Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 92 of 211
Found at i:25218161 original size:29 final size:29
Alignment explanation
Indices: 25218114--25218198 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 29
25218104 AGAATTAGAT
*
25218114 AAAATTAAAATTTCATGTATAATATTACAC
1 AAAATCAAAATTT-ATGTATAATATTACAC
* *
25218144 AAAATCAAAGTTTATGTATACACAATTACAC
1 AAAATCAAAATTTATGTATA-A-TATTACAC
*
25218175 ATTAAATCAAAATTCATGTATAAT
1 A--AAATCAAAATTTATGTATAAT
25218199 TTTAAGATTT
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
29 7 0.16
30 12 0.27
31 8 0.18
32 1 0.02
33 17 0.38
ACGTcount: A:0.49, C:0.12, G:0.05, T:0.34
Consensus pattern (29 bp):
AAAATCAAAATTTATGTATAATATTACAC
Found at i:25222627 original size:15 final size:15
Alignment explanation
Indices: 25222607--25222637 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
25222597 GCCTATTTAC
25222607 AGTGTAATATATAGA
1 AGTGTAATATATAGA
25222622 AGTGTAATATATAGA
1 AGTGTAATATATAGA
25222637 A
1 A
25222638 CTTAGTTGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.19, T:0.32
Consensus pattern (15 bp):
AGTGTAATATATAGA
Found at i:25224033 original size:80 final size:80
Alignment explanation
Indices: 25223900--25224060 Score: 268
Period size: 80 Copynumber: 2.0 Consensus size: 80
25223890 TACAACTGCA
* *
25223900 ACCATTGTAGATATTTGTCTATGATATTTTCATGAAATTCAATAGATTGATTCATAATGCTATTT
1 ACCATTGTAGATATTTGTCTATGATATTTTCATGAAATTCAATAGATGGATTCATAATGCTATAT
25223965 CAGAGTCTATGACTT
66 CAGAGTCTATGACTT
* * * *
25223980 ACCATTGTAGATATTTGTCTATGTTTTTTTCCTGAAATTCAATAGATGGATTCATAATTCTATAT
1 ACCATTGTAGATATTTGTCTATGATATTTTCATGAAATTCAATAGATGGATTCATAATGCTATAT
25224045 CAGAGTCTATGACTT
66 CAGAGTCTATGACTT
25224060 A
1 A
25224061 TTCAAACCTG
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
80 75 1.00
ACGTcount: A:0.30, C:0.13, G:0.14, T:0.43
Consensus pattern (80 bp):
ACCATTGTAGATATTTGTCTATGATATTTTCATGAAATTCAATAGATGGATTCATAATGCTATAT
CAGAGTCTATGACTT
Found at i:25228464 original size:49 final size:47
Alignment explanation
Indices: 25228265--25228487 Score: 401
Period size: 47 Copynumber: 4.7 Consensus size: 47
25228255 ATGATAGTAT
25228265 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
25228312 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
25228359 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
25228406 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
25228455 GGCCTAATGGCCGATGTGATGAATGTGATAAGT
1 GGCCTAATGGCCGATGTGATGAATGTGA-AAGT
25228488 CCCGAAGGGC
Statistics
Matches: 170, Mismatches: 3, Indels: 3
0.97 0.02 0.02
Matches are distributed among these distances:
47 125 0.74
49 41 0.24
50 4 0.02
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.30
Consensus pattern (47 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
Found at i:25228661 original size:37 final size:37
Alignment explanation
Indices: 25228605--25228683 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
25228595 CCGAGCTCTA
* * *
25228605 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
25228642 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
25228679 AAGAC
1 AAGAC
25228684 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:25234506 original size:34 final size:34
Alignment explanation
Indices: 25234468--25234536 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
25234458 AAATGATTGT
25234468 TTCTTGTATGAATGTTTGTGTGATTATACTGTTA
1 TTCTTGTATGAATGTTTGTGTGATTATACTGTTA
*
25234502 TTCTTGTATGAATGTTTGTGTGATTATATTGTTA
1 TTCTTGTATGAATGTTTGTGTGATTATACTGTTA
25234536 T
1 T
25234537 AGACTCACAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.20, C:0.04, G:0.20, T:0.55
Consensus pattern (34 bp):
TTCTTGTATGAATGTTTGTGTGATTATACTGTTA
Found at i:25248411 original size:21 final size:22
Alignment explanation
Indices: 25248351--25248416 Score: 55
Period size: 21 Copynumber: 3.0 Consensus size: 22
25248341 TTCGGGTGTA
*
25248351 ATTTACAAATAATTTAAAGAT-CC
1 ATTTA-AAAT-ATTTAAAAATACC
* **
25248374 ATTAAAAATATGGAAAAATACC
1 ATTTAAAATATTTAAAAATACC
*
25248396 -TTTAAAATATTTAAAATTACC
1 ATTTAAAATATTTAAAAATACC
25248417 CTAAATTCCA
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
21 24 0.71
22 6 0.18
23 4 0.12
ACGTcount: A:0.52, C:0.11, G:0.05, T:0.33
Consensus pattern (22 bp):
ATTTAAAATATTTAAAAATACC
Found at i:25257058 original size:13 final size:13
Alignment explanation
Indices: 25257040--25257064 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25257030 TATTTTAATA
25257040 TTATTTTGTGTGT
1 TTATTTTGTGTGT
25257053 TTATTTTGTGTG
1 TTATTTTGTGTG
25257065 CATTTGATTG
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:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:25258184 original size:114 final size:112
Alignment explanation
Indices: 25258043--25258283 Score: 383
Period size: 114 Copynumber: 2.1 Consensus size: 112
25258033 ATCAGCATAT
* * * *
25258043 ATATATGTGTATATTTATTTTATATTTGATGAGCTATAATTAAAAATATATGAATTGAAATTAGT
1 ATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATAAATTGAAATTAGT
25258108 TAAGTATGAATGTTATATATATGCATAAATGAAGTTCGAATGTATGTAA
66 TAAGTATGAATGTTATATATATGCATAAATGAAGTTCGAA--TATGTAA
* *
25258157 ATATATATGTATATCTATTGTATATTTGATGAGCTATAATTGAAAGTATATAAATTGAAATTAGT
1 ATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATAAATTGAAATTAGT
*
25258222 TAAGTATGAATGTTATATATATGCATAAATGAAGTTCGAATATGTAT
66 TAAGTATGAATGTTATATATATGCATAAATGAAGTTCGAATATGTAA
25258269 ATATGAATATGTATA
1 ATAT--ATATGTATA
25258284 AGATCTTGAG
Statistics
Matches: 118, Mismatches: 7, Indels: 4
0.91 0.05 0.03
Matches are distributed among these distances:
112 10 0.08
114 108 0.92
ACGTcount: A:0.41, C:0.03, G:0.15, T:0.41
Consensus pattern (112 bp):
ATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATAAATTGAAATTAGT
TAAGTATGAATGTTATATATATGCATAAATGAAGTTCGAATATGTAA
Found at i:25258800 original size:41 final size:41
Alignment explanation
Indices: 25258751--25258854 Score: 147
Period size: 41 Copynumber: 2.5 Consensus size: 41
25258741 GACTTTAAGT
*
25258751 CTAGCAGGCTAAGTGCC-GATGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCAG-TGATCTGAATCAGGCTATAAAC
*
25258792 CTAGCAGGCTAAGTGCCAGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCAGTGATCTGAATCAGGCTATAAAC
* * *
25258833 TTAGCAGGTTAAGTACCAGTGA
1 CTAGCAGGCTAAGTGCCAGTGA
25258855 ATATGTTAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
41 56 0.98
42 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCAGTGATCTGAATCAGGCTATAAAC
Found at i:25264756 original size:41 final size:41
Alignment explanation
Indices: 25264710--25264915 Score: 297
Period size: 41 Copynumber: 5.0 Consensus size: 41
25264700 AAGTACATCT
* *
25264710 AGGGGTATCGAAGTACAAACAGGGGCACGTTTGTGCAATTC
1 AGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATTC
* * *
25264751 AGGGGTACCGAAGTACGAACAGGGACACGTATGAGCAATTC
1 AGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATTC
* *
25264792 AAGGGTACCGAAGTACAAACAGGTGCACGTATGTGCAATTC
1 AGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATTC
* ** *
25264833 AAGGGTACTAAAGTACAAACAGGGGCACGTATGTGCAATTT
1 AGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATTC
25264874 AGGGGTACCGAAGTAC-AACTAGGGGCACGTATGTGCAATTC
1 AGGGGTACCGAAGTACAAAC-AGGGGCACGTATGTGCAATTC
25264915 A
1 A
25264916 TCATTATTCA
Statistics
Matches: 146, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
40 3 0.02
41 143 0.98
ACGTcount: A:0.33, C:0.18, G:0.30, T:0.19
Consensus pattern (41 bp):
AGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATTC
Found at i:25267455 original size:45 final size:44
Alignment explanation
Indices: 25267357--25267552 Score: 173
Period size: 45 Copynumber: 4.2 Consensus size: 44
25267347 AATAATAACA
* *
25267357 GATACACGGTGG-ATCAGCACATAGC-ACCACCCTTATAGTCAAT
1 GATACCCGGTGGAATCAGCACATAGCAACCA-CCTTATAATCAAT
*
25267400 GATACTCGGTGGAATCAGCACATAGCAACCACCTTCATAATCAAT
1 GATACCCGGTGGAATCAGCACATAGCAACCACCTT-ATAATCAAT
25267445 -AGTACCCGGTGGAATCAGCACATAGCAACCACACAGCAACCACCTTTATAATCAAT
1 GA-TACCCGGTGGAATCAGCACAT-----------AGCAACCACC-TTATAATCAAT
* *
25267501 GATACCCGGTGGAATCAGCACACAGCAACCACATTTATAATCAAT
1 GATACCCGGTGGAATCAGCACATAGCAACCAC-CTTATAATCAAT
*
25267546 GGTACCC
1 GATACCC
25267553 AGTACACGTA
Statistics
Matches: 129, Mismatches: 6, Indels: 34
0.76 0.04 0.20
Matches are distributed among these distances:
43 11 0.09
44 18 0.14
45 58 0.45
56 39 0.30
57 3 0.02
ACGTcount: A:0.35, C:0.29, G:0.16, T:0.20
Consensus pattern (44 bp):
GATACCCGGTGGAATCAGCACATAGCAACCACCTTATAATCAAT
Found at i:25267490 original size:56 final size:56
Alignment explanation
Indices: 25267418--25267533 Score: 189
Period size: 56 Copynumber: 2.1 Consensus size: 56
25267408 GTGGAATCAG
* *
25267418 CACATAGCAACCACCTTCATAATCAAT-AGTACCCGGTGGAATCAGCACATAGCAAC
1 CACACAGCAACCACCTTCATAATCAATGA-TACCCGGTGGAATCAGCACACAGCAAC
*
25267474 CACACAGCAACCACCTTTATAATCAATGATACCCGGTGGAATCAGCACACAGCAAC
1 CACACAGCAACCACCTTCATAATCAATGATACCCGGTGGAATCAGCACACAGCAAC
25267530 CACA
1 CACA
25267534 TTTATAATCA
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
56 55 0.98
57 1 0.02
ACGTcount: A:0.38, C:0.32, G:0.14, T:0.16
Consensus pattern (56 bp):
CACACAGCAACCACCTTCATAATCAATGATACCCGGTGGAATCAGCACACAGCAAC
Found at i:25288234 original size:20 final size:20
Alignment explanation
Indices: 25288209--25288269 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
25288199 ATAAATTCTA
25288209 AAATTTTTATAAA-TATTTTG
1 AAATTTTTA-AAACTATTTTG
* *
25288229 AAA-TTTAAAAATTATTTTG
1 AAATTTTTAAAACTATTTTG
*
25288248 AATTTTTTAAAACTATTTTG
1 AAATTTTTAAAACTATTTTG
25288268 AA
1 AA
25288270 TTATTTTGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
18 3 0.09
19 13 0.37
20 19 0.54
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.51
Consensus pattern (20 bp):
AAATTTTTAAAACTATTTTG
Found at i:25288270 original size:20 final size:19
Alignment explanation
Indices: 25288212--25288276 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 19
25288202 AATTCTAAAA
25288212 TTTTTATAAATATTTTGAA-
1 TTTTTA-AAATATTTTGAAT
* *
25288231 ATTTAAAAATTATTTTGAAT
1 TTTTTAAAA-TATTTTGAAT
25288251 TTTTTAAAACTATTTTGAAT
1 TTTTTAAAA-TATTTTGAAT
25288271 TATTTT
1 T-TTTT
25288277 GTAATTTTTG
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
18 3 0.08
19 13 0.34
20 18 0.47
21 4 0.11
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.57
Consensus pattern (19 bp):
TTTTTAAAATATTTTGAAT
Found at i:25294498 original size:13 final size:13
Alignment explanation
Indices: 25294480--25294514 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
25294470 CTTCTGAAAT
25294480 AATTTTTTCAGAG
1 AATTTTTTCAGAG
25294493 AATTTTTTCAGAG
1 AATTTTTTCAGAG
25294506 AATTTTTTC
1 AATTTTTTC
25294515 TCTACAACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.29, C:0.09, G:0.11, T:0.51
Consensus pattern (13 bp):
AATTTTTTCAGAG
Found at i:25294635 original size:11 final size:11
Alignment explanation
Indices: 25294619--25294655 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
25294609 CTTAATCACT
25294619 TTAATATTAAA
1 TTAATATTAAA
25294630 TTAATATTAAA
1 TTAATATTAAA
*
25294641 -T-CTATTAAA
1 TTAATATTAAA
25294650 TTAATA
1 TTAATA
25294656 GAATATTCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 7 0.32
10 2 0.09
11 13 0.59
