Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
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: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 87 of 206
Found at i:25041523 original size:101 final size:101
Alignment explanation
Indices: 25041339--25041523 Score: 291
Period size: 101 Copynumber: 1.8 Consensus size: 101
25041329 ATCCGGTTCA
* * *
25041339 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGTGACCA-TATCATCCGACACACGTAGTAGCCTGCA
25041404 CATAGTACTACACACGTGATCGAAGCTATCCAGTACG
65 CATAGTACTACACACGTGATCGAAGCTATCCAGTACG
* * *
25041441 CATAGTAGCCTACACATAGTACTACACATGTGGCC-TATCATTCTGGCACACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGTGACCATATCA-TCCGACACACGTAGTAGCCTGCA
25041505 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
25041524 CCTAGCAACT
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
100 4 0.05
101 39 0.51
102 33 0.43
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (101 bp):
CATAGTAGCCTACACATAGTACTACACATGTGACCATATCATCCGACACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAGCTATCCAGTACG
Found at i:25045382 original size:84 final size:84
Alignment explanation
Indices: 25045277--25045514 Score: 467
Period size: 84 Copynumber: 2.8 Consensus size: 84
25045267 CAAAGGATCT
*
25045277 CGGTGGACTCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
25045342 CCTTTCACAATCAAGGATA
66 CCTTTCACAATCAAGGATA
25045361 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
25045426 CCTTTCACAATCAAGGATA
66 CCTTTCACAATCAAGGATA
25045445 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
25045510 CCTTT
66 CCTTT
25045515 TTGATCAATG
Statistics
Matches: 153, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 153 1.00
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (84 bp):
CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
CCTTTCACAATCAAGGATA
Found at i:25045422 original size:41 final size:41
Alignment explanation
Indices: 25045285--25045555 Score: 334
Period size: 41 Copynumber: 6.5 Consensus size: 41
25045275 CTCGGTGGAC
*
25045285 TCAGCACTTAGCAACCACC-TTATAATCAATGATACGGGGAA
1 TCAGCACATAGCAACC-CCTTTATAATCAATGATACGGGGAA
* *
25045326 TCAGCACATAGCAACCCCTTTCACAATCAAGGATACGGTGGAA
1 TCAGCACATAGCAACCCCTTT-ATAATCAATGATACGG-GGAA
*
25045369 TCAGCACTTAGCAACCACC-TTATAATCAATGATACGGGGAA
1 TCAGCACATAGCAACC-CCTTTATAATCAATGATACGGGGAA
* *
25045410 TCAGCACATAGCAACCCCTTTCACAATCAAGGATACGGTGGAA
1 TCAGCACATAGCAACCCCTTT-ATAATCAATGATACGG-GGAA
*
25045453 TCAGCACTTAGCAACCACC-TTATAATCAATGATACGGGGAA
1 TCAGCACATAGCAACC-CCTTTATAATCAATGATACGGGGAA
* * **
25045494 TCAGCACATAGCAACCCCTTTTTGATCAATGATTTGGGGAA
1 TCAGCACATAGCAACCCCTTTATAATCAATGATACGGGGAA
* *
25045535 TCTGCACCTAGCAA-CCCTTTA
1 TCAGCACATAGCAACCCCTTTA
25045556 CAGTCAAAGA
Statistics
Matches: 201, Mismatches: 20, Indels: 19
0.84 0.08 0.08
Matches are distributed among these distances:
40 12 0.06
41 87 0.43
42 56 0.28
43 42 0.21
44 4 0.02
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (41 bp):
TCAGCACATAGCAACCCCTTTATAATCAATGATACGGGGAA
Found at i:25049473 original size:18 final size:18
Alignment explanation
Indices: 25049432--25049466 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
25049422 GAAGCATACC
*
25049432 AAAAGAAAATGAAAATTA
1 AAAAAAAAATGAAAATTA
*
25049450 AAAAAAAAATTAAAATT
1 AAAAAAAAATGAAAATT
25049467 TTAAAAACAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (18 bp):
AAAAAAAAATGAAAATTA
Found at i:25060329 original size:3 final size:3
Alignment explanation
Indices: 25060321--25060354 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
25060311 TTTACTTCAA
25060321 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
25060355 CTTGTGTTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:25063892 original size:228 final size:226
Alignment explanation
Indices: 25063497--25063943 Score: 718
Period size: 228 Copynumber: 2.0 Consensus size: 226
25063487 ATCGGGTCGA
25063497 TATGGGTGTTACAAAACAACACAATAAAATCAAGTTACAAGAAAGTGAAAATAGATTGCAACGAA
1 TATGGGTGTTACAAAACAACACAATAAAATCAAGTTACAAGAAAGTGAAAATAGATTGCAACGAA
* * ***
25063562 GAAACTCCCCCTTATCTCTAGTAGTTCCCCTTATTTTCATAGGTTGTGGTGTTATAGTATGCCTC
66 GAAACTCCCCCTTAGCTCTAGTAGTTCCCCTTATTTTCATAGGGTGCAATGTTATAGTATGCCTC
* * * *
25063627 ATAATGCCCTAAATTTGGGCTTCGAAGAAATAGGCCTTAAGCGTAGGAACACATAAAAGTTTATG
131 ATAACGCCCCAAATTTGGGCTTAGAAGAAATAGGCCTTAAGCGTAAGAACACATAAAAGTTTATG
25063692 TGTGCAAGGAAATAACACAATTGATTGTTGG
196 TGTGCAAGGAAATAACACAATTGATTGTTGG
*
25063723 TATGGGTGTTACAAAACAACACAATAAAATC-AGATTACAAGAGAGTGAAAATAGATTGCAACGA
1 TATGGGTGTTACAAAACAACACAATAAAATCAAG-TTACAAGAAAGTGAAAATAGATTGCAACGA
*
25063787 AGAAACTCCTCCCCTTAGCTCTAGTAGTTCCCCTTATTTTCATGGGGTGCAATGTTATAGTATGC
65 AGAAACT-C-CCCCTTAGCTCTAGTAGTTCCCCTTATTTTCATAGGGTGCAATGTTATAGTATGC
* * *
25063852 C-CTATAACGCCCCGAATTTGGGCTTAGAAGAAATAGGCCTTGAGCGTAAGAAGACATAAAAGTT
128 CTC-ATAACGCCCCAAATTTGGGCTTAGAAGAAATAGGCCTTAAGCGTAAGAACACATAAAAGTT
25063916 TATGTGTGCAAGGAAATAACACAATTGA
192 TATGTGTGCAAGGAAATAACACAATTGA
25063944 CTGTCTGCTT
Statistics
Matches: 203, Mismatches: 14, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
225 2 0.01
226 67 0.33
227 2 0.01
228 132 0.65
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (226 bp):
TATGGGTGTTACAAAACAACACAATAAAATCAAGTTACAAGAAAGTGAAAATAGATTGCAACGAA
GAAACTCCCCCTTAGCTCTAGTAGTTCCCCTTATTTTCATAGGGTGCAATGTTATAGTATGCCTC
ATAACGCCCCAAATTTGGGCTTAGAAGAAATAGGCCTTAAGCGTAAGAACACATAAAAGTTTATG
TGTGCAAGGAAATAACACAATTGATTGTTGG
Found at i:25066956 original size:50 final size:50
Alignment explanation
Indices: 25066881--25066986 Score: 194
Period size: 50 Copynumber: 2.1 Consensus size: 50
25066871 GGGGAGTGAG
*
25066881 TTTTGGAGATTTTCAAGAAATTTGAAGCGTGAGGGGAGTTGTAGTCGAAT
1 TTTTGGAGATTTCCAAGAAATTTGAAGCGTGAGGGGAGTTGTAGTCGAAT
*
25066931 TTTTGGAGATTTCCAAGAAATTTGAAGTGTGAGGGGAGTTGTAGTCGAAT
1 TTTTGGAGATTTCCAAGAAATTTGAAGCGTGAGGGGAGTTGTAGTCGAAT
25066981 TTTTGG
1 TTTTGG
25066987 TTGTTCCTTA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.26, C:0.06, G:0.32, T:0.36
Consensus pattern (50 bp):
TTTTGGAGATTTCCAAGAAATTTGAAGCGTGAGGGGAGTTGTAGTCGAAT
Found at i:25067522 original size:326 final size:316
Alignment explanation
Indices: 25066929--25067625 Score: 1232
Period size: 326 Copynumber: 2.2 Consensus size: 316
25066919 TTGTAGTCGA
* *
25066929 ATTTTTGGAGATTTCCAAGAAATTTGAAGTGTGAGGGGAGTTGTAGTCGAATTTTTGGTTGTTCC
1 ATTTTTGGAGATTTTCAAGAAATTTGAAGTGTGAGGGGAGTTGTAGTCGAATTTGTGGTTGTTCC
25066994 TTAAATAAACCTGGATATTGGCGTGAAGGCTTCATAAAATATTGAGGATAAGGTATGACATAAAG
66 TTAAATAAACCTGGATATTGGCGTGAAGGCTTCATAAAATATTGAGGATAAGGTATGACATAAAG
*
25067059 AGCCTATTGGCTTGATGGTAAGTGTTGTGATAAAGCATCAAAGGGGATGGTGTTCGAGTCATGCT
131 AGCCTATTGGCTTGATGGTAAGTGGTGTGATAAAGCATCAAAGGGGATGGTGTTCGAGTCATGCT
* *
25067124 TGGAGCAAAGAAATTTTTAATTTGCTAACATGGTACGGCAAGTGTTGGAAGTAGATTCGAACTCT
196 TGGAGCAAAGAAATTTTTAATTTGCTAACATGGTACGACAACTGTTGGAAGTAGATTCGAACTCT
25067189 ATTGAGTGAAAGTTTGAACTGGTCATGGAGTTGTTATGGAGGATATCAAGGATCGAAAGGGGAGT
261 ATTGAGTGAAAGTTTGAACTGGTCATGGAGTTGTTAT---GG------AGGATCGAAAGGGGAGT
25067254 GATTTTTGGAGATTTTCAAGAAATTTGAAGTGTGAGGGGAGTTGTAGTCGAATTTGTGGTTGTTC
1 -ATTTTTGGAGATTTTCAAGAAATTTGAAGTGTGAGGGGAGTTGTAGTCGAATTTGTGGTTGTTC
25067319 CTTAAATAAACCTGGATATTGGCGTGAAGGCTTCATAAAATATTGAGGATAAGGTATGACATAAA
65 CTTAAATAAACCTGGATATTGGCGTGAAGGCTTCATAAAATATTGAGGATAAGGTATGACATAAA
25067384 GAGCCTATTGGCTTGATGGTAAGTGGTGTGATAAAGCATCAAAGGGGATGGTGTTCGAGTCATGC
130 GAGCCTATTGGCTTGATGGTAAGTGGTGTGATAAAGCATCAAAGGGGATGGTGTTCGAGTCATGC
*
25067449 TTGTAGCAAAGAAATTTTTAATTTGCTAACATGGTACGACAACTGTTGGAAGTAGATTCGAACTC
195 TTGGAGCAAAGAAATTTTTAATTTGCTAACATGGTACGACAACTGTTGGAAGTAGATTCGAACTC
25067514 TATTGAGTGAAAGTTTGAACTGGTCATGGAGTTGTTATGGAGGATCGAAAGGGGAGT
260 TATTGAGTGAAAGTTTGAACTGGTCATGGAGTTGTTATGGAGGATCGAAAGGGGAGT
* *
25067571 ATTTTTCGAGATTTTCAAGAAATTTGAAGTGTGAGGGGACTTGTAGTCGAATTTG
1 ATTTTTGGAGATTTTCAAGAAATTTGAAGTGTGAGGGGAGTTGTAGTCGAATTTG
25067626 GTATCTTGAG
Statistics
Matches: 363, Mismatches: 8, Indels: 10
0.95 0.02 0.03
Matches are distributed among these distances:
316 53 0.15
317 17 0.05
323 2 0.01
326 291 0.80
ACGTcount: A:0.30, C:0.09, G:0.29, T:0.32
Consensus pattern (316 bp):
ATTTTTGGAGATTTTCAAGAAATTTGAAGTGTGAGGGGAGTTGTAGTCGAATTTGTGGTTGTTCC
TTAAATAAACCTGGATATTGGCGTGAAGGCTTCATAAAATATTGAGGATAAGGTATGACATAAAG
AGCCTATTGGCTTGATGGTAAGTGGTGTGATAAAGCATCAAAGGGGATGGTGTTCGAGTCATGCT
TGGAGCAAAGAAATTTTTAATTTGCTAACATGGTACGACAACTGTTGGAAGTAGATTCGAACTCT
ATTGAGTGAAAGTTTGAACTGGTCATGGAGTTGTTATGGAGGATCGAAAGGGGAGT
Found at i:25068638 original size:15 final size:15
Alignment explanation
Indices: 25068618--25068652 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
25068608 CCATGATTGT
25068618 ATGACTATAA-TTTGA
1 ATGACT-TAACTTTGA
25068633 ATGACTTAACTTTGA
1 ATGACTTAACTTTGA
25068648 ATGAC
1 ATGAC
25068653 CTATCAGAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 3 0.16
15 16 0.84
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.37
Consensus pattern (15 bp):
ATGACTTAACTTTGA
Found at i:25082844 original size:10 final size:9
Alignment explanation
Indices: 25082828--25082872 Score: 56
Period size: 10 Copynumber: 4.9 Consensus size: 9
25082818 TATTTAAATC
25082828 GAAAGAAAA
1 GAAAGAAAA
25082837 GAAAAGAAAA
1 G-AAAGAAAA
25082847 GAAA-AAAA
1 GAAAGAAAA
*
25082855 TAAGAGAAAA
1 GAA-AGAAAA
25082865 GAAAGAAA
1 GAAAGAAA
25082873 TAATAGATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
8 6 0.19
9 10 0.32
10 15 0.48
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (9 bp):
GAAAGAAAA
Found at i:25082884 original size:18 final size:18
Alignment explanation
Indices: 25082841--25082875 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
25082831 AGAAAAGAAA
25082841 AGAAAAGAAAAAAATAAG
1 AGAAAAGAAAAAAATAAG
*
25082859 AGAAAAGAAAGAAATAA
1 AGAAAAGAAAAAAATAA
25082876 TAGATAAGAG
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:0.77, C:0.00, G:0.17, T:0.06
Consensus pattern (18 bp):
AGAAAAGAAAAAAATAAG
Found at i:25084131 original size:41 final size:41
Alignment explanation
Indices: 25084070--25084347 Score: 279
Period size: 41 Copynumber: 6.5 Consensus size: 41
25084060 TTTTGACCTT
* * *
25084070 TCGGGGCTTTAGCGACGTTTTTTCAAAAAG-GCCGCTAATGC
1 TCGGGTCTTTAGCGGCG-TTTTTGAAAAAGAGCCGCTAATGC
* * ** *
25084111 TCGGGTCTTTCGCGGTGTTTTTGAAAAATCGCAGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTGAAAAAGAGCCGCTAATGC
*
25084152 TCGGGTCTTCTTAGGTCTTTAGCAGCGTTTTTGAAAAAGATCCGCTAATGC
1 TCGGGTC-T-TTA-G-C----G--GCGTTTTTGAAAAAGAGCCGCTAATGC
* *
25084203 TCGGGTCTTTAGCGGTGTTTTTGAAAAAGAGCCGCTAATTC
1 TCGGGTCTTTAGCGGCGTTTTTGAAAAAGAGCCGCTAATGC
* * *
25084244 TCGGGTCTTTAGCAGCGATTTTGAAAAAGCGCCGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTGAAAAAGAGCCGCTAATGC
* * * *
25084285 TCAGGTCTTTAGCGGCGTTTTTGAAAAGGCGCGGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTGAAAAAGAGCCGCTAATGC
*
25084326 TCGTGTCTTTAGCGGCGTTTTT
1 TCGGGTCTTTAGCGGCGTTTTT
25084348 ATAAAAAACG
Statistics
Matches: 198, Mismatches: 28, Indels: 22
0.80 0.11 0.09
Matches are distributed among these distances:
40 10 0.05
41 146 0.74
42 1 0.01
43 3 0.02
44 1 0.01
45 1 0.01
47 1 0.01
48 1 0.01
49 4 0.02
