Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 193 of 240
Found at i:58932372 original size:3 final size:3
Alignment explanation
Indices: 58932325--58932421 Score: 56
Period size: 3 Copynumber: 32.7 Consensus size: 3
58932315 TCAGCATTTT
* * * * * * *
58932325 TTA TTA TT- TAA TTAA TTA TTT TTA GTA TCA TTA TTG TTG TCA TTA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
58932370 TTA TTA TCT- TTA TTA TTA TTA -TA TCA TTA ATA TTT TTA TTA TTA
1 TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
58932414 TCA TTA TT
1 TTA TTA TT
58932422 TACTCACTTA
Statistics
Matches: 69, Mismatches: 20, Indels: 10
0.70 0.20 0.10
Matches are distributed among these distances:
2 4 0.06
3 61 0.88
4 4 0.06
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:58932520 original size:30 final size:30
Alignment explanation
Indices: 58932463--58932518 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
58932453 TGTTATATAT
* *
58932463 ATATGCATACTTACATTGTTTTATTTTACG
1 ATATACATACTTACATTCTTTTATTTTACG
*
58932493 ATATACATACTTATA-TCTTTTATTTT
1 ATATACATACTTACATTCTTTTATTTT
58932519 TATGTAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
29 10 0.43
30 13 0.57
ACGTcount: A:0.29, C:0.12, G:0.05, T:0.54
Consensus pattern (30 bp):
ATATACATACTTACATTCTTTTATTTTACG
Found at i:58934579 original size:20 final size:20
Alignment explanation
Indices: 58934554--58934591 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
58934544 ACGGTATCCA
58934554 AACAAAGGTTAGAAAAATGG
1 AACAAAGGTTAGAAAAATGG
*
58934574 AACAAAGGTTGGAAAAAT
1 AACAAAGGTTAGAAAAAT
58934592 TAGAGCGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.55, C:0.05, G:0.24, T:0.16
Consensus pattern (20 bp):
AACAAAGGTTAGAAAAATGG
Found at i:58935937 original size:10 final size:10
Alignment explanation
Indices: 58935922--58935949 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
58935912 TTTTTGAATA
58935922 ATTATTTCTC
1 ATTATTTCTC
58935932 ATTATTTCTC
1 ATTATTTCTC
58935942 ATTATTTC
1 ATTATTTC
58935950 ATTCTTTTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.21, C:0.18, G:0.00, T:0.61
Consensus pattern (10 bp):
ATTATTTCTC
Found at i:58936710 original size:5 final size:5
Alignment explanation
Indices: 58936662--58936695 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
58936652 AAAGAAAGAA
58936662 AAAAT CAAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT AAA
58936696 CAAAAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:58938580 original size:42 final size:42
Alignment explanation
Indices: 58938532--58938666 Score: 98
Period size: 42 Copynumber: 3.2 Consensus size: 42
58938522 GATAATAGAT
58938532 CTTGCCTTCCTGCGTTAACAACGAAGTAGATCGAAAAAAAGC
1 CTTGCCTTCCTGCGTTAACAACGAAGTAGATCGAAAAAAAGC
* ** * * * ** *
58938574 CTTGCC-TCCAT-CGGTT-TCAGTGGAGCT-GGTTGAAGATAGCAGAT
1 CTTGCCTTCC-TGC-GTTAACAACGAAG-TAGATCGAA-A-AAAAG-C
*
58938618 CTTGCCTTCCTGCGTTAACAACGAAGCAGATCGAAAAAAAGC
1 CTTGCCTTCCTGCGTTAACAACGAAGTAGATCGAAAAAAAGC
58938660 CTTGCCT
1 CTTGCCT
58938667 CCATCGGTTG
Statistics
Matches: 64, Mismatches: 19, Indels: 20
0.62 0.18 0.19
Matches are distributed among these distances:
41 14 0.22
42 19 0.30
43 6 0.09
44 11 0.17
45 14 0.22
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.24
Consensus pattern (42 bp):
CTTGCCTTCCTGCGTTAACAACGAAGTAGATCGAAAAAAAGC
Found at i:58938618 original size:86 final size:86
Alignment explanation
Indices: 58938387--58939141 Score: 1050
Period size: 86 Copynumber: 8.9 Consensus size: 86
58938377 AGATCAGTGA
* * * * *
58938387 AGATCGAAAACAA-CCTTGCCTCCATCGATTGTAGTGGAGCTGGTTAAAGATAGTAGATCTTGCC
1 AGATCGAAAAAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGCC
*
58938451 TTCCTGCGTTAACAGCGAAGC
66 TTCCTGCGTTAACAACGAAGC
* * * * **
58938472 AGATCAAAAACAAAACCTTGCCTCCATCGGTTGCAATGGAGCTGGTTAAAGATAATAGATCTTGC
1 AGATCGAAAA-AAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGC
*
58938537 CTTCCTGCGTTAACAACGAAGT
65 CTTCCTGCGTTAACAACGAAGC
*
58938559 AGATCGAAAAAAAGCCTTGCCTCCATCGGTTTCAGTGGAGCTGGTTGAAGATAGCAGATCTTGCC
1 AGATCGAAAAAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGCC
58938624 TTCCTGCGTTAACAACGAAGC
66 TTCCTGCGTTAACAACGAAGC
*
58938645 AGATCGAAAAAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGCA
1 AGATCGAAAAAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGCC
* *
58938710 TTCTTGCGTTAACAACGAAGT
66 TTCCTGCGTTAACAACGAAGC
* *
58938731 AGAT-AAAAAAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTAGTTGAAGATAGCAGATCTTGCC
1 AGATCGAAAAAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGCC
58938795 TTCCTGCGTTAACAACGAAGC
66 TTCCTGCGTTAACAACGAAGC
* * *
58938816 AGATCGAAAAAAAGCCTTGCCTCCATCAGTTGCAGTGGAGCT-TTTAAAGA-AGCAGATCTTGCC
1 AGATCGAAAAAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGCC
58938879 TTCCT--G----C-ACGAAGC
66 TTCCTGCGTTAACAACGAAGC
*
58938893 AGATCGAAAACAAAGCCTTACCTCCATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGC
1 AGATCGAAAA-AAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGC
* *
58938958 CTTCCTGCATTAACAGCGAAGC
65 CTTCCTGCGTTAACAACGAAGC
*
58938980 AAATCGAAAAAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGCC
1 AGATCGAAAAAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGCC
* * * *
58939045 TTTCTGCCTTGACAGCGAAGC
66 TTCCTGCGTTAACAACGAAGC
* * * *
58939066 AGATCGAAGACACAAA-CCTTGCCTCTC-TCGGTTGTAGTAGAGCTGGTTGAAGACAACAGATCT
1 AGATCGAA-A-A-AAAGCCTTGCCTC-CATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGATCT
*
58939129 TGCCTTTCTGCGT
62 TGCCTTCCTGCGT
58939142 CGACAGTGAA
Statistics
Matches: 607, Mismatches: 46, Indels: 31
0.89 0.07 0.05
Matches are distributed among these distances:
77 17 0.03
78 31 0.05
79 6 0.01
80 18 0.03
82 1 0.00
84 18 0.03
85 95 0.16
86 272 0.45
87 91 0.15
88 54 0.09
89 4 0.01
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.25
Consensus pattern (86 bp):
AGATCGAAAAAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGCC
TTCCTGCGTTAACAACGAAGC
Found at i:58939019 original size:335 final size:342
Alignment explanation
Indices: 58938398--58939141 Score: 1069
Period size: 335 Copynumber: 2.2 Consensus size: 342
58938388 GATCGAAAAC
* * *
58938398 AACCTTGCCTCCATCGATTGTAGTGGAGCTGGTTAAAGATAGTAGATCTTGCCTTCCTGCGTTAA
1 AACCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCGTTAA
* * *
58938463 CAGCGAAGCAGATCAAAAACAAAACCTTGCCTCCATCGGTTGCAATGGAGCTGGTTAAAGATAAT
66 CAACGAAGCAGATCAAAAACAAAACCTTGCCTCCATCAGTTGCAATGGAGCTGGTTAAAGATAAC
* * *
58938528 AGATCTTGCCTTCCTGCGTTAACAACGAAGTAGATCGAAAAAAAGCCTTGCCTCCATCGGTTTCA
131 AGATCTTGCCTTCCT-CG---ACAACGAAGCAGATCGAAAAAAAGCCTTACCTCCATCGGTTGCA
* *
58938593 GTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAACGAAGCAGATCGAAAAAAA
192 GTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCATTAACAACGAAGCAAATCGAAAAAAA
*
58938658 GCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGCA-TTCTTGCGTTAA
257 GCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGCATTTC-TGCCTTAA
*
58938722 CAACGAAGTAGAT-AA-A-AAA
321 CAACGAAGCAGATCAAGACAAA
* *
58938741 AAGCCTTGCCTCCATCGGTTGCAGTGGAGCTAGTTGAAGATAGCAGATCTTGCCTTCCTGCGTTA
1 AA-CCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCGTTA
* * * * *
58938806 ACAACGAAGCAGATCGAAAA-AAAGCCTTGCCTCCATCAGTTGCAGTGGAGCT-TTTAAAGA-AG
65 ACAACGAAGCAGATCAAAAACAAAACCTTGCCTCCATCAGTTGCAATGGAGCTGGTTAAAGATAA
58938868 CAGATCTTGCCTTCCT-G-C-ACGAAGCAGATCGAAAACAAAGCCTTACCTCCATCGGTTGCAGT
130 CAGATCTTGCCTTCCTCGACAACGAAGCAGATCGAAAA-AAAGCCTTACCTCCATCGGTTGCAGT
*
58938930 GGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAAATCGAAAAAAAGC
194 GGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCATTAACAACGAAGCAAATCGAAAAAAAGC
* * *
58938995 CTTGCCTCCATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTTCTGCCTTGACAG
259 CTTGCCTCCATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGCATTTCTGCCTTAACAA
*
58939060 CGAAGCAGATCGAAGACACA
324 CGAAGCAGATC-AAGACAAA
* * * *
58939080 AACCTTGCCTCTC-TCGGTTGTAGTAGAGCTGGTTGAAGACAACAGATCTTGCCTTTCTGCGT
1 AACCTTGCCTC-CATCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCGT
58939142 CGACAGTGAA
Statistics
Matches: 362, Mismatches: 31, Indels: 21
0.87 0.07 0.05
Matches are distributed among these distances:
334 16 0.04
335 153 0.42
336 3 0.01
337 2 0.01
338 53 0.15
339 6 0.02
341 16 0.04
342 7 0.02
343 31 0.09
344 75 0.21
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (342 bp):
AACCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCGTTAA
CAACGAAGCAGATCAAAAACAAAACCTTGCCTCCATCAGTTGCAATGGAGCTGGTTAAAGATAAC
AGATCTTGCCTTCCTCGACAACGAAGCAGATCGAAAAAAAGCCTTACCTCCATCGGTTGCAGTGG
AGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCATTAACAACGAAGCAAATCGAAAAAAAGCCT
TGCCTCCATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGCATTTCTGCCTTAACAACG
AAGCAGATCAAGACAAA
Found at i:58940757 original size:3 final size:3
Alignment explanation
Indices: 58940710--58940803 Score: 50
Period size: 3 Copynumber: 31.7 Consensus size: 3
58940700 TCAGTATTTT
* * * * * * *
58940710 TTA TTA TT- TAA TTAA TTA TTT TTA GTA TCA TTA TTG TTG TCA TTA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
58940755 TTA TTA TCT- TTA TTA TTA -TA TCA TTA ATA TTT TTA TTA TTA TCA
1 TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
58940799 TTA TT
1 TTA TT
58940804 TACTCACTTA
Statistics
Matches: 66, Mismatches: 20, Indels: 10
0.69 0.21 0.10
Matches are distributed among these distances:
2 4 0.06
3 58 0.88
4 4 0.06
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:58940767 original size:12 final size:12
Alignment explanation
Indices: 58940735--58940803 Score: 68
Period size: 12 Copynumber: 5.8 Consensus size: 12
58940725 TTATTTTTAG
*
58940735 TATCATTATTGT
1 TATCATTATTAT
*
58940747 TGTCATTATTAT
1 TATCATTATTAT
*
58940759 TATCTTTATTAT
1 TATCATTATTAT
* *
58940771 TAT-ATCATTAA
1 TATCATTATTAT
**
58940782 TATTTTTATTAT
1 TATCATTATTAT
58940794 TATCATTATT
1 TATCATTATT
58940804 TACTCACTTA
Statistics
Matches: 44, Mismatches: 12, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
11 8 0.18
12 36 0.82
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.61
Consensus pattern (12 bp):
TATCATTATTAT
Found at i:58940904 original size:30 final size:30
Alignment explanation
Indices: 58940847--58940902 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
58940837 TTATATATAT
* *
58940847 ATATGCATACTTACATTGTTTTATTTTACG
1 ATATACATACTTACATTCTTTTATTTTACG
*
58940877 ATATACATACTTATA-TCTTTTATTTT
1 ATATACATACTTACATTCTTTTATTTT
58940903 TAAGTAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
29 10 0.43
30 13 0.57
ACGTcount: A:0.29, C:0.12, G:0.05, T:0.54
Consensus pattern (30 bp):
ATATACATACTTACATTCTTTTATTTTACG
Found at i:58940957 original size:16 final size:16
Alignment explanation
Indices: 58940936--58940967 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
58940926 TACCCATTTT
58940936 TATTTATATATATACA
1 TATTTATATATATACA
58940952 TATTTATATATATACA
1 TATTTATATATATACA
58940968 CATACTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (16 bp):
TATTTATATATATACA
Found at i:58940963 original size:18 final size:18
Alignment explanation
Indices: 58940940--58940982 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
58940930 CATTTTTATT
* *
58940940 TATATATATACATATTTA
1 TATATATACACATACTTA
58940958 TATATATACACATACTTA
1 TATATATACACATACTTA
*
58940976 TACATAT
1 TATATAT
58940983 TATTTATATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (18 bp):
TATATATACACATACTTA
Found at i:58944610 original size:44 final size:44
Alignment explanation
Indices: 58944557--58944709 Score: 117
Period size: 44 Copynumber: 3.3 Consensus size: 44
58944547 AATCCTATTT
*
58944557 CCCTTAAGTTGCAGTAGATTGGATTGAAGCTACAATTTTTTTAC
1 CCCTGAAGTTGCAGTAGATTGGATTGAAGCTACAATTTTTTTAC
* * * * * * ** *
58944601 CCCTGAAGTTGCAGTGGGTTGGAATGAAACTGCGATCGCGAATCTTATC
1 CCCTGAAGTTGCAGTAGATTGGATTGAAGCTACAAT----TTTTTTA-C
* * *
58944650 TCCCTGAAGTTGTAGTAGATTGGATTGAAGCTTCAATTTTTATAC
