Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002665.1 Hibiscus syriacus cultivar Beakdansim tig00005477_pilon, whole genome shotgun sequence
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: 155634
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Found at i:1483 original size:43 final size:43
Alignment explanation
Indices: 1436--1640 Score: 207
Period size: 43 Copynumber: 4.7 Consensus size: 43
1426 AAAAATAATT
* * *
1436 AAATTAGGGACCTAAATTGTAAAAATAAAAAGTGAGATTGAAA
1 AAATTAGGGACCTCAATTATAAAAGTAAAAAGTGAGATTGAAA
*
1479 AAATTAGTGGA-CTCAATTATAAAGGTAAAAAGTGAGATT-ACAA
1 AAATTAG-GGACCTCAATTATAAAAGTAAAAAGTGAGATTGA-AA
* * * * * *
1522 AAATTAGGGGCTTTAATTATAAAGGTAGAAAGCGAGATTGAAA
1 AAATTAGGGACCTCAATTATAAAAGTAAAAAGTGAGATTGAAA
* ** *
1565 AAATTAGGAACCTCGGTTATAAAAGTAAAAAGTGAAATTGAAAAA
1 AAATTAGGGACCTCAATTATAAAAGTAAAAAGTGAGATTG--AAA
* * *
1610 AAATTAAGGACTTCAATTATAAATGTAAAAA
1 AAATTAGGGACCTCAATTATAAAAGTAAAAA
1641 AAATGAGATT
Statistics
Matches: 131, Mismatches: 25, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
42 3 0.02
43 96 0.73
44 4 0.03
45 28 0.21
ACGTcount: A:0.51, C:0.06, G:0.19, T:0.25
Consensus pattern (43 bp):
AAATTAGGGACCTCAATTATAAAAGTAAAAAGTGAGATTGAAA
Found at i:16906 original size:14 final size:14
Alignment explanation
Indices: 16889--16930 Score: 84
Period size: 14 Copynumber: 3.0 Consensus size: 14
16879 ATCATAACAA
16889 AATTATATAACTAT
1 AATTATATAACTAT
16903 AATTATATAACTAT
1 AATTATATAACTAT
16917 AATTATATAACTAT
1 AATTATATAACTAT
16931 TATTTCACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
AATTATATAACTAT
Found at i:18482 original size:20 final size:17
Alignment explanation
Indices: 18457--18503 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
18447 TGATAATTCA
18457 ATTAATAAATTACTTATTAT
1 ATTAATAAATT--TT-TTAT
18477 ATTAATTAAATTTTTTAT
1 ATTAA-TAAATTTTTTAT
18495 ATT-ATAAAT
1 ATTAATAAAT
18504 ATTAATTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
16 5 0.19
17 1 0.04
18 7 0.27
19 2 0.08
20 5 0.19
21 6 0.23
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTAATAAATTTTTTAT
Found at i:18540 original size:13 final size:14
Alignment explanation
Indices: 18518--18547 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
18508 ATTATAATCA
18518 TTAAATTAATTTAC
1 TTAAATTAATTTAC
18532 TTAAA-TAATTTAC
1 TTAAATTAATTTAC
18545 TTA
1 TTA
18548 CTGAACATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (14 bp):
TTAAATTAATTTAC
Found at i:20660 original size:2 final size:2
Alignment explanation
Indices: 20616--20640 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
20606 ACTTTATACT
20616 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 T
20641 GGTATATACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:21496 original size:21 final size:21
Alignment explanation
Indices: 21444--21497 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
21434 TTTACTTGGT
*
21444 AATTAACTT-ATTCAAACCTA
1 AATTAACTTGATCCAAACCTA
*
21464 AACTAACATTGATCCAAA-CTAA
1 AATTAAC-TTGATCCAAACCT-A
21486 AATTAACTTGAT
1 AATTAACTTGAT
21498 ACGAACTGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 6 0.21
21 9 0.32
22 13 0.46
ACGTcount: A:0.46, C:0.19, G:0.04, T:0.31
Consensus pattern (21 bp):
AATTAACTTGATCCAAACCTA
Found at i:23426 original size:19 final size:20
Alignment explanation
Indices: 23402--23449 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
23392 AATGCTTTTC
* *
23402 TTTTGAAAGCTAAAATG-AA
1 TTTTGAAAACCAAAATGAAA
23421 TTTTGAAAACCAAAATGAAA
1 TTTTGAAAACCAAAATGAAA
23441 TTTTGAAAA
1 TTTTGAAAA
23450 ATGATTTAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 15 0.58
20 11 0.42
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.31
Consensus pattern (20 bp):
TTTTGAAAACCAAAATGAAA
Found at i:26688 original size:22 final size:21
Alignment explanation
Indices: 26663--26718 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
26653 ACTCAACGTA
26663 TAAATATAAATTAGTTAAAATT
1 TAAATATAAATTAGTTAAAA-T
** *
26685 TAAAGGTAAATTATTTAAAAT
1 TAAATATAAATTAGTTAAAAT
* *
26706 GAAATATTAATTA
1 TAAATATAAATTA
26719 TATTTTTTTC
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
21 10 0.37
22 17 0.63
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (21 bp):
TAAATATAAATTAGTTAAAAT
Found at i:27971 original size:14 final size:14
Alignment explanation
Indices: 27952--27979 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
27942 CAAAGCCTGT
27952 AGCTTATTTTCTGC
1 AGCTTATTTTCTGC
27966 AGCTTATTTTCTGC
1 AGCTTATTTTCTGC
27980 TGGTGTTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.14, T:0.50
Consensus pattern (14 bp):
AGCTTATTTTCTGC
Found at i:30164 original size:466 final size:461
Alignment explanation
Indices: 29261--30186 Score: 1475
Period size: 466 Copynumber: 2.0 Consensus size: 461
29251 GTTGCCCAGT
*
29261 ACTATGCGTTTAATAATTACTTGAGCTACATCTGGACTCTACATTGCTGTAGTACCTCTTTATAT
1 ACTATGCGTTTAATAATTACTTGAGCTACATCTGGAC-CTACATTGCTCTAGTACCTCTTTATAT
* *
29326 CAGTGATTGTTCTATAATTTCAAGTGTGAAAGCCATTCTTATTTTGTATATAGTGGGACATGAGT
65 CAGTGATCGTTCTATAATTTCAAGTGTGAAAACCATTCTTATTTTGTATATAGTGGGACATGAGT
* * * * * *
29391 TGATATTCTTTTTTAAAGGTCTAGACATTGTGAAGTAGATGGTTGATATATGAGGTTGTAAATAC
130 TAATATTCTTTTTTAAAGGTCTAGACATGGCGAAGTAAATGGTTAATATATGAAGTTGTAAATAC
* * *
29456 ACTGTCTCTATATCATTTGAATGTAGATGCATATTTGGTGTTTATCTGTGAAATATTATATAATG
195 ACTGTCTCTATATCATTTGAATGTAGACGCATATTTGGTGTTTATCTGTGAAATATTATAAAATA
* *
29521 TTTAGATTGTTTCCCATGAATCTAACCAGATGTGGTCCAGGTGTCTACCTTTGTTATGATGTTAG
260 TTTAGACTGTTTCCCATGAATCTAACCAGATGTGGTCCAGGTGTCTACCTTTGTTATGATGGTAG
*
29586 AGACCTTTACATATCTGGAAAATAAAAGATAGGGAAGGAATATCCATCCCTTGCAGGAGTCCATC
325 AGACCTTTACATATCTGGAAAATAAAAGATAGGGAAGGAATATCCATCCCTTGAAGGAGTCCATC
* *
29651 GTTGCTCAGTACTATGTTTTAAGTTATTACTTGAGCTACATCTGGATGCTATAACTCTCAACACC
390 GTTGCTCAGTACTATGTGTTAAGTTATTACTTGAGCTACATCTGGATGCTACAACTCTCAACACC
*
29716 TCTTTGC
455 CCTTTGC
* * *
29723 ACTATGCGTTTAATTATTACTTGAGCTACATTTGGA-CTACATTGCTCTAGTACCTCTTTATATT
1 ACTATGCGTTTAATAATTACTTGAGCTACATCTGGACCTACATTGCTCTAGTACCTCTTTATATC
29787 AGTGATCGTTCTATACA-TTCAAGTGTGAAAACCATTCTTATTTTGTATATAGTGGGACATGAGT
66 AGTGATCGTTCTATA-ATTTCAAGTGTGAAAACCATTCTTATTTTGTATATAGTGGGACATGAGT
* * *
29851 TAATCTT-TTTTTTAAAGGTCTAGACATGGCGAAGTAAATGGTAATAACACAATATCTGAATTTG
130 TAATATTCTTTTTTAAAGGTCTAGACATGGCGAAGTAAATGGT--T-----AATATATGAAGTTG
* * *
29915 TAAATACATTGTCTCTATATCATTTGATTGTAGACGCATTTTTGGTGTTTATCTGTGAAATATTA
188 TAAATACACTGTCTCTATATCATTTGAATGTAGACGCATATTTGGTGTTTATCTGTGAAATATTA
29980 TAAAATATTTAGACTGTTTCCCATGAATCTAACCAGATGTGGTCC-GAGTGTCTACCTTTGTTAT
253 TAAAATATTTAGACTGTTTCCCATGAATCTAACCAGATGTGGTCCAG-GTGTCTACCTTTGTTAT
30044 GATGGTAGAGA-CTGTTACATATCTGGAAAATAAAAGATAGGGAAGGAATATCCATCCCTTGAAG
317 GATGGTAGAGACCT-TTACATATCTGGAAAATAAAAGATAGGGAAGGAATATCCATCCCTTGAAG
30108 GAGTCCATCGTTGCTCAGTACTATGTGTTAAGTTATTACTTGAGCTACATCTGGATGCTACAACT
381 GAGTCCATCGTTGCTCAGTACTATGTGTTAAGTTATTACTTGAGCTACATCTGGATGCTACAACT
30173 CTCAACACCCCTTT
446 CTCAACACCCCTTT
30187 ATTTAGTGGT
Statistics
Matches: 427, Mismatches: 27, Indels: 16
0.91 0.06 0.03
Matches are distributed among these distances:
459 32 0.07
460 91 0.21
461 2 0.00
462 34 0.08
465 3 0.01
466 265 0.62
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (461 bp):
ACTATGCGTTTAATAATTACTTGAGCTACATCTGGACCTACATTGCTCTAGTACCTCTTTATATC
AGTGATCGTTCTATAATTTCAAGTGTGAAAACCATTCTTATTTTGTATATAGTGGGACATGAGTT
AATATTCTTTTTTAAAGGTCTAGACATGGCGAAGTAAATGGTTAATATATGAAGTTGTAAATACA
CTGTCTCTATATCATTTGAATGTAGACGCATATTTGGTGTTTATCTGTGAAATATTATAAAATAT
TTAGACTGTTTCCCATGAATCTAACCAGATGTGGTCCAGGTGTCTACCTTTGTTATGATGGTAGA
GACCTTTACATATCTGGAAAATAAAAGATAGGGAAGGAATATCCATCCCTTGAAGGAGTCCATCG
TTGCTCAGTACTATGTGTTAAGTTATTACTTGAGCTACATCTGGATGCTACAACTCTCAACACCC
CTTTGC
Found at i:31578 original size:840 final size:839
Alignment explanation
Indices: 29796--32301 Score: 3929
Period size: 840 Copynumber: 3.0 Consensus size: 839
29786 TAGTGATCGT
** * *
29796 TCTATACATTCAAGTGTGAAAACCATTCTTATTTTGTATATAGTGGGACATGA-GTTAA--TC-T
1 TCTATACATTCAAGTGTGAATGCCATTCTTATTTTGTTTATAGTGGGACA-CATGTTAATTTCAT
* * * * *
29857 TTTTT-TTAAAGGTCTAGACATGGCGAAGTAAATGGTAATAACAC--AATATCTGAATTTGTAAA
65 TTTTTGTTAAAGGGCTAGACATGGTGAAGTAAATGGTAATAACACTTAATAACTGCATTTGGAAA
* * *
29919 TACATTG-TCTCTATATCATTTGATTGTAGACGCA-TTTTTGGTGTTTATCTGTGAAATATTATA
130 TACATTGCT-TCTATATCATTTGAATGTAGATGCATTTTTTGGTGTTTATCTGTGAAATATAAT-
* * * *
29982 AAAT-ATTTAGA-CTGTTTCCCATGAATCTAACCAGATGTGGTCC-GAGTGTCTACCTTTGTTAT
193 ATATGATTTAGATC-GTTTCCCATGAATCTAACCAGATGTGGTCCAG-GTGTCAACCTTTGATCT
30044 GATGGTAGAGACTGTTACATATCTGGAAAATAAAAGATAGGGAAGGAATATCCATCCCTTGAAGG
256 GATGGTAGAGACTGTTACATATCTGGAAAATAAAAGATAGGGAAGGAATATCCATCCCTTGAAGG
30109 AGTCCATCGTTGCTCAGTACTATGTGTTAAGTTATTACTTGAGCTACATCTGGATGCTACAACTC
321 AGTCCATCGTTGCTCAGTACTATGTGTTAAGTTATTACTTGAGCTACATCTGGATGCTACAACTC
30174 TCAACACCCCTTTATTTAGTGGTCATTCTATTCATTCAAGTATGAAGAAGCCATTCTTATTTTGG
