Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 178 of 204
Found at i:52716755 original size:99 final size:99
Alignment explanation
Indices: 52716516--52717213 Score: 783
Period size: 99 Copynumber: 7.0 Consensus size: 99
52716506 TACCTCTGAG
* * *
52716516 ATTGCAATTAAAAAGATTGAAGCTGCAATGGTGAATCTTACTTCCCTGGCGATGCAGTGGAGCAG
1 ATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGATGCAGTGGAGCAG
* *
52716581 ATTAAAGCTACGACGGCGAATCTTGCTTCCCCGAC
66 ATTGAAGCTACAACGGCGAATCTTG-TTCCCCGAC
* * * *
52716616 ATTGCAATTAAAAAGATTGAAGCCGCAACGGTGAATCTTACTTCCCTGGCCATGTAGTGGATCAG
1 ATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGATGCAGTGGAGCAG
*
52716681 ATTGAAGCTACAACGGTGAATCTTGTTCCCCGAC
66 ATTGAAGCTACAACGGCGAATCTTGTTCCCCGAC
* * * *
52716715 ATTGCAATTAAAAAGATTGAAGCCGCAACGACGAATCTTACTTTCTTGGC-AGTGTAGTGGAGCA
1 ATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGA-TGCAGTGGAGCA
* * *
52716779 GATT-AAGGCTACGACGGTGAATCATGCTTCCCCGAC
65 GATTGAA-GCTACAACGGCGAATCTTG-TTCCCCGAC
* * * * *
52716815 ATCGCAATT-AAAAGATTGAAGTCGCAACGGCGAATCTTACTTCCTTGGCGGTGCAGTGGAACAG
1 ATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGATGCAGTGGAGCAG
* * *
52716879 ATTGAAGCTACAACGGTGAATCTTATTCCCTGAC
66 ATTGAAGCTACAACGGCGAATCTTGTTCCCCGAC
* * * * *
52716913 ATTGAAATTAAAAAGATTGAAGTCGTAACGGCGAATCTTACTTTCCTGGCGGTGCAGTGGAGCAG
1 ATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGATGCAGTGGAGCAG
* * *** *
52716978 ATTAAAGCTACGACGAAAAATCTTGCTTCCCCGAT
66 ATTGAAGCTACAACGGCGAATCTTG-TTCCCCGAC
* * * * ** *
52717013 ATCGCAATT-AAAAGATTGAAGCCGCAACGACGAATCTTACTTCCTTGGCGGTGCAGTGGAATAT
1 ATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGATGCAGTGGAGCAG
* * *
52717077 ATTGAAGCTACAACGGCGAATCCTATTCCCTGAC
66 ATTGAAGCTACAACGGCGAATCTTGTTCCCCGAC
* * * * ** ** * * *
52717111 ATTGCAATTTAAAAAAATTAAAGCTGCAACGACGAATCTTACTTTTCTGGTAATGTAGTAGAACA
1 ATTGCAA-TTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGATGCAGTGGAGCA
* *
52717176 GATTGAAGCTATAACAGCGAATCTTGTTCCCCGAC
65 GATTGAAGCTACAACGGCGAATCTTGTTCCCCGAC
52717211 ATT
1 ATT
52717214 ACAGTTAGTT
Statistics
Matches: 511, Mismatches: 78, Indels: 18
0.84 0.13 0.03
Matches are distributed among these distances:
98 31 0.06
99 291 0.57
100 189 0.37
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (99 bp):
ATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGATGCAGTGGAGCAG
ATTGAAGCTACAACGGCGAATCTTGTTCCCCGAC
Found at i:52717208 original size:198 final size:198
Alignment explanation
Indices: 52716511--52717212 Score: 924
Period size: 198 Copynumber: 3.5 Consensus size: 198
52716501 ATTCATACCT
* * ** * *
52716511 CTGAGATTGCAATTAAAAAGATTGAAGCTGCAATGGTGAATCTTACTTCCCTGGCGATGCAGTGG
1 CTGACATTGCAATTAAAAAGATTGAAGCTGCAACGACGAATCTTACTTTCCTGGCAATGCAGTGG
*
52716576 AGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCG
66 AGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCCGACATCGCAATT-AAAAGATTGAAGCCG
* * ** *
52716641 CAACGGTGAATCTTACTTCCCTGGCCATGTAGTGG-ATCAGATTGAAGCTACAACGGTGAATCTT
130 CAACGGCGAATCTTACTTCCTTGGCGGTGCAGTGGAAT-AGATTGAAGCTACAACGGTGAATCTT
*
52716705 GTTCC
194 ATTCC
* * * * *
52716710 CCGACATTGCAATTAAAAAGATTGAAGCCGCAACGACGAATCTTACTTTCTTGGCAGTGTAGTGG
1 CTGACATTGCAATTAAAAAGATTGAAGCTGCAACGACGAATCTTACTTTCCTGGCAATGCAGTGG
* * * *
52716775 AGCAGATTAAGGCTACGACGGTGAATCATGCTTCCCCGACATCGCAATTAAAAGATTGAAGTCGC
66 AGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCCGACATCGCAATTAAAAGATTGAAGCCGC
*
52716840 AACGGCGAATCTTACTTCCTTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGTGAATCTTAT
131 AACGGCGAATCTTACTTCCTTGGCGGTGCAGTGGAATAGATTGAAGCTACAACGGTGAATCTTAT
52716905 TCC
196 TCC
* * * **
52716908 CTGACATTGAAATTAAAAAGATTGAAG-TCGTAACGGCGAATCTTACTTTCCTGGCGGTGCAGTG
1 CTGACATTGCAATTAAAAAGATTGAAGCT-GCAACGACGAATCTTACTTTCCTGGCAATGCAGTG
*** *
52716972 GAGCAGATTAAAGCTACGACGAAAAATCTTGCTTCCCCGATATCGCAATTAAAAGATTGAAGCCG
65 GAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCCGACATCGCAATTAAAAGATTGAAGCCG
* * * *
52717037 CAACGACGAATCTTACTTCCTTGGCGGTGCAGTGGAATATATTGAAGCTACAACGGCGAATCCTA
130 CAACGGCGAATCTTACTTCCTTGGCGGTGCAGTGGAATAGATTGAAGCTACAACGGTGAATCTTA
52717102 TTCC
195 TTCC
* * * * * *
52717106 CTGACATTGCAATTTAAAAAAATTAAAGCTGCAACGACGAATCTTACTTTTCTGGTAATGTAGTA
1 CTGACATTGCAA-TTAAAAAGATTGAAGCTGCAACGACGAATCTTACTTTCCTGGCAATGCAGTG
* * ** *
52717171 GAACAGATTGAAGCTATAACAGCGAATCTTG-TTCCCCGACAT
65 GAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCCGACAT
52717213 TACAGTTAGT
Statistics
Matches: 436, Mismatches: 63, Indels: 9
0.86 0.12 0.02
Matches are distributed among these distances:
198 272 0.62
199 163 0.37
200 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (198 bp):
CTGACATTGCAATTAAAAAGATTGAAGCTGCAACGACGAATCTTACTTTCCTGGCAATGCAGTGG
AGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCCGACATCGCAATTAAAAGATTGAAGCCGC
AACGGCGAATCTTACTTCCTTGGCGGTGCAGTGGAATAGATTGAAGCTACAACGGTGAATCTTAT
TCC
Found at i:52717278 original size:45 final size:45
Alignment explanation
Indices: 52717229--52717633 Score: 441
Period size: 45 Copynumber: 9.0 Consensus size: 45
52717219 TAGTTAGACT
* ** * * *
52717229 GAAGATAGCAGATGTTACCTTCCTATATTGACAGTGAAATAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATC
*
52717274 GAAGATAGCTAG-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGA-C
1 GAAGATAGC-AGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATC
*
52717318 TGAAGATAGCAGATCTTGTCTTTCTGTATTGGCAGTGAAGTAGATC
1 -GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATC
*
52717364 GAAGATAGCA-AGTCTTGTCTTCCTGTATTGGCGGCT-AAGTAGA-C
1 GAAGATAGCAGA-TCTTGTCTTCCTGTATTGGCAG-TGAAGTAGATC
* * * *
52717408 TGAATATAGTAGATCTTGTCTTCCTGTATTGGCAGTAAAGTAGATG
1 -GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATC
* * * * *
52717454 GAAGATAGTA-AGTCTTGTCTTCCTATATTGGTAGCGATGTAGA-C
1 GAAGATAGCAGA-TCTTGTCTTCCTGTATTGGCAGTGAAGTAGATC
* *
52717498 TGAAGATAGCAGTTCTTGTCTTCATGTATTGGCAGTGAAGTAGATC
1 -GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATC
*
52717544 GAAGATAGCA-AGTCTTGTCTTCCTGTATTGGCAGCGAAGTAGA-C
1 GAAGATAGCAGA-TCTTGTCTTCCTGTATTGGCAGTGAAGTAGATC
* * **
52717588 TGAAGATAGTAGATCTTGTCTTCCTATATTGGCAACGAAGTAGATC
1 -GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATC
52717634 AAAAACCACA
Statistics
Matches: 307, Mismatches: 35, Indels: 35
0.81 0.09 0.09
Matches are distributed among these distances:
44 8 0.03
45 291 0.95
46 8 0.03
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (45 bp):
GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATC
Found at i:52717378 original size:90 final size:90
Alignment explanation
Indices: 52717223--52717633 Score: 606
Period size: 90 Copynumber: 4.6 Consensus size: 90
52717213 TACAGTTAGT
* ** * * * *
52717223 TAGACTGAAGATAGCAGATGTTACCTTCCTATATTGACAGTGAAATAGATCGAAGATAGCTAGTC
1 TAGACTGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCGAAGATAGCAAGTC
52717288 TTGTCTTCCTGTATTGGCAGCGAAG
66 TTGTCTTCCTGTATTGGCAGCGAAG
*
52717313 TAGACTGAAGATAGCAGATCTTGTCTTTCTGTATTGGCAGTGAAGTAGATCGAAGATAGCAAGTC
1 TAGACTGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCGAAGATAGCAAGTC
* *
52717378 TTGTCTTCCTGTATTGGCGGCTAAG
66 TTGTCTTCCTGTATTGGCAGCGAAG
* * * * *
52717403 TAGACTGAATATAGTAGATCTTGTCTTCCTGTATTGGCAGTAAAGTAGATGGAAGATAGTAAGTC
1 TAGACTGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCGAAGATAGCAAGTC
* * *
52717468 TTGTCTTCCTATATTGGTAGCGATG
66 TTGTCTTCCTGTATTGGCAGCGAAG
* *
52717493 TAGACTGAAGATAGCAGTTCTTGTCTTCATGTATTGGCAGTGAAGTAGATCGAAGATAGCAAGTC
1 TAGACTGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCGAAGATAGCAAGTC
52717558 TTGTCTTCCTGTATTGGCAGCGAAG
66 TTGTCTTCCTGTATTGGCAGCGAAG
* * **
52717583 TAGACTGAAGATAGTAGATCTTGTCTTCCTATATTGGCAACGAAGTAGATC
1 TAGACTGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATC
52717634 AAAAACCACA
Statistics
Matches: 284, Mismatches: 37, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
90 284 1.00
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (90 bp):
TAGACTGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCGAAGATAGCAAGTC
TTGTCTTCCTGTATTGGCAGCGAAG
Found at i:52717471 original size:135 final size:136
Alignment explanation
Indices: 52717223--52717633 Score: 500
Period size: 135 Copynumber: 3.0 Consensus size: 136
52717213 TACAGTTAGT
* * ** * * * *
52717223 TAGA-CTGAAGATAGCAGATGTTACCTTCCTATATTGACAGTGAAATAGATCGAAGATAGCTAG-
1 TAGATCTGAAGATAGCAGTTCTTGTCTTCATGTATTGGCAGTGAAGTAGATCGAAGATAG-TAGA
* * *
52717286 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAGATCTTGTCTTTCTGTATTGGC
65 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGTAGATCTTGTCTTCCTATATTGGC
*
52717351 AGTGAAG
130 AGCGAAG
* * *
52717358 TAGATC-GAAGATAGCAAG-TCTTGTCTTCCTGTATTGGCGGCT-AAGTAGA-CTGAATATAGTA
1 TAGATCTGAAGATAGC-AGTTCTTGTCTTCATGTATTGGCAG-TGAAGTAGATC-GAAGATAGTA
**
52717419 GATCTTGTCTTCCTGTATTGGCAGTAAAGTAGA-TGGAAGATAGTA-AGTCTTGTCTTCCTATAT
63 GATCTTGTCTTCCTGTATTGGCAGCGAAGTAGACT-GAAGATAGTAGA-TCTTGTCTTCCTATAT
* *
52717482 TGGTAGCGATG
126 TGGCAGCGAAG
*
52717493 TAGA-CTGAAGATAGCAGTTCTTGTCTTCATGTATTGGCAGTGAAGTAGATCGAAGATAGCA-AG
1 TAGATCTGAAGATAGCAGTTCTTGTCTTCATGTATTGGCAGTGAAGTAGATCGAAGATAGTAGA-
52717556 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGTAGATCTTGTCTTCCTATATTGGC
65 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGTAGATCTTGTCTTCCTATATTGGC
*
52717621 AACGAAG
130 AGCGAAG
52717628 TAGATC
1 TAGATC
52717634 AAAAACCACA
Statistics
Matches: 236, Mismatches: 25, Indels: 29
0.81 0.09 0.10
Matches are distributed among these distances:
134 11 0.05
135 217 0.92
136 8 0.03
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (136 bp):
TAGATCTGAAGATAGCAGTTCTTGTCTTCATGTATTGGCAGTGAAGTAGATCGAAGATAGTAGAT
CTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGTAGATCTTGTCTTCCTATATTGGCA
GCGAAG
Found at i:52719327 original size:18 final size:19
Alignment explanation
Indices: 52719301--52719345 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
52719291 GTAATTTTTT
* *
52719301 TTTCTTTTATATA-TATTA
1 TTTCATTTAAATAGTATTA
*
52719319 TTTCATTTAAATAGTTTTA
1 TTTCATTTAAATAGTATTA
52719338 TTTCATTT
1 TTTCATTT
52719346 TTACGTATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.27, C:0.07, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTCATTTAAATAGTATTA
Found at i:52720353 original size:30 final size:30
Alignment explanation
Indices: 52720319--52720392 Score: 123
Period size: 30 Copynumber: 2.5 Consensus size: 30
52720309 AGCCCTCCAA
**
52720319 AAAAAACCTAACCCCCCCCCCAAAAAAAAG
1 AAAAAACCTAACCCCCCCCAAAAAAAAAAG
52720349 AAAAAACCTAACCCCCCCCAAAAAAAAAAG
1 AAAAAACCTAACCCCCCCCAAAAAAAAAAG
52720379 -AAAAACCTAACCCC
1 AAAAAACCTAACCCC
52720393 AAAAAAAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
29 14 0.33
30 28 0.67
ACGTcount: A:0.55, C:0.38, G:0.03, T:0.04
Consensus pattern (30 bp):
AAAAAACCTAACCCCCCCCAAAAAAAAAAG
Found at i:52720363 original size:29 final size:29
Alignment explanation
Indices: 52720317--52720392 Score: 118
Period size: 28 Copynumber: 2.6 Consensus size: 29
52720307 TAAGCCCTCC
52720317 AAAAAAAACCTAACCCCCCCCCCAAAAAAA
1 AAAAAAAACCTAA-CCCCCCCCCAAAAAAA
*
52720347 AGAAAAAACCTAA-CCCCCCCCAAAAAAA
1 AAAAAAAACCTAACCCCCCCCCAAAAAAA
52720375 AAAGAAAAACCTAACCCC
1 AAA-AAAAACCTAACCCC
52720393 AAAAAAAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
