Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008255.1 Hibiscus syriacus cultivar Beakdansim tig00110908_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 300600
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
File 1 of 3
Found at i:451 original size:193 final size:195
Alignment explanation
Indices: 1--1021 Score: 1651
Period size: 192 Copynumber: 5.3 Consensus size: 195
1 TACCGGTTTT-TGAGAGAATAAGTCTAAATAATGTGTCGACACTAATAGTTT-TGTCGATATTTT
1 TACCGGTTTTATGAGAGAATAAGTCTAAATAATGTGTCGACACTAATAGTTTGTGTCGATA-TTT
* *
64 TTTTCCAGAATGAATTAAAAACAAGGTGCATCAATAAAGTGTCGATCCATATAT-AAAAGTGTCG
65 TTTTCCAGAATGAATTAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCG
128 ATCCCAAAATCATCGAACCCAAAAGTATAATGT-ATATGTAATTTTTCAATCTAACCGTACAATT
130 ATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGTACAATT
192 A
195 A
193 TACCGGTTTTATGAGAGAATAAGTCTAAATAATGTGTCGACACT-ATAGTTTGTGTCGATATTTT
1 TACCGGTTTTATGAGAGAATAAGTCTAAATAATGTGTCGACACTAATAGTTTGTGTCGATATTTT
257 TTTCCAGAATGAATTAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGA
66 TTTCCAGAATGAATTAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGA
*
322 TCCC-AAATCATCGAACCCAAAAGTATAATGT-ATATGTAATTTTTTAATCT-ACCGGTACAATT
131 TCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACC-GTACAATT
384 A
195 A
385 TACCGGTTTTATGAGAGAATAAGTCTAAATAATGTGTCGACACTAATAGTTTGTGTCGATATTTT
1 TACCGGTTTTATGAGAGAATAAGTCTAAATAATGTGTCGACACTAATAGTTTGTGTCGATA--TT
* *
450 TTTTTCCAGAATGAATTAAAAACAAGGTGCATCAATAAAGTGTCGATCCATATAT-AAAAGTGTC
64 TTTTTCCAGAATGAATTAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTC
*
514 GATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTTAATCTAACCGTACAAT
129 GATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGTACAAT
579 TA
194 TA
* *
581 TACCGGTTTTATAAGAGAAT-AGTCTAAATAATGTGTCGCCACTAATATAGTTTGTGTCGATATT
1 TACCGGTTTTATGAGAGAATAAGTCTAAATAATGTGTCGACACT-A-ATAGTTTGTGTCGATATT
*
645 TTTTCCCAGAATGAA-TAAAAACAAGGTGCACCC--AAAGTGTCGATCC--ATATAAAAAGTGTC
64 TTTTTCCAGAATGAATTAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTC
705 GATCCCAAAATCATCGAACCCAAAAG--TAATGTAATATGTAATTTTTCAATCTAACCGTACAAT
129 GATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGTACAAT
768 TA
194 TA
*
770 TACCGGTTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATAT
1 TACCGG-TTTTATGAGAGAATAAGTCTAAATAATGTGTCGACACT-A-ATAGTTTGTGTCGATAT
*
835 TTTTTTCCCAGAATGAATTAAAAACAAGGTGCACCCAT-AAGTGTCGATCC---TATAAAACGTG
63 TTTTTT-CCAGAATGAATTAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTG
896 TCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATAT-T-ATTTTTCAATCTAACCGTACA
127 TCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGTACA
*
959 ATAA
192 ATTA
* *
963 TACC-GTTTTATGAGAGAAT-ATTCTAAATAATGTGTCGACACTAATATTTTGTGTCGATA
1 TACCGGTTTTATGAGAGAATAAGTCTAAATAATGTGTCGACACTAATAGTTTGTGTCGATA
1022 CTAATTTAAT
Statistics
Matches: 788, Mismatches: 20, Indels: 46
0.92 0.02 0.05
Matches are distributed among these distances:
188 15 0.02
189 45 0.06
190 38 0.05
191 98 0.12
192 194 0.25
193 156 0.20
194 44 0.06
195 131 0.17
196 48 0.06
197 19 0.02
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.33
Consensus pattern (195 bp):
TACCGGTTTTATGAGAGAATAAGTCTAAATAATGTGTCGACACTAATAGTTTGTGTCGATATTTT
TTTCCAGAATGAATTAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGA
TCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGTACAATTA
Found at i:840 original size:387 final size:385
Alignment explanation
Indices: 1--1021 Score: 1691
Period size: 387 Copynumber: 2.7 Consensus size: 385
1 TACCGGTTTT-TGAGAGAATAAGTCTAAATAATGTGTCGACACTAATAGTTT-TGTCGATATTTT
1 TACCGGTTTTATGAGAGAATAAGTCTAAATAATGTGTCGACACTAATAGTTTGTGTCGATATTTT
64 TTTTCCAGAATGAATTAAAAACAAGGTGCATCAATAAAGTGTCGATCCATATATAAAAGTGTCGA
66 TTTTCCAGAATGAATTAAAAACAAGGTGCATCAATAAAGTGTCGATCCATATATAAAAGTGTCGA
129 TCCCAAAATCATCGAACCCAAAAGTATAATGT-ATATGTAATTTTTCAATCTAACCGTACAATTA
131 TCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGTACAATTA
*
193 TACCGGTTTTATGAGAGAATAAGTCTAAATAATGTGTCG-AC-ACTATAGTTTGTGTCGATATTT
196 TACCGGTTTTATGAGAGAAT-AGTCTAAATAATGTGTCGCACTAATATAGTTTGTGTCGATATTT
*
256 TTTTCCAGAATGAATTAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCG
260 TTTCCCAGAATGAATTAAAAACAAGGTGCACCCA-AAAGTGTCGATCCA-ATATAAAAAGTGTCG
*
321 ATCCCAAATCATCGAACCCAAAAGTATAATGTATATGTAATTTTTTAATCTACCGGTACAATTA
323 ATCCCAAATCATCGAACCCAAAAG-ATAATGTATATGTAATTTTTCAATCTACCGGTACAATTA
385 TACCGGTTTTATGAGAGAATAAGTCTAAATAATGTGTCGACACTAATAGTTTGTGTCGATATTTT
1 TACCGGTTTTATGAGAGAATAAGTCTAAATAATGTGTCGACACTAATAGTTTGTGTCGATA-TTT
450 TTTTTCCAGAATGAATTAAAAACAAGGTGCATCAATAAAGTGTCGATCCATATATAAAAGTGTCG
65 TTTTTCCAGAATGAATTAAAAACAAGGTGCATCAATAAAGTGTCGATCCATATATAAAAGTGTCG
*
515 ATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTTAATCTAACCGTACAATT
130 ATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGTACAATT
*
580 ATACCGGTTTTATAAGAGAATAGTCTAAATAATGTGTCGCCACTAATATAGTTTGTGTCGATATT
195 ATACCGGTTTTATGAGAGAATAGTCTAAATAATGTGTCG-CACTAATATAGTTTGTGTCGATATT
645 TTTTCCCAGAATGAA-TAAAAACAAGGTGCACCC-AAAGTGTCGATCC-ATATAAAAAGTGTCGA
259 TTTTCCCAGAATGAATTAAAAACAAGGTGCACCCAAAAGTGTCGATCCAATATAAAAAGTGTCGA
707 TCCCAAAATCATCGAACCCAAAAG-TAATGTAATATGTAATTTTTCAATCTAACC-GTACAATTA
324 TCCC-AAATCATCGAACCCAAAAGATAATGT-ATATGTAATTTTTCAATCT-ACCGGTACAATTA
*
770 TACCGGTTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATAT
1 TACCGG-TTTTATGAGAGAATAAGTCTAAATAATGTGTCGACACT-A-ATAGTTTGTGTCGATAT
* * * *
835 TTTTTTCCCAGAATGAATTAAAAACAAGGTGCACCCAT-AAGTGTCGATCC-TATA-AAACGTGT
63 TTTTTTTCCAGAATGAATTAAAAACAAGGTGCATCAATAAAGTGTCGATCCATATATAAAAGTGT
897 CGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATAT-T-ATTTTTCAATCTAACCGTACAA
128 CGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGTACAA
* *
960 TAATACC-GTTTTATGAGAGAATATTCTAAATAATGTGTCGACACTAATAT--TTTGTGTCGATA
193 TTATACCGGTTTTATGAGAGAATAGTCTAAATAATGTGTCG-CACTAATATAGTTTGTGTCGATA
1022 CTAATTTAAT
Statistics
Matches: 609, Mismatches: 15, Indels: 31
0.93 0.02 0.05
Matches are distributed among these distances:
379 12 0.02
381 40 0.07
382 27 0.04
383 1 0.00
384 63 0.10
385 98 0.16
386 79 0.13
387 169 0.28
388 66 0.11
389 20 0.03
390 34 0.06
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.33
Consensus pattern (385 bp):
TACCGGTTTTATGAGAGAATAAGTCTAAATAATGTGTCGACACTAATAGTTTGTGTCGATATTTT
TTTTCCAGAATGAATTAAAAACAAGGTGCATCAATAAAGTGTCGATCCATATATAAAAGTGTCGA
TCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGTACAATTA
TACCGGTTTTATGAGAGAATAGTCTAAATAATGTGTCGCACTAATATAGTTTGTGTCGATATTTT
TTCCCAGAATGAATTAAAAACAAGGTGCACCCAAAAGTGTCGATCCAATATAAAAAGTGTCGATC
CCAAATCATCGAACCCAAAAGATAATGTATATGTAATTTTTCAATCTACCGGTACAATTA
Found at i:2488 original size:18 final size:18
Alignment explanation
Indices: 2465--2532 Score: 55
Period size: 21 Copynumber: 3.4 Consensus size: 18
2455 ATCGGTCGCA
2465 GAAGATGAAGCTGACGAT
1 GAAGATGAAGCTGACGAT
* *
2483 GAAGATGACGATGATGATGAT
1 GAAGATGA--A-GCTGACGAT
*
2504 GATGACGATGAAGCTGGCGAT
1 GA--A-GATGAAGCTGACGAT
2525 GAAGATGA
1 GAAGATGA
2533 TGACGATGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
18 13 0.33
19 1 0.03
20 1 0.03
21 17 0.44
22 1 0.03
23 1 0.03
24 5 0.13
ACGTcount: A:0.37, C:0.09, G:0.35, T:0.19
Consensus pattern (18 bp):
GAAGATGAAGCTGACGAT
Found at i:2489 original size:6 final size:6
Alignment explanation
Indices: 2465--2559 Score: 64
Period size: 6 Copynumber: 15.3 Consensus size: 6
2455 ATCGGTCGCA
* * * * * *
2465 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GATGAT GACGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
* ** * *
2513 GAAGCT GGCGAT GAAGAT GATGACGAT GATGAT GATGAT GAAGAT GA
1 GAAGAT GAAGAT GAAGAT GA--A-GAT GAAGAT GAAGAT GAAGAT GA
2560 TGATCCAAAC
Statistics
Matches: 70, Mismatches: 16, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
6 64 0.91
8 1 0.01
9 5 0.07
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:2500 original size:3 final size:3
Alignment explanation
Indices: 2480--2563 Score: 78
Period size: 3 Copynumber: 28.0 Consensus size: 3
2470 TGAAGCTGAC
* * * * * ** *
2480 GAT GAA GAT GAC GAT GAT GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
2528 GAT GAT GAC GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
2564 CCAAACAAGT
Statistics
Matches: 62, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.36, C:0.06, G:0.35, T:0.24
Consensus pattern (3 bp):
GAT
Found at i:2560 original size:12 final size:12
Alignment explanation
Indices: 2465--2563 Score: 72
Period size: 12 Copynumber: 8.0 Consensus size: 12
2455 ATCGGTCGCA
* *
2465 GAAGATGAAGCT
1 GAAGATGATGAT
* *
2477 GACGATGAAGAT
1 GAAGATGATGAT
*
2489 GACGATGATGAT
1 GAAGATGATGAT
* *
2501 GATGATGACGAT
1 GAAGATGATGAT
* **
2513 GAAGCTGGCGAT
1 GAAGATGATGAT
2525 GAAGATGATGACGAT
1 GAAGATGAT---GAT
*
2540 GATGATGATGAT
1 GAAGATGATGAT
2552 GAAGATGATGAT
1 GAAGATGATGAT
2564 CCAAACAAGT
Statistics
Matches: 71, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
12 60 0.85
15 11 0.15
ACGTcount: A:0.36, C:0.07, G:0.34, T:0.22
Consensus pattern (12 bp):
GAAGATGATGAT
Found at i:2563 original size:18 final size:18
Alignment explanation
Indices: 2468--2562 Score: 82
Period size: 18 Copynumber: 5.3 Consensus size: 18
2458 GGTCGCAGAA
* * *
2468 GATGAAGCTGACGATGAA
1 GATGAAGATGATGATGAT
*
2486 GATGACGATGATGATGAT
1 GATGAAGATGATGATGAT
* * * **
2504 GATGACGATGAAGCTGGC
1 GATGAAGATGATGATGAT
*
2522 GATGAAGATGATGACGAT
1 GATGAAGATGATGATGAT
* *
2540 GATGATGATGATGAAGAT
1 GATGAAGATGATGATGAT
2558 GATGA
1 GATGA
2563 TCCAAACAAG
Statistics
Matches: 61, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 61 1.00
ACGTcount: A:0.36, C:0.07, G:0.35, T:0.22
Consensus pattern (18 bp):
GATGAAGATGATGATGAT
Found at i:4313 original size:182 final size:184
Alignment explanation
Indices: 3922--4770 Score: 1586
Period size: 182 Copynumber: 4.7 Consensus size: 184
3912 CTTTCAACAT
**
3922 ATTATAATAAAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
3987 GGTCTACAACCTATATCGACAC-TTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
*
4051 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
4105 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATA-CGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
4169 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
4234 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
4288 ATTATAATGTAATAGATAA-TTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
4352 GGTCTACAACCTATATCGACAC-TTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
4416 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
4470 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTAT-AA-ATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
4533 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
*
4598 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
* *
4652 ATTATAATGTAATAGAT-ATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
*
4716 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCATA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATA
4771 CCATTTAAAA
Statistics
Matches: 653, Mismatches: 7, Indels: 12
0.97 0.01 0.02
Matches are distributed among these distances:
181 65 0.10
182 297 0.45
183 291 0.45
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (184 bp):
ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
Found at i:4748 original size:365 final size:365
Alignment explanation
Indices: 3922--4770 Score: 1601
Period size: 365 Copynumber: 2.3 Consensus size: 365
3912 CTTTCAACAT
**
3922 ATTATAATAAAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGAT-ATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
3987 GGTCTACAACCTATATCGACACTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAA
65 GGTCTACAACCTATATCGACACTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAA
*
4052 ATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTAA
130 ATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTAA
4117 TAGATAATTTTGTAATATAACCGGTATAAATATACGGTCTTATGCGCGAATAGGTCTACAACCTA
195 TAGATAATTTTGTAATATAACCGGTATAAATATACGGTCTTATGCGCGAATAGGTCTACAACCTA
4182 TATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATAC
260 TATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATAC
4247 AATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
325 AATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
*
4288 ATTATAATGTAATAGATAATTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATAG
1 ATTATAATGTAATAGATATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATAG
4353 GTCTACAACCTATATCGACACTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAA
66 GTCTACAACCTATATCGACACTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAA
4418 TGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTAAT
131 TGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTAAT
*
4483 AGATAATTTTGTAATATAACCGGTATAAATA-CCGGTCTTATGCGCGAATAGGTCTACAACCTAT
196 AGATAATTTTGTAATATAACCGGTATAAATATACGGTCTTATGCGCGAATAGGTCTACAACCTAT
*
4547 ATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACG
261 ATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACA
4612 ATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
326 ATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
* *
4652 ATTATAATGTAATAGATATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAG
1 ATTATAATGTAATAGATATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATAG
4717 GTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCATA
66 GTCTACAACCTATATCGACACTTT-TAATATTGTGTCGGTACTTTATGTCCATA
4771 CCATTTAAAA
Statistics
Matches: 473, Mismatches: 9, Indels: 3
0.98 0.02 0.01
Matches are distributed among these distances:
364 222 0.47
365 236 0.50
366 15 0.03
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (365 bp):
ATTATAATGTAATAGATATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATAG
GTCTACAACCTATATCGACACTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAA
TGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTAAT
AGATAATTTTGTAATATAACCGGTATAAATATACGGTCTTATGCGCGAATAGGTCTACAACCTAT
ATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACA
ATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
Found at i:7352 original size:21 final size:23
Alignment explanation
Indices: 7321--7381 Score: 72
Period size: 21 Copynumber: 2.7 Consensus size: 23
7311 AATAGGTAAC
*
7321 ATATGATGTAATAGGTAGC-CCT
1 ATATAATGTAATAGGTAGCGCCT
* **
7343 -TATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCCT
7365 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
7382 ATGGTTATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 16 0.48
22 1 0.03
23 16 0.48
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCCT
Found at i:7389 original size:23 final size:23
Alignment explanation
Indices: 7343--7391 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
7333 AGGTAGCCCT
*
7343 TATAATGTAATAGGTATCGTTTA
1 TATAATGTAATAGGTATCGGTTA
7366 TATAATGTAATAGGTAAT-GGTTA
1 TATAATGTAATAGGT-ATCGGTTA
7389 TAT
1 TAT
7392 TGTAAAGTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 22 0.92
24 2 0.08
ACGTcount: A:0.37, C:0.02, G:0.18, T:0.43
Consensus pattern (23 bp):
TATAATGTAATAGGTATCGGTTA
Found at i:7395 original size:21 final size:21
Alignment explanation
Indices: 7327--7396 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
7317 TAACATATGA
* ** *
7327 TGTAATAGGTAGCCCTTATAA
1 TGTAATAGGTATCGGTTATAT
*
7348 TGTAATAGGTATCGTTTATAT
1 TGTAATAGGTATCGGTTATAT
7369 AATGTAATAGGTAAT-GGTTATAT
1 --TGTAATAGGT-ATCGGTTATAT
7392 TGTAA
1 TGTAA
7397 AGTGTCTATC
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
21 22 0.54
23 17 0.41
24 2 0.05
ACGTcount: A:0.34, C:0.06, G:0.20, T:0.40
Consensus pattern (21 bp):
TGTAATAGGTATCGGTTATAT
Found at i:7778 original size:23 final size:23
Alignment explanation
Indices: 7747--7809 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
7737 ATAGGTAAAC
*
7747 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
7770 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
7793 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
7810 ATGGTTATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:7817 original size:23 final size:23
Alignment explanation
Indices: 7747--7819 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
7737 ATAGGTAAAC
* * **
7747 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTATCGGTT
*
7770 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCGGTT
7793 ATATAATGTAATAGGTAAT-GGTT
1 ATATAATGTAATAGGT-ATCGGTT
7816 ATAT
1 ATAT
7820 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 42 0.95
24 2 0.05
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCGGTT
Found at i:8093 original size:430 final size:426
Alignment explanation
Indices: 7224--8237 Score: 1953
Period size: 430 Copynumber: 2.4 Consensus size: 426
7214 AATTCGCAGT
7224 ACACTGTTAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAA
1 ACACTGTTAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAA
7289 AAAGTATGGACACTTTCAATATAATAGGTAACATATGATGTAATAGGTAGCCC-T-TATAATGTA
66 AAAGTATGGACACTTTCAATATAATAGGTAACATATGATGTAATAGGTAGCCCTTATATAATGTA
7352 ATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTATAAA
131 ATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTATAAA
7417 AGTGTCCATACTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGA
196 AGTGTCCATACTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGA
7482 TATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTA
261 TATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTA
7547 AATTAAAAATTCTAAATAATATTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAAATGA
326 AATTAAAAATTCTAAATAATATTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAAATGA
7612 AATTATTAAATCAATATTGTAGGTGGAAAACATGAA
391 AATTATTAAATCAATATTGTAGGTGGAAAACATGAA
7648 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTT-AAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
7713 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
65 AAAAGTATGGACACTTTCAATATAATAGGT-AACATATGATGTAATAGGTAGCCCTTATATAATG
7778 TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
129 TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCC-TTTTAT
7843 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
193 AAAAGTGTCCATAC-TTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
7908 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
257 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
*
7973 ATTAAATTTAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
322 ATTAAATTAAAAATTCTAAATAATA-TTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
8038 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
386 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
8079 ACACTGTTAAAAAATTGAAACAT-AATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAA
1 ACACTGTTAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAA
8143 AAAGTATGGACACTTTCAATATAATAGGTAACATATGATGTAATAGGTAGCCCTTATATAATGTA
66 AAAGTATGGACACTTTCAATATAATAGGTAACATATGATGTAATAGGTAGCCCTTATATAATGTA
8208 ATAGGTATCGTTTATATAATGTAATAGGTA
131 ATAGGTATCGTTTATATAATGTAATAGGTA
8238 TCTATCTCGC
Statistics
Matches: 582, Mismatches: 1, Indels: 10
0.98 0.00 0.02
Matches are distributed among these distances:
424 8 0.01
425 86 0.15
426 24 0.04
427 1 0.00
428 131 0.23
429 90 0.15
430 154 0.26
431 88 0.15
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.38
Consensus pattern (426 bp):
ACACTGTTAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAA
AAAGTATGGACACTTTCAATATAATAGGTAACATATGATGTAATAGGTAGCCCTTATATAATGTA
ATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTATAAA
AGTGTCCATACTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGA
TATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTA
AATTAAAAATTCTAAATAATATTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAAATGA
AATTATTAAATCAATATTGTAGGTGGAAAACATGAA
Found at i:8238 original size:23 final size:23
Alignment explanation
Indices: 8175--8239 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
8165 AATAGGTAAC
* *
8175 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTATCCCTT
**
8198 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCCCTT
8221 ATATAATGTAATAGGTATC
1 ATATAATGTAATAGGTATC
8240 TATCTCGCAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCCCTT
Found at i:8464 original size:18 final size:18
Alignment explanation
Indices: 8443--8479 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
8433 GTAATTGGAG
8443 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
8461 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
8479 T
1 T
8480 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:8487 original size:24 final size:24
Alignment explanation
Indices: 8435--8481 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
8425 TTTCATATGT
* *
8435 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
8459 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
8482 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:15265 original size:13 final size:12
Alignment explanation
Indices: 15232--15282 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 12
15222 AATTGCTATT
15232 TAATTTAATTTTTA
1 TAATTTAA--TTTA
15246 TATATTTAATTTA
1 TA-ATTTAATTTA
15259 GTAATTTAA-TTA
1 -TAATTTAATTTA
15271 TAATTATAATTT
1 TAATT-TAATTT
15283 TATTTCATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
11 5 0.15
12 6 0.18
13 12 0.36
14 4 0.12
15 6 0.18
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (12 bp):
TAATTTAATTTA
Found at i:17339 original size:32 final size:31
Alignment explanation
Indices: 17296--17363 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
17286 GGCTTTAGAG
*
17296 AAGTTAAGAGTG-AATGTTATCCCCTATATGTA
1 AAGTTAAGAGTGAAAT-CTAT-CCCTATATGTA
*
17328 AAGTTAGGAGTGAAATCTATCCCTATATGTA
1 AAGTTAAGAGTGAAATCTATCCCTATATGTA
17359 AAGTT
1 AAGTT
17364 TTATTTGATG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
31 16 0.48
32 14 0.42
33 3 0.09
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.34
Consensus pattern (31 bp):
AAGTTAAGAGTGAAATCTATCCCTATATGTA
Found at i:20045 original size:71 final size:71
Alignment explanation
Indices: 19929--20070 Score: 230
Period size: 71 Copynumber: 2.0 Consensus size: 71
19919 ATACAATAAA
*
19929 GCTTGAGTTATCCCCTAAAGCAATTGGTTAATAGCCCCAGCTTTATGGATAATATTCAGCTAGCC
1 GCTTGAGTTACCCCCTAAAGCAATTGGTTAATAGCCCCAGCTTTATGGATAATATTCAGCTAGCC
19994 TGTTAT
66 TGTTAT
* * ** *
20000 GCTTGAGTTGCCCCCTAAAGCAATTGGTTAATCGCCCTGGCTTTATGGATAATATTCAGCTAGCT
1 GCTTGAGTTACCCCCTAAAGCAATTGGTTAATAGCCCCAGCTTTATGGATAATATTCAGCTAGCC
20065 TGTTAT
66 TGTTAT
20071 ACTATTATAT
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
71 65 1.00
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.35
Consensus pattern (71 bp):
GCTTGAGTTACCCCCTAAAGCAATTGGTTAATAGCCCCAGCTTTATGGATAATATTCAGCTAGCC
TGTTAT
Found at i:30209 original size:54 final size:54
Alignment explanation
Indices: 30122--30229 Score: 173
Period size: 54 Copynumber: 2.0 Consensus size: 54
30112 TGATTGAGAA
30122 ATCTAGGCAGAACCCACAAGAAAAGATGAATGTGTTGTCAAATGTTTTACGAAC
1 ATCTAGGCAGAACCCACAAGAAAAGATGAATGTGTTGTCAAATGTTTTACGAAC
* * *
30176 ATCTGGGCAGAAGCCACATG-AAAGAATGAATGTGTTGTCAAATGTTTTACGAAC
1 ATCTAGGCAGAACCCACAAGAAAAG-ATGAATGTGTTGTCAAATGTTTTACGAAC
30230 CAATGATTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
53 4 0.08
54 46 0.92
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (54 bp):
