Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 139 of 189
Found at i:42293268 original size:7 final size:7
Alignment explanation
Indices: 42293256--42293280 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
42293246 AGTCGATTGA
42293256 TATTTAG
1 TATTTAG
42293263 TATTTAG
1 TATTTAG
42293270 TATTTAG
1 TATTTAG
42293277 TATT
1 TATT
42293281 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:42293957 original size:18 final size:18
Alignment explanation
Indices: 42293931--42293965 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
42293921 AGGTGTGTTT
* *
42293931 CCTAGCCCTTATATGTAC
1 CCTAACCCTTACATGTAC
42293949 CCTAACCCTTACATGTA
1 CCTAACCCTTACATGTA
42293966 TCCTTTTTCG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.34, G:0.09, T:0.31
Consensus pattern (18 bp):
CCTAACCCTTACATGTAC
Found at i:42294386 original size:25 final size:25
Alignment explanation
Indices: 42294358--42294426 Score: 102
Period size: 25 Copynumber: 2.7 Consensus size: 25
42294348 TTTAAATTTA
*
42294358 TTATCTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
* *
42294383 TTATTTAATATAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
42294408 TCTATTTGATGTAATAAAA
1 T-TATTTGATGTAATAAAA
42294427 ACCCTAATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
25 23 0.61
26 15 0.39
ACGTcount: A:0.46, C:0.03, G:0.12, T:0.39
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:42294477 original size:47 final size:47
Alignment explanation
Indices: 42294422--42294680 Score: 356
Period size: 47 Copynumber: 5.3 Consensus size: 47
42294412 TTTGATGTAA
*
42294422 TAAAAACCCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAAT
1 TAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAAT
*
42294469 TAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAAT
1 TAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAAT
*
42294516 TAAAAACCCTAACTCTAACCTAATTTAATTAAAAACCCTAACCCTAACTTAATTTAAT
1 TAAAAA--C---C-CTAA-C----TTAATTAAAAACCCTAACCCTAACCTAATTTAAT
* *
42294574 TAAAAACCCTAACTTAGTTAAAAGCCCTAACCCTAACCTAATTTAAT
1 TAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAAT
* *
42294621 TAAAAACACTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAAT
1 TAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAAT
42294668 TAAAAACCCTAAC
1 TAAAAACCCTAAC
42294681 CCTAACCTAA
Statistics
Matches: 189, Mismatches: 12, Indels: 22
0.85 0.05 0.10
Matches are distributed among these distances:
47 137 0.72
49 1 0.01
51 1 0.01
52 5 0.03
53 5 0.03
54 1 0.01
56 1 0.01
58 38 0.20
ACGTcount: A:0.46, C:0.25, G:0.01, T:0.27
Consensus pattern (47 bp):
TAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAAT
Found at i:42294485 original size:18 final size:18
Alignment explanation
Indices: 42294458--42294499 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
42294448 CTAACCCTAA
*
42294458 CCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
42294476 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
42294494 CCTAAC
1 CCTAAC
42294500 CCTAACCTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.29
Consensus pattern (18 bp):
CCTAACTTAATTAAAAAC
Found at i:42294508 original size:29 final size:29
Alignment explanation
Indices: 42294476--42294719 Score: 246
Period size: 29 Copynumber: 8.2 Consensus size: 29
42294466 AATTAAAAAC
42294476 CCTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
*
42294505 CCTAACTTAATTAAAAACCCTAACTCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
*
42294534 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
* * **
42294563 CTTAATTTAATTAAAAACCCTAACTTAGTTAAAA
1 CCTAACTTAATTAAAAACCCTAAC---CCT--AA
* * * * *
42294597 GCCCTAACCCTAACCTAATTTAA--TTAA---AAA
1 --CCTAA-CTTAA-TTAA--AAACCCTAACCCTAA
42294627 CACTAACTTAATTAAAAACCCTAACCCTAA
1 C-CTAACTTAATTAAAAACCCTAACCCTAA
42294657 CCTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
42294686 CCTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
42294715 CCTAA
1 CCTAA
42294720 TTTTACATAA
Statistics
Matches: 180, Mismatches: 18, Indels: 34
0.78 0.08 0.15
Matches are distributed among these distances:
25 2 0.01
27 6 0.03
28 5 0.03
29 144 0.80
30 5 0.03
32 1 0.01
34 2 0.01
36 4 0.02
37 3 0.02
38 6 0.03
40 2 0.01
ACGTcount: A:0.45, C:0.27, G:0.01, T:0.27
Consensus pattern (29 bp):
CCTAACTTAATTAAAAACCCTAACCCTAA
Found at i:42294515 original size:76 final size:76
Alignment explanation
Indices: 42294429--42294709 Score: 392
Period size: 76 Copynumber: 3.7 Consensus size: 76
42294419 TAATAAAAAC
*
42294429 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAAAAC
42294494 CCTAACCCTAA
66 CCTAACCCTAA
* *
42294505 CCTAACTTAATTAAAAACCCTAACTCTAACCTAATTTAATTAAAAACCCTAACCCTAACTTAATT
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAA-CTTAA-TTAA--
* * *
42294570 TAA--TTAA---AAA
62 AAACCCTAACCCTAA
* * *
42294580 CCCTAACTTAGTTAAAAGCCCTAACCCTAACCTAATTTAATTAAAAACACTAACTTAATTAAAAA
1 -CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAAAA
42294645 CCCTAACCCTAA
65 CCCTAACCCTAA
*
42294657 CCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAAC
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAC
42294710 CCTAACCTAA
Statistics
Matches: 177, Mismatches: 18, Indels: 20
0.82 0.08 0.09
Matches are distributed among these distances:
72 2 0.01
74 7 0.04
75 6 0.03
76 147 0.83
77 6 0.03
78 7 0.04
80 2 0.01
ACGTcount: A:0.46, C:0.26, G:0.01, T:0.27
Consensus pattern (76 bp):
CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAAAAC
CCTAACCCTAA
Found at i:42294637 original size:18 final size:18
Alignment explanation
Indices: 42294611--42294651 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
42294601 TAACCCTAAC
*
42294611 CTAATTTAATTAAAAACA
1 CTAACTTAATTAAAAACA
*
42294629 CTAACTTAATTAAAAACC
1 CTAACTTAATTAAAAACA
42294647 CTAAC
1 CTAAC
42294652 CCTAACCTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.51, C:0.20, G:0.00, T:0.29
Consensus pattern (18 bp):
CTAACTTAATTAAAAACA
Found at i:42294698 original size:152 final size:152
Alignment explanation
Indices: 42294422--42294722 Score: 539
Period size: 152 Copynumber: 2.0 Consensus size: 152
42294412 TTTGATGTAA
* *
42294422 TAAAAACCCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAAT
1 TAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACACTAACTTAAT
* *
42294487 TAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACTCTAACCTAATTTAATTAAAAAC
66 TAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAAC
*
42294552 CCTAACCCTAACTTAATTTAAT
131 CCTAACCCTAACCTAATTTAAT
* *
42294574 TAAAAACCCTAACTTAGTTAAAAGCCCTAACCCTAACCTAATTTAATTAAAAACACTAACTTAAT
1 TAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACACTAACTTAAT
42294639 TAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAAC
66 TAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAAC
42294704 CCTAACCCTAACCTAATTT
131 CCTAACCCTAACCTAATTT
42294723 TACATAATTT
Statistics
Matches: 142, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
152 142 1.00
ACGTcount: A:0.46, C:0.26, G:0.01, T:0.28
Consensus pattern (152 bp):
TAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACACTAACTTAAT
TAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAAC
CCTAACCCTAACCTAATTTAAT
Found at i:42294783 original size:55 final size:55
Alignment explanation
Indices: 42294717--42294853 Score: 265
Period size: 55 Copynumber: 2.5 Consensus size: 55
42294707 AACCCTAACC
42294717 TAATTTTACATAATTTGATAATTTTACTAACCACTAACACAATTTTTGGACTTAA
1 TAATTTTACATAATTTGATAATTTTACTAACCACTAACACAATTTTTGGACTTAA
*
42294772 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
1 TAATTTTACATAATTTGATAATTTTACTAACCACTAACACAATTTTTGGACTTAA
42294827 TAATTTTACATAATTTGATAATTTTAC
1 TAATTTTACATAATTTGATAATTTTAC
42294854 CTAATTTAAT
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
55 81 1.00
ACGTcount: A:0.38, C:0.12, G:0.05, T:0.45
Consensus pattern (55 bp):
TAATTTTACATAATTTGATAATTTTACTAACCACTAACACAATTTTTGGACTTAA
Found at i:42294849 original size:18 final size:18
Alignment explanation
Indices: 42294826--42294860 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
42294816 TTTGGACTTA
42294826 ATAATTTTACATAATTTG
1 ATAATTTTACATAATTTG
*
42294844 ATAATTTTACCTAATTT
1 ATAATTTTACATAATTT
42294861 AATTAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.09, G:0.03, T:0.51
Consensus pattern (18 bp):
ATAATTTTACATAATTTG
Found at i:42294873 original size:55 final size:54
Alignment explanation
Indices: 42294717--42294963 Score: 257
Period size: 55 Copynumber: 4.3 Consensus size: 54
42294707 AACCCTAACC
*
42294717 TAATTTTACATAATTTGATAATTTTACTAACCACTAACACAATTTTTGGACTTAA
1 TAATTTTACATAATTTGATAATTTTACTAA-CATTAACACAATTTTTGGACTTAA
42294772 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
1 TAATTTTACATAATTTGATAATTTTACTAA-CATTAACACAATTTTTGGACTTAA
* * *
42294827 TAATTTTACATAATTTGATAATTTTACCTAA-TTTAATTA-AATTTTTTTTGGCTTAATAATTTT
1 TAATTTTACATAATTTGATAATTTTA-CTAACATTAA-CACAA---TTTTTGG-------A-CTT
42294890 ACA
53 A-A
* *
42294893 TAATTTTACATAATTTGATAATTTTGCTAACCATTAACA-AAATTTTGAGACTTAA
1 TAATTTTACATAATTTGATAATTTTACTAA-CATTAACACAATTTTTG-GACTTAA
42294948 TAATTTTACATAATTT
1 TAATTTTACATAATTT
42294964 TACATAATGT
Statistics
Matches: 166, Mismatches: 9, Indels: 34
0.79 0.04 0.16
Matches are distributed among these distances:
54 6 0.04
55 98 0.59
56 7 0.04
57 8 0.05
63 5 0.03
64 2 0.01
65 7 0.04
66 29 0.17
67 4 0.02
ACGTcount: A:0.38, C:0.11, G:0.05, T:0.46
Consensus pattern (54 bp):
TAATTTTACATAATTTGATAATTTTACTAACATTAACACAATTTTTGGACTTAA
Found at i:42294897 original size:10 final size:10
Alignment explanation
Indices: 42294882--42294908 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
42294872 TTTTGGCTTA
42294882 ATAATTTTAC
1 ATAATTTTAC