1 -CCCTGAAGTTGCAGTAGATTGGATTGAAGCTACAATTTTTTTAC
* *
58944695 CACTGAAGTTACAGT
1 CCCTGAAGTTGCAGT
58944710 GGGTTGGAAT
Statistics
Matches: 79, Mismatches: 24, Indels: 12
0.69 0.21 0.10
Matches are distributed among these distances:
44 41 0.52
45 1 0.01
46 3 0.04
48 4 0.05
49 1 0.01
50 29 0.37
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (44 bp):
CCCTGAAGTTGCAGTAGATTGGATTGAAGCTACAATTTTTTTAC
Found at i:58944654 original size:94 final size:94
Alignment explanation
Indices: 58944547--58944760 Score: 329
Period size: 94 Copynumber: 2.3 Consensus size: 94
58944537 TGAAGTTACA
* * * * * *
58944547 AATCCTATTTCCCTTAAGTTGCAGTAGATTGGATTGAAGCTACAATTTTTTTACCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTAGATTGGATTGAAGCTACAATTTTTATACCACTGAAGTTA
* *
58944612 CAGTGGGTTGGAATGAAACTGCGATCGCG
66 CAGTGGGTTGGAATAAAACTGCAATCGCG
* *
58944641 AATCTTATCTCCCTGAAGTTGTAGTAGATTGGATTGAAGCTTCAATTTTTATACCACTGAAGTTA
1 AATCTTATCTCCCTGAAGTTGCAGTAGATTGGATTGAAGCTACAATTTTTATACCACTGAAGTTA
*
58944706 CAGTGGGTTGGAATAAAACTGCAATTGCG
66 CAGTGGGTTGGAATAAAACTGCAATCGCG
58944735 AATCTTATCTCCCTGAAGTTGCAGTA
1 AATCTTATCTCCCTGAAGTTGCAGTA
58944761 AAGCAAGATG
Statistics
Matches: 108, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
94 108 1.00
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (94 bp):
AATCTTATCTCCCTGAAGTTGCAGTAGATTGGATTGAAGCTACAATTTTTATACCACTGAAGTTA
CAGTGGGTTGGAATAAAACTGCAATCGCG
Found at i:58944795 original size:94 final size:93
Alignment explanation
Indices: 58944578--58944805 Score: 253
Period size: 94 Copynumber: 2.4 Consensus size: 93
58944568 CAGTAGATTG
* * * * * *
58944578 GATTGAAGCTACAATTTTTTTACCCCTGAAGTTGCAGTGGGTTGGAATGAAACTGCGATCGCGAA
1 GATTGAAGCTACAATCTATATA-CCCTGAAGTTACAGTGGGTTGGAATAAAACTGCAATCGCGAA
* * ***
58944643 TCTTATCTCCCTGAAGTTGTAGTAGATTG
65 TCTTATCTCCCTGAAGTTGCAGTAAACAA
* * * *
58944672 GATTGAAGCTTCAATTTTTATACCACTGAAGTTACAGTGGGTTGGAATAAAACTGCAATTGCGAA
1 GATTGAAGCTACAATCTATATACC-CTGAAGTTACAGTGGGTTGGAATAAAACTGCAATCGCGAA
58944737 TCTTATCTCCCTGAAGTTGCAGTAAAGCAA
65 TCTTATCTCCCTGAAGTTGCAGTAAA-CAA
*
58944767 GA-TGAAGCTACGAATCCTATAT-CCCTGAAGTTATAGTGG
1 GATTGAAGCTAC-AAT-CTATATACCCTGAAGTTACAGTGG
58944806 ATCAAATTAA
Statistics
Matches: 115, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
93 2 0.02
94 102 0.89
95 7 0.06
96 4 0.03
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.31
Consensus pattern (93 bp):
GATTGAAGCTACAATCTATATACCCTGAAGTTACAGTGGGTTGGAATAAAACTGCAATCGCGAAT
CTTATCTCCCTGAAGTTGCAGTAAACAA
Found at i:58944875 original size:139 final size:138
Alignment explanation
Indices: 58944639--58944936 Score: 373
Period size: 139 Copynumber: 2.2 Consensus size: 138
58944629 ACTGCGATCG
* * * *** * *
58944639 CGAATCTTATCTCCCTGAAGTTGTAGTAGATTGGATTGAAGCTTCAATTTTTATACCACTGAAGT
1 CGAATCCTATATCCCTGAAGTTATAGTAGATCAAATTAAAGCTTCAATTTCTATACCACTGAAGT
* * * * *
58944704 TACAGTGGGTTGGAATAAAACTGCAATTGCGAATCTTATCTCCCTGAAGTTGCAGTAAAGCAAGA
66 TACAGTGAGTTGGAATAAAACTACAATGGCGAATCTTATCTCCCTGAAGTTGCAGTAAAGAAAAA
*
58944769 TGAAGCTA
131 TAAAGCTA
* *
58944777 CGAATCCTATATCCCTGAAGTTATAGTGGATCAAATTAAAG-TTACAATTTCTATACCCTCTGAA
1 CGAATCCTATATCCCTGAAGTTATAGTAGATCAAATTAAAGCTT-CAATTTCTATA-CCACTGAA
* * * **
58944841 GTTGCAGTGAGTTGGAATAAAACTACGATGGCGAATCTTATCTCTCTGAAGTTGCAGTGGAGAAA
64 GTTACAGTGAGTTGGAATAAAACTACAATGGCGAATCTTATCTCCCTGAAGTTGCAGTAAAGAAA
58944906 AATAAAGCTA
129 AATAAAGCTA
*
58944916 CGAATCCTATATCCCTAAAGT
1 CGAATCCTATATCCCTGAAGT
58944937 GGCAATGGCT
Statistics
Matches: 136, Mismatches: 22, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
137 2 0.01
138 43 0.32
139 91 0.67
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.30
Consensus pattern (138 bp):
CGAATCCTATATCCCTGAAGTTATAGTAGATCAAATTAAAGCTTCAATTTCTATACCACTGAAGT
TACAGTGAGTTGGAATAAAACTACAATGGCGAATCTTATCTCCCTGAAGTTGCAGTAAAGAAAAA
TAAAGCTA
Found at i:58944962 original size:139 final size:138
Alignment explanation
Indices: 58944673--58944986 Score: 344
Period size: 139 Copynumber: 2.3 Consensus size: 138
58944663 AGTAGATTGG
* * * * * * * *
58944673 ATTGAAGCTTCAATTTTTATACCACTGAAGTTACAGTGGGTTGGAATAAAACTGCAATTGCGAAT
1 ATTGAATCTACAATTTCTATACCTCTGAAGTTGCAGTGAGTTGGAATAAAACTACAATGGCGAAT
* * * * * * *
58944738 CTTATCTCCCTGAAGTTGCAGTAAAGCAAGATGAAGCTACGAATCCTATATCCCTGAAGTTATAG
66 CTTATCTCCCTGAAGTTGCAGTAAAGAAAAATAAAGCTACGAATCCTATATCCCTAAAGTGACAA
58944803 TGGATCAA
131 TGGATCAA
* *
58944811 ATTAAAGT-TACAATTTCTATACCCTCTGAAGTTGCAGTGAGTTGGAATAAAACTACGATGGCGA
1 ATTGAA-TCTACAATTTCTATA-CCTCTGAAGTTGCAGTGAGTTGGAATAAAACTACAATGGCGA
* ** *
58944875 ATCTTATCTCTCTGAAGTTGCAGTGGAGAAAAATAAAGCTACGAATCCTATATCCCTAAAGTGGC
64 ATCTTATCTCCCTGAAGTTGCAGTAAAGAAAAATAAAGCTACGAATCCTATATCCCTAAAGTGAC
* *
58944940 AATGGCTCAG
129 AATGGATCAA
* * * *
58944950 GTTGAATCTACAAATCCTATATCCT-TGAAGTGGCAGT
1 ATTGAATCTACAATTTCTATA-CCTCTGAAGTTGCAGT
58944987 AGATCAGATT
Statistics
Matches: 144, Mismatches: 29, Indels: 6
0.80 0.16 0.03
Matches are distributed among these distances:
138 28 0.19
139 116 0.81
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (138 bp):
ATTGAATCTACAATTTCTATACCTCTGAAGTTGCAGTGAGTTGGAATAAAACTACAATGGCGAAT
CTTATCTCCCTGAAGTTGCAGTAAAGAAAAATAAAGCTACGAATCCTATATCCCTAAAGTGACAA
TGGATCAA
Found at i:58945006 original size:44 final size:44
Alignment explanation
Indices: 58944908--58945024 Score: 110
Period size: 44 Copynumber: 2.7 Consensus size: 44
58944898 TGGAGAAAAA
* * * * * *
58944908 TAAAGCTACGAATCCTATATCCCTAAAGTGGCAATGGCTCAGGT
1 TAAAGTTACAAATCCTATATCCCTGAAGTGGCAATAGATCAGAT
* * *
58944952 TGAA-TCTACAAATCCTATATCCTTGAAGTGGCAGTAGATCAGAT
1 TAAAGT-TACAAATCCTATATCCCTGAAGTGGCAATAGATCAGAT
* * *
58944996 TAAAGTTACAATTCTTATACCCCTGAAGT
1 TAAAGTTACAAATCCTATATCCCTGAAGT
58945025 TACAGTGGGT
Statistics
Matches: 57, Mismatches: 14, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
44 56 0.98
45 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (44 bp):
TAAAGTTACAAATCCTATATCCCTGAAGTGGCAATAGATCAGAT
Found at i:58945776 original size:12 final size:12
Alignment explanation
Indices: 58945751--58945805 Score: 65
Period size: 12 Copynumber: 4.3 Consensus size: 12
58945741 TAGATACCTG
58945751 CAAAGAAGAAAAA
1 CAAAGAA-AAAAA
*
58945764 CAAAGACAAAAA
1 CAAAGAAAAAAA
58945776 CAGAAGCAAAAAAA
1 CA-AAG-AAAAAAA
*
58945790 CAAAAAAAAAAA
1 CAAAGAAAAAAA
58945802 CAAA
1 CAAA
58945806 TGATAGAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
12 18 0.49
13 11 0.30
14 8 0.22
ACGTcount: A:0.78, C:0.13, G:0.09, T:0.00
Consensus pattern (12 bp):
CAAAGAAAAAAA
Found at i:58952307 original size:18 final size:18
Alignment explanation
Indices: 58952286--58952346 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 18
58952276 TTTTTTCGTA
*
58952286 TATAATATTTTTTATTTT
1 TATAATATTTTTAATTTT
* *
58952304 TATAAT-TTTTTGCACTTT
1 TATAATATTTTT-AATTTT
58952322 TAT-ATATTTTATAATTTT
1 TATAATATTTT-TAATTTT
58952340 TA-AATAT
1 TATAATAT
58952347 AAAACCACCA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
17 7 0.20
18 27 0.77
19 1 0.03
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (18 bp):
TATAATATTTTTAATTTT
Found at i:58952768 original size:15 final size:14
Alignment explanation
Indices: 58952724--58952773 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
58952714 TTAATAAAAA
58952724 TAAT-TATT-ATAT
1 TAATATATTAATAT
58952736 TAATATATTAATAT
1 TAATATATTAATAT
58952750 TAATACTATTAA-AT
1 TAATA-TATTAATAT
58952764 ATAATA-ATTA
1 -TAATATATTA
58952774 TTTAATTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
12 4 0.12
13 8 0.24
14 11 0.32
15 11 0.32
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (14 bp):
TAATATATTAATAT
Found at i:58954236 original size:9 final size:9
Alignment explanation
Indices: 58954219--58954299 Score: 81
Period size: 9 Copynumber: 8.6 Consensus size: 9
58954209 TTTGGTTAAA
58954219 AATTACCCG
1 AATTACCCG
*
58954228 AATTGCCCG
1 AATTACCCG
*
58954237 AAAATTACCCA
1 --AATTACCCG
*
58954248 AATTACCTG
1 AATTACCCG
58954257 AATTACCCG
1 AATTACCCG
* *
58954266 AAAATTACTCA
1 --AATTACCCG
58954277 AATTACCCG
1 AATTACCCG
58954286 AATTACCCG
1 AATTACCCG
58954295 AATTA
1 AATTA
58954300 AATCACTACA
Statistics
Matches: 58, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
9 44 0.76
11 14 0.24
ACGTcount: A:0.40, C:0.27, G:0.09, T:0.25
Consensus pattern (9 bp):
AATTACCCG
Found at i:58954260 original size:29 final size:29
Alignment explanation
Indices: 58954218--58954296 Score: 131
Period size: 29 Copynumber: 2.7 Consensus size: 29
58954208 TTTTGGTTAA
*
58954218 AAATTACCCGAATTGCCCGAAAATTACCC
1 AAATTACCCGAATTACCCGAAAATTACCC
* *
58954247 AAATTACCTGAATTACCCGAAAATTACTC
1 AAATTACCCGAATTACCCGAAAATTACCC
58954276 AAATTACCCGAATTACCCGAA
1 AAATTACCCGAATTACCCGAA
58954297 TTAAATCACT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.41, C:0.28, G:0.09, T:0.23
Consensus pattern (29 bp):
AAATTACCCGAATTACCCGAAAATTACCC
Found at i:58954328 original size:17 final size:17
Alignment explanation
Indices: 58954306--58954403 Score: 56
Period size: 17 Copynumber: 5.4 Consensus size: 17
58954296 ATTAAATCAC
*
58954306 TACATAATTAAAAGCAT
1 TACATAATTAAAAACAT
* * *
58954323 TACATAAATCTTTAAATCAC
1 TACAT-AA--TTAAAAACAT
*
58954343 TACATAATTAAAAATAT
1 TACATAATTAAAAACAT
*
58954360 TACATAAGTCTTGAATTAAC--
1 TACATAA---TT-AA-AAACAT
58954380 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
58954397 TACATAA
1 TACATAA
58954404 GTCTTGAATT
Statistics
Matches: 61, Mismatches: 10, Indels: 20
0.67 0.11 0.22
Matches are distributed among these distances:
15 3 0.05
16 2 0.03
17 27 0.44
18 2 0.03
19 2 0.03
20 21 0.34
21 2 0.03
22 2 0.03
ACGTcount: A:0.51, C:0.13, G:0.03, T:0.33
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:58954348 original size:20 final size:18
Alignment explanation
Indices: 58954297--58954349 Score: 54
Period size: 20 Copynumber: 2.9 Consensus size: 18
58954287 ATTACCCGAA
58954297 TTAAATCACTACAT-AAT
1 TTAAATCACTACATAAAT
* * *
58954314 TAAAAGCATTACATAAATCT
1 TTAAATCACTACATAAA--T
58954334 TTAAATCACTACATAA
1 TTAAATCACTACATAA
58954350 TTAAAAATAT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
17 11 0.41
18 2 0.07
20 14 0.52
ACGTcount: A:0.49, C:0.17, G:0.02, T:0.32
Consensus pattern (18 bp):
TTAAATCACTACATAAAT
Found at i:58954409 original size:37 final size:37
Alignment explanation
Indices: 58954304--58954424 Score: 181
Period size: 37 Copynumber: 3.3 Consensus size: 37
58954294 GAATTAAATC
* * * * *
58954304 ACTACATAATTAAAAGCATTACATAAATCTTTAAATC
1 ACTACATAATTAAAAACATTACATAAGTCTTGAATTA
*
58954341 ACTACATAATTAAAAATATTACATAAGTCTTGAATTA
1 ACTACATAATTAAAAACATTACATAAGTCTTGAATTA
58954378 ACTACATAATTAAAAACATTACATAAGTCTTGAATTA
1 ACTACATAATTAAAAACATTACATAAGTCTTGAATTA
58954415 AC-ACATAATT
1 ACTACATAATT
58954425 GACATGTAAG
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
36 8 0.10
37 69 0.90
ACGTcount: A:0.49, C:0.14, G:0.04, T:0.33
Consensus pattern (37 bp):
ACTACATAATTAAAAACATTACATAAGTCTTGAATTA
Found at i:58957081 original size:23 final size:23
Alignment explanation
Indices: 58957051--58957095 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
58957041 GAGTTAAAGG
*
58957051 AAACTAGAAGTAGGTTCAGCCTA
1 AAACTAGAAGAAGGTTCAGCCTA
*
58957074 AAACTAGAAGAAGGTTCGGCCT
1 AAACTAGAAGAAGGTTCAGCCT
58957096 TGCCAGCATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (23 bp):
AAACTAGAAGAAGGTTCAGCCTA
Found at i:58958576 original size:9 final size:9
Alignment explanation
Indices: 58958562--58958648 Score: 52
Period size: 9 Copynumber: 9.3 Consensus size: 9
58958552 AATAAAAACC
58958562 TAACAATAA
1 TAACAATAA
*
58958571 TAACAAAAATAT
1 TAAC---AATAA
58958583 TAACGAAT-A
1 TAAC-AATAA
*
58958592 TAAAAATAA
1 TAACAATAA
* *
58958601 TAATAGTAA
1 TAACAATAA
58958610 -AGACAATAA
1 TA-ACAATAA
*
58958619 TAATAATAA
1 TAACAATAA
*
58958628 TAATAATAA
1 TAACAATAA
*
58958637 TAATAATAA
1 TAACAATAA
58958646 TAA
1 TAA
58958649 AATTGCCCAG
Statistics
Matches: 63, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
