Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01013724.1 Corchorus olitorius cultivar O-4 contig13757, 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: 52594
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:73 original size:20 final size:20
Alignment explanation
Indices: 48--91 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
38 TTAGGAACAG
48 AGGTGGTTACTCCCTCTCCA
1 AGGTGGTTACTCCCTCTCCA
68 AGGTGGTTACTCCCTCTCCA
1 AGGTGGTTACTCCCTCTCCA
88 AGGT
1 AGGT
92 CAGGGCAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.16, C:0.32, G:0.23, T:0.30
Consensus pattern (20 bp):
AGGTGGTTACTCCCTCTCCA
Found at i:8310 original size:2 final size:2
Alignment explanation
Indices: 8299--8339 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
8289 TAAATATGAG
8299 AT AT -T 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
8340 TGTATCTCAT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:9017 original size:16 final size:16
Alignment explanation
Indices: 8996--9026 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8986 TATGATATAT
8996 ATATATATATATACAC
1 ATATATATATATACAC
*
9012 ATATATATATTTACA
1 ATATATATATATACA
9027 ATGATAATGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATATATATATACAC
Found at i:36372 original size:59 final size:60
Alignment explanation
Indices: 36279--36440 Score: 222
Period size: 60 Copynumber: 2.7 Consensus size: 60
36269 GCTAATTGCT
* * * * *
36279 CAAATAAGGACCTAACG-T-TTGCCAAAATGTTCAAATAAGGGTCGGATCTTTT-ATTTGGC
1 CAAATAAGGGCCTAACGTTATTG--AAAATGCTCAAATAAGGGCCCGATCTTTTAATTTGAC
*
36338 CAAATAAGGGCCTAACGTTATTGAAAATGCTCAAATAAGAGCCCGATCTTTTAATTTGAC
1 CAAATAAGGGCCTAACGTTATTGAAAATGCTCAAATAAGGGCCCGATCTTTTAATTTGAC
*
36398 CAAATAAGGGCCTAACGTTATCGAAAATGCTCAAATAAGGGCC
1 CAAATAAGGGCCTAACGTTATTGAAAATGCTCAAATAAGGGCC
36441 TGGCGTAAAA
Statistics
Matches: 92, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
59 41 0.45
60 48 0.52
61 3 0.03
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.27
Consensus pattern (60 bp):
CAAATAAGGGCCTAACGTTATTGAAAATGCTCAAATAAGGGCCCGATCTTTTAATTTGAC
Found at i:36376 original size:31 final size:31
Alignment explanation
Indices: 36338--36441 Score: 108
Period size: 31 Copynumber: 3.4 Consensus size: 31
36328 TTTATTTGGC
36338 CAAATAAGGGCCTAACGTTATTGAAAATGCT
1 CAAATAAGGGCCTAACGTTATTGAAAATGCT
* * * **
36369 CAAATAAGAGCCCGATC-TT-TT-AATTTGAC-
1 CAAATAAG-GGCCTAACGTTATTGAAAATG-CT
*
36398 CAAATAAGGGCCTAACGTTATCGAAAATGCT
1 CAAATAAGGGCCTAACGTTATTGAAAATGCT
36429 CAAATAAGGGCCT
1 CAAATAAGGGCCT
36442 GGCGTAAAAA
Statistics
Matches: 56, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
28 5 0.09
29 14 0.25
30 5 0.09
31 27 0.48
32 5 0.09
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (31 bp):
CAAATAAGGGCCTAACGTTATTGAAAATGCT
Found at i:36576 original size:60 final size:60
Alignment explanation
Indices: 36483--36643 Score: 216
Period size: 60 Copynumber: 2.7 Consensus size: 60
36473 TGACACCAGA
* * *
36483 CCCTTATTTGAACATTTTCGATAACGTTAGGCCCTTGTTTGGCCAAATTAAAAGATCGGG
1 CCCTTATTTGAGCATTTTCGATAACGTTAGGCCCTTATTTGGCCAAATTAAAAGATCGAG
* ** *
36543 CCCTTATTTGAGCATTTTCGGTAACGTTAGGCCCTTATTTGGCCAAATTTTAATATCGAG
1 CCCTTATTTGAGCATTTTCGATAACGTTAGGCCCTTATTTGGCCAAATTAAAAGATCGAG
* **
36603 CCCTTATTTGAGCATTTTGGCA-AATATTAGGCCCTTATTTG
1 CCCTTATTTGAGCATTTTCG-ATAACGTTAGGCCCTTATTTG
36644 AGCAATTAGC
Statistics
Matches: 89, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
60 89 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (60 bp):
CCCTTATTTGAGCATTTTCGATAACGTTAGGCCCTTATTTGGCCAAATTAAAAGATCGAG
Found at i:36907 original size:20 final size:20
Alignment explanation
Indices: 36870--36907 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
36860 TATATATATA
*
36870 TATATATATTATCTTTTGCC
1 TATATATATTATCCTTTGCC
36890 TATATATA-TATGCCTTTG
1 TATATATATTAT-CCTTTG
36908 ATCTTTGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.26, C:0.13, G:0.08, T:0.53
Consensus pattern (20 bp):
TATATATATTATCCTTTGCC
Found at i:40920 original size:1 final size:1
Alignment explanation
Indices: 40880--40906 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
40870 GCGCCGTGAG
40880 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
40907 AATTTCTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:42740 original size:10 final size:10
Alignment explanation
Indices: 42715--42754 Score: 66
Period size: 10 Copynumber: 4.2 Consensus size: 10
42705 CTTCTATAAT
42715 ATCTAAACA-
1 ATCTAAACAC
42724 A-CTAAACAC
1 ATCTAAACAC
42733 ATCTAAACAC
1 ATCTAAACAC
42743 ATCTAAACAC
1 ATCTAAACAC
42753 AT
1 AT
42755 ACCTTAAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
8 7 0.24
9 2 0.07
10 20 0.69
ACGTcount: A:0.53, C:0.28, G:0.00, T:0.20
Consensus pattern (10 bp):
ATCTAAACAC
Found at i:45775 original size:322 final size:327
Alignment explanation
Indices: 44564--46861 Score: 2216
Period size: 322 Copynumber: 7.0 Consensus size: 327
44554 CGATTTCAAC
* *
44564 TAAAATTTTGCAAAAATTGATCCGAAGAATATTTT-CTCAATTTTTGGCCAAAATTCTCATAAAA
1 TAAAATTTTGCAAAAA-T-ATCCGAA-AA-ATTTTCCTCAATTTTTGGCCAAAAATCAC-TAAAA
* *
44628 TATATATAATTCAAAGCCAAAAAGATTG-AAGGGTTTTCACGCTTCTAATATCGTTTTTCCAATT
61 AATATATAATTCAAAGCCAAAAAGATTGAAAGGTTTTTCACGCTTCTAATATCGTTTTTCCAATT
* * * *
44692 TCTTCTGAATTAATTTCAAATTAAATCAAAACATGATT-TGCATGGTCGTAAAAACAAATCCTTA
126 TTTTCTGAATTAATTTCAAATTAAATCGAAACATGATTCAG-ATGCTCGTAAAAACAAATCCTTA
* * * * **
44756 AATCCAAAGTGGCTGAGATTTAGTTAGATGAATATAGATGTTTCAAGAAGTCTTCTTGCCAAAAA
190 AATCCAATGTGGCTGAGATTGAGTTAGATGAATATAGATATTTCAAGGAGTCTTGGTGCCAAAAA
* * *
44821 TCATGCAAAATTGAGAT-GGGGCCACGAAACGTGTTTTTAGCTTAAAACCGTGAT-G-T--T---
255 TCATGCAAAACTGAG-TCGGGGCC-TGAAACGCGTTTTTAGCTTAAAACCGTGATGGATAGTACA
* *
44878 ---TTACGGC
318 CGATTTCGGT
* * *
44885 TAAAATTTTGCAAAAATTGATCCGAAAAATTTTTCCTCAATTTTTGGCCACAATTCTCTTAAAAA
1 TAAAATTTTGCAAAAA-T-ATCCGAAAAA-TTTTCCTCAATTTTTGGCCAAAAATCAC-TAAAAA
* * *
44950 ATATATAATTCAAAGCCAAAAAGATTGAAGGGGTTTTCA-GACTTCTAATATCGTTTTTACAATT
62 ATATATAATTCAAAGCCAAAAAGATTGAAAGGTTTTTCACG-CTTCTAATATCGTTTTTCCAATT
*
45014 TTTTTTCGAATTAATTTCAAATTAAATCGAAACATGATTCAGATGCTCGTAAAAACAAATCCTTA
126 TTTTCT-GAATTAATTTCAAATTAAATCGAAACATGATTCAGATGCTCGTAAAAACAAATCCTTA
* * * ** *
45079 AATCCAATGTGGTTTAGATTTG-GTTAGATGAATATAGATATTTCAAAGAGT-TTTATGTCAAAA
190 AATCCAATGTGGCTGAGA-TTGAGTTAGATGAATATAGATATTTCAAGGAGTCTTGGTGCCAAAA
* *
45142 ATCATGCAAAACTGAGTCGGGGCCTAGAAACACGTTTTTAGCTTAAAACCGTGATGGATAATACA
254 ATCATGCAAAACTGAGTCGGGGCCT-GAAACGCGTTTTTAGCTTAAAACCGTGATGGATAGTACA
**
45207 CGATTTCAAT
318 CGATTTCGGT
* ** * * *
45217 T-AAATTTTGGAAAAATTAATCCGGAAATTTTTTCCTCAATTTTTGGCCACAATTCTCATAAAAA
1 TAAAATTTTGCAAAAA-T-ATCC-GAAAAATTTTCCTCAATTTTTGGCCAAAAATCAC-TAAAAA
* * *
45281 ATATGTAATTCAAAGACAAAAAGATTGAAGGGTTTTTCA-GACTTCTAATATCGTTTTTCCAATT
62 ATATATAATTCAAAGCCAAAAAGATTGAAAGGTTTTTCACG-CTTCTAATATCGTTTTTCCAA--
* * * * *
45345 TTTTTTTCTGAATTAATTTCGAATTAAATAGAAAAATGATTCAAATGCTCGTAAAAACAAATGCT
124 -TTTTTTCTGAATTAATTTCAAATTAAATCGAAACATGATTCAGATGCTCGTAAAAACAAATCCT
* * * *
45410 TAAATCCAAAGTGGCTGAGATTTG-GTCAGATGAATATAAATATTTCAAGGAGTCTTCGTGCCAA
188 TAAATCCAATGTGGCTGAGA-TTGAGTTAGATGAATATAGATATTTCAAGGAGTCTTGGTGCCAA
* * * * *