42294892 ATAATTTTAC
1 ATAATTTTAC
42294902 ATAATTT
1 ATAATTT
42294909 GATAATTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (10 bp):
ATAATTTTAC
Found at i:42294962 original size:10 final size:10
Alignment explanation
Indices: 42294947--42294971 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
42294937 TTGAGACTTA
42294947 ATAATTTTAC
1 ATAATTTTAC
42294957 ATAATTTTAC
1 ATAATTTTAC
42294967 ATAAT
1 ATAAT
42294972 GTTAGATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (10 bp):
ATAATTTTAC
Found at i:42294968 original size:65 final size:66
Alignment explanation
Indices: 42294826--42294971 Score: 190
Period size: 65 Copynumber: 2.2 Consensus size: 66
42294816 TTTGGACTTA
* * * ** *
42294826 ATAATTTTACATAATTTGATAATTTTACCTAATTTAATTAAATTTTTTTTGGCTTAATAATTTTA
1 ATAATTTTACATAATTTGATAATTTTACCTAAATTAATCAAATATTTTGAGACTTAATAATTTTA
42294891 C
66 C
*
42294892 ATAATTTTACATAATTTGATAATTTT-GCTAACCATTAA-CAAA-ATTTTGAGACTTAATAATTT
1 ATAATTTTACATAATTTGATAATTTTACCTAA--ATTAATCAAATATTTTGAGACTTAATAATTT
42294954 TAC
64 TAC
42294957 ATAATTTTACATAAT
1 ATAATTTTACATAAT
42294972 GTTAGATTTG
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
65 38 0.54
66 29 0.41
67 4 0.06
ACGTcount: A:0.38, C:0.09, G:0.05, T:0.48
Consensus pattern (66 bp):
ATAATTTTACATAATTTGATAATTTTACCTAAATTAATCAAATATTTTGAGACTTAATAATTTTA
C
Found at i:42298378 original size:122 final size:123
Alignment explanation
Indices: 42298078--42298425 Score: 592
Period size: 122 Copynumber: 2.8 Consensus size: 123
42298068 CCCAAACTTG
* *
42298078 CTACTATAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCTTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
*
42298143 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTTAAAAAAAATTATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACG-TCAAAAAAATTATTTCTTACATGAC
*
42298202 CTACTGTAGCAAAATCGCGTCCACGAGGGTGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
*
42298267 TAGAGGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAA-TATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTATTTCTTACATGAC
* *
42298324 CTACTGTAGCAAAATCACGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAACATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
*
42298389 TAGAAGCAATTTTATACTATTTGAC-CAGAAACGTCAA
66 TAGAAGCGATTTTATACTATTTG-CTCAGAAACGTCAA
42298426 CTCAAAATAA
Statistics
Matches: 213, Mismatches: 10, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
122 110 0.52
123 9 0.04
124 94 0.44
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (123 bp):
CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTATTTCTTACATGAC
Found at i:42301218 original size:5 final size:5
Alignment explanation
Indices: 42301208--42301270 Score: 81
Period size: 5 Copynumber: 12.6 Consensus size: 5
42301198 TCATATATAT
* * * * *
42301208 ATTCC ATTCC ATACC ATTCC ATTCC ATACT ATTCC ATTTC ATACC ATTCC
1 ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC
42301258 ATTCC ATTCC ATT
1 ATTCC ATTCC ATT
42301271 TCATCAAGCA
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
5 48 1.00
ACGTcount: A:0.25, C:0.35, G:0.00, T:0.40
Consensus pattern (5 bp):
ATTCC
Found at i:42301228 original size:15 final size:15
Alignment explanation
Indices: 42301208--42301270 Score: 99
Period size: 15 Copynumber: 4.2 Consensus size: 15
42301198 TCATATATAT
42301208 ATTCCATTCCATACC
1 ATTCCATTCCATACC
*
42301223 ATTCCATTCCATACT
1 ATTCCATTCCATACC
*
42301238 ATTCCATTTCATACC
1 ATTCCATTCCATACC
*
42301253 ATTCCATTCCATTCC
1 ATTCCATTCCATACC
42301268 ATT
1 ATT
42301271 TCATCAAGCA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 43 1.00
ACGTcount: A:0.25, C:0.35, G:0.00, T:0.40
Consensus pattern (15 bp):
ATTCCATTCCATACC
Found at i:42302617 original size:51 final size:51
Alignment explanation
Indices: 42302169--42302618 Score: 349
Period size: 51 Copynumber: 8.9 Consensus size: 51
42302159 CTATTATCAT
* * *
42302169 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAATT-TTTA
1 TCGATTCACATAGTAGCCTTCACATAGTACTACACACGTGA-CCATTATTTA
* * * *
42302220 -C-AGTTCACGTAATAGCCTTCACATAGTACTACACACGTGATCAAGT-TTTA
1 TCGA-TTCACATAGTAGCCTTCACATAGTACTACACACGTGA-CCATTATTTA
* * * **
42302270 -CGGTTCACATAGTAGCCTTCACATAGTACTACATACGTGACTAATGCTTT-
1 TCGATTCACATAGTAGCCTTCACATAGTACTACACACGTGAC-CATTATTTA
* * * * * * * *
42302320 TCGGTACACATAGTAGTCTTCACTTAGTACTACATATGTGACCATCATTTG
1 TCGATTCACATAGTAGCCTTCACATAGTACTACACACGTGACCATTATTTA
* * * * *
42302371 TCAATTCACATAGTAGCCTTCACACAGTACTACACACGTGACCA-AAGCTTC
1 TCGATTCACATAGTAGCCTTCACATAGTACTACACACGTGACCATTA-TTTA
* * * * * * *
42302422 TCGGTACATATTGTAGCCTTCGCTTAGTACTACACATGTGACCATTATTTA
1 TCGATTCACATAGTAGCCTTCACATAGTACTACACACGTGACCATTATTTA
* * * * * *
42302473 TGGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCA-AAGCTTC
1 TCGATTCACATAGTAGCCTTCACATAGTACTACACACGTGACCATTA-TTTA
* * * * * ** *
42302524 TCGGTACATATTGTAGACTTCATTTAGTACTACACATGTGACCATTATTTA
1 TCGATTCACATAGTAGCCTTCACATAGTACTACACACGTGACCATTATTTA
* * *
42302575 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACATGACCA
1 TCGATTCACATAGTAGCCTTCACATAGTACTACACACGTGACCA
42302619 ACACTTTCAC
Statistics
Matches: 312, Mismatches: 77, Indels: 20
0.76 0.19 0.05
Matches are distributed among these distances:
49 2 0.01
50 89 0.29
51 219 0.70
52 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.31
Consensus pattern (51 bp):
TCGATTCACATAGTAGCCTTCACATAGTACTACACACGTGACCATTATTTA
Found at i:42302636 original size:102 final size:102
Alignment explanation
Indices: 42302169--42302619 Score: 532
Period size: 102 Copynumber: 4.4 Consensus size: 102
42302159 CTATTATCAT
* * * * * * * ** **
42302169 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AA-TTTTTACAGTTCACGTAA
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCT-CGGTACATATTG
* * * * *
42302232 TAGCCTTCACATAGTACTACACACGTGATCAAGT-TTTA
65 TAGACTTCACTTAGTACTACACATGTGA-CCATTATTTA
* * * * * * * * *
42302270 -CGGTTCACATAGTAGCCTTCACATAGTACTACATACGTGACTAATGCTTTTCGGTACACATAGT
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACATATTGT
* * * *
42302334 AGTCTTCACTTAGTACTACATATGTGACCATCATTTG
66 AGACTTCACTTAGTACTACACATGTGACCATTATTTA
* *
42302371 TCAATTCACATAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACATATTGT
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACATATTGT
* *
42302436 AGCCTTCGCTTAGTACTACACATGTGACCATTATTTA
66 AGACTTCACTTAGTACTACACATGTGACCATTATTTA
*
42302473 TGGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACATATTGT
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACATATTGT
*
42302538 AGACTTCATTTAGTACTACACATGTGACCATTATTTA
66 AGACTTCACTTAGTACTACACATGTGACCATTATTTA
*
42302575 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACATGACCAA
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAA
42302620 CACTTTCACT
Statistics
Matches: 304, Mismatches: 42, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
100 38 0.12
101 36 0.12
102 230 0.76
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.31
Consensus pattern (102 bp):
TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACATATTGT
AGACTTCACTTAGTACTACACATGTGACCATTATTTA
Found at i:42304959 original size:18 final size:19
Alignment explanation
Indices: 42304931--42304966 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
42304921 CTAATATTTC
*
42304931 TTCCAAAACTATTTTTACT
1 TTCCAAAACTATTATTACT
42304950 TTCC-AAACTATTATTAC
1 TTCCAAAACTATTATTAC
42304967 CTCTGTATGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.44
Consensus pattern (19 bp):
TTCCAAAACTATTATTACT
Found at i:42305438 original size:47 final size:48
Alignment explanation
Indices: 42305354--42305444 Score: 114
Period size: 47 Copynumber: 1.9 Consensus size: 48
42305344 GTTTTCACAT
*
42305354 TGCCATAGTATGACTATGGTCTTACACAAAAATACAT-ATCACACTGA
1 TGCCATAGTATGACTATGGTCTTACACAAAAACACATAATCACACTGA
* * * *
42305401 TGCCATAGT-TTAGCTATGGTCTTATACAGAAGCACATAATCACA
1 TGCCATAGTATGA-CTATGGTCTTACACAAAAACACATAATCACA
42305445 TTTTCATATA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
46 2 0.05
47 29 0.78
48 6 0.16
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (48 bp):
TGCCATAGTATGACTATGGTCTTACACAAAAACACATAATCACACTGA
Found at i:42306502 original size:5 final size:5
Alignment explanation
Indices: 42306492--42306539 Score: 60
Period size: 5 Copynumber: 9.6 Consensus size: 5
42306482 TCATATATAT
* * * *
42306492 ATTCC ATTCC ATTCC ATACT ATTCC ATTTC ATACC ATTCC ATTCC ATT
1 ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC ATT
42306540 TCATCAAGCA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.25, C:0.33, G:0.00, T:0.42
Consensus pattern (5 bp):
ATTCC
Found at i:42306517 original size:15 final size:15
Alignment explanation
Indices: 42306495--42306538 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
42306485 TATATATATT
42306495 CCATTCCATTCCATA
1 CCATTCCATTCCATA
* *
42306510 CTATTCCATTTCATA
1 CCATTCCATTCCATA
42306525 CCATTCCATTCCAT
1 CCATTCCATTCCAT
42306539 TTCATCAAGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.25, C:0.36, G:0.00, T:0.39
Consensus pattern (15 bp):
CCATTCCATTCCATA
Found at i:42306540 original size:20 final size:20
Alignment explanation
Indices: 42306492--42306543 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
42306482 TCATATATAT
* * *
42306492 ATTCCATTCCATTCCATACT
1 ATTCCATTTCATACCATACC
*
42306512 ATTCCATTTCATACCATTCC
1 ATTCCATTTCATACCATACC
42306532 ATTCCATTTCAT
1 ATTCCATTTCAT
42306544 CAAGCATTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.25, C:0.33, G:0.00, T:0.42
Consensus pattern (20 bp):
ATTCCATTTCATACCATACC
Found at i:42307653 original size:51 final size:51
Alignment explanation
Indices: 42307446--42307886 Score: 317
Period size: 51 Copynumber: 8.7 Consensus size: 51
