Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 169 of 362
Found at i:55645909 original size:40 final size:40
Alignment explanation
Indices: 55645849--55645998 Score: 158
Period size: 40 Copynumber: 3.8 Consensus size: 40
55645839 GATATCTTGG
* * * * *
55645849 ACACTAAGTGTCGTACATAGCCGAAGCTATCTCAAATCGC
1 ACACTAAGTGCCATATATAGCCGAAGCTATGTCAAATCAC
** * *
55645889 ACACTAAGCACCATATATAGCTGAAGCTATGTCAAA-CTC
1 ACACTAAGTGCCATATATAGCCGAAGCTATGTCAAATCAC
* * * **
55645928 ACACGAAGTGCCATATATAACCAAAGCTATGTTGAATCAC
1 ACACTAAGTGCCATATATAGCCGAAGCTATGTCAAATCAC
*
55645968 ACACTCAGTGCCATATATAGCCGAAGCTATG
1 ACACTAAGTGCCATATATAGCCGAAGCTATG
55645999 CTGATTGTAA
Statistics
Matches: 88, Mismatches: 21, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 30 0.34
40 58 0.66
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.23
Consensus pattern (40 bp):
ACACTAAGTGCCATATATAGCCGAAGCTATGTCAAATCAC
Found at i:55646175 original size:58 final size:58
Alignment explanation
Indices: 55646006--55646184 Score: 259
Period size: 62 Copynumber: 3.0 Consensus size: 58
55645996 ATGCTGATTG
* *
55646006 TAATGCTCCGTACCCGAGACCGTCGCCGGAGTTGAATACGAGGTGTTAACGGACTTAA
1 TAATGCCCCGTACCAGAGACCGTCGCCGGAGTTGAATACGAGGTGTTAACGGACTTAA
* *
55646064 TAATGCCCCGTACCCAAGACCGACCGTCGCTGGAGTTGAATACGAGGTGTTAACGTACTTAA
1 TAATGCCCCGTA-CC-AGA--GACCGTCGCCGGAGTTGAATACGAGGTGTTAACGGACTTAA
* * *
55646126 TGATGCCCCGTACCAGAGACCGTCGCCGGAGTCGAATACGAGGTATTAACGGACTTAA
1 TAATGCCCCGTACCAGAGACCGTCGCCGGAGTTGAATACGAGGTGTTAACGGACTTAA
55646184 T
1 T
55646185 TCATTACTTA
Statistics
Matches: 108, Mismatches: 9, Indels: 8
0.86 0.07 0.06
Matches are distributed among these distances:
58 49 0.45
59 2 0.02
60 5 0.05
61 2 0.02
62 50 0.46
ACGTcount: A:0.27, C:0.25, G:0.26, T:0.22
Consensus pattern (58 bp):
TAATGCCCCGTACCAGAGACCGTCGCCGGAGTTGAATACGAGGTGTTAACGGACTTAA
Found at i:55648054 original size:30 final size:29
Alignment explanation
Indices: 55648020--55648077 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 29
55648010 TTTAATACTA
* *
55648020 ACTTTGGTAAAATTACATTTTTGCCCCTAC
1 ACTTTGGCAAAATTACACTTTT-CCCCTAC
* *
55648050 ACTTTTGCATAATTACACTTTTCCCCTA
1 ACTTTGGCAAAATTACACTTTTCCCCTA
55648078 GGCTCGGGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 6 0.25
30 18 0.75
ACGTcount: A:0.26, C:0.26, G:0.07, T:0.41
Consensus pattern (29 bp):
ACTTTGGCAAAATTACACTTTTCCCCTAC
Found at i:55655591 original size:30 final size:30
Alignment explanation
Indices: 55655557--55655615 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
55655547 TTTAATACGA
55655557 ACTTTGGAAAAATTACA-TTTTTGCCCCTAT
1 ACTTTGGAAAAATTACACTTTTT-CCCCTAT
* * *
55655587 ACTTTTGCATAATTACACTTTTTCCCCTA
1 ACTTTGGAAAAATTACACTTTTTCCCCTA
55655616 GGCTCGGGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.27, C:0.24, G:0.07, T:0.42
Consensus pattern (30 bp):
ACTTTGGAAAAATTACACTTTTTCCCCTAT
Found at i:55656934 original size:21 final size:21
Alignment explanation
Indices: 55656887--55656935 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
55656877 CCAAAACTTT
55656887 AATTT-ATTTCACATTTCAAC
1 AATTTAATTTCACATTTCAAC
* *
55656907 CACTTAATTTGCACATTTC-AC
1 AATTTAATTT-CACATTTCAAC
55656928 AATTTAAT
1 AATTTAAT
55656936 CTCTATTATG
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 3 0.13
21 12 0.52
22 8 0.35
ACGTcount: A:0.35, C:0.20, G:0.02, T:0.43
Consensus pattern (21 bp):
AATTTAATTTCACATTTCAAC
Found at i:55674898 original size:64 final size:64
Alignment explanation
Indices: 55674708--55674941 Score: 220
Period size: 64 Copynumber: 3.6 Consensus size: 64
55674698 TCTCTTATAC
* * * * * * * * *
55674708 ACATGGTGAACACTTAGTACCACCCATGTGACCTAGCCAC-TTTATCTCGTAGCTCTCTTGTTT
1 ACATGGCGTACACATAGTATCACCCATGCGACCTAGCTACATATATCTCATAGCTCTCTTGTCT
* * * * * * * * * *
55674771 ACATGGTGTATTTCACCTGGAACCACACATGCAACCTAGCTACATTTATCTCGTAGCTTTCTTGT
1 ACATGGCGTA---CACATAGTATCACCCATGCGACCTAGCTACATATATCTCATAGCTCTCTTGT
55674836 CT
63 CT
*
55674838 ACATGGCGTACACATAGTATCACCCATGTGACCTAGCTACATATATC-CTATAGCTCTCTTGTCT
1 ACATGGCGTACACATAGTATCACCCATGCGACCTAGCTACATATATCTC-ATAGCTCTCTTGTCT
* *
55674902 ATATGGTGTACACATAGTATCACCCATGCGACCTAGCTAC
1 ACATGGCGTACACATAGTATCACCCATGCGACCTAGCTAC
55674942 CTCATAATGT
Statistics
Matches: 142, Mismatches: 24, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
63 10 0.07
64 79 0.56
66 23 0.16
67 30 0.21
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.32
Consensus pattern (64 bp):
ACATGGCGTACACATAGTATCACCCATGCGACCTAGCTACATATATCTCATAGCTCTCTTGTCT
Found at i:55681853 original size:40 final size:39
Alignment explanation
Indices: 55681788--55682078 Score: 336
Period size: 40 Copynumber: 7.3 Consensus size: 39
55681778 TCTTCGGAAT
* *
55681788 TTAG-CCGGATATAACCACAAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAT-ATCACTAGCACAAATGCCTTCGGGTC
* *
55681827 TTAGCCCAGATATAGCAACTCA-CACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACT-AGCACAAATGCCTTCGGGTC
*
55681867 TTAGCCCGGATATATCAACTCGCACAAATGCCTTC-GGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* *
55681906 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
* * *
55681946 TTAACCCGGATAAAATCACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
* * * *
55681986 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* * *
55682026 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGAC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
55682066 TTAGCCCGGATAT
1 TTAGCCCGGATAT
55682079 CATTCAAATG
Statistics
Matches: 221, Mismatches: 23, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
39 41 0.19
40 176 0.80
41 4 0.02
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.24
Consensus pattern (39 bp):
TTAGCCCGGATATATCACTAGCACAAATGCCTTCGGGTC
Found at i:55682027 original size:80 final size:80
Alignment explanation
Indices: 55681788--55682078 Score: 383
Period size: 80 Copynumber: 3.7 Consensus size: 80
55681778 TCTTCGGAAT
* * * * *
55681788 TTAG-CCGGATATAACCACAAGCACAAATGCCTTCGGGTCTTAGCCCAGATATAGCAACTCACAC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
55681852 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
* * * * *
55681867 TTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTC-GGTCTTAGCCCGGATAAAATC-ACTAGC
1 TTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTCGC
*
55681929 ACAATTGCCTTCGGGTC
64 ACAAATGCCTTCGGGTC
* * * *
55681946 TTAACCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
55682011 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
* *
55682026 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAGCCCGGATAT
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
55682079 CATTCAAATG
Statistics
Matches: 181, Mismatches: 25, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
79 69 0.38
80 112 0.62
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.24
Consensus pattern (80 bp):
TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
AAATGCCTTCGGGTC
Found at i:55685083 original size:28 final size:28
Alignment explanation
Indices: 55685051--55685141 Score: 112
Period size: 28 Copynumber: 3.3 Consensus size: 28
55685041 TAGGAAGTAG
*
55685051 TTGGGCCTGATGGGCCATATGAAGGTGA
1 TTGGGCCTGATGGGCCATATGAACGTGA
* * *
55685079 TTGGGCTTGATGGGTCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAACGTGA
* * *
55685107 TTGGGCCTGAT-GTCCATGTGAACGAGA
1 TTGGGCCTGATGGGCCATATGAACGTGA
55685134 TTGGGCCT
1 TTGGGCCT
55685142 AAAGGGGCCG
Statistics
Matches: 54, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
27 19 0.35
28 35 0.65
ACGTcount: A:0.20, C:0.14, G:0.36, T:0.30
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAACGTGA
Found at i:55685470 original size:27 final size:27
Alignment explanation
Indices: 55685440--55685773 Score: 319
Period size: 27 Copynumber: 12.7 Consensus size: 27
55685430 TAATAAAGAG
* *
55685440 AAATTACCGAAGTACCCCCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
*
55685467 AAATTATCGAAATACCC-CTGATTTGTA
1 AAATTACCGAAATACCCTC-GATTTGTA
* * *
55685494 AAATTATCAAAATACCCCCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
55685521 AAATTACCAAAATACCC-C-----CTA
1 AAATTACCGAAATACCCTCGATTTGTA
*
55685542 AAATTACTGAAATACCCTCGATTT-TA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
55685568 AAATTACTGAAATACCCTTGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
** * * *
55685595 AAATTATTGAAACACCTTCG-TTTGAA
1 AAATTACCGAAATACCCTCGATTTGTA
* **
55685621 AAATTATCGAAATACCCTTAATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
**
55685648 AAATTATTGAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
*
55685675 AAATTACCGAGATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
55685702 AAATTACCGAAACACCCCCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * * *
55685729 AAATTATCAAAATACCCTTG-TAGTGTA
1 AAATTACCGAAATACCCTCGAT-TTGTA
*
55685756 AAATTATCGAAATACCCT
1 AAATTACCGAAATACCCT
55685774 TGTAGTGTAA
Statistics
Matches: 261, Mismatches: 35, Indels: 22
0.82 0.11 0.07
Matches are distributed among these distances:
21 17 0.07
22 1 0.00
26 48 0.18
27 194 0.74
28 1 0.00
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGATTTGTA
Found at i:55685544 original size:21 final size:21
Alignment explanation
Indices: 55685519--55685558 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
55685509 CCCCGATTTG
55685519 TAAAATTACCAAAATACCCCC
1 TAAAATTACCAAAATACCCCC
**
55685540 TAAAATTACTGAAATACCC
1 TAAAATTACCAAAATACCC
55685559 TCGATTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.47, C:0.28, G:0.03, T:0.23
Consensus pattern (21 bp):
TAAAATTACCAAAATACCCCC
Found at i:55688745 original size:28 final size:28
Alignment explanation
Indices: 55688627--55688725 Score: 162
Period size: 28 Copynumber: 3.5 Consensus size: 28
55688617 TGGAAAGTAG
* *
55688627 TTGGGCCTGATGGTCTATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
*
55688655 TTGGGCCTGATGGGCCATATGAAGGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
*
55688683 TTGGGCCTGATTGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
55688711 TTGGGCCTGATGGGC
1 TTGGGCCTGATGGGC
55688726 TATGTGAACG
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 65 1.00
ACGTcount: A:0.19, C:0.14, G:0.36, T:0.30
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAATGTGA
Found at i:55689302 original size:107 final size:107
Alignment explanation
Indices: 55689084--55689456 Score: 409
Period size: 107 Copynumber: 3.5 Consensus size: 107
55689074 GTACCCCCGG
* * *
55689084 TTTGTAAAATTACCAAAATACCCCT-AGTTTGTAAAATTACCGAAATACCC-CTGATTTGTAAAA
1 TTTGTAAAATTACTAAAATACCCTTGA-TTTGTAAAATTACCGAAATACCCTC-AATTTGTAAAA
* * * * * * *
55689147 TTA-TCGAAATACATCTAGCTTGTAAAATTACTGAAATATCCTTG-
64 TTACT-AAAATACATCGA-TTTGTAAAATTACCGAAACACCCTCGA
* * *
55689191 TTTGTAAAATTACTGAAATACACTTGATTTGTAAAATTACCAAAATACCCTCAATTT-TAAAATT
1 TTTGTAAAATTACTAAAATACCCTTGATTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATT
*
55689255 ACTTAAATACCATCGATTTGTAAAATTACCGAAACACCCTCGA
66 ACTAAAATA-CATCGATTTGTAAAATTACCGAAACACCCTCGA
* **
55689298 TTTGTAAAATTATTAAAATACCCTTGATTTGTAAAATTATTGAAATACCCTCAATTTGTAAAATT
1 TTTGTAAAATTACTAAAATACCCTTGATTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATT
* *
55689363 AC-AAAGATAAACTCGATTTGTAAAATTACCGAAACACCCCCGA
66 ACTAAA-ATACA-TCGATTTGTAAAATTACCGAAACACCCTCGA
* * * * *
55689406 GTTGTAAAATTACCAAAATACCCTTG-TAGTGTAAAATGACCGACATACCCT
1 TTTGTAAAATTACTAAAATACCCTTGAT-TTGTAAAATTACCGAAATACCCT
55689457 TGTAGGGTAA
Statistics
Matches: 227, Mismatches: 30, Indels: 17
0.83 0.11 0.06
Matches are distributed among these distances:
106 34 0.15
107 108 0.48
108 85 0.37
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (107 bp):
TTTGTAAAATTACTAAAATACCCTTGATTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATT
ACTAAAATACATCGATTTGTAAAATTACCGAAACACCCTCGA
Found at i:55689438 original size:27 final size:27
Alignment explanation
Indices: 55689084--55689458 Score: 321
Period size: 27 Copynumber: 14.0 Consensus size: 27
55689074 GTACCCCCGG
* *
55689084 TTTGTAAAATTACCAAAATACCCCT-A
1 TTTGTAAAATTACCGAAATACCCTTGA
*
55689110 GTTTGTAAAATTACCGAAATACCCCTGA
1 -TTTGTAAAATTACCGAAATACCCTTGA
* * *
55689138 TTTGTAAAATTATCGAAATACATCTAG-
1 TTTGTAAAATTACCGAAATAC-CCTTGA
* * *
55689165 CTTGTAAAATTACTGAAATATCCTTG-
1 TTTGTAAAATTACCGAAATACCCTTGA
* *
55689191 TTTGTAAAATTACTGAAATACACTTGA
1 TTTGTAAAATTACCGAAATACCCTTGA
* **
55689218 TTTGTAAAATTACCAAAATACCCTCAA
1 TTTGTAAAATTACCGAAATACCCTTGA
** * *
55689245 TTT-TAAAATTACTTAAATACCATCGA
1 TTTGTAAAATTACCGAAATACCCTTGA
* *
55689271 TTTGTAAAATTACCGAAACACCCTCGA
1 TTTGTAAAATTACCGAAATACCCTTGA
***
55689298 TTTGTAAAATTATTAAAATACCCTTGA
1 TTTGTAAAATTACCGAAATACCCTTGA
** **
55689325 TTTGTAAAATTATTGAAATACCCTCAA
1 TTTGTAAAATTACCGAAATACCCTTGA
* ** *
55689352 TTTGTAAAATTA-CAAAGATAAACTCGA
1 TTTGTAAAATTACCGAA-ATACCCTTGA
* **
55689379 TTTGTAAAATTACCGAAACACCCCCGA
1 TTTGTAAAATTACCGAAATACCCTTGA
* *
55689406 GTTGTAAAATTACCAAAATACCCTTG-
1 TTTGTAAAATTACCGAAATACCCTTGA
* * *
55689432 TAGTGTAAAATGACCGACATACCCTTG
1 T-TTGTAAAATTACCGAAATACCCTTG
55689459 TAGGGTAAAA
Statistics
Matches: 286, Mismatches: 55, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
26 50 0.17