386 TCAACACCCCTTTATTTAGTGGTCATTCTATTCATTCAAGTATGAAGAAGCCATTCTTATTTTGG
*
30239 ATACAGTGGAATGTGTGTTGTGAATCTGCTCTTTCTTAAAGTGATAGGCATAGTGAAGCCAATAA
451 ATACAGTGGAATGTGTGTTGTGAATCTGCTCTTTCTTAAAGTGATAGGCATAGTGAAGCAAATAA
* *
30304 TAATAACACAACATATGCATTTGGCAATACTTTCCATGGTTCAATATCTTTTGAATATTGATTCA
516 TAATAACACAACATGTGCATTTGGCAATACTTTCCATGCTTCAATATCTTTTGAATATTGATTCA
*
30369 TTTTTGGCGTATATCTGTGAAATATTATTTAATATTTACCTTTCTGCTTCCATGAGTTTAACCAG
581 TTTTTGGTGTATATCTGTGAAATATTATTTAATATTTACCTTTCTGCTTCCATGAGTTTAACCAG
*
30434 ATGTAGTCAGGTGTCTACCTTTCCTATAATGGTAGGGACTGTTACATATCTGGAAAATAAAAGAT
646 ATGTAGTCAGGTGTCTACCTTTGCTATAATGGTAGGGACTGTTACATATCTGGAAAATAAAAGAT
*
30499 AGGGAAGGAATTGATGGCTTGGGTTTCCAATCTATCTATTAGCCATCCCTTGATGGCGTCCATCG
711 AGGGAAGGAATTGATGGCTTGGGTTTCCAATCTATCTATTAGCCATCCCTTGATGGAGTCCATCG
* *
30564 TTGCCCAGTACTACGCGTTTAATTATTACTTGAGCTACATCTGGAAACTACATTGCCCAGTACC
776 TTGCCCAGTACTATGCGTTTAGTTATTACTTGAGCTACATCTGGAAACTACATTGCCCAGTACC
*
30628 TCTATACATTCAAGTGTGAATGCCATTCTTATTTTGTTTATAGTAGGACACATGTTAAATTTCAT
1 TCTATACATTCAAGTGTGAATGCCATTCTTATTTTGTTTATAGTGGGACACATGTT-AATTTCAT
30693 TTTTTGTTAAAGGGCTAGACATGGTGAAGTAAATGGTAATAACACTTAATAACTGCATTTGGAAA
65 TTTTTGTTAAAGGGCTAGACATGGTGAAGTAAATGGTAATAACACTTAATAACTGCATTTGGAAA
* *
30758 TACATTGCTTCTATATCATTTGAATGTAGATGCATTTTTTAGTGTTTATCTGTGAAATGTAATAT
130 TACATTGCTTCTATATCATTTGAATGTAGATGCATTTTTTGGTGTTTATCTGTGAAATATAATAT
30823 ATGATTTAGATCGTTTCCCATGAATCTAACCAGATGTGGTCCAGGTGTCAACCTTTGATCTGATG
195 ATGATTTAGATCGTTTCCCATGAATCTAACCAGATGTGGTCCAGGTGTCAACCTTTGATCTGATG
*
30888 GTAGAGACCGTTACATATCTGGAAAATAAAAGATAGGGAAGGAATATCCATCCCTTGAAGGAGTC
260 GTAGAGACTGTTACATATCTGGAAAATAAAAGATAGGGAAGGAATATCCATCCCTTGAAGGAGTC
*
30953 CATCTTTGCTCAGTACTATGTGTTAAGTTATTACTTGAGCTACATCTGGATGCTACAACTCTCAA
325 CATCGTTGCTCAGTACTATGTGTTAAGTTATTACTTGAGCTACATCTGGATGCTACAACTCTCAA
*
31018 CACCCCTTTATTTAGTGGTCATTCTATTTATTCAAGTATGAAGAAGCCATTCTTATTTTGGATAC
390 CACCCCTTTATTTAGTGGTCATTCTATTCATTCAAGTATGAAGAAGCCATTCTTATTTTGGATAC
31083 AGTGGAATGTGTGTTGTGAATCTGCTCTTTCTTAAAGTGATAGGCATAGTGAAGCAAATAATAAT
455 AGTGGAATGTGTGTTGTGAATCTGCTCTTTCTTAAAGTGATAGGCATAGTGAAGCAAATAATAAT
31148 AACACAACATGTGCATTTGGCAATACTTTCCATGCTTCAATATCTTTTGAATATTGATTCATTTT
520 AACACAACATGTGCATTTGGCAATACTTTCCATGCTTCAATATCTTTTGAATATTGATTCATTTT
* *
31213 TGGTGTGTATCTGTGAAATATTATTTAATATTTACCTTTCTGCTTCCATGAGTTTAATCAGATGT
585 TGGTGTATATCTGTGAAATATTATTTAATATTTACCTTTCTGCTTCCATGAGTTTAACCAGATGT
* *
31278 AGTCAGGTGTCTACCTTTGCTATAATGGTAGGGATTGTTACATATCTAGAAAATAAAAGATAGGG
650 AGTCAGGTGTCTACCTTTGCTATAATGGTAGGGACTGTTACATATCTGGAAAATAAAAGATAGGG
* *
31343 AAGCAATTGATGGCTTGAGTTTCCAATCTATCTATTAGCCATCCCTTGATGGAGTCCATCGTTGC
715 AAGGAATTGATGGCTTGGGTTTCCAATCTATCTATTAGCCATCCCTTGATGGAGTCCATCGTTGC
*
31408 CCAGTACTATGCGTTTAGTTATTACTTGAGCTACATCTGGACACTACATTGCCCAGTACC
780 CCAGTACTATGCGTTTAGTTATTACTTGAGCTACATCTGGAAACTACATTGCCCAGTACC
*
31468 TCTAT-CGATTCAAGTGTGAATGCCATTCTTATTTTATTTATAGTGGGACACATGTTAATCTTCA
1 TCTATAC-ATTCAAGTGTGAATGCCATTCTTATTTTGTTTATAGTGGGACACATGTTAAT-TTCA
31532 TTTTTTGTTAAAGGGCTAGACATGGTGAAGTAAATGGTAATAACACTTAATAACTGCATTTGGAA
64 TTTTTTGTTAAAGGGCTAGACATGGTGAAGTAAATGGTAATAACACTTAATAACTGCATTTGGAA
31597 ATACATTGCTTCTATATCATTTGAATGTAGATGCAGTTTTTTGGTGTTTATCTGTGAAATATAAT
129 ATACATTGCTTCTATATCATTTGAATGTAGATGCA-TTTTTTGGTGTTTATCTGTGAAATATAAT
31662 ATATGATTTAGATCGTTTCCCATGAATCTAACCAGATGTGGTCCAGGTGTCAACCTTTGATCTGA
193 ATATGATTTAGATCGTTTCCCATGAATCTAACCAGATGTGGTCCAGGTGTCAACCTTTGATCTGA
*
31727 TGGTAGAGACTGTTACATATCTGGAAAATAAAAGATAGGGAAGGAATATCCATCACTTGAAGGAG
258 TGGTAGAGACTGTTACATATCTGGAAAATAAAAGATAGGGAAGGAATATCCATCCCTTGAAGGAG
* * * *
31792 TCCATCGTTGCTCAGTACCATGTGTTTAGTTATTACTTGAGCTACATCT-G-T-CAACATCTCTT
323 TCCATCGTTGCTCAGTACTATGTGTTAAGTTATTACTTGAGCTACATCTGGATGCTACAACTC-T
* * * * *
31854 TATATTAGTGGCCATTCTATTTTTTTTATAAGAGTGGTCATTCTATTCATTCAAGTATTAAGAAG
387 CA-A-CA----CC---C---CTTTATT-T---AGTGGTCATTCTATTCATTCAAGTATGAAGAAG
* * * * *
31919 CCATACTTATTTTGGATACAGTGGAATGTTTGTTGTGAATCTGTTCTTTCTTAAAGGGATATGCA
436 CCATTCTTATTTTGGATACAGTGGAATGTGTGTTGTGAATCTGCTCTTTCTTAAAGTGATAGGCA
* * * * * * *
31984 TAGTGAAGCTAATAATAATATCACTA-TTGTGTACGTTTGACAATACTTTCCATGCTTCTATAAT
501 TAGTGAAGCAAATAATAATAACACAACATGTG--CATTTGGCAATACTTTCCATGCTTCAAT-AT
* ** *
32048 -TTTT-AATATAGATGT--TTTTTTATGTATATCTGTGAGATATTATTTAATATTTACCTTTCTG
563 CTTTTGAATATTGAT-TCATTTTTGGTGTATATCTGTGAAATATTATTTAATATTTACCTTTCTG
* *
32109 CTTCCATGAGTTTAACCAGATGTAGTCAGGTGTTTACCTTTGCTTATGATGGTAGGGACTGTTAC
627 CTTCCATGAGTTTAACCAGATGTAGTCAGGTGTCTACCTTTGC-TATAATGGTAGGGACTGTTAC
* *
32174 ATATCTGGAAAATAAAAGATAGGGAAGGAATTGATGGTTTGGGTTTCCAATCTATCTATTAACCA
691 ATATCTGGAAAATAAAAGATAGGGAAGGAATTGATGGCTTGGGTTTCCAATCTATCTATTAGCCA
* * ***
32239 TCCCTTGAAGGAGTCCACCGTTGCCCAGTACTATTTTTTTAGTTATTACTTGAGCTACATCTG
756 TCCCTTGATGGAGTCCATCGTTGCCCAGTACTATGCGTTTAGTTATTACTTGAGCTACATCTG
32302 AACCCAACAC
Statistics
Matches: 1551, Mismatches: 85, Indels: 53
0.92 0.05 0.03
Matches are distributed among these distances:
831 1 0.00
832 49 0.03
833 2 0.00
835 2 0.00
836 6 0.00
837 37 0.02
838 7 0.00
839 55 0.04
840 801 0.52
841 204 0.13
845 2 0.00
848 1 0.00
851 5 0.00
852 1 0.00
854 87 0.06
855 259 0.17
856 30 0.02
857 2 0.00
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (839 bp):
TCTATACATTCAAGTGTGAATGCCATTCTTATTTTGTTTATAGTGGGACACATGTTAATTTCATT
TTTTGTTAAAGGGCTAGACATGGTGAAGTAAATGGTAATAACACTTAATAACTGCATTTGGAAAT
ACATTGCTTCTATATCATTTGAATGTAGATGCATTTTTTGGTGTTTATCTGTGAAATATAATATA
TGATTTAGATCGTTTCCCATGAATCTAACCAGATGTGGTCCAGGTGTCAACCTTTGATCTGATGG
TAGAGACTGTTACATATCTGGAAAATAAAAGATAGGGAAGGAATATCCATCCCTTGAAGGAGTCC
ATCGTTGCTCAGTACTATGTGTTAAGTTATTACTTGAGCTACATCTGGATGCTACAACTCTCAAC
ACCCCTTTATTTAGTGGTCATTCTATTCATTCAAGTATGAAGAAGCCATTCTTATTTTGGATACA
GTGGAATGTGTGTTGTGAATCTGCTCTTTCTTAAAGTGATAGGCATAGTGAAGCAAATAATAATA
ACACAACATGTGCATTTGGCAATACTTTCCATGCTTCAATATCTTTTGAATATTGATTCATTTTT
GGTGTATATCTGTGAAATATTATTTAATATTTACCTTTCTGCTTCCATGAGTTTAACCAGATGTA
GTCAGGTGTCTACCTTTGCTATAATGGTAGGGACTGTTACATATCTGGAAAATAAAAGATAGGGA
AGGAATTGATGGCTTGGGTTTCCAATCTATCTATTAGCCATCCCTTGATGGAGTCCATCGTTGCC
CAGTACTATGCGTTTAGTTATTACTTGAGCTACATCTGGAAACTACATTGCCCAGTACC
Found at i:36371 original size:26 final size:26
Alignment explanation
Indices: 36335--36393 Score: 118
Period size: 26 Copynumber: 2.3 Consensus size: 26
36325 AGTGATCAGT
36335 GCTTGTCACTTACACGAGCTACCAGA
1 GCTTGTCACTTACACGAGCTACCAGA
36361 GCTTGTCACTTACACGAGCTACCAGA
1 GCTTGTCACTTACACGAGCTACCAGA
36387 GCTTGTC
1 GCTTGTC
36394 CACTGAAGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (26 bp):
GCTTGTCACTTACACGAGCTACCAGA
Found at i:43428 original size:18 final size:18
Alignment explanation
Indices: 43405--43441 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
43395 ATTCAATTGA
43405 ATAGGAAGTTGGATCATG
1 ATAGGAAGTTGGATCATG
43423 ATAGGAAGTTGGATCATG
1 ATAGGAAGTTGGATCATG
43441 A
1 A
43442 AACCAATGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.05, G:0.32, T:0.27
Consensus pattern (18 bp):
ATAGGAAGTTGGATCATG
Found at i:47371 original size:33 final size:33
Alignment explanation
Indices: 47334--47396 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
47324 TGCAGAGGAT
*
47334 GCATCCACCGCATCTGATGCAGCAGACCTTGGA
1 GCATCCACCACATCTGATGCAGCAGACCTTGGA
* *
47367 GCATCCACCACGTCTGTTGCAGCAGACCTT
1 GCATCCACCACATCTGATGCAGCAGACCTT
47397 CGATGTCGCC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.22, C:0.35, G:0.22, T:0.21
Consensus pattern (33 bp):
GCATCCACCACATCTGATGCAGCAGACCTTGGA
Found at i:49520 original size:27 final size:27
Alignment explanation
Indices: 49482--49539 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
49472 TACCAACCTT
49482 CTTCCTCCACCTTATCTGTCATTTCAA
1 CTTCCTCCACCTTATCTGTCATTTCAA
* *
49509 CTTCCTCCACCTTATCTGTTATTTCAG
1 CTTCCTCCACCTTATCTGTCATTTCAA
49536 CTTC
1 CTTC
49540 TTCCGGTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.16, C:0.36, G:0.05, T:0.43
Consensus pattern (27 bp):
CTTCCTCCACCTTATCTGTCATTTCAA
Found at i:51076 original size:125 final size:125
Alignment explanation
Indices: 50854--51122 Score: 475
Period size: 125 Copynumber: 2.2 Consensus size: 125
50844 GGTATATGCG
* * * *
50854 ATGTCTTTAAAATTCTTTAGGTGTTCAACTCCTCATTTCTTATTGCTCTATGTTTCATTGAACGT
1 ATGTCTCTAAAAATCATTAGGTGTTCAACTCCTCATTTCTTATCGCTCTATGTTTCATTGAACGT
*
50919 CATACACTTTACACTATTTGTTGGGCATTAGTTCAACAGGTAAGTTTCACATCGAACTGA
66 CATACACTTTACACTATTTGTTGGGCATTAGTTCAACAGGTAAGTTTCACATCGAACTAA
* *
50979 ATGTCTCTACAAATCATTAGGTGTTCAACTCCTCATTTCTTATCGTTCTATGTTTCATTGAACGT
1 ATGTCTCTAAAAATCATTAGGTGTTCAACTCCTCATTTCTTATCGCTCTATGTTTCATTGAACGT
51044 CATACACTTTACACTATTTGTTGGGCATTAGTTCAACAGGTAAGTTTCACATCGAACTAA
66 CATACACTTTACACTATTTGTTGGGCATTAGTTCAACAGGTAAGTTTCACATCGAACTAA
51104 ATGTCTCTAAAAATCATTA
1 ATGTCTCTAAAAATCATTA
51123 TGAAGATGTT
Statistics
Matches: 136, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
125 136 1.00
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.39