45474 AAATCATGGAATACTGAGTCGGTGTCCTGAAATGCGTTTTTAGCTTAAAACCGCGATGGATAGTA
252 AAATCATGCAAAACTGAGTCGG-GGCCTGAAACGCGTTTTTAGCTTAAAACCGTGATGGATAGTA
45539 CACGATTTCGGT
316 CACGATTTCGGT
* * * * *
45551 TAAAATTTTAC-GAAA-CT-CGAAATAATTTTCCTCAAATTTTGG-AAAAAAT-ACTAAAAAA-A
1 TAAAATTTTGCAAAAATATCCGAAA-AATTTTCCTCAATTTTTGGCCAAAAATCACTAAAAAATA
* * * ***
45610 -A-ACATTCAACGCCAAAAAGATTGAAAGGCTTTTCACGCTTCTAATATCGTTTATCCAAAACTT
65 TATA-ATTCAAAGCCAAAAAGATTGAAAGGTTTTTCACGCTTCTAATATCGTTTTTCCAATTTTT
* * * * * * *
45673 TCCGAATTAATTTCTATTTAAATCCAATCAAGATTCAGATGCTCGTAAAAACAATTCCTTAAATC
129 TCTGAATTAATTTCAAATTAAATCGAAACATGATTCAGATGCTCGTAAAAACAAATCCTTAAATC
* * * * * *
45738 TAATGTGGCTGTGATTGAGTTAGATGAATATAAATATTTCAAAGTGTCTTGGCGCCAAAAATCAT
194 CAATGTGGCTGAGATTGAGTTAGATGAATATAGATATTTCAAGGAGTCTTGGTGCCAAAAATCAT
* * *
45803 GCAAAACTGAG-CTGGGGCTCCGGAACGCGTTTTTAGC-CAAAAGCCGTGATGGATAGTGA-ACG
259 GCAAAACTGAGTC-GGGGC-CTGAAACGCGTTTTTAGCTTAAAA-CCGTGATGGATAGT-ACACG
45865 ATTTCGGCT
320 ATTTCGG-T
* ** * *
45874 T-AAATTTTGCAAAAATTGATCCGAAAAAGTTTTCCTCAATTTTAGGCCGCAATTGACATAAAAA
1 TAAAATTTTGCAAAAA-T-ATCCGAAAAA-TTTTCCTCAATTTTTGGCCAAAAATCAC-TAAAAA
* * * * * * *
45938 ATATATAATTCAGAGCCAAAACGATTGGAGGGTTTTTTACACTTCTAATATCATTTTTCCAATTT
62 ATATATAATTCAAAGCCAAAAAGATTGAAAGGTTTTTCACGCTTCTAATATCGTTTTTCCAA-TT
* * *
46003 TTTTCTGAATAAATTTCAAATTAAATCGAAACATGATTTAGATGGTCGTAAAAACAAATCCTTAA
126 TTTTCTGAATTAATTTCAAATTAAATCGAAACATGATTCAGATGCTCGTAAAAACAAATCCTTAA
* * * * * * *
46068 ATCCAAAGTGGATGAGTTTTAGTTAGATAAAATATAGATATTTCAAGGAGTCTTGGCGTCAAAAA
191 ATCCAATGTGGCTGAGATTGAGTTAGAT-GAATATAGATATTTCAAGGAGTCTTGGTGCCAAAAA
** ** * * * * * * *
46133 TCATGCAAAACTGAGCTAAGACCCCGGAACACGTTTTTAGCCTAAAAGGCGTGATTGATAATACA
255 TCATGCAAAACTGAG-TCGGGGCCTGAAACGCGTTTTTAGCTTAAAA-CCGTGATGGATAGTACA
*
46198 CGATTTCGGC
318 CGATTTCGGT
* * * * * * * *
46208 TAAAAATTTGCTAAAATTGATCTGAAAAATTCATCTTCAATTTTTGGCCACAATTCACAAAAAAA
1 TAAAATTTTGC-AAAAAT-ATCCGAAAAATT-TTCCTCAATTTTTGGCCAAAAATCACTAAAAAA
* * * *
46273 TATATAATTAAAATCCAAAAAGGTTG-AAGGATTTTTCACGGTTCTAATATCGTTTTTCCAATTT
63 TATATAATTCAAAGCCAAAAAGATTGAAAGG-TTTTTCACGCTTCTAATATCGTTTTTCCAATTT
46337 TTTCTGAATTAATTTCAAATTAAAT-GAAACATGATTCAGATGCTCGTAAAAACAAATCCTTAAA
127 TTTCTGAATTAATTTCAAATTAAATCGAAACATGATTCAGATGCTCGTAAAAACAAATCCTTAAA
* *
46401 TCCAATGTGGCTGAGATTTG-GTTAGATGAATATAGATATTTCAAGGAGTCTTTGTGTCAAAAAT
192 TCCAATGTGGCTGAGA-TTGAGTTAGATGAATATAGATATTTCAAGGAGTCTTGGTGCCAAAAAT
* * * *
46465 CTTGCAAAACTGAGTTGGGGCCTTGAAACGCGTTTTTAGCTTAAAA-TGATGATTGATAGTACAC
256 CATGCAAAACTGAGTCGGGGCC-TGAAACGCGTTTTTAGCTTAAAACCG-TGATGGATAGTACAC
46529 GATTTCGGT
319 GATTTCGGT
* * **
46538 TAAAATTTTGC-GAAATTTGACTCGAAATACCTTTCCTCAATTTTTGG-CAAAAAT-ACTCAAAA
1 TAAAATTTTGCAAAAATAT--C-CGAAA-AATTTTCCTCAATTTTTGGCCAAAAATCACT-AAAA
* * * * * * * * *
46600 AAGA-AAAAATCAATGCCAATAATATTGAAAGGCTTTTCACGCTTCTAATATCGTTTATCCAAAT
61 AATATATAATTCAAAGCCAAAAAGATTGAAAGGTTTTTCACGCTTCTAATATCGTTTTTCCAATT
* * * * * * * * *
46664 TTTTCCGAATCAATTTCTATTTAAATCGAATCAAGATTCAAATGCTCGTAAAAACAATTTCTTAA
126 TTTTCTGAATTAATTTCAAATTAAATCGAAACATGATTCAGATGCTCGTAAAAACAAATCCTTAA
* * * * * *
46729 TTCCAATGTTGCTGGGATTGAGTTAGATGAATATAAATATTTCAAAGTA-TCTTGGCGCCAAAAA
191 ATCCAATGTGGCTGAGATTGAGTTAGATGAATATAGATATTTC-AAGGAGTCTTGGTGCC-AAAA
* * * * * *
46793 ATCATACAAAACTGAG-CTAGGGCTCCGGAATGCGTTTTTAGC-CAAAAGCCGTGATGGATAGTA
254 ATCATGCAAAACTGAGTC-GGGGC-CTGAAACGCGTTTTTAGCTTAAAA-CCGTGATGGATAGTA
*
46856 TACGAT
316 CACGAT
46862 GTGTCTGAGA
Statistics
Matches: 1648, Mismatches: 255, Indels: 139
0.81 0.12 0.07
Matches are distributed among these distances:
319 1 0.00
320 6 0.00
321 92 0.06
322 259 0.16
323 101 0.06
324 5 0.00
325 48 0.03
326 6 0.00
327 28 0.02
328 77 0.05
329 107 0.06
330 133 0.08
331 183 0.11
332 111 0.07
333 207 0.13
334 201 0.12
335 79 0.05
336 4 0.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (327 bp):
TAAAATTTTGCAAAAATATCCGAAAAATTTTCCTCAATTTTTGGCCAAAAATCACTAAAAAATAT
ATAATTCAAAGCCAAAAAGATTGAAAGGTTTTTCACGCTTCTAATATCGTTTTTCCAATTTTTTC
TGAATTAATTTCAAATTAAATCGAAACATGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCA
ATGTGGCTGAGATTGAGTTAGATGAATATAGATATTTCAAGGAGTCTTGGTGCCAAAAATCATGC
AAAACTGAGTCGGGGCCTGAAACGCGTTTTTAGCTTAAAACCGTGATGGATAGTACACGATTTCG
GT
Found at i:45836 original size:656 final size:656
Alignment explanation
Indices: 44547--46861 Score: 2441
Period size: 656 Copynumber: 3.5 Consensus size: 656
44537 ACATATATAG
* *
44547 TAGTATACGATTTCAACTAAAATTTTGCAAAAATTGATCCGAAGAATATTTT-CTCAATTTTTGG
1 TAGTACACGATTTCAA-TTAAATTTTGCAAAAATTGATCCGAA-AATATTTTCCTCAATTTTTGG
*
44611 CCAAAATTCTCATAAAATATATATAATTCAAAGCCAAAAAGATTGAAGGG-TTTTCACGCTTCTA
64 CCAAAATTCTCATAAAAAATATATAATTCAAAGCCAAAAAGATTGAAGGGTTTTTCACGCTTCTA
* * *** *
44675 ATATCGTTTTTCCAATTTCTTCTGAATTAATTTCAAATTAAATCA-AAACATGATTTGCATGGTC
129 ATATCGTTTTTCCAATTTTTTCTGAATTAATTTCAAATTAAAT-AGAAAAATGATTCAAATGCTC
* * *
44739 GTAAAAACAAATCCTTAAATCCAAAGTGGCTGAGATTTAGTTAGATGAATATAGATGTTTCAAGA
193 GTAAAAACAAATCCTTAAATCCAAAGTGGCTGAGATTTAGTTAGATGAATATAAATATTTCAAGG
** * * * * * *
44804 AGTCTTCTTGCCAAAAATCATGCAAAATTGAGATGGGGCCACGAAACGTGTTTTTAGCTTAAAA-
258 AGTCTTCGCGCCAAAAATCATGCAAAACTGAGCTAGGGTC-CGAAATGCGTTTTTAGCTTAAAAG
44868 -C-CG-T-GAT-GT------TTTACGGCTAAAATTTTGCAAAAATTGATCCGAAAAATTTTTCCT
322 CCGCGATGGATAGTACACGATTT-CGGCTAAAATTTTGCAAAAA-T-AT-CGAAAAA-TTTTCCT
* * *
44922 CAATTTTTGGCCACAATTCTCTTAAAAAATATATAATTCAAAGCCAAAAAGATTGAAGGGGTTTT
382 CAATTTTTGGCCACAATTCAC-TAAAAAA-ATATAATTCAAAGCCAAAAAGATTGAAAGGCTTTT
* *
44987 CA-GACTTCTAATATCGTTTTTACAATTTTTTTTCGAATTAATTTCAAATTAAATCGAAACATGA
445 CACG-CTTCTAATATCGTTTTTCCAA-TTTTTTCCGAATTAATTTCAAATTAAATCGAAACATGA
*
45051 TTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGG-TTTAGATTTGGTTAGATGAATATA
508 TTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGT-GATTTGGTTAGATGAATATA
* *
45115 GATATTTCAAAGAGT-TTTATGTCAAAAATCATGCAAAACTGAGTCGGGGCCTAGAAACACGTTT
572 GATATTTCAAAGAGTCTTTGTGTCAAAAATCATGCAAAACTGAGT-GGGGCCTAGAAACGCGTTT
45179 TTAGCTTAAAACCGTGATGGA
636 TTAGCTTAAAACCGTGATGGA
* * * * *
45200 TAATACACGATTTCAATTAAATTTTGGAAAAATTAATCCGGAAATTTTTTCCTCAATTTTTGGCC
1 TAGTACACGATTTCAATTAAATTTTGCAAAAATTGATCCGAAAATATTTTCCTCAATTTTTGGCC
* * *
45265 ACAATTCTCATAAAAAATATGTAATTCAAAGACAAAAAGATTGAAGGGTTTTTCA-GACTTCTAA
66 AAAATTCTCATAAAAAATATATAATTCAAAGCCAAAAAGATTGAAGGGTTTTTCACG-CTTCTAA
*
45329 TATCGTTTTTCCAATTTTTTTTTCTGAATTAATTTCGAATTAAATAGAAAAATGATTCAAATGCT
130 TATCGTTTTTCCAA---TTTTTTCTGAATTAATTTCAAATTAAATAGAAAAATGATTCAAATGCT
* * *
45394 CGTAAAAACAAATGCTTAAATCCAAAGTGGCTGAGATTTGGTCAGATGAATATAAATATTTCAAG
192 CGTAAAAACAAATCCTTAAATCCAAAGTGGCTGAGATTTAGTTAGATGAATATAAATATTTCAAG
* * * *
45459 GAGTCTTCGTGCCAAAAATCATGGAATACTGAG-TCGGTGTCCTGAAATGCGTTTTTAGCTTAAA
257 GAGTCTTCGCGCCAAAAATCATGCAAAACTGAGCTAGG-GTCC-GAAATGCGTTTTTAGCTTAAA
* * * *
45523 A-CCGCGATGGATAGTACACGATTTCGGTTAAAATTTTAC-GAAA-CTCGAAATAATTTTCCTCA
320 AGCCGCGATGGATAGTACACGATTTCGGCTAAAATTTTGCAAAAATATCGAAA-AATTTTCCTCA
* * * * *
45585 AATTTTGG-AAAAAAT-ACTAAAAAAA-A-ACATTCAACGCCAAAAAGATTGAAAGGCTTTTCAC
384 ATTTTTGGCCACAATTCACTAAAAAAATATA-ATTCAAAGCCAAAAAGATTGAAAGGCTTTTCAC
* *** * * * * *
45646 GCTTCTAATATCGTTTATCCAAAACTTTCCGAATTAATTTCTATTTAAATCCAATCAAGATTCAG