ATCTAGGCAGAACCCACAAGAAAAGATGAATGTGTTGTCAAATGTTTTACGAAC
Found at i:30621 original size:22 final size:22
Alignment explanation
Indices: 30596--30696 Score: 159
Period size: 22 Copynumber: 4.6 Consensus size: 22
30586 ACATCTATAT
*
30596 TCTTCAAAGATGATAGATT-TAT
1 TCTTCAAAGATGATAGATTCT-C
30618 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
30640 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
30662 TCTTCAAAGATGATAGATTCCC
1 TCTTCAAAGATGATAGATTCTC
*
30684 TTTTCAAAGATGA
1 TCTTCAAAGATGA
30697 AAGCTCTATT
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
22 74 0.99
23 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.37
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:31598 original size:37 final size:37
Alignment explanation
Indices: 31486--31671 Score: 141
Period size: 37 Copynumber: 5.1 Consensus size: 37
31476 TTTCTCGCTG
*
31486 GAGAAAGTTTCACTTGAAATATCAATTTATCTCACTT
1 GAGAAAGTTTCACTTGAAATAACAATTTATCTCACTT
** ** * *
31523 GAGATTGTTTTTCTT--AA-AACAAATTGTTTCTCGCTT
1 GAGAAAGTTTCACTTGAAATAAC-AATT-TATCTCACTT
31559 GAGAAAGTTTCACTTGAAATAACAATTTATCTCACTT
1 GAGAAAGTTTCACTTGAAATAACAATTTATCTCACTT
** * * * * *
31596 GAGATTGTTT-TCTTAAAACAA-AATGTT-TCTCGCTG
1 GAGAAAGTTTCACTTGAAATAACAAT-TTATCTCACTT
* * **
31631 GAGAAAATTTCACTCGAAATAGTAATTTATCTCACTT
1 GAGAAAGTTTCACTTGAAATAACAATTTATCTCACTT
31668 GAGA
1 GAGA
31672 TTGTTTTTCT
Statistics
Matches: 110, Mismatches: 30, Indels: 18
0.70 0.19 0.11
Matches are distributed among these distances:
34 2 0.02
35 22 0.20
36 37 0.34
37 40 0.36
38 6 0.05
39 3 0.03
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.38
Consensus pattern (37 bp):
GAGAAAGTTTCACTTGAAATAACAATTTATCTCACTT
Found at i:31650 original size:72 final size:73
Alignment explanation
Indices: 31429--31686 Score: 428
Period size: 73 Copynumber: 3.5 Consensus size: 73
31419 TGATGTTTTC
* *
31429 AAATAGCAATTTATCTCACTTGAGATTATTTTTCTTAAAACAAACTGTTTCTCGCTGGAGAAAGT
1 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATGTTTCTCGCTGGAGAAAGT
31494 TTCACTTG
66 TTCACTTG
* * *
31502 AAATATCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTGTTTCTCGCTTGAGAAAGT
1 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATGTTTCTCGCTGGAGAAAGT
31567 TTCACTTG
66 TTCACTTG
* *
31575 AAATAACAATTTATCTCACTTGAGATTG-TTTTCTTAAAACAAAATGTTTCTCGCTGGAGAAAAT
1 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATGTTTCTCGCTGGAGAAAGT
*
31639 TTCACTCG
66 TTCACTTG
*
31647 AAATAGTAATTTATCTCACTTGAGATTGTTTTTCTTAAAA
1 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAA
31687 TATTTCCAGA
Statistics
Matches: 173, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
72 66 0.38
73 107 0.62
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (73 bp):
AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATGTTTCTCGCTGGAGAAAGT
TTCACTTG
Found at i:31756 original size:39 final size:39
Alignment explanation
Indices: 31694--32224 Score: 742
Period size: 39 Copynumber: 13.7 Consensus size: 39
31684 AAATATTTCC
*
31694 AGAAGGAGTTCATAGTCTGAAGAACTCATATGAAGAGGA
1 AGAAGGAGTTCATAGTCTGAAGAACTCATCTGAAGAGGA
** * * *
31733 AGAACAAGTTCATAATCTAAAGAACTCTTCTGAAGAGGA
1 AGAAGGAGTTCATAGTCTGAAGAACTCATCTGAAGAGGA
* * *
31772 AGAAGGA-TTCATAATCTGAAGAACTCATTTGAAGAGCA
1 AGAAGGAGTTCATAGTCTGAAGAACTCATCTGAAGAGGA
** *
31810 AGAAGGAGTTCATAGT-TGAAGAACTTGTCTGAAGATGA
1 AGAAGGAGTTCATAGTCTGAAGAACTCATCTGAAGAGGA
*
31848 AGAAGGAGTTCATAGTCTGAAGAACTCATATGAAGAGGA
1 AGAAGGAGTTCATAGTCTGAAGAACTCATCTGAAGAGGA
* * *
31887 AGAAGGAGTTCATAATCTAAAGAACTCGTCTGAAGAGGA
1 AGAAGGAGTTCATAGTCTGAAGAACTCATCTGAAGAGGA
* * * *
31926 AGAATGAGTTCATAATATGAAGAACTCGTCTGAAGAGGA
1 AGAAGGAGTTCATAGTCTGAAGAACTCATCTGAAGAGGA
**
31965 AGAAGGAGTTCATAGTCTGAAGAACTTGTCTGAAGAGGA
1 AGAAGGAGTTCATAGTCTGAAGAACTCATCTGAAGAGGA
*
32004 AGAAGGAGTTCATAGTCTGAAGAACTCATATGAAGAGGA
1 AGAAGGAGTTCATAGTCTGAAGAACTCATCTGAAGAGGA
* * *
32043 AGAAGGAGTTCTTAATCTGAAGAACTCATCTAAAGAGGA
1 AGAAGGAGTTCATAGTCTGAAGAACTCATCTGAAGAGGA
*
32082 AGAAGGAGTTCATAGTCTGAAGAACTCGTCTGAAGAGGA
1 AGAAGGAGTTCATAGTCTGAAGAACTCATCTGAAGAGGA
*
32121 AGAAGGAGTTCATAGTCTGAAGAACTCATATGAAGAGGA
1 AGAAGGAGTTCATAGTCTGAAGAACTCATCTGAAGAGGA
** * *
32160 AGAATAAGTTCATAATCTGAAGAACTCATTTGAAGAGGA
1 AGAAGGAGTTCATAGTCTGAAGAACTCATCTGAAGAGGA
**
32199 AGAATAAGTTCATAGTCTGAAGAACT
1 AGAAGGAGTTCATAGTCTGAAGAACT
32225 TATTCAACCT
Statistics
Matches: 439, Mismatches: 51, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
38 67 0.15
39 372 0.85
ACGTcount: A:0.40, C:0.11, G:0.26, T:0.23
Consensus pattern (39 bp):
AGAAGGAGTTCATAGTCTGAAGAACTCATCTGAAGAGGA
Found at i:31831 original size:19 final size:19
Alignment explanation
Indices: 31809--31871 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
31799 TTTGAAGAGC
31809 AAGAAGGAGTTCATAGTTG
1 AAGAAGGAGTTCATAGTTG
*** * *
31828 AAGAACTTGTCTGA-AGATG
1 AAGAAGGAGT-TCATAGTTG
31847 AAGAAGGAGTTCATAGTCTG
1 AAGAAGGAGTTCATAGT-TG
31867 AAGAA
1 AAGAA
31872 CTCATATGAA
Statistics
Matches: 31, Mismatches: 10, Indels: 5
0.67 0.22 0.11
Matches are distributed among these distances:
18 2 0.06
19 20 0.65
20 9 0.29
ACGTcount: A:0.40, C:0.08, G:0.29, T:0.24
Consensus pattern (19 bp):
AAGAAGGAGTTCATAGTTG
Found at i:31988 original size:20 final size:20
Alignment explanation
Indices: 31963--32027 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
31953 GTCTGAAGAG
31963 GAAGAAGGAGTTCATAGTCT
1 GAAGAAGGAGTTCATAGTCT
*** * **
31983 GAAGAACTTGTCTGA-AG-AG
1 GAAGAAGGAGT-TCATAGTCT
32002 GAAGAAGGAGTTCATAGTCT
1 GAAGAAGGAGTTCATAGTCT
32022 GAAGAA
1 GAAGAA
32028 CTCATATGAA
Statistics
Matches: 30, Mismatches: 12, Indels: 6
0.62 0.25 0.12
Matches are distributed among these distances:
18 2 0.07
19 10 0.33
20 16 0.53
21 2 0.07
ACGTcount: A:0.38, C:0.09, G:0.31, T:0.22
Consensus pattern (20 bp):
GAAGAAGGAGTTCATAGTCT
Found at i:32105 original size:20 final size:20
Alignment explanation
Indices: 32080--32144 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
32070 ATCTAAAGAG
32080 GAAGAAGGAGTTCATAGTCT
1 GAAGAAGGAGTTCATAGTCT
*** * **
32100 GAAGAACTCGTCTGA-AG-AG
1 GAAGAAGGAGT-TCATAGTCT
32119 GAAGAAGGAGTTCATAGTCT
1 GAAGAAGGAGTTCATAGTCT
32139 GAAGAA
1 GAAGAA
32145 CTCATATGAA
Statistics
Matches: 30, Mismatches: 12, Indels: 6
0.62 0.25 0.12
Matches are distributed among these distances:
18 2 0.07
19 10 0.33
20 16 0.53
21 2 0.07
ACGTcount: A:0.38, C:0.11, G:0.31, T:0.20
Consensus pattern (20 bp):
GAAGAAGGAGTTCATAGTCT
Found at i:32222 original size:20 final size:20
Alignment explanation
Indices: 32158--32222 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
32148 ATATGAAGAG
*
32158 GAAGAATAAGTTCATAATCT
1 GAAGAATAAGTTCATAGTCT
* * * **
32178 GAAGAACTCATTTGA-AG-AG
1 GAAGAA-TAAGTTCATAGTCT
32197 GAAGAATAAGTTCATAGTCT
1 GAAGAATAAGTTCATAGTCT
32217 GAAGAA
1 GAAGAA
32223 CTTATTCAAC
Statistics
Matches: 31, Mismatches: 11, Indels: 6
0.65 0.23 0.12
Matches are distributed among these distances:
18 5 0.16
19 8 0.26
20 13 0.42
21 5 0.16
ACGTcount: A:0.45, C:0.09, G:0.22, T:0.25
Consensus pattern (20 bp):
GAAGAATAAGTTCATAGTCT
Found at i:33778 original size:23 final size:25
Alignment explanation
Indices: 33739--33786 Score: 73
Period size: 23 Copynumber: 2.0 Consensus size: 25
33729 ATATCCTACT
33739 TTTATAAATTATATATTT-ATTTTA
1 TTTATAAATTATATATTTAATTTTA
*
33763 TTTA-AAATTATTTATTTAATTTTA
1 TTTATAAATTATATATTTAATTTTA
33787 GGAAAATGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (25 bp):
TTTATAAATTATATATTTAATTTTA
Found at i:33792 original size:23 final size:23
Alignment explanation
Indices: 33744--33793 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
33734 CTACTTTTAT
**
33744 AAATTATATATTTATTTTATTTA
1 AAATTATATATTTATTTTATGGA
*
33767 AAATTATTTATTTAATTTTA-GGA
1 AAATTATATATTT-ATTTTATGGA
33790 AAAT
1 AAAT
33794 GTTTATTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (23 bp):
AAATTATATATTTATTTTATGGA
Found at i:34211 original size:24 final size:27
Alignment explanation
Indices: 34149--34211 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 27
34139 TTGCTATTTA
34149 ATTTTATTTATATATATATTAATTTAGT
1 ATTTTATTT-TATATATATTAATTTAGT
* * *
34177 AATTTA-ATTATA-AT-TTAATTT-TT
1 ATTTTATTTTATATATATTAATTTAGT
34200 ATTTTATTTTAT
1 ATTTTATTTTAT
34212 TCATATAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
23 6 0.21
24 11 0.38
25 2 0.07
26 4 0.14
27 1 0.03
28 5 0.17
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (27 bp):
ATTTTATTTTATATATATTAATTTAGT
Found at i:34363 original size:25 final size:26
Alignment explanation
Indices: 34335--34383 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
34325 CCTACTTTTA
*
34335 TAAATTA-TATATATTTTATTTTATT
1 TAAATTATTATATATTTAATTTTATT
*
34360 TAAATTATTATTTATTTAATTTTA
1 TAAATTATTATATATTTAATTTTA
34384 GGAAAATGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (26 bp):
TAAATTATTATATATTTAATTTTATT
Found at i:34475 original size:601 final size:583
Alignment explanation
Indices: 33445--34626 Score: 2159
Period size: 601 Copynumber: 2.0 Consensus size: 583
33435 GACTAATGTC
33445 AAATTACACTATTAGGATATATATTTCTTAATATTTCAAATTAGAATCTTTAATTTCAATACTTT
1 AAATTACACTATTAGGATATATATTTCTTAATATTTCAAATTAGAATCTTTAATTTCAATACTTT
33510 ATATTTTAATCCTGTAGTTTTAATTTTATTTTTGATCACTATTCAATGCTATTTAATTTATTTAT
66 ATATTTTAATCCTGTAGTTTTAATTTTATTTTTGATCACTATTCAATGCTATTTAATTTATTTAT
*
33575 ATATATATATAATTTAGTAATTTAATTATAATTTTATTTTTATTTTATTTATTCATATAAAATAT
131 ATATATATATAATTTAGTAATTTAATTATAATTTAATTTTTATTTTATTTATTCATATAAAATAT
33640 ATATTGAATAATAATATTTATTTTTTTTAATATTAAGAAAAAGGCTATCTAAAGTAACTAGTGTC
196 ATATTGAATAATAATATTTATTTTTTTTAATATTAAGAAAAAGGCTATCTAAAGTAACTAGTGTC
33705 ATTTCTGATATTTTTAATAAATAAATATCCTACTTTTATAAATTATATATTTATTTTATTTAAAA
261 ATTTCTGATATTTTTAATAAATAAATATCCTACTTTTATAAATTATATATTTATTTTATTTAAAA
33770 TTATTTATTTAATTTTAGGAAAATGTTTATTAATATTTATTATTTTTTAATTAAAAAAGGGGTTG
326 TTATTTATTTAATTTTAGGAAAATGTTTATTAATATTTATTATTTTTTAATTAAAAAAGGGGTTG
33835 TCTTAAAGTAACTGGATGTCCTTTTCTGATATTTTTATGTAAATAAATATCTTATTTATAAAAAT
391 TCTTAAAGTAACTGGATGTCCTTTTCTGATATTTTTATGTAAATAAATATCTTATTTATAAAAAT
*
33900 CTAAAAAAATATATATTTACTTTAGTTTTATAAACATTATTTTAATATATCTTTCTTTTAGAATT
456 CTAAAAAAATATATATTTACTTTAGTTTTATAAACATTAATTTAATATATCTTTCTTTTAGAATT
*
33965 ATTCGATTGAATCTGAAATAAGATGATCATAAATTAAATTTATATTTGAATTCTTGAATTCAT
521 ATTCGATTGAATCTGAAATAAGATGATCATAAATTAAATTTATATTTGAATTCTTAAATTCAT
34028 AAATTACACTATTAGGATATATATTTCTTAATATTTCAAATTAGAATCTTTAATTTCAATACTTT
1 AAATTACACTATTAGGATATATATTTCTTAATATTTCAAATTAGAATCTTTAATTTCAATACTTT
34093 ATATTTTAATCCTGTAGTTTTAATTTTATTTTTGATCACTATTCAATTGCTATTTAATTTTATTT
66 ATATTTTAATCCTGTAGTTTTAATTTTATTTTTGATCACTATTCAA-TGCTATTTAA-TTTATTT
34158 ATATATATAT-TAATTTAGTAATTTAATTATAATTTAATTTTTATTTTATTTTATTCATATAAAT
129 ATATATATATATAATTTAGTAATTTAATTATAATTTAATTTTTATTTTA-TTTATTCATATAAA-
34222 ATATATATTGAATAATAATATTTATTTATTTTTTAATATTAAGAAAAAGGCTATCTTAAAGTAAC
192 ATATATATTGAATAATAATATTTA-TT-TTTTTTAATATTAAGAAAAAGGCTATC-TAAAGTAAC
34287 TAGGTGTCATTTTCTGATATTTTTAAATAAATAAATATCCTACTTTTATAAATTATATATATTTT
254 TA-GTGTCA-TTTCTGATATTTTT-AATAAATAAATATCCTACTTTTATAAA-T-TATATA-TTT
34352 ATTTTATTTAAATTATTATTTATTTAATTTTAGGAAAATGTTTTATTAATATTTATTTATTTTTT
313 ATTTTATTTAAA--ATTATTTATTTAATTTTAGGAAAATG-TTTATTAATATTTA-TTATTTTTT
34417 AATATTAAAAAAGGGGTTGTCTTAAAGTAACTGGATGTCCTTTTCTGATATTTTTATGTAAATAA
374 -A-ATTAAAAAAGGGGTTGTCTTAAAGTAACTGGATGTCCTTTTCTGATATTTTTATGTAAATAA
34482 ATATCTTATTTATAAAAATCTAAAAAAATATATATTTACTTTAGTTTTATAAACATTAATTTAAT
437 ATATCTTATTTATAAAAATCTAAAAAAATATATATTTACTTTAGTTTTATAAACATTAATTTAAT
34547 ATATCTTTCTTTTAGAATTATTCGATTGAATCTGAAATAAGATGATCATAAATTAAATTTATATT
502 ATATCTTTCTTTTAGAATTATTCGATTGAATCTGAAATAAGATGATCATAAATTAAATTTATATT
34612 TGAATTCTTAAATTC
567 TGAATTCTTAAATTC