Consensus pattern (125 bp):
ATGTCTCTAAAAATCATTAGGTGTTCAACTCCTCATTTCTTATCGCTCTATGTTTCATTGAACGT
CATACACTTTACACTATTTGTTGGGCATTAGTTCAACAGGTAAGTTTCACATCGAACTAA
Found at i:51628 original size:3 final size:3
Alignment explanation
Indices: 51622--51675 Score: 74
Period size: 3 Copynumber: 18.0 Consensus size: 3
51612 TATCCATTTG
* *
51622 TTA TTA TTA TTA TTA TTAA TTA TTA TTA TTA TTA TTA ATA -AA TTA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA
51667 TTA TTA TTA
1 TTA TTA TTA
51676 CATTTCAGGC
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
2 1 0.02
3 42 0.91
4 3 0.07
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:51646 original size:19 final size:19
Alignment explanation
Indices: 51622--51675 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
51612 TATCCATTTG
51622 TTATTATTATTATTATTAA
1 TTATTATTATTATTATTAA
51641 TTATTATTATTATTATTAA
1 TTATTATTATTATTATTAA
*
51660 TAAATTATTATTATTA
1 T-TATTATTATTATTA
51676 CATTTCAGGC
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 20 0.61
20 13 0.39
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TTATTATTATTATTATTAA
Found at i:62280 original size:54 final size:55
Alignment explanation
Indices: 62221--62384 Score: 167
Period size: 54 Copynumber: 3.0 Consensus size: 55
62211 TATTGATCAT
* ** *
62221 ACATCTAGGCAAAAGTCACGGGAAAAGATGAATGTATTGTCGAATGTTTTACG-A
1 ACATCTAAGCAAAAGTCACAAGAAAAGATGAATGTATTGTCAAATGTTTTACGAA
* * * *
62275 ACATCTAAGCAGAAGCCATAA-AAAATGATGAATGTATTGTTAAATG-TTTACGAA
1 ACATCTAAGCAAAAGTCACAAGAAAA-GATGAATGTATTGTCAAATGTTTTACGAA
* * * *
62329 ACATCTATGCAGAAA-TCACAAGAAATGATGAATGTGTTGTCAAATATTTTAC-AA
1 ACATCTAAGCA-AAAGTCACAAGAAAAGATGAATGTATTGTCAAATGTTTTACGAA
62383 AC
1 AC
62385 CAATTATTCT
Statistics
Matches: 89, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
53 10 0.11
54 69 0.78
55 10 0.11
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.27
Consensus pattern (55 bp):
ACATCTAAGCAAAAGTCACAAGAAAAGATGAATGTATTGTCAAATGTTTTACGAA
Found at i:62797 original size:21 final size:22
Alignment explanation
Indices: 62751--62801 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
62741 TCTATATTCC
*
62751 TCAAAGATGATAGATTCTCTTT
1 TCAAAGATGATAGATTATCTTT
62773 TCAAAGATGATAGATTATC-TT
1 TCAAAGATGATAGATTATCTTT
62794 TCAAAGAT
1 TCAAAGAT
62802 AAAAGCTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 10 0.36
22 18 0.64
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (22 bp):
TCAAAGATGATAGATTATCTTT
Found at i:63359 original size:113 final size:113
Alignment explanation
Indices: 63162--63492 Score: 506
Period size: 113 Copynumber: 2.9 Consensus size: 113
63152 GATTCGAATC
*
63162 CATCACTCAATGGATCAACA-TGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCACTCGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
63226 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATT
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATT
* *
63274 CATCACTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGATGAAGGA
1 CATCACTCGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* * * * **
63339 AGAAGAAATTCATAAAGAGAAGAATTTGTTCAACCTTCTGCTTGAATT
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATT
* * * * *
63387 CATTACTCGATGGATCAACTTTTCCAGAGGA-AGTTCATAATGAGAAGAACTCATTTGAAG-AGG
1 CATCACTCGATGGATCAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
63450 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCT
65 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCT
63493 TGACTCTATC
Statistics
Matches: 197, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
112 60 0.30
113 135 0.69
114 2 0.01
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (113 bp):
CATCACTCGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATT
Found at i:63577 original size:19 final size:19
Alignment explanation
Indices: 63553--63616 Score: 53
Period size: 19 Copynumber: 3.3 Consensus size: 19
63543 TTCATAACGA
63553 GAAGAACTTATCTGAAGAG
1 GAAGAACTTATCTGAAGAG
**
63572 GAAGAA-GAAGTTCAT-AATGA-
1 GAAGAACTTA--TC-TGAA-GAG
63592 GAAGAACTTATCTGAAGAG
1 GAAGAACTTATCTGAAGAG
63611 GAAGAA
1 GAAGAA
63617 GAAGTTCATA
Statistics
Matches: 34, Mismatches: 4, Indels: 14
0.65 0.08 0.27
Matches are distributed among these distances:
18 4 0.12
19 16 0.47
20 10 0.29
21 4 0.12
ACGTcount: A:0.47, C:0.08, G:0.27, T:0.19
Consensus pattern (19 bp):
GAAGAACTTATCTGAAGAG
Found at i:63579 original size:22 final size:22
Alignment explanation
Indices: 63552--63619 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
63542 GTTCATAACG
63552 AGAAGAACTTATCTGAAGAGGA
1 AGAAGAACTTATCTGAAGAGGA
* *
63574 AGAAGAA-GT-TC--ATA-ATG-
1 AGAAGAACTTATCTGA-AGAGGA
63591 AGAAGAACTTATCTGAAGAGGA
1 AGAAGAACTTATCTGAAGAGGA
63613 AGAAGAA
1 AGAAGAA
63620 GTTCATAATG
Statistics
Matches: 35, Mismatches: 4, Indels: 14
0.66 0.08 0.26
Matches are distributed among these distances:
17 7 0.20
18 4 0.11
19 3 0.09
20 3 0.09
21 4 0.11
22 14 0.40
ACGTcount: A:0.49, C:0.07, G:0.26, T:0.18
Consensus pattern (22 bp):
AGAAGAACTTATCTGAAGAGGA
Found at i:63594 original size:39 final size:39
Alignment explanation
Indices: 63540--63639 Score: 191
Period size: 39 Copynumber: 2.6 Consensus size: 39
63530 TTTCCAGATA
*
63540 AAGTTCATAACGAGAAGAACTTATCTGAAGAGGAAGAAG
1 AAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAG
63579 AAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAG
1 AAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAG
63618 AAGTTCATAATGAGAAGAACTT
1 AAGTTCATAATGAGAAGAACTT
63640 GTTCGACCTT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 60 1.00
ACGTcount: A:0.46, C:0.09, G:0.24, T:0.21
Consensus pattern (39 bp):
AAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAG
Found at i:63643 original size:20 final size:20
Alignment explanation
Indices: 63581--63643 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
63571 GGAAGAAGAA
63581 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
* ***
63601 -ATC-TGAA-GAGGAAGAAGAA
1 GTTCAT-AATGA-GAAGAACTT
63620 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
63640 GTTC
1 GTTC
63644 GACCTTAGTT
Statistics
Matches: 30, Mismatches: 8, Indels: 10
0.62 0.17 0.21
Matches are distributed among these distances:
18 3 0.10
19 10 0.33
20 14 0.47
21 3 0.10
ACGTcount: A:0.41, C:0.10, G:0.24, T:0.25
Consensus pattern (20 bp):
GTTCATAATGAGAAGAACTT
Found at i:63894 original size:138 final size:140
Alignment explanation
Indices: 63574--63923 Score: 446
Period size: 138 Copynumber: 2.5 Consensus size: 140
63564 CTGAAGAGGA
* *
63574 AGAAGAAGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAAC
1 AGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAT
* ** * * * * * *
63638 TTGTTCGACCTTAGTTTGATTCATCACCTATGGAGTTGAATGAAGGAAGAACCTTTCTTGAGGAT
66 TTGTTCAACCTTAGTTAAATTCATCACATATGAAGCTGAATCAAGCAAGAACCTTTCTTGAAGAT
*
63703 CAACATTTTC
131 CAACATTTCC
*
63713 AGAGGAAGTTCATAATGAGAAGAACTCATCT-AA-ATAGGAAGAAGAAGTTCATAATGAGAAGAA
1 AGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGA-AGGAAGAAGAAGTTCATAATGAGAAGAA
**
63776 TTTGTTCAACCTT-GCCTTAAATTCATCACATATGAAGCTGAATCAA-CAA-CCCCTCTT-TTGA
65 TTTGTTCAACCTTAG--TTAAATTCATCACATATGAAGCTGAATCAAGCAAGAACCT-TTCTTGA
63837 AGATCAACATTTCC
127 AGATCAACATTTCC
* * *
63851 AGAAGCAGTTCATAATGAGAAGAACTCATCTGAAGAATG-AGAAGAAATTCATAATGAGAAGAAT
1 AGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAT
63915 TTGTTCAAC
66 TTGTTCAAC
63924 TTTTTGCTAG
Statistics
Matches: 185, Mismatches: 19, Indels: 15
0.84 0.09 0.07
Matches are distributed among these distances:
138 84 0.45
139 76 0.41
140 25 0.14
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (140 bp):
AGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAT
TTGTTCAACCTTAGTTAAATTCATCACATATGAAGCTGAATCAAGCAAGAACCTTTCTTGAAGAT
CAACATTTCC
Found at i:64145 original size:3 final size:3
Alignment explanation
Indices: 64139--64175 Score: 65
Period size: 3 Copynumber: 12.0 Consensus size: 3
64129 TATCCATTCG
64139 TTA TTA TTA TTA TTA TTA TTA TTAA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA
64176 CATTTCAGGC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:70310 original size:24 final size:25
Alignment explanation
Indices: 70252--70310 Score: 70
Period size: 24 Copynumber: 2.4 Consensus size: 25
70242 AAATATAAAC
*
70252 AATTATTAAAATATTTAATAAATTA
1 AATTATTAAAATATATAATAAATTA
*
70277 AA-TATAAAAATACTAT-A-AAATTA
1 AATTATTAAAATA-TATAATAAATTA
70300 AATTATTAAAA
1 AATTATTAAAA
70311 AATTAATTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 8 0.28
24 17 0.59
25 4 0.14
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (25 bp):
AATTATTAAAATATATAATAAATTA
Found at i:71388 original size:30 final size:30
Alignment explanation
Indices: 71347--71426 Score: 97
Period size: 32 Copynumber: 2.6 Consensus size: 30
71337 ATTTTTCATC
* *
71347 TAAGTACTTAAAATATTTTTTTAGTTGAAA
1 TAAGTACTTAAAATATTTTTTTAATTAAAA
