATCGGTGCAT
1 TGCATCGGTGCAT
204800 ACCTTTGAAT
Statistics
Matches: 121, Mismatches: 13, Indels: 17
0.80 0.09 0.11
Matches are distributed among these distances:
62 3 0.02
63 8 0.07
64 51 0.42
65 57 0.47
66 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (63 bp):
TGCATCGGTGCATCAAATACATTCGATGTTTCAAAATATTCAGATGCATCGATGCATGTATGA
Found at i:211241 original size:22 final size:21
Alignment explanation
Indices: 211199--211238 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
211189 GAGTTTGTTT
*
211199 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
211220 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
211239 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:213233 original size:64 final size:63
Alignment explanation
Indices: 213165--213345 Score: 193
Period size: 64 Copynumber: 2.8 Consensus size: 63
213155 TTGGAACACT
* **
213165 TGATGCATCGGTGCACCAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCC
1 TGATGCATCGATGCATGAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCC
* * * **
213229 TGATGCATCGATGCATGTA-TAGTGCATCGATGCATCAAATGCATTCAATGTTTTGAAAATATTC
1 TGATGCATCGATGCATGAAGT-GTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCC
* * * * * *
213293 AGAGTGCATCGATGCATGGAGAGTGCATCGGTGCATGGAATACATTCGATGTT
1 TGA-TGCATCGATGCATGAAGTGTGCATCGATGCATGAAATGCATTCGATGTT
213346 CAATTAATTC
Statistics
Matches: 97, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
63 1 0.01
64 53 0.55
65 43 0.44
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (63 bp):
TGATGCATCGATGCATGAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCC
Found at i:213317 original size:19 final size:19
Alignment explanation
Indices: 213293--213331 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
213283 GAAAATATTC
213293 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
213312 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
213331 A
1 A
213332 ATACATTCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.15, G:0.38, T:0.21
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:213339 original size:65 final size:65
Alignment explanation
Indices: 213186--213345 Score: 207
Period size: 65 Copynumber: 2.5 Consensus size: 65
213176 TGCACCAAGT
* * *
213186 GTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAAATAGCCTGATGCATCGATGCATGTATA
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGATGCATCGATGCATGGAGA
* * **
213250 GTGCATCGATGCATCAAATGCATTCAATGTTTTG-AAAATATTCAGAGTGCATCGATGCATGGAG
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGA-TGCATCGATGCATGGAG
213314 A
65 A
* * *
213315 GTGCATCGGTGCATGGAATACATTCGATGTT
1 GTGCATCGATGCATGAAATGCATTCGATGTT
213346 CAATTAATTC
Statistics
Matches: 82, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
64 36 0.44
65 46 0.56
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (65 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGATGCATCGATGCATGGAGA
Found at i:223553 original size:14 final size:14
Alignment explanation
Indices: 223536--223575 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
