Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 236 of 322
Found at i:78618259 original size:27 final size:27
Alignment explanation
Indices: 78618229--78618412 Score: 260
Period size: 27 Copynumber: 6.8 Consensus size: 27
78618219 GGGTATTTTA
* * * *
78618229 GTAATTTTGTAAATTGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
78618256 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
*
78618283 ATAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
78618310 GTAATTCTGTAAATCGTGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
*
78618337 GTAATTCTATAAATCGAAGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
*
78618364 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* * *
78618391 ATAATCCTATAAATCGGGGGTA
1 GTAATTCTATAAATCGAGGGTA
78618413 CTTTGATAAT
Statistics
Matches: 140, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 140 1.00
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAATG
Found at i:78618438 original size:27 final size:26
Alignment explanation
Indices: 78618408--78618587 Score: 157
Period size: 27 Copynumber: 6.7 Consensus size: 26
78618398 TATAAATCGG
78618408 GGGTACTTTGATAATTTTACAAGTCGA
1 GGGTA-TTTGATAATTTTACAAGTCGA
*
78618435 GGGTATTTCAGTAATTTTACAA-TCGA
1 GGGTATTTGA-TAATTTTACAAGTCGA
* * * * *
78618461 CGATATTTTGATAATTTTATAAATCGG
1 GGGTA-TTTGATAATTTTACAAGTCGA
* *
78618488 GGGTACTTTGGTAATTTTACAAGTTGA
1 GGGTA-TTTGATAATTTTACAAGTCGA
* * *
78618515 AGGTATTTTAGTAATTTTACAAATCGA
1 GGGTATTTGA-TAATTTTACAAGTCGA
*
78618542 GGGTATTTCAGTAATTTTACAAG-CTGA
1 GGGTATTTGA-TAATTTTACAAGTC-GA
*
78618569 GGGTATTTCGGTAATTTTA
1 GGGTATTT-GATAATTTTA
78618588 GTAAACTAAA
Statistics
Matches: 123, Mismatches: 24, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
26 25 0.20
27 98 0.80
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.41
Consensus pattern (26 bp):
GGGTATTTGATAATTTTACAAGTCGA
Found at i:78618449 original size:81 final size:80
Alignment explanation
Indices: 78618284--78618546 Score: 251
Period size: 81 Copynumber: 3.3 Consensus size: 80
78618274 GGTAAAATGA
* * * *** * *
78618284 TAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGTGGGTAAAATGGTAATTCTATAA
1 TAATTCTATAAATCGAGGGTAAAATGATAATTCTATAAATCGGGGGTACTTTGGTAATTTTACAA
* ** *
78618349 ATCGAAGGTAAAATGG
66 GTCGAAGGT-ATTTAG
* * *
78618365 TAATTCTGTAAATCGAGGGTAAAATGATAATCCTATAAATCGGGGGTACTTTGATAATTTTACAA
1 TAATTCTATAAATCGAGGGTAAAATGATAATTCTATAAATCGGGGGTACTTTGGTAATTTTACAA
*
78618430 GTCGAGGGTATTTCAG
66 GTCGAAGGTATTT-AG
* * *** *
78618446 TAATT-T-TACAATCGACGATATTTTGATAATTTTATAAATCGGGGGTACTTTGGTAATTTTACA
1 TAATTCTATA-AATCGAGGGTAAAATGATAATTCTATAAATCGGGGGTACTTTGGTAATTTTACA
*
78618509 AGTTGAAGGTATTTTAG
65 AGTCGAAGGTA-TTTAG
* *
78618526 TAATTTTACAAATCGAGGGTA
1 TAATTCTATAAATCGAGGGTA
78618547 TTTCAGTAAT
Statistics
Matches: 148, Mismatches: 29, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
79 2 0.01
80 65 0.44
81 80 0.54
82 1 0.01
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (80 bp):
TAATTCTATAAATCGAGGGTAAAATGATAATTCTATAAATCGGGGGTACTTTGGTAATTTTACAA
GTCGAAGGTATTTAG
Found at i:78618487 original size:80 final size:81
Alignment explanation
Indices: 78618389--78618541 Score: 245
Period size: 80 Copynumber: 1.9 Consensus size: 81
78618379 GAGGGTAAAA
*
78618389 TGATAATCCTATAAATCGGGGGTACTTTGATAATTTTACAAGTCGAGGGTATTTCAGTAATTTTA
1 TGATAATCCTATAAATCGGGGGTACTTTGATAATTTTACAAGTCGAAGGTATTTCAGTAATTTTA
78618454 C-AATCGACGATATTT
66 CAAATCGACGATATTT
** * * *
78618469 TGATAATTTTATAAATCGGGGGTACTTTGGTAATTTTACAAGTTGAAGGTATTTTAGTAATTTTA
1 TGATAATCCTATAAATCGGGGGTACTTTGATAATTTTACAAGTCGAAGGTATTTCAGTAATTTTA
78618534 CAAATCGA
66 CAAATCGA
78618542 GGGTATTTCA
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
80 60 0.91
81 6 0.09
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (81 bp):
TGATAATCCTATAAATCGGGGGTACTTTGATAATTTTACAAGTCGAAGGTATTTCAGTAATTTTA
CAAATCGACGATATTT
Found at i:78618539 original size:54 final size:53
Alignment explanation
Indices: 78618409--78618587 Score: 200
Period size: 54 Copynumber: 3.3 Consensus size: 53
78618399 ATAAATCGGG
* * * *
78618409 GGTACTTTGATAATTTTACAAGTCGAGGGTATTTCAGTAATTTTACAA-TCGAC
1 GGTATTTTG-TAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAGTTGAA
* * * *
78618462 GATATTTTGATAATTTTATAAATCGGGGGTACTTT-GGTAATTTTACAAGTTGAA
1 GGTATTTTG-TAATTTTACAAATCGAGGGTA-TTTCAGTAATTTTACAAGTTGAA
* *
78618516 GGTATTTTAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAGCTGAG
1 GGTATTTT-GTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAGTTGAA
*
78618570 GGTATTTCGGTAATTTTA
1 GGTATTT-TGTAATTTTA
78618588 GTAAACTAAA
Statistics
Matches: 106, Mismatches: 15, Indels: 9
0.82 0.12 0.07
Matches are distributed among these distances:
53 41 0.39
54 64 0.60
55 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (53 bp):
GGTATTTTGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAGTTGAA
Found at i:78630642 original size:40 final size:40
Alignment explanation
Indices: 78630594--78630817 Score: 308
Period size: 40 Copynumber: 5.6 Consensus size: 40
78630584 GCTACTCGGT
* *
78630594 CAAATGCCTTCGGGACATAGCCCGG-TTAGAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
78630634 CAATTGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
78630674 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
78630714 CAAATGCCTTCGGGACTTAGCTCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* ** * * **
78630754 CAAATGCCTTCGGAACTT-GCCCGGAACTAGTCACTAGTG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
78630793 CAGATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
78630818 TTATCATCCA
Statistics
Matches: 165, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 30 0.18
40 133 0.81
41 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:78633508 original size:10 final size:10
Alignment explanation
Indices: 78633493--78633517 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
78633483 CTGTTACAAG
78633493 TTCTAATTAT
1 TTCTAATTAT
78633503 TTCTAATTAT
1 TTCTAATTAT
78633513 TTCTA
1 TTCTA
78633518 CACGACCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.28, C:0.12, G:0.00, T:0.60
Consensus pattern (10 bp):
TTCTAATTAT
Found at i:78634805 original size:46 final size:46
Alignment explanation
Indices: 78634743--78635723 Score: 1205
Period size: 46 Copynumber: 21.0 Consensus size: 46
78634733 TTTCTGTCAC
* ** * * *
78634743 GTTGCCATGGTATCTTTCAATCATGGTCTTATTCTTTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAA
* * * * *
78634789 GTTGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTC-TGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTA--CA--CA-TTTCATATCAA
* ** * * *
78634839 GTTGCCATGGTATCTTTCAATCATGGTCTTATTCTTTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAA
* * * * *
78634885 GTTGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTC-TGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTA--CA--CA-TTTCATATCAA
* ** * * *
78634935 GTTGCCATGGTATCTTTCAATCATGGTCTTATTCTTTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAA
* * * * *
78634981 GTTGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTC-TGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTA--CA--CA-TTTCATATCAA
* ** * * *
78635031 GTTGCCATGGTATCTTTCAATCATGGTCTTATTCTTTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAA
* * * * *
78635077 GTTGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTC-TGTCAT
1 GTTGCCATGGTATCTTTCAACCATGGTCTTA--CA--CA-TTTCATATCAA
* * ** * * *
78635127 GTTTCCATGGTATCTTTCAACCATGGTCCTATTCTTTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAA
*
78635173 GTTGCCATGGTATCTTTCAACCATGGTCATACACATTTCATATCAA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAA
78635219 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAA
*
78635265 GTTGCCATGGTATCTTTCAACCATGGTCATACACATTTCATATCAA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAA
*
78635311 GTTGCCATGGTATCTTTCAACCATGGTCATACACATTTCATATCAA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAA
*
78635357 GTTGCCATGGTATCTTTCAACCATGGTCATACACATTTCATATCAA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAA
*
78635403 GTTGCCATGGTATCTTTCAACCATGGTCATACACATTTCATATCAA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAA
*
78635449 GTTGCCATGGTATCTTTCAACCATGGTCATACACATTTCATATCAA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAA
*
78635495 GTTGCCATGGTATCTTTCAACCATGGTCATACACATTTCATATCAA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAA
*
78635541 GTTGCCATGGTATCTTTCAACCATGGTCATACACATTTCATATCAA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAA
*
78635587 GTTGCCATGGTATCTTTCAACCATGGTCATACACATTTCATATCAA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAA
*
78635633 GTTGCCATGGTATCTTTCAACCATGGTCATACACATTTCATATCAA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAA
78635679 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
78635724 GAGAGCACAC
Statistics
Matches: 842, Mismatches: 69, Indels: 48
0.88 0.07 0.05
Matches are distributed among these distances:
45 16 0.02
46 676 0.80
50 134 0.16
51 16 0.02
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.39
Consensus pattern (46 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAA
Found at i:78641263 original size:7 final size:7
Alignment explanation
Indices: 78641251--78641279 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
78641241 GTGAGCATCT
78641251 ATATGAG
1 ATATGAG
78641258 ATATGAG
1 ATATGAG
78641265 ATATGAG
1 ATATGAG
78641272 ATA-GAG
1 ATATGAG
78641278 AT
1 AT
78641280 GGTTTCGACC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.23
7 17 0.77
ACGTcount: A:0.45, C:0.00, G:0.28, T:0.28
Consensus pattern (7 bp):
ATATGAG
Found at i:78650698 original size:46 final size:46
Alignment explanation
Indices: 78650631--78650735 Score: 210
Period size: 46 Copynumber: 2.3 Consensus size: 46
78650621 TACAAGTGAC
78650631 AGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGTTGAGTCCG
1 AGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGTTGAGTCCG
78650677 AGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGTTGAGTCCG
1 AGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGTTGAGTCCG
78650723 AGTTCACTTATGG
1 AGTTCACTTATGG
78650736 GCGGGTAACA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 59 1.00
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (46 bp):
AGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGTTGAGTCCG
Found at i:78653691 original size:15 final size:15
Alignment explanation
Indices: 78653652--78653731 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
78653642 GTATCTTGGG
* *
78653652 TTTCTTTATCCTAGA
1 TTTCTTTATTCTGGA
78653667 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
78653682 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
78653697 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
78653712 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
78653726 TTTCTT
1 TTTCTT
78653732 ATTATCTTTG
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
14 10 0.19
15 42 0.78
16 2 0.04
ACGTcount: A:0.11, C:0.17, G:0.12, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:78653721 original size:30 final size:30
Alignment explanation
Indices: 78653643--78653730 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
78653633 CATAGTATCG
* * *
78653643 TATCTTGGGTTTCTTTA-TCCTAGATTTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
78653673 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
78653703 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
78653731 TATTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.11, C:0.17, G:0.15, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:78655285 original size:46 final size:46
Alignment explanation
Indices: 78655218--78655973 Score: 1440
Period size: 46 Copynumber: 16.4 Consensus size: 46
78655208 NNNNNNNNNN
78655218 GAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGTT
1 GAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGTT
*
78655264 GAGTCTGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGTT
1 GAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGTT
78655310 GAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGTT
1 GAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGTT
*
78655356 GAGTCTGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGTT
1 GAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGTT
78655402 GAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGTT
1 GAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGTT
*
78655448 GAGTCTGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGTT
1 GAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGTT
78655494 GAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGTT
1 GAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGTT
*
78655540 GAGTCTGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGTT
1 GAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGTT
