Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr2
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: 43198478
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2088848 characters in sequence are not A, C, G, or T
File 103 of 131
Found at i:34104786 original size:114 final size:115
Alignment explanation
Indices: 34104635--34104851 Score: 409
Period size: 114 Copynumber: 1.9 Consensus size: 115
34104625 GATCGGCCTC
34104635 GTCCGAATATATTATGTTATAAAATAATATTATATTAATTATATATGTTAAATAATAATTTTATT
1 GTCCGAATATATTATGTTAT-AAATAATATTATATTAATTATATATGTTAAATAATAATTTTATT
34104700 TATTTATATTAAATAATTAATCTAATAACAATTAAATTCGAGTTCGACTCA
65 TATTTATATTAAATAATTAATCTAATAACAATTAAATTCGAGTTCGACTCA
*
34104751 GTCCGAATATTTTATGTTAT-AATAATATTATATTAATTATATATGTTAAATAATAATTTTATTT
1 GTCCGAATATATTATGTTATAAATAATATTATATTAATTATATATGTTAAATAATAATTTTATTT
34104815 ATTTATATTAAATAATTAATCTAATAACAATTAAATT
66 ATTTATATTAAATAATTAATCTAATAACAATTAAATT
34104852 TATTACTCAA
Statistics
Matches: 100, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
114 81 0.81
116 19 0.19
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.46
Consensus pattern (115 bp):
GTCCGAATATATTATGTTATAAATAATATTATATTAATTATATATGTTAAATAATAATTTTATTT
ATTTATATTAAATAATTAATCTAATAACAATTAAATTCGAGTTCGACTCA
Found at i:34104813 original size:29 final size:27
Alignment explanation
Indices: 34104759--34104830 Score: 78
Period size: 29 Copynumber: 2.7 Consensus size: 27
34104749 CAGTCCGAAT
34104759 ATTT-TATGTTATAATAATATTATATTA
1 ATTTATATGTTA-AATAATATTATATTA
* *
34104786 ATTATATATGTTAAATAATAATTTTATTT
1 ATT-TATATGTTAAATAAT-ATTATATTA
34104815 ATTTATA--TTAAATAAT
1 ATTTATATGTTAAATAAT
34104831 TAATCTAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
26 9 0.22
27 3 0.08
28 11 0.28
29 17 0.43
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (27 bp):
ATTTATATGTTAAATAATATTATATTA
Found at i:34109697 original size:20 final size:20
Alignment explanation
Indices: 34109666--34109720 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
34109656 GCATTATAGA
34109666 TGCATAACAGGGGCACTAAA-G
1 TGCA-AACAGGGGCAC-AAATG
*
34109687 TGCAGACAGGGGCACAAATG
1 TGCAAACAGGGGCACAAATG
*
34109707 TGCAAACAAGGGCA
1 TGCAAACAGGGGCA
34109721 TCGTAGTGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 3 0.10
20 23 0.77
21 4 0.13
ACGTcount: A:0.38, C:0.20, G:0.31, T:0.11
Consensus pattern (20 bp):
TGCAAACAGGGGCACAAATG
Found at i:34119334 original size:10 final size:10
Alignment explanation
Indices: 34119314--34119369 Score: 62
Period size: 10 Copynumber: 5.5 Consensus size: 10
34119304 CATGAATTGT
34119314 AAAATTCATTA
1 AAAATT-ATTA
34119325 AAAATTATTA
1 AAAATTATTA
34119335 GAAAATTA-TA
1 -AAAATTATTA
34119345 AATAATTA-TA
1 AA-AATTATTA
*
34119355 AAAACTATTA
1 AAAATTATTA
34119365 AAAAT
1 AAAAT
34119370 ATTGAAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
9 6 0.15
10 21 0.52
11 13 0.32
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.34
Consensus pattern (10 bp):
AAAATTATTA
Found at i:34120118 original size:21 final size:20
Alignment explanation
Indices: 34120063--34120119 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
34120053 TGTAGTTTTT
* *
34120063 ATAATTTTTAATAATTTTAA
1 ATAATTTATAATATTTTTAA
* * *
34120083 AAAAATTATACTATTTTTATA
1 ATAATTTATAATATTTTTA-A
34120104 ATAATTTATAATATTT
1 ATAATTTATAATATTT
34120120 ANNNNNNNNN
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (20 bp):
ATAATTTATAATATTTTTAA
Found at i:34121629 original size:21 final size:22
Alignment explanation
Indices: 34121600--34121651 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
34121590 AATTCTCTAT
* *
34121600 ATTTCTAAATAAGTTTTTAT-A
1 ATTTTTAAATAACTTTTTATGA
34121621 ATTTTTAAATAACTTTTTATGA
1 ATTTTTAAATAACTTTTTATGA
34121643 ACTTTTTAA
1 A-TTTTTAA
34121652 TTCATGTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 18 0.67
22 2 0.07
23 7 0.26
ACGTcount: A:0.37, C:0.06, G:0.04, T:0.54
Consensus pattern (22 bp):
ATTTTTAAATAACTTTTTATGA
Found at i:34121743 original size:31 final size:30
Alignment explanation
Indices: 34121708--34121771 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 30
34121698 TTACTTACGC
*
34121708 AATCAATTAAACCCTCGTAAAATAATAAGAA
1 AATCAATTAAACCCTCATAAAATAA-AAGAA
* * *
34121739 AATCAATTAAGCCTTCATAAAATAAAATAA
1 AATCAATTAAACCCTCATAAAATAAAAGAA
34121769 AAT
1 AAT
34121772 AATATCAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 7 0.24
31 22 0.76
ACGTcount: A:0.56, C:0.14, G:0.05, T:0.25
Consensus pattern (30 bp):
AATCAATTAAACCCTCATAAAATAAAAGAA
Found at i:34122391 original size:24 final size:24
Alignment explanation
Indices: 34122364--34122409 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
34122354 AAAACTATAC
* *
34122364 AACTCTCACTTTGAAAATTAAGAT
1 AACTCTCACTTCGAAAAGTAAGAT
34122388 AACTCTCACTTCGAAAAGTAAG
1 AACTCTCACTTCGAAAAGTAAG
34122410 TTATTTGTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.28
Consensus pattern (24 bp):
AACTCTCACTTCGAAAAGTAAGAT
Found at i:34139694 original size:93 final size:93
Alignment explanation
Indices: 34139589--34139845 Score: 505
Period size: 93 Copynumber: 2.8 Consensus size: 93
34139579 AAAAAGTGAA
34139589 AACATACATAAAGGAATCAAAAACAGTAAAAATAGAATAATCCTCATTCTTCAAGAAACATTTTC
1 AACATACATAAAGGAATCAAAAACAGTAAAAATAGAATAATCCTCATTCTTCAAGAAACATTTTC
34139654 AACATTTGTTGAAAATAGAATAATTTTC
66 AACATTTGTTGAAAATAGAATAATTTTC
34139682 AACATACATAAAGGAATCAAAAACAGTAAAAATAGAATAATCCTCATTCTTCAAGAAACATTTTC
1 AACATACATAAAGGAATCAAAAACAGTAAAAATAGAATAATCCTCATTCTTCAAGAAACATTTTC
34139747 AACATTTGTTGAAAATAGAATAATTTTC
66 AACATTTGTTGAAAATAGAATAATTTTC
*
34139775 AACATACATAAAGGAATCAAAAACAGTAAAAATAGAATAATCTTCATTCTTCAAGAAACATTTTC
1 AACATACATAAAGGAATCAAAAACAGTAAAAATAGAATAATCCTCATTCTTCAAGAAACATTTTC
34139840 AACATT
66 AACATT
34139846 AAGCACTAGC
Statistics
Matches: 163, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 163 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.28
Consensus pattern (93 bp):
AACATACATAAAGGAATCAAAAACAGTAAAAATAGAATAATCCTCATTCTTCAAGAAACATTTTC
AACATTTGTTGAAAATAGAATAATTTTC
Found at i:34139722 original size:45 final size:45
Alignment explanation
Indices: 34139665--34139820 Score: 136
Period size: 45 Copynumber: 3.4 Consensus size: 45
34139655 ACATTTGTTG
*
34139665 AAAATAGAATAATTTTCAACATACATAAAGGAATCAAAAACAGTA
1 AAAATAGAATAATCTTCAACATACATAAAGGAATCAAAAACAGTA
* * * ** * * *** *
34139710 AAAATAGAATAATCCTCATTC-TTCA-AGAAACATTTTCAACATTTGTTG
1 AAAATAGAATAATCTTCA-ACATACATA-AAGGA--ATCAAAAACAG-TA
*
34139758 AAAATAGAATAATTTTCAACATACATAAAGGAATCAAAAACAGTA
1 AAAATAGAATAATCTTCAACATACATAAAGGAATCAAAAACAGTA
34139803 AAAATAGAATAATCTTCA
1 AAAATAGAATAATCTTCA
34139821 TTCTTCAAGA
Statistics
Matches: 79, Mismatches: 25, Indels: 14
0.67 0.21 0.12
Matches are distributed among these distances:
44 1 0.01
45 40 0.51
46 7 0.09
47 7 0.09
48 23 0.29
49 1 0.01
ACGTcount: A:0.52, C:0.13, G:0.08, T:0.27
Consensus pattern (45 bp):
AAAATAGAATAATCTTCAACATACATAAAGGAATCAAAAACAGTA
Found at i:34140324 original size:6 final size:6
Alignment explanation
Indices: 34140313--34140341 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
34140303 CTCTAACCTT
34140313 TTTTTC TTTTTC TTTTTC TTTTT- TTTTTC
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
34140342 CAAATTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTC
Found at i:34147120 original size:17 final size:17
Alignment explanation
Indices: 34147091--34147144 Score: 83
Period size: 17 Copynumber: 3.2 Consensus size: 17
34147081 TATTAGCCGA
34147091 AAATAAATGAAAATGAT
1 AAATAAATGAAAATGAT
* *
34147108 AAATATATTAAAATGAT
1 AAATAAATGAAAATGAT
34147125 AAATAAATGAAAATGA-
1 AAATAAATGAAAATGAT
34147141 AAAT
1 AAAT
34147145 GATGTGTCGA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
16 4 0.12
17 29 0.88
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.26
Consensus pattern (17 bp):
AAATAAATGAAAATGAT
Found at i:34151398 original size:22 final size:22
Alignment explanation
Indices: 34151353--34151397 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
34151343 TCGAGTGATT
*
34151353 AATTTATTTATTTAGGTTTTAA
1 AATTTATTTATTTAAGTTTTAA
*
34151375 AATTTA-TTATTTAATTTTTAA
1 AATTTATTTATTTAAGTTTTAA
34151396 AA
1 AA
34151398 AAAAAGTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (22 bp):
AATTTATTTATTTAAGTTTTAA
Found at i:34151445 original size:9 final size:10
Alignment explanation
Indices: 34151423--34151458 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
34151413 TTATATATTA
*
34151423 TTTAGAATTT
1 TTTAAAATTT
34151433 TTTAAAA-TT
1 TTTAAAATTT
34151442 TTTAAAATTT
1 TTTAAAATTT
34151452 TTTAAAA
1 TTTAAAA
34151459 ATATAAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 9 0.38
10 15 0.62
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (10 bp):
TTTAAAATTT
Found at i:34161225 original size:17 final size:18
Alignment explanation
Indices: 34161194--34161227 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
34161184 TGTCATTTCC
34161194 TTTTTCATTAATAAATTA
1 TTTTTCATTAATAAATTA
*
34161212 TTTTTC-TTATTAAATT
1 TTTTTCATTAATAAATT
34161228 TTAAATTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTTTCATTAATAAATTA
Found at i:34166513 original size:14 final size:16
Alignment explanation
Indices: 34166494--34166527 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
