Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 174 of 290
Found at i:56623007 original size:27 final size:28
Alignment explanation
Indices: 56622954--56623008 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
56622944 ATACTGTAAG
* *
56622954 GGGCTATGGCCCAGATTAATATTGATTT
1 GGGCTAAGGCCCAGATTAATACTGATTT
56622982 GGGCTAAGGCCCAG-TTAACT-CTGATTT
1 GGGCTAAGGCCCAGATTAA-TACTGATTT
56623009 TTGAATAGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 10 0.42
28 14 0.58
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (28 bp):
GGGCTAAGGCCCAGATTAATACTGATTT
Found at i:56627741 original size:26 final size:26
Alignment explanation
Indices: 56627711--56627763 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
56627701 TACTCAAATC
56627711 ATGCAATTTCACATTTTCAAAATATT
1 ATGCAATTTCACATTTTCAAAATATT
56627737 ATGCAATTTCACATTTTCAAAATATT
1 ATGCAATTTCACATTTTCAAAATATT
56627763 A
1 A
56627764 ATATTCACCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.40, C:0.15, G:0.04, T:0.42
Consensus pattern (26 bp):
ATGCAATTTCACATTTTCAAAATATT
Found at i:56628724 original size:27 final size:26
Alignment explanation
Indices: 56628685--56628765 Score: 81
Period size: 27 Copynumber: 3.0 Consensus size: 26
56628675 AGCATGGCTG
* *
56628685 CCAGAACTGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGACAGAGCCA
* *
56628711 CCAGATACAGATATTGGGGCAGAGCCA
1 CCAGA-ACAGATATTGTGACAGAGCCA
* * *
56628738 CCAGAATCAGATAATGTGGCAAAGCCA
1 CCAGAA-CAGATATTGTGACAGAGCCA
56628765 C
1 C
56628766 TTAACAGAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
26 6 0.13
27 40 0.87
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Found at i:56628988 original size:97 final size:98
Alignment explanation
Indices: 56628789--56629024 Score: 339
Period size: 97 Copynumber: 2.4 Consensus size: 98
56628779 TGGCACAGAG
* * * *
56628789 CCATCGATAACGAGTCTATAATCGGCACGAAGCCCACAATATCTATACGAAGGCCACAATAACGA
1 CCATTGATAACGGGTCTATAATCGGCACGAAGCCTACAATATCTATACGAAGCCCACAATAACGA
*
56628854 CACACAACCTTCGGTAACATGATCGACACTCAG
66 CACACAACCTTCGGTAACATGATCGACACTCAA
* *
56628887 CCATTGATAACGGGTCTATAATCGGCACGAAGCCTACAATATC-ATACGAAGCCCACAATAATGG
1 CCATTGATAACGGGTCTATAATCGGCACGAAGCCTACAATATCTATACGAAGCCCACAATAACGA
* * * *
56628951 CGCACAGCCTTCGGTAACATGATTGGCACTCAA
66 CACACAACCTTCGGTAACATGATCGACACTCAA
* * *
56628984 CCATTGATAACAGGTCTATAATTGGCACCAAGCCTACAATA
1 CCATTGATAACGGGTCTATAATCGGCACGAAGCCTACAATA
56629025 ACGGCACACA
Statistics
Matches: 124, Mismatches: 14, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
97 84 0.68
98 40 0.32
ACGTcount: A:0.35, C:0.28, G:0.17, T:0.20
Consensus pattern (98 bp):
CCATTGATAACGGGTCTATAATCGGCACGAAGCCTACAATATCTATACGAAGCCCACAATAACGA
CACACAACCTTCGGTAACATGATCGACACTCAA
Found at i:56629128 original size:27 final size:26
Alignment explanation
Indices: 56629075--56629157 Score: 94
Period size: 27 Copynumber: 3.1 Consensus size: 26
56629065 TTGATCAGTC
* * *
56629075 AACAAATATTGTGACAAAGTCACCAG
1 AACAGATATTGTGGCAAAGCCACCAG
* *
56629101 ATACAGATATTGTGGCAGAGCCATCAG
1 A-ACAGATATTGTGGCAAAGCCACCAG
*
56629128 AACAGATACTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAAAGCCACCAG
56629155 AAC
1 AAC
56629158 GCTTCCTCCA
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
26 8 0.17
27 40 0.83
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAAAGCCACCAG
Found at i:56629377 original size:27 final size:27
Alignment explanation
Indices: 56629345--56629433 Score: 90
Period size: 27 Copynumber: 3.3 Consensus size: 27
56629335 TTGCCCACAA
56629345 GGGCAAAACAGTCATTTAACACCATAG
1 GGGCAAAACAGTCATTTAACACCATAG
* * * * * *
56629372 GGGCAAAA-TGATAATTTTACCCCACAA
1 GGGCAAAACAG-TCATTTAACACCATAG
*
56629399 GGGCAAAACAGTCATTTAACACCCTAG
1 GGGCAAAACAGTCATTTAACACCATAG
*
56629426 GGGAAAAA
1 GGGCAAAA
56629434 TGGTAATTTT
Statistics
Matches: 46, Mismatches: 14, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
26 1 0.02
27 44 0.96
28 1 0.02
ACGTcount: A:0.42, C:0.21, G:0.19, T:0.18
Consensus pattern (27 bp):
GGGCAAAACAGTCATTTAACACCATAG
Found at i:56629420 original size:54 final size:54
Alignment explanation
Indices: 56629338--56629455 Score: 209
Period size: 54 Copynumber: 2.2 Consensus size: 54
56629328 CAGTCACTTG
*
56629338 CCCACAAGGGCAAAACAGTCATTTAACACCATAGGGGCAAAATGATAATTTTAC
1 CCCACAAGGGCAAAACAGTCATTTAACACCATAGGGGAAAAATGATAATTTTAC
* *
56629392 CCCACAAGGGCAAAACAGTCATTTAACACCCTAGGGGAAAAATGGTAATTTTAC
1 CCCACAAGGGCAAAACAGTCATTTAACACCATAGGGGAAAAATGATAATTTTAC
56629446 CCCACAAGGG
1 CCCACAAGGG
56629456 TATCTCGGTA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 61 1.00
ACGTcount: A:0.39, C:0.24, G:0.19, T:0.19
Consensus pattern (54 bp):
CCCACAAGGGCAAAACAGTCATTTAACACCATAGGGGAAAAATGATAATTTTAC
Found at i:56629442 original size:27 final size:27
Alignment explanation
Indices: 56629358--56629442 Score: 66
Period size: 27 Copynumber: 3.1 Consensus size: 27
56629348 CAAAACAGTC
* * *
56629358 ATTTAACACCATAGGGGCAAAATGATA
1 ATTTAACACCCTAGGGGAAAAATGGTA
* * * * *
56629385 ATTTTACCCCACAAGGGCAAAACA--GTC
1 ATTTAACACC-CTAGGGGAAAA-ATGGTA
56629412 ATTTAACACCCTAGGGGAAAAATGGTA
1 ATTTAACACCCTAGGGGAAAAATGGTA
56629439 ATTT
1 ATTT
56629443 TACCCCACAA
Statistics
Matches: 41, Mismatches: 13, Indels: 8
0.66 0.21 0.13
Matches are distributed among these distances:
25 1 0.02
26 9 0.22
27 23 0.56
28 7 0.17
29 1 0.02
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.24
Consensus pattern (27 bp):
ATTTAACACCCTAGGGGAAAAATGGTA
Found at i:56629465 original size:27 final size:27
Alignment explanation
Indices: 56629435--56629738 Score: 374
Period size: 27 Copynumber: 11.3 Consensus size: 27
56629425 GGGGAAAAAT
* * * *
56629435 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
56629462 GGTAATTCTACCCCACAGGGGTGTTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
56629489 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
56629516 GATAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
56629543 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
56629570 GGTAATTCTACCTTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
56629597 AGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
56629624 GATAATTCTACCTTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
56629651 AGTAATTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
56629678 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
56629705 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
56629732 AGTAATT
1 GGTAATT
56629739 TTACAAATCG
Statistics
Matches: 243, Mismatches: 34, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 243 1.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:56629752 original size:27 final size:27
Alignment explanation
Indices: 56629722--56629901 Score: 145
Period size: 27 Copynumber: 6.7 Consensus size: 27
56629712 CTACCCTACA
56629722 AGGGTATTTCAGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
56629749 AGGGTATTTCAATAATTTTGCAAA-CTG
1 AGGGTATTTCAGTAATTTTACAAATC-G
**
56629776 AGGGTATTTTGGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * *
56629803 AAGGTATTTCAGTAATTTTAC-TATTG
1 AGGGTATTTCAGTAATTTTACAAATCG
** * * *
56629829 ACAGTATTTC-GATAAATTTATAAACCG
1 AGGGTATTTCAG-TAATTTTACAAATCG
* * * * *
56629856 GGGGAACTTT-GGTAATTTTACAACTAG
1 AGGGTA-TTTCAGTAATTTTACAAATCG
56629883 -GGGTATTTCAGTAATTTTA
1 AGGGTATTTCAGTAATTTTA
56629902 GTAAACTAAA
Statistics
Matches: 117, Mismatches: 29, Indels: 15
0.73 0.18 0.09
Matches are distributed among these distances:
25 4 0.03
26 32 0.27
27 76 0.65
28 5 0.04
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTACAAATCG
Found at i:56629753 original size:54 final size:53
Alignment explanation
Indices: 56629436--56629819 Score: 285
Period size: 54 Copynumber: 7.1 Consensus size: 53
56629426 GGGAAAAATG
* * * * *
56629436 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCCA-C-AGGGGTGTTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTA--CAATCGA-GGGTATTTCA
* * **
56629490 GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCTTAC-AGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACAAT-CGA-GGGTATTTCA
* * * *
56629544 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTATAG-GGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTA-C-AATCGAGGGTATTTCA
* * * * * *
56629598 GTAATTCTACCTTACAGGGGTATTTCGATAATTCTACCTTATAG-GGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTA-C-AATCGAGGGTATTTCA
* * ** * *
56629652 GTAATTCTACCCTACAAGGGTATTTTGGTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACAAT-CGAGGGTATTTCA
* *
56629706 GTAATTCTACCCTACAAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTAC-AATCGAGGGTATTTCA
* ** ** * * * *
56629760 ATAATT-TTGCAAACTGAGGGTATTTTGGTAATTTTACAAATCGAAGGTATTTCA
1 GTAATTCTACCCTAC-AAGGGTATTTCGGTAATTCTAC-AATCGAGGGTATTTCA
56629814 GTAATT
1 GTAATT
56629820 TTACTATTGA
Statistics
Matches: 278, Mismatches: 43, Indels: 18
0.82 0.13 0.05
Matches are distributed among these distances:
52 3 0.01
53 5 0.02
54 267 0.96
55 2 0.01
56 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (53 bp):
GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACAATCGAGGGTATTTCA
Found at i:56650789 original size:39 final size:39
Alignment explanation
Indices: 56650746--56650873 Score: 175
Period size: 39 Copynumber: 3.3 Consensus size: 39
56650736 GGTCTTTAAC
* *
56650746 CCGGATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGT
1 CCGGATATTTTTCCAGCACATAGCCTGCGGACCTCATGT
* * * *
56650785 CCGGATATATTTCTAGCATATAGCCTGCGGACCTCATGC
1 CCGGATATTTTTCCAGCACATAGCCTGCGGACCTCATGT
**
56650824 CCGGATATTTTTCCAGCACATAATCTGCGGACCTCATGT
1 CCGGATATTTTTCCAGCACATAGCCTGCGGACCTCATGT
*
56650863 CTGGATATTTT
1 CCGGATATTTT
56650874 CAATCTCATA
Statistics
Matches: 76, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 76 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.30
Consensus pattern (39 bp):
CCGGATATTTTTCCAGCACATAGCCTGCGGACCTCATGT
Found at i:56660190 original size:80 final size:80
Alignment explanation
Indices: 56660052--56660302 Score: 405
Period size: 80 Copynumber: 3.1 Consensus size: 80
56660042 ATTTGAATGA
* *
56660052 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCTGGGTTAAGTCCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAA
56660117 TTGTGCTAGTGATTT
66 TTGTGCTAGTGATTT
*
56660132 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGCTATACCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAA
56660197 TTGTGCTAGTGATTT
66 TTGTGCTAGTGATTT
* * * *
56660212 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAA
* * *
56660277 TTGTGCTTGTGGTTA
66 TTGTGCTAGTGATTT
56660292 TATCC-GGCTAA
1 TATCCGGGCTAA
56660303 ATTCCGAAGA
Statistics
Matches: 160, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
79 6 0.04
80 154 0.96
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAA
TTGTGCTAGTGATTT
Found at i:56660294 original size:40 final size:40
Alignment explanation
Indices: 56660051--56660302 Score: 292
Period size: 40 Copynumber: 6.3 Consensus size: 40
56660041 CATTTGAATG
* *
56660051 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTT
* * * * *
56660091 ATA-CCTGGGTTAAGTCCCGAAGGCAATTGTGCTAGTGATT
1 ATATCC-GGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTT
* * * *
56660131 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTT
* * * * *
56660171 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTT
* * *
56660211 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTT
**
56660251 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTT
56660291 ATATCC-GGCTAA
1 ATATCCGGGCTAA
56660303 ATTCCGAAGA
Statistics
Matches: 172, Mismatches: 38, Indels: 5
0.80 0.18 0.02
Matches are distributed among these distances:
39 8 0.05
40 162 0.94