8 4 0.06
9 47 0.75
10 4 0.06
12 8 0.13
ACGTcount: A:0.66, C:0.05, G:0.03, T:0.26
Consensus pattern (9 bp):
TAACAATAA
Found at i:58958594 original size:21 final size:21
Alignment explanation
Indices: 58958562--58958648 Score: 52
Period size: 21 Copynumber: 3.9 Consensus size: 21
58958552 AATAAAAACC
58958562 TAACAATAATAACAAA-AATAT
1 TAACAATAATAA-AAATAATAT
58958583 TAACGAAT-ATAAAAATAATAAT
1 TAAC-AATAATAAAAATAAT-AT
* *
58958605 AGTAAAGACAATAATAATAATAATAA
1 --T--A-ACAATAATAAAAATAATAT
* *
58958631 TAATAATAATAATAATAA
1 TAACAATAATAAAAATAA
58958649 AATTGCCCAG
Statistics
Matches: 54, Mismatches: 3, Indels: 18
0.72 0.04 0.24
Matches are distributed among these distances:
20 3 0.06
21 26 0.48
22 6 0.11
24 2 0.04
26 5 0.09
27 12 0.22
ACGTcount: A:0.66, C:0.05, G:0.03, T:0.26
Consensus pattern (21 bp):
TAACAATAATAAAAATAATAT
Found at i:58958604 original size:3 final size:3
Alignment explanation
Indices: 58958591--58958648 Score: 73
Period size: 3 Copynumber: 19.3 Consensus size: 3
58958581 ATTAACGAAT
* * *
58958591 ATA AAA ATA ATA ATA GTA A-A GACA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
58958636 ATA ATA ATA ATA A
1 ATA ATA ATA ATA A
58958649 AATTGCCCAG
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
2 1 0.02
3 46 0.96
4 1 0.02
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:58960512 original size:170 final size:170
Alignment explanation
Indices: 58960230--58961184 Score: 1676
Period size: 170 Copynumber: 5.6 Consensus size: 170
58960220 CGCAACGTCG
* ** ** * * *
58960230 GGGAGATAGAATTACTGGCTTCAATCTGCTCTGCTGTAATCTCAGGGAGATAAGATCTGAAATTC
1 GGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGCACTTC
* * * *
58960295 TTCGGTTTGTTCCACTGTAACCTCAGGGAAATAAGACCTGACGCGATCTACTCTGCTGTAATTTC
66 TTCGGTCTGCTCCACTGTAATCTCAGGGAAATAAGACCTGACGCGATCTACTCTGCTGTAACTTC
58960360 AGAGAGATAAGATCCTTTAATCCGCTCCACTGTAATCTCA
131 AGAGAGATAAGATCCTTTAATCCGCTCCACTGTAATCTCA
58960400 GGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGCACTTC
1 GGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGCACTTC
* *
58960465 TTTGGTCTGCTCCACTGTAATCTCAGGGAAATAAGACCTGACGCGATCTACTCTGCTGTAATTTC
66 TTCGGTCTGCTCCACTGTAATCTCAGGGAAATAAGACCTGACGCGATCTACTCTGCTGTAACTTC
58960530 AGAGAGATAAGATCCTTTAATCCGCTCCACTGTAATCTCA
131 AGAGAGATAAGATCCTTTAATCCGCTCCACTGTAATCTCA
*
58960570 GGGAGATAGGATTACTATCTTTGATCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGCACTTC
1 GGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGCACTTC
58960635 TTCGGTCTGCTCCACTGTAATCTCAGGGAAATAAGACCTGACGCGATCTACTCTGCTGTAACTTC
66 TTCGGTCTGCTCCACTGTAATCTCAGGGAAATAAGACCTGACGCGATCTACTCTGCTGTAACTTC
58960700 AGAGAGATAAGATCCTTTAATCCGCTCCACTGTAATCTCA
131 AGAGAGATAAGATCCTTTAATCCGCTCCACTGTAATCTCA
*
58960740 AGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGCACTTC
1 GGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGCACTTC
*
58960805 TTCGGTCTGCTCCACTGTAATATCAGGGAAATAAGACCTGACGCGATCTACTCTGCTGTAACTTC
66 TTCGGTCTGCTCCACTGTAATCTCAGGGAAATAAGACCTGACGCGATCTACTCTGCTGTAACTTC
* *
58960870 AAAGAGATAAGATCCTTTAATCCGCTCTACTGTAATCTCA
131 AGAGAGATAAGATCCTTTAATCCGCTCCACTGTAATCTCA
* * *
58960910 GGAAGATAGGATTACTATCTTTGATCTGCTCCACTATAATCTCAGGGAGATAAGATCTGCACTTC
1 GGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGCACTTC
*
58960975 TTCGGTCTGCTCCACTGTAATCTCAGGGAAATAAGACCTGACGTGATCTACTCTGCTGTAACTTC
66 TTCGGTCTGCTCCACTGTAATCTCAGGGAAATAAGACCTGACGCGATCTACTCTGCTGTAACTTC
*
58961040 AGAGAGATAAGATCCTTTAATCCGCTCCACTGTAATATCA
131 AGAGAGATAAGATCCTTTAATCCGCTCCACTGTAATCTCA
*
58961080 GGGAGATAGGATTACTATCTTTGATCTGCTTCGCTGTAATCTCAGGGAGATAAGATCTGCACTTC
1 GGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGCACTTC
*
58961145 TTCGGTCTGCTCCACTGTAATCTCAGGGAGATAAGACCTG
66 TTCGGTCTGCTCCACTGTAATCTCAGGGAAATAAGACCTG
58961185 TATAATGAAC
Statistics
Matches: 751, Mismatches: 34, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
170 751 1.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (170 bp):
GGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGCACTTC
TTCGGTCTGCTCCACTGTAATCTCAGGGAAATAAGACCTGACGCGATCTACTCTGCTGTAACTTC
AGAGAGATAAGATCCTTTAATCCGCTCCACTGTAATCTCA
Found at i:58973427 original size:21 final size:22
Alignment explanation
Indices: 58973393--58973446 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
58973383 ACATGTGGAT
*
58973393 TATAAAAATA-ACATAAAATAA
1 TATATAAATATACATAAAATAA
***
58973414 TATAT-AATATACATATTTTAA
1 TATATAAATATACATAAAATAA
58973435 TATATAAATATA
1 TATATAAATATA
58973447 TATAGACACG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 4 0.15
21 17 0.63
22 6 0.22
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (22 bp):
TATATAAATATACATAAAATAA
Found at i:58973638 original size:3 final size:3
Alignment explanation
Indices: 58973625--58973676 Score: 61
Period size: 3 Copynumber: 17.3 Consensus size: 3
58973615 ATTAACGATT
* * *
58973625 ATA AAA ATA ATA ATA GTA A-A GACA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
58973670 ATA ATA A
1 ATA ATA A
58973677 AATTGCCCAG
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
2 1 0.02
3 40 0.95
4 1 0.02
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:58975473 original size:16 final size:16
Alignment explanation
Indices: 58975452--58975485 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
58975442 TTTTTTTTCT
58975452 TACATTAATTACAATA
1 TACATTAATTACAATA
58975468 TACATTAATTACAATA
1 TACATTAATTACAATA
58975484 TA
1 TA
58975486 TTCAATAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (16 bp):
TACATTAATTACAATA
Found at i:58975494 original size:18 final size:16
Alignment explanation
Indices: 58975452--58975495 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
58975442 TTTTTTTTCT
*
58975452 TACATTAATTACAATA
1 TACAATAATTACAATA
*
58975468 TACATTAATTACAATA
1 TACAATAATTACAATA
58975484 TATTCAATAATT
1 TA--CAATAATT
58975496 TAAATTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 18 0.72
18 7 0.28
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (16 bp):
TACAATAATTACAATA
Found at i:58976529 original size:16 final size:16
Alignment explanation
Indices: 58976507--58976544 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
58976497 CTAAGAGAAT
58976507 ATTGGGCTGGATTTAA
1 ATTGGGCTGGATTTAA
* *
58976523 GTTGGGCTGGGTTTAA
1 ATTGGGCTGGATTTAA
58976539 ATTGGG
1 ATTGGG
58976545 GGAGGGTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.18, C:0.05, G:0.39, T:0.37
Consensus pattern (16 bp):
ATTGGGCTGGATTTAA
Found at i:58981017 original size:24 final size:24
Alignment explanation
Indices: 58980990--58981041 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
58980980 TTAGTAAGTC
* *
58980990 AAATAAACTATACTCATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
58981014 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
58981038 AAAT
1 AAAT
58981042 CTTCTAGAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.12, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:58982621 original size:21 final size:21
Alignment explanation
Indices: 58982554--58982622 Score: 56
Period size: 21 Copynumber: 3.3 Consensus size: 21
58982544 TTTTTTTATA
58982554 ATATTATTATAATA-TAATGAAT
1 ATATTA-TATAATATTAAT-AAT
* * *
58982576 -TTTTATATTTATATTTAT-A-
1 ATATTATA-TAATATTAATAAT
58982595 ATATTATATAATATTAATAAT
1 ATATTATATAATATTAATAAT
58982616 ATATTAT
1 ATATTAT
58982623 GTTATGATTA
Statistics
Matches: 36, Mismatches: 6, Indels: 11
0.68 0.11 0.21
Matches are distributed among these distances:
19 8 0.22
20 10 0.28
21 15 0.42
22 3 0.08
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (21 bp):
ATATTATATAATATTAATAAT
Found at i:58985173 original size:97 final size:97
Alignment explanation
Indices: 58985008--58985290 Score: 475
Period size: 97 Copynumber: 2.9 Consensus size: 97
58984998 AAAGAACTCT
* * * *
58985008 TAATATGTTGCTAATATGTCA-CCCTAAAGGTTATC---TTTTTGTCTGTTTTATTAAAAACATT
1 TAATATGTTACTAATATGTCATCCC-ATAGGTCATCTTTTTTTTTTCTGTTTTATTAAAAACATT
*
58985069 GATATTTATGTTGCAAGAATTTATAAACTTTGA
65 GACATTTATGTTGCAAGAATTTATAAACTTTGA
58985102 TAATATGTTACTAATATGTCATCCCATAGGTCATCTTTTTTTTTTCTGTTTTATTAAAAACATTG
1 TAATATGTTACTAATATGTCATCCCATAGGTCATCTTTTTTTTTTCTGTTTTATTAAAAACATTG
58985167 ACATTTATGTTGCAAGAATTTATAAACTTTGA
66 ACATTTATGTTGCAAGAATTTATAAACTTTGA
58985199 TAATATGTTACTAATATGTCATCCCATAGGTCATCTTTTTTTTTTTCTGTTTTATTAAAAACATT
1 TAATATGTTACTAATATGTCATCCCATAGGTCATC-TTTTTTTTTTCTGTTTTATTAAAAACATT
58985264 GACATTTATGTTGCAAGAATTTATAAA
65 GACATTTATGTTGCAAGAATTTATAAA
58985291 TATTTAGGGG
Statistics
Matches: 179, Mismatches: 5, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
94 28 0.16
95 3 0.02
97 92 0.51
98 56 0.31
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.46
Consensus pattern (97 bp):
TAATATGTTACTAATATGTCATCCCATAGGTCATCTTTTTTTTTTCTGTTTTATTAAAAACATTG
ACATTTATGTTGCAAGAATTTATAAACTTTGA
Found at i:58993339 original size:21 final size:20
Alignment explanation
Indices: 58993315--58993370 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 20
58993305 TAATAGAGGG
58993315 TAAAGAAATGAAAT-GATGACA
1 TAAAGAAAT-AAATAGATGA-A
*
58993336 TAAATAAATAAATAGATGAA
1 TAAAGAAATAAATAGATGAA
58993356 TAAAGAAAATAAATA
1 TAAAG-AAATAAATA
58993371 AAAAGATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 9 0.29
21 22 0.71
ACGTcount: A:0.64, C:0.02, G:0.12, T:0.21
Consensus pattern (20 bp):
TAAAGAAATAAATAGATGAA
Found at i:58993624 original size:59 final size:58
Alignment explanation
Indices: 58993553--58993870 Score: 219
Period size: 60 Copynumber: 5.4 Consensus size: 58
58993543 ATGAAAAGGA
* * *
58993553 AATATAAGTAATATCAAATTTAAATATTTAAAAAAAGAATAATCAATAAATAGATAAAT
1 AATATAAATAATATCAAATTTAAATATTTAAAAAAAGAAGAAT-AATAAATAAATAAAT
* * * **
58993612 AATATAAATAATATTAAATTTAAGTATTTTAAAAAATAAAAGAATAATAAATAAATTGAT
1 AATATAAATAATATCAAATTTAAATA-TTTAAAAAA-AGAAGAATAATAAATAAATAAAT
* * * * * *
58993672 AAAACAAAT-ATA-AATAATATTAAATGTTT--AAAAAGCAA-AAGAAT-AACAAATAAAT
1 AATATAAATAATATCA-AAT-TTAAATATTTAAAAAAAG-AAGAATAATAAATAAATAAAT
* * *
58993727 -ATA-AAA-AATATCCATTTTAAATATTTAAAAAGTAA-AAGAATAATAAATAAATAGATAAAA
1 AATATAAATAATATCAAATTTAAATATTTAAAAA--AAGAAGAATAATAAAT--A-A-ATAAAT
* * * *
58993787 AATATAAAGAATATCAAATTTAAATGTTTAAAAAAGTAAAAGAATAACAAATAAATAAAT
1 AATATAAATAATATCAAATTTAAATATTTAAAAAA--AGAAGAATAATAAATAAATAAAT
* *
58993847 AA-ATAGATAA-AACAAATTTAAATA
1 AATATAAATAATATCAAATTTAAATA
58993871 ATATCAAATT
Statistics
Matches: 201, Mismatches: 35, Indels: 47
0.71 0.12 0.17
Matches are distributed among these distances:
52 9 0.04
53 8 0.04
54 7 0.03
55 13 0.06
56 10 0.05
57 6 0.03
58 14 0.07
59 39 0.19
60 45 0.22
61 11 0.05
62 4 0.02
63 23 0.11
64 12 0.06
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (58 bp):
AATATAAATAATATCAAATTTAAATATTTAAAAAAAGAAGAATAATAAATAAATAAAT
Found at i:58993747 original size:52 final size:53
Alignment explanation
Indices: 58993691--58993791 Score: 159
Period size: 52 Copynumber: 1.9 Consensus size: 53
58993681 ATAAATAATA
*
58993691 TTAAATGTTTAAAAAGCAAAAGAATAACAAATAAAT-ATAAAAAATATCCATT
1 TTAAATATTTAAAAAGCAAAAGAATAACAAATAAATAATAAAAAATATCCATT
* *
58993743 TTAAATATTTAAAAAGTAAAAGAATAATAAATAAATAGATAAAAAATAT
1 TTAAATATTTAAAAAGCAAAAGAATAACAAATAAATA-ATAAAAAATAT
58993792 AAAGAATATC
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
52 33 0.75
54 11 0.25
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.28
Consensus pattern (53 bp):
TTAAATATTTAAAAAGCAAAAGAATAACAAATAAATAATAAAAAATATCCATT
Found at i:58993768 original size:111 final size:116
Alignment explanation
Indices: 58993608--58993971 Score: 325
Period size: 128 Copynumber: 3.1 Consensus size: 116
58993598 ATAAATAGAT
* * * *
58993608 AAAT-AATATAAATAATATTAAATTTAAGTATTTTAAAAAATAAAAGAATAATAAATAAATTGAT
1 AAATAAATATAAAAAATATCAAATTTAAATATTTTAAAAAATAAAAGAATAATAAATAAATAGAT
* *
58993672 AAAACAA-ATATA-AATA-ATA-TTAAATGTTT-AAAAAGCAAAAGAATAAC
66 AAAA-AATATAAAGAATACAAATTTAAATGTTTAAAAAAGCAAAAGAATAAC
* * *