42307436 TTCAATACAT
* * * * *
42307446 GTAGTAGCCTTCACATAGTACTACACACGTGATC--AATTTTTACGGTTCAC
1 GTAGTAGCCTTCACACAGTACTACACATGTGACCATAATTTAT-CGATTCAC
* * * * * *
42307496 GTAATAGCCTTCACATAGTACTACACACGTGATCA-AGTTT-TACGGTTCAC
1 GTAGTAGCCTTCACACAGTACTACACATGTGACCATAATTTAT-CGATTCAC
* * * * ** * * *
42307546 ATAGTAGCCTTCACATAGTACAACATACATGA-C-TAATGCTTTTCGGTACAC
1 GTAGTAGCCTTCACACAGTACTACACATGTGACCATAAT--TTATCGATTCAC
* ** * * *
42307597 ATAGTAGCCTTCACTTAGTACTATACATGTGACCATCATTTATCAATTCAC
1 GTAGTAGCCTTCACACAGTACTACACATGTGACCATAATTTATCGATTCAC
* * * *
42307648 GTAGTAGCCTTCACACAGTACTACACACGTGACCA-AAGATTCTC-AGT-AC
1 GTAGTAGCCTTCACACAGTACTACACATGTGACCATAA-TTTATCGATTCAC
* ** *
42307697 ATATTGTAGCCTTCACTTAGTACTACACATGTGACCATTATTTATCGATTCAC
1 GTA--GTAGCCTTCACACAGTACTACACATGTGACCATAATTTATCGATTCAC
* * * * * * *
42307750 GTAGTAGCCTTCACACAGTACTATACATGTGATCA-AAGCTTCTCGGTACAT
1 GTAGTAGCCTTCACACAGTACTACACATGTGACCATAA-TTTATCGATTCAC
* * ** *
42307801 ATTGTAGCCTTCACTTAGTACTACACATGTGACCATTATTTATCGATTCAC
1 GTAGTAGCCTTCACACAGTACTACACATGTGACCATAATTTATCGATTCAC
*
42307852 GTAGTAGCCTTCACACAGTACTACACACGTGACCA
1 GTAGTAGCCTTCACACAGTACTACACATGTGACCA
42307887 ACACTTTCAC
Statistics
Matches: 311, Mismatches: 65, Indels: 29
0.77 0.16 0.07
Matches are distributed among these distances:
49 7 0.02
50 74 0.24
51 217 0.70
52 6 0.02
53 7 0.02
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (51 bp):
GTAGTAGCCTTCACACAGTACTACACATGTGACCATAATTTATCGATTCAC
Found at i:42307697 original size:102 final size:102
Alignment explanation
Indices: 42307446--42307887 Score: 550
Period size: 102 Copynumber: 4.4 Consensus size: 102
42307436 TTCAATACAT
* * * * * * *
42307446 GTAGTAGCCTTCACATAGTACTACACACGTGATC-AA-TTTTTACGGTTCACGTAATAGCCTTCA
1 GTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCT-CGGTACACATAGTAGCCTTCA
* * * * *
42307509 CATAGTACTACACACGTGATCAAGT-TTTA-CGGTTCAC
65 CTTAGTACTACACATGTGA-CCATTATTTATCGATTCAC
* * * * * * * *
42307546 ATAGTAGCCTTCACATAGTACAACATACATGACTAATGCTTTTCGGTACACATAGTAGCCTTCAC
1 GTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATAGTAGCCTTCAC
* * *
42307611 TTAGTACTATACATGTGACCATCATTTATCAATTCAC
66 TTAGTACTACACATGTGACCATTATTTATCGATTCAC
* * * *
42307648 GTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGATTCTCAGTACATATTGTAGCCTTCAC
1 GTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATAGTAGCCTTCAC
42307713 TTAGTACTACACATGTGACCATTATTTATCGATTCAC
66 TTAGTACTACACATGTGACCATTATTTATCGATTCAC
* * * * *
42307750 GTAGTAGCCTTCACACAGTACTATACATGTGATCAAAGCTTCTCGGTACATATTGTAGCCTTCAC
1 GTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATAGTAGCCTTCAC
42307815 TTAGTACTACACATGTGACCATTATTTATCGATTCAC
66 TTAGTACTACACATGTGACCATTATTTATCGATTCAC
42307852 GTAGTAGCCTTCACACAGTACTACACACGTGACCAA
1 GTAGTAGCCTTCACACAGTACTACACACGTGACCAA
42307888 CACTTTCACT
Statistics
Matches: 296, Mismatches: 42, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
100 30 0.10
101 39 0.13
102 227 0.77
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (102 bp):
GTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATAGTAGCCTTCAC
TTAGTACTACACATGTGACCATTATTTATCGATTCAC
Found at i:42315186 original size:20 final size:21
Alignment explanation
Indices: 42315161--42315202 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
42315151 CATGCAGATT
42315161 AAATAAACAAAA-AAAATAAA
1 AAATAAACAAAACAAAATAAA
* *
42315181 AAATAAATAAAACCAAATAAA
1 AAATAAACAAAACAAAATAAA
42315202 A
1 A
42315203 TAAAATTCAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.81, C:0.07, G:0.00, T:0.12
Consensus pattern (21 bp):
AAATAAACAAAACAAAATAAA
Found at i:42320889 original size:23 final size:23
Alignment explanation
Indices: 42320859--42320906 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
42320849 AGTTTTTGGA
42320859 TTAATTCTAATTGAAGAGGAATG
1 TTAATTCTAATTGAAGAGGAATG
*
42320882 TTAATTCTGATTGAAGAGGAATG
1 TTAATTCTAATTGAAGAGGAATG
42320905 TT
1 TT
42320907 CAAAGTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.35, C:0.04, G:0.23, T:0.38
Consensus pattern (23 bp):
TTAATTCTAATTGAAGAGGAATG
Found at i:42321189 original size:5 final size:6
Alignment explanation
Indices: 42321148--42321201 Score: 63
Period size: 6 Copynumber: 8.5 Consensus size: 6
42321138 AAAAAAGGTC
* *
42321148 AAAATC AAAATA AAAATA AAAGTGATA AAAAGA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAA---ATA AAAATA AAAATA AAAATA AAAATA
42321199 AAA
1 AAA
42321202 GAAAAATGGA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
6 36 0.86
9 6 0.14
ACGTcount: A:0.78, C:0.02, G:0.06, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:42321207 original size:18 final size:18
Alignment explanation
Indices: 42321148--42321201 Score: 54
Period size: 21 Copynumber: 2.8 Consensus size: 18
42321138 AAAAAAGGTC
* *
42321148 AAAATCAAAATAAAAATA
1 AAAATAAAAAGAAAAATA
42321166 AAAGTGATAAAAAGAAAAATA
1 AAA---ATAAAAAGAAAAATA
*
42321187 AAAATAAAAATAAAA
1 AAAATAAAAAGAAAA
42321202 GAAAAATGGA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 14 0.47
21 16 0.53
ACGTcount: A:0.78, C:0.02, G:0.06, T:0.15
Consensus pattern (18 bp):
AAAATAAAAAGAAAAATA
Found at i:42321340 original size:42 final size:42
Alignment explanation
Indices: 42321279--42321362 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
42321269 AAACCCGAAA
* *
42321279 AGAGCGACTCGAATATTGATCAAAATGGGGCATGAGGTGATC
1 AGAGCAACACGAATATTGATCAAAATGGGGCATGAGGTGATC
* * * * *
42321321 AGAGCAACACGAATCTTGATTAGATTGGGGCATGTGGTGATC
1 AGAGCAACACGAATATTGATCAAAATGGGGCATGAGGTGATC
42321363 TAGTTATACT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.31, C:0.14, G:0.31, T:0.24
Consensus pattern (42 bp):
AGAGCAACACGAATATTGATCAAAATGGGGCATGAGGTGATC
Found at i:42322503 original size:44 final size:43
Alignment explanation
Indices: 42322414--42323053 Score: 523
Period size: 44 Copynumber: 14.5 Consensus size: 43
42322404 GCAGATCAGT
* * *
42322414 GAAGATAGCAGGTCCTGTCTTCCTATATTGGT-AGCAAGTGGATC
1 GAAGAT-GCAGATCTTGTCTTCCTATATTGGTGAG-AAGTAGATC
* *
42322458 GAAGATGCAGATCTTGTCTTCCCATATTGGTGACGGAGTAGATC
1 GAAGATGCAGATCTTGTCTTCCTATATTGGTGA-GAAGTAGATC
* * * * *
42322502 GAAGAAAGCAGATCTTGTCTTCGTTTATTGGCGTGAAGTAGATC
1 GAAG-ATGCAGATCTTGTCTTCCTATATTGGTGAGAAGTAGATC
* *
42322546 GAAGATAGCAGGTCCTGTCTTCCTATATTGG-GAGGAAGTAGATC
1 GAAGAT-GCAGATCTTGTCTTCCTATATTGGTGA-GAAGTAGATC
* * * *
42322590 GAAGATGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATC
1 GAAGATGCAGATCTTGTCTTCCTATATTGGTGAGAAGTAGATC
* * *
42322633 GAAGATAGCAGATCCTGTCTTCCTATATTGGTAGTGAAGTGGATC
1 GAAGAT-GCAGATCTTGTCTTCCTATATTGGT-GAGAAGTAGATC
* * * *
42322678 GAAGATGCAGATCTTGTCTTCCCATACTAGTGGCGAAGTAGATC
1 GAAGATGCAGATCTTGTCTTCCTATATTGGT-GAGAAGTAGATC
* * * * * *
42322722 AAAGAAAGCAGATCTTGTCTTCATCTATTGGCGTGAAGTAGATC
1 GAAG-ATGCAGATCTTGTCTTCCTATATTGGTGAGAAGTAGATC
* * * *
42322766 AAAGATAGCAGGTCCTGTCTTCCTATATTGGT-AGGAAGTGGATC
1 GAAGAT-GCAGATCTTGTCTTCCTATATTGGTGA-GAAGTAGATC
* * * *
42322810 GAAGATGCAGATCTTATCTTCCCATACTGGTGGCGAAGTAGATC
1 GAAGATGCAGATCTTGTCTTCCTATATTGGT-GAGAAGTAGATC
* * * * * *
42322854 GAAGAAAGCATATCTTGTCTTCATGTATTGGCGTGAAGTAGATC
1 GAAG-ATGCAGATCTTGTCTTCCTATATTGGTGAGAAGTAGATC
* * * * *
42322898 GAAAATAGCAGGTCCTATCTTCCTATATTGGT-AGGAAGTGGATC
1 GAAGAT-GCAGATCTTGTCTTCCTATATTGGTGA-GAAGTAGATC
* * * *
42322942 GAAGATGCAGATCTTGTCTTCCCATACTGATGGCGAAGTAGATC
1 GAAGATGCAGATCTTGTCTTCCTATATTGGT-GAGAAGTAGATC
* * * * * *
42322986 GAAGAAAGCAGATCTTCTCTTCATGTATTGGCGTGAAGTAGATC
1 GAAG-ATGCAGATCTTGTCTTCCTATATTGGTGAGAAGTAGATC
* * * *
42323030 AAAAATAGCAAATCTTGCCTTCCT
1 GAAGAT-GCAGATCTTGTCTTCCT
42323054 GCACTGACAG
Statistics
Matches: 471, Mismatches: 105, Indels: 40
0.76 0.17 0.06
Matches are distributed among these distances:
43 102 0.22
44 270 0.57
45 99 0.21
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (43 bp):
GAAGATGCAGATCTTGTCTTCCTATATTGGTGAGAAGTAGATC
Found at i:42322670 original size:132 final size:130
Alignment explanation
Indices: 42322414--42323053 Score: 755
Period size: 132 Copynumber: 4.8 Consensus size: 130
42322404 GCAGATCAGT
* * * * * * *
42322414 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGCAAGTGGATCGAAG-ATGCAGATCTTGTCTT
1 GAAGAT-GCAGATCTTGTCTTCCCATATTGG-GGGAAGTAGATCGAAGAAAGCAGATCTTGTCTT
*** * * * * * * * * *
42322478 CCCATATTGGTGACGGAGTAGATCGAAGAAAGCAGATCTTGTCTTCGTTTATTGG-CGTGAAGTA
64 CATGTATTGGCG-TGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAG-GAAGTG
42322542 GATC
127 GATC
* * * *
42322546 GAAGATAGCAGGTCCTGTCTTCCTATATTGGGAGGAAGTAGATCGAAG-ATGCAGATCTTGTCTT
1 GAAGAT-GCAGATCTTGTCTTCCCATATTGGG-GGAAGTAGATCGAAGAAAGCAGATCTTGTCTT
42322610 CATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAGTGAAGTGG
64 CATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAG-GAAGTGG
42322675 ATC
128 ATC
* * *
42322678 GAAGATGCAGATCTTGTCTTCCCATACTAGTGGCGAAGTAGATCAAAGAAAGCAGATCTTGTCTT
1 GAAGATGCAGATCTTGTCTTCCCATA-TTG-GGGGAAGTAGATCGAAGAAAGCAGATCTTGTCTT
* * *
42322743 CATCTATTGGCGTGAAGTAGATCAAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGA
64 CATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAGGAAGTGGA
42322808 TC
129 TC
* * *
42322810 GAAGATGCAGATCTTATCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCATATCTTGTCTT
1 GAAGATGCAGATCTTGTCTTCCCATATTGG-GG-GAAGTAGATCGAAGAAAGCAGATCTTGTCTT
* * *
42322875 CATGTATTGGCGTGAAGTAGATCGAAAATAGCAGGTCCTATCTTCCTATATTGGTAGGAAGTGGA
64 CATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAGGAAGTGGA
42322940 TC
129 TC
* * *
42322942 GAAGATGCAGATCTTGTCTTCCCATACTGATGGCGAAGTAGATCGAAGAAAGCAGATCTTCTCTT
1 GAAGATGCAGATCTTGTCTTCCCATATTG--GGGGAAGTAGATCGAAGAAAGCAGATCTTGTCTT
* * * * *
42323007 CATGTATTGGCGTGAAGTAGATCAAAAATAGCAAATCTTGCCTTCCT