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:25294713 original size:17 final size:17
Alignment explanation
Indices: 25294621--25294703 Score: 55
Period size: 17 Copynumber: 4.6 Consensus size: 17
25294611 TAATCACTTT
25294621 AATATTAAATTAATATTA
1 AATATTAAATTAA-ATTA
25294639 AATCTATTAAATT-AA-TA
1 AA--TATTAAATTAAATTA
* *
25294656 GAATATT-CATCTACAAGATA
1 -AATATTAAAT-TA-AA-TTA
*
25294676 AATATTAAATTAAATTT
1 AATATTAAATTAAATTA
25294693 AATATTAAATT
1 AATATTAAATT
25294704 TATTAAAATA
Statistics
Matches: 52, Mismatches: 4, Indels: 19
0.69 0.05 0.25
Matches are distributed among these distances:
15 2 0.04
16 5 0.10
17 14 0.27
18 9 0.17
19 9 0.17
20 13 0.25
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (17 bp):
AATATTAAATTAAATTA
Found at i:25294717 original size:20 final size:20
Alignment explanation
Indices: 25294623--25294719 Score: 67
Period size: 20 Copynumber: 4.8 Consensus size: 20
25294613 ATCACTTTAA
*
25294623 TATTAAATTAATATTAAATC
1 TATTAAATTAATATTAAATT
*
25294643 TATTAAATTAATA-GAATATT
1 TATTAAATTAATATTAA-ATT
* *
25294663 CATCTACAAGATAAATATTAAA-T
1 TAT-T--AA-ATTAATATTAAATT
*
25294686 TA--AATTTAATATTAAATT
1 TATTAAATTAATATTAAATT
*
25294704 TATTAAAATAATATTA
1 TATTAAATTAATATTA
25294720 TTTTTGGAAT
Statistics
Matches: 58, Mismatches: 10, Indels: 18
0.67 0.12 0.21
Matches are distributed among these distances:
17 10 0.17
18 5 0.09
19 2 0.03
20 27 0.47
21 1 0.02
23 4 0.07
24 7 0.12
25 2 0.03
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (20 bp):
TATTAAATTAATATTAAATT
Found at i:25295046 original size:20 final size:20
Alignment explanation
Indices: 25295008--25295046 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
25294998 GTTCGACTAG
*
25295008 TTTTGGATCTCGGTATCAAT
1 TTTTGGATCTCGATATCAAT
* *
25295028 TTTTGGTTCTCGATTTCAA
1 TTTTGGATCTCGATATCAA
25295047 CTTTCGATCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.15, G:0.18, T:0.49
Consensus pattern (20 bp):
TTTTGGATCTCGATATCAAT
Found at i:25297604 original size:101 final size:102
Alignment explanation
Indices: 25297483--25297667 Score: 293
Period size: 101 Copynumber: 1.8 Consensus size: 102
25297473 AAAGTGATGG
* * *
25297483 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAT-A-GGTCGCATGTGTAGT
1 TCACGTATGTAGTACTATGTGCAGGATACTACGTGTACCGG-ATGATAATGGTCACATGTGTAGT
*
25297546 ACTATGTGCAGGCTACTATGCGTACCGGATAGTTTCGA
65 ACTATGTGCAAGCTACTATGCGTACCGGATAGTTTCGA
* *
25297584 TCACGTATGTAGTACTATGTGCAGGATACTACGTGTATCGGATGGTAATGGTCACATGTGTAGTA
1 TCACGTATGTAGTACTATGTGCAGGATACTACGTGTACCGGATGATAATGGTCACATGTGTAGTA
25297649 CTATGTGCAAGCTACTATG
66 CTATGTGCAAGCTACTATG
25297668 TGAACTGAAC
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
100 4 0.05
101 39 0.51
102 33 0.43
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (102 bp):
TCACGTATGTAGTACTATGTGCAGGATACTACGTGTACCGGATGATAATGGTCACATGTGTAGTA
CTATGTGCAAGCTACTATGCGTACCGGATAGTTTCGA
Found at i:25297614 original size:51 final size:51
Alignment explanation
Indices: 25297479--25297665 Score: 218
Period size: 51 Copynumber: 3.7 Consensus size: 51
25297469 AGTGAAAGTG
* *
25297479 ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGA-A-TG
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
* * *
25297528 ATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT-
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
* * * * * * *
25297579 TTCGATCACGTATGTAGTACTATGTGCAGGATACTACGTGTATCGGATGGTA
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
*
25297631 ATGGTCACATGTGTAGTACTATGTGCAAGCTACTA
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
25297666 TGTGAACTGA
Statistics
Matches: 113, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
49 2 0.02
50 40 0.35
51 69 0.61
52 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (51 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
Found at i:25310403 original size:46 final size:46
Alignment explanation
Indices: 25310353--25310515 Score: 177
Period size: 46 Copynumber: 3.5 Consensus size: 46
25310343 TCAAGTTCGT
* *
25310353 AACATATGTAGGAGCTCGAAACCTAAACCTGTATTCTCGAGTCCAC
1 AACATATGCAGGAGCTCGAAACCTATACCTGTATTCTCGAGTCCAC
* * ***
25310399 AACATATGTAGGAGCTCGAAACCTATTCCTGTATTCTCGAGTCTGT
1 AACATATGCAGGAGCTCGAAACCTATACCTGTATTCTCGAGTCCAC
* * * *
25310445 AACATATGCAGGAGCTTTG-AACCTATTA-TTGAATTCTTGAGTCCAC
1 AACATATGCAGGAGC-TCGAAACCTA-TACCTGTATTCTCGAGTCCAC
**
25310491 AACATATGCAAAAGCTCGAAACCTA
1 AACATATGCAGGAGCTCGAAACCTA
25310516 GGCAAAACTC
Statistics
Matches: 97, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
45 2 0.02
46 92 0.95
47 3 0.03
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.28
Consensus pattern (46 bp):
AACATATGCAGGAGCTCGAAACCTATACCTGTATTCTCGAGTCCAC
Found at i:25313605 original size:25 final size:25
Alignment explanation
Indices: 25313539--25313608 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
25313529 CAAGCCCATT
* * *
25313539 TCACAGCTCATGTGAGCAATTATAG
1 TCACAGCTCGTGTGAGCATTTACAG
* * *
25313564 TTACAACTCGTGCGAGCATTTACAG
1 TCACAGCTCGTGTGAGCATTTACAG
*
25313589 TCACAGCTTGTGTGAGCATT
1 TCACAGCTCGTGTGAGCATT
25313609 GTTCCCACGT
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.30
Consensus pattern (25 bp):
TCACAGCTCGTGTGAGCATTTACAG
Found at i:25313815 original size:80 final size:80
Alignment explanation
Indices: 25313696--25313873 Score: 234
Period size: 80 Copynumber: 2.2 Consensus size: 80
25313686 TTATGTGAAA
*
25313696 AAATAGATATATGAAATGGTTATATGAATCGATTATATGG-AACTAGATATACAAAATTATTATA
1 AAATAGATATATGAAATGGTTATATGAATCGATTATATGGTAA-TAGATATACAAAATGATTATA
* *
25313760 TGAATCAATTATATGG
65 TGAATCAATTAAACGG
* * * *
25313776 AAATAGATATACGAAATGGTTATATTAATC-AGTTGTATGGTAATAGATATACAGAATGATTATA
1 AAATAGATATATGAAATGGTTATATGAATCGA-TTATATGGTAATAGATATACAAAATGATTATA
* *
25313840 TGAATTAGTTAAACGG
65 TGAATCAATTAAACGG
*
25313856 AAATAGTTATATGAAATG
1 AAATAGATATATGAAATG
25313874 TTTAAACGAA
Statistics
Matches: 85, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
79 1 0.01
80 82 0.96
81 2 0.02
ACGTcount: A:0.44, C:0.04, G:0.17, T:0.34
Consensus pattern (80 bp):
AAATAGATATATGAAATGGTTATATGAATCGATTATATGGTAATAGATATACAAAATGATTATAT
GAATCAATTAAACGG
Found at i:25313861 original size:40 final size:40
Alignment explanation
Indices: 25313673--25313866 Score: 169
Period size: 40 Copynumber: 4.8 Consensus size: 40
25313663 AATGAGATGG
* * * * *
25313673 TTATATGAATCTGTTATGTGAAAAAATAGATATA-TGAAATGG
1 TTATATGAATCAGTTATATG--GAAATAGATATACAG-AATGA
* * *
25313715 TTATATGAATC-GATTATATGGAACTAGATATACAAAATTA
1 TTATATGAATCAG-TTATATGGAAATAGATATACAGAATGA
* *
25313755 TTATATGAATCAATTATATGGAAATAGATATAC-GAAATGG
1 TTATATGAATCAGTTATATGGAAATAGATATACAG-AATGA
* * *
25313795 TTATATTAATCAGTTGTATGGTAATAGATATACAGAATGA
1 TTATATGAATCAGTTATATGGAAATAGATATACAGAATGA
* * * *
25313835 TTATATGAATTAGTTAAACGGAAATAGTTATA
1 TTATATGAATCAGTTATATGGAAATAGATATA
25313867 TGAAATGTTT
Statistics
Matches: 123, Mismatches: 24, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
40 104 0.85
41 2 0.02
42 17 0.14
ACGTcount: A:0.43, C:0.05, G:0.16, T:0.36
Consensus pattern (40 bp):
TTATATGAATCAGTTATATGGAAATAGATATACAGAATGA
Found at i:25313878 original size:27 final size:26
Alignment explanation
Indices: 25313835--25313885 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
25313825 TACAGAATGA
*
25313835 TTATATGAATTAGTTAAACGGAAATAG
1 TTATATGAAATAGTTAAAC-GAAATAG
25313862 TTATATGAAAT-GTTTAAACGAAAT
1 TTATATGAAATAG-TTAAACGAAAT
25313886 GTTTTTATGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.45, C:0.04, G:0.16, T:0.35
Consensus pattern (26 bp):
TTATATGAAATAGTTAAACGAAATAG
Found at i:25314509 original size:14 final size:14
Alignment explanation
Indices: 25314487--25314520 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
25314477 TTTTATAAGC
*
25314487 ATTTTGAATGGTTG
1 ATTTGGAATGGTTG
25314501 ATTTGGAATGGTTG
1 ATTTGGAATGGTTG
*
25314515 ACTTGG
1 ATTTGG
25314521 TACAAATTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.21, C:0.03, G:0.32, T:0.44
Consensus pattern (14 bp):
ATTTGGAATGGTTG
Found at i:25321011 original size:21 final size:21
Alignment explanation
Indices: 25320985--25321030 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
25320975 CTCAAAATCA
*
25320985 TCTTACTGAGGAACCCTTTTC
1 TCTTACTGAGGAACCCTTCTC
25321006 TCTTACTGAGGAACCCTTCTC
1 TCTTACTGAGGAACCCTTCTC
25321027 TCTT
1 TCTT
25321031 TGGTCTTGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.17, C:0.30, G:0.13, T:0.39
Consensus pattern (21 bp):
TCTTACTGAGGAACCCTTCTC
Found at i:25331951 original size:8 final size:8
Alignment explanation
Indices: 25331935--25332002 Score: 59
Period size: 8 Copynumber: 8.5 Consensus size: 8
25331925 GTTTATTAAA
*
25331935 TAGGGTTT
1 TAGGTTTT
25331943 TAGGTTTTT
1 TAGG-TTTT
*
25331952 TAGGATTT
1 TAGGTTTT
*
25331960 TA--TTAT
1 TAGGTTTT
*
25331966 TAGGGTTT
1 TAGGTTTT
25331974 TAGGTTGTT
1 TAGGTT-TT
25331983 TAGGTTTT
1 TAGGTTTT
*
25331991 TAGGGTTT
1 TAGGTTTT
25331999 TAGG
1 TAGG
25332003 GTTAGAGTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
6 4 0.08
8 29 0.60
9 15 0.31
ACGTcount: A:0.16, C:0.00, G:0.29, T:0.54
Consensus pattern (8 bp):
TAGGTTTT
Found at i:25331992 original size:31 final size:31
Alignment explanation
Indices: 25331916--25331990 Score: 107
Period size: 31 Copynumber: 2.4 Consensus size: 31
25331906 GTTTTTGTTA
*
25331916 TTGTTTAGGGTTTATTAAATAGGGTTTTAGG
1 TTGTTTAGGTTTTATTAAATAGGGTTTTAGG
* *
25331947 TTTTTTAGGATTTTATT-ATTAGGGTTTTAGG
1 TTGTTTAGG-TTTTATTAAATAGGGTTTTAGG
25331978 TTGTTTAGGTTTT
1 TTGTTTAGGTTTT
25331991 TAGGGTTTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
30 4 0.10
31 29 0.74
32 6 0.15
ACGTcount: A:0.19, C:0.00, G:0.25, T:0.56
Consensus pattern (31 bp):
TTGTTTAGGTTTTATTAAATAGGGTTTTAGG
Found at i:25332013 original size:39 final size:41
Alignment explanation
Indices: 25331941--25332019 Score: 99
Period size: 39 Copynumber: 2.0 Consensus size: 41
25331931 TAAATAGGGT
** *
25331941 TTTAGGTTTTTTAGGATTTTATTATTAGGGTTTT-AGGTTG
1 TTTAGGTTTTTTAGGATTTTAGGATTAGAGTTTTAAGGTTG
* *
25331981 TTTAGG-TTTTTAGGGTTTTAGGGTTAGAGTTTTAAGGTT
1 TTTAGGTTTTTTAGGATTTTAGGATTAGAGTTTTAAGGTT
25332020 TAAAAATGAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
39 22 0.67
40 11 0.33
ACGTcount: A:0.18, C:0.00, G:0.28, T:0.54
Consensus pattern (41 bp):
TTTAGGTTTTTTAGGATTTTAGGATTAGAGTTTTAAGGTTG
Found at i:25336216 original size:17 final size:17
Alignment explanation
Indices: 25336194--25336247 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
25336184 AATCGCCACA
25336194 AATATTCTTTGGTTTGT
1 AATATTCTTTGGTTTGT
25336211 AATATTTCATTT--TTT-T
1 AATA-TTC-TTTGGTTTGT
*
25336227 ATATATTCTTTGGTATGT
1 A-ATATTCTTTGGTTTGT
25336245 AAT
1 AAT
25336248 CTTCATTATC
Statistics
Matches: 30, Mismatches: 1, Indels: 12
0.70 0.02 0.28
Matches are distributed among these distances:
15 3 0.10
16 5 0.17
17 14 0.47
18 5 0.17
19 3 0.10
ACGTcount: A:0.24, C:0.06, G:0.11, T:0.59
Consensus pattern (17 bp):
AATATTCTTTGGTTTGT
Found at i:25344126 original size:16 final size:17
Alignment explanation
Indices: 25344089--25344128 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 17
25344079 AAAGATGGAC
25344089 ATATAT-TTTTAAAGAA
1 ATATATATTTTAAAGAA
25344105 A-A-ATATTTTAAA-AA