448 GCTTCTAATATCGTTTTTCCAATTTTTTCCGAATTAATTTCAAATTAAATCGAAACATGATTCAG
* * *
45711 ATGCTCGTAAAAACAATTCCTTAAATCTAATGTGGCTGTGA-TTGAGTTAGATGAATATAAATAT
513 ATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGTGATTTG-GTTAGATGAATATAGATAT
* * * * * *
45775 TTCAAAGTGTCTTGGCGCCAAAAATCATGCAAAACTGAGCTGGGG-CTCCGGAACGCGTTTTTAG
577 TTCAAAGAGTCTTTGTGTCAAAAATCATGCAAAACTGAG-TGGGGCCT-AGAAACGCGTTTTTAG
*
45839 C-CAAAAGCCGTGATGGA
640 CTTAAAA-CCGTGATGGA
** *
45856 TAGTGA-ACGATTTCGGCTTAAATTTTGCAAAAATTGATCCGAAAA-AGTTTTCCTCAATTTTAG
1 TAGT-ACACGATTTC-AATTAAATTTTGCAAAAATTGATCCGAAAATA-TTTTCCTCAATTTTTG
** ** * * * * *
45919 GCCGCAATTGACATAAAAAATATATAATTCAGAGCCAAAACGATTGGAGGGTTTTTTACACTTCT
63 GCCAAAATTCTCATAAAAAATATATAATTCAAAGCCAAAAAGATTGAAGGGTTTTTCACGCTTCT
* * * * * * *
45984 AATATCATTTTTCCAATTTTTTTCTGAATAAATTTCAAATTAAATCGAAACATGATTTAGATGGT
128 AATATCGTTTTTCCAA-TTTTTTCTGAATTAATTTCAAATTAAATAGAAAAATGATTCAAATGCT
* * * *
46049 CGTAAAAACAAATCCTTAAATCCAAAGTGGATGAGTTTTAGTTAGATAAAATATAGATATTTCAA
192 CGTAAAAACAAATCCTTAAATCCAAAGTGGCTGAGATTTAGTTAGAT-GAATATAAATATTTCAA
* * *** * ** *
46114 GGAGTCTTGGCGTCAAAAATCATGCAAAACTGAGCTAAGACCCCGGAACACGTTTTTAGCCTAAA
256 GGAGTCTTCGCGCCAAAAATCATGCAAAACTGAGCT-AGGGTCCGAAATGCGTTTTTAGCTTAAA
* * * * * * * *
46179 AGGCGTGATTGATAATACACGATTTCGGCTAAAAATTTGCTAAAATTGATCTGAAAAATTCATCT
320 AGCCGCGATGGATAGTACACGATTTCGGCTAAAATTTTGC-AAAAAT-ATC-GAAAAATT-TTCC
* * * * *
46244 TCAATTTTTGGCCACAATTCACAAAAAAATATATAATTAAAATCCAAAAAGGTTG-AAGGATTTT
381 TCAATTTTTGGCCACAATTCACTAAAAAA-ATATAATTCAAAGCCAAAAAGATTGAAAGG-CTTT
* *
46308 TCACGGTTCTAATATCGTTTTTCCAATTTTTTCTGAATTAATTTCAAATTAAAT-GAAACATGAT
444 TCACGCTTCTAATATCGTTTTTCCAATTTTTTCCGAATTAATTTCAAATTAAATCGAAACATGAT
*
46372 TCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGA
509 TCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGTGATTTGGTTAGATGAATATAGA
* * *
46437 TATTTCAAGGAGTCTTTGTGTCAAAAATCTTGCAAAACTGAGTTGGGGCCTTGAAACGCGTTTTT
574 TATTTCAAAGAGTCTTTGTGTCAAAAATCATGCAAAACTGAG-TGGGGCCTAGAAACGCGTTTTT
* *
46502 AGCTTAAAA-TGATGATTGA
638 AGCTTAAAACCG-TGATGGA
** * * *
46521 TAGTACACGATTTCGGTTAAAATTTTGCGAAATTTGA-CTCG-AAATACCTTTCCTCAATTTTTG
1 TAGTACACGATTTCAATT-AAATTTTGCAAAAATTGATC-CGAAAATA-TTTTCCTCAATTTTTG
* * * * * * * *
46584 GCAAAAATACTCA-AAAAAGA-A-A-AAATCAATGCCAATAATATTGAAAGGCTTTTCACGCTTC
63 GCCAAAATTCTCATAAAAA-ATATATAATTCAAAGCCAAAAAGATTGAAGGGTTTTTCACGCTTC
* * * * * * * *
46645 TAATATCGTTTATCCAAATTTTTCCGAATCAATTTCTATTTAAATCGAATCAA-GATTCAAATGC
127 TAATATCGTTTTTCCAATTTTTTCTGAATTAATTTCAAATTAAATAGAA-AAATGATTCAAATGC
* * * * * * *
46709 TCGTAAAAACAATTTCTTAATTCCAATGTTGCTGGGATTGAGTTAGATGAATATAAATATTTCAA
191 TCGTAAAAACAAATCCTTAAATCCAAAGTGGCTGAGATTTAGTTAGATGAATATAAATATTTC-A
* * * * *
46774 AGTA-TCTTGGCGCCAAAAAATCATACAAAACTGAGCTAGGGCTCCGGAATGCGTTTTTAGC-CA
255 AGGAGTCTTCGCGCC-AAAAATCATGCAAAACTGAGCTAGGG-TCCGAAATGCGTTTTTAGCTTA
* *
46837 AAAGCCGTGATGGATAGTATACGAT
318 AAAGCCGCGATGGATAGTACACGAT
46862 GTGTCTGAGA
Statistics
Matches: 1378, Mismatches: 222, Indels: 117
0.80 0.13 0.07
Matches are distributed among these distances:
651 7 0.01
652 81 0.06
653 41 0.03
654 3 0.00
655 192 0.14
656 325 0.24
657 148 0.11
658 10 0.01
659 4 0.00
660 53 0.04
661 144 0.10
662 63 0.05
663 5 0.00
664 23 0.02
665 187 0.14
666 88 0.06
667 4 0.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (656 bp):
TAGTACACGATTTCAATTAAATTTTGCAAAAATTGATCCGAAAATATTTTCCTCAATTTTTGGCC
AAAATTCTCATAAAAAATATATAATTCAAAGCCAAAAAGATTGAAGGGTTTTTCACGCTTCTAAT
ATCGTTTTTCCAATTTTTTCTGAATTAATTTCAAATTAAATAGAAAAATGATTCAAATGCTCGTA
AAAACAAATCCTTAAATCCAAAGTGGCTGAGATTTAGTTAGATGAATATAAATATTTCAAGGAGT
CTTCGCGCCAAAAATCATGCAAAACTGAGCTAGGGTCCGAAATGCGTTTTTAGCTTAAAAGCCGC
GATGGATAGTACACGATTTCGGCTAAAATTTTGCAAAAATATCGAAAAATTTTCCTCAATTTTTG
GCCACAATTCACTAAAAAAATATAATTCAAAGCCAAAAAGATTGAAAGGCTTTTCACGCTTCTAA
TATCGTTTTTCCAATTTTTTCCGAATTAATTTCAAATTAAATCGAAACATGATTCAGATGCTCGT
AAAAACAAATCCTTAAATCCAATGTGGCTGTGATTTGGTTAGATGAATATAGATATTTCAAAGAG
TCTTTGTGTCAAAAATCATGCAAAACTGAGTGGGGCCTAGAAACGCGTTTTTAGCTTAAAACCGT
GATGGA
Found at i:46973 original size:125 final size:127
Alignment explanation
Indices: 46750--46987 Score: 315
Period size: 125 Copynumber: 1.9 Consensus size: 127
46740 CTGGGATTGA
* *
46750 GTTAGATGAATATAAATATTTCAAAGTATCTTGGCGCCAAAAAATCATACAAAACTGAGCTAGGG
1 GTTAGATGAATATAAATATTTCAAAGAATCTTCGCGCCAAAAAATCATACAAAACTGAGCTAGGG
* * * *
46815 CTCCGGAATGCGTTTTTAGCCAAAAGCCGTGAT-GGATAGTATACGATGTGTCTGAGATTTT
66 CCCCGAAATGCGTTTTCAGCCAAAAGCCGTGATGGGAAAGTATACGATGTGTCTGAGATTTT
** *
46876 GTTAGATGAATATAAATATTTC-AAGAAGTCTTCTTGCC-AAAAATCATACAAAACTGAG-TCGG
1 GTTAGATGAATATAAATATTTCAAAGAA-TCTTCGCGCCAAAAAATCATACAAAACTGAGCT-AG
* *
46938 GGCCCCGAAATGCGTTTTCAGCTTAAAA-CGGTGATGGGAAAGTATACGAT
64 GGCCCCGAAATGCGTTTTCAGC-CAAAAGCCGTGATGGGAAAGTATACGAT
46988 TTTGTTTAAA
Statistics
Matches: 97, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
124 1 0.01
125 50 0.52
126 46 0.47
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (127 bp):
GTTAGATGAATATAAATATTTCAAAGAATCTTCGCGCCAAAAAATCATACAAAACTGAGCTAGGG
CCCCGAAATGCGTTTTCAGCCAAAAGCCGTGATGGGAAAGTATACGATGTGTCTGAGATTTT
Found at i:47665 original size:166 final size:167
Alignment explanation
Indices: 47360--47670 Score: 484
Period size: 166 Copynumber: 1.9 Consensus size: 167
47350 ATTTCTCCTC
* * *
47360 AATTTTTGGGCACAATTCTCATAAAAAACTACATAATTCAAAGCCAAAAAGATTGAAGGGTTTTT
1 AATTTTTGGGCACAATTCTCATAAAAAACTACATAATTCAAAGCAAAAAAGATTGAAAGGTTGTT
* * *
47425 CACGCTTCTAATATCGTTTTTCCAATTTTTTCCTGAATTAATTTTGAATTAAATAGAAACATGTA
66 CACGCTTCTAATATCGTTTTCCCAATTTTTTCCTGAATTAATTTCGAATTAAATAGAAACACGTA
47490 CAAATGCTCGTAAAAATTGATCCAGAAAATTTTTCTT
131 CAAATGCTCGTAAAAATTGATCCAGAAAATTTTTCTT
* *
47527 AATTTTT-GGCTACAATTCTCATAAAAAA-TATATAATTCAAAGGAAAAAAGATTGAAAGGTTGT
1 AATTTTTGGGC-ACAATTCTCATAAAAAACTACATAATTCAAAGCAAAAAAGATTGAAAGGTTGT
*
47590 TGACGCTTCTAATATCGTTTTCCCAA-TTTTTCCTGAATTAATTTCGAATTAAATAGAAACACGA
65 TCACGCTTCTAATATCGTTTTCCCAATTTTTTCCTGAATTAATTTCGAATTAAATAGAAACACG-
* *
47654 TTCAGATGCTCGTAAAA
129 TACAAATGCTCGTAAAA
47671 CGAAATCCTT
Statistics
Matches: 131, Mismatches: 11, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
165 35 0.27
166 72 0.55
167 24 0.18
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.35
Consensus pattern (167 bp):
AATTTTTGGGCACAATTCTCATAAAAAACTACATAATTCAAAGCAAAAAAGATTGAAAGGTTGTT
CACGCTTCTAATATCGTTTTCCCAATTTTTTCCTGAATTAATTTCGAATTAAATAGAAACACGTA
CAAATGCTCGTAAAAATTGATCCAGAAAATTTTTCTT
Found at i:47952 original size:497 final size:494
Alignment explanation
Indices: 47005--47981 Score: 1317
Period size: 499 Copynumber: 2.0 Consensus size: 494
46995 AAAATTTTGC
* *
47005 AAAAATTTATCCGAAAAATATTTCCTCAATTTTTGGTTACAATTCACATAAAAATACATAATTCA
1 AAAAATTGATCCGAAAAATATTTCCTCAATTTTTGGCTACAATTCACATAAAAATACATAATTCA
* * * *
47070 AGGCCAAAAAGATTGAAGGGTTTTCAGGCATCTAATATCGTTTTTCCAATTTTTTGAATCAATTT
66 AGGCAAAAAAGATTGAAAGGTTTTCACGCATCTAATATCGTTTTCCCAATTTTTTGAATCAATTT
* * * * * **
47135 CAAATTAAATTGAAACATGACTTAGATGGTAGTAAAATCAAATTCTTAAATCCAATGTGGATGTG
131 CAAATTAAATAGAAACACGACTTAGATGCTAGTAAAATCAAATCCTTAAATCCAAAGTGGATGAA
* * *
47200 ATTTGGTTAGATAACAATAGATATTTCAAGAAGTCTTCTTGCTAAAAATCATGCAAAACTGAGTT
