Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 16 of 226
Found at i:5738345 original size:22 final size:22
Alignment explanation
Indices: 5738295--5738355 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
5738285 TTAAATCTTT
* * *
5738295 TATTCTGTTATTATTTCGTTGT
1 TATTTTGTTGTTATTTCGTTGC
5738317 TGA-TTTGTTGTTATTTCGTTGC
1 T-ATTTTGTTGTTATTTCGTTGC
* *
5738339 TATTTTGCTGTGATTTC
1 TATTTTGTTGTTATTTC
5738356 ATTACTATAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
21 1 0.03
22 30 0.94
23 1 0.03
ACGTcount: A:0.11, C:0.10, G:0.18, T:0.61
Consensus pattern (22 bp):
TATTTTGTTGTTATTTCGTTGC
Found at i:5738363 original size:22 final size:22
Alignment explanation
Indices: 5738320--5738363 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
5738310 TCGTTGTTGA
* * * *
5738320 TTTGTTGTTATTTCGTTGCTAT
1 TTTGCTGTGATTTCATTACTAT
5738342 TTTGCTGTGATTTCATTACTAT
1 TTTGCTGTGATTTCATTACTAT
5738364 AAAGTTACTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.14, C:0.11, G:0.16, T:0.59
Consensus pattern (22 bp):
TTTGCTGTGATTTCATTACTAT
Found at i:5739757 original size:29 final size:30
Alignment explanation
Indices: 5739694--5739757 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 30
5739684 TTACAATTTG
*
5739694 GTCACTAAACTATTCAAATGTTTTCATTTAA
1 GTCACTAAACTATTCAAA-GATTTCATTTAA
*
5739725 GTCACTGAACTATTCAAA-ATTTCATTTAA
1 GTCACTAAACTATTCAAAGATTTCATTTAA
5739754 GTCA
1 GTCA
5739758 TTGGGCTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 14 0.45
31 17 0.55
ACGTcount: A:0.36, C:0.17, G:0.08, T:0.39
Consensus pattern (30 bp):
GTCACTAAACTATTCAAAGATTTCATTTAA
Found at i:5750919 original size:16 final size:16
Alignment explanation
Indices: 5750898--5750949 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
5750888 TTTGGTTCGC
5750898 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
5750914 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
5750930 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
5750946 TGTA
1 TGTA
5750950 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.29, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:5750996 original size:45 final size:44
Alignment explanation
Indices: 5750930--5751024 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
5750920 GGATTAGAGG
* *
5750930 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
5750975 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
5751019 TGTAAT
1 TGTAAT
5751025 AGAGATAGTA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:5751204 original size:16 final size:16
Alignment explanation
Indices: 5751167--5751208 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
5751157 TTAATCATAT
*
5751167 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
5751183 TT-AAATATATTATAA
1 TTAAAATATATTATAA
5751198 TTAAAATATAT
1 TTAAAATATAT
5751209 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:5751215 original size:14 final size:15
Alignment explanation
Indices: 5751176--5751217 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
5751166 TTTAAACATA
*
5751176 ATTATTATTAAATAT
1 ATTATAATTAAATAT
5751191 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
5751205 A-TATAATTTAATA
1 ATTATAATTAAATA
5751218 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:5751390 original size:47 final size:46
Alignment explanation
Indices: 5751339--5751499 Score: 140
Period size: 47 Copynumber: 3.6 Consensus size: 46
5751329 GATTTAATAA
5751339 AATTTAAAATAATTATAACTAATAAATTATCTTATATGAATTTGTAT
1 AATTTAAAATAATTATAA-TAATAAATTATCTTATATGAATTTGTAT
* * * * *
5751386 AATTTAAAATAATTATTATTACATATAAT-TTA-AT-AA---GATAT
1 AATTTAAAATAATTATAATAATAAATTATCTTATATGAATTTG-TAT
* * * *
5751427 AATTTCATAA-AATTATTGATAATAAATTTTCTTATATGAATTTATAT
1 AATTT-AAAATAATTA-TAATAATAAATTATCTTATATGAATTTGTAT
5751474 AATTTAAAATAATT-TATATAATAAAT
1 AATTTAAAATAATTATA-ATAATAAAT
5751500 CTATTGTATA
Statistics
Matches: 88, Mismatches: 15, Indels: 23
0.70 0.12 0.18
Matches are distributed among these distances:
40 1 0.01
41 13 0.15
42 11 0.12
43 5 0.06
44 4 0.05
45 6 0.07
46 19 0.22
47 29 0.33
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (46 bp):
AATTTAAAATAATTATAATAATAAATTATCTTATATGAATTTGTAT
Found at i:5763602 original size:335 final size:344
Alignment explanation
Indices: 5762980--5763638 Score: 910
Period size: 335 Copynumber: 1.9 Consensus size: 344
5762970 GATTTTCTTG
** * * * * * *
5762980 TACTAATTCATTATTTGTTAGGTTAAGTTGAGCTCCCTTAATTAAGCAAACCAAAGCTTTTTTTT
1 TACTAATTCATTATTTGTTAGGTTAAACTGACCGCCATTAATGAAGCAAACCAAAGCTTTCTTCT
* * *
5763045 TTTTTAACGTTGTTAGACTAAAAATTGGGTTGAGTTAATAAAGTAGGTATTTTTTATTTTCAAGC
66 TTTTTAACGTAGTTAGACTAAAAATTGGGTTGACTTAATAAAGCAGGTATTTTTTATTTTCAAGC
*
5763110 AATTAAATTGGTAATTTTTCAAATTTTGGGTTGTTTTATTTCTTTCTTTCTTTTTTTGACTTAAT
131 AATTAAATTGGTAATTTTTCAAATTTTGGGTTGTTTTA--T-TTTCTTTCTTTTTTTGACTGAAT
*
5763175 TAAACACATAGATAACGTCAGAAAATGTTACAACGAAAAGTAAAACTGTAAAAGATAAAATTACA
193 CAAACACATAGATAACGTCAGAAAATGTTACAACGAAAAGTAAAACTGTAAAAGATAAAATTACA
* *
5763240 CAATGTGTAAACGTTAAGAGTTCAATTTTTAGAATCAAAACTAAATTGACACAATGTATAAATGA
258 CAATATGTAAACGTTAAGAGTTCAATTTTTAGAATCAAAACTAAATTGACACAATGTACAAATGA
5763305 CAAATTTAATAGCTCTGAGTGA
323 CAAATTTAATAGCTCTGAGTGA
* * *
5763327 TACTAATTCATTGTTTGTTAGGTTAAACTGACCGCCATTGAA-GAAGTAAATCAAAGC-TTCTTC
1 TACTAATTCATTATTTGTTAGGTTAAACTGACCGCCATT-AATGAAGCAAACCAAAGCTTTCTTC
* * *
5763390 TTTTTTAA-GTAGTTAGACTTACAATTGGGTTGACTTAATGAAGCA-G-A-TTTTT-TTTTCAAG
65 TTTTTTAACGTAGTTAGACTAAAAATTGGGTTGACTTAATAAAGCAGGTATTTTTTATTTTCAAG
* *
5763450 CAATTAAATT-GTCTATTTTTCAAATTTTGGGTTGTTTTA-TTTC-TTGTTTTTTT-ACTGAATC
130 CAATTAAATTGGT-AATTTTTCAAATTTTGGGTTGTTTTATTTTCTTTCTTTTTTTGACTGAATC
* * **
5763511 AAACACATGGATAACGTCAG-AAATGGTTACAACGAAAAGTAAAACTGTAAAAGATCAAATTGTA
194 AAACACATAGATAACGTCAGAAAAT-GTTACAACGAAAAGTAAAACTGTAAAAGATAAAATTACA
* * *
5763575 CAATATGTAAACGTTGAGGGTTCAATTTTTAGAATCAAAACTAAATTGGCACAATGTACAAATG
258 CAATATGTAAACGTTAAGAGTTCAATTTTTAGAATCAAAACTAAATTGACACAATGTACAAATG
5763639 TCAAGGGTTA
Statistics
Matches: 279, Mismatches: 30, Indels: 18
0.85 0.09 0.06
Matches are distributed among these distances:
334 4 0.01
335 120 0.43
336 9 0.03
337 4 0.01
340 2 0.01
341 43 0.15
342 5 0.02
343 1 0.00
344 1 0.00
345 31 0.11
346 12 0.04
347 45 0.16
348 2 0.01
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (344 bp):
TACTAATTCATTATTTGTTAGGTTAAACTGACCGCCATTAATGAAGCAAACCAAAGCTTTCTTCT
TTTTTAACGTAGTTAGACTAAAAATTGGGTTGACTTAATAAAGCAGGTATTTTTTATTTTCAAGC
AATTAAATTGGTAATTTTTCAAATTTTGGGTTGTTTTATTTTCTTTCTTTTTTTGACTGAATCAA
ACACATAGATAACGTCAGAAAATGTTACAACGAAAAGTAAAACTGTAAAAGATAAAATTACACAA
TATGTAAACGTTAAGAGTTCAATTTTTAGAATCAAAACTAAATTGACACAATGTACAAATGACAA
ATTTAATAGCTCTGAGTGA
Found at i:5768942 original size:13 final size:14
Alignment explanation
Indices: 5768924--5768956 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
5768914 AAAATTTATA
5768924 ATAAATAACA-TTT
1 ATAAATAACATTTT
*
5768937 ATAAATAATATTTT
1 ATAAATAACATTTT
5768951 ATAAAT
1 ATAAAT
5768957 TATCCAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (14 bp):
ATAAATAACATTTT
Found at i:5768943 original size:17 final size:17
Alignment explanation
Indices: 5768907--5768947 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
5768897 TAAGTAAAAC
5768907 ATAATATAAAATTTATA
1 ATAATATAAAATTTATA
*
5768924 ATAA-ATAACATTTATAA
1 ATAATATAAAATTTAT-A
5768941 ATAATAT
1 ATAATAT
5768948 TTTATAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 10 0.48
17 9 0.43
18 2 0.10
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (17 bp):
ATAATATAAAATTTATA
Found at i:5771676 original size:20 final size:20
Alignment explanation
Indices: 5771653--5771762 Score: 80
Period size: 20 Copynumber: 5.5 Consensus size: 20
5771643 TGATATATCG
5771653 AAATTTCTAA-ACTTATACCA
1 AAATTTCTAAGA-TTATACCA
* ** **
5771673 AAATTTTTAAGGCTATATAA
1 AAATTTCTAAGATTATACCA
* * *
5771693 AAAATTCTAAGATTTTATCA
1 AAATTTCTAAGATTATACCA
5771713 AAATTTCTAATGATT-TACCA
1 AAATTTCTAA-GATTATACCA
* * *
5771733 AAATTTCTAAAAGTATACCT
1 AAATTTCTAAGATTATACCA
*
5771753 ATATTTCTAA
1 AAATTTCTAA
5771763 AGTTTTCCTT
Statistics
Matches: 70, Mismatches: 17, Indels: 6
0.75 0.18 0.06
Matches are distributed among these distances:
19 2 0.03
20 64 0.91
21 4 0.06
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.39
Consensus pattern (20 bp):
AAATTTCTAAGATTATACCA
Found at i:5771829 original size:20 final size:20
Alignment explanation
Indices: 5771804--5771868 Score: 78
Period size: 20 Copynumber: 3.2 Consensus size: 20
5771794 TCAATATTTT
*
5771804 ATTATACTAAAATTCT-TAAG
1 ATTATACAAAAATT-TATAAG
*
5771824 ATTATACCAAAATTTATAAG
1 ATTATACAAAAATTTATAAG
*
5771844 GTTATACAAAAATTTATAATG
1 ATTATACAAAAATTTATAA-G
5771865 ATTA
1 ATTA
5771869 AGCAAAATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
19 1 0.03
20 34 0.87
21 4 0.10
ACGTcount: A:0.48, C:0.08, G:0.06, T:0.38
Consensus pattern (20 bp):
ATTATACAAAAATTTATAAG
Found at i:5771875 original size:20 final size:19
Alignment explanation
Indices: 5771804--5771884 Score: 76
Period size: 20 Copynumber: 4.1 Consensus size: 19
5771794 TCAATATTTT
5771804 ATTATACTAAAATTCT-TAAG
1 ATTATAC-AAAATT-TATAAG
5771824 ATTATACCAAAATTTATAAG
1 ATTATA-CAAAATTTATAAG
*
5771844 GTTATACAAAAATTTATAATG
1 ATTATAC-AAAATTTATAA-G
*
5771865 ATTA-AGCAAAATTTAAAAG