50 1 0.01
51 29 0.15
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (41 bp):
TCGGGTCTTTAGCGGCGTTTTTGAAAAAGAGCCGCTAATGC
Found at i:25087282 original size:23 final size:23
Alignment explanation
Indices: 25087233--25087982 Score: 529
Period size: 23 Copynumber: 32.8 Consensus size: 23
25087223 GTGGATTTGT
* * *
25087233 AAATTTAAGTGTTTCAA-TGTTGT
1 AAATTGAAGTGTTT-AAGTGCTGC
*
25087256 AAATTTAAGTGTTTAAGTGCTGC
1 AAATTGAAGTGTTTAAGTGCTGC
* *
25087279 AAATTGAAGTATTT-AGTTGCTGG
1 AAATTGAAGTGTTTAAG-TGCTGC
*
25087302 AAATTG-AGATGTTTTA-TCGCTG-
1 AAATTGAAG-TGTTTAAGT-GCTGC
* * * * * *
25087324 TAATTGAGGTGTATAAATGTTGT
1 AAATTGAAGTGTTTAAGTGCTGC
*
25087347 TAATTGATA-TGTTTAAGTGCTGC
1 AAATTGA-AGTGTTTAAGTGCTGC
* *
25087370 AAATTTAAGTGCTTAAGTGCTGC
1 AAATTGAAGTGTTTAAGTGCTGC
25087393 AAATTGAAGTGTTTAAGTGCTGC
1 AAATTGAAGTGTTTAAGTGCTGC
*
25087416 AAATTGAAGTGTTT-AGTTGCTGG
1 AAATTGAAGTGTTTAAG-TGCTGC
25087439 AAATTG-AGATGCTTT-A-TCGCTG-
1 AAATTGAAG-TG-TTTAAGT-GCTGC
* * * * * *
25087461 TAATTGAGGTGTATAAATGTTGT
1 AAATTGAAGTGTTTAAGTGCTGC
* *
25087484 TAATTGATA-TGTTTAAGTGATGC
1 AAATTGA-AGTGTTTAAGTGCTGC
* * * *
25087507 AAATTTAAGTTTTTAAATGCTGT
1 AAATTGAAGTGTTTAAGTGCTGC
25087530 AAATTGAAGTGTTTAAGTGCTGC
1 AAATTGAAGTGTTTAAGTGCTGC
25087553 AAATTGAAGTGTTTAAGTGCTGC
1 AAATTGAAGTGTTTAAGTGCTGC
* *
25087576 AAATTGAAGTGTTTAAGTGTTGG
1 AAATTGAAGTGTTTAAGTGCTGC
* *
25087599 AAATTG-AGATGTTTTATTGCTG-
1 AAATTGAAG-TGTTTAAGTGCTGC
* * * * * *
25087621 TAATTGAGGTGTATAAATGTTGT
1 AAATTGAAGTGTTTAAGTGCTGC
* *
25087644 TAATTGATA-TGTTTAACTGCTGC
1 AAATTGA-AGTGTTTAAGTGCTGC
* * * **
25087667 AAATTTAAGTTTTTAAATGCTAT
1 AAATTGAAGTGTTTAAGTGCTGC
25087690 AAATTGAAGTGTTTAAGTGCTGC
1 AAATTGAAGTGTTTAAGTGCTGC
25087713 AAATTGAAGTGTTTAAGTGCTGC
1 AAATTGAAGTGTTTAAGTGCTGC
*
25087736 AAATTG-AGATGTTTTA-TCGCTG-
1 AAATTGAAG-TGTTTAAGT-GCTGC
* * * * * *
25087758 TAATTGAGGTGTATAAATGTTGT
1 AAATTGAAGTGTTTAAGTGCTGC
* *
25087781 TAATTGATA-TGTTTAAGTGTTGC
1 AAATTGA-AGTGTTTAAGTGCTGC
* * *
25087804 AAATTTAAGTGTTTAAATGCTGT
1 AAATTGAAGTGTTTAAGTGCTGC
25087827 AAATTGAAGTGTTTAAGTGCTGC
1 AAATTGAAGTGTTTAAGTGCTGC
*
25087850 AAATTGAAGTGTTTAAGTGCTAC
1 AAATTGAAGTGTTTAAGTGCTGC
* *
25087873 AAAGTG-AGATGTTTTA-TCGCTG-
1 AAATTGAAG-TGTTTAAGT-GCTGC
* * * * * *
25087895 TAATTGATGTGTATAAATGTTGT
1 AAATTGAAGTGTTTAAGTGCTGC
* *
25087918 TAATTGATA-TGTTAAAGTGCTGC
1 AAATTGA-AGTGTTTAAGTGCTGC
* *
25087941 AAATTGAAGTGTTTAAATGCTGT
1 AAATTGAAGTGTTTAAGTGCTGC
*
25087964 AAATTGAAGTGTTAAAGTG
1 AAATTGAAGTGTTTAAGTG
25087983 TTACTTTCCA
Statistics
Matches: 580, Mismatches: 108, Indels: 78
0.76 0.14 0.10
Matches are distributed among these distances:
21 2 0.00
22 88 0.15
23 485 0.84
24 5 0.01
ACGTcount: A:0.31, C:0.06, G:0.23, T:0.40
Consensus pattern (23 bp):
AAATTGAAGTGTTTAAGTGCTGC
Found at i:25087548 original size:160 final size:160
Alignment explanation
Indices: 25087358--25087742 Score: 664
Period size: 160 Copynumber: 2.4 Consensus size: 160
25087348 AATTGATATG
* * * *
25087358 TTTAAGTGCTGCAAATTTAAGTGCTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGA
1 TTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGA
25087423 AGTGTTT-AGTTGCTGGAAATTGAGATGCTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAA
66 AGTGTTTAAG-TGCTGGAAATTGAGATGCTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAA
*
25087487 TTGATATGTTTAAGTGATGCAAATTTAAGTT
130 TTGATATGTTTAACTGATGCAAATTTAAGTT
25087518 TTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGA
1 TTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGA
* * *
25087583 AGTGTTTAAGTGTTGGAAATTGAGATGTTTTATTGCTGTAATTGAGGTGTATAAATGTTGTTAAT
66 AGTGTTTAAGTGCTGGAAATTGAGATGCTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAAT
*
25087648 TGATATGTTTAACTGCTGCAAATTTAAGTT
131 TGATATGTTTAACTGATGCAAATTTAAGTT
*
25087678 TTTAAATGCTATAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGA
1 TTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGA
25087743 GATGTTTTAT
Statistics
Matches: 214, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
160 212 0.99
161 2 0.01
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.40
Consensus pattern (160 bp):
TTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGA
AGTGTTTAAGTGCTGGAAATTGAGATGCTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAAT
TGATATGTTTAACTGATGCAAATTTAAGTT
Found at i:25087625 original size:137 final size:135
Alignment explanation
Indices: 25087229--25087982 Score: 732
Period size: 137 Copynumber: 5.5 Consensus size: 135
25087219 AATGGTGGAT
* * * * * *
25087229 TTGTAAATTTAAGTGTTTCAATGTTGTAAATTTAAGTGTTTAAGTGCTGCAAATTGAAGTATTT-
1 TTGTAAATTTAA-TGTTTAAATGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTA
* * * * * * * * *
25087293 AGTTGCTGGAAATTG-AGATGTTTTA-TCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATA
65 AG-TGCTGCAAATTGAAG-TGTTTAAGT-GCTGAAATTGAGATGTTTTATTGCTG-TAATTGATG
* *
25087356 TGTTTAAGTG
126 TGTATAAATG
* * * * *
25087366 CTGCAAATTTAAGTGCTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTT-
1 TTGTAAATTTAA-TGTTTAAATGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTA
* * * * * * *
25087430 AGTTGCTGGAAATTG-AGATGCTTT-A-TCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGAT
65 AG-TGCTGCAAATTGAAG-TG-TTTAAGT-GCTGAAATTGAGATGTTTTATTGCTG-TAATTGAT
* * *
25087492 ATGTTTAAGTG
125 GTGTATAAATG
* * * * *
25087503 ATGCAAATTTAAGTTTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTA
1 TTGTAAATTTAA-TGTTTAAATGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTA
* *
25087568 AGTGCTGCAAATTGAAGTGTTTAAGTGTTGGAAATTGAGATGTTTTATTGCTGTAATTGAGGTGT
65 AGTGCTGCAAATTGAAGTGTTTAAGTGCT-GAAATTGAGATGTTTTATTGCTGTAATTGATGTGT
25087633 ATAAATG
129 ATAAATG
* * * * * **
25087640 TTGTTAATTGATATGTTTAACTGCTGCAAATTTAAGTTTTTAAATGCTATAAATTGAAGTGTTTA
1 TTGTAAATTTA-ATGTTTAAATGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTA
* *
25087705 AGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAGATGTTTTATCGCTGTAATTGAGGTGT
65 AGTGCTGCAAATTGAAGTGTTTAAGTGCTG-AAATTGAGATGTTTTATTGCTGTAATTGATGTGT
25087770 ATAAATG
129 ATAAATG
* * * * * *
25087777 TTGTTAATTGATATGTTTAAGTGTTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTGTTTA
1 TTGTAAATTTA-ATGTTTAAATGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTA
* * *
25087842 AGTGCTGCAAATTGAAGTGTTTAAGTGCTACAAAGTGAGATGTTTTATCGCTGTAATTGATGTGT
65 AGTGCTGCAAATTGAAGTGTTTAAGTGCT-GAAATTGAGATGTTTTATTGCTGTAATTGATGTGT
25087907 ATAAATG
129 ATAAATG
* * * *
25087914 TTGTTAATTGATATG-TTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTA
1 TTGTAAATTTA-ATGTTTAAA-TGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTT
25087978 AAGTG
64 AAGTG
25087983 TTACTTTCCA
Statistics
Matches: 556, Mismatches: 51, Indels: 20
0.89 0.08 0.03
Matches are distributed among these distances:
136 8 0.01
137 522 0.94
138 26 0.05
ACGTcount: A:0.30, C:0.06, G:0.23, T:0.41
Consensus pattern (135 bp):
TTGTAAATTTAATGTTTAAATGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAA
GTGCTGCAAATTGAAGTGTTTAAGTGCTGAAATTGAGATGTTTTATTGCTGTAATTGATGTGTAT
AAATG
Found at i:25087787 original size:160 final size:157
Alignment explanation
Indices: 25087358--25087875 Score: 639
Period size: 160 Copynumber: 3.2 Consensus size: 157
25087348 AATTGATATG
* * * *
25087358 TTTAAGTGCTGCAAATTTAAGTGCTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGA
1 TTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGA
*
25087423 A-GTGTTTAGTTGCTGGAAATTGAGATGCTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAA
66 ATGT-TTTAG-TGCTGGAAATTGAGATG-TTAAT-GCTGTAATTGAGGTGTATAAATGTTGTTAA
* *
25087487 TTGATATGTTTAAGTGATGCAAATTTAAGTT
127 TTGATATGTTTAAATGCTGCAAATTTAAGTT
25087518 TTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGA
1 TTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGA
* * *
25087583 AGTGTTTAAGTGTTGGAAATTGAGATGTTTTATTGCTGTAATTGAGGTGTATAAATGTTGTTAAT
66 A-TGTTTTAGTGCTGGAAATTGAGATG--TTAATGCTGTAATTGAGGTGTATAAATGTTGTTAAT
*
25087648 TGATATGTTTAACTGCTGCAAATTTAAGTT
128 TGATATGTTTAAATGCTGCAAATTTAAGTT
*
25087678 TTTAAATGCTATAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGA
1 TTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGA
* * * ** * * **
25087743 GATGTTTTA-TCGCT-GTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTAAGTGTTGCAA
66 -ATGTTTTAGT-GCTGGAAATTGAGATGT-T-AATGCTG-TAATTGAGGTGTATAAATGTTGTTA
* * * *
25087806 ATTTA-AGTGTTTAAATGCTGTAAATTGAAGTG
126 ATTGATA-TGTTTAAATGCTGCAAATTTAAGTT
* * *
25087838 TTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTACAAA
1 TTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAA
25087876 GTGAGATGTT
Statistics
Matches: 316, Mismatches: 33, Indels: 18
0.86 0.09 0.05
Matches are distributed among these distances:
157 1 0.00
158 1 0.00
159 17 0.05
160 287 0.91
161 8 0.03
162 2 0.01
ACGTcount: A:0.31, C:0.07, G:0.23, T:0.40
Consensus pattern (157 bp):
TTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGA
ATGTTTTAGTGCTGGAAATTGAGATGTTAATGCTGTAATTGAGGTGTATAAATGTTGTTAATTGA
TATGTTTAAATGCTGCAAATTTAAGTT
Found at i:25087976 original size:160 final size:159
Alignment explanation
Indices: 25087325--25087976 Score: 624
Period size: 160 Copynumber: 4.1 Consensus size: 159
25087315 TTATCGCTGT
* * * ** * * *
25087325 AATTGAGGTGTATAAATGTTGTTAATTGATA-TGTTTAAGTGCTGCAAATTTAAGTGCTTAAGTG
1 AATTGAAGTGTTTAAATGCTGCAAATTGA-AGTGTTTAAATGCTGCAAATTGAAGTGTTTAAGTG
**
25087389 CTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAGTTGCTGGAAATTGAGATGCTT-
65 CTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAATGCTGGAAATTGAGATG-TTA
* * *
25087453 TATCGCTGTAATTGAGGTGTATAAATGTTGTT
129 AAT-GCTGTAATTGAAGTGTATAAATGTTGTA
* * * * *
25087485 AATTGATA-TGTTTAAGTGATGCAAATTTAAGTTTTTAAATGCTGTAAATTGAAGTGTTTAAGTG
1 AATTGA-AGTGTTTAAATGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAGTG
* * *
25087549 CTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGTTGGAAATTGAGATGTTTT
65 CTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAATGCTGGAAATTGAGATG-TTA
* * *
25087614 ATTGCTGTAATTGAGGTGTATAAATGTTGTT
129 AATGCTGTAATTGAAGTGTATAAATGTTGTA
* * * **
25087645 AATTGATA-TGTTTAACTGCTGCAAATTTAAGTTTTTAAATGCTATAAATTGAAGTGTTTAAGTG
1 AATTGA-AGTGTTTAAATGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAGTG
* * *
25087709 CTGCAAATTGAAGTGTTTAAGTGCTGCAAATTG-AGATGTTT-TATCGCT-GTAATTGAGGTGTA
65 CTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAG-TGTTTAAAT-GCTGGAAATTGAGATGT-
* * * *
25087771 TAAATGTTGTTAATTGATA-TGTTTAAGTGTTGCA
127 TAAATGCTG-TAATTGA-AGTGTATAAATGTTGTA
* * *
25087805 AATTTAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGC
1 AATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAGTGC
* * * * * * * ** *
25087870 TACAAAGTG-AGATGTTTTA-TCGCTG-TAATTGATGTGTATAAATGTTGTTAATTGATATGTTA
66 TGCAAATTGAAG-TGTTTAAGT-GCTGCAAATTGAAGTGTTTAAATGCTGGAAATTGAGATGTTA
* * *
25087932 AAGTGCTGCAAATTGAAGTGTTTAAATGCTGTA
129 AA-TGCTG-TAATTGAAGTGTATAAATGTTGTA
25087965 AATTGAAGTGTT
1 AATTGAAGTGTT
25087977 AAAGTGTTAC
Statistics
Matches: 416, Mismatches: 60, Indels: 32
0.82 0.12 0.06
Matches are distributed among these distances:
158 1 0.00
159 40 0.10
160 374 0.90
161 1 0.00