1 ATATATATTTTAAAGAA
25344119 ATATATATTT
1 ATATATATTT
25344129 CTTTAATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
14 5 0.24
15 9 0.43
16 7 0.33
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (17 bp):
ATATATATTTTAAAGAA
Found at i:25344404 original size:15 final size:14
Alignment explanation
Indices: 25344386--25344426 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
25344376 CCAAACAAAG
25344386 AATTTTAAAATCATA
1 AATTTTAAAATC-TA
25344401 AATTTT-AAATCTA
1 AATTTTAAAATCTA
25344414 AATATTTAAAATC
1 AAT-TTTAAAATC
25344427 CAAAATCCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 5 0.21
14 8 0.33
15 11 0.46
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.41
Consensus pattern (14 bp):
AATTTTAAAATCTA
Found at i:25344421 original size:14 final size:14
Alignment explanation
Indices: 25344386--25344423 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
25344376 CCAAACAAAG
25344386 AATTTTAAAATCATA
1 AATTTT-AAATCATA
25344401 AATTTTAAATC-TA
1 AATTTTAAATCATA
25344414 AATATTTAAA
1 AAT-TTTAAA
25344424 ATCCAAAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.23
14 11 0.50
15 6 0.27
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (14 bp):
AATTTTAAATCATA
Found at i:25347374 original size:18 final size:18
Alignment explanation
Indices: 25347348--25347394 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
25347338 CATACAATAG
25347348 TATAGGTTCGC-TGAATACC
1 TATA-GTTCGCAT-AATACC
*
25347367 TATAGTTCGCATAGTACC
1 TATAGTTCGCATAATACC
25347385 TA-AGTTCGCA
1 TATAGTTCGCA
25347395 ACAGACAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 8 0.31
18 13 0.50
19 5 0.19
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (18 bp):
TATAGTTCGCATAATACC
Found at i:25351673 original size:20 final size:19
Alignment explanation
Indices: 25351623--25351677 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
25351613 ATTTTCCAAC
*
25351623 TTAGTTTAATTAATAGTTAAA
1 TTAG-TTAATTAA-ACTTAAA
*
25351644 TTAGTATAATTAAACTTTAA
1 TTAGT-TAATTAAACTTAAA
25351664 TTAAGTTAATTAAA
1 TT-AGTTAATTAAA
25351678 TAAGATTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.45
Consensus pattern (19 bp):
TTAGTTAATTAAACTTAAA
Found at i:25368023 original size:10 final size:10
Alignment explanation
Indices: 25368008--25368032 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
25367998 AGAGGTCTTA
25368008 TTTTCAAGTG
1 TTTTCAAGTG
25368018 TTTTCAAGTG
1 TTTTCAAGTG
25368028 TTTTC
1 TTTTC
25368033 CTCATTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.16, C:0.12, G:0.16, T:0.56
Consensus pattern (10 bp):
TTTTCAAGTG
Found at i:25368323 original size:22 final size:22
Alignment explanation
Indices: 25368297--25368338 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
25368287 TTCTGACTAG
* *
25368297 GGTATCGCAATATCCTTACCTA
1 GGTATCCCAATATCCCTACCTA
*
25368319 GGTATCCCGATATCCCTACC
1 GGTATCCCAATATCCCTACC
25368339 GTGTGGGGAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.24, C:0.33, G:0.14, T:0.29
Consensus pattern (22 bp):
GGTATCCCAATATCCCTACCTA
Found at i:25372326 original size:12 final size:12
Alignment explanation
Indices: 25372311--25372371 Score: 52
Period size: 12 Copynumber: 4.9 Consensus size: 12
25372301 CTAAATAGAA
25372311 ATAATAATATAT
1 ATAATAATATAT
25372323 ATAATAATATTAT
1 ATAATAATA-TAT
* *
25372336 AAGAATAATAGAT
1 -ATAATAATATAT
* *
25372349 AGAATAATA-AA
1 ATAATAATATAT
25372360 ATAAATAATATA
1 AT-AATAATATA
25372372 GAAATATAGA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
11 2 0.05
12 25 0.61
13 6 0.15
14 8 0.20
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (12 bp):
ATAATAATATAT
Found at i:25372363 original size:26 final size:26
Alignment explanation
Indices: 25372313--25372363 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
25372303 AAATAGAAAT
* * **
25372313 AATAATATATATAATAATATTATAAG
1 AATAATAGATAGAATAATAAAATAAG
25372339 AATAATAGATAGAATAATAAAATAA
1 AATAATAGATAGAATAATAAAATAA
25372364 ATAATATAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (26 bp):
AATAATAGATAGAATAATAAAATAAG
Found at i:25372412 original size:14 final size:14
Alignment explanation
Indices: 25372393--25372433 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
25372383 TTATAAATCG
25372393 AAATATATTAATAT
1 AAATATATTAATAT
*
25372407 AAATATAATAATAT
1 AAATATATTAATAT
25372421 AAATATTATTAAT
1 AAATA-TATTAAT
25372434 TACTTAATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 18 0.75
15 6 0.25
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AAATATATTAATAT
Found at i:25396942 original size:66 final size:66
Alignment explanation
Indices: 25396845--25396976 Score: 169
Period size: 66 Copynumber: 2.0 Consensus size: 66
25396835 ACAAATTGCT
* * * **
25396845 CAACTTAAAGTGGAGGCAGCATCGAGAGAAGCAGAGGCTCA-AAGAAAATATGATGAACTCCAGC
1 CAACTTAAAGCGGAGGCAGCATCGAGAGAAGCAAAGGC-AATAAGAAAATATGACAAACTCCAGC
25396909 TA
65 TA
* *
25396911 CAACTTAAAGCGGAGGTAGCAGT-GAGGGAAGCAAAGGCAATAAGAAAATATGACAAACTCCAGC
1 CAACTTAAAGCGGAGGCAGCA-TCGAGAGAAGCAAAGGCAATAAGAAAATATGACAAACTCCAGC
25396975 TA
65 TA
25396977 TAGCTTCAGA
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
65 1 0.02
66 55 0.96
67 1 0.02
ACGTcount: A:0.42, C:0.17, G:0.26, T:0.14
Consensus pattern (66 bp):
CAACTTAAAGCGGAGGCAGCATCGAGAGAAGCAAAGGCAATAAGAAAATATGACAAACTCCAGCT
A
Found at i:25397363 original size:43 final size:42
Alignment explanation
Indices: 25397246--25397387 Score: 142
Period size: 43 Copynumber: 3.3 Consensus size: 42
25397236 TCTGCTAAAG
* **
25397246 TTAGTGGCATTTTTCCACAAACGCCGCTAAAGAACATGACCT
1 TTAGCGGCATTTTTCCACAAACTTCGCTAAAGAACATGACCT
* * * * ** *
25397288 TTAGTGGCGTTTTTACTA-AAAATGTCATTAAAGAACATGATCT
1 TTAGCGGCATTTTT-CCACAAACT-TCGCTAAAGAACATGACCT
*
25397331 TTAGCGGCGTTTTTCCCACAAACTTCGCTAAAGAACATGACCT
1 TTAGCGGCATTTTT-CCACAAACTTCGCTAAAGAACATGACCT
*
25397374 TTAGCAGCATTTTT
1 TTAGCGGCATTTTT
25397388 TATGAGAAGT
Statistics
Matches: 80, Mismatches: 17, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
42 16 0.20
43 60 0.75
44 4 0.05
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.32
Consensus pattern (42 bp):
TTAGCGGCATTTTTCCACAAACTTCGCTAAAGAACATGACCT
Found at i:25397431 original size:86 final size:85
Alignment explanation
Indices: 25397251--25397436 Score: 203
Period size: 86 Copynumber: 2.2 Consensus size: 85
25397241 TAAAGTTAGT
* ** *
25397251 GGCATTTTTCCACAAACGCCGCTAAAGAACATGACCTTTAGTGGCGTTTTTACTAAAAATGTCAT
1 GGCATTTTCCCACAAACGCCGCTAAAGAACATGACCTTTAGCAGCGTTTTTACTAAAAATGTCAC
*
25397316 TAAAGAACATGATCTTTAGC
66 TAAAGAACATGATCTATAGC
* ** * * *
25397336 GGCGTTTTTCCCACAAACTTCGCTAAAGAACATGACCTTTAGCAGCATTTTTTA-TGAGAAGTGT
1 GGC-ATTTTCCCACAAACGCCGCTAAAGAACATGACCTTTAGCAGC-GTTTTTACT-AAAAATGT
* ** *
25397400 CGCTAAAGGTCATGTTCTATAGC
63 CACTAAAGAACATGATCTATAGC
25397423 GGCATTTTCCCACA
1 GGCATTTTCCCACA
25397437 TAAATGCCGT
Statistics
Matches: 82, Mismatches: 16, Indels: 5
0.80 0.16 0.05
Matches are distributed among these distances:
85 3 0.04
86 47 0.57
87 32 0.39
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.31
Consensus pattern (85 bp):
GGCATTTTCCCACAAACGCCGCTAAAGAACATGACCTTTAGCAGCGTTTTTACTAAAAATGTCAC
TAAAGAACATGATCTATAGC
Found at i:25401780 original size:19 final size:19
Alignment explanation
Indices: 25401739--25401781 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
25401729 ATTGAACTTG
*
25401739 AAAATTGGACCTGAAATCG
1 AAAATTGGACCTGAAATCC
*
25401758 AAAATTGTACCTGAGAA-CC
1 AAAATTGGACCTGA-AATCC
25401777 AAAAT
1 AAAAT
25401782 CCGAGACTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.47, C:0.16, G:0.16, T:0.21
Consensus pattern (19 bp):
AAAATTGGACCTGAAATCC
Found at i:25402109 original size:5 final size:5
Alignment explanation
Indices: 25402099--25402125 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
25402089 TGAATTTAAT
25402099 ATTTA ATTTA ATTTA ATTTA ATTTA AT
1 ATTTA ATTTA ATTTA ATTTA ATTTA AT
25402126 ATTTATGTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTTA
Found at i:25402183 original size:16 final size:16
Alignment explanation
Indices: 25402160--25402216 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 16
25402150 TATTAAATTA
25402160 AATA-TTTATTTAGAT
1 AATATTTTATTTAGAT
* * **
25402175 AGTATTTTATTAATTT
1 AATATTTTATTTAGAT
*
25402191 AATA-TTTATCTAGAT
1 AATATTTTATTTAGAT
25402206 AATATTTTATT
1 AATATTTTATT
25402217 AATTTAATAC
Statistics
Matches: 30, Mismatches: 10, Indels: 3
0.70 0.23 0.07
Matches are distributed among these distances:
15 14 0.47
16 16 0.53
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (16 bp):
AATATTTTATTTAGAT
Found at i:25402198 original size:31 final size:31
Alignment explanation
Indices: 25402150--25402225 Score: 116
Period size: 31 Copynumber: 2.4 Consensus size: 31
25402140 TAATATGAGA
* * *
25402150 TATTAAATTAAATATTTATTTAGATAGTATTT
1 TATT-AATTTAATATTTATCTAGATAATATTT
25402182 TATTAATTTAATATTTATCTAGATAATATTT
1 TATTAATTTAATATTTATCTAGATAATATTT
25402213 TATTAATTTAATA
1 TATTAATTTAATA
25402226 CTAATGTGAT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
31 37 0.90
32 4 0.10
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (31 bp):
TATTAATTTAATATTTATCTAGATAATATTT
Found at i:25402224 original size:16 final size:16
Alignment explanation
Indices: 25402177--25402225 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
25402167 ATTTAGATAG
25402177 TATTTTATTAATTTAA
1 TATTTTATTAATTTAA
25402193 TA-TTTATCTAGA--TAA
1 TATTTTAT-TA-ATTTAA
25402208 TATTTTATTAATTTAA
1 TATTTTATTAATTTAA
25402224 TA
1 TA
25402226 CTAATGTGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
14 1 0.04
15 12 0.43
16 14 0.50
17 1 0.04
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (16 bp):
TATTTTATTAATTTAA
Found at i:25410653 original size:3 final size:3
Alignment explanation
Indices: 25410645--25410704 Score: 75
Period size: 3 Copynumber: 20.0 Consensus size: 3
25410635 TCACTTGGTG
* * * * *
25410645 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CGT CAC CAT CCT CCT CCT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
25410693 CAT CAT CAT CAT
1 CAT CAT CAT CAT
25410705 TGGATACATC
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.27, C:0.40, G:0.02, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:25412160 original size:39 final size:39
Alignment explanation
Indices: 25412105--25412188 Score: 161
Period size: 39 Copynumber: 2.2 Consensus size: 39
25412095 ATCCGTAACC
25412105 AATGT-TAAAAAAAATGAATATAGAATATAGTCAAGGAG
1 AATGTGTAAAAAAAATGAATATAGAATATAGTCAAGGAG
25412143 AATGTGTAAAAAAAATGAATATAGAATATAGTCAAGGAG
1 AATGTGTAAAAAAAATGAATATAGAATATAGTCAAGGAG
25412182 AATGTGT
1 AATGTGT
25412189 CTGAACAAAC
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
38 5 0.11
39 40 0.89
ACGTcount: A:0.52, C:0.02, G:0.20, T:0.25
Consensus pattern (39 bp):
AATGTGTAAAAAAAATGAATATAGAATATAGTCAAGGAG
Found at i:25417348 original size:2 final size:2
Alignment explanation
Indices: 25417341--25417370 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
25417331 TTAACAGAAT
25417341 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
25417371 TTGCTCGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:25417438 original size:197 final size:197
Alignment explanation
Indices: 25417111--25417561 Score: 579