1 ATTATA-CAAAATTTATAAG
5771884 A
1 A
5771885 ATTTATTAAT
Statistics
Matches: 53, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
19 4 0.08
20 43 0.81
21 6 0.11
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.35
Consensus pattern (19 bp):
ATTATACAAAATTTATAAG
Found at i:5772570 original size:16 final size:15
Alignment explanation
Indices: 5772549--5772586 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
5772539 TCGATATTTT
5772549 TAATATATATATAATA
1 TAATATATATATAA-A
*
5772565 TAATATATATTTAAA
1 TAATATATATATAAA
5772580 TAA-ATAT
1 TAATATAT
5772587 GTAGACAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 4 0.19
15 4 0.19
16 13 0.62
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TAATATATATATAAA
Found at i:5783780 original size:43 final size:43
Alignment explanation
Indices: 5783731--5783817 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
5783721 AAAGATCTAT
5783731 ATGTTTGGGTTTATGAGATGGGAAATAATTCAGAAATGTAGTA
1 ATGTTTGGGTTTATGAGATGGGAAATAATTCAGAAATGTAGTA
5783774 ATGTTTGGGTTTATGAGATGGGAAATAATTCAGAAATGTAGTA
1 ATGTTTGGGTTTATGAGATGGGAAATAATTCAGAAATGTAGTA
5783817 A
1 A
5783818 ACAAATCTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.36, C:0.02, G:0.28, T:0.34
Consensus pattern (43 bp):
ATGTTTGGGTTTATGAGATGGGAAATAATTCAGAAATGTAGTA
Found at i:5798476 original size:126 final size:126
Alignment explanation
Indices: 5798334--5798622 Score: 461
Period size: 126 Copynumber: 2.3 Consensus size: 126
5798324 GTGTTAATTT
**
5798334 AAAAAAGCTCCCACGTGGACGCTTTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGAAGAC
1 AAAAAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGAAGAC
* *
5798399 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAACAAAAGTACTA
66 GTTTCTAAGAAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAACAAAAGTACTA
* * * * *
5798460 AAAAAAGCTCCCACGTGGTCGCGCTTTTGCTACAATAGCTCTTGAAAAAATAATTTTGAGTAGAC
1 AAAAAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGAAGAC
** *
5798525 GTTTCTAAGAAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGTAAAAGTACTG
66 GTTTCTAAGAAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAACAAAAGTACTA
*
5798586 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTA
1 AAAAAAGCTCCCACGTGGACGCGCTTTTGCTACAGTA
5798623 ACTTCTGTTT
Statistics
Matches: 148, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
126 148 1.00
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (126 bp):
AAAAAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGAAGAC
GTTTCTAAGAAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAACAAAAGTACTA
Found at i:5800085 original size:29 final size:29
Alignment explanation
Indices: 5800030--5800085 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
5800020 CAAAAAAAAT
*
5800030 AAAATTAAAGCTTTTTTTAAAATAATTAA
1 AAAATTAAAGCTTTTTTTAAAAGAATTAA
5800059 AAAATTAAAGC-TTTTTTAAGAAGAATT
1 AAAATTAAAGCTTTTTTTAA-AAGAATT
5800086 TGAGAGGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 8 0.32
29 17 0.68
ACGTcount: A:0.50, C:0.04, G:0.07, T:0.39
Consensus pattern (29 bp):
AAAATTAAAGCTTTTTTTAAAAGAATTAA
Found at i:5800104 original size:11 final size:11
Alignment explanation
Indices: 5800081--5800121 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
5800071 TTTTTAAGAA
*
5800081 GAATTTGAGAG
1 GAATTTGAAAG
*
5800092 GAAATTGAAAG
1 GAATTTGAAAG
*
5800103 GATTTTGAAAG
1 GAATTTGAAAG
5800114 GAATTTGA
1 GAATTTGA
5800122 GAGAATATTG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.41, C:0.00, G:0.29, T:0.29
Consensus pattern (11 bp):
GAATTTGAAAG
Found at i:5800110 original size:22 final size:22
Alignment explanation
Indices: 5800079--5800143 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
5800069 CTTTTTTAAG
5800079 AAGAA-TTTGAGAGGAAATTGA
1 AAGAATTTTGAGAGGAAATTGA
* * *
5800100 AAGGATTTTGAAAGGAATTTGA
1 AAGAATTTTGAGAGGAAATTGA
* *
5800122 GAGAATATTG-GAGAGAAATTGA
1 AAGAATTTTGAGAG-GAAATTGA
5800144 GAAAAAGGAT
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
21 6 0.18
22 28 0.82
ACGTcount: A:0.45, C:0.00, G:0.29, T:0.26
Consensus pattern (22 bp):
AAGAATTTTGAGAGGAAATTGA
Found at i:5802120 original size:20 final size:19
Alignment explanation
Indices: 5802066--5802121 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 19
5802056 AAATTTATAT
5802066 ATAATTAAT-TATTATTTA
1 ATAATTAATATATTATTTA
5802084 ACTAAATCTAA-AT-TTATTTA
1 A-T-AAT-TAATATATTATTTA
5802104 ATAATATAATATATTATT
1 ATAAT-TAATATATTATT
5802122 ATTTACGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 10
0.74 0.02 0.24
Matches are distributed among these distances:
18 7 0.23
19 4 0.13
20 16 0.52
21 4 0.13
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (19 bp):
ATAATTAATATATTATTTA
Found at i:5806652 original size:23 final size:23
Alignment explanation
Indices: 5806577--5806652 Score: 100
Period size: 23 Copynumber: 3.3 Consensus size: 23
5806567 AGTGTTATTG
*
5806577 ATCAGTGGTAGCTTCAGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * *
5806600 TTTAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
5806623 AGT-AGTGGTAGCTTCGGCTACAT
1 A-TCAGTGGTAGCTTCGGCTACAT
5806646 ATCAGTG
1 ATCAGTG
5806653 TGACACTTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
22 1 0.02
23 43 0.96
24 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:5809548 original size:33 final size:33
Alignment explanation
Indices: 5809500--5809567 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 33
5809490 AGAGTTATAC
* *
5809500 AATATTCAAACAATAACAACAAAATAGTAGCAA
1 AATATTCAAAAAATAACAACAAAATAATAGCAA
* * *
5809533 AATATTGAAAAAATAATAAGAAAATAATAGCAA
1 AATATTCAAAAAATAACAACAAAATAATAGCAA
5809566 AA
1 AA
5809568 CAATAAAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.65, C:0.09, G:0.07, T:0.19
Consensus pattern (33 bp):
AATATTCAAAAAATAACAACAAAATAATAGCAA
Found at i:5809577 original size:33 final size:33
Alignment explanation
Indices: 5809511--5809600 Score: 83
Period size: 33 Copynumber: 2.7 Consensus size: 33
5809501 ATATTCAAAC
* * * * *
5809511 AATAACAACAAAATAGTAGCAAAATATTGAAAA
1 AATAACAAGAAAATAATAGCAAAACAATAAAAA
*
5809544 AATAATAAGAAAATAATAGCAAAACAATAAAAA
1 AATAACAAGAAAATAATAGCAAAACAATAAAAA
* * *
5809577 AACAAGAAGAAGAA-AATAACAAAA
1 AATAACAAGAA-AATAATAGCAAAA
5809601 AAAAACAATA
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
33 45 0.96
34 2 0.04
ACGTcount: A:0.70, C:0.08, G:0.09, T:0.13
Consensus pattern (33 bp):
AATAACAAGAAAATAATAGCAAAACAATAAAAA
Found at i:5813735 original size:2 final size:2
Alignment explanation
Indices: 5813730--5813760 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
5813720 GTGTGTGTGT
*
5813730 GA GA GA GA GA GA GA GA GA GA GA GA GG GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
5813761 GGACGGAGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.55, T:0.00
Consensus pattern (2 bp):
GA
Found at i:5815998 original size:32 final size:32
Alignment explanation
Indices: 5815962--5816030 Score: 138
Period size: 32 Copynumber: 2.2 Consensus size: 32
5815952 CATGCACACA
5815962 AACATTCATAGGTGAATAAATGACATCCTACT
1 AACATTCATAGGTGAATAAATGACATCCTACT
5815994 AACATTCATAGGTGAATAAATGACATCCTACT
1 AACATTCATAGGTGAATAAATGACATCCTACT
5816026 AACAT
1 AACAT
5816031 ATGGGGCGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.28
Consensus pattern (32 bp):
AACATTCATAGGTGAATAAATGACATCCTACT
Found at i:5820880 original size:127 final size:125
Alignment explanation
Indices: 5820596--5821164 Score: 829
Period size: 126 Copynumber: 4.5 Consensus size: 125
5820586 GATAAAATCA
* * * * * * * * *
5820596 AAGCATGATGCT-TTATCAGAAGGATTTCTGAAGTCGCACCCACGTGTACGCGCTTTTGCTATAG
1 AAGCAGGATGCTATT-TGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
* * * *
5820660 TGGGTCCTGTAAAAATAATTTCGAGTTCACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
65 TAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTC
**
5820721 AAGCAGGATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCAATTTTGCTACAG
1 AAGCAGGATGCTATT-TGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
*
5820785 TAGGTCCTGGAATAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAAATGCTTC
65 TAGGTCCTGGAA-AAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTT-AAAAAACGCTTC
*
5820848 AAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAAT
1 AAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
* * *
5820913 AGGTCCTGAAAGAAATAATTTCGAGTTGATGTTTCGGAGCAAATAGTTTAAAAAACGCTTC
66 AGGTCCTGGAA-AAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTC
* * *
5820974 AAGCAGGATGCTATTTGAGAATAATTTGTAAAATCGCGCCCTCGTGGACGCGTTTTTGCTACAGT
1 AAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
* * *
5821039 AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGAAAATAGTAT-AAAAATGCTTC
66 AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTC
*
5821098 TAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
5821163 AG
66 AG
5821165 CATGTTTGGG
Statistics
Matches: 403, Mismatches: 38, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
124 73 0.18
125 96 0.24
126 117 0.29
127 115 0.29
128 2 0.00
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (125 bp):
AAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTC
Found at i:5821010 original size:253 final size:249
Alignment explanation
Indices: 5820596--5821160 Score: 855