58993719 AAATAAATATAAAAAATATCCATTTTAAATA-TTTAAAAAGTAAAAGAATAATAAATAAATAGAT
1 AAATAAATATAAAAAATATCAAATTTAAATATTTTAAAAAATAAAAGAATAATAAATAAATAGAT
*
58993783 AAAAAATATAAAGAATATCAAATTTAAATGTTTAAAAAAGTAAAAGAATAAC
66 AAAAAATATAAAGAATA-CAAATTTAAATGTTTAAAAAAGCAAAAGAATAAC
* * * *
58993835 AAATAAATAAATAAATAGATAAAACAAATTTAAATAATATCAAATTTAAATATTTAAA-AAGTAA
1 AAATAAAT--ATAAA-A-A-ATATCAAATTTAAAT-ATTTTAAA---AAATA---AAAGAA-TAA
* * * * * *
58993899 AATAATAAATA-A-AACAAATTTAAATAATATCAAATTTAAATGTTTAAAAAGGTAAAAGAATAA
53 TA-AATAAATAGATAAAAAATATAAAGAATA-CAAATTTAAATGTTTAAAAAAGCAAAAGAATAA
58993962 C
116 C
58993963 AAATAAATA
1 AAATAAATA
58993972 AATAGATAAA
Statistics
Matches: 209, Mismatches: 22, Indels: 29
0.80 0.08 0.11
Matches are distributed among these distances:
110 2 0.01
111 43 0.21
112 25 0.12
114 2 0.01
115 10 0.05
116 25 0.12
118 5 0.02
119 1 0.00
120 1 0.00
121 11 0.05
122 1 0.00
123 4 0.02
126 5 0.02
128 58 0.28
129 8 0.04
130 8 0.04
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (116 bp):
AAATAAATATAAAAAATATCAAATTTAAATATTTTAAAAAATAAAAGAATAATAAATAAATAGAT
AAAAAATATAAAGAATACAAATTTAAATGTTTAAAAAAGCAAAAGAATAAC
Found at i:58993777 original size:15 final size:15
Alignment explanation
Indices: 58993752--58993841 Score: 56
Period size: 15 Copynumber: 5.7 Consensus size: 15
58993742 TTTAAATATT
*
58993752 TAAAAAGTAAAAGAA
1 TAAAAAATAAAAGAA
*
58993767 TAATAAATAAATAG-A
1 TAAAAAATAAA-AGAA
58993782 TAAAAAATATAAAGAA
1 TAAAAAATA-AAAGAA
** * **
58993798 TATCAAATTTAAATGTT
1 TA--AAAAATAAAAGAA
58993815 TAAAAAAGTAAAAGAA
1 TAAAAAA-TAAAAGAA
*
58993831 TAACAAATAAA
1 TAAAAAATAAA
58993842 TAAATAAATA
Statistics
Matches: 55, Mismatches: 14, Indels: 12
0.68 0.17 0.15
Matches are distributed among these distances:
15 27 0.49
16 18 0.33
17 5 0.09
18 5 0.09
ACGTcount: A:0.67, C:0.02, G:0.08, T:0.23
Consensus pattern (15 bp):
TAAAAAATAAAAGAA
Found at i:58993777 original size:22 final size:21
Alignment explanation
Indices: 58993752--58993794 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
58993742 TTTAAATATT
58993752 TAAAAAG-TAAAAGAATAATAAA
1 TAAAAAGATAAAA-AAT-ATAAA
*
58993774 TAAATAGATAAAAAATATAAA
1 TAAAAAGATAAAAAATATAAA
58993795 GAATATCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 5 0.26
22 9 0.47
23 5 0.26
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (21 bp):
TAAAAAGATAAAAAATATAAA
Found at i:58993788 original size:31 final size:31
Alignment explanation
Indices: 58993753--58993849 Score: 101
Period size: 31 Copynumber: 3.1 Consensus size: 31
58993743 TTAAATATTT
58993753 AAAAAGTAAAAGAATAATAAATAAATAGATA
1 AAAAAGTAAAAGAATAATAAATAAATAGATA
*
58993784 AAAAA-TATAAAGAAT-ATCAAATTTAAAT-GTTTA
1 AAAAAGTA-AAAGAATAAT-AAA--TAAATAG-ATA
* *
58993817 AAAAAGTAAAAGAATAACAAATAAATAAATA
1 AAAAAGTAAAAGAATAATAAATAAATAGATA
58993848 AA
1 AA
58993850 TAGATAAAAC
Statistics
Matches: 54, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
30 4 0.07
31 24 0.44
32 1 0.02
33 22 0.41
34 3 0.06
ACGTcount: A:0.68, C:0.02, G:0.07, T:0.23
Consensus pattern (31 bp):
AAAAAGTAAAAGAATAATAAATAAATAGATA
Found at i:58993808 original size:175 final size:176
Alignment explanation
Indices: 58993552--58994122 Score: 597
Period size: 175 Copynumber: 3.2 Consensus size: 176
58993542 AATGAAAAGG
* * *
58993552 AAATATAAGTAATATCAAATTTAAATATTT--AAA--AAAAGAATAATCAATAAATAGATAAATA
1 AAATATAAATAATATCAAATTTAAATATTTAAAAAGTAAAAGAATAATAAATAAATAGATAAAAA
*
58993613 ATATAAATAATATTAAATTTAAGTATTTTAAAAAATAAAAGAATAATAAATAAATTGATAAAACA
66 ATATAAATAATATCAAATTTAA-TATTTTAAAAAATAAAAGAATAATAAATAAATTGATAAAACA
*
58993678 AATATAAAT-AATA-TTAAATGTTTAAAAAGCAAAAGAATAACAAAT
130 AATATAAATAAATATTTAAATGTTTAAAAAGTAAAAGAATAACAAAT
* * *
58993723 AAATATAAAAAATATCCATTTTAAATATTTAAAAAGTAAAAGAATAATAAATAAATAGATAAAAA
1 AAATATAAATAATATCAAATTTAAATATTTAAAAAGTAAAAGAATAATAAATAAATAGATAAAAA
*
58993788 ATATAAAGAATATCAAATTTAA-ATGTTTAAAAAAGTAAAAGAATAACAAATAAATAAATAAATA
66 ATATAAATAATATCAAATTTAATAT-TTTAAAAAA-TAAAAGAAT----AATAAATAAAT---T-
* * * * *
58993852 GATAAAACAAATTTAAATAATATCAAATTTAAATATTTAAAAAGTAAAATAATAAATAAAAC
121 GATAAAACAAATATAAATAA-AT---ATTTAAATGTTTAAAAAGTAAAAGAAT-AA-CAAAT
* *
58993914 AAATTTAAATAATATCAAATTTAAATGTTTAAAAAGGTAAAAGAATAACAAATAAATAAATAGAT
1 AAATATAAATAATATCAAATTTAAATATTTAAAAA-GTAAAAGAAT----AATAAATAAATAGAT
* *
58993979 AAAACGAATATAAATAATATCAAATTTAA-ATATTTAAAAAGTAAAAGAATAATAAATAAATAGA
61 AAAA--AATATAAATAATATCAAATTTAATAT-TTTAAAAAATAAAAGAATAATAAATAAATTGA
* * * * *
58994043 TAATATAAATA-ATATCAA-ATTTAAATGTTTAAAGAGTAAAAGAATAACAAAT
123 TAAAACAAATATAAATAAATATTTAAATGTTTAAAAAGTAAAAGAATAACAAAT
* *
58994095 AAATAAATAGATAA-AACAAATTTAAATA
1 AAAT--ATAAATAATATCAAATTTAAATA
58994123 ATATCAAATT
Statistics
Matches: 332, Mismatches: 37, Indels: 51
0.79 0.09 0.12
Matches are distributed among these distances:
171 26 0.08
173 5 0.02
174 9 0.03
175 55 0.17
179 11 0.03
181 7 0.02
182 15 0.05
183 47 0.14
184 1 0.00
185 2 0.01
187 1 0.00
188 5 0.02
189 32 0.10
190 2 0.01
191 33 0.10
192 10 0.03
193 11 0.03
196 19 0.06
197 9 0.03
198 32 0.10
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.29
Consensus pattern (176 bp):
AAATATAAATAATATCAAATTTAAATATTTAAAAAGTAAAAGAATAATAAATAAATAGATAAAAA
ATATAAATAATATCAAATTTAATATTTTAAAAAATAAAAGAATAATAAATAAATTGATAAAACAA
ATATAAATAAATATTTAAATGTTTAAAAAGTAAAAGAATAACAAAT
Found at i:58993819 original size:33 final size:32
Alignment explanation
Indices: 58993727--58993838 Score: 99
Period size: 33 Copynumber: 3.5 Consensus size: 32
58993717 ACAAATAAAT
* * *
58993727 ATAAAA-AATATCCATTTTAAATATTTAAAAA
1 ATAAAAGAATATCAAATTTAAATGTTTAAAAA
* *
58993758 GTAAAAGAATAAT-AAA--TAAATAG-ATAAAAA
1 ATAAAAGAAT-ATCAAATTTAAAT-GTTTAAAAA
58993788 ATATAAAGAATATCAAATTTAAATGTTTAAAAA
1 ATA-AAAGAATATCAAATTTAAATGTTTAAAAA
*
58993821 AGTAAAAGAATAACAAAT
1 A-TAAAAGAATATCAAAT
58993839 AAATAAATAA
Statistics
Matches: 64, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
30 15 0.23
31 15 0.23
32 5 0.08
33 27 0.42
34 2 0.03
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.28
Consensus pattern (32 bp):
ATAAAAGAATATCAAATTTAAATGTTTAAAAA
Found at i:58993891 original size:74 final size:71
Alignment explanation
Indices: 58993768--58993906 Score: 215
Period size: 74 Copynumber: 1.9 Consensus size: 71
58993758 GTAAAAGAAT
*
58993768 AATAAATAAATAGATAAAAAATATAAAGAATATCAAATTTAAATGTTTAAAAAAGTAAAAGAATA
1 AATAAATAAATAGATAAAAAATATAAAGAATATCAAATTTAAATATTT-AAAAAGTAAAAGAATA
58993833 ACAAATA
65 ACAAATA
* * *
58993840 AATAAATAAATAGATAAAACAAATTTAAATAATATCAAATTTAAATATTTAAAAAGTAAAATAAT
1 AATAAATAAATAGAT-AAA-AAATATAAAGAATATCAAATTTAAATATTTAAAAAGTAAAAGAAT
58993905 AA
64 AA
58993907 ATAAAACAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
72 15 0.25
73 19 0.31
74 27 0.44
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.27
Consensus pattern (71 bp):
AATAAATAAATAGATAAAAAATATAAAGAATATCAAATTTAAATATTTAAAAAGTAAAAGAATAA
CAAATA
Found at i:58993922 original size:15 final size:16
Alignment explanation
Indices: 58993904--58993939 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
58993894 AGTAAAATAA
58993904 TAAATAA-AACAAATT
1 TAAATAATAACAAATT
*
58993919 TAAATAATATCAAATT
1 TAAATAATAACAAATT
58993935 TAAAT
1 TAAAT
58993940 GTTTAAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (16 bp):
TAAATAATAACAAATT
Found at i:58993925 original size:54 final size:55
Alignment explanation
Indices: 58993843--58993961 Score: 195
Period size: 54 Copynumber: 2.2 Consensus size: 55
58993833 ACAAATAAAT
*
58993843 AAATAAATAGATAAAACAAATTTAAATAATATCAAATTTAAATATTTAAAAA-GTA
1 AAAT-AATAAATAAAACAAATTTAAATAATATCAAATTTAAATATTTAAAAAGGTA
*
58993898 AAATAATAAATAAAACAAATTTAAATAATATCAAATTTAAATGTTTAAAAAGGTA
1 AAATAATAAATAAAACAAATTTAAATAATATCAAATTTAAATATTTAAAAAGGTA
*
58993953 AAAGAATAA
1 AAATAATAA
58993962 CAAATAAATA
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
54 45 0.75
55 15 0.25
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.29
Consensus pattern (55 bp):
AAATAATAAATAAAACAAATTTAAATAATATCAAATTTAAATATTTAAAAAGGTA
Found at i:58993974 original size:35 final size:35
Alignment explanation
Indices: 58993935--58994040 Score: 85
Period size: 35 Copynumber: 3.1 Consensus size: 35
58993925 ATATCAAATT
58993935 TAAATGTTTAAAAAGGTAAAAGAATAACAAATAAA
1 TAAATGTTTAAAAAGGTAAAAGAATAACAAATAAA
* * * * * *
58993970 TAAATAG-ATAAAACGAATATAAATAATATCAAAT--T
1 TAAAT-GTTTAAAAAG-GTA-AAAGAATAACAAATAAA
* *
58994005 TAAATATTTAAAAA-GTAAAAGAATAATAAATAAA
1 TAAATGTTTAAAAAGGTAAAAGAATAACAAATAAA
58994039 TA
1 TA
58994041 GATAATATAA
Statistics
Matches: 51, Mismatches: 14, Indels: 13
0.65 0.18 0.17
Matches are distributed among these distances:
32 11 0.22
33 2 0.04
34 2 0.04
35 21 0.41
36 3 0.06
37 12 0.24
ACGTcount: A:0.63, C:0.03, G:0.08, T:0.26
Consensus pattern (35 bp):
TAAATGTTTAAAAAGGTAAAAGAATAACAAATAAA
Found at i:58994000 original size:198 final size:190
Alignment explanation
Indices: 58993552--58994172 Score: 616
Period size: 198 Copynumber: 3.3 Consensus size: 190
58993542 AATGAAAAGG
* * *
58993552 AAATATAAGTAATATCAAATTTAAATATTT--AAA--AAAAGAAT----AATCAATAAATAGATA
1 AAATTTAAATAATATCAAATTTAAATATTTAAAAAGTAAAAGAATAACAAATAAATAAATAGATA
* *
58993609 AATAATATAAATAATATTAAATTTAAGTATTTTAAAAAA-TAAAAGAAT---AATAAATAAAT--
66 AAAAATATAAATAATATCAAATTTAA--ATTTTAAAAAAGTAAAAGAATAAAAATAAATAAATAA
* * * * * *
58993668 -T-GATAAAACAAATATAAATA-AT--ATTAAATGTTTAAAAAGCAAAAGAAT-AA-CAAAT
129 ATAGATAAAACAAATTTAAATATATAAATTAAATATTTAAAAAGTAAAATAATAAATAAAAC
* * * *
58993723 AAATATAAAAAATATCCATTTTAAATATTTAAAAAGTAAAAGAAT----AATAAATAAATAGATA
1 AAATTTAAATAATATCAAATTTAAATATTTAAAAAGTAAAAGAATAACAAATAAATAAATAGATA
*
58993784 AAAAATATAAAGAATATCAAATTTAAATGTTTAAAAAAGTAAAAGAATAACAAATAAATAAATAA
66 AAAAATATAAATAATATCAAATTTAAAT-TTTAAAAAAGTAAAAGAATAA-AAATAAATAAATAA
58993849 ATAGATAAAACAAATTTAAATAATATCAAATTTAAATATTTAAAAAGTAAAATAATAAATAAAAC
129 ATAGATAAAACAAATTTAAAT-ATAT-AAA-TTAAATATTTAAAAAGTAAAATAATAAATAAAAC
*
58993914 AAATTTAAATAATATCAAATTTAAATGTTTAAAAAGGTAAAAGAATAACAAATAAATAAATAGAT
1 AAATTTAAATAATATCAAATTTAAATATTTAAAAA-GTAAAAGAATAACAAATAAATAAATAGAT
*
58993979 AAAACGAATATAAATAATATCAAATTTAAATATTT-AAAAAGTAAAAGAATAATAAATAAATAGA
65 AAAA--AATATAAATAATATCAAATTTAAAT-TTTAAAAAAGTAAAAGAATAA-AAATAAATAAA
* * * * * ** *
58994043 TAATATAAATAATATCAAATTTAAATGTTTAAAGAGTAAA-AGAATAACAAA-T-AAATAAATAG
126 TAA-ATAGATAA-AACAAATTTAAATATAT-AA-ATTAAATA-TTTAA-AAAGTAAAAT-AATAA
58994105 ATAAAAC
184 ATAAAAC
* *
58994112 AAATTTAAATAATATCAAATTTAAATATTTAAAAAGTAGAGGAATAACAAATAAATAAATA
1 AAATTTAAATAATATCAAATTTAAATATTTAAAAAGTAAAAGAATAACAAATAAATAAATA
58994173 AATAGATAAA
Statistics
Matches: 380, Mismatches: 35, Indels: 44
0.83 0.08 0.10
Matches are distributed among these distances:
171 26 0.07
173 5 0.01
174 9 0.02
175 55 0.14
179 11 0.03
182 1 0.00
183 17 0.04
184 1 0.00
185 2 0.01
188 1 0.00
189 22 0.06
190 2 0.01
191 33 0.09
192 10 0.03
196 19 0.05
197 59 0.16
198 91 0.24
199 16 0.04
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (190 bp):
AAATTTAAATAATATCAAATTTAAATATTTAAAAAGTAAAAGAATAACAAATAAATAAATAGATA
AAAAATATAAATAATATCAAATTTAAATTTTAAAAAAGTAAAAGAATAAAAATAAATAAATAAAT
AGATAAAACAAATTTAAATATATAAATTAAATATTTAAAAAGTAAAATAATAAATAAAAC
Found at i:58994037 original size:69 final size:69
Alignment explanation
Indices: 58993898--58994172 Score: 383
Period size: 69 Copynumber: 4.1 Consensus size: 69
58993888 TTAAAAAGTA
* * *
58993898 AAAT-AATAAATAAAACAAATTTAAATAATATCAAATTTAAATGTTTAAAAAGGTAAAAGAATAA
1 AAATAAATAGATAAAACAAATATAAATAATATCAAATTTAAATATTTAAAAA-GTAAAAGAATAA
58993962 CAAAT
65 CAAAT
*
58993967 AAATAAATAGATAAAACGAATATAAATAATATCAAATTTAAATATTTAAAAAGTAAAAGAAT---
1 AAATAAATAGATAAAACAAATATAAATAATATCAAATTTAAATATTTAAAAAGTAAAAGAATAAC
58994029 -AAT
66 AAAT
* *
58994032 AAATAAATAGAT------AATATAAATAATATCAAATTTAAATGTTTAAAGAGTAAAAGAATAAC
1 AAATAAATAGATAAAACAAATATAAATAATATCAAATTTAAATATTTAAAAAGTAAAAGAATAAC
58994091 AAAT
66 AAAT
* * *
58994095 AAATAAATAGATAAAACAAATTTAAATAATATCAAATTTAAATATTTAAAAAGTAGAGGAATAAC