Period size: 197 Copynumber: 2.3 Consensus size: 197
25417101 AAATCTACAA
* * *
25417111 AACACCAAAATCTTCGAAAAACGAATAGAAAATTAATAG-A-AGCG-GAA-A-A-AGA-AGAGAG
1 AACACCAAAATCTTCAAAAAACGAATAGAAAATTAACAGAATAGAGAGAAGAGAGAGAGAGAGAG
* *
25417169 AGTGATTGATTAAAACCAGTTGCGCTGGAGACGGCTCTTCCTTTCTGCTAGCCATTTTCTGAACA
66 AGAGATTGATCAAAACCAGTTGCGCTGGAGACGGCTCTTCCTTTCTGCTAGCCATTTTCTGAACA
* *
25417234 GGAAAATTAAA-ATAAATTAACATAAAATATACGTTAAATCACA-ATGTAT-TTCTTCCCTGTTT
131 GGAAAATTAAATATAAATTAACATAAAATATACATTAAATCACAGA-GTATATTCTTCCATGTTT
25417296 CTG
195 CTG
*
25417299 AACACCAAAATCTTCTAAAAACGAATAGAAAATTAACAGAATGAGAGAGAGAGAGAGAGAGAGAG
1 AACACCAAAATCTTCAAAAAACGAATAGAAAATTAACAGAAT-AGAGAGA-AGAGAGAGAGAGAG
* *
25417364 AGAGAGATTGCTCGAAACCAGTTGCGCTGGAGACGAG-TCTTCCTTTCTGCTAGCCATTTTCTGA
64 AGAGAGATTGATCAAAACCAGTTGCGCTGGAGACG-GCTCTTCCTTTCTGCTAGCCATTTTCTGA
* * *
25417428 ACATGAAAATTAAATATAAATTAACGTAAAATATACATTAAATCACAGAGTATATTTTTCCATGT
128 ACAGGAAAATTAAATATAAATTAACATAAAATATACATTAAATCACAGAGTATATTCTTCCATGT
25417493 TTCTG
193 TTCTG
* * * * * *
25417498 GACACCAGAATCTTAAAAAAAACGAATAG-AAATTAACCGATTCA-AAAGAA-AGAGAGAGAGAG
1 AACACCAAAATCTT-CAAAAAACGAATAGAAAATTAACAGAAT-AGAGAGAAGAGAGAGAGAGAG
25417560 AG
64 AG
25417562 CACAACCAGT
Statistics
Matches: 229, Mismatches: 20, Indels: 20
0.85 0.07 0.07
Matches are distributed among these distances:
188 37 0.16
189 1 0.00
191 3 0.01
192 2 0.01
193 1 0.00
194 1 0.00
195 1 0.00
196 17 0.07
197 76 0.33
198 39 0.17
199 39 0.17
200 12 0.05
ACGTcount: A:0.42, C:0.15, G:0.18, T:0.25
Consensus pattern (197 bp):
AACACCAAAATCTTCAAAAAACGAATAGAAAATTAACAGAATAGAGAGAAGAGAGAGAGAGAGAG
AGAGATTGATCAAAACCAGTTGCGCTGGAGACGGCTCTTCCTTTCTGCTAGCCATTTTCTGAACA
GGAAAATTAAATATAAATTAACATAAAATATACATTAAATCACAGAGTATATTCTTCCATGTTTC
TG
Found at i:25420269 original size:24 final size:24
Alignment explanation
Indices: 25420237--25420289 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
25420227 ATTAATATTG
* *
25420237 TTTAAATTTATCGCATATTATTAT
1 TTTAAATTTATCACATATAATTAT
*
25420261 TTTAAATTTATCATATATAATTAT
1 TTTAAATTTATCACATATAATTAT
25420285 TTTAA
1 TTTAA
25420290 GTTTTCATGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.55
Consensus pattern (24 bp):
TTTAAATTTATCACATATAATTAT
Found at i:25432770 original size:14 final size:14
Alignment explanation
Indices: 25432751--25432782 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
25432741 CAGAGCTCCA
25432751 AATTAAGATCTGTT
1 AATTAAGATCTGTT
25432765 AATTAAGATCTGTT
1 AATTAAGATCTGTT
25432779 AATT
1 AATT
25432783 TTTACTTGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.44
Consensus pattern (14 bp):
AATTAAGATCTGTT
Found at i:25433570 original size:51 final size:50
Alignment explanation
Indices: 25433511--25433695 Score: 203
Period size: 51 Copynumber: 3.7 Consensus size: 50
25433501 CCGGTTCACA
* *
25433511 TAGTAGCCTGCACATAATACTACACATGTGACCATATTCATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATA-TCATCCGATACACG
* * * * * *
25433562 TAGTAGCCTGCACATAGTACTACACGCGTGATCGA-AGCTATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATATC-ATCCGATACACG
* * * *
25433613 TAGTAGCCAGCACATAGTACTACACATGCGACC-TATCATTTCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATATCA-TCCGATACACG
*
25433663 TAGGAGCCTGCACATAGTACTACACACGTGACC
1 TAGTAGCCTGCACATAGTACTACACACGTGACC
25433696 TAGCAACTTC
Statistics
Matches: 108, Mismatches: 22, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
49 1 0.01
50 40 0.37
51 65 0.60
52 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATATCATCCGATACACG
Found at i:25433687 original size:101 final size:102
Alignment explanation
Indices: 25433509--25433693 Score: 293
Period size: 101 Copynumber: 1.8 Consensus size: 102
25433499 ACCCGGTTCA
* * *
25433509 CATAGTAGCCTGCACATAATACTACACATGTGACCATATTCATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCAGCACATAATACTACACATGCGACCATATTCATCCGATACACGTAGGAGCCTGCA
*
25433574 CATAGTACTACACGCGTGATCGAAGCTATCCGGTACG
66 CATAGTACTACACACGTGATCGAAGCTATCCGGTACG
* *
25433611 CATAGTAGCCAGCACATAGTACTACACATGCGACC-TA-TCATTTCGATACACGTAGGAGCCTGC
1 CATAGTAGCCAGCACATAATACTACACATGCGACCATATTCA-TCCGATACACGTAGGAGCCTGC
25433674 ACATAGTACTACACACGTGA
65 ACATAGTACTACACACGTGA
25433694 CCTAGCAACT
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
100 3 0.04
101 41 0.54
102 32 0.42
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (102 bp):
CATAGTAGCCAGCACATAATACTACACATGCGACCATATTCATCCGATACACGTAGGAGCCTGCA
CATAGTACTACACACGTGATCGAAGCTATCCGGTACG
Found at i:25436488 original size:42 final size:42
Alignment explanation
Indices: 25436408--25436521 Score: 113
Period size: 42 Copynumber: 2.6 Consensus size: 42
25436398 CGTTTTCTCT
* **
25436408 ATGCCATAGTCCAACTATGGTCTTACACATATTTACATATTG
1 ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
*
25436450 ATGCCATAGCCCAGCTATGGTCTTACACAGTA-GCACATATCACTCCG
1 ATGCCATAGCCCAACTATGGTCTTACACA-TATGCACATAT---T--G
* *
25436497 ATGCCATATCCCAAATATGGTCTTA
1 ATGCCATAGCCCAACTATGGTCTTA
25436522 TGCGGAAATC
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
42 33 0.56
43 2 0.03
45 1 0.02
47 23 0.39
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (42 bp):
ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
Found at i:25439284 original size:51 final size:50
Alignment explanation
Indices: 25439226--25439410 Score: 194
Period size: 51 Copynumber: 3.7 Consensus size: 50
25439216 CCAGTTCACA
* *
25439226 TAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCA-TATCATCCGGTACACG
** * * * *
25439277 TAGTAGCCTGCACATAGTACTACACGCGTGATCGA-AGCTATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACATGTGA-CCATATC-ATCCGGTACACG
* * * *
25439328 TAGTAGCCAGCACATAGTACTACACATGCGGCC-TATCATTTCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATATCA-TCCGGTACACG
* *
25439378 TAGTAGCATGCACATAGTACTACACAGGTGACC
1 TAGTAGCCTGCACATAGTACTACACATGTGACC
25439411 TAGCAACTTC
Statistics
Matches: 107, Mismatches: 23, Indels: 9
0.77 0.17 0.06
Matches are distributed among these distances:
49 1 0.01
50 40 0.37
51 64 0.60
52 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCATATCATCCGGTACACG
Found at i:25442171 original size:131 final size:132
Alignment explanation
Indices: 25441935--25442204 Score: 373
Period size: 131 Copynumber: 2.1 Consensus size: 132
25441925 ATAAGTCTTG
* * * * *
25441935 TCTCCTTATGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCAAGGAAGTAGGAAA
1 TCTCCCTAGGCAGTAGTGGAGCAAATCGAAGACGACGAACCTTATCTTCCCAAGGAAGTAGGAAA
* * * *
25442000 ATAGATTTAAGCCACTAGTACTATCTCCCTGAGCAACAGTGGAGTA-GTTGAAGATTGTAGATCC
66 ACAGATTTAAGCCACCAGTACTATCTCCCTGAGCAACAGTGGAGTAGGTTGAAGATTGTAAATCA
25442064 TA
131 TA
* * *
25442066 TCTCCCTAGGCAGTAGTGGAGCAAATCTAAGACGACGAACCTTATCTTCTCAAGGTAGTA-GAGA
1 TCTCCCTAGGCAGTAGTGGAGCAAATCGAAGACGACGAACCTTATCTTCCCAAGGAAGTAGGA-A
* * *
25442130 AGCAGATTTAAGCCACCAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAAATC
65 AACAGATTTAAGCCACCAGTACTATCTCCCTGAGCAACAGTGGAGTAGGTTGAAGATTGTAAATC
*
25442195 ATG
130 ATA
25442198 TCTCCCT
1 TCTCCCT
25442205 GAGCAGCAGT
Statistics
Matches: 121, Mismatches: 16, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
130 2 0.02
131 95 0.79
132 24 0.20
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (132 bp):
TCTCCCTAGGCAGTAGTGGAGCAAATCGAAGACGACGAACCTTATCTTCCCAAGGAAGTAGGAAA
ACAGATTTAAGCCACCAGTACTATCTCCCTGAGCAACAGTGGAGTAGGTTGAAGATTGTAAATCA
TA
Found at i:25443990 original size:23 final size:24
Alignment explanation
Indices: 25443921--25444001 Score: 94
Period size: 24 Copynumber: 3.4 Consensus size: 24
25443911 ATTAATATTG
**
25443921 TTTAAATTTATCGCATATTATTAT
1 TTTAAATTTATCATATATTATTAT
*
25443945 TTTAAATTTATCATATATAATTAT
1 TTTAAATTTATCATATATTATTAT
*
25443969 TTTAAGTTT-TCAT-TCATTATTAT
1 TTTAAATTTATCATAT-ATTATTAT
*
25443992 TTCAAATTTA
1 TTTAAATTTA
25444002 GTATGTATTA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
22 1 0.02
23 18 0.38
24 29 0.60
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.56
Consensus pattern (24 bp):
TTTAAATTTATCATATATTATTAT
Found at i:25444188 original size:18 final size:19
Alignment explanation
Indices: 25444154--25444189 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
25444144 ACAATAATAT
*
25444154 TTTATATGTATATATACAA
1 TTTATATGTATACATACAA
25444173 TTTATAT-TATACATACA
1 TTTATATGTATACATACA
25444190 TACATATATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.47
Consensus pattern (19 bp):
TTTATATGTATACATACAA
Found at i:25444258 original size:26 final size:24
Alignment explanation
Indices: 25444229--25444277 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
25444219 TTATTATATT
*
25444229 TTTACTTATTCTTATATATATAATTA
1 TTTACTTATT-TT-TAAATATAATTA
*
25444255 TTTATTTATTTTTAAATATAATT
1 TTTACTTATTTTTAAATATAATT
25444278 TATTATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 10 0.48
25 2 0.10
26 9 0.43
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (24 bp):
TTTACTTATTTTTAAATATAATTA
Found at i:25446082 original size:16 final size:16
Alignment explanation
Indices: 25446058--25446088 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25446048 AATTCACCAT
25446058 TTGGCGAACTCTAAGA
1 TTGGCGAACTCTAAGA
*
25446074 TTGGTGAACTCTAAG
1 TTGGCGAACTCTAAG
25446089 GGTTTAGCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (16 bp):
TTGGCGAACTCTAAGA
Found at i:25460880 original size:14 final size:14
Alignment explanation
Indices: 25460838--25460882 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
25460828 GTTTAGGTAG
*
25460838 GAAGCAAGAAAAGA
1 GAAGGAAGAAAAGA
* *
25460852 AAAGTAAGAAAAGA
1 GAAGGAAGAAAAGA
*
25460866 GAAGGAGGAAAAGA
1 GAAGGAAGAAAAGA
25460880 GAA
1 GAA
25460883 TAAAGGATGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.64, C:0.02, G:0.31, T:0.02
Consensus pattern (14 bp):
GAAGGAAGAAAAGA
Found at i:25466163 original size:50 final size:50
Alignment explanation
Indices: 25466038--25466334 Score: 251
Period size: 50 Copynumber: 5.8 Consensus size: 50
25466028 GATAATAACA
* * * ** * * **
25466038 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTCCT-TTAC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATTGG
* * * * **
25466087 TGTCAATGTCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATTGG
* * *
25466137 TGCCCATGCCATGTCCCAGACATGGTCTTAC--GGGACACCACTCATCA-CGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGG--ACCTCTCAT-ATTGG
* * *
25466187 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATTGG
* *
25466237 TGCCAATGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATAACCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--T---TGG
* * *
25466293 TGCTAGTGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
25466335 TTACCGAAAT
Statistics
Matches: 200, Mismatches: 35, Indels: 19
0.79 0.14 0.07
Matches are distributed among these distances:
48 3 0.01
49 34 0.17
50 119 0.60
51 1 0.00
52 3 0.01
53 1 0.00
56 39 0.19
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATTGG
Found at i:25476171 original size:50 final size:50
Alignment explanation
Indices: 25476045--25476227 Score: 138
Period size: 50 Copynumber: 3.7 Consensus size: 50
25476035 GATAATAACA
* * * * ** * *
25476045 TGCCAAAGCCATATCCCAGACAAGGTCTTACATGGGATGTTTCTTGTAC--
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTTTCATAT-CGG