223526 AGTTCGTTTG
223536 TTTATGTTCATTCA
1 TTTATGTTCATTCA
* *
223550 TTTATGTTTATTCG
1 TTTATGTTCATTCA
223564 TTTATGTTCATT
1 TTTATGTTCATT
223576 TATGTTCTCC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.17, C:0.10, G:0.10, T:0.62
Consensus pattern (14 bp):
TTTATGTTCATTCA
Found at i:232208 original size:21 final size:22
Alignment explanation
Indices: 232183--232252 Score: 99
Period size: 21 Copynumber: 3.3 Consensus size: 22
232173 CCTGTTAGAG
* *
232183 TGTTAATAGTTTGTTA-TGGTT
1 TGTTATTAGTTTGTTATTAGTT
*
232204 TGTTATTAGCTTGTTATTAG-T
1 TGTTATTAGTTTGTTATTAGTT
232225 TGTTATTAGTTTGTTATTAGTT
1 TGTTATTAGTTTGTTATTAGTT
232247 TGTTAT
1 TGTTAT
232253 GGTTGTTGGT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
21 34 0.79
22 9 0.21
ACGTcount: A:0.19, C:0.01, G:0.20, T:0.60
Consensus pattern (22 bp):
TGTTATTAGTTTGTTATTAGTT
Found at i:232217 original size:11 final size:11
Alignment explanation
Indices: 232183--232252 Score: 99
Period size: 11 Copynumber: 6.5 Consensus size: 11
232173 CCTGTTAGAG
*
232183 TGTTAATAGTT
1 TGTTATTAGTT
*
232194 TGTTA-TGGTT
1 TGTTATTAGTT
*
232204 TGTTATTAGCT
1 TGTTATTAGTT
232215 TGTTATTAG-T
1 TGTTATTAGTT
232225 TGTTATTAGTT
1 TGTTATTAGTT
232236 TGTTATTAGTT
1 TGTTATTAGTT
232247 TGTTAT
1 TGTTAT
232253 GGTTGTTGGT
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
10 19 0.35
11 35 0.65
ACGTcount: A:0.19, C:0.01, G:0.20, T:0.60
Consensus pattern (11 bp):
TGTTATTAGTT
Found at i:232219 original size:32 final size:32
Alignment explanation
Indices: 232183--232259 Score: 95
Period size: 32 Copynumber: 2.4 Consensus size: 32
232173 CCTGTTAGAG
*
232183 TGTTAATAGTTTGTTA-TGGTTTGTTATTAGCT
1 TGTTAATAG-TTGTTATTAGTTTGTTATTAGCT
* *
232215 TGTTATTAGTTGTTATTAGTTTGTTATTAGTT
1 TGTTAATAGTTGTTATTAGTTTGTTATTAGCT
*
232247 TGTT-ATGGTTGTT
1 TGTTAATAGTTGTT
232260 GGTTACTTGG
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
31 13 0.33
32 26 0.67
ACGTcount: A:0.17, C:0.01, G:0.22, T:0.60
Consensus pattern (32 bp):
TGTTAATAGTTGTTATTAGTTTGTTATTAGCT
Found at i:233719 original size:21 final size:21
Alignment explanation
Indices: 233693--233737 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
233683 GATTTCTGGG
* *
233693 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
233714 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
233735 CAA
1 CAA
233738 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:234634 original size:31 final size:31
Alignment explanation
Indices: 234596--234720 Score: 189
Period size: 31 Copynumber: 4.0 Consensus size: 31
234586 AGGGTCGAGG
*
234596 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
234627 GTTTACCTATGTTCTTCGGAACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
* *
234658 GTTTACCTATGTCCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
* *
234689 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGAA-CATATGGACT
234720 G
1 G
234721 GTCCTTCGGG
Statistics
Matches: 86, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
31 85 0.99
32 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.37
