Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold187
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: 2169796
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 45208 characters in sequence are not A, C, G, or T
File 1 of 13
Found at i:685 original size:2 final size:2
Alignment explanation
Indices: 673--707 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
663 TACTTGCTCT
*
673 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
708 TTCATATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1453 original size:78 final size:78
Alignment explanation
Indices: 1324--1477 Score: 283
Period size: 78 Copynumber: 2.0 Consensus size: 78
1314 TTTTAATAAA
*
1324 CCTTAATAATATTATTGAGTATGATCTTGAATAATTTTTAAAAATATTATTTGAACTTGATTCGA
1 CCTTAATAATATTATTAAGTATGATCTTGAATAATTTTTAAAAATATTATTTGAACTTGATTCGA
1389 TCCGTTTCTATAG
66 TCCGTTTCTATAG
1402 CCTTAATAATATTATTAAGTATGATC-TGAATAAATTTTTAAAAATATTATTTGAACTTGATTCG
1 CCTTAATAATATTATTAAGTATGATCTTGAAT-AATTTTTAAAAATATTATTTGAACTTGATTCG
1466 ATCCGTTTCTAT
65 ATCCGTTTCTAT
1478 TCTTATGCAC
Statistics
Matches: 74, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
77 5 0.07
78 69 0.93
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.45
Consensus pattern (78 bp):
CCTTAATAATATTATTAAGTATGATCTTGAATAATTTTTAAAAATATTATTTGAACTTGATTCGA
TCCGTTTCTATAG
Found at i:1680 original size:15 final size:15
Alignment explanation
Indices: 1662--1711 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
1652 TAAATTCACT
1662 TAATTTTAAACTCAA
1 TAATTTTAAACTCAA
* *
1677 TAATCTTAGACTCAA
1 TAATTTTAAACTCAA
*
1692 -AA-TCTAAACTCGAA
1 TAATTTTAAACTC-AA
1706 TAATTT
1 TAATTT
1712 GAATATAAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 5
0.70 0.16 0.14
Matches are distributed among these distances:
13 6 0.23
14 4 0.15
15 15 0.58
16 1 0.04
ACGTcount: A:0.44, C:0.16, G:0.04, T:0.36
Consensus pattern (15 bp):
TAATTTTAAACTCAA
Found at i:2390 original size:43 final size:41
Alignment explanation
Indices: 2326--2481 Score: 116
Period size: 43 Copynumber: 3.7 Consensus size: 41
2316 TCCCAGTCAA
* * *
2326 CCTTTTATCCTTTGTTTACTTGTTGTCTTAGTCTTGAATAAAC
1 CCTTTTATCCTTTATTGACTTGTTGACTTAGTC-T-AATAAAC
* * * * *
2369 CCTTTTATCCTTTATTGACTTGTTGGCTCAATCCTAGTCAAC
1 CCTTTTATCCTTTATTGACTTGTTGACTTAGT-CTAATAAAC
* * ** *
2411 CTTTTTATCCTTTGCTT-ACTTGTCAACTTAGTCTCAAGTAAAT
1 CCTTTTATCCTTT-ATTGACTTGTTGACTTAGTCT-AA-TAAAC
* *
2454 CCTTTTATCCTTTATTGAATTGTCGACT
1 CCTTTTATCCTTTATTGACTTGTTGACT
2482 AAATCTCGAT
Statistics
Matches: 87, Mismatches: 21, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
41 2 0.02
42 30 0.34
43 54 0.62
44 1 0.01
ACGTcount: A:0.20, C:0.22, G:0.11, T:0.47
Consensus pattern (41 bp):
CCTTTTATCCTTTATTGACTTGTTGACTTAGTCTAATAAAC
Found at i:2432 original size:42 final size:41
Alignment explanation
Indices: 2312--2433 Score: 120
Period size: 43 Copynumber: 2.9 Consensus size: 41
2302 ACTCGTCGAT
* * *
2312 TCAATCCCAGTCAACCTTTTATCCTTTGTTTACTTGTTGTC
1 TCAATCCTAGTCAACCTTTTATCCTTTGATTACTTGTTGGC
* * * * *
2353 TTAGTCTTGAATAAACCCTTTTATCCTTT-ATTGACTTGTTGGC
1 TCAATCCT-AGTCAA-CCTTTTATCCTTTGATT-ACTTGTTGGC
*
2396 TCAATCCTAGTCAACCTTTTTATCCTTTGCTTACTTGT
1 TCAATCCTAGTCAACC-TTTTATCCTTTGATTACTTGT
2434 CAACTTAGTC
Statistics
Matches: 62, Mismatches: 14, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
41 6 0.10
42 27 0.44
43 29 0.47
ACGTcount: A:0.19, C:0.24, G:0.11, T:0.47
Consensus pattern (41 bp):
TCAATCCTAGTCAACCTTTTATCCTTTGATTACTTGTTGGC
Found at i:2461 original size:85 final size:85
Alignment explanation
Indices: 2287--2560 Score: 277
Period size: 85 Copynumber: 3.2 Consensus size: 85
2277 CTATGTGTCA
* * * * *
2287 TTTTATCCTTTCTTGACTCGTCGATTCAATCCCAGTCAACC-TTTTATCCTTTGTTTACTTGTTG
1 TTTTATCCTTTATTGACTTGTCGACTCAATCCTAGTCAACCTTTTTATCCTTTGTTTACTTGTCG
* * *
2351 TCTTAGTCTTGAA-TAAACCC
66 ACTTAGTC-TCAAGTAAATCC
* * * *
2371 TTTTATCCTTTATTGACTTGTTGGCTCAATCCTAGTCAACCTTTTTATCCTTTGCTTACTTGTCA
1 TTTTATCCTTTATTGACTTGTCGACTCAATCCTAGTCAACCTTTTTATCCTTTGTTTACTTGTCG
2436 ACTTAGTCTCAAGTAAATCC
66 ACTTAGTCTCAAGTAAATCC
* * * ** **
2456 TTTTATCCTTTATTGAATTGTCGACTAAAT-CTCGATCAAAATTTTTTATCCTTTGTTTACCAGT
1 TTTTATCCTTTATTGACTTGTCGACTCAATCCTAG-TC-AACCTTTTTATCCTTTGTTTACTTGT
* **
2520 CGCCTTAGT-TCTGGGTAAATCC
64 CGACTTAGTCTC-AAGTAAATCC
*
2542 TTTTATCCTTTGTTGACTT
1 TTTTATCCTTTATTGACTT
2561 ATTGGTTTAA
Statistics
Matches: 157, Mismatches: 28, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
84 41 0.26
85 63 0.40
86 53 0.34
ACGTcount: A:0.20, C:0.22, G:0.11, T:0.46
Consensus pattern (85 bp):
TTTTATCCTTTATTGACTTGTCGACTCAATCCTAGTCAACCTTTTTATCCTTTGTTTACTTGTCG
ACTTAGTCTCAAGTAAATCC
Found at i:12228 original size:20 final size:20
Alignment explanation
Indices: 12203--12257 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
12193 CTGCCAGTTT
* *
12203 TATGTATCGATACAATTGAG
1 TATGTATCGATACAATTAAA
12223 TATGTATCGATACAA-TAAA
1 TATGTATCGATACAATTAAA
*
12242 CATGTATCGATACAAT
1 TATGTATCGATACAAT
12258 GTATCGATAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.33
Consensus pattern (20 bp):
TATGTATCGATACAATTAAA
Found at i:12261 original size:13 final size:13
Alignment explanation
Indices: 12243--12268 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12233 TACAATAAAC
12243 ATGTATCGATACA
1 ATGTATCGATACA
12256 ATGTATCGATACA
1 ATGTATCGATACA
12269 GAGCATAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:13902 original size:20 final size:21
Alignment explanation
Indices: 13867--13908 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
13857 TTCAAGAATT
*
13867 CATTTATTTCCATAAATTTTC
1 CATTTATTTCCATAAAATTTC
*
13888 CATTT-TTTCCTTAAAATTTC
1 CATTTATTTCCATAAAATTTC
13908 C
1 C
13909 TTAATTTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.26, C:0.21, G:0.00, T:0.52
Consensus pattern (21 bp):
CATTTATTTCCATAAAATTTC
Found at i:14237 original size:4 final size:5
Alignment explanation
Indices: 14211--14239 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
14201 ATTTTTGAAA
14211 ATTTT ATTTT ATTTT ATTTT A-TTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
14240 TTCTAACTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
ATTTT
Found at i:14240 original size:15 final size:15
Alignment explanation
Indices: 14211--14239 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
14201 ATTTTTGAAA
14211 ATTTTATTTTATTTT
1 ATTTTATTTTATTTT
14226 ATTTTA-TTTATTTT
1 ATTTTATTTTATTTT
14240 TTCTAACTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (15 bp):
ATTTTATTTTATTTT
Found at i:18512 original size:27 final size:24
Alignment explanation
Indices: 18482--18535 Score: 72
Period size: 27 Copynumber: 2.1 Consensus size: 24
18472 GAGAGAAAGG
18482 AAGAAAGAAAAAAAACACTGAAAAAAA
1 AAGAAAGAAAAAAAA-A--GAAAAAAA
*
18509 AAGAAGGAAAAAAAAAGAAAAAAA
1 AAGAAAGAAAAAAAAAGAAAAAAA
18533 AAG
1 AAG
18536 TAAATGGGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 11 0.42
26 1 0.04
27 14 0.54
ACGTcount: A:0.80, C:0.04, G:0.15, T:0.02
Consensus pattern (24 bp):
AAGAAAGAAAAAAAAAGAAAAAAA
Found at i:18525 original size:14 final size:14
Alignment explanation
Indices: 18501--18527 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18491 AAAAAACACT
18501 GAAAAAAAAAGAAG
1 GAAAAAAAAAGAAG
18515 GAAAAAAAAAGAA
1 GAAAAAAAAAGAA
18528 AAAAAAAGTA
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:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (14 bp):
GAAAAAAAAAGAAG
Found at i:19546 original size:108 final size:109
Alignment explanation
Indices: 19329--19812 Score: 297
Period size: 97 Copynumber: 4.7 Consensus size: 109
19319 AGAATTTAAC
* * * *
19329 TGCATTGATTACGTAGTATTCAGGCACCAAAGGATTGGCCCCAAAATATATCATGGTCTAGAGTC
1 TGCATTAATTACGTAGTATTCAGGCACCAAAAGATTGGCCCCAAAATAGATCATCGTCTAGAGTC
* * * *
19394 GTAAAGTGACGTAGAATGCCCTTTATATAAGACAATTCATTTTT
66 ATAAAATGACATAGAACGCCCTTTATATAAGACAATTCATTTTT
* * * * *
19438 TGCATTAATTATGTAG-ATTCTGGCACCAAAAGATTGGCCGCAAAATAGATCTTCGTTTAGAGTC
1 TGCATTAATTACGTAGTATTCAGGCACCAAAAGATTGGCCCCAAAATAGATCATCGTCTAGAGTC
* * *
19502 ATAAAATGGCATAGGAACGCCTTTTATATAAGGCAATTCATTTTTT
66 ATAAAATGACATA-GAACGCCCTTTATATAAGACAATTCA-TTTTT
* * * * *
19548 TGC-------A--TAG-ATTCAGGCACCAAAAAATTGG-TCCGAAATAGATCTTCATCTAGAGTC
1 TGCATTAATTACGTAGTATTCAGGCACCAAAAGATTGGCCCCAAAATAGATCATCGTCTAGAGTC
* * * **
19602 AT-AAA-G-CGTACGAACGTCATTTATATAAGACAATTTTTTTTTT
66 ATAAAATGACATA-GAACGCCCTTTATATAAGACAA-TTCATTTTT
* * ** * * * *
19645 TGCATAAATT-CG-AG----CA-G---CAAAAGATTAGCTTCGAAATAGGTCATCATTTAGAGTC
1 TGCATTAATTACGTAGTATTCAGGCACCAAAAGATTGGCCCCAAAATAGATCATCGTCTAGAGTC
* * * * * *
19700 ATAAAGTGACGTACGAATGTCTTTTATATAGGACAATTC---TTT
66 ATAAAATGACATA-GAACGCCCTTTATATAAGACAATTCATTTTT
* * * * * * *
19742 TGCATTAATTACATAG-ATTCGGGCACCAAAAGATTGGTCTCGAAATAGGTCATTGTCTAGAGTC
1 TGCATTAATTACGTAGTATTCAGGCACCAAAAGATTGGCCCCAAAATAGATCATCGTCTAGAGTC
19806 ATAAAAT
66 ATAAAAT
19813 CATGTATGAC
Statistics
Matches: 299, Mismatches: 51, Indels: 53
0.74 0.13 0.13
Matches are distributed among these distances:
97 51 0.17
98 28 0.09
99 7 0.02
100 27 0.09
101 48 0.16
102 1 0.00
103 2 0.01
104 2 0.01
106 38 0.13
108 50 0.17
109 37 0.12
110 8 0.03
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (109 bp):
TGCATTAATTACGTAGTATTCAGGCACCAAAAGATTGGCCCCAAAATAGATCATCGTCTAGAGTC
ATAAAATGACATAGAACGCCCTTTATATAAGACAATTCATTTTT
Found at i:19643 original size:97 final size:97
Alignment explanation
Indices: 19451--19810 Score: 330
Period size: 97 Copynumber: 3.6 Consensus size: 97
19441 ATTAATTATG
* * *
19451 TAGATTCTGGCACCAAAAGATTGG-CCGCAAAATAGATCTTCGTTTAGAGTCATAAAATGGCATA
1 TAGATTC-GGCACCAAAAGATTGGTCCG--AAATAGATCTTCATCTAGAGTCAT-AAA-GGCGTA
* * * **
19515 GGAACGCCTTTTATATAAGGCAATTCATTTTTTTGCA
61 CGAACGTCTTTTATATAAGACAATTTTTTTTTTTGCA
*
19552 TAGATTCAGGCACCAAAAAATTGGTCCGAAATAGATCTTCATCTAGAGTCATAAA-GCGTACGAA
1 TAGATTC-GGCACCAAAAGATTGGTCCGAAATAGATCTTCATCTAGAGTCATAAAGGCGTACGAA
*
19616 CGTCATTTATATAAGACAATTTTTTTTTTTGCA
65 CGTCTTTTATATAAGACAATTTTTTTTTTTGCA
* * * * * * *
19649 TAAATTCGAGCAGCAAAAGATTAGCTTCGAAATAGGTCATCATTTAGAGTCATAAAGTGACGTAC
1 TAGATTCG-GCACCAAAAGATT-GGTCCGAAATAGATCTTCATCTAGAGTCATAAAG-G-CGTAC
* * * *
19714 GAATGTCTTTTATATAGGACAATTCTTTTGCATTAATTACA
62 GAACGTCTTTTATATAAGACAATT-TTTT---TT-TTTGCA
* *
19755 TAGATTCGGGCACCAAAAGATTGGTCTCGAAATAGGTCATT-GTCTAGAGTCATAAA
1 TAGATTC-GGCACCAAAAGATTGGTC-CGAAATAGATC-TTCATCTAGAGTCATAAA
19811 ATCATGTATG
Statistics
Matches: 214, Mismatches: 31, Indels: 23
0.80 0.12 0.09
Matches are distributed among these distances:
96 1 0.00
97 52 0.24
98 28 0.13
99 3 0.01
100 23 0.11
101 48 0.22
102 7 0.03
105 4 0.02
106 46 0.21
107 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (97 bp):
TAGATTCGGCACCAAAAGATTGGTCCGAAATAGATCTTCATCTAGAGTCATAAAGGCGTACGAAC
GTCTTTTATATAAGACAATTTTTTTTTTTGCA
Found at i:19828 original size:106 final size:101
Alignment explanation
Indices: 19451--19850 Score: 332
Period size: 106 Copynumber: 3.9 Consensus size: 101
19441 ATTAATTATG
* * * * * *
19451 TAGATTCTGGCACCAAAAGATTGGCCGCAAAATAGATCTTCGTTTAGAGTCATAAAATGGCA-TA
1 TAGATTCGGGCACCAAAAGATTGGTCTCGAAATAGATCTTCATCTAGAGTCATAAAAT--CAGTA
* * * *
19515 GGAACGCCTTTTATATAAGG-CAATTCATTTTT-TTGCA
64 CGAACGTCTTTTATAT-AGGACAATTCTTTTTTATTACA
* * *
19552 TAGATTCAGGCACCAAAAAATTGGTC-CGAAATAGATCTTCATCTAGAGTCAT-AAAGC-GTACG
1 TAGATTCGGGCACCAAAAGATTGGTCTCGAAATAGATCTTCATCTAGAGTCATAAAATCAGTACG
* * * *
19614 AACGTCATTTATATAAGACAATT-TTTTTTTTTGCA
66 AACGTCTTTTATATAGGACAATTCTTTTTTATTACA
* * * * * * * * *
19649 TAAATTCGAGCAGCAAAAGATTAG-CTTCGAAATAGGTCATCATTTAGAGTCATAAAGTGACGTA
1 TAGATTCGGGCACCAAAAGATTGGTC-TCGAAATAGATCTTCATCTAGAGTCATAAAATCA-GTA
*
19713 CGAATGTCTTTTATATAGGACAATTCTTTTGCATTAATTACA
64 CGAACGTCTTTTATATAGGACAATTCTTTT---TT-ATTACA
* *
19755 TAGATTCGGGCACCAAAAGATTGGTCTCGAAATAGGTCATT-GTCTAGAGTCATAAAATCATGTA
1 TAGATTCGGGCACCAAAAGATTGGTCTCGAAATAGATC-TTCATCTAGAGTCATAAAATCA-GTA
* * * * *
19819 TGACCGTCTTTTATATGGGAAAATTCATTTTT
64 CGAACGTCTTTTATATAGGACAATTCTTTTTT
19851 CGCATAAAGT
Statistics
Matches: 239, Mismatches: 45, Indels: 28
0.77 0.14 0.09
Matches are distributed among these distances:
96 8 0.03
97 44 0.18
98 23 0.10
99 5 0.02
100 23 0.10
101 48 0.20
102 4 0.02
103 2 0.01
105 2 0.01
106 78 0.33
107 2 0.01
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (101 bp):
TAGATTCGGGCACCAAAAGATTGGTCTCGAAATAGATCTTCATCTAGAGTCATAAAATCAGTACG
AACGTCTTTTATATAGGACAATTCTTTTTTATTACA
Found at i:26996 original size:440 final size:440
Alignment explanation
Indices: 26169--27047 Score: 1623
Period size: 440 Copynumber: 2.0 Consensus size: 440
26159 CAAAATGCAC
*
26169 TCAAACGCATGGACATCTTTAAAGCATGTTAAAATAAAATTATAACATTAAGATATATGACAAAT
1 TCAAACGCATGGACATCTTCAAAGCATGTTAAAATAAAATTATAACATTAAGATATATGACAAAT