34166484 CAGGTAAAAA
34166494 ATAATAT-AAAT-TTT
1 ATAATATAAAATATTT
34166508 ATAATATAAAATATTT
1 ATAATATAAAATATTT
34166524 ATAA
1 ATAA
34166528 AAAAATTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
15 4 0.22
16 7 0.39
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATAATATAAAATATTT
Found at i:34166643 original size:18 final size:18
Alignment explanation
Indices: 34166620--34166659 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
34166610 ATTTTAAGAC
34166620 TTTTTTTAAC-ATATAAAT
1 TTTTTTTAACAATAT-AAT
*
34166638 TTTTTTTTACAATATAAT
1 TTTTTTTAACAATATAAT
34166656 TTTT
1 TTTT
34166660 AGCATAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTTTTTAACAATATAAT
Found at i:34166644 original size:19 final size:18
Alignment explanation
Indices: 34166620--34166659 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
34166610 ATTTTAAGAC
34166620 TTTTTTTA-ACATATAAATT
1 TTTTTTTACA-ATAT-AATT
34166639 TTTTTTTACAATATAATT
1 TTTTTTTACAATATAATT
34166657 TTT
1 TTT
34166660 AGCATAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 12 0.60
20 1 0.05
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTTTTTACAATATAATT
Found at i:34167521 original size:3 final size:3
Alignment explanation
Indices: 34167513--34167549 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
34167503 CTTGTCCAAC
34167513 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
34167550 CTTTAGGAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:34179660 original size:3 final size:3
Alignment explanation
Indices: 34179652--34179709 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
34179642 GCCAAGCTTT
34179652 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
34179700 TTA TTA TTA T
1 TTA TTA TTA T
34179710 GACTTTATTT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:34181383 original size:32 final size:32
Alignment explanation
Indices: 34181345--34181418 Score: 139
Period size: 32 Copynumber: 2.3 Consensus size: 32
34181335 TTAATTTGAA
*
34181345 AAATCTAGATAAATGCTCATTTAATCAAATCC
1 AAATCTAGATAAACGCTCATTTAATCAAATCC
34181377 AAATCTAGATAAACGCTCATTTAATCAAATCC
1 AAATCTAGATAAACGCTCATTTAATCAAATCC
34181409 AAATCTAGAT
1 AAATCTAGAT
34181419 TATGTCTAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.45, C:0.19, G:0.07, T:0.30
Consensus pattern (32 bp):
AAATCTAGATAAACGCTCATTTAATCAAATCC
Found at i:34184538 original size:32 final size:32
Alignment explanation
Indices: 34184500--34184573 Score: 139
Period size: 32 Copynumber: 2.3 Consensus size: 32
34184490 TTAATTTGAA
*
34184500 AAATCTAGATAAATGCTCATTTAATCAAATCC
1 AAATCTAGATAAACGCTCATTTAATCAAATCC
34184532 AAATCTAGATAAACGCTCATTTAATCAAATCC
1 AAATCTAGATAAACGCTCATTTAATCAAATCC
34184564 AAATCTAGAT
1 AAATCTAGAT
34184574 TATGTCTAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.45, C:0.19, G:0.07, T:0.30
Consensus pattern (32 bp):
AAATCTAGATAAACGCTCATTTAATCAAATCC
Found at i:34191477 original size:16 final size:14
Alignment explanation
Indices: 34191445--34191490 Score: 51
Period size: 13 Copynumber: 3.2 Consensus size: 14
34191435 CAGGTAAAAA
34191445 ATAATATAAATTTT
1 ATAATATAAATTTT
34191459 ATAATATAAAATATTT
1 ATAATAT-AAAT-TTT
34191475 ATAA-A-AAATTTAT
1 ATAATATAAATTT-T
34191488 ATA
1 ATA
34191491 GTGCTCAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
12 2 0.07
13 8 0.28
14 7 0.24
15 5 0.17
16 7 0.24
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
ATAATATAAATTTT
Found at i:34191979 original size:3 final size:3
Alignment explanation
Indices: 34191971--34192004 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
34191961 TGAATAAATA
34191971 AAT AAT AAT AA- AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
34192005 AGCATTAGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:34191982 original size:14 final size:14
Alignment explanation
Indices: 34191963--34192004 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
34191953 AAAAGCCATG
34191963 AATAAATAAATAAT
1 AATAAATAAATAAT
34191977 AATAAA-ATAATAAT
1 AATAAATA-AATAAT
34191991 AAT-AAT-AATAAT
1 AATAAATAAATAAT
34192003 AA
1 AA
34192005 AGCATTAGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 8 0.31
13 3 0.12
14 15 0.58
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
AATAAATAAATAAT
Found at i:34194838 original size:78 final size:79
Alignment explanation
Indices: 34194745--34194901 Score: 307
Period size: 78 Copynumber: 2.0 Consensus size: 79
34194735 GCTTTTTATT
34194745 TATTTAAAAAATATTTTACTTATAAAATTTAAATAATATACTTTCGATACAACGTGCAAAGTACT
1 TATTTAAAAAATATTTTACTTATAAAATTTAAATAATATACTTTCGATACAACGTGCAAAGTACT
34194810 TTGATTGAATTAAA
66 TTGATTGAATTAAA
34194824 TATTT-AAAAATATTTTACTTATAAAATTTAAATAATATACTTTCGATACAACGTGCAAAGTACT
1 TATTTAAAAAATATTTTACTTATAAAATTTAAATAATATACTTTCGATACAACGTGCAAAGTACT
34194888 TTGATTGAATTAAA
66 TTGATTGAATTAAA
34194902 AGCATCTTGA
Statistics
Matches: 78, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
78 73 0.94
79 5 0.06
ACGTcount: A:0.44, C:0.09, G:0.08, T:0.39
Consensus pattern (79 bp):
TATTTAAAAAATATTTTACTTATAAAATTTAAATAATATACTTTCGATACAACGTGCAAAGTACT
TTGATTGAATTAAA
Found at i:34195512 original size:10 final size:9
Alignment explanation
Indices: 34195485--34195559 Score: 64
Period size: 9 Copynumber: 8.1 Consensus size: 9
34195475 TTTTAGTTTG
34195485 AATTTTAAA
1 AATTTTAAA
*
34195494 AATTGTAAA
1 AATTTTAAA
34195503 AATATTTAAA
1 AAT-TTTAAA
34195513 AATTCTT-AA
1 AATT-TTAAA
34195522 AATTTTAAA
1 AATTTTAAA
** *
34195531 AAGTAAATATA
1 AA-T-TTTAAA
34195542 AATTTT-AA
1 AATTTTAAA
34195550 AATTTTAAA
1 AATTTTAAA
34195559 A
1 A
34195560 GTAAAAAAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
8 9 0.17
9 26 0.50
10 12 0.23
11 5 0.10
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (9 bp):
AATTTTAAA
Found at i:34195512 original size:19 final size:18
Alignment explanation
Indices: 34195485--34195532 Score: 69
Period size: 19 Copynumber: 2.6 Consensus size: 18
34195475 TTTTAGTTTG
*
34195485 AATTTTAAAAATTGTAAA
1 AATTTTAAAAATTCTAAA
*
34195503 AATATTTAAAAATTCTTAA
1 AAT-TTTAAAAATTCTAAA
34195522 AATTTTAAAAA
1 AATTTTAAAAA
34195533 GTAAATATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 11 0.41
19 16 0.59
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (18 bp):
AATTTTAAAAATTCTAAA
Found at i:34195516 original size:28 final size:28
Alignment explanation
Indices: 34195485--34195586 Score: 100
Period size: 28 Copynumber: 3.5 Consensus size: 28
34195475 TTTTAGTTTG
* **
34195485 AATTTTAAAAATTGTAAAAA-TATTTAAA
1 AATTTT-AAAATTTTAAAAAGTAAATAAA
*
34195513 AATTCTTAAAATTTTAAAAAGTAAATATA
1 AATT-TTAAAATTTTAAAAAGTAAATAAA
*
34195542 AATTTTAAAATTTT-AAAAGTAAAAAAAA
1 AATTTTAAAATTTTAAAAAGT-AAATAAA
34195570 ACATTTTAAAGATTTTA
1 A-ATTTTAAA-ATTTTA
34195587 TATAAAAAAT
Statistics
Matches: 62, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
27 6 0.10
28 32 0.52
29 19 0.31
30 5 0.08
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (28 bp):
AATTTTAAAATTTTAAAAAGTAAATAAA
Found at i:34197034 original size:22 final size:21
Alignment explanation
Indices: 34196963--34197034 Score: 60
Period size: 22 Copynumber: 3.4 Consensus size: 21
34196953 NNNNNNNNNN
*
34196963 AAAAATTTAATATTTATAT-T
1 AAAAATTTTATATTTATATAT
34196983 AAATTAA-TTTATA-TTATATAAT
1 AAA--AATTTTATATTTATAT-AT
**
34197005 AAGTATTTTATATTTCATATAT
1 AAAAATTTTATATTT-ATATAT
34197027 AAAAATTT
1 AAAAATTT
34197035 AATGAATAGT
Statistics
Matches: 40, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
20 10 0.25
21 11 0.28
22 15 0.38
23 4 0.10
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (21 bp):
AAAAATTTTATATTTATATAT
Found at i:34197035 original size:21 final size:20
Alignment explanation
Indices: 34196963--34197035 Score: 60
Period size: 21 Copynumber: 3.5 Consensus size: 20
34196953 NNNNNNNNNN
34196963 AAAAATTTAATATTTATAT-T
1 AAAAATTT-ATATTTATATAT
34196983 AAATTAATTTATA-TTATATAAT
1 AAA--AATTTATATTTATAT-AT
* *
34197005 AAGTATTTTATATTTCATATAT
1 AA-AAATTTATATTT-ATATAT
34197027 AAAAATTTA
1 AAAAATTTA
34197036 ATGAATAGTA
Statistics
Matches: 42, Mismatches: 4, Indels: 13
0.71 0.07 0.22
Matches are distributed among these distances:
20 9 0.21
21 15 0.36
22 14 0.33
23 4 0.10
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (20 bp):
AAAAATTTATATTTATATAT
Found at i:34199483 original size:21 final size:22
Alignment explanation
Indices: 34199459--34199505 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
34199449 GGCATCTATT
* *
34199459 TATTTAT-TTTATTTATTTATC
1 TATTTATCATTATCTATTTATC
*
34199480 TA-TTATCATTATCTATTTATG
1 TATTTATCATTATCTATTTATC
34199501 TATTT
1 TATTT
34199506 TATTACAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
20 4 0.19
21 15 0.71
22 2 0.10
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.66
Consensus pattern (22 bp):
TATTTATCATTATCTATTTATC
Found at i:34199508 original size:17 final size:17
Alignment explanation
Indices: 34199452--34199508 Score: 51
Period size: 17 Copynumber: 3.1 Consensus size: 17
34199442 TTTATCAGGC
*
34199452 ATCTATTTATTTATTTT
1 ATCTATTTATCTATTTT
*
34199469 ATTTATTTATCTATTATCATT
1 ATCTATTTATCTA-T-T--TT
*
34199490 ATCTATTTATGTATTTT
1 ATCTATTTATCTATTTT
34199507 AT
1 AT
34199509 TACAAATTGC
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
17 15 0.47
18 1 0.03
19 2 0.06
20 1 0.03
21 13 0.41