1 AAATAAATAGATAAAACAAATATAAATAATATCAAATTTAAATATTTAAAAAGTAAAAGAATAAC
58994160 AAAT
66 AAAT
58994164 AAATAAATA
1 AAATAAATA
58994173 AATAGATAAA
Statistics
Matches: 184, Mismatches: 11, Indels: 22
0.85 0.05 0.10
Matches are distributed among these distances:
59 42 0.23
63 15 0.08
65 15 0.08
69 69 0.38
70 43 0.23
ACGTcount: A:0.62, C:0.04, G:0.07, T:0.28
Consensus pattern (69 bp):
AAATAAATAGATAAAACAAATATAAATAATATCAAATTTAAATATTTAAAAAGTAAAAGAATAAC
AAAT
Found at i:58994167 original size:128 final size:128
Alignment explanation
Indices: 58993723--58994181 Score: 651
Period size: 128 Copynumber: 3.6 Consensus size: 128
58993713 AATAACAAAT
* * *
58993723 AAATATAAAAAATATCCATTTTAAATATTTAAAAAGTAAAAGAATAATAAATAAATAGATAAAAA
1 AAATATAAATAATATCAAATTTAAATATTTAAAAAGTAAAAGAATAATAAATAAATAGAT----A
*
58993788 ATATAAAGAATATCAAATTTAAATGTTTAAAAAAGTAAAAGAATAACAAATAAATAAATAAATAG
62 ATATAAATAATATCAAATTTAAATGTTT-AAAAAGTAAAAGAATAAC----AAATAAATAAATAG
58993853 ATAAAAC
122 ATAAAAC
* * *
58993860 AAATTTAAATAATATCAAATTTAAATATTTAAAAAGT--AA-AATAATAAATAAA-ACA-AATTT
1 AAATATAAATAATATCAAATTTAAATATTTAAAAAGTAAAAGAATAATAAATAAATAGATAATAT
58993920 AAATAATATCAAATTTAAATGTTTAAAAAGGTAAAAGAATAACAAATAAATAAATAGATAAAAC
66 AAATAATATCAAATTTAAATGTTTAAAAA-GTAAAAGAATAACAAATAAATAAATAGATAAAAC
*
58993984 GAATATAAATAATATCAAATTTAAATATTTAAAAAGTAAAAGAATAATAAATAAATAGATAATAT
1 AAATATAAATAATATCAAATTTAAATATTTAAAAAGTAAAAGAATAATAAATAAATAGATAATAT
*
58994049 AAATAATATCAAATTTAAATGTTTAAAGAGTAAAAGAATAACAAATAAATAAATAGATAAAAC
66 AAATAATATCAAATTTAAATGTTTAAAAAGTAAAAGAATAACAAATAAATAAATAGATAAAAC
* * * * *
58994112 AAATTTAAATAATATCAAATTTAAATATTTAAAAAGTAGAGGAATAACAAATAAATAAATAA-AT
1 AAATATAAATAATATCAAATTTAAATATTTAAAAAGTAAAAGAATAATAAATAAATAGATAATAT
*
58994176 AGATAA
66 AAATAA
58994182 AACAACTCAT
Statistics
Matches: 297, Mismatches: 19, Indels: 22
0.88 0.06 0.07
Matches are distributed among these distances:
124 56 0.19
126 2 0.01
127 25 0.08
128 132 0.44
129 32 0.11
133 2 0.01
134 13 0.04
135 2 0.01
137 33 0.11
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.28
Consensus pattern (128 bp):
AAATATAAATAATATCAAATTTAAATATTTAAAAAGTAAAAGAATAATAAATAAATAGATAATAT
AAATAATATCAAATTTAAATGTTTAAAAAGTAAAAGAATAACAAATAAATAAATAGATAAAAC
Found at i:58995189 original size:21 final size:20
Alignment explanation
Indices: 58995151--58995190 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
58995141 AATTACAATG
* *
58995151 TTATTTTTCTATTTTTTCTA
1 TTATTTTTCTACTATTTCTA
58995171 TTATTCTTTCTACTATTTCT
1 TTATT-TTTCTACTATTTCT
58995191 TTCGTGTTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (20 bp):
TTATTTTTCTACTATTTCTA
Found at i:58995886 original size:43 final size:44
Alignment explanation
Indices: 58995685--58996172 Score: 474
Period size: 44 Copynumber: 11.1 Consensus size: 44
58995675 GGATTTGTCT
*
58995685 CTTCAATTTGCTCCACTGCAACTTCAGGGAGATAAGACTTAC-TA-
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TT-CGTAG
* * *
58995729 CTTCAATCTTGCTCCACTACAACTTCAGGGAGATAAGACTCACTA-
1 CTTCAATC-TGCTCCACTGCAACTTCAGGGAGATAAGATTC-GTAG
* **
58995774 CTTCAATCTTGCTCCACTACAACTTCAGGGAGATAAGATTTATAG
1 CTTCAATC-TGCTCCACTGCAACTTCAGGGAGATAAGATTCGTAG
* *
58995819 CTTCAACCTGCTCCACTGCAACTTCAGGGAGACAA-ATTCGTAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGTAG
* * * *
58995862 CTTTAATCTGCTCCATTGCGACTTCAGGGAGATAAGGTTC--A-
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGTAG
* * *
58995903 CTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTCGTAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGTAG
* ** * * *
58995947 CCTCAATCTGCTCCACCACAACTTCAAGGATATTAGATTCGT-G
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGTAG
* * * * *
58995990 ACTTTAATCTACTCCACTGCAACTTCAAGGAGATAAGACTCACTA-
1 -CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTC-GTAG
* * * *
58996035 TTTCAATCTGCTCCAATGCAACTTCAGGGAGATAATATTTGTAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGTAG
* * * * *
58996079 CTTC-ATCTTGCTCCACTGCATCTTTAGGAAGATAAGATTTGCTAT
1 CTTCAATC-TGCTCCACTGCAACTTCAGGGAGATAAGATTCG-TAG
* * *
58996124 CTTCAATCTGCTCTACTGCAACTTCAGGGAGATAAGATTTGTGG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGTAG
58996168 CTTCA
1 CTTCA
58996173 CTGAACTGTT
Statistics
Matches: 368, Mismatches: 61, Indels: 30
0.80 0.13 0.07
Matches are distributed among these distances:
41 36 0.10
42 1 0.00
43 43 0.12
44 173 0.47
45 112 0.30
46 3 0.01
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGTAG
Found at i:58996681 original size:18 final size:18
Alignment explanation
Indices: 58996639--58996681 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
58996629 ATGCCTGAAA
58996639 AAGATTGTATCAATAGAC
1 AAGATTGTATCAATAGAC
* * *
58996657 AATATTGTATTAATAGAT
1 AAGATTGTATCAATAGAC
58996675 AAGATTG
1 AAGATTG
58996682 AAATTTATTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.44, C:0.05, G:0.16, T:0.35
Consensus pattern (18 bp):
AAGATTGTATCAATAGAC
Found at i:59007387 original size:25 final size:26
Alignment explanation
Indices: 59007376--59007424 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
59007366 ATAATGACAT
*
59007376 AAATAAATAAATAGATG-AATAAAGA
1 AAATAAATAAATAAATGAAATAAAGA
* *
59007401 AAATAAATAAATAGATAAAATAAA
1 AAATAAATAAATAAATGAAATAAA
59007425 AATGTCATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.20
Consensus pattern (26 bp):
AAATAAATAAATAAATGAAATAAAGA
Found at i:59007404 original size:21 final size:20
Alignment explanation
Indices: 59007354--59007410 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
59007344 TAATAGAGGG
59007354 TAAAGAAATGAAATAATGACA
1 TAAAGAAAT-AAATAATGACA
*
59007375 TAAATAAATAAATAGATGA-A
1 TAAAGAAATAAATA-ATGACA
59007395 TAAAGAAAATAAATAA
1 TAAAG-AAATAAATAA
59007411 ATAGATAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 11 0.34
21 21 0.66
ACGTcount: A:0.67, C:0.02, G:0.11, T:0.21
Consensus pattern (20 bp):
TAAAGAAATAAATAATGACA
Found at i:59007591 original size:14 final size:14
Alignment explanation
Indices: 59007572--59007601 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
59007562 ATATATATAT
59007572 AAATGCTTAATGAA
1 AAATGCTTAATGAA
59007586 AAATGCTTAATGAA
1 AAATGCTTAATGAA
59007600 AA
1 AA
59007602 GGAAATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.53, C:0.07, G:0.13, T:0.27
Consensus pattern (14 bp):
AAATGCTTAATGAA
Found at i:59007912 original size:43 final size:41
Alignment explanation
Indices: 59007865--59007989 Score: 122
Period size: 43 Copynumber: 3.1 Consensus size: 41
59007855 AATAAATAGA
59007865 TAAAACAAATATAAATAATATCAAATTTAAATGTTTAAAAAAG
1 TAAAACAAATATAAATAATATCAAATTTAAAT-TTT-AAAAAG
* * *
59007908 TAAAA-GAATAACAAATAA-AT-AAA--TAAA---TAAATAG
1 TAAAACAAAT-ATAAATAATATCAAATTTAAATTTTAAAAAG
59007942 ATAAAACAAATATAAATAATATCAAATTTAAATATTTAAAAAG
1 -TAAAACAAATATAAATAATATCAAATTTAAAT-TTTAAAAAG
59007985 TAAAA
1 TAAAA
59007990 GAATAATGAA
Statistics
Matches: 65, Mismatches: 6, Indels: 23
0.69 0.06 0.24
Matches are distributed among these distances:
34 5 0.08
35 13 0.20
36 5 0.08
37 3 0.05
39 8 0.12
41 3 0.05
42 10 0.15
43 18 0.28
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (41 bp):
TAAAACAAATATAAATAATATCAAATTTAAATTTTAAAAAG
Found at i:59007937 original size:78 final size:73
Alignment explanation
Indices: 59007715--59008031 Score: 413
Period size: 78 Copynumber: 4.4 Consensus size: 73
59007705 GTAAAAGAAT
* *
59007715 AATAAATAAATAGATAAAAACAAATATAAAT-A-AT---A-TTAAATGTTTAAAAAGCAAAAGAA
1 AATAAATAAATAGAT-AAAACAAATATAAATAATATCAAATTTAAATATTTAAAAAGTAAAAGAA
*
59007774 TAACAAATA
65 TAATAAATA
* *
59007783 AATAAATAAATAGATAAAATAAATATAAA-AATATCAATTTTAAATATTTAAAAAGTAAAAG---
1 AATAAATAAATAGATAAAACAAATATAAATAATATCAAATTTAAATATTTAAAAAGTAAAAGAAT
59007844 AAT-AATA
66 AATAAATA
*
59007851 AATAAATAAATAGATAAAACAAATATAAATAATATCAAATTTAAATGTTTAAAAAAGTAAAAGAA
1 AATAAATAAATAGATAAAACAAATATAAATAATATCAAATTTAAATATTT-AAAAAGTAAAAGAA
59007916 TAACAAATAAATA
65 T----AATAAATA
59007929 AATAAATAAATAGATAAAACAAATATAAATAATATCAAATTTAAATATTTAAAAAGTAAAAGAAT
1 AATAAATAAATAGATAAAACAAATATAAATAATATCAAATTTAAATATTTAAAAAGTAAAAGAAT
*
59007994 AATGAATA
66 AATAAATA
* * *
59008002 AATACATAGATAGATAAAACAAATTTAAAT
1 AATAAATAAATAGATAAAACAAATATAAAT
59008032 GTTTAAAAAA
Statistics
Matches: 220, Mismatches: 13, Indels: 27
0.85 0.05 0.10
Matches are distributed among these distances:
67 14 0.06
68 49 0.22
69 20 0.09
70 12 0.05
72 20 0.09
73 34 0.15
77 18 0.08
78 53 0.24
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.26
Consensus pattern (73 bp):
AATAAATAAATAGATAAAACAAATATAAATAATATCAAATTTAAATATTTAAAAAGTAAAAGAAT
AATAAATA
Found at i:59007938 original size:27 final size:28
Alignment explanation
Indices: 59007900--59007960 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 28
59007890 TTTAAATGTT
*
59007900 TAAA-AAAGTAAA-AGA-ATAACAAATAAA
1 TAAATAAAGTAAATAGATAAAACAAAT--A
59007927 TAAATAAA-TAAATAGATAAAACAAATA
1 TAAATAAAGTAAATAGATAAAACAAATA
59007954 TAAATAA
1 TAAATAA
59007961 TATCAAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
27 16 0.53
28 6 0.20
29 8 0.27
ACGTcount: A:0.72, C:0.03, G:0.05, T:0.20
Consensus pattern (28 bp):
TAAATAAAGTAAATAGATAAAACAAATA
Found at i:59007954 original size:69 final size:67
Alignment explanation
Indices: 59007715--59008267 Score: 422
Period size: 69 Copynumber: 8.1 Consensus size: 67
59007705 GTAAAAGAAT
* * *
59007715 AATAAATAAATAGATAAAAACAAATATAAATAATATTAAATGTTTAAAAAGCAAAAGAATAACAA
1 AATAAATAAATAAAT-AAAA-AAATAT-CA-AAT-TTAAATGTTTAAAAAGTAAAAGAATAACAA
59007780 ATAAATA
61 ATAAATA
* * * *
59007787 AATAAATAGATAAAATAAATATAAAAATATCAATTTTAAATATTTAAAAAGTAAAAGAATAATAA
1 AAT--A-A-AT-AAATAAATAAAAAAATATCAAATTTAAATGTTTAAAAAGTAAAAGAATAACAA
59007852 ATAAATA
61 ATAAATA
* * *
59007859 AATAGATAAAACAAATATAAATAATATCAAATTTAAATGTTTAAAAAAGTAAAAGAATAACAAAT
1 AATAAAT-AAATAAATA-AAAAAATATCAAATTTAAATGTTT-AAAAAGTAAAAGAATAACAAAT
59007924 AAATA
63 AAATA
* ** * *
59007929 AATAAATAAATAGATAAAACAAATAT-AAATAATATCAAA--TTTAAATATTTAAAA-AGTAAAA
1 AATAAATAAATAAATAAAA-AAATATCAAAT--T-T-AAATGTTTAAA-AAGTAAAAGAATAACA
*
59007990 GAAT-AATG
60 -AATAAATA
* * * *
59007998 AATAAATACATAGATAGATAAA-A-CAAATTTAAATGTTTAAAAAAGTAAAAGAATAACAAATAA
1 AATAAATAAATAAATAAAAAAATATCAAATTTAAATGTTT-AAAAAGTAAAAGAATAACAAATAA
59008061 ATA
65 ATA
* * * * * *
59008064 GAT--A-AAACAAATATAAATAATTTAAATATTTAAATATTTAAAAAGTAAAAGAAT----AATA
1 AATAAATAAATAAATA-AAAAAATATCAA-ATTTAAATGTTTAAAAAGTAAAAGAATAACAAATA
59008122 AATA
64 AATA
* * *
59008126 AATAGAT-AAT--AT-AAATAATATCAAATTTAAATGTTTAAAAAGTAAAAGGATAACAAATAAA
1 AATAAATAAATAAATAAAAAAATATCAAATTTAAATGTTTAAAAAGTAAAAGAATAACAAATAAA
59008187 TA
66 TA
* * * * * * *
59008189 AATAGATTAAACAAATATAAATAATATCAAATTTAAATATTTAAAAAATAGAGGAATAACAAATA
1 AATA-AATAAATAAATA-AAAAAATATCAAATTTAAATGTTTAAAAAGTAAAAGAATAACAAATA
59008254 AATA
64 AATA
*
59008258 AATAGATAAA
1 AATAAATAAA
59008268 ACAACTCATA
Statistics
Matches: 387, Mismatches: 57, Indels: 78
0.74 0.11 0.15
Matches are distributed among these distances:
59 25 0.06
60 10 0.03
62 12 0.03
63 21 0.05
64 9 0.02
65 15 0.04
66 30 0.08
67 18 0.05
68 25 0.06
69 109 0.28
70 46 0.12
71 1 0.00
72 43 0.11
73 2 0.01
74 2 0.01
75 7 0.02
76 5 0.01
77 7 0.02
ACGTcount: A:0.64, C:0.03, G:0.06, T:0.27
Consensus pattern (67 bp):
AATAAATAAATAAATAAAAAAATATCAAATTTAAATGTTTAAAAAGTAAAAGAATAACAAATAAA
TA
Found at i:59008145 original size:9 final size:9
Alignment explanation
Indices: 59008073--59008151 Score: 51
Period size: 8 Copynumber: 9.0 Consensus size: 9
59008063 AGATAAAACA
59008073 AATATAAAT
1 AATATAAAT
*
59008082 AATTTAAAT
1 AATATAAAT
*
59008091 -ATTTAAAT
1 AATATAAAT
*
59008099 -ATTTAAA-
1 AATATAAAT
*
59008106 AAGTA-AAAG
1 AA-TATAAAT
59008115 AATAATAAAT
1 AAT-ATAAAT
*
59008125 AA-ATAGAT
1 AATATAAAT
59008133 AATATAAAT
1 AATATAAAT
59008142 AATATCAAAT
1 AATAT-AAAT
59008152 TTAAATGTTT
Statistics
Matches: 58, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
8 27 0.47
9 22 0.38
10 9 0.16