27 230 0.80
28 6 0.02
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (27 bp):
TTTGTAAAATTACCGAAATACCCTTGA
Found at i:55689459 original size:27 final size:27
Alignment explanation
Indices: 55689408--55689472 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
55689398 ACCCCCGAGT
*
55689408 TGTAAAATTACCAAAATACCCTTGTAG
1 TGTAAAATGACCAAAATACCCTTGTAG
* *
55689435 TGTAAAATGACCGACATACCCTTGTAG
1 TGTAAAATGACCAAAATACCCTTGTAG
*
55689462 GGTAAAATGAC
1 TGTAAAATGAC
55689473 TGCTTTTCCC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.26
Consensus pattern (27 bp):
TGTAAAATGACCAAAATACCCTTGTAG
Found at i:55689483 original size:27 final size:27
Alignment explanation
Indices: 55689409--55689501 Score: 93
Period size: 27 Copynumber: 3.5 Consensus size: 27
55689399 CCCCCGAGTT
* * * *
55689409 GTAAAATTACCAAAATACCCTTGTAGT
1 GTAAAATGACCGACATACCCTTGTAGG
55689436 GTAAAATGACCGACATACCCTTGTAGG
1 GTAAAATGACCGACATACCCTTGTAGG
* * *
55689463 GTAAAATGACTG-CTTTTCCCTTG-AGG
1 GTAAAATGACCGAC-ATACCCTTGTAGG
55689489 GT-AAATGACCGAC
1 GTAAAATGACCGAC
55689502 TTAGACTTCG
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
25 8 0.14
26 7 0.12
27 41 0.73
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.27
Consensus pattern (27 bp):
GTAAAATGACCGACATACCCTTGTAGG
Found at i:55710497 original size:23 final size:23
Alignment explanation
Indices: 55710467--55710544 Score: 72
Period size: 23 Copynumber: 3.3 Consensus size: 23
55710457 TTTAGGATTT
55710467 TATGTGATGAATGTGAATGCATA
1 TATGTGATGAATGTGAATGCATA
* * *
55710490 TATGTGAT-AAGGCCGAATGGC-CA
1 TATGTGATGAATG-TGAAT-GCATA
55710513 -ATGTGATGAATGTGAGCATGCATA
1 TATGTGATGAATGTGA--ATGCATA
55710537 TATGTGAT
1 TATGTGAT
55710545 AAGGCCGAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
22 12 0.29
23 18 0.43
24 5 0.12
25 7 0.17
ACGTcount: A:0.32, C:0.09, G:0.28, T:0.31
Consensus pattern (23 bp):
TATGTGATGAATGTGAATGCATA
Found at i:55710544 original size:47 final size:47
Alignment explanation
Indices: 55710468--55710699 Score: 347
Period size: 45 Copynumber: 5.1 Consensus size: 47
55710458 TTAGGATTTT
55710468 ATGTGATGAATGTGA--ATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
55710513 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
55710560 ATGTGATGAATGTGAGCATGC--ATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
*
55710605 ATGTGATGAATGTGAGCATGCATATGTGTGATAA-GCCGAATGG-CA
1 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
55710650 ATGTG-TGAATATGAACATGC--ATATGTGGTAAAGCCGAATGGTCA
1 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
55710694 ATGTGA
1 ATGTGA
55710700 AATATATATA
Statistics
Matches: 175, Mismatches: 5, Indels: 14
0.90 0.03 0.07
Matches are distributed among these distances:
42 9 0.05
43 9 0.05
44 20 0.11
45 67 0.38
46 9 0.05
47 61 0.35
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:55710569 original size:92 final size:90
Alignment explanation
Indices: 55710468--55710699 Score: 346
Period size: 92 Copynumber: 2.6 Consensus size: 90
55710458 TTAGGATTTT
55710468 ATGTGATGAATGTGAATGCAT-ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCAT
1 ATGTGATGAATGTGAA-GCATCATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCAT
55710532 GCATATATGTGATAAGGCCGAATGGCCA
65 GCATATATGTGATAA-GCCGAATGG-CA
55710560 ATGTGATGAATGTG-AGCATGCATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCAT
1 ATGTGATGAATGTGAAGCAT-CATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCAT
*
55710624 GCATATGTGTGATAAGCCGAATGGCA
65 GCATATATGTGATAAGCCGAATGGCA
* * * *
55710650 ATGTG-TGAATATGAA-CATGCATATGTGGTAAAGCCGAATGGTCAATGTGA
1 ATGTGATGAATGTGAAGCAT-CATATGTGATAAGGCCGAATGGCCAATGTGA
55710700 AATATATATA
Statistics
Matches: 132, Mismatches: 5, Indels: 9
0.90 0.03 0.06
Matches are distributed among these distances:
89 39 0.30
90 12 0.09
91 10 0.08
92 71 0.54
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.26
Consensus pattern (90 bp):
ATGTGATGAATGTGAAGCATCATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATG
CATATATGTGATAAGCCGAATGGCA
Found at i:55710898 original size:36 final size:36
Alignment explanation
Indices: 55710813--55710920 Score: 173
Period size: 37 Copynumber: 3.0 Consensus size: 36
55710803 TGGAAATATA
55710813 TTCCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
1 TTCCGGGTAAGACCCGATGACTACGTGTGGAGATT-T
*
55710850 GTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
1 TTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
* *
55710886 TTCCGGGTAAGACCCGATAACT-TGTGTGGAGATTT
1 TTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
55710921 CGTCTGAGCT
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
35 12 0.18
36 21 0.31
37 34 0.51
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.28
Consensus pattern (36 bp):
TTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
Found at i:55712431 original size:40 final size:40
Alignment explanation
Indices: 55712189--55712419 Score: 338
Period size: 40 Copynumber: 5.8 Consensus size: 40
55712179 GAGAATTGAG
55712189 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
55712229 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
55712269 ACTGATGTATCCAGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
55712309 AGTGATGTATCCGAGCTAAGTTCTGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
55712349 AGTGATATATCCGTGCTAA-ACCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
55712388 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
55712420 ATCATGCTGG
Statistics
Matches: 170, Mismatches: 20, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
39 32 0.19
40 138 0.81
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:55716469 original size:47 final size:47
Alignment explanation
Indices: 55716418--55716609 Score: 298
Period size: 47 Copynumber: 4.1 Consensus size: 47
55716408 TTAGGATTTT
55716418 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
55716465 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
55716512 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
55716559 ATGTGGTGAATATGAACATGC--ATATGTGGTAAAGCCGAATGGTCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
55716604 ATGTGA
1 ATGTGA
55716610 AATATATATA
Statistics
Matches: 135, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 25 0.19
47 110 0.81
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:55716471 original size:22 final size:22
Alignment explanation
Indices: 55716443--55716518 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
55716433 ACATGCATAT
55716443 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * *
55716465 ATGTGATGAATGTG-AGCAT-GCATA
1 ATGTGAT-AA-G-GCCGAATGGC-CA
55716489 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
55716512 ATGTGAT
1 ATGTGAT
55716519 GAATGTGAGC
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 15 0.37
23 9 0.22
24 9 0.22
25 8 0.20
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:55716567 original size:25 final size:25
Alignment explanation
Indices: 55716492--55716567 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
55716482 ATGCATATAT
55716492 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
55716517 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
55716539 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
55716564 GTGA
1 GTGA
55716568 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:55718161 original size:79 final size:81
Alignment explanation
Indices: 55718052--55718234 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 81
55718042 TACTCGTTCA
* *
55718052 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
55718115 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
55718132 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
55718195 TATAGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
55718211 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
55718235 CATCATTCGA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 3 0.03
79 60 0.66
80 28 0.31
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:55718234 original size:40 final size:40
Alignment explanation
Indices: 55718031--55718234 Score: 247
Period size: 40 Copynumber: 5.1 Consensus size: 40
55718021 CGGAATTTAA
** *
55718031 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
55718071 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
55718111 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
55718150 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
55718190 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
55718230 CCGGA
1 CCGGA
55718235 CATCATTCGA
Statistics
Matches: 142, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 95 0.67
41 12 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:55725032 original size:79 final size:77
Alignment explanation
Indices: 55724924--55725101 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 77
55724914 TACTCGTTCA
* **
55724924 AATGCCTTCGGGACATAGCCCGTTATAGTAACTCGCACAAATGCCTTCGAGA-CTTAACCCGGAT
1 AATGCCTTCGGG-CTTAGCCCGGAATAGTAACTCGCACAAATGCCTTCG-GATCTT-ACCCGGAT
* *
55724988 TTAGTAAC-TCGCACC
63 ATAGTAACTTAGCA-C
*
55725003 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGCCGGATAT
1 AATGCCTTCGGGCTTAGCCCGGAA-TAGTAACTCGCACAAATGCCTTCGGATCTTACCCGGATAT
*
55725068 AGTCACTTAGCAC
65 AGTAACTTAGCAC
*
55725081 AAAGCCTTCGGAGCTTAGCCC
1 AATGCCTTCGG-GCTTAGCCC
55725102 AGACATCATT
Statistics
Matches: 87, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
78 35 0.40
79 52 0.60
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (77 bp):
AATGCCTTCGGGCTTAGCCCGGAATAGTAACTCGCACAAATGCCTTCGGATCTTACCCGGATATA
GTAACTTAGCAC
Found at i:55725035 original size:39 final size:39
Alignment explanation
Indices: 55724922--55725101 Score: 188
Period size: 39 Copynumber: 4.6 Consensus size: 39
55724912 GCTACTCGTT
* **
55724922 CAAATGCCTTCGGGACATAGCCCGTTA-TAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
* * *
55724961 CAAATGCCTTCGAGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCG-GGCTTAGCCCGGAATTAGTAACTCGCA
*
55725001 CCAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
* * *
55725040 CAAATGCCTTCGGATCTTAG-CCGG-ATATAGTCACTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGAAT-TAGTAAC-TCGCA
55725080 CAAA-GCCTTCGGAGCTTAGCCC
1 CAAATGCCTTCGG-GCTTAGCCC
55725102 AGACATCATT
Statistics
Matches: 120, Mismatches: 15, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.02
39 79 0.66
40 39 0.32
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
Found at i:55730043 original size:28 final size:28
Alignment explanation
Indices: 55729980--55730100 Score: 167
Period size: 26 Copynumber: 4.4 Consensus size: 28
55729970 ATATTAAGTC
*
55729980 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
55730007 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
55730035 CGCACACTTAGTGC--TATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
55730061 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
55730090 CGCACACTTAG
1 CGCACACTTAG
55730101 CGCCAATCTC
Statistics
Matches: 86, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
26 26 0.30
27 22 0.26
28 22 0.26
29 16 0.19
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:55730050 original size:55 final size:55
Alignment explanation
Indices: 55729979--55730100 Score: 167
Period size: 55 Copynumber: 2.2 Consensus size: 55
55729969 TATATTAAGT
* *
55729979 CCGCACACTCAGTGCTATATAATC-AACTCGCACACTTAGTGCTATATAA-TCAAAC
1 CCGCACACTTAGTGC--TATAATCAAACTCGCACACTTAGTGCTATACAATTCAAAC
* * *
55730034 TCGCACACTTAGTGCTATAATCAAACTCGCACACTTAGTGCTGTACAATTTAAAC
1 CCGCACACTTAGTGCTATAATCAAACTCGCACACTTAGTGCTATACAATTCAAAC
55730089 CCGCACACTTAG
1 CCGCACACTTAG
55730101 CGCCAATCTC
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
53 7 0.12
54 23 0.39
55 29 0.49
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.26
Consensus pattern (55 bp):
CCGCACACTTAGTGCTATAATCAAACTCGCACACTTAGTGCTATACAATTCAAAC
Found at i:55738228 original size:28 final size:28
Alignment explanation
Indices: 55738165--55738287 Score: 185
Period size: 28 Copynumber: 4.4 Consensus size: 28
55738155 ATATTAAGTC
*
55738165 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
55738192 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
55738220 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
55738248 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
55738277 CGCACACTTAG
1 CGCACACTTAG
55738288 CGCCAATCTC
Statistics
Matches: 89, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
27 22 0.25
28 51 0.57
29 16 0.18
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:55743755 original size:20 final size:21
Alignment explanation
Indices: 55743720--55743796 Score: 101
Period size: 20 Copynumber: 3.9 Consensus size: 21
55743710 TTATACGTGG
55743720 GATATGATAT--ACATGAT-T
1 GATATGATATGCACATGATAT
55743738 GATATGATATGCACATGATAT
1 GATATGATATGCACATGATAT
*
55743759 G-TATGATATACACATGATAT
1 GATATGATATGCACATGATAT
*
55743779 -ATATGAAATGCACATGAT
1 GATATGATATGCACATGAT
55743797 GTATTCATAA
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
18 10 0.19
20 40 0.77
21 2 0.04