64 CATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCT
42323054 GCACTGACAG
Statistics
Matches: 454, Mismatches: 45, Indels: 18
0.88 0.09 0.03
Matches are distributed among these distances:
130 1 0.00
131 55 0.12
132 325 0.72
133 72 0.16
134 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (130 bp):
GAAGATGCAGATCTTGTCTTCCCATATTGGGGGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCA
TGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAGGAAGTGGATC
Found at i:42323076 original size:45 final size:45
Alignment explanation
Indices: 42323020--42323162 Score: 112
Period size: 44 Copynumber: 3.2 Consensus size: 45
42323010 GTATTGGCGT
*
42323020 GAAGTAGATCAAAAATAGCAAATCTTGCCTTCCTGCACTGACAGC
1 GAAGCAGATCAAAAATAGCAAATCTTGCCTTCCTGCACTGACAGC
* * * ** * ***
42323065 GAAGCAGATCAAAGACA-CCAGCCTTGCCTCCCTGGGTTG-CAGC
1 GAAGCAGATCAAAAATAGCAAATCTTGCCTTCCTGCACTGACAGC
* * * * *
42323108 GGAGCAG-GCTAAAAATAGTAGATCTTGCCTTCCTGCACCGACAGC
1 GAAGCAGATC-AAAAATAGCAAATCTTGCCTTCCTGCACTGACAGC
*
42323153 GAAGTAGATC
1 GAAGCAGATC
42323163 GAAGACACCG
Statistics
Matches: 67, Mismatches: 27, Indels: 7
0.66 0.27 0.07
Matches are distributed among these distances:
42 1 0.01
43 15 0.22
44 27 0.40
45 23 0.34
46 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.23, T:0.20
Consensus pattern (45 bp):
GAAGCAGATCAAAAATAGCAAATCTTGCCTTCCTGCACTGACAGC
Found at i:42323296 original size:88 final size:88
Alignment explanation
Indices: 42323030--42323252 Score: 356
Period size: 88 Copynumber: 2.5 Consensus size: 88
42323020 GAAGTAGATC
* * * *
42323030 AAAAATAGCAAATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTC
1 AAAAATAGTAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTC
* * *
42323095 CCTGGGTTGCAGCGGAGCAGGCT
66 CCTAGGTTGCAGTGGAGCAGGTT
* *
42323118 AAAAATAGTAGATCTTGCCTTCCTGCACCGACAGCGAAGTAGATCGAAGACACCGGCCTTGCCTC
1 AAAAATAGTAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTC
*
42323183 CTTAGGTTGCAGTGGAGCAGGTT
66 CCTAGGTTGCAGTGGAGCAGGTT
42323206 AAAAATAGTAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGA
1 AAAAATAGTAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGA
42323253 TGACCTCAGC
Statistics
Matches: 124, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 124 1.00
ACGTcount: A:0.29, C:0.27, G:0.24, T:0.20
Consensus pattern (88 bp):
AAAAATAGTAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTC
CCTAGGTTGCAGTGGAGCAGGTT
Found at i:42323464 original size:132 final size:132
Alignment explanation
Indices: 42323304--42323889 Score: 942
Period size: 132 Copynumber: 4.4 Consensus size: 132
42323294 AAAGATTGTG
** * *
42323304 AATTCTACTTCCCTGGACAACAAAGGAATAGATTGAAGATTTTAGATATTATCTCCTTAAGCAGT
1 AATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTTAGATCTTATCTCCCTAAGCAGT
*
42323369 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
66 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
42323434 GT
131 GT
*
42323436 AATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTTAGATCTTATCTCCCTAAACAGT
1 AATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTTAGATCTTATCTCCCTAAGCAGT
*
42323501 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
66 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
42323566 GT
131 GT
* *
42323568 AATTCTACTTCTCTGGACAACAGTGGAATAGATTGAAGACTTTAGATCTTATCTCCCTAAGCAGT
1 AATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTTAGATCTTATCTCCCTAAGCAGT
* *
42323633 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCTA
66 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
42323698 GT
131 GT
* *
42323700 AATTCTACTTCCCTGGGCAATAGTGGAATAGATTGAAGATTTTAGATCTTATCTCCCTAAGCAGT
1 AATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTTAGATCTTATCTCCCTAAGCAGT
* *
42323765 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTAGAGTACATTGAAGCCA
66 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
42323830 GT
131 GT
** * * * * *
42323832 AATTCTA-TCTCCCTGTTCAGCAGTGGAATAGGTTGTAAGGTATAAG-TCTTATCTCCCT
1 AATTCTACT-TCCCTGGACAACAGTGGAATAGATTG-AAGATTTTAGATCTTATCTCCCT
42323890 GAAGTTGCAG
Statistics
Matches: 425, Mismatches: 27, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
131 1 0.00
132 417 0.98
133 7 0.02
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (132 bp):
AATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTTAGATCTTATCTCCCTAAGCAGT
AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
GT
Found at i:42323668 original size:44 final size:44
Alignment explanation
Indices: 42323611--42323801 Score: 125
Period size: 44 Copynumber: 4.3 Consensus size: 44
42323601 TGAAGACTTT
* *
42323611 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGC
1 AGATTTTACCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGC
** * * * * * * *
42323655 AGATTTTACCTCCCTGTGGTTA-TAGTGGAGTACATTGAAGCTAGT
1 AGATTTTACCTCCCT-AAG-CAGTAGTGGAGCAGATCGAAGATGGC
* * ** * ** * ***
42323700 A-ATTCTACTTCCCTGGGCAATAGTGGAATAGATTGAAGATTTT
1 AGATTTTACCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGC
* *
42323743 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGC
1 AGATTTTACCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGC
*
42323787 GGATTTTACCTCCCT
1 AGATTTTACCTCCCT
42323802 GTGGTTACAG
Statistics
Matches: 107, Mismatches: 36, Indels: 8
0.71 0.24 0.05
Matches are distributed among these distances:
42 1 0.01
43 21 0.20
44 65 0.61
45 19 0.18
46 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (44 bp):
AGATTTTACCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGC
Found at i:42324143 original size:19 final size:19
Alignment explanation
Indices: 42324103--42324147 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
42324093 CATGCATATT
*
42324103 AAATAAATAAAAATATAAA
1 AAATAAATAAAAACATAAA
*
42324122 AAATAAATAAAACCA-AATA
1 AAATAAATAAAAACATAA-A
42324141 AAATAAA
1 AAATAAA
42324148 ATCCAGTCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 2 0.09
19 21 0.91
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18
Consensus pattern (19 bp):
AAATAAATAAAAACATAAA
Found at i:42327070 original size:29 final size:29
Alignment explanation
Indices: 42327037--42327095 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 29
42327027 TAAAAGCTAC
42327037 ATGAATG-CATG-AAATAGATAAAAATCAAA
1 ATGAATGACATGAAAATAG--AAAAATCAAA
42327066 ATGAATGATCATGAAAATAGAAAAATCAAA
1 ATGAATGA-CATGAAAATAGAAAAATCAAA
42327096 GCTTGGAGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
29 7 0.26
30 10 0.37
31 4 0.15
32 6 0.22
ACGTcount: A:0.59, C:0.07, G:0.14, T:0.20
Consensus pattern (29 bp):
ATGAATGACATGAAAATAGAAAAATCAAA
Found at i:42346361 original size:42 final size:42
Alignment explanation
Indices: 42346315--42346444 Score: 131
Period size: 42 Copynumber: 3.1 Consensus size: 42
42346305 GTCTTTTTAC
42346315 AAATGCCATAAAAGATCATGTTCTTTAGCGGCGTTTGTAGTA
1 AAATGCCATAAAAGATCATGTTCTTTAGCGGCGTTTGTAGTA
** *
42346357 AAATGTCGTTAAAA-ATCATGTT-TTATAGCGGTGTTTGTAGTA
1 AAATG-CCATAAAAGATCATGTTCTT-TAGCGGCGTTTGTAGTA
** * * *
42346399 AAACCACCGCT-AAAGATCATGTTCTTTAGCGGCATTTGTTGTA
1 AAA-TGCC-ATAAAAGATCATGTTCTTTAGCGGCGTTTGTAGTA
42346442 AAA
1 AAA
42346445 GCGTCGCTAA
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
41 2 0.03
42 36 0.50
43 32 0.44
44 2 0.03
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.35
Consensus pattern (42 bp):
AAATGCCATAAAAGATCATGTTCTTTAGCGGCGTTTGTAGTA
Found at i:42346429 original size:43 final size:42
Alignment explanation
Indices: 42346325--42346472 Score: 172
Period size: 43 Copynumber: 3.5 Consensus size: 42
42346315 AAATGCCATA
* *
42346325 AAAGATCATGTTCTTTAGCGGCGTTTGTAGTAAAATGTCGTT
1 AAAGATCATGTTCTTTAGCGGCGTTTGTAGTAAAACGTCGCT
* * **
42346367 AAAAATCATGTT-TTATAGCGGTGTTTGTAGTAAAACCACCGCT
1 AAAGATCATGTTCTT-TAGCGGCGTTTGTAGTAAAA-CGTCGCT
* *
42346410 AAAGATCATGTTCTTTAGCGGCATTTGTTGTAAAAGCGTCGCT
1 AAAGATCATGTTCTTTAGCGGCGTTTGTAGTAAAA-CGTCGCT
* *
42346453 AAAGACCATGTTCTATAGCG
1 AAAGATCATGTTCTTTAGCG
42346473 TCATTTGTGA
Statistics
Matches: 88, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
41 2 0.02
42 30 0.34
43 54 0.61
44 2 0.02
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.34
Consensus pattern (42 bp):
AAAGATCATGTTCTTTAGCGGCGTTTGTAGTAAAACGTCGCT
Found at i:42346836 original size:21 final size:20
Alignment explanation
Indices: 42346795--42346841 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
42346785 ATTTTCTTGT
**
42346795 TGCCTCTGCTCCCTTGCTGC
1 TGCCTCTGCTCCCTCACTGC
*
42346815 TGCCTCTGCTTCCCTCATTGC
1 TGCCTCTGC-TCCCTCACTGC
42346836 TGCCTC
1 TGCCTC
42346842 CACTTTAAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.02, C:0.45, G:0.17, T:0.36
Consensus pattern (20 bp):
TGCCTCTGCTCCCTCACTGC
Found at i:42347859 original size:15 final size:16
Alignment explanation
Indices: 42347839--42347868 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
42347829 GGTCTCTTAA
42347839 TTTCTTTAC-TAATTC
1 TTTCTTTACATAATTC
42347854 TTTCTTTACATAATT
1 TTTCTTTACATAATT
42347869 ATCCTAGACC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.23, C:0.17, G:0.00, T:0.60
Consensus pattern (16 bp):
TTTCTTTACATAATTC
Found at i:42348824 original size:20 final size:20
Alignment explanation
Indices: 42348799--42348838 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
42348789 CGTAAAATGA
*
42348799 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
42348819 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
42348839 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:42348828 original size:34 final size:35
Alignment explanation
Indices: 42348784--42348851 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 35
42348774 TAGTAAAATA
*
42348784 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
42348818 TTTTCTGTAAAATGATTTACTGGAAAATATTTTA