41 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTT
Found at i:56662166 original size:41 final size:39
Alignment explanation
Indices: 56662053--56662182 Score: 197
Period size: 39 Copynumber: 3.3 Consensus size: 39
56662043 GGTCTTTAAC
** *
56662053 CCGGATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
* *
56662092 CCGGATATATTTCTAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
56662131 CCGGATATTTTTCCAGCATATATAGCCTGCGGACCTCATGT
1 CCGGATATTTTTCCAGC--ATATAGCCTGCGGACCTCATGT
56662172 CCGGATATTTT
1 CCGGATATTTT
56662183 CAATCTCATA
Statistics
Matches: 82, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
39 49 0.60
41 33 0.40
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.31
Consensus pattern (39 bp):
CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
Found at i:56665167 original size:21 final size:20
Alignment explanation
Indices: 56665125--56665179 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
56665115 AGCTCTAATC
* *
56665125 AGCTCACTTGAACTTGATTT
1 AGCTCATTTGAGCTTGATTT
*
56665145 AGCTCCTTTGAGCTTGAATTT
1 AGCTCATTTGAGCTTG-ATTT
*
56665166 AGCTCATTTCAGCT
1 AGCTCATTTGAGCT
56665180 CATTTCTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 13 0.45
21 16 0.55
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.40
Consensus pattern (20 bp):
AGCTCATTTGAGCTTGATTT
Found at i:56671532 original size:47 final size:47
Alignment explanation
Indices: 56671478--56671832 Score: 602
Period size: 47 Copynumber: 7.5 Consensus size: 47
56671468 TATTTGAATA
*
56671478 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGTTG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
56671525 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
56671574 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
56671621 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
56671668 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
56671715 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
56671762 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
56671809 GATGTGAAAGTGTATAAATGTGAT
1 AATGTGAAAGTGTATATATGTGAT
56671833 GAGTCCCGAA
Statistics
Matches: 294, Mismatches: 12, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 248 0.84
49 46 0.16
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:56674282 original size:38 final size:38
Alignment explanation
Indices: 56674218--56674292 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
56674208 AATCCGAGTT
*
56674218 TAAAGACCCGCTGACTATATGAAGAGATTATGTCCGGG
1 TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
* *
56674256 TAAAGACCCGATGGCTATGT-ACAGAGATTATGTCCGG
1 TAAAGACCCGATGACTATATGA-AGAGATTATGTCCGG
56674293 ATTAAAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (38 bp):
TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
Found at i:56674408 original size:40 final size:40
Alignment explanation
Indices: 56674346--56674586 Score: 331
Period size: 40 Copynumber: 6.0 Consensus size: 40
56674336 AGGTCTCGAC
*
56674346 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
56674385 GATGTATTCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* *
56674425 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
56674465 GATATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * ** *
56674505 GATGTATCCGGGCTAAGTTCTGAAGAGCATTTGTGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * * * * *
56674545 GTTATATCCGGGCTAGGTCCCAAAGAGCAATCATGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
56674585 GA
1 GA
56674587 CGTGTATTCG
Statistics
Matches: 177, Mismatches: 24, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
39 4 0.02
40 173 0.98
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
Found at i:56674483 original size:80 final size:80
Alignment explanation
Indices: 56674346--56674586 Score: 376
Period size: 80 Copynumber: 3.0 Consensus size: 80
56674336 AGGTCTCGAC
* * *
56674346 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATTCGGGCTAAGTCCCGAAG
1 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAG
56674410 AGCATTCATGCTAGT
66 AGCATTCATGCTAGT
56674425 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAG
1 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAG
56674490 AGCATTCATGCTAGT
66 AGCATTCATGCTAGT
* * * * * *
56674505 GATGTATCCGGGCTAAGTTCTGAAGAGCATTTGTGCTGGTGTTATATCCGGGCTAGGTCCCAAAG
1 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAG
* *
56674570 AGCAATCATGCTGGT
66 AGCATTCATGCTAGT
56674585 GA
1 GA
56674587 CGTGTATTCG
Statistics
Matches: 150, Mismatches: 11, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
79 4 0.03
80 146 0.97
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (80 bp):
GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAG
AGCATTCATGCTAGT
Found at i:56677233 original size:47 final size:47
Alignment explanation
Indices: 56677179--56677627 Score: 781
Period size: 47 Copynumber: 9.5 Consensus size: 47
56677169 TATTTGAATA
*
56677179 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
56677226 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
56677275 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
56677322 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
56677369 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
56677416 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
56677463 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
56677510 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
56677557 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
56677604 GATGTGAAAGTGTATAAATGTGAT
1 AATGTGAAAGTGTATATATGTGAT
56677628 GAGTCCCGAA
Statistics
Matches: 386, Mismatches: 14, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
47 340 0.88
49 46 0.12
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:56686187 original size:48 final size:42
Alignment explanation
Indices: 56686148--56686357 Score: 145
Period size: 42 Copynumber: 4.7 Consensus size: 42
56686138 ATGTCAGTAC
56686148 CGATGCCATGTCCCAGACATGGTCTTACAC-AAGACCTCATAT
1 CGATGCCATGTCCCAGACATGGTCTTACACGAA-ACCTCATAT
* * *
56686190 TGATGCCATGTCCTAGACATGGTCTTACACGAAATCTCATAT
1 CGATGCCATGTCCCAGACATGGTCTTACACGAAACCTCATAT
* * * * * * * *
56686232 CAACGCCATATCCCAGATATAGTCTTACATGAAATCACATACTGT
1 CGATGCCATGTCCCAGACATGGTCTTACACGAAACCTCATA---T
* * * *
56686277 GGCTGATGCCATATCCCAGATATGGTCTTACACTGGCACACAT-ATCAAT
1 --C-GATGCCATGTCCCAGACATGGTCTTACAC--G-AAACCTCAT--AT
56686326 GACGATGCCATGTCCCAGACATGGTCTTACAC
1 --CGATGCCATGTCCCAGACATGGTCTTACAC
56686358 TGGTTCTCAC
Statistics
Matches: 133, Mismatches: 23, Indels: 18
0.76 0.13 0.10
Matches are distributed among these distances:
42 68 0.51
43 2 0.02
45 1 0.01
47 1 0.01
48 52 0.39
49 3 0.02
50 3 0.02
51 2 0.02
52 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (42 bp):
CGATGCCATGTCCCAGACATGGTCTTACACGAAACCTCATAT
Found at i:56686229 original size:42 final size:42
Alignment explanation
Indices: 56686110--56686357 Score: 167
Period size: 48 Copynumber: 5.5 Consensus size: 42
56686100 ACTAATGATA
* *
56686110 TCCCAGATATGGTCTTATACGAAATCTCATGTCAGTACCGATGCCATG
1 TCCCAGACATGGTCTTACACGAAATCTCA--T-A-T--CGATGCCATG
* *
56686158 TCCCAGACATGGTCTTACAC-AAGACCTCATATTGATGCCATG
1 TCCCAGACATGGTCTTACACGAA-ATCTCATATCGATGCCATG
* * * *
56686200 TCCTAGACATGGTCTTACACGAAATCTCATATCAACGCCATA
1 TCCCAGACATGGTCTTACACGAAATCTCATATCGATGCCATG
* * * * *
56686242 TCCCAGATATAGTCTTACATGAAATCACATACTGTGGCTGATGCCATA
1 TCCCAGACATGGTCTTACACGAAATCTCATA---T--C-GATGCCATG
* *
56686290 TCCCAGATATGGTCTTACACTGGCACACATATCA-ATGACGATGCCATG
1 TCCCAGACATGGTCTTACAC--G-A-A-ATCTCATAT--CGATGCCATG
56686338 TCCCAGACATGGTCTTACAC
1 TCCCAGACATGGTCTTACAC
56686358 TGGTTCTCAC
Statistics
Matches: 163, Mismatches: 24, Indels: 26
0.77 0.11 0.12
Matches are distributed among these distances:
42 68 0.42
43 2 0.01
44 1 0.01
45 2 0.01
46 1 0.01
47 3 0.02
48 75 0.46
49 3 0.02
50 1 0.01
51 1 0.01
52 2 0.01
53 4 0.02
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACACGAAATCTCATATCGATGCCATG
Found at i:56693526 original size:131 final size:131
Alignment explanation
Indices: 56693286--56693537 Score: 405
Period size: 131 Copynumber: 1.9 Consensus size: 131
56693276 ATTCATTCAA
* *
56693286 AAATTCTTCAAAATGAAGACGAGATTCGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTT
1 AAATTCTTCAAAATGAAGACGAGATTCGATATTTAGCAATTCGCGGAATCGTGCCCTAACGTGTT
* * *
56693351 CGGTTGCAATTTCGTGTTTGCTCAAAGTAATCGAATATCACTTCAAAATTTCATTCGTGTCTTTT
66 CGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATAACACTTCAAAATTTCATTCGTGTCTTTT
56693416 G
131 G
* * *
56693417 AAATTCTTCAAAATGAAGACGAGGTTTGATATTTAGCAATTCGCGGAATCGTGCTCTAACGTGTT
1 AAATTCTTCAAAATGAAGACGAGATTCGATATTTAGCAATTCGCGGAATCGTGCCCTAACGTGTT
* * *
56693482 GGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAGTAACCCTTCAAAATTTCATTC
66 CGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATAACACTTCAAAATTTCATTC
56693538 ATATCTTCTA
Statistics
Matches: 110, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
131 110 1.00
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.34
Consensus pattern (131 bp):
AAATTCTTCAAAATGAAGACGAGATTCGATATTTAGCAATTCGCGGAATCGTGCCCTAACGTGTT
CGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATAACACTTCAAAATTTCATTCGTGTCTTTT
G
Found at i:56693597 original size:131 final size:131
Alignment explanation
Indices: 56693284--56693639 Score: 347
Period size: 131 Copynumber: 2.7 Consensus size: 131
56693274 TCATTCATTC
* * * * * *
56693284 AAAAATTCTTCAAAATGAAGACGAGATTCGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTG
1 AAAAATTATTCAAAACGAAGACAACATTCGACGTTTGACAATTCGCGGAATCGTGCCCTAACGTG
* * * * * *
56693349 TTCGGTTGCAATTTCGTGTTTGCTCAAAGTAATCGAATATCACTTCAAAATTTCATTCGTGTCTT
66 TTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATAACACTTCAAAATTTCATTCATATCTT
56693414 T
131 T
** * * * ** * ** *
56693415 TGAAATTCTTCAAAATGAAGACGAGGTTTGATATTT-AGCAATTCGCGGAATCGTGCTCTAACGT
1 AAAAATTATTCAAAACGAAGACAACATTCGACGTTTGA-CAATTCGCGGAATCGTGCCCTAACGT
* *
56693479 GTTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAGTAACCCTTCAAAATTTCATTCATATCT
65 GTTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATAACACTTCAAAATTTCATTCATATCT
56693544 TCT
130 T-T
* ** * * * *
56693547 AAAAATTATTTAAAACGAAGGTAACATTCGGCGTTTGACAATTCG-AGAATCATGCCCTATCGTG
1 AAAAATTATTCAAAACGAAGACAACATTCGACGTTTGACAATTCGCGGAATCGTGCCCTAACGTG
* * * * *
56693611 CTGGGTTGCGATTTCTCATTTGTTCAAAA
66 TTGGGTTGCAATTTCGCGTTTGCTCAAAA
56693640 CGATCGAACA
Statistics
Matches: 184, Mismatches: 38, Indels: 6
0.81 0.17 0.03
Matches are distributed among these distances:
131 153 0.83
132 30 0.16
133 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (131 bp):
AAAAATTATTCAAAACGAAGACAACATTCGACGTTTGACAATTCGCGGAATCGTGCCCTAACGTG
TTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATAACACTTCAAAATTTCATTCATATCTT
T
Found at i:56705779 original size:133 final size:133
Alignment explanation
Indices: 56705487--56705849 Score: 478
Period size: 133 Copynumber: 2.7 Consensus size: 133
56705477 AGCAAGATGA
* * * *
56705487 CGAATCTTGGCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGTCACTAACCTAACTCCCTAAAGTT
1 CGAATCTAGGCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTT
* * *
56705552 GTAGTGGAGTAGGC-TAAAATTTTAGGTCTCGTTTCCCTGAAGTTGCAGTGGAGCAGATCAAAGA
66 GTAGTGGAGTAGGCTTAAAATTGTAGATCTCGTTTCCCTGAAGTTGCAGTGGAACAGATCAAAGA
56705616 CGG
131 CGG
* * * *
56705619 CAAATCTAGGCTTCCTGAAGTTGCAGTGAGGCGGATTTAAGCCACCAACCTAGCTCCCTAAGGTT
1 CGAATCTAGGCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTT
* * * * *
56705684 GTAGTAGAGTAGGCTTAGAATTGTAGATTTTGTTTCCTTG-AGATTGCAGTGGAACAGATCAAAG
66 GTAGTGGAGTAGGCTTAAAATTGTAGATCTCGTTTCCCTGAAG-TTGCAGTGGAACAGATCAAAG
56705748 ACGG
130 ACGG
* * * * *