28 17 0.40
29 10 0.24
30 15 0.36
ACGTcount: A:0.57, C:0.37, G:0.03, T:0.04
Consensus pattern (29 bp):
AAAAAAAACCTAACCCCCCCCCAAAAAAA
Found at i:52720400 original size:29 final size:30
Alignment explanation
Indices: 52720340--52720402 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 30
52720330 CCCCCCCCCC
****
52720340 AAAAAAAAGAAAAAACCTAACCCCCCCCAA
1 AAAAAAAAGAAAAAACCTAACCCCAAAAAA
52720370 AAAAAAAAG-AAAAACCTAACCCCAAAAAA
1 AAAAAAAAGAAAAAACCTAACCCCAAAAAA
52720399 AAAA
1 AAAA
52720403 CCAAGAAACT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 20 0.69
30 9 0.31
ACGTcount: A:0.68, C:0.25, G:0.03, T:0.03
Consensus pattern (30 bp):
AAAAAAAAGAAAAAACCTAACCCCAAAAAA
Found at i:52720410 original size:29 final size:28
Alignment explanation
Indices: 52720340--52720402 Score: 83
Period size: 27 Copynumber: 2.2 Consensus size: 28
52720330 CCCCCCCCCC
**
52720340 AAAAAAAAGAAAAAACCTAACCCCCCCCAA
1 AAAAAAAAG-AAAAACCTAA-CCCCCAAAA
52720370 AAAAAAAAGAAAAACCTAA-CCCCAAAA
1 AAAAAAAAGAAAAACCTAACCCCCAAAA
52720397 AAAAAA
1 AAAAAA
52720403 CCAAGAAACT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
27 12 0.39
29 10 0.32
30 9 0.29
ACGTcount: A:0.68, C:0.25, G:0.03, T:0.03
Consensus pattern (28 bp):
AAAAAAAAGAAAAACCTAACCCCCAAAA
Found at i:52720659 original size:13 final size:13
Alignment explanation
Indices: 52720641--52720665 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52720631 ATTTTACTCT
52720641 TTTTTTATTTTTA
1 TTTTTTATTTTTA
52720654 TTTTTTATTTTT
1 TTTTTTATTTTT
52720666 TTTCCTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTATTTTTA
Found at i:52721262 original size:21 final size:23
Alignment explanation
Indices: 52721236--52721278 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
52721226 ATACTTCTTG
*
52721236 TATATT-TCT-ATGTATATACTT
1 TATATTGTCTCATGTACATACTT
52721257 TATATTGTCTCATGTACATACT
1 TATATTGTCTCATGTACATACT
52721279 CCGAAATACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 3 0.16
23 10 0.53
ACGTcount: A:0.28, C:0.14, G:0.07, T:0.51
Consensus pattern (23 bp):
TATATTGTCTCATGTACATACTT
Found at i:52721618 original size:16 final size:15
Alignment explanation
Indices: 52721594--52721628 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
52721584 TAATTATTAT
52721594 TATTCTAATATTTTGA
1 TATTCTAATATTTT-A
*
52721610 TATTTTAATATTTTA
1 TATTCTAATATTTTA
52721625 TATT
1 TATT
52721629 ATTCACATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (15 bp):
TATTCTAATATTTTA
Found at i:52733840 original size:72 final size:72
Alignment explanation
Indices: 52733467--52734069 Score: 896
Period size: 72 Copynumber: 8.5 Consensus size: 72
52733457 TTTATTATGC
52733467 TTTCAAAAAATCAACTCATA-TGCGAGA-GTGAGTTGAGCCTCA-GACACG-TGAGGTAATTTCA
1 TTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
52733528 ATTTCTG-
65 ATTTCTGT
*
52733535 TTTCAAAAATCAACTCATATTGCGAGA-GTGAGTTGAGCCTC-GG-GACGCTGAGGTAATTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
52733597 TTTCTGT
66 TTTCTGT
52733604 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC--GACACGCTGAGGTAATTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
52733667 TTTCTGT
66 TTTCTGT
* ** * *
52733674 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA-G-TGAGGT-ATTTTAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
*
52733736 TTTTTGT
66 TTTCTGT
*
52733743 CTTTCAAAAA-AAATCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
1 -TTTCAAAAATCAA-CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
52733807 AATTTCTGT
64 AATTTCTGT
* **
52733816 TTTAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
52733881 TTTCTGT
66 TTTCTGT
* ** * * *
52733888 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
*
52733953 TTT-TTT
66 TTTCTGT
52733959 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTAATTTCA
1 TTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
52734023 ATTTCTGT
65 ATTTCTGT
52734031 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
52734070 TTCAAATCAC
Statistics
Matches: 488, Mismatches: 31, Indels: 29
0.89 0.06 0.05
Matches are distributed among these distances:
67 18 0.04
68 46 0.09
69 42 0.09
70 124 0.25
71 65 0.13
72 179 0.37
73 14 0.03
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.32
Consensus pattern (72 bp):
TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
TTTCTGT
Found at i:52734965 original size:28 final size:27
Alignment explanation
Indices: 52734920--52734991 Score: 112
Period size: 28 Copynumber: 2.7 Consensus size: 27
52734910 TAAGCCCTCC
52734920 AAAAAAAAACCTAA--CCCCCCCAAAA
1 AAAAAAAAACCTAACCCCCCCCCAAAA
52734945 AAAGAAAAAACCTAACCCCCCCCCAAAA
1 AAA-AAAAAACCTAACCCCCCCCCAAAA
52734973 AAAAGAAAAACCTAACCCC
1 AAAA-AAAAACCTAACCCC
52734992 AAAAAAAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
25 3 0.07
26 11 0.26
27 1 0.02
28 28 0.65
ACGTcount: A:0.57, C:0.36, G:0.03, T:0.04
Consensus pattern (27 bp):
AAAAAAAAACCTAACCCCCCCCCAAAA
Found at i:52734998 original size:26 final size:25
Alignment explanation
Indices: 52734920--52735001 Score: 94
Period size: 29 Copynumber: 3.2 Consensus size: 25
52734910 TAAGCCCTCC
*
52734920 AAAA-AAAAACCTAACCCCCCCAAA
1 AAAAGAAAAACCTAACCCCCCAAAA
52734944 AAAAGAAAAAACCTAACCCCCCCCCAAAA
1 AAAAG-AAAAACCTAA---CCCCCCAAAA
**
52734973 AAAAGAAAAACCTAACCCCAAAAAA
1 AAAAGAAAAACCTAACCCCCCAAAA
52734998 AAAA
1 AAAA
52735002 CCAAGAAACT
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
24 4 0.08
25 12 0.24
26 10 0.20
28 10 0.20
29 14 0.28
ACGTcount: A:0.62, C:0.32, G:0.02, T:0.04
Consensus pattern (25 bp):
AAAAGAAAAACCTAACCCCCCAAAA
Found at i:52735000 original size:28 final size:29
Alignment explanation
Indices: 52734941--52735001 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 29
52734931 TAACCCCCCC
*****
52734941 AAAAAAAGAAAAAACCTAACCCCCCCCCA
1 AAAAAAAGAAAAAACCTAACCCCAAAAAA
52734970 AAAAAAAG-AAAAACCTAACCCCAAAAAA
1 AAAAAAAGAAAAAACCTAACCCCAAAAAA
52734998 AAAA
1 AAAA
52735002 CCAAGAAACT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 19 0.70
29 8 0.30
ACGTcount: A:0.66, C:0.28, G:0.03, T:0.03
Consensus pattern (29 bp):
AAAAAAAGAAAAAACCTAACCCCAAAAAA
Found at i:52735258 original size:13 final size:13
Alignment explanation
Indices: 52735240--52735264 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52735230 ATTTTACTCT
52735240 TTTTTTATTTTTA
1 TTTTTTATTTTTA
52735253 TTTTTTATTTTT
1 TTTTTTATTTTT
52735265 TTCCTTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTATTTTTA
Found at i:52735272 original size:29 final size:31
Alignment explanation
Indices: 52735217--52735274 Score: 75
Period size: 29 Copynumber: 1.9 Consensus size: 31
52735207 CTAAAGGTGA
*
52735217 TTTTATCTTCTTTATTTTACTCTTTTTTTAT
1 TTTTATCTTCTTTATTTTACTCCTTTTTTAT
**
52735248 TTTTAT-TT-TTTATTTTTTTCCTTTTTT
1 TTTTATCTTCTTTATTTTACTCCTTTTTT
52735275 TGAATCTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 16 0.67
30 2 0.08
31 6 0.25
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.79
Consensus pattern (31 bp):
TTTTATCTTCTTTATTTTACTCCTTTTTTAT
Found at i:52735858 original size:21 final size:23
Alignment explanation
Indices: 52735832--52735874 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
52735822 ATACTTCTTG
*
52735832 TATATT-TCT-ATGTATATACTT
1 TATATTGTCTCATGTACATACTT
52735853 TATATTGTCTCATGTACATACT
1 TATATTGTCTCATGTACATACT
52735875 CCGAAATACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 3 0.16
23 10 0.53
ACGTcount: A:0.28, C:0.14, G:0.07, T:0.51
Consensus pattern (23 bp):
TATATTGTCTCATGTACATACTT
Found at i:52736212 original size:16 final size:15
Alignment explanation
Indices: 52736188--52736222 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
52736178 TAATTATTAT
52736188 TATTCTAATATTTTGA
1 TATTCTAATATTTT-A
*
52736204 TATTTTAATATTTTA
1 TATTCTAATATTTTA
52736219 TATT
1 TATT
52736223 ATTCACATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (15 bp):
TATTCTAATATTTTA
Found at i:52737681 original size:20 final size:20
Alignment explanation
Indices: 52737656--52737705 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
52737646 TTAAATCTCA
*
52737656 AACCTTAAACATCAAACTCG
1 AACCTTAAACACCAAACTCG
* *
52737676 AACCTTGAACCCCAAACTCG
1 AACCTTAAACACCAAACTCG
52737696 AACCTTAAAC
1 AACCTTAAAC
52737706 TTTGAACATG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.42, C:0.34, G:0.06, T:0.18
Consensus pattern (20 bp):
AACCTTAAACACCAAACTCG
Found at i:52739320 original size:19 final size:18
Alignment explanation
Indices: 52739292--52739332 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
52739282 CATTATTTTA
*
52739292 AATTAATAAAATAAAATT
1 AATTAATAAAATAAAAGT
*
52739310 AATTAATTAAACTAAAAGT
1 AATTAA-TAAAATAAAAGT
52739329 AATT
1 AATT
52739333 GAACATTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (18 bp):
AATTAATAAAATAAAAGT
Found at i:52739608 original size:31 final size:31
Alignment explanation
Indices: 52739536--52739609 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 31
52739526 AAAAAATATA
*** *
52739536 AAGTATCAAATTAAGAAATTGTGTTAAGTTC
1 AAGTATCAAATTAAGAAAACATGTCAAGTTC
* *
52739567 ATGTACCAAATTAAGAAAACATGTCAAG-TC
1 AAGTATCAAATTAAGAAAACATGTCAAGTTC
52739597 TAAGTATCAAATT
1 -AAGTATCAAATT
52739610 GAACAAAAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
30 2 0.06
31 32 0.94
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.31
Consensus pattern (31 bp):
AAGTATCAAATTAAGAAAACATGTCAAGTTC
Found at i:52749876 original size:21 final size:21
Alignment explanation
Indices: 52749852--52749897 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
52749842 TTAGGCTTCG
52749852 CGGCGGCAGGCTTCTTAGCTA
1 CGGCGGCAGGCTTCTTAGCTA
* * *
52749873 CGGCGGCCGGTTTCTTAGCTG
1 CGGCGGCAGGCTTCTTAGCTA
52749894 CGGC
1 CGGC
52749898 AGAAGCCGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.09, C:0.30, G:0.37, T:0.24
Consensus pattern (21 bp):
CGGCGGCAGGCTTCTTAGCTA
Found at i:52750170 original size:2 final size:2
Alignment explanation
Indices: 52750163--52750193 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
52750153 AAAGGTTTTT
52750163 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
52750194 TTTACCTCAA
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:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:52752934 original size:11 final size:11
Alignment explanation
Indices: 52752918--52752957 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
52752908 ATTTTAAAAA
52752918 TAAAAAAATTT
1 TAAAAAAATTT
52752929 TAAAAATATATTT
1 TAAAAA-A-ATTT
*
52752942 TAAAAATATTT
1 TAAAAAAATTT
52752953 TAAAA
1 TAAAA
52752958 TTAAAAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
11 15 0.58
12 1 0.04
13 10 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
TAAAAAAATTT
Found at i:52752943 original size:13 final size:13
Alignment explanation
Indices: 52752925--52752950 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
52752915 AAATAAAAAA
52752925 ATTTTAAAAATAT
1 ATTTTAAAAATAT
52752938 ATTTTAAAAATAT
1 ATTTTAAAAATAT
52752951 TTTAAAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATTTTAAAAATAT
Found at i:52752969 original size:24 final size:24
Alignment explanation
Indices: 52752913--52752972 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
52752903 ATTTTATTTT
52752913 AAAAATAAAAAAATTTTAAAAATA