ACGTcount: A:0.40, C:0.09, G:0.17, T:0.34
Consensus pattern (21 bp):
GATATGATATGCACATGATAT
Found at i:55743875 original size:26 final size:26
Alignment explanation
Indices: 55743846--55743994 Score: 196
Period size: 26 Copynumber: 5.8 Consensus size: 26
55743836 GAGGAAGTGC
*
55743846 AAAAGGGCTTATGCCACAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* ***
55743872 AAAAGGGCTTATGCCCTAGTTTATTT
1 AAAAGGGCTTATGCCCCAGTTTACCG
55743898 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
55743924 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
55743950 AAAAGGTCTT-TGCCCCAGTTTACC-
1 AAAAGGGCTTATGCCCCAGTTTACCG
55743974 AGAAAGGGCTT-TGCCCCAGTT
1 A-AAAGGGCTTATGCCCCAGTT
55743995 ATTAAAAGAG
Statistics
Matches: 107, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
24 1 0.01
25 30 0.28
26 76 0.71
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:55743924 original size:52 final size:52
Alignment explanation
Indices: 55743846--55744007 Score: 235
Period size: 52 Copynumber: 3.2 Consensus size: 52
55743836 GAGGAAGTGC
* *
55743846 AAAAGGGCTTATGCCACAGTTTACCGAAAAGGGCTTATGCCCTAGTTTATTT
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTT
*
55743898 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTT
*
55743950 AAAAGGTCTT-TGCCCCAGTTTACC-AGAAAGGGCTT-TGCCCCAG-TTA-TT
1 AAAAGGGCTTATGCCCCAGTTTACCGA-AAAGGGCTTATGCCCCAGTTTATTT
55743998 AAAAGAGGCT
1 AAAAG-GGCT
55744008 AGGCCTCCAG
Statistics
Matches: 102, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
48 6 0.06
49 6 0.06
50 9 0.09
51 23 0.23
52 58 0.57
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTT
Found at i:55751843 original size:20 final size:20
Alignment explanation
Indices: 55751810--55751884 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
55751800 ATACGTGGGA
55751810 TATGATAT--ACATGAT-TG
1 TATGATATGCACATGATATG
55751827 ATATGATATGCACATGATATG
1 -TATGATATGCACATGATATG
*
55751848 TATGATATACACATGATATG
1 TATGATATGCACATGATATG
*
55751868 TATGAAATGCACATGAT
1 TATGATATGCACATGAT
55751885 GTATTCATAA
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
18 8 0.16
20 41 0.80
21 2 0.04
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.35
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:55751963 original size:26 final size:26
Alignment explanation
Indices: 55751934--55752082 Score: 205
Period size: 26 Copynumber: 5.8 Consensus size: 26
55751924 GAGGAAGTGC
*
55751934 AAAAAGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
***
55751960 AAAAGGGCTTATGCCCCAGTTTATTT
1 AAAAGGGCTTATGCCCCAGTTTACCG
55751986 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
55752012 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
55752038 AAAAGGGCTT-TGCCCTAGTTTACC-
1 AAAAGGGCTTATGCCCCAGTTTACCG
55752062 AGAAAGGGCTT-TGCCCCAGTT
1 A-AAAGGGCTTATGCCCCAGTT
55752083 ATTAAAAGAG
Statistics
Matches: 109, Mismatches: 13, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
24 1 0.01
25 29 0.27
26 79 0.72
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:55752012 original size:52 final size:52
Alignment explanation
Indices: 55751934--55752095 Score: 244
Period size: 52 Copynumber: 3.2 Consensus size: 52
55751924 GAGGAAGTGC
*
55751934 AAAAAGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTT
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTT
*
55751986 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTT
*
55752038 AAAAGGGCTT-TGCCCTAGTTTACC-AGAAAGGGCTT-TGCCCCAG-TTA-TT
1 AAAAGGGCTTATGCCCCAGTTTACCGA-AAAGGGCTTATGCCCCAGTTTATTT
55752086 AAAAGAGGCT
1 AAAAG-GGCT
55752096 AGGCCTCCAG
Statistics
Matches: 104, Mismatches: 4, Indels: 7
0.90 0.03 0.06
Matches are distributed among these distances:
48 6 0.06
49 7 0.07
50 9 0.09
51 22 0.21
52 60 0.58
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.27
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTT
Found at i:55762017 original size:67 final size:67
Alignment explanation
Indices: 55761895--55762044 Score: 232
Period size: 67 Copynumber: 2.2 Consensus size: 67
55761885 GAGGAAGCGT
* * *
55761895 TCTGGCAGCCTCGCTGTAATCTGGTGGCCTCACCACATATATTTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGTAATCTGGTGGCCTCACCACATATATCTATTCTGATGACTTCGTCACAA
55761960 TA
66 TA
55761962 TCTGGCAGCCTCGCTGTAATCTGGTGGCCT-AGCCACA-ATATCTATATCTGATGACTTCGTCAC
1 TCTGGCAGCCTCGCTGTAATCTGGTGGCCTCA-CCACATATATCTAT-TCTGATGACTTCGTCAC
55762025 AATA
64 AATA
*
55762029 TCTGGCAGCTTCGCTG
1 TCTGGCAGCCTCGCTG
55762045 CTATTTTTGT
Statistics
Matches: 77, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
66 7 0.09
67 70 0.91
ACGTcount: A:0.20, C:0.27, G:0.21, T:0.31
Consensus pattern (67 bp):
TCTGGCAGCCTCGCTGTAATCTGGTGGCCTCACCACATATATCTATTCTGATGACTTCGTCACAA
TA
Found at i:55763975 original size:363 final size:363
Alignment explanation
Indices: 55763310--55764019 Score: 1294
Period size: 363 Copynumber: 2.0 Consensus size: 363
55763300 TAACCAAAAA
55763310 ACATTAAGTCCAAAAGTACCAAAATGAGAGCATGATAGTGTAATGCAATCTCCGACAACTTCCAA
1 ACATTAAGTCCAAAAGTACCAAAATGAGAGCATGATAGTGTAATGCAATCTCCGACAACTTCCAA
* * * *
55763375 AATGAGTGAGCTTTCGAATCACTAATAAACATGAAAAAGTAATCAAAGTAAGCAATTAAGCTTAG
66 AACGAGTGAGCTTTCGAATCAATAATAAACACGAAAAAGTAAACAAAGTAAGCAATTAAGCTTAG
* *
55763440 TAAGTTTGTATAGCATAAAATTCATCTTACCATTTAATCACAATTTAAGTAATTAAACATAGTAT
131 TAAGTTCGTATAGCATAAAACTCATCTTACCATTTAATCACAATTTAAGTAATTAAACATAGTAT
55763505 AAAGCAACTCAATTTGATCCACAAGCCTAACATATATTCATCCACAAAGTTAGACATGGAAATCA
196 AAAGCAACTCAATTTGATCCACAAGCCTAACATATATTCATCCACAAAGTTAGACATGGAAATCA
* *
55763570 CAAATCTCATAGATTCAATTCTCACATGATTTACATACATACCTGTACTGGTTTATATTGAATTC
261 CAAATCTCATAGATTCAATTCTCACATGATTTACATACATACCTATACTAGTTTATATTGAATTC
55763635 AAATACTTTCGTAACATCACTAATAAACATGGAAAAGT
326 AAATACTTTCGTAACATCACTAATAAACATGGAAAAGT
*
55763673 ACATTAAGTCCAAAAGTACCAAAATGAGGGCATGATAGTGTAATGCAATCTCCGACAACTTCCAA
1 ACATTAAGTCCAAAAGTACCAAAATGAGAGCATGATAGTGTAATGCAATCTCCGACAACTTCCAA
*
55763738 AACGAGTGAGCTTTCGAATCAATAATAAACACGGAAAAGTAAACAAAGTAAGCAATTAAGCTTAG
66 AACGAGTGAGCTTTCGAATCAATAATAAACACGAAAAAGTAAACAAAGTAAGCAATTAAGCTTAG
55763803 TAAGTTCGTATAGCATAAAACTCATCTTACCATTTAATCACAATTTAAGTAATTAAACATAGTAT
131 TAAGTTCGTATAGCATAAAACTCATCTTACCATTTAATCACAATTTAAGTAATTAAACATAGTAT
* *
55763868 AAAGCAACTCAATTTGATTCACAAGCCTAACATATATTCATCCACAAAGTTAGACATGGAAATGA
196 AAAGCAACTCAATTTGATCCACAAGCCTAACATATATTCATCCACAAAGTTAGACATGGAAATCA
* *
55763933 CAAATCTCATAGATTCAATTCTCACATGATTTACGTACATACCTATACTATTTTATATTGAATTC
261 CAAATCTCATAGATTCAATTCTCACATGATTTACATACATACCTATACTAGTTTATATTGAATTC
55763998 AAATACTTTCGTAACATCACTA
326 AAATACTTTCGTAACATCACTA
55764020 TGGCTATTGA
Statistics
Matches: 333, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
363 333 1.00
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (363 bp):
ACATTAAGTCCAAAAGTACCAAAATGAGAGCATGATAGTGTAATGCAATCTCCGACAACTTCCAA
AACGAGTGAGCTTTCGAATCAATAATAAACACGAAAAAGTAAACAAAGTAAGCAATTAAGCTTAG
TAAGTTCGTATAGCATAAAACTCATCTTACCATTTAATCACAATTTAAGTAATTAAACATAGTAT
AAAGCAACTCAATTTGATCCACAAGCCTAACATATATTCATCCACAAAGTTAGACATGGAAATCA
CAAATCTCATAGATTCAATTCTCACATGATTTACATACATACCTATACTAGTTTATATTGAATTC
AAATACTTTCGTAACATCACTAATAAACATGGAAAAGT
Found at i:55770476 original size:26 final size:26
Alignment explanation
Indices: 55770447--55770523 Score: 65
Period size: 26 Copynumber: 3.1 Consensus size: 26
55770437 TGAGGTCACG
55770447 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
* * * *
55770473 TGTGTACTGGA-TAATTG--GTC-GC-A
1 TGTGTA--GTACTAAGTGCAGGCTACTA
55770496 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
55770522 TG
1 TG
55770524 CATACCCAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
21 2 0.06
22 5 0.14
23 7 0.19
24 3 0.08
25 3 0.08
26 9 0.25
27 5 0.14
28 2 0.06
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.32
Consensus pattern (26 bp):
TGTGTAGTACTAAGTGCAGGCTACTA
Found at i:55770519 original size:49 final size:49
Alignment explanation
Indices: 55770440--55770672 Score: 304
Period size: 49 Copynumber: 4.7 Consensus size: 49
55770430 ACTATTGTGA
* *
55770440 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACTGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
* ** ** *
55770489 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCAAAAACTGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAA-T-T
* * *
55770540 GATCACATGTGTAGTACTAAGTGCAGGCCACTACGTGTACCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
* * * *
55770589 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
*
55770638 GGTCACATGTGTGGTACTAAGTGCAGGCTACTATG
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATG
55770673 CTACCAAATA
Statistics
Matches: 157, Mismatches: 25, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
49 116 0.74
50 2 0.01
51 39 0.25
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
Found at i:55770620 original size:100 final size:100
Alignment explanation
Indices: 55770442--55770621 Score: 324
Period size: 100 Copynumber: 1.8 Consensus size: 100
55770432 TATTGTGAGG
* * * *
55770442 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACTGGATAATTGGTCGCATGTGTAGTACT
1 TCACATGTGTAGTACTAAGTGCAGGCCACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
55770507 AAGTGCAGGCTACTATGCATACCCAAAAACTGTGA
66 AAGTGCAGGCTACTATGCATACCCAAAAACTGTGA
55770542 TCACATGTGTAGTACTAAGTGCAGGCCACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACATGTGTAGTACTAAGTGCAGGCCACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
55770607 AAGTGCAGGCTACTA
66 AAGTGCAGGCTACTA
55770622 CGTGTACCAG
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 76 1.00
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (100 bp):
TCACATGTGTAGTACTAAGTGCAGGCCACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCATACCCAAAAACTGTGA
Found at i:55782381 original size:24 final size:24
Alignment explanation
Indices: 55782343--55782392 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
55782333 GAGATATTAA
* *
55782343 CATAATTTTGAGATTTCTATGGAT
1 CATAATTTAGAGATTTCTACGGAT
*
55782367 CATAATTTAGGGATTTCTACGGAT
1 CATAATTTAGAGATTTCTACGGAT
55782391 CA
1 CA
55782393 ATACACAAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.40
Consensus pattern (24 bp):
CATAATTTAGAGATTTCTACGGAT
Found at i:55786044 original size:46 final size:46
Alignment explanation
Indices: 55785977--55786152 Score: 173
Period size: 46 Copynumber: 3.8 Consensus size: 46
55785967 TGTAACCCGC
* * *
55785977 CCATAAGCGAACCCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
55786023 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-G--GAC-A-TTCGCAT
* * * *
55786073 CTCA-CA---AATTAGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
55786116 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
55786153 TGCCCAAATA
Statistics
Matches: 106, Mismatches: 13, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
42 4 0.04
43 6 0.06
44 2 0.02
46 59 0.56
47 23 0.22
49 2 0.02
50 6 0.06
51 4 0.04
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:55789789 original size:68 final size:68
Alignment explanation
Indices: 55789625--55789797 Score: 153
Period size: 68 Copynumber: 2.5 Consensus size: 68
55789615 TACCACTCAC
* * * *
55789625 GCGACCTAGCT-GAT-T-TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCAC
1 GCGACCTAGCTACATATATATCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCAC
*
55789687 TCAT
65 ACAT
* * *
55789691 GCGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATC
1 GCGACCTAGCTACATATATATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATC
55789753 ACACAT
63 ACACAT
*
55789759 GTGACCTAGCTACTATATAGTATCTCGTAGC-CTTCTTGT
1 GCGACCTAGCTAC-ATATA-TATCTCGTAGCTC-TCTTGT
55789798 ACACATGATG
Statistics
Matches: 88, Mismatches: 10, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
66 11 0.12
67 3 0.03
68 34 0.39
69 8 0.09
70 6 0.07
71 26 0.30
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.35
Consensus pattern (68 bp):
GCGACCTAGCTACATATATATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACA
CAT
Found at i:55790924 original size:8 final size:8
Alignment explanation
Indices: 55790911--55790938 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
55790901 CACGAAATTT
55790911 TCATGAAA
1 TCATGAAA
55790919 TCATGAAA
1 TCATGAAA
55790927 TCATGAAA
1 TCATGAAA
55790935 TCAT
1 TCAT
55790939 ATCATAAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.29
Consensus pattern (8 bp):
TCATGAAA
Found at i:55793007 original size:40 final size:40
Alignment explanation
Indices: 55792947--55793053 Score: 178
Period size: 40 Copynumber: 2.7 Consensus size: 40
55792937 ATTTGAATGA
* *
55792947 TATCTGGGCTGAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
55792987 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
* *
55793027 TATTCGGGCTAAGACCCGAAGGCATTT
1 TATCCGGGCTAAGTCCCGAAGGCATTT
55793054 GTGCGAGTTG
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 63 1.00
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (40 bp):
TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
Found at i:55795323 original size:40 final size:40
Alignment explanation
Indices: 55795268--55795478 Score: 239