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (9 bp):
AATATAAAT
Found at i:59008184 original size:59 final size:61
Alignment explanation
Indices: 59007604--59008257 Score: 333
Period size: 69 Copynumber: 9.9 Consensus size: 61
59007594 AATGAAAAGG
* * *
59007604 AAATATAAGTAATATCAAATTTAAATATTTAAAAAGTAAAAGAATAATAAATAAATAGATAAAAT
1 AAATATAAATAATATCAAATTTAAATATTTAAAAAGTAAAAGGATAACAAATAAATAGAT----T
* * * *
59007669 AAATATAAATAATATTAAATTTAAGTATTTTAAAAAGTAAAAGAATAATAAATAAATAGA-T
1 AAATATAAATAATATCAAATTTAAATA-TTTAAAAAGTAAAAGGATAACAAATAAATAGATT
* * * * * *
59007730 AAAAACAAAT-ATA-AATAATATTAAATGTTTAAAAAGCAAAAGAATAACAAATAAATAAATAAA
1 AAATATAAATAATATCA-AAT-TTAAATATTTAAAAAGTAAAAGGATAAC--------AAATAAA
59007793 TAGATAAAAT
56 TAGAT----T
* * *
59007803 AAATATAAA-AATATCAATTTTAAATATTTAAAAAGTAAAAGAATAATAAATAAATAAATAGATA
1 AAATATAAATAATATCAAATTTAAATATTTAAAAAGTAAAAG---GAT-AACAAATAAATAGAT-
*
59007867 AAAC
61 ---T
* * *
59007871 AAATATAAATAATATCAAATTTAAATGTTTAAAAAAGTAAAAGAATAACAAATAAATA-AAT
1 AAATATAAATAATATCAAATTTAAATATTT-AAAAAGTAAAAGGATAACAAATAAATAGATT
* * ** * *
59007932 AAATAAATAGATAA-AACAAATATAAATAATATCAAATTTAAATATTTAAAAAG-TAAAAGAAT-
1 AAAT--ATAAATAATATCAAAT-T---TAA-AT---ATTTAAA-AAGTAAAAGGATAACA-AATA
*
59007994 AAT-GAAT
54 AATAGATT
* * * *
59008001 AAATACATAGATAGATAAAACAAATTTAAATGTTTAAAAAAGTAAAAGAATAACAAATAAATAGA
1 AAAT--ATAAATA-AT--ATCAAATTTAAATATTT-AAAAAGTAAAAGGATAACAAATAAATAGA
*
59008066 TAAAAC
60 T----T
* * * *
59008072 AAATATAAATAATTTAAATATTTAAATATTTAAAAAGTAAAAGAATAATAAATAAATAGA-T
1 AAATATAAATAATATCAA-ATTTAAATATTTAAAAAGTAAAAGGATAACAAATAAATAGATT
*
59008133 -AATATAAATAATATCAAATTTAAATGTTTAAAAAGTAAAAGGATAACAAATAAATAAATAGATT
1 AAATATAAATAATATCAAATTTAAATATTTAAAAAGTAAAAGGATAAC----AAATAAATAGATT
* *
59008197 AAACAAATATAAATAATATCAAATTTAAATATTTAAAAAAT-AGAGGAATAACAAATAAATA
1 ----AAATATAAATAATATCAAATTTAAATATTTAAAAAGTAAAAGG-ATAACAAATAAATA
59008258 AATAGATAAA
Statistics
Matches: 473, Mismatches: 55, Indels: 122
0.73 0.08 0.19
Matches are distributed among these distances:
59 28 0.06
60 40 0.08
61 18 0.04
62 6 0.01
63 19 0.04
64 1 0.00
65 46 0.10
66 86 0.18
67 18 0.04
68 44 0.09
69 91 0.19
70 25 0.05
71 4 0.01
72 21 0.04
73 20 0.04
74 1 0.00
75 3 0.01
76 2 0.00
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.28
Consensus pattern (61 bp):
AAATATAAATAATATCAAATTTAAATATTTAAAAAGTAAAAGGATAACAAATAAATAGATT
Found at i:59009735 original size:18 final size:18
Alignment explanation
Indices: 59009702--59009750 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
59009692 ATTCACCTAA
*
59009702 ACCCAATCCAAACCCAAGT
1 ACCCAA-CCCAACCCAAGT
** *
59009721 ATTCAACCCAACCCAATT
1 ACCCAACCCAACCCAAGT
59009739 ACCCAACCCAAC
1 ACCCAACCCAAC
59009751 TCAATCATAA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
18 20 0.83
19 4 0.17
ACGTcount: A:0.41, C:0.45, G:0.02, T:0.12
Consensus pattern (18 bp):
ACCCAACCCAACCCAAGT
Found at i:59009872 original size:9 final size:9
Alignment explanation
Indices: 59009858--59009933 Score: 89
Period size: 9 Copynumber: 8.4 Consensus size: 9
59009848 GTAGTGATTC
59009858 AATTCGGTT
1 AATTCGGTT
*
59009867 AATTCGGGT
1 AATTCGGTT
*
59009876 AATTCGGGT
1 AATTCGGTT
*
59009885 AATTCGATT
1 AATTCGGTT
*
59009894 AATTCGGGT
1 AATTCGGTT
* * *
59009903 ATTTAGATT
1 AATTCGGTT
59009912 AATTCGGTT
1 AATTCGGTT
59009921 AATTCGGTT
1 AATTCGGTT
59009930 AATT
1 AATT
59009934 TTTAACCAAA
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 55 1.00
ACGTcount: A:0.26, C:0.09, G:0.22, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:59009890 original size:27 final size:27
Alignment explanation
Indices: 59009858--59009933 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
59009848 GTAGTGATTC
* *
59009858 AATTCGGTTAATTCGGGTAATTCGGGT
1 AATTCGGTTAATTCGGGTAATTAGAGT
* * *
59009885 AATTCGATTAATTCGGGTATTTAGATT
1 AATTCGGTTAATTCGGGTAATTAGAGT
*
59009912 AATTCGGTTAATTCGGTTAATT
1 AATTCGGTTAATTCGGGTAATT
59009934 TTTAACCAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.26, C:0.09, G:0.22, T:0.42
Consensus pattern (27 bp):
AATTCGGTTAATTCGGGTAATTAGAGT
Found at i:59011240 original size:19 final size:20
Alignment explanation
Indices: 59011196--59011240 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
59011186 CAAAAATTAC
59011196 ATAAAAATATAAAATAATTT
1 ATAAAAATATAAAATAATTT
*
59011216 -TTAAAAT-TCAAAAT-ATTT
1 ATAAAAATAT-AAAATAATTT
59011234 ATAAAAA
1 ATAAAAA
59011241 AATCTAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (20 bp):
ATAAAAATATAAAATAATTT
Found at i:59012290 original size:26 final size:26
Alignment explanation
Indices: 59012261--59012311 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
59012251 AAGTCATCAA
59012261 TAAGTCAACTTTTGACTCCAAATTTT
1 TAAGTCAACTTTTGACTCCAAATTTT
* *
59012287 TAAGTCAACTTTTGATTCGAAATTT
1 TAAGTCAACTTTTGACTCCAAATTT
59012312 GTATGTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.31, C:0.16, G:0.10, T:0.43
Consensus pattern (26 bp):
TAAGTCAACTTTTGACTCCAAATTTT
Found at i:59013048 original size:20 final size:19
Alignment explanation
Indices: 59013019--59013065 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
59013009 AGTTTTTAAA
*
59013019 TTTT-ATAACATTTAATACT
1 TTTTAATAACATTT-ATAAT
59013038 TTTTAATAACATTTATAAT
1 TTTTAATAACATTTATAAT
59013057 TTTCTAATA
1 TTT-TAATA
59013066 TTTTAATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTTAATAACATTTATAAT
Found at i:59013059 original size:19 final size:20
Alignment explanation
Indices: 59013019--59013084 Score: 68
Period size: 19 Copynumber: 3.5 Consensus size: 20
59013009 AGTTTTTAAA
*
59013019 TTTT-ATAACATTTAATACT
1 TTTTAATAACATTTAATAAT
59013038 TTTTAATAACATTT-ATAAT
1 TTTTAATAACATTTAATAAT
*
59013057 TTTCTAAT-A-TTTTAATAAT
1 TTT-TAATAACATTTAATAAT
*
59013076 TTCTAATAA
1 TTTTAATAA
59013085 TTTTTAAAAC
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
18 7 0.17
19 20 0.50
20 13 0.32
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (20 bp):
TTTTAATAACATTTAATAAT
Found at i:59013072 original size:38 final size:36
Alignment explanation
Indices: 59013013--59013084 Score: 90
Period size: 38 Copynumber: 1.9 Consensus size: 36
59013003 AGTAGTAGTT
* *
59013013 TTTAAATTTTATAACATTTAATACTTTTTAATAACA
1 TTTAAATTTTATAACATTTAATAATTTCTAATAACA
* *
59013049 TTTATAATTTTCTAATATTTTAATAATTTCTAATAA
1 TTTA-AATTTTATAACA-TTTAATAATTTCTAATAA
59013085 TTTTTAAAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 4 0.13
37 10 0.33
38 16 0.53
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (36 bp):
TTTAAATTTTATAACATTTAATAATTTCTAATAACA
Found at i:59018687 original size:22 final size:22
Alignment explanation
Indices: 59018657--59018700 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
59018647 ATAGTTTATC
59018657 TTTTATTTGCTTGATGAGAAAA
1 TTTTATTTGCTTGATGAGAAAA
* *
59018679 TTTTGTTTGTTTGATGAGAAAA
1 TTTTATTTGCTTGATGAGAAAA
59018701 ATTGGAATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.02, G:0.20, T:0.48
Consensus pattern (22 bp):
TTTTATTTGCTTGATGAGAAAA
Found at i:59019274 original size:17 final size:18
Alignment explanation
Indices: 59019252--59019285 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
59019242 GCTAAGCATA
*
59019252 CCAAAA-CACATTTCCAG
1 CCAAAAGCACATCTCCAG
59019269 CCAAAAGCACATCTCCA
1 CCAAAAGCACATCTCCA
59019286 ATAGGTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.38, G:0.06, T:0.15
Consensus pattern (18 bp):
CCAAAAGCACATCTCCAG
Found at i:59037627 original size:35 final size:35
Alignment explanation
Indices: 59037565--59037650 Score: 106
Period size: 35 Copynumber: 2.5 Consensus size: 35
59037555 TTTTATTTGT
*
59037565 TTTA-ATTATATAATTAATGATATTTAAA-TATAA
1 TTTATATTATATAATTAATGATAATTAAATTATAA
*
59037598 TTTATATTATATGAATTTATGATAATTAAATTATAA
1 TTTATATTATAT-AATTAATGATAATTAAATTATAA
* *
59037634 -TGATATTATATTATTAA
1 TTTATATTATATAATTAA
59037651 ATAAATTAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
33 4 0.09
34 11 0.24
35 25 0.56
36 5 0.11
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (35 bp):
TTTATATTATATAATTAATGATAATTAAATTATAA
Found at i:59037636 original size:25 final size:23
Alignment explanation
Indices: 59037592--59037652 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 23
59037582 TGATATTTAA
*
59037592 ATATAATTTATATTATATGA-ATTT
1 ATATAA-TTAAATTATATGATA-TT
59037616 ATGATAATTAAATTATAATGATATT
1 AT-ATAATTAAATTAT-ATGATATT
*
59037641 ATATTATTAAAT
1 ATATAATTAAAT
59037653 AAATTAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 19 0.59
25 12 0.38
26 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (23 bp):
ATATAATTAAATTATATGATATT
Found at i:59038080 original size:19 final size:19
Alignment explanation
Indices: 59038040--59038094 Score: 51
Period size: 19 Copynumber: 3.0 Consensus size: 19
59038030 CTTGTGTTAT
* * *
59038040 AATTAAAAGA-TATTTATT
1 AATTAAATGATTATTAATA
59038058 AATTAAATGATTATTAATA
1 AATTAAATGATTATTAATA
* *
59038077 AATTATATTATTA-TAATA
1 AATTAAATGATTATTAATA
59038095 TAAAGTAAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
18 14 0.45
19 17 0.55
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (19 bp):
AATTAAATGATTATTAATA
Found at i:59039214 original size:45 final size:46
Alignment explanation
Indices: 59039163--59039263 Score: 118
Period size: 45 Copynumber: 2.2 Consensus size: 46
59039153 GCCGACTACT
59039163 GTTACTGTTACCA-AATC-GACACTTTGTATGTCGAATACTGTTACC
1 GTTACTGTTACCAGAATCAG-CACTTTGTATGTCGAATACTGTTACC
* * * * *
59039208 GTTACTGTTA-CAGATTCAGCACTTTGTGTGTTGAATATTGTTACT
1 GTTACTGTTACCAGAATCAGCACTTTGTATGTCGAATACTGTTACC
*
59039253 ATTACTGTTAC
1 GTTACTGTTAC
59039264 TGTTACCGTT
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
44 2 0.04
45 44 0.94
46 1 0.02
ACGTcount: A:0.25, C:0.18, G:0.17, T:0.41
Consensus pattern (46 bp):
GTTACTGTTACCAGAATCAGCACTTTGTATGTCGAATACTGTTACC
Found at i:59039263 original size:6 final size:6
Alignment explanation
Indices: 59039246--59039286 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
59039236 TGTTGAATAT
* *
59039246 TGTTAC TATTAC TGTTAC TGTTAC CGTTAC TGATTAC TGTT
1 TGTTAC TGTTAC TGTTAC TGTTAC TGTTAC TG-TTAC TGTT
59039287 TAGGTACTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 24 0.80
7 6 0.20
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.49
Consensus pattern (6 bp):
TGTTAC
Found at i:59044713 original size:41 final size:41
Alignment explanation
Indices: 59044668--59044794 Score: 182
Period size: 41 Copynumber: 3.1 Consensus size: 41
59044658 ACAAATCCAA
* * ** *
59044668 ATATGATACACCGACACAAAGCCTGCTAGGCATAATGCCTG
1 ATATGGTACACCGGCATGAAGCCTGCTAGGCATAAAGCCTG
59044709 ATATGGTACACCGGCATGAAGCCTGCTAGGCATAAAGCCTG
1 ATATGGTACACCGGCATGAAGCCTGCTAGGCATAAAGCCTG
* * *
59044750 ATATGGTACACTGGCATGAAGCATGCTAGGCATAAAGCCTA
1 ATATGGTACACCGGCATGAAGCCTGCTAGGCATAAAGCCTG
59044791 ATAT
1 ATAT
59044795 AATTCACTAG
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 78 1.00
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (41 bp):
ATATGGTACACCGGCATGAAGCCTGCTAGGCATAAAGCCTG
Found at i:59047105 original size:41 final size:41
Alignment explanation
Indices: 59046990--59047129 Score: 135
Period size: 41 Copynumber: 3.4 Consensus size: 41
59046980 GATTTTTTGA
*
59046990 GCCTTTAGCGGCGTTTTTGTAA--AAGCGACGCTAATGCTC-G
1 GCCTTTAGCGGCG-TTTT-TAACTAAGCGCCGCTAATGCTCTG
* * * ** * *
59047030 GATCTTTAGCGGCGTTTCTATCTGGGCGCTGCTAATTCTCTG
1 G-CCTTTAGCGGCGTTTTTAACTAAGCGCCGCTAATGCTCTG
*
59047072 GCCTTTAGCGGCGTTTTTAACTAAGCGCCGCTAATGGT-TG
1 GCCTTTAGCGGCGTTTTTAACTAAGCGCCGCTAATGCTCTG
*
59047112 GCCTTTAGTGGCGTTTTT
1 GCCTTTAGCGGCGTTTTT
59047130 GTTTGTGCGC
Statistics
Matches: 79, Mismatches: 17, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
39 2 0.03
40 23 0.29
41 52 0.66
42 2 0.03
ACGTcount: A:0.15, C:0.22, G:0.27, T:0.36
Consensus pattern (41 bp):
GCCTTTAGCGGCGTTTTTAACTAAGCGCCGCTAATGCTCTG
Found at i:59047721 original size:15 final size:15
Alignment explanation
Indices: 59047673--59047739 Score: 56