ACGTcount: A:0.31, C:0.06, G:0.23, T:0.40
Consensus pattern (159 bp):
AATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAGTGC
TGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAATGCTGGAAATTGAGATGTTAAA
TGCTGTAATTGAAGTGTATAAATGTTGTA
Found at i:25088938 original size:43 final size:43
Alignment explanation
Indices: 25088890--25089068 Score: 209
Period size: 43 Copynumber: 4.2 Consensus size: 43
25088880 TTTTCGTGAC
* * * *
25088890 CTTTAGTGGCATTTTTGG-AGAAAGCGCCGCTAAAGGTCTTGTT
1 CTTTAGCGGCATTTGTGGTA-AAAGCGCCGCTAAAGCTCTTGGT
* ** * *
25088933 CTTTAGCGGCGTTT-TGGGGGAAAGTGCCGCTAAAGCTCTTGTT
1 CTTTAGCGGCATTTGT-GGTAAAAGCGCCGCTAAAGCTCTTGGT
* *
25088976 CTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCTTGGT
1 CTTTAGCGGCATTTGTGGTAAAAGCGCCGCTAAAGCTCTTGGT
* *
25089019 CTTTAGCGGAATTTGTGGTAAAAACGCCGCTAAAGCTCTTGGT
1 CTTTAGCGGCATTTGTGGTAAAAGCGCCGCTAAAGCTCTTGGT
25089062 CTTTAGC
1 CTTTAGC
25089069 TGCTAAAGGT
Statistics
Matches: 119, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
42 1 0.01
43 117 0.98
44 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.32
Consensus pattern (43 bp):
CTTTAGCGGCATTTGTGGTAAAAGCGCCGCTAAAGCTCTTGGT
Found at i:25089048 original size:86 final size:86
Alignment explanation
Indices: 25088910--25089068 Score: 230
Period size: 86 Copynumber: 1.8 Consensus size: 86
25088900 ATTTTTGGAG
* ** * ** *
25088910 AAAGCGCCGCTAAAGGTCTTGTTCTTTAGCGGCGTTTTGGGGGAAAGTGCCGCTAAAGCTCTTGT
1 AAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGAATTTTGGGGAAAAACGCCGCTAAAGCTCTTGG
25088975 TCTTTAGCGGCGTTTGTGGTA
66 TCTTTAGCGGCGTTTGTGGTA
*
25088996 AAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGAA-TTTGTGGTAAAAACGCCGCTAAAGCTCTTG
1 AAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGAATTTTG-GGGAAAAACGCCGCTAAAGCTCTTG
25089060 GTCTTTAGC
65 GTCTTTAGC
25089069 TGCTAAAGGT
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
85 4 0.06
86 60 0.94
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (86 bp):
AAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGAATTTTGGGGAAAAACGCCGCTAAAGCTCTTGG
TCTTTAGCGGCGTTTGTGGTA
Found at i:25089073 original size:23 final size:23
Alignment explanation
Indices: 25089047--25089094 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
25089037 TAAAAACGCC
25089047 GCTAAAGC-TCTTGGTCTTTAGCT
1 GCTAAAGCTTC-TGGTCTTTAGCT
*
25089070 GCTAAAGGTTCTGGTCTTTAGCT
1 GCTAAAGCTTCTGGTCTTTAGCT
25089093 GC
1 GC
25089095 GTTTGTGGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 21 0.91
24 2 0.09
ACGTcount: A:0.17, C:0.21, G:0.25, T:0.38
Consensus pattern (23 bp):
GCTAAAGCTTCTGGTCTTTAGCT
Found at i:25089117 original size:66 final size:66
Alignment explanation
Indices: 25089004--25089134 Score: 176
Period size: 66 Copynumber: 2.0 Consensus size: 66
25088994 TAAAAGCGCC
*
25089004 GCTAAAGGTCTTGGTCTTTAGCGGAATTTGTGGTAAAAACGCCGCTAAA-GCTCTTGGTCTTTAG
1 GCTAAAGGTCTTGGTCTTTAGCGGAATTTGTGGGAAAAACGCCGCTAAATG-TCTTGGTCTTTAG
25089068 CT
65 CT
* ** * *
25089070 GCTAAAGGT-TCTGGTCTTTAGCTGCGTTTGTGGGAAAAGCGCTGCTAAATGTCTTGGTCTTTAG
1 GCTAAAGGTCT-TGGTCTTTAGCGGAATTTGTGGGAAAAACGCCGCTAAATGTCTTGGTCTTTAG
25089134 C
65 C
25089135 AGCGTTTTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
65 1 0.02
66 55 0.96
67 1 0.02
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.34
Consensus pattern (66 bp):
GCTAAAGGTCTTGGTCTTTAGCGGAATTTGTGGGAAAAACGCCGCTAAATGTCTTGGTCTTTAGC
T
Found at i:25100165 original size:23 final size:24
Alignment explanation
Indices: 25100139--25100183 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
25100129 GACCCTTACC
*
25100139 CGCTTACC-GCCTTATTTCTCCTT
1 CGCTCACCTGCCTTATTTCTCCTT
*
25100162 CGCTCACCTTCCTTATTTCTCC
1 CGCTCACCTGCCTTATTTCTCC
25100184 ACATAGGAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.09, C:0.42, G:0.07, T:0.42
Consensus pattern (24 bp):
CGCTCACCTGCCTTATTTCTCCTT
Found at i:25107946 original size:30 final size:30
Alignment explanation
Indices: 25107912--25108043 Score: 97
Period size: 30 Copynumber: 4.4 Consensus size: 30
25107902 CAAAAAATAT
* * * *
25107912 AAATTATATTTTAGCCCCTGAACTTTTCAA
1 AAATTACATTTTAACCCCTAAAATTTTCAA
*
25107942 AAATTACATTTTAACCCCTAAAATTTTCTA
1 AAATTACATTTTAACCCCTAAAATTTTCAA
* * * * * **
25107972 AATTTACATCTTGACCCCTAATATTCT-GT
1 AAATTACATTTTAACCCCTAAAATTTTCAA
** *
25108001 AAATTACATTCGAGA-CCCTAAAATTTCCAA
1 AAATTACATTTTA-ACCCCTAAAATTTTCAA
*
25108031 AAATTGCATTTTA
1 AAATTACATTTTA
25108044 GCCCTGTATT
Statistics
Matches: 75, Mismatches: 25, Indels: 4
0.72 0.24 0.04
Matches are distributed among these distances:
29 17 0.23
30 58 0.77
ACGTcount: A:0.36, C:0.20, G:0.05, T:0.38
Consensus pattern (30 bp):
AAATTACATTTTAACCCCTAAAATTTTCAA
Found at i:25108775 original size:7 final size:7
Alignment explanation
Indices: 25108736--25108784 Score: 52
Period size: 7 Copynumber: 7.4 Consensus size: 7
25108726 GAATGAAGGA
25108736 AAAGAA-
1 AAAGAAG
*
25108742 AAAAAAG
1 AAAGAAG
25108749 AAAGAA-
1 AAAGAAG
25108755 AAA-AAG
1 AAAGAAG
25108761 AATA-AAG
1 AA-AGAAG
25108768 AAAGAAG
1 AAAGAAG
25108775 AAAGAAG
1 AAAGAAG
25108782 AAA
1 AAA
25108785 AGGCGAAGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
5 2 0.05
6 11 0.30
7 24 0.65
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (7 bp):
AAAGAAG
Found at i:25109116 original size:14 final size:14
Alignment explanation
Indices: 25109094--25109136 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
25109084 TCAGCAGGCC
*
25109094 AGAA-AAAAAAAAA
1 AGAAGAAAAAAGAA
25109107 GAGAAGAAAAAAGAA
1 -AGAAGAAAAAAGAA
*
25109122 AAAAGAAAAAAGAA
1 AGAAGAAAAAAGAA
25109136 A
1 A
25109137 AAAAAAGGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 18 0.69
15 8 0.31
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (14 bp):
AGAAGAAAAAAGAA
Found at i:25109120 original size:7 final size:7
Alignment explanation
Indices: 25109110--25109139 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
25109100 AAAAAAAGAG
25109110 AAGAAAA
1 AAGAAAA
25109117 AAGAAAA
1 AAGAAAA
25109124 AAGAAAA
1 AAGAAAA
25109131 AAGAAAA
1 AAGAAAA
25109138 AA
1 AA
25109140 AAAGGGAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (7 bp):
AAGAAAA
Found at i:25109130 original size:24 final size:24
Alignment explanation
Indices: 25109094--25109143 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
25109084 TCAGCAGGCC
* *
25109094 AGAAAAAAAAAAAGAGAAGAAAAA
1 AGAAAAAAAAAAAAAGAAAAAAAA
*
25109118 AGAAAAAAGAAAAAAGAAAAAAAA
1 AGAAAAAAAAAAAAAGAAAAAAAA
25109142 AG
1 AG
25109144 GGAGAAAGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (24 bp):
AGAAAAAAAAAAAAAGAAAAAAAA
Found at i:25109665 original size:19 final size:20
Alignment explanation
Indices: 25109641--25109687 Score: 73
Period size: 18 Copynumber: 2.5 Consensus size: 20
25109631 TAACAAAAAA
25109641 TTCGTG-TTTCAAAAATTTT
1 TTCGTGTTTTCAAAAATTTT
25109660 TTCGTGTTTTCAAAAA--TT
1 TTCGTGTTTTCAAAAATTTT
25109678 TTCGTGTTTT
1 TTCGTGTTTT
25109688 TTCCGTGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 12 0.44
19 6 0.22
20 9 0.33
ACGTcount: A:0.21, C:0.11, G:0.13, T:0.55
Consensus pattern (20 bp):
TTCGTGTTTTCAAAAATTTT
Found at i:25109697 original size:29 final size:28
Alignment explanation
Indices: 25109656--25109718 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 28
25109646 GTTTCAAAAA
25109656 TTTTTTCGTGTTTTCAAAAATTTTCGTG
1 TTTTTTCGTGTTTTCAAAAATTTTCGTG
* ** *
25109684 TTTTTTCCGTGTTTTCACAGTTTTTTGTG
1 TTTTTT-CGTGTTTTCAAAAATTTTCGTG
25109713 TTTTTT
1 TTTTTT
25109719 TTAAAATTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 6 0.20
29 24 0.80
ACGTcount: A:0.11, C:0.11, G:0.14, T:0.63
Consensus pattern (28 bp):
TTTTTTCGTGTTTTCAAAAATTTTCGTG
Found at i:25109755 original size:18 final size:18
Alignment explanation
Indices: 25109732--25109992 Score: 187
Period size: 17 Copynumber: 14.5 Consensus size: 18
25109722 AAATTTCCCG
*
25109732 TTTCAAAAATCCTCGTGT
1 TTTCAAAAATTCTCGTGT
** *
25109750 TTTCAAATGTTTTCGTG-
1 TTTCAAAAATTCTCGTGT
* *
25109767 TTTCAAAAATCCTCATGT
1 TTTCAAAAATTCTCGTGT
*
25109785 TTTCAAAAATTCTCATG-
1 TTTCAAAAATTCTCGTGT
*
25109802 TTTCAAAAA-TCTCTATGT
1 TTTCAAAAATTCTC-GTGT
*
25109820 TTTC-AAAATTCTAGT-T
1 TTTCAAAAATTCTCGTGT
* * *
25109836 TTTCAGAAATTTTCTTGT
1 TTTCAAAAATTCTCGTGT
*
25109854 TTTCAAAAAATTTCCCGTGT
1 TTTC-AAAAA-TTCTCGTGT
*
25109874 TTTCAAAAATTCTCGT-A
1 TTTCAAAAATTCTCGTGT
* *
25109891 TTTCAAAAATTTTCTTGT
1 TTTCAAAAATTCTCGTGT
*
25109909 TTTCAGAAAAAAATTTTCGTGT
1 TTTC----AAAAATTCTCGTGT
* *
25109931 TTT-ATAAATTTTCGTGT
1 TTTCAAAAATTCTCGTGT
* *
25109948 TTTCAAAAAATTCCCGT-C
1 TTTC-AAAAATTCTCGTGT
* *
25109966 TCTCAAAAATTTTCGTGT
1 TTTCAAAAATTCTCGTGT
25109984 TTTCAAAAA
1 TTTCAAAAA
25109993 AATTGATCGT
Statistics
Matches: 191, Mismatches: 36, Indels: 32
0.74 0.14 0.12
Matches are distributed among these distances:
16 9 0.05
17 76 0.40
18 62 0.32
19 18 0.09
20 10 0.05
22 16 0.08
ACGTcount: A:0.31, C:0.16, G:0.09, T:0.45
Consensus pattern (18 bp):
TTTCAAAAATTCTCGTGT
Found at i:25109772 original size:35 final size:35
Alignment explanation
Indices: 25109731--25109910 Score: 136
Period size: 35 Copynumber: 5.1 Consensus size: 35
25109721 AAAATTTCCC
* ** * *
25109731 GTTTCAAAAATCCTCGTGTTTTCAAATGTTTTCGT
1 GTTTCAAAAATCCTCATGTTTTCAAAAATTCTCAT
25109766 GTTTCAAAAATCCTCATGTTTTCAAAAATTCTCAT
1 GTTTCAAAAATCCTCATGTTTTCAAAAATTCTCAT
25109801 GTTTCAAAAAT-CTCTATGTTTTC-AAAATTCT-AGT
1 GTTTCAAAAATCCTC-ATGTTTTCAAAAATTCTCA-T
* * ** * * *
25109835 TTTTCAGAAATTTTCTTGTTTTCAAAAAATTTCCCGT
1 GTTTCAAAAATCCTCATGTTTTC-AAAAA-TTCTCAT
* * *
25109872 GTTTTCAAAAATTCTC--GTATTTCAAAAATTTTCTT
1 G-TTTCAAAAATCCTCATGT-TTTCAAAAATTCTCAT
25109907 GTTT
1 GTTT
25109911 TCAGAAAAAA
Statistics
Matches: 119, Mismatches: 17, Indels: 19
0.77 0.11 0.12
Matches are distributed among these distances:
33 1 0.01
34 31 0.26
35 56 0.47
36 11 0.09
37 8 0.07
38 12 0.10
ACGTcount: A:0.29, C:0.16, G:0.09, T:0.46
Consensus pattern (35 bp):
GTTTCAAAAATCCTCATGTTTTCAAAAATTCTCAT
Found at i:25109785 original size:17 final size:18
Alignment explanation
Indices: 25109732--25109827 Score: 99
Period size: 18 Copynumber: 5.4 Consensus size: 18
25109722 AAATTTCCCG
*
25109732 TTTCAAAAATCCTCGTGT
1 TTTCAAAAATCCTCATGT
** ** *
25109750 TTTCAAATGTTTTCGTG-
1 TTTCAAAAATCCTCATGT
25109767 TTTCAAAAATCCTCATGT
1 TTTCAAAAATCCTCATGT
*
25109785 TTTCAAAAATTCTCATG-
1 TTTCAAAAATCCTCATGT
25109802 TTTCAAAAAT-CTCTATGT
1 TTTCAAAAATCCTC-ATGT
25109820 TTTCAAAA
1 TTTCAAAA
25109828 TTCTAGTTTT
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
16 3 0.05
17 25 0.38
18 37 0.57
ACGTcount: A:0.31, C:0.18, G:0.08, T:0.43
Consensus pattern (18 bp):
TTTCAAAAATCCTCATGT
Found at i:25109828 original size:17 final size:17
Alignment explanation
Indices: 25109767--25109901 Score: 100
Period size: 18 Copynumber: 7.6 Consensus size: 17
25109757 TGTTTTCGTG
*
25109767 TTTCAAAAATCCTCATGT
1 TTTCAAAAATTCT-ATGT
25109785 TTTCAAAAATTCTCATG-
1 TTTCAAAAATTCT-ATGT
25109802 TTTCAAAAATCTCTATGT
1 TTTCAAAAAT-TCTATGT
25109820 TTTC-AAAATTCTA-GTT
1 TTTCAAAAATTCTATG-T
*
25109836 TTTCAGAAATTTTCT-TGT
1 TTTCA-AAA-ATTCTATGT
**
25109854 TTTCAAAAAATTTCCCGTGT
1 TTTC-AAAAA-TT-CTATGT
*