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGAACATATGGACT
Found at i:235461 original size:43 final size:44
Alignment explanation
Indices: 235375--235461 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
235365 TTAAAGGTCA
235375 ATGTGACACTTCGGACTCGTATTCGGGTCGGATACGGGTTGGGG
1 ATGTGACACTTCGGACTCGTATTCGGGTCGGATACGGGTTGGGG
235419 ATGTGACACTTCGGACTCGTATTC-GGTCGGATACGGGTTGGGG
1 ATGTGACACTTCGGACTCGTATTCGGGTCGGATACGGGTTGGGG
235462 TGTTACATTT
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 19 0.44
44 24 0.56
ACGTcount: A:0.16, C:0.18, G:0.38, T:0.28
Consensus pattern (44 bp):
ATGTGACACTTCGGACTCGTATTCGGGTCGGATACGGGTTGGGG
Found at i:237618 original size:21 final size:21
Alignment explanation
Indices: 237592--237636 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
237582 GATTTCTGGG
* *
237592 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
237613 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
237634 CAA
1 CAA
237637 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:238600 original size:31 final size:31
Alignment explanation
Indices: 238483--238604 Score: 153
Period size: 31 Copynumber: 4.0 Consensus size: 31
238473 AAGGGTCGAG
*
238483 GTTTA-CTATGTTC-TCGGGACATATGGA-T
1 GTTTACCTATGTTCTTCGGAACATATGGACT
*
238511 GTTTACCTATGTTCTTCGGAACATATGGGCT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
* *
238542 GTTTACCTATGTCCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
* *
238573 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGAA-CATATGGACT
238604 G
1 G
238605 GTCCTTCGGG
Statistics
Matches: 81, Mismatches: 9, Indels: 5
0.85 0.09 0.05
Matches are distributed among these distances:
28 5 0.06
29 8 0.10
30 12 0.15
31 55 0.68
32 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.37
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGAACATATGGACT
Found at i:240839 original size:21 final size:22
Alignment explanation
Indices: 240814--240883 Score: 99
Period size: 21 Copynumber: 3.3 Consensus size: 22
240804 AATGTTAGAG
* *
240814 TGTTAATAGTTTGTTA-TGGTT
1 TGTTATTAGTTTGTTATTAGTT
*
240835 TGTTATTAGCTTGTTATTAG-T
1 TGTTATTAGTTTGTTATTAGTT
240856 TGTTATTAGTTTGTTATTAGTT
1 TGTTATTAGTTTGTTATTAGTT
240878 TGTTAT
1 TGTTAT
240884 GGTTGTTGGT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
21 34 0.79
22 9 0.21
ACGTcount: A:0.19, C:0.01, G:0.20, T:0.60
Consensus pattern (22 bp):
TGTTATTAGTTTGTTATTAGTT
Found at i:240848 original size:11 final size:11
Alignment explanation
Indices: 240814--240883 Score: 99
Period size: 11 Copynumber: 6.5 Consensus size: 11
240804 AATGTTAGAG
*
240814 TGTTAATAGTT
1 TGTTATTAGTT
*
240825 TGTTA-TGGTT
1 TGTTATTAGTT
*
240835 TGTTATTAGCT
1 TGTTATTAGTT
240846 TGTTATTAG-T
1 TGTTATTAGTT
240856 TGTTATTAGTT
1 TGTTATTAGTT
240867 TGTTATTAGTT
1 TGTTATTAGTT
240878 TGTTAT
1 TGTTAT
240884 GGTTGTTGGT
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
10 19 0.35
11 35 0.65
ACGTcount: A:0.19, C:0.01, G:0.20, T:0.60
Consensus pattern (11 bp):
TGTTATTAGTT
Found at i:240850 original size:32 final size:32