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.65
Consensus pattern (17 bp):
ATCTATTTATCTATTTT
Found at i:34201952 original size:46 final size:46
Alignment explanation
Indices: 34201885--34201973 Score: 160
Period size: 46 Copynumber: 1.9 Consensus size: 46
34201875 CCACTTGAAG
34201885 CAAGGTCTGAAATTCAGATCAAGCACTTATGAAAAACTTAAGCGAA
1 CAAGGTCTGAAATTCAGATCAAGCACTTATGAAAAACTTAAGCGAA
* *
34201931 CAAGGTCTGAAATTCTGATCAAGCTCTTATGAAAAACTTAAGC
1 CAAGGTCTGAAATTCAGATCAAGCACTTATGAAAAACTTAAGC
34201974 TAACTATATA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.25
Consensus pattern (46 bp):
CAAGGTCTGAAATTCAGATCAAGCACTTATGAAAAACTTAAGCGAA
Found at i:34205516 original size:2 final size:2
Alignment explanation
Indices: 34205509--34205539 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
34205499 NNNNACAAAT
34205509 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
34205540 CAATTAGAGT
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:34207728 original size:103 final size:104
Alignment explanation
Indices: 34207605--34207811 Score: 398
Period size: 103 Copynumber: 2.0 Consensus size: 104
34207595 TAAATAATAA
*
34207605 TATAATAGTATGAAAAGATTAAAAAATATGTCAAGTTGTGTATGTTTAAAATTTTATTAATATTT
1 TATAATAGTATGAAAAGATTAAAAAATAAGTCAAGTTGTGTATGTTTAAAATTTTATTAATATTT
34207670 GATCCATCATCAATAATTCATTGTCAACATGACTATTAT
66 GATCCATCATCAATAATTCATTGTCAACATGACTATTAT
34207709 TATAATAGTA-GAAAAGATTAAAAAATAAGTCAAGTTGTGTATGTTTAAAATTTTATTAATATTT
1 TATAATAGTATGAAAAGATTAAAAAATAAGTCAAGTTGTGTATGTTTAAAATTTTATTAATATTT
34207773 GATCCATCATCAATAATTCATTGTCAACATGACTATTAT
66 GATCCATCATCAATAATTCATTGTCAACATGACTATTAT
34207812 ATCAATTTAC
Statistics
Matches: 102, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
103 92 0.90
104 10 0.10
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.40
Consensus pattern (104 bp):
TATAATAGTATGAAAAGATTAAAAAATAAGTCAAGTTGTGTATGTTTAAAATTTTATTAATATTT
GATCCATCATCAATAATTCATTGTCAACATGACTATTAT
Found at i:34211294 original size:26 final size:26
Alignment explanation
Indices: 34211263--34211342 Score: 151
Period size: 26 Copynumber: 3.1 Consensus size: 26
34211253 AATGTAGCTG
*
34211263 ATAAATTTATTTTTTAAGTATTTCAT
1 ATAAATTTATTTTTTTAGTATTTCAT
34211289 ATAAATTTATTTTTTTAGTATTTCAT
1 ATAAATTTATTTTTTTAGTATTTCAT
34211315 ATAAATTTATTTTTTTAGTATTTCAT
1 ATAAATTTATTTTTTTAGTATTTCAT
34211341 AT
1 AT
34211343 GAAAGGGTCT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.60
Consensus pattern (26 bp):
ATAAATTTATTTTTTTAGTATTTCAT
Found at i:34211785 original size:63 final size:63
Alignment explanation
Indices: 34211686--34211813 Score: 247
Period size: 63 Copynumber: 2.0 Consensus size: 63
34211676 CTTTTTTTAG
34211686 ATACTTGAGTAACTCATTGGCATAGGCAATAGTATACCGCCACATGACGCGTCAGAATAAAAC
1 ATACTTGAGTAACTCATTGGCATAGGCAATAGTATACCGCCACATGACGCGTCAGAATAAAAC
*
34211749 ATACTTGAGTAACTCATTGGCATAGGCAATAGTATACCGTCACATGACGCGTCAGAATAAAAC
1 ATACTTGAGTAACTCATTGGCATAGGCAATAGTATACCGCCACATGACGCGTCAGAATAAAAC
34211812 AT
1 AT
34211814 GTGGGAGCAT
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (63 bp):
ATACTTGAGTAACTCATTGGCATAGGCAATAGTATACCGCCACATGACGCGTCAGAATAAAAC
Found at i:34211881 original size:18 final size:17
Alignment explanation
Indices: 34211831--34211885 Score: 67
Period size: 18 Copynumber: 3.2 Consensus size: 17
34211821 CATTATTTGG
34211831 AAAT-TAAAATTTAAAA
1 AAATATAAAATTTAAAA
* *
34211847 ATATATAAAATCATAAAA
1 AAATATAAAAT-TTAAAA
34211865 AAATTATAAAATTTAAAA
1 AAA-TATAAAATTTAAAA
34211883 AAA
1 AAA
34211886 AAACTATAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 3 0.09
17 6 0.19
18 15 0.47
19 8 0.25
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (17 bp):
AAATATAAAATTTAAAA
Found at i:34211886 original size:19 final size:18
Alignment explanation
Indices: 34211831--34211886 Score: 62
Period size: 19 Copynumber: 3.2 Consensus size: 18
34211821 CATTATTTGG
34211831 AAAT-TAAAATTT-AAAA
1 AAATATAAAATTTAAAAA
* *
34211847 ATATATAAAATCATAAAAA
1 AAATATAAAAT-TTAAAAA
*
34211866 AATTATAAAATTTAAAAA
1 AAATATAAAATTTAAAAA
34211884 AAA
1 AAA
34211887 AACTATAAAG
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
16 3 0.10
17 6 0.19
18 9 0.29
19 13 0.42
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.29
Consensus pattern (18 bp):
AAATATAAAATTTAAAAA
Found at i:34211906 original size:21 final size:21
Alignment explanation
Indices: 34211861--34211907 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
34211851 ATAAAATCAT
* *
34211861 AAAAAAATTATAAAATTTAAA
1 AAAAAAACTATAAAATTGAAA
* *
34211882 AAAAAAACTATAAAGTTGAAG
1 AAAAAAACTATAAAATTGAAA
34211903 AAAAA
1 AAAAA
34211908 TTCTAAGAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.21
Consensus pattern (21 bp):
AAAAAAACTATAAAATTGAAA
Found at i:34213391 original size:60 final size:60
Alignment explanation
Indices: 34213321--34213435 Score: 155
Period size: 57 Copynumber: 1.9 Consensus size: 60
34213311 AATTAGTTGT
* *
34213321 ATGACCAAATTTTAAAAAAAAATGATAGTTGGGTGA-CAAAAAA-AAA-AGTGCAATAGTTAG
1 ATGACCAAA--TT-AAAAAAAATGATAGTTGAGTGACCAAAAAAGAAATAGAGCAATAGTTAG
*
34213381 ATGATCAAATTAAAAAAAATGATAGTTGAGTGACCAAAAAAGAAATAGAGCAATA
1 ATGACCAAATTAAAAAAAATGATAGTTGAGTGACCAAAAAAGAAATAGAGCAATA
34213436 AATGTGTGAT
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
57 21 0.43
58 9 0.18
59 3 0.06
60 16 0.33
ACGTcount: A:0.54, C:0.07, G:0.17, T:0.22
Consensus pattern (60 bp):
ATGACCAAATTAAAAAAAATGATAGTTGAGTGACCAAAAAAGAAATAGAGCAATAGTTAG
Found at i:34213418 original size:29 final size:26
Alignment explanation
Indices: 34213334--34213426 Score: 89
Period size: 26 Copynumber: 3.4 Consensus size: 26
34213324 ACCAAATTTT
*
34213334 AAAAAAAAATGATAGTTGGGTGACAA
1 AAAAAAAAATGATAGTTGAGTGACAA
*
34213360 AAAAAAAAGTGCAATAGTT-AGATGATCAA
1 AAAAAAAAATG--ATAGTTGAG-TGA-CAA
*
34213389 ATTAAAAAAAATGATAGTTGAGTGACCA
1 A--AAAAAAAATGATAGTTGAGTGACAA
*
34213417 AAAAAGAAAT
1 AAAAAAAAAT
34213427 AGAGCAATAA
Statistics
Matches: 55, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
26 18 0.33
27 1 0.02
28 12 0.22
29 13 0.24
30 2 0.04
31 9 0.16
ACGTcount: A:0.56, C:0.05, G:0.18, T:0.20
Consensus pattern (26 bp):
AAAAAAAAATGATAGTTGAGTGACAA
Found at i:34219391 original size:13 final size:14
Alignment explanation
Indices: 34219364--34219396 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
34219354 ATGGGAGTAG
34219364 GATTCTGTATATCT
1 GATTCTGTATATCT
34219378 GATTCTGT-TATCT
1 GATTCTGTATATCT
*
34219391 GTTTCT
1 GATTCT
34219397 ATAAAGGACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.55
Consensus pattern (14 bp):
GATTCTGTATATCT
Found at i:34219761 original size:9 final size:9
Alignment explanation
Indices: 34219747--34219777 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
34219737 GTTAAACGAA
34219747 TCGAGTTAT
1 TCGAGTTAT
*
34219756 TCGAGTTAA
1 TCGAGTTAT
34219765 TCGAGTTAT
1 TCGAGTTAT
34219774 TCGA
1 TCGA
34219778 ATCAACTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:34219944 original size:21 final size:21
Alignment explanation
Indices: 34219903--34219945 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
34219893 ACCCCAAACT
* *
34219903 CTCAAACCTTTTTACTTTTCC
1 CTCAAAACTTTTTACTCTTCC
34219924 CTCAAAAC-TTTTACTCCTTCC
1 CTCAAAACTTTTTACT-CTTCC
34219945 C
1 C
34219946 ACTTCCCCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.21, C:0.37, G:0.00, T:0.42
Consensus pattern (21 bp):
CTCAAAACTTTTTACTCTTCC
Found at i:34224025 original size:40 final size:40
Alignment explanation
Indices: 34223970--34224047 Score: 156
Period size: 40 Copynumber: 1.9 Consensus size: 40
34223960 TTGTCGAAAG
34223970 TACGTTGGTAGTTAAGACAAAAACATCATTAAAATTTTGT
1 TACGTTGGTAGTTAAGACAAAAACATCATTAAAATTTTGT
34224010 TACGTTGGTAGTTAAGACAAAAACATCATTAAAATTTT
1 TACGTTGGTAGTTAAGACAAAAACATCATTAAAATTTT
34224048 TTTCCCCTTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.35
Consensus pattern (40 bp):
TACGTTGGTAGTTAAGACAAAAACATCATTAAAATTTTGT
Found at i:34235736 original size:19 final size:19
Alignment explanation
Indices: 34235662--34235767 Score: 76
Period size: 19 Copynumber: 5.5 Consensus size: 19
34235652 TGGGTATATG
*
34235662 TTTA-AAATATTGGTATCG
1 TTTAGAAATATTGGTATCC
*
34235680 TATTAGAAGT-TTGGTA-CC
1 T-TTAGAAATATTGGTATCC
* *
34235698 GTATTAAAAATTTTGGTATCCC
1 -T-TTAGAAATATTGGTAT-CC
* *
34235720 TTTA-AAATATTGATATCG
1 TTTAGAAATATTGGTATCC
34235738 TGTTAGAAATATTGGTATTCC
1 T-TTAGAAATATTGGTA-TCC
34235759 TTTAGAAAT
1 TTTAGAAAT
34235768 TAATACTACA
Statistics
Matches: 70, Mismatches: 9, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
18 4 0.06
19 30 0.43
20 30 0.43
21 4 0.06
22 2 0.03
ACGTcount: A:0.33, C:0.08, G:0.16, T:0.42
Consensus pattern (19 bp):
TTTAGAAATATTGGTATCC
Found at i:34235763 original size:20 final size:20
Alignment explanation
Indices: 34235705--34235767 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
34235695 ACCGTATTAA
* *
34235705 AAATTTTGGTATCCCTTTA-
1 AAATATTGGTATTCCTTTAG
* *
34235724 AAATATTGATA-TCGTGTTAG
1 AAATATTGGTATTCCT-TTAG
34235744 AAATATTGGTATTCCTTTAG
1 AAATATTGGTATTCCTTTAG
34235764 AAAT
1 AAAT
34235768 TAATACTACA
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
18 2 0.06
19 12 0.34
20 18 0.51
21 3 0.09
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (20 bp):
AAATATTGGTATTCCTTTAG