Period size: 253 Copynumber: 2.3 Consensus size: 249
5820586 GATAAAATCA
* * * * * * * * * *
5820596 AAGCATGATGCT-TTATCAGAAGGATTTCTGAAGTCGCACCCACGTGTACGCGCTTTTGCTATAG
1 AAGCAGGATGCTATT-TGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAA
* * *
5820660 TGGGTCCTGTAAAAATAATTTCGAGTTCACGTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGC
65 TAGGTCCTGAAAAAATAATTTCGAGTTCACGTTTCGGAGCAAATAGTATAAAAAACGCTTCAAGC
*
5820725 AGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCAATTTTGCTACAGTAGGT
130 AGGATGCTTTATGAGAAGAATTTGTAAAATCGCGCCCTCGTGGACGCAATTTTGCTACAGTAGGT
*
5820790 CCTGGAATAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAAATGCTTC
195 CCTGGAA-AAATAATTTCGAGTTGACGTTTCTGAGAAAATAG--TAAAAAAATGCTTC
5820848 AAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAAT
1 AAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAAT
* * *
5820913 AGGTCCTGAAAGAAATAATTTCGAGTTGATGTTTCGGAGCAAATAGTTTAAAAAACGCTTCAAGC
66 AGGTCCTGAAA-AAATAATTTCGAGTTCACGTTTCGGAGCAAATAGTATAAAAAACGCTTCAAGC
* **
5820978 AGGATGCTATT-TGAGAATAATTTGTAAAATCGCGCCCTCGTGGACGCGTTTTTGCTACAGTAGG
130 AGGATGCT-TTATGAGAAGAATTTGTAAAATCGCGCCCTCGTGGACGCAATTTTGCTACAGTAGG
*
5821042 TCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGAAAATAGTATAAAAATGCTTC
194 TCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGAAAATAGTAAAAAAATGCTTC
*
5821098 TAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACA
1 AAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACA
5821161 GTAGCATGTT
Statistics
Matches: 287, Mismatches: 23, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
250 75 0.26
252 94 0.33
253 116 0.40
254 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (249 bp):
AAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAAT
AGGTCCTGAAAAAATAATTTCGAGTTCACGTTTCGGAGCAAATAGTATAAAAAACGCTTCAAGCA
GGATGCTTTATGAGAAGAATTTGTAAAATCGCGCCCTCGTGGACGCAATTTTGCTACAGTAGGTC
CTGGAAAAATAATTTCGAGTTGACGTTTCTGAGAAAATAGTAAAAAAATGCTTC
Found at i:5824167 original size:18 final size:18
Alignment explanation
Indices: 5824144--5824181 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
5824134 TGCCAGGTGC
*
5824144 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
5824162 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
5824180 GT
1 GT
5824182 TTTCTTTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.26, G:0.11, T:0.39
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:5824631 original size:25 final size:26
Alignment explanation
Indices: 5824583--5824631 Score: 75
Period size: 25 Copynumber: 1.9 Consensus size: 26
5824573 TAATAAAATA
5824583 AAAGTTATTTTTAATATTTTAATAGT
1 AAAGTTATTTTTAATATTTTAATAGT
5824609 AAAG-TATTTTT-ATATTTTCAATA
1 AAAGTTATTTTTAATATTTT-AATA
5824632 AAATAGAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 7 0.32
25 11 0.50
26 4 0.18
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.53
Consensus pattern (26 bp):
AAAGTTATTTTTAATATTTTAATAGT
Found at i:5827916 original size:125 final size:126
Alignment explanation
Indices: 5827693--5827960 Score: 421
Period size: 125 Copynumber: 2.1 Consensus size: 126
5827683 GGTCAAACAT
* *
5827693 GAACTACTGTAGAAAAAGAACGTTGATGTGGGAGCTTTTTTCAATAATTTTGCTAACAGTGCATC
1 GAACTACTGTAGAAAAAGAACGTCGACGTGGGAGCTTTTTTCAATAATTTTGCTAACAGTGCATC
*
5827758 CTGCTTAAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAG
66 CTGCTTAAAGCGTTTTTGACACTATTTGTTCAGAACCGTATTCTCAAAATTATTTTTTCAG
* * * *
5827819 GAACTACTGTAGAAAAAGAGCGTCGACGTGGGAGC-TTTTTCAGTAATTTTGTTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAACGTCGACGTGGGAGCTTTTTTCAATAATTTTGCTAACAGTGCATC
* * *
5827883 TTGCTTGAAGTGTTTTTGACACTATTTGTTCAGAACCGTATTCTCAAAATTATTTTTTCAG
66 CTGCTTAAAGCGTTTTTGACACTATTTGTTCAGAACCGTATTCTCAAAATTATTTTTTCAG
* *
5827944 GAACTATTATAGAAAAA
1 GAACTACTGTAGAAAAA
5827961 AATAAAATCC
Statistics
Matches: 130, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
125 98 0.75
126 32 0.25
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (126 bp):
GAACTACTGTAGAAAAAGAACGTCGACGTGGGAGCTTTTTTCAATAATTTTGCTAACAGTGCATC
CTGCTTAAAGCGTTTTTGACACTATTTGTTCAGAACCGTATTCTCAAAATTATTTTTTCAG
Found at i:5828107 original size:34 final size:32
Alignment explanation
Indices: 5828020--5828128 Score: 157
Period size: 33 Copynumber: 3.3 Consensus size: 32
5828010 CACAATATTA
*
5828020 TTTTTAAAAAACTAAACCCTAATTTAATTGAT
1 TTTTTAAAAAACTAAACCCTAATTTAATTTAT
5828052 TTTCTTAAAAAACTAAACCCTAATTTAATTTAT
1 TTT-TTAAAAAACTAAACCCTAATTTAATTTAT
**
5828085 TTATTTAAAACTCCTAAACCCTAATTTAA-TTAT
1 TT-TTTAAAA-AACTAAACCCTAATTTAATTTAT
5828118 TTTTTAAAAAA
1 TTTTTAAAAAA
5828129 ACACTAAATC
Statistics
Matches: 69, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
32 10 0.14
33 42 0.61
34 17 0.25
ACGTcount: A:0.43, C:0.14, G:0.01, T:0.42
Consensus pattern (32 bp):
TTTTTAAAAAACTAAACCCTAATTTAATTTAT
Found at i:5828221 original size:42 final size:41
Alignment explanation
Indices: 5828174--5828253 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 41
5828164 AACGTAGAAC
* *
5828174 CCTAAATTATTTTAACAAAACCTTAAACCCTACAAACCTAAG
1 CCTAAATTATTATAACAAAACCTT-AACCCTAAAAACCTAAG
*
5828216 CCTAAATTATTATAACAAAATCTTAACCCTAAAAACCT
1 CCTAAATTATTATAACAAAACCTTAACCCTAAAAACCT
5828254 TAAACTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
41 13 0.37
42 22 0.63
ACGTcount: A:0.46, C:0.25, G:0.01, T:0.28
Consensus pattern (41 bp):
CCTAAATTATTATAACAAAACCTTAACCCTAAAAACCTAAG
Found at i:5828262 original size:41 final size:42
Alignment explanation
Indices: 5828175--5828262 Score: 117
Period size: 42 Copynumber: 2.1 Consensus size: 42
5828165 ACGTAGAACC
* * *
5828175 CTAAATTATTTTAACAAAACCTTAAACCCTACAAACCTAAGC
1 CTAAATTATTATAACAAAACCTTAAACCCTAAAAACCTAAGA
*
5828217 CTAAATTATTATAACAAAATCTT-AACCCTAAAAACCTTAA-A
1 CTAAATTATTATAACAAAACCTTAAACCCTAAAAACC-TAAGA
5828258 CTAAA
1 CTAAA
5828263 AAATTCTAGG
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
41 17 0.41
42 24 0.59
ACGTcount: A:0.49, C:0.23, G:0.01, T:0.27
Consensus pattern (42 bp):
CTAAATTATTATAACAAAACCTTAAACCCTAAAAACCTAAGA
Found at i:5834520 original size:46 final size:46
Alignment explanation
Indices: 5834457--5834557 Score: 166
Period size: 46 Copynumber: 2.2 Consensus size: 46
5834447 ATTGCTATAG
* *
5834457 CTCAGTATGATTTTCTTCACGAAAATACCATACCTACTTTTCACAA
1 CTCAGTATGATTTTCTTCACCAAAACACCATACCTACTTTTCACAA
* *
5834503 CTCAATATGGTTTTCTTCACCAAAACACCATACCTACTTTTCACAA
1 CTCAGTATGATTTTCTTCACCAAAACACCATACCTACTTTTCACAA
5834549 CTCAGTATG
1 CTCAGTATG
5834558 TACCTACTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 50 1.00
ACGTcount: A:0.32, C:0.28, G:0.07, T:0.34
Consensus pattern (46 bp):
CTCAGTATGATTTTCTTCACCAAAACACCATACCTACTTTTCACAA
Found at i:5834562 original size:25 final size:25
Alignment explanation
Indices: 5834533--5834582 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
5834523 CAAAACACCA
5834533 TACCTACTTTTCACAACTCAGTATG
1 TACCTACTTTTCACAACTCAGTATG
*
5834558 TACCTACTTTTCATAACTCAGTATG
1 TACCTACTTTTCACAACTCAGTATG
5834583 ATTTTCTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.28, C:0.26, G:0.08, T:0.38
Consensus pattern (25 bp):
TACCTACTTTTCACAACTCAGTATG
Found at i:5834566 original size:71 final size:71
Alignment explanation
Indices: 5834487--5834628 Score: 230
Period size: 71 Copynumber: 2.0 Consensus size: 71
5834477 GAAAATACCA
*
5834487 TACCTACTTTTCACAACTCAATATGGTTTTCTTCACCAAAACACCATACCTACTTTTCACAACTC
1 TACCTACTTTTCACAACTCAATATGATTTTCTTCACCAAAACACCATACCTACTTTTCACAACTC
5834552 AGTATG
66 AGTATG
* * * * *
5834558 TACCTACTTTTCATAACTCAGTATGATTTTCTTTACCGAAATACCATACCTACTTTTCACAACTC
1 TACCTACTTTTCACAACTCAATATGATTTTCTTCACCAAAACACCATACCTACTTTTCACAACTC
5834623 AGTATG
66 AGTATG
5834629 ATTTTATTTA
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
71 65 1.00
ACGTcount: A:0.30, C:0.27, G:0.06, T:0.36
Consensus pattern (71 bp):
TACCTACTTTTCACAACTCAATATGATTTTCTTCACCAAAACACCATACCTACTTTTCACAACTC
AGTATG
Found at i:5834611 original size:46 final size:46
Alignment explanation
Indices: 5834558--5834708 Score: 221
Period size: 46 Copynumber: 3.3 Consensus size: 46
5834548 ACTCAGTATG
5834558 TACCTACTTTTCATAACTCAGTATGATTTTCTTTACCGAAATACCA
1 TACCTACTTTTCATAACTCAGTATGATTTTCTTTACCGAAATACCA
* * * **
5834604 TACCTACTTTTCACAACTCAGTATGATTTTATTTATCGAAATATTA
1 TACCTACTTTTCATAACTCAGTATGATTTTCTTTACCGAAATACCA
* * *
5834650 TACCTACTTTTCATAACTCAGTATGGTTTTCTTCACTGAAATACCA
1 TACCTACTTTTCATAACTCAGTATGATTTTCTTTACCGAAATACCA
*
5834696 TACCTACGTTTCA
1 TACCTACTTTTCA
5834709 CACTTTGCCA
Statistics
Matches: 91, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 91 1.00
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (46 bp):
TACCTACTTTTCATAACTCAGTATGATTTTCTTTACCGAAATACCA
Found at i:5834668 original size:117 final size:117
Alignment explanation
Indices: 5834457--5834674 Score: 321
Period size: 117 Copynumber: 1.9 Consensus size: 117
5834447 ATTGCTATAG
* *
5834457 CTCAGTATGATTTTCTTCACGAAAATACCATACCTACTTTTCACAACTCAATATGGTTTTCTTCA
1 CTCAGTATGATTTTCTTCACGAAAATACCATACCTACTTTTCACAACTCAATATGATTTTATTCA
5834522 CCAAAACACCATACCTACTTTTCACAACTCAGTATGTACCTACTTTTCATAA
66 CCAAAACACCATACCTACTTTTCACAACTCAGTATGTACCTACTTTTCATAA
* * *
5834574 CTCAGTATGATTTTCTTTACCG-AAATACCATACCTACTTTTCACAACTCAGTATGATTTTATTT
1 CTCAGTATGATTTTCTTCA-CGAAAATACCATACCTACTTTTCACAACTCAATATGATTTTATTC