196 ATTTGGTCAGATAACAATAGATATTTCAAGAAGTCTTCATGCAAAAAATCATGCAAAACTGAGTT
* * *
47265 GGGGCCCCGAAACGCGTTTTTAGCTTAAAACCGAGATGGAAAGTACAGGATTTCAGCTAAATTTT
261 GGGGCCCCGAAACGCGTTTTTAGCTTAAAACAGAGATGGAAAGTACA-GATTTCAGCTAAAATTC
* * * * *
47330 TGCAAAAATTGATTCGAATGATTTCTCCTCAATTTTTGGGCACAATTCTCATAAAAAACTACATA
325 TGCAAAAATTGATCCGAATAATTTCTCCTCAATTTTCGGCCACAACTCTCATAAAAAACTACATA
* *
47395 ATTCAAAGCCAAAAAGATTGAAGGGTTTTTCACGCTTCTAATATCGTTTTTCCAATTTTTTCCTG
390 ATTCAAAGCCAAAAAGATTGAAGGGTTTTTCACGATTCTAATATCGTTTTCCCAATTTTTT-CTG
*
47460 AATTAATTTTGAATTAAATAGAAACATGTACAAATGCTCGT
454 AATTAATTTCGAATTAAATAGAAACATGTACAAATGCTCGT
* * * *
47501 AAAAATTGATCC-AGAAAAT-TTTTCTTAATTTTTGGCTACAATTCTCATAAAAAATATATAATT
1 AAAAATTGATCCGA-AAAATATTTCCTCAATTTTTGGCTACAATTCACAT-AAAAATACATAATT
* *
47564 CAAAGG-AAAAAAGATTGAAAGGTTGTTGACGCTTCTAATATCGTTTTCCCAATTTTTCCTGAAT
64 C-AAGGCAAAAAAGATTGAAAGGTT-TTCACGCATCTAATATCGTTTTCCCAATTTTT--TGAAT
* * * *
47628 TAATTTCGAATTAAATAGAAACACGA-TTCAGATGCTCGTAAAA-CGAAATCCTTCAATCCAAAG
125 CAATTTCAAATTAAATAGAAACACGACTT-AGATGCTAGTAAAATC-AAATCCTTAAATCCAAAG
* * *
47691 TGGCTGAAATTTGGTCAGATGAA-TATAGATATTTCAAGGAGTCTTCATGCAAAAAATCATGCAA
188 TGGATGAAATTTGGTCAGAT-AACAATAGATATTTCAAGAAGTCTTCATGCAAAAAATCATGCAA
* * * *
47755 AACTGAGTTGGGGCCTCGAAACGCGTTTTTAGCTTTAAAA-AGTGATGGATAGTAC-GATTTCGG
252 AACTGAGTTGGGGCCCCGAAACGCGTTTTTAGC-TTAAAACAGAGATGGAAAGTACAGATTTCAG
* *
47818 CTAAAATTCTGCAAAAAATTGATCCGGAA-AATTTTTGCTCAATTTTCGGCCACAACTCTCATAA
316 CTAAAATTCTGC-AAAAATTGATCC-GAATAATTTCTCCTCAATTTTCGGCCACAACTCTCATAA
* * *
47882 AAAA-TATATAATTCAGAGCCAAAAAGATTGAAGGGTTTTTCAGGATTCTAATATCGTTTTCCCA
379 AAAACTACATAATTCAAAGCCAAAAAGATTGAAGGGTTTTTCACGATTCTAATATCGTTTTCCCA
47946 ATTTTTTCTGAATTAATTTCGAATTAAATAGAAACA
444 ATTTTTTCTGAATTAATTTCGAATTAAATAGAAACA
47982 CGATTTAGAT
Statistics
Matches: 420, Mismatches: 49, Indels: 24
0.85 0.10 0.05
Matches are distributed among these distances:
495 26 0.06
496 74 0.18
497 111 0.26
498 47 0.11
499 154 0.37
500 8 0.02
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (494 bp):
AAAAATTGATCCGAAAAATATTTCCTCAATTTTTGGCTACAATTCACATAAAAATACATAATTCA
AGGCAAAAAAGATTGAAAGGTTTTCACGCATCTAATATCGTTTTCCCAATTTTTTGAATCAATTT
CAAATTAAATAGAAACACGACTTAGATGCTAGTAAAATCAAATCCTTAAATCCAAAGTGGATGAA
ATTTGGTCAGATAACAATAGATATTTCAAGAAGTCTTCATGCAAAAAATCATGCAAAACTGAGTT
GGGGCCCCGAAACGCGTTTTTAGCTTAAAACAGAGATGGAAAGTACAGATTTCAGCTAAAATTCT
GCAAAAATTGATCCGAATAATTTCTCCTCAATTTTCGGCCACAACTCTCATAAAAAACTACATAA
TTCAAAGCCAAAAAGATTGAAGGGTTTTTCACGATTCTAATATCGTTTTCCCAATTTTTTCTGAA
TTAATTTCGAATTAAATAGAAACATGTACAAATGCTCGT
Found at i:48369 original size:333 final size:328
Alignment explanation
Indices: 47501--48425 Score: 1435
Period size: 331 Copynumber: 2.8 Consensus size: 328
47491 AAATGCTCGT
* * *
47501 AAAAATTGATCCAGAAAATTTTTCTTAATTTTTGGCTACAATTCTCATAAAAAATATATAATTCA
1 AAAAATTGATCCAGAAAATTTTTCTCAATTTTTGGCCACAACTCTCATAAAAAATATATAATTCA
** *
47566 AAGGAAAAAAGATTGAAAGGTTGTTGACGCTTCTAATATCGTTTTCCCAATTTTTCCTGAATTAA
66 AAGCCAAAAAGATTG-AAGGTTTTTGACGCTTCTAATATCGTTTTCCCAATTTTT-CTGAATTAA
* *
47631 TTTCGAATTAAATAGAAACACGATTCAGATGCTCGT-AAAACGAAATCCTTCAATCCAAAGTGGC
129 TTTCGAATTAAATAGAAACACGATTCTGATGCTCGTAAAAAC-AAATCCTTAAATCCAAAGTGGC
*
47695 TGAAATTTGGTCAGATGAATATAGATATTTCAAGGAGTCTTCATGCAAAAAATCATGCAAAACTG
193 TGAAATTTGGTCAGATGAATATAGATATTTCAAGGAGTCTTCGTGCAAAAAATCATGCAAAACTG
** *
47760 AGTTGGGGCCTCGAAACGCGTTTTTAGCTTTAAAAAGTGATGGATAGTACGATTTCGGCTAAAAT
258 AGCCGGGGCCTCGAAACACGTTTTTAGCTTTAAAAAGTGATGGATAGTACGATTTCGGCTAAAAT
47825 TCTGCA
323 TCTGCA
* *
47831 AAAAATTGATCCGGAAAATTTTTGCTCAATTTTCGGCCACAACTCTCATAAAAAATATATAATTC
1 AAAAATTGATCCAGAAAATTTTT-CTCAATTTTTGGCCACAACTCTCATAAAAAATATATAATTC
* * * *
47896 AGAGCCAAAAAGATTGAAGGGTTTTTCAGGATTCTAATATCGTTTTCCCAATTTTTTCTGAATTA
65 AAAGCCAAAAAGATTGAA-GGTTTTTGACGCTTCTAATATCGTTTTCCCAA-TTTTTCTGAATTA
*
47961 ATTTCGAATTAAATAGAAACACGATT-TAGATGCTCGTAAAAACAAATCCTTAAATCCAAAGAGG
128 ATTTCGAATTAAATAGAAACACGATTCT-GATGCTCGTAAAAACAAATCCTTAAATCCAAAGTGG
*
48025 CTGAAATTTGGTCAGATGAATATAGATAATTCAAGGAGTCTTCGTGCAAAAAATCATGCAAAACT
192 CTGAAATTTGGTCAGATGAATATAGATATTTCAAGGAGTCTTCGTGCAAAAAATCATGCAAAACT
48090 GAGCCGGGGCCTCGAAACACGTTTTTAGC-TTAAAAGAGTGATGGATAGTACACGATTTCGGCTA
257 GAGCCGGGGCCTCGAAACACGTTTTTAGCTTTAAAA-AGTGATGGATAGT--ACGATTTCGGCTA
*
48154 AAATTTTGC-
319 AAATTCTGCA
* *
48163 AAAAATTGATTCAGAAAATTTTTCCTCAATTTTTGGCCACAACTCTCATAAAAAATATACAATTC
1 AAAAATTGATCCAGAAAATTTTT-CTCAATTTTTGGCCACAACTCTCATAAAAAATATATAATTC
*
48228 AAAGCCAAAAATATTGAAGGTTTTCTGACGCTTCTAATATCGTTTTTCCCAATATTTTCTGAATT
65 AAAGCCAAAAAGATTGAAGGTTTT-TGACGCTTCTAATATCG-TTTTCCCAAT-TTTTCTGAATT
* *
48293 AATTTCGAATTAAAAAGAAACATGATTCTGATGCTCGTAAAAACAAATCCTTAAATCCAAAGTGG
127 AATTTCGAATTAAATAGAAACACGATTCTGATGCTCGTAAAAACAAATCCTTAAATCCAAAGTGG
* * *
48358 CTGAGATTTGGTCAGATGAATATAAATATTTCAAGGAGTCTTCGTGCAACAAATCATGCAAAACT
192 CTGAAATTTGGTCAGATGAATATAGATATTTCAAGGAGTCTTCGTGCAAAAAATCATGCAAAACT
48423 GAG
257 GAG
48426 TCGAGACCTC
Statistics
Matches: 545, Mismatches: 38, Indels: 21
0.90 0.06 0.03
Matches are distributed among these distances:
330 30 0.06
331 248 0.46
332 101 0.19
333 165 0.30
334 1 0.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (328 bp):
AAAAATTGATCCAGAAAATTTTTCTCAATTTTTGGCCACAACTCTCATAAAAAATATATAATTCA
AAGCCAAAAAGATTGAAGGTTTTTGACGCTTCTAATATCGTTTTCCCAATTTTTCTGAATTAATT
TCGAATTAAATAGAAACACGATTCTGATGCTCGTAAAAACAAATCCTTAAATCCAAAGTGGCTGA
AATTTGGTCAGATGAATATAGATATTTCAAGGAGTCTTCGTGCAAAAAATCATGCAAAACTGAGC
CGGGGCCTCGAAACACGTTTTTAGCTTTAAAAAGTGATGGATAGTACGATTTCGGCTAAAATTCT
GCA
Found at i:48675 original size:296 final size:297
Alignment explanation
Indices: 48139--49715 Score: 978
Period size: 332 Copynumber: 5.0 Consensus size: 297
48129 GATGGATAGT
48139 ACACGATTTCGGCTAAAATTTTGCAAAAATTGATTCAGAAAATTTTTCCTCAATTTTTGGCCACA
1 ACACGATTTCGGCTAAAATTTTGCAAAAATTGATTCAGAAAATTTTTCCTCAATTTTTGGCCACA
*
48204 ACTCTCATAAAAAATATACAATTCAAAGCCAAAAATATTGAAGGTTTTCTGACGCTTCTAATATC
66 ACTCTCATAAAAAATATACAATTCAAAGCCAAAAAGATTGAAGGTTTTC-GACGCTTCTAATATC
* * *
48269 GTTTTTCCCAATATTTTCTGAATTAATTTCGAATTAAAAAGAAACATGATTCTGATGCTCGTAAA
130 GTTTTTCCCAATATTTTCTAAATTAATTTCGAATTAAAAAGAAACACGATTCAGATGCTCGTAAA
*
48334 AACAAATCCTTAAATCCAAAGTGGCTGAGATTTGGTCAGATGAATATAAATATTTCAAGGAGTCT
195 AACAAATCCTTAAATCCAAAGTGGCTGAAATTTGGTCAGATGAATATAAATATTTCAAGGAGTCT
*
48399 TCGTGCAACAAATCATGCAAAACTGAGTCGAGACCTCG
260 TCGTGCAAAAAATCATGCAAAACTGAGTCGAGACCTCG
* * *
48437 ACACGATTTCGGCTATAATTTTGCAAAAATTGA-TCTGGAAAATTTTTGCTCAATTTTTGG-CAC
1 ACACGATTTCGGCTAAAATTTTGCAAAAATTGATTC-AGAAAATTTTTCCTCAATTTTTGGCCAC
* *
48500 AACTCTCATAAAAAATATATAATTCAAAGCCAAAAAGATTGAAGGGATTTTC-AGGCTTCTAATA
65 AACTCTCATAAAAAATATACAATTCAAAGCCAAAAAGATTGAA-GG-TTTTCGACGCTTCTAATA
*
48564 TCG-TTTTCCCAAT-TTATTCTAAATTAATTTCGAATTAAATAGAAACACGATTCAGATGCTCGT
128 TCGTTTTTCCCAATATT-TTCTAAATTAATTTCGAATTAAAAAGAAACACGATTCAGATGCTCGT
* *
48627 AAAAACAAATCCTTAAATCCAAAGTGGTTGAAATTTGGTCAGATGAATATAGATATTTCAAGGAG
192 AAAAACAAATCCTTAAATCCAAAGTGGCTGAAATTTGGTCAGATGAATATAAATATTTCAAGGAG
* * **
48692 TCTTCGTGCAAAAAATCATGCAAAATTGAGTCGGGGTCTCG
257 TCTTCGTGCAAAAAATCATGCAAAACTGAGTCGAGACCTCG
* ** * * * **
48733 AAACGCATTTTTAGCTTAAAAAAGTGATGGATAGTACAATATTTCGGCTATAATTTTGAAAAATA