1 AAAAATAAAAAAATTTTAAAAATA
* *** * *
52752937 TATTTTAAAAATATTTTAAAATTA
1 AAAAATAAAAAAATTTTAAAAATA
52752961 AAAAATAAAAAA
1 AAAAATAAAAAA
52752973 TAAATAATTA
Statistics
Matches: 25, Mismatches: 11, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (24 bp):
AAAAATAAAAAAATTTTAAAAATA
Found at i:52756803 original size:24 final size:25
Alignment explanation
Indices: 52756756--52756804 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
52756746 ATTTATTTAT
52756756 TTATTATGTATTATATATATAAATA
1 TTATTATGTATTATATATATAAATA
*
52756781 TTATTATGGTTTTATAT-TA-AAATA
1 TTATTAT-GTATTATATATATAAATA
52756805 GTGACAAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 5 0.23
25 9 0.41
26 8 0.36
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (25 bp):
TTATTATGTATTATATATATAAATA
Found at i:52757218 original size:20 final size:20
Alignment explanation
Indices: 52757195--52757237 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
52757185 TAAAGATATT
*
52757195 TATTATGTT-TTATTATTATA
1 TATTATATTATTA-TATTATA
52757215 TATTATATTATTATATTATA
1 TATTATATTATTATATTATA
52757235 TAT
1 TAT
52757238 AAAGTAAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (20 bp):
TATTATATTATTATATTATA
Found at i:52757237 original size:15 final size:15
Alignment explanation
Indices: 52757164--52757230 Score: 53
Period size: 15 Copynumber: 4.3 Consensus size: 15
52757154 AGTTTAATAA
52757164 ATATATTATATTATT
1 ATATATTATATTATT
* * * *
52757179 AAATAATAAAGATATTT
1 ATATATTATA-TTA-TT
* *
52757196 ATTATGTTTTATTATT
1 A-TATATTATATTATT
52757212 ATATATTATATTATT
1 ATATATTATATTATT
52757227 ATAT
1 ATAT
52757231 TATATATAAA
Statistics
Matches: 37, Mismatches: 12, Indels: 6
0.67 0.22 0.11
Matches are distributed among these distances:
15 23 0.62
16 5 0.14
17 5 0.14
18 4 0.11
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
ATATATTATATTATT
Found at i:52758082 original size:37 final size:38
Alignment explanation
Indices: 52758014--52758086 Score: 96
Period size: 37 Copynumber: 1.9 Consensus size: 38
52758004 GTGTGTGGAA
*
52758014 TTGAAATGAATATTGACTTGAAAATGGAAAAGTGAATT
1 TTGAAATGAATATTGACTTGAAAATGAAAAAGTGAATT
* *
52758052 TTGAATTGAAT-TGTGA-TTGAAAGTGAAAAAGTGAA
1 TTGAAATGAATAT-TGACTTGAAAATGAAAAAGTGAA
52758087 ATTGGAGACC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
37 18 0.58
38 13 0.42
ACGTcount: A:0.44, C:0.01, G:0.23, T:0.32
Consensus pattern (38 bp):
TTGAAATGAATATTGACTTGAAAATGAAAAAGTGAATT
Found at i:52758556 original size:7 final size:7
Alignment explanation
Indices: 52758544--52758575 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
52758534 TTGTTATTGT
52758544 TGAAATA
1 TGAAATA
52758551 TGAAATA
1 TGAAATA
52758558 TGAAATA
1 TGAAATA
*
52758565 TGAAATT
1 TGAAATA
52758572 TGAA
1 TGAA
52758576 TTTGAATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.31
Consensus pattern (7 bp):
TGAAATA
Found at i:52760761 original size:17 final size:17
Alignment explanation
Indices: 52760739--52760783 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 17
52760729 TTTCATAAGC
52760739 TTAATTAAGGCTCGAGT
1 TTAATTAAGGCTCGAGT
52760756 TTAATTGTGTAAGGCTCGAGT
1 TTAA---T-TAAGGCTCGAGT
52760777 TTAATTA
1 TTAATTA
52760784 TGTATCATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
17 6 0.25
18 1 0.04
20 1 0.04
21 16 0.67
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (17 bp):
TTAATTAAGGCTCGAGT
Found at i:52760770 original size:21 final size:21
Alignment explanation
Indices: 52760744--52760787 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
52760734 TAAGCTTAAT
*
52760744 TAAGGCTCGAGTTTAATTGTG
1 TAAGGCTCGAGTTTAATTATG
52760765 TAAGGCTCGAGTTTAATTATG
1 TAAGGCTCGAGTTTAATTATG
52760786 TA
1 TA
52760788 TCATAATATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.27, C:0.09, G:0.25, T:0.39
Consensus pattern (21 bp):
TAAGGCTCGAGTTTAATTATG
Found at i:52763698 original size:18 final size:20
Alignment explanation
Indices: 52763655--52763698 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
52763645 TAGTTTTTTC
*
52763655 ATTTTAAAATATATTTTTAT
1 ATTTTAAAATATATTTTAAT
52763675 AGTTTT-AAATAT-TTTTAAT
1 A-TTTTAAAATATATTTTAAT
52763694 ATTTT
1 ATTTT
52763699 TTGACTCGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 4 0.18
19 7 0.32
20 7 0.32
21 4 0.18
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (20 bp):
ATTTTAAAATATATTTTAAT
Found at i:52763859 original size:24 final size:24
Alignment explanation
Indices: 52763828--52763875 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
52763818 AACGGGTAAC
52763828 AACGTAAAGTTCATGTACCAAAAT
1 AACGTAAAGTTCATGTACCAAAAT
52763852 AACGTAAAGTTCATGTACCAAAAT
1 AACGTAAAGTTCATGTACCAAAAT
52763876 GAGACAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.17, G:0.12, T:0.25
Consensus pattern (24 bp):
AACGTAAAGTTCATGTACCAAAAT
Found at i:52764420 original size:172 final size:168
Alignment explanation
Indices: 52764133--52764614 Score: 465
Period size: 172 Copynumber: 2.8 Consensus size: 168
52764123 TTCTCTCTCT
* * *
52764133 TTTTTCTTTGACATTATAAAAAGGGGTTAAATTTT-AAATTTAAT-CTCTCTATTTTTTTTGAAT
1 TTTTTATTTGACATTAT-AAAA-GGG-TAAATTTTCAAATTTGATCCT-TCTA-TTTTTTTAAAT
* ** * * * *
52764196 TATATAAAAATGGTCAAATTTCAATTATAATTCTTATATTATGTTTAAATTTGAGTTTTGATCTC
61 TATATAAAAATGATCAAATTTCAATT-TTGTTCTTATACTACGTTTAAATTTGAGATTTAATCT-
* *
52764261 TATATTTTAATTATCGAAGG-CCTTCCTATAAGACA-CATCG-GTTT-C
124 TATATTTTAATT-TCGAAGGCCCTT-CAATAAGACATC-T-GTCTTTCC
* * *
52764306 TTTTTATTTGACATTATAAGAAGTGGTCAATTTTCAAATTTGATCCTTCTACTTTTTTAAATAAT
1 TTTTTATTTGACATTATAA-AAG-GGTAAATTTTCAAATTTGATCCTTCTATTTTTTTAAATTAT
* * *
52764371 ATAAAAATGATTAAATTTTAATTTTGTTCCTTATACTACGTTCAAATTTGAGATTTAATCTTTAT
64 ATAAAAATGATCAAATTTCAATTTTGTT-CTTATACTACGTTTAAATTTGAGATTTAATC-TTAT
** *
52764436 ATTTTAATTTTTAAGGCCCTTCAATAAGACTTCTGTCTTTCC
127 ATTTTAATTTCGAAGGCCCTTCAATAAGACATCTGTCTTTCC
* * * * * *
52764478 TTTTTTTTTGACATTATAAAAGGTTGAA-TTTCAATTTTGATCCCTCTATTTTTTTCAAGTTATA
1 TTTTTATTTGACATTATAAAAGGGTAAATTTTCAAATTTGATCCTTCTATTTTTTT-AAATTATA
* * * * * *
52764542 TAACAATGATCAAAATTCAATTTTGATCTCTATACTACATTTAAATTTAAGATTTAAACTTATAT
65 TAAAAATGATCAAATTTCAATTTTGTTCT-TATACTACGTTTAAATTTGAGATTTAATCTTATAT
52764607 TTTAATTT
129 TTTAATTT
52764615 TTGACAAACT
Statistics
Matches: 259, Mismatches: 38, Indels: 28
0.80 0.12 0.09
Matches are distributed among these distances:
169 40 0.15
170 58 0.22
171 23 0.09
172 103 0.40
173 33 0.13
174 2 0.01
ACGTcount: A:0.32, C:0.12, G:0.09, T:0.48
Consensus pattern (168 bp):
TTTTTATTTGACATTATAAAAGGGTAAATTTTCAAATTTGATCCTTCTATTTTTTTAAATTATAT
AAAAATGATCAAATTTCAATTTTGTTCTTATACTACGTTTAAATTTGAGATTTAATCTTATATTT
TAATTTCGAAGGCCCTTCAATAAGACATCTGTCTTTCC
Found at i:52764911 original size:370 final size:373
Alignment explanation
Indices: 52764316--52764988 Score: 864
Period size: 370 Copynumber: 1.8 Consensus size: 373
52764306 TTTTTATTTG
* * * * * *
52764316 ACATTATAAGAAGTGGTCAATTTTCAAATTTGATCCTTCTACTTTTTTAAATAATATAAAAATGA
1 ACATTATAAGAAATAGTCAAATTTAAAATTTCATCCCTCTACTTTTTTAAATAATATAAAAATGA
* * *
52764381 TTAAATTTTAATTTTGTTCCTTATACTACGTTCAAATTTGAGATTTAATCTTTATATTTTAATTT
66 TTAAATTTCAATTTTGATCCCTATACTACGTTCAAATTTGAGATTTAATCTTTATATTTTAATTT
* *
52764446 TTAAGGCCCTTCAATAAGACTTCTGTCTTTCCTTTTTTTTTGACATTATAAAAGGTTGAATTTCA
131 TTAAGGCCC-TC-ATAAGACTACTGTCTTTCCTTTTTTTTTGACATTATAAAAGGTTGAAATTCA
* * * * *
52764511 ATTTTGATCCCTCTATTTTTTTCAAGTTATATAACAAT-GATCAAAAT-TCAATTTTGATCTCTA
194 AATGTGATCCCTCTATTTTTTTCAAGTTATACAACAATAG-TC-AAATGTCAAGTTTAATC-CTA
52764574 TACTACATTTAAATTTAAGATTTAA-ACTTATATTTTAATTTTTGACAAACTCTTTATAAAAGAA
256 TACTACATTTAAATTTAAGATTTAATACTTATATTTTAATTTTTGACAAACTCTTTATAAAAGAA
52764638 AGTTCCTATGACCTTCCTATAAGATAAACGTCCCTTTTTCTTTTTTCCTTTTT
321 AGTTCCTATGACCTTCCTATAAGATAAACGTCCCTTTTTCTTTTTTCCTTTTT
* * * * ** *
52764691 ACATTATAAGAAATAGTTAAATTTAAAATTTCATCCCTCTA-TTTTTTGAGTTATATAATGATGG
1 ACATTATAAGAAATAGTCAAATTTAAAATTTCATCCCTCTACTTTTTTAAATAATATAAAAATGA
* * *
52764755 TTAAATTTCAATTTTGATCCCTATATTATGTTTAAATTTGAGATTTAAT-TTCTATATTTTAATT
66 TTAAATTTCAATTTTGATCCCTATACTACGTTCAAATTTGAGATTTAATCTT-TATATTTTAATT
* *
52764819 TTTCAGG-GC-C-T-AGAC-ACATGTCCTTTTCCTTTTTTTTTGACATTATAAATA-GTTGAAAT
130 TTTAAGGCCCTCATAAGACTAC-TGT-C-TTTCCTTTTTTTTTGACATTATAAA-AGGTTGAAAT
* * *
52764878 TCAAATGTGATCCCTCTATTTTTTTCGAGTTATACAATAATAGTCAAATGTTAAGTTTAATCCTA
191 TCAAATGTGATCCCTCTATTTTTTTCAAGTTATACAACAATAGTCAAATGTCAAGTTTAATCCTA
* * **
52764943 TACTACGTTTAAATTTGAGATTTAATTTTTATATTTTAATTTTTGA
256 TACTACATTTAAATTTAAGATTTAATACTTATATTTTAATTTTTGA
52764989 AGACCTTATG
Statistics
Matches: 255, Mismatches: 35, Indels: 21
0.82 0.11 0.07
Matches are distributed among these distances:
367 1 0.00
368 7 0.03
369 32 0.13
370 97 0.38
371 3 0.01
373 3 0.01
374 78 0.31
375 34 0.13
ACGTcount: A:0.32, C:0.13, G:0.09, T:0.47
Consensus pattern (373 bp):
ACATTATAAGAAATAGTCAAATTTAAAATTTCATCCCTCTACTTTTTTAAATAATATAAAAATGA
TTAAATTTCAATTTTGATCCCTATACTACGTTCAAATTTGAGATTTAATCTTTATATTTTAATTT
TTAAGGCCCTCATAAGACTACTGTCTTTCCTTTTTTTTTGACATTATAAAAGGTTGAAATTCAAA
TGTGATCCCTCTATTTTTTTCAAGTTATACAACAATAGTCAAATGTCAAGTTTAATCCTATACTA
CATTTAAATTTAAGATTTAATACTTATATTTTAATTTTTGACAAACTCTTTATAAAAGAAAGTTC
CTATGACCTTCCTATAAGATAAACGTCCCTTTTTCTTTTTTCCTTTTT
Found at i:52771779 original size:41 final size:41
Alignment explanation
Indices: 52771703--52771780 Score: 95
Period size: 41 Copynumber: 1.9 Consensus size: 41
52771693 ATCCCTCAAC
* * *
52771703 ATTTATACATTGGTAATATTTACACATCATGTAATTTGATT
1 ATTTATACATTGATAATATTTACACAACATATAATTTGATT
* *
52771744 ATTTATACATTGATATTATTTAC-CAAGATAATAATTT
1 ATTTATACATTGATAATATTTACACAACAT-ATAATTT
52771781 TCATATTTTC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
40 4 0.13
41 27 0.87
ACGTcount: A:0.37, C:0.09, G:0.08, T:0.46
Consensus pattern (41 bp):
ATTTATACATTGATAATATTTACACAACATATAATTTGATT
Found at i:52779299 original size:28 final size:28
Alignment explanation
Indices: 52779266--52779322 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
52779256 GGATTATTTG
52779266 AATAATTACAATGATAAATCAAACTCTT
1 AATAATTACAATGATAAATCAAACTCTT
52779294 AATAATTACAATGATAAATCAAACTCTT
1 AATAATTACAATGATAAATCAAACTCTT
52779322 A
1 A
52779323 CATCACAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.51, C:0.14, G:0.04, T:0.32
Consensus pattern (28 bp):
AATAATTACAATGATAAATCAAACTCTT
Found at i:52786727 original size:2 final size:2
Alignment explanation
Indices: 52786720--52786764 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
52786710 GGTAAATCAT
52786720 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
52786762 GA G
1 GA G
52786765 TAGTTTTTGG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:52792907 original size:41 final size:39
Alignment explanation
Indices: 52792830--52792945 Score: 128
Period size: 41 Copynumber: 2.9 Consensus size: 39
52792820 AAACATATTT
**
52792830 ATTTTTTTAATTTTAAAATA--TTTTTTACATACTTTTTAAA
1 ATTTTTTTAATTTTAAAATACTTTTTTTA-AT--TTTTTTTA
52792870 ATTTTTTTAATTTTAAAATACTTTTTTTAATTTTTTTTA
1 ATTTTTTTAATTTTAAAATACTTTTTTTAATTTTTTTTA
** *
52792909 ATTTTAAAATATTTTTAAAATACTTTTTTTAATTTTT
1 ATTTT--TTTAATTTTAAAATACTTTTTTTAATTTTT
52792946 AAAAATTTTT
Statistics
Matches: 67, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
39 11 0.16
40 20 0.30
41 29 0.43
42 7 0.10
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (39 bp):