78655586 GAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGTT
1 GAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGTT
*
78655632 GAGTCTGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGTT
1 GAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGTT
78655678 GAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGTT
1 GAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGTT
*
78655724 GAGTCTGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGTT
1 GAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGTT
78655770 GAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGTT
1 GAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGTT
*
78655816 GAGTCTGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGTT
1 GAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGTT
78655862 GAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGTT
1 GAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGTT
*
78655908 GAGTCTGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGTT
1 GAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGTT
78655954 GAGTCCGAGTTCACTTATGG
1 GAGTCCGAGTTCACTTATGG
78655974 GCGGGTAACA
Statistics
Matches: 694, Mismatches: 16, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 694 1.00
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
GAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGTT
Found at i:78664864 original size:42 final size:42
Alignment explanation
Indices: 78664759--78664915 Score: 120
Period size: 43 Copynumber: 3.7 Consensus size: 42
78664749 CAATGCCAAC
* * * * ** *
78664759 GTCCCAGACGTGGTCTTACATGTAATCAAACATCGATCCCACT
1 GTCCCAGACATGGTCTTACACGAAATCAAATA-CGATTGCAAT
* * *
78664802 ATCCTAGACAGGGTCTTACACGAAATCAAATACGATTGCAAT
1 GTCCCAGACATGGTCTTACACGAAATCAAATACGATTGCAAT
* *
78664844 GTCCCAGACATGGTCTTACACGTAAAACAGAAGT-CGA-TGCCAAC
1 GTCCCAGACATGGTCTTACACG-AAATCA-AA-TACGATTG-CAAT
** *
78664888 GTCCCAGATGTAGTCTTACACGAAATCA
1 GTCCCAGACATGGTCTTACACGAAATCA
78664916 GATAACGAAA
Statistics
Matches: 91, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
42 26 0.29
43 37 0.41
44 27 0.30
45 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACACGAAATCAAATACGATTGCAAT
Found at i:78674066 original size:48 final size:48
Alignment explanation
Indices: 78674014--78674353 Score: 166
Period size: 48 Copynumber: 7.2 Consensus size: 48
78674004 TAGCCCAGTT
* * *
78674014 ATGGTCTTACATGATGTCTCATATTGATGCCAATGCCATGTCCCAGAC
1 ATGGTCTTACACGAGGTCTCATATTGATGCCAATGCCATGTCCCAAAC
* * * * * *
78674062 ATGGTCTTACATG-GGATCTCA-ACTCGATGCCGATGCCATATCCCATAT
1 ATGGTCTTACACGAGG-TCTCATA-TTGATGCCAATGCCATGTCCCAAAC
* * * ** * *
78674110 ATGGTCTTATACG-GGACCTCATA-CGATG-TGATGCTAGGTCCCAAAC
1 ATGGTCTTACACGAGG-TCTCATATTGATGCCAATGCCATGTCCCAAAC
* * * ** *
78674156 GTGGTCTTATACGAGGTCTCATAATGATGCTGATGCCATGTCCTAAAC
1 ATGGTCTTACACGAGGTCTCATATTGATGCCAATGCCATGTCCCAAAC
* * * * *
78674204 ATGGTCTTATAC-AGGATCTC--A-T-AT--CAACT-CCATATCCTAGAT
1 ATGGTCTTACACGAGG-TCTCATATTGATGCCAA-TGCCATGTCCCAAAC
* *** * *
78674246 ATGGTCTTGCACGATAACACATATCGATGCCAATGCCATGTCCCAAAC
1 ATGGTCTTACACGAGGTCTCATATTGATGCCAATGCCATGTCCCAAAC
*** * * * * *
78674294 ATGGTCTTACACGGACCACACATGTTGATGCCAATGCCATATCCCAGAT
1 ATGGTCTTACAC-GAGGTCTCATATTGATGCCAATGCCATGTCCCAAAC
78674343 ATGGTCTTACA
1 ATGGTCTTACA
78674354 TGGGATCACA
Statistics
Matches: 229, Mismatches: 46, Indels: 33
0.74 0.15 0.11
Matches are distributed among these distances:
42 23 0.10
43 2 0.01
44 3 0.01
45 1 0.00
46 33 0.14
47 17 0.07
48 109 0.48
49 41 0.18
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (48 bp):
ATGGTCTTACACGAGGTCTCATATTGATGCCAATGCCATGTCCCAAAC
Found at i:78677276 original size:39 final size:40
Alignment explanation
Indices: 78677231--78677398 Score: 115
Period size: 40 Copynumber: 4.2 Consensus size: 40
78677221 CGGGGTTTAG
* * *
78677231 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
78677270 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
78677310 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
** * * * *
78677350 CCGGATATAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
78677391 CCGGATAT
1 CCGGATAT
78677399 CATTCGAGTA
Statistics
Matches: 111, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
39 18 0.16
40 62 0.56
41 28 0.25
42 3 0.03
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:78677381 original size:41 final size:40
Alignment explanation
Indices: 78677254--78677398 Score: 202
Period size: 40 Copynumber: 3.6 Consensus size: 40
78677244 CTCGCACAAG
* * * * *
78677254 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
78677294 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* *
78677334 GCCTTC-GGATCTTAGTCCGGATATAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
78677375 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
78677399 CATTCGAGTA
Statistics
Matches: 94, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
39 3 0.03
40 60 0.64
41 28 0.30
42 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:78678629 original size:38 final size:38
Alignment explanation
Indices: 78678587--78678662 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
78678577 CAAGAACTCC
*
78678587 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTGTCGGCCAAAAGAAATGAA
78678625 TTCCTCCTTCCTTAGAATTGTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTGTCGGCCAAAAGAAATGAA
78678663 AAAGGATGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (38 bp):
TTCCTCCTTCCTTAGAATTGTCGGCCAAAAGAAATGAA
Found at i:78688571 original size:44 final size:44
Alignment explanation
Indices: 78688517--78688600 Score: 141
Period size: 44 Copynumber: 1.9 Consensus size: 44
78688507 CAAAGTTTTC
78688517 TTTTTGATTCACATCTGGTTTTAAACGATTTCTAATTTTCCTCA
1 TTTTTGATTCACATCTGGTTTTAAACGATTTCTAATTTTCCTCA
* * *
78688561 TTTTTTATTCACCTCTGGTTTTAAACGATTTCTACTTTTC
1 TTTTTGATTCACATCTGGTTTTAAACGATTTCTAATTTTC
78688601 TTTGTGTCGA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.20, C:0.19, G:0.08, T:0.52
Consensus pattern (44 bp):
TTTTTGATTCACATCTGGTTTTAAACGATTTCTAATTTTCCTCA
Found at i:78689471 original size:28 final size:29
Alignment explanation
Indices: 78689415--78689476 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 29
78689405 GAAAGCATGT
*
78689415 ATATGAATGTGATTTCGGCCTAATGGGCC
1 ATATGAATGAGATTTCGGCCTAATGGGCC
* *
78689444 ATATGAATGAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGAGATTTCGGCCTAATGGGCC
78689472 ATATG
1 ATATG
78689477 CATGTATTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 19 0.63
29 11 0.37
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.29
Consensus pattern (29 bp):
ATATGAATGAGATTTCGGCCTAATGGGCC
Found at i:78693994 original size:28 final size:29
Alignment explanation
Indices: 78693905--78694000 Score: 131
Period size: 29 Copynumber: 3.3 Consensus size: 29
78693895 GAAAGCATGT
78693905 ATATGAATGTGATTTGGGTCTAATGGGCC
1 ATATGAATGTGATTTGGGTCTAATGGGCC
* * *
78693934 ATACGAATGTGATTTCGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGTCTAATGGGCC
* *
78693963 ATATGAATGAGA-TTGGGTCTAGTGGGCC
1 ATATGAATGTGATTTGGGTCTAATGGGCC
*
78693991 ATATGCATGT
1 ATATGAATGT
78694001 ATGTAGACTT
Statistics
Matches: 57, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
28 21 0.37
29 36 0.63
ACGTcount: A:0.25, C:0.14, G:0.30, T:0.31
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGTCTAATGGGCC
Found at i:78699247 original size:25 final size:23
Alignment explanation
Indices: 78699131--78699257 Score: 114
Period size: 23 Copynumber: 5.4 Consensus size: 23
78699121 TCAGCTCGTA
* * *
78699131 AGAGCTTACTATTTTTAGCTCATT
1 AGAGCTTAC-AGTTTCAGCTCAAT
* *
78699155 GGAGCTTACTGTTTCAGCTCATAT
1 AGAGCTTACAGTTTCAGCTCA-AT
* *
78699179 A-AGCTTACTG-TTCAGCTCGAT
1 AGAGCTTACAGTTTCAGCTCAAT
78699200 AGAGCTTACAGTTTCAGCTCAAT
1 AGAGCTTACAGTTTCAGCTCAAT
**
78699223 AGAGCTTATTGTTCATCAGCTCAAT
1 AGAGCTTACAGTT--TCAGCTCAAT
78699248 AGGAGCTTAC
1 A-GAGCTTAC
78699258 CTATCATGGC
Statistics
Matches: 85, Mismatches: 12, Indels: 10
0.79 0.11 0.09
Matches are distributed among these distances:
21 3 0.04
22 16 0.19
23 39 0.46
24 9 0.11
25 11 0.13
26 7 0.08
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.35
Consensus pattern (23 bp):
AGAGCTTACAGTTTCAGCTCAAT
Found at i:78701613 original size:28 final size:28
Alignment explanation
Indices: 78701578--78701656 Score: 97
Period size: 28 Copynumber: 2.8 Consensus size: 28
78701568 CTTTAAATGC
*
78701578 AATTTGGGCCTAGT-GGCCATATGAATG
1 AATTTGGGCCTAGTGGGCCATATGAAAG
* * *
78701605 TGATTTGGGCCTAATGGGCCACATGAAAG
1 -AATTTGGGCCTAGTGGGCCATATGAAAG
*
78701634 AAATTGGGCCTAGTGGGCCATAT
1 AATTTGGGCCTAGTGGGCCATAT
78701657 ATAGGTATGA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
28 31 0.74
29 11 0.26
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (28 bp):
AATTTGGGCCTAGTGGGCCATATGAAAG
Found at i:78702502 original size:41 final size:41
Alignment explanation
Indices: 78702457--78702539 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
78702447 AATATAAGTC
78702457 CTTGTTTGAAATTGGGGTTTAAACTAGAAGTCTTTAAATGG
1 CTTGTTTGAAATTGGGGTTTAAACTAGAAGTCTTTAAATGG
78702498 CTTGTTTGAAATTGGGGTTTAAACTAGAAGTCTTTAAATGG
1 CTTGTTTGAAATTGGGGTTTAAACTAGAAGTCTTTAAATGG
78702539 C
1 C
78702540 AAATAGATCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.29, C:0.08, G:0.24, T:0.39
Consensus pattern (41 bp):
CTTGTTTGAAATTGGGGTTTAAACTAGAAGTCTTTAAATGG
Found at i:78703624 original size:27 final size:26
Alignment explanation
Indices: 78703579--78703930 Score: 80
Period size: 27 Copynumber: 13.1 Consensus size: 26
78703569 CAAATTCCTG
* *
78703579 AAATACCCCC-AGTTGTAAAATTACC
1 AAATACCCCCGATTTATAAAATTACC
* *
78703604 AAAGTACCCCCGGTTTATAAAACTACCC
1 AAA-TACCCCCGATTTATAAAATTA-CC
* * *
78703632 AAATATCCTCGATTTATAGAATTACC
1 AAATACCCCCGATTTATAAAATTACC
*** * * *
78703658 GTTTTACCCTCGATTTACAGAATTACC
1 -AAATACCCCCGATTTATAAAATTACC
** * *
78703685 ATTTTACCCTCGATTTATAGAATTACC
1 A-AATACCCCCGATTTATAAAATTACC
** * * * *
78703712 ATTTTACCCTCAATTTATAGAATTATC
1 A-AATACCCCCGATTTATAAAATTACC
** * * *
78703739 ATTTTACCCTCGATTTACAGAATTACC
1 A-AATACCCCCGATTTATAAAATTACC
** *** *
78703766 ATTTTACCCTTAATTTATAGAATTACC
1 A-AATACCCCCGATTTATAAAATTACC
*** * * *
78703793 GTTTTACCCTCGATTTACAAAATTACTA
1 -AAATACCCCCGATTTATAAAATTAC-C
** * *
78703821 AAATACCCTTGGTTTACAAAATTACC
1 AAATACCCCCGATTTATAAAATTACC
* *
78703847 AAAATACCCTCGA-TCAGTAAAATTACC
1 -AAATACCCCCGATTTA-TAAAATTACC
* * * *
78703874 AAAATACCCCTGGTTTGTAAAATTACTA
1 -AAATACCCCCGATTTATAAAATTAC-C
* * *
78703902 AAATA-CGCCTAGTTTGTAAAATTACC
1 AAATACCCCCGA-TTTATAAAATTACC
78703928 AAA
1 AAA
78703931 ATTCCCTTGA
Statistics
Matches: 264, Mismatches: 51, Indels: 23
0.78 0.15 0.07
Matches are distributed among these distances:
25 3 0.01
26 16 0.06
27 239 0.91
28 6 0.02
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.34
Consensus pattern (26 bp):
AAATACCCCCGATTTATAAAATTACC
Found at i:78703666 original size:54 final size:54
Alignment explanation
Indices: 78703608--78703774 Score: 156
Period size: 54 Copynumber: 3.1 Consensus size: 54
78703598 ATTACCAAAG
* * * *
78703608 TACCCCCGGTTTATAAAACTACCCA-AATATCCTCGATTTATAGAATTACCGTTT
1 TACCCCCGATTTACAAAACTA-CCATAATACCCTCGATTTATAGAATTACCATTT
* * * **
78703662 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTT
1 TACCCCCGATTTACAAAACTACCATAATACCCTCGATTTATAGAATTACCATTT
* * * * * * ** *
78703716 TACCCTCAATTTATAGAATTATCATTTTACCCTCGATTTACAGAATTACCATTT
1 TACCCCCGATTTACAAAACTACCATAATACCCTCGATTTATAGAATTACCATTT
78703770 TACCC
1 TACCC
78703775 TTAATTTATA
Statistics
Matches: 99, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
53 3 0.03
54 96 0.97
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.37
Consensus pattern (54 bp):
TACCCCCGATTTACAAAACTACCATAATACCCTCGATTTATAGAATTACCATTT
Found at i:78703732 original size:81 final size:81
Alignment explanation
Indices: 78703638--78703818 Score: 290
Period size: 81 Copynumber: 2.2 Consensus size: 81
78703628 ACCCAAATAT
* *
78703638 CCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTAT
1 CCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAATTTAT
78703703 AGAATTACCATTTTAC
66 AGAATTACCATTTTAC
* * *
78703719 CCTCAATTTATAGAATTATCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTTAATTTAT
1 CCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAATTTAT
*
78703784 AGAATTACCGTTTTAC
66 AGAATTACCATTTTAC
* *
78703800 CCTCGATTTACAAAATTAC
1 CCTCGATTTATAGAATTAC
78703819 TAAAATACCC
Statistics
Matches: 90, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 90 1.00
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (81 bp):
CCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAATTTAT
AGAATTACCATTTTAC
Found at i:78703775 original size:54 final size:54
Alignment explanation
Indices: 78703638--78703818 Score: 281
Period size: 54 Copynumber: 3.4 Consensus size: 54
78703628 ACCCAAATAT
* * * *
78703638 CCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTAC
1 CCTCGATTTACAGAATTACCATTTTACCCTCAATTTATAGAATTACCATTTTAC