Period size: 40 Copynumber: 5.3 Consensus size: 40
55795258 ATTTGAATGA
*
55795268 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
*
55795308 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
* * *
55795348 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTT
* * * *
55795388 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTT
* * * * * * *
55795428 TACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
55795468 TATCC-GGCTAA
1 TATCCGGGCTAA
55795479 ATTCCGAAGA
Statistics
Matches: 156, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
39 7 0.04
40 146 0.94
41 3 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
Found at i:55798281 original size:968 final size:967
Alignment explanation
Indices: 55795896--55799769 Score: 7264
Period size: 968 Copynumber: 4.0 Consensus size: 967
55795886 TATCAAAGCC
55795896 CTTTTGGTACTCTTTTAGTTGAACTCTGGATATGGCATGTATAGGACTACCCTTTGTTGTTTTTT
1 CTTTTGGTACTCTTTTAGTTGAACTCTGGATATGGCATGTATAGGACTACCCTTTGTTGTTTTTT
55795961 TCAAGTACTTTTTGTGATGTATGTGTGTACAGCCATGCGAAAATGGCTCGTAGAAGTGGAGTATG
66 TCAAGTACTTTTTGTGATGTATGTGTGTACAGCCATGCGAAAATGGCTCGTAGAAGTGGAGTATG
55796026 GCATTAGACCATTTGTGTTTATGTATATATATATGGTTTCATGATGTGACTATGGACTGGAATGG
131 GCATTAGACCATTTGTGTTTATGTATATATATATGGTTTCATGATGTGACTATGGACTGGAATGG
55796091 AAGTGTTGGGCAAATGATCAGCCATTGGAATGGCTAAATATGATCATATGTGGACCTATGTATGA
196 AAGTGTTGGGCAAATGATCAGCCATTGGAATGGCTAAATATGATCATATGTGGACCTATGTATGA
55796156 CAAAACTCTAGTTGGTCCATGGTAACCACGAAATAGGTAAAGTTTACCTTGAAAACAGATGCTGA
261 CAAAACTCTAGTTGGTCCATGGTAACCACGAAATAGGTAAAGTTTACCTTGAAAACAGATGCTGA
* *
55796221 CAGCAGCAGTGGTGTGGATTTGAAAAATCACTAAAATTTTTAGGAATGGAATTAAATAGTGAATA
326 CAGCAGCAGTGGTGAGGATTTGAAAAATCACTAAAATTTGTAGGAATGGAATTAAATAGTGAATA
** *
55796286 AATTATGTAATCGAACCTTGATGAATCTATTTTCATATGAAAGTAACGAAATGATCATATGAAAA
391 AATTATGTAATATAACCTTGATGAATCTATTTTCATATGAAAGTAACGAAATGATCATATGAACA
55796351 GTATATTAAGAGATATTAAAGTTCTCGCGAAACAGGGCCAGAACGGTTTCTGGATCTCCTGTTTC
456 GTATATTAAGAGATATTAAAGTTCTCGCGAAACAGGGCCAGAACGGTTTCTGGATCTCCTGTTTC
*
55796416 AACTTTGAAAATTTACCATAAATTATCCAGAGACAATTAGAAGTCATGCCTTATATGTATAGATT
521 GACTTTGAAAATTTACCATAAATTATCCAGAGACAATTAGAAGTCATGCCTTATATGTATAGATT
*
55796481 CCCCTTTGAGTCTAGTTTCATTAGAAACAAACGGCATGAGTATGGAAGCTCTGTACAGGGAGATA
586 CCCCTTTGAGTCTAGTTTCATTAGAAACAAACGGCATGAGTATGGAAGCTCTGTATAGGGAGATA
* * *
55796546 CCCAAGTCGTAATACGTGAAGGTCAGAGTAGTCGAACCCAGAATCAGGGTAGAATTTAACTAATA
651 TCCAAGTCGTAATACGTGAAGGTCAGAGTAGTCGAACCCAGAATCAGGGGAGATTTTAACTAATA
* *
55796611 AACTGTACCAATTGGCCCGACCCAAAATTCTAGAAATAAATCCACAGATGGATATATGAGTCTAA
716 AACTGTACCAATTGGCCTGACCAAAAATTCTAGAAATAAATCCACAGATGGATATATGAGTCTAA
*
55796676 TTTCAGGGAAAATTTACAGAATCAGTTTTCGAGTTTTGGAACTGGAGATATGATTTTTAAGGCTA
781 TTTCAGGGAAAATTTACAGAATCAGTTTTCGAGTTTTGGAACTGGAGATATGATTTTTAAGGCGA
*
55796741 CAGTGACGCGGTTAGCCAGCCTGTCTGGAATTTTTTTTAAATGGACTGTGAAAACAAAGTAATTA
846 CAGTGACTCGGTTAGCCAGCCTGTCTGGAATTTTTTTTAAATGGACTGTGAAAACAAAGTAATTA
55796806 AGTCTGTTAGCACCTCGCGTTCGACTCCGGCAACGGTCTCGGGTACGGGGTGTTATA
911 AGTCTGTTAGCACCTCGCGTTCGACTCCGGCAACGGTCTCGGGTACGGGGTGTTATA
55796863 CTTTTGGTACTCTTTTAGTTGAACTCTGGATATGGCATGTATAGGACTACCCTTTGTTG-TTTTT
1 CTTTTGGTACTCTTTTAGTTGAACTCTGGATATGGCATGTATAGGACTACCCTTTGTTGTTTTTT
55796927 TCAAGTACTTTTTGTGATGTATGTGTGTACAGCCATGCGAAAATGGCTCGTAGAAGTGGAGTATG
66 TCAAGTACTTTTTGTGATGTATGTGTGTACAGCCATGCGAAAATGGCTCGTAGAAGTGGAGTATG
**
55796992 GCATTAGACCATTTGTGTTTATGTATATATATATGGTTTCATGATGTGACTATGGACTGGAATAC
131 GCATTAGACCATTTGTGTTTATGTATATATATATGGTTTCATGATGTGACTATGGACTGGAATGG
55797057 AAGTGTTGGGCAAATGATCAGCCATTGGAATGGCTAAATATGATCATATGTGGACCTATGTATGA
196 AAGTGTTGGGCAAATGATCAGCCATTGGAATGGCTAAATATGATCATATGTGGACCTATGTATGA
55797122 CAAAACTCTAGTTGGTCCATGGTAACCACGAAATAGGTAAAGTTTACCTTGAAAACAGATGCTGA
261 CAAAACTCTAGTTGGTCCATGGTAACCACGAAATAGGTAAAGTTTACCTTGAAAACAGATGCTGA
* *
55797187 CAGCAGCAGTGGTGTGGATTTGAAAAATCACTAAAATTTGTAGGCATGGAATTAAATAGTGAATA
326 CAGCAGCAGTGGTGAGGATTTGAAAAATCACTAAAATTTGTAGGAATGGAATTAAATAGTGAATA
* *
55797252 AATTATGTAATCTAACCTTGATGAATCTATTTTCATATGAAAGTAACGAAATGACCATATGAACA
391 AATTATGTAATATAACCTTGATGAATCTATTTTCATATGAAAGTAACGAAATGATCATATGAACA
*
55797317 GTATATTAAGAGATATTAAAGTTCTCGTGAAACAGGGCCAGAACGGTTTCTGGATCTCCTGTTTC
456 GTATATTAAGAGATATTAAAGTTCTCGCGAAACAGGGCCAGAACGGTTTCTGGATCTCCTGTTTC
55797382 GACTTTGAAAATTTACCATAAATTATCCAGAGACAATTAGAAGTCATGCCTTATATGTATAGATT
521 GACTTTGAAAATTTACCATAAATTATCCAGAGACAATTAGAAGTCATGCCTTATATGTATAGATT
*
55797447 CCCCTTTGAGTCTAGTTTCATTAGAAACAAACGGCATGAGTATGGAAGCTCTGTATAGGGGGATA
586 CCCCTTTGAGTCTAGTTTCATTAGAAACAAACGGCATGAGTATGGAAGCTCTGTATAGGGAGATA
*
55797512 TCCAAGTCGTAATACGTGAAGGTCAGAGTAGTCGAACCCAGAATCAGGGGAGATTTTAACTTATA
651 TCCAAGTCGTAATACGTGAAGGTCAGAGTAGTCGAACCCAGAATCAGGGGAGATTTTAACTAATA
55797577 AACTGTACCAATTGGCCTGACCAAAAATTCTAGAAATAAATCCACAGATGGATATATGAGTCTAA
716 AACTGTACCAATTGGCCTGACCAAAAATTCTAGAAATAAATCCACAGATGGATATATGAGTCTAA
*
55797642 TTTCAGGGAAAATTTACGGAATCAGTTTTCTGAGTTTTGGAACTGGAGATATGATTTTTAAGGCG
781 TTTCAGGGAAAATTTACAGAATCAGTTTTC-GAGTTTTGGAACTGGAGATATGATTTTTAAGGCG
55797707 ACAGTGACTCGGTTAGCCAGCCTGTCTGGAATTTTTTTTAAATGGACTGTGAAAACAAAGTAATT
845 ACAGTGACTCGGTTAGCCAGCCTGTCTGGAATTTTTTTTAAATGGACTGTGAAAACAAAGTAATT
55797772 AAGTCTGTTAGCACCTCGCGTTCGACTCCGGCAACGGTCTCGGGTACGGGGTGTTATA
910 AAGTCTGTTAGCACCTCGCGTTCGACTCCGGCAACGGTCTCGGGTACGGGGTGTTATA
55797830 CTTTTGGTACTCTTTTAGTTGAACTCTGGATATGGCATGTATAGGACTACCCTTTGTTGTTTTTT
1 CTTTTGGTACTCTTTTAGTTGAACTCTGGATATGGCATGTATAGGACTACCCTTTGTTGTTTTTT
55797895 TCAAGTACTTTTTGTGATGTATGTGTGTACAGCCATGCGAAAATGGCTCGTAGAAGTGGAGTATG
66 TCAAGTACTTTTTGTGATGTATGTGTGTACAGCCATGCGAAAATGGCTCGTAGAAGTGGAGTATG
55797960 GCATTAGACCATTTGTGTTTATGTATATATATATGGTTTCATGATGTGACTATGGACTGGAATGG
131 GCATTAGACCATTTGTGTTTATGTATATATATATGGTTTCATGATGTGACTATGGACTGGAATGG
*
55798025 AAGTGTTGGGCAAATTATCAGCCATTGGAATGGCTAAATATGATCATATGTGGACCTATGTATGA
196 AAGTGTTGGGCAAATGATCAGCCATTGGAATGGCTAAATATGATCATATGTGGACCTATGTATGA
*
55798090 CAAAACTCTAGTTGGTCCATGGTAACCACGAAATAGGTAAAGTTTACCTTGAAAACAAATGCTGA
261 CAAAACTCTAGTTGGTCCATGGTAACCACGAAATAGGTAAAGTTTACCTTGAAAACAGATGCTGA
* *
55798155 CAGCAGCAGTGGTGAGGATTTTAAAAATCACTAATATTTGTAGGAATGGAATTAAATAGTGAATA
326 CAGCAGCAGTGGTGAGGATTTGAAAAATCACTAAAATTTGTAGGAATGGAATTAAATAGTGAATA
*
55798220 AATTATGTAATATAACCTTGATGAATCTATTTTCATATGAAAGTAACGAAACGATCATATGAACA
391 AATTATGTAATATAACCTTGATGAATCTATTTTCATATGAAAGTAACGAAATGATCATATGAACA
55798285 GTATATTAAGAGATATTAAAGTTCTCGCGAAACAGGGCCAGAACGGTTTCTGGATCTCCTGTTTC
456 GTATATTAAGAGATATTAAAGTTCTCGCGAAACAGGGCCAGAACGGTTTCTGGATCTCCTGTTTC
*
55798350 GACTTTGAAAATTTACCATAAATTATCCAGAGACAATTAGAAGTCATGCCTTATATTTATAGATT
521 GACTTTGAAAATTTACCATAAATTATCCAGAGACAATTAGAAGTCATGCCTTATATGTATAGATT
55798415 CCCCTTTGAGTCTAGTTTCATTAGAAACAAACGGCATGAGTATGGAAGCTCTGTATAGGGAGATA
586 CCCCTTTGAGTCTAGTTTCATTAGAAACAAACGGCATGAGTATGGAAGCTCTGTATAGGGAGATA
* *
55798480 TCCAAGTCGAAATACGTGAAGGTCAGAGTAGTCAAACCCAGAATCAGGGGAGATTTTAACTAATA
651 TCCAAGTCGTAATACGTGAAGGTCAGAGTAGTCGAACCCAGAATCAGGGGAGATTTTAACTAATA
55798545 AACTGTACCAATTGGCCTGACCAAAAATTCTAGAAATAAATCCACAGATGGATATATGAGTCTAA
716 AACTGTACCAATTGGCCTGACCAAAAATTCTAGAAATAAATCCACAGATGGATATATGAGTCTAA
* * *
55798610 TTTCAGGGAAAATTTACGGAATCAGTTTTTTGAGTTTTGGAACTAGAGATATGATTTTTAAGGCG
781 TTTCAGGGAAAATTTACAGAATCAG-TTTTCGAGTTTTGGAACTGGAGATATGATTTTTAAGGCG
55798675 ACAGTGACTCGGTTAGCCAGCCTGTCTGGAATTTTTTTTAAATGGACTGTGAAAACAAAGTAATT
845 ACAGTGACTCGGTTAGCCAGCCTGTCTGGAATTTTTTTTAAATGGACTGTGAAAACAAAGTAATT
55798740 AAGTCTGTTAGCACCTCGCGTTCGACTCCGGCAACGGTCTCGGGTACGGGGTGTTATA
910 AAGTCTGTTAGCACCTCGCGTTCGACTCCGGCAACGGTCTCGGGTACGGGGTGTTATA
*
55798798 CTTTTGGTACTCTTTTAGTTGAACTCTGGTTATGGCATGTATAGGACTACCCTTTGTTGTTTTTT
1 CTTTTGGTACTCTTTTAGTTGAACTCTGGATATGGCATGTATAGGACTACCCTTTGTTGTTTTTT
55798863 TCAAGTACTTTTTGTGATGTATGTGTGTACAGCCATGCGAAAATGGCTCGTAGAAGTGGAGTATG
66 TCAAGTACTTTTTGTGATGTATGTGTGTACAGCCATGCGAAAATGGCTCGTAGAAGTGGAGTATG
55798928 GCATTAGACCATTTGTGTTTATGTATATATATATGGTTTCATGATGTGACTATGGACTGGAATGG
131 GCATTAGACCATTTGTGTTTATGTATATATATATGGTTTCATGATGTGACTATGGACTGGAATGG
55798993 AAGTGTTGGGCAAATGATCAGCCATTGGAATGGCTAAATATGATCATATGTGGACCTATGTATGA
196 AAGTGTTGGGCAAATGATCAGCCATTGGAATGGCTAAATATGATCATATGTGGACCTATGTATGA
*
55799058 CAAAACTCTAGTTGGTCCATGGTAACCACGAAATAGGTAAATTTTACCTTGAAAACAGATGCTGA
261 CAAAACTCTAGTTGGTCCATGGTAACCACGAAATAGGTAAAGTTTACCTTGAAAACAGATGCTGA
*
55799123 CAGCAGCAGTGGTGAGGATTTTAAAAATCACTAAAATTTGTAGGAATGGAATTAAATAGTGAATA
326 CAGCAGCAGTGGTGAGGATTTGAAAAATCACTAAAATTTGTAGGAATGGAATTAAATAGTGAATA
* *
55799188 AATTATGTAATATAACCTTGATGAATCTATTTTCATATGAAAGTAACGAAATGATCATACGAATA
391 AATTATGTAATATAACCTTGATGAATCTATTTTCATATGAAAGTAACGAAATGATCATATGAACA
* * *
55799253 GTATATTAAGAGATATTAAAGTTCTCGTGAAACAGGGCCGGAACGGTTTCTGGATCTCCAGTTTC
456 GTATATTAAGAGATATTAAAGTTCTCGCGAAACAGGGCCAGAACGGTTTCTGGATCTCCTGTTTC
*
55799318 GACTTTGAAAATTTACCATAAATTATCCAGAGACAATTAGAATTCATGCCTTATATGTATAGATT
521 GACTTTGAAAATTTACCATAAATTATCCAGAGACAATTAGAAGTCATGCCTTATATGTATAGATT
* *
55799383 CCCATTTGAGTCTAGTTTCATTTGAAACAAACGGCATGAGTATGGAAGCTCTGTATAGGGAGATA
586 CCCCTTTGAGTCTAGTTTCATTAGAAACAAACGGCATGAGTATGGAAGCTCTGTATAGGGAGATA
*
55799448 TCCAAGTCGTAATACGTGAAGGTCAGAGTAGTCGAACCCAGAATCAGGGGAGACTTTAACTAATA
651 TCCAAGTCGTAATACGTGAAGGTCAGAGTAGTCGAACCCAGAATCAGGGGAGATTTTAACTAATA
*
55799513 AACTGTACCAATTGGCCTGACCAAAAATTCTAGAAATAAATCCACAGATGGATATATGAGTATAA
716 AACTGTACCAATTGGCCTGACCAAAAATTCTAGAAATAAATCCACAGATGGATATATGAGTCTAA
55799578 TTTCAGGGAAAATTTACAGAATCAGTTTTCGAGTTTTGGAACTGGAGATATGATTTTTAAGGCGA
781 TTTCAGGGAAAATTTACAGAATCAGTTTTCGAGTTTTGGAACTGGAGATATGATTTTTAAGGCGA
55799643 CAGTGACTCGGTTAGCCAGCCTGTCTGGAATTTTTTTTAAATGGACTGTGAAAACAAAGTAATTA
846 CAGTGACTCGGTTAGCCAGCCTGTCTGGAATTTTTTTTAAATGGACTGTGAAAACAAAGTAATTA
* *
55799708 AGTCTGTTAGCACCTCACGTTCGACTCCGGAAACGGTCTCGGGTACGGGGTGTTATA
911 AGTCTGTTAGCACCTCGCGTTCGACTCCGGCAACGGTCTCGGGTACGGGGTGTTATA
*
55799765 ATTTT
1 CTTTT
55799770 ATTGGTATCA
Statistics
Matches: 2840, Mismatches: 64, Indels: 6
0.98 0.02 0.00
Matches are distributed among these distances:
966 732 0.26
967 435 0.15
968 1669 0.59
969 4 0.00
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (967 bp):
CTTTTGGTACTCTTTTAGTTGAACTCTGGATATGGCATGTATAGGACTACCCTTTGTTGTTTTTT
TCAAGTACTTTTTGTGATGTATGTGTGTACAGCCATGCGAAAATGGCTCGTAGAAGTGGAGTATG
GCATTAGACCATTTGTGTTTATGTATATATATATGGTTTCATGATGTGACTATGGACTGGAATGG
AAGTGTTGGGCAAATGATCAGCCATTGGAATGGCTAAATATGATCATATGTGGACCTATGTATGA
CAAAACTCTAGTTGGTCCATGGTAACCACGAAATAGGTAAAGTTTACCTTGAAAACAGATGCTGA
CAGCAGCAGTGGTGAGGATTTGAAAAATCACTAAAATTTGTAGGAATGGAATTAAATAGTGAATA
AATTATGTAATATAACCTTGATGAATCTATTTTCATATGAAAGTAACGAAATGATCATATGAACA
GTATATTAAGAGATATTAAAGTTCTCGCGAAACAGGGCCAGAACGGTTTCTGGATCTCCTGTTTC
GACTTTGAAAATTTACCATAAATTATCCAGAGACAATTAGAAGTCATGCCTTATATGTATAGATT
CCCCTTTGAGTCTAGTTTCATTAGAAACAAACGGCATGAGTATGGAAGCTCTGTATAGGGAGATA
TCCAAGTCGTAATACGTGAAGGTCAGAGTAGTCGAACCCAGAATCAGGGGAGATTTTAACTAATA
AACTGTACCAATTGGCCTGACCAAAAATTCTAGAAATAAATCCACAGATGGATATATGAGTCTAA
TTTCAGGGAAAATTTACAGAATCAGTTTTCGAGTTTTGGAACTGGAGATATGATTTTTAAGGCGA
CAGTGACTCGGTTAGCCAGCCTGTCTGGAATTTTTTTTAAATGGACTGTGAAAACAAAGTAATTA
AGTCTGTTAGCACCTCGCGTTCGACTCCGGCAACGGTCTCGGGTACGGGGTGTTATA
Found at i:55805867 original size:40 final size:41
Alignment explanation
Indices: 55805808--55805959 Score: 211
Period size: 40 Copynumber: 3.8 Consensus size: 41
55805798 CATTTGAATG
* * *
55805808 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
55805848 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
55805888 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * *
55805928 ATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
55805960 TTGTGGTTAT
Statistics
Matches: 102, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
40 99 0.97
41 3 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
Found at i:55805971 original size:80 final size:80
Alignment explanation
Indices: 55805808--55805979 Score: 213
Period size: 80 Copynumber: 2.2 Consensus size: 80
55805798 CATTTGAATG
* * * * *
55805808 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATACCCGGGCTAAGACCCGAAGGCA
* *
55805873 TTTGTGCGAGTTGAT
66 ATTGTGCGAGTGGAT
* *
55805888 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATACCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAG-TGACTATACCCGGGCTAAGACCCGAAGGC
** *
55805952 AATTGTGCTTGTGGTT
65 AATTGTGCGAGTGGAT
55805968 ATATCC-GGCTAA
1 ATATCCGGGCTAA
55805980 ATTCCGAAGA
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 6 0.08
80 71 0.90
81 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATACCCGGGCTAAGACCCGAAGGCA
ATTGTGCGAGTGGAT
Found at i:55811151 original size:28 final size:28
Alignment explanation
Indices: 55811084--55811151 Score: 109
Period size: 28 Copynumber: 2.4 Consensus size: 28
55811074 AGATATTTTG
* *
55811084 CACACTAAGTGCCATTCTCAATATCTCG
1 CACACTAAGTGTCATTCTCAATATCTCA
*
55811112 CACACTAAGTGTCATTCTCAATATTTCA
1 CACACTAAGTGTCATTCTCAATATCTCA
55811140 CACACTAAGTGT
1 CACACTAAGTGT
55811152 TATATTTGAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.31, C:0.28, G:0.10, T:0.31
Consensus pattern (28 bp):
CACACTAAGTGTCATTCTCAATATCTCA
Found at i:55811628 original size:27 final size:30
Alignment explanation