* * * ** *
5834638 ATCGAAATATTATACCTACTTTTCATAACTCAGTATG
65 ACCAAAACACCATACCTACTTTTCACAACTCAGTATG
5834675 GTTTTCTTCA
Statistics
Matches: 89, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
117 87 0.98
118 2 0.02
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (117 bp):
CTCAGTATGATTTTCTTCACGAAAATACCATACCTACTTTTCACAACTCAATATGATTTTATTCA
CCAAAACACCATACCTACTTTTCACAACTCAGTATGTACCTACTTTTCATAA
Found at i:5840634 original size:11 final size:11
Alignment explanation
Indices: 5840618--5840643 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
5840608 GGTGAAATTA
5840618 TTTAATAATAT
1 TTTAATAATAT
5840629 TTTAATAATAT
1 TTTAATAATAT
5840640 TTTA
1 TTTA
5840644 TTTATTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
TTTAATAATAT
Found at i:5842333 original size:21 final size:20
Alignment explanation
Indices: 5842281--5842338 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 20
5842271 AAAAAGTGTG
5842281 ACATAATTCAATATTATTAA
1 ACATAATTCAATATTATTAA
5842301 A-ATCAATGTCAA-ATTCATTAA
1 ACAT-AAT-TCAATATT-ATTAA
*
5842322 AGCATAATTCAACATTA
1 A-CATAATTCAATATTA
5842339 ATTTAGTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
19 2 0.06
20 7 0.22
21 15 0.47
22 6 0.19
23 2 0.06
ACGTcount: A:0.48, C:0.14, G:0.03, T:0.34
Consensus pattern (20 bp):
ACATAATTCAATATTATTAA
Found at i:5843915 original size:23 final size:23
Alignment explanation
Indices: 5843879--5843938 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 23
5843869 TTAAGATTGT
*
5843879 TAAATTTAATAAATA-AAAAATTA
1 TAAATTTAA-AAATATAAAAATAA
*
5843902 TAAATTTATAAAATATTAAAATAA
1 TAAATTTA-AAAATATAAAAATAA
5843926 TATAATTTAAAAA
1 TA-AATTTAAAAA
5843939 GTGAAAGATT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 13 0.41
24 13 0.41
25 6 0.19
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (23 bp):
TAAATTTAAAAATATAAAAATAA
Found at i:5843929 original size:18 final size:19
Alignment explanation
Indices: 5843886--5843930 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
5843876 TGTTAAATTT
5843886 AATAA-ATAAAAAATTATA
1 AATAATATAAAAAATTATA
* *
5843904 AAT-TTATAAAATATTA-A
1 AATAATATAAAAAATTATA
5843921 AATAATATAA
1 AATAATATAA
5843931 TTTAAAAAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
AATAATATAAAAAATTATA
Found at i:5844378 original size:25 final size:24
Alignment explanation
Indices: 5844344--5844395 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
5844334 TTAAAATATT
* *
5844344 ATTTGTTTTATTTTAATCACTTTTA
1 ATTTGTTTTAATTTAATCA-TTCTA
*
5844369 ATTTTTTTTAATTTAATCATTCTA
1 ATTTGTTTTAATTTAATCATTCTA
5844393 ATT
1 ATT
5844396 AAAATAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 7 0.29
25 17 0.71
ACGTcount: A:0.27, C:0.08, G:0.02, T:0.63
Consensus pattern (24 bp):
ATTTGTTTTAATTTAATCATTCTA
Found at i:5852449 original size:21 final size:22
Alignment explanation
Indices: 5852409--5852451 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
5852399 GTAATTTAAG
* *
5852409 TAATTTAAAAGAAATTAAAATT
1 TAATTCAAAAGAAATAAAAATT
5852431 TAATTCAAAA-AAATAAAAATT
1 TAATTCAAAAGAAATAAAAATT
5852452 AAATATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (22 bp):
TAATTCAAAAGAAATAAAAATT
Found at i:5854867 original size:23 final size:24
Alignment explanation
Indices: 5854832--5854876 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
5854822 TATTTGAATG
* * *
5854832 AAAATTATATATATGTATATTTTA
1 AAAACTATATATAAGTAAATTTTA
5854856 AAAACTAT-TATAAGTAAATTT
1 AAAACTATATATAAGTAAATTT
5854877 GTATACTTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 11 0.61
24 7 0.39
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.44
Consensus pattern (24 bp):
AAAACTATATATAAGTAAATTTTA
Found at i:5855585 original size:17 final size:17
Alignment explanation
Indices: 5855552--5855589 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
5855542 ATTTTTAAAT
5855552 AATAATGATTTTTTTAA
1 AATAATGATTTTTTTAA
5855569 AATAAT-ATTTTTATTAA
1 AATAATGATTTTT-TTAA
5855586 AATA
1 AATA
5855590 TTTTAAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
AATAATGATTTTTTTAA
Found at i:5861606 original size:18 final size:18
Alignment explanation
Indices: 5861585--5861626 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
5861575 TTATATTCAC
*
5861585 ACTTTTTTTTTCAG-TTTT
1 ACTTTTTGTTT-AGTTTTT
*
5861603 ACTTTATGTTTAGTTTTT
1 ACTTTTTGTTTAGTTTTT
5861621 ACTTTT
1 ACTTTT
5861627 AAAAATAATG
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.14, C:0.10, G:0.07, T:0.69
Consensus pattern (18 bp):
ACTTTTTGTTTAGTTTTT
Found at i:5871836 original size:23 final size:24
Alignment explanation
Indices: 5871810--5871861 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
5871800 AAATACTACA
*
5871810 AAATAAAGTTTTAAT-TTTTATTT
1 AAATAAAGTTTTAATAATTTATTT
* * *
5871833 AAATCAATTTTTTATAATTTATTT
1 AAATAAAGTTTTAATAATTTATTT
5871857 AAATA
1 AAATA
5871862 CTTATAAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
23 12 0.52
24 11 0.48
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (24 bp):
AAATAAAGTTTTAATAATTTATTT
Found at i:5873264 original size:22 final size:22
Alignment explanation
Indices: 5873244--5873288 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
5873234 AAATAATAAC
5873244 TAAAATATTATTATTTTATAAAA
1 TAAAATA-TATTATTTTATAAAA
*
5873267 TAAATTATATTATTTTA-AAAA
1 TAAAATATATTATTTTATAAAA
5873288 T
1 T
5873289 GTTTTTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.24
22 10 0.48
23 6 0.29
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TAAAATATATTATTTTATAAAA
Found at i:5878401 original size:27 final size:27
Alignment explanation
Indices: 5878371--5878439 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
5878361 CAAATGCCGA
5878371 GTGGAGGTGGGGGTGAAGGTGGAGGAG
1 GTGGAGGTGGGGGTGAAGGTGGAGGAG
* *
5878398 GTGGTGGTGGGGGTGAAGGTGGAGGGG
1 GTGGAGGTGGGGGTGAAGGTGGAGGAG
*
5878425 GAGGAGG-GGGAGGTG
1 GTGGAGGTGGG-GGTG
5878440 GAGGAATAGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
26 3 0.08
27 34 0.92
ACGTcount: A:0.16, C:0.00, G:0.70, T:0.14
Consensus pattern (27 bp):
GTGGAGGTGGGGGTGAAGGTGGAGGAG
Found at i:5878406 original size:15 final size:15
Alignment explanation
Indices: 5878371--5878444 Score: 55
Period size: 15 Copynumber: 4.9 Consensus size: 15
5878361 CAAATGCCGA
5878371 GTGGAGGT-G-GG-G
1 GTGGAGGTGGAGGAG
*
5878383 GTGAAGGTGGAGGAG
1 GTGGAGGTGGAGGAG
* *
5878398 GTGGTGGTGGGGGTGAAG
1 GTGGAGGT-GGAG-G-AG
*
5878416 GTGGAGGGGGAGGAG
1 GTGGAGGTGGAGGAG
*
5878431 GGGGAGGTGGAGGA
1 GTGGAGGTGGAGGA
5878445 ATAGGAGGGG
Statistics
Matches: 47, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
12 7 0.15
13 1 0.02
14 2 0.04
15 21 0.45
16 4 0.09
17 4 0.09
18 8 0.17
ACGTcount: A:0.18, C:0.00, G:0.69, T:0.14
Consensus pattern (15 bp):
GTGGAGGTGGAGGAG
Found at i:5878440 original size:21 final size:21
Alignment explanation
Indices: 5878414--5878470 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
5878404 GTGGGGGTGA
* *
5878414 AGGTGGAGGGGGAGGAGGGGG
1 AGGTGGAGGAGGAGGAGGGGC
**
5878435 AGGTGGAGGAATAGGAGGGGC
1 AGGTGGAGGAGGAGGAGGGGC
*
5878456 AGGTGTAGGAGGAGG
1 AGGTGGAGGAGGAGG
5878471 TATATCACAG
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:0.25, C:0.02, G:0.65, T:0.09
Consensus pattern (21 bp):
AGGTGGAGGAGGAGGAGGGGC
Found at i:5893483 original size:16 final size:16
Alignment explanation
Indices: 5893462--5893510 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 16
5893452 TTCGCTGTAT
*
5893462 TGGAATAAAGGCGTAA
1 TGGAATAGAGGCGTAA
* *
5893478 TGGAATAGAGACATAA
1 TGGAATAGAGGCGTAA
5893494 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
5893510 T
1 T
5893511 AGAAAATCAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.43, C:0.06, G:0.31, T:0.20
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:5893585 original size:44 final size:45
Alignment explanation
Indices: 5893492--5893586 Score: 131
Period size: 44 Copynumber: 2.1 Consensus size: 45
5893482 ATAGAGACAT
*
5893492 AATGGAATAGAGGCGTAATAGAAAATCAATTGTTTGGTTGAATGT
1 AATGGAATAGAGGCGTAATAGAAAATCAATTGTTTGGTTGAATGG
* * *
5893537 AATGGAATAGAGGCGTAATAG-TATTC-TTGTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGAAAATCAAT-TGTTTGGTTGAATGG
5893581 AATGGA
1 AATGGA
5893587 GGTGTAATAG
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
43 1 0.02
44 23 0.51
45 21 0.47
ACGTcount: A:0.34, C:0.04, G:0.29, T:0.33
Consensus pattern (45 bp):
AATGGAATAGAGGCGTAATAGAAAATCAATTGTTTGGTTGAATGG
Found at i:5893764 original size:18 final size:17
Alignment explanation
Indices: 5893743--5893777 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
5893733 TTATTATTAA
*
5893743 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
5893761 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
5893778 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:5893897 original size:26 final size:26
Alignment explanation
Indices: 5893868--5893982 Score: 95
Period size: 26 Copynumber: 4.3 Consensus size: 26
5893858 TTAATCATAT
*
5893868 TTTAACATAATTATTATTAAATATAA
1 TTTAATATAATTATTATTAAATATAA
* * * * *
5893894 TTTAATAAAATATATAAATTTACTAAAA
1 TTTAATATAAT-TAT-TATTAAATATAA
* * * *
5893922 TCATAATATATAATACTATAAAATATAA
1 T-TTAATATA-ATTATTATTAAATATAA
*
5893950 TTTAAAATAATTATTATTAAATATAA
1 TTTAATATAATTATTATTAAATATAA
5893976 TTTAATA
1 TTTAATA
5893983 AAAATATATA