ATTTTTTTAATTTTAAAATACTTTTTTTAATTTTTTTTA
Found at i:52792953 original size:41 final size:42
Alignment explanation
Indices: 52792880--52792961 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 42
52792870 ATTTTTTTAA
***
52792880 TTTTAAAATACTTTTTTTAATTTTTTTTAA-TTTTAAAATAT
1 TTTTAAAATACTTTTTTTAATTTTTAAAAATTTTTAAAATAT
52792921 TTTTAAAATACTTTTTTTAATTTTTAAAAATTTTTAAAATA
1 TTTTAAAATACTTTTTTTAATTTTTAAAAATTTTTAAAATA
52792962 AAAATGGGCC
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
41 27 0.73
42 10 0.27
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (42 bp):
TTTTAAAATACTTTTTTTAATTTTTAAAAATTTTTAAAATAT
Found at i:52792954 original size:31 final size:30
Alignment explanation
Indices: 52792862--52792961 Score: 127
Period size: 30 Copynumber: 3.4 Consensus size: 30
52792852 TTTTACATAC
52792862 TTTTT-AAA-ATTTTTTTAATTTTAAAATA
1 TTTTTAAAATATTTTTTTAATTTTAAAATA
**
52792890 CTTTTTTTAAT-TTTTTTTAATTTTAAAATA
1 -TTTTTAAAATATTTTTTTAATTTTAAAATA
52792920 TTTTTAAAATACTTTTTTTAATTTTTAAAA-A
1 TTTTTAAAATA-TTTTTTTAA-TTTTAAAATA
52792951 TTTTTAAAATA
1 TTTTTAAAATA
52792962 AAAATGGGCC
Statistics
Matches: 63, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
29 13 0.21
30 21 0.33
31 21 0.33
32 8 0.13
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (30 bp):
TTTTTAAAATATTTTTTTAATTTTAAAATA
Found at i:52793853 original size:237 final size:235
Alignment explanation
Indices: 52793439--52793873 Score: 570
Period size: 237 Copynumber: 1.8 Consensus size: 235
52793429 TATTTTAATC
* ** *
52793439 AAAATAAAGTATTTATACTAACTAATTTCACTATAAACGTCGAGGTACTAAATTATGTCAAAAAT
1 AAAATAAAGTATTTAGACTAACTAATGACACTATAAACGTCGAGGTACCAAATTATGTCAAAAAT
* * ** *** *
52793504 TAAAGTATAAAGATTAAATCTCTAATTTTAGCATAGTATAGGGATTGAAATTGAAATTTGATAGT
66 TAAAGTACAAAGATTAAATCTCAAATTTTAGCATAGTATAAAGACCAAAATTGAAATTTGATAAT
* *
52793569 TTTTATATAATCTAAAAAAATAAAGAGACCAAAATTAAAATTTAACCATTTTTTTAATAGTGTAA
131 TTTTATATAATCTAAAAAAATAAAGAGACCAAAATTAAAATTTAACCA-TTTGTTAATAATGTAA
52793634 AAAATGGACACTTGTCATAAAAAGAAGGCCTATATATAGTT
195 AAAATGGACACTTGTCATAAAAAGAAGGCCTATATATAGTT
* * * *
52793675 AAAATAATGTATTTAGATTAACTAATGACATTATAAACGTTG-GGTACCAAATTATGTCAAAAAT
1 AAAATAAAGTATTTAGACTAACTAATGACACTATAAACGTCGAGGTACCAAATTATGTCAAAAAT
* * *
52793739 TAAAGTACAAAGATTAAAATGTCAAATTTTTTGCGTAGTATAAAGACCAAAATT-AATATTTGAT
66 TAAAGTACAAAGATT-AAATCTCAAA-TTTTAGCATAGTATAAAGACCAAAATTGAA-ATTTGAT
* * * **
52793803 AATTTTTATATAATCTAAAAAAGTATAGGGACCGGAATTGAAAA-TTAACCATTTGTTAATAATG
128 AATTTTTATATAATCTAAAAAAATAAAGAGACCAAAATT-AAAATTTAACCATTTGTTAATAATG
52793867 TAAAAAA
192 TAAAAAA
52793874 AAAGAAAAAA
Statistics
Matches: 169, Mismatches: 26, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
235 35 0.21
236 63 0.37
237 67 0.40
238 4 0.02
ACGTcount: A:0.46, C:0.09, G:0.12, T:0.34
Consensus pattern (235 bp):
AAAATAAAGTATTTAGACTAACTAATGACACTATAAACGTCGAGGTACCAAATTATGTCAAAAAT
TAAAGTACAAAGATTAAATCTCAAATTTTAGCATAGTATAAAGACCAAAATTGAAATTTGATAAT
TTTTATATAATCTAAAAAAATAAAGAGACCAAAATTAAAATTTAACCATTTGTTAATAATGTAAA
AAATGGACACTTGTCATAAAAAGAAGGCCTATATATAGTT
Found at i:52797636 original size:28 final size:30
Alignment explanation
Indices: 52797578--52797636 Score: 95
Period size: 28 Copynumber: 2.0 Consensus size: 30
52797568 AGGGATTAAA
52797578 AGGGTTGCTAGTTTAGCCTTATAAAAGCTAG
1 AGGGTTGCTAGTTTAGCC-TATAAAAGCTAG
52797609 AGGGTT-CTAGTTTAGCC-ATAAAAGCTAG
1 AGGGTTGCTAGTTTAGCCTATAAAAGCTAG
52797637 GAGAAGGGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 11 0.39
30 11 0.39
31 6 0.21
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.31
Consensus pattern (30 bp):
AGGGTTGCTAGTTTAGCCTATAAAAGCTAG
Found at i:52799701 original size:114 final size:114
Alignment explanation
Indices: 52799549--52800219 Score: 1135
Period size: 114 Copynumber: 5.9 Consensus size: 114
52799539 ATAGTGGCAG
* *
52799549 TAGCGGCGTTTGTTTGTAAGCGCCGCAAACAATGTTAAACAAAACGCAGCGTACAAGATTGAAGT
1 TAGCGGCGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGT
52799614 ATAGTAGAATTGGTGGCGTTTCTGTAAAAACGCCGCTGAAGTGGATCAT
66 ATAGTAGAATTGGTGGCGTTTCTGTAAAAACGCCGCTGAAGTGGATCAT
*
52799663 TAGCGGCGTTTGTTTGTAAGCACCGCAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGT
1 TAGCGGCGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGT
* *
52799728 ATAGTAGAATTGGTGGCGTTTCTGTAAAAACGCCGCTGAAGTGGATAAA
66 ATAGTAGAATTGGTGGCGTTTCTGTAAAAACGCCGCTGAAGTGGATCAT
* *
52799777 TAGCGGTGTTTGTTTGTAAGCGCTGCAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGT
1 TAGCGGCGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGT
* *
52799842 ATAGTAGAATTGGTGGCGTTTCTATAAAAACGCCGCTGAAGTGTATCAT
66 ATAGTAGAATTGGTGGCGTTTCTGTAAAAACGCCGCTGAAGTGGATCAT
* * * *
52799891 TAGCGGCATTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAATGCAGCGTATAGGATTGAGGT
1 TAGCGGCGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGT
* *
52799956 ATAGTAGAATTGGTGGTGTTTCTGTCAAAACGCCGCTGAAGTGGATCAT
66 ATAGTAGAATTGGTGGCGTTTCTGTAAAAACGCCGCTGAAGTGGATCAT
* * *
52800005 TAGCAGCGTTTGCTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGTAGCGTACAAGATTGAGGT
1 TAGCGGCGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGT
* * *
52800070 ATAGTAGAATTAGTGGCGTTTCTGTAAAAATGCCGCTGAAGTGTATCAT
66 ATAGTAGAATTGGTGGCGTTTCTGTAAAAACGCCGCTGAAGTGGATCAT
52800119 TAGCGGCGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGT
1 TAGCGGCGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGT
* *
52800184 ATAGTTGAATTTGTGGCGTTTCTGTAAAAACGCCGC
66 ATAGTAGAATTGGTGGCGTTTCTGTAAAAACGCCGC
52800220 AAAAAAATGT
Statistics
Matches: 517, Mismatches: 40, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
114 517 1.00
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (114 bp):
TAGCGGCGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGT
ATAGTAGAATTGGTGGCGTTTCTGTAAAAACGCCGCTGAAGTGGATCAT
Found at i:52800248 original size:76 final size:75
Alignment explanation
Indices: 52800139--52800295 Score: 269
Period size: 76 Copynumber: 2.1 Consensus size: 75
52800129 TGTTTGTAAG
** *
52800139 CGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGTATAGTTGAATTTGTGGCGTT
1 CGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGTATAGTAAAATTGGTGGCGTT
*
52800204 TCTGTAAAAA
66 TCTATAAAAA
52800214 CGCCGCAAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGTATAGTAAAATTGGTGGCGT
1 CGCCGC-AAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGTATAGTAAAATTGGTGGCGT
52800279 TTCTATAAAAA
65 TTCTATAAAAA
52800290 CGCCGC
1 CGCCGC
52800296 TGAAGCACAT
Statistics
Matches: 77, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
75 6 0.08
76 71 0.92
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (75 bp):
CGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGTATAGTAAAATTGGTGGCGTT
TCTATAAAAA
Found at i:52804009 original size:9 final size:9
Alignment explanation
Indices: 52803968--52804201 Score: 195
Period size: 9 Copynumber: 25.8 Consensus size: 9
52803958 TACAAGCTTA
*
52803968 TACATAAAT
1 TACATAACT
* *
52803977 TAAATTACT
1 TACATAACT
52803986 TACATAACT
1 TACATAACT
*
52803995 TGA-ATAAAT
1 T-ACATAACT
* *
52804004 TAAATAAGT
1 TACATAACT
*
52804013 TACATAAGT
1 TACATAACT
*
52804022 TACATAACC
1 TACATAACT
*
52804031 TACATAAAT
1 TACATAACT
*
52804040 TAAATAACT
1 TACATAACT
52804049 TACATAACT
1 TACATAACT
*
52804058 TACATAAAT
1 TACATAACT
*
52804067 TA-AGTAACC
1 TACA-TAACT
*
52804076 TACATAACA
1 TACATAACT
52804085 TACATAAACT
1 TACAT-AACT
* *
52804095 TGCATAAAT
1 TACATAACT
*
52804104 TAAATAACT
1 TACATAACT
*
52804113 TACATAACC
1 TACATAACT
*
52804122 TACATAAAT
1 TACATAACT
* *
52804131 TAAATAATT
1 TACATAACT
*
52804140 TCCATAACT
1 TACATAACT
*
52804149 TACATAAAT
1 TACATAACT
52804158 TA-AGTAACT
1 TACA-TAACT
52804167 TACATAACT
1 TACATAACT
52804176 TACATAAACT
1 TACAT-AACT
*
52804186 TGCATAACT
1 TACATAACT
52804195 TACATAA
1 TACATAA
52804202 AAATATATCA
Statistics
Matches: 178, Mismatches: 39, Indels: 16
0.76 0.17 0.07
Matches are distributed among these distances:
8 3 0.02
9 157 0.88
10 18 0.10
ACGTcount: A:0.49, C:0.16, G:0.03, T:0.32
Consensus pattern (9 bp):
TACATAACT
Found at i:52804103 original size:37 final size:37
Alignment explanation
Indices: 52804043--52804202 Score: 123
Period size: 37 Copynumber: 4.4 Consensus size: 37
52804033 CATAAATTAA
* *
52804043 ATAACTTACAT-AACTTACATAAATTAAGTAACCTAC
1 ATAACATACATAAACTTACATAAATTAAATAACCTAC
* *
52804079 ATAACATACATAAACTTGCATAAATTAAATAACTTAC
1 ATAACATACATAAACTTACATAAATTAAATAACCTAC
* * * ** *
52804116 ATAACCTACATAAA-TTAAATAATTTCCATAACTTAC
1 ATAACATACATAAACTTACATAAATTAAATAACCTAC
* * * *
52804152 ATAA-ATTA-AGT-AACTTACATAACTTACATAAACTTGC
1 ATAACA-TACA-TAAACTTACATAAATTAAAT-AACCTAC
*
52804189 ATAACTTACATAAA
1 ATAACATACATAAA
52804203 AATATATCAT
Statistics
Matches: 100, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
35 3 0.03
36 46 0.46
37 48 0.48
38 3 0.03
ACGTcount: A:0.49, C:0.17, G:0.03, T:0.31
Consensus pattern (37 bp):
ATAACATACATAAACTTACATAAATTAAATAACCTAC
Found at i:52804222 original size:91 final size:91
Alignment explanation
Indices: 52804023--52804222 Score: 258
Period size: 91 Copynumber: 2.2 Consensus size: 91
52804013 TACATAAGTT
* *
52804023 ACATAACCTACATAAATTAAATAACTTACATAACTTACATAAATTAAGTAACCTACATAACATAC
1 ACATAACATACACAAATTAAATAACTTACATAACTTACATAAATTAAGTAACCTACATAACATAC
**
52804088 ATAAACTTGCATAAATTAAATAACTT
66 ATAAACTTGCATAAATTAAATAACAA
* * * * * *
52804114 ACATAACCTACATAAATTAAATAATTTCCATAACTTACATAAATTAAGTAACTTACATAACTTAC
1 ACATAACATACACAAATTAAATAACTTACATAACTTACATAAATTAAGTAACCTACATAACATAC
* *
52804179 ATAAACTTGCATAACTTACATAA-AA
66 ATAAACTTGCATAAATTAAATAACAA
* *
52804204 ATATATCATATCACAAATT
1 ACATAACATA-CACAAATT
52804223 TCCGTAATTC
Statistics
Matches: 96, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
90 7 0.07
91 89 0.93
ACGTcount: A:0.49, C:0.17, G:0.02, T:0.31
Consensus pattern (91 bp):
ACATAACATACACAAATTAAATAACTTACATAACTTACATAAATTAAGTAACCTACATAACATAC
ATAAACTTGCATAAATTAAATAACAA
Found at i:52816792 original size:9 final size:9
Alignment explanation
Indices: 52816778--52816814 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
52816768 TATTGTTTGA
52816778 TATTCGAAT
1 TATTCGAAT
52816787 TATTCGAAT
1 TATTCGAAT
*
52816796 TATTCGAGT
1 TATTCGAAT
52816805 TATTCGAAT
1 TATTCGAAT
52816814 T
1 T
52816815 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:52826173 original size:11 final size:11
Alignment explanation
Indices: 52826159--52826256 Score: 56
Period size: 11 Copynumber: 8.3 Consensus size: 11
52826149 GAGAAATTTA
52826159 AGAGGAAATTG
1 AGAGGAAATTG
*
52826170 AGAGCAAATTG
1 AGAGGAAATTG
*
52826181 AGAGCAAATTG
1 AGAGGAAATTG
*
52826192 AGATTAGATATGGATTTG
1 AGA--GGA-A---A-TTG
52826210 AGA-GAAATTTG
1 AGAGGAAA-TTG
*
52826221 -GAAGGAATTTG
1 AG-AGGAAATTG
*
52826232 AGAGCAAATTG
1 AGAGGAAATTG
52826243 AGAGGAAATTG
1 AGAGGAAATTG
52826254 AGA
1 AGA
52826257 AAATAATTGA
Statistics
Matches: 70, Mismatches: 7, Indels: 20
0.72 0.07 0.21
Matches are distributed among these distances:
10 1 0.01
11 53 0.76
12 4 0.06
13 1 0.01
14 2 0.03
15 2 0.03
17 1 0.01
18 6 0.09
ACGTcount: A:0.43, C:0.03, G:0.31, T:0.23
Consensus pattern (11 bp):
AGAGGAAATTG
Found at i:52826248 original size:22 final size:21
Alignment explanation
Indices: 52826139--52826260 Score: 69
Period size: 22 Copynumber: 5.8 Consensus size: 21