Found at i:34236170 original size:19 final size:20
Alignment explanation
Indices: 34236123--34236170 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 20
34236113 ATATCTGAAA
34236123 TCTTTGAAGGGTACCAAAATT
1 TCTTT-AAGGGTACCAAAATT
34236144 TCTTTAAGGTGTACC-AAATT
1 TCTTTAAGG-GTACCAAAATT
34236164 T-TTTAAG
1 TCTTTAAG
34236171 TAATACCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.23
20 10 0.38
21 10 0.38
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.40
Consensus pattern (20 bp):
TCTTTAAGGGTACCAAAATT
Found at i:34236496 original size:20 final size:19
Alignment explanation
Indices: 34236450--34236501 Score: 50
Period size: 20 Copynumber: 2.7 Consensus size: 19
34236440 AAAGGTACTC
* * *
34236450 TTAGAAATTTTGATATCGA
1 TTAGAAATATTGGTATCCA
*
34236469 TTAAAAATATTGGTAGTCCA
1 TTAGAAATATTGGTA-TCCA
*
34236489 TTAGAAATCTTGG
1 TTAGAAATATTGG
34236502 ATTATGGTTA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (19 bp):
TTAGAAATATTGGTATCCA
Found at i:34248245 original size:84 final size:85
Alignment explanation
Indices: 34248121--34248297 Score: 347
Period size: 84 Copynumber: 2.1 Consensus size: 85
34248111 TTTTCATATA
34248121 ATTTTTATGAATTCTTTTATTTTTTTTCCTCTTTTTACGAGAAACATATTTTTCTAATCATACTT
1 ATTTTTATGAATTCTTTTATTTTTTTTCCTCTTTTTACGAGAAACATATTTTTCTAATCATACTT
34248186 AAAAAAAAAATTATTTTGTT
66 AAAAAAAAAATTATTTTGTT
34248206 ATTTTTATGAATTCTTTTA-TTTTTTTCCTCTTTTTACGAGAAACATATTTTTCTAATCATACTT
1 ATTTTTATGAATTCTTTTATTTTTTTTCCTCTTTTTACGAGAAACATATTTTTCTAATCATACTT
34248270 AAAAAAAAAATTATTTTGTT
66 AAAAAAAAAATTATTTTGTT
34248290 ATTTTTAT
1 ATTTTTAT
34248298 TTATTTAAAA
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
84 73 0.79
85 19 0.21
ACGTcount: A:0.32, C:0.10, G:0.05, T:0.54
Consensus pattern (85 bp):
ATTTTTATGAATTCTTTTATTTTTTTTCCTCTTTTTACGAGAAACATATTTTTCTAATCATACTT
AAAAAAAAAATTATTTTGTT
Found at i:34248315 original size:84 final size:84
Alignment explanation
Indices: 34248143--34248315 Score: 276
Period size: 84 Copynumber: 2.1 Consensus size: 84
34248133 TCTTTTATTT
34248143 TTTTTCCTCTTTTTACGAGAAACATATTTTTCTAATCATACTTAAAAAAAAAATTATTTTGTTAT
1 TTTTTCCTCTTTTTACGAGAAACATATTTTTCTAATCATACTTAAAAAAAAAATTATTTTGTTAT
*** *
34248208 TTTTATGAATTCTTTTATT
66 TTTTATGAATTCTAAAATA
34248227 TTTTTCCTCTTTTTACGAGAAACATATTTTTCTAATCATACTTAAAAAAAAAATTATTTTGTTAT
1 TTTTTCCTCTTTTTACGAGAAACATATTTTTCTAATCATACTTAAAAAAAAAATTATTTTGTTAT
**
34248292 TTTTATTTATT-TAAAAATA
66 TTTTATGAATTCT-AAAATA
34248311 TTTTT
1 TTTTT
34248316 TTCTTATAAA
Statistics
Matches: 82, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
83 1 0.01
84 81 0.99
ACGTcount: A:0.34, C:0.10, G:0.04, T:0.53
Consensus pattern (84 bp):
TTTTTCCTCTTTTTACGAGAAACATATTTTTCTAATCATACTTAAAAAAAAAATTATTTTGTTAT
TTTTATGAATTCTAAAATA
Found at i:34249846 original size:20 final size:20
Alignment explanation
Indices: 34249821--34249860 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
34249811 GTCATGAAAA
34249821 TATATAACACCAAA-ATTTTT
1 TATATAACA-CAAATATTTTT
*
34249841 TATATAATACAAATATTTTT
1 TATATAACACAAATATTTTT
34249861 AAAGAGAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (20 bp):
TATATAACACAAATATTTTT
Found at i:34281193 original size:42 final size:43
Alignment explanation
Indices: 34281146--34281330 Score: 162
Period size: 43 Copynumber: 4.3 Consensus size: 43
34281136 AGACTAAGAC
* *
34281146 CTTTAGCGGCGCTTTAGT-GGAAGCGCCGCTAA-AGACCCTGAT
1 CTTTAGCGGCGCTTTAGTCGCAAACGCCGC-AATAGACCCTGAT
* ** *
34281188 CTTTAGCGGCGTTTTTTTCTCAAACGCCGCAATAGACCCTGAT
1 CTTTAGCGGCGCTTTAGTCGCAAACGCCGCAATAGACCCTGAT
* * * * * *
34281231 CTATAGCGGCGCTTT-GACCACAAACGCCACGAA-AGAACCTAAT
1 CTTTAGCGGCGCTTTAG-TCGCAAACGCCGC-AATAGACCCTGAT
*** *
34281274 CTTTAGCGGCGCTTTCCCCTCAAACGCCGCAATAGACCCTGAT
1 CTTTAGCGGCGCTTTAGTCGCAAACGCCGCAATAGACCCTGAT
*
34281317 CTATAGCGGCGCTT
1 CTTTAGCGGCGCTT
34281331 NNNNNNNNNN
Statistics
Matches: 116, Mismatches: 21, Indels: 11
0.78 0.14 0.07
Matches are distributed among these distances:
42 19 0.16
43 95 0.82
44 2 0.02
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.24
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTAGTCGCAAACGCCGCAATAGACCCTGAT
Found at i:34281225 original size:43 final size:43
Alignment explanation
Indices: 34281169--34281330 Score: 175
Period size: 43 Copynumber: 3.8 Consensus size: 43
34281159 TTAGTGGAAG
* * * ***
34281169 CGCCGCTAAAGACCCTGATCTTTAGCGGCGTTTTTTTCTCAAA
1 CGCCGCGAAAGACCCTGATCTATAGCGGCGCTTTCACCTCAAA
* *
34281212 CGCCGC-AATAGACCCTGATCTATAGCGGCGCTTTGACCACAAA
1 CGCCGCGAA-AGACCCTGATCTATAGCGGCGCTTTCACCTCAAA
* * * * *
34281255 CGCCACGAAAGAACCTAATCTTTAGCGGCGCTTTCCCCTCAAA
1 CGCCGCGAAAGACCCTGATCTATAGCGGCGCTTTCACCTCAAA
34281298 CGCCGC-AATAGACCCTGATCTATAGCGGCGCTT
1 CGCCGCGAA-AGACCCTGATCTATAGCGGCGCTT
34281331 NNNNNNNNNN
Statistics
Matches: 99, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
42 4 0.04
43 93 0.94
44 2 0.02
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (43 bp):
CGCCGCGAAAGACCCTGATCTATAGCGGCGCTTTCACCTCAAA
Found at i:34281738 original size:168 final size:168
Alignment explanation
Indices: 34281443--34281849 Score: 744
Period size: 168 Copynumber: 2.4 Consensus size: 168
34281433 TAAAGACCCT
* *
34281443 TATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAGGGCCAACTCC-TTAGTGGCGTTTTTTT
1 TATCTTTAGCGGCTCTTTGACCAAAAACGCCACTAAA-GGCCAACACCTTTAGTGGCGTTTTTTT
*
34281507 TAAAAAACGCCACTAAATTTAGCAGATTTGTAAAATAAATTTTTTTATATTTTCAGCCCTCCTGT
65 T--AAAACGCCACTAAATTTAGCAGATTTGTAAAATAAAATTTTTTATATTTTCAGCCCTCCTGT
34281572 AAAAACAAATCAGAAGAAATCATATCTAAACCAGCCAAAAG
128 AAAAACAAATCAGAAGAAATCATATCTAAACCAGCCAAAAG
34281613 TATCTTTAGCGGCTCTTTGACCAAAAACGCCACTAAAGGCCAACACCTTTAGTGGCGTTTTTTTT
1 TATCTTTAGCGGCTCTTTGACCAAAAACGCCACTAAAGGCCAACACCTTTAGTGGCGTTTTTTTT
*
34281678 AAAACGCCACTAAATTTGGCAGATTTGTAAAATAAAATTTTTTATATTTTCAGCCCTCCTGTAAA
66 AAAACGCCACTAAATTTAGCAGATTTGTAAAATAAAATTTTTTATATTTTCAGCCCTCCTGTAAA
34281743 AACAAATCAGAAGAAATCATATCTAAACCAGCCAAAAG
131 AACAAATCAGAAGAAATCATATCTAAACCAGCCAAAAG
34281781 TATCTTTAGCGGCTCTTTGACCAAAAACGCCACTAAAGGCCAACACCTTTAGTGGCGTTTTTTTT
1 TATCTTTAGCGGCTCTTTGACCAAAAACGCCACTAAAGGCCAACACCTTTAGTGGCGTTTTTTTT
34281846 AAAA
66 AAAA
34281850 AACGCNNNNN
Statistics
Matches: 232, Mismatches: 4, Indels: 4
0.97 0.02 0.02
Matches are distributed among these distances:
168 170 0.73
169 9 0.04
170 53 0.23
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (168 bp):
TATCTTTAGCGGCTCTTTGACCAAAAACGCCACTAAAGGCCAACACCTTTAGTGGCGTTTTTTTT
AAAACGCCACTAAATTTAGCAGATTTGTAAAATAAAATTTTTTATATTTTCAGCCCTCCTGTAAA
AACAAATCAGAAGAAATCATATCTAAACCAGCCAAAAG
Found at i:34285811 original size:41 final size:41
Alignment explanation
Indices: 34285040--34285807 Score: 1353
Period size: 41 Copynumber: 18.7 Consensus size: 41
34285030 TTATTATTAC
* * * * *
34285040 TAGCGGCGCTTTTTTAAAAACGCCGCTAAAGGCCACAGCAA
1 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGACAGAGCAT
* *
34285081 TATCGGCGCTTCTTT-AAAAACGCCGCT-AAAGATCTGAGCAT
1 TAGCGGCGCTT-TTTCAAAAACGCCGCTAAAAGA-CAGAGCAT
*
34285122 TAGCGGCGCTTCTTCAAAAACGCCGCTAAAAGACAGAGCAT
1 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGACAGAGCAT
34285163 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGACAGAGCAT
1 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGACAGAGCAT
34285204 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGACAGAGCAT
1 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGACAGAGCAT
34285245 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGACAGAGCAT
1 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGACAGAGCAT
34285286 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGACAGAGCAT
1 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGACAGAGCAT
34285327 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGACAGAGCAT
1 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGACAGAGCAT
34285368 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGACAGAGCAT
1 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGACAGAGCAT
34285409 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGACAGAGCAT
1 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGACAGAGCAT
34285450 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGACAGAGCAT
1 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGACAGAGCAT
34285491 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGACAGAGCAT
1 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGACAGAGCAT
34285532 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGACAGAGCAT
1 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGACAGAGCAT
34285573 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGACAGAGCAT
1 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGACAGAGCAT
34285614 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGACAGAGCAT
1 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGACAGAGCAT
34285655 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGACAGAGCAT
1 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGACAGAGCAT
* *
34285696 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCAGAGCAT
1 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGACAGAGCAT
** * *
34285737 TAGCGGCGCTTACTCAAAAACGCCGCTAAAGGCCAGAGCAT
1 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGACAGAGCAT
*
34285778 TAGCGGCG-TTTATTCAAAAATGCCGCTAAA