26234 CATGGAGCTAAACATTGAAAATGAAAGAAACAGTGGTTGTTTTAATATGAGTAAGGAAAAATGCT
66 CATGGAGCTAAACATTGAAAATGAAAGAAACAGTGGTTGTTTTAATATGAGTAAGGAAAAATGCT
* *
26299 ATTTTTAATTATTCAAGCAACATTAAGGCATCATTAAAGCGTCAAGAAAATCAATATCATCATAA
131 ATTTTTAATTATTCAAGCAACATTAAGGCACCATTAAAGCATCAAGAAAATCAATATCATCATAA
* *
26364 ATAAGACCCTAAAATGCATGAATATCCTACTAGGAGTACTGGTTTCATAACTATATATGGCTTAC
196 ATAAGACCCTAAAATGCATGAATATCCTACTAGAACTACTGGTTTCATAACTATATATGGCTTAC
*
26429 TAAGATGAAATGATGAAGAGAATGAAAGAAAACAAAGAATTAATGGATAAGATTATACCAAGAAG
261 TAAGATGAAATGATGAAGAGAATGAAAGAAAACAAAGAATTAATGGATAAGAATATACCAAGAAG
*
26494 CTTCAAAACCTTACCTTTTGTTTTTTGCTGAAAAATCTCCAAGCTTTTAATGGATCTTTTGCTCA
326 CTTCAAAACCTTACCTTTTGTTTTTTGCTGAAAAATCTCCAAGCTTTCAATGGATCTTTTGCTCA
*
26559 CTTTCTTTCCTTTCTTTGTATAGATTAGTAAGAAGAAAAAGTTAAAAATA
391 CTTTCTTTCCTTTCTTTGTATAAATTAGTAAGAAGAAAAAGTTAAAAATA
*
26609 TCAAATGCATGGACATCTTCAAAGCATGTTAAAATAAAATTATAACATTAAGATATATGACAAAT
1 TCAAACGCATGGACATCTTCAAAGCATGTTAAAATAAAATTATAACATTAAGATATATGACAAAT
*
26674 CATGGAGCTAAACATTGAAAATGAAAGAAATAGTGGTTGTTTTAATATGAGTAAGGAAAAATGCT
66 CATGGAGCTAAACATTGAAAATGAAAGAAACAGTGGTTGTTTTAATATGAGTAAGGAAAAATGCT
26739 ATTTTTAATTATTCAAGCAACATTAAGGCACCATTAAAGCATCAAGAAAATCAATATCATCATAA
131 ATTTTTAATTATTCAAGCAACATTAAGGCACCATTAAAGCATCAAGAAAATCAATATCATCATAA
*
26804 ATAAGACCTTAAAATGCATGAATATCCTACTAGAACTACTGGTTTCATAACTATATATGGCTTAC
196 ATAAGACCCTAAAATGCATGAATATCCTACTAGAACTACTGGTTTCATAACTATATATGGCTTAC
*
26869 TAAGATGAAATGATGAAGAGAATGAAAGAAAACAAAGAGTTAATGGATAAGAATATACCAAGAAG
261 TAAGATGAAATGATGAAGAGAATGAAAGAAAACAAAGAATTAATGGATAAGAATATACCAAGAAG
* *
26934 CTTCAGAACCTTACCTTTTGTTTTTTGCTGAAAAATCTCCAAGCTTTCAATGGATTTTTTGCTCA
326 CTTCAAAACCTTACCTTTTGTTTTTTGCTGAAAAATCTCCAAGCTTTCAATGGATCTTTTGCTCA
*
26999 CTTTCTTTCCTTTCTTTGTATAAATTAGTAAGAAGGAAAAGTTAAAAAT
391 CTTTCTTTCCTTTCTTTGTATAAATTAGTAAGAAGAAAAAGTTAAAAAT
27048 GAGCCTCAAA
Statistics
Matches: 424, Mismatches: 15, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
440 424 1.00
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (440 bp):
TCAAACGCATGGACATCTTCAAAGCATGTTAAAATAAAATTATAACATTAAGATATATGACAAAT
CATGGAGCTAAACATTGAAAATGAAAGAAACAGTGGTTGTTTTAATATGAGTAAGGAAAAATGCT
ATTTTTAATTATTCAAGCAACATTAAGGCACCATTAAAGCATCAAGAAAATCAATATCATCATAA
ATAAGACCCTAAAATGCATGAATATCCTACTAGAACTACTGGTTTCATAACTATATATGGCTTAC
TAAGATGAAATGATGAAGAGAATGAAAGAAAACAAAGAATTAATGGATAAGAATATACCAAGAAG
CTTCAAAACCTTACCTTTTGTTTTTTGCTGAAAAATCTCCAAGCTTTCAATGGATCTTTTGCTCA
CTTTCTTTCCTTTCTTTGTATAAATTAGTAAGAAGAAAAAGTTAAAAATA
Found at i:27871 original size:22 final size:21
Alignment explanation
Indices: 27845--27891 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
27835 GATTATCTAG
27845 AGATAACTAATTAATAATTATA
1 AGATAACTAATT-ATAATTATA
27867 AGATAACTAATTATAATTATA
1 AGATAACTAATTATAATTATA
27888 AGAT
1 AGAT
27892 GTGTTTGGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 13 0.52
22 12 0.48
ACGTcount: A:0.53, C:0.04, G:0.06, T:0.36
Consensus pattern (21 bp):
AGATAACTAATTATAATTATA
Found at i:28555 original size:20 final size:21
Alignment explanation
Indices: 28532--28586 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
28522 ACAATTCAAA
* *
28532 GTATCGATACATGTTACA-AT
1 GTATCGATACATGTAAAATAT
*
28552 GTATCGATACATGAAAAATAT
1 GTATCGATACATGTAAAATAT
28573 GTATCGATACATGT
1 GTATCGATACATGT
28587 CATTGGGATT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (21 bp):
GTATCGATACATGTAAAATAT
Found at i:28652 original size:13 final size:13
Alignment explanation
Indices: 28634--28659 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
28624 TACACCAAGT
28634 ATGTATCGATACA
1 ATGTATCGATACA
28647 ATGTATCGATACA
1 ATGTATCGATACA
28660 CCAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:28678 original size:34 final size:32
Alignment explanation
Indices: 28616--28680 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
28606 TAGCCAAACT
**
28616 TGTATCGATACACCAAGTATGTATCGATACAA
1 TGTATCGATACACCAAAAATGTATCGATACAA
28648 TGTATCGATACACCAAAAAATTGTATCGATACA
1 TGTATCGATACACC-AAAAA-TGTATCGATACA
28681 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 14 0.48
33 3 0.10
34 12 0.41
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACCAAAAATGTATCGATACAA
Found at i:31502 original size:156 final size:157
Alignment explanation
Indices: 31183--31503 Score: 393
Period size: 156 Copynumber: 2.1 Consensus size: 157
31173 TTTGAGTTAT
* * * * *
31183 TGATTTTCTTTTGAAATTCCCATGTTTTCAAATTACGAGATTTTCTTCTCCGTAAAATTTTTTGG
1 TGATTTT-TCTTGAAATTCCCATGTTTTCAAATTACGAGATTTTCTACTCCATAAAATTTTTCGA
* * * * *
31248 GAGGATTTTTCTTAGTTTTTAATTTTTAAAATTTATAAAATATTATTCTTTAATTTATATTAAAT
65 AAGGATTTTTCTTAGCTTTTAATTTTTAAAATTCATAAAATATTATTATTTAATTTATAGTAAAT
*
31313 CAATTTTCAAAAATTCATTGATATTTAA
130 CAATTTTCAAAAATTCATTCATATTTAA
* *
31341 T-ATTTTTCTTGAAATTCTCTTGTTTTCGAAA-TAC-AGAGTTTTCTACTCCAT-AAATGTTTTC
1 TGATTTTTCTTGAAATTCCCATGTTTTC-AAATTACGAGA-TTTTCTACTCCATAAAAT-TTTTC
* *
31402 GAAAGGATTTTTCTTGGCTTTTAATTTTTGAAATTCATAAAATATTATTATTT-ATTTCATAGTA
63 GAAAGGATTTTTCTTAGCTTTTAATTTTTAAAATTCATAAAATATTATTATTTAATTT-ATAGTA
* * *
31466 AATCATTTTTCAATAATTCATTCAT-TTTCA
127 AATCAATTTTCAAAAATTCATTCATATTTAA
31496 TGATTTTT
1 TGATTTTT
31504 TCATTTTTTC
Statistics
Matches: 140, Mismatches: 18, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
155 16 0.11
156 115 0.82
157 8 0.06
158 1 0.01
ACGTcount: A:0.30, C:0.11, G:0.08, T:0.51
Consensus pattern (157 bp):
TGATTTTTCTTGAAATTCCCATGTTTTCAAATTACGAGATTTTCTACTCCATAAAATTTTTCGAA
AGGATTTTTCTTAGCTTTTAATTTTTAAAATTCATAAAATATTATTATTTAATTTATAGTAAATC
AATTTTCAAAAATTCATTCATATTTAA
Found at i:31663 original size:166 final size:166
Alignment explanation
Indices: 31376--31678 Score: 355
Period size: 166 Copynumber: 1.8 Consensus size: 166
31366 TCGAAATACA
* * * *
31376 GAGTTTTCTACTCCATAAATGTTTTCGAAAGGATTTTTCTTGGCTTTTAATTTTTGAAATTCATA
1 GAGTTTTCTACTCCATAAATGTTTTCGAAAGGATTTTTCTTCGATTTAAATTTTTAAAATTCATA
* * * * * **
31441 AAATATTATTATTTATTTCATAGTAAATCATTTTTCAATAATTCATTCATTTTCATGATTTTTTC
66 AAATATTATCATTAAATTCACAGTAAATCATTTTTCAATAATTCATTCATTTTCATGAATTTTGA
31506 ATTTTTTCCTTGAAATTTTCTTATTTTTTAAAATCT
131 ATTTTTTCCTTGAAATTTTCTTATTTTTTAAAATCT
* * **
31542 GAGTTTTCTACTCCGTAAATTTTTTCGGGAGGATTTTTC-TCGATTTAAAATTTTTAAAATTCAT
1 GAGTTTTCTACTCCATAAATGTTTTCGAAAGGATTTTTCTTCGATTT-AAATTTTTAAAATTCAT
** * *
31606 CTAATATTGTCATTAAATTCACATTAAATCAATTTTGT-AA-AATTCAAATT-A-TTTCATGAAT
65 AAAATATTATCATTAAATTCACAGTAAATC-ATTTT-TCAATAATTC--ATTCATTTTCATGAAT
31667 TTTGAATTTTTT
126 TTTGAATTTTTT
31679 TGTATATATT
Statistics
Matches: 113, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
165 5 0.04
166 96 0.85
167 8 0.07
168 4 0.04
ACGTcount: A:0.30, C:0.11, G:0.08, T:0.50
Consensus pattern (166 bp):
GAGTTTTCTACTCCATAAATGTTTTCGAAAGGATTTTTCTTCGATTTAAATTTTTAAAATTCATA
AAATATTATCATTAAATTCACAGTAAATCATTTTTCAATAATTCATTCATTTTCATGAATTTTGA
ATTTTTTCCTTGAAATTTTCTTATTTTTTAAAATCT
Found at i:32206 original size:24 final size:24
Alignment explanation
Indices: 32161--32207 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
32151 CTGACAAAAA
*
32161 AAAAAAGACAGAAAAGAGAGAAAG
1 AAAAAAGACAAAAAAGAGAGAAAG
*
32185 AAAAAAGAGAAAAATAGA-AGAAA
1 AAAAAAGACAAAAA-AGAGAGAAA
32208 ATAGGAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.74, C:0.02, G:0.21, T:0.02
Consensus pattern (24 bp):
AAAAAAGACAAAAAAGAGAGAAAG
Found at i:36120 original size:79 final size:77
Alignment explanation
Indices: 36036--36453 Score: 357
Period size: 78 Copynumber: 5.4 Consensus size: 77
36026 CCTCTAATAG
* * * *
36036 TGAAAAATTGATATTTTAAATATAAAAATAGGGGTTAGAGTATCCCTTTGAAAATAACAAGGTTG
1 TGAAAAATTAATATTTTAAA-ATAAAAATA-GGGTTGGAGTATCCCTTTGAAAATAATAGGGTTG
***
36101 GAGTATCTTTGAGA
64 GAGTATCCCCGAGA
* *
36115 TGAAAAATTTAATATTTTGAAAATAAAAATGGGGTTGGAGTATCCC-TTAAAAATAATAGGGTTG
1 TGAAAAA-TTAATATTTT-AAAATAAAAATAGGGTTGGAGTATCCCTTTGAAAATAATAGGGTTG
* *
36179 GAGTATTCTCGCA-A
64 GAGTATCCCCG-AGA
* * * * * * * *
36193 TGAAAATTTTAATATTTTGAAAA-CAAAA-A-CG--GGAGTATCCCCTCGAAATTGATGGGGTTG
1 TGAAAA-ATTAATATTTT-AAAATAAAAATAGGGTTGGAGTATCCCTTTGAAAATAATAGGGTTG
36253 GAGTATCCCCGAGA
64 GAGTATCCCCGAGA
** * * * *
36267 TGAAAAATCGATTTTTTAGAAGA-AAAAATAGGGTTGGAGTATCCCTTTGGAATTGATAGGGTTG
1 TGAAAAATTAATATTTTA-AA-ATAAAAATAGGGTTGGAGTATCCCTTTGAAAATAATAGGGTTG
36331 GAGTATCCCCGAGA
64 GAGTATCCCCGAGA
* * *** *
36345 TGAAAATTTTAATATTTTTGAAATAAAAATAGGGTTGGAGTATCCCTCCAAAAATAACAGGGTTG
1 TGAAAA-ATTAATA-TTTTAAAATAAAAATAGGGTTGGAGTATCCCTTTGAAAATAATAGGGTTG
*
36410 GAATATCCCCGAGA
64 GAGTATCCCCGAGA
* *
36424 TGAAAAATTGATATTTCTAGAAAGAAAAAT
1 TGAAAAATTAATATTT-TA-AAATAAAAAT
36454 TTAGAAATTT
Statistics
Matches: 275, Mismatches: 47, Indels: 34
0.77 0.13 0.10
Matches are distributed among these distances:
72 1 0.00
73 20 0.07
74 34 0.12
75 2 0.01
76 1 0.00
77 7 0.03
78 97 0.35
79 89 0.32
80 21 0.08
81 3 0.01
ACGTcount: A:0.39, C:0.10, G:0.21, T:0.30
Consensus pattern (77 bp):
TGAAAAATTAATATTTTAAAATAAAAATAGGGTTGGAGTATCCCTTTGAAAATAATAGGGTTGGA
GTATCCCCGAGA
Found at i:38195 original size:2 final size:2
Alignment explanation
Indices: 38183--38225 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
38173 ATTAGGTAAT
*
38183 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
38225 T
1 T
38226 GACAAATTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:41236 original size:18 final size:20
Alignment explanation
Indices: 41215--41251 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
41205 CCAAAAGTTG
41215 TTTTG-TTTTT-ATTTTTTT
1 TTTTGATTTTTCATTTTTTT
41233 TTTTGATTTTTCATTTTTT
1 TTTTGATTTTTCATTTTTT
41252 CATAACTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 5 0.29
20 7 0.41
ACGTcount: A:0.08, C:0.03, G:0.05, T:0.84
Consensus pattern (20 bp):
TTTTGATTTTTCATTTTTTT
Found at i:42152 original size:29 final size:29
Alignment explanation
Indices: 41992--42938 Score: 513
Period size: 28 Copynumber: 33.4 Consensus size: 29
41982 CACTAACTTA
* * * *
41992 TGTGGACTTTGAAAAAAGTTGCCACCGACTT
1 TGTGGGCTTTG-AAAAGGATGCCACTGAC-T
* **
42023 GTGTGGGCTTTGAAAAGGGTGCCACTGGTT
1 -TGTGGGCTTTGAAAAGGATGCCACTGACT
** * **
42053 TGTAAGCTTTGAAAAAAGAATTGCCACCAACTT
1 TGTGGGCTTTG--AAAAGGA-TGCCACTGAC-T
*
42086 ATGTGGGCTTTGAAAAGG-TGCCACCGACT
1 -TGTGGGCTTTGAAAAGGATGCCACTGACT
* * * * *
42115 TATGAGCTTTTAAAAGGATGCAACTAACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* *
42144 TATGGGCTTTGAAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
42173 TGTGGGCTTTTG-AAAGGATGCCACTGACT
1 TGTGGGC-TTTGAAAAGGATGCCACTGACT
*
42202 TGTGGGCTTTGAAAA-GATGCCACTGTCT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
*
42230 TGTGGGCTTTGAAAAGG-TGCCACCGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* *
42258 TGTGGGCTTT-AAAATGATGCCACGGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* *
42286 TGTGGGCTTTGAAAA-GATGCCACTAATT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* * *
42314 TGTGGGCTTTG-GAAGCG-TGCCACCGATT
1 TGTGGGCTTTGAAAAG-GATGCCACTGACT
* * * *
42342 TGTATGGGCTTTGAAAAAAGTTGCCACCGATTT
1 TG--TGGGCTTTG-AAAAGGATGCCACTGA-CT
* *
42375 ATGTGGACTTTGAAAAGAGTTG-C-C-GACT
1 -TGTGGGCTTTGAAAAG-GATGCCACTGACT
* *
42403 TATGGGCTTTG-AAATGATGCCA-TGGACT
1 TGTGGGCTTTGAAAAGGATGCCACT-GACT
42431 TGTGGGCTTTG-AAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
*
42459 TGTGGGCTTTGAAATA-GA-GCCACTAACT
1 TGTGGGCTTTGAAA-AGGATGCCACTGACT
*
42487 TGTGGGCTTTGAAATGGA-GCCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* *
42515 TGTGGGCTTTG-AAATGATGCTACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* *
42543 TATGGGCTTTG-AAAGGATGCCATTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* * * * *
42571 TATGGGCTTTG-CAATGATTCCACGGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* * * *
42599 TGTGGACTTT-AAACGG-TGCCACAGAGT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* * * * *
42626 TGTGGAC-TT-AAAAGGGTGTCACGGAGT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* * *
42653 TGTGGAC-TT-AAATAGG-TGCCACGGAGT
1 TGTGGGCTTTGAAA-AGGATGCCACTGACT
* * * * * *
42680 TATGGAC-CT-AAAAGGGTGCCACAGAGT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* * * * * *
42707 GGTGGACTTTAAAAAGG-TGCTACGGAGT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* * *
42735 TGTGGAC-TTAAAAAGG-TGCCAC-GAAGT
1 TGTGGGCTTTGAAAAGGATGCCACTG-ACT
* * * *
42762 TATGGAC-TT-AAAAGGATGCCACGGAGT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
** * *
42789 TGTGAACTTT-AAAAGGATGCCACGGAGT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* * * *
42817 TATGGAC-TT-AAAAGGATGCCACGGAGT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* * * *
42844 TATGGACTTT-AAAAGGATGCCACGGAGT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* * * * *