* *
78703692 CCTCGATTTATAGAATTACCATTTTACCCTCAATTTATAGAATTATCATTTTAC
1 CCTCGATTTACAGAATTACCATTTTACCCTCAATTTATAGAATTACCATTTTAC
* *
78703746 CCTCGATTTACAGAATTACCATTTTACCCTTAATTTATAGAATTACCGTTTTAC
1 CCTCGATTTACAGAATTACCATTTTACCCTCAATTTATAGAATTACCATTTTAC
*
78703800 CCTCGATTTACAAAATTAC
1 CCTCGATTTACAGAATTAC
78703819 TAAAATACCC
Statistics
Matches: 118, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 118 1.00
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (54 bp):
CCTCGATTTACAGAATTACCATTTTACCCTCAATTTATAGAATTACCATTTTAC
Found at i:78703828 original size:81 final size:81
Alignment explanation
Indices: 78703662--78703847 Score: 248
Period size: 81 Copynumber: 2.3 Consensus size: 81
78703652 ATTACCGTTT
*
78703662 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAATT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCAATTTATAGAATTACCATTTTACCCTCAATT
* * ***
78703727 TATAGAATTATCATTT
66 TACAAAATTATCAAAA
* * *
78703743 TACCCTCGATTTACAGAATTACCATTTTACCCTTAATTTATAGAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCAATTTATAGAATTACCATTTTACCCTCAATT
78703808 TACAAAATTA-CTAAAA
66 TACAAAATTATC-AAAA
* * *
78703824 TACCCTTGGTTTACAAAATTACCA
1 TACCCTCGATTTACAGAATTACCA
78703848 AAATACCCTC
Statistics
Matches: 92, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
80 1 0.01
81 91 0.99
ACGTcount: A:0.33, C:0.23, G:0.06, T:0.38
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACCATTTTACCCTCAATTTATAGAATTACCATTTTACCCTCAATT
TACAAAATTATCAAAA
Found at i:78703844 original size:54 final size:54
Alignment explanation
Indices: 78703662--78703882 Score: 201
Period size: 54 Copynumber: 4.1 Consensus size: 54
78703652 ATTACCGTTT
* * * * ***
78703662 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTT
1 TACCCTTGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCAAAA
** * * ***
78703716 TACCCTCAATTTATAGAATTATCATTTTACCCTCGATTTACAGAATTACCATTT
1 TACCCTTGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCAAAA
* * *
78703770 TACCCTTAATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCAAAA
* * * *** * *
78703824 TACCCTTGGTTTACAAAATTACCAAAATACCCTCGA-TCAGTAAAATTACCAAAA
1 TACCCTTGATTTATAGAATTACCATTTTACCCTCGATTTA-CAAAATTACCAAAA
78703878 TACCC
1 TACCC
78703883 CTGGTTTGTA
Statistics
Matches: 143, Mismatches: 23, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
53 2 0.01
54 141 0.99
ACGTcount: A:0.35, C:0.24, G:0.06, T:0.35
Consensus pattern (54 bp):
TACCCTTGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCAAAA
Found at i:78703931 original size:27 final size:26
Alignment explanation
Indices: 78703811--78703950 Score: 145
Period size: 27 Copynumber: 5.2 Consensus size: 26
78703801 CTCGATTTAC
* **
78703811 AAAATTACTAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCC-TGGTTTGT
* **
78703838 AAAATTACCAAAATACCCTCGATCAGT
1 AAAATTACCAAAATACCCT-GGTTTGT
78703865 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATA-CCCTGGTTTGT
* *
78703892 AAAATTACTAAAATACGCCTAGTTTGT
1 AAAATTACCAAAATAC-CCTGGTTTGT
* *
78703919 AAAATTACCAAAATTCCCTTGATTTGT
1 AAAATTACCAAAATACCC-TGGTTTGT
78703946 AAAAT
1 AAAAT
78703951 ATCGAAATAC
Statistics
Matches: 94, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
26 4 0.04
27 86 0.91
28 4 0.04
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (26 bp):
AAAATTACCAAAATACCCTGGTTTGT
Found at i:78703945 original size:54 final size:54
Alignment explanation
Indices: 78703811--78703950 Score: 174
Period size: 54 Copynumber: 2.6 Consensus size: 54
78703801 CTCGATTTAC
* ** *
78703811 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAGT
1 AAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCTAGATCAGT
* * **
78703865 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACGCCTAG-TTTGT
1 AAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATAC-CCTAGATCAGT
* *
78703919 AAAATTACCAAAATTCCCTTGATTTGTAAAAT
1 AAAATTACCAAAATACCCTTGGTTTGTAAAAT
78703951 ATCGAAATAC
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
54 70 0.95
55 4 0.05
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (54 bp):
AAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCTAGATCAGT
Found at i:78703948 original size:81 final size:80
Alignment explanation
Indices: 78703811--78703992 Score: 215
Period size: 81 Copynumber: 2.3 Consensus size: 80
78703801 CTCGATTTAC
*
78703811 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
1 AAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAA-TACCAA
**
78703876 AATACCCCTGGTTTG-T
65 AATACCCCT-GTAGGAT
** * * ** * *
78703892 AAAATTACTAAAATACGCC-TAGTTTGTAAAATTACCAAAATTCCCTTGATTTGTAAAATATCGA
1 AAAATTACTAAAATAC-CCTTAGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATACCAA
78703956 AATACCCCTGTAGGAT
65 AATACCCCTGTAGGAT
*
78703972 AGAATTACTAAAATACCCTTA
1 AAAATTACTAAAATACCCTTA
78703993 TAGGGTAGAA
Statistics
Matches: 86, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
79 5 0.06
80 31 0.36
81 48 0.56
82 2 0.02
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (80 bp):
AAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATACCAAA
ATACCCCTGTAGGAT
Found at i:78703964 original size:27 final size:26
Alignment explanation
Indices: 78703863--78703964 Score: 82
Period size: 27 Copynumber: 3.8 Consensus size: 26
78703853 CCCTCGATCA
* *
78703863 GTAAAATTACCAAAATACCCCTGGTTT
1 GTAAAA-TATCAAAATACCCCTTGTTT
* *
78703890 GTAAAAT-TACTAAAATACGCCTAGTTT
1 GTAAAATAT-C-AAAATACCCCTTGTTT
* *
78703917 GTAAAATTACCAAAAT-TCCCTTGATTT
1 GTAAAA-TATCAAAATACCCCTTG-TTT
*
78703944 GTAAAATATCGAAATACCCCT
1 GTAAAATATCAAAATACCCCT
78703965 GTAGGATAGA
Statistics
Matches: 59, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
26 13 0.22
27 44 0.75
28 2 0.03
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (26 bp):
GTAAAATATCAAAATACCCCTTGTTT
Found at i:78703985 original size:27 final size:27
Alignment explanation
Indices: 78703955--78704176 Score: 257
Period size: 27 Copynumber: 8.3 Consensus size: 27
78703945 TAAAATATCG
* *
78703955 AAATACCCCTGTAGGATAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACCA
* * * *
78703982 AAATACCCTTATAGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACCA
* **
78704009 AAATACCCCTGTAGGGTGGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCA
* * *
78704036 AAATACCCTTATAAGGTAGAATTACCA
1 AAATACCCCTGTAGGGTAGAATTACCA
***
78704063 AAATACCCCTGTAGGGTAGAATTATTG
1 AAATACCCCTGTAGGGTAGAATTACCA
*
78704090 AAATACCCC-GTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCA
* * *
78704116 AAATACCCTTGTAGGGCAGAAATACCA
1 AAATACCCCTGTAGGGTAGAATTACCA
78704143 AAATACCCCTGTAGGGTAGAATTACCA
1 AAATACCCCTGTAGGGTAGAATTACCA
*
78704170 AGATACC
1 AAATACC
78704177 TATATGGGGT
Statistics
Matches: 161, Mismatches: 33, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
26 23 0.14
27 138 0.86
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.23
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCA
Found at i:78704013 original size:134 final size:135
Alignment explanation
Indices: 78703870--78704193 Score: 322
Period size: 134 Copynumber: 2.4 Consensus size: 135
78703860 TCAGTAAAAT
** **
78703870 TACCAAAATACCCCTGGT-TTGTAAAATTACTAAAATACGCC-TAGT-TTGTAAAATTACCAAAA
1 TACCAAAATACCCCTGGTAGGGTAAAATTACTAAAATAC-CCTTA-TAAGGTAAAATTACCAAAA
* * ** *
78703932 TTCCCTTG-ATTTGTA-AAATATCGAAATACCCCTGTAGGATAGAATTACTAAAATACCCTTATA
64 TACCCCTGTA-GGGTAGAAATATCGAAATACCCC-GTAGGATAGAATTACCAAAATACCCTTATA
*
78703995 GGGTAGAAA
127 GGGCAGAAA
* ** * *
78704004 TACCGAAATACCCCT-GTAGGGTGGAATTACTGAAATACCCTTATAAGGTAGAATTACCAAAATA
1 TACCAAAATACCCCTGGTAGGGTAAAATTACTAAAATACCCTTATAAGGTAAAATTACCAAAATA
* * * * *
78704068 CCCCTGTAGGGTAGAATTATTGAAATACCCCGTAGGGTAGAATTACCGAAATACCCTTGTAGGGC
66 CCCCTGTAGGGTAGAAATATCGAAATACCCCGTAGGATAGAATTACCAAAATACCCTTATAGGGC
78704133 AGAAA
131 AGAAA
* * * **
78704138 TACCAAAATACCCCT-GTAGGGTAGAATTACCAAGATA-CCTATATGGGGTAAAATTA
1 TACCAAAATACCCCTGGTAGGGTAAAATTACTAAAATACCCT-TATAAGGTAAAATTA
78704194 TCATTTTGCC
Statistics
Matches: 156, Mismatches: 28, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
133 8 0.05
134 132 0.85
135 16 0.10
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.27
Consensus pattern (135 bp):
TACCAAAATACCCCTGGTAGGGTAAAATTACTAAAATACCCTTATAAGGTAAAATTACCAAAATA
CCCCTGTAGGGTAGAAATATCGAAATACCCCGTAGGATAGAATTACCAAAATACCCTTATAGGGC
AGAAA
Found at i:78704142 original size:80 final size:81
Alignment explanation
Indices: 78703953--78704176 Score: 299
Period size: 80 Copynumber: 2.8 Consensus size: 81
78703943 TGTAAAATAT
* * * * * *
78703953 CGAAATACCCCTGTAGGATAGAATTACTAAAATACCCTTATAGGGTAGAAATACCGAAATACCCC
1 CGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCC
*
78704018 TGTAGGGTGGAATTAC
66 TGTAGGGTAGAATTAC
* * * **
78704034 TGAAATACCCTTATAAGGTAGAATTACCAAAATACCCCTGTAGGGTAGAATTATTGAAATACCCC
1 CGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCC
78704099 -GTAGGGTAGAATTAC
66 TGTAGGGTAGAATTAC
* *
78704114 CGAAATACCCTTGTAGGGCAGAAATACCAAAATACCCCTGTAGGGTAGAATTACC-AAGATACC
1 CGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAGAATTACCGAA-ATACC
78704177 TATATGGGGT
Statistics
Matches: 123, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
79 2 0.02
80 67 0.54
81 54 0.44
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.23
Consensus pattern (81 bp):
CGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCC
TGTAGGGTAGAATTAC
Found at i:78704431 original size:25 final size:25
Alignment explanation
Indices: 78704400--78704507 Score: 139
Period size: 25 Copynumber: 4.4 Consensus size: 25
78704390 AGGAAGTGCT
78704400 AAAAGGGCTTTGCCCCAGTTTACTA
1 AAAAGGGCTTTGCCCCAGTTTACTA
*
78704425 AAAAGGGCTTTGCCCCAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACTA
*
78704450 AAAAGGGCTTTGGCCCAGTTTA-TCA
1 AAAAGGGCTTTGCCCCAGTTTACT-A
* * *
78704475 AAAAGGGGTTTGCCCTAG-TTATTA
1 AAAAGGGCTTTGCCCCAGTTTACTA
*
78704499 AAAAAGGCT
1 AAAAGGGCT
78704508 AGGCCTCCAG
Statistics
Matches: 73, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
24 11 0.15
25 62 0.85
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACTA
Found at i:78706671 original size:200 final size:200
Alignment explanation
Indices: 78706328--78706718 Score: 764
Period size: 200 Copynumber: 2.0 Consensus size: 200
78706318 GAAGGTGGCA
78706328 TCATAGAGTTGGCAAGGAGGTCCAGGGTTCGAAACTCATGGCAATCAAAGAGCATTTATTTTGCT
1 TCATAGAGTTGGCAAGGAGGTCCAGGGTTCGAAACTCATGGCAATCAAAGAGCATTTATTTTGCT
78706393 AACAGGGGGCGGCAAGAGTTGGTGTTGAATTTAAACTCTGATGTTAGAGGGATCCCACATCGGGA
66 AACAGGGGGCGGCAAGAGTTGGTGTTGAATTTAAACTCTGATGTTAGAGGGATCCCACATCGGGA
78706458 AGCTAACATAAGAGGGGATGCGAAGCTGGCTTTAAATAGAGAGAACTATGAGGAGAGTAGAGAGG
131 AGCTAACATAAGAGGGGATGCGAAGCTGGCTTTAAATAGAGAGAACTATGAGGAGAGTAGAGAGG
78706523 TGGTG
196 TGGTG
* *
78706528 TCATAGAGTTGGCAAGGAGGTCTAGGGTTCGAAGCTCATGGCAATCAAAGAGCATTTATTTTGCT
1 TCATAGAGTTGGCAAGGAGGTCCAGGGTTCGAAACTCATGGCAATCAAAGAGCATTTATTTTGCT
78706593 AACAGGGGGCGGCAAGAGTTGGTGTTGAATTTAAACTCTGATGTTAGAGGGATCCCACATCGGGA
66 AACAGGGGGCGGCAAGAGTTGGTGTTGAATTTAAACTCTGATGTTAGAGGGATCCCACATCGGGA
78706658 AGCTAACATAAGAGGGGATGCGAAGCTGGCTTTAAATAGAGAGAACTATGAGGAGAGTAGA
131 AGCTAACATAAGAGGGGATGCGAAGCTGGCTTTAAATAGAGAGAACTATGAGGAGAGTAGA
78706719 CGTCCCTTTC
Statistics
Matches: 189, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
200 189 1.00
ACGTcount: A:0.31, C:0.14, G:0.32, T:0.23
Consensus pattern (200 bp):
TCATAGAGTTGGCAAGGAGGTCCAGGGTTCGAAACTCATGGCAATCAAAGAGCATTTATTTTGCT
AACAGGGGGCGGCAAGAGTTGGTGTTGAATTTAAACTCTGATGTTAGAGGGATCCCACATCGGGA
AGCTAACATAAGAGGGGATGCGAAGCTGGCTTTAAATAGAGAGAACTATGAGGAGAGTAGAGAGG
TGGTG
Found at i:78708771 original size:85 final size:85
Alignment explanation
Indices: 78708628--78708799 Score: 335
Period size: 85 Copynumber: 2.0 Consensus size: 85
78708618 AGGGGGCGGC
*
78708628 AATAGTTGGTGTTGAATTTAAACTCTGATGTTAAAGGGATCCCACATCGGGAAGCTATCATAAGA
1 AATAGTTGCTGTTGAATTTAAACTCTGATGTTAAAGGGATCCCACATCGGGAAGCTATCATAAGA
78708693 GGGGATGCGAAGGTGGCTTT
66 GGGGATGCGAAGGTGGCTTT
78708713 AATAGTTGCTGTTGAATTTAAACTCTGATGTTAAAGGGATCCCACATCGGGAAGCTATCATAAGA
1 AATAGTTGCTGTTGAATTTAAACTCTGATGTTAAAGGGATCCCACATCGGGAAGCTATCATAAGA
78708778 GGGGATGCGAAGGTGGCTTT
66 GGGGATGCGAAGGTGGCTTT
78708798 AA
1 AA
78708800 ATAAAGCGAA
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 86 1.00
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.28
Consensus pattern (85 bp):
AATAGTTGCTGTTGAATTTAAACTCTGATGTTAAAGGGATCCCACATCGGGAAGCTATCATAAGA
GGGGATGCGAAGGTGGCTTT
Found at i:78709266 original size:27 final size:27
Alignment explanation
Indices: 78709219--78709547 Score: 70
Period size: 27 Copynumber: 12.2 Consensus size: 27
78709209 CCCCCAGTTG
* *
78709219 TAAAATTACCAAAGTACCCTCGGTTTA
1 TAAAACTACCAAAGTACCCTCGATTTA
*
78709246 TAAAACTACGCAAA-TATCCTCGATTTA
1 TAAAACTAC-CAAAGTACCCTCGATTTA
* * *** *
78709273 TAGAATTACCATTTTACCCTCAATTTA
1 TAAAACTACCAAAGTACCCTCGATTTA
* * **** *
78709300 TAGAATTACCGTTTTACTCTCGATTTA
1 TAAAACTACCAAAGTACCCTCGATTTA
* * *** *