Statistics
Matches: 64, Mismatches: 21, Indels: 8
0.69 0.23 0.09
Matches are distributed among these distances:
26 29 0.45
27 9 0.14
28 17 0.27
29 8 0.12
30 1 0.02
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (26 bp):
TTTAATATAATTATTATTAAATATAA
Found at i:5893915 original size:18 final size:17
Alignment explanation
Indices: 5893888--5894004 Score: 59
Period size: 18 Copynumber: 7.0 Consensus size: 17
5893878 TTATTATTAA
5893888 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
*
5893905 ATATAAATTTACTAAAAT
1 ATAT-AATTTAATAAAAT
* * *
5893923 -CATAATAT-ATAATACT
1 ATATAATTTAATAA-AAT
* *
5893939 ATAAAATATAATTTAAAAT
1 ATATAATTTAA--TAAAAT
* *
5893958 A-ATTA-TT-AT-TAA-
1 ATATAATTTAATAAAAT
5893970 ATATAATTTAATAAAAAT
1 ATATAATTTAAT-AAAAT
*
5893988 ATATAATTTGATAAAAT
1 ATATAATTTAATAAAAT
5894005 TCTTAGTATT
Statistics
Matches: 73, Mismatches: 15, Indels: 24
0.65 0.13 0.21
Matches are distributed among these distances:
12 1 0.01
13 5 0.07
14 3 0.04
15 5 0.07
16 7 0.10
17 20 0.27
18 26 0.36
19 3 0.04
20 3 0.04
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:5893952 original size:145 final size:145
Alignment explanation
Indices: 5893664--5893953 Score: 444
Period size: 145 Copynumber: 2.0 Consensus size: 145
5893654 ATGATTATTG
* *
5893664 TTATTGTTATTAAATTTTAATAAGATTATTAATATCAGTAATAAATAATTTAATCATATTTTAAC
1 TTATTGTTATTAAATTTTAATAAGATTATTAATATAAATAATAAATAATTTAATCATATTTTAAC
* *
5893729 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATAT
66 ATAATTATTATTAAATATAATTTAATTAAAATATATAATTTAATAAAATTCATAATAATCAATAT
***
5893794 TGTTATATGAATTTA
131 TAAAATATGAATTTA
5893809 TTATTGTTATTAAATTTTAATAAGATTATTAATATAAATAATAAATAATTTAATCATATTTTAAC
1 TTATTGTTATTAAATTTTAATAAGATTATTAATATAAATAATAAATAATTTAATCATATTTTAAC
*
5893874 ATAATTATTATTAAATATAATTTAA-TAAAATATATAAATTTACTAAAA-TCATAATATAT-AAT
66 ATAATTATTATTAAATATAATTTAATTAAAATATAT-AATTTAATAAAATTCATAATA-ATCAAT
5893936 ACTATAAAATAT-AATTTA
129 A-T-TAAAATATGAATTTA
5893954 AAATAATTAT
Statistics
Matches: 133, Mismatches: 8, Indels: 8
0.89 0.05 0.05
Matches are distributed among these distances:
144 21 0.16
145 107 0.80
146 5 0.04
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.46
Consensus pattern (145 bp):
TTATTGTTATTAAATTTTAATAAGATTATTAATATAAATAATAAATAATTTAATCATATTTTAAC
ATAATTATTATTAAATATAATTTAATTAAAATATATAATTTAATAAAATTCATAATAATCAATAT
TAAAATATGAATTTA
Found at i:5894063 original size:61 final size:61
Alignment explanation
Indices: 5893904--5894091 Score: 201
Period size: 59 Copynumber: 3.1 Consensus size: 61
5893894 TTTAATAAAA
5893904 TATATAAATTTACTAAAATCATAATATATAATACTATAAAA-TATAATTTAAAATAATTAT
1 TATATAAATTTACTAAAATCATAATATATAATACTATAAAATTATAATTTAAAATAATTAT
* * ** * * * * * *
5893964 TAT-TAAATATAATTTAATAAAAATATATAAT-TTGATAAAATTCTTAGTATT-AAAT-ATTCT
1 TATATAAATTTACTAAAATCATAATATATAATACT-ATAAAATT-ATAAT-TTAAAATAATTAT
*
5894024 TATATGAATTTACTAAAATCATAATATATAATACTATAAAA-TATAATTTAAAATAATTAT
1 TATATAAATTTACTAAAATCATAATATATAATACTATAAAATTATAATTTAAAATAATTAT
5894084 TAT-TAAAT
1 TATATAAAT
5894092 ATAATTTATA
Statistics
Matches: 98, Mismatches: 22, Indels: 17
0.72 0.16 0.12
Matches are distributed among these distances:
58 3 0.03
59 39 0.40
60 19 0.19
61 34 0.35
62 3 0.03
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (61 bp):
TATATAAATTTACTAAAATCATAATATATAATACTATAAAATTATAATTTAAAATAATTAT
Found at i:5901305 original size:24 final size:24
Alignment explanation
Indices: 5901278--5901334 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
5901268 AGTTAAATGA
*
5901278 AATATATTTAATATTTATAAATAT
1 AATATATTTAATATTTATAAACAT
* *
5901302 AATATATTTAATGTTTATTAACAT
1 AATATATTTAATATTTATAAACAT
5901326 AATATATTT
1 AATATATTT
5901335 GACTTTGATT
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:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (24 bp):
AATATATTTAATATTTATAAACAT
Found at i:5901627 original size:18 final size:18
Alignment explanation
Indices: 5901604--5901639 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
5901594 ATCGTCAACA
*
5901604 AAAGACTTTTCTTGTGTC
1 AAAGACTTTTCTTCTGTC
5901622 AAAGACTTTTCTTCTGTC
1 AAAGACTTTTCTTCTGTC
5901640 TCTGTTCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.19, G:0.14, T:0.44
Consensus pattern (18 bp):
AAAGACTTTTCTTCTGTC
Found at i:5901919 original size:16 final size:17
Alignment explanation
Indices: 5901891--5901922 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
5901881 CTTTTTTAAT
5901891 TAATTTTTATTTAAAAA
1 TAATTTTTATTTAAAAA
5901908 TAATTTTT-TTTAAAA
1 TAATTTTTATTTAAAA
5901923 CATACAATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TAATTTTTATTTAAAAA
Found at i:5902168 original size:28 final size:30
Alignment explanation
Indices: 5902136--5902192 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
5902126 AGAGATTTAA
*
5902136 ATAATT-ATATAATTATTATT-TAACATAT
1 ATAATTAACATAATTATTATTATAACATAT
*
5902164 ATAATTAACATAATTATTTTTATAACATA
1 ATAATTAACATAATTATTATTATAACATA
5902193 AAAAAATTCG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 6 0.24
29 12 0.48
30 7 0.28
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (30 bp):
ATAATTAACATAATTATTATTATAACATAT
Found at i:5902464 original size:4 final size:4
Alignment explanation
Indices: 5902455--5902490 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
5902445 TAAGAGGGAT
5902455 TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG
5902491 GGAAACTATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:5922945 original size:13 final size:14
Alignment explanation
Indices: 5922927--5922959 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
5922917 CTCATTACTT
*
5922927 TTATTTTTAA-TTA
1 TTATTTTTAACATA
5922940 TTATTTTTAACATA
1 TTATTTTTAACATA
5922954 TTATTT
1 TTATTT
5922960 CCTCTAGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (14 bp):
TTATTTTTAACATA
Found at i:5924155 original size:23 final size:21
Alignment explanation
Indices: 5924114--5924155 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
5924104 TAATAGTAAA
*
5924114 ATAATAAAATTACATTTTACT
1 ATAATAAAATTACAATTTACT
5924135 ATAATAAAAATATACAATTTA
1 ATAAT-AAAAT-TACAATTTA
5924156 ATTTTTATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 5 0.28
23 8 0.44
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (21 bp):
ATAATAAAATTACAATTTACT
Found at i:5926684 original size:11 final size:11
Alignment explanation
Indices: 5926668--5926707 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
5926658 GGTTTTCTCC
5926668 CTATTTTGCTA
1 CTATTTTGCTA
* *
5926679 CCATTTTACTA
1 CTATTTTGCTA
*
5926690 CTATGTTGCTA
1 CTATTTTGCTA
5926701 CTATTTT
1 CTATTTT
5926708 ATTTTTATTG
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.20, C:0.20, G:0.07, T:0.53
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:5926779 original size:30 final size:30
Alignment explanation
Indices: 5926745--5926806 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
5926735 ACTTATTTTA
*
5926745 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGCTATTATTTTAAAGACAT
*
5926775 TTGTTAATTTTGCTATTATTTTAAAGTCAT
1 TTGTTAATTTTGCTATTATTTTAAAGACAT
5926805 TT
1 TT
5926807 ACTTGTTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.05, G:0.10, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTGCTATTATTTTAAAGACAT
Found at i:5954298 original size:21 final size:21
Alignment explanation
Indices: 5954252--5954302 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
5954242 AACTCTAACC
5954252 TCAATTTAATTTTTTTTATAA
1 TCAATTTAATTTTTTTTATAA
* *
5954273 ACAATTTAAGTTTTTTTT-TTA
1 TCAATTTAA-TTTTTTTTATAA
5954294 TCAATTTAA
1 TCAATTTAA
5954303 ACTTAATTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 18 0.69
22 8 0.31
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (21 bp):
TCAATTTAATTTTTTTTATAA
Found at i:5957837 original size:5 final size:5
Alignment explanation
Indices: 5957829--5957863 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
5957819 CAATTTAATT
5957829 TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA
5957864 AGTTCAGTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:5959920 original size:22 final size:21
Alignment explanation
Indices: 5959895--5959936 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
5959885 TATCATAAAT
*
5959895 ATATATTTTAAAAATTAAAAAA
1 ATATATTAT-AAAATTAAAAAA
*
5959917 ATATATTATATAATTAAAAA
1 ATATATTATAAAATTAAAAA
5959937 TACATAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
ATATATTATAAAATTAAAAAA
Found at i:5962669 original size:6 final size:6
Alignment explanation
Indices: 5962658--5962682 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
5962648 TATACTCCAA
5962658 TAATAT TAATAT TAATAT TAATAT T
1 TAATAT TAATAT TAATAT TAATAT T
5962683 GTTTTTTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TAATAT
Found at i:5972432 original size:16 final size:15
Alignment explanation
Indices: 5972403--5972433 Score: 53
Period size: 15 Copynumber: 2.0 Consensus size: 15
5972393 CCCTTTTCTT
5972403 TGAAAATAGAATGAA
1 TGAAAATAGAATGAA
5972418 TGAAAATATGAATGAA
1 TGAAAATA-GAATGAA
5972434 GGGAAAACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.58, C:0.00, G:0.19, T:0.23
Consensus pattern (15 bp):
TGAAAATAGAATGAA
Found at i:5975246 original size:27 final size:27
Alignment explanation