52826129 ATTTAAAAAT
* * *
52826139 AGGAATTTAAGAGAAATTTAAG
1 AGGAAATTGAGAGAAA-TTGAG
52826161 AGGAAATTGAGAGCAAATTGAG
1 AGGAAATTGAGAG-AAATTGAG
* *
52826183 AGCAAATT--GAG--ATTAGAT
1 AGGAAATTGAGAGAAATT-GAG
*
52826201 ATGG-ATTTGAGAGAAATTTG-G
1 A-GGAAATTGAGAGAAA-TTGAG
*
52826222 AAGGAATTTGAGAGCAAATTGAG
1 -AGGAAATTGAGAG-AAATTGAG
52826245 AGGAAATTGAGA-AAAT
1 AGGAAATTGAGAGAAAT
52826261 AATTGAGAGA
Statistics
Matches: 79, Mismatches: 9, Indels: 26
0.69 0.08 0.23
Matches are distributed among these distances:
17 3 0.04
18 6 0.08
19 1 0.01
20 10 0.13
21 2 0.03
22 48 0.61
23 9 0.11
ACGTcount: A:0.45, C:0.02, G:0.28, T:0.25
Consensus pattern (21 bp):
AGGAAATTGAGAGAAATTGAG
Found at i:52827193 original size:29 final size:30
Alignment explanation
Indices: 52827161--52827234 Score: 73
Period size: 33 Copynumber: 2.4 Consensus size: 30
52827151 AATAAATGGG
*
52827161 CTAAATTCTTGAAAACAAAAGTAC-AGGGACTAA
1 CTAAATTCTTAAAAACAAAAGTACAAGGG----A
*
52827194 CTAAATTCTTAAAAATAAAAGTACAAGGG-
1 CTAAATTCTTAAAAACAAAAGTACAAGGGA
52827223 CTAAATT-TTAAA
1 CTAAATTCTTAAA
52827235 TTTGTGAAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
28 5 0.13
29 7 0.18
33 22 0.58
34 4 0.11
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.26
Consensus pattern (30 bp):
CTAAATTCTTAAAAACAAAAGTACAAGGGA
Found at i:52827201 original size:33 final size:33
Alignment explanation
Indices: 52827161--52827226 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
52827151 AATAAATGGG
*
52827161 CTAAATTCTTGAAAACAAAAGTAC-AGGGACTAA
1 CTAAATTCTTAAAAACAAAAGTACAAGGG-CTAA
*
52827194 CTAAATTCTTAAAAATAAAAGTACAAGGGCTAA
1 CTAAATTCTTAAAAACAAAAGTACAAGGGCTAA
52827227 ATTTTAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 26 0.87
34 4 0.13
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.23
Consensus pattern (33 bp):
CTAAATTCTTAAAAACAAAAGTACAAGGGCTAA
Found at i:52827327 original size:21 final size:21
Alignment explanation
Indices: 52827278--52827336 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
52827268 TAACATTTAT
* *
52827278 TATTAATATATCTATAATTGAAA
1 TATTAATAT-T-TATTATTAAAA
52827301 TA--AATATTTATTATTAAAA
1 TATTAATATTTATTATTAAAA
*
52827320 TATTAATATTAATTATT
1 TATTAATATTTATTATT
52827337 TTCAATTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
19 11 0.35
20 1 0.03
21 17 0.55
23 2 0.06
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (21 bp):
TATTAATATTTATTATTAAAA
Found at i:52828429 original size:12 final size:11
Alignment explanation
Indices: 52828407--52828442 Score: 54
Period size: 12 Copynumber: 3.1 Consensus size: 11
52828397 ATTAAGTAAA
52828407 TAAATAAATAT
1 TAAATAAATAT
52828418 TAAATGAAATAT
1 TAAAT-AAATAT
52828430 TAAATAAACTAT
1 TAAATAAA-TAT
52828442 T
1 T
52828443 TTTTATGAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 8 0.35
12 15 0.65
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (11 bp):
TAAATAAATAT
Found at i:52829796 original size:33 final size:33
Alignment explanation
Indices: 52829757--52829820 Score: 103
Period size: 33 Copynumber: 1.9 Consensus size: 33
52829747 TAAATGGGCC
52829757 AAATTCTTAAAAACAAAAGTAC-AGGGACTAACT
1 AAATTCTTAAAAACAAAAGTACAAGGG-CTAACT
*
52829790 AAATTCTTAAAAATAAAAGTACAAGGGCTAA
1 AAATTCTTAAAAACAAAAGTACAAGGGCTAA
52829821 ATTTTAAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.22
Consensus pattern (33 bp):
AAATTCTTAAAAACAAAAGTACAAGGGCTAACT
Found at i:52829921 original size:21 final size:21
Alignment explanation
Indices: 52829872--52829930 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
52829862 TAACATTTAT
* *
52829872 TATTAATATATCTATAATTGAAA
1 TATTAATAT-T-TATTATTAAAA
52829895 TA--AATATTTATTATTAAAA
1 TATTAATATTTATTATTAAAA
*
52829914 TATTAATATTCATTATT
1 TATTAATATTTATTATT
52829931 TTCAATTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
19 11 0.35
20 1 0.03
21 17 0.55
23 2 0.06
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (21 bp):
TATTAATATTTATTATTAAAA
Found at i:52829969 original size:16 final size:17
Alignment explanation
Indices: 52829950--52829986 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
52829940 ATGTGAAGAA
*
52829950 TATTATTTAAAA-TTAT
1 TATTATTGAAAATTTAT
52829966 TATT-TTGAAAATTTAT
1 TATTATTGAAAATTTAT
52829982 TATTA
1 TATTA
52829987 AAATAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (17 bp):
TATTATTGAAAATTTAT
Found at i:52830115 original size:31 final size:31
Alignment explanation
Indices: 52830084--52830139 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
52830074 GTATGTTTAA
52830084 TAATAT-TTAA-AATTAT-AATATTTTATAT
1 TAATATATTAATAATTATAAATATTTTATAT
*
52830112 TAATATATTAATAATTTTAAATATTTTA
1 TAATATATTAATAATTATAAATATTTTA
52830140 AAAATAAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 6 0.25
29 4 0.17
30 5 0.21
31 9 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (31 bp):
TAATATATTAATAATTATAAATATTTTATAT
Found at i:52831370 original size:15 final size:16
Alignment explanation
Indices: 52831339--52831375 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
52831329 TGACAAGAAC
52831339 ATAAAAACACATTATT
1 ATAAAAACACATTATT
52831355 ATAAAAA-A-ATTAATT
1 ATAAAAACACATT-ATT
52831370 ATAAAA
1 ATAAAA
52831376 GCATAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 3 0.15
15 10 0.50
16 7 0.35
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (16 bp):
ATAAAAACACATTATT
Found at i:52832005 original size:5 final size:5
Alignment explanation
Indices: 52831995--52832019 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
52831985 TATTTTGATT
52831995 TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA
52832020 ATTTTATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAATA
Found at i:52837506 original size:21 final size:21
Alignment explanation
Indices: 52837482--52837525 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
52837472 TCGATTAATT
*
52837482 TTATTTAATTTATATACTATA
1 TTATTTAATTTACATACTATA
* *
52837503 TTATTTTATTTACCTACTATA
1 TTATTTAATTTACATACTATA
52837524 TT
1 TT
52837526 TCATGAAACA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.59
Consensus pattern (21 bp):
TTATTTAATTTACATACTATA
Found at i:52854122 original size:18 final size:17
Alignment explanation
Indices: 52854082--52854125 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
52854072 TCCTCAGTGA
52854082 AATGTAAC-AATGAGAG
1 AATGTAACAAATGAGAG
* *
52854098 AAAGTAACAAATTGCGAG
1 AATGTAACAAA-TGAGAG
52854116 AATGTAACAA
1 AATGTAACAA
52854126 TGCCTTTGAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 7 0.30
17 2 0.09
18 14 0.61
ACGTcount: A:0.52, C:0.09, G:0.20, T:0.18
Consensus pattern (17 bp):
AATGTAACAAATGAGAG
Found at i:52855569 original size:29 final size:30
Alignment explanation
Indices: 52855519--52855583 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
52855509 TCGACTCGAA
52855519 TATATTATGTTATAAAAATATTATAT-TAAT
1 TATA-TATGTTATAAAAATATTATATATAAT
* *
52855549 TATATATGTTA-AATAATTATTATATATATT
1 TATATATGTTATAA-AAATATTATATATAAT
52855579 TATAT
1 TATAT
52855584 TTATATTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 2 0.06
29 17 0.55
30 12 0.39
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (30 bp):
TATATATGTTATAAAAATATTATATATAAT
Found at i:52855737 original size:38 final size:40
Alignment explanation
Indices: 52855677--52855764 Score: 117
Period size: 38 Copynumber: 2.2 Consensus size: 40
52855667 AAAATTATAC
*
52855677 TTAATACAATAAAATATTTATTATATTTAT-TTCTGTTTT
1 TTAATATAATAAAATATTTATTATATTTATATTCTGTTTT
* *
52855716 TTAATATAAT-AAATATTTATTATGTTTATAGTTGTGTTTT
1 TTAATATAATAAAATATTTATTATATTTATA-TTCTGTTTT
*
52855756 TCAATATAA
1 TTAATATAA
52855765 ATATTTTTCA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
38 18 0.42
39 9 0.21
40 16 0.37
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.55
Consensus pattern (40 bp):
TTAATATAATAAAATATTTATTATATTTATATTCTGTTTT
Found at i:52857611 original size:24 final size:24
Alignment explanation
Indices: 52857584--52857635 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
52857574 TTAGTAAGTC
*
52857584 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
52857608 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
52857632 AAAT
1 AAAT
52857636 CTTCTAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:52859904 original size:13 final size:13
Alignment explanation
Indices: 52859886--52859923 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
52859876 AGTTCTTTAT
52859886 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
*
52859899 TGCTTTTCAGAAG
1 TGCTTTTGAGAAG
52859912 TGCTTTTGAGAA
1 TGCTTTTGAGAA
52859924 ATTTGAGTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.24, C:0.11, G:0.26, T:0.39
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:52861296 original size:19 final size:19
Alignment explanation
Indices: 52861251--52861298 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 19
52861241 ACAGCTTCAT
* * *
52861251 AATATTAAACTGAAGAGGA
1 AATATAAAACAGAAGAAGA
*
52861270 ACTAATAAAACAGAAGAAGA
1 AAT-ATAAAACAGAAGAAGA
52861290 AATATAAAA
1 AATATAAAA
52861299 GAAACTCTCA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.62, C:0.06, G:0.15, T:0.17
Consensus pattern (19 bp):
AATATAAAACAGAAGAAGA
Found at i:52862473 original size:17 final size:17
Alignment explanation
Indices: 52862451--52862491 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
52862441 TTTATGAAAA
52862451 TATTTTTTTT-ATTT-T
1 TATTTTTTTTAATTTCT
52862466 TAATTTTTTTTAATTTCT
1 T-ATTTTTTTTAATTTCT
52862484 TATTTTTT
1 TATTTTTT
52862492 AAAAATTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 1 0.04
16 9 0.39
17 11 0.48
18 2 0.09
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.80
Consensus pattern (17 bp):
TATTTTTTTTAATTTCT
Found at i:52867746 original size:16 final size:16
Alignment explanation
Indices: 52867709--52867748 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
52867699 TTAATAAAAT
* *
52867709 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
52867725 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
52867741 TAAAATTA
1 TAAAATTA
52867749 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:52867827 original size:59 final size:59
Alignment explanation
Indices: 52867759--52867928 Score: 322
Period size: 59 Copynumber: 2.9 Consensus size: 59
52867749 TCAAATTATT
*
52867759 AATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
52867818 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
*
52867877 AATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAA
52867929 ACAAACTTGA
Statistics
Matches: 109, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 109 1.00
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (59 bp):
AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
Found at i:52871415 original size:27 final size:28
Alignment explanation
Indices: 52871362--52871416 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
52871352 TCAACATTCT
* *
52871362 TTTTTTCTCTTCTGAATCTTTAGATTTCC
1 TTTTTCCTCTTCTGAATCTCTA-ATTTCC
*
52871391 TTTTTCCTTTTCTGAATCTCT-ATTTC
1 TTTTTCCTCTTCTGAATCTCTAATTTC
52871417 ACTGTTCAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 5 0.22
29 18 0.78
ACGTcount: A:0.13, C:0.22, G:0.05, T:0.60
Consensus pattern (28 bp):
TTTTTCCTCTTCTGAATCTCTAATTTCC
