Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 758 of 770
Found at i:240337423 original size:27 final size:27
Alignment explanation
Indices: 240337343--240337424 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
240337333 AAATTTGTAC
* *
240337343 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
240337371 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
240337398 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
240337425 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:240345186 original size:27 final size:28
Alignment explanation
Indices: 240345130--240345199 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
240345120 AAATTTGTAC
240345130 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
240345158 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
240345185 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
240345200 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:240345210 original size:27 final size:27
Alignment explanation
Indices: 240345130--240345211 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
240345120 AAATTTGTAC
* *
240345130 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
240345158 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
240345185 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
240345212 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:240348382 original size:38 final size:40
Alignment explanation
Indices: 240348316--240348461 Score: 120
Period size: 40 Copynumber: 3.7 Consensus size: 40
240348306 TATGGTAACC
* * * * ** *
240348316 CGCAC-AAGGCCTACGGGACTTAACCCGGATATCACGATT
1 CGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACGACT
* *
240348355 TGCACAAATG-CTTC-GGTCTTAGCCCGGATAGAATGACT
1 CGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACGACT
* * *
240348393 CGCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTAGCCACT
1 CGCACAAATGCCTTCGGGTCTTAGCCCGGATAG-AACGACT
* * *
240348433 AGCACAATTGCCTTCGGGTCTTAACCCGG
1 CGCACAAATGCCTTCGGGTCTTAGCCCGG
240348462 TTATAATTTC
Statistics
Matches: 85, Mismatches: 18, Indels: 7
0.77 0.16 0.06
Matches are distributed among these distances:
38 26 0.31
39 12 0.14
40 47 0.55
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.23
Consensus pattern (40 bp):
CGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACGACT
Found at i:240356502 original size:80 final size:80
Alignment explanation
Indices: 240356418--240356566 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
240356408 TATGGTAACC
* * * *
240356418 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
240356482 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
240356498 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
240356563 CCGG
66 CCGG
240356567 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:240356508 original size:40 final size:38
Alignment explanation
Indices: 240356459--240356566 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
240356449 ATCACGATTT
*
240356459 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
240356499 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
240356539 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
240356567 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:240358279 original size:17 final size:17
Alignment explanation
Indices: 240358257--240358292 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
240358247 CACCTTCCGA
240358257 CTAGGGTCAATTTTGGG
1 CTAGGGTCAATTTTGGG
240358274 CTAGGGTCAATTTTGGG
1 CTAGGGTCAATTTTGGG
240358291 CT
1 CT
240358293 GTCACATATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.17, C:0.14, G:0.33, T:0.36
Consensus pattern (17 bp):
CTAGGGTCAATTTTGGG
Found at i:240358334 original size:19 final size:19
Alignment explanation
Indices: 240358294--240358331 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
240358284 TTTTGGGCTG
240358294 TCACATATCCAAATATACT
1 TCACATATCCAAATATACT
*
240358313 TCACATA-CCACATATACT
1 TCACATATCCAAATATACT
240358331 T
1 T
240358332 TCATGTATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.39, C:0.29, G:0.00, T:0.32
Consensus pattern (19 bp):
TCACATATCCAAATATACT
Found at i:240363659 original size:40 final size:40
Alignment explanation
Indices: 240363614--240363780 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
240363604 CGGAATATAA
240363614 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
240363654 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
240363694 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
240363734 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
240363773 CCGGATAT
1 CCGGATAT
240363781 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
39 14 0.14
40 89 0.86
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:240363764 original size:80 final size:79
Alignment explanation
Indices: 240363630--240363778 Score: 203
Period size: 80 Copynumber: 1.9 Consensus size: 79
240363620 ATAATCACGT
*
240363630 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-CTTAGCC
240363695 CGGATGTAGCCACTA
65 CGGATGTAGCCACTA
* * * * *
240363710 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGCTTAGC
240363773 CCGGAT
64 CCGGAT
240363779 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
79 15 0.25
80 46 0.75
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGCTTAGCCC
GGATGTAGCCACTA
Found at i:240371585 original size:40 final size:40
Alignment explanation
Indices: 240371540--240371707 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
240371530 CGGAATATAA
240371540 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
240371580 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
240371620 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
240371660 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
240371700 CCGGATAT
1 CCGGATAT
240371708 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 1 0.01
40 101 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:240371690 original size:80 final size:80
Alignment explanation
Indices: 240371556--240371705 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
240371546 ATAATCACGT
*
240371556 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
240371620 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
240371636 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
240371699 CCCGGAT
64 CCCGGAT
240371706 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:240375083 original size:40 final size:40
Alignment explanation
Indices: 240375028--240375205 Score: 240
Period size: 40 Copynumber: 4.5 Consensus size: 40
240375018 CGGATGGTAA
*
240375028 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-T
240375068 CCGGGCTAAGTCCCGAAGGCATTTGTGCTG-GTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACTATA-T
* *
240375108 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
*
240375148 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT-AGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGA-CTATAT
*
240375188 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
240375206 TACTTGGTTT
Statistics
Matches: 128, Mismatches: 6, Indels: 9
0.90 0.04 0.06
Matches are distributed among these distances:
39 17 0.13
40 110 0.86
41 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
Found at i:240378083 original size:25 final size:23
Alignment explanation
Indices: 240378043--240378090 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 23
240378033 TGCATTATGG
240378043 AAGGAAAATAAAGAAATGAAAAAAA
1 AAGGAAAATAAAGAAA--AAAAAAA
* *
240378068 AAGGAAAATGATGAAAAAAAAAA
1 AAGGAAAATAAAGAAAAAAAAAA
240378091 GTGTGGATGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 7 0.33
25 14 0.67
ACGTcount: A:0.75, C:0.00, G:0.17, T:0.08
Consensus pattern (23 bp):
AAGGAAAATAAAGAAAAAAAAAA
Found at i:240379410 original size:29 final size:29
Alignment explanation
Indices: 240379377--240379536 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
240379367 GTGACGAGAT
240379377 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
240379406 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
240379435 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
240379464 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
240379493 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
240379522 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
240379537 GAAATCGAGT
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:240387491 original size:29 final size:29
Alignment explanation
Indices: 240387458--240387617 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
240387448 GTGACGAGAT
240387458 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
240387487 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
240387516 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
240387545 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
240387574 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
240387603 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
240387618 GAAATCGAGT
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:240394861 original size:51 final size:51
Alignment explanation
Indices: 240394785--240394898 Score: 201
Period size: 51 Copynumber: 2.2 Consensus size: 51
240394775 AGTGACAAGC
* *
240394785 GACAAGCGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGT
1 GACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGT
*
240394836 GACAAGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGT
1 GACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGT
240394887 GACAAGTGATAA
1 GACAAGTGATAA
240394899 ATGTGATCAG
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (51 bp):
GACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGT
Found at i:240402584 original size:54 final size:51
Alignment explanation
Indices: 240402516--240402640 Score: 151
Period size: 54 Copynumber: 2.4 Consensus size: 51
240402506 TGGTAGCCTC
*
240402516 AGCTACACTTATCTGATCAGCGATAAGCGACAAGCGACAAGTGATAAGTGCTTT
1 AGCTACACTTATCTGATCAGCGACAAGCGACAAGCGACAAGTGAT-AGT--TTT
** * * * * *
240402570 AGCTACACTTATCTGATCAATGACAAGTGATAAGTGATAAGTGGTAGTTTT
1 AGCTACACTTATCTGATCAGCGACAAGCGACAAGCGACAAGTGATAGTTTT
240402621 AGCTACACTTATCTGATCAG
1 AGCTACACTTATCTGATCAG
240402641 TAACAAGTGA
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
51 22 0.35
53 3 0.05
54 37 0.60
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.29
Consensus pattern (51 bp):
AGCTACACTTATCTGATCAGCGACAAGCGACAAGCGACAAGTGATAGTTTT
Found at i:240402653 original size:51 final size:51
Alignment explanation
Indices: 240402490--240402650 Score: 187
Period size: 51 Copynumber: 3.1 Consensus size: 51
240402480 ACTTCTGATC
** * * *
240402490 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGCGATA
1 AGTGACAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
* * * * *
240402541 AGCGACAAGCGACAAGTGATAAGTGCTTTAGCTACACTTATCTGATCAATGACA
1 AGTGACAAGTGATAAGTGGT-AGT--TTTAGCTACACTTATCTGATCAGTGACA
* *
240402595 AGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTAACA
1 AGTGACAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
240402646 AGTGA
1 AGTGA
240402651 TAAATGTGAT
Statistics
Matches: 90, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
51 47 0.52
52 2 0.02
53 3 0.03
54 38 0.42
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
Found at i:240403576 original size:15 final size:16
Alignment explanation
Indices: 240403532--240403578 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 16
240403522 GGGGTGTTAC
240403532 AAATAATAAATATTTATT
1 AAATAATAAATA--TATT
*
240403550 ACAATTATAAATATATT
1 A-AATAATAAATATATT
240403567 -AATAATAAATAT
1 AAATAATAAATAT
240403579 TTTGTAGTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 11 0.42
17 4 0.15
18 1 0.04
19 10 0.38
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (16 bp):
AAATAATAAATATATT
Found at i:240405663 original size:29 final size:31
Alignment explanation
Indices: 240405609--240405667 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 31
240405599 TTTTTTTTAA
*
240405609 ATCTTAACAATAATTATAAGAAATTAAAATC
1 ATCTTAACAATAAATATAAGAAATTAAAATC
240405640 ATCTTAA-AA-AAATATAA-AATATTAAAAT
1 ATCTTAACAATAAATATAAGAA-ATTAAAAT
240405668 ATTATATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 2 0.08
29 15 0.58
30 2 0.08
31 7 0.27
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.32
Consensus pattern (31 bp):
ATCTTAACAATAAATATAAGAAATTAAAATC
Found at i:240405665 original size:8 final size:8
Alignment explanation
Indices: 240405648--240405725 Score: 55
Period size: 8 Copynumber: 10.5 Consensus size: 8
240405638 TCATCTTAAA
240405648 AAAATA-T
1 AAAATATT
240405655 AAAATATT
1 AAAATATT
240405663 AAAATATT
1 AAAATATT
240405671 ---ATATT
1 AAAATATT
240405676 AAAAT-TT
1 AAAATATT
*
240405683 AAAAAATT
1 AAAATATT
240405691 CAAAA-A-T
1 -AAAATATT
*
240405698 AAAA-ATA
1 AAAATATT
240405705 AAAATTATT
1 AAAA-TATT
*
240405714 AAATTATT
1 AAAATATT
240405722 AAAA
1 AAAA
240405726 ATTTATATAA
Statistics
Matches: 57, Mismatches: 5, Indels: 17
0.72 0.06 0.22
Matches are distributed among these distances:
5 5 0.09
6 5 0.09
7 17 0.30
8 21 0.37
9 9 0.16
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.33
Consensus pattern (8 bp):
AAAATATT
Found at i:240412531 original size:40 final size:40
Alignment explanation
Indices: 240412486--240412673 Score: 270
Period size: 40 Copynumber: 4.7 Consensus size: 40
240412476 ATAACCACAA
* *
240412486 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
240412526 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
*
240412566 GCACAAATGCCTTCGGGTCTTAACCCAGATATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
240412606 GCACAAATGCCTTCGGGTCTTAACCCGGATATAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAT-AGCAACTC
* * *
240412646 GCATAAATGCCTTCGGGACTTAGCCCGG
1 GCACAAATGCCTTCGGGTCTTAACCCGG
240412674 GTATCATTCA
Statistics
Matches: 134, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
40 132 0.99
41 2 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
Found at i:240412589 original size:80 final size:79
Alignment explanation
Indices: 240412466--240412677 Score: 309
Period size: 80 Copynumber: 2.7 Consensus size: 79
240412456 TCTTCGGAAT
* *
240412466 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
240412530 AAATGCCTTCGGGTC
65 AAATGCCTTCGGGTC
* * *
240412545 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAACCCAGATATAGCAACTCGCAC
1 TTAGCCCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
240412610 AAATGCCTTCGGGTC
65 AAATGCCTTCGGGTC
* * * *
240412625 TTAACCCGGATATAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGGTAT
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTAT
240412678 CATTCAATTG
Statistics
Matches: 118, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
79 5 0.04
80 112 0.95
81 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (79 bp):
TTAGCCCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACA
AATGCCTTCGGGTC
Found at i:240419329 original size:40 final size:39
Alignment explanation
Indices: 240419201--240419406 Score: 250
Period size: 41 Copynumber: 5.1 Consensus size: 39
240419191 CGGAATTTAG
** *
240419201 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAAC
1 CCGGATATAA-CACTCGCACAAATGCCTTCGGGTCTT-AAC
* * *
240419242 CCGGGTATAGCAACTCGCCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAAC-ACTCG-CACAAATGCCTTCGGGTCTTAAC
240419283 CCGGATATAACACTCGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATATAACACTCGCACAAATGCCTTCGGGTCTTAAC
*
240419322 CCAGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAAC
1 CC-GGATATAAC-ACTCGCACAAATGCCTTCGGGTCTTAAC
* * * *
240419363 CCGGATATAATCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CACTCGCACAAATGCCTTCGGGTCTTAAC
240419403 CCGG
1 CCGG
240419407 GTATCATTCA
Statistics
Matches: 145, Mismatches: 15, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
39 24 0.17
40 49 0.34
41 53 0.37
42 19 0.13
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (39 bp):
CCGGATATAACACTCGCACAAATGCCTTCGGGTCTTAAC
Found at i:240419332 original size:81 final size:80
Alignment explanation
Indices: 240419197--240419406 Score: 298
Period size: 81 Copynumber: 2.6 Consensus size: 80
240419187 TCTTCGGAAT
* * *
240419197 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAACCCGGGTATAGCAACTCGCC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTCTT-AACCCGGATATAGCAACTCG-C
240419261 ACAAATGCCTTCGGGTC
64 ACAAATGCCTTCGGGTC
*
240419278 TTAGCCCGGATATAA-CACTCGCACAAATGCCTTCGGGTCTTAACCCAGGATATAGCAACTCGCA
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAACCC-GGATATAGCAACTCGCA
240419342 CAAATGCCTTCGGGTC
65 CAAATGCCTTCGGGTC
* * * * *
240419358 TTAACCCGGATATAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGG
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAACCCGG
240419407 GTATCATTCA
Statistics
Matches: 117, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
80 39 0.33
81 68 0.58
82 10 0.09
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (80 bp):
TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCAC
AAATGCCTTCGGGTC
Found at i:240419351 original size:41 final size:39
Alignment explanation
Indices: 240419217--240419406 Score: 245
Period size: 40 Copynumber: 4.7 Consensus size: 39
240419207 ATAACCACAA
* *
240419217 GCACAATTGCCTTCGGGTCTTAAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTT-AACCCGGATATAGC-ACTC
* *
240419258 GCCACAAATGCCTTCGGGTCTTAGCCCGGATATAACACTC
1 G-CACAAATGCCTTCGGGTCTTAACCCGGATATAGCACTC
240419298 GCACAAATGCCTTCGGGTCTTAACCCAGGATATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCC-GGATATAGC-ACTC
* *
240419339 GCACAAATGCCTTCGGGTCTTAACCCGGATATAATCACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAT-AGCACTC
* * *
240419379 GCATAAATGCCTTCGGGACTTAGCCCGG
1 GCACAAATGCCTTCGGGTCTTAACCCGG
240419407 GTATCATTCA
Statistics
Matches: 134, Mismatches: 11, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
39 24 0.18
40 47 0.35
41 44 0.33
42 19 0.14
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.23
Consensus pattern (39 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCACTC
Found at i:240419684 original size:17 final size:17
Alignment explanation
Indices: 240419662--240419699 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
240419652 ACGTGGTGAG
240419662 CGATTTCGACGGCTATT
1 CGATTTCGACGGCTATT
240419679 CGATTTCGACGGCTATT
1 CGATTTCGACGGCTATT
240419696 CGAT
1 CGAT
240419700 CACTTTTTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.34
Consensus pattern (17 bp):
CGATTTCGACGGCTATT
Found at i:240424449 original size:43 final size:41
Alignment explanation
Indices: 240424398--240424520 Score: 115
Period size: 43 Copynumber: 2.9 Consensus size: 41
240424388 CGAAAAGCTC
240424398 ATACAATGCCAATGTCCCAAATGTGGTCTTACATGTAATAAA
1 ATACAATGCCAATGTCCCAAA-GTGGTCTTACATGTAATAAA
* * *
240424440 ATATCAATGCCACTGTCCCATACAG-GGTCTTACATGAAATCAA
1 ATA-CAATGCCAATGTCCCA-A-AGTGGTCTTACATGTAATAAA
* * * *
240424483 ATACGATGTCGATGTCCCAGACA-TGGTCATACATGTAA
1 ATACAATGCCAATGTCCCA-A-AGTGGTCTTACATGTAA
240424521 ATCATAAGTC
Statistics
Matches: 67, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
42 30 0.45
43 34 0.51
44 2 0.03
45 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (41 bp):
ATACAATGCCAATGTCCCAAAGTGGTCTTACATGTAATAAA
Found at i:240424571 original size:44 final size:44
Alignment explanation
Indices: 240424403--240424611 Score: 155
Period size: 44 Copynumber: 4.8 Consensus size: 44