Period size: 15 Copynumber: 4.9 Consensus size: 15
59047663 TACGTGGTAT
* *
59047673 AGATTTAAGGTTTGG
1 AGATTTAAGGGTTAG
59047688 A-ATTTAA-GGTT--
1 AGATTTAAGGGTTAG
59047699 A-ATTTAAGGGTTAG
1 AGATTTAAGGGTTAG
* *
59047713 AGGTTTAAGGGTTTG
1 AGATTTAAGGGTTAG
59047728 AGATTT-AGGGTT
1 AGATTTAAGGGTT
59047740 TCAACGGTCA
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
11 7 0.16
12 4 0.09
13 3 0.07
14 13 0.30
15 17 0.39
ACGTcount: A:0.28, C:0.00, G:0.31, T:0.40
Consensus pattern (15 bp):
AGATTTAAGGGTTAG
Found at i:59048031 original size:12 final size:10
Alignment explanation
Indices: 59048002--59048030 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
59047992 TGATTTTTTT
59048002 GATATATATG
1 GATATATATG
59048012 GATATATATG
1 GATATATATG
59048022 GATATATAT
1 GATATATAT
59048031 AGTTATTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.17, T:0.41
Consensus pattern (10 bp):
GATATATATG
Found at i:59051180 original size:43 final size:42
Alignment explanation
Indices: 59051090--59051231 Score: 124
Period size: 43 Copynumber: 3.3 Consensus size: 42
59051080 GCGTCGCTAA
* * * * * * *
59051090 CTTTAGCGGCGCTTCTCCAACAAACGCAGCTATAGATCAGGAT
1 CTTTAGCGACGCTTTTCCCACAAACGCCGCTATAG-TAAAGAC
*
59051133 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGCTAAAGAC
1 CTTTAGCGACGCTTTTCCCACAAACGCCGCTATAG-TAAAGAC
* * * ** *
59051176 CTTTAGCAACACTTTTACCACAAATACCGCTATAG-AACAAAC
1 CTTTAGCGACGCTTTTCCCACAAACGCCGCTATAGTAA-AGAC
59051218 CTTTAGCGACGCTT
1 CTTTAGCGACGCTT
59051232 CTTGCAAAAA
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
41 2 0.02
42 15 0.18
43 65 0.79
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.25
Consensus pattern (42 bp):
CTTTAGCGACGCTTTTCCCACAAACGCCGCTATAGTAAAGAC
Found at i:59057824 original size:21 final size:22
Alignment explanation
Indices: 59057791--59057831 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
59057781 TCTGAAATCC
59057791 TAAACCCCTAACCCCTAAACTT
1 TAAACCCCTAACCCCTAAACTT
* *
59057813 TAAATCCC-AACCCTTAAAC
1 TAAACCCCTAACCCCTAAAC
59057832 AATAACCCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.39, C:0.39, G:0.00, T:0.22
Consensus pattern (22 bp):
TAAACCCCTAACCCCTAAACTT
Found at i:59058278 original size:35 final size:36
Alignment explanation
Indices: 59058232--59058316 Score: 109
Period size: 35 Copynumber: 2.4 Consensus size: 36
59058222 ATCTATACCT
*
59058232 TTAAACCATAAACCGTAACCCTTAAACCCTAAA-TC
1 TTAAACCATAAACCGTAACCCATAAACCCTAAACTC
** *
59058267 TTAAACCATAAAGTGTAACCCATAACCCCTAAACTC
1 TTAAACCATAAACCGTAACCCATAAACCCTAAACTC
* *
59058303 ATAATCCATAAACC
1 TTAAACCATAAACC
59058317 TTAAAATAGT
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
35 29 0.71
36 12 0.29
ACGTcount: A:0.44, C:0.31, G:0.04, T:0.22
Consensus pattern (36 bp):
TTAAACCATAAACCGTAACCCATAAACCCTAAACTC
Found at i:59058321 original size:22 final size:24
Alignment explanation
Indices: 59058281--59058346 Score: 61
Period size: 22 Copynumber: 3.0 Consensus size: 24
59058271 ACCATAAAGT
* *
59058281 GTAAC-CCATAACCCCTAAACTCA
1 GTAACTCCATAAACCTTAAACTCA
*
59058304 -TAA-TCCATAAACCTTAAAAT-A
1 GTAACTCCATAAACCTTAAACTCA
*
59058325 GTAACTTC-TAAACCTTAAACTC
1 GTAACTCCATAAACCTTAAACTC
59058347 TAAATCATAT
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
21 1 0.03
22 31 0.91
23 2 0.06
ACGTcount: A:0.42, C:0.29, G:0.03, T:0.26
Consensus pattern (24 bp):
GTAACTCCATAAACCTTAAACTCA
Found at i:59058748 original size:41 final size:41
Alignment explanation
Indices: 59058691--59058984 Score: 473
Period size: 41 Copynumber: 7.2 Consensus size: 41
59058681 ATATTTTTGT
*
59058691 GGCGCTTCCCCAAAAACGCCGCTAAAGATCAGAGCATTAGC
1 GGCGCTTCCCCAAAAACGCCGCTAAAGACCAGAGCATTAGC
**
59058732 GGCGCTTCTTCAAAAACGCCGCTAAAGACCAGAGCATTAGC
1 GGCGCTTCCCCAAAAACGCCGCTAAAGACCAGAGCATTAGC
*
59058773 GGCGCTTTCCCAAAAACGCCGCTAAAGACCAGAGCATTAGC
1 GGCGCTTCCCCAAAAACGCCGCTAAAGACCAGAGCATTAGC
* * *
59058814 GGCGCTTCCCCAAAAACGCCGTTAAAGACCAAAGTATTAGC
1 GGCGCTTCCCCAAAAACGCCGCTAAAGACCAGAGCATTAGC
*
59058855 GGCGCTTCCCCAAAAACGCCGCTAAAGACCAGAGCATTAAC
1 GGCGCTTCCCCAAAAACGCCGCTAAAGACCAGAGCATTAGC
**
59058896 GGCGCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTAGC
1 GGCGCTTCCCCAAAAACGCCGCTAAAGACCAGAGCATTAGC
*
59058937 GGCGCTTCCCCAAAAACGCCGCTAAA-ACCCTGAGCATTAGC
1 GGCGCTTCCCCAAAAACGCCGCTAAAGA-CCAGAGCATTAGC
59058978 GGCGCTT
1 GGCGCTT
59058985 TTCTAAAAAA
Statistics
Matches: 232, Mismatches: 20, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
40 1 0.00
41 231 1.00
ACGTcount: A:0.31, C:0.32, G:0.21, T:0.16
Consensus pattern (41 bp):
GGCGCTTCCCCAAAAACGCCGCTAAAGACCAGAGCATTAGC
Found at i:59059437 original size:13 final size:13
Alignment explanation
Indices: 59059431--59059455 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59059421 ATTTTTTTGT
59059431 TATATTTTAGTTG
1 TATATTTTAGTTG
59059444 TATATTTTAGTT
1 TATATTTTAGTT
59059456 TTAATTACCA
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:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (13 bp):
TATATTTTAGTTG
Found at i:59059964 original size:21 final size:21
Alignment explanation
Indices: 59059935--59059987 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
59059925 ATCTTTGATA
* *
59059935 TATATATATTTATATACAGTTT
1 TATATATATTTAT-TAAAATTT
59059957 TA-ATATATTTATTAAAATTT
1 TATATATATTTATTAAAATTT
59059977 TATATATATTT
1 TATATATATTT
59059988 GAAAAGCTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 8 0.29
21 18 0.64
22 2 0.07
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (21 bp):
TATATATATTTATTAAAATTT
Found at i:59060077 original size:12 final size:12
Alignment explanation
Indices: 59060060--59060084 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
59060050 TACACAACAC
59060060 ATAACTTACATA
1 ATAACTTACATA
59060072 ATAACTTACATA
1 ATAACTTACATA
59060084 A
1 A
59060085 GTTATATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:59060084 original size:21 final size:21
Alignment explanation
Indices: 59060058--59060124 Score: 64
Period size: 21 Copynumber: 3.0 Consensus size: 21
59060048 CTTACACAAC
59060058 ACATAACTTACATAATAACTT
1 ACATAACTTACATAATAACTT
* *
59060079 ACATAAGTTATAT-ATAAACTTAT
1 ACATAACTTACATAAT-AAC-T-T
*
59060102 ATATAACTTACATACATAACTT
1 ACATAACTTACATA-ATAACTT
59060124 A
1 A
59060125 AACCAAAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
20 2 0.06
21 14 0.39
22 3 0.08
23 12 0.33
24 3 0.08
25 2 0.06
ACGTcount: A:0.48, C:0.15, G:0.01, T:0.36
Consensus pattern (21 bp):
ACATAACTTACATAATAACTT
Found at i:59060141 original size:48 final size:45
Alignment explanation
Indices: 59060060--59060149 Score: 110
Period size: 44 Copynumber: 1.9 Consensus size: 45
59060050 TACACAACAC
*
59060060 ATAACTTACATAATAACTTACATAAGTTATATAT-AAACTTATAT
1 ATAACTTACATAATAACTTACAAAAGTTATATATAAAACTTATAT
* *
59060104 ATAACTTACATACATAACTTAAACCAAAATTTTTATATAAAACTTA
1 ATAACTTACATA-ATAACTT--A-CAAAAGTTATATATAAAACTTA
59060150 CATACATACA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
44 12 0.32
45 7 0.18
47 1 0.03
48 11 0.29
49 7 0.18
ACGTcount: A:0.49, C:0.13, G:0.01, T:0.37
Consensus pattern (45 bp):
ATAACTTACATAATAACTTACAAAAGTTATATATAAAACTTATAT
Found at i:59060184 original size:20 final size:17
Alignment explanation
Indices: 59060142--59060228 Score: 61
Period size: 17 Copynumber: 4.9 Consensus size: 17
59060132 ATTTTTATAT
59060142 AAAACTTACATACATAC
1 AAAACTTACATACATAC
*
59060159 ATAACTTACATGCACAATAC
1 AAAACTTACAT--AC-ATAC
* *
59060179 AAAACTTAAAT-CAAAC
1 AAAACTTACATACATAC
* *
59060195 TTATAA-TAACATACATAC
1 --AAAACTTACATACATAC
*
59060213 ATAACTTACATACATA
1 AAAACTTACATACATA
59060229 ATACATAACT
Statistics
Matches: 54, Mismatches: 9, Indels: 14
0.70 0.12 0.18
Matches are distributed among these distances:
16 7 0.13
17 25 0.46
18 7 0.13
19 2 0.04
20 13 0.24
ACGTcount: A:0.52, C:0.21, G:0.01, T:0.26
Consensus pattern (17 bp):
AAAACTTACATACATAC
Found at i:59060222 original size:13 final size:13
Alignment explanation
Indices: 59060200--59060229 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
59060190 CAAACTTATA
59060200 ATAACATACATAC
1 ATAACATACATAC
*
59060213 ATAACTTACATAC
1 ATAACATACATAC
59060226 ATAA
1 ATAA
59060230 TACATAACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.27
Consensus pattern (13 bp):
ATAACATACATAC
Found at i:59060337 original size:9 final size:9
Alignment explanation
Indices: 59060319--59060643 Score: 186
Period size: 9 Copynumber: 37.8 Consensus size: 9
59060309 CTTATATTTA
*
59060319 AACTTGCAT
1 AACTTACAT
59060328 AACTTACAT
1 AACTTACAT
*
59060337 AA-TAACAT
1 AACTTACAT
59060345 AACAACTTACAT
1 ---AACTTACAT
59060357 AA--TACAT
1 AACTTACAT
* *
59060364 AGCATACAT
1 AACTTACAT
59060373 AACTTACAT
1 AACTTACAT
*
59060382 AA--TACAA
1 AACTTACAT
59060389 AACTTACAT
1 AACTTACAT
*
59060398 AACTTAAAT
1 AACTTACAT
* *
59060407 ATCTTACAC
1 AACTTACAT
59060416 AACTTACAT
1 AACTTACAT
*
59060425 AACCTACAT
1 AACTTACAT
59060434 AA--TACAT
1 AACTTACAT
59060441 AACTTACAT
1 AACTTACAT
*
59060450 AACTTACCT
1 AACTTACAT
59060459 AACTTACAT
1 AACTTACAT
*
59060468 AATACATA-AT
1 -A-ACTTACAT
59060478 AACTTAC--
1 AACTTACAT
59060485 AACTTAC--
1 AACTTACAT
59060492 AACTTACAT
1 AACTTACAT
*
59060501 AACATACAT
1 AACTTACAT
* **
59060510 TACTTTGAT
1 AACTTACAT
59060519 AACTTACAT
1 AACTTACAT
*
59060528 AAGTTACAT
1 AACTTACAT
** *
59060537 AAAATATAT
1 AACTTACAT
*
59060546 AACTGAC--
1 AACTTACAT
59060553 AACTTACAT
1 AACTTACAT
*
59060562 AACATACAT
1 AACTTACAT
* **
59060571 TACTTTGAT
1 AACTTACAT
*
59060580 AAC-TA-TT
1 AACTTACAT
**
59060587 AAAATACAT
1 AACTTACAT
*
59060596 AA--TACAC
1 AACTTACAT
59060603 AACTTACAT
1 AACTTACAT
* *
59060612 AGCTTACTT
1 AACTTACAT
59060621 AA--TACAT
1 AACTTACAT
59060628 AACTTACAT
1 AACTTACAT
*
59060637 AATTTAC
1 AACTTAC
59060644 TTAATACATA
Statistics
Matches: 240, Mismatches: 53, Indels: 46
0.71 0.16 0.14
Matches are distributed among these distances:
7 54 0.22
8 12 0.05
9 160 0.67
10 3 0.01
11 6 0.03
12 5 0.02
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.31
Consensus pattern (9 bp):
AACTTACAT
Found at i:59060379 original size:25 final size:25
Alignment explanation
Indices: 59060348--59060639 Score: 140
Period size: 25 Copynumber: 11.5 Consensus size: 25
59060338 ATAACATAAC
* *
59060348 AACTTACATAATACATAGCATACAT
1 AACTTACATAATACATAACTTACAT
*
59060373 AACTTACATAATACAAAACTTACAT
1 AACTTACATAATACATAACTTACAT
* * *
59060398 AACTTAAATATCTTACACAACTTACAT
1 AACTTACATA--ATACATAACTTACAT
*
59060425 AACCTACATAATACATAACTTACAT
1 AACTTACATAATACATAACTTACAT
* *
59060450 AACTTACCTAACTTACATAATACATA-AT
1 AACTTACATAA--TACAT-A-ACTTACAT
*
59060478 AACTTACA-ACTTAC--AACTTACAT
1 AACTTACATA-ATACATAACTTACAT
* * **
59060501 AACATACATTACTTTGATAACTTACAT
1 AACTTACA-TA-ATACATAACTTACAT
* * *
59060528 AAGTTACATAAAATATATAACTGAC--
1 AACTTACAT--AATACATAACTTACAT
* **
59060553 AACTTACATAACATACATTACTTTGAT
1 AACTTACAT-A-ATACATAACTTACAT
*
59060580 AACTATTA-A-AATACATAA--TACAC
1 AAC--TTACATAATACATAACTTACAT
* *
59060603 AACTTACATAGCTTACTTAA--TACAT
1 AACTTACATA--ATACATAACTTACAT
59060628 AACTTACATAAT
1 AACTTACATAAT
59060640 TTACTTAATA
Statistics
Matches: 205, Mismatches: 39, Indels: 48
0.70 0.13 0.16
Matches are distributed among these distances:
21 3 0.01
22 5 0.02
23 17 0.08
24 2 0.01
25 100 0.49
26 5 0.02
27 54 0.26
28 12 0.06
29 7 0.03
ACGTcount: A:0.47, C:0.20, G:0.02, T:0.32
Consensus pattern (25 bp):
AACTTACATAATACATAACTTACAT
Found at i:59060440 original size:43 final size:41
Alignment explanation
Indices: 59060368--59060478 Score: 134
Period size: 43 Copynumber: 2.6 Consensus size: 41
59060358 ATACATAGCA
* * *
59060368 TACATAACTTACATAATACAAAACTTACATAACTTAAATATCT
1 TACACAACTTACATAATACATAA--TACATAACTTAAATAACT
*
59060411 TACACAACTTACATAACCTACATAATACATAACTTACATAACT
1 TACACAACTTACATAA--TACATAATACATAACTTAAATAACT
59060454 TAC-CTAACTTACATAATACATAATA
1 TACAC-AACTTACATAATACATAATA
59060479 ACTTACAACT
Statistics
Matches: 61, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