Found at i:52918297 original size:30 final size:30
Alignment explanation
Indices: 52918261--52918446 Score: 309
Period size: 30 Copynumber: 6.2 Consensus size: 30
52918251 GTGGTCTAGT
*
52918261 CCCAAAAGGCGAAGGCGGCCCACTTGGTGG
1 CCCAAAAGGCGAAGGCGGTCCACTTGGTGG
52918291 CCCAAAAGGCGAAGGCGGTCCACTTGGTGG
1 CCCAAAAGGCGAAGGCGGTCCACTTGGTGG
*
52918321 CCGAAAAGGCGAAGGCGGTCCACTTGGTGG
1 CCCAAAAGGCGAAGGCGGTCCACTTGGTGG
* *
52918351 CCCAAAAGGCGAAGGCGGTCCAGTTGGTGA
1 CCCAAAAGGCGAAGGCGGTCCACTTGGTGG
* *
52918381 CCGAAAAGGCGAAGGCGGTCCACTTGGTGA
1 CCCAAAAGGCGAAGGCGGTCCACTTGGTGG
*
52918411 CCGAAAAGGCGAAGGCGGTCCACTTGGTGG
1 CCCAAAAGGCGAAGGCGGTCCACTTGGTGG
52918441 CCCAAA
1 CCCAAA
52918447 TGGCCTAACT
Statistics
Matches: 147, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 147 1.00
ACGTcount: A:0.25, C:0.26, G:0.37, T:0.12
Consensus pattern (30 bp):
CCCAAAAGGCGAAGGCGGTCCACTTGGTGG
Found at i:52919765 original size:15 final size:15
Alignment explanation
Indices: 52919745--52919779 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
52919735 CAAAACCAAT
52919745 ATTTTCACAACATCC
1 ATTTTCACAACATCC
* *
52919760 ATTTTCACAATATTC
1 ATTTTCACAACATCC
52919775 ATTTT
1 ATTTT
52919780 TCTTTAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTTTCACAACATCC
Found at i:52922653 original size:125 final size:125
Alignment explanation
Indices: 52922431--52922676 Score: 402
Period size: 125 Copynumber: 2.0 Consensus size: 125
52922421 TTTTAAGTCA
* *
52922431 TGGAAGAAATAATTTCGAGTTGACGTTTCTGATCAAATAGTATAAAATCGCTTCTAGCAGAATGC
1 TGGAAGAAATAATTTCGAATTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGAATGC
* * * * *
52922496 TGTTTGATAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCC
66 TATTTGAGAAGAATTTGTGAAAGCGCGCCCTCGTGGACACACTTTTGCTACAGTAGGTCC
* * *
52922556 TGGAAGAAATAATTTTGAATTGACGTTTCTGAGCAAATAGTATAAAATTGCTTCTAGCAGGATGC
1 TGGAAGAAATAATTTCGAATTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGAATGC
52922621 TATTTGAGAAGAATTTGTGAAAGCGCGCCCTCGTGGACACACTTTTGCTACAGTAG
66 TATTTGAGAAGAATTTGTGAAAGCGCGCCCTCGTGGACACACTTTTGCTACAGTAG
52922677 CATGTTTGGG
Statistics
Matches: 111, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
125 111 1.00
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (125 bp):
TGGAAGAAATAATTTCGAATTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGAATGC
TATTTGAGAAGAATTTGTGAAAGCGCGCCCTCGTGGACACACTTTTGCTACAGTAGGTCC
Found at i:52925916 original size:25 final size:25
Alignment explanation
Indices: 52925878--52925934 Score: 98
Period size: 25 Copynumber: 2.3 Consensus size: 25
52925868 TCAAAATAAC
*
52925878 TCAAA-AAATTTCTATTTTATTACA
1 TCAAATAAACTTCTATTTTATTACA
52925902 TCAAATAAACTTCTATTTTATTACA
1 TCAAATAAACTTCTATTTTATTACA
52925927 TCAAATAA
1 TCAAATAA
52925935 TATCAAAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 5 0.16
25 26 0.84
ACGTcount: A:0.44, C:0.14, G:0.00, T:0.42
Consensus pattern (25 bp):
TCAAATAAACTTCTATTTTATTACA
Found at i:52925961 original size:45 final size:45
Alignment explanation
Indices: 52925902--52925989 Score: 131
Period size: 45 Copynumber: 2.0 Consensus size: 45
52925892 TTTTATTACA
* * * *
52925902 TCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAAC
1 TCAAAAAAACTTCTATTTTATCACATAAAACAATATCAAAATAAC
*
52925947 TCAAAAAAATTTCTATTTTATCACATAAAACAATATCAAAATA
1 TCAAAAAAACTTCTATTTTATCACATAAAACAATATCAAAATA
52925990 TTCAAAATAT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.34
Consensus pattern (45 bp):
TCAAAAAAACTTCTATTTTATCACATAAAACAATATCAAAATAAC
Found at i:52932050 original size:22 final size:23
Alignment explanation
Indices: 52932025--52932073 Score: 73
Period size: 22 Copynumber: 2.1 Consensus size: 23
52932015 TCGAATAGTG
52932025 TATGAATATATAT-ATTATAAAA
1 TATGAATATATATAATTATAAAA
*
52932047 TATGTATATATATGAATTATAAAA
1 TATGAATATATAT-AATTATAAAA
52932071 TAT
1 TAT
52932074 AAAAAATGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 12 0.50
24 12 0.50
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (23 bp):
TATGAATATATATAATTATAAAA
Found at i:52932240 original size:3 final size:3
Alignment explanation
Indices: 52932232--52932290 Score: 61
Period size: 3 Copynumber: 20.0 Consensus size: 3
52932222 ATATGTAAGT
*
52932232 ATA ATA ATAA ATA AT- ATA ATA ATA ATTA ATA ATA ATA A-A TTA A-A
1 ATA ATA AT-A ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA
*
52932276 ACA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA
52932291 GTGTAAAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
2 5 0.10
3 37 0.77
4 6 0.12
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:52932245 original size:10 final size:10
Alignment explanation
Indices: 52932232--52932288 Score: 59
Period size: 10 Copynumber: 6.0 Consensus size: 10
52932222 ATATGTAAGT
52932232 ATAATAATAA
1 ATAATAATAA
52932242 ATAAT-AT-A
1 ATAATAATAA
*
52932250 ATAATAATTA
1 ATAATAATAA
52932260 ATAATAATAA
1 ATAATAATAA
*
52932270 ATTAA-AA-CA
1 A-TAATAATAA
52932279 ATAATAATAA
1 ATAATAATAA
52932289 TAGTGTAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
8 9 0.23
9 8 0.21
10 19 0.49
11 3 0.08
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (10 bp):
ATAATAATAA
Found at i:52932297 original size:22 final size:19
Alignment explanation
Indices: 52932259--52932303 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 19
52932249 AATAATAATT
*
52932259 AATAATAATAAATTAAAAC
1 AATAATAATAAATTAAAAA
52932278 AATAATAATAATAGTGTAAAAA
1 AATAATAATAA-A-T-TAAAAA
52932300 AATA
1 AATA
52932304 GAAGGACTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 11 0.50
20 1 0.05
21 1 0.05
22 9 0.41
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (19 bp):
AATAATAATAAATTAAAAA
Found at i:52933671 original size:42 final size:43
Alignment explanation
Indices: 52933624--52933945 Score: 189
Period size: 42 Copynumber: 7.5 Consensus size: 43
52933614 ATCTGCTCTT
*
52933624 CTGCAACTTCAGAGAGATAAGATCTG-ATGTTAATCCGCTCCA
1 CTGCAACTTCAGAGAGATAAGATCTGTATCTTAATCCGCTCCA
* * * * * *
52933666 CTGCAACTTTAGGGAGATAGGAT-TAGTTTCTTCTATCTGCTCCA
1 CTGCAACTTCAGAGAGATAAGATCT-GTATCTT-AATCCGCTCCA
* * * *
52933710 CTGCAACTTCAGGGAGATAAGA-CTAG-ATGC--GATCTGCT-CT
1 CTGCAACTTCAGAGAGATAAGATCT-GTAT-CTTAATCCGCTCCA
* * *
52933750 CTGCAACCTCAGAGAGATAAGACCTAGTATCTTCAATCCACTCCA
1 CTGCAACTTCAGAGAGATAAGATCT-GTATCTT-AATCCGCTCCA
* * * * * ** **
52933795 TTGCAACTTCAGGGAGATAGGATTTGCTATCTTCAGTCTACTCTG
1 CTGCAACTTCAGAGAGATAAGATCTG-TATCTT-AATCCGCTCCA
* ** * *
52933840 CTGCAACCTCA-AGGAGATAAGA-CTGTA-CGCAATCCGTTCTA
1 CTGCAACTTCAGA-GAGATAAGATCTGTATCTTAATCCGCTCCA
* * *
52933881 CTGTAACTTCAGAGAGATAAGATCTG-ATTTTAATCCGATCCA
1 CTGCAACTTCAGAGAGATAAGATCTGTATCTTAATCCGCTCCA
* *
52933923 CTTCAACTTCAGGGAGATAAGAT
1 CTGCAACTTCAGAGAGATAAGAT
52933946 TATTTTCTTC
Statistics
Matches: 214, Mismatches: 50, Indels: 32
0.72 0.17 0.11
Matches are distributed among these distances:
40 21 0.10
41 38 0.18
42 57 0.27
43 6 0.03
44 41 0.19
45 51 0.24
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (43 bp):
CTGCAACTTCAGAGAGATAAGATCTGTATCTTAATCCGCTCCA
Found at i:52934114 original size:100 final size:100
Alignment explanation
Indices: 52933952--52934462 Score: 602
Period size: 100 Copynumber: 5.1 Consensus size: 100
52933942 AGATTATTTT
* * * * * * * * *
52933952 CTTCAATTTGTTTAACTGTAATGTCGGGGAAACAAGAT-TCACCATCGTGACTTCAATTTGTTCC
1 CTTCAATCTATTTAATTGCAATGTCGAGGAAACCAGATCT-GCCGTCGTGACTTCAATCTGTTCC
* * *
52934016 ACTACACCACCAGGGAGGTAAGATTCGCCGTTGTGG
65 ACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
* * ** *
52934052 CTTCAATCTATCTAACTGCAATGTCGAGGAAACCAGATCCACCGTCGT-AGCTTTAATCTGTTCC
1 CTTCAATCTATTTAATTGCAATGTCGAGGAAACCAGATCTGCCGTCGTGA-CTTCAATCTGTTCC
*
52934116 ACTGCACCGCCAGGGAAGTAAGATCCGCCGTTGTGG
65 ACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
* * * *
52934152 CTTCAATTTTTTTAATTGCAATGTCGGGGAAACCAGATCTGCCGTTGTGACTTCAATCTGTTCCA
1 CTTCAATCTATTTAATTGCAATGTCGAGGAAACCAGATCTGCCGTCGTGACTTCAATCTGTTCCA
* * ***
52934217 CTGCACAGCTAAAAAAGTAAGATTCGCCGTTGTGG
66 CTGCACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
** *
52934252 CTTCAATCT-TTTAATTGCAATGTC-AGGAAAACCAGATCTGCTATCGT-AGCTTTAATCTGTTC
1 CTTCAATCTATTTAATTGCAATGTCGAGG-AAACCAGATCTGCCGTCGTGA-CTTCAATCTGTTC
* * * *
52934314 CACTACACCGCCAAGGAAATAAGATTCACCGTTGTGG
64 CACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
* *
52934351 CTTCAATCTTTTTAATTGCAATGTCG-GGAAAACCAGATCTGCCGTTGTGACTTCAATCTGTTCC
1 CTTCAATCTATTTAATTGCAATGTCGAGG-AAACCAGATCTGCCGTCGTGACTTCAATCTGTTCC
*
52934415 ACTGCACCGCCAGGGAAGTAAGATTTGCCGTTGTGG
65 ACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
52934451 CTTCAATCTATT
1 CTTCAATCTATT
52934463 CCACTGTAAT
Statistics
Matches: 351, Mismatches: 52, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
98 3 0.01
99 83 0.24
100 263 0.75
101 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (100 bp):
CTTCAATCTATTTAATTGCAATGTCGAGGAAACCAGATCTGCCGTCGTGACTTCAATCTGTTCCA
CTGCACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
Found at i:52934365 original size:199 final size:200
Alignment explanation
Indices: 52933998--52934461 Score: 664
Period size: 199 Copynumber: 2.3 Consensus size: 200
52933988 ATTCACCATC
* * *** *
52933998 GTGACTTCAATTTGTTCCACTACACCA-CCAGGGAGGTAAGATTCGCCGTTGTGGCTTCAATCTA
1 GTGACTTCAATCTGTTCCACTGCA-CAGCCAAAAAAGTAAGATTCGCCGTTGTGGCTTCAATCTA
* *
52934062 TCTAACTGCAATGTCGAGGAAACCAGATCCACCGTCGTAGCTTTAATCTGTTCCACTGCACCGCC
65 TCTAACTGCAATGTCGAGGAAACCAGATCCACCATCGTAGCTTTAATCTGTTCCACTACACCGCC
* * * * *
52934127 AGGGAAGTAAGATCCGCCGTTGTGGCTTCAATTTTTTTAATTGCAATGTCGGGGAAACCAGATCT
130 AAGGAAATAAGATCCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGAAAACCAGATCT
52934192 GCCGTT
195 GCCGTT
*
52934198 GTGACTTCAATCTGTTCCACTGCACAGCTAAAAAAGTAAGATTCGCCGTTGTGGCTTCAATCT-T
1 GTGACTTCAATCTGTTCCACTGCACAGCCAAAAAAGTAAGATTCGCCGTTGTGGCTTCAATCTAT
* * ** *
52934262 TTAATTGCAATGTC-AGGAAAACCAGATCTGCTATCGTAGCTTTAATCTGTTCCACTACACCGCC
66 CTAACTGCAATGTCGAGG-AAACCAGATCCACCATCGTAGCTTTAATCTGTTCCACTACACCGCC
*
52934326 AAGGAAATAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGAAAACCAGATCT
130 AAGGAAATAAGATCCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGAAAACCAGATCT
52934391 GCCGTT
195 GCCGTT
* *** *
52934397 GTGACTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTTGCCGTTGTGGCTTCAATCTAT
1 GTGACTTCAATCTGTTCCACTGCACAGCCAAAAAAGTAAGATTCGCCGTTGTGGCTTCAATCTAT
52934462 TCCACTGTAA
Statistics
Matches: 235, Mismatches: 26, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
198 3 0.01
199 178 0.76
200 54 0.23
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (200 bp):
GTGACTTCAATCTGTTCCACTGCACAGCCAAAAAAGTAAGATTCGCCGTTGTGGCTTCAATCTAT
CTAACTGCAATGTCGAGGAAACCAGATCCACCATCGTAGCTTTAATCTGTTCCACTACACCGCCA
AGGAAATAAGATCCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGAAAACCAGATCTG
CCGTT
Found at i:52934444 original size:50 final size:50
Alignment explanation
Indices: 52934002--52934468 Score: 232
Period size: 50 Copynumber: 9.4 Consensus size: 50
52933992 ACCATCGTGA
* * * **
52934002 CTTCAATTTGTTCCACTACACCACCAGGGAGGTAAGAT-TCGCCGTTGTGG
1 CTTCAATCTGTTCCACTGCACCGCCAGGGAAATAAGATCT-GCCGTTGTGG
* * ** * ** ** * *
52934052 CTTCAATCT-ATCTAACTGCAATGTC-GAGGAAACCAGATCCACCGTCGTAG
1 CTTCAATCTGTTC-CACTGCACCGCCAG-GGAAATAAGATCTGCCGTTGTGG
* * *
52934102 CTTTAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATCCGCCGTTGTGG
1 CTTCAATCTGTTCCACTGCACCGCCAGGGAAATAAGATCTGCCGTTGTGG
* * ** * ** * * ** *
52934152 CTTCAATTTTTTTAATTGCAATGTCGGGGAAACCAGATCTGCCGTTGTGA
1 CTTCAATCTGTTCCACTGCACCGCCAGGGAAATAAGATCTGCCGTTGTGG
* * **
52934202 CTTCAATCTGTTCCACTGCACAGCTA-AAAAAGTAAGAT-TCGCCGTTGTGG
1 CTTCAATCTGTTCCACTGCACCGCCAGGGAAA-TAAGATCT-GCCGTTGTGG
** * ** * * ** ** * *
52934252 CTTCAATCT-TTTAATTGCAATGTCAGGAAAACCAGATCTGCTATCGTAG
1 CTTCAATCTGTTCCACTGCACCGCCAGGGAAATAAGATCTGCCGTTGTGG
* * * *
52934301 CTTTAATCTGTTCCACTACACCGCCAAGGAAATAAGAT-TCACCGTTGTGG
1 CTTCAATCTGTTCCACTGCACCGCCAGGGAAATAAGATCT-GCCGTTGTGG
* ** * ** * *
52934351 CTTCAATCTTTTTAATTGCAATGTC-GGGAAA-ACCAGATCTGCCGTTGTGA
1 CTTCAATCTGTTCCACTGCACCGCCAGGGAAATA--AGATCTGCCGTTGTGG
* *
52934401 CTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTTGCCGTTGTGG
1 CTTCAATCTGTTCCACTGCACCGCCAGGGAAATAAGATCTGCCGTTGTGG
*
52934451 CTTCAATCTATTCCACTG
1 CTTCAATCTGTTCCACTG
52934469 TAATGCCAAA
Statistics
Matches: 289, Mismatches: 112, Indels: 32
0.67 0.26 0.07
Matches are distributed among these distances:
48 1 0.00
49 40 0.14
50 238 0.82
51 9 0.03
52 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (50 bp):
CTTCAATCTGTTCCACTGCACCGCCAGGGAAATAAGATCTGCCGTTGTGG
Found at i:52934764 original size:88 final size:88
Alignment explanation
Indices: 52934655--52934833 Score: 252
Period size: 88 Copynumber: 2.0 Consensus size: 88
52934645 GGCAATAAGA
* * * *
52934655 CTGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTG-TCATTTTCAACCTACT
1 CTGGTATCTTCGATCTACTTCGCTGCCAATACAGGAAGGCAAGATCTGCT-ATGTTCAACCTACT
*
52934719 CCACTGCTGCTCAGGGAGACAAGG
65 CCACTACTGCTCAGGGAGACAAGG
* *
52934743 CTGGTATCTTCGATCTACTTCGCTGCTAATACAGGAAGTCAAGATCTGCTATGTTCAACCTACTC
1 CTGGTATCTTCGATCTACTTCGCTGCCAATACAGGAAGGCAAGATCTGCTATGTTCAACCTACTC
* * *
52934808 CATTACTGCTTAGGGAGATAAGG
66 CACTACTGCTCAGGGAGACAAGG
52934831 CTG
1 CTG
52934834 AAGTTTCACT
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
88 79 0.99
89 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.28
Consensus pattern (88 bp):
CTGGTATCTTCGATCTACTTCGCTGCCAATACAGGAAGGCAAGATCTGCTATGTTCAACCTACTC
CACTACTGCTCAGGGAGACAAGG
Found at i:52936031 original size:15 final size:15
Alignment explanation
Indices: 52936011--52936054 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
52936001 CCCTAGCCTC
52936011 TCCATTTTT-ACTTTT
1 TCCATTTTTCA-TTTT
52936026 TCCATTTTTCATTTT
1 TCCATTTTTCATTTT
52936041 T-CA-TTTTCATTTT
1 TCCATTTTTCATTTT
52936054 T
1 T
52936055 TCGTCATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
13 11 0.39
14 2 0.07
15 14 0.50
16 1 0.04
ACGTcount: A:0.14, C:0.18, G:0.00, T:0.68
Consensus pattern (15 bp):
TCCATTTTTCATTTT
Found at i:52936033 original size:7 final size:7
Alignment explanation
Indices: 52936013--52936054 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
52936003 CTAGCCTCTC
52936013 CATTTTT
1 CATTTTT
52936020 -ACTTTTT
1 CA-TTTTT
52936027 CCATTTTT
1 -CATTTTT
52936035 CATTTTT
1 CATTTTT
52936042 CA-TTTT
1 CATTTTT
52936048 CATTTTT
1 CATTTTT
52936055 TCGTCATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
6 7 0.23
7 18 0.58
8 5 0.16
9 1 0.03
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (7 bp):
CATTTTT
Found at i:52941058 original size:24 final size:23
Alignment explanation
Indices: 52940971--52941079 Score: 73
Period size: 24 Copynumber: 4.6 Consensus size: 23
52940961 TATATTAGTA
*
52940971 AATTATAAAGATATGGATATATAGGT
1 AATTATAAA-ATATGTATATATA--T
* *
52940997 -ATATATAAAAAATGTTTATA-AT
1 AAT-TATAAAATATGTATATATAT
**
52941019 AATT-TCGAATAGTGTATGA-ATAT
1 AATTATAAAATA-TGTAT-ATATAT
52941042 ATATTATAAAATATGTATATATAT
1 A-ATTATAAAATATGTATATATAT
52941066 GAATTATAAAATAT
1 -AATTATAAAATAT
52941080 AGAAAATGCA
Statistics
Matches: 65, Mismatches: 9, Indels: 20
0.69 0.10 0.21
Matches are distributed among these distances:
21 4 0.06
22 7 0.11
23 7 0.11
24 25 0.38
25 16 0.25
26 6 0.09
ACGTcount: A:0.49, C:0.01, G:0.11, T:0.39
Consensus pattern (23 bp):
AATTATAAAATATGTATATATAT
Found at i:52942388 original size:24 final size:23
Alignment explanation
Indices: 52942347--52942393 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
52942337 TACACATAGG
52942347 ACATTTAAAGTAAGGTAAGTAATA
1 ACATTTAAAGTAAGGTAAG-AATA
*
52942371 ACATTTGAAATTAA-GTAAGAATA
1 ACATTT-AAAGTAAGGTAAGAATA
52942394 TGTGTGAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 4 0.19
24 11 0.52
25 6 0.29
ACGTcount: A:0.51, C:0.04, G:0.15, T:0.30
Consensus pattern (23 bp):
ACATTTAAAGTAAGGTAAGAATA
Found at i:52946683 original size:5 final size:5
Alignment explanation
Indices: 52946673--52946698 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
52946663 AAAATATTAA
52946673 TAATT TAATT TAATT TAATT TAATT T
1 TAATT TAATT TAATT TAATT TAATT T
52946699 TAAAATCTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TAATT
Found at i:52952030 original size:37 final size:36
Alignment explanation
Indices: 52951989--52952065 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
52951979 ATTGTAATTG
* *
52951989 TTAAAATAT-ACTATTAGTCCTTTTACTTTTTATAAAT
1 TTAAAATATAACTATTA-TACTTTTAC-TTTTAAAAAT
* *
52952026 TTAAAATTTAATTATTATACTTTTACTTTTAAAAAT
1 TTAAAATATAACTATTATACTTTTACTTTTAAAAAT
52952062 TTAA
1 TTAA
52952066 TCTTTTTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
36 13 0.37
37 16 0.46
38 6 0.17
ACGTcount: A:0.39, C:0.08, G:0.01, T:0.52
Consensus pattern (36 bp):
TTAAAATATAACTATTATACTTTTACTTTTAAAAAT
Found at i:52953080 original size:96 final size:96
Alignment explanation
Indices: 52952861--52953072 Score: 318
Period size: 96 Copynumber: 2.2 Consensus size: 96
52952851 GTTTTTTTTT
* * *
52952861 AAAATCAATTAAATTAGGGTTTAGAGTTACTTGAGTAAATTAATTAAAAAAATTTAAAAAATTAG
1 AAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAAAAAAATTTAAAAAAATAG
*
52952926 ATTAGGGTTTAGTGTTAAGAGTTTTTAAGGA
66 ATTAGGGTTTAATGTTAAGAGTTTTTAAGGA
* * * *
52952957 AAAATTAAATAAATTAAGGTTTAGGGTTACTTGAGTAAATTAATT-ATAAATTTTAAAAAAATAG
1 AAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAAAAAAATTTAAAAAAATAG
* *
52953021 ATTAGGGTTTAATGTTTAGGGTTTTTAAGGA
66 ATTAGGGTTTAATGTTAAGAGTTTTTAAGGA
52953052 AAAACTCAAATAAATTAGGGT
1 AAAA-TCAAATAAATTAGGGT
52953073 GTGGGGTTTA
Statistics
Matches: 103, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
95 48 0.47
96 55 0.53
ACGTcount: A:0.44, C:0.02, G:0.17, T:0.36
Consensus pattern (96 bp):
AAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAAAAAAATTTAAAAAAATAG
ATTAGGGTTTAATGTTAAGAGTTTTTAAGGA
Found at i:52953346 original size:126 final size:125
Alignment explanation
Indices: 52953130--52953530 Score: 622
Period size: 126 Copynumber: 3.2 Consensus size: 125
52953120 CTCTCATGTA
* * * *
52953130 GACGCTCTTTTGCTACAATAGCTCCTTAAAAAATAATTTCGAGAAGACGTTTCTGAGCAAATAGT
1 GACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTTCTGAGCAAATAGT
52953195 GTCAAAAACGCTTTAAGCAGTATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCCACGTG
66 GTCAAAAACGCTTTAAGCAG-ATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCCACGTG
*
52953256 GACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTTCTAAGCAAATAGT
1 GACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTTCTGAGCAAATAGT
* *
52953321 GTTAAAAACGCTTTAAGTATGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCCACGTG
66 GTCAAAAACGCTTTAAGCA-GATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCCACGTG
* * *
52953382 GACGCGCTTTTGCTACAGTAGCTCTTGAAAAAAAAATTTTGAGTAGACGTTTCTGAGCAAATAGT
1 GACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTTCTGAGCAAATAGT
* * * * * * *
52953447 GTCAAAAACGCTTTAAGCAGGATACTTTGTCAGCAAAAGTATTGAAAGAATCTCTCATGCG
66 GTCAAAAACGCTTTAAGCA-GATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCCACGTG
52953508 GACGCGCTTTTGCTACAGTAGCT
1 GACGCGCTTTTGCTACAGTAGCT
52953531 TCTGTTTGGC
Statistics
Matches: 253, Mismatches: 21, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
126 252 1.00
127 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.27
Consensus pattern (125 bp):
GACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTTCTGAGCAAATAGT
GTCAAAAACGCTTTAAGCAGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCCACGTG
Found at i:52957223 original size:18 final size:18
Alignment explanation
Indices: 52957191--52957231 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
52957181 GACTAGAAAC
* *
52957191 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGTT
*
52957209 TGGATACATAAAAGGGTT
1 AGGATACATAAAAGGGTT
52957227 AGGAT
1 AGGAT
52957232 GCGCACTTGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.05, G:0.29, T:0.24
Consensus pattern (18 bp):
AGGATACATAAAAGGGTT
Found at i:52957868 original size:7 final size:7
Alignment explanation
Indices: 52957858--52957887 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
52957848 CATAATACAT
52957858 AATACTA
1 AATACTA
52957865 AATACTA
1 AATACTA
52957872 AATACTA
1 AATACTA
52957879 AATAC-A
1 AATACTA
52957885 AAT
1 AAT
52957888 CGACTATCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.17
7 19 0.83
ACGTcount: A:0.60, C:0.13, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:52957868 original size:14 final size:15
Alignment explanation
Indices: 52957851--52957884 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
52957841 TTACATACAT
52957851 AATACAT-AATACTA
1 AATACATAAATACTA
52957865 AATAC-TAAATACTA
1 AATACATAAATACTA
52957879 AATACA
1 AATACA
52957885 AATCGACTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 1 0.06
14 17 0.94
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (15 bp):
AATACATAAATACTA
Found at i:52968892 original size:30 final size:30
Alignment explanation
Indices: 52968846--52968969 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
52968836 TTTTATTATG
*
52968846 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
52968877 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
52968907 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
52968937 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
52968967 CCA
1 CCA
52968970 TAAATATGGA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 81 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:52968901 original size:15 final size:15
Alignment explanation
Indices: 52968856--52968963 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
52968846 CCAATATCTC
52968856 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
52968871 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
52968886 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
52968901 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
52968916 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
52968931 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
52968946 GATACCCATATCTTT
1 GATACCCATATCTTT
52968961 GAT
1 GAT
52968964 TTTCCATAAA
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:52973580 original size:30 final size:30
Alignment explanation
Indices: 52973534--52973657 Score: 185
Period size: 30 Copynumber: 4.1 Consensus size: 30
52973524 TTTTATTATG
*
52973534 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
52973565 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* *
52973595 CTAATATTTGATACCCATGTCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