1 TAGCGGCGCTTT-TTCAAAAACGCCGCTAAA
34285808 GGCCCCAAAA
Statistics
Matches: 705, Mismatches: 17, Indels: 10
0.96 0.02 0.01
Matches are distributed among these distances:
40 7 0.01
41 690 0.98
42 8 0.01
ACGTcount: A:0.33, C:0.25, G:0.22, T:0.20
Consensus pattern (41 bp):
TAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGACAGAGCAT
Found at i:34293108 original size:15 final size:15
Alignment explanation
Indices: 34293088--34293138 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
34293078 TTTATGGAAA
34293088 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
34293103 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
34293117 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
34293133 ATCAAA
1 ATCAAA
34293139 NNNNNNNNNN
Statistics
Matches: 26, Mismatches: 8, Indels: 4
0.68 0.21 0.11
Matches are distributed among these distances:
14 4 0.15
15 18 0.69
16 4 0.15
ACGTcount: A:0.49, C:0.08, G:0.20, T:0.24
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:34298387 original size:15 final size:15
Alignment explanation
Indices: 34298367--34298444 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
34298357 TTTATGAAAA
34298367 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
34298382 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
34298396 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
34298412 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
34298426 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
34298442 ATC
1 ATC
34298445 NNNNNNNNNN
Statistics
Matches: 45, Mismatches: 14, Indels: 8
0.67 0.21 0.12
Matches are distributed among these distances:
14 8 0.18
15 29 0.64
16 8 0.18
ACGTcount: A:0.45, C:0.08, G:0.22, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:34298404 original size:30 final size:30
Alignment explanation
Indices: 34298368--34298444 Score: 136
Period size: 30 Copynumber: 2.6 Consensus size: 30
34298358 TTATGAAAAA
34298368 TCAAAGATATGGGTATCAAATAATAGAAAG
1 TCAAAGATATGGGTATCAAATAATAGAAAG
* *
34298398 TCAAAGATATGGGTATCAAATATTGGAAAG
1 TCAAAGATATGGGTATCAAATAATAGAAAG
34298428 TCAAAGATATGGGTATC
1 TCAAAGATATGGGTATC
34298445 NNNNNNNNNN
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.44, C:0.08, G:0.22, T:0.26
Consensus pattern (30 bp):
TCAAAGATATGGGTATCAAATAATAGAAAG
Found at i:34313321 original size:25 final size:25
Alignment explanation
Indices: 34313287--34313336 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
34313277 TTGGATGCCA
34313287 AAGATCTGCCAACGTGTTGCGTAAT
1 AAGATCTGCCAACGTGTTGCGTAAT
34313312 AAGATCTGCCAACGTGTTGCGTAAT
1 AAGATCTGCCAACGTGTTGCGTAAT
34313337 GACGGGAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (25 bp):
AAGATCTGCCAACGTGTTGCGTAAT
Found at i:34320899 original size:165 final size:166
Alignment explanation
Indices: 34320709--34321042 Score: 661
Period size: 165 Copynumber: 2.0 Consensus size: 166
34320699 ATTAATTTAT
34320709 TATTAATATATATTAAAATTTATGTAAAAAATAAATTATTTAGTAAATGATATCCTCAAAAAATT
1 TATTAATATATATTAAAATTTATGTAAAAAATAAATTATTTAGTAAATGATATCCTCAAAAAATT
34320774 AAGAGGATAAACCACACAGGCCAAAGACTTATCTAAAAAAAGTGGAGAGTGGAGTGGTGTTCAAT
66 AAGAGGATAAACCACACAGGCCAAAGACTTATCTAAAAAAAGTGGAGAGTGGAGTGGTGTTCAAT
34320839 CATTGAACCGTGGTGACCATGTATTCTCTAAAATAA
131 CATTGAACCGTGGTGACCATGTATTCTCTAAAATAA
34320875 TATTAATATATA-TAAAATTTATGTAAAAAATAAATTATTTAGTAAATGATATCCTCAAAAAATT
1 TATTAATATATATTAAAATTTATGTAAAAAATAAATTATTTAGTAAATGATATCCTCAAAAAATT
34320939 AAGAGGATAAACCACACAGGCCAAAGACTTATCTAAAAAAAGTGGAGAGTGGAGTGGTGTTCAAT
66 AAGAGGATAAACCACACAGGCCAAAGACTTATCTAAAAAAAGTGGAGAGTGGAGTGGTGTTCAAT
34321004 CATTGAACCGTGGTGACCATGTATTCTCTAAAATAA
131 CATTGAACCGTGGTGACCATGTATTCTCTAAAATAA
34321040 TAT
1 TAT
34321043 ATATAGCTTA
Statistics
Matches: 168, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
165 156 0.93
166 12 0.07
ACGTcount: A:0.43, C:0.11, G:0.16, T:0.30
Consensus pattern (166 bp):
TATTAATATATATTAAAATTTATGTAAAAAATAAATTATTTAGTAAATGATATCCTCAAAAAATT
AAGAGGATAAACCACACAGGCCAAAGACTTATCTAAAAAAAGTGGAGAGTGGAGTGGTGTTCAAT
CATTGAACCGTGGTGACCATGTATTCTCTAAAATAA
Found at i:34321672 original size:18 final size:19
Alignment explanation
Indices: 34321650--34321701 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
34321640 TTTATTTCAT
34321650 GAAAATAATTTGATTAACA
1 GAAAATAATTTGATTAACA
*
34321669 -AAAAAAATTATAGATTAACA
1 GAAAATAATT-T-GATTAACA
34321689 GAAAATAAGTTTG
1 GAAAATAA-TTTG
34321702 TTTTTCTGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
18 8 0.30
19 1 0.04
20 9 0.33
21 7 0.26
22 2 0.07
ACGTcount: A:0.56, C:0.04, G:0.12, T:0.29
Consensus pattern (19 bp):
GAAAATAATTTGATTAACA
Found at i:34324068 original size:15 final size:16
Alignment explanation
Indices: 34324041--34324070 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
34324031 ATTTTATTTT
34324041 AATAATGAATTTTAAC
1 AATAATGAATTTTAAC
34324057 AATAAT-AATTTTAA
1 AATAATGAATTTTAA
34324071 ATTTTAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.40
Consensus pattern (16 bp):
AATAATGAATTTTAAC
Found at i:34324234 original size:28 final size:28
Alignment explanation
Indices: 34324187--34324244 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
34324177 TTTAATATAA
**
34324187 ATTAAGTTTTAATTAGATATTGTTTATT
1 ATTAAGTTTTAATTAGATATTAATTATT
34324215 ATTAAG-TTTATATATA-ATATTAATTATT
1 ATTAAGTTTTA-AT-TAGATATTAATTATT
34324243 AT
1 AT
34324245 AAAATATCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
27 4 0.15
28 20 0.77
29 2 0.08
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (28 bp):
ATTAAGTTTTAATTAGATATTAATTATT
Found at i:34324451 original size:18 final size:20
Alignment explanation
Indices: 34324423--34324459 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
34324413 CAAACATAAA
34324423 AAAATATCAATC-TTTTTTG
1 AAAATATCAATCATTTTTTG
34324442 AAAA-ATCAATCATTTTTT
1 AAAATATCAATCATTTTTT
34324460 TCAGATAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.41, C:0.11, G:0.03, T:0.46
Consensus pattern (20 bp):
AAAATATCAATCATTTTTTG
Found at i:34326274 original size:19 final size:19
Alignment explanation
Indices: 34326247--34326285 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
34326237 ATATTCCAAC
*
34326247 AACTTAATTAACTAAGATG
1 AACTCAATTAACTAAGATG
34326266 AACTCAATTAACTAAGATG
1 AACTCAATTAACTAAGATG
34326285 A
1 A
34326286 GTAATTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.49, C:0.13, G:0.10, T:0.28
Consensus pattern (19 bp):
AACTCAATTAACTAAGATG
Found at i:34329556 original size:18 final size:18
Alignment explanation
Indices: 34329525--34329566 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
34329515 CATTTATTAT
34329525 AAAAAAAGAAATT-AATA
1 AAAAAAAGAAATTAAATA
*
34329542 AAAAAAATAAGATTAGAATA
1 AAAAAAAGAA-ATTA-AATA
34329562 AAAAA
1 AAAAA
34329567 CCACCAACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 9 0.43
18 3 0.14
20 9 0.43
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (18 bp):
AAAAAAAGAAATTAAATA
Found at i:34330848 original size:3 final size:3
Alignment explanation
Indices: 34330840--34330888 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
34330830 NNNNNNNNNN
34330840 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
34330888 T
1 T
34330889 GGTGAAGCTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:34331868 original size:30 final size:30
Alignment explanation
Indices: 34331832--34331894 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
34331822 ACTTAACAAG
34331832 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
*
34331862 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
34331892 CAA
1 CAA
34331895 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.13, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Found at i:34335646 original size:17 final size:17
Alignment explanation
Indices: 34335626--34335658 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
34335616 TATATTTTTA
*
34335626 TTTTTAATTAAATATAC
1 TTTTTAATCAAATATAC
34335643 TTTTTAATCAAATATA
1 TTTTTAATCAAATATA
34335659 TATATTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (17 bp):
TTTTTAATCAAATATAC
Found at i:34336579 original size:16 final size:16
Alignment explanation
Indices: 34336548--34336580 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
34336538 TAATAATAAA
34336548 TATTATAACATAATAT
1 TATTATAACATAATAT
34336564 TATTA-AACATACATAT
1 TATTATAACATA-ATAT
34336580 T
1 T
34336581 TAATTATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.42
Consensus pattern (16 bp):
TATTATAACATAATAT
Found at i:34337668 original size:11 final size:11
Alignment explanation
Indices: 34337644--34337680 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
34337634 ATATATATAT
34337644 TTTTTAAAA-A
1 TTTTTAAAATA
34337654 -TTTTAAAATA
1 TTTTTAAAATA
34337664 TTTTTAAAATA
1 TTTTTAAAATA
34337675 CTTTTT
1 -TTTTT
34337681 TTATTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 8 0.33
10 1 0.04
11 10 0.42
12 5 0.21
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTTTAAAATA
Found at i:34342106 original size:24 final size:24
Alignment explanation
Indices: 34342061--34342107 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
34342051 CTATGATGAT
*
34342061 AAATAGCTAAAAATATTTTTTTTA
1 AAATAGCTAAAAATATTATTTTTA
* *
34342085 AAATAGTTAAAAAT-TTAATTTTA
1 AAATAGCTAAAAATATTATTTTTA