1 ACACG-A-TTTCGGC-T--AAAA-T--T---T--TGCAAAAATT--G-----ATTCAG-AAAAT-
* *** * ** * **** * * ** *** *
48798 TATTCGGAAAATTTTT-GCTTA-ATTTTTGGCCAAAACTCTA-AA-AAAATATATAATTCAAAGC
44 TTTTC-CTCAATTTTTGGC-CACAACTCTCATAAAAAATATACAATTCAA-AGCCAA---AAAGA
*** * * * * * * ** *
48859 CAAAAAG-ATT-GAAGGGTTTTTCAGGTTTCTATTATCG-TTTTCCCAATTTTTTTCCGAATCAA
103 TTGAAGGTTTTCG-A-CG-CT--------TCTAATATCGTTTTTCCCAA-TATTTTCTAAATTAA
* * *
48921 GTTT-GAATTAAATAGAAACATGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAAAGTGCC
156 -TTTCGAATTAAAAAGAAACACGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAAAGTGGC
* * *
48985 TGAAATTTGGTCAGATGAATATAGATATTTCAAGGAGTCTTCATGCAAAAAATCATGCAAAATTG
220 TGAAATTTGGTCAGATGAATATAAATATTTCAAGGAGTCTTCGTGCAAAAAATCATGCAAAACTG
* **
49050 AGTCGGGGTCTCG
285 AGTCGAGACCTCG
* * * *
49063 AAACGCGTTTTTAGCTTAAAACGGTGATGGATAGTACACGATTTTGGCTAAAATTTTGCAAAAGT
1 --ACACG-----A--TT-------T--CGGCTA--A-A--ATTTT-GC-AAAA-ATTG----A--
* * *
49128 TGATCTGGAAAATTTTTCCTCAATTATTGGCCACAACTCTCATAAAAAATATATAATTCAAAGCC
34 T--TC-AGAAAATTTTTCCTCAATTTTTGGCCACAACTCTCATAAAAAATATACAATTCAAAGCC
* * * * * *
49193 AAAAAGATTGAAGGGTTTTTGACGTTTCTAATAACG-TTTTCCCAATTTTTTCTGAATTAATTTT
96 AAAAAGATTGAA-GGTTTTCGACGCTTCTAATATCGTTTTTCCCAATATTTTCTAAATTAATTTC
* * * * *
49257 GAACTAAATAGAAACATGATTCAGATGCTTGTAAAAACAAATCCTTAAATCCAAAGTGGCTGAGA
160 GAATTAAAAAGAAACACGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAAAGTGGCTGAAA
* * *
49322 TTTGGTGAAATGAATATAAATATTTCAAGGAGTCTTCGTG-AGAAAAATAATGCAAAACTGAGTC
225 TTTGGTCAGATGAATATAAATATTTCAAGGAGTCTTCGTGCA-AAAAATCATGCAAAACTGAGTC
* *
49386 GGTGTCC-CG
289 -GAGACCTCG
* *
49395 AAACGTGTTTTCAGCTTAAAGCCGTGATGGATAATACACGATTTCGGCTAAAATTTTGCAAAAAT
1 ACAC--GATTTC-G------G-C-T-A---A-AAT------TTT--GC---AA--------AAAT
* * * *
49460 TGATCCGGAAAATTTTTCCTCAATTTTTGGCCACAACTGTCATAAAAAATATATAATTCAAAGCC
31 TGATTCAGAAAATTTTTCCTCAATTTTTGGCCACAACTCTCATAAAAAATATACAATTCAAAGCC
* * * *
49525 AAAAATATTGAAGGGTTTTTC-AGGCTTCTAATATCG-TTTTCCCAATTTTTTCTGAATTAATTT
96 AAAAAGATTGAA-GG-TTTTCGACGCTTCTAATATCGTTTTTCCCAATATTTTCTAAATTAATTT
49588 CGAATTAAATAA-AAACACGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAAAGTGGCTGA
159 CGAATTAAA-AAGAAACACGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAAAGTGGCTGA
* * * **
49652 AATATGGTCAGATGAATATAGATATTTCAAGGAGTCTTCATTTAAAAAATCATGCAAAACTGAG
223 AATTTGGTCAGATGAATATAAATATTTCAAGGAGTCTTCGTGCAAAAAATCATGCAAAACTGAG
49716 AAGGGGCCTC
Statistics
Matches: 1010, Mismatches: 148, Indels: 208
0.74 0.11 0.15
Matches are distributed among these distances:
295 2 0.00
296 155 0.15
297 61 0.06
298 61 0.06
299 6 0.01
301 3 0.00
302 1 0.00
304 1 0.00
307 1 0.00
309 7 0.01
311 1 0.00
316 2 0.00
317 9 0.01
318 12 0.01
319 18 0.02
320 4 0.00
321 7 0.01
323 1 0.00
325 5 0.00
326 1 0.00
327 3 0.00
329 18 0.02
330 145 0.14
331 12 0.01
332 360 0.36
333 27 0.03
334 2 0.00
335 1 0.00
336 1 0.00
337 3 0.00
340 4 0.00
341 13 0.01
342 16 0.02
343 23 0.02
344 13 0.01
345 6 0.01
346 3 0.00
347 1 0.00
348 1 0.00
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (297 bp):
ACACGATTTCGGCTAAAATTTTGCAAAAATTGATTCAGAAAATTTTTCCTCAATTTTTGGCCACA
ACTCTCATAAAAAATATACAATTCAAAGCCAAAAAGATTGAAGGTTTTCGACGCTTCTAATATCG
TTTTTCCCAATATTTTCTAAATTAATTTCGAATTAAAAAGAAACACGATTCAGATGCTCGTAAAA
ACAAATCCTTAAATCCAAAGTGGCTGAAATTTGGTCAGATGAATATAAATATTTCAAGGAGTCTT
CGTGCAAAAAATCATGCAAAACTGAGTCGAGACCTCG
Found at i:49356 original size:332 final size:332
Alignment explanation
Indices: 48437--51048 Score: 3825
Period size: 332 Copynumber: 7.9 Consensus size: 332
48427 CGAGACCTCG
* *
48437 ACACGATTTCGGCTATAATTTTGCAAAAATTGATCTGGAAAATTTTTGCTCAATTTTTGG-CACA
1 ACACGATTTCGGCTAAAATTTTGCAAAAATTGATCTGGAAAATTTTTCCTCAATTTTTGGCCACA
*
48501 ACTCTCATAAAAAATATATAATTCAAAGCCAAAAAGATTGAAGGGATTTTCAGGCTTCTAATATC
66 ACTCTCATAAAAAATATATAATTCAAAGCCAAAAAGATTGAAGGGTTTTTCAGGCTTCTAATATC
* * *
48566 GTTTTCCCAATTTATTCTAAATTAATTTCGAATTAAATAGAAACACGATTCAGATGCTCGTAAAA
131 GTTTTCCCAATTTTTTCTGAATTAATTTCGAATTAAATAGAAACATGATTCAGATGCTCGTAAAA
*
48631 ACAAATCCTTAAATCCAAAGTGGTTGAAATTTGGTCAGATGAATATAGATATTTCAAGGAGTCTT
196 ACAAATCCTTAAATCCAAAGTGGCTGAAATTTGGTCAGATGAATATAGATATTTCAAGGAGTCTT
* * *
48696 CGTGCAAAAAATCATGCAAAATTGAGTCGGGGTCTCGAAACGCATTTTTAGCTTAAAAAAGTGAT
261 CGTGCAAAAAATCATGCAAAACTGAGTCGGGGTCTCGAAACGCGTTTTTAGCTTAAAACAGTGAT
48761 GGATAGT
326 GGATAGT
** * * *
48768 ACAATATTTCGGCTATAATTTTG-AAAAATAT-AT-TCGGAAAATTTTTGCTTAATTTTTGGCCA
1 ACACGATTTCGGCTAAAATTTTGCAAAAAT-TGATCT-GGAAAATTTTTCCTCAATTTTTGGCCA
* * *
48830 AAACTCT-A-AAAAAATATATAATTCAAAGCCAAAAAGATTGAAGGGTTTTTCAGGTTTCTATTA
64 CAACTCTCATAAAAAATATATAATTCAAAGCCAAAAAGATTGAAGGGTTTTTCAGGCTTCTAATA
* *
48893 TCGTTTTCCCAATTTTTTTCCGAATCAAGTTT-GAATTAAATAGAAACATGATTCAGATGCTCGT
129 TCGTTTTCCCAA-TTTTTTCTGAATTAA-TTTCGAATTAAATAGAAACATGATTCAGATGCTCGT
*
48957 AAAAACAAATCCTTAAATCCAAAGTGCCTGAAATTTGGTCAGATGAATATAGATATTTCAAGGAG
192 AAAAACAAATCCTTAAATCCAAAGTGGCTGAAATTTGGTCAGATGAATATAGATATTTCAAGGAG
* * *
49022 TCTTCATGCAAAAAATCATGCAAAATTGAGTCGGGGTCTCGAAACGCGTTTTTAGCTTAAAACGG
257 TCTTCGTGCAAAAAATCATGCAAAACTGAGTCGGGGTCTCGAAACGCGTTTTTAGCTTAAAACAG
49087 TGATGGATAGT
322 TGATGGATAGT
* * *
49098 ACACGATTTTGGCTAAAATTTTGCAAAAGTTGATCTGGAAAATTTTTCCTCAATTATTGGCCACA
1 ACACGATTTCGGCTAAAATTTTGCAAAAATTGATCTGGAAAATTTTTCCTCAATTTTTGGCCACA
* * * *
49163 ACTCTCATAAAAAATATATAATTCAAAGCCAAAAAGATTGAAGGGTTTTTGACGTTTCTAATAAC
66 ACTCTCATAAAAAATATATAATTCAAAGCCAAAAAGATTGAAGGGTTTTTCAGGCTTCTAATATC
* * *
49228 GTTTTCCCAATTTTTTCTGAATTAATTTTGAACTAAATAGAAACATGATTCAGATGCTTGTAAAA
131 GTTTTCCCAATTTTTTCTGAATTAATTTCGAATTAAATAGAAACATGATTCAGATGCTCGTAAAA
* * * *
49293 ACAAATCCTTAAATCCAAAGTGGCTGAGATTTGGTGAAATGAATATAAATATTTCAAGGAGTCTT
196 ACAAATCCTTAAATCCAAAGTGGCTGAAATTTGGTCAGATGAATATAGATATTTCAAGGAGTCTT
* * * * * * *
49358 CGTG-AGAAAAATAATGCAAAACTGAGTCGGTGTCCCGAAACGTGTTTTCAGCTTAAAGCCGTGA
261 CGTGCA-AAAAATCATGCAAAACTGAGTCGGGGTCTCGAAACGCGTTTTTAGCTTAAAACAGTGA
*
49422 TGGATAAT
325 TGGATAGT
*
49430 ACACGATTTCGGCTAAAATTTTGCAAAAATTGATCCGGAAAATTTTTCCTCAATTTTTGGCCACA
1 ACACGATTTCGGCTAAAATTTTGCAAAAATTGATCTGGAAAATTTTTCCTCAATTTTTGGCCACA
* *
49495 ACTGTCATAAAAAATATATAATTCAAAGCCAAAAATATTGAAGGGTTTTTCAGGCTTCTAATATC
66 ACTCTCATAAAAAATATATAATTCAAAGCCAAAAAGATTGAAGGGTTTTTCAGGCTTCTAATATC
* *
49560 GTTTTCCCAATTTTTTCTGAATTAATTTCGAATTAAATAAAAACACGATTCAGATGCTCGTAAAA
131 GTTTTCCCAATTTTTTCTGAATTAATTTCGAATTAAATAGAAACATGATTCAGATGCTCGTAAAA
*
49625 ACAAATCCTTAAATCCAAAGTGGCTGAAATATGGTCAGATGAATATAGATATTTCAAGGAGTCTT
196 ACAAATCCTTAAATCCAAAGTGGCTGAAATTTGGTCAGATGAATATAGATATTTCAAGGAGTCTT
* ** ** * *
49690 CATTTAAAAAATCATGCAAAACTGAGAAGGGGCCTCGAAACGCGTTTTTAGCTTAAAATAGTGAT
261 CGTGCAAAAAATCATGCAAAACTGAGTCGGGGTCTCGAAACGCGTTTTTAGCTTAAAACAGTGAT
*
49755 GGATAGA
326 GGATAGT
* * * *
49762 ACAAGATTTCGGCTAAAATTTTGCAAAAATTGATCCT-GAAATTTTTTGCTCAATTTTTGGCCAA
1 ACACGATTTCGGCTAAAATTTTGCAAAAATTGAT-CTGGAAAATTTTTCCTCAATTTTTGGCCAC
49826 AACTCTCATAAAAAATATATAATTCAAAGCCAAAAAGATTGAAGGGTTTTTCAGGCTTCTAATAT
65 AACTCTCATAAAAAATATATAATTCAAAGCCAAAAAGATTGAAGGGTTTTTCAGGCTTCTAATAT
* * *
49891 CGTTTTCCCAATTTTTTTTGAATTCATTTCGAATTAAATAGAAACACGATTCAGATGCTCGTAAA
130 CGTTTTCCCAATTTTTTCTGAATTAATTTCGAATTAAATAGAAACATGATTCAGATGCTCGTAAA
* *
