Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007145.1 Hibiscus syriacus cultivar Beakdansim tig00018687_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: 87154
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:3401 original size:23 final size:26
Alignment explanation
Indices: 3353--3403 Score: 72
Period size: 23 Copynumber: 2.1 Consensus size: 26
3343 ATTGAAACAA
*
3353 CATTAAACATAAAACATTAAATCATC
1 CATTAAACATAAAACATAAAATCATC
3379 CATT-AACAT-AAA-ATAAAATCATC
1 CATTAAACATAAAACATAAAATCATC
3402 CA
1 CA
3404 ACACAAATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 12 0.50
24 3 0.12
25 5 0.21
26 4 0.17
ACGTcount: A:0.55, C:0.20, G:0.00, T:0.25
Consensus pattern (26 bp):
CATTAAACATAAAACATAAAATCATC
Found at i:13252 original size:15 final size:15
Alignment explanation
Indices: 13232--13266 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
13222 ATAGTTTATG
*
13232 TTATATAGTAGCGTA
1 TTATATAGTAGCATA
*
13247 TTATATAGTTGCATA
1 TTATATAGTAGCATA
13262 TTATA
1 TTATA
13267 AATAGTAGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.34, C:0.06, G:0.14, T:0.46
Consensus pattern (15 bp):
TTATATAGTAGCATA
Found at i:13291 original size:14 final size:15
Alignment explanation
Indices: 13272--13302 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
13262 TTATAAATAG
13272 TAGTCCATGTTA-AA
1 TAGTCCATGTTAGAA
13286 TAGTCCATGTTAGAA
1 TAGTCCATGTTAGAA
13301 TA
1 TA
13303 TTAGCCCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (15 bp):
TAGTCCATGTTAGAA
Found at i:13383 original size:32 final size:32
Alignment explanation
Indices: 13347--13421 Score: 132
Period size: 32 Copynumber: 2.3 Consensus size: 32
13337 CAAAATAAAG
13347 GTCCATTATATTTAAAAGAGTCCATTTACATA
1 GTCCATTATATTTAAAAGAGTCCATTTACATA
**
13379 GTCCATTGCATTTAAAAGAGTCCATTTACATA
1 GTCCATTATATTTAAAAGAGTCCATTTACATA
13411 GTCCATTATAT
1 GTCCATTATAT
13422 AGGCCCAATC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (32 bp):
GTCCATTATATTTAAAAGAGTCCATTTACATA
Found at i:17675 original size:14 final size:14
Alignment explanation
Indices: 17658--17688 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
17648 ATAATAGATG
17658 ATAAGTGATCTTGA
1 ATAAGTGATCTTGA
17672 ATAAGTGATCTTGA
1 ATAAGTGATCTTGA
17686 ATA
1 ATA
17689 GCTCTCGATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.39, C:0.06, G:0.19, T:0.35
Consensus pattern (14 bp):
ATAAGTGATCTTGA
Found at i:22608 original size:2 final size:2
Alignment explanation
Indices: 22601--22626 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
22591 CCAGAGTATC
22601 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
22627 TGCATGCCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23245 original size:54 final size:54
Alignment explanation
Indices: 23024--23243 Score: 242
Period size: 54 Copynumber: 4.1 Consensus size: 54
23014 GTTGTGCCTA
* * * * * * *
23024 AGTGCCGAAATGGAAATTCATAAACTTATTATGAATTCCATAGATTGCACACAT
1 AGTGCCGATACGGTAATTCACAAACTCATTATGAATTCCGTAGGTTGCACACAT
* * * * *
23078 ACTGCCGATACGGTAATCCACAAACTCATTATGAATTCTGTGGGTTGGACACAT
1 AGTGCCGATACGGTAATTCACAAACTCATTATGAATTCCGTAGGTTGCACACAT
* * * * *
23132 GGTGCCGATACGGTAATACACAAAATTATTATGAATTCCGTGGGTTGCACACAT
1 AGTGCCGATACGGTAATTCACAAACTCATTATGAATTCCGTAGGTTGCACACAT
* * * **
23186 AGTGTCGATACGGTCATTCATAAACTCATTATGAATTATGTAGGTTGCACACAT
1 AGTGCCGATACGGTAATTCACAAACTCATTATGAATTCCGTAGGTTGCACACAT
23240 AGTG
1 AGTG
23244 TCAATAGTAC
Statistics
Matches: 137, Mismatches: 29, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 137 1.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.30
Consensus pattern (54 bp):
AGTGCCGATACGGTAATTCACAAACTCATTATGAATTCCGTAGGTTGCACACAT
Found at i:26912 original size:9 final size:9
Alignment explanation
Indices: 26898--26922 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
26888 TATCATCCTC
26898 TTTAATTTT