* *
71377 TAAGTATTTAAATTTAATTTTTTTAATTAAAA
1 TAAGTACTTAAA-AT-ATTTTTTTAATTAAAA
*
71409 TAAGTACCTAAAATATTT
1 TAAGTACTTAAAATATTT
71427 AATTTTTTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
30 15 0.37
31 2 0.05
32 24 0.59
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.47
Consensus pattern (30 bp):
TAAGTACTTAAAATATTTTTTTAATTAAAA
Found at i:72974 original size:20 final size:21
Alignment explanation
Indices: 72944--72991 Score: 82
Period size: 20 Copynumber: 2.4 Consensus size: 21
72934 AAATAACATA
72944 TTTTG-GATATTTAATTTA-T
1 TTTTGTGATATTTAATTTATT
72963 TTTTGTGATATTTAATTTATT
1 TTTTGTGATATTTAATTTATT
72984 TTTTGTGA
1 TTTTGTGA
72992 AACTTAAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 5 0.19
20 13 0.48
21 9 0.33
ACGTcount: A:0.23, C:0.00, G:0.12, T:0.65
Consensus pattern (21 bp):
TTTTGTGATATTTAATTTATT
Found at i:72998 original size:21 final size:20
Alignment explanation
Indices: 72954--72998 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
72944 TTTTGGATAT
* *
72954 TTAATTTATTTTTGTGATAT
1 TTAATTTATTTTTGTGAAAC
72974 TTAATTTATTTTTTGTGAAAC
1 TTAATTTA-TTTTTGTGAAAC
72995 TTAA
1 TTAA
72999 ATGTTACGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.29, C:0.02, G:0.09, T:0.60
Consensus pattern (20 bp):
TTAATTTATTTTTGTGAAAC
Found at i:73421 original size:34 final size:34
Alignment explanation
Indices: 73383--73467 Score: 152
Period size: 34 Copynumber: 2.5 Consensus size: 34
73373 TATGATTGAT
73383 CTCTCGGCGTCTTCAGTTGGATTCTTCATAGGAA
1 CTCTCGGCGTCTTCAGTTGGATTCTTCATAGGAA
*
73417 CTCTCGGCGTCTTCAGTTGGATTCTTCGTAGGAA
1 CTCTCGGCGTCTTCAGTTGGATTCTTCATAGGAA
*
73451 ATCTCGGCGTCTTCAGT
1 CTCTCGGCGTCTTCAGT
73468 GCTGTGCATG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 49 1.00
ACGTcount: A:0.15, C:0.25, G:0.25, T:0.35
Consensus pattern (34 bp):
CTCTCGGCGTCTTCAGTTGGATTCTTCATAGGAA
Found at i:73521 original size:22 final size:22
Alignment explanation
Indices: 73489--73542 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
73479 GACTGGACGT
*
73489 GAGAAATCACGGGTTCTGCAAG
1 GAGAAAGCACGGGTTCTGCAAG
73511 GAGAAAGCACGGGTTCTGCAAG
1 GAGAAAGCACGGGTTCTGCAAG
73533 GAGAAAGCAC
1 GAGAAAGCAC
73543 AGAAATCACG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.35, C:0.19, G:0.33, T:0.13
Consensus pattern (22 bp):
GAGAAAGCACGGGTTCTGCAAG
Found at i:73598 original size:23 final size:23
Alignment explanation
Indices: 73572--73615 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
73562 TCCTGCAGGG
73572 CTGCACGTCTGCATGTGGGGGTC
1 CTGCACGTCTGCATGTGGGGGTC
73595 CTGCACGTCTGCATGTGGGGG
1 CTGCACGTCTGCATGTGGGGG
73616 GCATGCAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.09, C:0.25, G:0.41, T:0.25
Consensus pattern (23 bp):
CTGCACGTCTGCATGTGGGGGTC
Found at i:73622 original size:23 final size:22
Alignment explanation
Indices: 73569--73622 Score: 81
Period size: 23 Copynumber: 2.4 Consensus size: 22
73559 GGGTCCTGCA
73569 GGGCTGCACGTCTGCATGTGGG
1 GGGCTGCACGTCTGCATGTGGG
*
73591 GGTCCTGCACGTCTGCATGTGGG
1 GG-GCTGCACGTCTGCATGTGGG
73614 GGGCATGCA
1 GGGC-TGCA
73623 ACTGTTGGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 3 0.11
23 25 0.89
ACGTcount: A:0.11, C:0.24, G:0.43, T:0.22
Consensus pattern (22 bp):
GGGCTGCACGTCTGCATGTGGG
Found at i:74360 original size:172 final size:173
Alignment explanation
Indices: 74073--74431 Score: 569
Period size: 172 Copynumber: 2.1 Consensus size: 173
74063 TTGTAAAGTT
* * * *
74073 TTAGGGACCGTTTTGTAAAATTTAAGGAATTTAAGGAATAAGAGTAAATTATTAAAAGTTGTTAT
1 TTAGGGATCGTTTTGCAAAATTTAAGGAATTTAAGGAATAAGAGTAAATTATAAAAAGTTGGTAT
*
74138 ACTATGCTGGAATTTAGTATTAGTATGCTTAATTGGTTAAATTAGAAAGAATTTA-AAATTTA-T
66 ACTATGCTGGAATTTAGTATTAATATGCTTAATTGGTTAAATTAGAAAGAATTTATAAATTTAGT
*
74201 GGATTAAATTGCTAACTTTGAAAATGTTGAGAACCAAATAGTAA
131 -GATTAAATTGCAAACTTTGAAAATGTTGAGAACCAAATAGTAA
* *
74245 TTAGGGATCGTTTTGCAAAATTTGAGGAATTTAAGGAATTAGAGTAAATTATAAAAAGTTGGTAT
1 TTAGGGATCGTTTTGCAAAATTTAAGGAATTTAAGGAATAAGAGTAAATTATAAAAAGTTGGTAT
* *
74310 ACTATGCTTGAATTTAGTATTAATATGCTTAATTGGTTAAATTTGAAAGAATTTATAAATTTAGT
66 ACTATGCTGGAATTTAGTATTAATATGCTTAATTGGTTAAATTAGAAAGAATTTATAAATTTAGT
* *
74375 GATTAAATTGCAAAGTTTGAAAATGTTGAGAAGCAAATAGTAA
131 GATTAAATTGCAAACTTTGAAAATGTTGAGAACCAAATAGTAA
* *
74418 TTAGAGATCATTTT
1 TTAGGGATCGTTTT
74432 ATATTTGATG
Statistics
Matches: 171, Mismatches: 14, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
172 111 0.65
173 59 0.35
174 1 0.01
ACGTcount: A:0.40, C:0.05, G:0.18, T:0.37
Consensus pattern (173 bp):
TTAGGGATCGTTTTGCAAAATTTAAGGAATTTAAGGAATAAGAGTAAATTATAAAAAGTTGGTAT
ACTATGCTGGAATTTAGTATTAATATGCTTAATTGGTTAAATTAGAAAGAATTTATAAATTTAGT
GATTAAATTGCAAACTTTGAAAATGTTGAGAACCAAATAGTAA
Found at i:76186 original size:6 final size:6
Alignment explanation
Indices: 76172--76208 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
76162 CAAGAAGGAC
* *
76172 TGGGTG TGGGAG TGGGAG TGGGAG TGGGAG TAGGAG T
1 TGGGAG TGGGAG TGGGAG TGGGAG TGGGAG TGGGAG T
76209 TCTTCTCACC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.16, C:0.00, G:0.62, T:0.22
Consensus pattern (6 bp):
TGGGAG
Found at i:76198 original size:18 final size:18
Alignment explanation
Indices: 76167--76208 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
76157 GAAACCAAGA
* *
76167 AGGACTGGGTGTGGGAGT
1 AGGAGTGGGAGTGGGAGT
*
76185 GGGAGTGGGAGTGGGAGT
1 AGGAGTGGGAGTGGGAGT
76203 AGGAGT
1 AGGAGT
76209 TCTTCTCACC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.19, C:0.02, G:0.60, T:0.19
Consensus pattern (18 bp):
AGGAGTGGGAGTGGGAGT
Found at i:76714 original size:28 final size:27
Alignment explanation
Indices: 76682--76837 Score: 88
Period size: 24 Copynumber: 6.0 Consensus size: 27
76672 TCAGTAAATA
76682 TAAATCATTAAAGTCAATTAATTATTAT
1 TAAATCATTAAAGT-AATTAATTATTAT
*
76710 TAAATCATT-AA--AATTAA--ATCAT
1 TAAATCATTAAAGTAATTAATTATTAT
76732 TAAA--ATT-AAGTAATTATTATTAAATTAT
1 TAAATCATTAAAGTAATTA--ATT--ATTAT
* *
76760 TAAA--ATTAAATCATTAAAGTAATTATTAT
1 TAAATCATT-AA--AGT-AATTAATTATTAT
* *
76789 TAAATCATTAAA-TCATTAA--ATCAT
1 TAAATCATTAAAGTAATTAATTATTAT
76813 TAAATCATTAAAGTAATT-ATTATTA
1 TAAATCATTAAAGTAATTAATTATTA
76838 AAGCATTAAA
Statistics
Matches: 101, Mismatches: 9, Indels: 38
0.68 0.06 0.26
Matches are distributed among these distances:
20 5 0.05
22 13 0.13
24 24 0.24
25 4 0.04
26 7 0.07
27 3 0.03
28 21 0.21
29 9 0.09
30 3 0.03
31 6 0.06
32 2 0.02
33 4 0.04
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.42
Consensus pattern (27 bp):
TAAATCATTAAAGTAATTAATTATTAT
Found at i:76767 original size:9 final size:8
Alignment explanation
Indices: 76705--77673 Score: 217
Period size: 8 Copynumber: 126.2 Consensus size: 8
76695 TCAATTAATT
76705 ATTATTAA
1 ATTATTAA
*
76713 ATCATTAA
1 ATTATTAA
76721 A--ATTAA
1 ATTATTAA
*
76727 ATCATTAAA
1 ATTATT-AA
*
76736 ATTAAGTAA
1 ATT-ATTAA
76745 TTATTATTAA
1 --ATTATTAA
76755 ATTATTAA
1 ATTATTAA
76763 A--ATTAA
1 ATTATTAA
*
76769 ATCATTAA
1 ATTATTAA
*
76777 AGTAATT--
1 A-TTATTAA
76784 ATTATTAA
1 ATTATTAA
*
76792 ATCATTAA
1 ATTATTAA
*
76800 ATCATTAA
1 ATTATTAA
*
76808 ATCATTAA
1 ATTATTAA
*
76816 ATCATTAA
1 ATTATTAA
*
76824 AGTAATT--
1 A-TTATTAA
76831 ATTATTAA
1 ATTATTAA
**
76839 AGCATTAA
1 ATTATTAA
*
76847 A--GTTAA
1 ATTATTAA
*
76853 ATCATTAA
1 ATTATTAA
*
76861 AGTAATT--
1 A-TTATTAA
76868 ATTATTAA
1 ATTATTAA
*
76876 ATCATTAA
1 ATTATTAA
*
76884 ATCATTAA
1 ATTATTAA
*
76892 AGTAATT--
1 A-TTATTAA
*
76899 ATCATTAA
1 ATTATTAA
*
76907 ATCATTAA
1 ATTATTAA
*
76915 ATCATTAA
1 ATTATTAA
*
76923 AGTAATT--
1 A-TTATTAA
76930 ATTATTAA
1 ATTATTAA
*
76938 ATCATTAA
1 ATTATTAA
76946 A--ATTAA
1 ATTATTAA
*
76952 ATCATTAA
1 ATTATTAA
*
76960 AGTAATT--
1 A-TTATTAA
76967 ATTATTAA
1 ATTATTAA
*
76975 ATCATTAA
1 ATTATTAA
76983 A--ATTAA
1 ATTATTAA
*
76989 ATCATTAA
1 ATTATTAA
*
76997 AGTTAAATAA
1 A-TT-ATTAA
77007 TTATTATTAA
1 --ATTATTAA
*
77017 ATCATTAA
1 ATTATTAA
*
77025 A--GTTAA
1 ATTATTAA
*
77031 ATCATTAA
1 ATTATTAA
*
77039 AGTAATT--
1 A-TTATTAA
77046 ATTATTAA
1 ATTATTAA
*
77054 ATCATTAA
1 ATTATTAA
*
77062 AGTTAAATAA
1 A-TT-ATTAA
77072 TTATTATTAA
1 --ATTATTAA
*
77082 ATCATTAA
1 ATTATTAA
*
77090 A--GTTAA
1 ATTATTAA
*
77096 ATCATTAA
1 ATTATTAA
*
77104 AGTAATT--
1 A-TTATTAA
77111 ATTATTAA
1 ATTATTAA
*
77119 ATCATTAA
1 ATTATTAA
*
77127 ATCATTAA
1 ATTATTAA
*
77135 ATCATTAA
1 ATTATTAA
*
77143 AGTAATT--
1 A-TTATTAA
77150 ATTATTAA
1 ATTATTAA
*
77158 ATCATTAA
1 ATTATTAA
*
77166 A--GTTAA
1 ATTATTAA
*
77172 ATCATTAA
1 ATTATTAA
*
77180 ATCATTAA
1 ATTATTAA
77188 A--ATTAA
1 ATTATTAA
*
77194 ATCATTAA
1 ATTATTAA
*
77202 AGTAATT--
1 A-TTATTAA
77209 ATTATTAA
1 ATTATTAA
*
77217 ATCATTAA
1 ATTATTAA
77225 A--ATTAA
1 ATTATTAA
*
77231 ATCATTAA
1 ATTATTAA
*
77239 AGTAATT--
1 A-TTATTAA
77246 ATTATTAA
1 ATTATTAA
*
77254 ATCATTAA
1 ATTATTAA
*
77262 A--GTTAA
1 ATTATTAA
*
77268 ATCATTAA
1 ATTATTAA
*
77276 AGTAATT--
1 A-TTATTAA
77283 ATTATTAA
1 ATTATTAA
*