78709327 TAGAATTACCATTTTACTCTCGATTTA
1 TAAAACTACCAAAGTACCCTCGATTTA
* * ** ***
78709354 TAGAATTATTATTTTACCCTCGATTTA
1 TAAAACTACCAAAGTACCCTCGATTTA
* * * * ***
78709381 CAGAATTACTATTTTACCCTCGATTTA
1 TAAAACTACCAAAGTACCCTCGATTTA
* * * * ***
78709408 CAGAATTGCCATTTTACCCTCGATTTA
1 TAAAACTACCAAAGTACCCTCGATTTA
* * * * * *
78709435 CAAAATTACTAAAATACCCTTGGTTTA
1 TAAAACTACCAAAGTACCCTCGATTTA
* * *
78709462 CAAAATTACCAAAATACCCTCGA-TTA
1 TAAAACTACCAAAGTACCCTCGATTTA
* * * *
78709488 GTAAAATTACCAAAATACCC-CTGGTTTG
1 -TAAAACTACCAAAGTACCCTC-GATTTA
* * * *
78709516 TAAAATTACCAAAATACCCTTGATTTG
1 TAAAACTACCAAAGTACCCTCGATTTA
78709543 TAAAA
1 TAAAA
78709548 TACTGAAATA
Statistics
Matches: 260, Mismatches: 36, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.02
27 248 0.95
28 6 0.02
ACGTcount: A:0.35, C:0.21, G:0.08, T:0.36
Consensus pattern (27 bp):
TAAAACTACCAAAGTACCCTCGATTTA
Found at i:78709291 original size:54 final size:54
Alignment explanation
Indices: 78709233--78709407 Score: 165
Period size: 54 Copynumber: 3.2 Consensus size: 54
78709223 ATTACCAAAG
*
78709233 TACCCTCGGTTTATAAAACTACGCAA-ATA-TCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAAAACTAC-CAATATACT-CTCGATTTATAGAATTACCATTT
* * * ** *
78709287 TACCCTCAATTTATAGAATTACCGTTTTACTCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAAAACTACCAATATACTCTCGATTTATAGAATTACCATTT
* * * ** * * * * *
78709341 TACTCTCGATTTATAGAATTATTATTTTACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTATAAAACTACCAATATACTCTCGATTTATAGAATTACCATTT
78709395 TACCCTCGATTTA
1 TACCCTCGATTTA
78709408 CAGAATTGCC
Statistics
Matches: 103, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
53 1 0.01
54 101 0.98
55 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.08, T:0.41
Consensus pattern (54 bp):
TACCCTCGATTTATAAAACTACCAATATACTCTCGATTTATAGAATTACCATTT
Found at i:78709349 original size:81 final size:81
Alignment explanation
Indices: 78709263--78709443 Score: 254
Period size: 81 Copynumber: 2.2 Consensus size: 81
78709253 ACGCAAATAT
* * * *
78709263 CCTCGATTTATAGAATTACCATTTTACCCTCAATTTATAGAATTACCGTTTTACTCTCGATTTAT
1 CCTCGATTTATAGAATTACCATTTTACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTAC
78709328 AGAATTACCATTTTAC
66 AGAATTACCATTTTAC
* ** * *
78709344 TCTCGATTTATAGAATTATTATTTTACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTAC
1 CCTCGATTTATAGAATTACCATTTTACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTAC
*
78709409 AGAATTGCCATTTTAC
66 AGAATTACCATTTTAC
* *
78709425 CCTCGATTTACAAAATTAC
1 CCTCGATTTATAGAATTAC
78709444 TAAAATACCC
Statistics
Matches: 86, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 86 1.00
ACGTcount: A:0.30, C:0.21, G:0.08, T:0.41
Consensus pattern (81 bp):
CCTCGATTTATAGAATTACCATTTTACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTAC
AGAATTACCATTTTAC
Found at i:78709445 original size:54 final size:54
Alignment explanation
Indices: 78709263--78709443 Score: 254
Period size: 54 Copynumber: 3.4 Consensus size: 54
78709253 ACGCAAATAT
* * *
78709263 CCTCGATTTATAGAATTACCATTTTACCCTCAATTTATAGAATTACCGTTTTAC
1 CCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTAC
* * * **
78709317 TCTCGATTTATAGAATTACCATTTTACTCTCGATTTATAGAATTATTATTTTAC
1 CCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTAC
* * *
78709371 CCTCGATTTACAGAATTACTATTTTACCCTCGATTTACAGAATTGCCATTTTAC
1 CCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTAC
*
78709425 CCTCGATTTACAAAATTAC
1 CCTCGATTTACAGAATTAC
78709444 TAAAATACCC
Statistics
Matches: 112, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 112 1.00
ACGTcount: A:0.30, C:0.21, G:0.08, T:0.41
Consensus pattern (54 bp):
CCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTAC
Found at i:78709453 original size:54 final size:54
Alignment explanation
Indices: 78709263--78709507 Score: 186
Period size: 54 Copynumber: 4.5 Consensus size: 54
78709253 ACGCAAATAT
* * *** * * *
78709263 CCTCGATTTATAGAATTACCATTTTACCCTCAATTTATAGAATTACCGTTTTAC
1 CCTCGATTTACAAAATTACCAAAATACCCTCGATTTACAGAATTACCATTTTAC
* * * *** * * **
78709317 TCTCGATTTATAGAATTACCATTTTACTCTCGATTTATAGAATTATTATTTTAC
1 CCTCGATTTACAAAATTACCAAAATACCCTCGATTTACAGAATTACCATTTTAC
* * *** *
78709371 CCTCGATTTACAGAATTACTATTTTACCCTCGATTTACAGAATTGCCATTTTAC
1 CCTCGATTTACAAAATTACCAAAATACCCTCGATTTACAGAATTACCATTTTAC
* * * * ***
78709425 CCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATAC
1 CCTCGATTTACAAAATTACCAAAATACCCTCGATTTACAGAATTACCATTTTAC
*
78709479 CCTCGA-TTAGTAAAATTACCAAAATACCC
1 CCTCGATTTA-CAAAATTACCAAAATACCC
78709508 CTGGTTTGTA
Statistics
Matches: 163, Mismatches: 27, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
53 3 0.02
54 160 0.98
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.38
Consensus pattern (54 bp):
CCTCGATTTACAAAATTACCAAAATACCCTCGATTTACAGAATTACCATTTTAC
Found at i:78709453 original size:81 final size:81
Alignment explanation
Indices: 78709287--78709486 Score: 220
Period size: 81 Copynumber: 2.5 Consensus size: 81
78709277 ATTACCATTT
* * * * * *
78709287 TACCCTCAATTTATAGAATTACCGTTTTACTCTCGATTTATAGAATTACCATTTTACTCTCGATT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATT
* * * ***
78709352 TATAGAATTATTATTT
66 TACAAAATTACTAAAA
* *
78709368 TACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTACAGAATTGCCATTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATT
78709433 TACAAAATTACTAAAA
66 TACAAAATTACTAAAA
* * * ***
78709449 TACCCTTGGTTTACAAAATTACCAAAATACCCTCGATT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATT
78709487 AGTAAAATTA
Statistics
Matches: 98, Mismatches: 21, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
81 98 1.00
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.39
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATT
TACAAAATTACTAAAA
Found at i:78709513 original size:54 final size:54
Alignment explanation
Indices: 78709422--78709563 Score: 189
Period size: 54 Copynumber: 2.6 Consensus size: 54
78709412 ATTGCCATTT
* *
78709422 TACCCTCGATTTA-CAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGA-TTAGTAAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAA
* **
78709476 TACCCTCGATTAGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAA
1 TACCCTCGATTAGTAAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAA
* * *
78709530 TACCCTTGATTTGTAAAA-TACTGAAATACCCCTG
1 TACCCTCGATTAGTAAAATTACTAAAATACCCCTG
78709564 TTGGGTAGAA
Statistics
Matches: 78, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
53 17 0.22
54 61 0.78
ACGTcount: A:0.39, C:0.23, G:0.08, T:0.30
Consensus pattern (54 bp):
TACCCTCGATTAGTAAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAA
Found at i:78709548 original size:27 final size:27
Alignment explanation
Indices: 78709422--78709590 Score: 162
Period size: 27 Copynumber: 6.3 Consensus size: 27
78709412 ATTGCCATTT
* ** *
78709422 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTGTAAAATTACCAAAA
* **
78709449 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTTGATTTGTAAAATTACCAAAA
* *
78709476 TACCCTCGATTAGTAAAATTACCAAAA
1 TACCCTTGATTTGTAAAATTACCAAAA
* *
78709503 TACCCCTGGTTTGTAAAATTACCAAAA
1 TACCCTTGATTTGTAAAATTACCAAAA
**
78709530 TACCCTTGATTTGTAAAA-TACTGAAA
1 TACCCTTGATTTGTAAAATTACCAAAA
* * * *
78709556 TACCCCTG-TTGGGTAGAATTACTAAAA
1 TACCCTTGATT-TGTAAAATTACCAAAA
78709583 TACCCTTG
1 TACCCTTG
78709591 TAAGGTAGAA
Statistics
Matches: 119, Mismatches: 21, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
25 2 0.02
26 18 0.15
27 99 0.83
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.30
Consensus pattern (27 bp):
TACCCTTGATTTGTAAAATTACCAAAA
Found at i:78709597 original size:27 final size:27
Alignment explanation
Indices: 78709548--78709721 Score: 231
Period size: 27 Copynumber: 6.4 Consensus size: 27
78709538 ATTTGTAAAA
*
78709548 TACTGAAATACCCCTGTTGGGTAGAAT
1 TACTGAAATACCCCTGTAGGGTAGAAT
* * * *
78709575 TACTAAAATACCCTTGTAAGGTAGAAA
1 TACTGAAATACCCCTGTAGGGTAGAAT
*
78709602 TACCGAAATACCCCTGTAGGGTAGAAT
1 TACTGAAATACCCCTGTAGGGTAGAAT
*
78709629 TACTGAAATACCCCTATAGGGTAGAAT
1 TACTGAAATACCCCTGTAGGGTAGAAT
* * *
78709656 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACTGAAATACCCCTGTAGGGTAGAAT
* *
78709683 TACCGAAATACCCCCGTAGGGTAGAAT
1 TACTGAAATACCCCTGTAGGGTAGAAT
*
78709710 TACTGAGATACC
1 TACTGAAATACC
78709722 ATGTGGGGTA
Statistics
Matches: 126, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 126 1.00
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (27 bp):
TACTGAAATACCCCTGTAGGGTAGAAT
Found at i:78709617 original size:54 final size:53
Alignment explanation
Indices: 78709465--78709695 Score: 207
Period size: 54 Copynumber: 4.3 Consensus size: 53
78709455 TGGTTTACAA
* * * ** *
78709465 AATTACCAAAATACCCTCGATTA-GTAAAATTACCAAAATACCCCTGGT-TTGTAA
1 AATTACCAAAATACCCTTG-TAAGGTAAAA-TACCGAAATACCCCT-GTAGGGTAG
** * *
78709519 AATTACCAAAATACCCTTG-ATTTGTAAAATACTGAAATACCCCTGTTGGGTAG
1 AATTACCAAAATACCCTTGTA-AGGTAAAATACCGAAATACCCCTGTAGGGTAG
*
78709572 AATTACTAAAATACCCTTGTAAGGTAGAAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCTTGTAAGGTA-AAATACCGAAATACCCCTGTAGGGTAG
** * * * * *
78709626 AATTACTGAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCAAAATACCCTTGTAAGGTA-AAATACCGAAATACCCCTGTAGGGTAG
* *
78709680 AAATACCGAAATACCC
1 AATTACCAAAATACCC
78709696 CCGTAGGGTA
Statistics
Matches: 151, Mismatches: 21, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
52 2 0.01
53 37 0.25
54 112 0.74
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (53 bp):
AATTACCAAAATACCCTTGTAAGGTAAAATACCGAAATACCCCTGTAGGGTAG
Found at i:78709654 original size:81 final size:81
Alignment explanation
Indices: 78709548--78709721 Score: 285
Period size: 81 Copynumber: 2.1 Consensus size: 81
78709538 ATTTGTAAAA
* * *
78709548 TACTGAAATACCCCTGTTGGGTAGAATTACTAAAATACCCTTGTAAGGTAGAAATACCGAAATAC
1 TACTGAAATACCCCTATAGGGTAGAATTACCAAAATACCCTTGTAAGGTAGAAATACCGAAATAC
*
78709613 CCCTGTAGGGTAGAAT
66 CCCCGTAGGGTAGAAT
* *
78709629 TACTGAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATAC
1 TACTGAAATACCCCTATAGGGTAGAATTACCAAAATACCCTTGTAAGGTAGAAATACCGAAATAC
78709694 CCCCGTAGGGTAGAAT
66 CCCCGTAGGGTAGAAT
*
78709710 TACTGAGATACC
1 TACTGAAATACC
78709722 ATGTGGGGTA
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 86 1.00
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (81 bp):
TACTGAAATACCCCTATAGGGTAGAATTACCAAAATACCCTTGTAAGGTAGAAATACCGAAATAC
CCCCGTAGGGTAGAAT
Found at i:78710004 original size:24 final size:25
Alignment explanation
Indices: 78709944--78710009 Score: 107
Period size: 25 Copynumber: 2.7 Consensus size: 25
78709934 AGGAAGTGCT
*
78709944 AAAACGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
78709969 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
78709994 -AAAGGGGTTTGCCCCA
1 AAAAGGGCTTTGCCCCA
78710010 ATTATTAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
24 15 0.38
25 24 0.62
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.23
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:78711928 original size:23 final size:23
Alignment explanation
Indices: 78711901--78712226 Score: 367
Period size: 23 Copynumber: 14.2 Consensus size: 23
78711891 GGAATCTATA
* *
78711901 GGCTACATTTTAGTGGTAGCTTC
1 GGCTACAATATAGTGGTAGCTTC
*
78711924 GGCTACAATATAATGGTAGC-TC
1 GGCTACAATATAGTGGTAGCTTC
*
78711946 TGGCTAC-ATCTTAGTGGTAGCTTC
1 -GGCTACAAT-ATAGTGGTAGCTTC
* *
78711970 GGCTACAATACAGTGCTAGCTTC
1 GGCTACAATATAGTGGTAGCTTC
*
78711993 GTCTACAATATAGTGGTAGCTTC
1 GGCTACAATATAGTGGTAGCTTC
78712016 GGCTAC-ATATCAGTGGTAGCTTC
1 GGCTACAATAT-AGTGGTAGCTTC
* * * *
78712039 AGCTAAAATACAGTGGTAGCTTT
1 GGCTACAATATAGTGGTAGCTTC
*
78712062 GGCTAC-ATCTTAGTGGTAGCTTC
1 GGCTACAAT-ATAGTGGTAGCTTC
*
78712085 GGCTAC-ATCTTAGTGGTAGCTTC
1 GGCTACAAT-ATAGTGGTAGCTTC
* * *
78712108 GGCGACAATACAGTGGTAGCTTT
1 GGCTACAATATAGTGGTAGCTTC
78712131 GGCTACAATATAGTGGTAGCTTC
1 GGCTACAATATAGTGGTAGCTTC
*
78712154 GGCTAC-ATCTTAGTGGTAGCTTC
1 GGCTACAAT-ATAGTGGTAGCTTC
* * * *
78712177 GGCGACAATACAATGGTAGCTTT
1 GGCTACAATATAGTGGTAGCTTC
78712200 GGCTACAATATAGTGGTAGCTTC
1 GGCTACAATATAGTGGTAGCTTC
78712223 GGCT
1 GGCT
78712227 GCGTTACAGT
Statistics
Matches: 255, Mismatches: 38, Indels: 20
0.81 0.12 0.06
Matches are distributed among these distances:
22 12 0.05
23 232 0.91
24 11 0.04
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (23 bp):
GGCTACAATATAGTGGTAGCTTC
Found at i:78712247 original size:69 final size:69
Alignment explanation
Indices: 78711912--78712226 Score: 481
Period size: 69 Copynumber: 4.6 Consensus size: 69
78711902 GCTACATTTT
* * *
78711912 AGTGGTAGCTTCGGCTACAATATAATGGTAGC-TCTGGCTACATCTTAGTGGTAGCTTCGGCTAC
1 AGTGGTAGCTTTGGCTACAATATAGTGGTAGCTTC-GGCTACATCTTAGTGGTAGCTTCGGCGAC
78711976 AATAC
65 AATAC
* * * * * * * *
78711981 AGTGCTAGCTTCGTCTACAATATAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCAGCTAAA
1 AGTGGTAGCTTTGGCTACAATATAGTGGTAGCTTCGGCTACATCTTAGTGGTAGCTTCGGCGACA
78712046 ATAC
66 ATAC
*