Indices: 55811588--55811642 Score: 71
Period size: 27 Copynumber: 1.9 Consensus size: 30
55811578 AGCTAGCCAA
*
55811588 ATTTTCCATATA-TT-AC-TTTCAACCCAT
1 ATTTTCAATATATTTCACATTTCAACCCAT
*
55811615 ATTTTCAATTTATTTCACATTTCAACCC
1 ATTTTCAATATATTTCACATTTCAACCC
55811643 CTCAATGTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 10 0.43
28 2 0.09
29 2 0.09
30 9 0.39
ACGTcount: A:0.29, C:0.25, G:0.00, T:0.45
Consensus pattern (30 bp):
ATTTTCAATATATTTCACATTTCAACCCAT
Found at i:55812452 original size:19 final size:19
Alignment explanation
Indices: 55812414--55812455 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
55812404 TGATTTTCTT
55812414 TCACTAGCCTCATCAATTTC
1 TCACTAGCCTCA-CAATTTC
55812434 TCACATAGCCTCA-AATTTC
1 TCAC-TAGCCTCACAATTTC
55812453 TCA
1 TCA
55812456 ACTTTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 9 0.43
20 4 0.19
21 8 0.38
ACGTcount: A:0.29, C:0.33, G:0.05, T:0.33
Consensus pattern (19 bp):
TCACTAGCCTCACAATTTC
Found at i:55818515 original size:34 final size:32
Alignment explanation
Indices: 55818437--55818518 Score: 92
Period size: 34 Copynumber: 2.4 Consensus size: 32
55818427 CTTTGTTTAC
55818437 ATACTGTACTGAAATGGGCTCAGGCCCAAACT
1 ATACTGTACTGAAATGGGCTCAGGCCCAAACT
* * * *
55818469 ACTTCTGCTACTGAAATGGGCTTAGGTCCAGACT
1 A-TACTG-TACTGAAATGGGCTCAGGCCCAAACT
55818503 GATACTGTTACTGAAA
1 -ATACTG-TACTGAAA
55818519 AAGGGGCTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
32 1 0.02
33 4 0.10
34 35 0.85
35 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (32 bp):
ATACTGTACTGAAATGGGCTCAGGCCCAAACT
Found at i:55834260 original size:40 final size:39
Alignment explanation
Indices: 55834216--55834309 Score: 120
Period size: 40 Copynumber: 2.4 Consensus size: 39
55834206 CTCGGTATCA
*
55834216 CACACTTAGTGCCTCA-TATAGCCAAAGCTATTCCAACTCG
1 CACACTTAGTGCCT-ATTATAGCCAAAGCTATTCCAA-ACG
**
55834256 CACACTTAGTG-CTATTTATAGCCAAAGCTATTTGAAACG
1 CACACTTAGTGCCTA-TTATAGCCAAAGCTATTCCAAACG
55834295 CACACTTAGTGCCTA
1 CACACTTAGTGCCTA
55834310 ACATAGTCGA
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
38 1 0.02
39 15 0.31
40 32 0.67
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.28
Consensus pattern (39 bp):
CACACTTAGTGCCTATTATAGCCAAAGCTATTCCAAACG
Found at i:55839514 original size:61 final size:61
Alignment explanation
Indices: 55839419--55839539 Score: 215
Period size: 61 Copynumber: 2.0 Consensus size: 61
55839409 GCATAAAGTG
*
55839419 TAAAAGTTGTGTTCCATAAGCTAAAGGTGTCAAATAGCTATAGAACTTAAAAGTTAAGGTC
1 TAAAAGTTGTGTTCCATAAGCTAAAGGCGTCAAATAGCTATAGAACTTAAAAGTTAAGGTC
* *
55839480 TAAAAGTTGTGTTCTATAAGCTAAAGGCGTCAAATAGCTATAGAACTTAAAATTTAAGGT
1 TAAAAGTTGTGTTCCATAAGCTAAAGGCGTCAAATAGCTATAGAACTTAAAAGTTAAGGT
55839540 TCTTAAGTGG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 57 1.00
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.31
Consensus pattern (61 bp):
TAAAAGTTGTGTTCCATAAGCTAAAGGCGTCAAATAGCTATAGAACTTAAAAGTTAAGGTC
Found at i:55840680 original size:43 final size:43
Alignment explanation
Indices: 55840457--55840680 Score: 294
Period size: 43 Copynumber: 5.2 Consensus size: 43
55840447 ATTTGAGACC
* *
55840457 CTAAGTGTGCGATA-AATTAAGTAGCTACGGCTAATTAATTGGCA
1 CTAAGTGTACGATACAATT-A-TAGCTTCGGCTAATTAATTGGCA
* *
55840501 CTAAGTGT-CCAGTACAATTATAGCCTC-GCTAATTAATTGGCA
1 CTAAGTGTACGA-TACAATTATAGCTTCGGCTAATTAATTGGCA
*
55840543 CTAAGTGTGA-GATACAATTATAGCCTCGGCTAATTAATTGGCA
1 CTAAGTGT-ACGATACAATTATAGCTTCGGCTAATTAATTGGCA
**
55840586 CTAAGTGTGTGATACAATTATAGCTTCGGCTAATTAATTGGCA
1 CTAAGTGTACGATACAATTATAGCTTCGGCTAATTAATTGGCA
* * *
55840629 CTAAGTGTACGATACAATTATAGCTTCAGCTAATTAATCGACA
1 CTAAGTGTACGATACAATTATAGCTTCGGCTAATTAATTGGCA
55840672 CTAAGTGTA
1 CTAAGTGTA
55840681 TGAGTTAGTT
Statistics
Matches: 163, Mismatches: 11, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
42 38 0.23
43 110 0.67
44 11 0.07
45 4 0.02
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (43 bp):
CTAAGTGTACGATACAATTATAGCTTCGGCTAATTAATTGGCA
Found at i:55846863 original size:43 final size:42
Alignment explanation
Indices: 55846773--55847001 Score: 280
Period size: 43 Copynumber: 5.3 Consensus size: 42
55846763 GAATTTGAGA
* * *
55846773 CACTAAGTGTGCGACA-AATGAAGTAGCTACGGCTAATTAATTGG
1 CACTAAGTGTGCGATACAAT-TA-TAGCT-CAGCTAATTAATTGG
*
55846817 CACTAAGTGTGCGATACAATTATAGCCTCAGCAAATTAATTGG
1 CACTAAGTGTGCGATACAATTATAG-CTCAGCTAATTAATTGG
* *
55846860 CACTAAGTGTGCGATACAATTATAGCCTCGGGTAATTAATTGG
1 CACTAAGTGTGCGATACAATTATAG-CTCAGCTAATTAATTGG
* * **
55846903 CACTAAGTGTACGATAGAATTATAGCTTGGACTAATTAATTGG
1 CACTAAGTGTGCGATACAATTATAGCTCAG-CTAATTAATTGG
* *
55846946 CACTAAGTGTGCGATACAATTATAGTTCAGCTAATTAATCGG
1 CACTAAGTGTGCGATACAATTATAGCTCAGCTAATTAATTGG
*
55846988 CACTAAGTCTGCGA
1 CACTAAGTGTGCGA
55847002 GTTAGTTGAA
Statistics
Matches: 164, Mismatches: 18, Indels: 8
0.86 0.09 0.04
Matches are distributed among these distances:
42 28 0.17
43 115 0.70
44 18 0.11
45 3 0.02
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (42 bp):
CACTAAGTGTGCGATACAATTATAGCTCAGCTAATTAATTGG
Found at i:55848008 original size:34 final size:33
Alignment explanation
Indices: 55847968--55848090 Score: 114
Period size: 34 Copynumber: 3.8 Consensus size: 33
55847958 TCTGTTTGCA
55847968 TACTATTACTGTAAAGGGCTCAGGCCCAGACTAC
1 TACTATTACTG-AAAGGGCTCAGGCCCAGACTAC
* * * * *
55848002 TACTATTACTGCAACGGGTTCAGGCCTAGATTGC
1 TACTATTACTG-AAAGGGCTCAGGCCCAGACTAC
* *
55848036 TACTGTTACTGAAATGGGCTAAGG-CC---CTA-
1 TACTATTACTGAAA-GGGCTCAGGCCCAGACTAC
55848065 -ACTATTACTGAAAGGGCTCAGGCCCA
1 TACTATTACTGAAAGGGCTCAGGCCCA
55848091 AATTGTGCTT
Statistics
Matches: 71, Mismatches: 15, Indels: 11
0.73 0.15 0.11
Matches are distributed among these distances:
27 8 0.11
28 14 0.20
30 1 0.01
33 3 0.04
34 45 0.63
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (33 bp):
TACTATTACTGAAAGGGCTCAGGCCCAGACTAC
Found at i:55848964 original size:28 final size:28
Alignment explanation
Indices: 55848932--55848987 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
55848922 CTATTTTGGG
55848932 CCTCAAGCCCAAACTATAATTATTTCAT
1 CCTCAAGCCCAAACTATAATTATTTCAT
55848960 CCTCAAGCCCAAACTATAATTATTTCAT
1 CCTCAAGCCCAAACTATAATTATTTCAT
55848988 GTACTTAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.36, C:0.29, G:0.04, T:0.32
Consensus pattern (28 bp):
CCTCAAGCCCAAACTATAATTATTTCAT
Found at i:55856896 original size:25 final size:25
Alignment explanation
Indices: 55856801--55856885 Score: 98
Period size: 25 Copynumber: 3.4 Consensus size: 25
55856791 ACAACTCATA
* * * *
55856801 AGAGCATACCGATTTATAGCTTGTA
1 AGAGCATATCAATTTACAGCTTGTG
* *
55856826 AGAGCATAGCAATTTACAGCTCGTG
1 AGAGCATATCAATTTACAGCTTGTG
*
55856851 AGAGCATATAAATTTACAGCTTGTG
1 AGAGCATATCAATTTACAGCTTGTG
*
55856876 TGAGCATATC
1 AGAGCATATC
55856886 GATTCATAGC
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.29
Consensus pattern (25 bp):
AGAGCATATCAATTTACAGCTTGTG
Found at i:55858940 original size:49 final size:50
Alignment explanation
Indices: 55858868--55859044 Score: 239
Period size: 52 Copynumber: 3.5 Consensus size: 50
55858858 ACTCGTGACC
*
55858868 CAAGTGTAGTACTATGTGAAGGCCACTTTGAGAAG-AGATAGCTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAGAAGATAGCTTGGTCA
* *
55858917 CAAGTATGGTACTATGTGAAGGCCACTTTGCGAAGAAAGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAG-AAGATAGC-TTGGTCA
* * * *
55858969 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGGTAGCTTTGACTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAGAAGATAGCTTGGTC-A
* *
55859020 CAAGGGTGGTACTATGTGCAGGCCA
1 CAAGTGTGGTACTATGTGAAGGCCA
55859045 TCGGGTATCT
Statistics
Matches: 114, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
49 32 0.28
50 4 0.04
51 38 0.33
52 40 0.35
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (50 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAGAAGATAGCTTGGTCA
Found at i:55858988 original size:52 final size:51
Alignment explanation
Indices: 55858868--55859044 Score: 243
Period size: 51 Copynumber: 3.5 Consensus size: 51
55858858 ACTCGTGACC
*
55858868 CAAGTGTAGTACTATGTGAAGGCCACTTTGAGAAG-AGATAGC-TTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAGAAGATAGCTTTGGTCA
* *
55858917 CAAGTATGGTACTATGTGAAGGCCACTTTGCGAAGAAAGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAG-AAGATAGCTTTGGTCA
* * *
55858969 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGGTAGCTTT-GACTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAGAAGATAGCTTTGGTC-A
* *
55859020 CAAGGGTGGTACTATGTGCAGGCCA
1 CAAGTGTGGTACTATGTGAAGGCCA
55859045 TCGGGTATCT
Statistics
Matches: 115, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
49 32 0.28
50 2 0.02
51 41 0.36
52 40 0.35
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (51 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAGAAGATAGCTTTGGTCA
Found at i:55868436 original size:93 final size:93
Alignment explanation
Indices: 55868285--55868457 Score: 229
Period size: 93 Copynumber: 1.9 Consensus size: 93
55868275 ACATTATGAG
* * ** * ** * *
55868285 AGCCAGTGTAAGACCATGTCTGGGGCATGGCATCAGCATCCCGACGAGGGCTAGTGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCACCAGCAGACAGACGACAGCCAATGTAAGACATG
55868350 TCTAGGACATGCATCAGGATACTGTGAT
66 TCTAGGACATGCATCAGGATACTGTGAT
* * *
55868378 AGCCAGTGTAAGACCATGTCTGGGACATGGCACCGGCAGAGAGATGACAGCCAATGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCACCAGCAGACAGACGACAGCCAATGTAAGACATG
*
55868443 TCTGGGACATGCATC
66 TCTAGGACATGCATC
55868458 GGCCTCGACA
Statistics
Matches: 67, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
93 67 1.00
ACGTcount: A:0.28, C:0.22, G:0.30, T:0.20
Consensus pattern (93 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCACCAGCAGACAGACGACAGCCAATGTAAGACATG
TCTAGGACATGCATCAGGATACTGTGAT
Found at i:55868491 original size:140 final size:141
Alignment explanation
Indices: 55868337--55868599 Score: 340
Period size: 140 Copynumber: 1.9 Consensus size: 141
55868327 GACGAGGGCT
* * *
55868337 AGTGTAAGACATGTCTAGGACATGCATCAGGATACT-G-TGATAGCCAGTGTAAGACCATGTCTG
1 AGTGGAAGACATGTCTAGGACACGCATC-GGATAATAGTTG-TA-CCAGTGTAAGA-CATGTCTG
* *
55868400 GGACATGGCACCGGCA-GAG-AGATGACAGCCAATGTAAGA-CATGTCTGGGACAT-GCATCGGC
62 GGACAT-GCACCAGCATGAGTAGATGACAACCAATGTAAGACCATGTCTGGGACATGGCATCGGC
55868461 CTCGACAGAGATAACC
126 CTCGACAGAGATAACC
* *
55868477 AGTGGAAGACATGTCTGGGACACGCATCGGATAATAGTTGTACTAGTGTAAGACATGTCTGGGAC
1 AGTGGAAGACATGTCTAGGACACGCATCGGATAATAGTTGTACCAGTGTAAGACATGTCTGGGAC
* * * *
55868542 ATGCATCAGCATGCGTATATGAGAACCAATGTAAGACCATGTCTGGGACATGGCATCG
66 ATGCACCAGCATGAGTAGATGACAACCAATGTAAGACCATGTCTGGGACATGGCATCG
55868600 ACAATATATC
Statistics
Matches: 106, Mismatches: 11, Indels: 11
0.83 0.09 0.09
Matches are distributed among these distances:
137 7 0.07
138 16 0.15
139 33 0.31
140 42 0.40
141 8 0.08
ACGTcount: A:0.30, C:0.20, G:0.29, T:0.21
Consensus pattern (141 bp):
AGTGGAAGACATGTCTAGGACACGCATCGGATAATAGTTGTACCAGTGTAAGACATGTCTGGGAC
ATGCACCAGCATGAGTAGATGACAACCAATGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA
CAGAGATAACC
Found at i:55875927 original size:47 final size:46
Alignment explanation
Indices: 55875770--55876139 Score: 240
Period size: 47 Copynumber: 7.9 Consensus size: 46
55875760 TGATTTGTGC
* ** * * *
55875770 GCCAGTGTAAAATGTGTCTAGGACATGCTTCGGCCACAT-TATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-CACATATATGATA
* * * * * **
55875816 GCCAGTGTAAGACAATGTCTGGGGCATGGCATTGGCATC-CAGACGAGG
1 GCCAGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCA-CATATATGATA
* *
55875864 GCTAGTGTAAGACATGTCTGGGACATGCATCAGC-CATACTATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCACATA-TATGATA
* * *
55875910 GCCAGTGTAAGACCATGTCTAGGACATGGCA-CTGGCACAGAGATGAGT-
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATC-GGCACATATATGA-TA
* * *
55875958 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACAGA-GATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-CAC-ATATATGATA
* * *
55876005 GCAAGTGTAAGACATGTCTGGGACACGCATCGGCTA-AGAGT-TG-T-
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGC-ACATA-TATGATA
* * * * *
55876049 GCTAGTGTAAGACATGTCTGGGACATGCATCAGAACGCGTATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATC-G-GCACATATATGATA
*
55876097 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACA-ATATAT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCACATATAT
55876140 CCCATGTTCA
Statistics
Matches: 255, Mismatches: 43, Indels: 51
0.73 0.12 0.15
Matches are distributed among these distances:
44 30 0.12
45 6 0.02
46 43 0.17
47 92 0.36
48 60 0.24
49 19 0.07
50 5 0.02
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCACATATATGATA
Found at i:55875938 original size:94 final size:93
Alignment explanation
Indices: 55875784--55876128 Score: 357
Period size: 94 Copynumber: 3.7 Consensus size: 93
55875774 GTGTAAAATG
* * * * * * *
55875784 TGTCTAGGACATGCTTCGGCCACATTATGAGAGCCAGTGTAAGACAATGTCTGGGGCATGGCATT
1 TGTCTGGGACATGCATCAGCCATACTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATT
* *
55875849 GGCATCCAGACGAGGGCTAGTGTAAGACA
66 GGCATCAAGA-GAGTGCTAGTGTAAGACA
* * *