** * * *
25476094 TGCCAATTCCATATCCCAGATATGGTCTTACATGAGA-GTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTT-TCATATCGG
* * * ** * * *
25476144 TGCCCATGCCATGTCCCAGACACGGTCTTACGGGGGACCTTTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTTTCATATCGG
25476194 TGCCAACGCCATGTCCCAGACATGGTCTTACATG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATG
25476228 GGATCTCATT
Statistics
Matches: 107, Mismatches: 23, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
48 4 0.04
49 36 0.34
50 65 0.61
51 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTTTCATATCGG
Found at i:25476605 original size:30 final size:30
Alignment explanation
Indices: 25476571--25476629 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
25476561 TCATTGACTC
25476571 AAACTTTGGCAAAATTACA-TTTTTACCCCT
1 AAACTTTGGCAAAATTACACTTTTT-CCCCT
* * *
25476601 AAACTTTTGCATATTTACACTTTTTCCCC
1 AAACTTTGGCAAAATTACACTTTTTCCCC
25476630 AAAGTTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.29, C:0.25, G:0.05, T:0.41
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACACTTTTTCCCCT
Found at i:25483022 original size:56 final size:51
Alignment explanation
Indices: 25482813--25483047 Score: 230
Period size: 50 Copynumber: 4.6 Consensus size: 51
25482803 AGATGTCAAA
** * **
25482813 GCCATGTCCCAGACATGGTCTTACATGGGATGTTTC-TTGTAC--TGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATACT-CGGTGCCAAT
* * ** * *
25482862 GCCATATCCCAGATATGGTCTTACATGGGAGTTATCATA-TCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATACTCGGTGCCAAT
* * *
25482912 GTCATGTCCCAGACATGGTCTTAC-GGGAGACCTCTCAT-CTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGG-GACCTCTCATACTCGGTGCCAAT
*
25482962 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATGATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A-CTC---GGTGCCAAT
25483018 GCCATGTCCCAGACATGGTCTTACATGGGA
1 GCCATGTCCCAGACATGGTCTTACATGGGA
25483048 TTTCATTCCC
Statistics
Matches: 154, Mismatches: 20, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
48 1 0.01
49 34 0.22
50 77 0.50
51 2 0.01
53 3 0.02
56 37 0.24
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (51 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATACTCGGTGCCAAT
Found at i:25487239 original size:43 final size:42
Alignment explanation
Indices: 25487151--25487352 Score: 262
Period size: 42 Copynumber: 4.8 Consensus size: 42
25487141 GCGTTTACAG
* * * *
25487151 AAAAAAACGTCGTTAAAGGTCATGTTCTTTAGCAGCGC-TACA
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA-A
* * *
25487193 AAAAAAACGCCGCTAAAGATCATATCCTTTAGCTGCGCTTAA
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAA
* *
25487235 AAAAAGACGCAGCTAAAGATCATGTTCTTTAGCGGCGCTTAGA
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA-A
*
25487278 AAAAAGACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAA
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAA
* * *
25487320 ACAAAAACGCCACTACAGATCATGTTCTTTAGC
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGC
25487353 CGTGCTTTCA
Statistics
Matches: 142, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
42 99 0.70
43 43 0.30
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (42 bp):
AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAA
Found at i:25487316 original size:85 final size:84
Alignment explanation
Indices: 25487164--25487352 Score: 265
Period size: 85 Copynumber: 2.2 Consensus size: 84
25487154 AAAACGTCGT
* *
25487164 TAAAGGTCATGTTCTTTAGCAGCGCTACAAAAAAAACGCCGCTAAAGATCATATCCTTTAGCTGC
1 TAAAGATCATGTTCTTTAGCAGCGCTACAAAAAAAACGCCGCTAAAGATCATATCCTTTAGCGGC
25487229 GCTTAAA-AAAAGACG-CAGC
66 GCTTAAACAAAA-ACGCCA-C
* * * * *
25487248 TAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAGACGCCGCTAAAGATCATGTTCTTTAGCGG
1 TAAAGATCATGTTCTTTAGCAGCGC-TACAAAAAAAACGCCGCTAAAGATCATATCCTTTAGCGG
25487313 CGCTTAAACAAAAACGCCAC
65 CGCTTAAACAAAAACGCCAC
*
25487333 TACAGATCATGTTCTTTAGC
1 TAAAGATCATGTTCTTTAGC
25487353 CGTGCTTTCA
Statistics
Matches: 94, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
84 23 0.24
85 65 0.69
86 6 0.06
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (84 bp):
TAAAGATCATGTTCTTTAGCAGCGCTACAAAAAAAACGCCGCTAAAGATCATATCCTTTAGCGGC
GCTTAAACAAAAACGCCAC
Found at i:25487373 original size:85 final size:84
Alignment explanation
Indices: 25487164--25487402 Score: 261
Period size: 85 Copynumber: 2.8 Consensus size: 84
25487154 AAAACGTCGT
* * * * *
25487164 TAAAGGTCATGTTCTTTAGCAGCGC-TACAAAAAAAACGCCGCTAAAGATCATATCCTTTAGCTG
1 TAAAGATCATGTTCTTTAGCCGCGCTTAC-AAAAAAACGCCGCTAAAGATCATGTACTTTAGCGG
25487228 CGCTTAAAAAAAGACGCAGC
65 CGCTTAAAAAAAGACGCAGC
* * *
25487248 TAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAGACGCCGCTAAAGATCATGTTCTTTAGCGG
1 TAAAGATCATGTTCTTTAGCCGCGCTTACAAAAAA-ACGCCGCTAAAGATCATGTACTTTAGCGG
25487313 CGCTTAAACAAAA-ACGCCA-C
65 CGCTTAAA-AAAAGACG-CAGC
* * * * * * *
25487333 TACAGATCATGTTCTTTAGCCGTGCTTTCACTACAAACGCCGCTATAGAACATG-ACTTTTAGCG
1 TAAAGATCATGTTCTTTAGCCGCGCTTACA-AAAAAACGCCGCTAAAGATCATGTAC-TTTAGCG
25487397 GCGCTT
64 GCGCTT
25487403 TTATAAAAAA
Statistics
Matches: 133, Mismatches: 16, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
84 30 0.23
85 94 0.71
86 9 0.07
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (84 bp):
TAAAGATCATGTTCTTTAGCCGCGCTTACAAAAAAACGCCGCTAAAGATCATGTACTTTAGCGGC
GCTTAAAAAAAGACGCAGC
Found at i:25487832 original size:21 final size:21
Alignment explanation
Indices: 25487808--25487876 Score: 111
Period size: 21 Copynumber: 3.3 Consensus size: 21
25487798 GCTTCACTCG
25487808 CTGCTTCTCTCGTTGCAGCCT
1 CTGCTTCTCTCGTTGCAGCCT
*
25487829 CTGCTTCTCTCGTTGTAGCCT
1 CTGCTTCTCTCGTTGCAGCCT
* *
25487850 CTGCTTCCCTCGCTGCAGCCT
1 CTGCTTCTCTCGTTGCAGCCT
25487871 CTGCTT
1 CTGCTT
25487877 TAAGTTGTAG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.04, C:0.39, G:0.19, T:0.38
Consensus pattern (21 bp):
CTGCTTCTCTCGTTGCAGCCT
Found at i:25492375 original size:9 final size:9
Alignment explanation
Indices: 25492336--25492681 Score: 248
Period size: 9 Copynumber: 39.8 Consensus size: 9
25492326 TATGTATTAA
*
25492336 GTAAATTAT
1 GTAAGTTAT
25492345 GTAAGTTAT
1 GTAAGTTAT
25492354 GTATGAG-TA-
1 GTA--AGTTAT
25492363 -TAAGTTAT
1 GTAAGTTAT
25492371 GTAAGTTAT
1 GTAAGTTAT
*
25492380 GT-A-TTAA
1 GTAAGTTAT
*
25492387 GTAAGCTAT
1 GTAAGTTAT
*
25492396 GTAAGTTGT
1 GTAAGTTAT
25492405 GT-A-TTAT
1 GTAAGTTAT
25492412 GTAAGTTAT
1 GTAAGTTAT
25492421 GTAAGTTAT
1 GTAAGTTAT
** *
25492430 CAAAGTAAT
1 GTAAGTTAT
*
25492439 GTATGTTAT
1 GTAAGTTAT
*
25492448 ATAAG-T-T
1 GTAAGTTAT
25492455 GTAAGTTAT
1 GTAAGTTAT
*
25492464 -TATGTATTAT
1 GTAAG--TTAT
25492474 GTAAGTTAT
1 GTAAGTTAT
25492483 GTAAGTTAT
1 GTAAGTTAT
25492492 GTAAGTTAAAT
1 GTAAGTT--AT
25492503 GT-A-TTAT
1 GTAAGTTAT
*
25492510 GTAGGTTAT
1 GTAAGTTAT
*
25492519 GTAATTTGA-
1 GTAAGTT-AT
*
25492528 GTAAGATAT
1 GTAAGTTAT
*
25492537 TTAAGTTAT
1 GTAAGTTAT
*
25492546 GTAAGTTTT
1 GTAAGTTAT
25492555 GT-A-TTAT
1 GTAAGTTAT
25492562 GTAAGTTAT
1 GTAAGTTAT
*
25492571 GTAAGTAAT
1 GTAAGTTAT
25492580 GTAAGTTAAAT
1 GTAAGTT--AT
25492591 GT-A-TTAT
1 GTAAGTTAT
*
25492598 GTAGGTTAT
1 GTAAGTTAT
* *
25492607 GCAAGTTGT
1 GTAAGTTAT
*
25492616 GTAAGATAT
1 GTAAGTTAT
*
25492625 TTAAGTTAT
1 GTAAGTTAT
*
25492634 GTAAGTTTT
1 GTAAGTTAT
25492643 GT-A-TTAT
1 GTAAGTTAT
25492650 GTAAGTTAT
1 GTAAGTTAT
* *
25492659 GTATGCTAT
1 GTAAGTTAT
25492668 GT-A-TTAT
1 GTAAGTTAT
25492675 GTAAGTT
1 GTAAGTT
25492682 GTTATGTTAT
Statistics
Matches: 260, Mismatches: 47, Indels: 60
0.71 0.13 0.16
Matches are distributed among these distances:
6 2 0.01
7 40 0.15
8 17 0.07
9 179 0.69
10 9 0.03
11 13 0.05
ACGTcount: A:0.33, C:0.01, G:0.21, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:25492511 original size:36 final size:35
Alignment explanation
Indices: 25492325--25492677 Score: 213
Period size: 34 Copynumber: 10.2 Consensus size: 35
25492315 TGATATATAA
* *
25492325 TTATGTA-TTAAGTAAATTATGTAAGTTATGTATGAG
1 TTATGTAGTTATGTAAGTTATGTAAGTTATGTA--AG
* *
25492361 -TAT-AAGTTATGTAAGTTATGT-A-TTAAGTAAG
1 TTATGTAGTTATGTAAGTTATGTAAGTTATGTAAG
* *
25492392 CTATGTAAGTTGTGT-A-TTATGTAAGTTATGTAAG
1 TTATGT-AGTTATGTAAGTTATGTAAGTTATGTAAG
** * * *
25492426 TTATCAAAGTAATGTATGTTATATAAG-T-TGTAAG
1 TTAT-GTAGTTATGTAAGTTATGTAAGTTATGTAAG
25492460 TTAT-TATGTATTATGTAAGTTATGTAAGTTATGTAAG
1 TTATGTA-G--TTATGTAAGTTATGTAAGTTATGTAAG
* *
25492497 TTAAATGTA-TTATGTAGGTTATGTAATTTGA-GTAAG
1 TT--ATGTAGTTATGTAAGTTATGTAAGTT-ATGTAAG
* * *
25492533 ATATTTAAGTTATGTAAGTTTTGT-A-TTATGTAAG
1 TTATGT-AGTTATGTAAGTTATGTAAGTTATGTAAG
* *
25492567 TTATGTAAGTAATGTAAGTTAAATGT-A-TTATGTAGG
1 TTATGT-AGTTATGTAAGTT--ATGTAAGTTATGTAAG
* * * *
25492603 TTATGCAAGTTGTGTAAGATATTTAAGTTATGTAAG
1 TTATG-TAGTTATGTAAGTTATGTAAGTTATGTAAG
* * *
25492639 TTTTGTA-TTATGTAAGTTATGTATGCTATGT-A-
1 TTATGTAGTTATGTAAGTTATGTAAGTTATGTAAG
25492671 TTATGTA
1 TTATGTA
25492678 AGTTGTTATG
Statistics
Matches: 248, Mismatches: 43, Indels: 56
0.71 0.12 0.16
Matches are distributed among these distances:
31 2 0.01
32 16 0.06
33 11 0.04
34 85 0.34
35 36 0.15
36 85 0.34
37 9 0.04
39 2 0.01
40 2 0.01
ACGTcount: A:0.33, C:0.01, G:0.20, T:0.45
Consensus pattern (35 bp):
TTATGTAGTTATGTAAGTTATGTAAGTTATGTAAG
Found at i:25492571 original size:88 final size:88
Alignment explanation
Indices: 25492363--25492670 Score: 362
Period size: 88 Copynumber: 3.5 Consensus size: 88
25492353 TGTATGAGTA
* * * *
25492363 TAAGTTATGTAAGTTATGTATTAAGTAAGCTATGTAAGTTGTGT-A-TT--ATGTAAGTTATGTA
1 TAAGTTATGTAAGTTTTGTATTATGTAAGTTATGTAAGTTATGTAAGTTAAATGT-A-TTATGTA
* * * * *
25492424 AGTTAT-CAAAG-TAATGTATGTTATA
64 GGTTATGC-AAGTTGA-GTAAGATATT
25492449 TAAG-T-TGTAAGTTATTATGTATTATGTAAGTTATGTAAGTTATGTAAGTTAAATGTATTATGT
1 TAAGTTATGTAAG-T-TT-TGTATTATGTAAGTTATGTAAGTTATGTAAGTTAAATGTATTATGT
* *
25492512 AGGTTATGTAATTTGAGTAAGATATT
63 AGGTTATGCAAGTTGAGTAAGATATT
*
25492538 TAAGTTATGTAAGTTTTGTATTATGTAAGTTATGTAAGTAATGTAAGTTAAATGTATTATGTAGG
1 TAAGTTATGTAAGTTTTGTATTATGTAAGTTATGTAAGTTATGTAAGTTAAATGTATTATGTAGG
*
25492603 TTATGCAAGTTGTGTAAGATATT
66 TTATGCAAGTTGAGTAAGATATT
* *
25492626 TAAGTTATGTAAGTTTTGTATTATGTAAGTTATGTATGCTATGTA
1 TAAGTTATGTAAGTTTTGTATTATGTAAGTTATGTAAGTTATGTA
25492671 TTATGTAAGT
Statistics
Matches: 193, Mismatches: 18, Indels: 20
0.84 0.08 0.09
Matches are distributed among these distances:
84 6 0.03
85 2 0.01
86 5 0.03
87 25 0.13
88 111 0.58
89 29 0.15
90 5 0.03
91 10 0.05
ACGTcount: A:0.33, C:0.01, G:0.20, T:0.45
Consensus pattern (88 bp):
TAAGTTATGTAAGTTTTGTATTATGTAAGTTATGTAAGTTATGTAAGTTAAATGTATTATGTAGG
TTATGCAAGTTGAGTAAGATATT
Found at i:25492678 original size:25 final size:25
Alignment explanation
Indices: 25492325--25492681 Score: 242
Period size: 25 Copynumber: 13.7 Consensus size: 25
25492315 TGATATATAA
* *
25492325 TTATGTATTAAGTAAATTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
* *
25492350 TTATGTATGAGTATAAGTTATGTAAG
1 TTATGTATTA-TGTAAGTTATGTAAG
* *
25492376 TTATGTATTAAGTAAGCTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
*
25492401 TTGTGTATTATGTAAGTTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
** * * *
25492426 TTATCAAAGTAATGTATGTTATATAAG
1 TTAT-GTA-TTATGTAAGTTATGTAAG
*
25492453 TTGTAAGTTATTATGT-A-TTATGTAAG
1 -T-TATG-TATTATGTAAGTTATGTAAG