78712050 AGTGGTAGCTTTGGCTAC-ATCTTAGTGGTAGCTTCGGCTACATCTTAGTGGTAGCTTCGGCGAC
1 AGTGGTAGCTTTGGCTACAAT-ATAGTGGTAGCTTCGGCTACATCTTAGTGGTAGCTTCGGCGAC
78712114 AATAC
65 AATAC
78712119 AGTGGTAGCTTTGGCTACAATATAGTGGTAGCTTCGGCTACATCTTAGTGGTAGCTTCGGCGACA
1 AGTGGTAGCTTTGGCTACAATATAGTGGTAGCTTCGGCTACATCTTAGTGGTAGCTTCGGCGACA
78712184 ATAC
66 ATAC
*
78712188 AATGGTAGCTTTGGCTACAATATAGTGGTAGCTTCGGCT
1 AGTGGTAGCTTTGGCTACAATATAGTGGTAGCTTCGGCT
78712227 GCGTTACAGT
Statistics
Matches: 225, Mismatches: 18, Indels: 6
0.90 0.07 0.02
Matches are distributed among these distances:
68 2 0.01
69 219 0.97
70 4 0.02
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (69 bp):
AGTGGTAGCTTTGGCTACAATATAGTGGTAGCTTCGGCTACATCTTAGTGGTAGCTTCGGCGACA
ATAC
Found at i:78716032 original size:13 final size:13
Alignment explanation
Indices: 78716014--78716041 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
78716004 CTATTGAAAG
78716014 ATTGTGAATAATT
1 ATTGTGAATAATT
78716027 ATTGTGAATAATT
1 ATTGTGAATAATT
78716040 AT
1 AT
78716042 GTGTAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.14, T:0.46
Consensus pattern (13 bp):
ATTGTGAATAATT
Found at i:78718408 original size:23 final size:23
Alignment explanation
Indices: 78718390--78718601 Score: 221
Period size: 23 Copynumber: 9.2 Consensus size: 23
78718380 CACTACATCT
*
78718390 CAGTTGTAGCTTCGGCTACAATA
1 CAGTGGTAGCTTCGGCTACAATA
* *
78718413 CAGTGGTAGCTTCAGCTGCAATA
1 CAGTGGTAGCTTCGGCTACAATA
* * *
78718436 TAGTGGTAGCTTCGACTAC-ATCT
1 CAGTGGTAGCTTCGGCTACAAT-A
* *
78718459 CAGTGGTATCTTTGGCTACAATA
1 CAGTGGTAGCTTCGGCTACAATA
* * *
78718482 CAGTGGTAGATTTGGCTAC-ATCT
1 CAGTGGTAGCTTCGGCTACAAT-A
78718505 CAGTGGTAGCTTCGGCTACAATA
1 CAGTGGTAGCTTCGGCTACAATA
*
78718528 CAGTGGTAGCTTTGGCTACAATA
1 CAGTGGTAGCTTCGGCTACAATA
** *
78718551 CAGTGGTAGCTTCGGCTACGTTG
1 CAGTGGTAGCTTCGGCTACAATA
* * * *
78718574 CAGTGATAGCTTTGGCTATATTA
1 CAGTGGTAGCTTCGGCTACAATA
78718597 CAGTG
1 CAGTG
78718602 TGGCACTTTG
Statistics
Matches: 156, Mismatches: 29, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
22 4 0.03
23 148 0.95
24 4 0.03
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (23 bp):
CAGTGGTAGCTTCGGCTACAATA
Found at i:78718481 original size:69 final size:69
Alignment explanation
Indices: 78718360--78718569 Score: 255
Period size: 69 Copynumber: 3.0 Consensus size: 69
78718350 ATCTATAGGA
* * * *
78718360 TACATTTCAATGGTAGCTTTC-ACTACATCTCAGTTGTAGCTTCGGCTACAATACAGTGGTAGCT
1 TACATATCAGTGGTAGC-TTCGACTACATCTCAGTGGTAGCTTTGGCTACAATACAGTGGTAGCT
78718424 TCAGC
65 TCAGC
* * *
78718429 TGCAATAT-AGTGGTAGCTTCGACTACATCTCAGTGGTATCTTTGGCTACAATACAGTGGTAGAT
1 TAC-ATATCAGTGGTAGCTTCGACTACATCTCAGTGGTAGCTTTGGCTACAATACAGTGGTAGCT
**
78718493 TTGGC
65 TCAGC
* * *
78718498 TACATCTCAGTGGTAGCTTCGGCTACAAT-ACAGTGGTAGCTTTGGCTACAATACAGTGGTAGCT
1 TACATATCAGTGGTAGCTTCGACTAC-ATCTCAGTGGTAGCTTTGGCTACAATACAGTGGTAGCT
*
78718562 TCGGC
65 TCAGC
78718567 TAC
1 TAC
78718570 GTTGCAGTGA
Statistics
Matches: 121, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
68 6 0.05
69 110 0.91
70 5 0.04
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (69 bp):
TACATATCAGTGGTAGCTTCGACTACATCTCAGTGGTAGCTTTGGCTACAATACAGTGGTAGCTT
CAGC
Found at i:78726161 original size:42 final size:42
Alignment explanation
Indices: 78726044--78726198 Score: 177
Period size: 42 Copynumber: 3.7 Consensus size: 42
78726034 TACTATAACA
* * * *
78726044 ATGCCATATCCCAGATATGGTCTTACATG-GGATCTCGTATCG
1 ATGCCATATCCTAGATATGGTCTTACACGAAG-TCTCATATCG
* * * * *
78726086 ATGCCAATAGCCTAGCTATGGTCTTGCATGAAGTATCATATCG
1 ATGCC-ATATCCTAGATATGGTCTTACACGAAGTCTCATATCG
* *
78726129 ATGCCATATCCTAGATATGGTCTTACACGAAGTCCCATATAG
1 ATGCCATATCCTAGATATGGTCTTACACGAAGTCTCATATCG
*
78726171 ATGCCATATCCTAGATATGGTATTACAC
1 ATGCCATATCCTAGATATGGTCTTACAC
78726199 ATAGTCTTAG
Statistics
Matches: 96, Mismatches: 15, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
42 62 0.65
43 33 0.34
44 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCTAGATATGGTCTTACACGAAGTCTCATATCG
Found at i:78729700 original size:43 final size:43
Alignment explanation
Indices: 78729652--78729774 Score: 156
Period size: 43 Copynumber: 2.9 Consensus size: 43
78729642 ATCAAGTTGT
* * **
78729652 GATTACATGTAAGACCATGTCCGGGACATTGGCATTGTATTAA
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCATATTAA
* *
78729695 GATTACGTGTAAGACAATGTCTGGGACATTGGCATCATATTAT
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCATATTAA
* * * *
78729738 GATTTCGTGTAAGACCTTGTCTAGGACAGTGGCATCA
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCA
78729775 ATATGTGATA
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 69 1.00
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.31
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTCTGGGACATTGGCATCATATTAA
Found at i:78732375 original size:40 final size:40
Alignment explanation
Indices: 78732292--78732538 Score: 272
Period size: 40 Copynumber: 6.2 Consensus size: 40
78732282 CGGATGATAA
* * **
78732292 CCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTA-ATT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGTTACTATA-T
* *
78732332 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
78732372 CCGGGCTTAGTCCTGAAGGCCTTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
78732412 GCGGGCTAAGTCTCAAAGGCATTTGTGCGAAG-TACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTTACTATAT
* *
78732452 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
78732492 CCGGGCTAAGTCCCAAAGGCATTTGAGC-AG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
78732531 CC-GGCTAA
1 CCGGGCTAA
78732539 ACCCCAAAGG
Statistics
Matches: 176, Mismatches: 26, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
38 8 0.05
39 11 0.06
40 152 0.86
41 5 0.03
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:78740569 original size:40 final size:40
Alignment explanation
Indices: 78740486--78740702 Score: 248
Period size: 40 Copynumber: 5.5 Consensus size: 40
78740476 TGGATGATAA
* * **
78740486 CCGGGCTAAGTCCC-AAGAGCATTTGAGCTAGTGGCTA-ATT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGTTACTATA-T
*
78740526 CCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
78740566 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTTACTATAT
*
78740606 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
78740646 CCAGGTTAAGTCCTGAAGGCATTTGAGC-AG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
**
78740685 CC-GGCTAAACCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
78740703 TACTTGGTTG
Statistics
Matches: 156, Mismatches: 16, Indels: 12
0.85 0.09 0.07
Matches are distributed among these distances:
38 14 0.09
39 11 0.07
40 125 0.80
41 6 0.04
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:78740619 original size:80 final size:78
Alignment explanation
Indices: 78740482--78740702 Score: 277
Period size: 80 Copynumber: 2.8 Consensus size: 78
78740472 TGTTTGGATG
*
78740482 ATAACCGGGCTAAGTCCC-AAGAGCATTTGAGCTAGTGGCTA-ATTCCGGGCTAAGTCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAG-GCATTTGAGC-AGT-ACTATA-TCCGGGCTAAGTCCCGAAGG
*
78740545 CGTTTGTGCGAGTTACT
62 CATTTGTGCGAGTTACT
* *
78740562 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGC--AGTACTATATCCGGGCTAAGTCCCGAAGGCA
78740627 TTTGTGCGAGTTACT
64 TTTGTGCGAGTTACT
* * * **
78740642 ATAACCAGGTTAAGTCCTGAAGGCATTTGAGCAGTAGCTATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAGTA-CTATATCCGGGCTAAGTCCCGAAGG
78740703 TACTTGGTTG
Statistics
Matches: 125, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
78 18 0.14
79 8 0.06
80 92 0.74
81 7 0.06
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (78 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAGTACTATATCCGGGCTAAGTCCCGAAGGCATT
TGTGCGAGTTACT
Found at i:78742646 original size:43 final size:43
Alignment explanation
Indices: 78742478--78742648 Score: 168
Period size: 43 Copynumber: 4.0 Consensus size: 43
78742468 ATATAGCTTG
* * * * *
78742478 TACAATGCC-ATATCCCAGATATGGTCTTACATGTTATCA-TA
1 TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAA
* * * * ** *
78742519 TATCGATGCCACTGTACCAGACAGGGTCTTACACGTAAT-TGAT
1 TA-CAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAA
* *
78742562 TAACGATGCCAATGTCTCAGACATGGTCTTACACGTAATCACAA
1 T-ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAA
*
78742606 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAA
1 TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAA
78742649 CTCAATAACC
Statistics
Matches: 104, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
41 2 0.02
42 6 0.06
43 93 0.89
44 3 0.03
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (43 bp):
TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAA
Found at i:78746317 original size:46 final size:47
Alignment explanation
Indices: 78746180--78746395 Score: 176
Period size: 46 Copynumber: 4.6 Consensus size: 47
78746170 GTTATTTGTG
* * * * **
78746180 AGCCACTGTAAGACCATGTCTAGGACATGGCATCGGC-ATTGAGACGGG
1 AGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCTA-CGAGATGTA
* * * *
78746228 AGCTAGTGTAAGA-CATGTCTGGGGCATGCATTAGCCT-CGAGATGTA
1 AGCCAGTGTAAGACCATGTCTGGGACATGCA-TCGGCTACGAGATGTA
*
78746274 AGCCAGTGTAAGA-CATGTCTGGGACATGCATCGGCTACAAGATGT-
1 AGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCTACGAGATGTA
* * * *
78746319 -GTCAGTGTAAGACCATGTCTAGGACATGACATCGGC-ATGGATATGTGA
1 AGCCAGTGTAAGACCATGTCTGGGACATG-CATCGGCTA-CGAGATGT-A
*
78746367 GAGCTAGTGTAAGACCATGTCTGGGACAT
1 -AGCCAGTGTAAGACCATGTCTGGGACAT
78746396 TGTAACAGCC
Statistics
Matches: 135, Mismatches: 23, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
44 11 0.08
45 19 0.14
46 55 0.41
47 15 0.11
48 11 0.08
50 24 0.18
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (47 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCTACGAGATGTA
Found at i:78750866 original size:26 final size:26
Alignment explanation
Indices: 78750800--78750895 Score: 102
Period size: 27 Copynumber: 3.6 Consensus size: 26
78750790 TTATAAGATA
* * *
78750800 AAATGACTGTTTTACCCTTATGTGGC
1 AAATGACTATTTTGCCCTTATGTGGT
*
78750826 AAAGTGACTGTTTTGCCCTTATGTGGT
1 AAA-TGACTATTTTGCCCTTATGTGGT
* * *
78750853 AAATGACTATTTTGCCTTTATATGAT
1 AAATGACTATTTTGCCCTTATGTGGT
*
78750879 AAAATGACGATTTTGCC
1 -AAATGACTATTTTGCC
78750896 ATTCTGAGAT
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
26 22 0.36
27 39 0.64
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.40
Consensus pattern (26 bp):
AAATGACTATTTTGCCCTTATGTGGT
Found at i:78750891 original size:27 final size:26
Alignment explanation
Indices: 78750787--78750895 Score: 78
Period size: 27 Copynumber: 4.1 Consensus size: 26
78750777 TGTACTTGAA
* *
78750787 CCCTTATAAGATAAAATGACTG-TTTTA
1 CCCTTATATGAT-AAATGAC-GATTTTG
* **
78750814 CCCTTATGTGGCAAAGTGACTG-TTTTG
1 CCCTTATATGATAAA-TGAC-GATTTTG
* * *
78750841 CCCTTATGTGGTAAATGACTATTTTG
1 CCCTTATATGATAAATGACGATTTTG
*
78750867 CCTTTATATGATAAAATGACGATTTTG
1 CCCTTATATGAT-AAATGACGATTTTG
78750894 CC
1 CC
78750896 ATTCTGAGAT
Statistics
Matches: 68, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
26 21 0.31
27 47 0.69
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.39
Consensus pattern (26 bp):
CCCTTATATGATAAATGACGATTTTG
Found at i:78750962 original size:27 final size:27
Alignment explanation
Indices: 78750908--78751159 Score: 244
Period size: 27 Copynumber: 9.3 Consensus size: 27
78750898 TCTGAGATAG
*
78750908 AATGACTGAAATACCCCCAT-AGGTTAA
1 AATGACTGAAATACCCCTATAAGG-TAA
* *
78750935 AATAACCGAAATACCCCTATAAGGTAA
1 AATGACTGAAATACCCCTATAAGGTAA
* * *
78750962 AATGA-TATAAATACCCCCATATGGTAA
1 AATGACT-GAAATACCCCTATAAGGTAA
* *
78750989 AATGATTGAAATACCTCTATAAGGTAA
1 AATGACTGAAATACCCCTATAAGGTAA
*
78751016 AATGACTGAAATA-CCCTCATAGGGTAA
1 AATGACTGAAATACCCCT-ATAAGGTAA
* * *
78751043 AATGATTGAGATACCCTTATAAGGTAA
1 AATGACTGAAATACCCCTATAAGGTAA
*
78751070 AATTA-TCGAAATACCCCTATACA-GTAA
1 AATGACT-GAAATACCCCTATA-AGGTAA
* * * *
78751097 AGTGACTGTAATACCCCTGTATGGTAA
1 AATGACTGAAATACCCCTATAAGGTAA
* * *
78751124 AATGACTGTAATATCCCTGTAAGGTAA
1 AATGACTGAAATACCCCTATAAGGTAA
78751151 AATGACTGA
1 AATGACTGA
78751160 TTTGCCCTAC
Statistics
Matches: 185, Mismatches: 31, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
26 4 0.02
27 172 0.93
28 9 0.05
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.26
Consensus pattern (27 bp):
AATGACTGAAATACCCCTATAAGGTAA
Found at i:78751602 original size:34 final size:33
Alignment explanation
Indices: 78751524--78751611 Score: 99
Period size: 34 Copynumber: 2.6 Consensus size: 33
78751514 TACTGCACTA
*
78751524 ATTCTGTAATGGGCTTAGGCCCCACTGATACTG
1 ATTCTGAAATGGGCTTAGGCCCCACTGATACTG
* *
78751557 -TTACTGGAATGGACTTAGGCCCACACTGATTA-TG
1 ATT-CTGAAATGGGCTTAGGCCC-CACTGA-TACTG
*
78751591 ATTCTGAAATGGGCTAAGGCC
1 ATTCTGAAATGGGCTTAGGCC
78751612 TTAACTAAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
32 2 0.04
33 17 0.37
34 23 0.50
35 4 0.09
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (33 bp):