56705752 TGAATCTAGGCTTCCTGATGTTGCAGTGAAGTAGATTTAAGCCATCACCCTAGCTCCCTAAAGTT
1 CGAATCTAGGCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTT
* ***
56705817 GTAGTGGAGTAGGCTGACGGTTGTAGATCTCGT
66 GTAGTGGAGTAGGCTTAAAATTGTAGATCTCGT
56705850 CTCCAGTGGA
Statistics
Matches: 197, Mismatches: 32, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
132 72 0.37
133 125 0.63
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (133 bp):
CGAATCTAGGCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTT
GTAGTGGAGTAGGCTTAAAATTGTAGATCTCGTTTCCCTGAAGTTGCAGTGGAACAGATCAAAGA
CGG
Found at i:56711280 original size:58 final size:58
Alignment explanation
Indices: 56711162--56711322 Score: 162
Period size: 58 Copynumber: 2.8 Consensus size: 58
56711152 GCCACACATT
* * * * * * * *
56711162 TTACAGTAGGATTACCAGTCCAGGCTAAATCCTATCCGTAGCATATGCTCTAGAGAGC
1 TTACATTAGAATTACCCGTCCGGGCTAAATCCTATCTGTAACATAAGCTCAAGAGAGC
* * ** * * *
56711220 TTA-ATTTGGGATTACCCGTTTGGGCTAAATCCAATCTATAACATAAGCTCAAGAGGGC
1 TTACA-TTAGAATTACCCGTCCGGGCTAAATCCTATCTGTAACATAAGCTCAAGAGAGC
*
56711278 TTACATTAGAATTACCCGTCCGGGCTAAATTCTATCTGTAACATA
1 TTACATTAGAATTACCCGTCCGGGCTAAATCCTATCTGTAACATA
56711323 TGTAGTATTA
Statistics
Matches: 81, Mismatches: 20, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
57 1 0.01
58 79 0.98
59 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (58 bp):
TTACATTAGAATTACCCGTCCGGGCTAAATCCTATCTGTAACATAAGCTCAAGAGAGC
Found at i:56717541 original size:21 final size:21
Alignment explanation
Indices: 56717496--56717558 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
56717486 TTTGAACCAT
* *
56717496 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
56717518 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
*
56717539 TACCGTTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
56717559 CAAATACCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
21 24 0.67
22 12 0.33
ACGTcount: A:0.32, C:0.33, G:0.05, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:56722349 original size:21 final size:21
Alignment explanation
Indices: 56722304--56722366 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
56722294 TTTGAACCAT
* *
56722304 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
56722326 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
*
56722347 TACCGTTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
56722367 CAAATACCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
21 24 0.67
22 12 0.33
ACGTcount: A:0.32, C:0.33, G:0.05, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:56731541 original size:28 final size:28
Alignment explanation
Indices: 56731501--56731592 Score: 139
Period size: 28 Copynumber: 3.3 Consensus size: 28
56731491 TGGGAAGTAG
*
56731501 TTGGGCCTGATGGGCCATAAGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
56731529 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
* * * *
56731557 TTGGGCCGGATGAGCCATGTGAATGAGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
56731585 TTGGGCCT
1 TTGGGCCT
56731593 AAAGGGGCCA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 58 1.00
ACGTcount: A:0.22, C:0.15, G:0.37, T:0.26
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAATGTGA
Found at i:56732228 original size:188 final size:185
Alignment explanation
Indices: 56731902--56732472 Score: 700
Period size: 188 Copynumber: 3.0 Consensus size: 185
56731892 TAATAAAGAG
**
56731902 AAATTACTGAAATACCCTCGATTTGTGAAATTACCGAAACACCCTCGATTTGTAAAATTACTGAA
1 AAATTACTGAAATACCCTCGATTTGTGAAATTACTAAAACACCCTCGATTTGTAAAATTACTGAA
* * *
56731967 ACACCCTCGATTTGTAAAATTATTGAAATACCCTTAATTTGTAAAATTACCAAAATA-CTCACAA
66 AAACCTTCGATTTGTAAAATTA-TGAAATACCCTTAATTTGTAAAATTACCAAAATACCT-TCAA
56732031 TTTTGAAATTATTAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCTCGATTTG-A
129 -TTTGAAATTATTAAATACCCTCGATTTGTAAAATTATCGAAATACCC-C-CGATTTGTA
* * * *
56732090 AAATTATTGAAATACCCCCAAATTGTGAAATTACTAAAACACCCTCGATTTGTAAAATTACTGAA
1 AAATTACTGAAATACCCTCGATTTGTGAAATTACTAAAACACCCTCGATTTGTAAAATTACTGAA
* * * * * *
56732155 AAACCTTCGATTTGCAGAATTACTGAAAAACCTTTGATTTGTAAAATTACCAAAATACCTTTAAT
66 AAACCTTCGATTTGTAAAATTA-TGAAATACCCTTAATTTGTAAAATTACCAAAATACCTTCAAT
* * * *
56732220 TATGAAATTATTGAAATACCCTCAATTTTTAAAATTATCAAAATACCCCCGATTTGTG
130 T-TGAAATTATT-AAATACCCTCGATTTGTAAAATTATCGAAATACCCCCGATTTGTA
* * * *
56732278 AAATTACCGAAACACCCTCGATTTGTAAAATTA-TCAAAACACCCTCGATTTGTAAAATTACCGA
1 AAATTACTGAAATACCCTCGATTTGTGAAATTACT-AAAACACCCTCGATTTGTAAAATTACTGA
* * * * *
56732342 AACACCCTT-GATTTGTAAAATTATCGAAATACCCTCAATTTGTAAAATTATCGAAATACCATCA
65 AA-AACCTTCGATTTGTAAAATTAT-GAAATACCCTTAATTTGTAAAATTACCAAAATACCTTCA
* * * *
56732406 ATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTATCGAAACATCCCCAATTTGTA
128 ATTTG--AAATTAT-TAAATACCCTCGATTTGTAAAATTATCGAAATACCCCCGATTTGTA
56732467 AAATTA
1 AAATTA
56732473 TCAAAATACC
Statistics
Matches: 326, Mismatches: 47, Indels: 19
0.83 0.12 0.05
Matches are distributed among these distances:
187 13 0.04
188 223 0.68
189 90 0.28
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (185 bp):
AAATTACTGAAATACCCTCGATTTGTGAAATTACTAAAACACCCTCGATTTGTAAAATTACTGAA
AAACCTTCGATTTGTAAAATTATGAAATACCCTTAATTTGTAAAATTACCAAAATACCTTCAATT
TGAAATTATTAAATACCCTCGATTTGTAAAATTATCGAAATACCCCCGATTTGTA
Found at i:56732524 original size:27 final size:27
Alignment explanation
Indices: 56731902--56732511 Score: 506
Period size: 27 Copynumber: 22.7 Consensus size: 27
56731892 TAATAAAGAG
* *
56731902 AAATTA-CTGAAATACCCTCGATTTGTG
1 AAATTATC-GAAATACCCTCAATTTGTA
* * *
56731929 AAATTACCGAAACACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCAATTTGTA
* *
56731956 AAATTA-CTGAAACACCCTCGATTTGTA
1 AAATTATC-GAAATACCCTCAATTTGTA
* *
56731983 AAATTATTGAAATACCCTTAATTTGTA
1 AAATTATCGAAATACCCTCAATTTGTA
* * * * *
56732010 AAATTACCAAAATACTCACAATTT-TG
1 AAATTATCGAAATACCCTCAATTTGTA
* *
56732036 AAATTAT-TAAATACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCAATTTGTA
*
56732062 AAATTATCGAAATACCCTCTCGATTTG-A
1 AAATTATCGAAATA-CC-CTCAATTTGTA
* * * *
56732090 AAATTATTGAAATACCCCCAAATTGTG
1 AAATTATCGAAATACCCTCAATTTGTA
* * *
56732117 AAATTA-CTAAAACACCCTCGATTTGTA
1 AAATTATC-GAAATACCCTCAATTTGTA
* * * *
56732144 AAATTA-CTGAAAAACCTTCGATTTGCA
1 AAATTATC-GAAATACCCTCAATTTGTA
* * * **
56732171 GAATTA-CTGAAAAACCTTTGATTTGTA
1 AAATTATC-GAAATACCCTCAATTTGTA
* * * *
56732198 AAATTACCAAAATACCTTTAATTATG--
1 AAATTATCGAAATACCCTCAATT-TGTA
* *
56732224 AAATTATTGAAATACCCTCAATTTTTA
1 AAATTATCGAAATACCCTCAATTTGTA
* * * *
56732251 AAATTATCAAAATACCCCCGATTTGTG
1 AAATTATCGAAATACCCTCAATTTGTA
* * *
56732278 AAATTACCGAAACACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCAATTTGTA
* * *
56732305 AAATTATCAAAACACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCAATTTGTA
* * **
56732332 AAATTACCGAAACACCCTTGATTTGTA
1 AAATTATCGAAATACCCTCAATTTGTA
56732359 AAATTATCGAAATACCCTCAATTTGTA
1 AAATTATCGAAATACCCTCAATTTGTA
*
56732386 AAATTATCGAAATACCATCAATTTGTA
1 AAATTATCGAAATACCCTCAATTTGTA
*
56732413 AAATTATCGAAATACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCAATTTGTA
*
56732440 AAATTATCGAAACATCCC-CAATTTGTA
1 AAATTATCGAAATA-CCCTCAATTTGTA
* ** *
56732467 AAATTATCAAAATACCCT-TGTAGTGTA
1 AAATTATCGAAATACCCTCAAT-TTGTA
56732494 AAATTATCGAAATACCCT
1 AAATTATCGAAATACCCT
56732512 TCTAGTGTAA
Statistics
Matches: 487, Mismatches: 80, Indels: 32
0.81 0.13 0.05
Matches are distributed among these distances:
25 13 0.03
26 44 0.09
27 398 0.82
28 23 0.05
29 9 0.02
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTATCGAAATACCCTCAATTTGTA
Found at i:56732535 original size:27 final size:27
Alignment explanation
Indices: 56732476--56732554 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
56732466 AAAATTATCA
* * *
56732476 AAATACCCTTGTAGTGTAAAATTATCG
1 AAATACCCTTATAGTGTAAAATGACCG
* *
56732503 AAATACCCTTCTAGTGTAAAATGGCCG
1 AAATACCCTTATAGTGTAAAATGACCG
* * *
56732530 ACATACCCCTATAGGGTAAAATGAC
1 AAATACCCTTATAGTGTAAAATGAC
56732555 TGTTTTTCCG
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (27 bp):
AAATACCCTTATAGTGTAAAATGACCG
Found at i:56735464 original size:28 final size:28
Alignment explanation
Indices: 56735379--56735452 Score: 130
Period size: 28 Copynumber: 2.6 Consensus size: 28
56735369 TGGGAAGTAG
56735379 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
*
56735407 TTGGGCCTAATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
*
56735435 TTGGGCTTGATGGGCCAT
1 TTGGGCCTGATGGGCCAT
56735453 GTGACCGAGA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.20, C:0.15, G:0.35, T:0.30
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAATGTGA
Found at i:56735470 original size:56 final size:57
Alignment explanation
Indices: 56735379--56735487 Score: 139
Period size: 56 Copynumber: 1.9 Consensus size: 57
56735369 TGGGAAGTAG
* * * * *
56735379 TTGGGCCTGATGGGCCATATGAATGTGATTGGGCCTA-ATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAACGAGATTCGGCCTACAGGGGCCAAATGAATGTGA
* * *
56735435 TTGGGCTTGATGGGCCATGTGACCGAGATTCGGCCTACAGGGGCCAAATGAAT
1 TTGGGCCTGATGGGCCATATGAACGAGATTCGGCCTACAGGGGCCAAATGAAT
56735488 AAGTGTGGAT
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
56 31 0.70
57 13 0.30
ACGTcount: A:0.23, C:0.17, G:0.34, T:0.26
Consensus pattern (57 bp):
TTGGGCCTGATGGGCCATATGAACGAGATTCGGCCTACAGGGGCCAAATGAATGTGA
Found at i:56735817 original size:27 final size:27
Alignment explanation
Indices: 56735787--56736134 Score: 321
Period size: 27 Copynumber: 13.0 Consensus size: 27
56735777 TAATAAAGAG
*
56735787 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
56735814 AAATTACCGAAACAACCTTGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
56735841 AAATTACCAAAACACCCTTGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
56735868 AAATTACCAAAATACCCT-TACTTTGTA
1 AAATTACCGAAATACCCTCGA-TTTGTA
*
56735895 AAATTACC-AAAGTACCCTCGA-TTGTG
1 AAATTACCGAAA-TACCCTCGATTTGTA
** *
56735921 AAATTACTAAAATACCCTCAATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
56735948 AAATTACCGAAATACCCACGA-TTGTG
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
56735974 AAATTATCGAAATACCATCAATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * * *
56736001 AAATTACCCAAATACCC-CAATTTTTG
1 AAATTACCGAAATACCCTCGATTTGTA
** *
56736027 AAATTACTAAAACACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
** * ** *
56736054 AAATTACTAAAAAACATTTGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
56736081 AAAGTACCGAAATACCCTCGA-TTGTG
1 AAATTACCGAAATACCCTCGATTTGTA
* *
56736107 AAATTACTGAAATACTCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
56736134 A
1 A
56736135 TTTGAATCAA
Statistics
Matches: 263, Mismatches: 50, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
26 87 0.33
27 175 0.67
28 1 0.00
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGATTTGTA
Found at i:56736114 original size:80 final size:82
Alignment explanation
Indices: 56735786--56736134 Score: 329
Period size: 80 Copynumber: 4.4 Consensus size: 82
56735776 ATAATAAAGA
* *
56735786 GAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAACAAC-CTTGATTTGTAAAATTACCA
1 GAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAAAAACACTCGATTTGTAAAATTACCA
* **
56735850 AAACACCCTTGATTTGT
66 AAATACCCTCAATTTGT
* ** * ** * * *
56735867 AAAATTACCAAAATACCCT-TACTTTGTAAAATTACC-AAAGTACCCTCGA-TTGTGAAATTACT
1 GAAATTACTGAAATACCCTCGA-TTTGTAAAATTACCGAAAAAACACTCGATTTGTAAAATTACC
56735929 AAAATACCCTCAATTTGT
65 AAAATACCCTCAATTTGT
* * * * * * * * *
56735947 AAAATTACCGAAATACCCACGA-TTGTGAAATTATCGAAATACCA-TCAATTTGTAAAATTACCC
1 GAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAAAAACACTCGATTTGTAAAATTACCA
*
56736010 AAATACCC-CAATTTTT
66 AAATACCCTCAATTTGT
* * * * * * *