77291 ATCATTAA
1 ATTATTAA
77299 A--ATTAA
1 ATTATTAA
*
77305 ATCATTAA
1 ATTATTAA
*
77313 AGTAATT--
1 A-TTATTAA
77320 ATTATTAA
1 ATTATTAA
*
77328 ATCATTAA
1 ATTATTAA
*
77336 A--GTTAA
1 ATTATTAA
*
77342 ATCATTAA
1 ATTATTAA
*
77350 AGTAATT--
1 A-TTATTAA
77357 ATTATTAA
1 ATTATTAA
*
77365 ATCATTAA
1 ATTATTAA
*
77373 AGTTAAATAA
1 A-TT-ATTAA
77383 TTATTATTAA
1 --ATTATTAA
*
77393 ATCATTAA
1 ATTATTAA
*
77401 A--GTTAA
1 ATTATTAA
*
77407 ATCATTAA
1 ATTATTAA
*
77415 AGTAATT--
1 A-TTATTAA
77422 ATTATTAA
1 ATTATTAA
*
77430 ATCATTAA
1 ATTATTAA
*
77438 ATCATTAA
1 ATTATTAA
*
77446 ATCATTAA
1 ATTATTAA
*
77454 AGTAATT--
1 A-TTATTAA
77461 ATTATTAA
1 ATTATTAA
*
77469 ATCATTAA
1 ATTATTAA
*
77477 A--GTTAA
1 ATTATTAA
*
77483 ATCATTAA
1 ATTATTAA
*
77491 ATCATTAA
1 ATTATTAA
77499 A--ATTAA
1 ATTATTAA
*
77505 ATCATTAA
1 ATTATTAA
77513 ATTAATT--
1 ATT-ATTAA
77520 ATTATTAA
1 ATTATTAA
*
77528 ATCATTAA
1 ATTATTAA
77536 A--ATTAA
1 ATTATTAA
*
77542 ATCATTAA
1 ATTATTAA
*
77550 AGTAATT--
1 A-TTATTAA
77557 ATTATTAA
1 ATTATTAA
*
77565 ATCATTAA
1 ATTATTAA
*
77573 A--GTTAA
1 ATTATTAA
*
77579 ATCATTAA
1 ATTATTAA
*
77587 AGTAATT--
1 A-TTATTAA
77594 ATTATTAA
1 ATTATTAA
*
77602 ATCATTAA
1 ATTATTAA
*
77610 AGTTAAATAA
1 A-TT-ATTAA
77620 TTATTATTAA
1 --ATTATTAA
*
77630 ATCATTAA
1 ATTATTAA
*
77638 A--GTTAA
1 ATTATTAA
*
77644 ATAATTAA
1 ATTATTAA
77652 A-T-TTAA
1 ATTATTAA
*
77658 ATAATT--
1 ATTATTAA
77664 ATTATTAA
1 ATTATTAA
77672 AT
1 AT
77674 ATGTACTCGA
Statistics
Matches: 743, Mismatches: 99, Indels: 238
0.69 0.09 0.22
Matches are distributed among these distances:
6 189 0.25
7 21 0.03
8 395 0.53
9 85 0.11
10 38 0.05
11 11 0.01
12 4 0.01
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.41
Consensus pattern (8 bp):
ATTATTAA
Found at i:76789 original size:37 final size:37
Alignment explanation
Indices: 76739--77550 Score: 664
Period size: 37 Copynumber: 21.7 Consensus size: 37
76729 CATTAAAATT
*
76739 AAGTAATTATTATTAAATTATTAAAATTAAATCATTA
1 AAGTAATTATTATTAAATCATTAAAATTAAATCATTA
76776 AAGTAATTATTATTAAATCATTAAATCATTAAATCATTAAATCATTA
1 AAGT-A--ATTA-T---T-ATTAAATCATTAAA--ATTAAATCATTA
* *
76823 AAGTAATTATTATTAAAGCATTAAAGTTAAATCATTA
1 AAGTAATTATTATTAAATCATTAAAATTAAATCATTA
76860 AAGTAATTATTATTAAATC------ATTAAATCATTA
1 AAGTAATTATTATTAAATCATTAAAATTAAATCATTA
*
76891 AAGTAATTATCATTAAATC------ATTAAATCATTA
1 AAGTAATTATTATTAAATCATTAAAATTAAATCATTA
76922 AAGTAATTATTATTAAATCATTAAAATTAAATCATTA
1 AAGTAATTATTATTAAATCATTAAAATTAAATCATTA
76959 AAGTAATTATTATTAAATCATTAAAATTAAATCATTA
1 AAGTAATTATTATTAAATCATTAAAATTAAATCATTA
*
76996 AAGTTAAATAATTATTATTAAATCATTAAAGTTAAATCATTA
1 AAG-----TAATTATTATTAAATCATTAAAATTAAATCATTA
*
77038 AAGTAATTATTATTAAATC------ATTAAA--GTTA
1 AAGTAATTATTATTAAATCATTAAAATTAAATCATTA
*
77067 AA-TAATTATTATTAAATCATTAAAGTTAAATCATTA
1 AAGTAATTATTATTAAATCATTAAAATTAAATCATTA
77103 AAGTAATTATTATTAAATCATTAAATCATTAAATCATTA
1 AAGTAATTATTATTAAATCATTAAA--ATTAAATCATTA
*
77142 AAGTAATTATTATTAAATCATTAAAGTTAAATCATTA
1 AAGTAATTATTATTAAATCATTAAAATTAAATCATTA
* **
77179 AA-TCATTAAAATTAAATCATTAAAGTAATTATTATTAAATCATTAA
1 AAGTAATTATTATTAAATCA-T----TAA--A--ATTAAATCATT-A
* * * **
77225 AATTAA--ATCATTAAAGTAATTATTATTAAATCATTA
1 AAGTAATTATTATTAAA-TCATTAAAATTAAATCATTA
* * **
77261 AAGTTAA--ATCATTAAAGTAATTATTATTAAATCATTAA
1 AAG-TAATTATTATTAAA-TCATTAAAATTAAATCATT-A
* * * **
77299 AATTAA--ATCATTAAAGTAATTATTATTAAATCATTA
1 AAGTAATTATTATTAAA-TCATTAAAATTAAATCATTA
* * **
77335 AAGTTAA--ATCATTAAAGTAATTATTATTAAATCATTA
1 AAG-TAATTATTATTAAA-TCATTAAAATTAAATCATTA
*
77372 AAGTTAAATAATTATTATTAAATCATTAAAGTTAAATCATTA
1 AAG-----TAATTATTATTAAATCATTAAAATTAAATCATTA
77414 AAGTAATTATTATTAAATCATTAAATCATTAAATCATTA
1 AAGTAATTATTATTAAATCATTAAA--ATTAAATCATTA
*
77453 AAGTAATTATTATTAAATCATTAAAGTTAAATCATTA
1 AAGTAATTATTATTAAATCATTAAAATTAAATCATTA
* ** *
77490 AA-TCATTAAAATTAAATCATT-AAATTAATTATTATTA
1 AAGTAATTATTATTAAATCATTAAAATTAA--ATCATTA
* **
77527 AA-TCATTAAAATTAAATCATTAAA
1 AAGTAATTATTATTAAATCATTAAA
77551 GTAATTATTA
Statistics
Matches: 677, Mismatches: 40, Indels: 115
0.81 0.05 0.14
Matches are distributed among these distances:
28 16 0.02
29 5 0.01
31 64 0.09
34 5 0.01
35 6 0.01
36 41 0.06
37 310 0.46
38 6 0.01
39 85 0.13
40 5 0.01
41 9 0.01
42 55 0.08
43 10 0.01
44 5 0.01
45 31 0.05
46 6 0.01
47 18 0.03
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.41
Consensus pattern (37 bp):
AAGTAATTATTATTAAATCATTAAAATTAAATCATTA
Found at i:77393 original size:311 final size:311
Alignment explanation
Indices: 76662--77622 Score: 1463
Period size: 311 Copynumber: 3.1 Consensus size: 311
76652 ATATATTTAC
* * *
76662 TATTATTATATCAGT-AAATATAAATCATTAAAGTCAATTAATTATTATTAAATCATTAAAATTA
1 TATTATTAAATCATTAAAAT-TAAATCATTAAAG---A-TAATTATTATTAAATCATTAAAGTTA
* * * **
76726 AATCATT-AA--AATTA--AGT-AATTATT--A-TTAAATTATTAAAATTAAATCATTAAAG-T-
61 AATCATTAAAGTAATTATTATTAAATCATTAAAGTTAAATAATTATTATTAAATCATTAAAGTTA
* * * *
76780 AATTATT--ATTAA--ATCATTAAATCATTAAATCATTAAATCATTAAAGTAATTATTATTAAAG
126 AATCATTAAAGTAATTATTATTAAATCATTAAATCATTAAATCATTAAAGTAATTATTATTAAAT
* ** * * *
76841 CATTAAAGTTAAATCATTAAAGTAATTATTATTAAATCATTAAATCATTA-AAGTAATTATCATT
191 CATTAAAGTTAAATCATTAAA-TCATTAAAATTAAATCATTAAATAATTATTATTAA--ATCATT
*
76905 AAATCATTAAATCATTAAAGTAATTATTATTAAATCATTAAAATTAAATCATTAAAGTAAT
253 AAA--ATTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTTAAATCATTAAAGTAAT
76966 TATTATTAAATCATTAAAATTAAATCATTAAAGTTAAATAATTATTATTAAATCATTAAAGTTAA
1 TATTATTAAATCATTAAAATTAAATCATTAAAG----ATAATTATTATTAAATCATTAAAGTTAA
77031 ATCATTAAAGTAATTATTATTAAATCATTAAAGTTAAATAATTATTATTAAATCATTAAAGTTAA
62 ATCATTAAAGTAATTATTATTAAATCATTAAAGTTAAATAATTATTATTAAATCATTAAAGTTAA
77096 ATCATTAAAGTAATTATTATTAAATCATTAAATCATTAAATCATTAAAGTAATTATTATTAAATC
127 ATCATTAAAGTAATTATTATTAAATCATTAAATCATTAAATCATTAAAGTAATTATTATTAAATC
77161 ATTAAAGTTAAATCATTAAATCATTAAAATTAAATCATTAAAGTAATTATTATTAAATCATTAAA
192 ATTAAAGTTAAATCATTAAATCATTAAAATTAAATCATTAAA-TAATTATTATTAAATCATTAAA
77226 ATTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTTAAATCATTAAAGTAAT
256 ATTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTTAAATCATTAAAGTAAT
77282 TATTATTAAATCATTAAAATTAAATCATTAAAG-TAATTATTATTAAATCATTAAAGTTAAATCA
1 TATTATTAAATCATTAAAATTAAATCATTAAAGATAATTATTATTAAATCATTAAAGTTAAATCA
77346 TTAAAGTAATTATTATTAAATCATTAAAGTTAAATAATTATTATTAAATCATTAAAGTTAAATCA
66 TTAAAGTAATTATTATTAAATCATTAAAGTTAAATAATTATTATTAAATCATTAAAGTTAAATCA
77411 TTAAAGTAATTATTATTAAATCATTAAATCATTAAATCATTAAAGTAATTATTATTAAATCATTA
131 TTAAAGTAATTATTATTAAATCATTAAATCATTAAATCATTAAAGTAATTATTATTAAATCATTA
77476 AAGTTAAATCATTAAATCATTAAAATTAAATCATTAAATTAATTATTATTAAATCATTAAAATTA
196 AAGTTAAATCATTAAATCATTAAAATTAAATCATTAAA-TAATTATTATTAAATCATTAAAATTA
77541 AATCATTAAAGTAATTATTATTAAATCATTAAAGTTAAATCATTAAAGTAAT
260 AATCATTAAAGTAATTATTATTAAATCATTAAAGTTAAATCATTAAAGTAAT
* *
77593 TATTATTAAATCATTAAAGTTAAATAATTA
1 TATTATTAAATCATTAAAATTAAATCATTA
77623 TTATTAAATC
Statistics
Matches: 615, Mismatches: 23, Indels: 31
0.92 0.03 0.05
Matches are distributed among these distances:
304 58 0.09
305 9 0.01
307 5 0.01
309 2 0.00
310 6 0.01
311 305 0.50
312 1 0.00
313 25 0.04
314 1 0.00
315 6 0.01
316 88 0.14
317 4 0.01
318 28 0.05
319 73 0.12
320 4 0.01
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.41
Consensus pattern (311 bp):
TATTATTAAATCATTAAAATTAAATCATTAAAGATAATTATTATTAAATCATTAAAGTTAAATCA
TTAAAGTAATTATTATTAAATCATTAAAGTTAAATAATTATTATTAAATCATTAAAGTTAAATCA
TTAAAGTAATTATTATTAAATCATTAAATCATTAAATCATTAAAGTAATTATTATTAAATCATTA
AAGTTAAATCATTAAATCATTAAAATTAAATCATTAAATAATTATTATTAAATCATTAAAATTAA
ATCATTAAAGTAATTATTATTAAATCATTAAAGTTAAATCATTAAAGTAAT
Found at i:77579 original size:37 final size:36
Alignment explanation
Indices: 77064--77622 Score: 428
Period size: 37 Copynumber: 15.1 Consensus size: 36
77054 ATCATTAAAG
*
77064 TTAAATAATTATTATTAAATCATTAAAGTTAAATCA
1 TTAAATAATTATAATTAAATCATTAAAGTTAAATCA
* *
77100 TTAAAGTAATTATTATTAAATCATTAAATCATTAAATCA
1 TTAAA-TAATTATAATTAAATCATTAAA--GTTAAATCA
*
77139 TTAAAGTAATTATTATTAAATCATTAAAGTTAAATCA
1 TTAAA-TAATTATAATTAAATCATTAAAGTTAAATCA
* * *
77176 TTAAATCATTAAAATTAAATCATTAAAG-TAATTATTA
1 TTAAATAATTATAATTAAATCATTAAAGTTAA--ATCA
* * *
77213 TTAAATCATTAAAATTAAATCATTAAAG-TAATTATTA
1 TTAAATAATTATAATTAAATCATTAAAGTTAA--ATCA
* *
77250 TTAAATCATTA-AAGTTAAATCATTAAAG-TAATTATTA
1 TTAAATAATTATAA-TTAAATCATTAAAGTTAA--ATCA
* * *
77287 TTAAATCATTAAAATTAAATCATTAAAG-TAATTATTA
1 TTAAATAATTATAATTAAATCATTAAAGTTAA--ATCA
* *
77324 TTAAATCATTA-AAGTTAAATCATTAAAG-TAATTATTA
1 TTAAATAATTATAA-TTAAATCATTAAAGTTAA--ATCA
* * *
77361 TTAAATCATTA-AAGTTAAATAATTATTA-TTAAATCA
1 TTAAATAATTATAA-TTAAATCATTA-AAGTTAAATCA
* * *
77397 TTAAAGTTAA--ATCATTAAAGTAATTATTA-TTAAATCA
1 TTAAA--TAATTATAATTAAA-TCATTA-AAGTTAAATCA
* * * *
77434 TTAAATCATTAAATCATTAAAGTAATTATTA-TTAAATCA
1 TTAAATAATT--ATAATTAAA-TCATTA-AAGTTAAATCA
* *
77473 TTAAAGTTAA--ATCATTAAATCATTAAAATTAAATCA