ATTCTGAAATGGGCTTAGGCCCCACTGATACTG
Found at i:78755465 original size:27 final size:27
Alignment explanation
Indices: 78755435--78755740 Score: 316
Period size: 27 Copynumber: 11.4 Consensus size: 27
78755425 ACCCTAAAAT
78755435 AGGTAAAATGACCGTAATACCCCTGTA
1 AGGTAAAATGACCGTAATACCCCTGTA
*
78755462 AGGTAAAATGACCGTAATGCCCCTGTA
1 AGGTAAAATGACCGTAATACCCCTGTA
*
78755489 GGGTAAAATGACCGTAA-AGCCCCTGTA
1 AGGTAAAATGACCGTAATA-CCCCTGTA
* * * *
78755516 GGGTAAGACGACC-TAATGCCCCTGTA
1 AGGTAAAATGACCGTAATACCCCTGTA
*
78755542 AGGTAAAATGGCCGTAATACCCCTGT-
1 AGGTAAAATGACCGTAATACCCCTGTA
* * *
78755568 AGCATAAAATGACCGTAATGCCCTTGTA
1 AG-GTAAAATGACCGTAATACCCCTGTA
* * * *
78755596 GGGTAAGATGACTGTAATGCCCCTGTA
1 AGGTAAAATGACCGTAATACCCCTGTA
*
78755623 AGGTAAAATGACCGTAATACCCCTGTG
1 AGGTAAAATGACCGTAATACCCCTGTA
* ** *
78755650 GGGTAAAATGATTGTAATACCCCTAT-
1 AGGTAAAATGACCGTAATACCCCTGTA
* *
78755676 AGTGTAAAATGATCGTAATGCCCCTGTA
1 AG-GTAAAATGACCGTAATACCCCTGTA
* * * *
78755704 GGGTAAGATAACCGTAATACCCCT-AA
1 AGGTAAAATGACCGTAATACCCCTGTA
78755730 ATGGTAAAATG
1 A-GGTAAAATG
78755741 GCTATTATGT
Statistics
Matches: 229, Mismatches: 42, Indels: 16
0.80 0.15 0.06
Matches are distributed among these distances:
26 24 0.10
27 203 0.89
28 2 0.01
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.24
Consensus pattern (27 bp):
AGGTAAAATGACCGTAATACCCCTGTA
Found at i:78755521 original size:54 final size:54
Alignment explanation
Indices: 78755436--78755727 Score: 372
Period size: 54 Copynumber: 5.4 Consensus size: 54
78755426 CCCTAAAATA
*
78755436 GGTAAAATGACCGTAATACCCCTGTAAGGTAAAATGACCGTAATGCCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCGTAATGCCCCTGTAG
* * *
78755490 GGTAAAATGACCGTAA-AGCCCCTGTAGGGTAAGACGACC-TAATGCCCCTGTAA
1 GGTAAAATGACCGTAATA-CCCCTGTAGGGTAAAATGACCGTAATGCCCCTGTAG
* ** *
78755543 GGTAAAATGGCCGTAATACCCCTGTAGCATAAAATGACCGTAATGCCCTTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCGTAATGCCCCTGTAG
* * * * * *
78755597 GGTAAGATGACTGTAATGCCCCTGTAAGGTAAAATGACCGTAATACCCCTGTGG
1 GGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCGTAATGCCCCTGTAG
** * * *
78755651 GGTAAAATGATTGTAATACCCCTATAGTGTAAAATGATCGTAATGCCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCGTAATGCCCCTGTAG
* *
78755705 GGTAAGATAACCGTAATACCCCT
1 GGTAAAATGACCGTAATACCCCT
78755728 AAATGGTAAA
Statistics
Matches: 201, Mismatches: 34, Indels: 6
0.83 0.14 0.02
Matches are distributed among these distances:
53 46 0.23
54 155 0.77
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.24
Consensus pattern (54 bp):
GGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCGTAATGCCCCTGTAG
Found at i:78755645 original size:81 final size:81
Alignment explanation
Indices: 78755436--78755727 Score: 372
Period size: 81 Copynumber: 3.6 Consensus size: 81
78755426 CCCTAAAATA
* * *
78755436 GGTAAAATGACCGTAATACCCCTGTAAGGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATGAC
1 GGTAAAATGACTGTAATGCCCCTGTAAGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGAC
*
78755501 CGTAAAGCCCCTGTAG
66 CGTAATGCCCCTGTAG
* * * * **
78755517 GGTAAGACGAC-CTAATGCCCCTGTAAGGTAAAATGGCCGTAATACCCCTGTAGCATAAAATGAC
1 GGTAAAATGACTGTAATGCCCCTGTAAGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGAC
*
78755581 CGTAATGCCCTTGTAG
66 CGTAATGCCCCTGTAG
* * *
78755597 GGTAAGATGACTGTAATGCCCCTGTAAGGTAAAATGACCGTAATACCCCTGTGGGGTAAAATGAT
1 GGTAAAATGACTGTAATGCCCCTGTAAGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGAC
* * *
78755662 TGTAATACCCCTATAG
66 CGTAATGCCCCTGTAG
* * * *
78755678 TGTAAAATGA-TCGTAATGCCCCTGTAGGGTAAGATAACCGTAATACCCCT
1 GGTAAAATGACT-GTAATGCCCCTGTAAGGTAAAATGACCGTAATACCCCT
78755728 AAATGGTAAA
Statistics
Matches: 183, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
80 72 0.39
81 111 0.61
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.24
Consensus pattern (81 bp):
GGTAAAATGACTGTAATGCCCCTGTAAGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGAC
CGTAATGCCCCTGTAG
Found at i:78761960 original size:40 final size:40
Alignment explanation
Indices: 78761900--78762088 Score: 342
Period size: 40 Copynumber: 4.7 Consensus size: 40
78761890 TGAGCATTGG
78761900 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
78761940 GATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* *
78761980 GATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGAT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
78762020 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
78762060 GATATGTCCGGGCTAAGACCCGAAGGCAA
1 GATATATCCGGGCTAAGACCCGAAGGCAA
78762089 ATGTGTTTGC
Statistics
Matches: 144, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 144 1.00
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.22
Consensus pattern (40 bp):
GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
Found at i:78770717 original size:40 final size:40
Alignment explanation
Indices: 78770662--78770893 Score: 401
Period size: 40 Copynumber: 5.8 Consensus size: 40
78770652 AACATTGGAT
78770662 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
78770702 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
78770742 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
78770782 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGGGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
78770822 TATATCCGGGCTAAGACCCGAAGGCAATTACGCGAGTTCA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* * *
78770862 TATGTCCGGGTTAAGACCCGAAGGCAAATATG
1 TATATCCGGGCTAAGACCCGAAGGCAATTATG
78770894 TTTGCGGCTG
Statistics
Matches: 182, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 182 1.00
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:78774348 original size:48 final size:48
Alignment explanation
Indices: 78774293--78774398 Score: 128
Period size: 48 Copynumber: 2.2 Consensus size: 48
78774283 TTGTCTTTTC
*
78774293 TTTCTTTTTCAATTT-TCTCT-TTTTCCTCACA-CTTTTGTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTT--TCACATCCTTT-TTCAATCTCAA
** *
78774341 TTTCTTTTTTGATTTCTTTCTCTTTTTCACATCCTTTTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
78774389 TTTCTTTTTC
1 TTTCTTTTTC
78774399 CATGACACTC
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
48 38 0.76
49 8 0.16
50 4 0.08
ACGTcount: A:0.14, C:0.24, G:0.02, T:0.60
Consensus pattern (48 bp):
TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
Found at i:78776741 original size:10 final size:10
Alignment explanation
Indices: 78776726--78776787 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
78776716 TTTGAACCAT
*
78776726 TACCAATTCG
1 TACCAATTCA
*
78776736 TACCAAATACCA
1 TACC-AAT-TCA
*
78776748 TACCATTTCA
1 TACCAATTCA
78776758 TACCAATTCCA
1 TACCAATT-CA
* *
78776769 TACCATTTCG
1 TACCAATTCA
78776779 TACCAATTC
1 TACCAATTC
78776788 CCAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 22 0.54
11 14 0.34
12 5 0.12
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Found at i:78776771 original size:21 final size:21
Alignment explanation
Indices: 78776726--78776788 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
78776716 TTTGAACCAT
* *
78776726 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
78776748 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
78776769 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
78776789 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 25 0.68
22 12 0.32
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:78778605 original size:22 final size:22
Alignment explanation
Indices: 78778577--78778620 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
78778567 TTTTGAACCA
78778577 TTACCATTTCGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
*
78778599 TTACCATTTCGTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
78778621 AAATACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.36, G:0.05, T:0.34
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:78778978 original size:25 final size:24
Alignment explanation
Indices: 78778917--78778979 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 24
78778907 AAATAGGTAC
*
78778917 ATAAAAAAAAGAGTTCAAAAAAAAA
1 ATAAAAAAAA-ATTTCAAAAAAAAA
*
78778942 ATAAAAAAAAATTTGAAAAAAAAA
1 ATAAAAAAAAATTTCAAAAAAAAA
*
78778966 TTGAAAAAAAAATT
1 AT-AAAAAAAAATT
78778980 GCATACGGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 13 0.38
25 21 0.62
ACGTcount: A:0.75, C:0.02, G:0.06, T:0.17
Consensus pattern (24 bp):
ATAAAAAAAAATTTCAAAAAAAAA
Found at i:78778980 original size:12 final size:12
Alignment explanation
Indices: 78778919--78778980 Score: 72
Period size: 12 Copynumber: 5.0 Consensus size: 12
78778909 ATAGGTACAT
*
78778919 AAAAAAAAGAGTTC
1 AAAAAAAA-A-TTG
*
78778933 AAAAAAAAAAT-
1 AAAAAAAAATTG
78778944 AAAAAAAAATTTG
1 AAAAAAAAA-TTG
78778957 AAAAAAAAATTG
1 AAAAAAAAATTG
78778969 AAAAAAAAATTG
1 AAAAAAAAATTG
78778981 CATACGGTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
11 9 0.20
12 17 0.39
13 10 0.23
14 8 0.18
ACGTcount: A:0.74, C:0.02, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAAAAAAATTG
Found at i:78795823 original size:40 final size:40
Alignment explanation
Indices: 78795768--78795848 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
78795758 TCAAATACAT
78795768 GGAAATTAATATTAAAATATTTTTCTAACTCAGATTTGTG
1 GGAAATTAATATTAAAATATTTTTCTAACTCAGATTTGTG
78795808 GGAAATTAATATTAAAATATTTTTCTAACTCAGATTTGTG
1 GGAAATTAATATTAAAATATTTTTCTAACTCAGATTTGTG
78795848 G
1 G
78795849 TCTGAAACCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.42
Consensus pattern (40 bp):
GGAAATTAATATTAAAATATTTTTCTAACTCAGATTTGTG
Found at i:78801897 original size:3 final size:3
Alignment explanation
Indices: 78801889--78801914 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
78801879 CTAAAAAGCT
78801889 TAG TAG TAG TAG TAG TAG TAG TAG TA
1 TAG TAG TAG TAG TAG TAG TAG TAG TA
78801915 AGAAAAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.31, T:0.35
Consensus pattern (3 bp):
TAG
Found at i:78802676 original size:10 final size:10
Alignment explanation
Indices: 78802649--78802681 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
78802639 TTGTATTTTA
78802649 TAATTTAAAT
1 TAATTTAAAT
*
78802659 T-TTTTAAAT
1 TAATTTAAAT
78802668 TAATTTAAAT
1 TAATTTAAAT
78802678 TAAT
1 TAAT
78802682 ACTTTTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
9 8 0.40
10 12 0.60
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (10 bp):
TAATTTAAAT
Found at i:78802678 original size:25 final size:27
Alignment explanation
Indices: 78802645--78802697 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 27
78802635 ATTATTGTAT
*
78802645 TTTATAATTTAA-ATTTTTTAAAT-TAA
1 TTTATAA-TTAATACTTTTTAAATATAA
78802671 TTTA-AATTAATACTTTTTAAATATAA
1 TTTATAATTAATACTTTTTAAATATAA
78802697 T
1 T
78802698 GAATTTACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 4 0.17
25 12 0.50
26 8 0.33
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (27 bp):
TTTATAATTAATACTTTTTAAATATAA
Found at i:78807318 original size:25 final size:25
Alignment explanation
Indices: 78807282--78807339 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
78807272 TAATTAGTAT
* * *
78807282 AAAATATT-AATAACTCAATAAATTG
1 AAAAT-TTAAATAACTAAATAAAATA
*
78807307 AAAATTTAAATAATTAAATAAAATA
1 AAAATTTAAATAACTAAATAAAATA
78807332 AAAATTTA
1 AAAATTTA
78807340 GGAGAAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 2 0.07
25 26 0.93
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (25 bp):
AAAATTTAAATAACTAAATAAAATA
Found at i:78808038 original size:15 final size:16
Alignment explanation
Indices: 78808004--78808038 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
78807994 AATTTATTAA
*
78808004 AAATAAAATACTTATT
1 AAATAAAATACTTATC
78808020 AAATAAAATA-TTATC
1 AAATAAAATACTTATC
78808035 AAAT
1 AAAT
78808039 TTAAACTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (16 bp):
AAATAAAATACTTATC
Found at i:78814936 original size:48 final size:49
Alignment explanation
Indices: 78814884--78814995 Score: 129
Period size: 50 Copynumber: 2.3 Consensus size: 49
78814874 TATCCCAGAT
* *
78814884 ATGGTCTTACATGTGATCAC-CA-CTCGATGCCAATGCCATGTTCCAAAC
1 ATGGTCTTACATG-GATCACACATCTCGATGCCAATACCATGTCCCAAAC
* * * *
78814932 ATGGTCTTACATGGAATCTCATATGTCGATGCCAATACCATGTCCCATAC
1 ATGGTCTTACATGG-ATCACACATCTCGATGCCAATACCATGTCCCAAAC
*
78814982 ATGGTTTTACATGG
1 ATGGTCTTACATGG
78814996 GATCTCATAT
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
47 1 0.02
48 17 0.31
49 1 0.02
50 35 0.65
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (49 bp):
ATGGTCTTACATGGATCACACATCTCGATGCCAATACCATGTCCCAAAC
Found at i:78814973 original size:50 final size:50
Alignment explanation
Indices: 78814907--78815005 Score: 153
Period size: 50 Copynumber: 2.0 Consensus size: 50
78814897 TGATCACCAC
* *
78814907 TCGATGCCAATGCCATGTTCCAAACATGGTCTTACATGGAATCTCATATG
1 TCGATGCCAATACCATGTCCCAAACATGGTCTTACATGGAATCTCATATG
* * *
78814957 TCGATGCCAATACCATGTCCCATACATGGTTTTACATGGGATCTCATAT