34627 TATTATTAGA
Statistics
Matches: 577, Mismatches: 3, Indels: 20
0.96 0.00 0.03
Matches are distributed among these distances:
583 111 0.19
584 47 0.08
585 31 0.05
586 24 0.04
587 2 0.00
588 27 0.05
589 11 0.02
590 6 0.01
591 14 0.02
592 27 0.05
593 1 0.00
594 6 0.01
595 15 0.03
597 26 0.05
598 14 0.02
599 9 0.02
600 1 0.00
601 205 0.36
ACGTcount: A:0.37, C:0.06, G:0.07, T:0.50
Consensus pattern (583 bp):
AAATTACACTATTAGGATATATATTTCTTAATATTTCAAATTAGAATCTTTAATTTCAATACTTT
ATATTTTAATCCTGTAGTTTTAATTTTATTTTTGATCACTATTCAATGCTATTTAATTTATTTAT
ATATATATATAATTTAGTAATTTAATTATAATTTAATTTTTATTTTATTTATTCATATAAAATAT
ATATTGAATAATAATATTTATTTTTTTTAATATTAAGAAAAAGGCTATCTAAAGTAACTAGTGTC
ATTTCTGATATTTTTAATAAATAAATATCCTACTTTTATAAATTATATATTTATTTTATTTAAAA
TTATTTATTTAATTTTAGGAAAATGTTTATTAATATTTATTATTTTTTAATTAAAAAAGGGGTTG
TCTTAAAGTAACTGGATGTCCTTTTCTGATATTTTTATGTAAATAAATATCTTATTTATAAAAAT
CTAAAAAAATATATATTTACTTTAGTTTTATAAACATTAATTTAATATATCTTTCTTTTAGAATT
ATTCGATTGAATCTGAAATAAGATGATCATAAATTAAATTTATATTTGAATTCTTAAATTCAT
Found at i:38417 original size:17 final size:20
Alignment explanation
Indices: 38394--38437 Score: 67
Period size: 17 Copynumber: 2.4 Consensus size: 20
38384 CCTCTTTCTT
38394 TAATATTAA-AAA-TAAATA
1 TAATATTAATAAATTAAATA
38412 -AATATTAATAAATTAAATA
1 TAATATTAATAAATTAAATA
38431 TAATATT
1 TAATATT
38438 TTATTTAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 8 0.35
18 3 0.13
19 6 0.26
20 6 0.26
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
TAATATTAATAAATTAAATA
Found at i:39525 original size:20 final size:20
Alignment explanation
Indices: 39502--39563 Score: 58
Period size: 20 Copynumber: 3.1 Consensus size: 20
39492 GTTGAACAAG
39502 TTCTTCTCATTATGAACTTC
1 TTCTTCTCATTATGAACTTC
* **
39522 TTCTTCTTC-TT-TGGGACTAG
1 TTCTTC-TCATTAT-GAACTTC
39542 TTCTTCTCATTATGAAC-TC
1 TTCTTCTCATTATGAACTTC
39561 TTC
1 TTC
39564 CACTGGGAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 9
0.68 0.13 0.19
Matches are distributed among these distances:
19 6 0.19
20 23 0.72
21 3 0.09
ACGTcount: A:0.16, C:0.24, G:0.10, T:0.50
Consensus pattern (20 bp):
TTCTTCTCATTATGAACTTC
Found at i:39917 original size:139 final size:134
Alignment explanation
Indices: 39609--40084 Score: 427
Period size: 139 Copynumber: 3.6 Consensus size: 134
39599 AATCTAGCAA
*
39609 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTATTCCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* * * *
39674 GAACTCCTTTTGCAAATACTTTCCCTCAAAAGAGGTGTTGACTAAACTCCATATGTGATGAATTA
66 GAACTCCTTCTGAAAATACTTTCCCTCAAAAGAGGTGTTCACTAAACTCCATATGTGATGAATCA
39739 AGAC
131 AGAC
* * *
39743 AAGGTTGAATAAGTTCTTCTCATAATGAACTTCTTCTTCCTTTTCAGAT-AGGTTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGA-GTTCTTCTCATTA
** * * *
39807 TGAACATCC-TCTGAAAATA-TTGAT-CCTCAAGTGAGGTTCTTCTTTCATTCAACTCCATA-GA
65 TGAAC-TCCTTCTGAAAATACTT--TCCCTCAAAAGAGG----T-GTTCACTAAACTCCATATG-
39868 TGATGAATCAAG-C
121 TGATGAATCAAGAC
* *
39881 TAAGGTCGAACAAGTTCTTCTCATTTTGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTA
1 -AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTA
* * * * * * * * * *
39946 TGAAC-CCTTCTG-GAA-A-TGT---T----GGTGGTGAT--CT-ATCTTCTTCTGTGATAGAGT
65 TGAACTCCTTCTGAAAATACTTTCCCTCAAAAGAGGTGTTCACTAAACTCCATATGTGAT-GAAT
* *
39997 CGAGCAA
129 CAAG-AC
*
40004 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCCTCCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
*
40069 GAACTCC-TCTGGAAAT
66 GAACTCCTTCTGAAAAT
40085 GTTGATGCTG
Statistics
Matches: 286, Mismatches: 36, Indels: 50
0.77 0.10 0.13
Matches are distributed among these distances:
120 9 0.03
121 8 0.03
122 70 0.24
123 5 0.02
124 1 0.00
128 3 0.01
132 1 0.00
133 3 0.01
134 82 0.29
135 4 0.01
136 2 0.01
137 4 0.01
138 7 0.02
139 86 0.30
140 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (134 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
GAACTCCTTCTGAAAATACTTTCCCTCAAAAGAGGTGTTCACTAAACTCCATATGTGATGAATCA
AGAC
Found at i:40099 original size:122 final size:123
Alignment explanation
Indices: 39882--40196 Score: 517
Period size: 122 Copynumber: 2.6 Consensus size: 123
39872 GAATCAAGCT
* *
39882 AAGGTCGAACAAGTTCTTCTCATTTTGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* * * *
39947 GAAC-CCTTCTGGAAATGTTGGTGGTGATCTATCTTCTTCTGTGATAGAGTCGAGCAA
66 GAACTCCTTCTGGAAATGTTGATGCTGATCTATCTCCATCTGTGATAGAGTCGAGCAA
*
40004 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCCTCCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
40069 GAACTCC-TCTGGAAATGTTGATGCTGATCTATCTCCATCTGTGATAGAGTCGAGCAA
66 GAACTCCTTCTGGAAATGTTGATGCTGATCTATCTCCATCTGTGATAGAGTCGAGCAA
* * **
40126 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTTTTCCTCTTCAGATGAGTTATTCAGATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
40191 GAACTC
66 GAACTC
40197 ATTTTTCCTC
Statistics
Matches: 180, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
122 178 0.99
123 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (123 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
GAACTCCTTCTGGAAATGTTGATGCTGATCTATCTCCATCTGTGATAGAGTCGAGCAA
Found at i:40202 original size:39 final size:39
Alignment explanation
Indices: 40137--40436 Score: 438
Period size: 39 Copynumber: 7.7 Consensus size: 39
40127 AGGTTGAACA
** *
40137 AGTTCTTCTCATTATGAACTTCTTTTTCCTCTTCAGATG
1 AGTTCTTCAGATTATGAACTCCTTTTTCCTCTTCAGATG
* *
40176 AGTTATTCAGATTATGAACTCATTTTTCCTCTTCAGATG
1 AGTTCTTCAGATTATGAACTCCTTTTTCCTCTTCAGATG
* * *
40215 AGTTCTTCAAATTATGAACTCCTTTTTTCTCTTCAGACG
1 AGTTCTTCAGATTATGAACTCCTTTTTCCTCTTCAGATG
* *
40254 AGTTCTTCAGATTATGAACTTCTTTTTCCTCTTCAGACG
1 AGTTCTTCAGATTATGAACTCCTTTTTCCTCTTCAGATG
* * *
40293 AGTTCTTCAAATTATGAACTCATTCTTCCTCTTCAGATG
1 AGTTCTTCAGATTATGAACTCCTTTTTCCTCTTCAGATG
** * *
40332 AGTTCTTCAGATTATGAACTCCTTTTTTTTTCTTCAAACG
1 AGTTCTTCAGATTATGAACTCC-TTTTTCCTCTTCAGATG
40372 AGTTCTTCAGATTATGAACTCCTTTTTCCTCTTCAGATG
1 AGTTCTTCAGATTATGAACTCCTTTTTCCTCTTCAGATG
40411 AGTTCTTCAGATTATGAACTCCTTTT
1 AGTTCTTCAGATTATGAACTCCTTTT
40437 GGAAATGTTT
Statistics
Matches: 231, Mismatches: 29, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
39 197 0.85
40 34 0.15
ACGTcount: A:0.22, C:0.22, G:0.11, T:0.45
Consensus pattern (39 bp):
AGTTCTTCAGATTATGAACTCCTTTTTCCTCTTCAGATG
Found at i:40283 original size:117 final size:118
Alignment explanation
Indices: 40137--40436 Score: 494
Period size: 117 Copynumber: 2.6 Consensus size: 118
40127 AGGTTGAACA
** *
40137 AGTTCTTCTCATTATGAACTTCTTTTTCCTCTTCAGATGAGTTATTCAGATTATGAACTCATTTT
1 AGTTCTTCAGATTATGAACTTCTTTTTCCTCTTCAGATGAGTTCTTCAGATTATGAACTCATTTT
*
40202 TCCTCTTCAGATGAGTTCTTCAAATTATGAACTCC-TTTTTTCTCTTCAGACG
66 TCCTCTTCAGATGAGTTCTTCAAATTATGAACTCCTTTTTTTCTCTTCAAACG
* * *
40254 AGTTCTTCAGATTATGAACTTCTTTTTCCTCTTCAGACGAGTTCTTCAAATTATGAACTCATTCT
1 AGTTCTTCAGATTATGAACTTCTTTTTCCTCTTCAGATGAGTTCTTCAGATTATGAACTCATTTT
* *
40319 TCCTCTTCAGATGAGTTCTTCAGATTATGAACTCCTTTTTTTTTCTTCAAACG
66 TCCTCTTCAGATGAGTTCTTCAAATTATGAACTCCTTTTTTTCTCTTCAAACG
* *
40372 AGTTCTTCAGATTATGAACTCCTTTTTCCTCTTCAGATGAGTTCTTCAGATTATGAACTCCTTTT
1 AGTTCTTCAGATTATGAACTTCTTTTTCCTCTTCAGATGAGTTCTTCAGATTATGAACTCATTTT
40437 GGAAATGTTT
Statistics
Matches: 168, Mismatches: 14, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
117 93 0.55
118 75 0.45
ACGTcount: A:0.22, C:0.22, G:0.11, T:0.45
Consensus pattern (118 bp):
AGTTCTTCAGATTATGAACTTCTTTTTCCTCTTCAGATGAGTTCTTCAGATTATGAACTCATTTT
TCCTCTTCAGATGAGTTCTTCAAATTATGAACTCCTTTTTTTCTCTTCAAACG
Found at i:40742 original size:45 final size:45
Alignment explanation
Indices: 40485--40735 Score: 351
Period size: 45 Copynumber: 5.5 Consensus size: 45
40475 TTGCTATTTC
40485 AAAACAT-CTGGCACTGAAGGTCTTATGGATGACCCGAAGGCTTTTTG
1 AAAACATCCT-GCACTGAAGGTCTTATGGATGACCCGAAGG--TTTTG
* *
40532 AAAACATCCTGTACTGTAGGTCTTATGGATGACCCGAAGGTTTTG
1 AAAACATCCTGCACTGAAGGTCTTATGGATGACCCGAAGGTTTTG
* *
40577 AAAACATCCTGCACTGTAGGTCTTATGGATAACCCGAAGGTTTTG
1 AAAACATCCTGCACTGAAGGTCTTATGGATGACCCGAAGGTTTTG
* *
40622 AAAACATCATGCACTGTAGGTCTTATGGATGACCCGAAGGTTTTG
1 AAAACATCCTGCACTGAAGGTCTTATGGATGACCCGAAGGTTTTG
* * ** *
40667 AAAACATTCTACACTGAAGGTCTTACAGATGACTCGAAGGTTTTG
1 AAAACATCCTGCACTGAAGGTCTTATGGATGACCCGAAGGTTTTG
**
40712 AAAACATTATGCACTGAAGGTCTT
1 AAAACATCCTGCACTGAAGGTCTT
40736 GCAGATGCAG
Statistics
Matches: 188, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
45 151 0.80
47 35 0.19
48 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (45 bp):
AAAACATCCTGCACTGAAGGTCTTATGGATGACCCGAAGGTTTTG
Found at i:41461 original size:22 final size:22
Alignment explanation
Indices: 41403--41461 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
41393 AATAAAGCTT
* *
41403 TCATCTTTGAA-AAGAGAATCTA
1 TCATCTTTGAAGAATA-TATCTA
41425 TCATCTTTGAAGAATATATCTA
1 TCATCTTTGAAGAATATATCTA
*
41447 TTATCTTTGAAGAAT
1 TCATCTTTGAAGAAT
41462 GTAGATGTAG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
22 30 0.91
23 3 0.09
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (22 bp):
TCATCTTTGAAGAATATATCTA
Found at i:42045 original size:54 final size:54
Alignment explanation
Indices: 41826--42046 Score: 343
Period size: 54 Copynumber: 4.1 Consensus size: 54
41816 ATAATCACTG
* * * *
41826 GTTCATAAAACATTTGACAACACATTCATCCTTTCATGTGGCTTCTGCCTAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTACCCAGAT
* * *
41880 GTTTGTAAAACATTTGATAACACATTCATCCTTTCCTGTGGCTTCTGCCCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTACCCAGAT
* *
41934 GTTCTTAAATCATTTGACAACACATTCATCCTTTCCTGTGGCTTCTACCCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTACCCAGAT
* *
41988 GTTCGTAAATCATTTGACAACATATTCATCCTTTCCTGTGGCTTCTACCCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTACCCAGAT
42042 GTTCG
1 GTTCG
42047 CCAGTGAAGC
Statistics
Matches: 155, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 155 1.00
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (54 bp):
GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTACCCAGAT
Found at i:42799 original size:42 final size:42
Alignment explanation
Indices: 42711--42807 Score: 124
Period size: 42 Copynumber: 2.3 Consensus size: 42
42701 GTTGTGAGCC
* * *
42711 TTCAAAATGTCCCATATGGACCATTTCTGTCTAAAACGGGCC
1 TTCAAAATGTCCCACATGGACCATTTCTGTCTAAAACAGGCA
* * **
42753 TTCAAAATGTCCCACATGGACCATTTCTGTTTGAATTAGGCA
1 TTCAAAATGTCCCACATGGACCATTTCTGTCTAAAACAGGCA
42795 TTCAAAATG-CCCA
1 TTCAAAATGTCCCA
42808 ACATTTTAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 4 0.08
42 44 0.92
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (42 bp):
TTCAAAATGTCCCACATGGACCATTTCTGTCTAAAACAGGCA
Found at i:44752 original size:70 final size:71
Alignment explanation
Indices: 44643--44774 Score: 223
Period size: 70 Copynumber: 1.9 Consensus size: 71
44633 TGTAACATGC
44643 TAGCTGAATATTATCATAAAGCCGGGGCGATTAACCAATTGCTTTAGGGGGA-AACTCAAGCATA
1 TAGCTGAATATTATCATAAAGCCGGGGCGATTAACCAATTGCTTTAGGGGGATAACTCAAGCATA
44707 ACAAGT
66 ACAAGT
* *
44713 TAGCTGAATATTATCCATAAAGTCGGGGCTATTAA-CAATTGCTTTAGGGGGATAACTCAAGC
1 TAGCTGAATATTAT-CATAAAGCCGGGGCGATTAACCAATTGCTTTAGGGGGATAACTCAAGC
44775 TTTATTGTAG
Statistics
Matches: 58, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
70 31 0.53
71 27 0.47
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.27
Consensus pattern (71 bp):
TAGCTGAATATTATCATAAAGCCGGGGCGATTAACCAATTGCTTTAGGGGGATAACTCAAGCATA
ACAAGT
Found at i:44823 original size:3 final size:3
Alignment explanation
Indices: 44815--44872 Score: 84
Period size: 3 Copynumber: 20.0 Consensus size: 3
44805 TCTTTTTTAT
* *
44815 TTA TTA TTA TTA TTA TTA TTA -TA TTA CTA TTA TTA -TA TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
44861 TTA TTA TTA TTA
1 TTA TTA TTA TTA
44873 CTAAATAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