56736026 GAAATTACTAAAACACCCTCGATTTGTAAAATTA-CTAAAAAACATTTGATTTGTAAAAGTACCG
1 GAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAAAAACACTCGATTTGTAAAATTACCA
*
56736090 AAATACCCTCGA-TTGT
66 AAATACCCTCAATTTGT
*
56736106 GAAATTACTGAAATACTCTCGATTTGTAA
1 GAAATTACTGAAATACCCTCGATTTGTAA
56736135 TTTGAATCAA
Statistics
Matches: 216, Mismatches: 44, Indels: 17
0.78 0.16 0.06
Matches are distributed among these distances:
79 45 0.21
80 134 0.62
81 37 0.17
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (82 bp):
GAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAAAAACACTCGATTTGTAAAATTACCA
AAATACCCTCAATTTGT
Found at i:56736133 original size:53 final size:54
Alignment explanation
Indices: 56735787--56736134 Score: 321
Period size: 53 Copynumber: 6.5 Consensus size: 54
56735777 TAATAAAGAG
* * * * *
56735787 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAACAACCTTGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCGATTTGTA
* * * *
56735841 AAATTACCAAAACACCCTTGATTTGTAAAATTACCAAAATACCCT-TACTTTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCGA-TTTGTA
* * *
56735895 AAATTACC-AAAGTACCCTCGA-TTGTGAAATTACTAAAATACCCTCAATTTGTA
1 AAATTACCGAAA-TACCCTCGATTTGTAAAATTACCAAAATACCCTCGATTTGTA
* * * * * *
56735948 AAATTACCGAAATACCCACGA-TTGTGAAATTATCGAAATACCATCAATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCGATTTGTA
* * * * * *
56736001 AAATTACCCAAATACCC-CAATTTTTGAAATTACTAAAACACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCGATTTGTA
** * ** * * * *
56736054 AAATTACTAAAAAACATTTGATTTGTAAAAGTACCGAAATACCCTCGA-TTGTG
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCGATTTGTA
* *
56736107 AAATTACTGAAATACTCTCGATTTGTAA
1 AAATTACCGAAATACCCTCGATTTGTAA
56736135 TTTGAATCAA
Statistics
Matches: 242, Mismatches: 46, Indels: 13
0.80 0.15 0.04
Matches are distributed among these distances:
52 2 0.01
53 155 0.64
54 85 0.35
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (54 bp):
AAATTACCGAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCGATTTGTA
Found at i:56739470 original size:41 final size:41
Alignment explanation
Indices: 56739310--56739480 Score: 188
Period size: 41 Copynumber: 4.2 Consensus size: 41
56739300 TCGGGCTTTA
* * * * * *
56739310 TGCCTAGTAGGCTTTGTGCTGGTGTATAATATCAAGCCTAT
1 TGCCTAGCAGGCTTTATGCCGGTGTATTATATCAGGCTTAT
*
56739351 TGCCTAGCAGGCTTTATGCCGGT-TCATTATATCATGCTTAT
1 TGCCTAGCAGGCTTTATGCCGGTGT-ATTATATCAGGCTTAT
*
56739392 TGCCTAGCAGGCTTTATGCTGGTGTATTATATCAGGCTTAT
1 TGCCTAGCAGGCTTTATGCCGGTGTATTATATCAGGCTTAT
* *
56739433 TGCCTAGCAAGCTCTT-TACCGGTGTATTATA-CTAGGCTT-T
1 TGCCTAGCAGGCT-TTATGCCGGTGTATTATATC-AGGCTTAT
56739473 ATGCCTAG
1 -TGCCTAG
56739481 AAAATTTTAT
Statistics
Matches: 114, Mismatches: 11, Indels: 10
0.84 0.08 0.07
Matches are distributed among these distances:
40 3 0.03
41 108 0.95
42 3 0.03
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.37
Consensus pattern (41 bp):
TGCCTAGCAGGCTTTATGCCGGTGTATTATATCAGGCTTAT
Found at i:56739478 original size:82 final size:82
Alignment explanation
Indices: 56739303--56739480 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 82
56739293 GTGATATTCG
* * *
56739303 GGCTTTATGCCTAGTAGGCTTTGTGCTGGTGTATAATATCAAGCCTATTGCCTAGCAGGCTTTAT
1 GGCTTTATGCCTAGCAGGCTTTATGCTGGTGTATAATATCAAGCCTATTGCCTAGCAAGCTTTAT
*
56739368 GCCGGTTCATTATATCA
66 ACCGGTTCATTATATCA
* * * *
56739385 TGC-TTATTGCCTAGCAGGCTTTATGCTGGTGTATTATATCAGGCTTATTGCCTAGCAAGCTCTT
1 GGCTTTA-TGCCTAGCAGGCTTTATGCTGGTGTATAATATCAAGCCTATTGCCTAGCAAGCT-TT
56739449 -TACCGGTGT-ATTATA-CTA
64 ATACCGGT-TCATTATATC-A
56739467 GGCTTTATGCCTAG
1 GGCTTTATGCCTAG
56739481 AAAATTTTAT
Statistics
Matches: 82, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
81 4 0.05
82 72 0.88
83 6 0.07
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (82 bp):
GGCTTTATGCCTAGCAGGCTTTATGCTGGTGTATAATATCAAGCCTATTGCCTAGCAAGCTTTAT
ACCGGTTCATTATATCA
Found at i:56744920 original size:57 final size:57
Alignment explanation
Indices: 56744859--56744974 Score: 162
Period size: 57 Copynumber: 2.0 Consensus size: 57
56744849 CACATACCTG
* *
56744859 TATATAGCCCACAAGGCCC-AATCTCTTTCATATGGCCCATAAGGCCCAAATCACATT
1 TATATAGCCCACAAGGCCCAAATCACATTCATATGG-CCATAAGGCCCAAATCACATT
* ** *
56744916 TATATGGCCCATTAGGCCCAAATCACATTCATATGGCCATTAGGCCCAAATCACATT
1 TATATAGCCCACAAGGCCCAAATCACATTCATATGGCCATAAGGCCCAAATCACATT
56744973 TA
1 TA
56744975 CAGTCATGCT
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
57 38 0.73
58 14 0.27
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (57 bp):
TATATAGCCCACAAGGCCCAAATCACATTCATATGGCCATAAGGCCCAAATCACATT
Found at i:56744921 original size:29 final size:29
Alignment explanation
Indices: 56744859--56744974 Score: 148
Period size: 28 Copynumber: 4.1 Consensus size: 29
56744849 CACATACCTG
* * *
56744859 TATATAGCCCACAAGGCCC-AATCTC-TT
1 TATATGGCCCATAAGGCCCAAATCACATT
56744886 TCATATGGCCCATAAGGCCCAAATCACATT
1 T-ATATGGCCCATAAGGCCCAAATCACATT
*
56744916 TATATGGCCCATTAGGCCCAAATCACATT
1 TATATGGCCCATAAGGCCCAAATCACATT
* *
56744945 CATATGG-CCATTAGGCCCAAATCACATT
1 TATATGGCCCATAAGGCCCAAATCACATT
56744973 TA
1 TA
56744975 CAGTCATGCT
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
27 1 0.01
28 38 0.47
29 38 0.47
30 3 0.04
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (29 bp):
TATATGGCCCATAAGGCCCAAATCACATT
Found at i:56744970 original size:28 final size:29
Alignment explanation
Indices: 56744872--56744972 Score: 152
Period size: 29 Copynumber: 3.6 Consensus size: 29
56744862 ATAGCCCACA
* * *
56744872 AGGCCC-AATCTCTTTCATATGGCCCATA
1 AGGCCCAAATCACATTCATATGGCCCATT
*
56744900 AGGCCCAAATCACATTTATATGGCCCATT
1 AGGCCCAAATCACATTCATATGGCCCATT
56744929 AGGCCCAAATCACATTCATATGG-CCATT
1 AGGCCCAAATCACATTCATATGGCCCATT
56744957 AGGCCCAAATCACATT
1 AGGCCCAAATCACATT
56744973 TACAGTCATG
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
28 27 0.40
29 40 0.60
ACGTcount: A:0.31, C:0.30, G:0.14, T:0.26
Consensus pattern (29 bp):
AGGCCCAAATCACATTCATATGGCCCATT
Found at i:56747544 original size:24 final size:24
Alignment explanation
Indices: 56747446--56747545 Score: 137
Period size: 24 Copynumber: 4.2 Consensus size: 24
56747436 AGTCTGTCAA
*
56747446 GAGAGGATTTAGGAGTTGATAAGG
1 GAGAGGATTTAGGAGCTGATAAGG
* *
56747470 GATAGGATTTAGGAGTTGATAAGG
1 GAGAGGATTTAGGAGCTGATAAGG
* * *
56747494 GATAGGATGTAGAAGCTGATAAGG
1 GAGAGGATTTAGGAGCTGATAAGG
*
56747518 GAGAGGATTTAGGAGCTGATTAGG
1 GAGAGGATTTAGGAGCTGATAAGG
56747542 GAGA
1 GAGA
56747546 ACAGTGTTGG
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 68 1.00
ACGTcount: A:0.34, C:0.02, G:0.40, T:0.24
Consensus pattern (24 bp):
GAGAGGATTTAGGAGCTGATAAGG
Found at i:56748995 original size:27 final size:27
Alignment explanation
Indices: 56748955--56749064 Score: 123
Period size: 27 Copynumber: 4.1 Consensus size: 27
56748945 AGGAAGCGTC
* *
56748955 CTGGTGGCTATGCCACATTTATCTAAT
1 CTGGTGGCTCTGCCACATTTATCTATT
* *
56748982 CTGGTGGTTCTGCCACATATATCTATT
1 CTGGTGGCTCTGCCACATTTATCTATT
* * *
56749009 ATGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTATT
* * *
56749036 CTGGTGACTCTGTCACA-TTATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTATT
56749062 CTG
1 CTG
56749065 ACAGCAATGC
Statistics
Matches: 71, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
26 12 0.17
27 59 0.83
ACGTcount: A:0.18, C:0.23, G:0.20, T:0.39
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTTATCTATT
Found at i:56753560 original size:17 final size:16
Alignment explanation
Indices: 56753529--56753559 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
56753519 CAAACTAATC
56753529 CAAAAATCACATTTTA
1 CAAAAATCACATTTTA
*
56753545 CAAAAATTACATTTT
1 CAAAAATCACATTTT
56753560 TGCCCCCTAA
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:0.16, G:0.00, T:0.35
Consensus pattern (16 bp):
CAAAAATCACATTTTA
Found at i:56758062 original size:24 final size:24
Alignment explanation
Indices: 56758026--56758126 Score: 157
Period size: 24 Copynumber: 4.2 Consensus size: 24
56758016 AAGTCTATTA
* *
56758026 GGAGAGGATTTAGGAGTTGAGAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
56758050 GGATAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
56758074 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
* *
56758098 GGAGAGGATTTAGGAGCTAATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
56758122 GGAGA
1 GGAGA
56758127 ACAGTGTTGG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 71 1.00
ACGTcount: A:0.34, C:0.03, G:0.42, T:0.22
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:56759613 original size:27 final size:26
Alignment explanation
Indices: 56759534--56759641 Score: 119
Period size: 27 Copynumber: 4.1 Consensus size: 26
56759524 AGGAAGCGTC
* *
56759534 CTGGTGGCTATGCCACATTTATCTGAT
1 CTGGTGGCTCTGCCACA-TTATCTGTT
*
56759561 CTGGTGGTTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
56759588 CTGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
* * **
56759615 TTGGTGACTCTATCACATT-TCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
56759640 CT
1 CT
56759642 AGCAGCAATG
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.10
26 4 0.06
27 57 0.81
28 2 0.03
ACGTcount: A:0.16, C:0.23, G:0.20, T:0.41
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:56761039 original size:17 final size:18
Alignment explanation
Indices: 56761017--56761050 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
56761007 CACATTGAAG
56761017 TGTTTT-AGTGAAAACCT
1 TGTTTTCAGTGAAAACCT
*
56761034 TGTTTTCATTGAAAACC
1 TGTTTTCAGTGAAAACC
56761051 CTTCCTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (18 bp):
TGTTTTCAGTGAAAACCT
Found at i:56762340 original size:29 final size:29
Alignment explanation
Indices: 56762280--56762363 Score: 118
Period size: 28 Copynumber: 3.0 Consensus size: 29
56762270 ACATACCTGT
* * *
56762280 ATATGGCCCACTAGGCCC-AATCTCTTTC
1 ATATGGCCCATTAGGCCCAAATCACATTC
56762308 ATATGGCCCATTAGGCCCAAATCACATTC
1 ATATGGCCCATTAGGCCCAAATCACATTC
*
56762337 ATAT-GTCCATTAGGCCCAAATCACATT
1 ATATGGCCCATTAGGCCCAAATCACATT
56762364 TACAGTCACG
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 39 0.76
29 12 0.24
ACGTcount: A:0.29, C:0.31, G:0.13, T:0.27
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATTC
Found at i:56763319 original size:12 final size:13
Alignment explanation
Indices: 56763292--56763324 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
56763282 ATATATATAC
56763292 TAAA-AAAATAAT
1 TAAATAAAATAAT
56763304 TAAATAAAATAA-
1 TAAATAAAATAAT
56763316 TAAATAAAA
1 TAAATAAAA
56763325 ATACAAACCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 13 0.65
13 7 0.35
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAATAAAATAAT
Found at i:56763325 original size:13 final size:14
Alignment explanation
Indices: 56763295--56763327 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
56763285 TATATACTAA
56763295 AAAAATAATTAAAT
1 AAAAATAATTAAAT
56763309 -AAAATAA-TAAAT
1 AAAAATAATTAAAT
56763321 AAAAATA
1 AAAAATA
56763328 CAAACCTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 5 0.28
13 13 0.72
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (14 bp):
AAAAATAATTAAAT
Found at i:56765642 original size:39 final size:40
Alignment explanation
Indices: 56765599--56765768 Score: 206
Period size: 39 Copynumber: 4.3 Consensus size: 40
56765589 GCTACTTGTT
* *
56765599 CAAATG-CTTCGGGACATAGCCCAGTTA-TAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCAGTAATTAGTAACTCGCA
* * *
56765638 CAAATGCCTTCGGGACTTAACCC-GGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCAGTAATTAGTAACTCGCA
* * *
56765678 CCAATGCCTTCAGGCTTAGCCC-GGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCAGTAATTAGTAACTCGCA
*
56765717 CCAATGCCTTCGGGCTTAGCCCAG-AATTAGTAACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCAGTAATTAGTAACTCGCA
56765756 CAAATGCCTTCGG
1 CAAATGCCTTCGG
56765769 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 11, Indels: 6
0.87 0.08 0.04
Matches are distributed among these distances:
39 78 0.67
40 39 0.33
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGCTTAGCCCAGTAATTAGTAACTCGCA
Found at i:56765805 original size:79 final size:78
Alignment explanation
Indices: 56765626--56765812 Score: 209
Period size: 79 Copynumber: 2.4 Consensus size: 78
56765616 AGCCCAGTTA
* * * *
56765626 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCAG
1 TAGTAACTAGCACAAA-GCCTTCGGGACTTAACCCAGAATTAGTAACTCGCACAAATGCCTTCAG
56765691 GCTTAGCCCGGAAT
65 GCTTAGCCCGGAAT
* * *
56765705 TAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCAGAATTAGTAACTCGCACAAATGCCTTC-G
1 TAGTAACTAGCA-CAAAGCCTTCGGGACTTAACCCAGAATTAGTAACTCGCACAAATGCCTTCAG
*
56765768 GATCTTAGTCCGG-AT
65 G--CTTAGCCCGGAAT
* *
56765783 ATGGTCACTTAGCACAAAGCCTTCGGGACT
1 -TAGTAAC-TAGCACAAAGCCTTCGGGACT
56765813 AAGCTCGGAC
Statistics
Matches: 92, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
77 2 0.02
78 34 0.37
79 47 0.51
80 9 0.10
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (78 bp):
TAGTAACTAGCACAAAGCCTTCGGGACTTAACCCAGAATTAGTAACTCGCACAAATGCCTTCAGG
CTTAGCCCGGAAT
Found at i:56774246 original size:14 final size:13
Alignment explanation
Indices: 56774221--56774254 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
56774211 CTGGGATATC
56774221 AAAACAATAATTA
1 AAAACAATAATTA
*
56774234 AGAACACATAATTA
1 AAAACA-ATAATTA
56774248 AAAACAA
1 AAAACAA
56774255 GTTAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.68, C:0.12, G:0.03, T:0.18
Consensus pattern (13 bp):
AAAACAATAATTA
Found at i:56777262 original size:29 final size:30
Alignment explanation
Indices: 56777228--56777288 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
56777218 CAAGTAGTCG
*
56777228 AAGCTAG-TTAAACCGCACACTTAGTGCCA
1 AAGCTAGTTTAAACCACACACTTAGTGCCA
*
56777257 AAGCTAGTTTAAATCACACACTTAGTGCCA
1 AAGCTAGTTTAAACCACACACTTAGTGCCA
56777287 AA
1 AA
56777289 ACTTCTGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 7 0.24
30 22 0.76
ACGTcount: A:0.38, C:0.25, G:0.15, T:0.23
Consensus pattern (30 bp):
AAGCTAGTTTAAACCACACACTTAGTGCCA
Found at i:56785066 original size:50 final size:49
Alignment explanation
Indices: 56784953--56785128 Score: 217
Period size: 50 Copynumber: 3.5 Consensus size: 49
56784943 CTGGTACGCA
* * *
56784953 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
* * *
56785002 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * * * *
56785052 TAGTAGCCTACACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACACG
*
56785103 TAGTAGCCTGCATTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
56785129 TGCAACCTCA
Statistics
Matches: 109, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
49 30 0.28
50 45 0.41
51 34 0.31
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:56787815 original size:27 final size:27
Alignment explanation
Indices: 56787710--56787816 Score: 112
Period size: 27 Copynumber: 4.0 Consensus size: 27
56787700 AAAATTATTA
* **
56787710 AAATACCCCTGTAGGGTAGAATTATTG
1 AAATACCCCTGTAGGGTAAAATTACCG
56787737 AAATA-CCCTGGTTA-GGTAGAAA-TACCG
1 AAATACCCCT-G-TAGGGTA-AAATTACCG
56787764 AAATACCCCTGTAGGGTAAAATTACCG
1 AAATACCCCTGTAGGGTAAAATTACCG
* * *
56787791 AGATACCCTTGTGGGGTAAAATTACC
1 AAATACCCCTGTAGGGTAAAATTACC
56787817 ATTTTGCCCC
Statistics
Matches: 68, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
26 9 0.13
27 51 0.75
28 8 0.12
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAAAATTACCG
Found at i:56788219 original size:20 final size:20
Alignment explanation
Indices: 56788172--56788219 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
56788162 CGAAGGCTGT
* *
56788172 GTGCCGTTATTGTGGGCTTC
1 GTGCCGATATTATGGGCTTC
**
56788192 GTATCGATATTATGGGCTTC
1 GTGCCGATATTATGGGCTTC
56788212 GTGCCGAT
1 GTGCCGAT
56788220 TATAGACCCG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.12, C:0.19, G:0.31, T:0.38
Consensus pattern (20 bp):
GTGCCGATATTATGGGCTTC
Found at i:56788440 original size:6 final size:6
Alignment explanation
Indices: 56788431--56788504 Score: 71
Period size: 6 Copynumber: 12.0 Consensus size: 6
56788421 TTCCATTCAC
* * *
56788431 ATTCTG ATTCTG ATTCT- ATTACCTG ATACTG ATTCTG ATTCTG -TGACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
56788481 ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG
56788505 TCACCTAATT
Statistics
Matches: 56, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
5 4 0.07
6 45 0.80
7 4 0.07
8 3 0.05
ACGTcount: A:0.20, C:0.19, G:0.15, T:0.46
Consensus pattern (6 bp):
ATTCTG
Found at i:56788488 original size:31 final size:31
Alignment explanation
Indices: 56788453--56788528 Score: 125
Period size: 31 Copynumber: 2.5 Consensus size: 31
56788443 ATTCTATTAC
* *
56788453 CTGATACTGATTCTGATTCTGTGACCTAATT
1 CTGATTCTGATTCTGATTCTGTCACCTAATT
56788484 CTGATTCTGATTCTGATTCTGTCACCTAATT
1 CTGATTCTGATTCTGATTCTGTCACCTAATT
*
56788515 CTGATTTTGATTCT
1 CTGATTCTGATTCT
56788529 CATTTTAATT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.46
Consensus pattern (31 bp):
CTGATTCTGATTCTGATTCTGTCACCTAATT
Found at i:56788520 original size:25 final size:25
Alignment explanation
Indices: 56788431--56788498 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 25
56788421 TTCCATTCAC
* * *
56788431 ATTCTGATTCTGATTCTATTACCTG
1 ATTCTGATTCTGATTCTGTGACCTA
*
56788456 ATACTGATTCTGATTCTGTGACCTA
1 ATTCTGATTCTGATTCTGTGACCTA
56788481 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
56788499 ATTCTGTCAC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.21, C:0.19, G:0.15, T:0.46
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTGACCTA
Found at i:56797018 original size:46 final size:46
Alignment explanation
Indices: 56796965--56797101 Score: 202
Period size: 46 Copynumber: 3.0 Consensus size: 46
56796955 TATATATACA
* * * *
56796965 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
56797011 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
56797057 TATCTCATACACATTTCGCATTAGCCATTCGGCCTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
56797102 ATACATGTTC
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 81 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:56797138 original size:47 final size:47
Alignment explanation
Indices: 56797075--56797222 Score: 179
Period size: 47 Copynumber: 3.1 Consensus size: 47
56797065 ACACATTTCG
* *
56797075 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTACCACATATATACACGTTCACATTCATCA
* *
56797122 CATTGGTCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTA-C-CAC--ATATATACACGTTCACATTCATCA
* * * * *
56797173 CATTTGCCGTTCGGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTACCACATATATACACGTTCACATTCATCA
56797220 CAT
1 CAT
56797223 AACATCCTAA
Statistics
Matches: 87, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
47 42 0.48
48 1 0.01
49 5 0.06
51 39 0.45
ACGTcount: A:0.28, C:0.28, G:0.09, T:0.34
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTACCACATATATACACGTTCACATTCATCA
Found at i:56797166 original size:51 final size:49
Alignment explanation
Indices: 56797075--56797222 Score: 180
Period size: 51 Copynumber: 3.1 Consensus size: 49
56797065 ACACATTTCG
*
56797075 CATTAGCCATTCGGCCTTA-CCAC--ATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCCACATATATATACA-GTTCACATTCATCA
*
56797122 CATTGGTCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATC-CACATATATATACA-GTTCACATTCATCA
* * * *
56797173 CATTTGCCGTTCGGCCTTAT-CTCATATATACACA-TTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCCACATATATATACAGTTCACATTCATCA
56797220 CAT
1 CAT
56797223 AACATCCTAA
Statistics
Matches: 89, Mismatches: 8, Indels: 8
0.85 0.08 0.08
Matches are distributed among these distances:
47 33 0.37
48 1 0.01
49 15 0.17
51 40 0.45
ACGTcount: A:0.28, C:0.28, G:0.09, T:0.34
Consensus pattern (49 bp):
CATTGGCCATTCGGCCTTATCCACATATATATACAGTTCACATTCATCA
Found at i:56797876 original size:73 final size:73
Alignment explanation
Indices: 56797785--56797933 Score: 289
Period size: 73 Copynumber: 2.0 Consensus size: 73
56797775 TTAATTTCTC
*
56797785 ATTGTACAGAATTCAAAATATATTTTCGTTTATTTTGTTTGAAACTAGACTCATTAAGGAGTCTA
1 ATTGTACAGAATTCAAAATATATTTCCGTTTATTTTGTTTGAAACTAGACTCATTAAGGAGTCTA
56797850 AGCATAAA
66 AGCATAAA
56797858 ATTGTACAGAATTCAAAATATATTTCCGTTTATTTTGTTTGAAACTAGACTCATTAAGGAGTCTA
1 ATTGTACAGAATTCAAAATATATTTCCGTTTATTTTGTTTGAAACTAGACTCATTAAGGAGTCTA
56797923 AGCATAAA
66 AGCATAAA
56797931 ATT
1 ATT
56797934 TTATCTTATA
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 75 1.00
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.38
Consensus pattern (73 bp):
ATTGTACAGAATTCAAAATATATTTCCGTTTATTTTGTTTGAAACTAGACTCATTAAGGAGTCTA
AGCATAAA
Found at i:56804664 original size:14 final size:12
Alignment explanation
Indices: 56804635--56804666 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
56804625 ATGATAATAA
56804635 ACACACGGGTAG
1 ACACACGGGTAG
56804647 ACACACGGGTAG
1 ACACACGGGTAG
56804659 ACACACGG
1 ACACACGG
56804667 CCGTGTGTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.34, C:0.28, G:0.31, T:0.06
Consensus pattern (12 bp):
ACACACGGGTAG
Found at i:56811434 original size:50 final size:50
Alignment explanation
Indices: 56811380--56811514 Score: 195
Period size: 49 Copynumber: 2.7 Consensus size: 50
56811370 AAGATGTGTC
* *
56811380 AGTGTAAGACCATGTCTAGGACATGGCATCGGCACGGT-TATG-TGAGAGCT
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCAC--TCGAAGATGAGAGCT
* *
56811430 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGAAGATGATAGCT
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCACTCGAAGATGAGAGCT
56811479 AGTGTAAGACCATGTCTAGGACATGGCATCGGCACT
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCACT
56811515 TTACCAATGA
Statistics
Matches: 77, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
47 1 0.01
48 2 0.03
49 40 0.52
50 34 0.44
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (50 bp):
AGTGTAAGACCATGTCTAGGACATGGCATCGGCACTCGAAGATGAGAGCT
Found at i:56814309 original size:46 final size:44
Alignment explanation
Indices: 56814229--56814345 Score: 119
Period size: 46 Copynumber: 2.6 Consensus size: 44
56814219 AGAGTTAGTG
** *
56814229 TAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCCAGTC
1 TAAGACATGTCTGGGACATGCATCGAACTCGAGATGT--GCCAATC
* * * *
56814275 TAAGACATGTCTGGGACATGTATC-AACTATGAGATGTGTCAATG
1 TAAGACATGTCTGGGACATGCATCGAACT-CGAGATGTGCCAATC
56814319 TAAGACCATGTCTGGGACATGGCATCG
1 TAAGA-CATGTCTGGGACAT-GCATCG
56814346 GTACGGACAT
Statistics
Matches: 59, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
44 9 0.15
45 16 0.27
46 34 0.58
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (44 bp):
TAAGACATGTCTGGGACATGCATCGAACTCGAGATGTGCCAATC
Found at i:56815518 original size:28 final size:28
Alignment explanation
Indices: 56815477--56815542 Score: 114
Period size: 28 Copynumber: 2.4 Consensus size: 28
56815467 ACACAGGCTA
*
56815477 GGACACGGGTGTGTCATGGCCGTGTGAG
1 GGACACGGGCGTGTCATGGCCGTGTGAG
56815505 GGACACGGGCGTGTCATGGCCGTGTGAG
1 GGACACGGGCGTGTCATGGCCGTGTGAG
*
56815533 GGATACGGGC
1 GGACACGGGC
56815543 CATGGACATG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.15, C:0.20, G:0.47, T:0.18
Consensus pattern (28 bp):
GGACACGGGCGTGTCATGGCCGTGTGAG
Found at i:56818555 original size:19 final size:20
Alignment explanation
Indices: 56818531--56818568 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
56818521 GGTACCACCA
56818531 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
56818550 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