25109874 TTTCAAAAATTCT-CGT
1 TTTCAAAAATTCTATGT
25109890 ATTTCAAAAATT
1 -TTTCAAAAATT
25109902 TTCTTGTTTT
Statistics
Matches: 99, Mismatches: 6, Indels: 25
0.76 0.05 0.19
Matches are distributed among these distances:
15 1 0.01
16 11 0.11
17 30 0.30
18 38 0.38
19 12 0.12
20 7 0.07
ACGTcount: A:0.33, C:0.16, G:0.07, T:0.44
Consensus pattern (17 bp):
TTTCAAAAATTCTATGT
Found at i:25109855 original size:19 final size:19
Alignment explanation
Indices: 25109828--25109911 Score: 75
Period size: 18 Copynumber: 4.5 Consensus size: 19
25109818 GTTTTCAAAA
* *
25109828 TTCTAGTTTTTCAGAAATT
1 TTCTCGTTTTTCAAAAATT
* *
25109847 TTCTTG-TTTTCAAAAAAT
1 TTCTCGTTTTTCAAAAATT
*
25109865 TTCCCGTGTTTTCAAAAA--
1 TTCTCGT-TTTTCAAAAATT
*
25109883 TTCTCGTATTTCAAAAATT
1 TTCTCGTTTTTCAAAAATT
*
25109902 TTCTTGTTTT
1 TTCTCGTTTT
25109912 CAGAAAAAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
17 9 0.17
18 20 0.38
19 13 0.25
20 10 0.19
ACGTcount: A:0.26, C:0.14, G:0.08, T:0.51
Consensus pattern (19 bp):
TTCTCGTTTTTCAAAAATT
Found at i:25109899 original size:36 final size:36
Alignment explanation
Indices: 25109732--25109993 Score: 150
Period size: 36 Copynumber: 7.3 Consensus size: 36
25109722 AAATTTCCCG
* * **
25109732 TTTC-AAAAATCCTCGTGTTTTCAAATGTTTTCGTG-
1 TTTCAAAAAATTCTCGT-ATTTCAAAAATTTTCGTGT
* * *
25109767 TTTC-AAAAATCCTCATGT-TTTCAAAAATTCTCATG-
1 TTTCAAAAAATTCTC--GTATTTCAAAAATTTTCGTGT
* * *
25109802 TTTC-AAAAATCTCTATGT-TTTC-AAAATTCTAGT-T
1 TTTCAAAAAAT-TCT-CGTATTTCAAAAATTTTCGTGT
** * *
25109836 TTTCAGAAATTTTCTTGT-TTTCAAAAAATTTCCCGTGT
1 TTTCA-AAAAATTCTCGTATTTC-AAAAATTT-TCGTGT
*
25109874 TTTC-AAAAATTCTCGTATTTCAAAAATTTTCTTGT
1 TTTCAAAAAATTCTCGTATTTCAAAAATTTTCGTGT
* * * *
25109909 TTTCAGAAAAAAATTTTCGTGTTTTATAAATTTTCGTGT
1 TTTC---AAAAAATTCTCGTATTTCAAAAATTTTCGTGT
* * *
25109948 TTTCAAAAAATTCCCGTCTCTCAAAAATTTTCGTGT
1 TTTCAAAAAATTCTCGTATTTCAAAAATTTTCGTGT
25109984 TTTCAAAAAA
1 TTTCAAAAAA
25109994 ATTGATCGTG
Statistics
Matches: 182, Mismatches: 29, Indels: 31
0.75 0.12 0.13
Matches are distributed among these distances:
34 20 0.11
35 54 0.30
36 65 0.36
37 8 0.04
38 5 0.03
39 30 0.16
ACGTcount: A:0.31, C:0.16, G:0.09, T:0.45
Consensus pattern (36 bp):
TTTCAAAAAATTCTCGTATTTCAAAAATTTTCGTGT
Found at i:25110099 original size:23 final size:22
Alignment explanation
Indices: 25110055--25110097 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
25110045 GTAATTTATC
*
25110055 AAAATTTGTGTGTTTTCAAAAT
1 AAAATTTGTGTGTTTTAAAAAT
25110077 AAAATTTCGTGT-TTTTAAAAA
1 AAAATTT-GTGTGTTTTAAAAA
25110098 ATTTTCGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.44
Consensus pattern (22 bp):
AAAATTTGTGTGTTTTAAAAAT
Found at i:25110100 original size:18 final size:19
Alignment explanation
Indices: 25110077--25110115 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
25110067 TTTTCAAAAT
*
25110077 AAAA-TTTCGTGTTTTTAA
1 AAAATTTTCGTGTTTCTAA
25110095 AAAATTTTCGTGTTTCTAA
1 AAAATTTTCGTGTTTCTAA
25110114 AA
1 AA
25110116 TTTTGTGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.36, C:0.08, G:0.10, T:0.46
Consensus pattern (19 bp):
AAAATTTTCGTGTTTCTAA
Found at i:25116838 original size:15 final size:15
Alignment explanation
Indices: 25116814--25116843 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
25116804 TGGAAATTAG
*
25116814 AGATCGAGTGGCTGA
1 AGATCAAGTGGCTGA
25116829 AGATCAAGTGGCTGA
1 AGATCAAGTGGCTGA
25116844 TCACTTGTCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.13, G:0.37, T:0.20
Consensus pattern (15 bp):
AGATCAAGTGGCTGA
Found at i:25120126 original size:14 final size:14
Alignment explanation
Indices: 25120109--25120135 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
25120099 TGCAAATCTA
25120109 TCGAAAATAATCAC
1 TCGAAAATAATCAC
25120123 TCGAAAATAATCA
1 TCGAAAATAATCA
25120136 AAATTAATCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (14 bp):
TCGAAAATAATCAC
Found at i:25120178 original size:22 final size:22
Alignment explanation
Indices: 25120135--25120178 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
25120125 GAAAATAATC
**
25120135 AAAATTAATCAAAATTTGACAT
1 AAAATTAATCAAAATTCAACAT
* *
25120157 AAAATTTATTAAAATTCAACAT
1 AAAATTAATCAAAATTCAACAT
25120179 GTTCATAATT
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:0.55, C:0.09, G:0.02, T:0.34
Consensus pattern (22 bp):
AAAATTAATCAAAATTCAACAT
Found at i:25120877 original size:11 final size:12
Alignment explanation
Indices: 25120861--25120895 Score: 56
Period size: 11 Copynumber: 3.1 Consensus size: 12
25120851 GTACATATGC
25120861 TCTCTTTTTT-T
1 TCTCTTTTTTCT
25120872 TCTCTTTTTTCT
1 TCTCTTTTTTCT
25120884 TCT-TTTTTTCT
1 TCTCTTTTTTCT
25120895 T
1 T
25120896 TGTATTTCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (12 bp):
TCTCTTTTTTCT
Found at i:25123098 original size:19 final size:19
Alignment explanation
Indices: 25123076--25123113 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
25123066 AACCAAATTA
25123076 AAATTTAGGAGAAAATTTT
1 AAATTTAGGAGAAAATTTT
25123095 AAATTTAGGAGAAAATTTT
1 AAATTTAGGAGAAAATTTT
25123114 GTCTTACCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.16, T:0.37
Consensus pattern (19 bp):
AAATTTAGGAGAAAATTTT
Found at i:25123695 original size:17 final size:16
Alignment explanation
Indices: 25123675--25123709 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 16
25123665 TTTGCTATTA
25123675 ATTTATTAAATATAAAT
1 ATTTATTAAATA-AAAT
25123692 ATTTATTAAATAAAAT
1 ATTTATTAAATAAAAT
25123708 AT
1 AT
25123710 GATCAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
ATTTATTAAATAAAAT
Found at i:25123773 original size:22 final size:22
Alignment explanation
Indices: 25123748--25123790 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
25123738 TGCAAAGTTG
25123748 ATAAT-AAT-TAA-TATATATT
1 ATAATAAATATAATTATATATT
25123767 ATAATAAATATAATTATATATT
1 ATAATAAATATAATTATATATT
25123789 AT
1 AT
25123791 TGATTATCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.24
20 3 0.14
21 3 0.14
22 10 0.48
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATAATAAATATAATTATATATT
Found at i:25123776 original size:16 final size:15
Alignment explanation
Indices: 25123751--25123784 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
25123741 AAAGTTGATA
*
25123751 ATAATTAATATATATT
1 ATAATAAATATA-ATT
25123767 ATAATAAATATAATT
1 ATAATAAATATAATT
25123782 ATA
1 ATA
25123785 TATTATTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:25123899 original size:29 final size:29
Alignment explanation
Indices: 25123844--25123901 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
25123834 GCCTTTTGAA
* * *
25123844 AATATTTATAAAAAGAGACATCTAATTTT
1 AATATTTACAAAAAGAGACACCAAATTTT
25123873 AATATTTACAAAAAGAG-CAACCAAATTTT
1 AATATTTACAAAAAGAGAC-ACCAAATTTT
25123902 GAAAATAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 1 0.04
29 24 0.96
ACGTcount: A:0.50, C:0.10, G:0.07, T:0.33
Consensus pattern (29 bp):
AATATTTACAAAAAGAGACACCAAATTTT
Found at i:25135533 original size:3 final size:3
Alignment explanation
Indices: 25135525--25135553 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
25135515 CTCTGTAGGA
25135525 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
25135554 AAGATCCTCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:25139696 original size:12 final size:12
Alignment explanation
Indices: 25139679--25139703 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25139669 GTACGAGATT
25139679 TGTTTCTTCGCA
1 TGTTTCTTCGCA
25139691 TGTTTCTTCGCA
1 TGTTTCTTCGCA
25139703 T
1 T
25139704 CGACTTATTA
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:0.08, C:0.24, G:0.16, T:0.52
Consensus pattern (12 bp):
TGTTTCTTCGCA
Found at i:25151952 original size:12 final size:13
Alignment explanation
Indices: 25151935--25151963 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
25151925 GTCATACACG
25151935 AATAAATAAA-GC
1 AATAAATAAATGC
25151947 AATAAATAAATGC
1 AATAAATAAATGC
25151960 AATA
1 AATA
25151964 GTTATAGCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
AATAAATAAATGC
Found at i:25166508 original size:80 final size:80
Alignment explanation
Indices: 25166375--25166535 Score: 295
Period size: 80 Copynumber: 2.0 Consensus size: 80
25166365 TACAACTGCA
*
25166375 ACCATTGTAGATATTTGTCTATGATATTTTCCTGAAATTCAATAGATTGATTCATAATGCTATAT
1 ACCATTGTAGATATTTGTCTATGATATTTTCCTGAAATTCAATAGATGGATTCATAATGCTATAT
25166440 CAGAGTCTATGACTT
66 CAGAGTCTATGACTT
* *
25166455 ACCATTGTAGATATTTGTCTATGTTTTTTTCCTGAAATTCAATAGATGGATTCATAATGCTATAT
1 ACCATTGTAGATATTTGTCTATGATATTTTCCTGAAATTCAATAGATGGATTCATAATGCTATAT
25166520 CAGAGTCTATGACTT
66 CAGAGTCTATGACTT
25166535 A
1 A
25166536 TTCAAACCTG
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 78 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (80 bp):
ACCATTGTAGATATTTGTCTATGATATTTTCCTGAAATTCAATAGATGGATTCATAATGCTATAT
CAGAGTCTATGACTT
Found at i:25172809 original size:34 final size:34
Alignment explanation
Indices: 25172771--25172839 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
25172761 AAATGATTGT
25172771 TTCTTGTATGAATGTTTGTGTGATTATACTGTTA
1 TTCTTGTATGAATGTTTGTGTGATTATACTGTTA
* *
25172805 TTCTTGTATGAATGTTTGTGTGATTTTATTGTTA
1 TTCTTGTATGAATGTTTGTGTGATTATACTGTTA
25172839 T
1 T
25172840 AGACTCACAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.19, C:0.04, G:0.20, T:0.57
Consensus pattern (34 bp):
TTCTTGTATGAATGTTTGTGTGATTATACTGTTA
Found at i:25174016 original size:184 final size:185
Alignment explanation
Indices: 25173706--25174038 Score: 632
Period size: 184 Copynumber: 1.8 Consensus size: 185
25173696 AAATGATATT
*
25173706 CTACAAAGAAAAACAAGTCCAAGACTCTGATGTCGGTTGCCATAAAAAAACTAATGTTAAATTAT
1 CTACAAAGAAAAACAAGTCCAAGACTCCGATGTCGGTTGCCATAAAAAAACTAATGTTAAATTAT
25173771 AGGTAAACATCATAGATGTATAACTATAGACATAAAACAAAAATATCTAGTATTTAATTTTCTTC
66 AGGTAAACATCATAGATGTATAACTATAGACATAAAACAAAAATATCTAGTATTTAATTTTCTTC
25173836 GAAACTGTAAGATAGGAAATTGAAAACTATATATCAAACTTAATATCGTAGGATA
131 GAAACTGTAAGATAGGAAATTGAAAACTATATATCAAACTTAATATCGTAGGATA
*
25173891 CTACAAAGAAAAACAAGTTCAAGACTCCGATGTCGGTTGCCAT-AAAAAACTAATGTTAAATTAT
1 CTACAAAGAAAAACAAGTCCAAGACTCCGATGTCGGTTGCCATAAAAAAACTAATGTTAAATTAT
*
25173955 AGGTAAACATCATAGATGTATAACTGTAGACATAAAACAAAAATATCTAGTATTTAATTTTCTTC
66 AGGTAAACATCATAGATGTATAACTATAGACATAAAACAAAAATATCTAGTATTTAATTTTCTTC
25174020 GAAACTGTAAGATAGGAAA
131 GAAACTGTAAGATAGGAAA
25174039 CTGTAAGATA
Statistics
Matches: 145, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
184 104 0.72
185 41 0.28
ACGTcount: A:0.45, C:0.13, G:0.14, T:0.28
Consensus pattern (185 bp):
CTACAAAGAAAAACAAGTCCAAGACTCCGATGTCGGTTGCCATAAAAAAACTAATGTTAAATTAT
AGGTAAACATCATAGATGTATAACTATAGACATAAAACAAAAATATCTAGTATTTAATTTTCTTC
GAAACTGTAAGATAGGAAATTGAAAACTATATATCAAACTTAATATCGTAGGATA
Found at i:25174040 original size:15 final size:15
Alignment explanation
Indices: 25174020--25174056 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
25174010 AATTTTCTTC
25174020 GAAACTGTAAGATAG
1 GAAACTGTAAGATAG
25174035 GAAACTGTAAGATAG
1 GAAACTGTAAGATAG
25174050 GAAACTG
1 GAAACTG
25174057 AAAACTATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.46, C:0.08, G:0.27, T:0.19