1 TCGATGCCAATACCATGTCCCAAACATGGTCTTACATGGAATCTCATAT
78815006 CAATGCCATA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.31
Consensus pattern (50 bp):
TCGATGCCAATACCATGTCCCAAACATGGTCTTACATGGAATCTCATATG
Found at i:78818859 original size:30 final size:30
Alignment explanation
Indices: 78818825--78818883 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
78818815 CCTTAACTCA
*
78818825 AACTTTTGCAAAATTATAATTTTGCCCCTC
1 AACTTTTGCAAAATTACAATTTTGCCCCTC
* * *
78818855 AACTTTTGCATATTTACACTTTTGCCCCT
1 AACTTTTGCAAAATTACAATTTTGCCCCT
78818884 AGGCTCGGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.25, C:0.25, G:0.07, T:0.42
Consensus pattern (30 bp):
AACTTTTGCAAAATTACAATTTTGCCCCTC
Found at i:78835682 original size:46 final size:46
Alignment explanation
Indices: 78835627--78835722 Score: 176
Period size: 46 Copynumber: 2.1 Consensus size: 46
78835617 TTTGCTTTAC
78835627 GAGCGATGAATGTACACTTGTCCGTTCTATCCGACAATGTGTTAGT
1 GAGCGATGAATGTACACTTGTCCGTTCTATCCGACAATGTGTTAGT
*
78835673 GAGCGATGAATGTACACTTGTCTGTTCTATCCGACAATGTGTTAGT
1 GAGCGATGAATGTACACTTGTCCGTTCTATCCGACAATGTGTTAGT
78835719 -AGCG
1 GAGCG
78835723 GAATTAAAGG
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
45 4 0.08
46 45 0.92
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (46 bp):
GAGCGATGAATGTACACTTGTCCGTTCTATCCGACAATGTGTTAGT
Found at i:78838822 original size:40 final size:40
Alignment explanation
Indices: 78838767--78839144 Score: 690
Period size: 40 Copynumber: 9.5 Consensus size: 40
78838757 CGGATGATAA
78838767 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
78838807 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
78838847 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
78838887 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
78838927 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
78838967 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
78839007 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
78839047 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
78839087 CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
78839127 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
78839145 TACTTGGTTT
Statistics
Matches: 333, Mismatches: 3, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
39 17 0.05
40 315 0.95
41 1 0.00
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:78840882 original size:31 final size:30
Alignment explanation
Indices: 78840844--78840904 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 30
78840834 TCCCGACTAA
*
78840844 TACAACCCCCGCACCTACAATACCTCCGGT
1 TACAACCCCAGCACCTACAATACCTCCGGT
78840874 NTACAACCCCAGCACCTACAATACCTCCGGT
1 -TACAACCCCAGCACCTACAATACCTCCGGT
78840905 AACTGACCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.28, C:0.44, G:0.10, T:0.16
Consensus pattern (30 bp):
TACAACCCCAGCACCTACAATACCTCCGGT
Found at i:78846974 original size:39 final size:39
Alignment explanation
Indices: 78846931--78847008 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
78846921 GTATGGAAAC
*
78846931 GACTCCAAATACTCTACCCACTTGGCATGACGTTTATTG
1 GACTCCAAATACTCCACCCACTTGGCATGACGTTTATTG
78846970 GACTCCAAATACTCCACCCACTTGGCATGACGTTTATTG
1 GACTCCAAATACTCCACCCACTTGGCATGACGTTTATTG
78847009 AGCTTGGTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.29
Consensus pattern (39 bp):
GACTCCAAATACTCCACCCACTTGGCATGACGTTTATTG
Found at i:78848124 original size:15 final size:15
Alignment explanation
Indices: 78848106--78848156 Score: 61
Period size: 14 Copynumber: 3.5 Consensus size: 15
78848096 TTTTCATTCG
*
78848106 TTTCTTTCTTTTTCT
1 TTTCTCTCTTTTTCT
* *
78848121 TTTCACTCTTTTTGT
1 TTTCTCTCTTTTTCT
78848136 TTT-TCTCTTTTTCT
1 TTTCTCTCTTTTTCT
78848150 TTT-TCTC
1 TTTCTCTC
78848157 GCTCAATAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
14 16 0.52
15 15 0.48
ACGTcount: A:0.02, C:0.22, G:0.02, T:0.75
Consensus pattern (15 bp):
TTTCTCTCTTTTTCT
Found at i:78848143 original size:14 final size:14
Alignment explanation
Indices: 78848112--78848156 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
78848102 TTCGTTTCTT
*
78848112 TCTTTTTCTTTTCAC
1 TCTTTTTCTTTT-TC
*
78848127 TCTTTTTGTTTTTC
1 TCTTTTTCTTTTTC
78848141 TCTTTTTCTTTTTC
1 TCTTTTTCTTTTTC
78848155 TC
1 TC
78848157 GCTCAATAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 16 0.59
15 11 0.41
ACGTcount: A:0.02, C:0.22, G:0.02, T:0.73
Consensus pattern (14 bp):
TCTTTTTCTTTTTC
Found at i:78848689 original size:57 final size:57
Alignment explanation
Indices: 78848601--78848715 Score: 212
Period size: 57 Copynumber: 2.0 Consensus size: 57
78848591 TCCTCCTCGG
*
78848601 CTACTTGGATATTTAAACTCCTTTTCACAACAAGTAATTCACCTTCAACGGGCAGCT
1 CTACTTGGATATTCAAACTCCTTTTCACAACAAGTAATTCACCTTCAACGGGCAGCT
*
78848658 CTACTTGGATATTCAAACTCCTTTTGACAACAAGTAATTCACCTTCAACGGGCAGCT
1 CTACTTGGATATTCAAACTCCTTTTCACAACAAGTAATTCACCTTCAACGGGCAGCT
78848715 C
1 C
78848716 GAGCTCTTCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (57 bp):
CTACTTGGATATTCAAACTCCTTTTCACAACAAGTAATTCACCTTCAACGGGCAGCT
Found at i:78854122 original size:22 final size:22
Alignment explanation
Indices: 78854097--78854138 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
78854087 TTTAACTTGA
*
78854097 TTTTTGTCACTTTTTTTTTTCC
1 TTTTTGTCAATTTTTTTTTTCC
*
78854119 TTTTTTTCAATTTTTTTTTT
1 TTTTTGTCAATTTTTTTTTT
78854139 GAATTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.07, C:0.12, G:0.02, T:0.79
Consensus pattern (22 bp):
TTTTTGTCAATTTTTTTTTTCC
Found at i:78854145 original size:22 final size:22
Alignment explanation
Indices: 78854096--78854147 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
78854086 TTTTAACTTG
* *
78854096 ATTTTTGTCACTTTTTTTTTTCC
1 ATTTTT-TCAATTTTTTTTTTCA
* *
78854119 TTTTTTTCAATTTTTTTTTTGA
1 ATTTTTTCAATTTTTTTTTTCA
78854141 ATTTTTT
1 ATTTTTT
78854148 TTCTGAATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.12, C:0.10, G:0.04, T:0.75
Consensus pattern (22 bp):
ATTTTTTCAATTTTTTTTTTCA
Found at i:78854154 original size:13 final size:13
Alignment explanation
Indices: 78854119--78854157 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
78854109 TTTTTTTTCC
78854119 TTTTTTTC--AAT
1 TTTTTTTCTGAAT
*
78854130 TTTTTTTTTGAAT
1 TTTTTTTCTGAAT
78854143 TTTTTTTCTGAAT
1 TTTTTTTCTGAAT
78854156 TT
1 TT
78854158 CTTCTCCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 7 0.29
13 17 0.71
ACGTcount: A:0.15, C:0.05, G:0.05, T:0.74
Consensus pattern (13 bp):
TTTTTTTCTGAAT
Found at i:78859829 original size:21 final size:22
Alignment explanation
Indices: 78859803--78859861 Score: 74
Period size: 21 Copynumber: 2.9 Consensus size: 22
78859793 TCAATTTCAA
78859803 CTCACT-TTTTCTTTTTGTTTT
1 CTCACTCTTTTCTTTTTGTTTT
*
78859824 CTCACTCTTTT-TTTCT-TTTT
1 CTCACTCTTTTCTTTTTGTTTT
78859844 C-CA-TCTTTTCTTTTTGTT
1 CTCACTCTTTTCTTTTTGTT
78859862 CCTTTTCCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
18 6 0.18
19 6 0.18
20 7 0.21
21 10 0.30
22 4 0.12
ACGTcount: A:0.05, C:0.22, G:0.03, T:0.69
Consensus pattern (22 bp):
CTCACTCTTTTCTTTTTGTTTT
Found at i:78859857 original size:20 final size:20
Alignment explanation
Indices: 78859803--78859861 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 20
78859793 TCAATTTCAA
78859803 CTCACTTTTTCTTTTTGTTTT
1 CTCAC-TTTTCTTTTTGTTTT
78859824 CTCACTCTTT-TTTTCT-TTTT
1 CTCACT-TTTCTTTT-TGTTTT
78859844 C-CATCTTTTCTTTTTGTT
1 CTCA-CTTTTCTTTTTGTT
78859862 CCTTTTCCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 11
0.75 0.00 0.25
Matches are distributed among these distances:
19 6 0.18
20 18 0.55
21 9 0.27
ACGTcount: A:0.05, C:0.22, G:0.03, T:0.69
Consensus pattern (20 bp):
CTCACTTTTCTTTTTGTTTT
Found at i:78859863 original size:18 final size:19
Alignment explanation
Indices: 78859805--78859863 Score: 52
Period size: 18 Copynumber: 3.1 Consensus size: 19
78859795 AATTTCAACT
78859805 CACT-TTTTCTTTTTGTTTTC
1 CACTCTTTTCTTTTTG--TTC
*
78859825 TCACTCTTTT-TTTCTTTTTC
1 -CACTCTTTTCTTT-TTGTTC
78859845 CA-TCTTTTCTTTTTGTTC
1 CACTCTTTTCTTTTTGTTC
78859863 C
1 C
78859864 TTTTCCTTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
18 12 0.36
19 5 0.15
20 3 0.09
21 7 0.21
22 6 0.18
ACGTcount: A:0.05, C:0.24, G:0.03, T:0.68
Consensus pattern (19 bp):
CACTCTTTTCTTTTTGTTC
Found at i:78863283 original size:13 final size:12
Alignment explanation
Indices: 78863238--78863280 Score: 86
Period size: 12 Copynumber: 3.6 Consensus size: 12
78863228 TAATTTCTTC
78863238 AAAAAAATTCAA
1 AAAAAAATTCAA
78863250 AAAAAAATTCAA
1 AAAAAAATTCAA
78863262 AAAAAAATTCAA
1 AAAAAAATTCAA
78863274 AAAAAAA
1 AAAAAAA
78863281 ATTGGTTTCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (12 bp):
AAAAAAATTCAA
Found at i:78863343 original size:16 final size:17
Alignment explanation
Indices: 78863322--78863362 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
78863312 TATCAAGTTG
78863322 AAAAAAAAA-TTCGTGA
1 AAAAAAAAATTTCGTGA
78863338 AAAAAAAAATTTCGTGA
1 AAAAAAAAATTTCGTGA
78863355 AAAAAAAA
1 AAAAAAAA
78863363 GAAGCTAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 9 0.38
17 15 0.62
ACGTcount: A:0.68, C:0.05, G:0.10, T:0.17
Consensus pattern (17 bp):
AAAAAAAAATTTCGTGA
Found at i:78881122 original size:16 final size:16
Alignment explanation
Indices: 78881087--78881132 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
78881077 TTTTTAAAAA
* *
78881087 AAAAAGAGAAAGAAAG
1 AAAAAGAAAAATAAAG
78881103 -AAAAGAAAAATAAAG
1 AAAAAGAAAAATAAAG
*
78881118 AAAAAGGAAAATAAA
1 AAAAAGAAAAATAAA
78881133 AGCAAAAGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
15 13 0.50
16 13 0.50
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.04
Consensus pattern (16 bp):
AAAAAGAAAAATAAAG
Found at i:78881134 original size:17 final size:15
Alignment explanation
Indices: 78881099--78881142 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 15
78881089 AAAGAGAAAG
*
78881099 AAAGAAAAGAAAAAT
1 AAAGAAAAGGAAAAT
78881114 AAAGAAAAAGGAAAAT
1 AAAG-AAAAGGAAAAT
78881130 AAAAGCAAAAGGA
1 -AAAG-AAAAGGA
78881143 GAGGCCAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 4 0.16
16 10 0.40
17 11 0.44
ACGTcount: A:0.75, C:0.02, G:0.18, T:0.05
Consensus pattern (15 bp):
AAAGAAAAGGAAAAT
Found at i:78882622 original size:132 final size:132
Alignment explanation
Indices: 78882385--78883500 Score: 1962
Period size: 132 Copynumber: 8.5 Consensus size: 132
78882375 GTGAAACACT
* *
78882385 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTATATCTTATCTCTCTAAGCAG
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* ** *
78882450 TAGTAGAGAAGATTGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
66 TAGTGGAGAAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
78882515 CC
131 CC
** * *
78882517 AAGCCTTGTCTCCCTGAGCAGCAATGGAGTAGGCTGAAGATTGTAGATCTTATCTCCCTAAGCAA
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* *
78882582 AAGTGGAGTAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
66 TAGTGGAGAAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
78882647 CC
131 CC
* *
78882649 AAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGCTGAAGATTGTAGATCTTATCTCCCTAAGCAG
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
**
78882714 TAGTTTAGAAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
66 TAGTGGAGAAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
78882779 CC
131 CC
* *
78882781 AAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGCTGAAGATTGTAGATCTTATCTCCCTAAGCAG
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
**
78882846 TAGTTTAGAAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
66 TAGTGGAGAAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
78882911 CC
131 CC
* *
78882913 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAAGCTGAAGATTGTAGATCTTATCTCCCTAAGCAG
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* *
78882978 TAGTGGAGCAGATCAAAGATGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
66 TAGTGGAGAAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
78883043 CC
131 CC
*
78883045 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAA
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* *
78883110 AAGTGGAGTAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
66 TAGTGGAGAAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
78883175 CC
131 CC
78883177 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
78883242 TAGTGGAGAAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
66 TAGTGGAGAAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
78883307 CC
131 CC
78883309 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
*
78883374 TAGTGGAGAAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAAATTTAAGCCA
66 TAGTGGAGAAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
78883439 CC
131 CC
* *
78883441 AAGCCTTGTCTTCCTAAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTA
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTA
78883501 TGTAACACCC
Statistics