240424393 AGCTCATACA
* * * * * *
240424403 ATGCCAATGTCCCAAATGTGGTCTTACATGT-AAT-AAAATATCA
1 ATGCCAACGTCCCAAACGTGGTCTTACACGTAAATCATAA-GTCG
* *
240424446 ATGCC-ACTGTCCCATACAG-GGTCTTACATG-AAATCA-AA-TACG
1 ATGCCAAC-GTCCCAAAC-GTGGTCTTACACGTAAATCATAAGT-CG
* * * * * * *
240424488 ATGTCGATGTCCCAGACATGGTCATACATGTAAATCATAAGTCG
1 ATGCCAACGTCCCAAACGTGGTCTTACACGTAAATCATAAGTCG
* * * *
240424532 ATGCCAACGTCCTAGACGTTGTCTTACACGTATATCATAAGTCG
1 ATGCCAACGTCCCAAACGTGGTCTTACACGTAAATCATAAGTCG
240424576 ATGCCAACGTCCCAAACGTGGTCTTACACG-AAATCA
1 ATGCCAACGTCCCAAACGTGGTCTTACACGTAAATCA
240424612 CATATCAAAA
Statistics
Matches: 134, Mismatches: 22, Indels: 20
0.76 0.12 0.11
Matches are distributed among these distances:
41 1 0.01
42 24 0.18
43 40 0.30
44 68 0.51
45 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (44 bp):
ATGCCAACGTCCCAAACGTGGTCTTACACGTAAATCATAAGTCG
Found at i:240424916 original size:15 final size:17
Alignment explanation
Indices: 240424895--240424934 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 17
240424885 GATCTAAACG
*
240424895 CATTCAAATTTGAC-TT
1 CATTCAAATTTCACATT
240424911 -ATTC-AATTTCACATT
1 CATTCAAATTTCACATT
240424926 CATTCAAAT
1 CATTCAAAT
240424935 CAATCCATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 5
0.77 0.04 0.19
Matches are distributed among these distances:
14 7 0.35
15 6 0.30
16 4 0.20
17 3 0.15
ACGTcount: A:0.35, C:0.20, G:0.03, T:0.42
Consensus pattern (17 bp):
CATTCAAATTTCACATT
Found at i:240429032 original size:39 final size:39
Alignment explanation
Indices: 240428987--240429169 Score: 235
Period size: 39 Copynumber: 4.7 Consensus size: 39
240428977 TGTGCAATTG
*
240428987 TGATATCCGGGCTAAACCCGAAGGCAAATGTGCGAACTA
1 TGATATCCGGGCTAAGCCCGAAGGCAAATGTGCGAACTA
* * *
240429026 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGTG-ACTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAAATGTGCGAAC-TA
*
240429065 TGATATCCGGGCTAAGCCCGAAGGC-AATGGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAAAT-GTGCGAACTA
* ** *
240429104 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAAATGTGCGAACTA
*
240429143 TGATATCCGGGTTAAGTCCCGAAGGCA
1 TGATATCCGGGCTAAG-CCCGAAGGCA
240429170 TTTGTGCGGG
Statistics
Matches: 127, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
38 4 0.03
39 110 0.87
40 13 0.10
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.21
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAAATGTGCGAACTA
Found at i:240429085 original size:78 final size:79
Alignment explanation
Indices: 240428984--240429169 Score: 304
Period size: 78 Copynumber: 2.4 Consensus size: 79
240428974 GAATGTGCAA
*
240428984 TTGTGATATCCGGGCTAAACCCGAAGGCAAAT-GTGCGAACTATGATATCCGGGCTAAGCCCGAA
1 TTGTGATATCCGGGCTAAGCCCGAAGGCAAATGGTGCGAACTATGATATCCGGGCTAAGCCCGAA
*
240429048 GGCAATTGTGTGAC
66 GGCAATTGTGCGAC
*
240429062 TTGTGATATCCGGGCTAAGCCCGAAGGC-AATGGTGCGAGCTATGATATCCGGGCTAAGCCCGAA
1 TTGTGATATCCGGGCTAAGCCCGAAGGCAAATGGTGCGAACTATGATATCCGGGCTAAGCCCGAA
*
240429126 GGCAATTGTGCGAG
66 GGCAATTGTGCGAC
*
240429140 TTGTGATATCCGGGTTAAGTCCCGAAGGCA
1 TTGTGATATCCGGGCTAAG-CCCGAAGGCA
240429170 TTTGTGCGGG
Statistics
Matches: 100, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
77 3 0.03
78 88 0.88
79 9 0.09
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.22
Consensus pattern (79 bp):
TTGTGATATCCGGGCTAAGCCCGAAGGCAAATGGTGCGAACTATGATATCCGGGCTAAGCCCGAA
GGCAATTGTGCGAC
Found at i:240429633 original size:29 final size:29
Alignment explanation
Indices: 240429591--240429649 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
240429581 TATAGATTTT
240429591 GCTCGTTAGCGATCGGATTCGGGATCATA
1 GCTCGTTAGCGATCGGATTCGGGATCATA
240429620 GCTCGTTAGCGATCGGATTCGGGATCATA
1 GCTCGTTAGCGATCGGATTCGGGATCATA
240429649 G
1 G
240429650 AAGTTGAAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.20, C:0.20, G:0.32, T:0.27
Consensus pattern (29 bp):
GCTCGTTAGCGATCGGATTCGGGATCATA
Found at i:240439065 original size:28 final size:29
Alignment explanation
Indices: 240439034--240439106 Score: 105
Period size: 28 Copynumber: 2.6 Consensus size: 29
240439024 GTTGTGAGAT
*
240439034 TGGCACTAAGTGTGCG-GCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
240439062 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
240439091 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
240439107 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
28 21 0.51
29 20 0.49
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:240446409 original size:2 final size:2
Alignment explanation
Indices: 240446402--240446430 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
240446392 AGTATAGTTG
240446402 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
240446431 CGGCCATCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:240447096 original size:29 final size:29
Alignment explanation
Indices: 240447054--240447127 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
240447044 GTTGTGAGAT
* *
240447054 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
240447083 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
240447112 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
240447128 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:240449315 original size:46 final size:46
Alignment explanation
Indices: 240449248--240449422 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
240449238 TGTAACCCGG
*
240449248 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* * *
240449294 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * * *
240449344 -C-TCA-CGAACTCGGACTCAACTCAACGAGCTTGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
240449387 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
240449423 ATGCCTAAAT
Statistics
Matches: 105, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 60 0.57
47 25 0.24
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:240449364 original size:93 final size:93
Alignment explanation
Indices: 240449256--240449429 Score: 294
Period size: 93 Copynumber: 1.9 Consensus size: 93
240449246 GGCCATAAGT
* * *
240449256 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
240449321 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
* *
240449349 GAACTCGGACTCAACTCAACGAGCTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
240449414 CGAGCTCGGATGCCTA
66 CGAGCTCGGATGCCTA
240449430 AATATCCTAT
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:240454160 original size:29 final size:29
Alignment explanation
Indices: 240454128--240454316 Score: 299
Period size: 29 Copynumber: 6.5 Consensus size: 29
240454118 ATAGTGAATC
240454128 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
240454157 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
240454187 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
240454216 CGCACACTTAGTGCTATATA-TTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
240454244 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
* * * * *
240454273 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATA-TATTTTCAGCT
240454303 CGCACACTTAGTGC
1 CGCACACTTAGTGC
240454317 CAATCTTGTC
Statistics
Matches: 150, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
28 28 0.19
29 73 0.49
30 49 0.33
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.35
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:240454248 original size:57 final size:59
Alignment explanation
Indices: 240454128--240454316 Score: 310
Period size: 59 Copynumber: 3.2 Consensus size: 59
240454118 ATAGTGAATC
240454128 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
240454187 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATAT-A-TTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
* * * * * *
240454244 CGCACACTTAGTGCTATATATTTTCAGTTCGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
240454303 CGCACACTTAGTGC
1 CGCACACTTAGTGC
240454317 CAATCTTGTC
Statistics
Matches: 122, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
57 53 0.43
58 2 0.02
59 67 0.55
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.35
Consensus pattern (59 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:240461710 original size:29 final size:29
Alignment explanation
Indices: 240461678--240461835 Score: 277
Period size: 29 Copynumber: 5.5 Consensus size: 29
240461668 ATAGTGAATC
240461678 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
240461707 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
240461737 CGCACACTTAGTGC--TATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
240461764 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
240461793 CGCACACTTA-TGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
240461821 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
240461836 GTACAATTTT
Statistics
Matches: 124, Mismatches: 1, Indels: 8
0.93 0.01 0.06
Matches are distributed among these distances:
27 24 0.19
28 30 0.24
29 46 0.37
30 24 0.19
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:240461769 original size:57 final size:58
Alignment explanation
Indices: 240461678--240461865 Score: 274
Period size: 57 Copynumber: 3.2 Consensus size: 58
240461668 ATAGTGAATC
240461678 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGC-ATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
240461737 CGCACACTTAGTGC-TATATTTTCAGCTCGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
* * * * * *
240461793 CGCACACTTA-TGCTATATATTTTCAGTTCGCACACTTAGTGCTGTACAATTTTTAAACC
1 CGCACACTTAGTGC-ATATATTTTCAGCTCGCACACTTAGTGCTATATAA-TTTTCAGCT
240461852 CGCACACTTAGTGC
1 CGCACACTTAGTGC
240461866 CAATCTTGTC
Statistics
Matches: 118, Mismatches: 6, Indels: 9
0.89 0.05 0.07
Matches are distributed among these distances:
55 3 0.03