Consensus pattern (15 bp):
GAAACTGTAAGATAG
Found at i:25181351 original size:12 final size:12
Alignment explanation
Indices: 25181334--25181371 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
25181324 TCTCACACGC
*
25181334 CCGTGTGCCAGG
1 CCGTGTGCTAGG
25181346 CCGTGTGCTAGG
1 CCGTGTGCTAGG
25181358 CCGTGTGCTAGG
1 CCGTGTGCTAGG
25181370 CC
1 CC
25181372 ATGTAATTGC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.08, C:0.32, G:0.39, T:0.21
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:25186947 original size:21 final size:21
Alignment explanation
Indices: 25186887--25186947 Score: 52
Period size: 21 Copynumber: 2.8 Consensus size: 21
25186877 TTCGGGTGTA
*
25186887 ATTTACAAATAATTTAAAGATCC
1 ATTTA-AAAT-ATTTAAAAATCC
* **
25186910 ATTAAAAATATAGAAAAATACC
1 ATTTAAAATATTTAAAAAT-CC
25186932 -TTTAAAATATTTAAAA
1 ATTTAAAATATTTAAAA
25186948 TTCCCCTAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
21 20 0.67
22 6 0.20
23 4 0.13
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.33
Consensus pattern (21 bp):
ATTTAAAATATTTAAAAATCC
Found at i:25190630 original size:12 final size:13
Alignment explanation
Indices: 25190606--25190634 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
25190596 GGACTATAAC
25190606 TATTGCATTTATT
1 TATTGCATTTATT
25190619 TATTGC-TTTATT
1 TATTGCATTTATT
25190631 TATT
1 TATT
25190635 CATGTATGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Found at i:25200506 original size:41 final size:41
Alignment explanation
Indices: 25200461--25200666 Score: 270
Period size: 41 Copynumber: 5.0 Consensus size: 41
25200451 AAGTACATCT
* *
25200461 AGGGGTATCGAAGTACAAACAGGGGCACGTTTGTGCAATTC
1 AGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATTC
* * * *
25200502 AGGGGTACCGAAGAACGAACAGGGACACGTATGAGCAATTC
1 AGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATTC
** *
25200543 AATGGTACCGAAGTACAAACAGGTGCACGTATGTGCAATTC
1 AGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATTC
* *** *
25200584 AAGGGTAGTAAAGTACAAACAGGGGCACGTATGTGCAATTT
1 AGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATTC
25200625 AGGGGTACCGAAGTAC-AACTAGGGGCACGTATGTGCAATTC
1 AGGGGTACCGAAGTACAAAC-AGGGGCACGTATGTGCAATTC
25200666 A
1 A
25200667 TCATTATTCA
Statistics
Matches: 140, Mismatches: 24, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
40 3 0.02
41 137 0.98
ACGTcount: A:0.33, C:0.17, G:0.30, T:0.19
Consensus pattern (41 bp):
AGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATTC
Found at i:25203172 original size:44 final size:46
Alignment explanation
Indices: 25203105--25203224 Score: 151
Period size: 45 Copynumber: 2.7 Consensus size: 46
25203095 AATAATAACA
*
25203105 GATACACGGTGG-ATCAGCACATAGC-ACCACCCTT-ATAGTCAAT
1 GATACACGGTGGAATCAGCACATAGCAACCACCCTTCATAATCAAT
*
25203148 GATACTCGGTGGAATCAGCACATAGCAACCA-CCTTCATAATCAAT
1 GATACACGGTGGAATCAGCACATAGCAACCACCCTTCATAATCAAT
* * *
25203193 -AGTACCCGATGGAATCAGCACACAGCAACCAC
1 GA-TACACGGTGGAATCAGCACATAGCAACCAC
25203225 ACAGCAACCA
Statistics
Matches: 67, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
43 11 0.16
44 18 0.27
45 38 0.57
ACGTcount: A:0.35, C:0.29, G:0.17, T:0.18
Consensus pattern (46 bp):
GATACACGGTGGAATCAGCACATAGCAACCACCCTTCATAATCAAT
Found at i:25203227 original size:11 final size:11
Alignment explanation
Indices: 25203211--25203235 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
25203201 ATGGAATCAG
25203211 CACACAGCAAC
1 CACACAGCAAC
25203222 CACACAGCAAC
1 CACACAGCAAC
25203233 CAC
1 CAC
25203236 CTTTATAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.48, G:0.08, T:0.00
Consensus pattern (11 bp):
CACACAGCAAC
Found at i:25203236 original size:56 final size:56
Alignment explanation
Indices: 25203166--25203281 Score: 180
Period size: 56 Copynumber: 2.1 Consensus size: 56
25203156 GTGGAATCAG
* *
25203166 CACATAGCAACCACCTTCATAATCAAT-AGTACCCGATGGAATCAGCACACAGCAAC
1 CACACAGCAACCACCTTCATAATCAATGA-TACCCGATGGAATCAACACACAGCAAC
* *
25203222 CACACAGCAACCACCTTTATAATCAATGATACCCGGTGGAATCAACACACAGCAAC
1 CACACAGCAACCACCTTCATAATCAATGATACCCGATGGAATCAACACACAGCAAC
25203278 CACA
1 CACA
25203282 TTTATAATCA
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
56 54 0.98
57 1 0.02
ACGTcount: A:0.40, C:0.33, G:0.12, T:0.16
Consensus pattern (56 bp):
CACACAGCAACCACCTTCATAATCAATGATACCCGATGGAATCAACACACAGCAAC
Found at i:25220819 original size:22 final size:22
Alignment explanation
Indices: 25220777--25220820 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
25220767 ACAGAGATTT
*
25220777 GATCAAATTAGTTTCTCTATTG
1 GATCAAATTAGTTTCTATATTG
* *
25220799 GATCAATTTAGTTTTTATATTG
1 GATCAAATTAGTTTCTATATTG
25220821 TTGAAAAGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.27, C:0.09, G:0.14, T:0.50
Consensus pattern (22 bp):
GATCAAATTAGTTTCTATATTG
Found at i:25224357 original size:670 final size:670
Alignment explanation
Indices: 25223077--25224417 Score: 2619
Period size: 670 Copynumber: 2.0 Consensus size: 670
25223067 TATGTTTTGG
*
25223077 GACCAAAATGGGAAAACTTGCCTTTTGGAGCTTAACAGTTAAATTTGAGCTTGTGCATGAGGTGA
1 GACCAAAATGGGAAAACTTGCCTTTTGGAGCTTAACAGTTAAATTTGAGCTTGTGCAAGAGGTGA
25223142 CTAAAGCAAAAACCTGAAAAAATCTTCTTGTTGTCTTTTAGGTGGCGACACTAGACTCTTGGTGT
66 CTAAAGCAAAAACCTGAAAAAATCTTCTTGTTGTCTTTTAGGTGGCGACACTAGACTCTTGGTGT
25223207 CGTGGCAACAAAGCTTTTTGTCACCTTGGCAACTTGAAATTTCAACAATGAGACATTGAAGGTAA
131 CGTGGCAACAAAGCTTTTTGTCACCTTGGCAACTTGAAATTTCAACAATGAGACATTGAAGGTAA
25223272 ACTGGTGACAGAGACGCGACATTAAATGGTGGGAGTCATGACATCGACCTTCATGGTTGCGACAT
196 ACTGGTGACAGAGACGCGACATTAAATGGTGGGAGTCATGACATCGACCTTCATGGTTGCGACAT
25223337 TAAGATCGTAAGGTCGTGACATTTAGGGCAATCACCATGGTTAAGGAATCCTAGCCATCTAAGGG
261 TAAGATCGTAAGGTCGTGACATTTAGGGCAATCACCATGGTTAAGGAATCCTAGCCATCTAAGGG
*
25223402 GCCAGAGTTGCGACATCGAATCTGCTAAACATACCTAGGAGTAAGTTGTTGGCAAGGTCGTGACA
326 GCCAGAGTTGCGACATCGAATCTGCTAAACATACCTAGGAGTAAGTTGTTGGCAAGGTCGCGACA
*
25223467 CCAATGCCTGAGTTTCGTGACATCGAGGCTCAATGAGGTAATTGATGCAAGGGAATTTCTCAGCC
391 CCAATGCCTGAATTTCGTGACATCGAGGCTCAATGAGGTAATTGATGCAAGGGAATTTCTCAGCC
25223532 AAAACAAGCCAAACCAATTGTTAAGTAGGGGCAATTTTGTCCATTTTAGGTTAAGCTTGTTAAAA
456 AAAACAAGCCAAACCAATTGTTAAGTAGGGGCAATTTTGTCCATTTTAGGTTAAGCTTGTTAAAA
25223597 CTATATAAGTTAGGGGTGAGCGTTCGATTGAATCGAGTGAAAAAATTTCAAGTTATTCGAGTTGA
521 CTATATAAGTTAGGGGTGAGCGTTCGATTGAATCGAGTGAAAAAATTTCAAGTTATTCGAGTTGA
*
25223662 CGAGTCCTACTTTATCATCCTAACTCGATTTCAAATTTTTTCGAATCGATTCGAGTGAAATGAAA
586 CGAGTCCTACTTTATCATCCTAACTCAATTTCAAATTTTTTCGAATCGATTCGAGTGAAATGAAA
25223727 TTCGAGTTGAGTCGGATCGA
651 TTCGAGTTGAGTCGGATCGA
25223747 GACCAAAATGGGAAAACTTGCCTTTTGGAGCTTAACAGTTAAATTTGAGCTTGTGCAAGAGGTGA
1 GACCAAAATGGGAAAACTTGCCTTTTGGAGCTTAACAGTTAAATTTGAGCTTGTGCAAGAGGTGA
25223812 CTAAAGCAAAAACCTGAAAAAATCTTCTTGTTGTCTTTTAGGTGGCGACACTAGACTCTTGGTGT
66 CTAAAGCAAAAACCTGAAAAAATCTTCTTGTTGTCTTTTAGGTGGCGACACTAGACTCTTGGTGT
*
25223877 TGTGGCAACAAAGCTTTTTGTCACCTTGGCAACTTGAAATTTCAACAATGAGACATTGAAGGTAA
131 CGTGGCAACAAAGCTTTTTGTCACCTTGGCAACTTGAAATTTCAACAATGAGACATTGAAGGTAA
25223942 ACTGGTGACAGAGACGCGACATTAAATGGTGGGAGTCATGACATCGACCTTCATGGTTGCGACAT
196 ACTGGTGACAGAGACGCGACATTAAATGGTGGGAGTCATGACATCGACCTTCATGGTTGCGACAT
25224007 TAAGATCGTAAGGTCGTGACATTTAGGGCAATCACCATGGTTAAGGAATCCTAGCCATCTAAGGG
261 TAAGATCGTAAGGTCGTGACATTTAGGGCAATCACCATGGTTAAGGAATCCTAGCCATCTAAGGG
25224072 GCCAGAGTTGCGACATCGAATCTGCTAAACATACCTAGGAGTAAGTTGTTGGCAAGGTCGCGACA
326 GCCAGAGTTGCGACATCGAATCTGCTAAACATACCTAGGAGTAAGTTGTTGGCAAGGTCGCGACA
*
25224137 CCAATGCCTGAATTTCGTGACATCGAGGCTCAATGAGGTAATTGATGCAAGGGCATTTCTCAGCC
391 CCAATGCCTGAATTTCGTGACATCGAGGCTCAATGAGGTAATTGATGCAAGGGAATTTCTCAGCC
25224202 AAAACAAGCCAAACCAATTGTTAAGTAGGGGCAATTTTGTCCATTTTAGGTTAAGCTTGTTAAAA
456 AAAACAAGCCAAACCAATTGTTAAGTAGGGGCAATTTTGTCCATTTTAGGTTAAGCTTGTTAAAA
25224267 CTATATAAGTTAGGGGTGAGCGTTCGATTGAATCGAGTGAAAAAATTTCAAGTTATTCGAGTTGA
521 CTATATAAGTTAGGGGTGAGCGTTCGATTGAATCGAGTGAAAAAATTTCAAGTTATTCGAGTTGA
25224332 CGAGTCCTACTTTATCATCCTAACTCAATTTCAAATTTTTTCGAATCGATTCGAGTGAAATGAAA
586 CGAGTCCTACTTTATCATCCTAACTCAATTTCAAATTTTTTCGAATCGATTCGAGTGAAATGAAA
*
25224397 TTCTAGTTGAGTCGGATCGA
651 TTCGAGTTGAGTCGGATCGA
25224417 G
1 G
25224418 TGAAATTGTT
Statistics
Matches: 664, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
670 664 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (670 bp):
GACCAAAATGGGAAAACTTGCCTTTTGGAGCTTAACAGTTAAATTTGAGCTTGTGCAAGAGGTGA
CTAAAGCAAAAACCTGAAAAAATCTTCTTGTTGTCTTTTAGGTGGCGACACTAGACTCTTGGTGT
CGTGGCAACAAAGCTTTTTGTCACCTTGGCAACTTGAAATTTCAACAATGAGACATTGAAGGTAA
ACTGGTGACAGAGACGCGACATTAAATGGTGGGAGTCATGACATCGACCTTCATGGTTGCGACAT
TAAGATCGTAAGGTCGTGACATTTAGGGCAATCACCATGGTTAAGGAATCCTAGCCATCTAAGGG
GCCAGAGTTGCGACATCGAATCTGCTAAACATACCTAGGAGTAAGTTGTTGGCAAGGTCGCGACA
CCAATGCCTGAATTTCGTGACATCGAGGCTCAATGAGGTAATTGATGCAAGGGAATTTCTCAGCC
AAAACAAGCCAAACCAATTGTTAAGTAGGGGCAATTTTGTCCATTTTAGGTTAAGCTTGTTAAAA
CTATATAAGTTAGGGGTGAGCGTTCGATTGAATCGAGTGAAAAAATTTCAAGTTATTCGAGTTGA
CGAGTCCTACTTTATCATCCTAACTCAATTTCAAATTTTTTCGAATCGATTCGAGTGAAATGAAA
TTCGAGTTGAGTCGGATCGA
Found at i:25224726 original size:20 final size:20
Alignment explanation
Indices: 25224701--25224761 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
25224691 ATAAATCCTA
25224701 AAATTTTTATAAA-TATTTTG
1 AAATTTTTA-AAACTATTTTG
* *
25224721 AAA-TTTAAAAATTATTTTG
1 AAATTTTTAAAACTATTTTG
*
25224740 AATTTTTTAAAACTATTTTG
1 AAATTTTTAAAACTATTTTG
25224760 AA
1 AA
25224762 TTATTTTGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
18 3 0.09
19 13 0.37
20 19 0.54
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.51
Consensus pattern (20 bp):
AAATTTTTAAAACTATTTTG
Found at i:25224762 original size:20 final size:19
Alignment explanation
Indices: 25224704--25224768 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 19
25224694 AATCCTAAAA
25224704 TTTTTATAAATATTTTGAA-
1 TTTTTA-AAATATTTTGAAT
* *
25224723 ATTTAAAAATTATTTTGAAT
1 TTTTTAAAA-TATTTTGAAT
25224743 TTTTTAAAACTATTTTGAAT
1 TTTTTAAAA-TATTTTGAAT
25224763 TATTTT
1 T-TTTT
25224769 GTAATTTTTG
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
18 3 0.08
19 13 0.34
20 18 0.47
21 4 0.11
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.57
Consensus pattern (19 bp):
TTTTTAAAATATTTTGAAT
Found at i:25230897 original size:13 final size:13
Alignment explanation
Indices: 25230879--25230913 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
25230869 CTTCTGAAAT
25230879 AATTTTTTCAGAG
1 AATTTTTTCAGAG
25230892 AATTTTTTCAGAG
1 AATTTTTTCAGAG
25230905 AATTTTTTC
1 AATTTTTTC
25230914 TCTACAACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.29, C:0.09, G:0.11, T:0.51
Consensus pattern (13 bp):
AATTTTTTCAGAG
Found at i:25231034 original size:11 final size:11
Alignment explanation
Indices: 25231018--25231054 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
25231008 CTTAATCACT
25231018 TTAATATTAAA
1 TTAATATTAAA
25231029 TTAATATTAAA
1 TTAATATTAAA
*
25231040 -T-CTATTAAA
1 TTAATATTAAA
25231049 TTAATA
1 TTAATA
25231055 GAATATTCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 7 0.32
10 2 0.09
11 13 0.59
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:25231112 original size:17 final size:17