42872 TGTGGAC-TT-AAAAAGATACCACGGAGT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* * *
42899 TGTAGAC-TT-AAAAGGATGCCACTGAAT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
*
42926 TGTGGACTTTGAA
1 TGTGGGCTTTGAA
42939 GAGGTCACAG
Statistics
Matches: 770, Mismatches: 102, Indels: 89
0.80 0.11 0.09
Matches are distributed among these distances:
25 3 0.00
26 21 0.03
27 203 0.26
28 340 0.44
29 97 0.13
30 25 0.03
31 23 0.03
32 44 0.06
33 3 0.00
34 11 0.01
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (29 bp):
TGTGGGCTTTGAAAAGGATGCCACTGACT
Found at i:42628 original size:27 final size:27
Alignment explanation
Indices: 42590--42935 Score: 380
Period size: 27 Copynumber: 12.7 Consensus size: 27
42580 TGCAATGATT
* *
42590 CCACGGACTTGTGGACTTTAAACGGTG
1 CCACGGAGTTGTGGACTTTAAAAGGTG
*
42617 CCACAGAGTTGTGGAC-TTAAAAGGGTG
1 CCACGGAGTTGTGGACTTTAAAA-GGTG
*
42644 TCACGGAGTTGTGGAC-TTAAATAGGTG
1 CCACGGAGTTGTGGACTTTAAA-AGGTG
* *
42671 CCACGGAGTTATGGAC-CTAAAAGGGTG
1 CCACGGAGTTGTGGACTTTAAAA-GGTG
* *
42698 CCACAGAGTGGTGGACTTTAAAAAGGTG
1 CCACGGAGTTGTGGACTTT-AAAAGGTG
* *
42726 CTACGGAGTTGTGGACTTAAAAAGGTG
1 CCACGGAGTTGTGGACTTTAAAAGGTG
* *
42753 CCACGAAGTTATGGAC-TTAAAAGGATG
1 CCACGGAGTTGTGGACTTTAAAAGG-TG
*
42780 CCACGGAGTTGTGAACTTTAAAAGGATG
1 CCACGGAGTTGTGGACTTTAAAAGG-TG
*
42808 CCACGGAGTTATGGAC-TTAAAAGGATG
1 CCACGGAGTTGTGGACTTTAAAAGG-TG
*
42835 CCACGGAGTTATGGACTTTAAAAGGATG
1 CCACGGAGTTGTGGACTTTAAAAGG-TG
* * *
42863 CCACGGAGTTGTGGACTTAAAAAGATA
1 CCACGGAGTTGTGGACTTTAAAAGGTG
*
42890 CCACGGAGTTGTAGAC-TTAAAAGGATG
1 CCACGGAGTTGTGGACTTTAAAAGG-TG
* *
42917 CCACTGAATTGTGGACTTT
1 CCACGGAGTTGTGGACTTT
42936 GAAGAGGTCA
Statistics
Matches: 273, Mismatches: 36, Indels: 19
0.83 0.11 0.06
Matches are distributed among these distances:
26 19 0.07
27 169 0.62
28 81 0.30
29 4 0.01
ACGTcount: A:0.31, C:0.15, G:0.30, T:0.24
Consensus pattern (27 bp):
CCACGGAGTTGTGGACTTTAAAAGGTG
Found at i:42741 original size:55 final size:53
Alignment explanation
Indices: 42590--42934 Score: 404
Period size: 55 Copynumber: 6.3 Consensus size: 53
42580 TGCAATGATT
* * * *
42590 CCACGGACTTGTGGACTTTAAACGGTGCCACAGAGTTGTGGACTTAAAAGGGTG
1 CCACGGAGTTGTGGAC-TTAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGATG
* * * *
42644 TCACGGAGTTGTGGACTTAAATAGGTGCCACGGAGTTATGGACCTAAAAGGGTG
1 CCACGGAGTTGTGGACTTAAA-AGGTGCCACGGAGTTGTGGACTTAAAAGGATG
* * *
42698 CCACAGAGTGGTGGACTTTAAAAAGGTGCTACGGAGTTGTGGACTTAAAAAGG-TG
1 CCACGGAGTTGTGGAC-TT-AAAAGGTGCCACGGAGTTGTGGACTT-AAAAGGATG
* * *
42753 CCACGAAGTTATGGACTTAAAAGGATGCCACGGAGTTGTGAACTTTAAAAGGATG
1 CCACGGAGTTGTGGACTTAAAAGG-TGCCACGGAGTTGTGGAC-TTAAAAGGATG
* *
42808 CCACGGAGTTATGGACTTAAAAGGATGCCACGGAGTTATGGACTTTAAAAGGATG
1 CCACGGAGTTGTGGACTTAAAAGG-TGCCACGGAGTTGTGGAC-TTAAAAGGATG
* * *
42863 CCACGGAGTTGTGGACTTAAAAAGATACCACGGAGTTGTAGACTTAAAAGGATG
1 CCACGGAGTTGTGGACTT-AAAAGGTGCCACGGAGTTGTGGACTTAAAAGGATG
* *
42917 CCACTGAATTGTGGACTT
1 CCACGGAGTTGTGGACTT
42935 TGAAGAGGTC
Statistics
Matches: 255, Mismatches: 28, Indels: 16
0.85 0.09 0.05
Matches are distributed among these distances:
53 11 0.04
54 106 0.42
55 124 0.49
56 14 0.05
ACGTcount: A:0.31, C:0.15, G:0.30, T:0.24
Consensus pattern (53 bp):
CCACGGAGTTGTGGACTTAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGATG
Found at i:42755 original size:82 final size:81
Alignment explanation
Indices: 42590--42934 Score: 426
Period size: 82 Copynumber: 4.2 Consensus size: 81
42580 TGCAATGATT
* * * * *
42590 CCACGGACTTGTGGACTTTAAACGG-TGCCACAGAGTTGTGGACTTAAAAGGGTGTCACGGAGTT
1 CCACGGAGTTATGGAC-TTAAAAGGATGCCACAGAGTTGTGGACTTAAAAAGGTGCCACGGAGTT
42654 GTGGACTTAAATAGG-TG
65 GTGGACTTAAA-AGGATG
* * * *
42671 CCACGGAGTTATGGACCTAAAAGGGTGCCACAGAGTGGTGGACTTTAAAAAGGTGCTACGGAGTT
1 CCACGGAGTTATGGACTTAAAAGGATGCCACAGAGTTGTGGAC-TTAAAAAGGTGCCACGGAGTT
42736 GTGGACTTAAAAAGG-TG
65 GTGGACTT-AAAAGGATG
* * * *
42753 CCACGAAGTTATGGACTTAAAAGGATGCCACGGAGTTGTGAACTTTAAAAGGATGCCACGGAGTT
1 CCACGGAGTTATGGACTTAAAAGGATGCCACAGAGTTGTGGACTTAAAAAGG-TGCCACGGAGTT
*
42818 ATGGACTTAAAAGGATG
65 GTGGACTTAAAAGGATG
* * *
42835 CCACGGAGTTATGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAAGATACCACGGAGTT
1 CCACGGAGTTATGGAC-TTAAAAGGATGCCACAGAGTTGTGGACTTAAAAAGGTGCCACGGAGTT
*
42900 GTAGACTTAAAAGGATG
65 GTGGACTTAAAAGGATG
* * *
42917 CCACTGAATTGTGGACTT
1 CCACGGAGTTATGGACTT
42935 TGAAGAGGTC
Statistics
Matches: 231, Mismatches: 27, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
80 6 0.03
81 47 0.20
82 142 0.61
83 36 0.16
ACGTcount: A:0.31, C:0.15, G:0.30, T:0.24
Consensus pattern (81 bp):
CCACGGAGTTATGGACTTAAAAGGATGCCACAGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTG
TGGACTTAAAAGGATG
Found at i:44268 original size:22 final size:21
Alignment explanation
Indices: 44220--44291 Score: 67
Period size: 23 Copynumber: 3.3 Consensus size: 21
44210 TCATGTCCTT
*
44220 ATTTTTTTATTTTTG-TTGTTCC
1 ATTTTTTTA-TTTTGCTT-TTGC
44242 ATTTTTTTATTTTGCTTTTGC
1 ATTTTTTTATTTTGCTTTTGC
* *
44263 ACTTTTTTTTGTTTTTCTTTT-C
1 A--TTTTTTTATTTTGCTTTTGC
44285 ATTTTTT
1 ATTTTTT
44292 GTGCTTTTGC
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
20 6 0.14
21 9 0.20
22 13 0.30
23 16 0.36
ACGTcount: A:0.08, C:0.10, G:0.07, T:0.75
Consensus pattern (21 bp):
ATTTTTTTATTTTGCTTTTGC
Found at i:44269 original size:23 final size:23
Alignment explanation
Indices: 44243--44313 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 23
44233 TGTTGTTCCA
44243 TTTTTTTATTTTGCTTTTGCACT
1 TTTTTTTATTTTGCTTTTGCACT
* *
44266 TTTTTTTGTTTTTCTTTT-CA-T
1 TTTTTTTATTTTGCTTTTGCACT
** *
44287 TTTTTGTGCTTTTGCTTTCG-ACT
1 TTTTT-TTATTTTGCTTTTGCACT
44310 TTTT
1 TTTT
44314 CATCATTTTG
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
21 6 0.15
22 12 0.31
23 21 0.54
ACGTcount: A:0.06, C:0.13, G:0.10, T:0.72
Consensus pattern (23 bp):
TTTTTTTATTTTGCTTTTGCACT
Found at i:44272 original size:45 final size:44
Alignment explanation
Indices: 44221--44313 Score: 109
Period size: 45 Copynumber: 2.1 Consensus size: 44
44211 CATGTCCTTA
* *
44221 TTTTTTTATTTTTGTTGTTCCATTTTTT-T-ATTTTGCTTTTGCACT
1 TTTTTTTATTTTTCTT-TT-CATTTTTTGTGATTTTGCTTTCG-ACT
* *
44266 TTTTTTTGTTTTTCTTTTCATTTTTTGTGCTTTTGCTTTCGACT
1 TTTTTTTATTTTTCTTTTCATTTTTTGTGATTTTGCTTTCGACT
44310 TTTT
1 TTTT
44314 CATCATTTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
43 8 0.19
44 10 0.24
45 24 0.57
ACGTcount: A:0.06, C:0.12, G:0.10, T:0.72
Consensus pattern (44 bp):
TTTTTTTATTTTTCTTTTCATTTTTTGTGATTTTGCTTTCGACT
Found at i:48364 original size:17 final size:16
Alignment explanation
Indices: 48338--48369 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
48328 TGCTAGCTAT
48338 GTTTGACTTGACATTG
1 GTTTGACTTGACATTG
48354 GTTTCGACTTGACATT
1 GTTT-GACTTGACATT
48370 TGTTCAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.19, C:0.16, G:0.22, T:0.44
Consensus pattern (16 bp):
GTTTGACTTGACATTG
Found at i:50055 original size:2 final size:2
Alignment explanation
Indices: 50048--50081 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
50038 GGAGATTTTC
50048 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
50082 CAAATAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:51856 original size:34 final size:32
Alignment explanation
Indices: 51753--51869 Score: 123
Period size: 34 Copynumber: 3.6 Consensus size: 32
51743 GAGTAAGGGT
*
51753 TGACAAGGGTGAAACCATAAAAGTCAACTAAGAA
1 TGACTAGGGTGAAACCAT-AAAGTCAACTAAG-A
* ** *
51787 TGACTAGGAG-GAAACC-T-AAGTCAAATGGGT
1 TGACTAGG-GTGAAACCATAAAGTCAACTAAGA
51817 TGACTAGGGTGAAACCATAATAGTCAACTAAAGA
1 TGACTAGGGTGAAACCATAA-AGTCAACT-AAGA
51851 TGACTAGGGTGAAACCATA
1 TGACTAGGGTGAAACCATA
51870 GTTTGATGGG
Statistics
Matches: 68, Mismatches: 9, Indels: 12
0.76 0.10 0.13
Matches are distributed among these distances:
29 1 0.01
30 14 0.21
31 10 0.15
32 1 0.01
33 8 0.12
34 33 0.49
35 1 0.01
ACGTcount: A:0.43, C:0.15, G:0.24, T:0.19
Consensus pattern (32 bp):
TGACTAGGGTGAAACCATAAAGTCAACTAAGA
Found at i:51894 original size:64 final size:64
Alignment explanation
Indices: 51749--51907 Score: 182
Period size: 64 Copynumber: 2.5 Consensus size: 64
51739 CTTTGAGTAA
* *
51749 GGGTTGACAAGGGTGAAACCATAAAAGTCAACTAAGAATGACTAGGAGGAAACCTAAGTCAAAT
1 GGGTTGACCAGGGTGAAACCATAATAGTCAACTAAGAATGACTAGGAGGAAACCTAAGTCAAAT
* ***
51813 GGGTTGACTAGGGTGAAACCATAATAGTCAACTAA-AGATGACTAGG-GTGAAACC-ATAGTTTG
1 GGGTTGACCAGGGTGAAACCATAATAGTCAACTAAGA-ATGACTAGGAG-GAAACCTA-AGTCAA
51875 AT
63 AT
* *
51877 GGGTTGACGCA-GTTGAAACCATAATGGTCAA
1 GGGTTGAC-CAGGGTGAAACCATAATAGTCAA
51908 AAAAAGGTTG
Statistics
Matches: 83, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
63 3 0.04
64 79 0.95
65 1 0.01
ACGTcount: A:0.38, C:0.14, G:0.26, T:0.21
Consensus pattern (64 bp):
GGGTTGACCAGGGTGAAACCATAATAGTCAACTAAGAATGACTAGGAGGAAACCTAAGTCAAAT
Found at i:55461 original size:13 final size:13
Alignment explanation
Indices: 55443--55467 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55433 ACACAAAGTA
55443 TGTATCGATACAT
1 TGTATCGATACAT
55456 TGTATCGATACA
1 TGTATCGATACA
55468 CCAAAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:55467 original size:32 final size:33
Alignment explanation
Indices: 55423--55490 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
55413 GTAGCCAAAC
**
55423 TTGTATCAATACA-CAAAGTATGTATCGATACA
1 TTGTATCAATACACCAAAAAATGTATCGATACA
*
55455 TTGTATCGATACACCAAAAAATGTATCGATACA
1 TTGTATCAATACACCAAAAAATGTATCGATACA
55488 TTG
1 TTG
55491 GCTTGTAACG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 12 0.38
33 20 0.62
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.31
Consensus pattern (33 bp):
TTGTATCAATACACCAAAAAATGTATCGATACA
Found at i:58851 original size:41 final size:41
Alignment explanation
Indices: 58806--58888 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
58796 TCCCTGAAGA
58806 TAAACTCAAGAAAATATTTAATAACAAAGAGCAAACTTGAG
1 TAAACTCAAGAAAATATTTAATAACAAAGAGCAAACTTGAG
*
58847 TAAACTCATGAAAATATTTAATAACAAAGAGCAAACTTGAG
1 TAAACTCAAGAAAATATTTAATAACAAAGAGCAAACTTGAG
58888 T
1 T
58889 TTTTAATGAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.52, C:0.12, G:0.12, T:0.24
Consensus pattern (41 bp):
TAAACTCAAGAAAATATTTAATAACAAAGAGCAAACTTGAG
Found at i:59191 original size:105 final size:104
Alignment explanation
Indices: 58852--59261 Score: 376
Period size: 106 Copynumber: 3.9 Consensus size: 104
58842 TTGAGTAAAC
* ** * * * * *
58852 TCATGAAAATATTTAATAACAAAGAGCAAACTTGAGTTTTTAATGAAGGACGGGGTTAGAGTATC
1 TCATGAAAATATTTAAGAACAAA-AAAAAATTTGATTTTTTTATGAAGAACGGGGTTAGAGTATT
* ** ** * *
58917 CCTTCGGAGTAGTATGGTTAAAGTTTGGCC-GAAGTTGAGAA
65 CC-TCGAAGTAGTGGGGTTGGAGTTT-CCCTGAAGTAGAGAA
* ** * * * *
58958 TTACAAAAATATTTAAGAACAAAAAGAAAATTTGATTTTTTTTTGAAGAATGAGGTTGGAGTATA
1 TCATGAAAATATTTAAGAACAAAAA-AAAATTTGATTTTTTTATGAAGAACGGGGTTAGAGTAT-
* * * *
59023 CCCTTGAAGTAGTGGGGTTAGAGTTTCCCTGAAGTCGAGAA
64 TCCTCGAAGTAGTGGGGTTGGAGTTTCCCTGAAGTAGAGAA
* * *
59064 TTATGAAAATATATAAGAACAAACAAAAAATTTGATTTTTTTATGAAGAACGGGGCTAGAGTATT
1 TCATGAAAATATTTAAGAACAAA-AAAAAATTTGATTTTTTTATGAAGAACGGGGTTAGAGTATT
* * * *
59129 GCCTCGGA-TAGTGAGGTTGGAGTTTTCTTGAAGTTAG-GAA
65 -CCTCGAAGTAGTGGGGTTGGAGTTTCCCTGAAG-TAGAGAA
* * *
59169 TCATGAGAATATTTAAGAACAAAGAGAAAATTTGATTCTTTTATGAAGAACGGGGTTAGAGTATC
1 TCATGAAAATATTTAAGAACAAA-AAAAAATTTGATTTTTTTATGAAGAACGGGGTTAGAGTAT-
*
59234 TCCTCGAAGTTGTGGGGTTGGAGTTTCC
64 TCCTCGAAGTAGTGGGGTTGGAGTTTCC
59262 TCAAAGTTGT
Statistics
Matches: 248, Mismatches: 48, Indels: 16
0.79 0.15 0.05
Matches are distributed among these distances:
105 90 0.36
106 153 0.62
107 5 0.02
ACGTcount: A:0.35, C:0.09, G:0.24, T:0.31
Consensus pattern (104 bp):
TCATGAAAATATTTAAGAACAAAAAAAAATTTGATTTTTTTATGAAGAACGGGGTTAGAGTATTC
CTCGAAGTAGTGGGGTTGGAGTTTCCCTGAAGTAGAGAA
Found at i:59268 original size:25 final size:27
Alignment explanation
Indices: 59220--59271 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 27
59210 TATGAAGAAC
*
59220 GGGGTTAGAGTATCTCCTCGAAGTTGT
1 GGGGTTAGAGTATCTCCTCAAAGTTGT
*
59247 GGGGTTGGAGT-T-TCCTCAAAGTTGT
1 GGGGTTAGAGTATCTCCTCAAAGTTGT
59272 AAATTTTGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 12 0.52
26 1 0.04
27 10 0.43
ACGTcount: A:0.17, C:0.13, G:0.35, T:0.35
Consensus pattern (27 bp):
GGGGTTAGAGTATCTCCTCAAAGTTGT
Found at i:61519 original size:93 final size:93
Alignment explanation
Indices: 61360--61545 Score: 345
Period size: 93 Copynumber: 2.0 Consensus size: 93
61350 ATTGACAGCT
* *
61360 TGCATAATGTCATAACATATCTCTTGTTTTTTGCTATTTGGGTCTTAAAATTTTGTTTAAATTTC
1 TGCATAATGTCATAAAATATCTCTTGTTTTTTGCTATTTGGGTCTCAAAATTTTGTTTAAATTTC
61425 ATTATAAGCCCAAAGAAAAAGCCTGGTA
66 ATTATAAGCCCAAAGAAAAAGCCTGGTA
*
61453 TGCATAATGTCATAAAATATCTCTTGTTTTTTGTTATTTGGGTCTCAAAATTTTGTTTAAATTTC