25492479 TTATGTAAGTTATGTAAGTTAAATGT-A-
1 TTATGT-A-TTATGTAAGTT--ATGTAAG
*
25492506 TTATGTAGGTTATGTAATTTGA-GTAAG
1 TTATGTA--TTATGTAAGTT-ATGTAAG
* * *
25492533 ATATTTAAGTTATGTAAGTTTTGT-A-
1 TTATGT-A-TTATGTAAGTTATGTAAG
*
25492558 TTATGTAAGTTATGTAAGTAATGTAAG
1 TTATGT-A-TTATGTAAGTTATGTAAG
* *
25492585 TTAAATGTATTATGTAGGTTATGCAAG
1 TT--ATGTATTATGTAAGTTATGTAAG
* * *
25492612 TTGTGTAAGATATTTAAGTTATGTAAG
1 TTATGT-A-TTATGTAAGTTATGTAAG
* *
25492639 TTTTGTATTATGTAAGTTATGTATG
1 TTATGTATTATGTAAGTTATGTAAG
*
25492664 CTATGTATTATGTAAGTT
1 TTATGTATTATGTAAGTT
25492682 GTTATGTTAT
Statistics
Matches: 261, Mismatches: 48, Indels: 46
0.74 0.14 0.13
Matches are distributed among these distances:
23 1 0.00
24 4 0.02
25 109 0.42
26 38 0.15
27 89 0.34
28 9 0.03
29 11 0.04
ACGTcount: A:0.33, C:0.01, G:0.20, T:0.45
Consensus pattern (25 bp):
TTATGTATTATGTAAGTTATGTAAG
Found at i:25494456 original size:6 final size:6
Alignment explanation
Indices: 25494447--25494478 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
25494437 AGCAGAGAGC
*
25494447 GACGGT GACGGT GACGGT GACGGT GACAGT GA
1 GACGGT GACGGT GACGGT GACGGT GACGGT GA
25494479 TGCAGTAGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.22, C:0.16, G:0.47, T:0.16
Consensus pattern (6 bp):
GACGGT
Found at i:25495830 original size:7 final size:7
Alignment explanation
Indices: 25495818--25495921 Score: 66
Period size: 7 Copynumber: 14.7 Consensus size: 7
25495808 ACTAAAGTGG
25495818 CCTAAAC
1 CCTAAAC
25495825 CCTAAAC
1 CCTAAAC
*
25495832 CCCAAAC
1 CCTAAAC
*
25495839 CCCAAAC
1 CCTAAAC
*
25495846 CTTAAAC
1 CCTAAAC
25495853 CCTAAAC
1 CCTAAAC
**
25495860 TTTTAAAC
1 -CCTAAAC
25495868 CCTAAAC
1 CCTAAAC
*
25495875 CCAAAAC
1 CCTAAAC
*
25495882 ACC-AAAA
1 -CCTAAAC
* *
25495889 CCTACAT
1 CCTAAAC
*
25495896 CATAAAC
1 CCTAAAC
*
25495903 CTTAAAC
1 CCTAAAC
*
25495910 CCAAAAC
1 CCTAAAC
*
25495917 TCTAA
1 CCTAA
25495922 TATTCACAAA
Statistics
Matches: 74, Mismatches: 20, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
6 2 0.03
7 65 0.88
8 7 0.09
ACGTcount: A:0.46, C:0.38, G:0.00, T:0.16
Consensus pattern (7 bp):
CCTAAAC
Found at i:25495902 original size:43 final size:42
Alignment explanation
Indices: 25495820--25495916 Score: 106
Period size: 43 Copynumber: 2.3 Consensus size: 42
25495810 TAAAGTGGCC
* * * *
25495820 TAAACCCTAAACCCCAAACCCCAAACCTTAAACCCTAAACTTT
1 TAAACCCTAAACCCAAAACCCAAAACCTTAAACCATAAAC-CT
* *
25495863 TAAACCCTAAACCCAAAACACCAAAACC-TACATCATAAACCT
1 TAAACCCTAAACCCAAAAC-CCAAAACCTTAAACCATAAACCT
*
25495905 TAAACCCAAAAC
1 TAAACCCTAAAC
25495917 TCTAATATTC
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
42 12 0.26
43 27 0.59
44 7 0.15
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.15
Consensus pattern (42 bp):
TAAACCCTAAACCCAAAACCCAAAACCTTAAACCATAAACCT
Found at i:25496144 original size:49 final size:47
Alignment explanation
Indices: 25496033--25496144 Score: 118
Period size: 49 Copynumber: 2.3 Consensus size: 47
25496023 ACAAACTCCC
* **
25496033 AAACCTTAAACCAAAAACACTAAACTTACATCGTAAACCCTAAACCCT
1 AAACC-TAAACCAAAAACAATAAACTTACATAATAAACCCTAAACCCT
* * *
25496081 AAA-CTACAATCCAAAAATAATAAACATTATATAATGAACCCTAATACCCT
1 AAACCTA-AA-CCAAAAACAATAAAC-TTACATAATAAACCCTAA-ACCCT
25496131 AAACCTAAACCAAA
1 AAACCTAAACCAAA
25496145 TATGACAAAC
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
46 2 0.04
47 3 0.06
48 16 0.30
49 19 0.36
50 10 0.19
51 3 0.06
ACGTcount: A:0.52, C:0.27, G:0.02, T:0.20
Consensus pattern (47 bp):
AAACCTAAACCAAAAACAATAAACTTACATAATAAACCCTAAACCCT
Found at i:25496170 original size:16 final size:17
Alignment explanation
Indices: 25496151--25496185 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
25496141 CAAATATGAC
25496151 AAACTA-AATATATAAT
1 AAACTACAATATATAAT
*
25496167 AAACTACACTATATAAT
1 AAACTACAATATATAAT
25496184 AA
1 AA
25496186 CCTAGCGACG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.60, C:0.11, G:0.00, T:0.29
Consensus pattern (17 bp):
AAACTACAATATATAAT
Found at i:25496521 original size:114 final size:114
Alignment explanation
Indices: 25496318--25496980 Score: 821
Period size: 114 Copynumber: 5.8 Consensus size: 114
25496308 GCGCTTGGTG
* * *
25496318 TACTATGCATTAGCGGCGTTTTCCCATAAGTGCCACTAATTCTAATATACCTCAAGACCAAACTC
1 TACTATGCTTTAGCGGCGTTTTCCAATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACTC
*** * *
25496383 TATGTTTTGGTTAAGATATTTTGCGGCGCTTCTGACGACGCGCCGCTAA
66 TGCATTTTGGTTAAGATATGTTGCGGCGCTTTTGACGACGCGCCGCTAA
* * * *
25496432 TACTATGCATTAGCGGCATTTTCGAATAAGTGCCACTAATTCTAATATACCTCAAGACCAAACTC
1 TACTATGCTTTAGCGGCGTTTTCCAATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACTC
*
25496497 TGCGTTTTGGTTAAGATATGTTGCGGCGCTTTTGACGACGCGCCGCTAA
66 TGCATTTTGGTTAAGATATGTTGCGGCGCTTTTGACGACGCGCCGCTAA
* *
25496546 TACTATGCTTTAGCGGCGTTTTCCAATAAGCGCCACTAATTCTAGTATACCTCAAGACCAAACTT
1 TACTATGCTTTAGCGGCGTTTTCCAATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACTC
* * * * *
25496611 TGCATTTTGGTTAAGATATGTTGTGGCGCTTTTTACAACACGCCACTAA
66 TGCATTTTGGTTAAGATATGTTGCGGCGCTTTTGACGACGCGCCGCTAA
* * * *
25496660 TACTATGCGTTAGCGGCATTTTCCCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAAATC
1 TACTATGCTTTAGCGGCGTTTTCCAATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACTC
* * * * * **
25496725 TGCGTTTTGGTTAATATATTTTGCGGCGCTTTTCACAAATCGCCGCTAA
66 TGCATTTTGGTTAAGATATGTTGCGGCGCTTTTGACGACGCGCCGCTAA
* * * * *
25496774 TACT-TGCTTTAGCGGCGTTTTTC-ATATGCACCACTAATTCTAATATACATAAAGACCAAACTC
1 TACTATGCTTTAGCGGCGTTTTCCAATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACTC
* * * * *
25496837 TGTATTTTGGTTAAGATATGTTGCGGCGCGTTTGGCGA-TCGCTGCTAA
66 TGCATTTTGGTTAAGATATGTTGCGGCGCTTTTGACGACGCGCCGCTAA
* * * * * * *
25496885 TACT-TTCTTTAGCGGCGTTTTCCTATAATCGCCACTAATTCTAGTATACATCTAGACCAAAACG
1 TACTATGCTTTAGCGGCGTTTTCCAATAAGCGCCACTAATTCTAATATACCTCAAGACC-AAACT
* * * *
25496949 CTACATTTTGGTTAAGAGATTTTGTGGCGCTT
65 CTGCATTTTGGTTAAGATATGTTGCGGCGCTT
25496981 GATAGTAAAT
Statistics
Matches: 482, Mismatches: 65, Indels: 5
0.87 0.12 0.01
Matches are distributed among these distances:
111 30 0.06
112 93 0.19
113 46 0.10
114 313 0.65
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (114 bp):
TACTATGCTTTAGCGGCGTTTTCCAATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACTC
TGCATTTTGGTTAAGATATGTTGCGGCGCTTTTGACGACGCGCCGCTAA
Found at i:25498668 original size:15 final size:15
Alignment explanation
Indices: 25498648--25498678 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
25498638 AAAACAACAT
25498648 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
25498663 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
25498678 A
1 A
25498679 CTTACATAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:25503021 original size:15 final size:15
Alignment explanation
Indices: 25502997--25503027 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
25502987 AAAACAACAT
25502997 AACTCCTGACCTTTC
1 AACTCCTGACCTTTC
*
25503012 AACTCTTGACCTTTC
1 AACTCCTGACCTTTC
25503027 A
1 A
25503028 CTTACATAAC
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:0.23, C:0.35, G:0.06, T:0.35
Consensus pattern (15 bp):
AACTCCTGACCTTTC
Found at i:25503916 original size:14 final size:13
Alignment explanation
Indices: 25503882--25503924 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
25503872 TCCTGATTGG
*
25503882 TTTATTGATTTTT
1 TTTATTTATTTTT
*
25503895 TTTGTTTATTTGTT
1 TTTATTTATTT-TT
25503909 TTTATTTATTTCTT
1 TTTATTTATTT-TT
25503923 TT
1 TT
25503925 CATTGTTTGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
13 9 0.36
14 16 0.64
ACGTcount: A:0.12, C:0.02, G:0.07, T:0.79
Consensus pattern (13 bp):
TTTATTTATTTTT
Found at i:25513959 original size:50 final size:50
Alignment explanation
Indices: 25513842--25514035 Score: 271
Period size: 50 Copynumber: 3.9 Consensus size: 50
25513832 TGATAATAAC
* ** *
25513842 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCG
* * **
25513893 ATGCCCATGCCATGTCCCAAACATGGTCTTACGGGGGACCTCTCATCTCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
* * *
25513943 GTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGTCCTCTCATCTCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
*
25513993 ATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGACCTCT
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
25514036 TTACCCAAAT
Statistics
Matches: 124, Mismatches: 19, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
50 91 0.73
51 33 0.27
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (50 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
Found at i:25517021 original size:16 final size:16
Alignment explanation
Indices: 25517000--25517031 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
25516990 GTTTTGTCGC
*
25517000 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
25517016 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
25517032 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:25517324 original size:51 final size:51
Alignment explanation
Indices: 25517259--25517449 Score: 221
Period size: 51 Copynumber: 3.8 Consensus size: 51
25517249 CCAGTTCACA
*
25517259 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGATACACG
* * * * *
25517310 TAGTAGTCTTCACATAGTACTACACACGTGATCGA--AGCTATCCGGTACACA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTATCCGATACACG
* * *
25517361 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-T-CTAGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCCGA-TACACG
*
25517411 TAGTAGCCTGCACATAGTACCACACACGTGACCATCACT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
25517450 TTCACTTTCA
Statistics
Matches: 116, Mismatches: 17, Indels: 15
0.78 0.11 0.10
Matches are distributed among these distances:
49 5 0.04
50 39 0.34
51 69 0.59
52 2 0.02
53 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGATACACG
Found at i:25517479 original size:101 final size:102
Alignment explanation
Indices: 25517252--25517441 Score: 278
Period size: 102 Copynumber: 1.9 Consensus size: 102
25517242 AATGATACCA
* * *
25517252 GTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGT
1 GTTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCAGATACACGTAGTAGC
* * *
25517317 CTTCACATAGTACTACACACGTGATCGAAGCTATCCG
66 CTGCACATAGTACCACACACGTGATCCAAGCTATCCG
*
25517354 GTACACATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTAG-TACACGTAGTA
1 GTTCACATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTATC-AGATACACGTAGTA
25517416 GCCTGCACATAGTACCACACACGTGA
64 GCCTGCACATAGTACCACACACGTGA
25517442 CCATCACTTT
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
101 36 0.45
102 40 0.50
103 4 0.05
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (102 bp):
GTTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCAGATACACGTAGTAGC
CTGCACATAGTACCACACACGTGATCCAAGCTATCCG
Found at i:25519122 original size:24 final size:23
Alignment explanation
Indices: 25519055--25519122 Score: 77
Period size: 24 Copynumber: 2.8 Consensus size: 23
25519045 AAGCTGCTCT
25519055 TTGTGGTCAAACCACTCAAATATGA
1 TTGTGG-CAAACCACTC-AATATGA
25519080 -TGTGGCAAAGCCACTCAATA-GCA
1 TTGTGGCAAA-CCACTCAATATG-A
25519103 TTGTGGACAAACCACTCAAT
1 TTGTGG-CAAACCACTCAAT
25519123 TTTTCAGTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