Alignment explanation
Indices: 25231020--25231102 Score: 55
Period size: 17 Copynumber: 4.6 Consensus size: 17
25231010 TAATCACTTT
25231020 AATATTAAATTAATATTA
1 AATATTAAATTAA-ATTA
25231038 AATCTATTAAATT-AA-TA
1 AA--TATTAAATTAAATTA
* *
25231055 GAATATT-CATCTACAAGATA
1 -AATATTAAAT-TA-AA-TTA
*
25231075 AATATTAAATTAAATTT
1 AATATTAAATTAAATTA
25231092 AATATTAAATT
1 AATATTAAATT
25231103 TATTAAAATA
Statistics
Matches: 52, Mismatches: 4, Indels: 19
0.69 0.05 0.25
Matches are distributed among these distances:
15 2 0.04
16 5 0.10
17 14 0.27
18 9 0.17
19 9 0.17
20 13 0.25
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (17 bp):
AATATTAAATTAAATTA
Found at i:25231116 original size:20 final size:20
Alignment explanation
Indices: 25231022--25231118 Score: 67
Period size: 20 Copynumber: 4.8 Consensus size: 20
25231012 ATCACTTTAA
*
25231022 TATTAAATTAATATTAAATC
1 TATTAAATTAATATTAAATT
*
25231042 TATTAAATTAATA-GAATATT
1 TATTAAATTAATATTAA-ATT
* *
25231062 CATCTACAAGATAAATATTAAA-T
1 TAT-T--AA-ATTAATATTAAATT
*
25231085 TA--AATTTAATATTAAATT
1 TATTAAATTAATATTAAATT
*
25231103 TATTAAAATAATATTA
1 TATTAAATTAATATTA
25231119 TTTTTGGAAT
Statistics
Matches: 58, Mismatches: 10, Indels: 18
0.67 0.12 0.21
Matches are distributed among these distances:
17 10 0.17
18 5 0.09
19 2 0.03
20 27 0.47
21 1 0.02
23 4 0.07
24 7 0.12
25 2 0.03
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (20 bp):
TATTAAATTAATATTAAATT
Found at i:25233924 original size:50 final size:49
Alignment explanation
Indices: 25233866--25234051 Score: 214
Period size: 51 Copynumber: 3.7 Consensus size: 49
25233856 AAAGTGAAAG
*
25233866 TGAT-GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAA
1 TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GAA
* *
25233915 TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCCG-A
1 TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CCGAA
* * * * *
25233964 TAGTTTCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAA
1 T-G-ATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAA
* *
25234015 TGGTAATGGTCACATGTGTAGTACTATGTGCAAGCTA
1 TGAT-A-GGTCACATGTGTAGTACTATGTGCAGGCTA
25234052 TTATGTGAAC
Statistics
Matches: 115, Mismatches: 15, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
49 7 0.06
50 41 0.36
51 67 0.58
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (49 bp):
TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAA
Found at i:25233989 original size:101 final size:102
Alignment explanation
Indices: 25233872--25234056 Score: 311
Period size: 101 Copynumber: 1.8 Consensus size: 102
25233862 AAAGTGATGG
25233872 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAT-A-GGTCACATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GAATGATAATGGTCACATGTGTAGT
*
25233935 ACTATGTGCAGGCTACTATGCGTACCCGATAGTTTCGA
65 ACTATGTGCAAGCTACTATGCGTACCCGATAGTTTCGA
* *
25233973 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAATGGTAATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATGATAATGGTCACATGTGTAGTA
*
25234038 CTATGTGCAAGCTATTATG
66 CTATGTGCAAGCTACTATG
25234057 TGAACTGAAC
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
100 6 0.08
101 39 0.50
102 33 0.42
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.31
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATGATAATGGTCACATGTGTAGTA
CTATGTGCAAGCTACTATGCGTACCCGATAGTTTCGA
Found at i:25234116 original size:45 final size:45
Alignment explanation
Indices: 25234065--25234153 Score: 142
Period size: 45 Copynumber: 2.0 Consensus size: 45
25234055 TGTGAACTGA
* * * *
25234065 ACATCATTGATTAGTTAGGTGGTTGCTATGTGCTGATTCCACCGG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTAAATCCACCGG
25234110 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTAAATCCACCG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTAAATCCACCG
25234154 AGTATCTGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.34
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGGTTGCTATGTGCTAAATCCACCGG
Found at i:25234238 original size:23 final size:20
Alignment explanation
Indices: 25234188--25234241 Score: 56
Period size: 23 Copynumber: 2.5 Consensus size: 20
25234178 TTCATCGGAA
25234188 AATTGAATA-AGTGTAATTG
1 AATTGAATATAGTGTAATTG
25234207 AATAATGAATATAGGTGTGGAATTG
1 AAT--TGAATATA-GTGT--AATTG
25234232 AATTGAATAT
1 AATTGAATAT
25234242 CGACATAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
19 3 0.10
21 6 0.21
22 1 0.03
23 11 0.38
25 8 0.28
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (20 bp):
AATTGAATATAGTGTAATTG
Found at i:25238884 original size:18 final size:18
Alignment explanation
Indices: 25238863--25238899 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
25238853 ATCACGATTC
25238863 ACTATTATACTA-TAATTA
1 ACTATTA-ACTATTAATTA
25238881 ACTATTAACTATTAATTA
1 ACTATTAACTATTAATTA
25238899 A
1 A
25238900 ATATATCTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (18 bp):
ACTATTAACTATTAATTA
Found at i:25241461 original size:15 final size:15
Alignment explanation
Indices: 25241441--25241470 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
25241431 CACCCTAGTC
25241441 ACAGATACAGAAATA
1 ACAGATACAGAAATA
*
25241456 ACAGATACAGTAATA
1 ACAGATACAGAAATA
25241471 TCATGCATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.13, G:0.13, T:0.17
Consensus pattern (15 bp):
ACAGATACAGAAATA
Found at i:25246768 original size:46 final size:46
Alignment explanation
Indices: 25246718--25246880 Score: 177
Period size: 46 Copynumber: 3.5 Consensus size: 46
25246708 TCAAGTTCGT
* * *
25246718 AACATATGTAGGAGCACGAAACCTAAACCTGTATTCTCGAGTCCAC
1 AACATATGTAGGAGCTCGAAACCTATACCTGTATTCTTGAGTCCAC
* * **
25246764 AACATATGTAGGATCTCGAAACCTATTCCTGTATTCTTGAGTCTGC
1 AACATATGTAGGAGCTCGAAACCTATACCTGTATTCTTGAGTCCAC
** *
25246810 AACATATCCAGGAGCTCTG-AACCTATTA-TTGTATTCTTGAGTCCAC
1 AACATATGTAGGAGCTC-GAAACCTA-TACCTGTATTCTTGAGTCCAC
* **
25246856 AACATATGCAAAAGCTCGAAACCTA
1 AACATATGTAGGAGCTCGAAACCTA
25246881 GGCAAAACTC
Statistics
Matches: 97, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
45 1 0.01
46 94 0.97
47 2 0.02
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.28
Consensus pattern (46 bp):
AACATATGTAGGAGCTCGAAACCTATACCTGTATTCTTGAGTCCAC
Found at i:25249961 original size:25 final size:25
Alignment explanation
Indices: 25249915--25249971 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
25249905 CAGCTCATGT
* * *
25249915 GAGCAATTATAGTTACAACTTGTGC
1 GAGCATTTACAGTCACAACTTGTGC
* *
25249940 GAGCATTTACAGTCACAGCTTGTGT
1 GAGCATTTACAGTCACAACTTGTGC
25249965 GAGCATT
1 GAGCATT
25249972 GTTCCCAAGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.32
Consensus pattern (25 bp):
GAGCATTTACAGTCACAACTTGTGC
Found at i:25250134 original size:40 final size:39
Alignment explanation
Indices: 25250060--25250207 Score: 145
Period size: 40 Copynumber: 3.7 Consensus size: 39
25250050 TATGTGAAAA
** * *
25250060 AATAGATATATGAAATGGTTATAT-AGATCGATTATATGG
1 AATAGATATACAAAATGATTATATGA-ATCAATTATATGG
* *
25250099 AACTAGTTATACAAAATTATTATATGAATCAATTATATGG
1 AA-TAGATATACAAAATGATTATATGAATCAATTATATGG
* * * * *
25250139 AAATAGATATACGAAATGGTTATATTAATCAGTTGTATGG
1 -AATAGATATACAAAATGATTATATGAATCAATTATATGG
*
25250179 TAATAGATATACAGAATGATTATATGAAT
1 -AATAGATATACAAAATGATTATATGAAT
25250208 TAGTTAAACG
Statistics
Matches: 88, Mismatches: 18, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
39 2 0.02
40 83 0.94
41 3 0.03
ACGTcount: A:0.43, C:0.05, G:0.16, T:0.36
Consensus pattern (39 bp):
AATAGATATACAAAATGATTATATGAATCAATTATATGG
Found at i:25250178 original size:80 final size:80
Alignment explanation
Indices: 25250059--25250236 Score: 218
Period size: 80 Copynumber: 2.2 Consensus size: 80
25250049 TTATGTGAAA
* *
25250059 AAATAGATATATGAAATGGTTATATAGATCGATTATATGG-AACTAGTTATACAAAATTATTATA
1 AAATAGATATATGAAATGGTTATATAGATCGATTATATGGTAA-TAGATATACAAAATGATTATA
* *
25250123 TGAATCAATTATATGG
65 TGAATCAATTAAACGG
* * *
25250139 AAATAGATATACGAAATGGTTATATTA-ATC-AGTTGTATGGTAATAGATATACAGAATGATTAT
1 AAATAGATATATGAAATGGTTATA-TAGATCGA-TTATATGGTAATAGATATACAAAATGATTAT
* *
25250202 ATGAATTAGTTAAACGG
64 ATGAATCAATTAAACGG
*
25250219 AAATAGTTATATGAAATG
1 AAATAGATATATGAAATG
25250237 TTTAAACGAA
Statistics
Matches: 84, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
79 1 0.01
80 79 0.94
81 4 0.05
ACGTcount: A:0.44, C:0.04, G:0.17, T:0.35
Consensus pattern (80 bp):
AAATAGATATATGAAATGGTTATATAGATCGATTATATGGTAATAGATATACAAAATGATTATAT
GAATCAATTAAACGG
Found at i:25250224 original size:40 final size:40
Alignment explanation
Indices: 25250091--25250229 Score: 145
Period size: 40 Copynumber: 3.5 Consensus size: 40
25250081 TATAGATCGA
* * * * *
25250091 TTATATGGAACTAGTTATACAAAATTATTATATGAATCAA
1 TTATATGGAAATAGATATACAGAATGATTATATGAATCAG
* *
25250131 TTATATGGAAATAGATATAC-GAAATGGTTATATTAATCAG
1 TTATATGGAAATAGATATACAG-AATGATTATATGAATCAG
* * *
25250171 TTGTATGGTAATAGATATACAGAATGATTATATGAATTAG
1 TTATATGGAAATAGATATACAGAATGATTATATGAATCAG
* * *
25250211 TTAAACGGAAATAGTTATA
1 TTATATGGAAATAGATATA
25250230 TGAAATGTTT
Statistics
Matches: 80, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
40 79 0.99
41 1 0.01
ACGTcount: A:0.43, C:0.05, G:0.16, T:0.36
Consensus pattern (40 bp):
TTATATGGAAATAGATATACAGAATGATTATATGAATCAG
Found at i:25250241 original size:27 final size:26
Alignment explanation
Indices: 25250198--25250248 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
25250188 TACAGAATGA
*
25250198 TTATATGAATTAGTTAAACGGAAATAG
1 TTATATGAAATAGTTAAAC-GAAATAG
25250225 TTATATGAAAT-GTTTAAACGAAAT
1 TTATATGAAATAG-TTAAACGAAAT
25250249 GTTTTTATGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.45, C:0.04, G:0.16, T:0.35
Consensus pattern (26 bp):
TTATATGAAATAGTTAAACGAAATAG
Found at i:25250874 original size:14 final size:14
Alignment explanation
Indices: 25250852--25250885 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
25250842 TTTTATATGC
*
25250852 ATTTTGAATGGTTG
1 ATTTGGAATGGTTG
25250866 ATTTGGAATGGTTG
1 ATTTGGAATGGTTG
*
25250880 ACTTGG
1 ATTTGG
25250886 TACAAATTCT
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:0.21, C:0.03, G:0.32, T:0.44
Consensus pattern (14 bp):
ATTTGGAATGGTTG
Found at i:25257269 original size:21 final size:21
Alignment explanation
Indices: 25257243--25257288 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
25257233 CTCAAAATCA
*
25257243 TCTTACTGAGGAACCCTTTTC
1 TCTTACTGAGGAACCCTTCTC
25257264 TCTTACTGAGGAACCCTTCTC
1 TCTTACTGAGGAACCCTTCTC
25257285 TCTT
1 TCTT
25257289 TGGTCTTGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.17, C:0.30, G:0.13, T:0.39
Consensus pattern (21 bp):
TCTTACTGAGGAACCCTTCTC
Found at i:25264358 original size:21 final size:21
Alignment explanation
Indices: 25264328--25264380 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
25264318 AAGCGAAAAT
25264328 GCCC-TCGATGTCGCGACACG
1 GCCCTTCGATGTCGCGACACG
25264348 GCCCTTCGATGTCGCGACACG
1 GCCCTTCGATGTCGCGACACG
25264369 GCCCTTCGATGT
1 GCCCTTCGATGT
25264381 TACAACACTG
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 4 0.12
21 28 0.88
ACGTcount: A:0.13, C:0.38, G:0.28, T:0.21