56 20 0.17
57 61 0.52
58 1 0.01
59 30 0.25
60 3 0.03
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (58 bp):
CGCACACTTAGTGCATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:240465158 original size:30 final size:30
Alignment explanation
Indices: 240465122--240465252 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
240465112 GACAAGATTG
* * * * *
240465122 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
240465152 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
240465180 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
240465210 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
240465239 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
240465253 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:240465213 original size:58 final size:58
Alignment explanation
Indices: 240465122--240465252 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
240465112 GACAAGATTG
* * * * * *
240465122 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
240465180 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
240465239 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
240465253 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:240468779 original size:40 final size:40
Alignment explanation
Indices: 240468671--240468879 Score: 296
Period size: 40 Copynumber: 5.2 Consensus size: 40
240468661 CGGGATTTAA
* * * * *
240468671 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
240468711 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
240468751 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
240468791 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAG-
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
240468830 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
240468870 CCGGATATAT
1 CCGGATATAT
240468880 TTCCAATGTT
Statistics
Matches: 151, Mismatches: 15, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
39 40 0.26
40 111 0.74
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:240476839 original size:40 final size:40
Alignment explanation
Indices: 240476731--240476940 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
240476721 CGGGATTTAA
* * * * *
240476731 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
240476771 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
240476811 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
240476851 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
240476891 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
240476931 CCGGATATAT
1 CCGGATATAT
240476941 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:240478749 original size:47 final size:47
Alignment explanation
Indices: 240478631--240478842 Score: 313
Period size: 47 Copynumber: 4.5 Consensus size: 47
240478621 GGGCTGTCAC
240478631 ACGCATGTTCACATTC--CACATTGGCCATTCGG-CTTATCACACAT
1 ACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACAT
***
240478675 ATATATACGGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACAT
1 ACGCAT----GTTCACATTCATCACATTGGCCATTCGGCCTTATCACACAT
*
240478726 ACGCATGTTCACATCCATCACATTGGCCATTCGGCCTTATCACACAT
1 ACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACAT
240478773 ACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACAT
1 ACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACAT
* *
240478820 GCGCATGTTCACATCCATCACAT
1 ACGCATGTTCACATTCATCACAT
240478843 AAAATCCTAA
Statistics
Matches: 151, Mismatches: 10, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
44 3 0.02
47 107 0.71
48 10 0.07
50 16 0.11
51 15 0.10
ACGTcount: A:0.26, C:0.32, G:0.13, T:0.29
Consensus pattern (47 bp):
ACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACAT
Found at i:240494693 original size:29 final size:29
Alignment explanation
Indices: 240494660--240494724 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
240494650 GTGACGAGAT
240494660 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
240494689 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
240494718 CGGCACT
1 TGGCACT
240494725 GGGTGTGCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:240499239 original size:28 final size:29
Alignment explanation
Indices: 240499206--240499278 Score: 94
Period size: 28 Copynumber: 2.5 Consensus size: 29
240499196 TATAGTGAAT
*
240499206 CCGCACACTTAGTGCTATAGAA-TCAAAC
1 CCGCACACTTAGTGCTATACAATTCAAAC
* * *
240499234 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATACAA-TTCAAAC
240499264 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
240499279 CAATCTTGTC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
28 19 0.50
30 19 0.50
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATACAATTCAAAC
Found at i:240507159 original size:30 final size:29
Alignment explanation
Indices: 240507065--240507166 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
240507055 TATAGTGAAT
* * *
240507065 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
240507094 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
240507122 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
240507152 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
240507167 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:240513335 original size:18 final size:20
Alignment explanation
Indices: 240513312--240513348 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
240513302 TGTCCCCTCT
240513312 TTAAGTTT-G-AAAATTTTA
1 TTAAGTTTCGAAAAATTTTA
240513330 TTAAGTTTCGAAAAATTTT
1 TTAAGTTTCGAAAAATTTT
240513349 GTATGTACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
19 1 0.06
20 8 0.47
ACGTcount: A:0.38, C:0.03, G:0.11, T:0.49
Consensus pattern (20 bp):
TTAAGTTTCGAAAAATTTTA
Found at i:240517363 original size:29 final size:29
Alignment explanation
Indices: 240517330--240517489 Score: 207
Period size: 29 Copynumber: 5.6 Consensus size: 29
240517320 GTGACGAGAT
240517330 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
240517359 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
240517388 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * **
240517417 TGGCACTAAGTGTGCGAGCTCG-AAGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
240517445 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
240517474 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
240517490 AAATCGAGTA
Statistics
Matches: 117, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
28 24 0.21
29 93 0.79
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:240517458 original size:86 final size:87
Alignment explanation
Indices: 240517330--240517488 Score: 214
Period size: 86 Copynumber: 1.8 Consensus size: 87
240517320 GTGACGAGAT
* * * * *
240517330 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAAT-ATATGGCAC
1 TGGCACTAAGTGTGCGAGCTCGAAAGATATGGCACTAAGTGTGCGGGCT-GAAATCACATGGCAC
240517394 TAAGTGTGCATGCTGGAAATATA
65 TAAGTGTGCATGCTGGAAATATA
* * * *
240517417 TGGCACTAAGTGTGCGAGCTCG-AAGGTATGGCACTATGTGTGCGGGCTTAAATCGCATGGCACT
1 TGGCACTAAGTGTGCGAGCTCGAAAGATATGGCACTAAGTGTGCGGGCTGAAATCACATGGCACT
240517481 AAGTGTGC
66 AAGTGTGC
240517489 GAAATCGAGT
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
85 4 0.06
86 38 0.61
87 20 0.32
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.26
Consensus pattern (87 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGATATGGCACTAAGTGTGCGGGCTGAAATCACATGGCACT
AAGTGTGCATGCTGGAAATATA
Found at i:240525230 original size:29 final size:28
Alignment explanation
Indices: 240525180--240525244 Score: 85
Period size: 29 Copynumber: 2.3 Consensus size: 28
240525170 CGGTGACGAG
** *
240525180 ATGGCACTAAGTGTGCGTGCTGGAAATAT
1 ATGGCACTAAGTGTGCAAGCT-GAAAAAT
240525209 ATGGCACTAAGTGTGCAAGCTGAAAAAT
1 ATGGCACTAAGTGTGCAAGCTGAAAAAT
*
240525237 ACGGCACT
1 ATGGCACT
240525245 GGGTGTGCGA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 13 0.41
29 19 0.59
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.23
Consensus pattern (28 bp):
ATGGCACTAAGTGTGCAAGCTGAAAAAT
Found at i:240531349 original size:27 final size:27
Alignment explanation
Indices: 240531319--240531596 Score: 319
Period size: 27 Copynumber: 10.3 Consensus size: 27
240531309 GGCATAATTG
* *
240531319 TCATTTTACCATACAGGGGTATTACGA
1 TCATTTTACCCTATAGGGGTATTACGA
* *
240531346 TCATTTTACCCTACAGGGGTATTACGG
1 TCATTTTACCCTATAGGGGTATTACGA
*
240531373 TCATTTTACCCTATAGGGGCATTACGGA
1 TCATTTTACCCTATAGGGGTATTAC-GA
* * **
240531401 -CATTTTATCCTATAGGGGCATTAATA
1 TCATTTTACCCTATAGGGGTATTACGA
* * *
240531427 TTATTTTACCCTATAGGAGCATTAC-A
1 TCATTTTACCCTATAGGGGTATTACGA
* *
240531453 GTCATTTTACCCTATAGGGGTATTATGG
1 -TCATTTTACCCTATAGGGGTATTACGA
*
240531481 TCATTTTACCCTATAGGGGTATTACGG
1 TCATTTTACCCTATAGGGGTATTACGA
* *
240531508 TCATTTTAACCTACAGGGGTATTAC-A
1 TCATTTTACCCTATAGGGGTATTACGA
* *
240531534 GTCATTTTACCCTATAGGGGCATTACGG
1 -TCATTTTACCCTATAGGGGTATTACGA
*
240531562 TCATTTTACCCTACAGGGGTATTACGA
1 TCATTTTACCCTATAGGGGTATTACGA
*
240531589 TAATTTTA
1 TCATTTTA
240531597 TTAACCAAGG
Statistics
Matches: 216, Mismatches: 29, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
26 2 0.01
27 213 0.99
28 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (27 bp):
TCATTTTACCCTATAGGGGTATTACGA
Found at i:240531405 original size:54 final size:54
Alignment explanation
Indices: 240531318--240531596 Score: 369
Period size: 54 Copynumber: 5.2 Consensus size: 54
240531308 GGGCATAATT
* * * *
240531318 GTCATTTTACCATACAGGGGTATTACGATCATTTTACCCTACAGGGGTATTACG
1 GTCATTTTACCCTATAGGGGCATTACGGTCATTTTACCCTACAGGGGTATTACG
* * * * **
240531372 GTCATTTTACCCTATAGGGGCATTACGGACATTTTATCCTATAGGGGCATTAAT
1 GTCATTTTACCCTATAGGGGCATTACGGTCATTTTACCCTACAGGGGTATTACG
* * * * * *
240531426 ATTATTTTACCCTATAGGAGCATTACAGTCATTTTACCCTATAGGGGTATTATG