22 1 0.03
23 9 0.23
24 25 0.64
25 4 0.10
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.24
Consensus pattern (23 bp):
TTGTGGCAAACCACTCAATATGA
Found at i:25521458 original size:27 final size:28
Alignment explanation
Indices: 25521422--25521475 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
25521412 TCGAAATTCA
*
25521422 CACTTTAATTA-TAAAATAATTAATTTG
1 CACTTCAATTATTAAAATAATTAATTTG
* *
25521449 CACTTCAATTATTAACATATTTAATTT
1 CACTTCAATTATTAAAATAATTAATTT
25521476 TAATTATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.41, C:0.11, G:0.02, T:0.46
Consensus pattern (28 bp):
CACTTCAATTATTAAAATAATTAATTTG
Found at i:25533911 original size:28 final size:28
Alignment explanation
Indices: 25533872--25533990 Score: 168
Period size: 28 Copynumber: 4.3 Consensus size: 28
25533862 CTATTTAGTA
**
25533872 ACAGT-ACAGTGTGGGCCTTAGCCTGAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
** *
25533899 ACAGTAACAGTGTGGTTCTTAGCCCGAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
* *
25533927 ACAGTAATAGTGTGGGACTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
25533955 ACAGTAACAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
25533983 ACAGTAAC
1 ACAGTAAC
25533991 CAGTACAGTG
Statistics
Matches: 82, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
27 5 0.06
28 77 0.94
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (28 bp):
ACAGTAACAGTGTGGGCCTTAGCCCAAT
Found at i:25534124 original size:26 final size:26
Alignment explanation
Indices: 25534095--25534149 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
25534085 AGCACACCAA
* * *
25534095 TATCGTAGCAAAGCTTCCAGTAATAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
*
25534121 TATCGCAGCGAAGCTGCCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
25534147 TAT
1 TAT
25534150 ATGTGGCAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.24
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAGTAACAG
Found at i:25534372 original size:27 final size:27
Alignment explanation
Indices: 25534342--25534714 Score: 408
Period size: 27 Copynumber: 13.9 Consensus size: 27
25534332 GGTATAACAA
25534342 TCATTTTACCCTATGGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* * *
25534369 TCATTCTA-CCTATAGGGGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTCGG
* * * *
25534395 TTATTTTACCTTACGGGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* *
25534422 TCATTTTACCCTATAGGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* *
25534449 TCATTTTACCCTATCGGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* *** *
25534476 CCATTTTACCCTACAAGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* * * **
25534503 TCGTTTTACCTTACGGGGGTATTTTAG
1 TCATTTTACCCTATGGGGGTATTTCGG
* * *
25534530 TCATTCTATCCTATGGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGG
* * *
25534557 TCATTTTACTCTACGGGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGG
*
25534584 TCATTTTACCCTATGGGGGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTCGG
** *
25534611 TCATTTTACCCTATAAGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGG
* *
25534638 TTATTTTACCCTATGGAGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* *
25534665 TCATTTTACCCTACGGGGGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTCGG
*
25534692 TCATTTTACCCTAT-GAGGTATTT
1 TCATTTTACCCTATGGGGGTATTT
25534715 TGGGGTCTCG
Statistics
Matches: 287, Mismatches: 58, Indels: 3
0.82 0.17 0.01
Matches are distributed among these distances:
26 30 0.10
27 257 0.90
ACGTcount: A:0.18, C:0.17, G:0.22, T:0.42
Consensus pattern (27 bp):
TCATTTTACCCTATGGGGGTATTTCGG
Found at i:25534499 original size:81 final size:81
Alignment explanation
Indices: 25534342--25534714 Score: 462
Period size: 81 Copynumber: 4.6 Consensus size: 81
25534332 GGTATAACAA
* * * * *
25534342 TCATTTTACCCTATGGGGGTATTTCGGTCATTCTA-CCTATAGGGGTATTTCAGTTATTTTACCT
1 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATAGGGGTATTTCGGTCATTTTACCC
25534406 TACGGGGGTATTTTGG
66 TACGGGGGTATTTTGG
* ** * * *
25534422 TCATTTTACCCTATAGGGGTATTTTGGTCATTTTACCCTATCGGGGTATTTTGGCCATTTTACCC
1 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATAGGGGTATTTCGGTCATTTTACCC
**
25534487 TACAAGGGTATTTTGG
66 TACGGGGGTATTTTGG
* * * * * * * * *
25534503 TCGTTTTACCTTACGGGGGTATTTTAGTCATTCTATCCTATGGGGGTATTTCGATCATTTTACTC
1 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATAGGGGTATTTCGGTCATTTTACCC
25534568 TACGGGGGTATTTTGG
66 TACGGGGGTATTTTGG
* * *
25534584 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATAAGGGTATTTCGATTATTTTACCC
1 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATAGGGGTATTTCGGTCATTTTACCC
* * *
25534649 TATGGAGGTATTTCGG
66 TACGGGGGTATTTTGG
* *
25534665 TCATTTTACCCTACGGGGGTATTTCAGTCATTTTACCCTAT-GAGGTATTT
1 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATAGGGGTATTT
25534715 TGGGGTCTCG
Statistics
Matches: 251, Mismatches: 41, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
80 39 0.16
81 212 0.84
ACGTcount: A:0.18, C:0.17, G:0.22, T:0.42
Consensus pattern (81 bp):
TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATAGGGGTATTTCGGTCATTTTACCC
TACGGGGGTATTTTGG
Found at i:25537806 original size:40 final size:41
Alignment explanation
Indices: 25537761--25537857 Score: 135
Period size: 40 Copynumber: 2.4 Consensus size: 41
25537751 ATCTTCAAGG
25537761 ATATGCAATCTTAGATATGATATGCAATCTT-AGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCTTGAGATATGAT
*
25537801 ATATGCAATCTTGGATATGATATGCAATCTTGGAAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCTT-G-AGATATGAT
* *
25537844 -TTTGTAATCTTAGA
1 ATATGCAATCTTAGA
25537858 GATTTAATTT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
40 30 0.60
42 11 0.22
43 9 0.18
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (41 bp):
ATATGCAATCTTAGATATGATATGCAATCTTGAGATATGAT
Found at i:25537834 original size:19 final size:19
Alignment explanation
Indices: 25537760--25537831 Score: 117
Period size: 19 Copynumber: 3.7 Consensus size: 19
25537750 AATCTTCAAG
25537760 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
25537779 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
25537798 GATATATGCAATCTTGGATAT
1 G--ATATGCAATCTTAGATAT
25537819 GATATGCAATCTT
1 GATATGCAATCTT
25537832 GGAAGATATG
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
19 32 0.64
21 18 0.36
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:25540215 original size:88 final size:88
Alignment explanation
Indices: 25540056--25541090 Score: 1198
Period size: 88 Copynumber: 11.8 Consensus size: 88
25540046 GTGAAGATAA
* * * * *
25540056 CAGATCTTGCCTTCTTGCACCGACAGCGAAGCAGATCGAAGACTCCAACCTTGCCTCCCTGAGTT
1 CAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
25540121 GTAGCGGAGCAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* * *
25540144 CAGATCTTGCCTTCCTGCACTGACAGCAAAGTAGATCGAAGACACCAACCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* *
25540209 GCAGCGGAACAGGTTGAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* * * * * * * *
25540232 CAAATCTTGTCTTCCTGTACTAACAACGAAGCAGATCGAAGACACTAGTCTTGCCTCTCTGGGTT
1 CAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
25540297 GCAGCGGAGTAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* * * * * * *
25540320 CAGATCTTACATTCCTGTACCGGCAGTGAAGCAGATCAAAGACACCAGCCTTGCCTCCCCT-GGT
1 CAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT-CCCTGGGT
* * *
25540384 TGCAGCAGAGCAGGTTGAAAATTG
65 TGCAGCGGAGCAGGTTAAAAATAG
** * * * * * *
25540408 CAGATCTTATCTCCCTAAGCAGT-A-ATG-G-AGTAGATTGAAGACACTAGCCTTGCCTCCCTCG
1 CAGATCTTGCCTTCCT--GCACTGACA-GCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGG
* * *
25540469 GTGGCAGCGGAGCAGGTTAAAGATAA
63 GTTGCAGCGGAGCAGGTTAAAAATAG
* * * * * *
25540495 CAGATCTTGCCTTCCTGTACTGACAGTGAAGCAGATTGAAGACACTAGCCTTGCCTCCCTCGGTG
1 CAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
** *
25540560 GCAGTAGAGCAGGTTAAAGATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* * * * * * *
25540583 CAGATCTTTCCTTCCTGTACTGACAGTGAAGCAGATTGAAGACACTAGCCTTGCCTCCCTCGGTG
1 CAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* *
25540648 GCAGTGGAGCAGGTTAAAGATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* * * * * * *
25540671 CAGATCTTGCCTTCCTGTACTAACAGTGAAGCAGATTGAAGACACTAGCCTTGCCTCCCTCGGTG
1 CAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* *
25540736 GCAGTGGAGCAGGTTAAAGATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* * * * * * * * *
25540759 TAAATCTTGCCTTCTTGTACTGACAGTGAAGCAGATTGAAGACACTAGTCTTGCCTCCCTAGGTT
1 CAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
25540824 GCAGCGGAGCAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
** * *
25540847 CAGATCTTGCCTTCCTGCACCAACAGCGAAGCAGATCGAAGACACCAACCTTGCCTCCCTAGGTT
1 CAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
25540912 GCAACGGAGCAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
*
25540935 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
25541000 GCAGCGGAGCAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* * * * * *
25541023 CAGATCTTGCCTTCCTACACCGACAACGAAGCAGATCGAAGACACAAGTCTTGCCTCCCTGAGTT
1 CAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
25541088 GCA
66 GCA
25541091 TCAGATCAAG
Statistics
Matches: 838, Mismatches: 100, Indels: 18
0.88 0.10 0.02
Matches are distributed among these distances:
85 3 0.00
86 6 0.01
87 59 0.07
88 764 0.91
89 4 0.00
90 2 0.00
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.23
Consensus pattern (88 bp):
CAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
GCAGCGGAGCAGGTTAAAAATAG
Found at i:25541011 original size:43 final size:43
Alignment explanation
Indices: 25540870--25541011 Score: 113
Period size: 43 Copynumber: 3.3 Consensus size: 43
25540860 CCTGCACCAA
* *
25540870 CAGCGAAGCAGATCGAAGACACCAACCTTGCCTCCCTAGGTTG
1 CAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTG
* * * ** * * * * * ****
25540913 CAACGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCG
1 CAGCGAAGCAGATCGAAGACACCAG-CCTTGCCTCCCTGGGTTG
25540957 ACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTG
1 -CAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTG
*
25541001 CAGCGGAGCAG
1 CAGCGAAGCAG
25541012 GTTAAAAATA
Statistics
Matches: 66, Mismatches: 31, Indels: 4
0.65 0.31 0.04
Matches are distributed among these distances:
43 26 0.39
44 23 0.35
45 17 0.26
ACGTcount: A:0.27, C:0.30, G:0.26, T:0.16
Consensus pattern (43 bp):
CAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTG
Found at i:25541499 original size:40 final size:41
Alignment explanation
Indices: 25541454--25541549 Score: 142
Period size: 40 Copynumber: 2.3 Consensus size: 41
25541444 TCTTCAAGCA
25541454 TATGCAATCTTAGATATGATATGCAATCTT-AGATATGATT
1 TATGCAATCTTAGATATGATATGCAATCTTGAGATATGATT
*
25541494 TATGCAATCTTGGATATGATATGCAATCTTGGAAGATATGATT
1 TATGCAATCTTAGATATGATATGCAATCTT-G-AGATATGATT
*
25541537 T-TGTAATCTTAGA
1 TATGCAATCTTAGA
25541550 GATTTAATTT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
40 29 0.58
42 10 0.20
43 11 0.22
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (41 bp):
TATGCAATCTTAGATATGATATGCAATCTTGAGATATGATT
Found at i:25541526 original size:19 final size:19