Indices: 5975214--5975287 Score: 112
Period size: 27 Copynumber: 2.7 Consensus size: 27
5975204 AATCACATTG
*
5975214 GCGGCACCAAAGGTGCCAAAGAGATTA
1 GCGGCACCAATGGTGCCAAAGAGATTA
* * *
5975241 GTGGCACCAATGGTGCCAAAGTGATTG
1 GCGGCACCAATGGTGCCAAAGAGATTA
5975268 GCGGCACCAATGGTGCCAAA
1 GCGGCACCAATGGTGCCAAA
5975288 TGACTAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.31, C:0.23, G:0.31, T:0.15
Consensus pattern (27 bp):
GCGGCACCAATGGTGCCAAAGAGATTA
Found at i:5975399 original size:18 final size:19
Alignment explanation
Indices: 5975362--5975400 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
5975352 TCAACTCATT
* *
5975362 TTTTTATTTAATAACTCTA
1 TTTTAATTTAATAACACTA
5975381 TTTTAATTTAATAA-ACTA
1 TTTTAATTTAATAACACTA
5975399 TT
1 TT
5975401 AAGTAATACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTTAATTTAATAACACTA
Found at i:5975653 original size:18 final size:19
Alignment explanation
Indices: 5975616--5975654 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
5975606 TCAACTCATT
* *
5975616 TTTTTATTTAATAACTCTA
1 TTTTAATTTAATAACACTA
5975635 TTTTAATTTAATAA-ACTA
1 TTTTAATTTAATAACACTA
5975653 TT
1 TT
5975655 CTCATTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTTAATTTAATAACACTA
Found at i:5975661 original size:18 final size:19
Alignment explanation
Indices: 5975621--5975663 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
5975611 TCATTTTTTT
* *
5975621 ATTTAATAACTCTATTTTA
1 ATTTAATAACACTATTCTA
*
5975640 ATTTAATAA-ACTATTCTC
1 ATTTAATAACACTATTCTA
5975658 ATTTAA
1 ATTTAA
5975664 ATTAAAATAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.49
Consensus pattern (19 bp):
ATTTAATAACACTATTCTA
Found at i:5975699 original size:18 final size:18
Alignment explanation
Indices: 5975676--5975739 Score: 92
Period size: 18 Copynumber: 3.5 Consensus size: 18
5975666 TAAAATAGAG
5975676 TTATTAAATGAGAATAGT
1 TTATTAAATGAGAATAGT
* * *
5975694 TTATTAAATTAAAATAGAG
1 TTATTAAATGAGAATAG-T
5975713 TTATTAAATGAGAATAGT
1 TTATTAAATGAGAATAGT
5975731 TTATTAAAT
1 TTATTAAAT
5975740 TAAAATAGAG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
18 24 0.62
19 15 0.38
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (18 bp):
TTATTAAATGAGAATAGT
Found at i:5975710 original size:37 final size:37
Alignment explanation
Indices: 5975660--5975755 Score: 192
Period size: 37 Copynumber: 2.6 Consensus size: 37
5975650 CTATTCTCAT
5975660 TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
1 TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
5975697 TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
1 TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
5975734 TTAAATTAAAATAGAGTTATTA
1 TTAAATTAAAATAGAGTTATTA
5975756 CTTAATTAGA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.39
Consensus pattern (37 bp):
TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
Found at i:5975760 original size:18 final size:19
Alignment explanation
Indices: 5975660--5975755 Score: 124
Period size: 19 Copynumber: 5.2 Consensus size: 19
5975650 CTATTCTCAT
5975660 TTAAATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
* * *
5975679 TTAAATGAGAATAG-TTTA
1 TTAAATTAAAATAGAGTTA
5975697 TTAAATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
* * *
5975716 TTAAATGAGAATAG-TTTA
1 TTAAATTAAAATAGAGTTA
5975734 TTAAATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
5975753 TTA
1 TTA
5975756 CTTAATTAGA
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
18 30 0.48
19 33 0.52
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.39
Consensus pattern (19 bp):
TTAAATTAAAATAGAGTTA
Found at i:5975990 original size:37 final size:37
Alignment explanation
Indices: 5975949--5976019 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
5975939 AGTATTACTT
5975949 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
5975986 AATAGTTTATTAAATTAAAATAGAGTTATTAAAT
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAAT
5976020 AAAAAAATGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.39
Consensus pattern (37 bp):
AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
Found at i:5976024 original size:19 final size:19
Alignment explanation
Indices: 5975955--5976023 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
5975945 ACTTAATAGT
5975955 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
* * *
5975974 TTATTAAATGAGAATAG-T
1 TTATTAAATTAAAATAGAG
5975992 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
5976011 TTATTAAA-TAAAA
1 TTATTAAATTAAAA
5976024 AAATGAGTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
18 20 0.47
19 23 0.53
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (19 bp):
TTATTAAATTAAAATAGAG
Found at i:5976285 original size:27 final size:28
Alignment explanation
Indices: 5976229--5976294 Score: 98
Period size: 27 Copynumber: 2.4 Consensus size: 28
5976219 TTTTTTTTGT
*
5976229 ATATTTTTGTAAATAATCAAAAAATAATA
1 ATATTTTGGTAAATAA-CAAAAAATAATA
*
5976258 ATATTTTGGTAAATAA-AAAAAATTATA
1 ATATTTTGGTAAATAACAAAAAATAATA
5976285 ATATTTTGGT
1 ATATTTTGGT
5976295 TAATTTTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 20 0.57
29 15 0.43
ACGTcount: A:0.50, C:0.02, G:0.08, T:0.41
Consensus pattern (28 bp):
ATATTTTGGTAAATAACAAAAAATAATA
Found at i:5988005 original size:13 final size:12
Alignment explanation
Indices: 5987965--5988030 Score: 55
Period size: 13 Copynumber: 5.4 Consensus size: 12
5987955 CGAAATATAC
*
5987965 AAATTTAAATAT
1 AAATATAAATAT
* *
5987977 -AATTTAAGAAAT
1 AAATATAA-ATAT
5987989 AAATATAATATAT
1 AAATATAA-ATAT
5988002 AAATATAAATATT
1 AAATATAAATA-T
*
5988015 AAA-ATAAATTT
1 AAATATAAATAT
5988026 AAATA
1 AAATA
5988031 AATTAACAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
11 11 0.24
12 13 0.29
13 21 0.47
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (12 bp):
AAATATAAATAT
Found at i:5988007 original size:6 final size:6
Alignment explanation
Indices: 5987965--5988030 Score: 55
Period size: 6 Copynumber: 10.8 Consensus size: 6
5987955 CGAAATATAC
* * *
5987965 AAATTT AAATAT -AATTT AAGAAAT AAATAT AATATAT AAATAT AAATATT
1 AAATAT AAATAT AAATAT AA-ATAT AAATAT AA-ATAT AAATAT AAATA-T
*
5988015 AAA-AT AAATTT AAATA
1 AAATAT AAATAT AAATA
5988031 AATTAACAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
5 8 0.17
6 26 0.54
7 14 0.29
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (6 bp):
AAATAT
Found at i:5988023 original size:18 final size:19
Alignment explanation
Indices: 5987958--5988030 Score: 64
Period size: 18 Copynumber: 3.9 Consensus size: 19
5987948 ACACTAACGA
* *
5987958 AATATACAAATTTAAATAT
1 AATATATAAATATAAATAT
*
5987977 AAT-T-TAAGAAATAAATAT
1 AATATATAA-ATATAAATAT
5987995 AATATATAAATATAAATATT
1 AATATATAAATATAAATA-T
*
5988015 AA-A-ATAAATTTAAATA
1 AATATATAAATATAAATA
5988031 AATTAACAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
17 2 0.04
18 24 0.53
19 13 0.29
20 6 0.13
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (19 bp):
AATATATAAATATAAATAT
Found at i:5988211 original size:29 final size:30
Alignment explanation
Indices: 5988151--5988211 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 30
5988141 ATGTACAATC
**
5988151 AAAATAGTTTAATATAAATTATGTATATAA
1 AAAATAGTTTAATATAAATTATACATATAA
* * *
5988181 AAAATATTTTAATATATA-TATACATTTAA
1 AAAATAGTTTAATATAAATTATACATATAA
5988210 AA
1 AA
5988212 GAAAACTCAC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
29 10 0.38
30 16 0.62
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (30 bp):
AAAATAGTTTAATATAAATTATACATATAA
Found at i:5988318 original size:19 final size:21
Alignment explanation
Indices: 5988295--5988339 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
5988285 TTATATATGC
5988295 ATATATAAAAA-ATAGTAGATT
1 ATATA-AAAAATATAGTAGATT
5988316 ATATAAAAAAATATAGTAGATT
1 ATAT-AAAAAATATAGTAGATT
5988338 AT
1 AT
5988340 TATTAAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (21 bp):
ATATAAAAAATATAGTAGATT
Found at i:5989900 original size:50 final size:50
Alignment explanation
Indices: 5989844--5990122 Score: 274
Period size: 50 Copynumber: 5.6 Consensus size: 50
5989834 TCGGGGAAAC
* *
5989844 AAGATTCGCTGTCGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAAGT
1 AAGATTCGCCGTCGTAGCTTCAATCTATTCCACTGCAACGCCAGGGAAGT
* ** * * **
5989894 AAGATTCGCCGTTGT-GACTTCAATCTATTTAACTGCAATGTCAGGGAAAC
1 AAGATTCGCCGTCGTAG-CTTCAATCTATTCCACTGCAACGCCAGGGAAGT
* * * * * *
5989944 AAGATTCGTCGTCGTAGCTTTAATCTGTTCCACTACACCGCCAAGGAAGT
1 AAGATTCGCCGTCGTAGCTTCAATCTATTCCACTGCAACGCCAGGGAAGT
* ** * *** *
5989994 AAGATTCGCCGTTGTAGCTTCAATCTATTTAACTGCAATGTTGGGGGAA-C
1 AAGATTCGCCGTCGTAGCTTCAATCTATTCCACTGCAACG-CCAGGGAAGT
* * * *
5990044 AAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACATCGCCAGAGAAGT
1 AAGATTCGCCGTCGTAGCTTCAATCTATTCCACTGCAACGCCAGGGAAGT
*
5990094 AAGATTCGCCGTTGTAGCTTCAATCTATT
1 AAGATTCGCCGTCGTAGCTTCAATCTATT
5990123 TAACTGTAAT
Statistics
Matches: 175, Mismatches: 50, Indels: 8
0.75 0.21 0.03
Matches are distributed among these distances:
49 5 0.03
50 165 0.94
51 5 0.03
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (50 bp):
AAGATTCGCCGTCGTAGCTTCAATCTATTCCACTGCAACGCCAGGGAAGT
Found at i:5989945 original size:100 final size:100
Alignment explanation
Indices: 5989811--5990133 Score: 497
Period size: 100 Copynumber: 3.2 Consensus size: 100