1 TTTAATTTT
26907 TTTAATTTT
1 TTTAATTTT
26916 TTTAATT
1 TTTAATT
26923 GATGGTATCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTAATTTT
Found at i:28958 original size:2 final size:2
Alignment explanation
Indices: 28951--28980 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
28941 CTAGAGCATC
28951 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
28981 TACATGACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:29510 original size:54 final size:55
Alignment explanation
Indices: 29422--29549 Score: 143
Period size: 54 Copynumber: 2.4 Consensus size: 55
29412 GAATTCCGTA
* * ** * *
29422 TTGCACACAT-GTGCAGATACAATTATTCACAAACTTGTTATGAATTATAT-GGG
1 TTGCACACATAGTGCCGATACAATCATTCACAAACTCATTATGAACTACATGGGG
* * * *
29475 TTGCACACATAGTGCCGATACAGTCATTCATAAACTCATTATGAACTCCGTGGGG
1 TTGCACACATAGTGCCGATACAATCATTCACAAACTCATTATGAACTACATGGGG
*
29530 TTGCACACATAGTGACGATA
1 TTGCACACATAGTGCCGATA
29550 GTACACATAG
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
53 10 0.16
54 30 0.48
55 22 0.35
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.30
Consensus pattern (55 bp):
TTGCACACATAGTGCCGATACAATCATTCACAAACTCATTATGAACTACATGGGG
Found at i:36363 original size:45 final size:45
Alignment explanation
Indices: 36298--36578 Score: 420
Period size: 45 Copynumber: 6.2 Consensus size: 45
36288 AATGAACCTT
*
36298 TATGCATTTTCAACTATAGCATACTTTTATGTTGATAATGCACCCA
1 TATGCA-TTTCAACTATAGCATACTTTTCTGTTGATAATGCACCCA
* * *
36344 TATACATTCCAACTATAGCATACTTTTTTTGTTGATAATGCACCCA
1 TATGCATTTCAACTATAGCATAC-TTTTCTGTTGATAATGCACCCA
* *
36390 TATGCATTTTAACTATAGCATACTTTTCTGTTGACAATGCACCCA
1 TATGCATTTCAACTATAGCATACTTTTCTGTTGATAATGCACCCA
*
36435 TATGCATTTCAACTATAGCATACTTTTTTCTATTGAT-ATGCACCCA
1 TATGCATTTCAACTATAGCATAC--TTTTCTGTTGATAATGCACCCA
* **
36481 TATGCATTTCAACTATATCATACTTTTCTGTTGATAATGCACCTG
1 TATGCATTTCAACTATAGCATACTTTTCTGTTGATAATGCACCCA
*
36526 TATGCATTTCAACTATAGCATATTTTTCTGTTGATAATGCACCCA
1 TATGCATTTCAACTATAGCATACTTTTCTGTTGATAATGCACCCA
36571 TATGCATT
1 TATGCATT
36579 CCTTCCATAA
Statistics
Matches: 212, Mismatches: 19, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
44 11 0.05
45 114 0.54
46 77 0.36
47 10 0.05
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (45 bp):
TATGCATTTCAACTATAGCATACTTTTCTGTTGATAATGCACCCA
Found at i:36448 original size:91 final size:91
Alignment explanation
Indices: 36298--36578 Score: 440
Period size: 91 Copynumber: 3.1 Consensus size: 91
36288 AATGAACCTT
* * *
36298 TATGCATTTTCAACTATAGCATACTTTTATGTTGATAATGCACCCATATACATTCCAACTATAGC
1 TATGCATTTT-AACTATAGCATACTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGC
36363 ATACTTTTTTTGTTGATAATGCACCCA
65 ATACTTTTTTTGTTGATAATGCACCCA
*
36390 TATGCATTTTAACTATAGCATACTTTTCTGTTGACAATGCACCCATATGCATTTCAACTATAGCA
1 TATGCATTTTAACTATAGCATACTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGCA
*
36455 TACTTTTTTCTATTGAT-ATGCACCCA
66 TACTTTTTT-TGTTGATAATGCACCCA
* * **
36481 TATGCATTTCAACTATATCATACTTTTCTGTTGATAATGCACCTGTATGCATTTCAACTATAGCA
1 TATGCATTTTAACTATAGCATACTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGCA
*
36546 TA-TTTTTCTGTTGATAATGCACCCA
66 TACTTTTTTTGTTGATAATGCACCCA
36571 TATGCATT
1 TATGCATT
36579 CCTTCCATAA
Statistics
Matches: 175, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
89 6 0.03
90 22 0.13
91 131 0.75
92 16 0.09
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (91 bp):
TATGCATTTTAACTATAGCATACTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGCA
TACTTTTTTTGTTGATAATGCACCCA
Found at i:36543 original size:136 final size:136
Alignment explanation
Indices: 36298--36578 Score: 422
Period size: 136 Copynumber: 2.1 Consensus size: 136
36288 AATGAACCTT
*
36298 TATGCATTTTCAACTATAGCATACTTTTATGTTGATAATGCACCCATATACATTCCAACTATAGC
1 TATGCA-TTTCAACTATAGCATACTTTTATATTGATAATGCACCCATATACATTCCAACTATAGC