2 4 0.08
3 45 0.92
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:44845 original size:14 final size:15
Alignment explanation
Indices: 44815--44869 Score: 87
Period size: 14 Copynumber: 3.8 Consensus size: 15
44805 TCTTTTTTAT
*
44815 TTATTATTATTATTA
1 TTATTATTATTACTA
44830 TTATTA-TATTACTA
1 TTATTATTATTACTA
44844 TTATTA-TATTACTA
1 TTATTATTATTACTA
44858 TTATTATTATTA
1 TTATTATTATTA
44870 TTACTAAATA
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
14 27 0.71
15 11 0.29
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (15 bp):
TTATTATTATTACTA
Found at i:46050 original size:26 final size:26
Alignment explanation
Indices: 46007--46068 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 26
45997 CCCTTAGGCT
*
46007 TTAATAATTAATATTTAAAT-CATTAA
1 TTAATAATTAATAGTTAAATGCATT-A
*
46033 TTAATAATTAA-AGGTTAATTGCATTA
1 TTAATAATTAATA-GTTAAATGCATTA
*
46059 TTAGTAATTA
1 TTAATAATTA
46069 TATTTTATGA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
25 1 0.03
26 26 0.84
27 4 0.13
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (26 bp):
TTAATAATTAATAGTTAAATGCATTA
Found at i:47730 original size:4 final size:4
Alignment explanation
Indices: 47692--47718 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
47682 TACTAACTAT
47692 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
47719 TTAAATTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:48511 original size:42 final size:43
Alignment explanation
Indices: 48429--48513 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
48419 TGTCTTTAGA
*
48429 GAAGTTAGGAGTGAAAGTTATCTCCTATATGTAAAGTTTTGTT
1 GAAGTTAGGAGTGAAAGTTATCTCCTATATATAAAGTTTTGTT
*
48472 GAAGTTAGGAGTGAAAGTTATC-CCTATATATAATGTTTTGTT
1 GAAGTTAGGAGTGAAAGTTATCTCCTATATATAAAGTTTTGTT
48514 TGATGTACCA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
42 18 0.45
43 22 0.55
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.40
Consensus pattern (43 bp):
GAAGTTAGGAGTGAAAGTTATCTCCTATATATAAAGTTTTGTT
Found at i:48648 original size:20 final size:19
Alignment explanation
Indices: 48627--48674 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
48617 ACATCCACAT
48627 TTTTGCATTTGCATTTACA
1 TTTTGCATTTGCATTTACA
*
48646 -TTTGCATCTTTGCATTTTCA
1 TTTTGCA--TTTGCATTTACA
48666 TTTTGCATT
1 TTTTGCATT
48675 CATACTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 6 0.24
19 2 0.08
20 11 0.44
21 6 0.24
ACGTcount: A:0.17, C:0.17, G:0.10, T:0.56
Consensus pattern (19 bp):
TTTTGCATTTGCATTTACA
Found at i:48659 original size:8 final size:7
Alignment explanation
Indices: 48627--48674 Score: 50
Period size: 6 Copynumber: 7.3 Consensus size: 7
48617 ACATCCACAT
48627 TTTTGCA
1 TTTTGCA
48634 -TTTGCA
1 TTTTGCA
*
48640 -TTTACA
1 TTTTGCA
48646 -TTTGCA
1 TTTTGCA
48652 TCTTTGCA
1 T-TTTGCA
48660 TTTT-CA
1 TTTTGCA
48666 TTTTGCA
1 TTTTGCA
48673 TT
1 TT
48675 CATACTTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
6 22 0.61
7 7 0.19
8 7 0.19
ACGTcount: A:0.17, C:0.17, G:0.10, T:0.56
Consensus pattern (7 bp):
TTTTGCA
Found at i:51506 original size:18 final size:18
Alignment explanation
Indices: 51483--51547 Score: 55
Period size: 20 Copynumber: 3.6 Consensus size: 18
51473 CATTCACCAT
51483 AAAAGAAAAAAGAGATGA
1 AAAAGAAAAAAGAGATGA
*
51501 AAAAG--AGAAGAGA-GA
1 AAAAGAAAAAAGAGATGA
* *
51516 AAAACAAAAAAAGAAAATGA
1 AAAA-GAAAAAAG-AGATGA
51536 AAGAAGAAAAAA
1 AA-AAGAAAAAA
51548 AATTGAATCA
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
15 6 0.17
16 7 0.19
18 9 0.25
19 2 0.06
20 10 0.28
21 2 0.06
ACGTcount: A:0.75, C:0.02, G:0.20, T:0.03
Consensus pattern (18 bp):
AAAAGAAAAAAGAGATGA
Found at i:53084 original size:39 final size:37
Alignment explanation
Indices: 52993--53085 Score: 100
Period size: 39 Copynumber: 2.5 Consensus size: 37
52983 AAAATGTTGA
* * *
52993 GGCATTTTAAAAGC-CACTTCAGACAAATCCATGTGG
1 GGCATTTTAAAAGCTCACGTCAGAAAAAACCATGTGG
* *
53029 GGCATTTTGAAGGCTCACGTCAGTATGAAAAACCAT-TGG
1 GGCATTTTAAAAGCTCACGTCAG-A--AAAAACCATGTGG
53068 GGCATTTTAAAAGCTCAC
1 GGCATTTTAAAAGCTCAC
53086 ATCAATAAGA
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
36 12 0.26
37 7 0.15
38 1 0.02
39 19 0.41
40 7 0.15
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (37 bp):
GGCATTTTAAAAGCTCACGTCAGAAAAAACCATGTGG
Found at i:53188 original size:75 final size:75
Alignment explanation
Indices: 53096--53566 Score: 655
Period size: 75 Copynumber: 6.3 Consensus size: 75
53086 ATCAATAAGA
* * * *
53096 AGCAAATGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAAAT-ATGAATGTTGACGCATTTTGG
1 AGCAAATGTTGGGGCATGCTGAAAGCCCATTTCAATCAG-AATCAAGAATGTTGATGCGTTTTGA
*
53160 ATGTTTGTATC
65 ACGTTTGTATC
* * * *
53171 AGCAAATGTTGGGGCATGCTGGAAG-CCATTTTAATCAGAATCAGGAATGTTGATGTGTTTTGAA
1 AGCAAATGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAATCAAGAATGTTGATGCGTTTTGAA
53235 CGTTTGTATC
66 CGTTTGTATC
* * * **
53245 AGTAAATGTTGGGGCATGCTGAAATCCCATTTCAATTAGAATCAAGAATGTTGATATGTTTTGAA
1 AGCAAATGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAATCAAGAATGTTGATGCGTTTTGAA
53310 CGTTTGTATC
66 CGTTTGTATC
* * ** *
53320 AGCAAATATTGGGGCATGCTGAAAGCCCATTTCAATCAGAAAT-ATGAATGTTGACACATTTTGA
1 AGCAAATGTTGGGGCATGCTGAAAGCCCATTTCAATCAG-AATCAAGAATGTTGATGCGTTTTGA
53384 ACGTTTGTATC
65 ACGTTTGTATC
* * *
53395 AGCAAATGTTGGAGCATGCTGAAAGCCCATTTCAATCAGAAAT-AGGAATGTTGATGTGTTTTGA
1 AGCAAATGTTGGGGCATGCTGAAAGCCCATTTCAATCAG-AATCAAGAATGTTGATGCGTTTTGA
53459 ACGTTTGTATC
65 ACGTTTGTATC
* *
53470 AGCAAATGATGGGGCATGCTGAAAGCCCATTTTAATCAGAATCAAGAATGTTGATGCGTTTTGAA
1 AGCAAATGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAATCAAGAATGTTGATGCGTTTTGAA
*
53535 CATTTGTATC
66 CGTTTGTATC
53545 AGCAAATGTT-GGGCATGCTGAA
1 AGCAAATGTTGGGGCATGCTGAA
53567 GGCTCATATC
Statistics
Matches: 355, Mismatches: 37, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
73 3 0.01
74 75 0.21
75 274 0.77
76 3 0.01
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.32
Consensus pattern (75 bp):
AGCAAATGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAATCAAGAATGTTGATGCGTTTTGAA
CGTTTGTATC
Found at i:53534 original size:225 final size:224
Alignment explanation
Indices: 53096--53566 Score: 775
Period size: 225 Copynumber: 2.1 Consensus size: 224
53086 ATCAATAAGA
* *
53096 AGCAAATGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAAATATGAATGTTGACGCATTTTGGA
1 AGCAAATGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAAATATGAATGTTGACACATTTTGAA
* * * *
53161 TGTTTGTATCAGCAAATGTTGGGGCATGCTGGAAGCCATTTTAATCAGAATCAGGAATGTTGATG
66 CGTTTGTATCAGCAAATGTTGGAGCATGCTGAAAGCCATTTCAATCAGAATCAGGAATGTTGATG
* * * *
53226 TGTTTTGAACGTTTGTATCAGTAAATGTTGGGGCATGCTGAAATCCCATTTCAATTAGAATCAAG
131 TGTTTTGAACGTTTGTATCAGCAAATGATGGGGCATGCTGAAAGCCCATTTCAATCAGAATCAAG
* *
53291 AATGTTGATATGTTTTGAACGTTTGTATC
196 AATGTTGATACGTTTTGAACATTTGTATC
*
53320 AGCAAATATTGGGGCATGCTGAAAGCCCATTTCAATCAGAAATATGAATGTTGACACATTTTGAA
1 AGCAAATGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAAATATGAATGTTGACACATTTTGAA
53385 CGTTTGTATCAGCAAATGTTGGAGCATGCTGAAAGCCCATTTCAATCAGAAAT-AGGAATGTTGA
66 CGTTTGTATCAGCAAATGTTGGAGCATGCTGAAAG-CCATTTCAATCAG-AATCAGGAATGTTGA
*
53449 TGTGTTTTGAACGTTTGTATCAGCAAATGATGGGGCATGCTGAAAGCCCATTTTAATCAGAATCA
129 TGTGTTTTGAACGTTTGTATCAGCAAATGATGGGGCATGCTGAAAGCCCATTTCAATCAGAATCA
*
53514 AGAATGTTGATGCGTTTTGAACATTTGTATC
194 AGAATGTTGATACGTTTTGAACATTTGTATC
53545 AGCAAATGTT-GGGCATGCTGAA
1 AGCAAATGTTGGGGCATGCTGAA
53567 GGCTCATATC
Statistics
Matches: 229, Mismatches: 16, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
224 106 0.46
225 120 0.52
226 3 0.01
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.32
Consensus pattern (224 bp):
AGCAAATGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAAATATGAATGTTGACACATTTTGAA
CGTTTGTATCAGCAAATGTTGGAGCATGCTGAAAGCCATTTCAATCAGAATCAGGAATGTTGATG
TGTTTTGAACGTTTGTATCAGCAAATGATGGGGCATGCTGAAAGCCCATTTCAATCAGAATCAAG
AATGTTGATACGTTTTGAACATTTGTATC
Found at i:54532 original size:54 final size:54
Alignment explanation
Indices: 54450--54645 Score: 266
Period size: 54 Copynumber: 3.6 Consensus size: 54
54440 AAATCTAGGT
** * *
54450 AGAAGCCACAATAAAGGATGAATATGTTGTCAAACGCTTTACGAACATCTGGGC
1 AGAAGCCACAGGAAATGATGAATGTGTTGTCAAACGCTTTACGAACATCTGGGC
* * * * *
54504 AGAAGCAACGGGAAATGATGAATGTGTTGTCAAATGTTTTACGAACATTTGGGC
1 AGAAGCCACAGGAAATGATGAATGTGTTGTCAAACGCTTTACGAACATCTGGGC
* * *
54558 AGAAGCCACAAGAAAGGATGAATGTGTTGTCAAACACTTTACGAACATCTGGGC
1 AGAAGCCACAGGAAATGATGAATGTGTTGTCAAACGCTTTACGAACATCTGGGC
* *
54612 AGAAACCACAGGAAATGATGAATGTATTGTCAAA
1 AGAAGCCACAGGAAATGATGAATGTGTTGTCAAA
54646 TGTTTTATGA
Statistics
Matches: 121, Mismatches: 21, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 121 1.00
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (54 bp):
AGAAGCCACAGGAAATGATGAATGTGTTGTCAAACGCTTTACGAACATCTGGGC
Found at i:54642 original size:108 final size:108
Alignment explanation
Indices: 54450--54652 Score: 343
Period size: 108 Copynumber: 1.9 Consensus size: 108
54440 AAATCTAGGT
* * * *
54450 AGAAGCCACAATAAAGGATGAATATGTTGTCAAACGCTTTACGAACATCTGGGCAGAAGCAACGG
1 AGAAGCCACAAGAAAGGATGAATATGTTGTCAAACACTTTACGAACATCTGGGCAGAAACAACAG
*
54515 GAAATGATGAATGTGTTGTCAAATGTTTTACGAACATTTGGGC
66 GAAATGATGAATGTATTGTCAAATGTTTTACGAACATTTGGGC
* *
54558 AGAAGCCACAAGAAAGGATGAATGTGTTGTCAAACACTTTACGAACATCTGGGCAGAAACCACAG
1 AGAAGCCACAAGAAAGGATGAATATGTTGTCAAACACTTTACGAACATCTGGGCAGAAACAACAG
54623 GAAATGATGAATGTATTGTCAAATGTTTTA
66 GAAATGATGAATGTATTGTCAAATGTTTTA
54653 TGAGCCAGTG
Statistics
Matches: 88, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
108 88 1.00
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.25
Consensus pattern (108 bp):
AGAAGCCACAAGAAAGGATGAATATGTTGTCAAACACTTTACGAACATCTGGGCAGAAACAACAG
GAAATGATGAATGTATTGTCAAATGTTTTACGAACATTTGGGC
Found at i:55048 original size:22 final size:22
Alignment explanation
Indices: 55022--55101 Score: 108
Period size: 22 Copynumber: 3.6 Consensus size: 22
55012 TACATCTATA
*
55022 TTCTTCAAAGATAATAGATT-T
1 TTCTTCAAAGATGATAGATTCT
*
55043 ATTCTTCAAAGATGATAAATTCT
1 -TTCTTCAAAGATGATAGATTCT
*
55066 CTCTTCAAAGATGATAGATTCT
1 TTCTTCAAAGATGATAGATTCT
*
55088 TTTTTCAAAGATGA
1 TTCTTCAAAGATGA
55102 AAGCTTTATT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
22 50 0.98
23 1 0.02
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.40
Consensus pattern (22 bp):
TTCTTCAAAGATGATAGATTCT
Found at i:56018 original size:72 final size:73
Alignment explanation
Indices: 55797--56056 Score: 389
Period size: 73 Copynumber: 3.6 Consensus size: 73
55787 GGATGTTTTC
* * * * *
55797 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTGTTTCTCGCTGAAGAAAGA
1 AAATAACAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTATTTCTCGCTGGAGAAAGT
55862 TTCACTTG
66 TTCACTTG
** *
55870 AAATAGTAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTATTTCTCGCTAGAGAAAGT
1 AAATAACAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTATTTCTCGCTGGAGAAAGT
*
55935 TTCACATG
66 TTCACTTG
*
55943 AAATAACAATTTATCTCACTTGAGATTG-TTTTCTTAAAACAAACTATTTCTTGCTGGAGAAAGT
1 AAATAACAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTATTTCTCGCTGGAGAAAGT
56007 TTCA-TTCG
66 TTCACTT-G
**
56015 AAATAACAATTTATCTCACTTGAGATTGTTTTTAATAAAACA
1 AAATAACAATTTATCTCACTTGAGATTGTTTTTCTTAAAACA
56057 TTTCAAGAAG
Statistics
Matches: 171, Mismatches: 14, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
71 1 0.01
72 67 0.39
73 103 0.60
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (73 bp):
AAATAACAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTATTTCTCGCTGGAGAAAGT
TTCACTTG
Found at i:56122 original size:39 final size:39
Alignment explanation
Indices: 56068--56509 Score: 619