1 GTCATTTTACCCTATAGGGGCATTACGGTCATTTTACCCTACAGGGGTATTACG
* * *
240531480 GTCATTTTACCCTATAGGGGTATTACGGTCATTTTAACCTACAGGGGTATTACA
1 GTCATTTTACCCTATAGGGGCATTACGGTCATTTTACCCTACAGGGGTATTACG
240531534 GTCATTTTACCCTATAGGGGCATTACGGTCATTTTACCCTACAGGGGTATTACG
1 GTCATTTTACCCTATAGGGGCATTACGGTCATTTTACCCTACAGGGGTATTACG
* *
240531588 ATAATTTTA
1 GTCATTTTA
240531597 TTAACCAAGG
Statistics
Matches: 192, Mismatches: 33, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 192 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (54 bp):
GTCATTTTACCCTATAGGGGCATTACGGTCATTTTACCCTACAGGGGTATTACG
Found at i:240531451 original size:81 final size:81
Alignment explanation
Indices: 240531318--240531596 Score: 378
Period size: 81 Copynumber: 3.4 Consensus size: 81
240531308 GGGCATAATT
* * * *
240531318 GTCATTTTACCATACAGGGGTATTACGATCATTTTACCCTACAGGGGTATTACGGTCATTTTACC
1 GTCATTTTACCCTATAGGGGTATTAAGATCATTTTACCCTACAGGGGTATTACAGTCATTTTACC
240531383 CTATAGGGGCATTACG
66 CTATAGGGGCATTACG
* * * * * * * *
240531399 GACATTTTATCCTATAGGGGCATTAATATTATTTTACCCTATAGGAGCATTACAGTCATTTTACC
1 GTCATTTTACCCTATAGGGGTATTAAGATCATTTTACCCTACAGGGGTATTACAGTCATTTTACC
* *
240531464 CTATAGGGGTATTATG
66 CTATAGGGGCATTACG
* * *
240531480 GTCATTTTACCCTATAGGGGTATTACGGTCATTTTAACCTACAGGGGTATTACAGTCATTTTACC
1 GTCATTTTACCCTATAGGGGTATTAAGATCATTTTACCCTACAGGGGTATTACAGTCATTTTACC
240531545 CTATAGGGGCATTACG
66 CTATAGGGGCATTACG
* * *
240531561 GTCATTTTACCCTACAGGGGTATTACGATAATTTTA
1 GTCATTTTACCCTATAGGGGTATTAAGATCATTTTA
240531597 TTAACCAAGG
Statistics
Matches: 168, Mismatches: 30, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 168 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (81 bp):
GTCATTTTACCCTATAGGGGTATTAAGATCATTTTACCCTACAGGGGTATTACAGTCATTTTACC
CTATAGGGGCATTACG
Found at i:240531908 original size:19 final size:19
Alignment explanation
Indices: 240531873--240531910 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
240531863 CGTGTGGGCC
*
240531873 CACGAGCCCATTGGGCCCA
1 CACGAGCCCATTCGGCCCA
240531892 CACGA-CCCATTACGGCCCA
1 CACGAGCCCATT-CGGCCCA
240531911 TCGAGGCCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.24, C:0.45, G:0.21, T:0.11
Consensus pattern (19 bp):
CACGAGCCCATTCGGCCCA
Found at i:240534493 original size:28 final size:28
Alignment explanation
Indices: 240534428--240534525 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
240534418 ATAGTGAGTC
240534428 CGCACA-TTAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
240534454 CGCACACGTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
240534482 CGCACACTTAGTGCTGTACAAATTTAAACC
1 CGCACACTTAGTGCTATA-TAA-TCAAACT
240534512 CGCACACTTAGTGC
1 CGCACACTTAGTGC
240534526 CGAAATCAAC
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
26 6 0.10
27 15 0.24
28 20 0.32
29 2 0.03
30 19 0.31
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:240543462 original size:29 final size:29
Alignment explanation
Indices: 240543429--240543557 Score: 143
Period size: 29 Copynumber: 4.4 Consensus size: 29
240543419 ACGAGATTGA
240543429 CACTAAGTGTGCGTGCTGGAAATATATGG
1 CACTAAGTGTGCGTGCTGGAAATATATGG
*
240543458 CACTAAGTGTGCATGCTGGAAATATATGG
1 CACTAAGTGTGCGTGCTGGAAATATATGG
* * ***
240543487 CACTAAGTGTGCGAGCTCGAAGGGTATGG
1 CACTAAGTGTGCGTGCTGGAAATATATGG
* * * **
240543516 CACTATGTGTGCGGGCT-TAAATCGCATGG
1 CACTAAGTGTGCGTGCTGGAAAT-ATATGG
240543545 CACTAAGTGTGCG
1 CACTAAGTGTGCG
240543558 AAATCGAGTA
Statistics
Matches: 85, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 2 0.02
29 83 0.98
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.26
Consensus pattern (29 bp):
CACTAAGTGTGCGTGCTGGAAATATATGG
Found at i:240545692 original size:17 final size:18
Alignment explanation
Indices: 240545650--240545698 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
240545640 AGTTGAAAAG
240545650 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
240545669 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
240545686 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
240545699 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:240546582 original size:40 final size:40
Alignment explanation
Indices: 240546516--240546682 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
240546506 AAATTGAATG
* * *
240546516 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
240546555 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
240546595 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
240546635 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
240546675 ATATCCGG
1 ATATCCGG
240546683 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:240553638 original size:17 final size:18
Alignment explanation
Indices: 240553596--240553644 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
240553586 AGTTGAAAAG
240553596 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
240553615 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
240553632 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
240553645 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:240554528 original size:40 final size:39
Alignment explanation
Indices: 240554462--240554611 Score: 162
Period size: 40 Copynumber: 3.8 Consensus size: 39
240554452 AAATTGAATG
* * *
240554462 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGG-TATT
* * **
240554501 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTATT
240554540 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-G-TATT
* *
240554580 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
240554612 ACTGATTATA
Statistics
Matches: 93, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
38 3 0.03
39 42 0.45
40 46 0.49
41 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTATT
Found at i:240561105 original size:28 final size:29
Alignment explanation
Indices: 240561065--240561137 Score: 94
Period size: 29 Copynumber: 2.6 Consensus size: 29
240561055 CCTCCGAGCT
** *
240561065 CGCACACCCAGTGCCGTAT-TTTCCAGCT
1 CGCACACTTAGTGCCGTATATTTCCAGCA
* *
240561093 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCA
240561122 CGCACACTTAGTGCCG
1 CGCACACTTAGTGCCG
240561138 ATCTCGTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
28 15 0.41
29 22 0.59
ACGTcount: A:0.22, C:0.34, G:0.18, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCGTATATTTCCAGCA
Found at i:240561126 original size:29 final size:28
Alignment explanation
Indices: 240561007--240561136 Score: 91
Period size: 29 Copynumber: 4.5 Consensus size: 28
240560997 TACTCGATTT
* * *
240561007 CGCACACTTAGTGCCACGTAATTT-AAGCC
1 CGCACACTTAGTGCCA--TATTTTCCAGCA
** *** *
240561036 CGCACACACAGTGCCATACCCTCCGAGCT
1 CGCACACTTAGTGCCATATTTTCC-AGCA
** * *
240561065 CGCACACCCAGTGCCGTATTTTCCAGCT
1 CGCACACTTAGTGCCATATTTTCCAGCA
*
240561093 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATAT-TTTCCAGCA
240561122 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
240561137 GATCTCGTCA
Statistics
Matches: 80, Mismatches: 18, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
27 3 0.04
28 19 0.24
29 58 0.73
ACGTcount: A:0.24, C:0.36, G:0.17, T:0.23
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATTTTCCAGCA
Found at i:240568930 original size:29 final size:29
Alignment explanation
Indices: 240568911--240568987 Score: 127
Period size: 29 Copynumber: 2.7 Consensus size: 29
240568901 ATACCCTCCG
*
240568911 AGCTCGCACACTTAGTGCCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
240568940 AGCTTGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
240568969 AGCACGCACACTTAGTGCC
1 AGCTCGCACACTTAGTGCC
240568988 GATCTCGTCA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:240572893 original size:39 final size:39
Alignment explanation
Indices: 240572820--240572928 Score: 150
Period size: 39 Copynumber: 2.8 Consensus size: 39
240572810 GCTACTCGTT
*
240572820 CAAATGCCTTCGGGACATAGCCCGG--TTAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATTTAGTAACTCGCA
* *
240572858 CAGATGCCTTCGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
*
240572897 CAAATGCCTTCGGATCTTAGTCCGGATTTAGT
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGT
240572929 CACTTAGCCG
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
37 11 0.18
38 10 0.16
39 26 0.42
40 15 0.24
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:240580797 original size:38 final size:39
Alignment explanation
Indices: 240580728--240580869 Score: 157
Period size: 38 Copynumber: 3.6 Consensus size: 39
240580718 GCTACTCGTT
* *
240580728 CAAATGCCTTCGGGAC-TAGCCCGG-TTATAGTAACTCGTA
1 CAAATGCCTTC-GGACTTAGACCGGATT-TAGTAACTCGCA
*
240580767 CAGATGCCTTCGGACTTA-ACCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGACCGGATTTAGTAACTCGCA
* * *
240580805 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGACCGGATTTAGTAAC-TCGCA
*
240580846 CAAA-GCCTTCGGACTTAGCCCGGA
1 CAAATGCCTTCGGACTTAGACCGGA
240580870 CATCATTCCT
Statistics
Matches: 90, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
38 32 0.36
39 28 0.31
40 22 0.24
41 8 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGACCGGATTTAGTAACTCGCA
Found at i:240581578 original size:2 final size:2
Alignment explanation
Indices: 240581571--240581617 Score: 78
Period size: 2 Copynumber: 23.5 Consensus size: 2
240581561 TTGTGCAAAC
240581571 AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT CAT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT
240581613 AT AT A
1 AT AT A
240581618 AGAGCCGAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 1 0.02
2 40 0.93
3 2 0.05
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:240581594 original size:15 final size:15
Alignment explanation
Indices: 240581574--240581617 Score: 79
Period size: 15 Copynumber: 2.9 Consensus size: 15
240581564 TGCAAACATA