* *
36363 ATACTTTTTTTGTTGATAATGCACCCATATGCATTTTAACTATAGCATACTTTTCTGTTGACAAT
65 ATACTTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTCTGTTGACAAT
36428 GCACCCA
130 GCACCCA
* * * *
36435 TATGCATTTCAACTATAGCATACTTTTTTCTATTGAT-ATGCACCCATATGCATTTCAACTATAT
1 TATGCATTTCAACTATAGCATAC--TTTTATATTGATAATGCACCCATATACATTCCAACTATAG
** * *
36499 CATAC-TTTTCTGTTGATAATGCACCTGTATGCATTTCAACTATAGCATATTTTTCTGTTGATAA
64 CATACTTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTCTGTTGACAA
36563 TGCACCCA
129 TGCACCCA
36571 TATGCATT
1 TATGCATT
36579 CCTTCCATAA
Statistics
Matches: 131, Mismatches: 11, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
136 86 0.66
137 35 0.27
138 10 0.08
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (136 bp):
TATGCATTTCAACTATAGCATACTTTTATATTGATAATGCACCCATATACATTCCAACTATAGCA
TACTTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTCTGTTGACAATG
CACCCA
Found at i:37924 original size:81 final size:81
Alignment explanation
Indices: 37839--37989 Score: 275
Period size: 81 Copynumber: 1.9 Consensus size: 81
37829 AACTAATCCC
* * *
37839 TTATTCTTTTACTCAACGGTGTTTAACCGTTCATCTAACTGGCATAATTGGCACCTTTCTACCAA
1 TTATTCTTTAACTCAACGGTGTTTAACCGTTCATATAACTGGCATAATTGACACCTTTCTACCAA
37904 TTGCAGAATTAGGCAG
66 TTGCAGAATTAGGCAG
37920 TTATTCTTTAACTCAACGGTGTTTAACCGTTCATATAACTGGCATAATTGACACCTTTCTACCAA
1 TTATTCTTTAACTCAACGGTGTTTAACCGTTCATATAACTGGCATAATTGACACCTTTCTACCAA
37985 TTGCA
66 TTGCA
37990 CAGTTAGACC
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
81 67 1.00
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (81 bp):
TTATTCTTTAACTCAACGGTGTTTAACCGTTCATATAACTGGCATAATTGACACCTTTCTACCAA
TTGCAGAATTAGGCAG
Found at i:38291 original size:55 final size:54
Alignment explanation
Indices: 38150--38491 Score: 325
Period size: 55 Copynumber: 6.3 Consensus size: 54
38140 TTTATTTAGA
* * ** * *
38150 TGCACACGTAGTGCCTATACGGTAGTTCATCAACTCATGATGAATTCTGTGG-GT
1 TGCACACATAGTG-CTGTACGGTTTTTCATCAAATCATGATGAATTCTGTGGATT
* * * *
38204 TGCACACATCGTGTCTGTACGGTTATTT-ATCAACTCAAGATGAATTCCGTGGATT
1 TGCACACATAGTG-CTGTACGGTT-TTTCATCAAATCATGATGAATTCTGTGGATT
* * *
38259 TACACACATAGTGCATGTACGGTTTTTCATCAAATCATGATGAATTCCGTTGATT
1 TGCACACATAGTGC-TGTACGGTTTTTCATCAAATCATGATGAATTCTGTGGATT
* * * * *
38314 TGCACACCTAGTGCTGGTACGGTTATTAATCAAATCATGATGCATTATGTGGATT
1 TGCACACATAGTGCT-GTACGGTTTTTCATCAAATCATGATGAATTCTGTGGATT
**
38369 TGCACACATAGTGCCTGTACAATTATTT-ATCAAATCATGATGAATT-TGGTGGATT
1 TGCACACATAGTG-CTGTACGGTT-TTTCATCAAATCATGATGAATTCT-GTGGATT
* * * ** *
38424 TGTACACATAGTGATGGTATGGTAATTCATCAACTCATGATGAATTCTGTGGA-T
1 TGCACACATAGTGCT-GTACGGTTTTTCATCAAATCATGATGAATTCTGTGGATT
*
38478 TGCACACTTAGTGC
1 TGCACACATAGTGC
38492 CGAAATAGTT
Statistics
Matches: 239, Mismatches: 38, Indels: 22
0.80 0.13 0.07
Matches are distributed among these distances:
54 62 0.26
55 172 0.72
56 5 0.02
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (54 bp):
TGCACACATAGTGCTGTACGGTTTTTCATCAAATCATGATGAATTCTGTGGATT
Found at i:38375 original size:110 final size:110
Alignment explanation
Indices: 38150--38492 Score: 379
Period size: 110 Copynumber: 3.1 Consensus size: 110
38140 TTTATTTAGA
* * ** * * ** *
38150 TGCACACGTAGTGCCTATACGGTAGTTCATCAACTCATGATGAATTCTG-TGGGTTGCACACATC
1 TGCACACATAGTGCCTGTACGGTTTTTCATCAAATCATGATGAATTCCGTTGATTTGCACACATA
* * *
38214 GTGTCT-GTACGGTTATTTATCAACTCAAGATGAATTCCGTGGATT
66 GTG-CTGGTACGGTTATTAATCAACTCATGATGAATTCTGTGGATT
* * *
38259 TACACACATAGTGCATGTACGGTTTTTCATCAAATCATGATGAATTCCGTTGATTTGCACACCTA
1 TGCACACATAGTGCCTGTACGGTTTTTCATCAAATCATGATGAATTCCGTTGATTTGCACACATA
* * *
38324 GTGCTGGTACGGTTATTAATCAAATCATGATGCATTATGTGGATT
66 GTGCTGGTACGGTTATTAATCAACTCATGATGAATTCTGTGGATT
** ** * *
38369 TGCACACATAGTGCCTGTACAATTATTT-ATCAAATCATGATGAATTTGGTGGATTTGTACACAT
1 TGCACACATAGTGCCTGTACGGTT-TTTCATCAAATCATGATGAATTCCGTTGATTTGCACACAT