5989801 GGATTGGTTT
* * *
5989811 CTTCCATCTGTTTAACTGCAATGTCGGGGAAACAAGATTCGCTGTCGTAGCTTCAATCTATTCCA
1 CTTCAATCTATTTAACTGCAATGTCGGGGAAACAAGATTCGCTGTCGTAGCTTCAATCTGTTCCA
*
5989876 CTGCACCGCCAGGGAAGTAAGATTCGCCGTTGT-G
66 CTACACCGCCAGGGAAGTAAGATTCGCCGTTGTAG
* *
5989910 ACTTCAATCTATTTAACTGCAATGTCAGGGAAACAAGATTCG-TCGTCGTAGCTTTAATCTGTTC
1 -CTTCAATCTATTTAACTGCAATGTCGGGGAAACAAGATTCGCT-GTCGTAGCTTCAATCTGTTC
*
5989974 CACTACACCGCCAAGGAAGTAAGATTCGCCGTTGTAG
64 CACTACACCGCCAGGGAAGTAAGATTCGCCGTTGTAG
* * *
5990011 CTTCAATCTATTTAACTGCAATGTTGGGGGAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCA
1 CTTCAATCTATTTAACTGCAATGTCGGGGAAACAAGATTCGCTGTCGTAGCTTCAATCTGTTCCA
* *
5990076 CTACATCGCCAGAGAAGTAAGATTCGCCGTTGTAG
66 CTACACCGCCAGGGAAGTAAGATTCGCCGTTGTAG
*
5990111 CTTCAATCTATTTAACTGTAATG
1 CTTCAATCTATTTAACTGCAATG
5990134 CCAAAGAGAT
Statistics
Matches: 204, Mismatches: 16, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
99 1 0.00
100 202 0.99
101 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (100 bp):
CTTCAATCTATTTAACTGCAATGTCGGGGAAACAAGATTCGCTGTCGTAGCTTCAATCTGTTCCA
CTACACCGCCAGGGAAGTAAGATTCGCCGTTGTAG
Found at i:5990422 original size:88 final size:88
Alignment explanation
Indices: 5990309--5990474 Score: 260
Period size: 88 Copynumber: 1.9 Consensus size: 88
5990299 GGTGATAAGA
* * * * * *
5990309 CTGGTGTCTTCGATTTGCTTCGCTGCTAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTACTC
1 CTGGTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTC
5990374 CACTGCTGCTCAGGGAGACAAGG
66 CACTGCTGCTCAGGGAGACAAGG
*
5990397 CTGGTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTTAACCTACTC
1 CTGGTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTC
*
5990462 TACTGCTGCTCAG
66 CACTGCTGCTCAG
5990475 TAGACCTGTC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 70 1.00
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (88 bp):
CTGGTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTC
CACTGCTGCTCAGGGAGACAAGG
Found at i:5992274 original size:21 final size:22
Alignment explanation
Indices: 5992238--5992286 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
5992228 CCTTAGCCTC
*
5992238 TTCATTTTTACTTTTTCCA-TTT
1 TTCATTATTACTTTTT-CATTTT
5992260 TTCATTATT-CTTTTTCATTTT
1 TTCATTATTACTTTTTCATTTT
5992281 TTCATT
1 TTCATT
5992287 TCATTCATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 2 0.08
21 15 0.60
22 8 0.32
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.69
Consensus pattern (22 bp):
TTCATTATTACTTTTTCATTTT
Found at i:5992280 original size:7 final size:7
Alignment explanation
Indices: 5992238--5992298 Score: 54
Period size: 7 Copynumber: 8.3 Consensus size: 7
5992228 CCTTAGCCTC
5992238 TTCATTT
1 TTCATTT
5992245 TT-ACTTT
1 TTCA-TTT
5992252 TTCCATTT
1 TT-CATTT
*
5992260 TTCATTA
1 TTCATTT
5992267 TTC-TTT
1 TTCATTT
5992273 TTCATTTT
1 TTCA-TTT
5992281 TTCATTT
1 TTCATTT
5992288 CATTCATTT
1 --TTCATTT
5992297 TT
1 TT
5992299 TTACGATTCA
Statistics
Matches: 45, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
6 6 0.13
7 19 0.42
8 12 0.27
9 8 0.18
ACGTcount: A:0.15, C:0.16, G:0.00, T:0.69
Consensus pattern (7 bp):
TTCATTT
Found at i:5992806 original size:19 final size:19
Alignment explanation
Indices: 5992774--5992820 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
5992764 TAGTAAAGGT
5992774 TTTTGTTTCTT-TTTTGTT-
1 TTTTG-TTCTTCTTTTGTTC
5992792 TTTTGTTCTTCTTTTGTTC
1 TTTTGTTCTTCTTTTGTTC
*
5992811 TTTTTTTCTT
1 TTTTGTTCTT
5992821 TTGGATTGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 5 0.19
18 12 0.46
19 9 0.35
ACGTcount: A:0.00, C:0.11, G:0.09, T:0.81
Consensus pattern (19 bp):
TTTTGTTCTTCTTTTGTTC
Found at i:5992912 original size:14 final size:14
Alignment explanation
Indices: 5992889--5992922 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
5992879 ATCAATGTTA
* *
5992889 TTCCAGATAAAGTC
1 TTCCACATAAAATC
5992903 TTCCACATAAAATC
1 TTCCACATAAAATC
5992917 TTCCAC
1 TTCCAC
5992923 TTTCATTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.35, C:0.29, G:0.06, T:0.29
Consensus pattern (14 bp):
TTCCACATAAAATC
Found at i:5996894 original size:13 final size:12
Alignment explanation
Indices: 5996854--5996919 Score: 55
Period size: 13 Copynumber: 5.4 Consensus size: 12
5996844 CGAAATATAC
*
5996854 AAATTTAAATAT
1 AAATATAAATAT
* *
5996866 -AATTTAAGAAAT
1 AAATATAA-ATAT
5996878 AAATATAATATAT
1 AAATATAA-ATAT
5996891 AAATATAAATATT
1 AAATATAAATA-T
*
5996904 AAA-ATAAATTT
1 AAATATAAATAT
5996915 AAATA
1 AAATA
5996920 AATTAACAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
11 11 0.24
12 13 0.29
13 21 0.47
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (12 bp):
AAATATAAATAT
Found at i:5996896 original size:6 final size:6
Alignment explanation
Indices: 5996854--5996919 Score: 55
Period size: 6 Copynumber: 10.8 Consensus size: 6
5996844 CGAAATATAC
* * *
5996854 AAATTT AAATAT -AATTT AAGAAAT AAATAT AATATAT AAATAT AAATATT
1 AAATAT AAATAT AAATAT AA-ATAT AAATAT AA-ATAT AAATAT AAATA-T
*
5996904 AAA-AT AAATTT AAATA
1 AAATAT AAATAT AAATA
5996920 AATTAACAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
5 8 0.17
6 26 0.54
7 14 0.29
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (6 bp):
AAATAT
Found at i:5996912 original size:18 final size:19
Alignment explanation
Indices: 5996847--5996919 Score: 64
Period size: 18 Copynumber: 3.9 Consensus size: 19
5996837 ACACTAACGA
* *
5996847 AATATACAAATTTAAATAT
1 AATATATAAATATAAATAT
*
5996866 AAT-T-TAAGAAATAAATAT
1 AATATATAA-ATATAAATAT
5996884 AATATATAAATATAAATATT
1 AATATATAAATATAAATA-T
*
5996904 AA-A-ATAAATTTAAATA
1 AATATATAAATATAAATA
5996920 AATTAACAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
17 2 0.04
18 24 0.53
19 13 0.29
20 6 0.13
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (19 bp):
AATATATAAATATAAATAT
Found at i:5997100 original size:29 final size:30
Alignment explanation
Indices: 5997040--5997100 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 30
5997030 ATGTACAATC
**
5997040 AAAATAGTTTAATATAAATTATGTATATAA
1 AAAATAGTTTAATATAAATTATACATATAA
* * *
5997070 AAAATATTTTAATATATA-TATACATTTAA
1 AAAATAGTTTAATATAAATTATACATATAA
5997099 AA
1 AA
5997101 GAAAACTCAC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
29 10 0.38
30 16 0.62
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (30 bp):
AAAATAGTTTAATATAAATTATACATATAA
Found at i:6011991 original size:3 final size:3
Alignment explanation
Indices: 6011985--6012083 Score: 198
Period size: 3 Copynumber: 33.0 Consensus size: 3
6011975 CCCCCCAAAA
6011985 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
6012033 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
6012081 AAG
1 AAG
6012084 GGGCCTACAT
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 96 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:6027264 original size:30 final size:30
Alignment explanation
Indices: 6027228--6027290 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
6027218 ACTTATTTTA
6027228 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
*
6027258 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
6027288 TTG
1 TTG
6027291 CTTGTTAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.24, C:0.03, G:0.16, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:6029472 original size:38 final size:38
Alignment explanation
Indices: 6029430--6029506 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
6029420 CCTTAATTTG
6029430 TATTATAGGCCCTCATAAAGCCCTTAATAAATCCAAAA
1 TATTATAGGCCCTCATAAAGCCCTTAATAAATCCAAAA
6029468 TATTATAGGCCCTCATAAAGCCCTTAATAAATCCAAAA
1 TATTATAGGCCCTCATAAAGCCCTTAATAAATCCAAAA
6029506 T
1 T
6029507 TCACTACCAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.42, C:0.23, G:0.08, T:0.27
Consensus pattern (38 bp):
TATTATAGGCCCTCATAAAGCCCTTAATAAATCCAAAA
Found at i:6031306 original size:5 final size:6
Alignment explanation
Indices: 6031286--6031319 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
6031276 ATGAATAGAA
* *
6031286 AAAATG GAAATG AAAATA AAAATG AAAATG AAAA
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAA
6031320 CTTACAATCC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.15
Consensus pattern (6 bp):
AAAATG
Found at i:6031308 original size:18 final size:18
Alignment explanation
Indices: 6031285--6031319 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
6031275 AATGAATAGA
*
6031285 AAAAATGGAAATGAAAAT
1 AAAAATGAAAATGAAAAT
6031303 AAAAATGAAAATGAAAA
1 AAAAATGAAAATGAAAA
6031320 CTTACAATCC
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:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (18 bp):
AAAAATGAAAATGAAAAT
Found at i:6031496 original size:26 final size:27
Alignment explanation
Indices: 6031460--6031523 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
6031450 ATGAATTTTC
*
6031460 TCAAAATTTTAAC-G-GGTGTAAAATCG
1 TCAAAATTTTAACTGAGG-ATAAAATCG
6031486 TCAAAATTTT-ACTGAAGGATAAAATCG
1 TCAAAATTTTAACTG-AGGATAAAATCG
6031513 TCAAAATTTTA
1 TCAAAATTTTA
6031524 CTAGGGTAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
25 2 0.06
26 11 0.33
27 18 0.55
28 2 0.06
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (27 bp):
TCAAAATTTTAACTGAGGATAAAATCG
Found at i:6052206 original size:24 final size:24
Alignment explanation