Period size: 39 Copynumber: 11.5 Consensus size: 39
56058 TTCAAGAAGT
* *
56068 AGTTCATAATCTGAAGAACTCGTTTGAAGAGAAAAAAGG
1 AGTTCATAATCTGAAGAACTCGTCTGAAGAGGAAAAAGG
* * *
56107 AGTTCATAATCTGAAGAACTCATCTAAAGAGGAAGAAGG
1 AGTTCATAATCTGAAGAACTCGTCTGAAGAGGAAAAAGG
* *
56146 AGTTCATAATCTGAAGAACTCGACTGAAGAGGAAAAAAG
1 AGTTCATAATCTGAAGAACTCGTCTGAAGAGGAAAAAGG
*
56185 AGTTCATAATCTGAAGAACTCGTTTGAAGA--AAAAA-G
1 AGTTCATAATCTGAAGAACTCGTCTGAAGAGGAAAAAGG
* * *
56221 AGTTCATAATCTGAAGAACTTGTTTGAAGA-AAAAAAGG
1 AGTTCATAATCTGAAGAACTCGTCTGAAGAGGAAAAAGG
*
56259 AGTTCATAATCTGAAGAACTCGTCTGAAGA--AAAAATG
1 AGTTCATAATCTGAAGAACTCGTCTGAAGAGGAAAAAGG
*
56296 AGTTCATAATCTGAAGAACTCGTCTGAAGAGGAAGAAGG
1 AGTTCATAATCTGAAGAACTCGTCTGAAGAGGAAAAAGG
* *
56335 AGTTCATAATCTGAAGAACTCATATGAAGAGGAAAAAGG
1 AGTTCATAATCTGAAGAACTCGTCTGAAGAGGAAAAAGG
* *
56374 AGTTCATAATCTGAAGAACTCATCTGAAGAGGAAAAA-T
1 AGTTCATAATCTGAAGAACTCGTCTGAAGAGGAAAAAGG
* * *
56412 AGTTCATAATCTAAAGAACTCATCTGAAGAGGAAAAATG
1 AGTTCATAATCTGAAGAACTCGTCTGAAGAGGAAAAAGG
* * *
56451 AGTTCATAATTTGAAGAACTCGTCTGAAGAGGAAGAAGA
1 AGTTCATAATCTGAAGAACTCGTCTGAAGAGGAAAAAGG
*
56490 AGTTCATAGTCTGAAGAACT
1 AGTTCATAATCTGAAGAACT
56510 TATTCAGCCT
Statistics
Matches: 365, Mismatches: 33, Indels: 10
0.89 0.08 0.02
Matches are distributed among these distances:
36 30 0.08
37 46 0.13
38 65 0.18
39 224 0.61
ACGTcount: A:0.43, C:0.12, G:0.22, T:0.23
Consensus pattern (39 bp):
AGTTCATAATCTGAAGAACTCGTCTGAAGAGGAAAAAGG
Found at i:56709 original size:3 final size:3
Alignment explanation
Indices: 56701--56766 Score: 84
Period size: 3 Copynumber: 23.0 Consensus size: 3
56691 TTTTATTTAT
* * *
56701 TTA TTA TTA TTA TTA -TA TTA CTA ATA TT- TTA TTA CTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
56747 TTA -TA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA
56767 CTAAATAAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
2 6 0.11
3 49 0.89
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:56764 original size:14 final size:15
Alignment explanation
Indices: 56701--56763 Score: 87
Period size: 14 Copynumber: 4.4 Consensus size: 15
56691 TTTTATTTAT
*
56701 TTATTATTATTATTA
1 TTATTACTATTATTA
*
56716 -TATTACTAATATT-
1 TTATTACTATTATTA
56729 TTATTACTATTATTA
1 TTATTACTATTATTA
56744 TTATTA-TATTATTA
1 TTATTACTATTATTA
56758 TTATTA
1 TTATTA
56764 TTACTAAATA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
14 37 0.86
15 6 0.14
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (15 bp):
TTATTACTATTATTA
Found at i:56817 original size:20 final size:20
Alignment explanation
Indices: 56792--56829 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
56782 CATTGTAGGC
56792 CCATTTACAAGAACCCAATA
1 CCATTTACAAGAACCCAATA
56812 CCATTTACAAGAACCCAA
1 CCATTTACAAGAACCCAA
56830 GCCCAGATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.32, G:0.05, T:0.18
Consensus pattern (20 bp):
CCATTTACAAGAACCCAATA
Found at i:59292 original size:30 final size:32
Alignment explanation
Indices: 59258--59333 Score: 93
Period size: 32 Copynumber: 2.4 Consensus size: 32
59248 ATATGTGATA
59258 GTGTTCTATGTGAAAATAC-TT-TACATGAAT
1 GTGTTCTATGTGAAAATACTTTATACATGAAT
* * * *
59288 GTGTTCCATGTGAAGATGCTTTATATATGAAT
1 GTGTTCTATGTGAAAATACTTTATACATGAAT
*
59320 GTGTTCTACGTGAA
1 GTGTTCTATGTGAA
59334 TAAAGGATAC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
30 16 0.42
31 2 0.05
32 20 0.53
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.39
Consensus pattern (32 bp):
GTGTTCTATGTGAAAATACTTTATACATGAAT
Found at i:59653 original size:22 final size:22
Alignment explanation
Indices: 59619--59661 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
59609 ATAAATTGAA
59619 CATGTAAAAGTATATGTTATTTT
1 CATGTAAAAGTATAT-TTATTTT
* *
59642 CATG-AAATGTATCTTTATTT
1 CATGTAAAAGTATATTTATTT
59662 CAATATGCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 6 0.33
22 8 0.44
23 4 0.22
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.49
Consensus pattern (22 bp):
CATGTAAAAGTATATTTATTTT
Found at i:60095 original size:16 final size:17
Alignment explanation
Indices: 60062--60095 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
60052 AATTTTCAAC
60062 AAGTTTTCAAAGAGTCA
1 AAGTTTTCAAAGAGTCA
*
60079 AAGTTTTGAAA-AGTCA
1 AAGTTTTCAAAGAGTCA
60095 A
1 A
60096 TGTAACACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.44, C:0.09, G:0.18, T:0.29
Consensus pattern (17 bp):
AAGTTTTCAAAGAGTCA
Found at i:61785 original size:21 final size:21
Alignment explanation
Indices: 61757--61817 Score: 95
Period size: 21 Copynumber: 2.9 Consensus size: 21
61747 AACCATGTAG
61757 AGATGTCCCGAATGACCACAT
1 AGATGTCCCGAATGACCACAT
* * *
61778 ATATGTCCTGAAGGACCACAT
1 AGATGTCCCGAATGACCACAT
61799 AGATGTCCCGAATGACCAC
1 AGATGTCCCGAATGACCAC
61818 TCCTTGAGGA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.20
Consensus pattern (21 bp):
AGATGTCCCGAATGACCACAT
Found at i:62063 original size:45 final size:47
Alignment explanation
Indices: 62012--62100 Score: 112
Period size: 45 Copynumber: 1.9 Consensus size: 47
62002 AGGCATATAA
* *
62012 TCTCATAGCTTCA-TATCACATATATCATGT-A-ATATTCTTGTAGCG
1 TCTCATAGC-TCATTATCACATATACCATATCACATATTCTTGTAGCG
* *
62057 TCTCATATCTCATTATCATATATACCATATCACATATTCTTGTA
1 TCTCATAGCTCATTATCACATATACCATATCACATATTCTTGTA
62101 TTCATATAGA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
44 3 0.08
45 22 0.59
46 1 0.03
47 11 0.30
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.42
Consensus pattern (47 bp):
TCTCATAGCTCATTATCACATATACCATATCACATATTCTTGTAGCG
Found at i:63595 original size:20 final size:20
Alignment explanation
Indices: 63567--63693 Score: 83
Period size: 20 Copynumber: 5.8 Consensus size: 20
63557 TTTTATTTAT
63567 TGCATCCTTTCATGCCTTAA
1 TGCATCCTTTCATGCCTTAA
* * *
63587 TGTATCCTTTCAAGCATTTTATTTA
1 TGCATCCTTTCATGC--CTTA---A
*
63612 TGGCATTCTTTCATGCCTTAA
1 T-GCATCCTTTCATGCCTTAA
*
63633 TGCATCCTTTCATGCATTTTATTTA
1 TGCATCCTTTCATGC--CTTA---A
63658 TGGCATCCTTTCATGCCTTAA
1 T-GCATCCTTTCATGCCTTAA
* *
63679 TGAATCCTTACATGC
1 TGCATCCTTTCATGC
63694 ATTTTATTTA
Statistics
Matches: 83, Mismatches: 12, Indels: 24
0.70 0.10 0.20
Matches are distributed among these distances:
20 38 0.46
21 4 0.05
22 6 0.07
24 6 0.07
25 4 0.05
26 25 0.30
ACGTcount: A:0.21, C:0.24, G:0.11, T:0.44
Consensus pattern (20 bp):
TGCATCCTTTCATGCCTTAA
Found at i:63611 original size:46 final size:46
Alignment explanation
Indices: 63555--63717 Score: 263
Period size: 46 Copynumber: 3.5 Consensus size: 46
63545 CATTAAATTT
* * *
63555 CATTTTATTTATTGCATCCTTTCATGCCTTAATGTATCCTTTCAAG
1 CATTTTATTTATGGCATCCTTTCATGCCTTAATGAATCCTTTCATG
* *
63601 CATTTTATTTATGGCATTCTTTCATGCCTTAATGCATCCTTTCATG
1 CATTTTATTTATGGCATCCTTTCATGCCTTAATGAATCCTTTCATG
*
63647 CATTTTATTTATGGCATCCTTTCATGCCTTAATGAATCCTTACATG
1 CATTTTATTTATGGCATCCTTTCATGCCTTAATGAATCCTTTCATG
*
63693 CATTTTATTTATGGCATTCTTTCAT
1 CATTTTATTTATGGCATCCTTTCAT
63718 TCATTATTCT
Statistics
Matches: 109, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 109 1.00
ACGTcount: A:0.21, C:0.21, G:0.10, T:0.48
Consensus pattern (46 bp):
CATTTTATTTATGGCATCCTTTCATGCCTTAATGAATCCTTTCATG
Found at i:63755 original size:34 final size:34
Alignment explanation
Indices: 63716--63835 Score: 96
Period size: 34 Copynumber: 3.2 Consensus size: 34
63706 GCATTCTTTC
63716 ATTCATTATTCTTTTATGCCAATAATGCACCCAT
1 ATTCATTATTCTTTTATGCCAATAATGCACCCAT
*
63750 ATTCATTTCAACTATGGCATCCATTCATGCCAATAATGCACCCAT
1 ATTCA-TT--A-T-T--C-T---TTTATGCCAATAATGCACCCAT
* * *
63795 ATGCATTATTCTTTTATGTCGATAATGCACCCAT
1 ATTCATTATTCTTTTATGCCAATAATGCACCCAT
*
63829 ATACATT
1 ATTCATT
63836 TCAGTTATGC
Statistics
Matches: 69, Mismatches: 6, Indels: 22
0.71 0.06 0.23
Matches are distributed among these distances:
34 30 0.43
35 2 0.03
37 2 0.03
38 2 0.03
39 1 0.01
40 1 0.01
41 2 0.03
42 2 0.03
44 2 0.03
45 25 0.36
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.38
Consensus pattern (34 bp):
ATTCATTATTCTTTTATGCCAATAATGCACCCAT
Found at i:63882 original size:78 final size:78
Alignment explanation
Indices: 63719--63968 Score: 392
Period size: 79 Copynumber: 3.2 Consensus size: 78
63709 TTCTTTCATT
* * * * *
63719 CATTATTCTTTTATGCCAATAATGCACCCATATTCATTTCAACTATGGCATCCATTCATGCCAAT
1 CATTATTCTTTTATGTCGATAATGCACCCATATACATTTCAGCTAT-GCATCCTTTCATGCCAAT
63784 AATGCACCCATATG
65 AATGCACCCATATG
*
63798 CATTATTCTTTTATGTCGATAATGCACCCATATACATTTCAGTTATGCATCCTTTCATGCCAATA
1 CATTATTCTTTTATGTCGATAATGCACCCATATACATTTCAGCTATGCATCCTTTCATGCCAATA
*
63863 ATGCACTCATATG
66 ATGCACCCATATG
*
63876 CATTATTCTTTTATGTCGATAATGCACCCATATGCATTTCAGCTATGACATCCTTTCATGCCAAT
1 CATTATTCTTTTATGTCGATAATGCACCCATATACATTTCAGCTATG-CATCCTTTCATGCCAAT
63941 AATGCACCCATATG
65 AATGCACCCATATG
* *
63955 CTTTATTCATTTAT
1 CATTATTCTTTTAT
63969 TCACTCATTC
Statistics
Matches: 158, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
78 75 0.47
79 83 0.53
ACGTcount: A:0.28, C:0.24, G:0.10, T:0.38
Consensus pattern (78 bp):
CATTATTCTTTTATGTCGATAATGCACCCATATACATTTCAGCTATGCATCCTTTCATGCCAATA
ATGCACCCATATG
Found at i:64555 original size:93 final size:94
Alignment explanation
Indices: 64396--64578 Score: 280
Period size: 93 Copynumber: 2.0 Consensus size: 94
64386 ACTTATATAC
* * *
64396 TATGGTACTGATACCCCTTTTGGTATCGATACCAATTTTAGGTTCGATTTTGCCTAGTATCGATA
1 TATGGTACCGATACCCCTTTTGATATCGATACCAATTTTAGATTCGATTTTGCCTAGTATCGATA
* *
64461 CCCTTACCAAGGTATCGATACTACCATAT
66 CCCTTACCAAGGAATCAATACTACCATAT
*
64490 TATGGTACCGATACCCC-TTTGATATCGATACCAATTTTAGATTCGATATTT-CCTGGTATCGAT
1 TATGGTACCGATACCCCTTTTGATATCGATACCAATTTTAGATTCGAT-TTTGCCTAGTATCGAT
*
64553 ACCCTTACCATGGAATCAATACTACC
65 ACCCTTACCAAGGAATCAATACTACC
64579 TCGTGGTATC
Statistics
Matches: 81, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
93 62 0.77
94 19 0.23
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (94 bp):
TATGGTACCGATACCCCTTTTGATATCGATACCAATTTTAGATTCGATTTTGCCTAGTATCGATA
CCCTTACCAAGGAATCAATACTACCATAT
Found at i:71331 original size:21 final size:21
Alignment explanation
Indices: 71307--71363 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
71297 TCACATGAAC
71307 AATATCGATACTGATTGAAGT
1 AATATCGATACTGATTGAAGT
*
71328 AATATCGATACTAATTGAAGT
1 AATATCGATACTGATTGAAGT
* *
71349 AGTATTGATACTGAT
1 AATATCGATACTGAT
71364 GTGGAGGTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.39, C:0.09, G:0.18, T:0.35
Consensus pattern (21 bp):
AATATCGATACTGATTGAAGT
Found at i:71892 original size:30 final size:32
Alignment explanation
Indices: 71856--71925 Score: 99
Period size: 32 Copynumber: 2.2 Consensus size: 32
71846 GATTGTATTA
71856 TATGTGAAAATGC-TT-TACATGAATGTGTTC
1 TATGTGAAAATGCTTTATACATGAATGTGTTC
* *
71886 TATGTGAAGATGCTTTATATATGAATGTGTTC
1 TATGTGAAAATGCTTTATACATGAATGTGTTC
*
71918 TACGTGAA
1 TATGTGAA
71926 TAAAAGATAC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
30 12 0.34
31 2 0.06
32 21 0.60
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (32 bp):
TATGTGAAAATGCTTTATACATGAATGTGTTC
Found at i:72145 original size:24 final size:24
Alignment explanation
Indices: 72101--72154 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
72091 TCAAGATAAA
** *
72101 TCTATGTGGCACTTCGGTGCATAT
1 TCTATGTGGCACTTCAATGCAAAT
72125 TCTATGTGGCACTTCAATGCAAAT
1 TCTATGTGGCACTTCAATGCAAAT
*
72149 TATATG
1 TCTATG
72155 AGAAGTGGTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (24 bp):
TCTATGTGGCACTTCAATGCAAAT
Found at i:76282 original size:31 final size:31
Alignment explanation
Indices: 76214--76284 Score: 115
Period size: 31 Copynumber: 2.3 Consensus size: 31
76204 TAACTTGTGG
*
76214 TGACCACATCTTAATTAAATAAAAATGAAAA
1 TGACCATATCTTAATTAAATAAAAATGAAAA
* *
76245 TGACCATATCTTAATTATATATAAATGAAAA
1 TGACCATATCTTAATTAAATAAAAATGAAAA
76276 TGACCATAT