* * * *
38433 AGTGATGGTATGGTAATTCATCAACTCATGATGAATTCTGTGGA-T
65 AGTGCTGGTACGGTTATTAATCAACTCATGATGAATTCTGTGGATT
*
38478 TGCACACTTAGTGCC
1 TGCACACATAGTGCC
38493 GAAATAGTTA
Statistics
Matches: 196, Mismatches: 35, Indels: 6
0.83 0.15 0.03
Matches are distributed among these distances:
109 58 0.30
110 135 0.69
111 3 0.02
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.34
Consensus pattern (110 bp):
TGCACACATAGTGCCTGTACGGTTTTTCATCAAATCATGATGAATTCCGTTGATTTGCACACATA
GTGCTGGTACGGTTATTAATCAACTCATGATGAATTCTGTGGATT
Found at i:38423 original size:165 final size:163
Alignment explanation
Indices: 38178--38491 Score: 405
Period size: 165 Copynumber: 1.9 Consensus size: 163
38168 ACGGTAGTTC
* * * * ** *
38178 ATCAACTCATGATGAATTCTGTGGGTTGCACACATCGTGTCTGTACGGTTATTTATCAACTCAAG
1 ATCAAATCATGATGAATTATGTGGGTTGCACACATAGTGCCTGTACAATTATTTATCAAATCAAG
**
38243 ATGAATTCCGTGGATTTACACACATAGTGCAT-GTACGGTTTTTCATCAAATCATGATGAATTCC
66 ATGAATTCCGTGGATTTACACACATAGTG-ATGGTACGGTAATTCATCAAATCATGATGAATTCC
*
38307 GTTGATTTGCACACCTAGTGCTGGTACGGTTATTA
130 GTGGA-TTGCACACCTAGTGCTGGTACGGTTATTA
* * *
38342 ATCAAATCATGATGCATTATGTGGATTTGCACACATAGTGCCTGTACAATTATTTATCAAATCAT
1 ATCAAATCATGATGAATTATGTGG-GTTGCACACATAGTGCCTGTACAATTATTTATCAAATCAA
** ** * * *
38407 GATGAATTTGGTGGATTTGTACACATAGTGATGGTATGGTAATTCATCAACTCATGATGAATTCT
65 GATGAATTCCGTGGATTTACACACATAGTGATGGTACGGTAATTCATCAAATCATGATGAATTCC
*
38472 GTGGATTGCACACTTAGTGC
130 GTGGATTGCACACCTAGTGC
38492 CGAAATAGTT
Statistics
Matches: 127, Mismatches: 21, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
164 37 0.29
165 90 0.71
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (163 bp):
ATCAAATCATGATGAATTATGTGGGTTGCACACATAGTGCCTGTACAATTATTTATCAAATCAAG
ATGAATTCCGTGGATTTACACACATAGTGATGGTACGGTAATTCATCAAATCATGATGAATTCCG
TGGATTGCACACCTAGTGCTGGTACGGTTATTA
Found at i:38520 original size:54 final size:54
Alignment explanation
Indices: 38462--39572 Score: 1434
Period size: 54 Copynumber: 20.6 Consensus size: 54
38452 ATCAACTCAT
* * * **
38462 GATGAATTCTGTGGATTGCACACTTAGTGCCGAAATAGTTATTCATCCACATAG
1 GATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAG
** * * *
38516 GATGAATTTTGTGAAATGCACACTT-GATGCAGAAACGATTATTCATCCATATAG
1 GATGAATTCCGTGAAATGCACACTTAG-TGCCGAAACGGTTATTCATCCACATAG
* *
38570 GATGAATTCCGTGAAATGCACACTTAGTGACGAAACGATTATTCATCCACATAG
1 GATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAG
* * * *
38624 GATGAATTACGTGAAATACACACTTAGTGTCGAAACGGTTATTCATCCAGATAG
1 GATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAG
* * * * *
38678 GATGAATTTCGTGAAATGCACACTTACTGGCTAAATGGTTATTCATCCACATAG
1 GATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAG
* * * * * *
38732 GATAAATTTCGTGAAATACACACTTATTACCGAAACGGTTATTCATACACATAG
1 GATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAG
* *
38786 GATGAATTCCGTGAAATGCACACTTAGTTCCAAAACGGTTATTCATCCACATAG
1 GATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAG
* * *
38840 GATGAATTCCGTTAAATGCACACTTTGTGCCGAAACGTTTATTCATCCACATAG
1 GATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAG
* * * * *
38894 GCTAAATTTCGTGAAATGCACACTTAGTGCCGAAATGGTTATTCATCCATATAG
1 GATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAG
* * * *** * *
38948 GATGATTTTCGTGAAATACATGTTTAGTGCCGAAATGGTTATTCATCCATATAG
1 GATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAG
*
39002 GATGAATTCCGTGAAATGCACGCTTAGTGCCGAAACGGTTATTCATCCACATAG
1 GATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAG
* * * * * *
39056 GATGAATTCCGTGAAATTCGCACTTAGTGTCGAAATGATTATTCATCCACATAA
1 GATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAG
* * ** *
39110 GATGAATTCCGTGAAATGTATACTTAGTATCGAAACGGTTATTCATCCACAAAG
1 GATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAG
* * *
39164 GATGAATTCCGTGAAAAT-CATAGTTAGTGCTGAAACGGTTATTCATCCACATAG