34342108 GTAAGTTTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (24 bp):
AAATAGCTAAAAATATTATTTTTA
Found at i:34344998 original size:12 final size:12
Alignment explanation
Indices: 34344983--34345030 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
34344973 AGTTGTCCCA
34344983 TGGTGCTGATGC
1 TGGTGCTGATGC
*
34344995 TGGTGCTGGTGC
1 TGGTGCTGATGC
*
34345007 TGGTGCTGGTGC
1 TGGTGCTGATGC
* *
34345019 TGTTGCGGATGC
1 TGGTGCTGATGC
34345031 GGGTTGTGGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.04, C:0.17, G:0.46, T:0.33
Consensus pattern (12 bp):
TGGTGCTGATGC
Found at i:34345001 original size:6 final size:6
Alignment explanation
Indices: 34344983--34345020 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
34344973 AGTTGTCCCA
*
34344983 TGGTGC TGATGC TGGTGC TGGTGC TGGTGC TGGTGC TG
1 TGGTGC TGGTGC TGGTGC TGGTGC TGGTGC TGGTGC TG
34345021 TTGCGGATGC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.03, C:0.16, G:0.47, T:0.34
Consensus pattern (6 bp):
TGGTGC
Found at i:34345006 original size:18 final size:18
Alignment explanation
Indices: 34344983--34345030 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
34344973 AGTTGTCCCA
34344983 TGGTGCTGATGCTGGTGC
1 TGGTGCTGATGCTGGTGC
*
34345001 TGGTGCTGGTGCTGGTGC
1 TGGTGCTGATGCTGGTGC
* *
34345019 TGTTGCGGATGC
1 TGGTGCTGATGC
34345031 GGGTTGTGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.04, C:0.17, G:0.46, T:0.33
Consensus pattern (18 bp):
TGGTGCTGATGCTGGTGC
Found at i:34345633 original size:116 final size:116
Alignment explanation
Indices: 34345492--34345724 Score: 466
Period size: 116 Copynumber: 2.0 Consensus size: 116
34345482 GTTGGAGCTG
34345492 TATTTTTTACAGTAGCTAGTAGACTTGAAAATTTTAATGTTTATGGTTTGATTTAGTTTGAGATA
1 TATTTTTTACAGTAGCTAGTAGACTTGAAAATTTTAATGTTTATGGTTTGATTTAGTTTGAGATA
34345557 CTATAGCTTTGGGTTTTCAACTTTTAAAGTCAGTCACTATTCGGGTGGTAT
66 CTATAGCTTTGGGTTTTCAACTTTTAAAGTCAGTCACTATTCGGGTGGTAT
34345608 TATTTTTTACAGTAGCTAGTAGACTTGAAAATTTTAATGTTTATGGTTTGATTTAGTTTGAGATA
1 TATTTTTTACAGTAGCTAGTAGACTTGAAAATTTTAATGTTTATGGTTTGATTTAGTTTGAGATA
34345673 CTATAGCTTTGGGTTTTCAACTTTTAAAGTCAGTCACTATTCGGGTGGTAT
66 CTATAGCTTTGGGTTTTCAACTTTTAAAGTCAGTCACTATTCGGGTGGTAT
34345724 T
1 T
34345725 CTCAACATTT
Statistics
Matches: 117, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
116 117 1.00
ACGTcount: A:0.26, C:0.09, G:0.20, T:0.45
Consensus pattern (116 bp):
TATTTTTTACAGTAGCTAGTAGACTTGAAAATTTTAATGTTTATGGTTTGATTTAGTTTGAGATA
CTATAGCTTTGGGTTTTCAACTTTTAAAGTCAGTCACTATTCGGGTGGTAT
Found at i:34345831 original size:3 final size:3
Alignment explanation
Indices: 34345823--34345874 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
34345813 TTGTAGCAAT
34345823 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
34345871 TTA T
1 TTA T
34345875 GGTGAAGCTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:34346854 original size:30 final size:30
Alignment explanation
Indices: 34346818--34346880 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
34346808 ACTTAACAAG
34346818 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
*
34346848 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
34346878 CAA
1 CAA
34346881 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.13, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Found at i:34349692 original size:121 final size:120
Alignment explanation
Indices: 34349379--34349661 Score: 548
Period size: 121 Copynumber: 2.4 Consensus size: 120
34349369 CAAACTTTAG
*
34349379 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTA
1 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTA
34349444 TTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTT
66 TTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTT
34349499 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAATTATATTTTATAGT
1 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTT-AAATTATATTTTATAGT
34349564 ATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTT
65 ATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTT
34349620 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATT
1 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATT
34349662 GTTACACCTC
Statistics
Matches: 161, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
120 46 0.29
121 115 0.71
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (120 bp):
ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTA
TTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTT
Found at i:34349767 original size:16 final size:15
Alignment explanation
Indices: 34349746--34349794 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 15
34349736 TTGATTTGCT
34349746 ATTACGTCTCTATTCC
1 ATTACG-CTCTATTCC
*
34349762 ATTACGCATCTATTAC
1 ATTACGC-TCTATTCC
34349778 ATTACGCCTCTATTCC
1 ATTACG-CTCTATTCC
34349794 A
1 A
34349795 ATACAGCGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 1 0.03
16 27 0.93
17 1 0.03
ACGTcount: A:0.24, C:0.31, G:0.06, T:0.39
Consensus pattern (15 bp):
ATTACGCTCTATTCC
Found at i:34354361 original size:16 final size:16
Alignment explanation
Indices: 34354330--34354362 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
34354320 TAGTAATAAA
34354330 TATTATAACATAATAT
1 TATTATAACATAATAT
34354346 TATTA-AACATACATAT
1 TATTATAACATA-ATAT
34354362 T
1 T
34354363 GAATTATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.42
Consensus pattern (16 bp):
TATTATAACATAATAT
Found at i:34359748 original size:4 final size:4
Alignment explanation
Indices: 34359739--34359763 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
34359729 TGTAGCAATG
34359739 TTAT TTAT TTAT TTAT TTAT TTAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT T
34359764 ATAGTGAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:34367829 original size:6 final size:6
Alignment explanation
Indices: 34367811--34367840 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
34367801 AGTTGGCCCA
*
34367811 TGGTGC TGTTGC TGGTGC TGGTGC TGGTGC
1 TGGTGC TGGTGC TGGTGC TGGTGC TGGTGC
34367841 GGATGCGGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.17, G:0.47, T:0.37
Consensus pattern (6 bp):
TGGTGC
Found at i:34369766 original size:17 final size:17
Alignment explanation
Indices: 34369744--34369777 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
34369734 GAATGTGGGA
34369744 GCATTAGAGAAAATTAT
1 GCATTAGAGAAAATTAT
34369761 GCATTAGAGAAAATTAT
1 GCATTAGAGAAAATTAT
34369778 CTTAAAAACT
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:0.47, C:0.06, G:0.18, T:0.29
Consensus pattern (17 bp):
GCATTAGAGAAAATTAT
Found at i:34380527 original size:54 final size:54
Alignment explanation
Indices: 34380445--34380548 Score: 199
Period size: 54 Copynumber: 1.9 Consensus size: 54
34380435 GGTGGTTCAT
*
34380445 TCGTTCCATTACTGAGCTTAATGGGATTGTTCACATCTTCGTCATCTATGTTGC
1 TCGTTCCATTACCGAGCTTAATGGGATTGTTCACATCTTCGTCATCTATGTTGC
34380499 TCGTTCCATTACCGAGCTTAATGGGATTGTTCACATCTTCGTCATCTATG
1 TCGTTCCATTACCGAGCTTAATGGGATTGTTCACATCTTCGTCATCTATG
34380549 CTGTTGTGTC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.39
Consensus pattern (54 bp):
TCGTTCCATTACCGAGCTTAATGGGATTGTTCACATCTTCGTCATCTATGTTGC
Found at i:34386776 original size:35 final size:35
Alignment explanation
Indices: 34386699--34386776 Score: 93
Period size: 35 Copynumber: 2.2 Consensus size: 35
34386689 TAGAAGTGTA
* ** *
34386699 TTTTATTTTGGATCTATACAGAAAAATTGGTTGAT
1 TTTTATTTCGGATCTATACAGAAAAATTAATTAAT
* * *
34386734 TTCTATTTCGGATCTATATAGGAAAATTAATTAAT
1 TTTTATTTCGGATCTATACAGAAAAATTAATTAAT
34386769 TTTTATTT
1 TTTTATTT
34386777 TATTTTCTCT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.49
Consensus pattern (35 bp):
TTTTATTTCGGATCTATACAGAAAAATTAATTAAT
Found at i:34388798 original size:31 final size:30
Alignment explanation
Indices: 34388760--34388822 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 30
34388750 TACAAGAGTA
34388760 ATTGAATCCTAAT-AAAACTCTTTCAAAAGTT
1 ATTGAATCCTAATAAAAACTCTTT-AAAA-TT
*
34388791 ATTGAATCTTAATAAAAACTCTTTAAAATT
1 ATTGAATCCTAATAAAAACTCTTTAAAATT
34388821 AT
1 AT
34388823 CTAAGAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 4 0.13
31 16 0.53
32 10 0.33
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (30 bp):
ATTGAATCCTAATAAAAACTCTTTAAAATT
Found at i:34388854 original size:34 final size:35
Alignment explanation
Indices: 34388804--34388873 Score: 133
Period size: 34 Copynumber: 2.0 Consensus size: 35
34388794 GAATCTTAAT
34388804 AAAAACTCTTTAAAATTATCTAAGAAAATAAATAA
1 AAAAACTCTTTAAAATTATCTAAGAAAATAAATAA
34388839 AAAAACTCTTT-AAATTATCTAAGAAAATAAATAA
1 AAAAACTCTTTAAAATTATCTAAGAAAATAAATAA
34388873 A
1 A
34388874 TAATAACCTA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 24 0.69
35 11 0.31
ACGTcount: A:0.60, C:0.09, G:0.03, T:0.29
Consensus pattern (35 bp):
AAAAACTCTTTAAAATTATCTAAGAAAATAAATAA
Found at i:34399980 original size:108 final size:108
Alignment explanation
Indices: 34399692--34400013 Score: 536
Period size: 108 Copynumber: 3.0 Consensus size: 108
34399682 GCATGAATTT
* * * *
34399692 AAATTCAAGAGGATGTTTAGCTATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCA
1 AAATTTAAAAGGATATTAAGCTATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCA
* *
34399757 TGTTTTTTCGAATTTCCAAACGTAAAACATTGCCTTATTTTAA