1 TGCATAATGTCATAAAATATCTCTTGTTTTTTGCTATTTGGGTCTCAAAATTTTGTTTAAATTTC
61518 ATTATAAGCCCAAAGAAAAAGCCTGGTA
66 ATTATAAGCCCAAAGAAAAAGCCTGGTA
61546 CTTTTTTTTA
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 90 1.00
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.41
Consensus pattern (93 bp):
TGCATAATGTCATAAAATATCTCTTGTTTTTTGCTATTTGGGTCTCAAAATTTTGTTTAAATTTC
ATTATAAGCCCAAAGAAAAAGCCTGGTA
Found at i:63149 original size:73 final size:73
Alignment explanation
Indices: 62373--63149 Score: 519
Period size: 73 Copynumber: 10.7 Consensus size: 73
62363 TGCCACTAAC
* * * * * * * * *
62373 TTGTGTAGGCTTTATAGTAGGTAAGAAAAGGCATCCAGCTCTTCGTGGACAAAGGTAGACAGGTG
1 TTGTGTGGGCTTTGTGGTAGGTAAGAAAAAGCATCCTGCTCTTTGAGGACTAAGGTAGATAGGTG
*
62438 CCACAAGT
66 CCACCAGT
* * * * * *
62446 TTGTGTGAGC-TTGTGGTAGGTAAG-AAAAGGAGTCCAGCTCTTTGTGGACTCAGGTTGATAGGT
1 TTGTGTGGGCTTTGTGGTAGGTAAGAAAAAGCA-TCCTGCTCTTTGAGGACTAAGGTAGATAGGT
*
62509 GCCACCAGC
65 GCCACCAGT
* * * * ** * * *
62518 TTGTATGGGCTATGAGGTAGGCAAGAAAAAGTGTCTTGCT-TTCTGAGGACTGA-GTAAATAGGT
1 TTGTGTGGGCTTTGTGGTAGGTAAGAAAAAGCATCCTGCTCTT-TGAGGACTAAGGTAGATAGGT
**
62581 GCCATTAG-
65 GCCACCAGT
* * * * *
62589 CTGTGTGAGCTTTGTAGTAGGT--GAAAAA-TATGTCTAGCTCTTT-ATGGACTAAGGTAGATAG
1 TTGTGTGGGCTTTGTGGTAGGTAAGAAAAAGCAT-CCT-GCTCTTTGA-GGACTAAGGTAGATAG
*
62650 GTGCCACTAGT
63 GTGCCACCAGT
* * * * *
62661 TTGTGTGGGCTTTGTGATAGGTAAGAAAAAGCATCATACTCTTTAAGGACTGAGGTAGATAGGTG
1 TTGTGTGGGCTTTGTGGTAGGTAAGAAAAAGCATCCTGCTCTTTGAGGACTAAGGTAGATAGGTG
*
62726 CCACCAGC
66 CCACCAGT
* * * * * * *
62734 TTATGTGGGCTTTGTAGTAAGTAAGAAAAGGCAT-CTAACT-TTTCATGGAATAAGGTAGATAGG
1 TTGTGTGGGCTTTGTGGTAGGTAAGAAAAAGCATCCT-GCTCTTTGA-GGACTAAGGTAGATAGG
*
62797 TGCCACCAAT
64 TGCCACCAGT
* * * ** ** * * * * **
62807 TTGTATAGGCGTTGTGGTAGGTCAA-AAAAAGTGTTTTACTTTTTCAGGACTAAGATAGATAAAT
1 TTGTGTGGGCTTTGTGGTAGGT-AAGAAAAAGCATCCTGCTCTTTGAGGACTAAGGTAGATAGGT
**
62871 GCCATTAGT
65 GCCACCAGT
* ** * * *
62880 TTGTGTGGGCTTTATGGTAGG-AAGAAAAAAGCATTATACTCTATGAGGACTGAGGTAGATAGGT
1 TTGTGTGGGCTTTGTGGTAGGTAAG-AAAAAGCATCCTGCTCTTTGAGGACTAAGGTAGATAGGT
62944 GCCACCAGT
65 GCCACCAGT
* * * * * * * * * *
62953 TTGGGTGGACTTTGTAGTGGGTAAG--AAAGGAGT-CTAGCTCTTTGTGTACTTAGGTAAATAAG
1 TTGTGTGGGCTTTGTGGTAGGTAAGAAAAAGCA-TCCT-GCTCTTTGAGGACTAAGGTAGATAGG
*
63015 TGCCACCAGC
64 TGCCACCAGT
** * * * *
63025 TTGTGTGGGCTTTGAAGTAGGTAAGAAAAAACGTCTTG-T-TATTCATGGACTAAGGTAGATAGG
1 TTGTGTGGGCTTTGTGGTAGGTAAGAAAAAGCATCCTGCTCT-TTGA-GGACTAAGGTAGATAGG
63088 TGCCACCAGT
64 TGCCACCAGT
* *
63098 TTGTGTGAGCTTTGTGGTAGGTAAGAAAAAGCATCCTGCTCTTTGAAGACTA
1 TTGTGTGGGCTTTGTGGTAGGTAAGAAAAAGCATCCTGCTCTTTGAGGACTA
63150 GAAGAAAATA
Statistics
Matches: 539, Mismatches: 134, Indels: 62
0.73 0.18 0.08
Matches are distributed among these distances:
68 2 0.00
69 8 0.01
70 10 0.02
71 47 0.09
72 145 0.27
73 292 0.54
74 32 0.06
75 3 0.01
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (73 bp):
TTGTGTGGGCTTTGTGGTAGGTAAGAAAAAGCATCCTGCTCTTTGAGGACTAAGGTAGATAGGTG
CCACCAGT
Found at i:64641 original size:13 final size:13
Alignment explanation
Indices: 64623--64648 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
64613 GTAGCCAAAC
64623 TTGTATCGATACA
1 TTGTATCGATACA
64636 TTGTATCGATACA
1 TTGTATCGATACA
64649 CCATAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:64689 original size:10 final size:10
Alignment explanation
Indices: 64671--64705 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
64661 TCGATACATT
*
64671 GGCTTGTAAC
1 GGCTAGTAAC
64681 GGCTAGTAAC
1 GGCTAGTAAC
64691 GGCTAGTAAC
1 GGCTAGTAAC
64701 GGCTA
1 GGCTA
64706 TATTTTCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (10 bp):
GGCTAGTAAC
Found at i:65408 original size:21 final size:21
Alignment explanation
Indices: 65375--65415 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
65365 CTAAGTAAAA
65375 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
65396 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
65416 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:65481 original size:21 final size:20
Alignment explanation
Indices: 65452--65508 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
65442 AAAACCCTGA
**
65452 AAAGTATCGATACACATTTT
1 AAAGTATCGATACACATTGC
*
65472 AAATGTATCGATACAGATTGC
1 AAA-GTATCGATACACATTGC
*
65493 ATAGTATCGATACACA
1 AAAGTATCGATACACA
65509 CAAATATGTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (20 bp):
AAAGTATCGATACACATTGC
Found at i:65579 original size:53 final size:53
Alignment explanation
Indices: 65496--65632 Score: 220
Period size: 53 Copynumber: 2.6 Consensus size: 53
65486 AGATTGCATA
* *
65496 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGGACACTAGCAGTAGCCAAATTT
**
65550 GTATCGATACACACAATATGTATCGATACAGGTTACTAGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACACTAGCAGTAGCCAAATTT
*
65603 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
65633 TTGGTAGTAG
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
53 64 0.82
54 14 0.18
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACACTAGCAGTAGCCAAATTT
Found at i:65741 original size:13 final size:13
Alignment explanation
Indices: 65723--65773 Score: 93
Period size: 13 Copynumber: 3.9 Consensus size: 13
65713 TCACTATTCA
*
65723 TGTATCGATACAT
1 TGTATCGATACAG
65736 TGTATCGATACAG
1 TGTATCGATACAG
65749 TGTATCGATACAG
1 TGTATCGATACAG
65762 TGTATCGATACA
1 TGTATCGATACA
65774 TCATAAATAG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 37 1.00
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:71255 original size:20 final size:20
Alignment explanation
Indices: 71232--71304 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
71222 TCAATTCAAA
71232 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
71252 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
71273 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
71293 GTATCGATACAT
1 GTATCGATACAT
71305 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:71276 original size:21 final size:21
Alignment explanation
Indices: 71250--71325 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
71240 ACATGTTGCA
71250 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
71271 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
71291 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
71312 ATGTATCGATACAT
1 ATGTATCGATACAT
71326 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:71282 original size:41 final size:41
Alignment explanation
Indices: 71232--71325 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
71222 TCAATTCAAA
*
71232 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
71273 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
71314 GTATCGATACAT
1 GTATCGATACAT
71326 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:71382 original size:13 final size:13
Alignment explanation
Indices: 71364--71389 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
71354 TACAGCAAGT
71364 ATGTATCGATACA
1 ATGTATCGATACA
71377 ATGTATCGATACA
1 ATGTATCGATACA
71390 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:73639 original size:21 final size:21
Alignment explanation
Indices: 73606--73650 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
73596 TTGCAAGTTG
*
73606 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
73628 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
73648 AAA
1 AAA
73651 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:75475 original size:15 final size:15
Alignment explanation
Indices: 75455--75485 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
75445 TAAAAATGTC
*
75455 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
75470 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
75485 C
1 C
75486 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:77525 original size:20 final size:20
Alignment explanation
Indices: 77499--77576 Score: 75
Period size: 20 Copynumber: 3.6 Consensus size: 20
77489 AATGTCCAAA
77499 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATGTTTCT
* *
77519 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACA--T-G--TTTCT
*
77544 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATGTTTCT
*
77564 TTGTATCGATACA
1 ATGTATCGATACA
77577 ATGTATCGAT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
20 28 0.60
22 1 0.02
23 2 0.04
25 16 0.34
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATGTTTCT
Found at i:77583 original size:13 final size:13
Alignment explanation
Indices: 77565--77602 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
77555 CATTTTTCTT
77565 TGTATCGATACAA
1 TGTATCGATACAA
*
77578 TGTATCGATACAC
1 TGTATCGATACAA
77591 TGTATCGATACA
1 TGTATCGATACA
77603 GGGTGTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:80054 original size:20 final size:20
Alignment explanation
Indices: 80031--80103 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
80021 TCAATTCAAA
80031 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
80051 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
80072 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
80092 GTATCGATACAT
1 GTATCGATACAT
80104 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:80075 original size:21 final size:21
Alignment explanation
Indices: 80049--80124 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
80039 ACATGTTGCA
80049 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
80070 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
80090 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
80111 ATGTATCGATACAT
1 ATGTATCGATACAT
80125 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:80081 original size:41 final size:41
Alignment explanation
Indices: 80031--80124 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
80021 TCAATTCAAA
*
80031 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
80072 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
80113 GTATCGATACAT
1 GTATCGATACAT
80125 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:80181 original size:13 final size:13
Alignment explanation
Indices: 80163--80188 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
80153 TACAGCAAGT
80163 ATGTATCGATACA
1 ATGTATCGATACA
80176 ATGTATCGATACA
1 ATGTATCGATACA
80189 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:82256 original size:13 final size:13
Alignment explanation
Indices: 82238--82285 Score: 87
Period size: 13 Copynumber: 3.7 Consensus size: 13
82228 CATTCTTTGC
82238 ATCGATACATTGT
1 ATCGATACATTGT
82251 ATCGATACATTGT
1 ATCGATACATTGT
*
82264 ATCGATACACTGT
1 ATCGATACATTGT
82277 ATCGATACA
1 ATCGATACA
82286 GGGGGATTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (13 bp):
ATCGATACATTGT
Found at i:84186 original size:22 final size:22
Alignment explanation
Indices: 84160--84205 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
84150 CGAATTTGTG
84160 AAAATTACCTTATTAAGGGGGA
1 AAAATTACCTTATTAAGGGGGA
** *
84182 AAAATTATTTTTTTAAGGGGGA
1 AAAATTACCTTATTAAGGGGGA
84204 AA
1 AA
84206 GAAAAGAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.41, C:0.04, G:0.22, T:0.33
Consensus pattern (22 bp):
AAAATTACCTTATTAAGGGGGA
Found at i:84884 original size:31 final size:33
Alignment explanation
Indices: 84825--84904 Score: 146
Period size: 31 Copynumber: 2.5 Consensus size: 33
84815 TACACAAAGT
84825 ATGTATCGATACATTGTATTGATACACCATAAA
1 ATGTATCGATACATTGTATTGATACACCATAAA
84858 ATGTATCGATACATTGTA-T-ATACACCATAAA
1 ATGTATCGATACATTGTATTGATACACCATAAA
84889 ATGTATCGATACATTG
1 ATGTATCGATACATTG
84905 GCTTGTAACG
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
31 28 0.60
32 1 0.02
33 18 0.38
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (33 bp):
ATGTATCGATACATTGTATTGATACACCATAAA
Found at i:86523 original size:10 final size:10
Alignment explanation
Indices: 86508--86540 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
86498 TAGAATGGGG
86508 AGAGAAAAAA
1 AGAGAAAAAA
86518 AGAGAAAAAA
1 AGAGAAAAAA
86528 AGA-AAAAACA
1 AGAGAAAAA-A
86538 AGA
1 AGA
86541 AAAGAGATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 5 0.23
10 17 0.77
ACGTcount: A:0.79, C:0.03, G:0.18, T:0.00
Consensus pattern (10 bp):
AGAGAAAAAA
Found at i:91412 original size:175 final size:170
Alignment explanation
Indices: 91044--91418 Score: 427
Period size: 169 Copynumber: 2.2 Consensus size: 170
91034 CCACTGTGCA
* * * *
91044 GATTCAAGGCCTGCCACACTGGACTTAAAGATGATGAGGATGAAGAGCGATAAAAGGACCAATAC
1 GATTCAAGGCCAGCCACATTGGACTTAAAGATGAAGAGGATGAAAAGCGATAAAAGGACCAATAC
91109 GTTGATTCACGGCCAACGATATTGGGTTCAAAGATGAGAAAAAGGATAAAAGAGCCAATATGCGG
66 GTTGATTCACGGCCAACGATATTGGGTTCAAAGATGAGAAAAAGGATAAAAGAGCCAATATGCGG
* * * *
91174 CTAGCGATATTGGACTTAAAGATAAAGGTGCCAATGTGCT