1 GATGAATTCCGTG-AAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAG
* * * * * *
39218 GACGAATTCTGTGAAAAGCACACTTAGTGCCGAAACCGTTATTTATCCACGTAG
1 GATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAG
* * *
39272 GATGAATTTCGTGAAATGCACACTTAGTGCCGAAACGGCTATTCATCCATATAG
1 GATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAG
* * *
39326 GATGAATTCCATGAAATGCACACTTAGTGCCGAAACCGTTATTCATCCATATAG
1 GATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAG
* * * *
39380 GATGAATTCCATGAAATGCACACTTAGTGCCGAAAAGGCTATTCATCCATATAG
1 GATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAG
* ** *
39434 GATGAATTCCATGAAATGCACACTTAGTGCCGAAACCATTATTCATCCATATAG
1 GATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAG
* * *
39488 GATGAATTCTGTGAAATGCACACTTAGTTCCGAAACGATTATTCATCCACATAG
1 GATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAG
*
39542 GATGAATTTCGTGAAATGCACACTTAGTGCC
1 GATGAATTCCGTGAAATGCACACTTAGTGCC
39573 TATTTTGTAA
Statistics
Matches: 927, Mismatches: 126, Indels: 8
0.87 0.12 0.01
Matches are distributed among these distances:
53 4 0.00
54 918 0.99
55 5 0.01
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.29
Consensus pattern (54 bp):
GATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAG
Found at i:40048 original size:74 final size:75
Alignment explanation
Indices: 39933--40071 Score: 192
Period size: 74 Copynumber: 1.9 Consensus size: 75
39923 ACCTCTATAA
* * * * * *
39933 TATGGTACCGATACGCCCTTCCGATATCGATATCAAATTTAGGTTTGATGTTTCTTGGTATCGAT
1 TATGGTACCAATACGCCCATCCGATATCGATATCAAATTTAGCTTCGATGATGCTTGGTATCGAT
39998 CCTACCATAC
66 CCTACCATAC
*
40008 TATGGTACCAATAC-CCCATCCGATATCGATA-CTAATTTTAGCTTCGATGATGCTTGGTATCGA
1 TATGGTACCAATACGCCCATCCGATATCGATATC-AAATTTAGCTTCGATGATGCTTGGTATCGA
40071 T
65 T
40072 ACCCCTACCA
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
73 1 0.02
74 42 0.75
75 13 0.23
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.35
Consensus pattern (75 bp):
TATGGTACCAATACGCCCATCCGATATCGATATCAAATTTAGCTTCGATGATGCTTGGTATCGAT
CCTACCATAC
Found at i:55607 original size:16 final size:16
Alignment explanation
Indices: 55586--55617 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
55576 TCTTGTCGAA
55586 GTGCATGAATTATTTC
1 GTGCATGAATTATTTC
55602 GTGCATGAATTATTTC
1 GTGCATGAATTATTTC
55618 CCTTGTTTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (16 bp):
GTGCATGAATTATTTC
Found at i:58125 original size:6 final size:6
Alignment explanation
Indices: 58114--58142 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
58104 AATTGGAGTG
58114 ACCAAA ACCAAA ACCAAA ACCAAA ACCAA
1 ACCAAA ACCAAA ACCAAA ACCAAA ACCAA
58143 TTGGAGTGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.66, C:0.34, G:0.00, T:0.00
Consensus pattern (6 bp):
ACCAAA
Found at i:60281 original size:43 final size:43
Alignment explanation
Indices: 60107--60303 Score: 154
Period size: 43 Copynumber: 4.7 Consensus size: 43
60097 TTTTTTTTCC
* ** *
60107 CAAAAGGTTAGGTCTTTTAGCT-TCATTTT-TAACAAACGCCG
1 CAAAATGTTAGGTCTTTTAGCTGTGTTTTTGTAACAAACGCTG
* *** * * **
60148 CAAAATGTTAGG-GTTTTAGCAACG-ATTTGGAACAAACGCCA
1 CAAAATGTTAGGTCTTTTAGCTGTGTTTTTGTAACAAACGCTG
* * ** *
60189 CAAAATGCTACGTCTTTTAGC-GCATTTTAGTAACAAACGCTG
1 CAAAATGTTAGGTCTTTTAGCTGTGTTTTTGTAACAAACGCTG
* * *
60231 CAAAATGTTAGGTCTTTTAGCTGTGTTTTTGTAATAAATGTTG
1 CAAAATGTTAGGTCTTTTAGCTGTGTTTTTGTAACAAACGCTG
*
60274 CAAAATGTTAGGTCATTTAG-TGGTGTTTTT
1 CAAAATGTTAGGTCTTTTAGCT-GTGTTTTT
60304 TTAGAACAAA
Statistics
Matches: 123, Mismatches: 27, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
40 10 0.08
41 32 0.26
42 39 0.32
43 42 0.34
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (43 bp):
CAAAATGTTAGGTCTTTTAGCTGTGTTTTTGTAACAAACGCTG
Found at i:61301 original size:27 final size:27
Alignment explanation
Indices: 61243--61301 Score: 109