66 TGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTAA
* *
34399800 AAATTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAAAAATCAACACCCAGCACCTTAGGGC
1 AAA-TTTAAAAGGATATTAAGCTATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGC
34399865 ATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTAA
65 ATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTAA
*
34399909 AAATTTAAAAGGATATTAAGCTATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGACA
1 AAATTTAAAAGGATATTAAGCTATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCA
* *
34399974 TGTTTTCTCGAACTTCCAAACGCAAAACATTGCCTCATTT
66 TGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTT
34400014 AGAAATATTT
Statistics
Matches: 200, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
108 100 0.50
109 100 0.50
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (108 bp):
AAATTTAAAAGGATATTAAGCTATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCA
TGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTAA
Found at i:34400252 original size:8 final size:8
Alignment explanation
Indices: 34400230--34400263 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
34400220 AGGAAAATAG
34400230 ATGAAAAT
1 ATGAAAAT
34400238 CAT-AAAAT
1 -ATGAAAAT
34400246 ATGAAAAT
1 ATGAAAAT
34400254 ATGAAAAT
1 ATGAAAAT
34400262 AT
1 AT
34400264 ATATTATGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 2 0.08
8 20 0.83
9 2 0.08
ACGTcount: A:0.62, C:0.03, G:0.09, T:0.26
Consensus pattern (8 bp):
ATGAAAAT
Found at i:34401706 original size:15 final size:16
Alignment explanation
Indices: 34401678--34401707 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
34401668 TAGTGTTTAG
34401678 GTGGGTTATTGGGTTT
1 GTGGGTTATTGGGTTT
34401694 GTGGGTT-TTGGGTT
1 GTGGGTTATTGGGTT
34401708 CTTTTTGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.03, C:0.00, G:0.47, T:0.50
Consensus pattern (16 bp):
GTGGGTTATTGGGTTT
Found at i:34408365 original size:25 final size:25
Alignment explanation
Indices: 34408330--34408395 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
34408320 TAGTTACTGA
* *
34408330 AAACGGGGAGTTTTGGGTATTAGTT
1 AAACGGTGAGTTTTGGGTATTAATT
* * *
34408355 AAACGGTGAGTTTTAGTTGTTAATT
1 AAACGGTGAGTTTTGGGTATTAATT
* *
34408380 AGACGGTGCGTTTTGG
1 AAACGGTGAGTTTTGG
34408396 TGAGTATTAG
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.23, C:0.06, G:0.33, T:0.38
Consensus pattern (25 bp):
AAACGGTGAGTTTTGGGTATTAATT
Found at i:34408530 original size:18 final size:20
Alignment explanation
Indices: 34408495--34408534 Score: 66
Period size: 18 Copynumber: 2.1 Consensus size: 20
34408485 TTGTTATCTG
34408495 TTTTCTCCTCTCTTTCTTCC
1 TTTTCTCCTCTCTTTCTTCC
34408515 TTTTCT-CTCT-TTTCTTCC
1 TTTTCTCCTCTCTTTCTTCC
34408533 TT
1 TT
34408535 CAAACTCTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 10 0.50
19 4 0.20
20 6 0.30
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTCTCCTCTCTTTCTTCC
Found at i:34411095 original size:25 final size:25
Alignment explanation
Indices: 34411060--34411125 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
34411050 TAGTTACTGA
* *
34411060 AAACGGGGAGTTTTGGGTATTAGTT
1 AAACGGTGAGTTTTGGGTATTAATT
* * *
34411085 AAACGGTGAGTTTTAGTTGTTAATT
1 AAACGGTGAGTTTTGGGTATTAATT
* *
34411110 AGACGGTGCGTTTTGG
1 AAACGGTGAGTTTTGG
34411126 TGAGTATTAG
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.23, C:0.06, G:0.33, T:0.38
Consensus pattern (25 bp):
AAACGGTGAGTTTTGGGTATTAATT
Found at i:34412845 original size:24 final size:24
Alignment explanation
Indices: 34412817--34412868 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
34412807 TTTCTAGAAG
* *
34412817 ATTTAATATTTATGAGTATAATAT
1 ATTTAACATTTATGAGCATAATAT
* *
34412841 ATTTACCATTTATTAGCATAATAT
1 ATTTAACATTTATGAGCATAATAT
34412865 ATTT
1 ATTT
34412869 GACTTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (24 bp):
ATTTAACATTTATGAGCATAATAT
Found at i:34420052 original size:24 final size:24
Alignment explanation
Indices: 34419965--34420040 Score: 125
Period size: 24 Copynumber: 3.2 Consensus size: 24
34419955 TTTTTAGAAA
* * *
34419965 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
34419989 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
34420013 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
34420037 ATTT
1 ATTT
34420041 GACTTTGATT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.37, C:0.05, G:0.09, T:0.49
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:34420690 original size:3 final size:3
Alignment explanation
Indices: 34420684--34420731 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
34420674 CCCTAATAAC
34420684 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
34420732 GACTGTAAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:34421337 original size:18 final size:19
Alignment explanation
Indices: 34421315--34421375 Score: 74
Period size: 18 Copynumber: 3.2 Consensus size: 19
34421305 GGTCCTAATC
34421315 CTGAAGATAGGTCTAAATA
1 CTGAAGATAGGTCTAAATA
34421334 -TGAAGATAGGTCTACTAA-A
1 CTGAAGATAGGTCTA--AATA
34421353 CCTGAAGATAGGTCTAAAT-
1 -CTGAAGATAGGTCTAAATA
34421372 CTGA
1 CTGA
34421376 TACAAATTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
18 18 0.49
19 3 0.08
20 2 0.05
21 14 0.38
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.26
Consensus pattern (19 bp):
CTGAAGATAGGTCTAAATA
Found at i:34422760 original size:243 final size:244
Alignment explanation
Indices: 34422322--34422809 Score: 969
Period size: 243 Copynumber: 2.0 Consensus size: 244
34422312 ATAGTGTCTG
34422322 AGACTCATATTCTAATAATATATTAATTATTATTCTATAAAGGAAATGATGAATGAGATTAAATT
1 AGACTCATATTCTAATAATATATTAATTATTATTCTATAAAGGAAATGATGAATGAGATTAAATT
34422387 AAACTTGTTTTTTTTTAAATTGAATTTAGTAAAATTAAAATTTTTAATGAAAGATTTTTTTAAAG
66 AAACTTGTTTTTTTTTAAATTGAATTTAGTAAAATTAAAATTTTTAATGAAAGATTTTTTTAAAG
34422452 AAATGGAAATTACGTATGTTTGATTAGATCTGTCCATGAGTCAAGTTGGGTTTTGACAAAATTTT
131 AAATGGAAATTACGTATGTTTGATTAGATCTGTCCATGAGTCAAGTTGGGTTTTGACAAAATTTT
34422517 AGACCTATTTGATAGGTTCGGGTTCGGCTTGACCTAAAAAATGAGCCTA
196 AGACCTATTTGATAGGTTCGGGTTCGGCTTGACCTAAAAAATGAGCCTA
34422566 AGACTCATA-TCTAATAATATATTAATTATTATTCTATAAAGGAAATGATGAATGAGATTAAATT
1 AGACTCATATTCTAATAATATATTAATTATTATTCTATAAAGGAAATGATGAATGAGATTAAATT
34422630 AAACTTGTTTTTTTTTAAATTGAATTTAGTAAAATTAAAATTTTTAATGAAAGATTTTTTTAAAG
66 AAACTTGTTTTTTTTTAAATTGAATTTAGTAAAATTAAAATTTTTAATGAAAGATTTTTTTAAAG
34422695 AAATGGAAATTACGTATGTTTGATTAGATCTGTCCATGAGTCAAGTTGGGTTTTGACAAAATTTT
131 AAATGGAAATTACGTATGTTTGATTAGATCTGTCCATGAGTCAAGTTGGGTTTTGACAAAATTTT
34422760 AGACCTATTTGATAGGTTCGGGTTCGGCTTGACCTAAAAAATGAGCCTA
196 AGACCTATTTGATAGGTTCGGGTTCGGCTTGACCTAAAAAATGAGCCTA
34422809 A
1 A
34422810 AATTTTGTTC
Statistics
Matches: 244, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
243 235 0.96
244 9 0.04
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.39
Consensus pattern (244 bp):
AGACTCATATTCTAATAATATATTAATTATTATTCTATAAAGGAAATGATGAATGAGATTAAATT
AAACTTGTTTTTTTTTAAATTGAATTTAGTAAAATTAAAATTTTTAATGAAAGATTTTTTTAAAG
AAATGGAAATTACGTATGTTTGATTAGATCTGTCCATGAGTCAAGTTGGGTTTTGACAAAATTTT
AGACCTATTTGATAGGTTCGGGTTCGGCTTGACCTAAAAAATGAGCCTA
Found at i:34433788 original size:16 final size:17
Alignment explanation
Indices: 34433767--34433806 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
34433757 ATTTCACTTC
*
34433767 ATTTTAGCTT-TATATT
1 ATTTTACCTTATATATT
34433783 ATTTTACCTTATATATT
1 ATTTTACCTTATATATT
*
34433800 ACTTTAC
1 ATTTTAC
34433807 ATTAGTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.28, C:0.12, G:0.03, T:0.57
Consensus pattern (17 bp):
ATTTTACCTTATATATT
Found at i:34437055 original size:3 final size:3
Alignment explanation
Indices: 34437049--34437095 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
34437039 TATGGTCTTA
* *
34437049 TAT TAT TAA TAT TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
34437096 AATAACTTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:34442833 original size:22 final size:24
Alignment explanation
Indices: 34442781--34442836 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 24
34442771 TTTTTTTAAA
34442781 TTTAAAT-TTAATTATAAAGTATAT
1 TTTAAATATTAATTATAAAG-ATAT
* *
34442805 ATAAAATATTAATTA-AAA-ATAT
1 TTTAAATATTAATTATAAAGATAT
34442827 TTTAAATATT
1 TTTAAATATT
34442837 TTATTATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
22 12 0.44
24 8 0.30
25 7 0.26
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (24 bp):
TTTAAATATTAATTATAAAGATAT
Found at i:34442924 original size:97 final size:98
Alignment explanation
Indices: 34442785--34442981 Score: 387
Period size: 97 Copynumber: 2.0 Consensus size: 98
34442775 TTTAAATTTA
34442785 AATTTAATTATAAAGTATATATAAAATATTAATTAAAAATATTTTAAATATTTTATTATTTTTGA
1 AATTTAATTATAAAGTATATATAAAATATTAATTAAAAATATTTTAAATATTTTATTATTTTTGA
34442850 ATAAGAAAAAATGTGCTCTTGAGAGTTGGGTCG
66 ATAAGAAAAAATGTGCTCTTGAGAGTTGGGTCG
34442883 AATTTAATTAT-AAGTATATATAAAATATTAATTAAAAATATTTTAAATATTTTATTATTTTTGA
1 AATTTAATTATAAAGTATATATAAAATATTAATTAAAAATATTTTAAATATTTTATTATTTTTGA
34442947 ATAAGAAAAAATGTGCTCTTGAGAGTTGGGTCG
66 ATAAGAAAAAATGTGCTCTTGAGAGTTGGGTCG
34442980 AA
1 AA
34442982 AACAAGCCTA
Statistics
Matches: 99, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
97 88 0.89
98 11 0.11
ACGTcount: A:0.43, C:0.03, G:0.12, T:0.42