131 CCAGCGACATTGAACTTAAAGATAAAGGTGCCAATATGCT
* * * *
91214 GATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGA-GAAAAGTGATAAAGATG-CCAATA
1 GATTCAAGGCCAGCCACATTGGACTTAAAGATGAAGAGGATGAAAAGCGATAAA-AGGACCAATA
* * * * **
91277 TGTTGATTCACGGCCAACGATATTGGGCTT-AAAGATGATGAAAAAGGATGTCAATGTGCTGAT-
65 CGTTGATTCACGGCCAACGATATTGGG-TTCAAAGATGA-GAAAAAGGA--TAAAAGAGCCAATA
* *
91340 T-CAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCGATATGCT
126 TGC--GGCCAGCGACATTGAACTTAAAGAT---AAAGGTGCCAATATGCT
* *
91389 GATTCAAGGCCAGCTATATTGGACTTAAAG
1 GATTCAAGGCCAGCCACATTGGACTTAAAG
91419 GTGCCAATGT
Statistics
Matches: 173, Mismatches: 22, Indels: 15
0.82 0.10 0.07
Matches are distributed among these distances:
169 51 0.29
170 49 0.28
171 1 0.01
172 29 0.17
175 43 0.25
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (170 bp):
GATTCAAGGCCAGCCACATTGGACTTAAAGATGAAGAGGATGAAAAGCGATAAAAGGACCAATAC
GTTGATTCACGGCCAACGATATTGGGTTCAAAGATGAGAAAAAGGATAAAAGAGCCAATATGCGG
CCAGCGACATTGAACTTAAAGATAAAGGTGCCAATATGCT
Found at i:91537 original size:49 final size:49
Alignment explanation
Indices: 91328--92682 Score: 1646
Period size: 49 Copynumber: 28.7 Consensus size: 49
91318 AAAAGGATGT
*
91328 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* * *
91380 CGATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
91423 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
91471 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
91520 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
91569 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT--A-A--AA-GTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
91612 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
91661 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
91704 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
91753 CAATATGCTGATTCAAGGCCAGCAACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* * * *
91805 CGATATGCTGATTCAAGGCTAGCTATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
91848 CAATGTGCTGATTCAAGGCCAGCTTCATTGGACTTAAAGGTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
91896 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
91945 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
91994 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
92037 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
92086 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
92129 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * * *
92178 CAATATGCTGATTCAAGGCCATCAATATTGGAC------ATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
92221 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
92270 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
92319 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
92362 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
92411 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
92454 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
92503 CAATATGCTGATTCAAGGCCAGCAATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
92546 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
92595 CAATGTGCTGAGTCAAGGCTAGCTACATTGGACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* * *
92647 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
92683 GAAGGGTTGC
Statistics
Matches: 1122, Mismatches: 113, Indels: 136
0.82 0.08 0.10
Matches are distributed among these distances:
43 375 0.33
44 1 0.00
45 7 0.01
46 2 0.00
47 7 0.01
48 96 0.09
49 528 0.47
50 1 0.00
52 105 0.09
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:91647 original size:141 final size:135
Alignment explanation
Indices: 91328--92687 Score: 1601
Period size: 141 Copynumber: 9.7 Consensus size: 135
91318 AAAAGGATGT
* *
91328 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCGATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAATATGCTGATT
91393 CAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
63 CAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
91458 AAAGGTGAGGTGC
128 AAA----A-GTGC
* *
91471 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
* * * *
91536 GGCCAGCTACATTGGACTTAAAGATGATGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGA
66 GGCCAGCTATATTGGACTT-AA-A-G--G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGA
91601 CTTAAAAGTGC
125 CTTAAAAGTGC
* *
91612 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
*
91677 GGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA
66 GGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT--A
91742 GATGAAGATGC
129 -A--AAG-TGC
* * * *
91753 CAATATGCTGATTCAAGGCCAGCAACATTGAACTTAAAGATGGAAAAGGTGCCGATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAATATGCTGATT
* *
91818 CAAGGCTAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTTCATTGGACTT
63 CAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
91883 AAAGGTGAGGTGC
128 AAA----A-GTGC
* *
91896 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
* * * *
91961 GGCCAGCTACATTGGACTTAAAGATGATGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGA
66 GGCCAGCTATATTGGACTT-AA-A-G--G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGA
*
92026 CTTAAAGGTGC
125 CTTAAAAGTGC
92037 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
*
92102 GGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA
66 GGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT--A
92167 GATGAAGATGC
129 -A--AAG-TGC
* * * * * *
92178 CAATATGCTGATTCAAGGCCATCAATATTGGAC------ATAAAGGTGCCAATGTGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
* *
92237 GGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGA
66 GGCCAGCTATATTGGAC-T-----TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGA
92302 CTTAAAGATGATGATGC
125 CTT-AA-A--A-G-TGC
* * * *
92319 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCAATGTGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
* * * *
92378 GGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGA
66 GGCCAGCTATATTGGACTT----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGA
*
92443 CTTAAAGGTGC
125 CTTAAAAGTGC
*
92454 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
*
92519 GGCCAGCAATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA
66 GGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT---
92584 GATAAAGGTGC
128 -A-AAA-GTGC
* *
92595 CAATGTGCTGAGTCAAGGCTAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAATATGCTGATT
*
92660 CAAGGCCAGCTATATTGGGCTTAGAAGG
63 CAAGGCCAGCTATATTGGACTTA-AAGG
92688 GTTGCCATCG
Statistics
Matches: 1073, Mismatches: 79, Indels: 128
0.84 0.06 0.10
Matches are distributed among these distances:
135 184 0.17
136 4 0.00
137 3 0.00
138 6 0.01
139 8 0.01
140 92 0.09
141 482 0.45
142 8 0.01
143 85 0.08
144 120 0.11
145 6 0.01
146 75 0.07
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (135 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
GGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA
AGTGC
Found at i:92633 original size:92 final size:92
Alignment explanation
Indices: 91319--92633 Score: 1528
Period size: 92 Copynumber: 14.0 Consensus size: 92
91309 AGATGATGAA
* * *
91319 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCGAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAAT
*
91384 ATGCTGATTCAAGGCCAGCTATATTGGACTT
62 ATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
91415 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGCCAATGTGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
91479 TGATTCAAGGCCAGCTACATTGGACTT
66 TGATTCAAGGCCAGCTACATTGGACTT
* * *
91506 AAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCA
1 ----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCA
* *
91571 ATATGCTGATTCAAGGCCAGCGATATTGGACTT
60 ATATGCTGATTCAAGGCCAGCTACATTGGACTT
* * *
91604 AAAAGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* *
91669 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCTACATTGGACTT
*
91696 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* *
91761 TGATTCAAGGCCAGCAACATTGAACTTAAAGAT
66 TGATTCAAGGCCAGCTACATTGGAC-T-----T
* * * * *
91794 GGAAAAGGTGCCGATATGCTGATTCAAGGCTAGCTATATTGGACTT----A--AAGGTGCCAATG
1 ---AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATA
*
91853 TGCTGATTCAAGGCCAGCTTCATTGGACTT
63 TGCTGATTCAAGGCCAGCTACATTGGACTT
91883 AAAGGTGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAA
1 -AA----AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAA
* *
91948 TGTGCTGAGTCAAGGCCAGCTACATTGGACTT
61 TATGCTGATTCAAGGCCAGCTACATTGGACTT
* * *
91980 AAAGATGATGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCA
1 -AA-A-G--G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCA
*
92039 ATGTGCTGATTCAAGGCCAGCTACATTGGACTT
60 ATATGCTGATTCAAGGCCAGCTACATTGGACTT
* * *
92072 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCA
1 ----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCA
*
92131 ATGTGCTGATTCAAGGCCAGCTACATTGGACTT
60 ATATGCTGATTCAAGGCCAGCTACATTGGACTT
* * * * *
92164 AAAGATGAAGATGCCAATATGCTGATTCAAGGCCATCAATATTGGAC------ATAAAGGTGCCA
1 -AA-A-G--G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCA
*
92223 ATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
60 ATATGCTGATTCAAGGCCAGCTACATTGGAC-T-----T
* * *
92262 AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* *
92327 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCTACATTGGACTT
92354 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* *
92419 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCTACATTGGACTT
*
92446 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* *
92511 TGATTCAAGGCCAGCAATATTGGACTT
66 TGATTCAAGGCCAGCTACATTGGACTT
* *
92538 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATGTGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* *
92603 TGAGTCAAGGCTAGCTACATTGGACTT
66 TGATTCAAGGCCAGCTACATTGGACTT
92630 AAAG
1 AAAG
92634 ATGGAAAAGG
Statistics
Matches: 1099, Mismatches: 66, Indels: 112
0.86 0.05 0.09
Matches are distributed among these distances:
87 4 0.00
88 1 0.00
89 3 0.00
90 1 0.00
91 76 0.07
92 670 0.61
93 4 0.00
94 6 0.01
95 82 0.07
96 7 0.01
97 96 0.09
98 110 0.10
101 39 0.04
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
TGATTCAAGGCCAGCTACATTGGACTT
Found at i:92807 original size:35 final size:36
Alignment explanation
Indices: 92736--93257 Score: 260
Period size: 34 Copynumber: 15.3 Consensus size: 36
92726 CACCGACTTG
*
92736 TGTGGGCTTTAGGAAGGGAAAAAGA-TGCCACGGAGT
1 TGTGGGCTTTA-AAAGGGAAAAAGAGTGCCACGGAGT
*
92772 TGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
92807 TGTGGGCTTTAAAA--GAAAAA-AGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
* **
92840 TGTGGGCTTTGAAAAGGGAAAGAGAGTGCCACAAAGT
1 TGTGGGCTTT-AAAAGGGAAAAAGAGTGCCACGGAGT
*** ** * *
92877 TGTAGGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACAGAGT
1 TGT-GG-GCTTTA-A---AAGGG------AA-AAAGA-GTGCCACGGAGT
* **
92927 TGTGGGCTTTGAAAAGGAAAAAAGAGTGCCACAAAGT
1 TGTGGGCTTT-AAAAGGGAAAAAGAGTGCCACGGAGT
*
92964 TGTGGGCTTTAAAA--GAAGAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
*
92997 TGTGGGCTTTGAAAA--GAAGAAG-GTGCCACGGAGT
1 TGTGGGCTTT-AAAAGGGAAAAAGAGTGCCACGGAGT
*
93031 TGTGGGC-TT-AAA-CG-----G-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
* * *
93058 TGTGGAC-TT-AAAGATGAAAAA-AGTGCCACGGAAT
1 TGTGGGCTTTAAAAG-GGAAAAAGAGTGCCACGGAGT
93092 TGTGGGCTTTAAAA--G-----G-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
* * *
93120 TGTGGAC-TT-AAAGATGAAAAA-AGTGCCACGGAAT
1 TGTGGGCTTTAAAAG-GGAAAAAGAGTGCCACGGAGT
93154 TGTGGGCTTTAAAA--G-----G-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
* * * *
93182 TGTGGAC-TT-AAAGATGAAAAA-AGTGCCACAGAAT
1 TGTGGGCTTTAAAAG-GGAAAAAGAGTGCCACGGAGT
93216 TGTGGGCTTT-AAA-GG-AAAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
93248 TGTGGGCTTT
1 TGTGGGCTTT
93258 GAAGAAAAAA
Statistics
Matches: 387, Mismatches: 42, Indels: 118
0.71 0.08 0.22
Matches are distributed among these distances:
26 6 0.02
27 28 0.07
28 34 0.09
29 3 0.01
31 3 0.01
32 25 0.06
33 48 0.12
34 107 0.28
35 29 0.07
36 27 0.07
37 35 0.09
38 7 0.02
39 5 0.01
42 3 0.01
45 2 0.01
48 5 0.01
49 6 0.02
50 14 0.04
ACGTcount: A:0.32, C:0.12, G:0.34, T:0.21
Consensus pattern (36 bp):
TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
Found at i:92836 original size:33 final size:33
Alignment explanation
Indices: 92736--92855 Score: 143
Period size: 33 Copynumber: 3.5 Consensus size: 33
92726 CACCGACTTG
* *
92736 TGTGGGCTTTAGGAAGGGAAAAAGATGCCACGGAGT
1 TGTGGGCTTTA--AAAGAAAAAAG-TGCCACGGAGT
*
92772 TGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAA--GAAAAA-AGTGCCACGGAGT
92807 TGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGT
1 TGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGT
92840 TGTGGGCTTTGAAAAG
1 TGTGGGCTTT-AAAAG
92856 GGAAAGAGAG
Statistics
Matches: 75, Mismatches: 4, Indels: 12
0.82 0.04 0.13
Matches are distributed among these distances:
33 25 0.33
34 11 0.15
35 25 0.33
36 14 0.19
ACGTcount: A:0.33, C:0.11, G:0.35, T:0.21
Consensus pattern (33 bp):
TGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGT
Found at i:92838 original size:68 final size:72
Alignment explanation
Indices: 92736--93260 Score: 242
Period size: 62 Copynumber: 7.7 Consensus size: 72
92726 CACCGACTTG
* *
92736 TGTGGGCTTTAGGAAGGGAAAAAGATGCCACGGAGTTGTGGAC-TT-AAAAGGGAAAAAGAGTGC
1 TGTGGGCTTTA-GAAAGAAAAAAGATGCCACGGAGTTGTGGACTTTGAAAAGGGAAAAAGAGTGC
92799 CACGGAGT
65 CACGGAGT
* *
92807 TGTGGGCTTTA-AAAGAAAAAAG-TGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAGAGAGTGCC
1 TGTGGGCTTTAGAAAGAAAAAAGATGCCACGGAGTTGTGGACTTTGAAAAGGGAAAAAGAGTGCC
**
92870 ACAAAGT
66 ACGGAGT
* **** * * *
92877 TGTAGGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACAGAGTTGTGGGCTTTGAAAA
1 TGT-GG-G---C----TT-T-AG-AAAGAAA---AAAGATGCCACGGAGTTGTGGACTTTGAAAA
* **
92942 GGAAAAAAGAGTGCCACAAAGT
51 GGGAAAAAGAGTGCCACGGAGT
* * * *
92964 TGTGGGCTTTA-AAAG-AAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAA--GAAGAAG-GTGCC
1 TGTGGGCTTTAGAAAGAAAAAAGATGCCACGGAGTTGTGGACTTTGAAAAGGGAAAAAGAGTGCC
93024 ACGGAGT
66 ACGGAGT
* * *
93031 TGTGGGC-TTA-AACG------GGTGCCACGGAGTTGTGGAC-TT--AAAGATGAAAAA-AGTGC
1 TGTGGGCTTTAGAAAGAAAAAAGATGCCACGGAGTTGTGGACTTTGAAAAG-GGAAAAAGAGTGC
*
93084 CACGGAAT
65 CACGGAGT
* *
93092 TGTGGGCTTTA-AAAG------GGTGCCACGGAGTTGTGGAC-TT--AAAGATGAAAAA-AGTGC
1 TGTGGGCTTTAGAAAGAAAAAAGATGCCACGGAGTTGTGGACTTTGAAAAG-GGAAAAAGAGTGC
*
93146 CACGGAAT
65 CACGGAGT
* *
93154 TGTGGGCTTTA-AAAG------GGTGCCACGGAGTTGTGGAC-TT--AAAGATGAAAAA-AGTGC
1 TGTGGGCTTTAGAAAGAAAAAAGATGCCACGGAGTTGTGGACTTTGAAAAG-GGAAAAAGAGTGC
* *
93208 CACAGAAT
65 CACGGAGT
* * *
93216 TGTGGGCTTT--AAAG-GAAAAGGTGCCACGGAGTTGTGGGCTTTGAA
1 TGTGGGCTTTAGAAAGAAAAAAGATGCCACGGAGTTGTGGACTTTGAA
93261 GAAAAAATGC
Statistics
Matches: 390, Mismatches: 32, Indels: 66
0.80 0.07 0.14
Matches are distributed among these distances:
58 3 0.01
60 2 0.01
61 46 0.12
62 124 0.32
66 25 0.06
67 19 0.05
68 22 0.06
69 12 0.03
70 55 0.14
71 13 0.03
72 1 0.00
73 2 0.01
75 1 0.00
77 1 0.00
78 2 0.01
79 2 0.01
80 1 0.00
82 1 0.00
83 3 0.01
85 1 0.00
86 6 0.02
87 48 0.12
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.21
Consensus pattern (72 bp):
TGTGGGCTTTAGAAAGAAAAAAGATGCCACGGAGTTGTGGACTTTGAAAAGGGAAAAAGAGTGCC
ACGGAGT
Found at i:92941 original size:87 final size:87
Alignment explanation
Indices: 92795--92966 Score: 299
Period size: 87 Copynumber: 2.0 Consensus size: 87
92785 GGGAAAAAGA
* * *
92795 GTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAA
1 GTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACAGAGTTGTGGGCTTTGAAAAGGAAA
*
92860 AGAGAGTGCCACAAAGTTGTAG
66 AAAGAGTGCCACAAAGTTGTAG
*
92882 GTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGGAAA
1 GTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACAGAGTTGTGGGCTTTGAAAAGGAAA
92947 AAAGAGTGCCACAAAGTTGT
66 AAAGAGTGCCACAAAGTTGT
92967 GGGCTTTAAA
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 80 1.00
ACGTcount: A:0.34, C:0.13, G:0.33, T:0.21
Consensus pattern (87 bp):
GTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACAGAGTTGTGGGCTTTGAAAAGGAAA
AAAGAGTGCCACAAAGTTGTAG
Found at i:93017 original size:34 final size:33
Alignment explanation
Indices: 92880--93266 Score: 357
Period size: 34 Copynumber: 12.0 Consensus size: 33
92870 ACAAAGTTGT
*
92880 AGGTGCCACAGAGTTGTGGGCTTTAAAAGAAAA
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
*
92913 AGGTGCCACAGAGTTGTGGGCTTTGAAAAGGAAAAA
1 AGGTGCCACGGAGTTGTGGGCTTT-AAAA-G-AAAA
** *
92949 AGAGTGCCACAAAGTTGTGGGCTTTAAAAGAAGA
1 AG-GTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
*
92983 AGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGA
1 AGGTGCCACGGAGTTGTGGGCTTT-AAAAGAAAA
*
93017 AGGTGCCACGGAGTTGTGGGC-TTAAACG----
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
*
93045 -GGTGCCACGGAGTTGTGGAC-TTAAAGATGAAAA
1 AGGTGCCACGGAGTTGTGGGCTTTAAA-A-GAAAA
* *
93078 AAGTGCCACGGAATTGTGGGCTTTAAAAG----
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
*
93107 -GGTGCCACGGAGTTGTGGAC-TTAAAGATGAAAA
1 AGGTGCCACGGAGTTGTGGGCTTTAAA-A-GAAAA
* *
93140 AAGTGCCACGGAATTGTGGGCTTTAAAAG----
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
*
93169 -GGTGCCACGGAGTTGTGGAC-TTAAAGATGAAAA
1 AGGTGCCACGGAGTTGTGGGCTTTAAA-A-GAAAA
* * * *
93202 AAGTGCCACAGAATTGTGGGCTTT-AAAGGAAA
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
*
93234 AGGTGCCACGGAGTTGTGGGCTTT-GAAGAAAA
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
93266 A
1 A
93267 ATGCCACTGA
Statistics
Matches: 296, Mismatches: 29, Indels: 59
0.77 0.08 0.15
Matches are distributed among these distances:
27 34 0.11
28 36 0.12
29 3 0.01
32 36 0.12
33 49 0.17
34 93 0.31
35 14 0.05
36 10 0.03
37 21 0.07
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.21
Consensus pattern (33 bp):
AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
Found at i:93123 original size:62 final size:62
Alignment explanation
Indices: 92909--93252 Score: 401
Period size: 62 Copynumber: 5.4 Consensus size: 62
92899 GCTTTAAAAG
* * * * *
92909 AAAAAGGTGCCACAGAGTTGTGGGCTTTGAAA-AGGAAAAAAGAGTGCCAC-AAAGTTGTGGGCT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TT-AAAGATG-AAAAA-AGTGCCACGGAA-TTGTGGGCT
92972 TT
61 TT
* * * *
92974 AAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAA-A-GAAGAAGGTGCCACGGAGTTGTGGG
1 --AA-AAG--GGTGCCACGGAGTTGTGGAC-TT-AAAGATGAAAAAAGTGCCACGGAATTGTGGG
93037 C-TT
59 CTTT
*
93040 AAACGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAATTGTGGGCTTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAATTGTGGGCTTT
93102 AAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAATTGTGGGCTTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAATTGTGGGCTTT
*
93164 AAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACAGAATTGTGGGCTTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAATTGTGGGCTTT
*
93226 AAAGGAAAAGGTGCCACGGAGTTGTGG
1 --A--AAAGGGTGCCACGGAGTTGTGG
93253 GCTTTGAAGA
Statistics
Matches: 252, Mismatches: 14, Indels: 23
0.87 0.05 0.08
Matches are distributed among these distances:
59 3 0.01
60 3 0.01
61 42 0.17
62 124 0.49
63 2 0.01
64 3 0.01
66 23 0.09
67 17 0.07
68 7 0.03
69 1 0.00
70 27 0.11
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.21
Consensus pattern (62 bp):
AAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAATTGTGGGCTTT
Found at i:93338 original size:32 final size:31
Alignment explanation
Indices: 93171--93541 Score: 358
Period size: 31 Copynumber: 11.8 Consensus size: 31
93161 TTTAAAAGGG
* * * *
93171 TGCCACGGAGTTGTGGACTTAAAGATGAAAAAA
1 TGCCACTGAGTCGTGGACTTTAA-A-GAAAAGA
* * * * *
93204 GTGCCACAGAATTGTGGGCTTTAAAGGAAAAGG
1 -TGCCACTGAGTCGTGGACTTTAAA-GAAAAGA
* * * * *
93237 TGCCACGGAGTTGTGGGCTTTGAAGAAAAAA
1 TGCCACTGAGTCGTGGACTTTAAAGAAAAGA
* *
93268 TGCCACTGAGTCATGGACTTT-GAGACAAA-A
1 TGCCACTGAGTCGTGGACTTTAAAGA-AAAGA
93298 TGCCACTGAGTCGTGGACTTTAAAGGAAAAGA
1 TGCCACTGAGTCGTGGACTTTAAA-GAAAAGA
* *
93330 TGCCACTGAGTCGTGGACTTT-GAGAAGAGA
1 TGCCACTGAGTCGTGGACTTTAAAGAAAAGA
93360 TTGCCACTGAGTCGTGGACTTTAAAGGAAAAGA
1 -TGCCACTGAGTCGTGGACTTTAAA-GAAAAGA
* * *
93393 TGCCACTGAGTCGTGGACTTT-GAGCAGAGA
1 TGCCACTGAGTCGTGGACTTTAAAGAAAAGA
93423 TTGCCACTGAGTCGTGGACTTTAAAGGAAAAGA
1 -TGCCACTGAGTCGTGGACTTTAAA-GAAAAGA
* * *
93456 TGCCACTGAGTCGTGGACTTT-GAGCAGAGA
1 TGCCACTGAGTCGTGGACTTTAAAGAAAAGA
* *
93486 TTGCCACTGAGTCGTGGACTTT-GAGAAGAGA
1 -TGCCACTGAGTCGTGGACTTTAAAGAAAAGA
93517 TTGCCACTGAGTCGTGGACTTTAAA
1 -TGCCACTGAGTCGTGGACTTTAAA
93542 AAGGTATTTA
Statistics
Matches: 291, Mismatches: 34, Indels: 26
0.83 0.10 0.07
Matches are distributed among these distances:
30 40 0.14
31 125 0.43
32 90 0.31
33 17 0.06
34 19 0.07
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.24
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTAAAGAAAAGA
Found at i:93389 original size:63 final size:63
Alignment explanation
Indices: 93237--93538 Score: 452
Period size: 63 Copynumber: 4.8 Consensus size: 63
93227 AAGGAAAAGG
* * * * * * *
93237 TGCCACGGAGTTGTGGGCTTTGAA-GAAAAAATGCCACTGAGTCATGGACTTTGAGACA-A-AA
1 TGCCACTGAGTCGTGGACTTTAAAGGAAAAGATGCCACTGAGTCGTGGACTTTGAGA-AGAGAT
93298 TGCCACTGAGTCGTGGACTTTAAAGGAAAAGATGCCACTGAGTCGTGGACTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTAAAGGAAAAGATGCCACTGAGTCGTGGACTTTGAGAAGAGAT
*
93361 TGCCACTGAGTCGTGGACTTTAAAGGAAAAGATGCCACTGAGTCGTGGACTTTGAGCAGAGAT
1 TGCCACTGAGTCGTGGACTTTAAAGGAAAAGATGCCACTGAGTCGTGGACTTTGAGAAGAGAT
*
93424 TGCCACTGAGTCGTGGACTTTAAAGGAAAAGATGCCACTGAGTCGTGGACTTTGAGCAGAGAT
1 TGCCACTGAGTCGTGGACTTTAAAGGAAAAGATGCCACTGAGTCGTGGACTTTGAGAAGAGAT
* *
93487 TGCCACTGAGTCGTGGACTTT-GA-GAAGAGATTGCCACTGAGTCGTGGACTTT
1 TGCCACTGAGTCGTGGACTTTAAAGGAAAAGA-TGCCACTGAGTCGTGGACTTT
93539 AAAAAGGTAT
Statistics
Matches: 227, Mismatches: 10, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
61 27 0.12
62 53 0.23
63 147 0.65
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (63 bp):
TGCCACTGAGTCGTGGACTTTAAAGGAAAAGATGCCACTGAGTCGTGGACTTTGAGAAGAGAT
Found at i:101404 original size:52 final size:52
Alignment explanation
Indices: 101334--101454 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
101324 GAAAATTTAT
*
101334 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
101386 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
101438 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
101455 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:101467 original size:52 final size:51
Alignment explanation
Indices: 101334--101474 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
101324 GAAAATTTAT
101334 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
101386 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
101438 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
101475 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:101481 original size:13 final size:13
Alignment explanation
Indices: 101463--101487 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
101453 CAAAGATCAG
101463 TGTATCGATACAA
1 TGTATCGATACAA
101476 TGTATCGATACA
1 TGTATCGATACA
101488 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:101571 original size:13 final size:13
Alignment explanation
Indices: 101553--101577 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
101543 CAAAAAAATA
101553 TGTATCGATACAT
1 TGTATCGATACAT
101566 TGTATCGATACA
1 TGTATCGATACA
101578 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:101573 original size:33 final size:33
Alignment explanation
Indices: 101531--101597 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
101521 AGTAGCTTAA
101531 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
101564 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
101597 A
1 A
101598 GATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:103260 original size:27 final size:25
Alignment explanation
Indices: 103222--103275 Score: 72
Period size: 27 Copynumber: 2.1 Consensus size: 25
103212 TTTTTCAAAA
*
103222 AAAAAAAGAAAAAGAAGAAAGAATACC
1 AAAAAAAGAAAAAAAAGAAA-AA-ACC
*
103249 AAAAAAATAAAAAAAAGAAAAAACC
1 AAAAAAAGAAAAAAAAGAAAAAACC
103274 AA
1 AA
103276 CATTTGATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 5 0.20
26 2 0.08
27 18 0.72
ACGTcount: A:0.80, C:0.07, G:0.09, T:0.04
Consensus pattern (25 bp):
AAAAAAAGAAAAAAAAGAAAAAACC
Found at i:118537 original size:79 final size:78
Alignment explanation
Indices: 118405--118586 Score: 265
Period size: 79 Copynumber: 2.3 Consensus size: 78
118395 ACAATGGGGC
*
118405 TGGAGTATCCCCTGATTATGGAAAATCGGTGTTCTGGAAATAAAATCGGGGTTGAAGTATCCCCT
1 TGGAGTAT-CCCTGATTAT-GAAAATCGGTGTTCTGAAAATAAAATCGGGGTTGAAGTATCCCCT
118470 CGAAAATAACAGGGT
64 CGAAAATAACAGGGT
* * * *
118485 TGGAGCATCCCTGATTATAGAAAATCGGTGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTT
1 TGGAGTATCCCTGATTAT-GAAAATCGGTGTTCTGAAAATAAAATCGGGGTTGAAGTATCCCCTC
*
118550 GAAAATAACGGGGT
65 GAAAATAACAGGGT
* *
118564 TAGAGTATCCCCGATTATGAAAA
1 TGGAGTATCCCTGATTATGAAAA
118587 ATTGAAGCTT
Statistics
Matches: 92, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
78 5 0.05
79 80 0.87
80 7 0.08
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.27
Consensus pattern (78 bp):
TGGAGTATCCCTGATTATGAAAATCGGTGTTCTGAAAATAAAATCGGGGTTGAAGTATCCCCTCG
AAAATAACAGGGT
Found at i:118604 original size:79 final size:78
Alignment explanation
Indices: 118411--118623 Score: 212