Period size: 27 Copynumber: 2.2 Consensus size: 27
61233 TAGAGTAACA
*
61243 ATAGAGGTAGAGTCGGCTTCATCGATG
1 ATAGGGGTAGAGTCGGCTTCATCGATG
61270 ATAGGGGTAGAGTCGGCTTCATCGATG
1 ATAGGGGTAGAGTCGGCTTCATCGATG
61297 ATAGG
1 ATAGG
61302 TAATGCTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.25, C:0.14, G:0.36, T:0.25
Consensus pattern (27 bp):
ATAGGGGTAGAGTCGGCTTCATCGATG
Found at i:62854 original size:12 final size:12
Alignment explanation
Indices: 62837--62861 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
62827 ATCTTATAAA
62837 TATTTAATTATT
1 TATTTAATTATT
62849 TATTTAATTATT
1 TATTTAATTATT
62861 T
1 T
62862 TTTCCTTATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TATTTAATTATT
Found at i:69833 original size:18 final size:17
Alignment explanation
Indices: 69800--69833 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
69790 TTTTGGGCTT
*
69800 ATTTTCAAATCAAAAGG
1 ATTTTCAAAACAAAAGG
69817 ATTTTCAAAAACAAAAG
1 ATTTTC-AAAACAAAAG
69834 CCAACATTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.53, C:0.12, G:0.09, T:0.26
Consensus pattern (17 bp):
ATTTTCAAAACAAAAGG
Found at i:70350 original size:12 final size:12
Alignment explanation
Indices: 70333--70357 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
70323 ATCTTATAAA
70333 TATTTAATTATT
1 TATTTAATTATT
70345 TATTTAATTATT
1 TATTTAATTATT
70357 T
1 T
70358 TATCCTTATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TATTTAATTATT
Found at i:71249 original size:3 final size:3
Alignment explanation
Indices: 71230--71282 Score: 61
Period size: 3 Copynumber: 17.3 Consensus size: 3
71220 TAAAATTAAA
* * * *
71230 ATT ATT AAT ATT TTT ATT ATT ATT AAT ATAT ATT AAT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT
71276 ATT ATT A
1 ATT ATT A
71283 AATAAATTAC
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
3 38 0.93
4 3 0.07
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:72533 original size:11 final size:11
Alignment explanation
Indices: 72519--72570 Score: 63
Period size: 11 Copynumber: 4.7 Consensus size: 11
72509 CTTTTTAATA
72519 ATTA-TTTATTT
1 ATTATTTTA-TT
*
72530 ATTATTTTGTT
1 ATTATTTTATT
72541 ATTACTTTTA-T
1 ATTA-TTTTATT
72552 ATTATTTTATT
1 ATTATTTTATT
72563 ATTATTTT
1 ATTATTTT
72571 CATATTAGTC
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
10 5 0.14
11 24 0.67
12 7 0.19
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (11 bp):
ATTATTTTATT
Found at i:72554 original size:22 final size:22
Alignment explanation
Indices: 72529--72577 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
72519 ATTATTTATT
*
72529 TATTATTTTGTTATTACTTTT-A
1 TATTATTTTATTATTA-TTTTCA
72551 TATTATTTTATTATTATTTTCA
1 TATTATTTTATTATTATTTTCA
72573 TATTA
1 TATTA
72578 GTCACATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 4 0.16
22 21 0.84
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (22 bp):
TATTATTTTATTATTATTTTCA
Found at i:72576 original size:11 final size:10
Alignment explanation
Indices: 72519--72577 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 10
72509 CTTTTTAATA
*
72519 ATTATTTATTT
1 ATTATTT-TAT
*
72530 ATTATTTTGTT
1 ATTATTTT-AT
72541 ATTACTTTTAT
1 ATTA-TTTTAT
72552 ATTATTTTATT
1 ATTATTTTA-T
72563 ATTATTTTCAT
1 ATTATTTT-AT
72574 ATTA
1 ATTA
72578 GTCACATATA
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
10 6 0.14
11 32 0.74
12 5 0.12
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTATTTTAT
Found at i:72590 original size:2 final size:2
Alignment explanation
Indices: 72583--72611 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
72573 TATTAGTCAC
72583 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
72612 ATCTTTATTT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:78740 original size:7 final size:8
Alignment explanation
Indices: 78723--78751 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