Consensus pattern (21 bp):
GCCCTTCGATGTCGCGACACG
Found at i:25264388 original size:21 final size:21
Alignment explanation
Indices: 25264328--25264388 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
25264318 AAGCGAAAAT
* *
25264328 GCCC-TCGATGTCGCGACACG
1 GCCCTTCGATGTCACAACACG
* *
25264348 GCCCTTCGATGTCGCGACACG
1 GCCCTTCGATGTCACAACACG
*
25264369 GCCCTTCGATGTTACAACAC
1 GCCCTTCGATGTCACAACAC
25264389 TGCAGGCCTG
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
20 4 0.11
21 33 0.89
ACGTcount: A:0.18, C:0.38, G:0.25, T:0.20
Consensus pattern (21 bp):
GCCCTTCGATGTCACAACACG
Found at i:25268069 original size:31 final size:31
Alignment explanation
Indices: 25267993--25268067 Score: 107
Period size: 31 Copynumber: 2.4 Consensus size: 31
25267983 GTTATTGTTA
*
25267993 TTGTTTAGGGTTTATTAAATAGGGTTTTAGG
1 TTGTTTAGGTTTTATTAAATAGGGTTTTAGG
* *
25268024 TTTTTTAGGATTTTATT-ATTAGGGTTTTAGG
1 TTGTTTAGG-TTTTATTAAATAGGGTTTTAGG
25268055 TTGTTTAGGTTTT
1 TTGTTTAGGTTTT
25268068 TAGGGTTTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
30 4 0.10
31 29 0.74
32 6 0.15
ACGTcount: A:0.19, C:0.00, G:0.25, T:0.56
Consensus pattern (31 bp):
TTGTTTAGGTTTTATTAAATAGGGTTTTAGG
Found at i:25268080 original size:8 final size:8
Alignment explanation
Indices: 25268012--25268099 Score: 69
Period size: 8 Copynumber: 11.2 Consensus size: 8
25268002 GTTTATTAAA
25268012 TAGGGTTT
1 TAGGGTTT
*
25268020 TAGGTTTTT
1 TAGG-GTTT
*
25268029 TAGGATTT
1 TAGGGTTT
25268037 TA---TTAT
1 TAGGGTT-T
25268043 TAGGGTTT
1 TAGGGTTT
*
25268051 TAGGTTGTT
1 TAGGGT-TT
*
25268060 TAGGTTTT
1 TAGGGTTT
25268068 TAGGGTTT
1 TAGGGTTT
25268076 TAGGG--T
1 TAGGGTTT
*
25268082 TAGAGTTT
1 TAGGGTTT
25268090 TAGGGTTT
1 TAGGGTTT
25268098 TA
1 TA
25268100 AAACGATAAA
Statistics
Matches: 66, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
5 2 0.03
6 8 0.12
8 39 0.59
9 17 0.26
ACGTcount: A:0.17, C:0.00, G:0.30, T:0.53
Consensus pattern (8 bp):
TAGGGTTT
Found at i:25268089 original size:14 final size:14
Alignment explanation
Indices: 25268067--25268096 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
25268057 GTTTAGGTTT
*
25268067 TTAGGGTTTTAGGG
1 TTAGAGTTTTAGGG
25268081 TTAGAGTTTTAGGG
1 TTAGAGTTTTAGGG
25268095 TT
1 TT
25268097 TTAAAACGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
TTAGAGTTTTAGGG
Found at i:25268090 original size:39 final size:40
Alignment explanation
Indices: 25268018--25268093 Score: 100
Period size: 39 Copynumber: 1.9 Consensus size: 40
25268008 TAAATAGGGT
** *
25268018 TTTAGGTTTTTTAGGATTTTATTATTAGGGTTTTAGGTTG
1 TTTAGGTTTTTTAGGATTTTAGGATTAGAGTTTTAGGTTG
* *
25268058 TTTAGG-TTTTTAGGGTTTTAGGGTTAGAGTTTTAGG
1 TTTAGGTTTTTTAGGATTTTAGGATTAGAGTTTTAGG
25268094 GTTTTAAAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
39 25 0.81
40 6 0.19
ACGTcount: A:0.17, C:0.00, G:0.29, T:0.54
Consensus pattern (40 bp):
TTTAGGTTTTTTAGGATTTTAGGATTAGAGTTTTAGGTTG
Found at i:25270039 original size:22 final size:22
Alignment explanation
Indices: 25270013--25270057 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
25270003 ATTATATGTA
25270013 TTAATTCATAATATAA-TTAATT
1 TTAATTCAT-ATATAATTTAATT
* *
25270035 TTAATTTATATCTAATTTAATT
1 TTAATTCATATATAATTTAATT
25270057 T
1 T
25270058 GGGTTAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATTCATATATAATTTAATT
Found at i:25272319 original size:17 final size:17
Alignment explanation
Indices: 25272297--25272350 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
25272287 AATCGCGACA
25272297 AATATTCTTTGGTTTGT
1 AATATTCTTTGGTTTGT
25272314 AATATTTCATTT--TTT-T
1 AATA-TTC-TTTGGTTTGT
*
25272330 ATATATTCTTTGGTATGT
1 A-ATATTCTTTGGTTTGT
25272348 AAT
1 AAT
25272351 CTTCATTATC
Statistics
Matches: 30, Mismatches: 1, Indels: 12
0.70 0.02 0.28
Matches are distributed among these distances:
15 3 0.10
16 5 0.17
17 14 0.47
18 5 0.17
19 3 0.10
ACGTcount: A:0.24, C:0.06, G:0.11, T:0.59
Consensus pattern (17 bp):
AATATTCTTTGGTTTGT
Found at i:25273290 original size:33 final size:32
Alignment explanation
Indices: 25273253--25273342 Score: 101
Period size: 32 Copynumber: 2.8 Consensus size: 32
25273243 CCGCGGGTTC
* *
25273253 TGTGAAATGATAACAAATATCAACTTTTCATTT
1 TGTGAAATGATAA-AAATATCAACTGTTAATTT
* *
25273286 TGTGAAATTATAAAAAAATACAA-TGTTAATTT
1 TGTGAAATGATAAAAATAT-CAACTGTTAATTT
*
25273318 TGTAAAATGATAATAAATATCAACT
1 TGTGAAATGATAA-AAATATCAACT
25273343 AGCAAATATT
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
32 26 0.55
33 21 0.45
ACGTcount: A:0.47, C:0.08, G:0.09, T:0.37
Consensus pattern (32 bp):
TGTGAAATGATAAAAATATCAACTGTTAATTT
Found at i:25275624 original size:18 final size:17
Alignment explanation
Indices: 25275584--25275624 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
25275574 AAAATATAAT
*
25275584 AAAAATAGAATTTAGAT
1 AAAAATAGAATTTAGAA
*
25275601 AGAAATAGAATTTTAGAA
1 AAAAATAGAA-TTTAGAA
25275619 AAAAAT
1 AAAAAT
25275625 TAAGAGAGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.61, C:0.00, G:0.12, T:0.27
Consensus pattern (17 bp):
AAAAATAGAATTTAGAA
Found at i:25284310 original size:59 final size:59
Alignment explanation
Indices: 25284218--25284335 Score: 236
Period size: 59 Copynumber: 2.0 Consensus size: 59
25284208 CTTACATAGC
25284218 TTGAAACACGCTTACAAACTTGTCTTATCAGAAGGGTTGAGGAACATAAGATATGTTCT
1 TTGAAACACGCTTACAAACTTGTCTTATCAGAAGGGTTGAGGAACATAAGATATGTTCT
25284277 TTGAAACACGCTTACAAACTTGTCTTATCAGAAGGGTTGAGGAACATAAGATATGTTCT
1 TTGAAACACGCTTACAAACTTGTCTTATCAGAAGGGTTGAGGAACATAAGATATGTTCT
25284336 CGCCTACACT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (59 bp):
TTGAAACACGCTTACAAACTTGTCTTATCAGAAGGGTTGAGGAACATAAGATATGTTCT
Found at i:25287798 original size:20 final size:19
Alignment explanation
Indices: 25287748--25287802 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
25287738 ATTTTCCAAC
*
25287748 TTAGTTTAATTAATAGTTAAA
1 TTAG-TTAATTAA-ACTTAAA
*
25287769 TTAGTATAATTAAACTTTAA
1 TTAGT-TAATTAAACTTAAA
25287789 TTAAGTTAATTAAA
1 TT-AGTTAATTAAA
25287803 TAAGATTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.45
Consensus pattern (19 bp):
TTAGTTAATTAAACTTAAA
Found at i:25298997 original size:15 final size:15
Alignment explanation
Indices: 25298979--25299036 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 15
25298969 CAATAACAAT
25298979 TAATATA-ATATAATA
1 TAATATATAT-TAATA
25298994 TAATATATATTAATA
1 TAATATATATTAATA
* * * *
25299009 TATTATTTTTTATTA
1 TAATATATATTAATA
*
25299024 TAATATTTATTAA
1 TAATATATATTAA
25299037 AAATAAAAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
15 33 0.94
16 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TAATATATATTAATA
Found at i:25299113 original size:10 final size:11
Alignment explanation
Indices: 25299098--25299159 Score: 51
Period size: 12 Copynumber: 5.8 Consensus size: 11
25299088 CTGTACAAGG
25299098 TTAATA-ATAA
1 TTAATATATAA
25299108 TTAATATATAA
1 TTAATATATAA
*
25299119 TATAAAATATAA
1 T-TAATATATAA
*
25299131 --AATATAAAA
1 TTAATATATAA
*
25299140 TATAAAATAT-A
1 T-TAATATATAA
25299151 TTAATATAT
1 TTAATATAT
25299160 TATTTTTCAT
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
9 7 0.17
10 13 0.32
11 7 0.17
12 14 0.34
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
TTAATATATAA
Found at i:25299119 original size:7 final size:7
Alignment explanation
Indices: 25299110--25299150 Score: 73
Period size: 7 Copynumber: 5.9 Consensus size: 7
25299100 AATAATAATT
*
25299110 AATATAT
1 AATATAA
25299117 AATATAA
1 AATATAA
25299124 AATATAA
1 AATATAA
25299131 AATATAA
1 AATATAA
25299138 AATATAA
1 AATATAA
25299145 AATATA
1 AATATA
25299151 TTAATATATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (7 bp):
AATATAA
Found at i:25299127 original size:21 final size:21
Alignment explanation
Indices: 25299103--25299159 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
25299093 CAAGGTTAAT
25299103 AATAATTAATATATAATATAA
1 AATAATTAATATATAATATAA
* *
25299124 AAT-ATAAAATATAAAATATAA
1 AATAAT-TAATATATAATATAA
25299145 AATATATTAATATAT
1 AATA-ATTAATATAT
25299160 TATTTTTCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
20 2 0.07
21 19 0.66
22 6 0.21
23 2 0.07
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
AATAATTAATATATAATATAA
Found at i:25309794 original size:24 final size:24
Alignment explanation
Indices: 25309766--25309814 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 24
25309756 AACCCACCAA
25309766 TTTTACACTTGTTTTAA-CCTATTT
1 TTTTACACTTGTTTTAAGCC-ATTT
25309790 TTTTACACTTGTTTTAAGCCATTT
1 TTTTACACTTGTTTTAAGCCATTT
25309814 T
1 T
25309815 AACATTGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 22 0.92
25 2 0.08
ACGTcount: A:0.20, C:0.16, G:0.06, T:0.57
Consensus pattern (24 bp):
TTTTACACTTGTTTTAAGCCATTT
Found at i:25312404 original size:18 final size:18
Alignment explanation
Indices: 25312369--25312405 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
25312359 ACAATATGCC
*
25312369 AAACTATTTTTATACTTG
1 AAACTATTTTGATACTTG
*
25312387 AAACTATTTTGATGCTTG
1 AAACTATTTTGATACTTG
25312405 A
1 A
25312406 CCACCTTCAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (18 bp):
AAACTATTTTGATACTTG
Found at i:25317487 original size:21 final size:22
Alignment explanation
Indices: 25317446--25317488 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
25317436 TTCGGATCTA
25317446 TTCTGACTGATGCTCTCTTTTG
1 TTCTGACTGATGCTCTCTTTTG
25317468 TTCTG-CTCGATGCT-TCTTTTG
1 TTCTGACT-GATGCTCTCTTTTG
25317489 CTAAAGAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.07, C:0.23, G:0.19, T:0.51
Consensus pattern (22 bp):
TTCTGACTGATGCTCTCTTTTG
Found at i:25334368 original size:10 final size:10
Alignment explanation
Indices: 25334353--25334379 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
25334343 TTAGAGGTCT
25334353 TGTTTTCAAG
1 TGTTTTCAAG
25334363 TGTTTTCAAG
1 TGTTTTCAAG
25334373 TGTTTTC
1 TGTTTTC
25334380 CTCATTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.15, C:0.11, G:0.19, T:0.56
Consensus pattern (10 bp):
TGTTTTCAAG
Found at i:25334670 original size:22 final size:22
Alignment explanation
Indices: 25334644--25334685 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
25334634 TTCTGACTAG
* *
25334644 GGTATCGCAATATCCTTACCTA
1 GGTATCCCAATATCCCTACCTA
*
25334666 GGTATCCCGATATCCCTACC
1 GGTATCCCAATATCCCTACC
25334686 GTGTGGGGAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.24, C:0.33, G:0.14, T:0.29
Consensus pattern (22 bp):
GGTATCCCAATATCCCTACCTA
Found at i:25338104 original size:22 final size:22
Alignment explanation
Indices: 25338076--25338228 Score: 225
Period size: 22 Copynumber: 7.0 Consensus size: 22
25338066 TGTTGATAGT
*
25338076 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTA
25338098 ACGTACTAAGCTCTCATGTTTA
1 ACGTACTAAGCTCTCATGTTTA
25338120 ACGTACTAAGCTCTCATGTTTA
1 ACGTACTAAGCTCTCATGTTTA
* * * **
25338142 ACGAACTAAACCCTCATGGCTA
1 ACGTACTAAGCTCTCATGTTTA
**
25338164 ACGTACTAAGCTCTCATGGCTA
1 ACGTACTAAGCTCTCATGTTTA
*
25338186 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTA
25338208 ACGTACTAAGCTCTCATGTTT
1 ACGTACTAAGCTCTCATGTTT
25338229 GAACAATAAA
Statistics