52973625 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
52973655 CCA
1 CCA
52973658 TAAATATGGA
Statistics
Matches: 86, Mismatches: 7, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
30 79 0.92
31 7 0.08
ACGTcount: A:0.25, C:0.23, G:0.07, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:52973589 original size:15 final size:15
Alignment explanation
Indices: 52973544--52973651 Score: 60
Period size: 15 Copynumber: 7.2 Consensus size: 15
52973534 CCAATATCTC
52973544 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
52973559 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
52973574 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
52973589 GACTTTCTA-ATATTT
1 GA-TACCCATATCTTT
*
52973604 GATACCCATGTCTTT
1 GATACCCATATCTTT
** * *
52973619 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
52973634 GATACCCATATCTTT
1 GATACCCATATCTTT
52973649 GAT
1 GAT
52973652 TTTCCATAAA
Statistics
Matches: 64, Mismatches: 23, Indels: 12
0.65 0.23 0.12
Matches are distributed among these distances:
14 11 0.17
15 42 0.66
16 11 0.17
ACGTcount: A:0.25, C:0.21, G:0.08, T:0.45
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:52976031 original size:2 final size:2
Alignment explanation
Indices: 52976024--52976051 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
52976014 TTTAATTAAG
52976024 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
52976052 TCTTTATCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:52977728 original size:14 final size:14
Alignment explanation
Indices: 52977711--52977737 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
52977701 TCTACTTATG
52977711 TTTTTTTCTTTTTC
1 TTTTTTTCTTTTTC
52977725 TTTTTTTCTTTTT
1 TTTTTTTCTTTTT
52977738 TTGCAGCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (14 bp):
TTTTTTTCTTTTTC
Found at i:52986386 original size:4 final size:4
Alignment explanation
Indices: 52986379--52986408 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
52986369 TGGTTTTGTA
52986379 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
52986409 TAATGGTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:52988138 original size:45 final size:45
Alignment explanation
Indices: 52988066--52988279 Score: 245
Period size: 45 Copynumber: 4.8 Consensus size: 45
52988056 GGAGAGTTCA
* * * *
52988066 AGTCCTGTTCGGTATCAT-ACTGAAGAGAAATGGAATAAGCCTTCT
1 AGTCCTGTTCGGTATGATGTC-GAAGAGAAATGGAATAAGCCATCG
* * * *
52988111 AGACCCGTTCAGTATGACGTCGAAGAGAAATGGAATAAGCCATCG
1 AGTCCTGTTCGGTATGATGTCGAAGAGAAATGGAATAAGCCATCG
*
52988156 AGTCCTGTTCGGTATCG-TGTCGAAGAGAAATGGAATAAGCCATCT
1 AGTCCTGTTCGGTAT-GATGTCGAAGAGAAATGGAATAAGCCATCG
* * * *
52988201 AGTCCTGTT-GGTTATGGTGTCGAAGAGAAATGGAGTAGGCCTTCG
1 AGTCCTGTTCGG-TATGATGTCGAAGAGAAATGGAATAAGCCATCG
**
52988246 AGTCCTGTTCGGTACCATGTCGAAGAGAAATGGA
1 AGTCCTGTTCGGTATGATGTCGAAGAGAAATGGA
52988280 CGAACCGGCC
Statistics
Matches: 144, Mismatches: 20, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
44 3 0.02
45 137 0.95
46 4 0.03
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.25
Consensus pattern (45 bp):
AGTCCTGTTCGGTATGATGTCGAAGAGAAATGGAATAAGCCATCG
Found at i:52988202 original size:90 final size:90
Alignment explanation
Indices: 52988066--52988279 Score: 288
Period size: 90 Copynumber: 2.4 Consensus size: 90
52988056 GGAGAGTTCA
* *
52988066 AGTCCTGTTCGGTATCAT-ACTGAAGAGAAATGGAATAAGCCTTCTAGACCCGTTCAG-TATGAC
1 AGTCCTGTTCGGTATCATGTC-GAAGAGAAATGGAATAAGCCATCTAGACCCGTT-AGTTATGAC
52988129 GTCGAAGAGAAATGGAATAAGCCATCG
64 GTCGAAGAGAAATGGAATAAGCCATCG
* * * * **
52988156 AGTCCTGTTCGGTATCGTGTCGAAGAGAAATGGAATAAGCCATCTAGTCCTGTTGGTTATGGTGT
1 AGTCCTGTTCGGTATCATGTCGAAGAGAAATGGAATAAGCCATCTAGACCCGTTAGTTATGACGT
* * *
52988221 CGAAGAGAAATGGAGTAGGCCTTCG
66 CGAAGAGAAATGGAATAAGCCATCG
*
52988246 AGTCCTGTTCGGTACCATGTCGAAGAGAAATGGA
1 AGTCCTGTTCGGTATCATGTCGAAGAGAAATGGA
52988280 CGAACCGGCC
Statistics
Matches: 109, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
89 1 0.01
90 107 0.98
91 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.25
Consensus pattern (90 bp):
AGTCCTGTTCGGTATCATGTCGAAGAGAAATGGAATAAGCCATCTAGACCCGTTAGTTATGACGT
CGAAGAGAAATGGAATAAGCCATCG
Found at i:52991134 original size:21 final size:21
Alignment explanation
Indices: 52991108--52991147 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
52991098 TTCGAGTGGA
*
52991108 TCAACTCTTTTGAGCTTCTGT
1 TCAACTCTTTCGAGCTTCTGT
52991129 TCAACTCTTTCGAGCTTCT
1 TCAACTCTTTCGAGCTTCT
52991148 ATTGGTGTGT
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:0.15, C:0.28, G:0.12, T:0.45
Consensus pattern (21 bp):
TCAACTCTTTCGAGCTTCTGT
Found at i:52996882 original size:11 final size:12
Alignment explanation
Indices: 52996866--52996898 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
52996856 TCCCTGATTG
52996866 TTTCTATTGT-A
1 TTTCTATTGTCA
52996877 TTTCTATTGTCA
1 TTTCTATTGTCA
52996889 TTTCTCATTG
1 TTTCT-ATTG
52996899 CATGCAAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.50
12 6 0.30
13 4 0.20
ACGTcount: A:0.15, C:0.15, G:0.09, T:0.61
Consensus pattern (12 bp):
TTTCTATTGTCA
Found at i:52999831 original size:16 final size:15
Alignment explanation
Indices: 52999806--52999839 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
52999796 AAAGTATAAA
*
52999806 ATAAAATAAATAATG
1 ATAAAATAAAAAATG
52999821 ATAATAATAAAAAATG
1 ATAA-AATAAAAAATG
52999837 ATA
1 ATA
52999840 TGATATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (15 bp):
ATAAAATAAAAAATG
Found at i:53000207 original size:49 final size:48
Alignment explanation
Indices: 53000125--53000282 Score: 273
Period size: 49 Copynumber: 3.2 Consensus size: 48
53000115 CTTACTTTGA
*
53000125 GAATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGTTATATATGTGATAGGGCCTAATGGCCGATGTGAT
53000172 GAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGT-TATATATGTGATAGGGCCTAATGGCCGATGTGAT
53000221 GAATGTGAAAGTGTGTATATATGTGATAGGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGT-TATATATGTGATAGGGCCTAATGGCCGATGTGAT
53000270 GAATGTGATAAGT
1 GAATGTGA-AAGT
53000283 CCCGAAGGGC
Statistics
Matches: 106, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
47 13 0.12
49 89 0.84
50 4 0.04
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.30
Consensus pattern (48 bp):
GAATGTGAAAGTGTTATATATGTGATAGGGCCTAATGGCCGATGTGAT
Found at i:53000455 original size:37 final size:37
Alignment explanation
Indices: 53000399--53000477 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
53000389 TCGAGCTCTA
* * *
53000399 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
53000436 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
53000473 AAGAC
1 AAGAC
53000478 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:53004748 original size:47 final size:47
Alignment explanation
Indices: 53004670--53005121 Score: 717
Period size: 47 Copynumber: 9.6 Consensus size: 47
53004660 CCCTTCGGGA
* * * * * *
53004670 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
53004717 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
53004764 CTCATCACATATA-ACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53004810 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
53004857 CTTATCACATATATATACACTTTTACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53004906 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53004953 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
53005000 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53005049 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
53005096 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
53005122 CACAATTATC
Statistics
Matches: 376, Mismatches: 24, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
46 44 0.12
47 242 0.64
49 90 0.24
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:53004933 original size:96 final size:94
Alignment explanation
Indices: 53004670--53005121 Score: 717
Period size: 96 Copynumber: 4.8 Consensus size: 94
53004660 CCCTTCGGGA
* * * * * * * *
53004670 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
53004735 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
53004764 CTCATCACATATA-ACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
53004828 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
53004857 CTTATCACATATATATACACTTTTACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
53004922 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
53004953 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* *
53005018 ACTTTCACATTCATCACATTGGCCATTCGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
53005049 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
53005114 ATTCACAT
66 TTTCACAT
53005122 CACAATTATC
Statistics
Matches: 333, Mismatches: 20, Indels: 10
0.92 0.06 0.03
Matches are distributed among these distances:
93 79 0.24
94 72 0.22
95 5 0.02
96 177 0.53
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:53004969 original size:143 final size:143
Alignment explanation
Indices: 53004670--53005121 Score: 748
Period size: 143 Copynumber: 3.2 Consensus size: 143
53004660 CCCTTCGGGA
* * * * * * * *
53004670 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
53004733 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATA-ACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
53004797 TCGGCTATTAGGC
131 TCGGCCATTAGGC
53004810 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
53004875 ACTTTTACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
53004940 TCGGCCATTAGGC
131 TCGGCCATTAGGC
53004953 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
53005018 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
53005083 TCGGCCATTAGGC
131 TCGGCCATTAGGC
* *
53005096 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
53005122 CACAATTATC
Statistics
Matches: 293, Mismatches: 16, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
140 47 0.16
142 49 0.17
143 197 0.67
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:53012515 original size:143 final size:141
Alignment explanation
Indices: 53012252--53012546 Score: 403
Period size: 143 Copynumber: 2.1 Consensus size: 141
53012242 TAGAATTAAA
* * * ** *
53012252 CAAGTGCATTGTTTATTCCTCTCTAAGGTTGGGTCTTTTTTGGGTTTAGTATTGTTGTTCCAACT
1 CAAGTACATGGTTTATTCCTATCTAAGGTTGGGTCTTTTTCAGGTTTAGTATTGTTGTTCCAACG
* *
53012317 CTTCATTTTTCTCGAAGTCACCATGTCTGAGGCATACTGGGATATATGTATGTCATATTACACTC
66 CTTCATTTTTCTCGAAGTCACCATGTCTGAGGCATACCGGGATATATGTATGTCATATGACACTC
**
53012382 CATGAATATTC
131 CACAAATATTC
*
53012393 CAAGTACATGGTTTATTCCTATCTAAGGTTGGGTCTTTTTCAGGTTTAGTATT-TTGATTCTCCG
1 CAAGTACATGGTTTATTCCTATCTAAGGTTGGGTCTTTTTCAGGTTTAGTATTGTTG--T-TCCA
* ** * *
53012457 AGGCTTCATTTTTCTCGAAGTCACTGTGTTTGATGCATACCGGGATATATGTATGTCATATGACA
63 ACGCTTCATTTTTCTCGAAGTCACCATGTCTGAGGCATACCGGGATATATGTATGTCATATGACA
53012522 CTCCACAAATATTC
128 CTCCACAAATATTC
*
53012536 CAAATACATGG
1 CAAGTACATGG
53012547 AAAAACTTAG
Statistics
Matches: 134, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
140 3 0.02
141 48 0.36
142 1 0.01
143 82 0.61
ACGTcount: A:0.23, C:0.18, G:0.19, T:0.40
Consensus pattern (141 bp):
CAAGTACATGGTTTATTCCTATCTAAGGTTGGGTCTTTTTCAGGTTTAGTATTGTTGTTCCAACG
CTTCATTTTTCTCGAAGTCACCATGTCTGAGGCATACCGGGATATATGTATGTCATATGACACTC
CACAAATATTC
Done.