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTA
42348852 TGGTGTTTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.55
35 14 0.45
ACGTcount: A:0.32, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:42350544 original size:27 final size:27
Alignment explanation
Indices: 42350505--42350766 Score: 301
Period size: 27 Copynumber: 9.6 Consensus size: 27
42350495 ATTCGTGGGC
*
42350505 AAATGACCGAATTACCCCCAAAGGGTA
1 AAATGACCGAATTACCCCCGAAGGGTA
* *
42350532 AAATGACCAAATTACCCCCGAAGGATA
1 AAATGACCGAATTACCCCCGAAGGGTA
** * *
42350559 AAATGATTGAATTACCCCTGAGGGGTA
1 AAATGACCGAATTACCCCCGAAGGGTA
*
42350586 AAATGACCGAATTACCCTCGAAGGGTA
1 AAATGACCGAATTACCCCCGAAGGGTA
* * *
42350613 AAATGACCAAATTACCCCCCAAAGGTTA
1 AAATGACCGAATTA-CCCCCGAAGGGTA
* *
42350641 AAATGATCGAATTACCCCCAAAGGGTA
1 AAATGACCGAATTACCCCCGAAGGGTA
* *
42350668 AAATGATCGAATTACCCTCGAAGGGTA
1 AAATGACCGAATTACCCCCGAAGGGTA
* * *
42350695 AAATGACTGAATTACCCCCAAAGGTTA
1 AAATGACCGAATTACCCCCGAAGGGTA
*
42350722 AAATGA-CTAACTTACCCCCCGAAGGGTA
1 AAATGACCGAA-TTA-CCCCCGAAGGGTA
* *
42350750 AAATGACCAAAATACCC
1 AAATGACCGAATTACCC
42350767 TTGTAAGGTA
Statistics
Matches: 197, Mismatches: 34, Indels: 8
0.82 0.14 0.03
Matches are distributed among these distances:
26 2 0.01
27 151 0.77
28 41 0.21
29 3 0.02
ACGTcount: A:0.40, C:0.24, G:0.18, T:0.19
Consensus pattern (27 bp):
AAATGACCGAATTACCCCCGAAGGGTA
Found at i:42350695 original size:109 final size:109
Alignment explanation
Indices: 42350505--42350766 Score: 357
Period size: 109 Copynumber: 2.4 Consensus size: 109
42350495 ATTCGTGGGC
* * *
42350505 AAATGACCGAATTA-CCCCCAAAGGGTAAAATGACCAAATTACCCCCGAAGGATAAAATGATTGA
1 AAATGACCAAATTACCCCCCAAAGGGTAAAATGACCAAATTACCCCCAAAGGATAAAATGATCGA
* * *
42350569 ATTACCCCTGAGGGGTAAAATGACCGAATTACCCTCGAAGGGTA
66 ATTACCCCTGAAGGGTAAAATGACCGAATTACCCCCAAAGGGTA
* * * *
42350613 AAATGACCAAATTACCCCCCAAAGGTTAAAATGATCGAATTACCCCCAAAGGGTAAAATGATCGA
1 AAATGACCAAATTACCCCCCAAAGGGTAAAATGACCAAATTACCCCCAAAGGATAAAATGATCGA
* *
42350678 ATTA-CCCTCGAAGGGTAAAATGACTGAATTACCCCCAAAGGTTA
66 ATTACCCCT-GAAGGGTAAAATGACCGAATTACCCCCAAAGGGTA
* * * *
42350722 AAATGACTAACTTACCCCCCGAAGGGTAAAATGACCAAAATACCC
1 AAATGACCAAATTACCCCCCAAAGGGTAAAATGACCAAATTACCC
42350767 TTGTAAGGTA
Statistics
Matches: 133, Mismatches: 19, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
108 17 0.13
109 116 0.87
ACGTcount: A:0.40, C:0.24, G:0.18, T:0.19
Consensus pattern (109 bp):
AAATGACCAAATTACCCCCCAAAGGGTAAAATGACCAAATTACCCCCAAAGGATAAAATGATCGA
ATTACCCCTGAAGGGTAAAATGACCGAATTACCCCCAAAGGGTA
Found at i:42350782 original size:82 final size:80
Alignment explanation
Indices: 42350505--42350784 Score: 355
Period size: 82 Copynumber: 3.4 Consensus size: 80
42350495 ATTCGTGGGC
* * * * *
42350505 AAATGACCGAATTACCCCCAAAGGGTAAAATGACCAAATTACCCCCGAAGGATAAAATGATTGAA
1 AAATGACCGAATTACCCTCGAAGGGTAAAATGACCAAATTACCCCCAAAGGTTAAAATGACT-AA
* *
42350570 TTACCCCTGAGGGGTA
65 TTACCCCCGAAGGGTA
*
42350586 AAATGACCGAATTACCCTCGAAGGGTAAAATGACCAAATTACCCCCCAAAGGTTAAAATGATCGA
1 AAATGACCGAATTACCCTCGAAGGGTAAAATGACCAAATTA-CCCCCAAAGGTTAAAATGA-CTA
*
42350651 ATTACCCCCAAAGGGTA
64 ATTACCCCCGAAGGGTA
* **
42350668 AAATGATCGAATTACCCTCGAAGGGTAAAATGACTGAATTACCCCCAAAGGTTAAAATGACTAAC
1 AAATGACCGAATTACCCTCGAAGGGTAAAATGACCAAATTACCCCCAAAGGTTAAAATGACTAA-
42350733 TTACCCCCCGAAGGGTA
65 TTA-CCCCCGAAGGGTA
* * * *
42350750 AAATGACCAAAATACCCTTGTAA-GGTAGAATGACC
1 AAATGACCGAATTACCCTCG-AAGGGTAAAATGACC
42350785 GTAATGCCCC
Statistics
Matches: 174, Mismatches: 20, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
80 3 0.02
81 61 0.35
82 108 0.62
83 2 0.01
ACGTcount: A:0.40, C:0.23, G:0.18, T:0.19
Consensus pattern (80 bp):
AAATGACCGAATTACCCTCGAAGGGTAAAATGACCAAATTACCCCCAAAGGTTAAAATGACTAAT
TACCCCCGAAGGGTA
Found at i:42350840 original size:26 final size:25
Alignment explanation
Indices: 42350792--42350840 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
42350782 ACCGTAATGC
* *
42350792 CCCTTGAGGATAAATGACTATTTTG
1 CCCTCGAGGATAAATGACGATTTTG
*
42350817 CCCTCGAGGTTAAATGATCGATTT
1 CCCTCGAGGATAAATGA-CGATTT
42350841 GTCCATGATG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 15 0.75
26 5 0.25
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (25 bp):
CCCTCGAGGATAAATGACGATTTTG
Found at i:42351021 original size:26 final size:26
Alignment explanation
Indices: 42350966--42351021 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
42350956 TTCTGATTAC
* * *
42350966 TGGCAGCTTTGCTGTGATACTGTTGG
1 TGGCAGCTTTGCTGCGATACTGCTGA
*
42350992 TGGCAGCTTTGCTGCGATGCTGCTGA
1 TGGCAGCTTTGCTGCGATACTGCTGA
42351018 TGGC
1 TGGC
42351022 TTTGTGCCGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.11, C:0.20, G:0.36, T:0.34
Consensus pattern (26 bp):
TGGCAGCTTTGCTGCGATACTGCTGA
Found at i:42351053 original size:32 final size:32
Alignment explanation
Indices: 42351014--42351164 Score: 171
Period size: 32 Copynumber: 4.8 Consensus size: 32
42351004 TGCGATGCTG
* *
42351014 CTGATGGCTTTGTGCCGATCATATTACCGTTG
1 CTGATGGCTTTGTGCCGATCATATTACCGCTA
* * *
42351046 CTGATGGCTGTGTGCCGATCATATCACTGCTA
1 CTGATGGCTTTGTGCCGATCATATTACCGCTA
* * **
42351078 TTGATGGCTTTGTACCGATCATATTACCATTA
1 CTGATGGCTTTGTGCCGATCATATTACCGCTA
* *
42351110 C-GATGG-TTGTGTGCCGATCATATTGCTGCTA
1 CTGATGGCTT-TGTGCCGATCATATTACCGCTA
*
42351141 CTGATGGCTTTGTGCCAATCATAT
1 CTGATGGCTTTGTGCCGATCATAT
42351165 AACTGTATTT
Statistics
Matches: 97, Mismatches: 19, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
30 2 0.02
31 23 0.24
32 70 0.72
33 2 0.02
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.36
Consensus pattern (32 bp):
CTGATGGCTTTGTGCCGATCATATTACCGCTA
Found at i:42351139 original size:63 final size:64
Alignment explanation
Indices: 42351009--42351164 Score: 224
Period size: 63 Copynumber: 2.5 Consensus size: 64
42350999 TTTGCTGCGA
* * *
42351009 TGCTGCTGATGGCTTTGTGCCGATCATATTACCGTTGCTGATGGCTGTGTGCCGATCATATCAC
1 TGCTACTGATGGCTTTGTGCCGATCATATTACCATTACTGATGGCTGTGTGCCGATCATATCAC
* * * **
42351073 TGCTATTGATGGCTTTGTACCGATCATATTACCATTAC-GATGGTTGTGTGCCGATCATATTGC
1 TGCTACTGATGGCTTTGTGCCGATCATATTACCATTACTGATGGCTGTGTGCCGATCATATCAC
*
42351136 TGCTACTGATGGCTTTGTGCCAATCATAT
1 TGCTACTGATGGCTTTGTGCCGATCATAT
42351165 AACTGTATTT
Statistics
Matches: 81, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
63 48 0.59
64 33 0.41
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.37
Consensus pattern (64 bp):
TGCTACTGATGGCTTTGTGCCGATCATATTACCATTACTGATGGCTGTGTGCCGATCATATCAC
Found at i:42360720 original size:25 final size:25
Alignment explanation
Indices: 42360665--42360725 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
42360655 TTTTAAGTGT
* * *
42360665 TTTCAGTATAGTCTATCTATAGTAG
1 TTTCAGTATATTCTACCTATAGCAG
* *
42360690 TCTCAGTATATTCTACCTGTAGCAG
1 TTTCAGTATATTCTACCTATAGCAG
*
42360715 TTTCAGGATAT
1 TTTCAGTATAT
42360726 ATTATCCAAG
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.41
Consensus pattern (25 bp):
TTTCAGTATATTCTACCTATAGCAG
Found at i:42366185 original size:40 final size:40
Alignment explanation
Indices: 42366148--42366372 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
42366138 GCTACTCGTT
* *
42366148 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
42366188 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
42366228 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
42366268 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
42366307 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
42366348 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
42366373 CATCATTCGA
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.19
40 118 0.72
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:42366332 original size:119 final size:120
Alignment explanation
Indices: 42366150--42366372 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 120
42366140 TACTCGTTCA
*
42366150 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
42366215 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
42366270 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
42366332 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
42366373 CATCATTCGA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 4 0.04
119 66 0.73
120 20 0.22
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:42374051 original size:40 final size:40
Alignment explanation
Indices: 42374014--42374238 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
42374004 GCTACTCGTT
* *
42374014 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
42374054 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
42374094 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
42374134 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
42374173 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
42374214 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
42374239 CATCATTCGA
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.19
40 118 0.72
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:42374198 original size:119 final size:120
Alignment explanation
Indices: 42374016--42374238 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 120
42374006 TACTCGTTCA
*
42374016 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
42374081 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
42374136 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
42374198 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
42374239 CATCATTCGA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 4 0.04
119 66 0.73
120 20 0.22
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:42375430 original size:56 final size:56
Alignment explanation