Matches: 119, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 119 1.00
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (22 bp):
ACGTACTAAGCTCTCATGTTTA
Found at i:25342489 original size:18 final size:18
Alignment explanation
Indices: 25342449--25342491 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
25342439 ACCGCCCTGC
*
25342449 CATAGTCGCGACTCTTTT
1 CATAGTCGCGACTCTTGT
* *
25342467 TATAGTCGCGACTGTTGT
1 CATAGTCGCGACTCTTGT
25342485 CATAGTC
1 CATAGTC
25342492 AACAAGGTTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (18 bp):
CATAGTCGCGACTCTTGT
Found at i:25351378 original size:26 final size:27
Alignment explanation
Indices: 25351348--25351408 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
25351338 AAATTTCTCG
25351348 AAATTTTACCAAGG-GTAAAATCATCA
1 AAATTTTACCAAGGAGTAAAATCATCA
*** *
25351374 AAATTTTA-TTGGGAGTAAAATCGTCA
1 AAATTTTACCAAGGAGTAAAATCATCA
25351400 AAATTTTAC
1 AAATTTTAC
25351409 TGAAGTAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 2 0.07
26 27 0.93
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (27 bp):
AAATTTTACCAAGGAGTAAAATCATCA
Found at i:25361985 original size:66 final size:65
Alignment explanation
Indices: 25361888--25362021 Score: 164
Period size: 66 Copynumber: 2.0 Consensus size: 65
25361878 ACAAATTGCT
** * **
25361888 CAACTTAAAGTGGAGGTAGCATCGAGAGAAGCAGAGGC-TCAAGGAAAATATGATGAACTCCAGC
1 CAACTTAAAGCAGAGGTAGCATCGAGAGAAGCAAAGGCAT-AA-GAAAATATGACAAACTCCAGC
25361952 TA
64 TA
*
25361954 CAACTTAAAGCAGAGGTAGCAGT-GAGGGAAGCAAAGGCAATAAGAAAATATGACAAACTCCAGC
1 CAACTTAAAGCAGAGGTAGCA-TCGAGAGAAGCAAAGGC-ATAAGAAAATATGACAAACTCCAGC
25362018 TA
64 TA
25362020 CA
1 CA
25362022 GCTTCAGAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
66 55 0.93
67 3 0.05
68 1 0.02
ACGTcount: A:0.43, C:0.17, G:0.25, T:0.15
Consensus pattern (65 bp):
CAACTTAAAGCAGAGGTAGCATCGAGAGAAGCAAAGGCATAAGAAAATATGACAAACTCCAGCTA
Found at i:25362409 original size:43 final size:42
Alignment explanation
Indices: 25362289--25362472 Score: 179
Period size: 43 Copynumber: 4.3 Consensus size: 42
25362279 TCTGCTAAAG
* * * * *
25362289 TTAGTGGCGTTTTCCCACAAATGCAGCTAAAGAACATAACCT
1 TTAGCGGCGTTTTCCCACAAACGCCGCTAAAGAACATGATCT
* * * * * * **
25362331 TTAGTGGCGTTTTTACTAAAAATGTCATTAAAGAACATGATCT
1 TTAGCGGCG-TTTTCCCACAAACGCCGCTAAAGAACATGATCT
*
25362374 TTAGCGGCGCTTTTCCCACAAACGCCGCTATAGAACATGATCT
1 TTAGCGGCG-TTTTCCCACAAACGCCGCTAAAGAACATGATCT
** *
25362417 TTAGCGGCGTTCTTCCCACAAACTTCGCTAAAGAACATGACCT
1 TTAGCGGCGTT-TTCCCACAAACGCCGCTAAAGAACATGATCT
*
25362460 TTAGCAGCGTTTT
1 TTAGCGGCGTTTT
25362473 TTTATGAGAA
Statistics
Matches: 116, Mismatches: 24, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
42 13 0.11
43 103 0.89
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.30
Consensus pattern (42 bp):
TTAGCGGCGTTTTCCCACAAACGCCGCTAAAGAACATGATCT
Found at i:25362449 original size:86 final size:85
Alignment explanation
Indices: 25362289--25362472 Score: 208
Period size: 86 Copynumber: 2.2 Consensus size: 85
25362279 TCTGCTAAAG
* * * * *
25362289 TTAGTGGCGTTTTCCCACAAATGCAGCTAAAGAACATAACCTTTAGTGGCGTTTTTACTAAAAAT
1 TTAGCGGCGTTTTCCCACAAACGCAGCTAAAGAACATAACCTTTAGCGGCGTTCTTACCAAAAAT
* *
25362354 GTCATTAAAGAACATGATCT
66 GTCACTAAAGAACATGACCT
* * * * *
25362374 TTAGCGGCGCTTTTCCCACAAACGCCGCTATAGAACATGATCTTTAGCGGCGTTCTTCCCACAAA
1 TTAGCGGCG-TTTTCCCACAAACGCAGCTAAAGAACATAACCTTTAGCGGCGTTCTTACCA-AAA
* *
25362439 CT-TCGCTAAAGAACATGACCT
64 ATGTCACTAAAGAACATGACCT
*
25362460 TTAGCAGCGTTTT
1 TTAGCGGCGTTTT
25362473 TTTATGAGAA
Statistics
Matches: 82, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
85 12 0.15
86 66 0.80
87 4 0.05
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.30
Consensus pattern (85 bp):
TTAGCGGCGTTTTCCCACAAACGCAGCTAAAGAACATAACCTTTAGCGGCGTTCTTACCAAAAAT
GTCACTAAAGAACATGACCT
Found at i:25365027 original size:35 final size:35
Alignment explanation
Indices: 25364981--25365054 Score: 139
Period size: 35 Copynumber: 2.1 Consensus size: 35
25364971 GTGTTTTTAA
25364981 GTTGTAACATCTGATATACGAGTTTGGTAATTCAG
1 GTTGTAACATCTGATATACGAGTTTGGTAATTCAG
*
25365016 GTTGTAACATCTGATATACGGGTTTGGTAATTCAG
1 GTTGTAACATCTGATATACGAGTTTGGTAATTCAG
25365051 GTTG
1 GTTG
25365055 GGTAAAAGGT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.26, C:0.11, G:0.26, T:0.38
Consensus pattern (35 bp):
GTTGTAACATCTGATATACGAGTTTGGTAATTCAG
Found at i:25366899 original size:19 final size:19
Alignment explanation
Indices: 25366858--25366900 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
25366848 ATTGAACTTG
* *
25366858 AAAATTGGACCTGAAATCG
1 AAAATTGAACCTGAAATCC
25366877 AAAATTGAACCTGAGAA-CC
1 AAAATTGAACCTGA-AATCC
25366896 AAAAT
1 AAAAT
25366901 CCGAGACTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.19
Consensus pattern (19 bp):
AAAATTGAACCTGAAATCC
Found at i:25367307 original size:31 final size:31
Alignment explanation
Indices: 25367259--25367334 Score: 107
Period size: 31 Copynumber: 2.4 Consensus size: 31
25367249 TAATATGAGA
* * *
25367259 TATTAAATTAAATATTTATTTAGATAGTATTT
1 TATT-AATTTAATATTTATCTAGATAATATTT
*
25367291 TCTTAATTTAATATTTATCTAGATAATATTT
1 TATTAATTTAATATTTATCTAGATAATATTT
25367322 TATTAATTTAATA
1 TATTAATTTAATA
25367335 CTAATGTGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
31 36 0.92
32 3 0.08
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (31 bp):
TATTAATTTAATATTTATCTAGATAATATTT
Found at i:25367333 original size:16 final size:16
Alignment explanation
Indices: 25367286--25367334 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
25367276 ATTTAGATAG
*
25367286 TATTTTCTTAATTTAA
1 TATTTTATTAATTTAA
25367302 TA-TTTATCTAGA--TAA
1 TATTTTAT-TA-ATTTAA
25367317 TATTTTATTAATTTAA
1 TATTTTATTAATTTAA
25367333 TA
1 TA
25367335 CTAATGTGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
14 1 0.04
15 11 0.41
16 14 0.52
17 1 0.04
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (16 bp):
TATTTTATTAATTTAA
Found at i:25375775 original size:9 final size:9
Alignment explanation
Indices: 25375763--25375838 Score: 80
Period size: 9 Copynumber: 8.4 Consensus size: 9
25375753 TTCACTTGGT
*
25375763 TCATCACCG
1 TCATCATCG
*
25375772 TCATCATCA
1 TCATCATCG
25375781 TCATCATCG
1 TCATCATCG
* *
25375790 TCACCATCC
1 TCATCATCG
*
25375799 TCATCATCA
1 TCATCATCG
*
25375808 TCATCATCA
1 TCATCATCG
*
25375817 TCATCATCA
1 TCATCATCG
*
25375826 TCATCATCA
1 TCATCATCG
25375835 TCAT
1 TCAT
25375839 TGGATACATC
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 60 1.00
ACGTcount: A:0.29, C:0.37, G:0.03, T:0.32
Consensus pattern (9 bp):
TCATCATCG
Found at i:25375780 original size:3 final size:3
Alignment explanation
Indices: 25375772--25375838 Score: 107
Period size: 3 Copynumber: 22.3 Consensus size: 3
25375762 TTCATCACCG
* * *
25375772 TCA TCA TCA TCA TCA TCG TCA CCA TCC TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
25375820 TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA T
25375839 TGGATACATC
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.30, C:0.36, G:0.01, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:25377294 original size:39 final size:39
Alignment explanation
Indices: 25377239--25377322 Score: 161
Period size: 39 Copynumber: 2.2 Consensus size: 39
25377229 ATCCGTAACC
25377239 AATGT-TAAAAAAAATGAATATAGAATATAGTCAAGGAG
1 AATGTGTAAAAAAAATGAATATAGAATATAGTCAAGGAG
25377277 AATGTGTAAAAAAAATGAATATAGAATATAGTCAAGGAG
1 AATGTGTAAAAAAAATGAATATAGAATATAGTCAAGGAG
25377316 AATGTGT
1 AATGTGT
25377323 CTGAACAAAC
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
38 5 0.11
39 40 0.89
ACGTcount: A:0.52, C:0.02, G:0.20, T:0.25
Consensus pattern (39 bp):
AATGTGTAAAAAAAATGAATATAGAATATAGTCAAGGAG
Found at i:25382493 original size:2 final size:2
Alignment explanation
Indices: 25382486--25382511 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
25382476 TTAACAGAAT
25382486 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
25382512 TTGCTCAAAA
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:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:25382579 original size:194 final size:190
Alignment explanation
Indices: 25382254--25382652 Score: 579
Period size: 194 Copynumber: 2.1 Consensus size: 190
25382244 TAAATCTACA
* * * *
25382254 GAACACCAAAATCTTCGAAAAACGAATAGAAAATTAATAGAAGCGGAAAAAGAAGAGAGAGTGAT
1 GAACACCAAAATCTTCGAAAAACAAATAGAAAATTAACAGAAGAGGAAAAAGAAGAGAGAGAGAT
25382319 TGATCAAAACCAGTTGCGCTGGAGACGGCTCTTCCTTTCTGCTAGCCATTTTCTGAACAGGAAAA
66 TGATCAAAACCAGTTGCGCTGGAGACGGCTCTTCCTTTCTGCTAGCCATTTTCTGAACAGGAAAA
* *
25382384 TTAAAAATAAATTAACATAAAATATACGTTAAATCACA-ATGTAT-TTCTTCCCTGTTTCT
131 TTAAAAATAAATTAACATAAAATATACATTAAATCACAGA-GTATATTCTTCCATGTTTCT
* *
25382443 GAACACCAAAATCTTCTAAAAACAAATAGAAAATTAACAGAATGAGAGAGAGAGAGAGAGAGAGA
1 GAACACCAAAATCTTCGAAAAACAAATAGAAAATTAACAGAA-GAG-GA-A-AAAGA-AGAGAGA
*
25382508 GAGATTGCTCAAAACCAGTTGCGCTGGAGACGAG-TCTTCCTTTCTGCTAGCCATTTTCTGAACA
61 GAGATTGATCAAAACCAGTTGCGCTGGAGACG-GCTCTTCCTTTCTGCTAGCCATTTTCTGAACA
* * * *
25382572 TGAAAATTAAATATAAATTAACGTAAAATATACATTAAATCACAGAGTATATTTTTCCATGTTTC
125 GGAAAATTAAAAATAAATTAACATAAAATATACATTAAATCACAGAGTATATTCTTCCATGTTTC
25382637 T
190 T
* *
25382638 GGACACCAGAATCTT
1 GAACACCAAAATCTT
25382653 AAAAAAAAAA
Statistics
Matches: 187, Mismatches: 15, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
189 39 0.21
190 2 0.01
191 2 0.01
192 1 0.01
193 4 0.02
194 111 0.59
195 28 0.15
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (190 bp):
GAACACCAAAATCTTCGAAAAACAAATAGAAAATTAACAGAAGAGGAAAAAGAAGAGAGAGAGAT
TGATCAAAACCAGTTGCGCTGGAGACGGCTCTTCCTTTCTGCTAGCCATTTTCTGAACAGGAAAA
TTAAAAATAAATTAACATAAAATATACATTAAATCACAGAGTATATTCTTCCATGTTTCT
Found at i:25383355 original size:10 final size:8
Alignment explanation
Indices: 25383325--25383354 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
25383315 TTTAGCTCTA
25383325 TTTTTATT
1 TTTTTATT
25383333 TTTTTATT
1 TTTTTATT
25383341 TTTTTATCT
1 TTTTTAT-T
25383350 TTTTT
1 TTTTT
25383355 TCTTATGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 15 0.71
9 6 0.29
ACGTcount: A:0.10, C:0.03, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTATT
Found at i:25393983 original size:51 final size:50
Alignment explanation
Indices: 25393907--25394094 Score: 184
Period size: 51 Copynumber: 3.7 Consensus size: 50
25393897 TACCCGGTTG
* * * *
25393907 ACATAGTAGCCTACAAATAGTACTACACATGTGACCATTTTCATCCGATAC
1 ACATAGTAGCCTACACATAGTACTACACACGTGACCA-TATCATCCGGTAC
* * * *
25393958 ACATAGTAGCCTGCACATAGTACTACACGCGTGATCGA-AGCTATCCGGTAC
1 ACATAGTAGCCTACACATAGTACTACACACGTGA-CCATATC-ATCCGGTAC
* * * *
25394009 GCATAGTAGCC-AGCACATAGTACTACACATGCGACC-TATCATTTCGGTAC
1 ACATAGTAGCCTA-CACATAGTACTACACACGTGACCATATCA-TCCGGTAC
* *
25394059 ACGTAGGAGCCTACACATAGTACTACACACGTGACC
1 ACATAGTAGCCTACACATAGTACTACACACGTGACC
25394095 TAGCAACTTC
Statistics
Matches: 110, Mismatches: 21, Indels: 13
0.76 0.15 0.09
Matches are distributed among these distances:
49 1 0.01
50 40 0.36
51 67 0.61
52 2 0.02
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.23
Consensus pattern (50 bp):
ACATAGTAGCCTACACATAGTACTACACACGTGACCATATCATCCGGTAC
Done.