41 9 0.15
42 1 0.02
43 45 0.74
45 6 0.10
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.31
Consensus pattern (41 bp):
TACACAACTTACATAATACATAATACATAACTTAAATAACT
Found at i:59060447 original size:34 final size:34
Alignment explanation
Indices: 59060319--59060570 Score: 154
Period size: 34 Copynumber: 7.5 Consensus size: 34
59060309 CTTATATTTA
* *
59060319 AACTTGCATAACTTAC---ATA-ATAACATA-AC
1 AACTTACATAACTTACATAATACATAACTTACAC
*
59060348 AACTTACATAA--TACATAGCATACATAACTTACAT
1 AACTTACATAACTTACATA--ATACATAACTTACAC
* * *
59060382 AA--TACAAAACTTACATAACTTAAATATCTTACAC
1 AACTTACATAACTTACATAA--TACATAACTTACAC
* *
59060416 AACTTACATAACCTACATAATACATAACTTACAT
1 AACTTACATAACTTACATAATACATAACTTACAC
* *
59060450 AACTTACCTAACTTACATAATACATAA-TAACTTAC
1 AACTTACATAACTTACATAATACATAACTTAC--AC
* ** *
59060485 AACTTAC--AACTTACATAACATACATTACTTTGAT
1 AACTTACATAACTTACAT-A-ATACATAACTTACAC
* * *
59060519 AACTTACATAAGTTACATAAAATATATAAC-T-GAC
1 AACTTACATAACTTACAT--AATACATAACTTACAC
*
59060553 AACTTACATAACATACAT
1 AACTTACATAACTTACAT
59060571 TACTTTGATA
Statistics
Matches: 175, Mismatches: 27, Indels: 37
0.73 0.11 0.15
Matches are distributed among these distances:
27 3 0.02
29 10 0.06
32 10 0.06
33 19 0.11
34 85 0.49
35 16 0.09
36 30 0.17
37 2 0.01
ACGTcount: A:0.47, C:0.21, G:0.02, T:0.30
Consensus pattern (34 bp):
AACTTACATAACTTACATAATACATAACTTACAC
Found at i:59060465 original size:52 final size:52
Alignment explanation
Indices: 59060368--59060466 Score: 153
Period size: 52 Copynumber: 1.9 Consensus size: 52
59060358 ATACATAGCA
* *
59060368 TACATAACTTACATAATACAAAACTTACATAACTTAAATATCTTACACAACT
1 TACATAACCTACATAATACAAAACTTACATAACTTAAATAACTTACACAACT
* **
59060420 TACATAACCTACATAATACATAACTTACATAACTTACCTAACTTACA
1 TACATAACCTACATAATACAAAACTTACATAACTTAAATAACTTACA
59060467 TAATACATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 42 1.00
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.30
Consensus pattern (52 bp):
TACATAACCTACATAATACAAAACTTACATAACTTAAATAACTTACACAACT
Found at i:59060567 original size:61 final size:60
Alignment explanation
Indices: 59060458--59060599 Score: 193
Period size: 61 Copynumber: 2.4 Consensus size: 60
59060448 ATAACTTACC
*
59060458 TAACTTACATAATACATAATAACTTACAACTTACAACTTACATAACATACATTACTTTGA
1 TAACTTACATAATACATAATAACTTACAACTGACAACTTACATAACATACATTACTTTGA
*
59060518 TAACTTACATAAGTTACATAA-AA-TATATAACTGACAACTTACATAACATACATTACTTTGA
1 TAACTTACATAA--TACATAATAACT-TACAACTGACAACTTACATAACATACATTACTTTGA
59060579 TAACTATTA-A-AATACATAATA
1 TAAC--TTACATAATACATAATA
59060600 CACAACTTAC
Statistics
Matches: 74, Mismatches: 2, Indels: 12
0.84 0.02 0.14
Matches are distributed among these distances:
59 7 0.09
60 14 0.19
61 42 0.57
62 8 0.11
63 3 0.04
ACGTcount: A:0.47, C:0.17, G:0.03, T:0.33
Consensus pattern (60 bp):
TAACTTACATAATACATAATAACTTACAACTGACAACTTACATAACATACATTACTTTGA
Found at i:59060643 original size:25 final size:25
Alignment explanation
Indices: 59060595--59060654 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
59060585 TTAAAATACA
* *
59060595 TAATACACAACTTACATAGCTTACT
1 TAATACATAACTTACATAACTTACT
*
59060620 TAATACATAACTTACATAATTTACT
1 TAATACATAACTTACATAACTTACT
59060645 TAATACATAA
1 TAATACATAA
59060655 ATTATGTAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.45, C:0.18, G:0.02, T:0.35
Consensus pattern (25 bp):
TAATACATAACTTACATAACTTACT
Found at i:59066184 original size:12 final size:12
Alignment explanation
Indices: 59066169--59066199 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
59066159 GGCAGTGAGG
59066169 GAAGCAGCGAGA
1 GAAGCAGCGAGA
*
59066181 GAAGCAGCGATA
1 GAAGCAGCGAGA
59066193 GAAGCAG
1 GAAGCAG
59066200 AGGTTCAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.42, C:0.16, G:0.39, T:0.03
Consensus pattern (12 bp):
GAAGCAGCGAGA
Found at i:59066726 original size:85 final size:84
Alignment explanation
Indices: 59066634--59066861 Score: 275
Period size: 85 Copynumber: 2.7 Consensus size: 84
59066624 GTTTGTGAAA
* *
59066634 TAAGCGCCGCTAAAGAACACTA-CTTTTAGCGGCGTTTTTGACC-AAGCGCCGCTACAGAACATT
1 TAAGCGCCGCTAAAGAACA-TATC-TTTAGCGGCGTTTTT-ACCTAAGCGCCGCTAAAGAACATG
59066697 A-CTTTTAGCGGCGTTCTATTT-C
63 ATC-TTTAGCGGCGTT-TATTTCC
* * *
59066719 TAAGCGCCGCTAAAGAATAGGATCTTTAGCGGCGTTTTTTCCTAAGCGCCGCTAAAGAACATGAT
1 TAAGCGCCGCTAAAGAACA-TATCTTTAGCGGCGTTTTTACCTAAGCGCCGCTAAAGAACATGAT
59066784 CTTTAGCGGCGTTTATTTCC
65 CTTTAGCGGCGTTTATTTCC
* * * *
59066804 TTAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCTGTAAGCGCCGCAAAAG
1 TAAGCGCCGCTAAAGAACAT-ATCTTTAGCGGCGTTTTTAC-CTAAGCGCCGCTAAAG
59066862 TTAGCGACGT
Statistics
Matches: 126, Mismatches: 11, Indels: 11
0.85 0.07 0.07
Matches are distributed among these distances:
84 7 0.06
85 103 0.82
86 16 0.13
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (84 bp):
TAAGCGCCGCTAAAGAACATATCTTTAGCGGCGTTTTTACCTAAGCGCCGCTAAAGAACATGATC
TTTAGCGGCGTTTATTTCC
Found at i:59066853 original size:43 final size:41
Alignment explanation
Indices: 59066634--59066861 Score: 264
Period size: 43 Copynumber: 5.4 Consensus size: 41
59066624 GTTTGTGAAA
*
59066634 TAAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCGTTTTTGAC
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTT-TC
* * *
59066676 CAAGCGCCGCTACAGAACATTA-CTTTTAGCGGCGTTCTATTTC
1 TAAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTT-T-TTTC
* *
59066719 TAAGCGCCGCTAAAGAATAGGATCTTTAGCGGCGTTTTTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT-C
59066761 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TTT-C
*
59066804 TTAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTC
*
59066845 TGTAAGCGCCGCAAAAG
1 --TAAGCGCCGCTAAAG
59066862 TTAGCGACGT
Statistics
Matches: 165, Mismatches: 13, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
41 5 0.03
42 72 0.44
43 85 0.52
44 3 0.02
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (41 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTC
Found at i:59069036 original size:158 final size:157
Alignment explanation
Indices: 59068748--59069060 Score: 608
Period size: 158 Copynumber: 2.0 Consensus size: 157
59068738 TTCCTATGGA
59068748 TGGCGTCACTGTTAATGAAGACTGGAGAGTAGTTTGGGAGAATGATTTACCACCGAGAATTAAAC
1 TGGCGTCACTGTTAATGAAGACTGGAGAGTAGTTTGGGAGAATGATTTACCACCGAGAATTAAAC
59068813 ATTTCATGTGATTGGTAATGCATCGGAAATGTCAAACGAACGAAGAAAGAGCTAGGAGGAATTTA
66 ATTTCATGTGATTGGTAATGCATCGGAAATGTCAAACGAACGAAGAAAGAGCTAGGAGGAATTT-
59068878 AAAAATGATGCCGGATGTGCACTGTGAG
130 AAAAATGATGCCGGATGTGCACTGTGAG
*
59068906 TGGCGTCACTGTTAATGAAGACTGGAGAGTAGTTTGGGAGAATGATTTACCACCGAGACTTAAAC
1 TGGCGTCACTGTTAATGAAGACTGGAGAGTAGTTTGGGAGAATGATTTACCACCGAGAATTAAAC
59068971 ATTTCATGTGATTGGTAATGCATCGGAAATGTCAAACGAACGAAGAAAGAGCTAGGAGGAATTTA
66 ATTTCATGTGATTGGTAATGCATCGGAAATGTCAAACGAACGAAGAAAGAGCTAGGAGGAATTTA
59069036 AAAATGATGCCGGATGTGCACTGTG
131 AAAATGATGCCGGATGTGCACTGTG
59069061 TGAGGCGACA
Statistics
Matches: 154, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
157 26 0.17
158 128 0.83
ACGTcount: A:0.34, C:0.13, G:0.28, T:0.25
Consensus pattern (157 bp):
TGGCGTCACTGTTAATGAAGACTGGAGAGTAGTTTGGGAGAATGATTTACCACCGAGAATTAAAC
ATTTCATGTGATTGGTAATGCATCGGAAATGTCAAACGAACGAAGAAAGAGCTAGGAGGAATTTA
AAAATGATGCCGGATGTGCACTGTGAG
Found at i:59070424 original size:24 final size:24
Alignment explanation
Indices: 59070380--59070426 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
59070370 TTTATACTTT
* *
59070380 AAAATATATTTTTAAGGTTAAATA
1 AAAATATATTTTCAAGATTAAATA
59070404 AAAATATATTATTCAA-ATTAAAT
1 AAAATATATT-TTCAAGATTAAAT
59070427 TTTCTATGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.40
Consensus pattern (24 bp):
AAAATATATTTTCAAGATTAAATA
Found at i:59072131 original size:18 final size:20
Alignment explanation
Indices: 59072105--59072142 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
59072095 TTTTCTATTA
59072105 TTTATTTCT-TTTTAATTTT
1 TTTATTTCTCTTTTAATTTT
*
59072124 TTTA-TTCTCTTTTACTTTT
1 TTTATTTCTCTTTTAATTTT
59072143 CTAGTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.13, C:0.11, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTATTTCTCTTTTAATTTT
Found at i:59072779 original size:13 final size:13
Alignment explanation
Indices: 59072761--59072795 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
59072751 ACCAAACGTT
59072761 TCAAAAGCACTTC
1 TCAAAAGCACTTC
* *
59072774 TCAAAAGTACTTT
1 TCAAAAGCACTTC
59072787 TCAAAAGCA
1 TCAAAAGCA
59072796 TTGTCAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.43, C:0.23, G:0.09, T:0.26
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:59073773 original size:18 final size:20
Alignment explanation
Indices: 59073747--59073784 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
59073737 TTTTCTATTA
59073747 TTTATTTCT-TTTTAATTTT
1 TTTATTTCTCTTTTAATTTT
*
59073766 TTTA-TTCTCTTTTACTTTT
1 TTTATTTCTCTTTTAATTTT
59073785 AAAATATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.13, C:0.11, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTATTTCTCTTTTAATTTT
Found at i:59074872 original size:19 final size:22
Alignment explanation
Indices: 59074848--59074913 Score: 75
Period size: 24 Copynumber: 3.0 Consensus size: 22
59074838 TATTTAATCT
59074848 TTTTATTT-C-TTTA-TTTTCC
1 TTTTATTTCCATTTATTTTTCC
59074867 TTTTATTCTTCCATTTATTTTTCC
1 TTTTA-T-TTCCATTTATTTTTCC
59074891 TTTTATTCTTCCATTTATTTTTC
1 TTTTA-T-TTCCATTTATTTTTC
59074914 TCTCTTCTCA
Statistics
Matches: 42, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.12
20 1 0.02
21 2 0.05
22 1 0.02
23 4 0.10
24 29 0.69
ACGTcount: A:0.12, C:0.18, G:0.00, T:0.70
Consensus pattern (22 bp):
TTTTATTTCCATTTATTTTTCC
Found at i:59074883 original size:12 final size:12
Alignment explanation
Indices: 59074857--59074909 Score: 72
Period size: 12 Copynumber: 4.5 Consensus size: 12
59074847 TTTTTATTTC
*
59074857 TTTATT-TTCCT
1 TTTATTCTTCCA
59074868 TTTATTCTTCCA
1 TTTATTCTTCCA
* *
59074880 TTTATTTTTCCT
1 TTTATTCTTCCA
59074892 TTTATTCTTCCA
1 TTTATTCTTCCA
59074904 TTTATT
1 TTTATT
59074910 TTTCTCTCTT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
11 6 0.17
12 30 0.83
ACGTcount: A:0.13, C:0.19, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTATTCTTCCA
Found at i:59074892 original size:24 final size:24
Alignment explanation
Indices: 59074857--59074913 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
59074847 TTTTTATTTC
59074857 TTTA-TTTTCCTTTTATTCTTCCA
1 TTTATTTTTCCTTTTATTCTTCCA
59074880 TTTATTTTTCCTTTTATTCTTCCA
1 TTTATTTTTCCTTTTATTCTTCCA
59074904 TTTATTTTTC
1 TTTATTTTTC
59074914 TCTCTTCTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 4 0.12
24 29 0.88
ACGTcount: A:0.12, C:0.19, G:0.00, T:0.68
Consensus pattern (24 bp):
TTTATTTTTCCTTTTATTCTTCCA
Found at i:59075639 original size:17 final size:16
Alignment explanation
Indices: 59075596--59075638 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
59075586 AAAGGGAAGA
59075596 AAAAGAAAAAGAAAAG
1 AAAAGAAAAAGAAAAG
* * *
59075612 AAAAGTTAAAAGAACAT
1 AAAAG-AAAAAGAAAAG
59075629 AAAAGAAAAA
1 AAAAGAAAAA
59075639 AATTAAATTA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.77, C:0.02, G:0.14, T:0.07
Consensus pattern (16 bp):
AAAAGAAAAAGAAAAG
Found at i:59089827 original size:8 final size:8
Alignment explanation
Indices: 59089814--59089843 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
59089804 GTAATTTGTT
59089814 AAAAAAGA
1 AAAAAAGA
59089822 AAAAAAGA
1 AAAAAAGA
59089830 AAAAAAGA
1 AAAAAAGA
59089838 AAAAAA
1 AAAAAA
59089844 AATTTTGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (8 bp):
AAAAAAGA
Found at i:59091565 original size:5 final size:5
Alignment explanation
Indices: 59091557--59091585 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
59091547 TTAAATAGTA
59091557 TTAAT TTAAT TTAAT TTAAT TTAAT TTAA
1 TTAAT TTAAT TTAAT TTAAT TTAAT TTAA
59091586 ATCGATTGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TTAAT
Done.