49956 AACAAATCCTTAAATCCAAAGTGGTTGAAATTTGGTCAGATAAATATAGATATTTCAAGGAGTCT
195 AACAAATCCTTAAATCCAAAGTGGCTGAAATTTGGTCAGATGAATATAGATATTTCAAGGAGTCT
* *
50021 TCGTGCAAAAAATCATGCAAAATTGAGTCGGGGTCTCGAAACGCGTTTTTAGCTTAAAAAAGTGA
260 TCGTGCAAAAAATCATGCAAAACTGAGTCGGGGTCTCGAAACGCGTTTTTAGCTTAAAACAGTGA
50086 TGGATAGT
325 TGGATAGT
* * * * ** *
50094 ACACGATTTCGGGTATAATTTTGAAAAAATAT-AT-TCGGAAAACTTTGGCTTAATTTTTGGCCA
1 ACACGATTTCGGCTAAAATTTTGCAAAAAT-TGATCT-GGAAAATTTTTCCTCAATTTTTGGCCA
* * * *
50157 AAACTCT-A-AAAAGAAAATATAATTCAAAGCCAAAAAGATTGAAGGGTTTTTCAGGTTTCTATT
64 CAACTCTCATAAAA-AATATATAATTCAAAGCCAAAAAGATTGAAGGGTTTTTCAGGCTTCTAAT
* * * *
50220 ATCGTTTTTCCAATTTTTTTCCGAATCAAGATT-GAATTAAATAGAAACATGATTCAGATGCTCG
128 ATCGTTTTCCCAA-TTTTTTCTGAATTAA-TTTCGAATTAAATAGAAACATGATTCAGATGCTCG
* *
50284 TAAAAACAAATCCTTAAATCCAAAGTGGCTGAAATTTGGTCAAATAAAAATATAGATATTTCAAG
191 TAAAAACAAATCCTTAAATCCAAAGTGGCTGAAATTTGGTCAGAT--GAATATAGATATTTCAAG
* *
50349 GAGTCATCGTGCAAAAAATCATGCAAAACTGAGTCGGGGCCTCGAAACGCG-TTTTAGCTTAAAA
254 GAGTCTTCGTGCAAAAAATCATGCAAAACTGAGTCGGGGTCTCGAAACGCGTTTTTAGCTTAAAA
*
50413 CCGTGATGGATAGT
319 CAGTGATGGATAGT
* * * *
50427 ACACGATTTCGGCTAAAATTTTACAAAAATTGATATGGTAAATTTTTCCTTAATTTTTGGCCACA
1 ACACGATTTCGGCTAAAATTTTGCAAAAATTGATCTGGAAAATTTTTCCTCAATTTTTGGCCACA
** * * *
50492 ACTCTCATAAAATTTTTTTAATTCAAAGCCAAAAAGATTGAAGGGTTTTTCAGGCTTCTAATAAC
66 ACTCTCATAAAAAATATATAATTCAAAGCCAAAAAGATTGAAGGGTTTTTCAGGCTTCTAATATC
* * *
50557 GTTTTCCCAATTTTTTCGGAATTAATTTTGAACTAAATAGAAACATGATTCAGATGCTCGTAAAA
131 GTTTTCCCAATTTTTTCTGAATTAATTTCGAATTAAATAGAAACATGATTCAGATGCTCGTAAAA
* * * *
50622 ACAAATCCTTCAATCCAAAGTGGCTGAGATTTGGTCAAATGAATATAAATATTTCAAGGAGTCTT
196 ACAAATCCTTAAATCCAAAGTGGCTGAAATTTGGTCAGATGAATATAGATATTTCAAGGAGTCTT
* * * * * * * * *
50687 CAATGAAAAAAATAATGCAAAACTGAGTCGGTGTCCCGAAACGTGTTTTCAGCTTAAAGCCGTGA
261 C-GTGCAAAAAATCATGCAAAACTGAGTCGGGGTCTCGAAACGCGTTTTTAGCTTAAAACAGTGA
* *
50752 TGTA-AAT
325 TGGATAGT
* *
50759 ACACGATTTCGGCTAAAATTTTGCAATAATTGATCAGGAAAATTTTTCCTCAATTTTTGGCCACA
1 ACACGATTTCGGCTAAAATTTTGCAAAAATTGATCTGGAAAATTTTTCCTCAATTTTTGGCCACA
* * *
50824 ACTCGCATAAAAAATATATAATTCAAAGGCAAAAAGATTGAAGGGGTTTTCAGGCTTCTAATATC
66 ACTCTCATAAAAAATATATAATTCAAAGCCAAAAAGATTGAAGGGTTTTTCAGGCTTCTAATATC
* * * *
50889 GTTTTCCCAATTTTTTCTGAATCAATTTCGAATTAAATAGAAAGATGATTCAAATGCTCGAAAAA
131 GTTTTCCCAATTTTTTCTGAATTAATTTCGAATTAAATAGAAACATGATTCAGATGCTCGTAAAA
*
50954 ACAAATCCTTAAATCCAAAGTGGCTGAAATTTGGTCAGATGAATATAGATATTTCAAGAAGTCTT
196 ACAAATCCTTAAATCCAAAGTGGCTGAAATTTGGTCAGATGAATATAGATATTTCAAGGAGTCTT
*
51019 CGTGCAAAAAATCATGTAAAACTGAGTCGG
261 CGTGCAAAAAATCATGCAAAACTGAGTCGG
51049 TGCCTCCGGA
Statistics
Matches: 2052, Mismatches: 200, Indels: 58
0.89 0.09 0.03
Matches are distributed among these distances:
329 65 0.03
330 234 0.11
331 182 0.09
332 1189 0.58
333 256 0.12
334 122 0.06
335 4 0.00
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (332 bp):
ACACGATTTCGGCTAAAATTTTGCAAAAATTGATCTGGAAAATTTTTCCTCAATTTTTGGCCACA
ACTCTCATAAAAAATATATAATTCAAAGCCAAAAAGATTGAAGGGTTTTTCAGGCTTCTAATATC
GTTTTCCCAATTTTTTCTGAATTAATTTCGAATTAAATAGAAACATGATTCAGATGCTCGTAAAA
ACAAATCCTTAAATCCAAAGTGGCTGAAATTTGGTCAGATGAATATAGATATTTCAAGGAGTCTT
CGTGCAAAAAATCATGCAAAACTGAGTCGGGGTCTCGAAACGCGTTTTTAGCTTAAAACAGTGAT
GGATAGT
Found at i:50626 original size:997 final size:996
Alignment explanation
Indices: 48437--51048 Score: 3971
Period size: 997 Copynumber: 2.6 Consensus size: 996
48427 CGAGACCTCG
* *
48437 ACACGATTTCGGCTATAATTTTGCAAAAATTGATCTGGAAAATTTTTGCTCAATTTTTGG-CACA
1 ACACGATTTCGGCTAAAATTTTGCAAAAATTGATCTGGAAAATTTTTCCTCAATTTTTGGCCACA
*
48501 ACTCTCATAAAAAATATATAATTCAAAGCCAAAAAGATTGAAGGGATTTTCAGGCTTCTAATATC
66 ACTCTCATAAAAAATATATAATTCAAAGCCAAAAAGATTGAAGGGTTTTTCAGGCTTCTAATATC
* *
48566 GTTTTCCCAATTTATTCTAAATTAATTTCGAATTAAATAGAAACACGATTCAGATGCTCGTAAAA
131 GTTTTCCCAATTTTTTCTGAATTAATTTCGAATTAAATAGAAACACGATTCAGATGCTCGTAAAA
*
48631 ACAAATCCTTAAATCCAAAGTGGTTGAAATTTGGTCAGATGAATATAGATATTTCAAGGAGTCTT
196 ACAAATCCTTAAATCCAAAGTGGCTGAAATTTGGTCAGATGAATATAGATATTTCAAGGAGTCTT
* * * * *
48696 CGTGCAAAAAATCATGCAAAATTGAGTCGGGGTCTCGAAACGCATTTTTAGCTTAAAAAAGTGAT
261 CATGAAAAAAATCATGCAAAACTGAGTCGGGGCCTCGAAACGCGTTTTTAGCTTAAAAAAGTGAT
* * * * *
48761 GGATAGTACAATATTTCGGCTATAATTTTG-AAAAATAT-ATTCGGAAAATTTTTGCTTAATTTT
326 GGATAGAACAAGATTTCGGCTAAAATTTTGCAAAAAT-TGATCCGGAAAATTTTTGCTCAATTTT
*
48824 TGGCCAAAACTCT-A-AAAAAATATATAATTCAAAGCCAAAAAGATTGAAGGGTTTTTCAGGTTT
390 TGGCCAAAACTCTCATAAAAAATATATAATTCAAAGCCAAAAAGATTGAAGGGTTTTTCAGGCTT
* *
48887 CTATTATCGTTTTCCCAATTTTTTTCCGAATCAAGTTT-GAATTAAATAGAAACATGATTCAGAT
455 CTAATATCGTTTTCCCAATTTTTTT-TGAATCAA-TTTCGAATTAAATAGAAACATGATTCAGAT
*
48951 GCTCGTAAAAACAAATCCTTAAATCCAAAGTGCCTGAAATTTGGTCAGATGAATATAGATATTTC
518 GCTCGTAAAAACAAATCCTTAAATCCAAAGTGGCTGAAATTTGGTCAGATGAATATAGATATTTC
*
49016 AAGGAGTCTTCATGCAAAAAATCATGCAAAATTGAGTCGGGGTCTCGAAACGCGTTTTTAGCTTA
583 AAGGAGTCTTCGTGCAAAAAATCATGCAAAATTGAGTCGGGGTCTCGAAACGCGTTTTTAGCTTA
** * * * * *
49081 AAACGGTGATGGATAGTACACGATTTTGGCTAAAATTTTGCAAAAGTTGATCTGGAAAATTTTTC
648 AAAAAGTGATGGATAGTACACGATTTCGGCTAAAATTTTGAAAAAATTGATCTGGAAAACTTTGC
* *
49146 CTCAATTATTGGCCACAACTCTCATAAAAAATATATAATTCAAAGCCAAAAAGATTGAAGGGTTT
713 CTCAATTATTGGCCAAAACTCTCATAAAAAAAATATAATTCAAAGCCAAAAAGATTGAAGGGTTT
* * * **
49211 TTGACGTTTCTAATAACGTTTTCCCAATTTTTTCTGAATTAATTTTGAACTAAATAGAAACATGA
778 TTCACGTTTCTAATAACGTTTTCCCAATTTTTTCCGAATCAAGATTGAACTAAATAGAAACATGA
* * * *
49276 TTCAGATGCTTGTAAAAACAAATCCTTAAATCCAAAGTGGCTGAGATTTGGTGAAATGAATATAA
843 TTCAGATGCTCGTAAAAACAAATCCTTAAATCCAAAGTGGCTGAAATTTGGTCAAATAAATATAA
* * *
49341 ATATTTCAAGGAGTCTTCGTGAGAAAAATAATGCAAAACTGAGTCGGTGTCCCGAAACGTGTTTT
908 ATATTTCAAGGAGTCATCGTGAGAAAAATAATGCAAAACTGAGTCGGTGGCCCGAAACGCGTTTT
*
49406 CAGCTTAAAGCCGTGATGGATAAT
973 CAGCTTAAAACCGTGATGGATAAT
*
49430 ACACGATTTCGGCTAAAATTTTGCAAAAATTGATCCGGAAAATTTTTCCTCAATTTTTGGCCACA
1 ACACGATTTCGGCTAAAATTTTGCAAAAATTGATCTGGAAAATTTTTCCTCAATTTTTGGCCACA
* *
49495 ACTGTCATAAAAAATATATAATTCAAAGCCAAAAATATTGAAGGGTTTTTCAGGCTTCTAATATC
66 ACTCTCATAAAAAATATATAATTCAAAGCCAAAAAGATTGAAGGGTTTTTCAGGCTTCTAATATC
*
49560 GTTTTCCCAATTTTTTCTGAATTAATTTCGAATTAAATAAAAACACGATTCAGATGCTCGTAAAA
131 GTTTTCCCAATTTTTTCTGAATTAATTTCGAATTAAATAGAAACACGATTCAGATGCTCGTAAAA
*
49625 ACAAATCCTTAAATCCAAAGTGGCTGAAATATGGTCAGATGAATATAGATATTTCAAGGAGTCTT
196 ACAAATCCTTAAATCCAAAGTGGCTGAAATTTGGTCAGATGAATATAGATATTTCAAGGAGTCTT
** ** *
49690 CATTTAAAAAATCATGCAAAACTGAGAAGGGGCCTCGAAACGCGTTTTTAGCTTAAAATAGTGAT
261 CATGAAAAAAATCATGCAAAACTGAGTCGGGGCCTCGAAACGCGTTTTTAGCTTAAAAAAGTGAT
* *
49755 GGATAGAACAAGATTTCGGCTAAAATTTTGCAAAAATTGATCCTGAAATTTTTTGCTCAATTTTT
326 GGATAGAACAAGATTTCGGCTAAAATTTTGCAAAAATTGATCCGGAAAATTTTTGCTCAATTTTT
49820 GGCCAAAACTCTCATAAAAAATATATAATTCAAAGCCAAAAAGATTGAAGGGTTTTTCAGGCTTC
391 GGCCAAAACTCTCATAAAAAATATATAATTCAAAGCCAAAAAGATTGAAGGGTTTTTCAGGCTTC
*
49885 TAATATCGTTTTCCCAATTTTTTTTGAATTC-ATTTCGAATTAAATAGAAACACGATTCAGATGC
456 TAATATCGTTTTCCCAATTTTTTTTGAA-TCAATTTCGAATTAAATAGAAACATGATTCAGATGC
* *
49949 TCGTAAAAACAAATCCTTAAATCCAAAGTGGTTGAAATTTGGTCAGATAAATATAGATATTTCAA
520 TCGTAAAAACAAATCCTTAAATCCAAAGTGGCTGAAATTTGGTCAGATGAATATAGATATTTCAA
50014 GGAGTCTTCGTGCAAAAAATCATGCAAAATTGAGTCGGGGTCTCGAAACGCGTTTTTAGCTTAAA