240581574 TATATATATATATAT
1 TATATATATATATAT
240581589 TATATATATATATAT
1 TATATATATATATAT
*
240581604 CATATATATATATA
1 TATATATATATATA
240581618 AGAGCCGAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (15 bp):
TATATATATATATAT
Found at i:240587704 original size:70 final size:71
Alignment explanation
Indices: 240587553--240587715 Score: 310
Period size: 70 Copynumber: 2.3 Consensus size: 71
240587543 GAGATGTATC
240587553 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
240587618 AGGACA
66 AGGACA
240587624 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCT-GGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
240587688 CGGACA
66 AGGACA
240587694 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
240587716 AGACAAATCG
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
70 51 0.56
71 40 0.44
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:240595147 original size:41 final size:41
Alignment explanation
Indices: 240595102--240595219 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
240595092 TGAAAGATAA
240595102 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
240595143 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
240595173 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
240595214 ATGTAG
1 ATGTAG
240595220 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:240595151 original size:71 final size:71
Alignment explanation
Indices: 240595070--240595233 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
240595060 GAGATGTATC
240595070 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
240595135 AGGACA
66 AGGACA
240595141 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
240595206 AGGACA
66 AGGACA
240595212 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
240595234 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:240598447 original size:46 final size:46
Alignment explanation
Indices: 240598394--240598569 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
240598384 TATTTGGGCA
240598394 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
240598440 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
240598487 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
240598533 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
240598570 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:240598500 original size:93 final size:93
Alignment explanation
Indices: 240598390--240598561 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
240598380 GAGATATTTG
* *
240598390 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
240598455 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
240598483 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
240598548 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
240598562 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:240603099 original size:40 final size:40
Alignment explanation
Indices: 240603014--240603164 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
240603004 AATTGAATGA
* * *
240603014 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
240603054 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
240603095 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
240603134 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
240603165 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:240603178 original size:40 final size:40
Alignment explanation
Indices: 240603051--240603180 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
240603041 ATGCTGGAAA
* * * *
240603051 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
240603091 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
240603131 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
240603171 TTATATCCGG
1 TTATATCCGG
240603181 TTATGTTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:240611116 original size:40 final size:40
Alignment explanation
Indices: 240611031--240611181 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
240611021 AATTGAATGA
* * *
240611031 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
240611071 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
240611112 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
240611151 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
240611182 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:240611195 original size:40 final size:40
Alignment explanation
Indices: 240611068--240611197 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
240611058 ATGCTGGAAA
* * * *
240611068 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
240611108 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
240611148 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
240611188 TTATATCCGG
1 TTATATCCGG
240611198 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:240616312 original size:27 final size:28
Alignment explanation
Indices: 240616272--240616324 Score: 74
Period size: 26 Copynumber: 1.9 Consensus size: 28
240616262 ATTTTCCCAT
*
240616272 ATATATATACCAAATATATAAAAATAATA
1 ATATATATACCAAAAATA-AAAAATAATA
240616301 ATATA-ATA-CAAAAATAAAAAATAA
1 ATATATATACCAAAAATAAAAAATAA
240616325 AAGAAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 8 0.35
27 7 0.30
28 3 0.13
29 5 0.22
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (28 bp):
ATATATATACCAAAAATAAAAAATAATA
Found at i:240616470 original size:15 final size:15
Alignment explanation
Indices: 240616428--240616471 Score: 56
Period size: 16 Copynumber: 3.0 Consensus size: 15
240616418 GTGGCCGGTG
*
240616428 CTCTCCCCT-CTC-C
1 CTCTCCCCTCCTCTT
240616441 CTCTCCCCTCTCTCTT
1 CTCTCCCCTC-CTCTT
240616457 CTCTCCCCTCCTCTT
1 CTCTCCCCTCCTCTT
240616472 TTTCTCTCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 9 0.33
15 8 0.30
16 10 0.37
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (15 bp):
CTCTCCCCTCCTCTT
Found at i:240616479 original size:18 final size:16
Alignment explanation
Indices: 240616428--240616471 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 16
240616418 GTGGCCGGTG
240616428 CTCTCCCCTCTC-C--
1 CTCTCCCCTCTCTCTT
240616441 CTCTCCCCTCTCTCTT
1 CTCTCCCCTCTCTCTT
240616457 CTCTCCCCTC-CTCTT
1 CTCTCCCCTCTCTCTT
240616472 TTTCTCTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
13 12 0.43
14 1 0.04
15 5 0.18
16 10 0.36
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (16 bp):
CTCTCCCCTCTCTCTT
Found at i:240616986 original size:26 final size:28
Alignment explanation
Indices: 240616951--240617025 Score: 75
Period size: 26 Copynumber: 2.8 Consensus size: 28
240616941 ACCTATTACT
*
240616951 TTATTCTTATCTTATTTTTATATCATTA
1 TTATTATTATCTTATTTTTATATCATTA
* **
240616979 -TATT-TTATC-CACTTTTTATATTTTTA
1 TTATTATTATCTTA-TTTTTATATCATTA
*
240617005 TTATTATTATATTATTTTTAT
1 TTATTATTATCTTATTTTTAT
240617026 TTTTATTACT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
25 1 0.03
26 17 0.45
27 8 0.21
28 11 0.29
29 1 0.03
ACGTcount: A:0.25, C:0.08, G:0.00, T:0.67
Consensus pattern (28 bp):
TTATTATTATCTTATTTTTATATCATTA
Found at i:240617004 original size:8 final size:8
Alignment explanation
Indices: 240616963--240617031 Score: 50
Period size: 8 Copynumber: 8.1 Consensus size: 8
240616953 ATTCTTATCT
240616963 TATTTTTA
1 TATTTTTA
**
240616971 TATCATTA
1 TATTTTTA
240616979 TA-TTTTA
1 TATTTTTA
240616986 TCCACTTTTTA
1 T--A-TTTTTA
240616997 TATTTTTA
1 TATTTTTA
*
240617005 TTATTATTA
1 -TATTTTTA
*
240617014 TATTATTTT
1 TATT-TTTA
240617023 TATTTTTA
1 TATTTTTA
240617031 T
1 T
240617032 TACTATGGTT
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
7 4 0.09
8 22 0.47
9 15 0.32
11 6 0.13
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (8 bp):
TATTTTTA
Found at i:240617517 original size:2 final size:2
Alignment explanation
Indices: 240617510--240617548 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
240617500 TACTATTGTT
240617510 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
240617549 GTGTGTGTGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:240617689 original size:2 final size:2
Alignment explanation
Indices: 240617682--240617711 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
240617672 ATATCGCTAA
240617682 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
240617712 CATTTTACGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:240631388 original size:27 final size:28
Alignment explanation
Indices: 240631358--240631427 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
240631348 ATAGTGAATC
*
240631358 CGCACACTTAGTGCTATAAAATC-AGCT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
240631385 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAAACT
240631413 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
240631428 GTACAATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:240631517 original size:40 final size:41
Alignment explanation
Indices: 240631435--240631539 Score: 176
Period size: 40 Copynumber: 2.6 Consensus size: 41
240631425 GCTGTACAAT
* *
240631435 TTTAAACCCGCACACGTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAA-CTTGTCACCGTGTCCA
240631477 TTTATACCCGCACACTTAGTGCCAA-TTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAACTTGTCACCGTGTCCA
240631517 TTTATACCCGCACACTTAGTGCC
1 TTTATACCCGCACACTTAGTGCC
240631540 GAGACCAATA
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
40 38 0.62
42 23 0.38
ACGTcount: A:0.23, C:0.33, G:0.15, T:0.29
Consensus pattern (41 bp):
TTTATACCCGCACACTTAGTGCCAACTTGTCACCGTGTCCA
Found at i:240638647 original size:57 final size:58
Alignment explanation
Indices: 240638585--240638715 Score: 158
Period size: 57 Copynumber: 2.3 Consensus size: 58
240638575 GATTTAAGCC
* * * *