Indices: 42375363--42375482 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
42375353 TATTAGTTTA
42375363 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
42375419 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
42375475 TTGCCCAT
1 TTGCCCAT
42375483 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:42377741 original size:23 final size:23
Alignment explanation
Indices: 42377715--42377776 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
42377705 TTGAACCATA
**
42377715 ACCATTTCATACCAAATCGTATT
1 ACCATTTCATACCAAATCACATT
42377738 ACCATTTCGA-ACCAAATCACATT
1 ACCATTTC-ATACCAAATCACATT
*
42377761 ACCATTTCATAACAAA
1 ACCATTTCATACCAAA
42377777 CCCAAAACCA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
22 1 0.03
23 32 0.94
24 1 0.03
ACGTcount: A:0.40, C:0.27, G:0.03, T:0.29
Consensus pattern (23 bp):
ACCATTTCATACCAAATCACATT
Found at i:42380816 original size:22 final size:23
Alignment explanation
Indices: 42380779--42380846 Score: 79
Period size: 22 Copynumber: 3.0 Consensus size: 23
42380769 TTATGGTTAC
42380779 TTAAGTGTTCTAAATAGATTTAA
1 TTAAGTGTTCTAAATAGATTTAA
* *
42380802 TTCA-TGTT-TATAATATGA-TTAC
1 TTAAGTGTTCTA-AATA-GATTTAA
42380824 TTAAGTGTTCTAAATAGATTTAA
1 TTAAGTGTTCTAAATAGATTTAA
42380847 GTCAAATTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
21 2 0.06
22 16 0.44
23 16 0.44
24 2 0.06
ACGTcount: A:0.37, C:0.06, G:0.12, T:0.46
Consensus pattern (23 bp):
TTAAGTGTTCTAAATAGATTTAA
Found at i:42380832 original size:23 final size:23
Alignment explanation
Indices: 42380765--42380843 Score: 76
Period size: 22 Copynumber: 3.5 Consensus size: 23
42380755 AAGTTGACAA
*
42380765 TAAATTATGGTTACTTAAGTGTTC
1 TAAA-TATGATTACTTAAGTGTTC
* *
42380789 TAAATA-GATTTAATTCA-TGTT-
1 TAAATATGA-TTACTTAAGTGTTC
42380810 TATAATATGATTACTTAAGTGTTC
1 TA-AATATGATTACTTAAGTGTTC
42380834 TAAATA-GATT
1 TAAATATGATT
42380844 TAAGTCAAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
21 2 0.04
22 19 0.42
23 18 0.40
24 6 0.13
ACGTcount: A:0.35, C:0.06, G:0.13, T:0.46
Consensus pattern (23 bp):
TAAATATGATTACTTAAGTGTTC
Found at i:42384444 original size:41 final size:40
Alignment explanation
Indices: 42384351--42384451 Score: 148
Period size: 40 Copynumber: 2.5 Consensus size: 40
42384341 GAAAAATGGT
* *
42384351 GCTATTGCTTTACCATTAGCGGCGTTTATGAAAAAACACA
1 GCTATTGCTTTACCTTTTGCGGCGTTTATGAAAAAACACA
* *
42384391 GCTATTGTTTTACCTTTTGCGGCGTTTATGAGAAAAACACC
1 GCTATTGCTTTACCTTTTGCGGCGTTTATGA-AAAAACACA
*
42384432 GCTACTGCTTTACCTTTTGC
1 GCTATTGCTTTACCTTTTGC
42384452 AGCTTTTTTC
Statistics
Matches: 54, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
40 28 0.52
41 26 0.48
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.36
Consensus pattern (40 bp):
GCTATTGCTTTACCTTTTGCGGCGTTTATGAAAAAACACA
Found at i:42385968 original size:18 final size:20
Alignment explanation
Indices: 42385938--42385975 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
42385928 TAAAATCAAT
42385938 TTTTCTAAAAATATT-TTTA
1 TTTTCTAAAAATATTATTTA
42385957 TTTTCT-AAAATATTATTTA
1 TTTTCTAAAAATATTATTTA
42385976 CCAATTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTTCTAAAAATATTATTTA
Found at i:42390479 original size:16 final size:15
Alignment explanation
Indices: 42390458--42390501 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
42390448 TTTTAAAGGT
*
42390458 TAATTAAGTAATTTGA
1 TAATTAAGTAA-ATGA
*
42390474 TAATTAAGTTAAATGT
1 TAATTAAG-TAAATGA
42390490 TAATTAAGTAAA
1 TAATTAAGTAAA
42390502 AGACGAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 4 0.16
16 18 0.72
17 3 0.12
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (15 bp):
TAATTAAGTAAATGA
Found at i:42390492 original size:32 final size:31
Alignment explanation
Indices: 42390429--42390500 Score: 92
Period size: 32 Copynumber: 2.3 Consensus size: 31
42390419 TGGATAGGTT
*
42390429 TTAATGTAATTATGATAATTTTTAAAGGTTAA
1 TTAA-GTAATTATGATAATTGTTAAAGGTTAA
*
42390461 TTAAGTAATT-TGATAATTAAGTTAAATGTTAA
1 TTAAGTAATTATGATAATT--GTTAAAGGTTAA
42390493 TTAAGTAA
1 TTAAGTAA
42390501 AAGACGAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
30 8 0.22
31 6 0.17
32 22 0.61
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.44
Consensus pattern (31 bp):
TTAAGTAATTATGATAATTGTTAAAGGTTAA
Found at i:42391301 original size:40 final size:39
Alignment explanation
Indices: 42391244--42391386 Score: 146
Period size: 40 Copynumber: 3.6 Consensus size: 39
42391234 ATACACTTAT
42391244 GTGCCCCTGTGTGTACTTCGGTACCCCTAATTTCACATAC
1 GTGCCCCTGT-TGTACTTCGGTACCCCTAATTTCACATAC
* ** *
42391284 GTGCCCCTAGTTTTACTTCAATACCCCTGAA-TGCACATAC
1 GTGCCCCT-GTTGTACTTCGGTACCCCT-AATTTCACATAC
* * *
42391324 GTGCCCATGTTTGTACTTTGGTACCCCTAATTGT-AGATAC
1 GTGCCCCTG-TTGTACTTCGGTACCCCTAATT-TCACATAC
*
42391364 GTGCCCCTGGTTGTACTTTGGTA
1 GTGCCCCT-GTTGTACTTCGGTA
42391387 ATCCTGAATT
Statistics
Matches: 85, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
39 3 0.04
40 77 0.91
41 5 0.06
ACGTcount: A:0.19, C:0.28, G:0.19, T:0.34
Consensus pattern (39 bp):
GTGCCCCTGTTGTACTTCGGTACCCCTAATTTCACATAC
Found at i:42393545 original size:50 final size:50
Alignment explanation
Indices: 42393442--42393731 Score: 312
Period size: 50 Copynumber: 5.7 Consensus size: 50
42393432 TAAAGAGATT
*
42393442 CCATGTAAGACCATGTCTGGGACATGACATTGGCATCCTTGAGATCATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCA--C-TGAG---ATGAGAGGTC
* *
42393498 CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGACGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGTC
* * *
42393548 CTATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATGGGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGTC
** * * * * **
42393598 CCCCGTAAGACCATGTCTGGGACATGGCATGGGCGCCGATATGAGAACTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGTC
* * * * * **
42393648 CCATGTAAGACCATATCTGGGATATGGCATTGGCAGT-ACATGAAACATC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGTC
* *
42393697 CCATGTAATACCATGTCTGGGACATGGCTTTGGCA
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCA
42393732 TGTTATTATC
Statistics
Matches: 201, Mismatches: 33, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
49 39 0.19
50 124 0.62
53 4 0.02
54 1 0.00
56 33 0.16
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (50 bp):
CCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGTC
Found at i:42396839 original size:20 final size:20
Alignment explanation
Indices: 42396814--42396890 Score: 59
Period size: 20 Copynumber: 3.9 Consensus size: 20
42396804 ACGTGATTTG
42396814 CACTTTGGTGCCTCTGTATA
1 CACTTTGGTGCCTCTGTATA
**
42396834 CACTTTAATGCC-CTTGTATA
1 CACTTTGGTGCCTC-TGTATA
* * *
42396854 CACGTTGGTGTCCT-TGTTTG
1 CACTTTGGTG-CCTCTGTATA
* *
42396874 CACTATGGTGCCCCTGT
1 CACTTTGGTGCCTCTGT
42396891 TTGCACTTCA
Statistics
Matches: 43, Mismatches: 10, Indels: 8
0.70 0.16 0.13
Matches are distributed among these distances:
19 3 0.07
20 38 0.88
21 2 0.05
ACGTcount: A:0.14, C:0.26, G:0.21, T:0.39
Consensus pattern (20 bp):
CACTTTGGTGCCTCTGTATA
Found at i:42399211 original size:24 final size:24
Alignment explanation
Indices: 42399177--42399266 Score: 92
Period size: 24 Copynumber: 3.8 Consensus size: 24
42399167 TATCTATGAC
* *
42399177 GCCTTTTTGGTGTATTCTATTAAT
1 GCCTTTATGGTGTATTCTATAAAT
42399201 GCCTTTATGGTGTATTCTATAAAT
1 GCCTTTATGGTGTATTCTATAAAT
* * * *
42399225 ACC-CTATTGGCGTTTTCTATAAAT
1 GCCTTTA-TGGTGTATTCTATAAAT
* *
42399249 TCCTTTGTGGTGTATTCT
1 GCCTTTATGGTGTATTCT
42399267 GTGTTGCCTT
Statistics
Matches: 53, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
23 2 0.04
24 50 0.94
25 1 0.02
ACGTcount: A:0.19, C:0.16, G:0.17, T:0.49
Consensus pattern (24 bp):
GCCTTTATGGTGTATTCTATAAAT
Found at i:42401466 original size:19 final size:20
Alignment explanation
Indices: 42401442--42401484 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
42401432 GCATTAGAAC
42401442 TTTTATTTT-TATTTACTTA-
1 TTTTATTTTAT-TTTACTTAG
42401461 TTTTATTTTATTTTACTTAG
1 TTTTATTTTATTTTACTTAG
42401481 TTTT
1 TTTT
42401485 TTAATCACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (20 bp):
TTTTATTTTATTTTACTTAG
Found at i:42406522 original size:15 final size:13
Alignment explanation
Indices: 42406497--42406539 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
42406487 TAAATTGTAG
*
42406497 TTTCAAAAAAAAA
1 TTTCGAAAAAAAA
42406510 TAATTCGAAAAAAAA
1 T--TTCGAAAAAAAA
42406525 TTTCGAAAAAAAA
1 TTTCGAAAAAAAA
42406538 TT
1 TT
42406540 GTATACGGTC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
15 12 0.44
ACGTcount: A:0.63, C:0.07, G:0.05, T:0.26
Consensus pattern (13 bp):
TTTCGAAAAAAAA
Found at i:42413149 original size:15 final size:14
Alignment explanation
Indices: 42413129--42413168 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
42413119 AAATTGTAGT
42413129 TTCGAAAAAAAAGAA
1 TTCGAAAAAAAA-AA
42413144 TTCG-AAAAAAAAA
1 TTCGAAAAAAAAAA
42413157 TTCGAAAAAAAA
1 TTCGAAAAAAAA
42413169 TGTATACGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.25
14 14 0.58
15 4 0.17
ACGTcount: A:0.68, C:0.07, G:0.10, T:0.15
Consensus pattern (14 bp):
TTCGAAAAAAAAAA
Found at i:42413169 original size:12 final size:13
Alignment explanation
Indices: 42413129--42413168 Score: 62
Period size: 13 Copynumber: 2.9 Consensus size: 13
42413119 AAATTGTAGT
42413129 TTCGAAAAAAAAGAA
1 TTCG-AAAAAAA-AA
42413144 TTCGAAAAAAAAA
1 TTCGAAAAAAAAA
42413157 TTCGAAAAAAAA
1 TTCGAAAAAAAA
42413169 TGTATACGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 14 0.56
14 7 0.28
15 4 0.16
ACGTcount: A:0.68, C:0.07, G:0.10, T:0.15
Consensus pattern (13 bp):
TTCGAAAAAAAAA
Found at i:42425736 original size:31 final size:29
Alignment explanation
Indices: 42425678--42425736 Score: 73
Period size: 31 Copynumber: 2.0 Consensus size: 29