Period size: 79 Copynumber: 2.7 Consensus size: 78
118401 GGGCTGGAGT
* ** * *
118411 ATCCCCTGATTATGGAAAATCGGTGTTCTGGAAATAAAATCGGGGTTGAAGTATCCCCTCGAAAA
1 ATCCCC-GATTATAGAAAATCGAAGTT-TAGAAATAAAATCGGGGTTGGAGTATCCCCTCGAAAA
*
118476 TAACAGGGTTGGAGC
64 TAACAGGGTTAGAGC
* ** * *
118491 ATCCCTGATTATAGAAAATCGGTGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTTGAAAAT
1 ATCCCCGATTATAGAAAATCGAAGTTTAG-AAATAAAATCGGGGTTGGAGTATCCCCTCGAAAAT
* *
118556 AACGGGGTTAGAGT
65 AACAGGGTTAGAGC
* *** *
118570 ATCCCCGATTAT-GAAAAATTGAAGCTTTAGAAATAAGGCCGAGGTTGGAGTATC
1 ATCCCCGATTATAG-AAAATCGAAG-TTTAGAAATAAAATCGGGGTTGGAGTATC
118624 TCAATTGTGA
Statistics
Matches: 113, Mismatches: 17, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
78 3 0.03
79 101 0.89
80 9 0.08
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (78 bp):
ATCCCCGATTATAGAAAATCGAAGTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATA
ACAGGGTTAGAGC
Found at i:118665 original size:129 final size:128
Alignment explanation
Indices: 118532--118804 Score: 336
Period size: 129 Copynumber: 2.1 Consensus size: 128
118522 AATAAAATCG
* *
118532 GGGTTGGAGTATCCCCT-TGAAAATAACGGGGTTAGAGTATCCCCGATTATGAAAAATTGAAGCT
1 GGGTTGGAGTATCCCCTCAG-AAATAACGGGATTAGAGTATCCCCGATTATGAAAAATTGAAGCT
** * * *
118596 TTAGAAATAAGGCCGAGGTTGGAGTAT-CTCAATTG-TGAGAAATCAATAATTTAGAAATAAAGC
65 TTAGAAATAAAACCGAGGTTAGAGTATCCCCAA--GATGAAAAATCAATAATTTAGAAATAAA-C
118659 CA
127 CA
* * * *
118661 GGGTTGGAGTATCTCCTCAGAAATAACGGGATTAGAGTATCTCCGATTATGAAAAATTGATGTTT
1 GGGTTGGAGTATCCCCTCAGAAATAACGGGATTAGAGTATCCCCGATTATGAAAAATTGAAGCTT
* * * * * *
118726 TGGAAATAAAACTGGGGTTAGAGTATCCCCGAGATGAAAAATCAATATTTTAGAAATAAACCG
66 TAGAAATAAAACCGAGGTTAGAGTATCCCCAAGATGAAAAATCAATAATTTAGAAATAAACCA
118789 GGGTTGGAGTATCCCC
1 GGGTTGGAGTATCCCC
118805 GAGATGAAAA
Statistics
Matches: 123, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
128 18 0.15
129 101 0.82
130 4 0.03
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (128 bp):
GGGTTGGAGTATCCCCTCAGAAATAACGGGATTAGAGTATCCCCGATTATGAAAAATTGAAGCTT
TAGAAATAAAACCGAGGTTAGAGTATCCCCAAGATGAAAAATCAATAATTTAGAAATAAACCA
Found at i:118805 original size:49 final size:49
Alignment explanation
Indices: 118679--118817 Score: 165
Period size: 49 Copynumber: 2.8 Consensus size: 49
118669 GTATCTCCTC
* * * ** *
118679 AGAAAT-AA-CGGGATTAGAGTATCTCCGATTATGAAAAATTGATGTTTT
1 AGAAATAAACCGGGGTTAGAGTATCCCCGA-GATGAAAAATCAATATTTT
* *
118727 GGAAATAAAACTGGGGTTAGAGTATCCCCGAGATGAAAAATCAATATTTT
1 AGAAAT-AAACCGGGGTTAGAGTATCCCCGAGATGAAAAATCAATATTTT
*
118777 AGAAATAAACCGGGGTTGGAGTATCCCCGAGATGAAAAATC
1 AGAAATAAACCGGGGTTAGAGTATCCCCGAGATGAAAAATC
118818 TAGAAATTTA
Statistics
Matches: 77, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
48 5 0.06
49 33 0.43
50 22 0.29
51 17 0.22
ACGTcount: A:0.39, C:0.12, G:0.23, T:0.26
Consensus pattern (49 bp):
AGAAATAAACCGGGGTTAGAGTATCCCCGAGATGAAAAATCAATATTTT
Found at i:119231 original size:17 final size:17
Alignment explanation
Indices: 119192--119224 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
119182 CATTTGTTAT
119192 CAAAAAATTACAAATTA
1 CAAAAAATTACAAATTA
119209 CAAAAAATTACAAATT
1 CAAAAAATTACAAATT
119225 TGAAAAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (17 bp):
CAAAAAATTACAAATTA
Found at i:120971 original size:20 final size:20
Alignment explanation
Indices: 120933--120988 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
120923 ATGTATCAAT
* *
120933 ACAATATATAGATACAATGA
1 ACAATGTATCGATACAATGA
* *
120953 ATAATGTATCGATAGAATGA
1 ACAATGTATCGATACAATGA
120973 ACAATGTATCGATACA
1 ACAATGTATCGATACA
120989 TCTAGGTAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.48, C:0.11, G:0.14, T:0.27
Consensus pattern (20 bp):
ACAATGTATCGATACAATGA
Found at i:121026 original size:83 final size:83
Alignment explanation
Indices: 120874--121103 Score: 336
Period size: 83 Copynumber: 2.8 Consensus size: 83
120864 AAATGCTTGG
* * * * * *
120874 ATGTATTGATACATTGAAAAATGTATCGATATATCTGGGT-AAACCCAAAATGTATCAATACAAT
1 ATGTATCGATACAATGAACAATGTATCGATACATCTAGGTAAAACCCAAAATGTATCGATACAAT
*
120938 ATATAGATACAATGAATA
66 ATATAGATACAATGAACA
* * *
120956 ATGTATCGATAGAATGAACAATGTATCGATACATCTAGGTAAAACCTAGAATGTATCGATACAAT
1 ATGTATCGATACAATGAACAATGTATCGATACATCTAGGTAAAACCCAAAATGTATCGATACAAT
*
121021 GTATAGATACAATGAACA
66 ATATAGATACAATGAACA
* *
121039 ATGTATCGATACAATGAACAATGTATCGATACATCTAGGTAAAACCCATAATATATCGATACAAT
1 ATGTATCGATACAATGAACAATGTATCGATACATCTAGGTAAAACCCAAAATGTATCGATACAAT
121104 CAACAATGTA
Statistics
Matches: 132, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
82 34 0.26
83 98 0.74
ACGTcount: A:0.44, C:0.13, G:0.14, T:0.28
Consensus pattern (83 bp):
ATGTATCGATACAATGAACAATGTATCGATACATCTAGGTAAAACCCAAAATGTATCGATACAAT
ATATAGATACAATGAACA
Found at i:121041 original size:20 final size:20
Alignment explanation
Indices: 121016--121071 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
121006 ATGTATCGAT
*
121016 ACAATGTATAGATACAATGA
1 ACAATGTATCGATACAATGA
121036 ACAATGTATCGATACAATGA
1 ACAATGTATCGATACAATGA
121056 ACAATGTATCGATACA
1 ACAATGTATCGATACA
121072 TCTAGGTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.25
Consensus pattern (20 bp):
ACAATGTATCGATACAATGA
Found at i:121054 original size:13 final size:13
Alignment explanation
Indices: 121005--121034 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
120995 TAAAACCTAG
*
121005 AATGTATCGATAC
1 AATGTATAGATAC
121018 AATGTATAGATAC
1 AATGTATAGATAC
121031 AATG
1 AATG
121035 AACAATGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.43, C:0.10, G:0.17, T:0.30
Consensus pattern (13 bp):
AATGTATAGATAC
Found at i:121810 original size:42 final size:42
Alignment explanation
Indices: 121702--122034 Score: 291
Period size: 41 Copynumber: 7.9 Consensus size: 42
121692 AAGAAAAAGG
** *
121702 GCGTCCTGCTCTTTGAGGATTAAGG--AAAAGGAGAATGAAAT
1 GCGTCCTGCTCTTTGAGGACAAAGGAAAAAAGGA-AATAAAAT
* * * *
121743 GGGTCCTGCTCCTTGGGGACTAAGGAAAAAAGGAAATAAAAT
1 GCGTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAATAAAAT
* * * * *
121785 GCATCCTGCCCTTTGAAGACAAAGG-AACAAGGAAATTAAAT
1 GCGTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAATAAAAT
* * * *
121826 GTGTTCTGCTTTTTGAGGACAAAGG-AAAAAGGAGAATAAAGT
1 GCGTCCTGCTCTTTGAGGACAAAGGAAAAAAGGA-AATAAAAT
* * *
121868 GCGTCCTGCTCTTTGAGAACTAGAAGGGAAAAGAAGGAAATGAAGT
1 GCGTCCTGCTCTTTGAGGAC-A-AA-GGAAAA-AAGGAAATAAAAT
* * *
121914 GCGCCCTGCTCTTTGAGGACAAAGGAAAAAA-GAAAAAAAAG
1 GCGTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAATAAAAT
* * *
121955 GCATCTTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAAT
1 GCGTCCTGCTCTTTGAGGAC-AAA-GGAAAA-AAGGAAATAAAAT
* * *
122000 GTGTCCTG-TCTTTGAGGACAAAGGAGAGAAGGAAA
1 GCGTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAA
122035 AGGCGTCTTG
Statistics
Matches: 235, Mismatches: 45, Indels: 24
0.77 0.15 0.08
Matches are distributed among these distances:
41 91 0.39
42 56 0.24
43 23 0.10
44 17 0.07
45 15 0.06
46 28 0.12
47 5 0.02
ACGTcount: A:0.39, C:0.13, G:0.28, T:0.20
Consensus pattern (42 bp):
GCGTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAATAAAAT
Found at i:121826 original size:83 final size:82
Alignment explanation
Indices: 121705--122034 Score: 290
Period size: 83 Copynumber: 3.9 Consensus size: 82
121695 AAAAAGGGCG
* ** * * * *
121705 TCCTGCTCTTTGAGGATTAAGGAAAAGGAGAATGAAATGGGTCCTGCTCCTTGGGGACTAAGGAA
1 TCCTGCTCTTTGAAGACAAAGGAAAAGGA-AATGAAATGCGTCCTGCTCTTTGAGGACAAAGGAA
121770 AAAAGGAAATAAAATGCA
65 AAAAGGAAATAAAATGCA
* * * * *
121788 TCCTGCCCTTTGAAGACAAAGGAACAAGGAAATTAAATGTGTTCTGCTTTTTGAGGACAAAGG-A
1 TCCTGCTCTTTGAAGACAAAGGAA-AAGGAAATGAAATGCGTCCTGCTCTTTGAGGACAAAGGAA
* *
121852 AAAAGGAGAATAAAGTGCG
65 AAAAGGA-AATAAAATGCA
* *
121871 TCCTGCTCTTTG-AGAACTAGAAGGGAAAAGAAGGAAATGAAGTGCGCCCTGCTCTTTGAGGACA
1 TCCTGCTCTTTGAAG-AC-A-AA-GG--AA-AAGGAAATGAAATGCGTCCTGCTCTTTGAGGACA
* *
121935 AAGGAAAAAA-GAAAAAAAAGGCA
59 AAGGAAAAAAGGAAATAAAATGCA
* * *
121958 TCTTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAATGTGTCCTG-TCTTTGAGGACAAA
1 TCCTGCTCTTTGAAGAC-AAA-GG--AA-AAGGAAATGAAATGCGTCCTGCTCTTTGAGGACAAA
* *
122022 GGAGAGAAGGAAA
61 GGAAAAAAGGAAA
122035 AGGCGTCTTG
Statistics
Matches: 203, Mismatches: 33, Indels: 19
0.80 0.13 0.07
Matches are distributed among these distances:
82 10 0.05
83 68 0.33
84 6 0.03
85 22 0.11
86 34 0.17
87 21 0.10
88 37 0.18
89 5 0.02
ACGTcount: A:0.39, C:0.13, G:0.27, T:0.20
Consensus pattern (82 bp):
TCCTGCTCTTTGAAGACAAAGGAAAAGGAAATGAAATGCGTCCTGCTCTTTGAGGACAAAGGAAA
AAAGGAAATAAAATGCA
Found at i:122128 original size:61 final size:61
Alignment explanation
Indices: 122028--122823 Score: 829
Period size: 61 Copynumber: 13.0 Consensus size: 61
122018 CAAAGGAGAG
* * * * * * **
122028 AAGGAAAAGGCGTCTTGCTCTTTAAGGACTAAAAAGTGCCACCAACTCATGTGGGCTTTGAA
1 AAGGAAAAGGCATCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AA
* * * * * *
122090 AA-GAAAAGACGTCCTACTCTTTGAGGGCTGGAAGGTGCCACCAACTTGTGTAGGCTTTGCA
1 AAGGAAAAGGCATCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AA
* * *
122151 AA-GAGAAA-GCATCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTAGGCTTTAA
1 AAGGA-AAAGGCATCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA
* * * * *
122211 AAAGAGAAGGCGTCCTACTCCTTT-AGGACTGAAAAGTGCCACCAACTTGTGTGGTCTTTAA
1 AAGGAAAAGGCATCCTACT-CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA
* * *
122272 AAGGAGAAA-GCATCCTACTTTTTGAGGACTGGAAGGTGCCACCAACTTGTGTAGGCTTTAA
1 AAGGA-AAAGGCATCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA
* ** * * * * * *
122333 AAGGAGAAGGTGTTCTACTCCTTGAGGATTCAAAAGTGCCACCAACTTGTGTGGTCTTTAA
1 AAGGAAAAGGCATCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA
* *
122394 AAAGAGAAA-GCATCCTGCTCTTTGAGGACT-AGAAGGTGCCACCAACTTGTGTGGGCTTTAA
1 AAGGA-AAAGGCATCCTACTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTAA
* * ** * *
122455 AAGGAAAAGGCATCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTCATGTGGACTTTGA
1 AAGGAAAAGGCATCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA
* * * * * * * *
122516 AAGGAAAGGGCATCTTGCTCCTTGAGGACTGAAAAGTCCCACCAACTTATGTGTGCTTTAA
1 AAGGAAAAGGCATCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA
* * * * *
122577 AAGGAAGAGGCATCTTGCTTTTTGAGGACTAAAAGGTGCCACCAACTT-TCGTGGGCTTTAA
1 AAGGAAAAGGCATCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGT-GTGGGCTTTAA
* * * *
122638 AAGGAAAAGGCATCCTTCTCTTTGAGGACTG-AAGGTGCCAGCAGCTTGTGTGGGCTTTGA
1 AAGGAAAAGGCATCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA
* * * *
122698 AAGGAGAAA-GCATCCTGCTATCTGAGGACTGAAAGGTGCCACCAACTTGTATGGGCTTTAA
1 AAGGA-AAAGGCATCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA
* * * *
122759 AAGGAAAGGGCGTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGA
1 AAGGAAAAGGCATCCTACTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAA
122821 AAG
1 AAG
122824 ACATCCCGCT
Statistics
Matches: 615, Mismatches: 102, Indels: 34
0.82 0.14 0.05
Matches are distributed among these distances:
60 65 0.11
61 505 0.82
62 45 0.07
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (61 bp):
AAGGAAAAGGCATCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA
Found at i:122930 original size:94 final size:93
Alignment explanation
Indices: 122758--123012 Score: 330
Period size: 94 Copynumber: 2.7 Consensus size: 93
122748 ATGGGCTTTA
* * * ** *
122758 AAAGGAAAGGGCGTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAA
1 AAAGGAGAGAGCGTCCTACTCTTTGAGGA-TTGGGAAGTGCCACCAACTTGTGT-GGCTTTAAAA
* * * *
122823 GACATCCCGCTCTTTGAGGACTAAAGGGTG
64 GGCATCCCACTCTTTAAGGACTAAAAGGTG
*
122853 TAAGGAGAGAGCGTCCTACTCTTTGAGGATTGGGAAGTGCCACCAACTTGTGTAGGCTTTAAAAG
1 AAAGGAGAGAGCGTCCTACTCTTTGAGGATTGGGAAGTGCCACCAACTTGTGT-GGCTTTAAAAG
**
122918 GCATCTTACTCTTTAAGGACTAAAAGGTG
65 GCATCCCACTCTTTAAGGACTAAAAGGTG
* * *
122947 AAAGGAGAGAGCGTCCTGCTTTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGTGCTTTAAAAG
1 AAAGGAGAGAGCGTCCTACTCTTTGAGGATTGGGAAGTGCCACCAACTTGTGTG-GCTTTAAAAG
123012 G
65 G
123013 AGAAGGCGTC
Statistics
Matches: 141, Mismatches: 18, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
93 1 0.01
94 114 0.81
95 26 0.18
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (93 bp):
AAAGGAGAGAGCGTCCTACTCTTTGAGGATTGGGAAGTGCCACCAACTTGTGTGGCTTTAAAAGG
CATCCCACTCTTTAAGGACTAAAAGGTG
Found at i:124048 original size:18 final size:17
Alignment explanation
Indices: 124025--124067 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
124015 TTTTTTTCTC
*
124025 TTTTTTTCCTTTGTTTTG
1 TTTTTTTCATTT-TTTTG
*
124043 TTTTTTGTTATTTTTTTG
1 TTTTTT-TCATTTTTTTG
124061 TTTTTTT
1 TTTTTTT
124068 TAAAAAGAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 1 0.05
18 17 0.77