55875878 TGTCTGGGACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATGTCTAGGACATGGCACT
1 TGTCTGGGACATGCATCAGCCATACTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATT
*
55875943 GGCA-CAGAGATGAGTGCCAGTGTAAGACA
66 GGCATCA-AGA-GAGTGCTAGTGTAAGACA
* * *
55875972 TGTCTGGGACATGCATCGGCC-TCGAC-A-GAGATAGCAAGTGTAAGA-CATGTCTGGGACA-CG
1 TGTCTGGGACATGCATCAGCCAT--ACTATGAG--AGCCAGTGTAAGACCATGTCTGGGACATGG
* *
55876032 CATCGGC-T-AAGAGTTGTGCTAGTGTAAGACA
62 CATTGGCATCAAGAG-AGTGCTAGTGTAAGACA
*
55876063 TGTCTGGGACATGCATCAGAACGCGTA-TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGC
1 TGTCTGGGACATGCATCAG--C-CATACTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGC
55876127 AT
63 AT
55876129 CGACAATATA
Statistics
Matches: 210, Mismatches: 26, Indels: 30
0.79 0.10 0.11
Matches are distributed among these distances:
90 1 0.00
91 36 0.17
92 13 0.06
93 26 0.12
94 119 0.57
95 15 0.07
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (93 bp):
TGTCTGGGACATGCATCAGCCATACTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATT
GGCATCAAGAGAGTGCTAGTGTAAGACA
Found at i:55876129 original size:141 final size:142
Alignment explanation
Indices: 55875809--55876130 Score: 356
Period size: 141 Copynumber: 2.3 Consensus size: 142
55875799 TCGGCCACAT
* * * * *
55875809 TATGAGAGCCAGTGTAAGACAATGTCTGGGGCATGGCATTGGCATCCAGACGAGGGCTAGTGTAA
1 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCCAGACGAGAGCAAGTGTAA
* * *
55875874 GACATGTCTGGGACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATGTCTAGGACATGG
66 GACATGTCTGGGACACGCATCAGCAAGACTATGATAGCCAGTGTAAGACCATGTCTAGGACATGG
* *
55875939 CACTGGCACAGA
131 CACTAGAACAGA
* * * *
55875951 GATGAGTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGACAGA-GATAGCAAGTGT
1 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATC--CAGACGAGAGCAAGTGT
* * * *
55876013 AAGACATGTCTGGGACACGCATCGGCTAAGAGT-TG-T-GCTAGTGTAAGA-CATGTCTGGGACA
64 AAGACATGTCTGGGACACGCATCAGC-AAGACTATGATAGCCAGTGTAAGACCATGTCTAGGACA
*
55876074 T-GCA-TCAGAACGCGTA
128 TGGCACT-AGAAC-AG-A
55876090 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
55876131 ACAATATATC
Statistics
Matches: 151, Mismatches: 21, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
136 1 0.01
137 6 0.04
138 14 0.09
139 29 0.19
140 24 0.16
141 53 0.35
142 24 0.16
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.21
Consensus pattern (142 bp):
TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCCAGACGAGAGCAAGTGTAA
GACATGTCTGGGACACGCATCAGCAAGACTATGATAGCCAGTGTAAGACCATGTCTAGGACATGG
CACTAGAACAGA
Found at i:55880782 original size:40 final size:40
Alignment explanation
Indices: 55880718--55880967 Score: 310
Period size: 40 Copynumber: 6.3 Consensus size: 40
55880708 TCTTCGAAAT
* * *
55880718 TTAG-CCGGATATAACCACAAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
* *
55880757 TTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTC-GGTC
1 TTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTC
*
55880796 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
* *
55880836 TTAACCCGGATAAAATCACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
* * * * * *
55880876 TTAACCCGGGT-ATAGCAACTCGCACAAATGCCTTCAGGTC
1 TTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTC
* *
55880916 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGAC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
55880956 TTAGCCCGGATA
1 TTAGCCCGGATA
55880968 TCATTCAAAT
Statistics
Matches: 182, Mismatches: 23, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
39 40 0.22
40 139 0.76
41 3 0.02
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
Found at i:55883402 original size:22 final size:21
Alignment explanation
Indices: 55883370--55883416 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
55883360 ACACAGCTTT
55883370 TTTG-CAAAAATT-AGAGACAA
1 TTTGACAAAAATTGAGAGA-AA
55883390 CTTTGACAAAAATTGAGAGAAA
1 -TTTGACAAAAATTGAGAGAAA
55883412 TTTGA
1 TTTGA
55883417 GAGAATTTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.38
22 10 0.42
23 5 0.21
ACGTcount: A:0.47, C:0.09, G:0.17, T:0.28
Consensus pattern (21 bp):
TTTGACAAAAATTGAGAGAAA
Found at i:55884686 original size:14 final size:13
Alignment explanation
Indices: 55884663--55884711 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 13
55884653 AAGAATTCTC
55884663 AATTTATTAAAAT
1 AATTTATTAAAAT
*
55884676 ATATTTGTTAAAAT
1 A-ATTTATTAAAAT
55884690 AATTTATGTAATAAT
1 AATTTAT-TAA-AAT
55884705 AAATTTA
1 -AATTTA
55884712 AAAAAATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
13 6 0.20
14 15 0.50
15 3 0.10
16 6 0.20
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (13 bp):
AATTTATTAAAAT
Found at i:55893641 original size:30 final size:31
Alignment explanation
Indices: 55893598--55893656 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 31
55893588 TATTCATCCA
55893598 TGGAAAATAAAATAA-AGAAA-ATGATAAAAT
1 TGGAAAATAAAATAATA-AAAGATGATAAAAT
* *
55893628 TGGAAAGTGAAATAATAAAAGATGATAAA
1 TGGAAAATAAAATAATAAAAGATGATAAA
55893657 TGATAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 16 0.64
31 9 0.36
ACGTcount: A:0.63, C:0.00, G:0.17, T:0.20
Consensus pattern (31 bp):
TGGAAAATAAAATAATAAAAGATGATAAAAT
Found at i:55894820 original size:23 final size:23
Alignment explanation
Indices: 55894786--55894830 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
55894776 CCTATTACAT
55894786 GGCTCTTTGTGAGCT-TCCTGATA
1 GGCTCTTTGTGAG-TATCCTGATA
55894809 GGCT-TTTCGTGAGTATCCTGAT
1 GGCTCTTT-GTGAGTATCCTGAT
55894831 TAAAAGTTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.13, C:0.20, G:0.27, T:0.40
Consensus pattern (23 bp):
GGCTCTTTGTGAGTATCCTGATA
Found at i:55900454 original size:49 final size:50
Alignment explanation
Indices: 55900372--55900606 Score: 278
Period size: 49 Copynumber: 4.7 Consensus size: 50
55900362 TGATCTATTG
* *
55900372 TTAGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAA
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA
* * * * *
55900422 TT-GGTCGCATGTGTAGTTCTAAGTGCAGGCTACTATGCGTACCCGATAA
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA
* * * * * * **
55900471 CTTCGATCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTATCAGATGG
1 -TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA
* *
55900522 TTAGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAA
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA
55900572 TT-GGT-AGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TTAGGTCA-CATGTGTAGTACTAAGTGCAGGCTACTA
55900607 TGTATACCAG
Statistics
Matches: 154, Mismatches: 28, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
48 1 0.01
49 69 0.45
50 48 0.31
51 36 0.23
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.30
Consensus pattern (50 bp):
TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA
Found at i:55905639 original size:25 final size:25
Alignment explanation
Indices: 55905547--55905639 Score: 98
Period size: 25 Copynumber: 3.8 Consensus size: 25
55905537 TATGCTCATA
* *
55905547 CGAGCTGTA-AACGATAAGCTCTTC
1 CGAGCTGAATAACGATAAGCTCCTC
* *
55905571 CTAGCTGAATAACGGTAAGCTCCTC
1 CGAGCTGAATAACGATAAGCTCCTC
* * * *
55905596 TGAGTTGAATAAGGGTAAGCTCCTC
1 CGAGCTGAATAACGATAAGCTCCTC
*
55905621 CGAGCTGAATAACAATAAG
1 CGAGCTGAATAACGATAAG
55905640 TTCATACAAG
Statistics
Matches: 55, Mismatches: 13, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
24 7 0.13
25 48 0.87
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.24
Consensus pattern (25 bp):
CGAGCTGAATAACGATAAGCTCCTC
Found at i:55910635 original size:27 final size:27
Alignment explanation
Indices: 55910604--55910781 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
55910594 TAAATTGTAC
55910604 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
55910631 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
55910657 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
55910685 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
55910713 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
55910740 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
55910767 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
55910782 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:55910718 original size:82 final size:81
Alignment explanation
Indices: 55910605--55910760 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
55910595 AAATTGTACA
* *
55910605 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
55910669 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
55910686 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
55910751 TGCGAGTTGA
65 TGCGAATTGA
55910761 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:55910772 original size:82 final size:81
Alignment explanation
Indices: 55910601--55910781 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
55910591 GATTAAATTG
* *
55910601 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
55910666 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
55910682 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
55910746 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
55910764 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
55910782 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:55918812 original size:27 final size:27
Alignment explanation
Indices: 55918781--55918958 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
55918771 TAAATTGTAC
55918781 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
55918808 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
55918834 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
55918862 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
55918890 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
55918917 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
55918944 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
55918959 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:55918895 original size:82 final size:81
Alignment explanation
Indices: 55918782--55918937 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
55918772 AAATTGTACA
* *
55918782 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
55918846 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
55918863 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
55918928 TGCGAGTTGA
65 TGCGAATTGA
55918938 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:55918949 original size:82 final size:81
Alignment explanation
Indices: 55918778--55918958 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
55918768 GATTAAATTG
* *
55918778 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
55918843 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
55918859 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
55918923 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
55918941 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
55918959 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:55921064 original size:49 final size:47
Alignment explanation
Indices: 55920981--55921080 Score: 119
Period size: 49 Copynumber: 2.1 Consensus size: 47
55920971 GTGTGTCAGC
* * *
55920981 GTAAGACCTGTCTAGGACACGGTATCGGCACAGATAAGTGAGAGCCAGT
1 GTAAGACCTGTCTAGGACAAGGCATCGACACAGAT--GTGAGAGCCAGT
* ** *
55921030 GTAAGACCTGTCTGGGACAAGGCATCGATTCAGATGTGAGAGCTAGT
1 GTAAGACCTGTCTAGGACAAGGCATCGACACAGATGTGAGAGCCAGT
55921077 GTAA
1 GTAA
55921081 TATGTTTGGA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
47 15 0.34
49 29 0.66
ACGTcount: A:0.30, C:0.18, G:0.31, T:0.21
Consensus pattern (47 bp):
GTAAGACCTGTCTAGGACAAGGCATCGACACAGATGTGAGAGCCAGT
Found at i:55928570 original size:49 final size:49
Alignment explanation
Indices: 55928511--55928627 Score: 148
Period size: 49 Copynumber: 2.4 Consensus size: 49
55928501 AAGTGAGAGC
*
55928511 CAGTGAAAGACCTGTCTGGAACATGGCATCGGCCTC-AAGATATGCAAG-
1 CAGTGTAAGACCTGTCTGGAACATGGCATCGGCCTCGAAG-TATGCAAGT
* * * * *
55928559 CTAGTGTAAGACCTATCCGGGACATGGCATCGGCCTCGATGTATGTAAGT
1 C-AGTGTAAGACCTGTCTGGAACATGGCATCGGCCTCGAAGTATGCAAGT
55928609 CAGTGTAAGACCTGTCTGG
1 CAGTGTAAGACCTGTCTGG
55928628 GGATCGACTT
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
48 1 0.02
49 54 0.93
50 3 0.05
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.23
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGAACATGGCATCGGCCTCGAAGTATGCAAGT
Found at i:55930660 original size:26 final size:26
Alignment explanation
Indices: 55930631--55930743 Score: 76
Period size: 26 Copynumber: 4.5 Consensus size: 26
55930621 CTTATGAGTG
55930631 TCCCGATATATGGCTCTTCGTGAGCT
1 TCCCGATATATGGCTCTTCGTGAGCT
* *
55930657 TCCC-AT-TGATTTGCTCTTTGTGAGCT
1 TCCCGATAT-A-TGGCTCTTCGTGAGCT
** * *
55930683 TCTTGAT-TAATAGCTCTCCG-GAGCT
1 TCCCGATAT-ATGGCTCTTCGTGAGCT
* * *
55930708 TCCCGATAT-TGGCTC-ACTTGAACT
1 TCCCGATATATGGCTCTTCGTGAGCT
55930732 TCCCGATATATG
1 TCCCGATATATG
55930744 ACTATCTAGA
Statistics
Matches: 67, Mismatches: 14, Indels: 13
0.71 0.15 0.14
Matches are distributed among these distances:
23 1 0.01
24 19 0.28
25 15 0.22
26 28 0.42
27 4 0.06
ACGTcount: A:0.18, C:0.26, G:0.19, T:0.37
Consensus pattern (26 bp):
TCCCGATATATGGCTCTTCGTGAGCT