Consensus pattern (98 bp):
AATTTAATTATAAAGTATATATAAAATATTAATTAAAAATATTTTAAATATTTTATTATTTTTGA
ATAAGAAAAAATGTGCTCTTGAGAGTTGGGTCG
Found at i:34446871 original size:27 final size:27
Alignment explanation
Indices: 34446820--34446871 Score: 63
Period size: 27 Copynumber: 1.9 Consensus size: 27
34446810 ATTTTTGTTA
*
34446820 AAAATTATTTAAATTTAAACCGTAATT
1 AAAATTATTTAAATTTAAACAGTAATT
34446847 AAAATTATATATAAA-TTAAA-AGTAA
1 AAAATTAT-T-TAAATTTAAACAGTAA
34446872 CCACATAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
27 12 0.55
28 6 0.27
29 4 0.18
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.37
Consensus pattern (27 bp):
AAAATTATTTAAATTTAAACAGTAATT
Found at i:34454915 original size:27 final size:24
Alignment explanation
Indices: 34454869--34454927 Score: 118
Period size: 24 Copynumber: 2.5 Consensus size: 24
34454859 TTTTAAGCTT
34454869 AATATTATTTTTAAACTCATCATC
1 AATATTATTTTTAAACTCATCATC
34454893 AATATTATTTTTAAACTCATCATC
1 AATATTATTTTTAAACTCATCATC
34454917 AATATTATTTT
1 AATATTATTTT
34454928 ACTGTATTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (24 bp):
AATATTATTTTTAAACTCATCATC
Found at i:34455011 original size:24 final size:24
Alignment explanation
Indices: 34454930--34455167 Score: 107
Period size: 23 Copynumber: 10.4 Consensus size: 24
34454920 ATTATTTTAC
*
34454930 TGTATTATTATTTTAA-ATTATTCA
1 TGTATTATTATTTTAAGTTTA-TCA
* *
34454954 T-TAATATTA-CTTAA-TTTATCA
1 TGTATTATTATTTTAAGTTTATCA
* * *
34454975 TGTATTTGTTTTTTTAAAGTTTTTCA
1 TGTA-TTATTATTTT-AAGTTTATCA
34455001 TG---TATTATTTTAAGTTTATCA
1 TGTATTATTATTTTAAGTTTATCA
* *
34455022 TGCATTATTATTGTAAGTTTATCA
1 TGTATTATTATTTTAAGTTTATCA
* *
34455046 T-TGTTATTATTTTAAAATTT-TCA
1 TGTATTATTATTTT-AAGTTTATCA
** ** *
34455069 T-TAACATTATTCGAA-TTTTTCA
1 TGTATTATTATTTTAAGTTTATCA
* * *
34455091 TGTACTACTATTTTAGGTTCT-TCA
1 TGTATTATTATTTTAAGTT-TATCA
*
34455115 --TA-TATTAGTTTGAA-TTTATCA
1 TGTATTATTA-TTTTAAGTTTATCA
*
34455136 TATATTATTA-TTTAA-TTTCATCA
1 TGTATTATTATTTTAAGTTT-ATCA
34455159 TGTATTATT
1 TGTATTATT
34455168 TGTTATGCTA
Statistics
Matches: 163, Mismatches: 32, Indels: 39
0.70 0.14 0.17
Matches are distributed among these distances:
20 1 0.01
21 27 0.17
22 35 0.21
23 52 0.32
24 37 0.23
25 3 0.02
26 8 0.05
ACGTcount: A:0.29, C:0.08, G:0.07, T:0.56
Consensus pattern (24 bp):
TGTATTATTATTTTAAGTTTATCA
Found at i:34455069 original size:23 final size:23
Alignment explanation
Indices: 34455003--34455070 Score: 59
Period size: 24 Copynumber: 2.9 Consensus size: 23
34454993 GTTTTTCATG
* *
34455003 TATTATTTTAAGTTTATCA-TGCAT
1 TATTATTGTAAATTTATCATTG--T
*
34455027 TATTATTGTAAGTTTATCATTGT
1 TATTATTGTAAATTTATCATTGT
*
34455050 TATTATTTTAAAATTT-TCATT
1 TATTATTGT-AAATTTATCATT
34455071 AACATTATTC
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
23 14 0.36
24 23 0.59
25 2 0.05
ACGTcount: A:0.29, C:0.06, G:0.07, T:0.57
Consensus pattern (23 bp):
TATTATTGTAAATTTATCATTGT
Found at i:34455137 original size:21 final size:21
Alignment explanation
Indices: 34455112--34455169 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
34455102 TTTAGGTTCT
34455112 TCATATATTAGTTTGAATTT-A
1 TCATATATTA-TTTGAATTTCA
*
34455133 TCATATATTATTATTTAATTTCA
1 TCATATATTA-T-TTGAATTTCA
*
34455156 TCATGTATTATTTG
1 TCATATATTATTTG
34455170 TTATGCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 13 0.42
22 8 0.26
23 10 0.32
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.55
Consensus pattern (21 bp):
TCATATATTATTTGAATTTCA
Found at i:34455718 original size:24 final size:24
Alignment explanation
Indices: 34455663--34455723 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
34455653 CCCTTCTTGC
*
34455663 ATGTT-ATTTGTT-TTTTTTAGTT
1 ATGTTAATTTGTTATGTTTTAGTT
* *
34455685 ATTTTAAATTTGTTATGTTTTATTT
1 ATGTT-AATTTGTTATGTTTTAGTT
34455710 ATGTTAATTTGTTA
1 ATGTTAATTTGTTA
34455724 GGTACTTCTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 4 0.12
24 16 0.50
25 12 0.38
ACGTcount: A:0.21, C:0.00, G:0.11, T:0.67
Consensus pattern (24 bp):
ATGTTAATTTGTTATGTTTTAGTT
Found at i:34455841 original size:17 final size:18
Alignment explanation
Indices: 34455798--34455841 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
34455788 AATTATTGTT
*
34455798 ATTATGTGTATTGTATTG
1 ATTATTTGTATTGTATTG
* *
34455816 CTTACTTGTATT-TATTG
1 ATTATTTGTATTGTATTG
34455833 ATTATTTGT
1 ATTATTTGT
34455842 CGTTCATTAG
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.20, C:0.05, G:0.16, T:0.59
Consensus pattern (18 bp):
ATTATTTGTATTGTATTG
Found at i:34456610 original size:102 final size:103
Alignment explanation
Indices: 34456422--34456615 Score: 372
Period size: 102 Copynumber: 1.9 Consensus size: 103
34456412 AAGGGGGATC
34456422 ATTTTTAATCTTTTCAAATTTTTGACATTCGACTTTAAGACATTAATCAATCAATTCGGTATCAA
1 ATTTTTAATC-TTTCAAATTTTTGACATTCGACTTTAAGACATTAATCAATCAATTCGGTATCAA
34456487 TTTTGGGCGTTACGAGAGTGCTAATCCTTCCTCGTACGT
65 TTTTGGGCGTTACGAGAGTGCTAATCCTTCCTCGTACGT
34456526 ATTTTTAATC-TTCAAATTTTTGACATTCGACTTTAAGACATTAATCAATCAATTCGGTATCAAT
1 ATTTTTAATCTTTCAAATTTTTGACATTCGACTTTAAGACATTAATCAATCAATTCGGTATCAAT
34456590 TTTGGGCGTTACGAGAGTGCTAATCC
66 TTTGGGCGTTACGAGAGTGCTAATCC
34456616 CCTTTCGTAC
Statistics
Matches: 90, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
102 80 0.89
104 10 0.11
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (103 bp):
ATTTTTAATCTTTCAAATTTTTGACATTCGACTTTAAGACATTAATCAATCAATTCGGTATCAAT
TTTGGGCGTTACGAGAGTGCTAATCCTTCCTCGTACGT
Found at i:34475311 original size:27 final size:24
Alignment explanation
Indices: 34475265--34475323 Score: 118
Period size: 24 Copynumber: 2.5 Consensus size: 24
34475255 TTTTAAGCTT
34475265 AATATTATTTTTAAACTCATCATC
1 AATATTATTTTTAAACTCATCATC
34475289 AATATTATTTTTAAACTCATCATC
1 AATATTATTTTTAAACTCATCATC
34475313 AATATTATTTT
1 AATATTATTTT
34475324 ACTGTATTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (24 bp):
AATATTATTTTTAAACTCATCATC
Found at i:34475407 original size:24 final size:24
Alignment explanation
Indices: 34475326--34475563 Score: 107
Period size: 23 Copynumber: 10.4 Consensus size: 24
34475316 ATTATTTTAC
*
34475326 TGTATTATTATTTTAA-ATTATTCA
1 TGTATTATTATTTTAAGTTTA-TCA
* *
34475350 T-TAATATTA-CTTAA-TTTATCA
1 TGTATTATTATTTTAAGTTTATCA
* * *
34475371 TGTATTTGTTTTTTTAAAGTTTTTCA
1 TGTA-TTATTATTTT-AAGTTTATCA
34475397 TG---TATTATTTTAAGTTTATCA
1 TGTATTATTATTTTAAGTTTATCA
* *
34475418 TGCATTATTATTGTAAGTTTATCA
1 TGTATTATTATTTTAAGTTTATCA
* *
34475442 T-TGTTATTATTTTAAAATTT-TCA
1 TGTATTATTATTTT-AAGTTTATCA
** ** *
34475465 T-TAACATTATTCGAA-TTTTTCA
1 TGTATTATTATTTTAAGTTTATCA
* * *
34475487 TGTACTACTATTTTAGGTTCT-TCA
1 TGTATTATTATTTTAAGTT-TATCA
*
34475511 --TA-TATTAGTTTGAA-TTTATCA
1 TGTATTATTA-TTTTAAGTTTATCA
*
34475532 TATATTATTA-TTTAA-TTTCATCA
1 TGTATTATTATTTTAAGTTT-ATCA
34475555 TGTATTATT
1 TGTATTATT
34475564 TGTTATGCTA
Statistics
Matches: 163, Mismatches: 32, Indels: 39
0.70 0.14 0.17
Matches are distributed among these distances:
20 1 0.01
21 27 0.17
22 35 0.21
23 52 0.32
24 37 0.23
25 3 0.02
26 8 0.05
ACGTcount: A:0.29, C:0.08, G:0.07, T:0.56
Consensus pattern (24 bp):
TGTATTATTATTTTAAGTTTATCA
Found at i:34475465 original size:23 final size:23
Alignment explanation
Indices: 34475399--34475466 Score: 59
Period size: 24 Copynumber: 2.9 Consensus size: 23
34475389 GTTTTTCATG
* *
34475399 TATTATTTTAAGTTTATCA-TGCAT
1 TATTATTGTAAATTTATCATTG--T
*
34475423 TATTATTGTAAGTTTATCATTGT
1 TATTATTGTAAATTTATCATTGT
*
34475446 TATTATTTTAAAATTT-TCATT
1 TATTATTGT-AAATTTATCATT
34475467 AACATTATTC
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
23 14 0.36
24 23 0.59
25 2 0.05
ACGTcount: A:0.29, C:0.06, G:0.07, T:0.57
Consensus pattern (23 bp):
TATTATTGTAAATTTATCATTGT
Found at i:34475533 original size:21 final size:21
Alignment explanation
Indices: 34475508--34475565 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
34475498 TTTAGGTTCT
34475508 TCATATATTAGTTTGAATTT-A
1 TCATATATTA-TTTGAATTTCA
*
34475529 TCATATATTATTATTTAATTTCA
1 TCATATATTA-T-TTGAATTTCA
*
34475552 TCATGTATTATTTG
1 TCATATATTATTTG
34475566 TTATGCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 13 0.42
22 8 0.26
23 10 0.32
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.55
Consensus pattern (21 bp):
TCATATATTATTTGAATTTCA
Found at i:34476188 original size:24 final size:24
Alignment explanation
Indices: 34476133--34476193 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
34476123 CCCTTCTTGC
*
34476133 ATGTT-ATTTGTT-TTTTTTAGTT
1 ATGTTAATTTGTTATGTTTTAGTT
* *
34476155 ATTTTAAATTTGTTATGTTTTATTT
1 ATGTT-AATTTGTTATGTTTTAGTT
34476180 ATGTTAATTTGTTA
1 ATGTTAATTTGTTA
34476194 GGTACTTCTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 4 0.12
24 16 0.50
25 12 0.38
ACGTcount: A:0.21, C:0.00, G:0.11, T:0.67
Consensus pattern (24 bp):
ATGTTAATTTGTTATGTTTTAGTT
Found at i:34476311 original size:17 final size:18
Alignment explanation
Indices: 34476268--34476311 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
34476258 AATTATTGTT
*
34476268 ATTATGTGTATTGTATTG
1 ATTATTTGTATTGTATTG
* *
34476286 CTTACTTGTATT-TATTG
1 ATTATTTGTATTGTATTG
34476303 ATTATTTGT
1 ATTATTTGT
34476312 CGTTCATTAG
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.20, C:0.05, G:0.16, T:0.59
Consensus pattern (18 bp):
ATTATTTGTATTGTATTG
Done.