585 GGAGTCTTCGTGCAAAAAATCATGCAAAATTGAGTCGGGGTCTCGAAACGCGTTTTTAGCTTAAA
* * *
50079 AAAGTGATGGATAGTACACGATTTCGGGTATAATTTTGAAAAAATAT-AT-TCGGAAAACTTTGG
650 AAAGTGATGGATAGTACACGATTTCGGCTAAAATTTTGAAAAAAT-TGATCT-GGAAAACTTTGC
* *
50142 CTTAATTTTTGGCCAAAACTCT-A-AAAAGAAAATATAATTCAAAGCCAAAAAGATTGAAGGGTT
713 CTCAATTATTGGCCAAAACTCTCATAAAA-AAAATATAATTCAAAGCCAAAAAGATTGAAGGGTT
* * * * *
50205 TTTCAGGTTTCTATTATCGTTTTTCCAATTTTTTTCCGAATCAAGATTGAATTAAATAGAAACAT
777 TTTCACGTTTCTAATAACGTTTTCCCAA-TTTTTTCCGAATCAAGATTGAACTAAATAGAAACAT
50270 GATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAAAGTGGCTGAAATTTGGTCAAATAAAAAT
841 GATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAAAGTGGCTGAAATTTGGTCAAAT--AAAT
* *
50335 ATAGATATTTCAAGGAGTCATCGTGCA-AAAAATCATGCAAAACTGAGTCGG-GGCCTCGAAACG
904 ATAAATATTTCAAGGAGTCATCGTG-AGAAAAATAATGCAAAACTGAGTCGGTGGCC-CGAAACG
*
50398 CGTTTT-AGCTTAAAACCGTGATGGATAGT
967 CGTTTTCAGCTTAAAACCGTGATGGATAAT
* * * *
50427 ACACGATTTCGGCTAAAATTTTACAAAAATTGATATGGTAAATTTTTCCTTAATTTTTGGCCACA
1 ACACGATTTCGGCTAAAATTTTGCAAAAATTGATCTGGAAAATTTTTCCTCAATTTTTGGCCACA
** * * *
50492 ACTCTCATAAAATTTTTTTAATTCAAAGCCAAAAAGATTGAAGGGTTTTTCAGGCTTCTAATAAC
66 ACTCTCATAAAAAATATATAATTCAAAGCCAAAAAGATTGAAGGGTTTTTCAGGCTTCTAATATC
* * * *
50557 GTTTTCCCAATTTTTTCGGAATTAATTTTGAACTAAATAGAAACATGATTCAGATGCTCGTAAAA
131 GTTTTCCCAATTTTTTCTGAATTAATTTCGAATTAAATAGAAACACGATTCAGATGCTCGTAAAA
* * * *
50622 ACAAATCCTTCAATCCAAAGTGGCTGAGATTTGGTCAAATGAATATAAATATTTCAAGGAGTCTT
196 ACAAATCCTTAAATCCAAAGTGGCTGAAATTTGGTCAGATGAATATAGATATTTCAAGGAGTCTT
* * * * ***
50687 CAATGAAAAAAATAATGCAAAACTGAGTCGGTGTCC-CGAAACGTGTTTTCAGCTTAAAGCCGTG
261 C-ATGAAAAAAATCATGCAAAACTGAGTCGG-GGCCTCGAAACGCGTTTTTAGCTTAAAAAAGTG
* * * * *
50751 AT-G-TAAATACACGATTTCGGCTAAAATTTTGCAATAATTGATCAGGAAAATTTTTCCTCAATT
324 ATGGATAGA-ACAAGATTTCGGCTAAAATTTTGCAAAAATTGATCCGGAAAATTTTTGCTCAATT
* * * *
50814 TTTGGCCACAACTCGCATAAAAAATATATAATTCAAAGGCAAAAAGATTGAAGGGGTTTTCAGGC
388 TTTGGCCAAAACTCTCATAAAAAATATATAATTCAAAGCCAAAAAGATTGAAGGGTTTTTCAGGC
* * *
50879 TTCTAATATCGTTTTCCCAATTTTTTCTGAATCAATTTCGAATTAAATAGAAAGATGATTCAAAT
453 TTCTAATATCGTTTTCCCAATTTTTTTTGAATCAATTTCGAATTAAATAGAAACATGATTCAGAT
*
50944 GCTCGAAAAAACAAATCCTTAAATCCAAAGTGGCTGAAATTTGGTCAGATGAATATAGATATTTC
518 GCTCGTAAAAACAAATCCTTAAATCCAAAGTGGCTGAAATTTGGTCAGATGAATATAGATATTTC
* * *
51009 AAGAAGTCTTCGTGCAAAAAATCATGTAAAACTGAGTCGG
583 AAGGAGTCTTCGTGCAAAAAATCATGCAAAATTGAGTCGG
51049 TGCCTCCGGA
Statistics
Matches: 1476, Mismatches: 124, Indels: 34
0.90 0.08 0.02
Matches are distributed among these distances:
993 57 0.04
994 279 0.19
995 102 0.07
996 318 0.22
997 606 0.41
998 110 0.07
999 4 0.00
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (996 bp):
ACACGATTTCGGCTAAAATTTTGCAAAAATTGATCTGGAAAATTTTTCCTCAATTTTTGGCCACA
ACTCTCATAAAAAATATATAATTCAAAGCCAAAAAGATTGAAGGGTTTTTCAGGCTTCTAATATC
GTTTTCCCAATTTTTTCTGAATTAATTTCGAATTAAATAGAAACACGATTCAGATGCTCGTAAAA
ACAAATCCTTAAATCCAAAGTGGCTGAAATTTGGTCAGATGAATATAGATATTTCAAGGAGTCTT
CATGAAAAAAATCATGCAAAACTGAGTCGGGGCCTCGAAACGCGTTTTTAGCTTAAAAAAGTGAT
GGATAGAACAAGATTTCGGCTAAAATTTTGCAAAAATTGATCCGGAAAATTTTTGCTCAATTTTT
GGCCAAAACTCTCATAAAAAATATATAATTCAAAGCCAAAAAGATTGAAGGGTTTTTCAGGCTTC
TAATATCGTTTTCCCAATTTTTTTTGAATCAATTTCGAATTAAATAGAAACATGATTCAGATGCT
CGTAAAAACAAATCCTTAAATCCAAAGTGGCTGAAATTTGGTCAGATGAATATAGATATTTCAAG
GAGTCTTCGTGCAAAAAATCATGCAAAATTGAGTCGGGGTCTCGAAACGCGTTTTTAGCTTAAAA
AAGTGATGGATAGTACACGATTTCGGCTAAAATTTTGAAAAAATTGATCTGGAAAACTTTGCCTC
AATTATTGGCCAAAACTCTCATAAAAAAAATATAATTCAAAGCCAAAAAGATTGAAGGGTTTTTC
ACGTTTCTAATAACGTTTTCCCAATTTTTTCCGAATCAAGATTGAACTAAATAGAAACATGATTC
AGATGCTCGTAAAAACAAATCCTTAAATCCAAAGTGGCTGAAATTTGGTCAAATAAATATAAATA
TTTCAAGGAGTCATCGTGAGAAAAATAATGCAAAACTGAGTCGGTGGCCCGAAACGCGTTTTCAG
CTTAAAACCGTGATGGATAAT
Found at i:51259 original size:260 final size:261
Alignment explanation
Indices: 50795--51308 Score: 863
Period size: 260 Copynumber: 2.0 Consensus size: 261
50785 TAATTGATCA
*
50795 GGAAAATTTTTCCTCAATTTTTGGCCACAACTCGCATAAAAAATATATAATTCAAAGGCAAAAAG
1 GGAAAATTTTTCCTCAATTTTTGGCCAAAACTCGCATAAAAAATATATAATTCAAAGGCAAAAAG
50860 ATTGAAGGGGTTTTCAGGCTTCTAATATCGTTTTCCCAATTTTTTCTGAATCAATTTCGAATTAA
66 ATTGAAGGGGTTTTCAGGCTTCTAATATCGTTTTCCCAATTTTTTCTGAATCAATTTCGAATTAA
*
50925 ATAGAAAGATGATTCAAATGCTCGAAAAAACAAATCCTTAAATCCAAAGTGGCTGAAATTTGGTC
131 ATAGAAACATGATTCAAATGCTCGAAAAAACAAATCCTTAAATCCAAAGTGGCTGAAATTTGGTC
* * *
50990 AGATGAATATAGATATTTCAAGAAGTCTTCGTGCAAAAAATCATGTAAAACTGAGTCGGTGCCTC
196 AGATGAATATAGATATTTCAAGAAGACTCCGTGCAAAAAATCATGCAAAACTGAGTCGGTGCCTC
51055 C
261 C
* * *
51056 GGAAAATTTTTGCTCAATTTTTGGCCAAAACTCTCATAAAAAATATATAATTCCAAA-GCCAAAA
1 GGAAAATTTTTCCTCAATTTTTGGCCAAAACTCGCATAAAAAATATATAATT-CAAAGGCAAAAA
* *
51120 GATTGAAGGGTTTTTCAGGCTTCTAATATCGTTTT-CCATATTTTTT-TGAATTAATTTCGAATT
65 GATTGAAGGGGTTTTCAGGCTTCTAATATCGTTTTCCCA-ATTTTTTCTGAATCAATTTCGAATT
* *
51183 AAATAGAAACATGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAAAGTGGCTGAAATTTGG
129 AAATAGAAACATGATTCAAATGCTCGAAAAAACAAATCCTTAAATCCAAAGTGGCTGAAATTTGG
* *
51248 TCAGATGAATATAGATATTTCAAGGAGACTCCGTGCAAAAAATCATGCAAAATTGAGTCGG
194 TCAGATGAATATAGATATTTCAAGAAGACTCCGTGCAAAAAATCATGCAAAACTGAGTCGG
51309 GGCTTCGAAA
Statistics
Matches: 237, Mismatches: 14, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
260 137 0.58
261 96 0.41
262 4 0.02
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.31
Consensus pattern (261 bp):
GGAAAATTTTTCCTCAATTTTTGGCCAAAACTCGCATAAAAAATATATAATTCAAAGGCAAAAAG
ATTGAAGGGGTTTTCAGGCTTCTAATATCGTTTTCCCAATTTTTTCTGAATCAATTTCGAATTAA
ATAGAAACATGATTCAAATGCTCGAAAAAACAAATCCTTAAATCCAAAGTGGCTGAAATTTGGTC
AGATGAATATAGATATTTCAAGAAGACTCCGTGCAAAAAATCATGCAAAACTGAGTCGGTGCCTC
C
Found at i:51593 original size:593 final size:593
Alignment explanation
Indices: 50466--51641 Score: 1817
Period size: 593 Copynumber: 2.0 Consensus size: 593
50456 TTGATATGGT
* * ** * *
50466 AAATTTTTCCTTAATTTTTGGCCACAACTCTCATAAAATTTTTTTAATTCAAAGCCAAAAAGATT
1 AAATTTTTCCTCAATTTTTGGCCAAAACTCTCATAAAAAATATATAATTCAAAGCCAAAAAGATT
*
50531 GAAGGGTTTTTCAGGCTTCTAATAACGTTTTCCCAATTTTTTCGGAATTAATTTTGAACTAAATA
66 GAAGGGTTTTTCAGGCTTCTAATAACGTTTTCCCAATTTTTTCGGAATTAATTTCGAACTAAATA
* *
50596 GAAACATGATTCAGATGCTCGTAAAAACAAATCCTTCAATCCAAAGTGGCTGAGATTTGGTCAAA
131 GAAACATGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAAAGTGGCTGAAATTTGGTCAAA
* *
50661 TGAATATAAATATTTCAAGGAGTCTTCAATGAAAAAAATAATGCAAAACTGAGTCGGTGTCCCGA
196 TGAATATAAATATTTCAAGGAGACTTCAATGAAAAAAATAATGCAAAACTGAGTCGGGGTCCCGA
* * *
50726 AACGTGTTTTCAGCTTAAAGCCGTGATGTAAATACACGATTTCGGCTAAAATTTTGCAATAATTG
261 AACGCGTTTTCAGCTTAAAGCAGTGATGGAAATACACGATTTCGGCTAAAATTTTGCAATAATTG
* *
50791 ATCAGGAAAATTTTTCCTCAATTTTTGGCCACAACTCGCATAAAAAATATATAATTCAAAGGCAA
326 ATCAGGAAAATTTTTCCTCAATTTTTGGCCAAAACTCGCATAAAAAATATATAATTCAAAGCCAA
*
50856 AAAGATTGAAGGGGTTTTCAGGCTTCTAATATCGTTTTCCCAATTTTTTCTGAATCAATTTCGAA
391 AAAGATTGAAGGGGTTTTCAGGCTTCTAATATCGTTTTCCCAATTTTTTCTGAATCAAGTTCGAA
* *
50921 TTAAATAGAAAGATGATTCAAATGCTCGAAAAAACAAATCCTTAAATCCAAAGTGGCTGAAATTT
456 TTAAATAGAAACATGATTCAAATGCTCGAAAAAACAAATCCTTAAATCCAAAGTGCCTGAAATTT
* *
50986 GGTCAGATGAATATAGATATTTCAAGAAGTCTTCGTGCAAAAAATCATGTAAAACTGAGTCGGTG