Alignment explanation
Indices: 25541453--25541523 Score: 115
Period size: 19 Copynumber: 3.6 Consensus size: 19
25541443 ATCTTCAAGC
25541453 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
25541472 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
*
25541491 ATTTATGCAATCTTGGATATG
1 A--TATGCAATCTTAGATATG
25541512 ATATGCAATCTT
1 ATATGCAATCTT
25541524 GGAAGATATG
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
19 31 0.63
21 18 0.37
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.39
Consensus pattern (19 bp):
ATATGCAATCTTAGATATG
Found at i:25542336 original size:19 final size:19
Alignment explanation
Indices: 25542312--25542349 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
25542302 AAAATGTTTT
*
25542312 TATACA-ATACTATTTTATA
1 TATACATATA-TAATTTATA
25542331 TATACATATATAATTTATA
1 TATACATATATAATTTATA
25542350 ATAAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (19 bp):
TATACATATATAATTTATA
Found at i:25564672 original size:12 final size:12
Alignment explanation
Indices: 25564655--25564681 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
25564645 GGTTTCCATT
25564655 AAAAAAAAGAAA
1 AAAAAAAAGAAA
25564667 AAAAAAAAGAAA
1 AAAAAAAAGAAA
25564679 AAA
1 AAA
25564682 GGAAAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (12 bp):
AAAAAAAAGAAA
Found at i:25565135 original size:21 final size:22
Alignment explanation
Indices: 25565098--25565142 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
25565088 TTGCTTGTAC
25565098 TTAAGTACACTTTGTTA-CATT
1 TTAAGTACACTTTGTTAGCATT
*
25565119 TTAAG-ACATTTTAGTTAGCATT
1 TTAAGTACACTTT-GTTAGCATT
25565141 TT
1 TT
25565143 TACATTAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 6 0.29
21 9 0.43
22 6 0.29
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.49
Consensus pattern (22 bp):
TTAAGTACACTTTGTTAGCATT
Found at i:25569974 original size:3 final size:3
Alignment explanation
Indices: 25569966--25569993 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
25569956 CTCTGTGGGA
25569966 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
25569994 TTTTGGGATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:25571645 original size:30 final size:29
Alignment explanation
Indices: 25571587--25571647 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
25571577 TGCTTTCTGA
* *
25571587 AATATTTACAAAAAAAGCATCTAATTTTT
1 AATATTTACAAAAAAAGCACCAAATTTTT
*
25571616 AATATTTACAAAAAGAGCAACCAAATTTTT
1 AATATTTACAAAAAAAGC-ACCAAATTTTT
25571646 AA
1 AA
25571648 AAATAATTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 17 0.61
30 11 0.39
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.33
Consensus pattern (29 bp):
AATATTTACAAAAAAAGCACCAAATTTTT
Found at i:25580374 original size:27 final size:27
Alignment explanation
Indices: 25580344--25580405 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
25580334 CTGTCAGGAA
* * *
25580344 AGTAAACACGGGATAGTCCTCCA-AGAC
1 AGTAAACAAGGGATAATCCACCAGA-AC
25580371 AGTAAACAAGGGATAATCCACCAGAAC
1 AGTAAACAAGGGATAATCCACCAGAAC
25580398 AGTAAACA
1 AGTAAACA
25580406 TGGGGTACAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.45, C:0.23, G:0.19, T:0.13
Consensus pattern (27 bp):
AGTAAACAAGGGATAATCCACCAGAAC
Found at i:25591595 original size:10 final size:10
Alignment explanation
Indices: 25591582--25591611 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
25591572 ATGTGATTTT
*
25591582 TAAATATATA
1 TAAATAAATA
25591592 TAAATAAATA
1 TAAATAAATA
25591602 TAAATAAATA
1 TAAATAAATA
25591612 AAAGTTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
TAAATAAATA
Found at i:25591601 original size:14 final size:14
Alignment explanation
Indices: 25591582--25591613 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
25591572 ATGTGATTTT
*
25591582 TAAATATATATAAA
1 TAAATATAAATAAA
25591596 TAAATATAAATAAA
1 TAAATATAAATAAA
25591610 TAAA
1 TAAA
25591614 AGTTAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
TAAATATAAATAAA
Found at i:25592086 original size:41 final size:41
Alignment explanation
Indices: 25592029--25592178 Score: 201
Period size: 41 Copynumber: 3.7 Consensus size: 41
25592019 TGTAAGTTCC
25592029 GGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATATCA
1 GGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATATCA
* *
25592070 GGCTTTATGCCTAGCAGGCTCTGTGCCGGTGAATTATATCA
1 GGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATATCA
** * * * * * *
25592111 AACTTTATGTCTAGCAGGCTTTGTGCTGGTGAAATGTATCG
1 GGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATATCA
*
25592152 GGCTTTGTGCCTAGCAGGCTTTATGCC
1 GGCTTTATGCCTAGCAGGCTTTATGCC
25592179 AATGTTTTAT
Statistics
Matches: 93, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 93 1.00
ACGTcount: A:0.19, C:0.20, G:0.27, T:0.34
Consensus pattern (41 bp):
GGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATATCA
Found at i:25592202 original size:82 final size:83
Alignment explanation
Indices: 25592029--25592202 Score: 199
Period size: 82 Copynumber: 2.1 Consensus size: 83
25592019 TGTAAGTTCC
* * *
25592029 GGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATATCAGGCTTTATGCCTAGCAGGCTCTGT
1 GGCTTTATGTCTAGCAGGCTTTATGCCGGTGAAATATATCAGGCTTTATGCCTAGCAGGCTCTAT
**
25592094 GCCGGTGAATTATATCAA
66 GCCAATGAATTATATCAA
* * * * * * *
25592112 -ACTTTATGTCTAGCAGGCTTTGTGCTGGTGAAATGTATCGGGCTTTGTGCCTAGCAGGCTTTAT
1 GGCTTTATGTCTAGCAGGCTTTATGCCGGTGAAATATATCAGGCTTTATGCCTAGCAGGCTCTAT
**
25592176 GCCAATGTTTTATA-CAA
66 GCCAATGAATTATATCAA
*
25592193 GGCTCTATGT
1 GGCTTTATGT
25592203 TCTATAAATC
Statistics
Matches: 74, Mismatches: 16, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
81 3 0.04
82 71 0.96
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (83 bp):
GGCTTTATGTCTAGCAGGCTTTATGCCGGTGAAATATATCAGGCTTTATGCCTAGCAGGCTCTAT
GCCAATGAATTATATCAA
Found at i:25593060 original size:22 final size:22
Alignment explanation
Indices: 25593035--25593134 Score: 78
Period size: 22 Copynumber: 4.4 Consensus size: 22
25593025 ATTTGGTACG
*
25593035 TATATGCTGCCCATTTGTTGTA
1 TATATGCTGCCAATTTGTTGTA
** *
25593057 TATATGCTGTTAAATTTTGGTGTA
1 TATATGCTG-CCAA-TTTGTTGTA
* *
25593081 AAAATGCTGCTCAATTTGGTATGT-
1 TATATGCTGC-CAATTT-GT-TGTA
*
25593105 T-TATGCTGCCCATTTGTTGTA
1 TATATGCTGCCAATTTGTTGTA
25593126 TATATGCTG
1 TATATGCTG
25593135 TTAAAATTTT
Statistics
Matches: 59, Mismatches: 12, Indels: 14
0.69 0.14 0.16
Matches are distributed among these distances:
20 3 0.05
21 3 0.05
22 21 0.36
23 11 0.19
24 18 0.31
25 3 0.05
ACGTcount: A:0.22, C:0.13, G:0.20, T:0.45
Consensus pattern (22 bp):
TATATGCTGCCAATTTGTTGTA
Found at i:25593077 original size:69 final size:70
Alignment explanation
Indices: 25592991--25593252 Score: 352
Period size: 70 Copynumber: 3.8 Consensus size: 70
25592981 TATTATGTAC
*
25592991 ATGCTGTTAAATTTTGGTGTAAAAATG-TAGCTCAATTTGGTACGTATATGCTGCCCATTTGTTG
1 ATGCTGTTAAATTTTGGTGTAAAAATGCTAGCTCAATTTGGTATGTATATGCTGCCCATTTGTTG
25593055 TATAT
66 TATAT
*
25593060 ATGCTGTTAAATTTTGGTGTAAAAATGCT-GCTCAATTTGGTATGTTTATGCTGCCCATTTGTTG
1 ATGCTGTTAAATTTTGGTGTAAAAATGCTAGCTCAATTTGGTATGTATATGCTGCCCATTTGTTG
25593124 TATAT
66 TATAT
* * * *
25593129 ATGCTGTTAAAATTTTGGTGTAAAAGTGCTA-TTAAATTTAGTATGTATATGCTGCCCATTTGTT
1 ATGCTGTT-AAATTTTGGTGTAAAAATGCTAGCTCAATTTGGTATGTATATGCTGCCCATTTGTT
25593193 GTATAT
65 GTATAT
* * * * * * * *
25593199 AAGCTGTCCAAATTTTGGTGTATAAATGAT-GTTTAATTTGGTATATAAATGCTG
1 ATGCTGT-TAAATTTTGGTGTAAAAATGCTAGCTCAATTTGGTATGTATATGCTG
25593253 TCCAAATTGA
Statistics
Matches: 172, Mismatches: 16, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
69 73 0.42
70 99 0.58
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.43
Consensus pattern (70 bp):
ATGCTGTTAAATTTTGGTGTAAAAATGCTAGCTCAATTTGGTATGTATATGCTGCCCATTTGTTG
TATAT
Found at i:25593268 original size:23 final size:23
Alignment explanation
Indices: 25593192--25593269 Score: 68
Period size: 23 Copynumber: 3.3 Consensus size: 23
25593182 GCCCATTTGT
25593192 TGTATATAA-GCTGTCCAAATTTTGG
1 TGTATA-AATGCTGTCCAAA--TTGG
* ** *
25593217 TGTATAAATGATGTTTAATTTGG
1 TGTATAAATGCTGTCCAAATTGG
* *
25593240 TATATAAATGCTGTCCAAATTGA
1 TGTATAAATGCTGTCCAAATTGG
25593263 TGTATAA
1 TGTATAA
25593270 GAGTTGTCCA
Statistics
Matches: 41, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
23 27 0.66
24 2 0.05
25 12 0.29
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (23 bp):
TGTATAAATGCTGTCCAAATTGG
Found at i:25596297 original size:109 final size:110
Alignment explanation
Indices: 25596105--25596302 Score: 371
Period size: 109 Copynumber: 1.8 Consensus size: 110
25596095 CTAAGTTACA
*
25596105 GTTCTAATTTTATATTAAATTTTTATGATTCTAACATTAATGTCATTCGATTTCAACATATTTTT
1 GTTCTAATTTTATATTAAAGTTTTATGATTCTAACATTAATGTCATTCGATTTCAACATATTTTT
25596170 AGAACTAGTAACATGGTAGCCTATACGCTTGTTAAATATGTTATG
66 AGAACTAGTAACATGGTAGCCTATACGCTTGTTAAATATGTTATG
*
25596215 GTTCTAATTTTATA-TAAAGTTTTATTATTCTAACATTAATGTCATTCGATTTCAACATATTTTT
1 GTTCTAATTTTATATTAAAGTTTTATGATTCTAACATTAATGTCATTCGATTTCAACATATTTTT
25596279 AGAACTAGTAACATGGTAGCCTAT
66 AGAACTAGTAACATGGTAGCCTAT
25596303 GTCCTCTTTG
Statistics
Matches: 86, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
109 72 0.84
110 14 0.16
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.44
Consensus pattern (110 bp):
GTTCTAATTTTATATTAAAGTTTTATGATTCTAACATTAATGTCATTCGATTTCAACATATTTTT
AGAACTAGTAACATGGTAGCCTATACGCTTGTTAAATATGTTATG
Found at i:25601840 original size:24 final size:25
Alignment explanation
Indices: 25601811--25601882 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 25
25601801 AGTGAAAGAA
25601811 AAAGAAAAATAAGAAAATAGAAAGG
1 AAAGAAAAATAAGAAAATAGAAAGG
* *
25601836 -AAG-AAAATGAGGGAAAATA-ATAGG
1 AAAGAAAAAT-A-AGAAAATAGAAAGG
25601860 AAAGAAAAA-AAGAAAA-AGAAAGG
1 AAAGAAAAATAAGAAAATAGAAAGG
25601883 TACAAGAGGA
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
22 1 0.03
23 14 0.37
24 9 0.24
25 10 0.26
26 4 0.11
ACGTcount: A:0.69, C:0.00, G:0.24, T:0.07
Consensus pattern (25 bp):
AAAGAAAAATAAGAAAATAGAAAGG
Found at i:25617270 original size:140 final size:140
Alignment explanation
Indices: 25617013--25617299 Score: 459
Period size: 140 Copynumber: 2.1 Consensus size: 140
25617003 AAATAGAACA
*
25617013 TATTC-TTATTTTGCGATTGAAACCAATGATCCATTCACCATTTTGGTCTCTCAAAACTCCTCCT
1 TATTCATTATTTTGCGATTGAAACCAATGATCCATTCACCATTTTAGTCTCTCAAAACTCCTCCT
* * *
25617077 GCCGAAGCAGAACCTGTGTTGATTTTAACAGCTCCATCAAACCATATGGTGATAAATTCTCTTCA
66 GCCGAAGCAGAACCTATGTTGATTTTAACAGCTCCACCAAACCATATGGTGATAAAGTCTCTTCA
*
25617142 AATTTTAAGT
131 AAGTTTAAGT
* * *
25617152 TATTCATTATTTTGTGATTGAACCCAATGATCTATTCACCATTTTAGTCTCTCAAAACTCCTCCT
1 TATTCATTATTTTGCGATTGAAACCAATGATCCATTCACCATTTTAGTCTCTCAAAACTCCTCCT
* * * *
25617217 GCCGAAGCGGAACCTATGTTGATTTTAATAGCTCCACCAGACCGTATGGTGATAAAGTCTCTTCA
66 GCCGAAGCAGAACCTATGTTGATTTTAACAGCTCCACCAAACCATATGGTGATAAAGTCTCTTCA
25617282 AAGTTTAAGT
131 AAGTTTAAGT
25617292 TATTCATT
1 TATTCATT
25617300 TAGTTTGTAT
Statistics
Matches: 135, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
139 5 0.04
140 130 0.96
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (140 bp):
TATTCATTATTTTGCGATTGAAACCAATGATCCATTCACCATTTTAGTCTCTCAAAACTCCTCCT
GCCGAAGCAGAACCTATGTTGATTTTAACAGCTCCACCAAACCATATGGTGATAAAGTCTCTTCA
AAGTTTAAGT
Done.