1 TGACCATAT
76285 ATTATGTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.49, C:0.13, G:0.07, T:0.31
Consensus pattern (31 bp):
TGACCATATCTTAATTAAATAAAAATGAAAA
Found at i:78658 original size:92 final size:92
Alignment explanation
Indices: 78448--78660 Score: 313
Period size: 92 Copynumber: 2.3 Consensus size: 92
78438 AGTTTTGATC
* ** *
78448 TCATAAGGTTATACATTTATCAGGAAATATATGTGCTCATAATTATGATTTTAATCCAACAATCT
1 TCATAAGGTTATAAAAGTATAAGGAAATATATGTGCTCATAATTATGATTTTAATCCAACAATCT
78513 CCCACTTGGGCAACATATGTTATAAAG
66 CCCACTTGGGCAACATATGTTATAAAG
* ** *
78540 TCATAAGGTTATACATTTATCAGGAAATATATGTGCTCATAATTATGATTTTAAT-CAACAATCT
1 TCATAAGGTTATAAAAGTATAAGGAAATATATGTGCTCATAATTATGATTTTAATCCAACAATCT
*
78604 CCCACTTGGGCAATATATGTTATAAAG
66 CCCACTTGGGCAACATATGTTATAAAG
78631 TCATAAGG-TATTAAAAGTATAATGGAAATA
1 TCATAAGGTTA-TAAAAGTATAA-GGAAATA
78661 AAAGTGTAGA
Statistics
Matches: 114, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
90 2 0.02
91 50 0.44
92 62 0.54
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.35
Consensus pattern (92 bp):
TCATAAGGTTATAAAAGTATAAGGAAATATATGTGCTCATAATTATGATTTTAATCCAACAATCT
CCCACTTGGGCAACATATGTTATAAAG
Found at i:79182 original size:31 final size:31
Alignment explanation
Indices: 79114--79184 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 31
79104 TAACTTGTGG
* *
79114 TGACCACATCTTAATTAAATACAAACGAAAG
1 TGACCATATCTTAATTAAATACAAACGAAAA
* *
79145 TGACCATATCTTAATTAAATATAAATGAAAA
1 TGACCATATCTTAATTAAATACAAACGAAAA
79176 TGACCATAT
1 TGACCATAT
79185 ATTATGTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.48, C:0.15, G:0.08, T:0.28
Consensus pattern (31 bp):
TGACCATATCTTAATTAAATACAAACGAAAA
Found at i:81360 original size:17 final size:17
Alignment explanation
Indices: 81334--81375 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
81324 TACCATTTCT
*
81334 GAGATCGGACGGTTATA
1 GAGATTGGACGGTTATA
81351 GAGATTGGACGGTTATA
1 GAGATTGGACGGTTATA
81368 GAGATTGG
1 GAGATTGG
81376 GCCGGTGTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.29, C:0.07, G:0.38, T:0.26
Consensus pattern (17 bp):
GAGATTGGACGGTTATA
Found at i:81696 original size:107 final size:109
Alignment explanation
Indices: 81503--81717 Score: 326
Period size: 107 Copynumber: 2.0 Consensus size: 109
81493 TTTTATAATA
* *
81503 TAAAATTAGAAGCCATATTTTTTTATCAACGGAGTTGGTTCAAGTGGTAACCAGTTTGATATCGC
1 TAAAATTAGAAGCCATATTTTTTTATCAACGGAGTTGATTCAAGTGGTAAACAGTTTGATATCGC
*
81568 TTAGATAAGTATCGAGTTTAAATTCTTATATATGTAGAAAATCT
66 TTAGATAAGTATCGAGTTTAAATTCTTACATATGTAGAAAATCT
** * * *
81612 TAAAA-TAGAAGCTGTATTTTTTTCTCAACTGAGTTGATTCAA-TGGTAAATAGTTTGATATCGC
1 TAAAATTAGAAGCCATATTTTTTTATCAACGGAGTTGATTCAAGTGGTAAACAGTTTGATATCGC
* *
81675 TTATATAAGTCTCGAGTTTAAATTCTTACATATGTAGAAAATC
66 TTAGATAAGTATCGAGTTTAAATTCTTACATATGTAGAAAATC
81718 CCCGCAGAAA
Statistics
Matches: 96, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
107 59 0.61
108 32 0.33
109 5 0.05
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (109 bp):
TAAAATTAGAAGCCATATTTTTTTATCAACGGAGTTGATTCAAGTGGTAAACAGTTTGATATCGC
TTAGATAAGTATCGAGTTTAAATTCTTACATATGTAGAAAATCT
Found at i:82457 original size:2 final size:2
Alignment explanation
Indices: 82450--82483 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
82440 GGACCAATCA
82450 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
82484 TTGATTAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:82721 original size:14 final size:14
Alignment explanation
Indices: 82702--82728 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
82692 ATGTTATTTA
82702 AAATATTATTTTTT
1 AAATATTATTTTTT
82716 AAATATTATTTTT
1 AAATATTATTTTT
82729 ACTAATTAAT
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:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
AAATATTATTTTTT
Found at i:89331 original size:2 final size:2
Alignment explanation
Indices: 89319--89362 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
89309 ATCGAAGATG
89319 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
89360 AT A
1 AT A
89363 AAATGGTTGT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:89670 original size:151 final size:150
Alignment explanation
Indices: 89379--89672 Score: 385
Period size: 151 Copynumber: 2.0 Consensus size: 150
89369 TTGTCCCTTG
89379 TTCCCATATGTAATGGGGTAAGGGGAGGTAAGATAGTAGGCTGTCCACAACACTAGGTTGAGAAC
1 TTCCCATATGTAATGGGGTAAGGGGAGGTAAGATAGTAGGCTGTCCACAACACTAGGTTGAGAAC
* * *
89444 AACTTCCGTAGGAGACCTCCAAATTATGAAACGCCCTCCATGGGACTCAATCCCACGACCTCAAG
66 AACTTCCGTAGGAGACCTCCAAATTATGAAACACCCACCATAGGACTCAATCCCACGACCTCAAG
*
89509 GTTAAAAACCTTGACTATTT
131 ATTAAAAACCTTGACTATTT
* * * ** *
89529 TTCCCATATGTAATGGGGTAAGAGGGAGGTAGGGTAGTAGGCTG-CCCCAACGTTAGGTTGAGAG
1 TTCCCATATGTAATGGGGTAAG-GGGAGGTAAGATAGTAGGCTGTCCACAACACTAGGTTGAGAA
* ** * * * *
89593 CAACTTCCGT-GGAAGACCTCTACAATTATGAATTATCCACCGTAGGACTCGATCCCACGACCTT
65 CAACTTCCGTAGG-AGACCTCCA-AATTATGAAACACCCACCATAGGACTCAATCCCACGACCTC
*
89657 AAGATTAAGAACCTTG
128 AAGATTAAAAACCTTG
89673 TGCTCTACCA
Statistics
Matches: 123, Mismatches: 18, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
149 2 0.02
150 56 0.46
151 65 0.53
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (150 bp):
TTCCCATATGTAATGGGGTAAGGGGAGGTAAGATAGTAGGCTGTCCACAACACTAGGTTGAGAAC
AACTTCCGTAGGAGACCTCCAAATTATGAAACACCCACCATAGGACTCAATCCCACGACCTCAAG
ATTAAAAACCTTGACTATTT
Found at i:96556 original size:17 final size:16
Alignment explanation
Indices: 96531--96565 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
96521 ATTTAATATA
*
96531 AATATTATTAGTCTTAT
1 AATAATATTA-TCTTAT
96548 AATAATATTATCTTAT
1 AATAATATTATCTTAT
96564 AA
1 AA
96566 CCATATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.49
Consensus pattern (16 bp):
AATAATATTATCTTAT
Found at i:96571 original size:16 final size:17
Alignment explanation
Indices: 96536--96573 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
96526 ATATAAATAT
*
96536 TATTAGTCTTATAATAA
1 TATTAGTCTTATAACAA
*
96553 TATTA-TCTTATAACCA
1 TATTAGTCTTATAACAA
96569 TATTA
1 TATTA
96574 AATTAAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.39, C:0.11, G:0.03, T:0.47
Consensus pattern (17 bp):
TATTAGTCTTATAACAA
Found at i:97634 original size:18 final size:18
Alignment explanation
Indices: 97608--97642 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
97598 ATAACCGAAT
*
97608 CATAGCCCTAGGGTTATG
1 CATAACCCTAGGGTTATG
97626 CATAACCCTAGGGTTAT
1 CATAACCCTAGGGTTAT
97643 CTTGTTAGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (18 bp):
CATAACCCTAGGGTTATG
Found at i:97930 original size:12 final size:12
Alignment explanation
Indices: 97913--97982 Score: 53
Period size: 12 Copynumber: 6.1 Consensus size: 12
97903 TACTATTAAT
97913 ATAATATATATA
1 ATAATATATATA
97925 ATAATAACGTATATA
1 ATAAT-A--TATATA
* *
97940 ATAA-AAACAT-
1 ATAATATATATA
97950 AT-ATA-AT-TA
1 ATAATATATATA
97959 ATAATATATATA
1 ATAATATATATA
97971 ATAATA-ATATA
1 ATAATATATATA
97982 A
1 A
97983 ACGGACAAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 17
0.70 0.04 0.25
Matches are distributed among these distances:
8 1 0.02
9 4 0.09
10 6 0.13
11 11 0.23
12 13 0.28
13 2 0.04
15 10 0.21
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (12 bp):
ATAATATATATA
Found at i:97931 original size:15 final size:15
Alignment explanation
Indices: 97893--97981 Score: 101
Period size: 15 Copynumber: 5.9 Consensus size: 15
97883 ATATTATTTA
*
97893 ATAATACTAATACTAT
1 ATAATAATAATA-TAT
97909 -TAAT-ATAATATAT
1 ATAATAATAATATAT
**
97922 ATAATAATAACGTAT
1 ATAATAATAATATAT
* *
97937 ATAATAAAAACATAT
1 ATAATAATAATATAT
97952 ATAATTAATAATATAT
1 ATAA-TAATAATATAT
97968 ATAATAATAATATA
1 ATAATAATAATATA
97982 AACGGACAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
13 3 0.05
14 9 0.14
15 38 0.60
16 13 0.21
ACGTcount: A:0.57, C:0.04, G:0.01, T:0.37
Consensus pattern (15 bp):
ATAATAATAATATAT
Found at i:98224 original size:41 final size:42
Alignment explanation
Indices: 98157--98266 Score: 116
Period size: 42 Copynumber: 2.6 Consensus size: 42
98147 ACATCCTACC
* * * * * *
98157 CAAAGGTCTGACGGATGGCCCTAAGGACTT-ATCATCTTGCT
1 CAAAGGACTGACAGATGACCCGAAGGACTTAAACATCATGCT
*
98198 CGAAA-GACTGACAGATGACCCGAAGGATTTAAACATCATGCT
1 C-AAAGGACTGACAGATGACCCGAAGGACTTAAACATCATGCT
* *
98240 CAAAGGACTTACAGATGACCTGAAGGA
1 CAAAGGACTGACAGATGACCCGAAGGA
98267 TTTACAAATT
Statistics
Matches: 57, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
41 24 0.42
42 33 0.58
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.21
Consensus pattern (42 bp):
CAAAGGACTGACAGATGACCCGAAGGACTTAAACATCATGCT
Found at i:98254 original size:42 final size:42
Alignment explanation
Indices: 98189--98270 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
98179 AAGGACTTAT
*
98189 CATCTTGCTCGAAAGACTGACAGATGACCCGAAGGATTTAAA
1 CATCATGCTCGAAAGACTGACAGATGACCCGAAGGATTTAAA
* *
98231 CATCATGCTC-AAAGGACTTACAGATGACCTGAAGGATTTA
1 CATCATGCTCGAAA-GACTGACAGATGACCCGAAGGATTTA
98271 CAAATTTGTG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
41 3 0.08
42 33 0.92
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (42 bp):
CATCATGCTCGAAAGACTGACAGATGACCCGAAGGATTTAAA
Found at i:99152 original size:22 final size:22
Alignment explanation
Indices: 99117--99170 Score: 90
Period size: 22 Copynumber: 2.4 Consensus size: 22
99107 GATAAAGCTT
*
99117 TCATCCTTTGAAAAGAGAATCTA
1 TCAT-CTTTAAAAAGAGAATCTA
99140 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTAAAAAGAGAATCTA
99162 TCATCTTTA
1 TCATCTTTA
99171 CAAGATGTAG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 26 0.87
23 4 0.13
ACGTcount: A:0.39, C:0.17, G:0.09, T:0.35
Consensus pattern (22 bp):
TCATCTTTAAAAAGAGAATCTA
Found at i:105072 original size:43 final size:45
Alignment explanation
Indices: 105011--105099 Score: 146
Period size: 43 Copynumber: 2.0 Consensus size: 45
105001 TATTGCGGAT
105011 GTAATTAGCCCATACGCTAATTA-CCAGAAGCCCCT-CCCAAAAC
1 GTAATTAGCCCATACGCTAATTACCCAGAAGCCCCTCCCCAAAAC
* *
105054 GTAATTAGCCTATACGCTAATTACCCAGAAGCCCTTCCCCAAAAC
1 GTAATTAGCCCATACGCTAATTACCCAGAAGCCCCTCCCCAAAAC
105099 G
1 G
105100 ACGTAGTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
43 22 0.52
44 11 0.26
45 9 0.21
ACGTcount: A:0.34, C:0.34, G:0.12, T:0.20
Consensus pattern (45 bp):
GTAATTAGCCCATACGCTAATTACCCAGAAGCCCCTCCCCAAAAC
Found at i:106086 original size:15 final size:15
Alignment explanation
Indices: 106048--106152 Score: 106
Period size: 15 Copynumber: 6.9 Consensus size: 15
106038 ATATTATTTA
*
106048 ATAATACTAATAT-T
1 ATAATAATAATATAT
*
106062 ATTAAT-ATAATATGT
1 A-TAATAATAATATAT
*
106077 ATAATAATAACATAT
1 ATAATAATAATATAT
* **
106092 ATAATAAAAACGTAT
1 ATAATAATAATATAT
106107 ATAATTAATAATATAT
1 ATAA-TAATAATATAT
106123 ATAATTAATAATATAT
1 ATAA-TAATAATATAT
*
106139 ATATTAATAATATA
1 ATAATAATAATATA
106153 AACATACAAA
Statistics
Matches: 78, Mismatches: 9, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
14 11 0.14
15 40 0.51
16 27 0.35
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (15 bp):
ATAATAATAATATAT
Found at i:106120 original size:12 final size:11
Alignment explanation
Indices: 106105--106153 Score: 50
Period size: 12 Copynumber: 4.5 Consensus size: 11
106095 ATAAAAACGT
106105 ATATAATTAATA
1 ATATAA-TAATA
106117 ATAT-AT-ATA
1 ATATAATAATA
106126 AT-TAATAATA
1 ATATAATAATA
*
106136 TATATATTAATA
1 -ATATAATAATA
106148 ATATAA
1 ATATAA
106154 ACATACAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
8 1 0.03
9 7 0.23
10 4 0.13
11 8 0.26
12 11 0.35
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
ATATAATAATA
Found at i:106123 original size:31 final size:30
Alignment explanation
Indices: 106076--106152 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 30