521 GGTCAGATGAATATAGATATTTCAAGAAGTCTTCGTGCAAAAAATCAAGCAAAACTGAGTCGGTG
51051 CCTCCGGA
586 CCTCCGGA
*
51059 AAATTTTTGCTCAATTTTTGGCCAAAACTCTCATAAAAAATATATAATTCCAAAGCC-AAAAGAT
1 AAATTTTTCCTCAATTTTTGGCCAAAACTCTCATAAAAAATATATAATT-CAAAGCCAAAAAGAT
* * *
51123 TGAAGGGTTTTTCAGGCTTCTAATATCGTTTT-CCATATTTTTT-TGAATTAATTTCGAATTAAA
65 TGAAGGGTTTTTCAGGCTTCTAATAACGTTTTCCCA-ATTTTTTCGGAATTAATTTCGAACTAAA
51186 TAGAAACATGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAAAGTGGCTGAAATTTGGTCA
129 TAGAAACATGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAAAGTGGCTGAAATTTGGTCA
* * ** * * * *
51251 GATGAATATAGATATTTCAAGGAGAC-TCCGTGCAAAAAATCATGCAAAATTGAGTCGGGG-CTT
194 AATGAATATAAATATTTCAAGGAGACTTCAATGAAAAAAATAATGCAAAACTGAGTCGGGGTC-C
* * * * *
51314 CGAAACGCGTTTTTAGCTTTAAA-TAGTGATAGGATAGTATACGATTTTGGCTAAAATTTTGCAA
258 CGAAACGCGTTTTCAGC-TTAAAGCAGTGAT-GGA-AATACACGATTTCGGCTAAAATTTTGCAA
* * *
51378 -ACATTGATCCGGAAAATTTTTGCTCAATTTTTGGCCAAAACTCTCATAAAAAATATATAATTCA
320 TA-ATTGATCAGGAAAATTTTTCCTCAATTTTTGGCCAAAACTCGCATAAAAAATATATAATTCA
* *
51442 AAGCCAAAAAGATTGAAGGGTTTTTCAGGCTTCTAATATCGTTTTCCCAATTTTTTTTGAATCAA
384 AAGCCAAAAAGATTGAAGGGGTTTTCAGGCTTCTAATATCGTTTTCCCAATTTTTTCTGAATCAA
* *
51507 GTTCGAATTAAATAGAAACATGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAAAGTGCCT
449 GTTCGAATTAAATAGAAACATGATTCAAATGCTCGAAAAAACAAATCCTTAAATCCAAAGTGCCT
* *
51572 GAAATTTGGTCAGATGAATATAGATATTTCAAGGAGTCTTCGTGCAAAAAATCAAGCAAAACTTA
514 GAAATTTGGTCAGATGAATATAGATATTTCAAGAAGTCTTCGTGCAAAAAATCAAGCAAAACTGA
51637 GTCGG
579 GTCGG
51642 GGCTTCGAAA
Statistics
Matches: 529, Mismatches: 47, Indels: 14
0.90 0.08 0.02
Matches are distributed among these distances:
590 1 0.00
591 48 0.09
592 114 0.22
593 359 0.68
594 7 0.01
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (593 bp):
AAATTTTTCCTCAATTTTTGGCCAAAACTCTCATAAAAAATATATAATTCAAAGCCAAAAAGATT
GAAGGGTTTTTCAGGCTTCTAATAACGTTTTCCCAATTTTTTCGGAATTAATTTCGAACTAAATA
GAAACATGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAAAGTGGCTGAAATTTGGTCAAA
TGAATATAAATATTTCAAGGAGACTTCAATGAAAAAAATAATGCAAAACTGAGTCGGGGTCCCGA
AACGCGTTTTCAGCTTAAAGCAGTGATGGAAATACACGATTTCGGCTAAAATTTTGCAATAATTG
ATCAGGAAAATTTTTCCTCAATTTTTGGCCAAAACTCGCATAAAAAATATATAATTCAAAGCCAA
AAAGATTGAAGGGGTTTTCAGGCTTCTAATATCGTTTTCCCAATTTTTTCTGAATCAAGTTCGAA
TTAAATAGAAACATGATTCAAATGCTCGAAAAAACAAATCCTTAAATCCAAAGTGCCTGAAATTT
GGTCAGATGAATATAGATATTTCAAGAAGTCTTCGTGCAAAAAATCAAGCAAAACTGAGTCGGTG
CCTCCGGA
Found at i:51683 original size:332 final size:330
Alignment explanation
Indices: 51053--52594 Score: 1878
Period size: 333 Copynumber: 4.6 Consensus size: 330
51043 AGTCGGTGCC
*
51053 TCCGGAAAATTTTTGCTCAATTTTTGGCCAAAACTCTCATAAAAAATATATAATTCCAAAGCC-A
1 TCCGGAAAATTTTTCCTCAATTTTTGGCCAAAACTCTCATAAAAAATATATAATT-CAAAGCCAA
51117 AAAGATTGAAGGGTTTTTCAGGCTTCTAATATCGTTTTCCATATTTTTTTGAATTAATTTCGAAT
65 AAAGATTGAAGGGTTTTTCAGGCTTCTAATATCGTTTTCCAT-TTTTTTTGAATTAATTTCGAAT
51182 TAAATAGAAACATGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAAAGTGGCTGAAATTTG
129 TAAATAGAAACATGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAAAGTGGCTGAAATTTG
* * * *
51247 GTCAGATGAATATAGATATTTCAAGGAGACTCCGTGCAAAAAATCATGCAAAATTGAGTCGGGGC
194 GTCAGATGAATATAGATATTTCAAGGAGTCTTCGTGCAAAAAATCAAGCAAAACTGAGTCGGGGC
* * * * *
51312 TTCGAAACGCGTTTTTAGCTTTAAATAGTGATAGGATAGTATACGATTTTGGCTAAAATTTTGCA
259 CTCGAAACGCGTTTTTAGCTTAAAACAGTGAT-GGATAGTACACGATTTCGGCTAAAATTTTGCA
*
51377 AACATTGA
323 AAAATTGA
*
51385 TCCGGAAAATTTTTGCTCAATTTTTGGCCAAAACTCTCATAAAAAATATATAATTCAAAGCCAAA
1 TCCGGAAAATTTTTCCTCAATTTTTGGCCAAAACTCTCATAAAAAATATATAATTCAAAGCCAAA
* *
51450 AAGATTGAAGGGTTTTTCAGGCTTCTAATATCGTTTTCCCAATTTTTTTTGAATCAAGTTCGAAT
66 AAGATTGAAGGGTTTTTCAGGCTTCTAATATCGTTTT-CC-ATTTTTTTTGAATTAATTTCGAAT
*
51515 TAAATAGAAACATGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAAAGTGCCTGAAATTTG
129 TAAATAGAAACATGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAAAGTGGCTGAAATTTG
*
51580 GTCAGATGAATATAGATATTTCAAGGAGTCTTCGTGCAAAAAATCAAGCAAAACTTAGTCGGGGC
194 GTCAGATGAATATAGATATTTCAAGGAGTCTTCGTGCAAAAAATCAAGCAAAACTGAGTCGGGGC
*
51645 TTCGAAACGCGTTTTTAGCTTAAAACAGTGATGGATAGTACACGATTTCGGCTAAAATTTTGCAA
259 CTCGAAACGCGTTTTTAGCTTAAAACAGTGATGGATAGTACACGATTTCGGCTAAAATTTTGCAA
*
51710 TAATTGA
324 AAATTGA
* * *
51717 TCCGGAAAATTTTTCCACAATTTTTGGCCACAACTCTCATAAAAAATATATAATTCAAAGCCAAT
1 TCCGGAAAATTTTTCCTCAATTTTTGGCCAAAACTCTCATAAAAAATATATAATTCAAAGCCAAA
* * *
51782 AAGATTGAAGGGTTTTTCAGGCTTCTAATATCGTTTTCCCAAGTTTTTTTCGAATCAAGTTCGAA
66 AAGATTGAAGGGTTTTTCAGGCTTCTAATATCGTTTT-CC-A-TTTTTTTTGAATTAATTTCGAA
*
51847 TTAAATAGAAACATGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAAAGTGGCTGAAATAT
128 TTAAATAGAAACATGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAAAGTGGCTGAAATTT
** * *
51912 GGTCAGATGAATATAGATATTTCAAGGAGTCTTCGTTTAAAAAATCATGAAAAACTGAGTCGGGG
193 GGTCAGATGAATATAGATATTTCAAGGAGTCTTCGTGCAAAAAATCAAGCAAAACTGAGTCGGGG
* *
51977 CCTCGAAACGCGTTTTTAGCTTAAAATAGTGAAGGATAGTACACGATTTCGGCTAAAATTTTGCA
258 CCTCGAAACGCGTTTTTAGCTTAAAACAGTGATGGATAGTACACGATTTCGGCTAAAATTTTGCA
52042 AAAATT-A
323 AAAATTGA
* * * * * * * * * * * * *
52049 ACTC-GAAATATTTTTTCCACAATTTTTGGCTAAACCACTTATAGAATATGTTTAATTTAACGTC
1 TC-CGGAAA-A-TTTTTCCTCAATTTTTGGCCAAAACTCTCATAAAAAATATATAATTCAAAGCC
* * * * * **
52113 AATAAGATTGAATGGTTTTTCACGCTTCTAATATCGAATTTCCTATATCTTTCCGAATTAATTTC
63 AAAAAGATTGAAGGGTTTTTCAGGCTTCTAATATCG-TTTTCC-AT-TTTTTTTGAATTAATTTC
* * * * * * * ** *
52178 TAATTCAATCGAAACATGATTCTGACGCTCATAAAATCAAATCCTTAAATCCAATTTGGCTGAGA
125 GAATTAAATAGAAACATGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAAAGTGGCTGAAA
** * * * *
52243 TTTGGTTTGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAAT-AATGCAAAACTGAGCC
190 TTTGGTCAGATGAATATAGATATTTCAAGGAGTCTTCGTGCAAAAAATCAA-GCAAAACTGAGTC
* * * * * ** * *
52307 GGGGCCCCGGAACACCTTTTTGGCCAAAAACCGTGATGGATACTACACGATTTCGGCTAAAATTT
254 GGGGCCTCGAAACGCGTTTTTAGCTTAAAACAGTGATGGATAGTACACGATTTCGGCTAAAATTT
52372 TGCAAAAATTGA
319 TGCAAAAATTGA
* ** *** * * * * *
52384 GCCCAAAAAATTTTTCCTCAATTTTTTAACACAA-TAGTCGTAAAAATTATATAATTCAATG-CA
1 -TCCGGAAAATTTTTCCTCAATTTTTGGCCAAAACT-CTCATAAAAAATATATAATTCAAAGCCA
* * * * * * * *
52447 AAAAGATTAAAAGGCTTTTCACGCTTTTAATATCGTTTTTCC-TATTTTTTGTATTAATTTCTAA
64 AAAAGATTGAAGGGTTTTTCAGGCTTCTAATATCG-TTTTCCATTTTTTTTGAATTAATTTCGAA
* * * * * * * *
52511 TAGAAATCGAAACAAGATTCTGATCCTCGTAAAAACAAGT-CTATAAAT-CAATTGTGGCTGAGA
128 T-TAAATAGAAACATGATTCAGATGCTCGTAAAAACAAATCCT-TAAATCCAA-AGTGGCTGAAA
** *
52574 TTTGGTTTGATAAATATAGAT
190 TTTGGTCAGATGAATATAGAT
Statistics
Matches: 1068, Mismatches: 125, Indels: 35
0.87 0.10 0.03
Matches are distributed among these distances:
330 22 0.02
331 73 0.07
332 239 0.22
333 428 0.40
334 296 0.28
335 6 0.01
336 4 0.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33
Consensus pattern (330 bp):
TCCGGAAAATTTTTCCTCAATTTTTGGCCAAAACTCTCATAAAAAATATATAATTCAAAGCCAAA
AAGATTGAAGGGTTTTTCAGGCTTCTAATATCGTTTTCCATTTTTTTTGAATTAATTTCGAATTA
AATAGAAACATGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAAAGTGGCTGAAATTTGGT
CAGATGAATATAGATATTTCAAGGAGTCTTCGTGCAAAAAATCAAGCAAAACTGAGTCGGGGCCT
CGAAACGCGTTTTTAGCTTAAAACAGTGATGGATAGTACACGATTTCGGCTAAAATTTTGCAAAA
ATTGA
Done.