Matches: 948, Mismatches: 36, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
132 948 1.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (132 bp):
AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
TAGTGGAGAAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
CC
Found at i:78882997 original size:44 final size:44
Alignment explanation
Indices: 78882553--78883407 Score: 169
Period size: 44 Copynumber: 19.4 Consensus size: 44
78882543 GAGTAGGCTG
* ** * *
78882553 AAGATTGTAGATCTTATCTCCCTAAGCAAAAGTGGAGTAGATCA
1 AAGATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTA
* * * *
78882597 AAGATGGCAAATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTT
1 AAGATTGCAGATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTA
**** * * * * * ** *
78882641 AAGCCACCA-AGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGCTG
1 AAGATTGCAGA-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTA
* ** * *
78882685 AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTTTAGAAGATCA
1 AAGATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTA
* * * *
78882729 AAGATGGCAAATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTT
1 AAGATTGCAGATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTA
**** * * * * * ** *
78882773 AAGCCACCA-AGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGCTG
1 AAGATTGCAGA-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTA
* ** * *
78882817 AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTTTAGAAGATCA
1 AAGATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTA
* * * *
78882861 AAGATGGCAAATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTT
1 AAGATTGCAGATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTA
**** * * * * * * * *
78882905 AAGCCACCA-AGCCTTGTCTCCCTGAGCAGCAGCGGAGTA-AGCTG
1 AAGATTGCAGA-TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-TTA
* *
78882949 AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCA
1 AAGATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTA
* * *
78882993 AAGA-TGACAAATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTT
1 AAGATTG-CAGATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTA
**** * * * * * * * *
78883037 AAGCCACCA-AGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTG
1 AAGATTGCAGA-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTA
* ** * *
78883081 AAGATTGTAGATCTTATCTCCCTAAGCAAAAGTGGAGTAGATCA
1 AAGATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTA
* * * *
78883125 AAGATGGCAAATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTT
1 AAGATTGCAGATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTA
**** * * * * * * * *
78883169 AAGCCACCA-AGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTG
1 AAGATTGCAGA-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTA
* * *
78883213 AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGAAGATCA
1 AAGATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTA
* * * *
78883257 AAGATGGCAAATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTT
1 AAGATTGCAGATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTA
**** * * * * * * * *
78883301 AAGCCACCA-AGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTG
1 AAGATTGCAGA-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTA
* * *
78883345 AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGAAGATCA
1 AAGATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTA
* *
78883389 AAGATGGCAAATCTTATCT
1 AAGATTGCAGATCTTATCT
78883408 TTCCAAGATA
Statistics
Matches: 545, Mismatches: 214, Indels: 104
0.63 0.25 0.12
Matches are distributed among these distances:
42 22 0.04
43 41 0.08
44 425 0.78
45 43 0.08
46 14 0.03
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.26
Consensus pattern (44 bp):
AAGATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTA
Found at i:78884983 original size:40 final size:40
Alignment explanation
Indices: 78884883--78885147 Score: 347
Period size: 40 Copynumber: 6.7 Consensus size: 40
78884873 GCTCCTCGTT
* * ** *
78884883 CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
*
78884923 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
78884962 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
**
78885002 CGTATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
*
78885042 CGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
* * * * * *
78885082 CGAATGCCTTCGGAACTTAATCCGGATATATTC-ACTTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTA-ACAAC-TCGCA
*
78885123 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
78885148 CAGCATTCAA
Statistics
Matches: 205, Mismatches: 17, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
39 35 0.17
40 162 0.79
41 8 0.04
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
Found at i:78887917 original size:19 final size:19
Alignment explanation
Indices: 78887865--78887910 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
78887855 TGGCCATTGA
*
78887865 ATGTTGGCCTATAATGGTT
1 ATGTTGGCCTATGATGGTT
*
78887884 ATGATGGCCTATGATGGTT
1 ATGTTGGCCTATGATGGTT
78887903 ATGTTGGC
1 ATGTTGGC
78887911 TATTGATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.20, C:0.11, G:0.30, T:0.39
Consensus pattern (19 bp):
ATGTTGGCCTATGATGGTT
Found at i:78889075 original size:28 final size:28
Alignment explanation
Indices: 78889014--78889083 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
78889004 GGGTCGTTCG
* *
78889014 TGCCATGAAGGCATTCCTTTTCAGAGAT
1 TGCCACGAAGGCATTCCTTATCAGAGAT
**
78889042 AACCACGAAGGC-TTCCTTATCTAGAGAT
1 TGCCACGAAGGCATTCCTTATC-AGAGAT
*
78889070 TGCCACAAAGGCAT
1 TGCCACGAAGGCAT
78889084 CATTTTCATT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
27 8 0.24
28 24 0.73
29 1 0.03
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (28 bp):
TGCCACGAAGGCATTCCTTATCAGAGAT
Found at i:78889163 original size:29 final size:29
Alignment explanation
Indices: 78889131--78889225 Score: 79
Period size: 29 Copynumber: 3.3 Consensus size: 29
78889121 TAGAGTCTCA
*
78889131 CCACGAAGGCTTTCCCTTCCAGAGGTTTG
1 CCACGAAGGCTTTCCTTTCCAGAGGTTTG
* *
78889160 CCAC-AATGGTTTTCCTTTAACA-A-GTTTG
1 CCACGAA-GGCTTTCCTTT-CCAGAGGTTTG
* * * *
78889188 CCAAGAAGGCTTGCCTTTCTAGAGTTTTG
1 CCACGAAGGCTTTCCTTTCCAGAGGTTTG
*
78889217 CCACAAAGG
1 CCACGAAGG
78889226 ATGTCTTTTT
Statistics
Matches: 50, Mismatches: 11, Indels: 10
0.70 0.15 0.14
Matches are distributed among these distances:
27 1 0.02
28 20 0.40
29 27 0.54
30 2 0.04
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (29 bp):
CCACGAAGGCTTTCCTTTCCAGAGGTTTG
Found at i:78889213 original size:28 final size:29
Alignment explanation
Indices: 78889184--78889292 Score: 116
Period size: 29 Copynumber: 3.8 Consensus size: 29
78889174 CTTTAACAAG
* *
78889184 TTTGCCA-AGAAGGCTTGCCTTTCTAGAGT
1 TTTGCCACA-AAGGCTTGCCTTTTTAAAGT
* * * *
78889213 TTTGCCACAAAGG-ATGTCTTTTTATAGG
1 TTTGCCACAAAGGCTTGCCTTTTTAAAGT
*
78889241 TTTGCCATAAAGGCTTGCCTTTTTAAAGT
1 TTTGCCACAAAGGCTTGCCTTTTTAAAGT
78889270 TTTGCCACAAAGG-TTGTCCTTTT
1 TTTGCCACAAAGGCTTG-CCTTTT
78889293 ACTGGTGTTT
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
28 25 0.38
29 40 0.61
30 1 0.02
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.39
Consensus pattern (29 bp):
TTTGCCACAAAGGCTTGCCTTTTTAAAGT
Found at i:78889244 original size:57 final size:57
Alignment explanation
Indices: 78889156--78889293 Score: 170
Period size: 57 Copynumber: 2.4 Consensus size: 57
78889146 CTTCCAGAGG
* * * * * * *
78889156 TTTGCCACAATGGTTTTCCTTTAACAAGTTTGCCA-AGAAGGCTTGCCTTTCTAGAGT
1 TTTGCCACAAAGGATGTCCTTTTATAGGTTTGCCATA-AAGGCTTGCCTTTCTAAAGT
* *
78889213 TTTGCCACAAAGGATGTCTTTTTATAGGTTTGCCATAAAGGCTTGCCTTTTTAAAGT
1 TTTGCCACAAAGGATGTCCTTTTATAGGTTTGCCATAAAGGCTTGCCTTTCTAAAGT
*
78889270 TTTGCCACAAAGGTTGTCCTTTTA
1 TTTGCCACAAAGGATGTCCTTTTA
78889294 CTGGTGTTTT
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
57 68 0.99
58 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (57 bp):
TTTGCCACAAAGGATGTCCTTTTATAGGTTTGCCATAAAGGCTTGCCTTTCTAAAGT
Found at i:78889293 original size:28 final size:28
Alignment explanation
Indices: 78889156--78889293 Score: 113
Period size: 28 Copynumber: 4.9 Consensus size: 28
78889146 CTTCCAGAGG
* * *
78889156 TTTGCCACAATGGTTTTCCTTTAACAAG-
1 TTTGCCACAAAGGTTGTCCTTTTA-AAGT
*
78889184 TTTGCCA-AGAAGGCTTG-CCTTTCTAGAGT
1 TTTGCCACA-AAGG-TTGTCCTTT-TAAAGT
* * * *
78889213 TTTGCCACAAAGGATGTCTTTTTATAGG
1 TTTGCCACAAAGGTTGTCCTTTTAAAGT
*
78889241 TTTGCCATAAAGGCTTG-CCTTTTTAAAGT
1 TTTGCCACAAAGG-TTGTCC-TTTTAAAGT
78889270 TTTGCCACAAAGGTTGTCCTTTTA
1 TTTGCCACAAAGGTTGTCCTTTTA
78889294 CTGGTGTTTT
Statistics
Matches: 87, Mismatches: 14, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
27 1 0.01
28 44 0.51
29 41 0.47
30 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (28 bp):
TTTGCCACAAAGGTTGTCCTTTTAAAGT
Found at i:78892166 original size:27 final size:27
Alignment explanation
Indices: 78892136--78892206 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
78892126 TCTGATAAGG
* *
78892136 GCATATCAGTCATTTTACCATGTATGA
1 GCATTTCAGTCATTTTACCATGTAGGA
* *
78892163 GCATTTTAGTCATTTTACCATGTAGGG
1 GCATTTCAGTCATTTTACCATGTAGGA
*
78892190 GCATTTCAATCATTTTA
1 GCATTTCAGTCATTTTA
78892207 TCAATTAGAG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.41
Consensus pattern (27 bp):
GCATTTCAGTCATTTTACCATGTAGGA
Found at i:78912828 original size:37 final size:37
Alignment explanation
Indices: 78912769--78912870 Score: 177
Period size: 37 Copynumber: 2.8 Consensus size: 37
78912759 AGCTCAGACG
* * *
78912769 AAATCTCCACACGAAGTTATCGGGTCTTACCTGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
78912806 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
78912843 AAATCTCCACACGTAGTCATCGGGTCTT
1 AAATCTCCACACGTAGTCATCGGGTCTT
78912871 TAGAGCTCGG
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:78913067 original size:47 final size:47
Alignment explanation
Indices: 78912989--78913245 Score: 406
Period size: 47 Copynumber: 5.5 Consensus size: 47
78912979 CCCTTCGGGA
* * * * * *
78912989 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
78913036 CCTGTCACATATATACACTTTCACAATCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
78913083 CTTATCACATATATACACTTCCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
78913130 CTTATCACATATATACACTTTCACATTAATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78913177 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78913224 CTTATCACATATATACACTTTC
1 CTTATCACATATATACACTTTC
78913246 TTGGTTGAAT
Statistics
Matches: 192, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 192 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:78917206 original size:40 final size:40
Alignment explanation
Indices: 78917055--78917197 Score: 232
Period size: 40 Copynumber: 3.6 Consensus size: 40
78917045 CCAGCATGAT
* * *
78917055 TGCTCTTCGGGACCTAGCCCGGATATATTACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
78917095 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
78917135 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
78917175 TGCTCTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
78917198 CATTTCACTC
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 94 1.00
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:78917206 original size:80 final size:80
Alignment explanation
Indices: 78917037--78917199 Score: 227
Period size: 80 Copynumber: 2.0 Consensus size: 80
78917027 AGGCCCGAAT
* * * * * * *
78917037 ACACGTCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATATTACTAGCACGAATGCTCTT
1 ACACATCACTAGCACGAATGCTCTTCGAGACCTAGCCCGGATACATCACTAGCACGAATGCTCTT
*
78917102 CGGAACTTAGTCCGG
66 CGGAACTTAGCCCGG
* *
78917117 ATACATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCTT
1 ACACATCACTAGCACGAATGCTCTTCGAGACCTAGCCCGGATACATCACTAGCACGAATGCTCTT
*
78917182 CGGGACTTAGCCCGG
66 CGGAACTTAGCCCGG
78917197 ACA
1 ACA
78917200 TTTCACTCTC
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
80 71 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.23
Consensus pattern (80 bp):
ACACATCACTAGCACGAATGCTCTTCGAGACCTAGCCCGGATACATCACTAGCACGAATGCTCTT
CGGAACTTAGCCCGG
Found at i:78918021 original size:62 final size:63
Alignment explanation
Indices: 78917919--78918055 Score: 204
Period size: 62 Copynumber: 2.2 Consensus size: 63
78917909 CGCATTTGTC
* * *
78917919 GGGCCTTTGATCTTGTTATTGGGCCTTGTGGCAATTTGAGCCCAACATGTTGTTGAACTTGGATT
1 GGGCCTTT-ATC-TGTTATTGGGCCTTGTGGCAATGTGAGCCCAACACGTTCTTGAACTTGGATT
* *
78917984 GGGCCTTTATC-GTTATTGGGCCTTGTGGCAATGTGAGCCCATCGCGTTCTTGAACTTGGATT
1 GGGCCTTTATCTGTTATTGGGCCTTGTGGCAATGTGAGCCCAACACGTTCTTGAACTTGGATT
78918046 GGGCCTTTAT
1 GGGCCTTTAT
78918056 GACTCGTATC
Statistics
Matches: 67, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
62 56 0.84
64 3 0.04
65 8 0.12
ACGTcount: A:0.15, C:0.19, G:0.28, T:0.37
Consensus pattern (63 bp):
GGGCCTTTATCTGTTATTGGGCCTTGTGGCAATGTGAGCCCAACACGTTCTTGAACTTGGATT
Done.