106066 ATATAATATG
*
106076 TATAA-TAATAACATATATAA-TAAAAACGTA
1 TATAATTAATAATATATATAATTAAAAA--TA
*
106106 TATAATTAATAATATATATAATTAATAATA
1 TATAATTAATAATATATATAATTAAAAATA
106136 TATATATTAATAATATA
1 TATA-ATTAATAATATA
106153 AACATACAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
30 11 0.26
31 26 0.62
32 5 0.12
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (30 bp):
TATAATTAATAATATATATAATTAAAAATA
Found at i:107351 original size:13 final size:13
Alignment explanation
Indices: 107333--107362 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
107323 CGTTGCCTAA
107333 GTGTGTGGAGGTC
1 GTGTGTGGAGGTC
107346 GTGTGTGGAGGTC
1 GTGTGTGGAGGTC
107359 GTGT
1 GTGT
107363 TGCTTAGCGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.07, C:0.07, G:0.53, T:0.33
Consensus pattern (13 bp):
GTGTGTGGAGGTC
Found at i:109958 original size:14 final size:13
Alignment explanation
Indices: 109934--109963 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
109924 ATGGCCCGTG
109934 TAATTTTAATTTC
1 TAATTTTAATTTC
109947 TAATTATTAATTTC
1 TAATT-TTAATTTC
109961 TAA
1 TAA
109964 AATAATCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.57
Consensus pattern (13 bp):
TAATTTTAATTTC
Found at i:116536 original size:40 final size:39
Alignment explanation
Indices: 116471--116647 Score: 237
Period size: 40 Copynumber: 4.5 Consensus size: 39
116461 GCATATCGAT
* *
116471 TAAGCATTTCGGTGCATATGGTGGGCACAACCTTATGTG
1 TAAGCACTTCGGTGCATATGGTGGGCACGACCTTATGTG
* *
116510 TAATGCACTTTGGTGCATATGGTGGGCATGACCTTATGTG
1 TAA-GCACTTCGGTGCATATGGTGGGCACGACCTTATGTG
**
116550 TAATGCACTTCGAAGCATATGGTGGGCACGACCTTATGTG
1 TAA-GCACTTCGGTGCATATGGTGGGCACGACCTTATGTG
* * *
116590 TAAGCACTTCAGTGCATATGGTGGGCATGTCCTTATGTG
1 TAAGCACTTCGGTGCATATGGTGGGCACGACCTTATGTG
* *
116629 TAAGCACTACAGTGCATAT
1 TAAGCACTTCGGTGCATAT
116648 ATTTGACTCA
Statistics
Matches: 123, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
39 52 0.42
40 71 0.58
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (39 bp):
TAAGCACTTCGGTGCATATGGTGGGCACGACCTTATGTG
Found at i:116624 original size:79 final size:79
Alignment explanation
Indices: 116484--116636 Score: 254
Period size: 79 Copynumber: 1.9 Consensus size: 79
116474 GCATTTCGGT
**
116484 GCATATGGTGGGCACAACCTTATGTGTAATGCACTTTGGTGCATATGGTGGGCATGACCTTATGT
1 GCATATGGTGGGCACAACCTTATGTGTAATGCACTTCAGTGCATATGGTGGGCATGACCTTATGT
116549 GTAATGCACTTCGAA
66 GTAA-GCACTTCGAA
* *
116564 GCATATGGTGGGCACGACCTTATGTGTAA-GCACTTCAGTGCATATGGTGGGCATGTCCTTATGT
1 GCATATGGTGGGCACAACCTTATGTGTAATGCACTTCAGTGCATATGGTGGGCATGACCTTATGT
116628 GTAAGCACT
66 GTAAGCACT
116637 ACAGTGCATA
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
78 5 0.07
79 36 0.52
80 28 0.41
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (79 bp):
GCATATGGTGGGCACAACCTTATGTGTAATGCACTTCAGTGCATATGGTGGGCATGACCTTATGT
GTAAGCACTTCGAA
Found at i:123321 original size:39 final size:40
Alignment explanation
Indices: 123114--123323 Score: 255
Period size: 40 Copynumber: 5.3 Consensus size: 40
123104 GATTAAACAA
* *
123114 TTCGGTGCATATGGTGGGCACAACCTTATGTGTAATGAAC
1 TTCGGTGCATATGGTGGGCACGACCTTATGTGTAATGCAC
**
123154 TTCGGTTTATATGGTGGGCACGACCTTATGTGTAATGCAC
1 TTCGGTGCATATGGTGGGCACGACCTTATGTGTAATGCAC
* * *
123194 TTTGGTGCATATGGTGGACAGGACCTTATGTGTAATGCAC
1 TTCGGTGCATATGGTGGGCACGACCTTATGTGTAATGCAC
** * * *
123234 TTCGAAGTATATGGTAGGCACGACTTTATGTGTAA-GCAC
1 TTCGGTGCATATGGTGGGCACGACCTTATGTGTAATGCAC
** *
123273 TTCAATGCATATGGTGGGCACGACCTTATGTGTAACG-AC
1 TTCGGTGCATATGGTGGGCACGACCTTATGTGTAATGCAC
123312 TAT-GGTGCATAT
1 T-TCGGTGCATAT
123324 ATTTGACTCG
Statistics
Matches: 144, Mismatches: 24, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 44 0.31
40 100 0.69
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (40 bp):
TTCGGTGCATATGGTGGGCACGACCTTATGTGTAATGCAC
Found at i:123750 original size:13 final size:13
Alignment explanation
Indices: 123686--123743 Score: 98
Period size: 13 Copynumber: 4.5 Consensus size: 13
123676 GTCATAAATC
123686 TATGACACGCATT
1 TATGACACGCATT
*
123699 TATGACTCGCATT
1 TATGACACGCATT
*
123712 TATGACACACATT
1 TATGACACGCATT
123725 TATGACACGCATT
1 TATGACACGCATT
123738 TATGAC
1 TATGAC
123744 GCTCATTGCA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 41 1.00
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (13 bp):
TATGACACGCATT
Found at i:123929 original size:2 final size:2
Alignment explanation
Indices: 123922--123954 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
123912 TTTCGTAAAT
123922 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
123955 TGTAGATTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:126950 original size:16 final size:16
Alignment explanation
Indices: 126912--126950 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
126902 GTTCATCAAC
*
126912 TTGCAGCTAGAAACCT
1 TTGCAGTTAGAAACCT
*
126928 TTGCAGTTAGAAGCCT
1 TTGCAGTTAGAAACCT
126944 TTGCAGT
1 TTGCAGT
126951 GTACCATCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.31
Consensus pattern (16 bp):
TTGCAGTTAGAAACCT
Found at i:132224 original size:20 final size:20
Alignment explanation
Indices: 132176--132225 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
132166 AATCATTCGG
*
132176 TATCAATACCCAAGGTTCAA
1 TATCAATACCCAAGGGTCAA
** **
132196 TATTGATACTGAAGGGTCAA
1 TATCAATACCCAAGGGTCAA
132216 TATCAATACC
1 TATCAATACC
132226 AACATAATAA
Statistics
Matches: 22, Mismatches: 8, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (20 bp):
TATCAATACCCAAGGGTCAA
Found at i:136913 original size:2 final size:2
Alignment explanation
Indices: 136908--136961 Score: 83
Period size: 2 Copynumber: 27.5 Consensus size: 2
136898 GTGCCACTAT
* *
136908 TA TA TA TA TA TA T- TA TA CA TA CA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
136949 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
136962 TGTATGTATG
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
1 1 0.02
2 46 0.98
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:138326 original size:16 final size:17
Alignment explanation
Indices: 138307--138355 Score: 63
Period size: 16 Copynumber: 3.2 Consensus size: 17
138297 AAATAATTTT
138307 TTAATAATTA-TATTAA
1 TTAATAATTATTATTAA
138323 TTAATAA-TATTATT-A
1 TTAATAATTATTATTAA
138338 TT-AT-ATTATTATTAA
1 TTAATAATTATTATTAA
138353 TTA
1 TTA
138356 TATTATTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
13 1 0.03
14 9 0.31
15 8 0.28
16 11 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTAATAATTATTATTAA
Found at i:138355 original size:15 final size:15
Alignment explanation
Indices: 138313--138362 Score: 68
Period size: 15 Copynumber: 3.4 Consensus size: 15
138303 TTTTTTAATA
138313 ATTA-TATTAATTAAT
1 ATTATTATTAATT-AT
*
138328 AATATTATT-ATTAT
1 ATTATTATTAATTAT
138342 ATTATTATTAATTAT
1 ATTATTATTAATTAT
138357 ATTATT
1 ATTATT
138363 TATTTTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
14 10 0.32
15 17 0.55
16 4 0.13
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
ATTATTATTAATTAT
Found at i:138358 original size:26 final size:24
Alignment explanation
Indices: 138313--138362 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
138303 TTTTTTAATA
138313 ATTATATTAATTAATAATATTATT
1 ATTATATTAATTAATAATATTATT
*
138337 ATTATATTATTATTAATTATATTATT
1 ATTATATTA--ATTAATAATATTATT
138363 TATTTTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 9 0.39
26 14 0.61
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
ATTATATTAATTAATAATATTATT
Found at i:138546 original size:23 final size:23
Alignment explanation
Indices: 138516--138563 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
138506 TTAAAATAAA
*
138516 AATATAATTTCATATATTATTAT
1 AATATAATTTAATATATTATTAT
*
138539 AATATAATTTAATATTTTATTAT
1 AATATAATTTAATATATTATTAT
138562 AA
1 AA
138564 CATTAAAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (23 bp):
AATATAATTTAATATATTATTAT
Found at i:138693 original size:14 final size:15
Alignment explanation
Indices: 138666--138694 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
138656 TAAATACATA
138666 AAATATTATTATTTT
1 AAATATTATTATTTT
138681 AAATATT-TTATTTT
1 AAATATTATTATTTT
138695 GAAGTGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
AAATATTATTATTTT
Found at i:139837 original size:40 final size:42
Alignment explanation
Indices: 139793--139886 Score: 104
Period size: 42 Copynumber: 2.3 Consensus size: 42
139783 AACAAATTCT
* *
139793 CAAAATCAAACCTA-AACCCAAAAT-CACGATTGAATAC-TCC
1 CAAAATCAAACC-ACAACCAAAAATCCACGATTGAACACATCC
*
139833 CAAAATCATACCACTAACCAAAAATCCACGATTGAACACATCC
1 CAAAATCAAACCAC-AACCAAAAATCCACGATTGAACACATCC
* *
139876 AAAAAACAAAC
1 CAAAATCAAAC
139887 ATCTACAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
39 1 0.02
40 11 0.25
41 9 0.20
42 12 0.27
43 11 0.25
ACGTcount: A:0.51, C:0.30, G:0.04, T:0.15
Consensus pattern (42 bp):
CAAAATCAAACCACAACCAAAAATCCACGATTGAACACATCC
Found at i:139933 original size:31 final size:31
Alignment explanation
Indices: 139892--139950 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
139882 CAAACATCTA
*
139892 CAAAAAATCGAAAACCAAGCGAGAGAGATTG
1 CAAAAAATCGAAAAACAAGCGAGAGAGATTG
* **
139923 CAAAATATCGAAAAACATTCGAGAGAGA
1 CAAAAAATCGAAAAACAAGCGAGAGAGA
139951 AAGTTTTAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.53, C:0.15, G:0.20, T:0.12
Consensus pattern (31 bp):
CAAAAAATCGAAAAACAAGCGAGAGAGATTG
Found at i:140915 original size:52 final size:51
Alignment explanation
Indices: 140850--140969 Score: 143
Period size: 52 Copynumber: 2.3 Consensus size: 51
140840 AAATTGTTGA
* * *
140850 AATTGAAGCTGTAAATACTATGGACAAT-GGTTTTAAAGAGGAAAAATAATGT
1 AATTGAAGTTGTAAACACTATGGAC-ATGGGTTTTAAAGAGG-AAAATAATGG
* * * *
140902 AATTGAAGTTGTAAACATTGTGGACATGGGTTTTGAAGAGGAAAATAGTGG
1 AATTGAAGTTGTAAACACTATGGACATGGGTTTTAAAGAGGAAAATAATGG
*
140953 AATTGAAATTGTAAACA
1 AATTGAAGTTGTAAACA
140970 ATGTGGAATG
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
51 26 0.44
52 33 0.56
ACGTcount: A:0.42, C:0.05, G:0.24, T:0.29
Consensus pattern (51 bp):
AATTGAAGTTGTAAACACTATGGACATGGGTTTTAAAGAGGAAAATAATGG
Found at i:140968 original size:51 final size:52
Alignment explanation
Indices: 140870--140976 Score: 146
Period size: 51 Copynumber: 2.1 Consensus size: 52
140860 GTAAATACTA
* * *
140870 TGGACAATGGTTTTAAAGAGGAAAAATAATGTAATTGAAGTTGTAAACATTG
1 TGGACAATGGTTTTAAAGAGGAAAAATAATGGAATTGAAATTGTAAACAATG
* *
140922 TGGAC-ATGGGTTTTGAAGAGG-AAAATAGTGGAATTGAAATTGTAAACAATG
1 TGGACAAT-GGTTTTAAAGAGGAAAAATAATGGAATTGAAATTGTAAACAATG
140973 TGGA
1 TGGA
140977 ATGTAATGAA
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
51 32 0.65
52 17 0.35
ACGTcount: A:0.40, C:0.04, G:0.27, T:0.29
Consensus pattern (52 bp):
TGGACAATGGTTTTAAAGAGGAAAAATAATGGAATTGAAATTGTAAACAATG
Found at i:143162 original size:22 final size:20
Alignment explanation
Indices: 143137--143179 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 20
143127 TCATGATGAG
143137 ATATGGAAGATAAAGATGGTTT
1 ATATGGAA-AT-AAGATGGTTT
* *
143159 ATATTGAAATAAGTTGGTTT
1 ATATGGAAATAAGATGGTTT
143179 A
1 A
143180 AGTAATGGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 10 0.53
21 2 0.11
22 7 0.37
ACGTcount: A:0.40, C:0.00, G:0.23, T:0.37
Consensus pattern (20 bp):
ATATGGAAATAAGATGGTTT
Found at i:143490 original size:19 final size:19
Alignment explanation
Indices: 143466--143512 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
143456 TGATTGGTAT
143466 ATCGATGCATGGGTAGTGC
1 ATCGATGCATGGGTAGTGC
143485 ATCGATGCATGGGTAGTGC
1 ATCGATGCATGGGTAGTGC
143504 ATCGATGCA
1 ATCGATGCA
143513 CATGTTAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.23, C:0.17, G:0.34, T:0.26
Consensus pattern (19 bp):
ATCGATGCATGGGTAGTGC
Done.