56818569 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:56818865 original size:46 final size:45
Alignment explanation
Indices: 56818798--56818964 Score: 180
Period size: 46 Copynumber: 3.6 Consensus size: 45
56818788 CGCCCCTAAG
*
56818798 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGGCGTT-GCATCCATAAA
* *
56818844 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-T-CA
1 TGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCATCCATAAA
* * * *
56818891 CGAACTCGGACTCAACTC-ACGAGTTCGGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGGC-GTTGCATCCATAAA
56818936 TGAACTCGGACTCAACTCAACGAGTTCGG
1 TGAACTCGGACTCAACTCAACGAGTTCGG
56818965 ATGCTCAACC
Statistics
Matches: 102, Mismatches: 10, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
42 6 0.06
43 2 0.02
44 1 0.01
45 17 0.17
46 48 0.47
47 18 0.18
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGGCGTTGCATCCATAAA
Found at i:56818957 original size:92 final size:93
Alignment explanation
Indices: 56818799--56818968 Score: 288
Period size: 92 Copynumber: 1.8 Consensus size: 93
56818789 GCCCCTAAGT
* *
56818799 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
56818864 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
56818892 GAACTCGGACTCAACTC-ACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
56818956 CGAGTTCGGATGC
66 CGAGTTCGGATGC
56818969 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
92 55 0.76
93 17 0.24
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:56825669 original size:19 final size:20
Alignment explanation
Indices: 56825645--56825682 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
56825635 GGTACCACCA
56825645 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
56825664 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
56825683 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:56826028 original size:46 final size:46
Alignment explanation
Indices: 56825906--56826033 Score: 145
Period size: 46 Copynumber: 2.8 Consensus size: 46
56825896 TAACCCGCCC
56825906 CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGA--CCTAGTTACAT
* * * * * *
56825954 CTCA-CGAACTCGAACTCAACTCACCGAGTTCGGA-C-ATTTGCAT
1 CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGACCTAGTTACAT
56825997 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 -C-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
56826034 TGCTCAACCA
Statistics
Matches: 67, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
43 6 0.09
44 2 0.03
45 2 0.03
46 27 0.40
47 27 0.40
48 3 0.04
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGACCTAGTTACAT
Found at i:56826052 original size:46 final size:45
Alignment explanation
Indices: 56825909--56826052 Score: 118
Period size: 46 Copynumber: 3.1 Consensus size: 45
56825899 CCCGCCCCTA
56825909 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT
* * * * * *
56825956 CA-CGAACTCGAACTCAACTCACCGAGTTCGGACAT-TTGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCT
56826002 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CT
56826048 AGTGA
1 AGTGA
56826053 CATGTCACTT
Statistics
Matches: 75, Mismatches: 12, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 31 0.41
47 29 0.39
48 1 0.01
49 3 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCT
Found at i:56829886 original size:33 final size:34
Alignment explanation
Indices: 56829817--56829887 Score: 83
Period size: 33 Copynumber: 2.1 Consensus size: 34
56829807 ACAGCACATG
*
56829817 CAGTAGCAGTCTAGGCCAGAGCCCTATTCAGTAA
1 CAGTAGCAGTCTAGGCCAGAGCCCTATTCAGAAA
* **
56829851 CAGTA-CAGTCTGGGCCTTAGCCCTATAT-AGAAA
1 CAGTAGCAGTCTAGGCCAGAGCCCTAT-TCAGAAA
56829884 CAGT
1 CAGT
56829888 GTGGGCCTAG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
33 26 0.81
34 6 0.19
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.23
Consensus pattern (34 bp):
CAGTAGCAGTCTAGGCCAGAGCCCTATTCAGAAA
Found at i:56830107 original size:27 final size:27
Alignment explanation
Indices: 56830076--56830128 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
56830066 GCTGCCAGAA
56830076 CAGTAAATGTGGCAAAGCCACCAGTAT
1 CAGTAAATGTGGCAAAGCCACCAGTAT
* **
56830103 CAGTAATTGTGGCGTAGCCACCAGTA
1 CAGTAAATGTGGCAAAGCCACCAGTA
56830129 ATAGTGAATG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.21
Consensus pattern (27 bp):
CAGTAAATGTGGCAAAGCCACCAGTAT
Found at i:56830327 original size:27 final size:27
Alignment explanation
Indices: 56830311--56830404 Score: 143
Period size: 27 Copynumber: 3.5 Consensus size: 27
56830301 ATTACCATAT
*
56830311 AGGGGTATTACGATCATTTTACCCTAC
1 AGGGGTATTACGATCATTTTAGCCTAC
* * *
56830338 AGGGGTATTACGGTCATTTTATCCTAT
1 AGGGGTATTACGATCATTTTAGCCTAC
*
56830365 AGGGGTATTACGGTCATTTTAGCCTAC
1 AGGGGTATTACGATCATTTTAGCCTAC
56830392 AGGGGTATTACGA
1 AGGGGTATTACGA
56830405 CCAAATAACG
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.34
Consensus pattern (27 bp):
AGGGGTATTACGATCATTTTAGCCTAC
Found at i:56831154 original size:17 final size:17
Alignment explanation
Indices: 56831132--56831169 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
56831122 AGCTCGAGAG
56831132 TGAGCATTTAAATGTCA
1 TGAGCATTTAAATGTCA
56831149 TGAGCATTTAAATGTCA
1 TGAGCATTTAAATGTCA
56831166 TGAG
1 TGAG
56831170 ATATGAGGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.34
Consensus pattern (17 bp):
TGAGCATTTAAATGTCA
Found at i:56833894 original size:47 final size:47
Alignment explanation
Indices: 56833837--56833991 Score: 140
Period size: 46 Copynumber: 3.3 Consensus size: 47
56833827 CAATGTTAGA
*
56833837 CATGTCTGGGATATGCATCGGCCACAT-A-ATGAGAGCCAGTGTAAGAC
1 CATGTCTGGGACATGCATCGGCCA-ATGAGATGAGAGCCAGTGTAAG-C
* * * *
56833884 CATGTTTGGGACATGGCATCGG-CATTGAGATGAGTGCTAGTGTAAGC
1 CATGTCTGGGACAT-GCATCGGCCAATGAGATGAGAGCCAGTGTAAGC
* ** * * *
56833931 CATGTCTGGGACATGCATAGGCC--TCGAGATGTTAGCCACTGTCAGA
1 CATGTCTGGGACATGCATCGGCCAAT-GAGATGAGAGCCAGTGTAAGC
56833977 CATGTCTGGGACATG
1 CATGTCTGGGACATG
56833992 TCTGGGACAT
Statistics
Matches: 89, Mismatches: 14, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
45 1 0.01
46 36 0.40
47 30 0.34
48 22 0.25
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (47 bp):
CATGTCTGGGACATGCATCGGCCAATGAGATGAGAGCCAGTGTAAGC
Found at i:56833917 original size:48 final size:48
Alignment explanation
Indices: 56833865--56833991 Score: 143
Period size: 46 Copynumber: 2.7 Consensus size: 48
56833855 CGGCCACATA
* * *
56833865 ATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGAG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATAGGCATCGAG
* * *
56833913 ATGAGTGCTAGTGTAAG-CCATGTCTGGGACAT-GCATAGGCCTCGAG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATAGGCATCGAG
** * *
56833959 ATGTTAGCCACTGTCAGA-CATGTCTGGGACATG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATG
56833992 TCTGGGACAT
Statistics
Matches: 65, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
46 36 0.55
47 14 0.22
48 15 0.23
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.24
Consensus pattern (48 bp):
ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATAGGCATCGAG
Found at i:56833991 original size:11 final size:11
Alignment explanation
Indices: 56833975--56834001 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
56833965 GCCACTGTCA
56833975 GACATGTCTGG
1 GACATGTCTGG
56833986 GACATGTCTGG
1 GACATGTCTGG
56833997 GACAT
1 GACAT
56834002 TCATCGGCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.19, G:0.33, T:0.26
Consensus pattern (11 bp):
GACATGTCTGG
Found at i:56838988 original size:30 final size:30
Alignment explanation
Indices: 56838952--56839017 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
56838942 TACACGGGTA
* *
56838952 GACACACGGGCGTGTGTCTAGACCGTGTGT
1 GACACACGGGCATGTGTCTAAACCGTGTGT
56838982 GACACACGGGCATGTGTCTAAACCGTGTGT
1 GACACACGGGCATGTGTCTAAACCGTGTGT
56839012 GACACA
1 GACACA
56839018 TGGTCTACCC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.23, C:0.24, G:0.32, T:0.21
Consensus pattern (30 bp):
GACACACGGGCATGTGTCTAAACCGTGTGT
Found at i:56841623 original size:14 final size:14
Alignment explanation
Indices: 56841604--56841632 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
56841594 CATTCCGAAG
56841604 TATATATATATACA
1 TATATATATATACA
56841618 TATATATATATACA
1 TATATATATATACA
56841632 T
1 T
56841633 GAGTATGCCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (14 bp):
TATATATATATACA
Found at i:56842110 original size:29 final size:29
Alignment explanation
Indices: 56842075--56842148 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
56842065 GTTGTGAGAT
* *
56842075 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
56842104 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
56842133 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
56842149 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:56850324 original size:29 final size:29
Alignment explanation
Indices: 56850289--56850367 Score: 99
Period size: 28 Copynumber: 2.8 Consensus size: 29
56850279 GTTGTGAGAT
* *
56850289 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
56850318 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
*
56850347 T-GCACTAAGTGTGCGTGTTGA
1 TGGCACTAAGTGTGCGAGTTGA
56850368 TTATTAAGCA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
28 23 0.52
29 21 0.48
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:56850360 original size:28 final size:29
Alignment explanation
Indices: 56850289--56850361 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
56850279 GTTGTGAGAT
* *
56850289 TGGCACTAAGTGTGCGGGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATACA
*
56850318 TGGCACTAAGTGTGCGAG-TTTAAAGTACA
1 TGGCACTAAGTGTGCGAGCTTGAAA-TACA
56850347 T-GCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
56850362 TGTTGATTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
28 19 0.47
29 21 0.52
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATACA
Found at i:56853809 original size:14 final size:14
Alignment explanation
Indices: 56853778--56853821 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
56853768 TAGAATAAAA
* *
56853778 AAATCGAGAATAAC
1 AAATCGAGAACAAT
*
56853792 AAATTGAGAACAAT
1 AAATCGAGAACAAT
*
56853806 AAATCAAGAACAAT
1 AAATCGAGAACAAT
56853820 AA
1 AA
56853822 GTTGAAAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.61, C:0.11, G:0.11, T:0.16
Consensus pattern (14 bp):
AAATCGAGAACAAT
Found at i:56855043 original size:22 final size:22
Alignment explanation
Indices: 56854987--56855049 Score: 81
Period size: 22 Copynumber: 2.8 Consensus size: 22
56854977 GTTTTCAATA
* *
56854987 ATTTTCAATTAAAAATAATAAAT
1 ATTTT-AATTAATAATAAAAAAT
*
56855010 ATTTTAATTAATTATAAAAAAT
1 ATTTTAATTAATAATAAAAAAT
*
56855032 ATTTTAATTAATATTAAA
1 ATTTTAATTAATAATAAA
56855050 TTATTATAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
22 30 0.86
23 5 0.14
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
ATTTTAATTAATAATAAAAAAT
Found at i:56855178 original size:40 final size:40
Alignment explanation
Indices: 56855123--56855202 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
56855113 AGAAGATACA
56855123 CATATAGTCACAATTGTAATTACAAACAATATATTCGAAT
1 CATATAGTCACAATTGTAATTACAAACAATATATTCGAAT
56855163 CATATAGTCACAATTGTAATTACAAACAATATATTCGAAT
1 CATATAGTCACAATTGTAATTACAAACAATATATTCGAAT
56855203 AACTATAACT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.33
Consensus pattern (40 bp):
CATATAGTCACAATTGTAATTACAAACAATATATTCGAAT
Found at i:56864969 original size:56 final size:55
Alignment explanation
Indices: 56864888--56865572 Score: 770
Period size: 56 Copynumber: 12.3 Consensus size: 55
56864878 AAAAAAATTT
56864888 AAAAACTCGTATTTTGGTGCCGGCCATTGACAGGCCAGCACCAAATTTTTTTTTAA