42425668 ATTTATCTAC
*
42425678 AAGATAAACATTAAATTTAATTTAATAAT
1 AAGATAAACATTAAATTTAAATTAATAAT
* *
42425707 AAGATAATCACTTTAATATTAAATTAATAA
1 AAGATAAACA-TTAAAT-TTAAATTAATAA
42425737 AATACCATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.36
30 5 0.20
31 11 0.44
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.37
Consensus pattern (29 bp):
AAGATAAACATTAAATTTAAATTAATAAT
Found at i:42429481 original size:21 final size:22
Alignment explanation
Indices: 42429451--42429493 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
42429441 TCTTGTTCAA
42429451 TCTCAATCTCGTTT-TTCTTTT
1 TCTCAATCTCGTTTATTCTTTT
* *
42429472 TCTCACTCTCTTTTATTCTTTT
1 TCTCAATCTCGTTTATTCTTTT
42429494 CTTGAGTTCG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.09, C:0.26, G:0.02, T:0.63
Consensus pattern (22 bp):
TCTCAATCTCGTTTATTCTTTT
Found at i:42439391 original size:59 final size:60
Alignment explanation
Indices: 42439320--42439436 Score: 146
Period size: 62 Copynumber: 1.9 Consensus size: 60
42439310 ATCACTTTAA
* * * * *
42439320 TATTAAATTAATATAATATTTATC-AAGCTAAATATTAGATTAAATTTAATATTAAATCT
1 TATTAAAATAATAGAATATTTATCAAAGATAAACATTAAATTAAATTTAATATTAAATCT
* *
42439379 TATTAAAATAATAGAATGTTTATCTAAAAGATAAACATTAAATTTAATTTAATATTAA
1 TATTAAAATAATAGAATATTTATC--AAAGATAAACATTAAATTAAATTTAATATTAA
42439437 GATAATCACT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 21 0.44
62 27 0.56
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (60 bp):
TATTAAAATAATAGAATATTTATCAAAGATAAACATTAAATTAAATTTAATATTAAATCT
Found at i:42442717 original size:41 final size:40
Alignment explanation
Indices: 42442657--42442927 Score: 197
Period size: 41 Copynumber: 6.5 Consensus size: 40
42442647 TGAATATAAA
* ** *
42442657 GGGTTGCTAAGTGCAGATTCCCCGAATCATTGATCAAAAAG
1 GGGTTGCTATGTGGTGATTCCCCGAATCATTGAT-TAAAAG
* *
42442698 GGGTTGCTATGCGGTGATTCCCC-ATATCATTGATTATAAG
1 GGGTTGCTATGTGGTGATTCCCCGA-ATCATTGATTAAAAG
* * * *
42442738 GTGGTTGCTAAGTGTTGATTCCACC-ATATCTTTGATTGTGAAAG
1 G-GGTTGCTATGTGGTGATTCC-CCGA-ATCATTGA-T-TAAAAG
* * *
42442782 GGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAG
1 GGGTTGCTATGTGGTGATTCCCCGAATCATTGATTAAAAG
* * * *
42442822 GTGGTTGCTAAGTGCG-GATTCCACCGTATCCTTGATTGTGAAAG
1 G-GGTTGCTATGTG-GTGATTCC-CCGAATCATTGA-T-TAAAAG
* * * *
42442866 GGGTTGCTATGTGTTGATTCCCCGTATCATTGATTATATG
1 GGGTTGCTATGTGGTGATTCCCCGAATCATTGATTAAAAG
* *
42442906 GTGGTTGCTAAGTGCTGATTCC
1 G-GGTTGCTATGTGGTGATTCC
42442928 ACCGGGAGTG
Statistics
Matches: 186, Mismatches: 31, Indels: 26
0.77 0.13 0.11
Matches are distributed among these distances:
40 15 0.08
41 82 0.44
42 42 0.23
43 37 0.20
44 10 0.05
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.35
Consensus pattern (40 bp):
GGGTTGCTATGTGGTGATTCCCCGAATCATTGATTAAAAG
Found at i:42442815 original size:125 final size:123
Alignment explanation
Indices: 42442646--42442927 Score: 313
Period size: 125 Copynumber: 2.3 Consensus size: 123
42442636 CCGAGATTCT
* * *
42442646 TTGAATATAAAGGGTTGCTAAGTGCAGATTCCCCGAATCATTGATCAAAAAGG-GGTTGCT-A-T
1 TTGATTATAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGAT-AAAAAGGTGGTTGCTAAGT
*
42442708 GCGGTGATTCC-CCATATCATTGATTAT-AAGGTGGTTGCTAAGTGTTGATTCCACCATATCT
65 GC-G-GATTCCACCATATCATTGATTATAAAGG-GGTTGCTAAGTGTTGATTCC-CCATATCA
* * * * *
42442769 TTGATTGTGAAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAG
1 TTGATTAT--AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGATAAAAAGGTGGTTGCTAAG
* * * * *
42442834 TGCGGATTCCACCGTATCCTTGATTGTGAAAGGGGTTGCTATGTGTTGATTCCCCGTATCA
64 TGCGGATTCCACCATATCATTGATTAT-AAAGGGGTTGCTAAGTGTTGATTCCCCATATCA
*
42442895 TTGATTATATGGTGGTTGCTAAGTGCTGATTCC
1 TTGATTATAAGG-GGTTGCTAAGTGCTGATTCC
42442928 ACCGGGAGTG
Statistics
Matches: 133, Mismatches: 17, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
123 6 0.05
124 8 0.06
125 65 0.49
126 28 0.21
127 22 0.17
128 4 0.03
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.35
Consensus pattern (123 bp):
TTGATTATAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGATAAAAAGGTGGTTGCTAAGTG
CGGATTCCACCATATCATTGATTATAAAGGGGTTGCTAAGTGTTGATTCCCCATATCA
Found at i:42442931 original size:84 final size:84
Alignment explanation
Indices: 42442658--42442931 Score: 399
Period size: 84 Copynumber: 3.3 Consensus size: 84
42442648 GAATATAAAG
* * *** * *
42442658 GGTTGCTAAGTGCAGATTCC-CCGAATCATTGA-TCAAAAAGGGGTTGCTATGCGGTGATTCCCC
1 GGTTGCTAAGTGCTGATTCCACCGTATCATTGATTGTGAAAGGGGTTGCTATGTGCTGATTCCCC
*
42442721 ATATCATTGATTATAAGGT
66 GTATCATTGATTATAAGGT
* * *
42442740 GGTTGCTAAGTGTTGATTCCACCATATCTTTGATTGTGAAAGGGGTTGCTATGTGCTGATTCCCC
1 GGTTGCTAAGTGCTGATTCCACCGTATCATTGATTGTGAAAGGGGTTGCTATGTGCTGATTCCCC
42442805 GTATCATTGATTATAAGGT
66 GTATCATTGATTATAAGGT
* * *
42442824 GGTTGCTAAGTGCGGATTCCACCGTATCCTTGATTGTGAAAGGGGTTGCTATGTGTTGATTCCCC
1 GGTTGCTAAGTGCTGATTCCACCGTATCATTGATTGTGAAAGGGGTTGCTATGTGCTGATTCCCC
*
42442889 GTATCATTGATTATATGGT
66 GTATCATTGATTATAAGGT
42442908 GGTTGCTAAGTGCTGATTCCACCG
1 GGTTGCTAAGTGCTGATTCCACCG
42442932 GGAGTGTTGA
Statistics
Matches: 172, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
82 18 0.10
83 9 0.05
84 145 0.84
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.35
Consensus pattern (84 bp):
GGTTGCTAAGTGCTGATTCCACCGTATCATTGATTGTGAAAGGGGTTGCTATGTGCTGATTCCCC
GTATCATTGATTATAAGGT
Found at i:42444942 original size:16 final size:16
Alignment explanation
Indices: 42444909--42444954 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
42444899 AATTATGAAT
*
42444909 ATTAATTCTTAA-TATA
1 ATTAATT-TTAATTTTA
42444925 ATTAATTTTAATTTTA
1 ATTAATTTTAATTTTA
42444941 ATTCAA-TTTAATTT
1 ATT-AATTTTAATTT
42444955 GGGTTAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
15 4 0.15
16 21 0.78
17 2 0.07
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTAATTTTAATTTTA
Found at i:42449491 original size:28 final size:28
Alignment explanation
Indices: 42449459--42449517 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
42449449 GAAAGAATTC
* *
42449459 ATCAAGTGGTTAGATGCGGGTATAGTTT
1 ATCAAGTGGGTAGATACGGGTATAGTTT
42449487 ATCAAGTGGGTAGATACGGGTATAGTTT
1 ATCAAGTGGGTAGATACGGGTATAGTTT
42449515 ATC
1 ATC
42449518 CCATCTCATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.27, C:0.08, G:0.31, T:0.34
Consensus pattern (28 bp):
ATCAAGTGGGTAGATACGGGTATAGTTT
Found at i:42457298 original size:27 final size:27
Alignment explanation
Indices: 42457267--42457444 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
42457257 TAAATTGTAC
42457267 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
42457294 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
42457320 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
42457348 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
42457376 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
42457403 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
42457430 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
42457445 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:42457381 original size:82 final size:81
Alignment explanation
Indices: 42457268--42457423 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
42457258 AAATTGTACA
* *
42457268 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
42457332 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
42457349 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
42457414 TGCGAGTTGA
65 TGCGAATTGA
42457424 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:42457435 original size:82 final size:81
Alignment explanation
Indices: 42457264--42457444 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
42457254 GATTAAATTG
* *
42457264 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
42457329 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
42457345 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
42457409 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
42457427 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
42457445 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:42465479 original size:27 final size:27
Alignment explanation
Indices: 42465448--42465625 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
42465438 TAAATTGTAC
42465448 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
42465475 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
42465501 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
42465529 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
42465557 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
42465584 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
42465611 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
42465626 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:42465562 original size:82 final size:81
Alignment explanation
Indices: 42465449--42465604 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
42465439 AAATTGTACA
* *
42465449 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
42465513 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
42465530 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
42465595 TGCGAGTTGA
65 TGCGAATTGA
42465605 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:42465616 original size:82 final size:81
Alignment explanation
Indices: 42465445--42465625 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
42465435 GATTAAATTG
* *
42465445 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
42465510 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
42465526 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
42465590 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
42465608 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