19 4 0.18
ACGTcount: A:0.02, C:0.05, G:0.09, T:0.84
Consensus pattern (17 bp):
TTTTTTTCATTTTTTTG
Found at i:136633 original size:79 final size:78
Alignment explanation
Indices: 136442--136829 Score: 323
Period size: 79 Copynumber: 4.9 Consensus size: 78
136432 TGGAGATGAC
* * * * *
136442 AACGGGGCTGGAGTATCCCCTAATTATGGAAAATCGATGTTCT-AGAAATAAAATCGGGGTTGTA
1 AACGGGGTTGGAGTATCCCC-GATTATGAAAAATCGATGTTTTGA-AAATAAAATCGGGGTTGGA
*
136506 GTATCCCCTCAGAAAT
64 GTATCCCTTCA-AAAT
** * * * * *
136522 AATAGGGTTGGAGCATCCCTGACTAT-AGAAAATTGACGTTTTGAAAATAAAATCGGGGTTGGAG
1 AACGGGGTTGGAGTATCCCCGATTATGA-AAAATCGATGTTTTGAAAATAAAATCGGGGTTGGAG
*
136586 TATCTCCTTGAAAAT
65 TATC-CCTTCAAAAT
* * * * * * ***
136601 AATGGGGTTGGAGTGTCCCCGATTGTGAAAAATCGAAGCTTTAAAAATAAGGGCGGGGTTGGAGT
1 AACGGGGTTGGAGTATCCCCGATTATGAAAAATCGATGTTTTGAAAATAAAATCGGGGTTGGAGT
*
136666 ATCCCTACCAAAAT
66 ATCCCT-TCAAAAT
*** * * * **
136680 AACGGGGTTGGAGTATCCAAAATTGTGAAAAATCAATATTTT-AGAAATAAAGCCGGGGTTGGAG
1 AACGGGGTTGGAGTATCCCCGATTATGAAAAATCGATGTTTTGA-AAATAAAATCGGGGTTGGAG
*
136744 TATCCCCTTGAAAAT
65 TAT-CCCTTCAAAAT
* * * * * * *
136759 AACGGGATTGGACTATCCTCGATTATGAAAAATTGATGTTTTGGAAATAAAATCGGAGTTAGAGT
1 AACGGGGTTGGAGTATCCCCGATTATGAAAAATCGATGTTTTGAAAATAAAATCGGGGTTGGAGT
136824 ATCCCT
66 ATCCCT
136830 GAGATGAAAA
Statistics
Matches: 244, Mismatches: 56, Indels: 18
0.77 0.18 0.06
Matches are distributed among these distances:
78 8 0.03
79 211 0.86
80 25 0.10
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (78 bp):
AACGGGGTTGGAGTATCCCCGATTATGAAAAATCGATGTTTTGAAAATAAAATCGGGGTTGGAGT
ATCCCTTCAAAAT
Found at i:136838 original size:50 final size:49
Alignment explanation
Indices: 136783--136890 Score: 119
Period size: 50 Copynumber: 2.2 Consensus size: 49
136773 ATCCTCGATT
** * * *
136783 ATGAAAAATTGATGTTTTGGAAATAAAATC-GGAGTTAGAGTATCCCTGAG
1 ATGAAAAATCAATATTTTAGAAATAAAACCAGG-GTTAGAGTATCCC-GAG
* *
136833 ATGAAAAATCAATATTTTAGAAATAAAGCCAGGGTTGGAGTATCCCGAG
1 ATGAAAAATCAATATTTTAGAAATAAAACCAGGGTTAGAGTATCCCGAG
*
136882 TTGAAAAAT
1 ATGAAAAAT
136891 ATAGAAATTT
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
49 11 0.22
50 36 0.73
51 2 0.04
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (49 bp):
ATGAAAAATCAATATTTTAGAAATAAAACCAGGGTTAGAGTATCCCGAG
Found at i:138810 original size:13 final size:13
Alignment explanation
Indices: 138792--138816 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
138782 ATTACTCAAA
138792 TGTATCGATACAT
1 TGTATCGATACAT
138805 TGTATCGATACA
1 TGTATCGATACA
138817 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:138869 original size:52 final size:51
Alignment explanation
Indices: 138805--138950 Score: 206
Period size: 52 Copynumber: 2.8 Consensus size: 51
138795 ATCGATACAT
**
138805 TGTATCGATACACTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTGAT-AATGTATCGATACATGCAGGCAAATTTGCCCAGA
*
138857 TGTATCGATACACT-ATGAAATGTATCGATACATGCAGGTAAATTTGCCCAGA
1 TGTATCGATACACTGAT--AATGTATCGATACATGCAGGCAAATTTGCCCAGA
138909 TGTATCGATACACCATGA-AATGTATCGATACATGCAGGCAAA
1 TGTATCGATACA-C-TGATAATGTATCGATACATGCAGGCAAA
138951 ATTTCATATT
Statistics
Matches: 85, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
51 2 0.02
52 80 0.94
53 1 0.01
54 1 0.01
55 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (51 bp):
TGTATCGATACACTGATAATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:142772 original size:14 final size:15
Alignment explanation
Indices: 142748--142777 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
142738 AATTTGCAAA
142748 ATTTTTGAAAAAAAT
1 ATTTTTGAAAAAAAT
142763 ATTTTT-AAAAAAAT
1 ATTTTTGAAAAAAAT
142777 A
1 A
142778 GAAAATGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (15 bp):
ATTTTTGAAAAAAAT
Found at i:147763 original size:164 final size:165
Alignment explanation
Indices: 147552--147894 Score: 471
Period size: 164 Copynumber: 2.1 Consensus size: 165
147542 AAAAAAATCG
*
147552 AAACTCATGAAAATGATTGAATTTTTCAAAACTGATTTAACGTGAATCAAATGATAATATTTGAT
1 AAACTCATGAAAATTATTGAATTTTTCAAAACTGATTTAACGTGAATCAAATGATAATATTTGAT
* *
147617 AAATTTTAAAAA-TTTAAATCGATG-AATATCCTCCCGAAAAAATTTA-TGAAGAAGAAAAATCC
66 AAATTTTAAAAATTTTAAATCGATGAAAT-TCCTCCC-AAAAAAATTACAG-AGAAGAAAAATCC
* *
147679 ATATTTCAAAAACAAGAGGAATTCTAAGGAAAACTGAA
128 ATATTTCAAAAACAAGAGGAATTCTAAAGAAAAATGAA
* * *
147717 AATCTCATGAAAATTATTG-ATTTTTCAAAACTGATTTAATGTGAATCAAATGATAATATTTTAT
1 AAACTCATGAAAATTATTGAATTTTTCAAAACTGATTTAACGTGAATCAAATGATAATATTTGAT
* * * * ***
147781 GAATTTTAAAAATTTTAAGTCGATGAAATTCCTCCCAAAAAAATTACAGAGAATAAAACTTTGTA
66 AAATTTTAAAAATTTTAAATCGATGAAATTCCTCCCAAAAAAATTACAGAGAAGAAAAATCCATA
* *
147846 TTTCGAAAATAAGAGGAATTCTAAAGAAAAATGAA
131 TTTCAAAAACAAGAGGAATTCTAAAGAAAAATGAA
147881 AAACTCAT-AAAATT
1 AAACTCATGAAAATT
147895 GTTAGAATAA
Statistics
Matches: 157, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
163 6 0.04
164 112 0.71
165 36 0.23
166 3 0.02
ACGTcount: A:0.47, C:0.10, G:0.11, T:0.31
Consensus pattern (165 bp):
AAACTCATGAAAATTATTGAATTTTTCAAAACTGATTTAACGTGAATCAAATGATAATATTTGAT
AAATTTTAAAAATTTTAAATCGATGAAATTCCTCCCAAAAAAATTACAGAGAAGAAAAATCCATA
TTTCAAAAACAAGAGGAATTCTAAAGAAAAATGAA
Found at i:148190 original size:13 final size:13
Alignment explanation
Indices: 148172--148196 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
148162 CATATTGCTT
148172 TGTATCGATACAA
1 TGTATCGATACAA
148185 TGTATCGATACA
1 TGTATCGATACA
148197 TAAAGAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:148195 original size:33 final size:33
Alignment explanation
Indices: 148153--148216 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
148143 AGGCCCAGAA
** **
148153 GTATCGATACATATTGCTTTGTATCGATACAAT
1 GTATCGATACATAAAGAATTGTATCGATACAAT
148186 GTATCGATACATAAAGAATTGTATCGATACA
1 GTATCGATACATAAAGAATTGTATCGATACA
148217 TAAAGAATTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (33 bp):
GTATCGATACATAAAGAATTGTATCGATACAAT
Found at i:148210 original size:20 final size:20
Alignment explanation
Indices: 148185--148240 Score: 112
Period size: 20 Copynumber: 2.8 Consensus size: 20
148175 ATCGATACAA
148185 TGTATCGATACATAAAGAAT
1 TGTATCGATACATAAAGAAT
148205 TGTATCGATACATAAAGAAT
1 TGTATCGATACATAAAGAAT
148225 TGTATCGATACATAAA
1 TGTATCGATACATAAA
148241 ACTGGCAGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.30
Consensus pattern (20 bp):
TGTATCGATACATAAAGAAT
Found at i:149434 original size:166 final size:166
Alignment explanation
Indices: 149040--149404 Score: 475
Period size: 166 Copynumber: 2.2 Consensus size: 166
149030 TGAGCTTACA
* * *
149040 AAAATGAATGAATTTTTTAAAATTGATTTAATGTGAATCAAATGATAATATTTGATGAATTTAAA
1 AAAATGAATGAATTTTTCAAAAATGATTTAATGTGAATCAAATGATAATATTTGATGAATTTTAA
** * * ** *
149105 AAATTTTAAATCAATGAAAATCATCCCAAAAAAATTTACAGAGAAGAAAATTTTATATTTCAGAA
66 AAATTCAAAATCAATAAAAATCATCCCAAAAAAATTTACAGAGAAGAAAACTCCATATTTCAAAA
*
149170 ATAAGAGGAATTCTAAAGAAATATGAAAAACTCATG
131 ATAAGAGGAATTCTAAAGAAAAATGAAAAACTCATG
* *
149206 AAAATGAATGAATTTTTCAAAACCT-ATTTTATGTGAATCAAATGATAATATTTGATGAATTTTA
1 AAAATGAATGAATTTTTCAAAA-ATGATTTAATGTGAATCAAATGATAATATTTGATGAATTTTA
* * *** ** *
149270 AAGATTCAAAATCGATAAAAATCCA-CTTGAAAAAATTTATGGAGAAGAAAACTCCGTATTTCAA
65 AAAATTCAAAATCAATAAAAAT-CATCCCAAAAAAATTTACAGAGAAGAAAACTCCATATTTCAA
* *
149334 AAAT-AGGGAGAATTCTAAAGAAAAATGAAAAGCTCATG
129 AAATAAGAG-GAATTCTAAAGAAAAATGAAAAACTCATG
149372 AAAATGAATGAATTTTTCAAAAATGATTTAATG
1 AAAATGAATGAATTTTTCAAAAATGATTTAATG
149405 GTGATTAGAT
Statistics
Matches: 171, Mismatches: 24, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
165 4 0.02
166 164 0.96
167 3 0.02
ACGTcount: A:0.48, C:0.08, G:0.13, T:0.31
Consensus pattern (166 bp):
AAAATGAATGAATTTTTCAAAAATGATTTAATGTGAATCAAATGATAATATTTGATGAATTTTAA
AAATTCAAAATCAATAAAAATCATCCCAAAAAAATTTACAGAGAAGAAAACTCCATATTTCAAAA
ATAAGAGGAATTCTAAAGAAAAATGAAAAACTCATG
Found at i:149706 original size:27 final size:27
Alignment explanation
Indices: 149666--149726 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
149656 ATACTATGAA
* * * *
149666 AATTTGAAATTAATTTGCAAAATTTAT
1 AATTCGAAACTAATTTGCAAAATTCAC
149693 AATTCGAAACTAATTTGCAAAATTCAC
1 AATTCGAAACTAATTTGCAAAATTCAC
149720 AATTCGA
1 AATTCGA
149727 CACCTCATGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.36
Consensus pattern (27 bp):
AATTCGAAACTAATTTGCAAAATTCAC
Found at i:150838 original size:13 final size:13
Alignment explanation
Indices: 150820--150849 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
150810 ACAATTCATC
*
150820 ATGTATTGATACA
1 ATGTATCGATACA
150833 ATGTATCGATACA
1 ATGTATCGATACA
150846 ATGT
1 ATGT
150850 CCTATGTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:150840 original size:33 final size:33
Alignment explanation
Indices: 150798--150866 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
150788 CCGTTATAAG
*
150798 CAATGTATCGATACAAT-TCATCATGTATTGATA
1 CAATGTATCGATACAATGTCAT-ATGTATCGATA
*
150831 CAATGTATCGATACAATGTCCTATGTATCGATA
1 CAATGTATCGATACAATGTCATATGTATCGATA
150864 CAA
1 CAA
150867 ACAGTGGTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 30 0.91
34 3 0.09
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.33
Consensus pattern (33 bp):
CAATGTATCGATACAATGTCATATGTATCGATA
Found at i:150939 original size:19 final size:19
Alignment explanation
Indices: 150895--150950 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
150885 CTGCCAGTTT
* **
150895 CATGTATTGATACAATTGTC
1 CATGTATCGATACAA-TGAA
150915 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
150934 CATGTATCGATACAATG
1 CATGTATCGATACAATG
150951 TATCGATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 19 0.58
20 14 0.42
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:150953 original size:13 final size:13
Alignment explanation
Indices: 150935--150961 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
150925 TACAATGAAC
150935 ATGTATCGATACA
1 ATGTATCGATACA
150948 ATGTATCGATACA
1 ATGTATCGATACA
150961 A
1 A
150962 AGCATAGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:150957 original size:32 final size:33
Alignment explanation
Indices: 150916--150980 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
150906 ACAATTGTCC
*
150916 ATGTATCGATACAATGAACA-TGTATCGATACA
1 ATGTATCGATACAAAGAACAGTGTATCGATACA
* *
150948 ATGTATCGATACAAAGCATAGTGTATCGATACA
1 ATGTATCGATACAAAGAACAGTGTATCGATACA
150981 TCTGGGTGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (33 bp):
ATGTATCGATACAAAGAACAGTGTATCGATACA
Found at i:151579 original size:22 final size:22
Alignment explanation
Indices: 151554--151595 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
151544 AGATAAACAT
151554 ATTTCTCCCCCTTTATCAAAGC
1 ATTTCTCCCCCTTTATCAAAGC
*
151576 ATTTCTCCCCCTTTGTCAAA
1 ATTTCTCCCCCTTTATCAAA
151596 TCTTAAACCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.36, G:0.05, T:0.38
Consensus pattern (22 bp):
ATTTCTCCCCCTTTATCAAAGC
Found at i:159256 original size:13 final size:13
Alignment explanation
Indices: 159240--159269 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
159230 ACAATTCATC
159240 ATGTATCGATACA
1 ATGTATCGATACA
159253 ATGTATCGATACA
1 ATGTATCGATACA
159266 ATGT
1 ATGT
159270 CATATGTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:159265 original size:33 final size:33
Alignment explanation
Indices: 159218--159286 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
159208 CCGTTATAAG
159218 CAATGTATCAATACAAT-TCATCATGTATCGATA
1 CAATGTATCAATACAATGTCAT-ATGTATCGATA
*
159251 CAATGTATCGATACAATGTCATATGTATCGATA
1 CAATGTATCAATACAATGTCATATGTATCGATA
159284 CAA
1 CAA
159287 ATAGTGGAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 30 0.88
34 4 0.12
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (33 bp):
CAATGTATCAATACAATGTCATATGTATCGATA
Found at i:159362 original size:19 final size:19
Alignment explanation
Indices: 159315--159370 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
159305 TTGCTAGTTT
**
159315 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
*
159335 CACGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
159354 CATGTATCGATACAATG
1 CATGTATCGATACAATG
159371 TGTCGATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.29
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:160474 original size:19 final size:19
Alignment explanation
Indices: 160430--160485 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
160420 CTGCCAGTTT
* **
160430 CATGTATTGATACAATTGTG
1 CATGTATCGATACAA-TGAA
160450 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
160469 CATGTATCGATACAATG
1 CATGTATCGATACAATG
160486 TATTGATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 19 0.58
20 14 0.42
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Done.