1 AAAAACTCGTATTTTGGTGCCGGCCATTGACAGGCCAGCACCAAATTTTTTTTT-A
* * ***
56864944 AAAAACTCGTATTTTGGTGCTGGCCATTGACAGGCCAACACCAAAGTTTTTTAAAAAA
1 AAAAACTCGTATTTTGGTGCCGGCCATTGACAGGCCAGCACCAAA-TTTTTT--TTTA
*
56865002 AAAAACTCATATTTTGGTGCCGGCCATTGACAGGCCAGCACCAAATTTTTTTTTTA
1 AAAAACTCGTATTTTGGTGCCGGCCATTGACAGGCCAGCACCAAA-TTTTTTTTTA
* * * *
56865058 AAAAACTTGTATTTTGGTGCTGACCATTGACAGGCCAGCACCAAATAATTTTTTTTT
1 AAAAACTCGTATTTTGGTGCCGGCCATTGACAGGCCAGCACCAAAT--TTTTTTTTA
*
56865115 AAAAACCCGTATTTTGGTGCCGGCCATTGACAGGCCAGCACCAAA-TTTTTTTTA
1 AAAAACTCGTATTTTGGTGCCGGCCATTGACAGGCCAGCACCAAATTTTTTTTTA
* *
56865169 AAAAACTTGTATTTTGGTGCCGACCATTGACAGGCCAGCACCAAATAATTTTTTTT-
1 AAAAACTCGTATTTTGGTGCCGGCCATTGACAGGCCAGCACCAAAT--TTTTTTTTA
* ** *
56865225 AAAAACCCGTATTTTGGTGCCGGCCATTGTTAGGCCAGCACCAAATTCTTTTTTTT
1 AAAAACTCGTATTTTGGTGCCGGCCATTGACAGGCCAGCACCAAATT-TTTTTTTA
* * * * * *
56865281 AAAAACTCGTATTATAGTGCCGCCCATTGACATGCTAGCACTAAATAATTTTTTTT-
1 AAAAACTCGTATTTTGGTGCCGGCCATTGACAGGCCAGCACCAAAT--TTTTTTTTA
* * *
56865337 AAAAACCCGTATTTTGGTGCCGGCCATTGACAAGCCAGCACAAAATTTTTTTTTAAAA
1 AAAAACTCGTATTTTGGTGCCGGCCATTGACAGGCCAGCACCAAATTTTTTTTT---A
* * *
56865395 AAAAACTCGTATTTTGGTGTCGGCCATTGACATGCCAGCACC-AATTTTTTTTTT
1 AAAAACTCGTATTTTGGTGCCGGCCATTGACAGGCCAGCACCAAATTTTTTTTTA
* * **** *
56865449 AAAAACTCTTATTTTGGTGCCGGCTATTGACAGGCCAGCACCAAA-AAAATTTGA
1 AAAAACTCGTATTTTGGTGCCGGCCATTGACAGGCCAGCACCAAATTTTTTTTTA
***** ** ** *
56865503 ATTTTTTTTTAATACTGGTGCCGGCCATTGACAGGCTAGCACC-AATTTTTTTTTA
1 AAAAACTCGT-ATTTTGGTGCCGGCCATTGACAGGCCAGCACCAAATTTTTTTTTA
56865558 AAAAACTCGTATTTT
1 AAAAACTCGTATTTT
56865573 TTGTATACCA
Statistics
Matches: 525, Mismatches: 85, Indels: 40
0.81 0.13 0.06
Matches are distributed among these distances:
54 109 0.21
55 45 0.09
56 202 0.38
57 81 0.15
58 88 0.17
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (55 bp):
AAAAACTCGTATTTTGGTGCCGGCCATTGACAGGCCAGCACCAAATTTTTTTTTA
Found at i:56870791 original size:16 final size:16
Alignment explanation
Indices: 56870770--56870814 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
56870760 AATATATATT
56870770 TAAAATTTTTATATAA
1 TAAAATTTTTATATAA
*
56870786 TAAAA-TTTTA-AAAA
1 TAAAATTTTTATATAA
56870800 TAATAATTTTTATAT
1 TAA-AATTTTTATAT
56870815 CTCAATGTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
14 6 0.25
15 7 0.29
16 10 0.42
17 1 0.04
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TAAAATTTTTATATAA
Found at i:56878195 original size:79 final size:79
Alignment explanation
Indices: 56878052--56878228 Score: 243
Period size: 79 Copynumber: 2.2 Consensus size: 79
56878042 GGATTGATAA
* * * *
56878052 CCGGGCTAAGTCCTGAAGGCATTTGTGCTAGTGGCTAATTCCGGGCTAAGCCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAATTCCGGGCTAAGCCCGAAGGCATTTGT
56878117 GCGAGTTACTAGT-T
66 GCGAGTTACTA-TAT
*
56878131 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACC-ATATCCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAT-TCCGGGCTAAG-CCCGAAGGCATTT
56878194 GTGCGAGTTACTATAT
64 GTGCGAGTTACTATAT
* *
56878210 CTGGGCTATGTCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
56878229 TATTCGAGTG
Statistics
Matches: 87, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
77 2 0.02
78 32 0.37
79 45 0.52
80 8 0.09
ACGTcount: A:0.21, C:0.23, G:0.30, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAATTCCGGGCTAAGCCCGAAGGCATTTGT
GCGAGTTACTATAT
Found at i:56878196 original size:40 final size:40
Alignment explanation
Indices: 56878052--56878228 Score: 245
Period size: 39 Copynumber: 4.5 Consensus size: 40
56878042 GGATTGATAA
* * **
56878052 CCGGGCTAAGTCCTGAAGGCATTTGTGCTAGTGGCTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
56878092 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
56878131 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
56878170 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
56878210 CTGGGCTATGTCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
56878229 TATTCGAGTG
Statistics
Matches: 125, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
38 1 0.01
39 69 0.55
40 55 0.44
ACGTcount: A:0.21, C:0.23, G:0.30, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:56878248 original size:40 final size:40
Alignment explanation
Indices: 56878052--56878253 Score: 189
Period size: 40 Copynumber: 5.1 Consensus size: 40
56878042 GGATTGATAA
* * * * **
56878052 CCGGGCTAAGTCCTGAAGGCATTTGTGCTAGTGGCTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAGCGAGTTACTATA-T
* *
56878092 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTCGAGCGAGTTACTA-TAT
* * *
56878131 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGAGCGAGTTACTATAT
* *
56878170 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGAGCGAGTTACTATAT
* * * *
56878210 CTGGGCTATGTCCCGAAGGTATTCGAGTGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGAGCGAGTTA-CTATAT
56878250 CCGG
1 CCGG
56878254 TTAAATTCCG
Statistics
Matches: 144, Mismatches: 13, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
38 1 0.01
39 71 0.49
40 72 0.50
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAGCGAGTTACTATAT
Found at i:56878265 original size:79 final size:79
Alignment explanation
Indices: 56878091--56878267 Score: 200
Period size: 79 Copynumber: 2.3 Consensus size: 79
56878081 AGTGGCTAAT
* *
56878091 TCCGGGCT-AAGCCCGAAGGCATTTGTGCGAGTTACTAGTTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTACTAGTTCCGGGCTAAGCCCGAAGGCATTCG
*
56878155 TGCGAGTTACCATA
66 AGCGAGTTACCATA
* * * *
56878169 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TATCTGGGCTATGTCCCGAAGGTATT
1 TCCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTACTAGT-TCCGGGCTAAG-CCCGAAGGCATT
* *
56878233 CGAGTGAG-TAGCTATA
64 CGAGCGAGTTA-CCATA
* *
56878249 TCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAATCCCGAAGG
56878268 TACTTGGCTT
Statistics
Matches: 83, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
78 9 0.11
79 51 0.61
80 23 0.28
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.27
Consensus pattern (79 bp):
TCCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTACTAGTTCCGGGCTAAGCCCGAAGGCATTCG
AGCGAGTTACCATA
Found at i:56881229 original size:44 final size:43
Alignment explanation
Indices: 56881157--56881275 Score: 138
Period size: 44 Copynumber: 2.8 Consensus size: 43
56881147 TAAGAACTCA
56881157 CACACTTAGTG-CATCAGTGATTAGCCGAAGCTATAAT-GATCTCG
1 CACACTTAGTGCCATCA-T-ATTAGCCGAAGCTAT-ATCGATCTCG
* * * *
56881201 CACACTTAGTGCCATCATATTTAACCGAAGCTATCTCGGTGTCG
1 CACACTTAGTGCCATCATA-TTAGCCGAAGCTATATCGATCTCG
56881245 CACACTTAGTGCC-TCATA-TAGCCGAAGCTAT
1 CACACTTAGTGCCATCATATTAGCCGAAGCTAT
56881276 TCTAATTCGC
Statistics
Matches: 67, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
41 12 0.18
43 7 0.10
44 43 0.64
45 5 0.07
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (43 bp):
CACACTTAGTGCCATCATATTAGCCGAAGCTATATCGATCTCG
Found at i:56892174 original size:28 final size:28
Alignment explanation
Indices: 56892142--56892203 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
56892132 ATTTACTAGA
*
56892142 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
56892170 ATACCCCTATGTATGCTAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
56892198 ATACCC
1 ATACCC
56892204 TAGGGTTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.32, C:0.27, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:56892373 original size:29 final size:28
Alignment explanation
Indices: 56892311--56892365 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
56892301 AGGAAGCGTC
* *
56892311 CTGGTGGCCCTGCCACAAATTATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
56892339 CTGGTGGCACTGCCACAAAATATCTGT
1 CTGGTGGCACTGCCACAAAATATCTGT
56892366 ATTTGGTGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.29
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:56892384 original size:29 final size:28
Alignment explanation
Indices: 56892311--56892384 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 28
56892301 AGGAAGCGTC
* * *
56892311 CTGGTGGCCCTGCCACAAATTATCTGTT
1 CTGGTGACACTGCCACAAAATATCTGTT
*
56892339 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGACACTGCCACAAAATATCTGT-T
* * *
56892368 TTGGTGACTCTGTCACA
1 CTGGTGACACTGCCACA
56892385 TTTTCTGTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
28 25 0.64
29 14 0.36
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.31
Consensus pattern (28 bp):
CTGGTGACACTGCCACAAAATATCTGTT
Found at i:56893484 original size:11 final size:10
Alignment explanation
Indices: 56893456--56893489 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
56893446 AGCCTGTAAG
56893456 TATTCTGAAT
1 TATTCTGAAT
*
56893466 TTTTCTGAAT
1 TATTCTGAAT
56893476 ATATTCTGAAT
1 -TATTCTGAAT
56893487 TAT
1 TAT
56893490 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:56899994 original size:28 final size:28
Alignment explanation
Indices: 56899962--56900025 Score: 94
Period size: 27 Copynumber: 2.3 Consensus size: 28
56899952 ATTTACTAGA
*
56899962 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
56899990 ATA-CCCTATGTATGCTAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
56900017 ATACCCCTA
1 ATACCCCTA
56900026 GGGTTAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
27 24 0.75
28 8 0.25
ACGTcount: A:0.33, C:0.27, G:0.08, T:0.33
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:56900170 original size:28 final size:28
Alignment explanation
Indices: 56900131--56900218 Score: 128
Period size: 26 Copynumber: 3.2 Consensus size: 28
56900121 AGGAAGCGTC
56900131 CTGGT-GCCCTGCCACAAATTATCTGTT
1 CTGGTGGCCCTGCCACAAATTATCTGTT
56900158 CTGGTGGCCCTGCCAC--ATTATCTGTT
1 CTGGTGGCCCTGCCACAAATTATCTGTT
* *
56900184 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCCCTGCCACAAATTATCTGT-T
56900213 CTGGTG
1 CTGGTG
56900219 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
26 25 0.45
27 5 0.09
28 18 0.33
29 7 0.13
ACGTcount: A:0.18, C:0.27, G:0.23, T:0.32
Consensus pattern (28 bp):
CTGGTGGCCCTGCCACAAATTATCTGTT
Found at i:56900184 original size:26 final size:28
Alignment explanation
Indices: 56900131--56900243 Score: 119
Period size: 26 Copynumber: 4.1 Consensus size: 28
56900121 AGGAAGCGTC
56900131 CTGGT-GCCCTGCCACAAATTATCTGT-T
1 CTGGTGGCCCTGCCAC-AATTATCTGTAT
56900158 CTGGTGGCCCTGCCAC-ATTATCTGT-T
1 CTGGTGGCCCTGCCACAATTATCTGTAT
* *
56900184 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCCCTGCCAC-AATTATCTGTAT
* * * *
56900213 CTGGTGACTCTGTCAC-ATTTTCTGTAT
1 CTGGTGGCCCTGCCACAATTATCTGTAT
56900240 CTGG
1 CTGG
56900244 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
26 25 0.33
27 18 0.24
28 18 0.24
29 14 0.19
ACGTcount: A:0.18, C:0.27, G:0.21, T:0.35
Consensus pattern (28 bp):
CTGGTGGCCCTGCCACAATTATCTGTAT
Found at i:56900237 original size:55 final size:54
Alignment explanation
Indices: 56900131--56900243 Score: 147
Period size: 55 Copynumber: 2.1 Consensus size: 54
56900121 AGGAAGCGTC
* * *
56900131 CTGGTGCCCTGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATTATCTGT-T
1 CTGGTGCACTGCCACAAAATATCTGTTCTGGTGACCCTGCCACATTATCTGTAT
* * *
56900184 CTGGTGGCACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACATTTTCTGTAT
1 CTGGT-GCACTGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATTATCTGTAT
56900240 CTGG
1 CTGG
56900244 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
53 5 0.10
54 19 0.37
55 22 0.43
56 5 0.10
ACGTcount: A:0.18, C:0.27, G:0.21, T:0.35
Consensus pattern (54 bp):
CTGGTGCACTGCCACAAAATATCTGTTCTGGTGACCCTGCCACATTATCTGTAT
Found at i:56900711 original size:18 final size:18
Alignment explanation
Indices: 56900672--56900712 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
56900662 TAATAAGGCC
* *