Found at i:55931298 original size:42 final size:42
Alignment explanation
Indices: 55931219--55931298 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
55931209 TGCAGGTTTC
* *
55931219 ACACGACCAAGACACACGCCCGTGTTTTAGGCCGTGTGGCAT
1 ACACGACCAAGACACACGCCCGTGTCTCAGGCCGTGTGGCAT
* * *
55931261 ACACGACTAAGATATACGCCCGTGTCTCA-GCCTGTGTG
1 ACACGACCAAGACACACGCCCGTGTCTCAGGCC-GTGTG
55931299 CTTAATTCTG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
41 3 0.09
42 29 0.91
ACGTcount: A:0.24, C:0.30, G:0.25, T:0.21
Consensus pattern (42 bp):
ACACGACCAAGACACACGCCCGTGTCTCAGGCCGTGTGGCAT
Found at i:55938297 original size:39 final size:39
Alignment explanation
Indices: 55938254--55938430 Score: 198
Period size: 40 Copynumber: 4.5 Consensus size: 39
55938244 AAACCAAGTA
* *
55938254 CCTTCGGAGTTTAG-CCGGATATAGCT-ACTAGCTCAAATG
1 CCTTCGG-GCTTAGCCCGGATATAG-TAACTAGCACAAATG
* *
55938293 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATAGTAACTAGCACAAATG
* * * *
55938333 CCTTCAGGACTTAGCCCGGTTATAATAACTCGCACAAATG
1 CCTTC-GGGCTTAGCCCGGATATAGTAACTAGCACAAATG
*
55938373 CCTTCGGGCTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGCTTAGCCCGGATA-TAGTAACTAGCACAAATG
55938412 CCTTCGGGACTTAGCCCGG
1 CCTTCGGG-CTTAGCCCGG
55938431 GTATCAATCC
Statistics
Matches: 121, Mismatches: 11, Indels: 11
0.85 0.08 0.08
Matches are distributed among these distances:
38 2 0.02
39 47 0.39
40 70 0.58
41 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:55938331 original size:40 final size:40
Alignment explanation
Indices: 55938287--55938430 Score: 220
Period size: 40 Copynumber: 3.6 Consensus size: 40
55938277 GCTACTAGCT
55938287 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
55938327 CAAATGCCTTCAGGACTTAGCCCGGTTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
55938367 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
55938406 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
55938431 GTATCAATCC
Statistics
Matches: 95, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
38 1 0.01
39 33 0.35
40 61 0.64
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:55939514 original size:18 final size:18
Alignment explanation
Indices: 55939491--55939534 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
55939481 CCGAAACTTT
55939491 TAACTTGGGTTGCTTAAA
1 TAACTTGGGTTGCTTAAA
55939509 TAACTTGGGTTGCTTAAA
1 TAACTTGGGTTGCTTAAA
*
55939527 GAACTTGG
1 TAACTTGG
55939535 TGATGAGTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.27, C:0.11, G:0.25, T:0.36
Consensus pattern (18 bp):
TAACTTGGGTTGCTTAAA
Found at i:55960890 original size:13 final size:13
Alignment explanation
Indices: 55960872--55960896 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55960862 TATTTAAAAA
55960872 TTATTTTCTGTGT
1 TTATTTTCTGTGT
55960885 TTATTTTCTGTG
1 TTATTTTCTGTG
55960897 AAATTATATC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.08, G:0.16, T:0.68
Consensus pattern (13 bp):
TTATTTTCTGTGT
Found at i:55967846 original size:43 final size:43
Alignment explanation
Indices: 55967785--55967973 Score: 310
Period size: 43 Copynumber: 4.4 Consensus size: 43
55967775 ACATATCATT
* *
55967785 TCACCGGCATTACGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
*
55967828 TCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
55967871 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
*
55967914 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATATA-A
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* *
55967956 T-ACCAGCACTAGGCCTGC
1 TCACCGGCACTAAGCCTGC
55967974 GGATTTTCCG
Statistics
Matches: 139, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
41 15 0.11
42 2 0.01
43 122 0.88
ACGTcount: A:0.29, C:0.34, G:0.24, T:0.13
Consensus pattern (43 bp):
TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
Found at i:55971709 original size:30 final size:30
Alignment explanation
Indices: 55971673--55971731 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
55971663 TTTTGCTCTG
*
55971673 CCCGTGCTGATGGCTATTCCCGATAGGTCT
1 CCCGTGCTGATGCCTATTCCCGATAGGTCT
55971703 CCCGTGCTGATGCCTATTCCCGATAGGTC
1 CCCGTGCTGATGCCTATTCCCGATAGGTC
55971732 ATACACTAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.14, C:0.32, G:0.25, T:0.29
Consensus pattern (30 bp):
CCCGTGCTGATGCCTATTCCCGATAGGTCT
Found at i:55973405 original size:43 final size:43
Alignment explanation
Indices: 55973344--55973511 Score: 282
Period size: 43 Copynumber: 3.9 Consensus size: 43
55973334 ACATATCATT
* *
55973344 TCACCGGCATTACGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* *
55973387 TCACCGGCACGAAGCCTGCTAGGCATGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
*
55973430 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCTGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
*
55973473 TCACCGGCACTAAGCCTACTAGGCACGAAGGCCCGAATA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATA
55973512 TAATACCAGC
Statistics
Matches: 116, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 116 1.00
ACGTcount: A:0.30, C:0.33, G:0.24, T:0.13
Consensus pattern (43 bp):
TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
Found at i:55973560 original size:38 final size:38
Alignment explanation
Indices: 55973504--55973587 Score: 132
Period size: 38 Copynumber: 2.2 Consensus size: 38
55973494 GGCACGAAGG
* *
55973504 CCCGAATATAATACCAGCACCAGGCCTGCGGGATTTAT
1 CCCGAATATAATACCAGCACCAAGCCTGCGGGATTTAA
* *
55973542 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGAATATAATACCAGCACCAAGCCTGCGGGATTTAA
55973580 CCCGAATA
1 CCCGAATA
55973588 CACATCAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.19
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACCAAGCCTGCGGGATTTAA
Found at i:55978777 original size:23 final size:22
Alignment explanation
Indices: 55978735--55978777 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
55978725 TATCCCCACA
* *
55978735 TGGAGTGTAGGGTTGGATGGAG
1 TGGAGTGCAGGGATGGATGGAG
55978757 TGGAGTGCAGAGGATGGATGG
1 TGGAGTGCAG-GGATGGATGG
55978778 GTAGGATCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.21, C:0.02, G:0.53, T:0.23
Consensus pattern (22 bp):
TGGAGTGCAGGGATGGATGGAG
Found at i:55979530 original size:13 final size:13
Alignment explanation
Indices: 55979512--55979537 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
55979502 TCCCTAAGGG
55979512 GGGAGAGTTGTAA
1 GGGAGAGTTGTAA
55979525 GGGAGAGTTGTAA
1 GGGAGAGTTGTAA
55979538 CGGCTCAGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.46, T:0.23
Consensus pattern (13 bp):
GGGAGAGTTGTAA
Found at i:56001686 original size:16 final size:16
Alignment explanation
Indices: 56001665--56001695 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
56001655 TATATTTTTC
*
56001665 ATTTACATCATATATG
1 ATTTACAACATATATG
56001681 ATTTACAACATATAT
1 ATTTACAACATATAT
56001696 CAATTAACTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.13, G:0.03, T:0.42
Consensus pattern (16 bp):
ATTTACAACATATATG
Found at i:56003965 original size:72 final size:72
Alignment explanation
Indices: 56003813--56003998 Score: 225
Period size: 72 Copynumber: 2.6 Consensus size: 72
56003803 TGCCCGCATT
* * * * *
56003813 TGAGCTACTCACAGGTCTGTACACAAAGTCAGCACC-CGACCCCAAAGCATTATCATGTAATGTC
1 TGAGCTACTCACGGGTTTATACACAAAGTCAGCACCTAGACCCCAAAGCATTAGCATGTAATGTC
*
56003877 CACTCAT
66 CACTCAG
* * *
56003884 TAAGCTACTCACGGGTTTATACACAAAGTCAGGACCTAGACCCTAAAGCATTAGCATG-ATATG-
1 TGAGCTACTCACGGGTTTATACACAAAGTCAGCACCTAGACCCCAAAGCATTAGCATGTA-ATGT
56003947 CTCACTCAG
65 C-CACTCAG
* * *
56003956 TGAGTTACTCACGAGTTTATACACAAAGTCAGTACCTAGACCC
1 TGAGCTACTCACGGGTTTATACACAAAGTCAGCACCTAGACCC
56003999 AAATTACATA
Statistics
Matches: 99, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
71 33 0.33
72 66 0.67
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (72 bp):
TGAGCTACTCACGGGTTTATACACAAAGTCAGCACCTAGACCCCAAAGCATTAGCATGTAATGTC
CACTCAG
Found at i:56006667 original size:14 final size:15
Alignment explanation
Indices: 56006650--56006678 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
56006640 TCATGAAAAT
56006650 TTCACACAT-ATAAA
1 TTCACACATAATAAA
56006664 TTCACACATAATAAA
1 TTCACACATAATAAA
56006679 CATAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:56022118 original size:14 final size:14
Alignment explanation
Indices: 56022085--56022124 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
56022075 ATGTTTAAAA
56022085 ACTTTTA-TTTATT
1 ACTTTTATTTTATT
*
56022098 A-TTTTATTTTTTT
1 ACTTTTATTTTATT
56022111 ACTTTTATTTTATT
1 ACTTTTATTTTATT
56022125 TTAAGACTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 5 0.22
13 7 0.30
14 11 0.48
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (14 bp):
ACTTTTATTTTATT
Found at i:56027123 original size:13 final size:13
Alignment explanation
Indices: 56027105--56027132 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
56027095 TATTCTTTAT
56027105 AGTCACCTTATTA
1 AGTCACCTTATTA
56027118 AGTCACCTTATTA
1 AGTCACCTTATTA
56027131 AG
1 AG
56027133 CTGTCTATAA
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:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (13 bp):
AGTCACCTTATTA
Found at i:56033351 original size:28 final size:27
Alignment explanation
Indices: 56033259--56033363 Score: 108
Period size: 27 Copynumber: 3.9 Consensus size: 27
56033249 AGGAAGCGTC
56033259 CTGGTGGCTAC-GCCACAATTATCTG-AT
1 CTGGTGGCT-CTGCCAC-ATTATCTGTAT
* * *
56033286 CTTGTGGGTCTACCACATATATCTGT-T
1 CTGGTGGCTCTGCCACAT-TATCTGTAT
56033313 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTAT
* *
56033341 CTGGTGACTCTGTCACATTATCT
1 CTGGTGGCTCTGCCACATTATCT
56033364 ATTTTGGCAG
Statistics
Matches: 65, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
26 3 0.05
27 45 0.69
28 17 0.26
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTATCTGTAT
Found at i:56036511 original size:28 final size:28
Alignment explanation
Indices: 56036475--56036534 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
56036465 CTCCCTGAAT
* *
56036475 CCTCCTCCAAATTCCTCGTGTAAAAATC
1 CCTCCTCCAAAATCCTCATGTAAAAATC
*
56036503 CCTCTTCCAAAATCCTCATGTAAAAATC
1 CCTCCTCCAAAATCCTCATGTAAAAATC
56036531 CCTC
1 CCTC
56036535 ACCTCTCTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.30, C:0.37, G:0.05, T:0.28
Consensus pattern (28 bp):
CCTCCTCCAAAATCCTCATGTAAAAATC
Found at i:56052519 original size:47 final size:48
Alignment explanation
Indices: 56052445--56052819 Score: 266
Period size: 47 Copynumber: 7.9 Consensus size: 48
56052435 CAGCCACATC
* *
56052445 ATGAGAGCCAGTGTAAGACCATATCTGGGACATGGCATCGGCATTGAG
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAG
* *
56052493 ACGAGAGCTAGTGTAAGA-CATGTCTGGGACAT-GTATCGAGC-TTGAG
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCG-GCATTGAG
* *
56052539 ATGTA-AGCTAGTGTAAGA-CATGTCTGGGACAT-GCATTGGC-TACGAG
1 ATG-AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-TGAG
* * * * * *
56052585 ATGTG-TC-AGTGTAAGACCAAGTTTGGGACATGGCATCGGCA--CAT
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAG
* * *
56052629 AT-AGAGGCGTCAATGTAAGACCATGTCT-GGACATGGCATCGGCA-CGAAT
1 ATGAGA-GC-T-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTG-AG
* * * * * * *
56052678 ATGTGAGAGCTAATGTAAGACCATGTCTGGGGCATGGCGTCGACCTCGATT
1 A--TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA-G
* * * *
56052729 CTAATAG-TCAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TT--G
1 ATGAGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAG
56052774 ATGGATGAGCTAGTGTAAGACCATGTCTGGGACATGGCAT-GGCATT
1 AT-GA-GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT
56052820 ACACCCTATA
Statistics
Matches: 265, Mismatches: 37, Indels: 51
0.75 0.10 0.14
Matches are distributed among these distances:
43 1 0.00
44 12 0.05
45 18 0.07
46 59 0.22
47 65 0.25
48 33 0.12
49 54 0.20
50 14 0.05
51 6 0.02
52 3 0.01
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.24
Consensus pattern (48 bp):
ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAG
Found at i:56057035 original size:22 final size:22
Alignment explanation
Indices: 56056985--56057027 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
56056975 GCTACTTCGG
*
56056985 TGACAAGGCTGTTACAAATGGA
1 TGACAAGGCTGTTACAAAAGGA
*
56057007 TGACAAGGTTGTTACAAAAGG
1 TGACAAGGCTGTTACAAAAGG
56057028 TTGTCAAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.37, C:0.12, G:0.28, T:0.23
Consensus pattern (22 bp):
TGACAAGGCTGTTACAAAAGGA
Found at i:56060214 original size:47 final size:46
Alignment explanation
Indices: 56060143--56060269 Score: 154
Period size: 47 Copynumber: 2.7 Consensus size: 46
56060133 TCATTTGTGT
56060143 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATT---ATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGG---CATTGAGATGAGA
* *
56060189 GAC-AGTGTAAGACCATGTCTGGGACATGGCATCAGTATTGAGATGAGA
1 G-CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATTGAGATGAGA
56060237 GCTAGTGTAAGACATGTCTGGGACATGCATCGG
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGG
56060270 GTGTAACACC
Statistics
Matches: 71, Mismatches: 3, Indels: 14
0.81 0.03 0.16