78713 TATGCATGAA
78723 AAAAAAGG
1 AAAAAAGG
78731 AAAAAA-G
1 AAAAAAGG
78738 AAAAAAGG
1 AAAAAAGG
78746 AAAAAA
1 AAAAAA
78752 ATTTGAACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (8 bp):
AAAAAAGG
Found at i:78743 original size:15 final size:15
Alignment explanation
Indices: 78723--78751 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
78713 TATGCATGAA
78723 AAAAAAGGAAAAAAG
1 AAAAAAGGAAAAAAG
78738 AAAAAAGGAAAAAA
1 AAAAAAGGAAAAAA
78752 ATTTGAACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
AAAAAAGGAAAAAAG
Found at i:83435 original size:22 final size:22
Alignment explanation
Indices: 83406--83460 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
83396 ATCTACACTC
*
83406 TTCAAAGATGATAGGTTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
83428 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
83450 TTCAAAGATGA
1 TTCAAAGATGA
83461 AAGCTTTATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:84248 original size:166 final size:166
Alignment explanation
Indices: 83974--84298 Score: 562
Period size: 166 Copynumber: 2.0 Consensus size: 166
83964 AGAATGAACA
* *
83974 TTATCTTGAGATTGGGTCATGTTACCCAATCAACATGTTATTTCAAAAAAATAATGAGAAAACAA
1 TTATCTTAAGATTGGGGCATGTTACCCAATCAACATGTTATTTCAAAAAAATAATGAGAAAACAA
**
84039 TTTCCATAGTTTCTCATTTTATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTCC
66 TTTCCATAGTTTCTCATTCAATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTCC
84104 TTAGTTTTTTTACTTAGTAAACTATTTCCAACAGCC
131 TTAGTTTTTTTACTTAGTAAACTATTTCCAACAGCC
** *
84140 TTATCTTAAGATTGGGGCATGTTACCCAATCAACATGTTATTT-TGAAAAATAATGAGAAAACGA
1 TTATCTTAAGATTGGGGCATGTTACCCAATCAACATGTTATTTCAAAAAAATAATGAGAAAACAA
*
84204 TTTCCATAGTTTCTTATTCAATCTTTTCTAGAAATGAAATTGTTGAAAAGTAAGAAAACGATTTC
66 TTTCCATAGTTTCTCATTCAATCTTTTCTA-AAATGAAATTGTTGAAAAGTAAGAAAACGATTTC
84269 CTTAGTTTTTTTACTTAGTAAACTATTTCC
130 CTTAGTTTTTTTACTTAGTAAACTATTTCC
84299 CACATCTGTA
Statistics
Matches: 150, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
165 45 0.30
166 105 0.70
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.38
Consensus pattern (166 bp):
TTATCTTAAGATTGGGGCATGTTACCCAATCAACATGTTATTTCAAAAAAATAATGAGAAAACAA
TTTCCATAGTTTCTCATTCAATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTCC
TTAGTTTTTTTACTTAGTAAACTATTTCCAACAGCC
Found at i:84422 original size:73 final size:76
Alignment explanation
Indices: 84301--85221 Score: 1506
Period size: 74 Copynumber: 12.4 Consensus size: 76
84291 CTATTTCCCA
* *
84301 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGC-TTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
84365 A-CCTTATGGT
66 AGCCTTAGGGT
*
84375 CATCTGT-AGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTTGGGAGC-TTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
84438 AGCCTTAGGGT
66 AGCCTTAGGGT
84449 CATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAGCCTTC-GGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
84512 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
84523 CATCTGTAAGTCCTTCACTGCATGATGTTTCTAAAAAGCCTTCGGGAGCTTTTTGATG-TTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
84587 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
84598 CATCTGTAAGTGCTACAGTGCATGATGTTTCC-AAAAGCCTTC-GGAGCTTTTTGATGTTTT-AA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
84660 AACCTTAGGGT
66 AGCCTTAGGGT
* *
84671 CATCTGTAAGTCCTTCAGTGCCTGATGTTTCCAAAAAACCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
84736 AGCCTTAGGGT
66 AGCCTTAGGGT
84747 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
84812 AACCTTAGGGT
66 AGCCTTAGGGT
*
84823 CATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAGCCTTCAGGAGC-TTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
84886 AGCCTTAGGGT
66 AGCCTTAGGGT
84897 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