Indices: 6052169--6052280 Score: 127
Period size: 24 Copynumber: 4.7 Consensus size: 24
6052159 TCGTTCTTTG
*
6052169 GTAAATGATGAATTGAC-GAATAAT
1 GTAAAGGATGAATTGACGGAA-AAT
*
6052193 GTAAAGGATAAATTGACGGAAAAT
1 GTAAAGGATGAATTGACGGAAAAT
* * *
6052217 ATAAAGGAGGAACTGACGGAAAAT
1 GTAAAGGATGAATTGACGGAAAAT
**
6052241 GTAAAGGATGAATTGATAGAAAAT
1 GTAAAGGATGAATTGACGGAAAAT
* *
6052265 GTAAATGCTGAATTGA
1 GTAAAGGATGAATTGA
6052281 TGGCAATTTA
Statistics
Matches: 74, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
24 71 0.96
25 3 0.04
ACGTcount: A:0.47, C:0.04, G:0.25, T:0.23
Consensus pattern (24 bp):
GTAAAGGATGAATTGACGGAAAAT
Found at i:6053041 original size:9 final size:9
Alignment explanation
Indices: 6053021--6053078 Score: 71
Period size: 9 Copynumber: 6.4 Consensus size: 9
6053011 TTTGGTTAAA
*
6053021 AATTAACTG
1 AATTAACCG
*
6053030 AATTACCCG
1 AATTAACCG
*
6053039 AATTAACTG
1 AATTAACCG
6053048 AATTAACCG
1 AATTAACCG
* *
6053057 AATTACCCA
1 AATTAACCG
6053066 AATTAACCG
1 AATTAACCG
6053075 AATT
1 AATT
6053079 GAATCACTAT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 40 1.00
ACGTcount: A:0.43, C:0.21, G:0.09, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:6053044 original size:18 final size:18
Alignment explanation
Indices: 6053021--6053078 Score: 80
Period size: 18 Copynumber: 3.2 Consensus size: 18
6053011 TTTGGTTAAA
*
6053021 AATTAACTGAATTACCCG
1 AATTAACTGAATTAACCG
6053039 AATTAACTGAATTAACCG
1 AATTAACTGAATTAACCG
* **
6053057 AATTACCCAAATTAACCG
1 AATTAACTGAATTAACCG
6053075 AATT
1 AATT
6053079 GAATCACTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.43, C:0.21, G:0.09, T:0.28
Consensus pattern (18 bp):
AATTAACTGAATTAACCG
Found at i:6053054 original size:27 final size:27
Alignment explanation
Indices: 6053021--6053078 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
6053011 TTTGGTTAAA
* * *
6053021 AATTAACTGAATTACCCGAATTAACTG
1 AATTAACCGAATTACCCAAATTAACCG
6053048 AATTAACCGAATTACCCAAATTAACCG
1 AATTAACCGAATTACCCAAATTAACCG
6053075 AATT
1 AATT
6053079 GAATCACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.43, C:0.21, G:0.09, T:0.28
Consensus pattern (27 bp):
AATTAACCGAATTACCCAAATTAACCG
Found at i:6056571 original size:20 final size:20
Alignment explanation
Indices: 6056546--6056586 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
6056536 GTTATAACTT
6056546 TTTTTTTATTTACCAAAATA
1 TTTTTTTATTTACCAAAATA
6056566 TTTTTTTATTTACCAAAATA
1 TTTTTTTATTTACCAAAATA
6056586 T
1 T
6056587 ATCAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.56
Consensus pattern (20 bp):
TTTTTTTATTTACCAAAATA
Found at i:6056674 original size:27 final size:27
Alignment explanation
Indices: 6056644--6056714 Score: 92
Period size: 27 Copynumber: 2.6 Consensus size: 27
6056634 TGGTCACGCT
* *
6056644 AATGGCATTGGCGTCACCGATGGTGCC
1 AATGCCATTGGCGGCACCGATGGTGCC
6056671 AATGCCATTGGCGGCACCGATGGTGCC
1 AATGCCATTGGCGGCACCGATGGTGCC
6056698 ATATTG--ATTGGCGGCAC
1 A-A-TGCCATTGGCGGCAC
6056715 TATTTGTATT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
27 37 0.93
28 1 0.03
29 2 0.05
ACGTcount: A:0.20, C:0.25, G:0.32, T:0.23
Consensus pattern (27 bp):
AATGCCATTGGCGGCACCGATGGTGCC
Found at i:6057755 original size:18 final size:18
Alignment explanation
Indices: 6057712--6057756 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
6057702 TTGACATGGT
*
6057712 TGGTGGTGAAGAAAAAGG
1 TGGTGGCGAAGAAAAAGG
** *
6057730 TGCCGGCGAAGAAGAAGG
1 TGGTGGCGAAGAAAAAGG
6057748 TGGTGGCGA
1 TGGTGGCGA
6057757 TCATTGGGAT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.31, C:0.09, G:0.47, T:0.13
Consensus pattern (18 bp):
TGGTGGCGAAGAAAAAGG
Found at i:6059901 original size:22 final size:22
Alignment explanation
Indices: 6059874--6059944 Score: 74
Period size: 22 Copynumber: 3.2 Consensus size: 22
6059864 CCTTCCTTCC
6059874 CTCTTCTTCTTCCTTTTTTTTT
1 CTCTTCTTCTTCCTTTTTTTTT
* *
6059896 CTCTTCTCCTTTCC-TTTTCTTT
1 CTCTTCTTC-TTCCTTTTTTTTT
* *
6059918 C-CTTCTTTCTTTCTTTTTTCTT
1 CTCTTC-TTCTTCCTTTTTTTTT
6059940 CTCTT
1 CTCTT
6059945 TTCCTTTTCT
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
21 7 0.18
22 25 0.64
23 7 0.18
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (22 bp):
CTCTTCTTCTTCCTTTTTTTTT
Found at i:6059910 original size:40 final size:37
Alignment explanation
Indices: 6059874--6060030 Score: 135
Period size: 38 Copynumber: 4.2 Consensus size: 37
6059864 CCTTCCTTCC
6059874 CTCTTCTTCTTCCTTTTTTTTTCTCTTCTCCTTTCCTT
1 CTCTTCTTCTT-CTTTTTTTTTCTCTTCTCCTTTCCTT
* * *
6059912 TTCTTTCCTTCTTTCTTTCTTTTT-TCTTCTCTTTTCCTT
1 CTC-TT-CTTC-TTCTTTTTTTTTCTCTTCTCCTTTCCTT
* *
6059951 TTCTTCTTCTTC--TTTCTTTCTCTTCTCCTTTCCTT
1 CTCTTCTTCTTCTTTTTTTTTCTCTTCTCCTTTCCTT
* * * * *
6059986 TTCTT-TCCTTCTTTTTCTTTCTTTCCTCTCCTTTCTTT
1 CTCTTCTTCTTCTTTTT-TTT-TCTCTTCTCCTTTCCTT
6060024 CT-TTCTT
1 CTCTTCTT
6060031 TCTTTCCCTC
Statistics
Matches: 97, Mismatches: 13, Indels: 18
0.76 0.10 0.14
Matches are distributed among these distances:
34 10 0.10
35 19 0.20
36 6 0.06
37 8 0.08
38 20 0.21
39 19 0.20
40 13 0.13
41 2 0.02
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (37 bp):
CTCTTCTTCTTCTTTTTTTTTCTCTTCTCCTTTCCTT
Found at i:6059927 original size:4 final size:4
Alignment explanation
Indices: 6059911--6060036 Score: 86
Period size: 4 Copynumber: 31.0 Consensus size: 4
6059901 CTCCTTTCCT
*
6059911 TTTC TTTC CTTC TTTC TTTC TTT- TTTC TTCTC TTTTCC TTT- TCTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT-TC -TTT-C TTTC T-TTC
* *
6059957 -TTC -TTC TTTC TTTC TCTTC -TCC TTTCC TTTTC TTTC CTTC -TT- TTTC
1 TTTC TTTC TTTC TTTC T-TTC TTTC TTT-C -TTTC TTTC TTTC TTTC TTTC
*
6060003 TTTC TTTCC TCTCC TTTC TTTC TTTC TTTC TTTC
1 TTTC TTT-C T-TTC TTTC TTTC TTTC TTTC TTTC
6060037 CCTCTCCTTC
Statistics
Matches: 100, Mismatches: 7, Indels: 30
0.73 0.05 0.22
Matches are distributed among these distances:
3 16 0.16
4 62 0.62
5 15 0.15
6 7 0.07
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (4 bp):
TTTC
Found at i:6059928 original size:44 final size:44
Alignment explanation
Indices: 6059876--6059971 Score: 124
Period size: 44 Copynumber: 2.2 Consensus size: 44
6059866 TTCCTTCCCT
*
6059876 CTTC-TTCTTCCTTTTTTTTTCTCTTCTCCTTTCCTT-TTCTTTC
1 CTTCTTTCTTCCTTTTTTCTTCTCTTCTCCTTTCCTTCTTC-TTC
* * *
6059919 CTTCTTTCTTTCTTTTTTCTTCTCTTTTCCTTTTCTTCTTCTTC
1 CTTCTTTCTTCCTTTTTTCTTCTCTTCTCCTTTCCTTCTTCTTC
*
6059963 TTTCTTTCT
1 CTTCTTTCT
6059972 CTTCTCCTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
43 4 0.09
44 39 0.85
45 3 0.07
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (44 bp):
CTTCTTTCTTCCTTTTTTCTTCTCTTCTCCTTTCCTTCTTCTTC
Found at i:6059971 original size:74 final size:72
Alignment explanation
Indices: 6059851--6060009 Score: 223
Period size: 74 Copynumber: 2.2 Consensus size: 72
6059841 AATAAAATTA
*
6059851 CTTTCTTT-TTTTTCCTTCCTTCCCTCTTCTTCTTCCTTTTTTTTTCTCTTCTCCTTTCCTTTTC
1 CTTTCTTTCTTTTTCCTTCCTTCCCTCTTCTTCTTCCTTTTTCTTTCTCTTCTCCTTTCCTTTTC
6059915 TTTCCTT
66 TTTCCTT
* * *
6059922 CTTTCTTTCTTTTTTCTTCTCTTTTCCTTTTCTTCTT-CTTCTTTCTTTCTCTTCTCCTTTCCTT
1 CTTTCTTTCTTTTTCCTTC-C-TTCCCTCTTCTTCTTCCTT-TTTCTTTCTCTTCTCCTTTCCTT
6059986 TTCTTTCCTT
63 TTCTTTCCTT
6059996 CTTTTTCTTTCTTT
1 C--TTTCTTTCTTT
6060010 CCTCTCCTTT
Statistics
Matches: 78, Mismatches: 4, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
71 8 0.10
72 9 0.12
73 4 0.05
74 46 0.59
76 11 0.14
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (72 bp):
CTTTCTTTCTTTTTCCTTCCTTCCCTCTTCTTCTTCCTTTTTCTTTCTCTTCTCCTTTCCTTTTC
TTTCCTT
Found at i:6059976 original size:22 final size:22
Alignment explanation
Indices: 6059876--6060034 Score: 70
Period size: 22 Copynumber: 7.3 Consensus size: 22
6059866 TTCCTTCCCT
*
6059876 CTTCTTCTTCCTT-TTTTTTTCT
1 CTTCTTCTT-CTTCTTTCTTTCT
* *
6059898 CTTCTCCTT-TCCTTTTCTTTC-
1 CTTCTTCTTCTTC-TTTCTTTCT
*
6059919 CTTCTTTCTTTCTTTTTTCTTCTCT
1 CTTC-TTC-TTCTTCTTTCTT-TCT
*
6059944 TTTCCTT-TTCTTCTTCTTCTTTCT
1 CTT-CTTCTTCTTC-T-TTCTTTCT
*
6059968 -TTC-TCTTCTCCTTTCCTTT-T
1 CTTCTTCTTCTTCTTT-CTTTCT
*
6059988 CTT-TCCTTCTT-TTTCTTTCT
1 CTTCTTCTTCTTCTTTCTTTCT
* *
6060008 -TTCCTCTCCTTTCTTTCTTTCT
1 CTTCTTCTTC-TTCTTTCTTTCT
6060030 -TTCTT
1 CTTCTT
6060035 TCCCTCTCCT
Statistics
Matches: 104, Mismatches: 15, Indels: 36
0.67 0.10 0.23
Matches are distributed among these distances:
19 6 0.06
20 11 0.11
21 19 0.18
22 36 0.35
23 15 0.14
24 7 0.07
25 9 0.09
26 1 0.01
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (22 bp):
CTTCTTCTTCTTCTTTCTTTCT
Found at i:6060031 original size:40 final size:42
Alignment explanation
Indices: 6059904--6060032 Score: 126
Period size: 40 Copynumber: 3.1 Consensus size: 42
6059894 TTCTCTTCTC
* **
6059904 CTTTCCTT-TTCTTTCCTTCTTTCT-TTCTTTTTTCTTCTCTTTT
1 CTTTCCTTCTTC-TTCTTTCTTTCTCTTCTCCTTTCTT-TC-TTT
* *
6059947 CCTTTTCTTCTTCTTCTTTCTTTCTCTTCTCCTTTC-CT-TTT
1 -CTTTCCTTCTTCTTCTTTCTTTCTCTTCTCCTTTCTTTCTTT
*
6059988 CTTTCCTTCTTTTTCTTTCTTTC-C-TCTCCTTTCTTTCTTT
1 CTTTCCTTCTTCTTCTTTCTTTCTCTTCTCCTTTCTTTCTTT
6060028 CTTTC
1 CTTTC
6060033 TTTCCCTCTC
Statistics
Matches: 73, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
38 9 0.12
39 2 0.03
40 29 0.40
41 3 0.04
43 1 0.01
44 18 0.25
45 11 0.15
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (42 bp):
CTTTCCTTCTTCTTCTTTCTTTCTCTTCTCCTTTCTTTCTTT
Done.