240638585 CGCACACATAGTGCCATACCCTTCGAGC-TCGCACACCCAGTG-CGTATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCAT-GCACACCCAGTGCCATATATTTCCAGCA
* * * **
240638642 TGCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCA
240638700 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
240638716 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
57 32 0.52
58 30 0.48
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.25
Consensus pattern (58 bp):
CGCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCA
Found at i:240638668 original size:29 final size:29
Alignment explanation
Indices: 240638629--240638715 Score: 165
Period size: 29 Copynumber: 3.0 Consensus size: 29
240638619 ACCCAGTGCG
240638629 TATATTTCCAGCATGCACACTTAGTGCCA
1 TATATTTCCAGCATGCACACTTAGTGCCA
240638658 TATATTTCCAGCATGCACACTTAGTGCCA
1 TATATTTCCAGCATGCACACTTAGTGCCA
*
240638687 TATATTTCCAGCACGCACACTTAGTGCCA
1 TATATTTCCAGCATGCACACTTAGTGCCA
240638716 ATCTCGTCAC
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 57 1.00
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.30
Consensus pattern (29 bp):
TATATTTCCAGCATGCACACTTAGTGCCA
Found at i:240641619 original size:26 final size:25
Alignment explanation
Indices: 240641590--240641664 Score: 96
Period size: 26 Copynumber: 2.9 Consensus size: 25
240641580 CAACACACCA
* *
240641590 ATATCGCAGCAAAGCTGCTAGTAATC
1 ATATCGCAACAAAGCTGCCAGTAA-C
*
240641616 ATATCGCAACAAAGCTACCAGTAAC
1 ATATCGCAACAAAGCTGCCAGTAAC
*
240641641 AGTAACGCAACAAAGCTGCCAGTA
1 A-TATCGCAACAAAGCTGCCAGTA
240641665 TCAGTATATG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
25 2 0.05
26 41 0.95
ACGTcount: A:0.40, C:0.25, G:0.17, T:0.17
Consensus pattern (25 bp):
ATATCGCAACAAAGCTGCCAGTAAC
Found at i:240647263 original size:40 final size:40
Alignment explanation
Indices: 240647204--240647372 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
240647194 CGGGACTTTA
* * *
240647204 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
240647244 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
240647284 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
240647324 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
240647364 CCCGGATAT
1 CCCGGATAT
240647373 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:240655247 original size:40 final size:40
Alignment explanation
Indices: 240655188--240655356 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
240655178 CGGGACTTTA
* * *
240655188 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
240655228 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
240655268 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
240655308 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
240655348 CCCGGATAT
1 CCCGGATAT
240655357 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:240671674 original size:49 final size:49
Alignment explanation
Indices: 240671597--240671841 Score: 292
Period size: 49 Copynumber: 4.9 Consensus size: 49
240671587 TAGCTGAAGC
* * *
240671597 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * *
240671646 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AAT
* * * * **
240671696 CATCTGATACACGTAATAGCCTGCACTTAGTACTACACACGTGATTGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
* * * *
240671747 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * *
240671796 TGTCTGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
240671842 TCACAATAGC
Statistics
Matches: 163, Mismatches: 30, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
49 81 0.50
50 46 0.28
51 36 0.22
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:240671777 original size:101 final size:98
Alignment explanation
Indices: 240671613--240671841 Score: 296
Period size: 100 Copynumber: 2.3 Consensus size: 98
240671603 GTACGCATAG
* * * *
240671613 TAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTAGTA
1 TAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAGCCTGCACTTAGTA
*
240671678 CTACACACGTGACCTAACCATCTGATACACGTAA
66 CTACACACGCGACC-AACCATCTGATACACGTAA
** *
240671712 TAGCCTGCACTTAGTACTACACACGTGATTGAAGTTATCAGGTACGCATAGTAGCCTGCACTTAG
1 TAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCAGGTACACATAGTAGCCTGCACTTAG
* *** * *
240671777 TACTACACATGCGACCAATTGTCTGGTACACGTAG
64 TACTACACACGCGACCAACCATCTGATACACGTAA
*
240671812 TAGCCTACACTTAGTACTACACACGTGACC
1 TAGCCTGCACTTAGTACTACACACGTGACC
240671842 TCACAATAGC
Statistics
Matches: 111, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
99 26 0.23
100 43 0.39
101 42 0.38
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (98 bp):
TAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAGCCTGCACTTAGTA
CTACACACGCGACCAACCATCTGATACACGTAA
Found at i:240672522 original size:30 final size:30
Alignment explanation
Indices: 240672488--240672547 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
240672478 CTTTAATAAG
*
240672488 AACTTTGGCAAAATTAC-CATTTTGTCCCTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCCTA
* *
240672518 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
240672548 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:240691003 original size:40 final size:39
Alignment explanation
Indices: 240690910--240691089 Score: 170
Period size: 39 Copynumber: 4.6 Consensus size: 39
240690900 AAATTGAATG
* * * * *
240690910 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TAGT
*
240690949 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAG-T
* *
240690989 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGT
* * * *
240691028 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGT
* *
240691066 GATATCCGGG-TAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
240691090 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 14, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
38 32 0.26
39 48 0.40
40 41 0.34
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGT
Found at i:240691041 original size:38 final size:39
Alignment explanation
Indices: 240690948--240691060 Score: 158
Period size: 40 Copynumber: 2.9 Consensus size: 39
240690938 ATGCTGAAAT
* *
240690948 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCAAGTAGC
*
240690988 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG-
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCAAGTAGC
240691027 T-TATCCGGGCTAAGACCCGAAGGCATTTGTGCAA
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCAA
240691061 ATCGTGATAT
Statistics
Matches: 68, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
38 30 0.44
39 6 0.09
40 32 0.47
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCAAGTAGC
Found at i:240698979 original size:40 final size:39
Alignment explanation
Indices: 240698811--240698981 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
240698801 AGAAATTGAA
* *
240698811 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
240698851 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
240698891 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
240698931 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
240698971 TGATATCCGGG
1 TGATATCCGGG
240698982 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:240705230 original size:93 final size:93
Alignment explanation
Indices: 240705118--240705289 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
240705108 CGCCCATAAG
* *
240705118 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
240705183 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
240705211 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
240705276 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
240705290 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:240705286 original size:46 final size:46
Alignment explanation
Indices: 240705111--240705286 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
240705101 TGTAACCCGC
* * *
240705111 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
240705157 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
240705207 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
240705250 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
240705287 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:240712775 original size:93 final size:92
Alignment explanation
Indices: 240712617--240712787 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 92
240712607 CGCCCATAAG
* *
240712617 CGAACTCGGACTCAACTCAACGAGCTGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 CGAACTCGGACTCAACTCAACGAGCTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
240712682 CGAGTTCGGATGCCTAGTTACATCTCA
66 CGAGTTCGGATGCCTAGTTACATCTCA
*
240712709 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCT-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
240712774 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
240712788 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 25 0.33
93 50 0.67
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCA
Found at i:240712777 original size:46 final size:46
Alignment explanation
Indices: 240712610--240712784 Score: 207
Period size: 45 Copynumber: 3.8 Consensus size: 46
240712600 TGTAACCCGC
* * *
240712610 CCATAAGCGAACTCGGACTCAACTCAACGAGCT-GGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
240712655 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
240712705 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
240712748 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
240712785 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 10, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 33 0.30
46 31 0.28
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:240716604 original size:20 final size:20
Alignment explanation
Indices: 240716581--240716621 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