84961 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
84972 CATCTCTAAGTCCTACA-TGCATGATGTTTCC-AAAAGCCTTCGGGAGC-TTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
85034 AGCCTTAGGGT
66 AGCCTTAGGGT
*
85045 CATCTGTAAGTCCTACAGTGCATGATGTTTCC-AAAAGCCTTCGGGAGC-TTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
85108 A-CCTTAGGGT
66 AGCCTTAGGGT
* *
85118 CATCTGTAACT-CTTTAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
85182 AACCTTA-GGT
66 AGCCTTAGGGT
* *
85192 CATCTGTAAGCCCTTTAGTGCATGATGTTT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTT
85222 TCAATATTTC
Statistics
Matches: 801, Mismatches: 31, Indels: 29
0.93 0.04 0.03
Matches are distributed among these distances:
72 18 0.02
73 207 0.26
74 254 0.32
75 191 0.24
76 131 0.16
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:85364 original size:3 final size:3
Alignment explanation
Indices: 85356--85405 Score: 66
Period size: 3 Copynumber: 16.7 Consensus size: 3
85346 TAAAATTAAA
* *
85356 ATT ATT ATT -TT TTT ATT ATT ATT AAT ATAT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT
85401 ATT AT
1 ATT AT
85406 ATAAATAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
2 2 0.05
3 37 0.88
4 3 0.07
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:85417 original size:22 final size:25
Alignment explanation
Indices: 85368--85417 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
85358 TATTATTTTT
* *
85368 TTATTATTATTAATATATATTATTA
1 TTATTATTATTAATATATAATATAA
85393 TTATTATTATT-ATATA-AATA-AA
1 TTATTATTATTAATATATAATATAA
85415 TTA
1 TTA
85418 CAAAACTGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 4 0.17
23 3 0.13
24 5 0.22
25 11 0.48
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
TTATTATTATTAATATATAATATAA
Found at i:86635 original size:11 final size:11
Alignment explanation
Indices: 86621--86672 Score: 63
Period size: 11 Copynumber: 4.7 Consensus size: 11
86611 CTTTTTAATA
86621 ATTA-TTTATTT
1 ATTATTTTA-TT
*
86632 ATTATTTTGTT
1 ATTATTTTATT
86643 ATTACTTTTA-T
1 ATTA-TTTTATT
86654 ATTATTTTATT
1 ATTATTTTATT
86665 ATTATTTT
1 ATTATTTT
86673 CATATTAGTC
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
10 5 0.14
11 24 0.67
12 7 0.19
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (11 bp):
ATTATTTTATT
Found at i:86656 original size:22 final size:22
Alignment explanation
Indices: 86631--86679 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
86621 ATTATTTATT
*
86631 TATTATTTTGTTATTACTTTT-A
1 TATTATTTTATTATTA-TTTTCA
86653 TATTATTTTATTATTATTTTCA
1 TATTATTTTATTATTATTTTCA
86675 TATTA
1 TATTA
86680 GTCACATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 4 0.16
22 21 0.84
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (22 bp):
TATTATTTTATTATTATTTTCA
Found at i:86667 original size:33 final size:36
Alignment explanation
Indices: 86605--86672 Score: 99
Period size: 33 Copynumber: 2.0 Consensus size: 36
86595 TGTAAATTAA
86605 TTATTACTTTTTAATAATTATTTATTTATTATTTTG
1 TTATTACTTTTTAATAATTATTTATTTATTATTTTG
86641 TTATTAC-TTTT-AT-ATTATTT-TATTATTATTTT
1 TTATTACTTTTTAATAATTATTTAT-TTATTATTTT
86673 CATATTAGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
32 1 0.03
33 17 0.55
34 2 0.06
35 4 0.13
36 7 0.23
ACGTcount: A:0.26, C:0.03, G:0.01, T:0.69
Consensus pattern (36 bp):
TTATTACTTTTTAATAATTATTTATTTATTATTTTG
Found at i:86678 original size:11 final size:10
Alignment explanation
Indices: 86621--86679 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 10
86611 CTTTTTAATA
*
86621 ATTATTTATTT
1 ATTATTT-TAT
*
86632 ATTATTTTGTT
1 ATTATTTT-AT
86643 ATTACTTTTAT
1 ATTA-TTTTAT
86654 ATTATTTTATT
1 ATTATTTTA-T
86665 ATTATTTTCAT
1 ATTATTTT-AT
86676 ATTA
1 ATTA
86680 GTCACATAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
10 6 0.14
11 32 0.74
12 5 0.12
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTATTTTAT
Done.