Matches are distributed among these distances:
45 3 0.04
46 16 0.23
47 30 0.42
48 22 0.31
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGATGAGA
Found at i:56075386 original size:27 final size:27
Alignment explanation
Indices: 56075310--56075398 Score: 110
Period size: 27 Copynumber: 3.3 Consensus size: 27
56075300 CAAAACAATC
* * *
56075310 ATTTTAC-CGTACAGGGGTATGTCAGTC
1 ATTTTACAC-TACAAGGGTATTTCAGTA
*
56075337 ATTTTACACTACAAGGGTGTTTCAGTA
1 ATTTTACACTACAAGGGTATTTCAGTA
56075364 ATTTTACACTACAAGGGTATTTC-GATA
1 ATTTTACACTACAAGGGTATTTCAG-TA
56075391 ATTTTACA
1 ATTTTACA
56075399 AATCGGGGGT
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
26 1 0.02
27 53 0.96
28 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCAGTA
Found at i:56075408 original size:27 final size:27
Alignment explanation
Indices: 56075377--56075767 Score: 397
Period size: 27 Copynumber: 14.7 Consensus size: 27
56075367 TTACACTACA
56075377 AGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * * *
56075404 GGGGTGTTTTGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
56075431 AGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * * *
56075458 AGGGTATTTTGCTAATTTCACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
*
56075485 GGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * * *
56075512 AGGGCATTTTGATAATTTCAC-AATTG
1 AGGGTATTTCGATAATTTTACAAATCG
* * * *
56075538 ATGGTATTTCGGTAATTTTAAAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
56075565 AGGGTATTTC-AGTAATTTCAC-AATCA
1 AGGGTATTTCGA-TAATTTTACAAATCG
56075591 AGGGTATTTCGATAATTTTAC-AATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * * *
56075617 AGGTTATTTTGGTAATTTTACAAATCA
1 AGGGTATTTCGATAATTTTACAAATCG
*
56075644 AGGGTATTTC-AGTAATTTCAC-AATCG
1 AGGGTATTTCGA-TAATTTTACAAATCG
* * *
56075670 AGTGTATTTTGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
56075697 AGGGTATTTC-AGTAATTTCAC-AATCG
1 AGGGTATTTCGA-TAATTTTACAAATCG
*
56075723 AGGGTAATTT-GATAATTTTACAAATTG
1 AGGGT-ATTTCGATAATTTTACAAATCG
56075750 AGGGTATTTC-AGTAATTT
1 AGGGTATTTCGA-TAATTT
56075768 CTCTTTATTA
Statistics
Matches: 297, Mismatches: 54, Indels: 26
0.79 0.14 0.07
Matches are distributed among these distances:
26 105 0.35
27 192 0.65
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACAAATCG
Found at i:56075768 original size:53 final size:52
Alignment explanation
Indices: 56075377--56075767 Score: 419
Period size: 53 Copynumber: 7.3 Consensus size: 52
56075367 TTACACTACA
* * *
56075377 AGGGTATTTCGATAATTTTACAAATCGGGGGTGTTTTGGTAATTTTACAAATCG
1 AGGGTATTTCG-TAATTTTAC-AATCGAGGGTATTTTGATAATTTTACAAATCG
* * *
56075431 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTGCTAATTTCACAAATTG
1 AGGGTATTTC-GTAATTTTAC-AATCGAGGGTATTTTGATAATTTTACAAATCG
* * * *
56075485 GGGGTATTTCGATAATTTTACAAATCGAGGGCATTTTGATAATTTCAC-AATTG
1 AGGGTATTTCG-TAATTTTAC-AATCGAGGGTATTTTGATAATTTTACAAATCG
* * * * * *
56075538 ATGGTATTTCGGTAATTTTAAAAATTGAGGGTA-TTTCAGTAATTTCAC-AATCA
1 AGGGTATTTC-GTAATTTT-ACAATCGAGGGTATTTTGA-TAATTTTACAAATCG
* * *
56075591 AGGGTATTTCGATAATTTTACAATCGAGGTTATTTTGGTAATTTTACAAATCA
1 AGGGTATTTCG-TAATTTTACAATCGAGGGTATTTTGATAATTTTACAAATCG
* * *
56075644 AGGGTATTTCAGTAATTTCACAATCGAGTGTATTTTGGTAATTTTACAAATCG
1 AGGGTATTTC-GTAATTTTACAATCGAGGGTATTTTGATAATTTTACAAATCG
* * *
56075697 AGGGTATTTCAGTAATTTCACAATCGAGGGTAATTTGATAATTTTACAAATTG
1 AGGGTATTTC-GTAATTTTACAATCGAGGGTATTTTGATAATTTTACAAATCG
56075750 AGGGTATTTCAGTAATTT
1 AGGGTATTTC-GTAATTT
56075768 CTCTTTATTA
Statistics
Matches: 297, Mismatches: 31, Indels: 19
0.86 0.09 0.05
Matches are distributed among these distances:
52 23 0.08
53 180 0.61
54 93 0.31
55 1 0.00
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (52 bp):
AGGGTATTTCGTAATTTTACAATCGAGGGTATTTTGATAATTTTACAAATCG
Found at i:56080081 original size:18 final size:19
Alignment explanation
Indices: 56080058--56080095 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
56080048 TATGGATATG
*
56080058 TTCAAAAATTATT-GATGA
1 TTCAAAAATGATTCGATGA
56080076 TTCAAAAATGATTCGATGA
1 TTCAAAAATGATTCGATGA
56080095 T
1 T
56080096 GATTCAGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.42, C:0.08, G:0.13, T:0.37
Consensus pattern (19 bp):
TTCAAAAATGATTCGATGA
Found at i:56083068 original size:20 final size:20
Alignment explanation
Indices: 56083045--56083229 Score: 72
Period size: 20 Copynumber: 9.2 Consensus size: 20
56083035 TTGTGCAATT
56083045 AGGGGTACCAAAGTACAAAC
1 AGGGGTACCAAAGTACAAAC
* * * *
56083065 AGGGGCA-TATATGTACAATC
1 AGGGGTACCA-AAGTACAAAC
*
56083085 AGGGGTACCGAAGTACAAAC
1 AGGGGTACCAAAGTACAAAC
* ** * *
56083105 AGGGGCACTTATGTACAATC
1 AGGGGTACCAAAGTACAAAC
* *
56083125 -GGGGTTATCAAAGTACAAAT
1 AGGGG-TACCAAAGTACAAAC
* ** * * **
56083145 AGGGGCACGTATGTGCAATT
1 AGGGGTACCAAAGTACAAAC
* *
56083165 ATGGGTATCGAAA-TACAAAC
1 AGGGGTA-CCAAAGTACAAAC
* * * *
56083185 AGGGGCA-CATATGTGCAATC
1 AGGGGTACCA-AAGTACAAAC
*
56083205 AGGGGTACCAAAGTACAAAT
1 AGGGGTACCAAAGTACAAAC
56083225 AGGGG
1 AGGGG
56083230 CACGTATGTG
Statistics
Matches: 111, Mismatches: 46, Indels: 16
0.64 0.27 0.09
Matches are distributed among these distances:
18 1 0.01
19 6 0.05
20 95 0.86
21 9 0.08
ACGTcount: A:0.37, C:0.16, G:0.28, T:0.19
Consensus pattern (20 bp):
AGGGGTACCAAAGTACAAAC
Found at i:56083138 original size:80 final size:78
Alignment explanation
Indices: 56082973--56083245 Score: 350
Period size: 80 Copynumber: 3.4 Consensus size: 78
56082963 TTCAGGGTTG
* * * *
56082973 CCAAAGTATAAATAGGGGCTCGTATGTGCAATCAAGGTACTGAAGTACAAACAGGGGCACATT-T
1 CCAAAGTACAAATAGGGGCACGTATGTGCAATCAGGGTACCGAAGTACAAACAGGGGCAC-TTAT
*
56083037 GTGCAATTAGGGGTA
65 GTGCAA-TCGGGGTA
* ** *
56083052 CCAAAGTACAAACAGGGGCATATATGTACAATCAGGGGTACCGAAGTACAAACAGGGGCACTTAT
1 CCAAAGTACAAATAGGGGCACGTATGTGCAATCA-GGGTACCGAAGTACAAACAGGGGCACTTAT
*
56083117 GTACAATCGGGGTTA
65 GTGCAATCGGGG-TA
* * * * *
56083132 TCAAAGTACAAATAGGGGCACGTATGTGCAATTATGGGTATCGAAATACAAACAGGGGCACATAT
1 CCAAAGTACAAATAGGGGCACGTATGTGCAATCA-GGGTACCGAAGTACAAACAGGGGCACTTAT
56083197 GTGCAATCAGGGGTA
65 GTGCAATC-GGGGTA
56083212 CCAAAGTACAAATAGGGGCACGTATGTGCAATCA
1 CCAAAGTACAAATAGGGGCACGTATGTGCAATCA
56083246 TACAATAATT
Statistics
Matches: 167, Mismatches: 23, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
79 35 0.21
80 128 0.77
81 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.27, T:0.21
Consensus pattern (78 bp):
CCAAAGTACAAATAGGGGCACGTATGTGCAATCAGGGTACCGAAGTACAAACAGGGGCACTTATG
TGCAATCGGGGTA
Found at i:56083182 original size:120 final size:120
Alignment explanation
Indices: 56083015--56083244 Score: 345
Period size: 120 Copynumber: 1.9 Consensus size: 120
56083005 CAAGGTACTG
* *
56083015 AAGTACAAACAGGGGCACATTTGTGCAATTAGGGGTACCAAAGTACAAACAGGGGCATATATGTA
1 AAGTACAAACAGGGGCACATATGTGCAATTAGGGGTACCAAAGTACAAACAGGGGCACATATGTA
* *
56083080 CAATCAGGGGTACCGAAGTACAAACAGGGGCACTTATGTACAATCGGGGTTATCA
66 CAATCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTACAATCGGGGTTATCA
* * * *
56083135 AAGTACAAATAGGGGCACGTATGTGCAATTATGGGTATCGAAA-TACAAACAGGGGCACATATGT
1 AAGTACAAACAGGGGCACATATGTGCAATTAGGGGTA-CCAAAGTACAAACAGGGGCACATATGT
* * *
56083199 GCAATCAGGGGTACCAAAGTACAAATAGGGGCACGTATGTGCAATC
65 ACAATCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTACAATC
56083245 ATACAATAAT
Statistics
Matches: 98, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
120 94 0.96
121 4 0.04
ACGTcount: A:0.36, C:0.17, G:0.27, T:0.20
Consensus pattern (120 bp):
AAGTACAAACAGGGGCACATATGTGCAATTAGGGGTACCAAAGTACAAACAGGGGCACATATGTA
CAATCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTACAATCGGGGTTATCA
Found at i:56083244 original size:40 final size:40
Alignment explanation
Indices: 56082964--56083245 Score: 309
Period size: 40 Copynumber: 7.1 Consensus size: 40
56082954 ACTATTTGAT
* * * * * *
56082964 TCAGGGTTGCCAAAGTATAAATAGGGGCTCGTATGTGCAA
1 TCAGGGGTACCAAAGTACAAACAGGGGCACATATGTGCAA
* ** *
56083004 TCA-AGGTACTGAAGTACAAACAGGGGCACATTTGTGCAA
1 TCAGGGGTACCAAAGTACAAACAGGGGCACATATGTGCAA
* * *
56083043 TTAGGGGTACCAAAGTACAAACAGGGGCATATATGTACAA
1 TCAGGGGTACCAAAGTACAAACAGGGGCACATATGTGCAA
* * *
56083083 TCAGGGGTACCGAAGTACAAACAGGGGCACTTATGTACAA
1 TCAGGGGTACCAAAGTACAAACAGGGGCACATATGTGCAA
* * *
56083123 TC-GGGGTTATCAAAGTACAAATAGGGGCACGTATGTGCAA
1 TCAGGGG-TACCAAAGTACAAACAGGGGCACATATGTGCAA
* * *
56083163 TTATGGGTATCGAAA-TACAAACAGGGGCACATATGTGCAA
1 TCAGGGGTA-CCAAAGTACAAACAGGGGCACATATGTGCAA
* *
56083203 TCAGGGGTACCAAAGTACAAATAGGGGCACGTATGTGCAA
1 TCAGGGGTACCAAAGTACAAACAGGGGCACATATGTGCAA
56083243 TCA
1 TCA
56083246 TACAATAATT
Statistics
Matches: 200, Mismatches: 37, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
39 36 0.18
40 158 0.79
41 6 0.03
ACGTcount: A:0.35, C:0.17, G:0.27, T:0.21
Consensus pattern (40 bp):
TCAGGGGTACCAAAGTACAAACAGGGGCACATATGTGCAA
Found at i:56084755 original size:54 final size:54
Alignment explanation
Indices: 56084673--56084780 Score: 180
Period size: 54 Copynumber: 2.0 Consensus size: 54
56084663 TGAATTTTCT
* *
56084673 CAAGTTTAGGAGGTAAAGCTAATCTGTAAGCTACAAGACTGATTCTTTTAGTAA
1 CAAGTTTAGGAGGTAAAGCTAATCTGTAAGCTACAAAACTAATTCTTTTAGTAA
* *
56084727 CAAGTTTAGGAGGTAAAGTTAATTTGTAAGCTACAAAACTAATTCTTTTAGTAA
1 CAAGTTTAGGAGGTAAAGCTAATCTGTAAGCTACAAAACTAATTCTTTTAGTAA
56084781 TCTCGTACGA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (54 bp):
CAAGTTTAGGAGGTAAAGCTAATCTGTAAGCTACAAAACTAATTCTTTTAGTAA
Found at i:56089213 original size:40 final size:40
Alignment explanation
Indices: 56089158--56089349 Score: 305
Period size: 40 Copynumber: 4.8 Consensus size: 40
56089148 CGGATGATAA
*
56089158 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
* *
56089198 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACCAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
56089238 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
* *
56089278 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCA-AAT
* *
56089318 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
56089350 AGCTATATCC
Statistics
Matches: 141, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 139 0.99
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
Found at i:56099463 original size:42 final size:42
Alignment explanation
Indices: 56099277--56099478 Score: 181
Period size: 42 Copynumber: 4.6 Consensus size: 42
56099267 TAAGATGCCA
*
56099277 ATGCCATATCCCAGATATGGTCTTACATGGGATCACATATCT
1 ATGCCATATCCCAGATATGGTCTTACATGGGATCACATATCG
* * * * *
56099319 ATGCCAATAGCCTAGCTATGGTCTTACATGATG-TCGCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACATG-GGATCACATATCG
* * * ** * *
56099362 ATGCCATGTCCCAGACAAGGTCTTACATGAAATAACATATTGATGCCA
1 ATGCCATATCCCAGATATGGTCTTACATGGGAT--CACA-T-AT--CG
*
56099410 ATGCCATATCCCAGATATGGTCTTACATGGGATCATATATCG
1 ATGCCATATCCCAGATATGGTCTTACATGGGATCACATATCG
* *
56099452 AGGCCGTATCCCAGATATGGTCTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
56099479 CGAAACCACA
Statistics
Matches: 126, Mismatches: 25, Indels: 18
0.75 0.15 0.11
Matches are distributed among these distances:
42 50 0.40
43 34 0.27
44 5 0.04
45 2 0.02
46 6 0.05
48 29 0.23
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGGGATCACATATCG
Found at i:56101887 original size:27 final size:26
Alignment explanation
Indices: 56101825--56101935 Score: 141
Period size: 27 Copynumber: 4.2 Consensus size: 26
56101815 AGCAAGGCTG
* *
56101825 CCAGAACAGATAATGTGACAAAGTCA
1 CCAGAACAGATAATGTGGCAAAGCCA
*
56101851 CCAGAACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAAT-GTGGCAAAGCCA
56101878 CCAGAACAGATATATGTGGCAAAGCCA
1 CCAGAACAGATA-ATGTGGCAAAGCCA
* * *
56101905 CTAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAAAGCCA
56101932 CCAG
1 CCAG
56101936 GATGCTTCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
26 15 0.20
27 57 0.77
28 2 0.03
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAAAGCCA
Found at i:56101915 original size:54 final size:53
Alignment explanation
Indices: 56101825--56101935 Score: 159
Period size: 54 Copynumber: 2.1 Consensus size: 53
56101815 AGCAAGGCTG
*
56101825 CCAGAACAGATAATGTGACAAAGTCACCAGAACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAAAGCCACCAGAACAGATAATCGTGGCAGAGCCA
* * * * *
56101878 CCAGAACAGATATATGTGGCAAAGCCACTAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAAAGCCACCAGAACAGATAATCGTGGCAGAGCCA
56101932 CCAG
1 CCAG
56101936 GATGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
53 12 0.24
54 39 0.76
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.16
Consensus pattern (53 bp):
CCAGAACAGATAATGTGACAAAGCCACCAGAACAGATAATCGTGGCAGAGCCA
Found at i:56103396 original size:24 final size:24
Alignment explanation
Indices: 56103345--56103415 Score: 99
Period size: 24 Copynumber: 3.0 Consensus size: 24
56103335 CCAACACTAT
* **
56103345 CCTCCCTAATCAGCT-CTAAATTG
1 CCTCCCTTATCAGCTCCTAAATCC
*
56103368 TCTCCCTTATCAGCTCCTAAATCC
1 CCTCCCTTATCAGCTCCTAAATCC
56103392 CCTCCCTTATCAGCTCCTAAATCC
1 CCTCCCTTATCAGCTCCTAAATCC
56103416 TTTCCTGACA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
23 13 0.31
24 29 0.69
ACGTcount: A:0.23, C:0.41, G:0.06, T:0.31
Consensus pattern (24 bp):
CCTCCCTTATCAGCTCCTAAATCC
Done.