Alignment explanation
Indices: 240814--240890 Score: 95
Period size: 32 Copynumber: 2.4 Consensus size: 32
240804 AATGTTAGAG
*
240814 TGTTAATAGTTTGTTA-TGGTTTGTTATTAGCT
1 TGTTAATAG-TTGTTATTAGTTTGTTATTAGCT
* *
240846 TGTTATTAGTTGTTATTAGTTTGTTATTAGTT
1 TGTTAATAGTTGTTATTAGTTTGTTATTAGCT
*
240878 TGTT-ATGGTTGTT
1 TGTTAATAGTTGTT
240891 GGTTACTTGG
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
31 13 0.33
32 26 0.67
ACGTcount: A:0.17, C:0.01, G:0.22, T:0.60
Consensus pattern (32 bp):
TGTTAATAGTTGTTATTAGTTTGTTATTAGCT
Found at i:242296 original size:33 final size:33
Alignment explanation
Indices: 242194--242296 Score: 86
Period size: 33 Copynumber: 3.1 Consensus size: 33
242184 TTTGAAGATA
* * ****
242194 TTTTTGAAAAACATATAGTTTTTAGAAA-GCGG
1 TTTTTGGAAAACATATAGTTTTTAAAAATATAT
* *
242226 TTTTT-GAAAACATATATAGCTTTT-AAAATGATTT
1 TTTTTGGAAAAC--ATATAGTTTTTAAAAAT-ATAT
242260 TTTTTGGAAAACATATAGTTTTTAAAAATATAT
1 TTTTTGGAAAACATATAGTTTTTAAAAATATAT
242293 TTTT
1 TTTT
242297 CAAAATTATA
Statistics
Matches: 56, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
31 5 0.09
32 8 0.14
33 27 0.48
34 10 0.18
35 6 0.11
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.46
Consensus pattern (33 bp):
TTTTTGGAAAACATATAGTTTTTAAAAATATAT
Found at i:244669 original size:17 final size:17
Alignment explanation
Indices: 244643--244677 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
244633 CACCGTTCCC
244643 ATACCAGATCAT-GAGG
1 ATACCAGATCATGGAGG
244659 ATACTCAGATCATGGAGG
1 ATAC-CAGATCATGGAGG
244677 A
1 A
244678 GCATCTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 8 0.47
18 5 0.29
ACGTcount: A:0.37, C:0.17, G:0.26, T:0.20
Consensus pattern (17 bp):
ATACCAGATCATGGAGG
Found at i:245980 original size:24 final size:24
Alignment explanation
Indices: 245948--246021 Score: 103
Period size: 24 Copynumber: 3.1 Consensus size: 24
245938 TCAAGATGAC
* *
245948 TCATATGCTGCAAAAGCACACGCT
1 TCATCTGCTGCAAAAGCACAAGCT
*
245972 TCATCTGCTACAAAAGCACAAGCT
1 TCATCTGCTGCAAAAGCACAAGCT
* *
245996 TCATCGGCTGCAAAAGCACAAACT
1 TCATCTGCTGCAAAAGCACAAGCT
246020 TC
1 TC
246022 TGTAACTAAC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.35, C:0.30, G:0.15, T:0.20
Consensus pattern (24 bp):
TCATCTGCTGCAAAAGCACAAGCT
Found at i:250727 original size:201 final size:200
Alignment explanation
Indices: 250416--251350 Score: 1093
Period size: 201 Copynumber: 4.7 Consensus size: 200
250406 TTTGTCAATA
* * * *
250416 AAAACTTTCGAGTTTGATTCCATTCAGCTCGAGGGCGTATCAACCGTATGCTAGCAACGAGGAAC
1 AAAACTTTCGAGTTCGATTCCATTCAGCTCGAGGGCGTATCAACCGCATGGTAGCAGCGAGGAAC
* *
250481 TACTTTCCGGTTGAATTTTAAA-CAGAGGTCTTTAAGTCAAGAAGAAGACCTAGGTTGGCTGCGA
66 TACTTTTCGGTTGAAGTTTAAACCA-AGGTCTTTAAGTCAAGAAGAAGACCTAGGTTGGCTGCGA
* * * * *
250545 TTTAGAAACAATGAACTATCTCCCAGCCGAATTTATAGCATAGCTCAAGGCAAGAAGGGTTATAT
130 TTTAGCAACAATGAACTATCTCCCAGCCTAATTTACAACATAACTCAAGG-AAGAAGGGTTATAT
250610 GTCAACG
194 GTCAACG
* * * *
250617 AAAACTTTCGAGTTTGATTTCATTCAGCTCGAGGGTGTATCAACCGCATGGTAGCAGCGATGAAC
1 AAAACTTTCGAGTTCGATTCCATTCAGCTCGAGGGCGTATCAACCGCATGGTAGCAGCGAGGAAC