240716571 TTTCATTTAG
*
240716581 CTCACATGAGCTTCAGTTAA
1 CTCACATGAACTTCAGTTAA
* *
240716601 CTCATATGAATTTCAGTTAA
1 CTCACATGAACTTCAGTTAA
240716621 C
1 C
240716622 CCTAATGGGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (20 bp):
CTCACATGAACTTCAGTTAA
Found at i:240721369 original size:40 final size:40
Alignment explanation
Indices: 240721276--240721387 Score: 147
Period size: 40 Copynumber: 2.8 Consensus size: 40
240721266 CCGGATTTGT
* *
240721276 AACTTGCACAATTGCCTTCGGGTCTTA-CCCGGATATAAC
1 AACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAAC
* *
240721315 AACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAATC
1 AACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAA-C
* *
240721356 -ACTAGCATAAATGCCTTCGGGACTTAGCCCGG
1 AACTAGCACAAATGCCTTCGGGTCTTAGCCCGG
240721388 GTATCATTCA
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
39 24 0.38
40 39 0.61
41 1 0.02
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (40 bp):
AACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAAC
Found at i:240727671 original size:79 final size:81
Alignment explanation
Indices: 240727580--240727763 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
240727570 ACGACTCGCT
** * *
240727580 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGC-CGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
240727642 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
240727659 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
240727723 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
240727739 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
240727764 CATCATTCGA
Statistics
Matches: 90, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
78 20 0.22
79 52 0.58
80 18 0.20
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:240727763 original size:40 final size:39
Alignment explanation
Indices: 240727573--240727763 Score: 154
Period size: 39 Copynumber: 4.8 Consensus size: 39
240727563 GGATATAACG
* ** * *
240727573 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
240727613 ACTCGC-CGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
240727652 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
240727691 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
240727731 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
240727764 CATCATTCGA
Statistics
Matches: 120, Mismatches: 23, Indels: 16
0.75 0.14 0.10
Matches are distributed among these distances:
38 2 0.02
39 58 0.48
40 52 0.43
41 8 0.07
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:240737117 original size:39 final size:39
Alignment explanation
Indices: 240737036--240737198 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
240737026 TATGGTAACC
* *
240737036 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
240737076 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
240737115 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
240737154 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
240737193 CGCACA
1 CGCACA
240737199 TTCATACACA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:240745048 original size:39 final size:39
Alignment explanation
Indices: 240744967--240745129 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
240744957 TATGGTAACC
* *
240744967 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
240745007 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
240745046 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
240745085 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
240745124 CGCACA
1 CGCACA
240745130 TTCATACACA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:240752898 original size:70 final size:71
Alignment explanation
Indices: 240752747--240752909 Score: 310
Period size: 70 Copynumber: 2.3 Consensus size: 71
240752737 GAGATGTATC
240752747 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
240752812 AGGACA
66 AGGACA
240752818 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCT-GGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
240752882 CGGACA
66 AGGACA
240752888 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
240752910 AGACAAATCG
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
70 51 0.56
71 40 0.44
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:240760285 original size:68 final size:70
Alignment explanation
Indices: 240760213--240760408 Score: 265
Period size: 70 Copynumber: 2.8 Consensus size: 70
240760203 ACACCCTGTA
* * * *
240760213 GTAGCTAGGTCACATGTGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCACATGCGTGATACCAAG-TGAAGGCACCATGTAGACAAGAGAGCTACGTGAAAG
240760275 ATAAAT
65 ATAAAT
* *
240760281 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGCACCATGTAGACAAGAGAGCTACGTGAAAGA
1 GTAGCTAGGTCACATGCGTGATACCAAGTGAAGGCACCATGTAGACAAGAGAGCTACGTGAAAGA
240760346 TAAAT
66 TAAAT
* * *
240760351 GTAGCTGGGT-GCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCACATGCGTGATACCAAGTGAAGG-CACCATGTAGACAAGAGAGCTACG
240760409 AGACAAATCG
Statistics
Matches: 117, Mismatches: 7, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
68 23 0.20
69 27 0.23
70 67 0.57
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (70 bp):
GTAGCTAGGTCACATGCGTGATACCAAGTGAAGGCACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:240760336 original size:70 final size:70
Alignment explanation
Indices: 240760247--240760408 Score: 299
Period size: 70 Copynumber: 2.3 Consensus size: 70
240760237 GAGATGTATC
240760247 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGT-GCATGCGTGATTCCAAGTGA
240760312 AGG-CA
65 AGGACA
*
240760317 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTGCATGCGTGATTCCAAGTGAA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTGCATGCGTGATTCCAAGTGAA
240760382 GGACA
66 GGACA
240760387 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
240760409 AGACAAATCG
Statistics
Matches: 90, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
69 23 0.26
70 67 0.74
ACGTcount: A:0.35, C:0.17, G:0.29, T:0.19
Consensus pattern (70 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTGCATGCGTGATTCCAAGTGAA
GGACA
Found at i:240764000 original size:39 final size:39
Alignment explanation
Indices: 240763916--240764068 Score: 216
Period size: 39 Copynumber: 3.9 Consensus size: 39
240763906 TATGGTAACC
** * *
240763916 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
240763956 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
240763995 CGCACAATTGCCTTTGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
240764034 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
240764069 TCGAACATTC
Statistics
Matches: 101, Mismatches: 12, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
39 86 0.85
40 15 0.15
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:240764037 original size:78 final size:79
Alignment explanation
Indices: 240763885--240764067 Score: 269
Period size: 78 Copynumber: 2.3 Consensus size: 79
240763875 TCGTTCAAAC
* * **
240763885 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
240763950 ACAATTTGCACAATT
65 ACAATTTGCACAATT
* ** * *
240763965 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTTGGG-CTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
240764029 CAATTTGCACAATT
66 CAATTTGCACAATT
240764043 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
240764068 CTCGAACATT
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
78 54 0.57
79 31 0.33
80 9 0.10
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTTGCACAATT
Found at i:240767179 original size:26 final size:26
Alignment explanation
Indices: 240767125--240767219 Score: 163
Period size: 27 Copynumber: 3.6 Consensus size: 26
240767115 AAATTTGTAC
240767125 AGCACTAAGTGTGCGAGTTTGATATAT
1 AGCACTAAGTGTGCGAG-TTGATATAT
*
240767152 AGCACTAAGTGTGTGAGTTGATATAT
1 AGCACTAAGTGTGCGAGTTGATATAT
240767178 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGA-TATAT
240767205 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
240767220 GACTCACTAT
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
26 29 0.45
27 36 0.55
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.32
Consensus pattern (26 bp):
AGCACTAAGTGTGCGAGTTGATATAT
Found at i:240775083 original size:27 final size:28
Alignment explanation
Indices: 240775027--240775096 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
240775017 AAATTTGTAC
240775027 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
240775055 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
240775082 AGCACTAATTGTGCG
1 AGCACTAAGTGTGCG
240775097 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:240775107 original size:27 final size:27
Alignment explanation
Indices: 240775027--240775108 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
240775017 AAATTTGTAC
* *
240775027 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
240775055 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
*
240775082 AGCACTAATTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
240775109 GTTTTGAATC
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:240778221 original size:38 final size:39
Alignment explanation
Indices: 240778075--240778236 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
240778065 TATGGTAACC
* *
240778075 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
240778115 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
240778154 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
240778193 CGCACAATTGCCTTC-GGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
240778231 CGCACA
1 CGCACA
240778237 TTCATACACA
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
38 28 0.25
39 68 0.60
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Done.