1 TTAAA--TAATTATAATTAAATCATTAAAGTTAAATCA
* *
77509 TTAAATTAATTATTATTAAATCATTAAAATTAAATCA
1 TTAAA-TAATTATAATTAAATCATTAAAGTTAAATCA
*
77546 TTAAAGTAATTATTATTAAATCATTAAAGTTAAATCA
1 TTAAA-TAATTATAATTAAATCATTAAAGTTAAATCA
* *
77583 TTAAAGTAATTATTATTAAATCATTAAAGTTAAATAA
1 TTAAA-TAATTATAATTAAATCATTAAAGTTAAATCA
77620 TTA
1 TTA
77623 TTATTAAATC
Statistics
Matches: 481, Mismatches: 19, Indels: 45
0.88 0.03 0.08
Matches are distributed among these distances:
35 10 0.02
36 61 0.13
37 332 0.69
38 8 0.02
39 68 0.14
41 2 0.00
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.41
Consensus pattern (36 bp):
TTAAATAATTATAATTAAATCATTAAAGTTAAATCA
Found at i:77671 original size:14 final size:13
Alignment explanation
Indices: 76676--77674 Score: 244
Period size: 14 Copynumber: 75.8 Consensus size: 13
76666 ATTATATCAG
*
76676 TAAATATAAATCAT
1 TAAAT-TAAATAAT
* *
76690 TAAAGTCAATTAAT
1 TAAA-TTAAATAAT
* *
76704 TATTATTAAATCAT
1 TA-AATTAAATAAT
*
76718 TAAAATTAAATCAT
1 T-AAATTAAATAAT
*
76732 TAAAATTAAGTAAT
1 T-AAATTAAATAAT
* *
76746 TATTATTAAATTAT
1 TA-AATTAAATAAT
*
76760 TAAAATTAAATCAT
1 T-AAATTAAATAAT
* *
76774 TAAAGT-AATTAT
1 TAAATTAAATAAT
*
76786 T--ATTAAATCAT
1 TAAATTAAATAAT
*
76797 TAAATCATTAAATCAT
1 T-AA--ATTAAATAAT
76813 TAAATCATTAAAGTAAT
1 T-AA--ATTAAA-TAAT
* **
76830 TATTATTAAAGCAT
1 TA-AATTAAATAAT
*
76844 TAAAGTTAAATCAT
1 TAAA-TTAAATAAT
* *
76858 TAAAGT-AATTAT
1 TAAATTAAATAAT
*
76870 T--ATTAAATCAT
1 TAAATTAAATAAT
76881 TAAATCATTAAAGTAAT
1 T-AA--ATTAAA-TAAT
* *
76898 TATCATTAAATCAT
1 TA-AATTAAATAAT
76912 TAAATCATTAAAGTAAT
1 T-AA--ATTAAA-TAAT
* *
76929 TATTATTAAATCAT
1 TA-AATTAAATAAT
*
76943 TAAAATTAAATCAT
1 T-AAATTAAATAAT
* *
76957 TAAAGT-AATTAT
1 TAAATTAAATAAT
*
76969 T--ATTAAATCAT
1 TAAATTAAATAAT
*
76980 TAAAATTAAATCAT
1 T-AAATTAAATAAT
76994 TAAAGTTAAATAAT
1 TAAA-TTAAATAAT
* *
77008 TATTATTAAATCAT
1 TA-AATTAAATAAT
*
77022 TAAAGTTAAATCAT
1 TAAA-TTAAATAAT
* *
77036 TAAAGT-AATTAT
1 TAAATTAAATAAT
*
77048 T--ATTAAATCAT
1 TAAATTAAATAAT
77059 TAAAGTTAAATAAT
1 TAAA-TTAAATAAT
* *
77073 TATTATTAAATCAT
1 TA-AATTAAATAAT
*
77087 TAAAGTTAAATCAT
1 TAAA-TTAAATAAT
* *
77101 TAAAGT-AATTAT
1 TAAATTAAATAAT
*
77113 T--ATTAAATCAT
1 TAAATTAAATAAT
*
77124 TAAATCATTAAATCAT
1 T-AA--ATTAAATAAT
* *
77140 TAAAGT-AATTAT
1 TAAATTAAATAAT
*
77152 T--ATTAAATCAT
1 TAAATTAAATAAT
*
77163 TAAAGTTAAATCAT
1 TAAA-TTAAATAAT
*
77177 TAAATCATTAA-AAT
1 TAAAT--TAAATAAT
77191 TAAATCATTAAAGTAAT
1 T-AA--ATTAAA-TAAT
* *
77208 TATTATTAAATCAT
1 TA-AATTAAATAAT
*
77222 TAAAATTAAATCAT
1 T-AAATTAAATAAT
* *
77236 TAAAGT-AATTAT
1 TAAATTAAATAAT
*
77248 T--ATTAAATCAT
1 TAAATTAAATAAT
*
77259 TAAAGTTAAATCAT
1 TAAA-TTAAATAAT
* *
77273 TAAAGT-AATTAT
1 TAAATTAAATAAT
*
77285 T--ATTAAATCAT
1 TAAATTAAATAAT
*
77296 TAAAATTAAATCAT
1 T-AAATTAAATAAT
* *
77310 TAAAGT-AATTAT
1 TAAATTAAATAAT
*
77322 T--ATTAAATCAT
1 TAAATTAAATAAT
*
77333 TAAAGTTAAATCAT
1 TAAA-TTAAATAAT
* *
77347 TAAAGT-AATTAT
1 TAAATTAAATAAT
*
77359 T--ATTAAATCAT
1 TAAATTAAATAAT
77370 TAAAGTTAAATAAT
1 TAAA-TTAAATAAT
* *
77384 TATTATTAAATCAT
1 TA-AATTAAATAAT
*
77398 TAAAGTTAAATCAT
1 TAAA-TTAAATAAT
* *
77412 TAAAGT-AATTAT
1 TAAATTAAATAAT
*
77424 T--ATTAAATCAT
1 TAAATTAAATAAT
*
77435 TAAATCATTAAATCAT
1 T-AA--ATTAAATAAT
* *
77451 TAAAGT-AATTAT
1 TAAATTAAATAAT
*
77463 T--ATTAAATCAT
1 TAAATTAAATAAT
*
77474 TAAAGTTAAATCAT
1 TAAA-TTAAATAAT
*
77488 TAAA-T-CAT--T
1 TAAATTAAATAAT
* *
77497 AAAATTAAATCAT
1 TAAATTAAATAAT
*
77510 TAAATT-AATTAT
1 TAAATTAAATAAT
*
77522 T--ATTAAATCAT
1 TAAATTAAATAAT
*
77533 TAAAATTAAATCAT
1 T-AAATTAAATAAT
* *
77547 TAAAGT-AATTAT
1 TAAATTAAATAAT
*
77559 T--ATTAAATCAT
1 TAAATTAAATAAT
*
77570 TAAAGTTAAATCAT
1 TAAA-TTAAATAAT
* *
77584 TAAAGT-AATTAT
1 TAAATTAAATAAT
*
77596 T--ATTAAATCAT
1 TAAATTAAATAAT
77607 TAAAGTTAAATAAT
1 TAAA-TTAAATAAT
* *
77621 TATTATTAAATCAT
1 TA-AATTAAATAAT
77635 TAAAGTTAAATAAT
1 TAAA-TTAAATAAT
77649 TAAATTTAAATAAT
1 TAAA-TTAAATAAT
*
77663 TATTATTAAATA
1 TA-AATTAAATA
77675 TGTACTCGAG
Statistics
Matches: 762, Mismatches: 116, Indels: 214
0.70 0.11 0.20
Matches are distributed among these distances:
9 4 0.01
10 32 0.04
11 94 0.12
12 91 0.12
13 55 0.07
14 360 0.47
15 48 0.06
16 60 0.08
17 18 0.02
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.41
Consensus pattern (13 bp):
TAAATTAAATAAT
Found at i:81104 original size:18 final size:18
Alignment explanation
Indices: 81081--81129 Score: 98
Period size: 18 Copynumber: 2.7 Consensus size: 18
81071 GCATACAACA
81081 AATCTCACGCTTCAGACG
1 AATCTCACGCTTCAGACG
81099 AATCTCACGCTTCAGACG
1 AATCTCACGCTTCAGACG
81117 AATCTCACGCTTC
1 AATCTCACGCTTC
81130 GACCACAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.27, C:0.35, G:0.14, T:0.24
Consensus pattern (18 bp):
AATCTCACGCTTCAGACG
Found at i:82480 original size:5 final size:5
Alignment explanation
Indices: 82467--82515 Score: 89
Period size: 5 Copynumber: 9.8 Consensus size: 5
82457 GGTTTCAGAG
*
82467 TTCTA TTCTC TTCTC TTCTC TTCTC TTCTC TTCTC TTCTC TTCTC TTCT
1 TTCTC TTCTC TTCTC TTCTC TTCTC TTCTC TTCTC TTCTC TTCTC TTCT
82516 TCCTTCTTCA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
5 43 1.00
ACGTcount: A:0.02, C:0.37, G:0.00, T:0.61
Consensus pattern (5 bp):
TTCTC
Found at i:83917 original size:23 final size:24
Alignment explanation
Indices: 83883--83928 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
83873 GGGTCTACGC
83883 GGTCCTTCGGGAC-ATTTCATAGT
1 GGTCCTTCGGGACAATTTCATAGT
*
83906 GGTCCTTTGGGACAAATTTCATA
1 GGTCCTTCGGGAC-AATTTCATA
83929 ACCCCTAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 12 0.60
25 8 0.40
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.35
Consensus pattern (24 bp):
GGTCCTTCGGGACAATTTCATAGT
Found at i:85478 original size:42 final size:43
Alignment explanation
Indices: 85400--85483 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 43
85390 ACTTGAGACT
* *
85400 TTTAAAGATAACAACTATTCATTTAACTATTGAAATCATTTGG
1 TTTAAAGATAACAACTATTCATTTAACCATTAAAATCATTTGG
* *
85443 TTTAAGGATAACGACTA-TCATTTAACCATTAAAATCATTTG
1 TTTAAAGATAACAACTATTCATTTAACCATTAAAATCATTTG
85484 ATTCATACAT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 22 0.59
43 15 0.41
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.38
Consensus pattern (43 bp):
TTTAAAGATAACAACTATTCATTTAACCATTAAAATCATTTGG
Found at i:86131 original size:28 final size:28
Alignment explanation
Indices: 86071--86133 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
86061 TTAATTATTT
* ** *
86071 CTATTATTATATTAGTATTGTTATTATA
1 CTATTATTATATTAGTAGTACTAGTATA
86099 CTATTATTATATTAGTAGTACTAGTATTA
1 CTATTATTATATTAGTAGTACTAGTA-TA
86128 -TATTAT
1 CTATTAT
86134 GTTACTATTG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 28 0.93
29 2 0.07
ACGTcount: A:0.33, C:0.05, G:0.08, T:0.54
Consensus pattern (28 bp):
CTATTATTATATTAGTAGTACTAGTATA
Found at i:87483 original size:30 final size:30
Alignment explanation
Indices: 87447--87508 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
87437 ACTCCTAATT
*
87447 ATCGAAGTCATTAACTGTCAAAATCACTTC
1 ATCGAAGTCATTAACTATCAAAATCACTTC
*
87477 ATCGAAGTCATTAACTATTAAAATCACTTC
1 ATCGAAGTCATTAACTATCAAAATCACTTC
87507 AT
1 AT
87509 GTGTGGTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (30 bp):
ATCGAAGTCATTAACTATCAAAATCACTTC
Found at i:91221 original size:15 final size:15
Alignment explanation
Indices: 91197--91226 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
91187 TTGCAACAAC
*
91197 CTTCATAATATAGAA
1 CTTCAGAATATAGAA
91212 CTTCAGAATATAGAA
1 CTTCAGAATATAGAA
91227 AGAGAACATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.13, G:0.10, T:0.30
Consensus pattern (15 bp):
CTTCAGAATATAGAA
Found at i:92387 original size:29 final size:29
Alignment explanation
Indices: 92345--92403 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
92335 ATTTTCACCT
92345 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
92374 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
92403 A
1 A
92404 TTAATTTAGG
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:0.49, C:0.14, G:0.14, T:0.24
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Found at i:97048 original size:29 final size:29
Alignment explanation
Indices: 97006--97064 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
96996 ATTTTCACCT
*
97006 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAACCAATGACATCAA
97035 AACTAAATTGATGTAACCAATGACATCAA
1 AACTAAATTGATGTAACCAATGACATCAA
97064 A
1 A
97065 TTAATTTAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.49, C:0.15, G:0.12, T:0.24
Consensus pattern (29 bp):
AACTAAATTGATGTAACCAATGACATCAA
Found at i:98034 original size:19 final size:19
Alignment explanation
Indices: 98006--98045 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
97996 TTCATAGTAA
*
98006 TTTACGGTTTCTATATTTT
1 TTTACAGTTTCTATATTTT
98025 TTTACAGTTTCTATATTTT
1 TTTACAGTTTCTATATTTT
98044 TT
1 TT