* * * * **
250682 TACTTTTTGGTTGAAGTTTAAATCAAGGTCTTTAAGTCGAGAAGAAGACCTATGTTGGCTATGAT
66 TACTTTTCGGTTGAAGTTTAAACCAAGGTCTTTAAGTCAAGAAGAAGACCTAGGTTGGCTGCGAT
* * * * *
250747 TTAGCAATAAGGAACTATCTCACAACCTAATTTACAACATAACTCAAGGAGAGAAGGGTTATTTG
131 TTAGCAACAATGAACTATCTCCCAGCCTAATTTACAACATAACTCAAGGA-AGAAGGGTTATATG
250812 TCAACG
195 TCAACG
* ** ** *
250818 AAAACTTTCGAGTTCGATTCCATTTAGCTTAAACGCGTATCAATCGCATGGTAGCAGCGAGGAAC
1 AAAACTTTCGAGTTCGATTCCATTCAGCTCGAGGGCGTATCAACCGCATGGTAGCAGCGAGGAAC
* * *
250883 TACTTTTCGGTTGAAGTTTAAACCGAGGTATTTAAGTCAAGAAGAAGACCTAGGTTGACTGCGAT
66 TACTTTTCGGTTGAAGTTTAAACCAAGGTCTTTAAGTCAAGAAGAAGACCTAGGTTGGCTGCGAT
* ** * *
250948 TTAGCAAC-ATGGAACTATCTCCC--CCTAATTTACAACATAACTTAAGTCG-AGAAAAGATGTA
131 TTAGCAACAAT-GAACTATCTCCCAGCCTAATTTACAACATAACTCAAG--GAAGAAGGGTTATA
251009 TGTCAACG
193 TGTCAACG
* * * *
251017 AAAACTTTCAAGTTCGATTCCATTCAGCTCGAGGGCGTATCAAACGCATGGTAGCAGCAATGAAC
1 AAAACTTTCGAGTTCGATTCCATTCAGCTCGAGGGCGTATCAACCGCATGGTAGCAGCGAGGAAC
* * * *
251082 TA-TTTTCCGGTTGAAGTTTAAACCGAGGTCTTTAAGTCAAGAAGAAGACTTATGTTGGTTGCGA
66 TACTTTT-CGGTTGAAGTTTAAACCAAGGTCTTTAAGTCAAGAAGAAGACCTAGGTTGGCTGCGA
* * * *
251146 TTTAGCAACAATGAACTATCTTCCAGCCTAATTTACAGCAT-ACTCGA-GAA-AA--GTTATCTG
130 TTTAGCAACAATGAACTATCTCCCAGCCTAATTTACAACATAACTCAAGGAAGAAGGGTTATATG
*
251206 TCAACA
195 TCAACG
* * * * * * *
251212 AAAACTTTTGAGTTCAATTTCATTCAGCTCGAGGGCGTATAAACCACATGGTAGTAGCGAGAAAC
1 AAAACTTTCGAGTTCGATTCCATTCAGCTCGAGGGCGTATCAACCGCATGGTAGCAGCGAGGAAC
* * * * * * ** *
251277 TACTTTTCAGTTGAATTTTAAACCAAAGTCTTTAAG-CTAGAAGAAAACCAAGGTTAACTACGAT
66 TACTTTTCGGTTGAAGTTTAAACCAAGGTCTTTAAGTCAAGAAGAAGACCTAGGTTGGCTGCGAT
*
251341 TTGGCAACAA
131 TTAGCAACAA
251351 AAAGTCACTT
Statistics
Matches: 625, Mismatches: 98, Indels: 29
0.83 0.13 0.04
Matches are distributed among these distances:
194 28 0.04
195 91 0.15
196 4 0.01
197 3 0.00
198 5 0.01
199 167 0.27
200 8 0.01
201 317 0.51
202 2 0.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.28
Consensus pattern (200 bp):
AAAACTTTCGAGTTCGATTCCATTCAGCTCGAGGGCGTATCAACCGCATGGTAGCAGCGAGGAAC
TACTTTTCGGTTGAAGTTTAAACCAAGGTCTTTAAGTCAAGAAGAAGACCTAGGTTGGCTGCGAT
TTAGCAACAATGAACTATCTCCCAGCCTAATTTACAACATAACTCAAGGAAGAAGGGTTATATGT
CAACG
Found at i:251180 original size:400 final size:394
Alignment explanation
Indices: 250394--251349 Score: 1182
Period size: 400 Copynumber: 2.4 Consensus size: 394
250384 TAGCTCAAGG
** * *
250394 CGAGAAAAAATATTTGTCAATAAAAACTTTCGAGTTTGATTCCATTCAGCTCGAGGGCGTATCAA
1 CGAGAAAAGTTATTTGTCAACAAAAACTTTCGAGTTCGATTCCATTCAGCTCGAGGGCGTATCAA
* * * * *
250459 CCGTATGCTAGCAACGAGGAACTACTTTCCGGTTGAATTTTAAACAGAGGTCTTTAAGTCAAGAA
66 CCGCATGGTAGCAGCGAGGAACTACTTTTCGGTTGAATTTTAAACCGAGGTCTTTAAGTCAAGAA
* * * * *
250524 GAAGACCTAGGTTGGCTGCGATTTAGAAACAATGAACTATCTCCCAGCCGAATTTATAGCATAGC
131 GAAGACCTAGGTTGACTGCGATTTAGCAAC-ATGAACTATCTCCCA-CCGAATTTACAACATAAC
** * * * * *
250589 TCAAGGCAAGAAGGGTTATATGTCAACGAAAACTTTCGAGTTTGATTTCATTCAGCTCGAGGGTG
194 TCAAGGCAAGAAAAGATATATGTCAACGAAAACTTTCAAGTTCGATTCCATTCAGCTCGAGGGCG
* * * *