56900672 TTTTAATTATTTTTATGG
1 TTTTAATTACTTTTATGA
*
56900690 TTTTAATTACTTTTATTA
1 TTTTAATTACTTTTATGA
56900708 TTTTA
1 TTTTA
56900713 TTTTACTATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.68
Consensus pattern (18 bp):
TTTTAATTACTTTTATGA
Found at i:56904692 original size:40 final size:40
Alignment explanation
Indices: 56904630--56904876 Score: 253
Period size: 40 Copynumber: 6.2 Consensus size: 40
56904620 CGGATGATAA
*
56904630 CCGGGCTAAGTCCCG-AGAGCATTTGTGCTAGTGGCTAAT-T
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGT-GCTAATAT
* * *
56904670 CCGGGCTAAGTCCTGAAGGCATTCGTGCGAGCTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGCTAATAT
56904710 CCGGGCTAAGTCCCGAAGGCATTTGTGCGA--GCTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGCTA--ATAT
*
56904750 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT--TATTAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGCTAATAT
* * *
56904788 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT-ATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGCTAATAT
* * *
56904829 CCGGGCTAAATCCCGAAGGCATTTGAGCTAGTGGCT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-GCTAATAT
56904869 CC-GGCTAA
1 CCGGGCTAA
56904877 ACTCCGAAGG
Statistics
Matches: 178, Mismatches: 16, Indels: 27
0.81 0.07 0.12
Matches are distributed among these distances:
37 2 0.01
38 3 0.02
39 39 0.22
40 128 0.72
41 5 0.03
42 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGCTAATAT
Found at i:56904833 original size:79 final size:79
Alignment explanation
Indices: 56904629--56904853 Score: 301
Period size: 80 Copynumber: 2.8 Consensus size: 79
56904619 TCGGATGATA
* ** *
56904629 ACCGGGCTAAGTCCCG-AGAGCATTTGTGCTAGTGGCTA-ATTCCGGGCTAAGTCCTGAAGGCAT
1 ACCGGGCTAAGTCCCGAAG-GCATTTGTGCAAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCAT
*
56904692 TCGTGCGAGCTACTAT
64 TTGTGCGAGCTACTAT
* * *
56904708 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTATTATATCCGGGCTAAGTCCCGAAGGCATT
1 A-CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATT
* *
56904773 TGTGCGAGTTATTAT
65 TGTGCGAGCTACTAT
* *
56904788 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAACCGGGCTAAATCCCGAAGGCATTT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTT
56904853 G
66 G
56904854 AGCTAGTGGC
Statistics
Matches: 129, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
79 61 0.47
80 65 0.50
81 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (79 bp):
ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGCTACTAT
Found at i:56904872 original size:119 final size:120
Alignment explanation
Indices: 56904630--56904856 Score: 314
Period size: 119 Copynumber: 1.9 Consensus size: 120
56904620 CGGATGATAA
* * * *
56904630 CCGGGCTAAGTCCCGAGAGCATTTGTGCTAGTGGCTAATTCCGGGCTAAGTCCTGAAGGCATTCG
1 CCGGGCTAAGTCCCGAGAGCATTTGTGCGAGTGGATAATACCGGGCTAAGTCCCGAAGGCATTCG
* * * * *
56904695 TGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAT
66 TGCAAGCTACTATAACCGGGCTAAATCCCGAAGGCATTTGAGCGAGCTACTATAT
* * *
56904750 CCGGGCTAAGTCCCGA-AGGCATTTGTGCGAGT-TATTATACCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAGA-GCATTTGTGCGAGTGGATAATACCGGGCTAAGTCCCGAAGGCATTC
*
56904813 GTGCAAGTTACTATAACCGGGCTAAATCCCGAAGGCATTTGAGC
65 GTGCAAGCTACTATAACCGGGCTAAATCCCGAAGGCATTTGAGC
56904857 TAGTGGCTAT
Statistics
Matches: 94, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
119 65 0.69
120 29 0.31
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (120 bp):
CCGGGCTAAGTCCCGAGAGCATTTGTGCGAGTGGATAATACCGGGCTAAGTCCCGAAGGCATTCG
TGCAAGCTACTATAACCGGGCTAAATCCCGAAGGCATTTGAGCGAGCTACTATAT
Found at i:56904875 original size:79 final size:79
Alignment explanation
Indices: 56904630--56904876 Score: 295
Period size: 79 Copynumber: 3.1 Consensus size: 79
56904620 CGGATGATAA
* ** *
56904630 CCGGGCTAAGTCCCG-AGAGCATTTGTGCTAGTGGCTA-ATTCCGGGCTAAGTCCTGAAGGCATT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCAAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCATT
*
56904693 CGTGCGAGCTACTATAT
64 TGTGCGAG-TACTATAT
* * *
56904710 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTATTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
*
56904775 TGCGAGTTATTATA-
66 TGCGAG-TACTATAT
* *
56904789 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAACCGGGCTAAATCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
* * *
56904854 AGCTAGTGGCTATAT
66 TGCGAGT-ACTATAT
56904869 CC-GGCTAA
1 CCGGGCTAA
56904877 ACTCCGAAGG
Statistics
Matches: 145, Mismatches: 18, Indels: 9
0.84 0.10 0.05
Matches are distributed among these distances:
78 1 0.01
79 74 0.51
80 67 0.46
81 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTACTATAT
Found at i:56910151 original size:39 final size:41
Alignment explanation
Indices: 56910050--56910233 Score: 206
Period size: 40 Copynumber: 4.6 Consensus size: 41
56910040 TTGAATGATG
* *
56910050 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA
*
56910090 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAATA
*
56910130 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
* *
56910169 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
* *
56910209 ACCGGGCTATGT-CCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
56910234 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 9, Indels: 17
0.83 0.06 0.11
Matches are distributed among these distances:
39 49 0.39
40 65 0.51
41 12 0.09
42 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
Found at i:56910186 original size:79 final size:80
Alignment explanation
Indices: 56910050--56910233 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 80
56910040 TTGAATGATG
*
56910050 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
56910114 TGTGCGAGATACTA-A
65 TGTGCGAGATACTATA
* * * **
56910129 TTCCGGGCTAAGCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 -TCCGGGCTAAGCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
*
56910192 TTGTGCGAGTTACTATA
64 TTGTGCGAGATACTATA
* * *
56910209 ACCGGGCTATGTCCGAAGGCATTTG
1 TCCGGGCTAAGCCCGAAGGCATTTG
56910234 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
78 1 0.01
79 71 0.78
80 19 0.21
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTATA
Found at i:56910240 original size:79 final size:78
Alignment explanation
Indices: 56910103--56910266 Score: 206
Period size: 79 Copynumber: 2.1 Consensus size: 78
56910093 GGACTAAGAT
* **
56910103 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTA-CTA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAG-TAGCTA
*
56910167 AATCCGGGTTAAGTC
65 AATCC-GGTTAAATC
* * *
56910182 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCGAAGGCATTTGAACGAGTAGCTA
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAGCCCGAAGGCATTTGAACGAGTAGCTA
* *
56910246 TATCCGGTTAAATT
65 AATCCGGTTAAATC
56910260 CCGAAGG
1 CCGAAGG
56910267 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
78 18 0.24
79 56 0.76
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTAGCTAA
ATCCGGTTAAATC
Found at i:56910263 original size:39 final size:40
Alignment explanation
Indices: 56910063--56910266 Score: 163
Period size: 39 Copynumber: 5.2 Consensus size: 40
56910053 GGGCTAAGTC
* * * **
56910063 CCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGA-T
1 CCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAA-ATT
* * **
56910103 CCGAAGGCATTTGTGCGAGATACTA-ATTCCGGGCT-AAGC
1 CCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGTTAAATT
* * *
56910142 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAATT
* *
56910182 CCGAAGGCATTTGTGCGAGTTACTATAACCGGGCT--ATGT
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAAT-T
**
56910221 CCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATT
1 CCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTTAAATT
56910260 CCGAAGG
1 CCGAAGG
56910267 TACGTGATTT
Statistics
Matches: 136, Mismatches: 19, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
38 7 0.05
39 65 0.48
40 57 0.42
41 7 0.05
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAATT
Found at i:56918115 original size:79 final size:82
Alignment explanation
Indices: 56917973--56918158 Score: 231
Period size: 79 Copynumber: 2.3 Consensus size: 82
56917963 TTGAATGATG
*
56917973 TCCGGGCTAAGTCCCGAAGGC-TTTGTTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAT
56918037 TTGTGCGAGATACTA-A
66 TTGTGCGAGATACTATA
* * * **
56918053 TTCCGGGCTAAG-CCCGAAGGCATTTG-TGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGC
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGC
*
56918114 ATTTGTGCGAGTTACTATA
64 ATTTGTGCGAGATACTATA
* *
56918133 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
56918159 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
78 1 0.01
79 49 0.53
80 27 0.29
81 15 0.16
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAT
TTGTGCGAGATACTATA
Found at i:56918120 original size:40 final size:40
Alignment explanation
Indices: 56917973--56918158 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
56917963 TTGAATGATG
* * * *
56917973 TCCGGGCTAAGTCCCGAAGGC-TTTGTTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTG-TGC-GAGTTACTAAA
* * *
56918014 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
56918054 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
56918093 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
56918134 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
56918159 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
39 35 0.28
40 64 0.50
41 23 0.18
42 5 0.04
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:56918180 original size:79 final size:79
Alignment explanation
Indices: 56918027--56918191 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
56918017 GGACTAAGAT
* **
56918027 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
56918092 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
56918106 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
56918169 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
56918185 CCGAAGG
1 CCGAAGG
56918192 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:56924198 original size:39 final size:38
Alignment explanation
Indices: 56924155--56924309 Score: 202
Period size: 39 Copynumber: 4.0 Consensus size: 38
56924145 GTGTGAGATA
* *
56924155 TATATCCGGGCTAATTCCTGAAGGCGTTTGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGC-TTTGTGCTGGTGT
*
56924194 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGC-TTTGTGCTGGTGT
* *
56924233 TATATCTGGGCTAAGTCCCGAAGGCTTTGTGCTGGTAT
1 TATATCCGGGCTAAGTCCCGAAGGCTTTGTGCTGGTGT
* * *
56924271 TATATCCGGGCTTAAAGTCCCGCATGCTTTGTGGTGGTG
1 TATATCCGGGC-T-AAGTCCCGAAGGCTTTGTGCTGGTG
56924310 ATTGAATTTG
Statistics
Matches: 102, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
38 21 0.21
39 60 0.59
40 21 0.21
ACGTcount: A:0.17, C:0.20, G:0.30, T:0.33
Consensus pattern (38 bp):
TATATCCGGGCTAAGTCCCGAAGGCTTTGTGCTGGTGT
Found at i:56941317 original size:28 final size:28
Alignment explanation
Indices: 56941254--56941435 Score: 276
Period size: 28 Copynumber: 6.5 Consensus size: 28
56941244 ATATTAAGTC
*
56941254 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
56941281 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
56941309 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
56941337 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
56941365 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
56941393 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
*
56941422 CGTACACTTAGTGC
1 CGCACACTTAGTGC
56941436 CAATCTCATG
Statistics
Matches: 143, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
27 21 0.15
28 104 0.73
29 18 0.13
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Done.