98046 CATCTTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.17, C:0.10, G:0.07, T:0.65
Consensus pattern (19 bp):
TTTACAGTTTCTATATTTT
Found at i:99198 original size:3 final size:3
Alignment explanation
Indices: 99192--99217 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
99182 GTAGAGAAGA
99192 AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AA
99218 AACCCAATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:103167 original size:12 final size:12
Alignment explanation
Indices: 103152--103198 Score: 58
Period size: 12 Copynumber: 3.7 Consensus size: 12
103142 CCGGTTTTTT
*
103152 AACCGGATAAAA
1 AACCGGTTAAAA
103164 AACCGGTTTGAAAAA
1 AACCGG-TT--AAAA
103179 AACCGGTTAAAA
1 AACCGGTTAAAA
103191 AACCGGTT
1 AACCGGTT
103199 TTTATCCGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
12 18 0.58
13 1 0.03
14 2 0.06
15 10 0.32
ACGTcount: A:0.47, C:0.17, G:0.19, T:0.17
Consensus pattern (12 bp):
AACCGGTTAAAA
Found at i:105515 original size:21 final size:21
Alignment explanation
Indices: 105491--105530 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
105481 TTTATTTTAT
105491 AACTTTATTTCAATTATCGTA
1 AACTTTATTTCAATTATCGTA
*
105512 AACTTTGTTTCAATTATCG
1 AACTTTATTTCAATTATCG
105531 AACTTGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.47
Consensus pattern (21 bp):
AACTTTATTTCAATTATCGTA
Found at i:105578 original size:33 final size:33
Alignment explanation
Indices: 105525--105623 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
105515 TTTGTTTCAA
105525 TTATCGAACTT-GAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
105557 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
* * *
105590 TTATCAAACTTGGAAGTATTTAAGTATTTCAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
105623 T
1 T
105624 ATGTTGAGTT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 11 0.17
33 52 0.83
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.45
Consensus pattern (33 bp):
TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
Found at i:105652 original size:13 final size:13
Alignment explanation
Indices: 105609--105663 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
105599 TTGGAAGTAT
105609 TTAAGTATTTCAA
1 TTAAGTATTTCAA
* *
105622 TTATGTTGAGTT-AA
1 TTAAG-T-ATTTCAA
105636 TTAAGTATTTCAA
1 TTAAGTATTTCAA
*
105649 TTAAGTATTTGAA
1 TTAAGTATTTCAA
105662 TT
1 TT
105664 TATCGAACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.49
Consensus pattern (13 bp):
TTAAGTATTTCAA
Found at i:106099 original size:17 final size:17
Alignment explanation
Indices: 106079--106112 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
106069 GTTTTTTTAT
106079 AACCGGTTTTTTAAAAA
1 AACCGGTTTTTTAAAAA
106096 AACCGGTTTTTTAAAAA
1 AACCGGTTTTTTAAAAA
106113 CCGAAACCGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (17 bp):
AACCGGTTTTTTAAAAA
Found at i:106232 original size:15 final size:17
Alignment explanation
Indices: 106206--106237 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
106196 TTCTATGGGA
106206 AAAAACCGGAT-CGGAT
1 AAAAACCGGATCCGGAT
106222 AAAAACC-GATCCGGAT
1 AAAAACCGGATCCGGAT
106238 CGGATTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.20
16 12 0.80
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (17 bp):
AAAAACCGGATCCGGAT
Found at i:108192 original size:17 final size:17
Alignment explanation
Indices: 108157--108192 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
108147 TTATGTTTAC
*
108157 CAGTTTCTTTCATTAAA
1 CAGTTTCTTTCATGAAA
*
108174 CAGTTTCTTTCATGCAA
1 CAGTTTCTTTCATGAAA
108191 CA
1 CA
108193 ATTCTTGCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.28, C:0.22, G:0.08, T:0.42
Consensus pattern (17 bp):
CAGTTTCTTTCATGAAA
Found at i:110245 original size:67 final size:67
Alignment explanation
Indices: 110161--110299 Score: 208
Period size: 67 Copynumber: 2.1 Consensus size: 67
110151 TAGTTAAGTT
* * * *
110161 TTTAACGACGAGGTACTAAAATAAAATAAAAACTAAACATTA-GTTATGGTTTTGAAAGAATTGA
1 TTTAACGACAAGGTACTAAAATAAAACAAAAACTAAACATTATG-TATGATTTTGAAAAAATTGA
110225 AAG
65 AAG
* *
110228 TTTAATGACAAGGTACTAAAATGAAACAAAAACTAAACATTATGTATGATTTTGAAAAAATTGAA
1 TTTAACGACAAGGTACTAAAATAAAACAAAAACTAAACATTATGTATGATTTTGAAAAAATTGAA
110293 AG
66 AG
110295 TTTAA
1 TTTAA
110300 GTATTAAAAC
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
67 64 0.98
68 1 0.02
ACGTcount: A:0.49, C:0.07, G:0.14, T:0.29
Consensus pattern (67 bp):
TTTAACGACAAGGTACTAAAATAAAACAAAAACTAAACATTATGTATGATTTTGAAAAAATTGAA
AG
Found at i:116665 original size:43 final size:43
Alignment explanation
Indices: 116598--116859 Score: 183
Period size: 43 Copynumber: 6.1 Consensus size: 43
116588 TGAAAACAAA
* * * *
116598 AAACGCCACAATAGGTCAAGATCTATAGCGGTATTTTTGGAAC
1 AAACGCCGCAAAAAGTCAAGATCTATAGCGGCATTTTTGGAAC
* * **
116641 AAATGCCGCAAAAAGTCAATATCTATAGCGGCATTTTCAGAAC
1 AAACGCCGCAAAAAGTCAAGATCTATAGCGGCATTTTTGGAAC
* * * * * ** * *
116684 AAACGTCACAAAAGGT-AGATATATATAGCAAC-GTTTT-CAATC
1 AAACGCCGCAAAAAGTCA-AGATCTATAGCGGCATTTTTGGAA-C
* * * * * **
116726 AAACACCGCAAAAGGTCAATATCTATAGCGACGTTTTTGTTAC
1 AAACGCCGCAAAAAGTCAAGATCTATAGCGGCATTTTTGGAAC
* * *
116769 AAACGCCGTAAAAAATCAAGATCTATAGCGGCATTTTTTGATAC
1 AAACGCCGCAAAAAGTCAAGATCTATAGCGGCATTTTTGGA-AC
* *
116813 AAGCACCGC-AAAAGATC-AGATCTATAGCGGCATTTTTGGATAC
1 AAACGCCGCAAAAAG-TCAAGATCTATAGCGGCATTTTTGGA-AC
116856 AAAC
1 AAAC
116860 ACCACTAATT
Statistics
Matches: 170, Mismatches: 42, Indels: 14
0.75 0.19 0.06
Matches are distributed among these distances:
41 2 0.01
42 30 0.18
43 127 0.75
44 11 0.06
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.25
Consensus pattern (43 bp):
AAACGCCGCAAAAAGTCAAGATCTATAGCGGCATTTTTGGAAC
Found at i:121548 original size:41 final size:41
Alignment explanation
Indices: 121504--121769 Score: 243
Period size: 41 Copynumber: 6.5 Consensus size: 41
121494 AGTACGATAT
* * *
121504 TATAGCGGCGTTTGTATAAAAACGCCACTAGAGTATGAGTT
1 TATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTC
* * * * ** *
121545 TATAACAGAGTTTATATAAAAACATCACTAAAGTATGAGTC
1 TATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTC
* * * * * **
121586 TATAGCGGTGTTTGTATAAAAACGTCATTATA-TATGAACCC
1 TATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACG-AGTC
** * * * *
121627 TATTA-TTGCGTTTTTATATAAACGCCACTACAGTACGAGTA
1 TA-TAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTC
* * *
121668 TATAGCGACGTTT-T-TACAAACGCCGCTAAAGTACGAGTC
1 TATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTC
121707 TATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTC
1 TATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTC
*
121748 TATAGCGACGTTTGTATAAAAA
1 TATAGCGGCGTTTGTATAAAAA
121770 TGCTACTATA
Statistics
Matches: 179, Mismatches: 40, Indels: 12
0.77 0.17 0.05
Matches are distributed among these distances:
39 33 0.18
40 8 0.04
41 133 0.74
42 5 0.03
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.30
Consensus pattern (41 bp):
TATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTC
Found at i:121763 original size:162 final size:164
Alignment explanation
Indices: 121493--121812 Score: 396
Period size: 162 Copynumber: 2.0 Consensus size: 164
121483 GAAAAAATAG
* * * *
121493 CAGTACGATATTATAGCGGCGTTTGTATAAAAACGCCACTAGAGTATGAGTTTATAACAGAGTTT
1 CAGTACGATATTATAGCGACGTTTGTATAAAAACGCCACTAAAGTACGAGTCTATAACAGAGTTT
* * ** * *
121558 ATATAAAAACATCACTAAAGTATGAGTCTATAGCGGTGTTTGTATAAAAACG-TCATTATATATG
66 ATATAAAAACACCACTAAAGTACGAGTCTATAGCGACGTTTGTATAAAAACGCT-ACTATAGATG
**
121622 AACCCTATTATTGCGTTTTTATATAAACGCCACTA
130 AACCCTATTACGGCGTTTTTATATAAACGCCACTA
* * * * *
121657 CAGTACGAGTA-TATAGCGACGTTT-T-TACAAACGCCGCTAAAGTACGAGTCTATAGCGGCGTT
1 CAGTACGA-TATTATAGCGACGTTTGTATAAAAACGCCACTAAAGTACGAGTCTATAACAGAGTT
* * *
121719 TGTATAAAAACGCCACTAAAGTACGAGTCTATAGCGACGTTTGTATAAAAATGCTACTATAGATG
65 TATATAAAAACACCACTAAAGTACGAGTCTATAGCGACGTTTGTATAAAAACGCTACTATAGATG
* *
121784 AGCCCTATTACGGTGTTTTTATATAAACG
130 AACCCTATTACGGCGTTTTTATATAAACG
121813 TCGCTAAAGT
Statistics
Matches: 132, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
162 108 0.82
163 2 0.02
164 20 0.15
165 2 0.02
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.31
Consensus pattern (164 bp):
CAGTACGATATTATAGCGACGTTTGTATAAAAACGCCACTAAAGTACGAGTCTATAACAGAGTTT
ATATAAAAACACCACTAAAGTACGAGTCTATAGCGACGTTTGTATAAAAACGCTACTATAGATGA
ACCCTATTACGGCGTTTTTATATAAACGCCACTA
Found at i:127111 original size:28 final size:27
Alignment explanation
Indices: 127071--127160 Score: 110
Period size: 28 Copynumber: 3.2 Consensus size: 27
127061 GTTAGCTTTA
127071 ATATATGGTTGGTTCTACCACATAAATG
1 ATATATGGTTGGTTCTACCAC-TAAATG
127099 ATATATGGTTGGTTCTACCACTAAAATG
1 ATATATGGTTGGTTCTACCACT-AAATG
** *
127127 ATATATAATTGATTCTATCGC-CTAAATG
1 ATATATGGTTGGTTCTA-C-CACTAAATG
127155 ATATAT
1 ATATAT
127161 TATCGGCACT
Statistics
Matches: 56, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
27 1 0.02
28 51 0.91
29 3 0.05