250654 TATCAACCGCATGGTAGCAGCGATGAACTACTTTTTGGTTGAAGTTTAAATCAAGGTCTTTAAGT
259 TATCAAACGCATGGTAGCAGCAATGAACTACTTTTCGGTTGAAGTTTAAACCAAGGTCTTTAAGT
* * *
250719 CGAGAAGAAGACCTATGTTGGCTATGATTTAGCAATAAGGAACTATCTCACAACCTAATTTACAA
324 CAAGAAGAAGACCTATGTTGGCTACGATTTAGCAACAAGGAACTATCTCACAACCTAATTTACAA
250784 CATAACT
389 CAT-ACT
* * * ** **
250791 CAAGGAGAGAAGGGTTATTTGTCAACGAAAACTTTCGAGTTCGATTCCATTTAGCTTAAACGCGT
1 C---GAGA-AA-AGTTATTTGTCAACAAAAACTTTCGAGTTCGATTCCATTCAGCTCGAGGGCGT
* * *
250856 ATCAATCGCATGGTAGCAGCGAGGAACTACTTTTCGGTTGAAGTTTAAACCGAGGTATTTAAGTC
61 ATCAACCGCATGGTAGCAGCGAGGAACTACTTTTCGGTTGAATTTTAAACCGAGGTCTTTAAGTC
*
250921 AAGAAGAAGACCTAGGTTGACTGCGATTTAGCAACATGGAACTATCTCCC-CCTAATTTACAACA
126 AAGAAGAAGACCTAGGTTGACTGCGATTTAGCAACAT-GAACTATCTCCCACCGAATTTACAACA
* * * *
250985 TAACTTAAGTCGAGAAAAGATGTATGTCAACGAAAACTTTCAAGTTCGATTCCATTCAGCTCGAG
190 TAACTCAAGGCAAGAAAAGATATATGTCAACGAAAACTTTCAAGTTCGATTCCATTCAGCTCGAG
*
251050 GGCGTATCAAACGCATGGTAGCAGCAATGAACTA-TTTTCCGGTTGAAGTTTAAACCGAGGTCTT
255 GGCGTATCAAACGCATGGTAGCAGCAATGAACTACTTTT-CGGTTGAAGTTTAAACCAAGGTCTT
* * * * *
251114 TAAGTCAAGAAGAAGACTTATGTTGGTTGCGATTTAGCAACAATGAACTATCTTC-CAGCCTAAT
319 TAAGTCAAGAAGAAGACCTATGTTGGCTACGATTTAGCAACAAGGAACTATC-TCACAACCTAAT
*
251178 TTACAGCATACT
383 TTACAACATACT
* * * * *
251190 CGAGAAAAGTTATCTGTCAACAAAAACTTTTGAGTTCAATTTCATTCAGCTCGAGGGCGTATAAA
1 CGAGAAAAGTTATTTGTCAACAAAAACTTTCGAGTTCGATTCCATTCAGCTCGAGGGCGTATCAA
* * * * * * *
251255 CCACATGGTAGTAGCGAGAAACTACTTTTCAGTTGAATTTTAAACCAAAGTCTTTAAG-CTAGAA
66 CCGCATGGTAGCAGCGAGGAACTACTTTTCGGTTGAATTTTAAACCGAGGTCTTTAAGTCAAGAA
* * * * *
251319 GAAAACCAAGGTTAACTACGATTTGGCAACA
131 GAAGACCTAGGTTGACTGCGATTTAGCAACA
251350 AAAAGTCACT
Statistics
Matches: 474, Mismatches: 77, Indels: 20
0.83 0.13 0.04
Matches are distributed among these distances:
393 31 0.07
394 95 0.20
395 2 0.00
396 4 0.01
397 1 0.00
399 8 0.02
400 183 0.39
401 6 0.01
402 144 0.30
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.28
Consensus pattern (394 bp):
CGAGAAAAGTTATTTGTCAACAAAAACTTTCGAGTTCGATTCCATTCAGCTCGAGGGCGTATCAA
CCGCATGGTAGCAGCGAGGAACTACTTTTCGGTTGAATTTTAAACCGAGGTCTTTAAGTCAAGAA
GAAGACCTAGGTTGACTGCGATTTAGCAACATGAACTATCTCCCACCGAATTTACAACATAACTC
AAGGCAAGAAAAGATATATGTCAACGAAAACTTTCAAGTTCGATTCCATTCAGCTCGAGGGCGTA
TCAAACGCATGGTAGCAGCAATGAACTACTTTTCGGTTGAAGTTTAAACCAAGGTCTTTAAGTCA
AGAAGAAGACCTATGTTGGCTACGATTTAGCAACAAGGAACTATCTCACAACCTAATTTACAACA
TACT
Found at i:252140 original size:18 final size:17
Alignment explanation
Indices: 252107--252160 Score: 55
Period size: 18 Copynumber: 3.4 Consensus size: 17
252097 TAGTTTTTGA
252107 ATATATTTTTGAAAAAC
1 ATATATTTTTGAAAAAC
252124 ATATAGTTTTT-AGAAAAC
1 ATATA-TTTTTGA-AAAAC
252142 --A-ATTTTTG-AAAAC
1 ATATATTTTTGAAAAAC
252155 ATATAT
1 ATATAT
252161 AGTTTTTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 13
0.70 0.00 0.30
Matches are distributed among these distances:
13 5 0.16
14 5 0.16
15 2 0.06
16 3 0.10
17 6 0.19
18 10 0.32
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.41
Consensus pattern (17 bp):
ATATATTTTTGAAAAAC
Done.