30 1 0.02
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.38
Consensus pattern (27 bp):
ATATATGGTTGGTTCTACCACTAAATG
Found at i:127405 original size:14 final size:14
Alignment explanation
Indices: 127386--127413 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
127376 ATATAAACTC
127386 AAAGCGGTATGGTT
1 AAAGCGGTATGGTT
127400 AAAGCGGTATGGTT
1 AAAGCGGTATGGTT
127414 GGGTGGTCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.36, T:0.29
Consensus pattern (14 bp):
AAAGCGGTATGGTT
Found at i:137284 original size:24 final size:24
Alignment explanation
Indices: 137229--137290 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
137219 GTAAGCTCGA
* * *
137229 TTATAAGATAGTTTTTCGAGTTAT
1 TTATAAGTTTGTTTGTCGAGTTAT
*
137253 TTATAAGTTTGTTTGTCGATTTAT
1 TTATAAGTTTGTTTGTCGAGTTAT
137277 TTATAAGTTTGTTT
1 TTATAAGTTTGTTT
137291 ATGATATAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.24, C:0.03, G:0.16, T:0.56
Consensus pattern (24 bp):
TTATAAGTTTGTTTGTCGAGTTAT
Found at i:137663 original size:2 final size:2
Alignment explanation
Indices: 137656--137682 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
137646 TTGAAAATGA
137656 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 A
137683 GTAATACAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:138438 original size:43 final size:43
Alignment explanation
Indices: 138391--138529 Score: 133
Period size: 43 Copynumber: 3.2 Consensus size: 43
138381 TTTGGCAGAC
138391 AAACGCCGCAATAGTCGTTGATTTTTAGCGGCGTTTTCTTCAA
1 AAACGCCGCAATAGTCGTTGATTTTTAGCGGCGTTTTCTTCAA
* * * * *
138434 AAACGCCGCAGTAGAT-GTTTATTTTTACCGGCGTTTTCCT-AC
1 AAACGCCGCAATAG-TCGTTGATTTTTAGCGGCGTTTTCTTCAA
** *
138476 AAACGCCGCAGAATATGTC-TTGAGATTTCGCGGCGTTTT-TATCAA
1 AAACGCCGC--AATA-GTCGTTGATTTTTAGCGGCGTTTTCT-TCAA
138521 AAACGCCGC
1 AAACGCCGC
138530 TAAATGTATG
Statistics
Matches: 76, Mismatches: 13, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
42 10 0.13
43 34 0.45
44 21 0.28
45 11 0.14
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32
Consensus pattern (43 bp):
AAACGCCGCAATAGTCGTTGATTTTTAGCGGCGTTTTCTTCAA
Found at i:138928 original size:21 final size:21
Alignment explanation
Indices: 138867--138975 Score: 85
Period size: 21 Copynumber: 5.2 Consensus size: 21
138857 TGATATATTA
* * *
138867 CTTCTCTCTGTTCTGCCGCTG
1 CTTCTCTCTCTGCTTCCGCTG
* * *
138888 CCTCTCTCTGTGCTGCCGCTG
1 CTTCTCTCTCTGCTTCCGCTG
*
138909 CTTCTCTCTCTGCTTTCGCTG
1 CTTCTCTCTCTGCTTCCGCTG
* ** *
138930 CTGCTCTAGCTACTTCCGCTG
1 CTTCTCTCTCTGCTTCCGCTG
* *
138951 CTGCTCTCTCTGTTTCC-CTTG
1 CTTCTCTCTCTGCTTCCGC-TG
138972 CTTC
1 CTTC
138976 ATTTTCCGCT
Statistics
Matches: 71, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
20 1 0.01
21 70 0.99
ACGTcount: A:0.02, C:0.39, G:0.17, T:0.41
Consensus pattern (21 bp):
CTTCTCTCTCTGCTTCCGCTG
Found at i:140915 original size:23 final size:23
Alignment explanation
Indices: 140883--140937 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
140873 CATATTAAGG
* *
140883 TTAAAAAAATAAATATTAAAAGA
1 TTAAATAAATAAATATTAAAAAA
*
140906 TTAAATAAATAATTATTAAAAAA
1 TTAAATAAATAAATATTAAAAAA
*
140929 TTATATAAA
1 TTAAATAAA
140938 GGTTTTAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (23 bp):
TTAAATAAATAAATATTAAAAAA
Found at i:143159 original size:41 final size:41
Alignment explanation
Indices: 143102--143444 Score: 298
Period size: 41 Copynumber: 8.4 Consensus size: 41
143092 CGTTTATTCA
* *
143102 AAAAAAGCCAATAAAGTACGGGTCTTTGGCGGCGTTTGTAT
1 AAAAACGCCACTAAAGTACGGGTCTTTGGCGGCGTTTGTAT
* *
143143 AAAAACGCCACGAAAGTACGGGTCTTTGGCGGCATTTGTAT
1 AAAAACGCCACTAAAGTACGGGTCTTTGGCGGCGTTTGTAT
* *
143184 AAAAATGCCACGAAAGTACGGGTCTTTGGCGGCGTTTGTAT
1 AAAAACGCCACTAAAGTACGGGTCTTTGGCGGCGTTTGTAT
* * ** * **
143225 AGAAACGCCACTAAAGAACAAGTATTTACCGGCGTTTGTAT
1 AAAAACGCCACTAAAGTACGGGTCTTTGGCGGCGTTTGTAT
* * *
143266 AAAAACGCCACTACAA-TACGGGTATTTAGCGGCGTTTGTTT
1 AAAAACGCCACTA-AAGTACGGGTCTTTGGCGGCGTTTGTAT
* * * ** * *
143307 AGAAACACCACTAAAGTATGACTCTTTGGCGGCGTTTTTGCT
1 AAAAACGCCACTAAAGTACGGGTCTTTGGCGGCGTTTGT-AT
* ** * * * *
143349 -TAAACGCCACTAAAGTAC-ATTATTTAGCGGCGTTTATAC
1 AAAAACGCCACTAAAGTACGGGTCTTTGGCGGCGTTTGTAT
* ** * * *
143388 AAACACGCCACTAAAGTAC-TATCTTTTAGCGGCGTTTATAC
1 AAAAACGCCACTAAAGTACGGGTC-TTTGGCGGCGTTTGTAT
*
143429 AAAAACGTCACTAAAG
1 AAAAACGCCACTAAAG
143445 AACAAGTATT
Statistics
Matches: 251, Mismatches: 46, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
40 34 0.14
41 214 0.85
42 3 0.01
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.27
Consensus pattern (41 bp):
AAAAACGCCACTAAAGTACGGGTCTTTGGCGGCGTTTGTAT
Found at i:143420 original size:81 final size:80
Alignment explanation
Indices: 143249--143465 Score: 190
Period size: 81 Copynumber: 2.7 Consensus size: 80
143239 AGAACAAGTA
* * * * ** * *
143249 TTTACCGGCGTTTGTATAAAAACGCCACTACAA-TACGGGTATTTAGCGGCGTTTGTTTAGAAAC
1 TTTAGCGGCGTTTATACAAAAACGCCACTA-AAGAACAAGTATTTAGCGGCG-TT-TATACAAAC
143313 ACCACTAAAGTATGACTC
63 ACCACTAAAGTATGACTC
* * * ** * *
143331 TTTGGCGGCGTTTTTGCTTAAACGCCACTAAAGTAC-ATTATTTAGCGGCGTTTATACAAACACG
1 TTTAGCGGCGTTTATACAAAAACGCCACTAAAGAACAAGTATTTAGCGGCGTTTATACAAACA--
143395 CCACTAAAGTACT-A-TC
64 CCACTAAAGTA-TGACTC
* *
143411 TTTTAGCGGCGTTTATACAAAAACGTCACTAAAGAACAAGTATTTACCGGCGTTT
1 -TTTAGCGGCGTTTATACAAAAACGCCACTAAAGAACAAGTATTTAGCGGCGTTT
143466 GTTCAAAAAA
Statistics
Matches: 109, Mismatches: 20, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
79 8 0.07
80 4 0.04
81 55 0.50
82 42 0.39
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.30
Consensus pattern (80 bp):
TTTAGCGGCGTTTATACAAAAACGCCACTAAAGAACAAGTATTTAGCGGCGTTTATACAAACACC
ACTAAAGTATGACTC
Found at i:143462 original size:41 final size:41
Alignment explanation
Indices: 143088--143485 Score: 262
Period size: 41 Copynumber: 9.7 Consensus size: 41
143078 CTAATAAATT
* * * * ** * *
143088 GCGGCGTTTATTCAAAAAAAGCCAATAAAGTACGGGTCTTTG
1 GCGGCGTTTGTAC-AAAAACGCCACTAAAGTACAAGTATTTA
* * ** * *
143130 GCGGCGTTTGTATAAAAACGCCACGAAAGTACGGGTCTTTG
1 GCGGCGTTTGTACAAAAACGCCACTAAAGTACAAGTATTTA
* * * * ** * *
143171 GCGGCATTTGTATAAAAATGCCACGAAAGTACGGGTCTTTG
1 GCGGCGTTTGTACAAAAACGCCACTAAAGTACAAGTATTTA
* * *
143212 GCGGCGTTTGTATAGAAACGCCACTAAAGAACAAGTATTTA
1 GCGGCGTTTGTACAAAAACGCCACTAAAGTACAAGTATTTA
* * **
143253 CCGGCGTTTGTATAAAAACGCCACTACAA-TACGGGTATTTA
1 GCGGCGTTTGTACAAAAACGCCACTA-AAGTACAAGTATTTA
** * * ** * * *
143294 GCGGCGTTTGTTTAGAAACACCACTAAAGTATGACTCTTTG
1 GCGGCGTTTGTACAAAAACGCCACTAAAGTACAAGTATTTA
* * ** *
143335 GCGGCGTTTTTGCTTAAACGCCACTAAAGTAC-ATTATTTA
1 GCGGCGTTTGTACAAAAACGCCACTAAAGTACAAGTATTTA
* * * *
143375 GCGGCGTTTATACAAACACGCCACTAAAGTACTA-TCTTTTA
1 GCGGCGTTTGTACAAAAACGCCACTAAAGTACAAGT-ATTTA
* * *
143416 GCGGCGTTTATACAAAAACGTCACTAAAGAACAAGTATTTA
1 GCGGCGTTTGTACAAAAACGCCACTAAAGTACAAGTATTTA
* * *
143457 CCGGCGTTTGTTCAAAAAACGCCGCTAAA
1 GCGGCGTTTGTAC-AAAAACGCCACTAAA
143486 AGTGTCGCTA
Statistics
Matches: 293, Mismatches: 57, Indels: 12
0.81 0.16 0.03
Matches are distributed among these distances:
40 35 0.12
41 232 0.79
42 26 0.09
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (41 bp):
GCGGCGTTTGTACAAAAACGCCACTAAAGTACAAGTATTTA
Found at i:143701 original size:21 final size:21
Alignment explanation
Indices: 143676--143715 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
143666 ACGTTAAAAT
*
143676 ATTAACATATTAGGTAACGAA
1 ATTAACATATTAAGTAACGAA
*
143697 ATTAACATTTTAAGTAACG
1 ATTAACATATTAAGTAACG
143716 TTCTATTGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (21 bp):
ATTAACATATTAAGTAACGAA
Found at i:146408 original size:27 final size:27
Alignment explanation
Indices: 146365--146429 Score: 112
Period size: 27 Copynumber: 2.3 Consensus size: 27
146355 GTGGAAGGTA
146365 TATATTTTTTCAGGTCGGGAAGATGGTG
1 TATA-TTTTTCAGGTCGGGAAGATGGTG
146393 TATATTTTTCAGGTCGGGAAGATGGTG
1 TATATTTTTCAGGTCGGGAAGATGGTG
146420 TATAATTTTT
1 TAT-ATTTTT
146430 GGGCCAGTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
27 26 0.72
28 10 0.28
ACGTcount: A:0.23, C:0.06, G:0.28, T:0.43
Consensus pattern (27 bp):
TATATTTTTCAGGTCGGGAAGATGGTG
Found at i:149796 original size:2 final size:2
Alignment explanation
Indices: 149789--149819 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
149779 TGTTACAACC
149789 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 T
149820 TAACAAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:152627 original size:22 final size:22
Alignment explanation
Indices: 152560--152619 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
152550 ATTGAGTTTA
* *
152560 ATTTTAA-ATTTAAATTTATTAT
1 ATTTTAATA-TTATATTAATTAT
*
152582 TTTTTAATATTATATTAATTAT
1 ATTTTAATATTATATTAATTAT
152604 ATTTTAATATATATAT
1 ATTTTAATAT-TATAT
152620 ATATATATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
22 26 0.81
23 6 0.19
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
ATTTTAATATTATATTAATTAT
Done.