42465626 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:42485163 original size:46 final size:48
Alignment explanation
Indices: 42485113--42485227 Score: 171
Period size: 48 Copynumber: 2.4 Consensus size: 48
42485103 TAATACTTAT
* *
42485113 ATTATTATTTAAAAGAGTTTTAGAT-AAATAATA-AAAATAGAATTTA
1 ATTATTATTTAAAAGAGTTTTAAATAAAATAATATAAAATAGAATTAA
* *
42485159 ATTATTATTTAAAAGAGTTTTAAATAAAATATTATTAAATAGAATTAA
1 ATTATTATTTAAAAGAGTTTTAAATAAAATAATATAAAATAGAATTAA
*
42485207 AATATTATTTAAAAGAGTTTT
1 ATTATTATTTAAAAGAGTTTT
42485228 TAAAATTCAA
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
46 24 0.39
47 7 0.11
48 31 0.50
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (48 bp):
ATTATTATTTAAAAGAGTTTTAAATAAAATAATATAAAATAGAATTAA
Found at i:42488466 original size:40 final size:40
Alignment explanation
Indices: 42488382--42488565 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
42488372 TTGAATGCTG
* * * *
42488382 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
42488421 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
42488462 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
42488502 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
42488542 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
42488566 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:42488519 original size:80 final size:81
Alignment explanation
Indices: 42488382--42488562 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
42488372 TTGAATGCTG
* * *
42488382 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
42488446 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
42488462 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
42488523 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
42488542 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
42488563 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:42488586 original size:39 final size:38
Alignment explanation
Indices: 42488463--42488612 Score: 122
Period size: 40 Copynumber: 3.8 Consensus size: 38
42488453 GTTATTAATT
* ** * *
42488463 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACT-ATA
** * *
42488503 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-ATA
*
42488542 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATGA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAT-A
* *
42488582 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
42488613 GAGCTATATC
Statistics
Matches: 92, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
39 32 0.35
40 60 0.65
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTATA
Found at i:42496336 original size:40 final size:40
Alignment explanation
Indices: 42496252--42496435 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
42496242 TTGAATGCTG
* * * *
42496252 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
42496291 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
42496332 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
42496372 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
42496412 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
42496436 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:42496389 original size:80 final size:81
Alignment explanation
Indices: 42496252--42496432 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
42496242 TTGAATGCTG
* * *
42496252 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
42496316 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
42496332 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
42496393 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
42496412 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
42496433 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:42496456 original size:39 final size:38
Alignment explanation
Indices: 42496333--42496482 Score: 122
Period size: 40 Copynumber: 3.8 Consensus size: 38
42496323 GTTATTAATT
* ** * *
42496333 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACT-ATA
** * *
42496373 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-ATA
*
42496412 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATGA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAT-A
* *
42496452 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
42496483 GAGCTATATC
Statistics
Matches: 92, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
39 32 0.35
40 60 0.65
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTATA
Found at i:42507870 original size:50 final size:50
Alignment explanation
Indices: 42507795--42507894 Score: 182
Period size: 50 Copynumber: 2.0 Consensus size: 50
42507785 GAACTGGAGT
42507795 TACAGAGGATAAGTGATCTTCAACAGGTTTGGTGGCTTTCTTCACTGATC
1 TACAGAGGATAAGTGATCTTCAACAGGTTTGGTGGCTTTCTTCACTGATC
* *
42507845 TACAGAGGATGAGTGATCTTCAACAGGTTTGGTGGCTTTCTTCATTGATC
1 TACAGAGGATAAGTGATCTTCAACAGGTTTGGTGGCTTTCTTCACTGATC
42507895 CTCTCATTCT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (50 bp):
TACAGAGGATAAGTGATCTTCAACAGGTTTGGTGGCTTTCTTCACTGATC
Found at i:42517135 original size:23 final size:22
Alignment explanation
Indices: 42517100--42517144 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
42517090 ATTCATGTTT
*
42517100 AAGACAAAATAAAATTGGACAAC
1 AAGACAAAAT-AAATTCGACAAC
* *
42517123 AAGACATATTAAATTCGACAAC
1 AAGACAAAATAAATTCGACAAC
42517145 CACACTAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.56, C:0.16, G:0.11, T:0.18
Consensus pattern (22 bp):
AAGACAAAATAAATTCGACAAC
Found at i:42533386 original size:23 final size:23
Alignment explanation
Indices: 42533355--42533405 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
42533345 ACCTACTTTC
*
42533355 TTACTGTAGTAATTTTCAGGG-TA
1 TTACAGTAGTAATTTTC-GGGATA
42533378 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
42533401 TTACA
1 TTACA
42533406 ATTTCAATAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 3 0.12
23 23 0.88
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:42533757 original size:20 final size:20
Alignment explanation
Indices: 42533732--42533770 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
42533722 TACTTTCTTC
42533732 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
42533752 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
42533771 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:42539680 original size:40 final size:40
Alignment explanation
Indices: 42539635--42539733 Score: 144
Period size: 40 Copynumber: 2.5 Consensus size: 40
42539625 GCGTTTGGAT
42539635 AAAAAACGCCGCTAAAAATCAAGCATCAGCGGCACTTTTC
1 AAAAAACGCCGCTAAAAATCAAGCATCAGCGGCACTTTTC
* * * * *
42539675 AAAAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTTTTT
1 AAAAAACGCCGCTAAAAATCAAGCATCAGCGGCACTTTTC
*
42539715 GAAAAACGCCGCTAAAAAT
1 AAAAAACGCCGCTAAAAAT
42539734 GAGCATTAAC
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.39, C:0.24, G:0.18, T:0.18
Consensus pattern (40 bp):
AAAAAACGCCGCTAAAAATCAAGCATCAGCGGCACTTTTC
Found at i:42539771 original size:39 final size:40
Alignment explanation
Indices: 42539636--42539772 Score: 134
Period size: 40 Copynumber: 3.4 Consensus size: 40
42539626 CGTTTGGATA
* * * * * **
42539636 AAAAACGCCGCTAAAAATCAAGCATCAGCGGCACTTTTCA
1 AAAAACGCCGCTAAAAATCGAGCATTAACGACGCTTTTTG
* * *
42539676 AAAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTTTTTG
1 AAAAACGCCGCTAAAAATCGAGCATTAACGACGCTTTTTG
42539716 AAAAACGCCGCTAAAAAT-GAGCATTAACGACG-TTTCTTAG
1 AAAAACGCCGCTAAAAATCGAGCATTAACGACGCTTT-TT-G
* *
42539756 AAAAGCGCCGCAAAAAA
1 AAAAACGCCGCTAAAAA
42539773 CCTAAGCCCA
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
38 3 0.04
39 14 0.17
40 67 0.80
ACGTcount: A:0.39, C:0.23, G:0.19, T:0.18
Consensus pattern (40 bp):
AAAAACGCCGCTAAAAATCGAGCATTAACGACGCTTTTTG
Found at i:42539866 original size:41 final size:40
Alignment explanation
Indices: 42539821--42539919 Score: 135
Period size: 40 Copynumber: 2.5 Consensus size: 40
42539811 TTTAGCTGCA
*
42539821 TTTTTGAAAAAGCGCCGCTAATGCTCAGAGCTTTAGCGACG
1 TTTTTGAAAAAGCGCCGCTAATGCTC-GAGATTTAGCGACG
* * * *
42539862 TTTTTGGAAAAGCGTCGCTAATGCTCGGGATTTAGCGGCG
1 TTTTTGAAAAAGCGCCGCTAATGCTCGAGATTTAGCGACG
*
42539902 TTTTTAAAAAAGCGCCGC
1 TTTTTGAAAAAGCGCCGC
42539920 AAAAACATTT
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
40 26 0.52
41 24 0.48
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.28
Consensus pattern (40 bp):
TTTTTGAAAAAGCGCCGCTAATGCTCGAGATTTAGCGACG
Found at i:42539913 original size:40 final size:41
Alignment explanation
Indices: 42539811--42539919 Score: 139
Period size: 41 Copynumber: 2.7 Consensus size: 41
42539801 CTTTCGGGGC
* * *
42539811 TTTAGCTGCATTTTTGAAAAAGCGCCGCTAATGCTCAGAGC
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAGA
* * * *
42539852 TTTAGCGACGTTTTTGGAAAAGCGTCGCTAATGCTC-GGGA
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAGA
*
42539892 TTTAGCGGCGTTTTTAAAAAAGCGCCGC
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGC
42539920 AAAAACATTT
Statistics
Matches: 57, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
40 26 0.46
41 31 0.54
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAGA
Found at i:42540271 original size:14 final size:14
Alignment explanation
Indices: 42540254--42540290 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
42540244 GGGTTTAATA
*
42540254 TATATGTTTTAGGG
1 TATATGGTTTAGGG
42540268 TATATGGTTTAGGG
1 TATATGGTTTAGGG
42540282 TATATGGTT
1 TATATGGTT
42540291 AATTTAAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.49
Consensus pattern (14 bp):
TATATGGTTTAGGG
Found at i:42540371 original size:14 final size:15
Alignment explanation
Indices: 42540338--42540371 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
42540328 TAAGGTTTAT
42540338 AGATTATGGAATTAG
1 AGATTATGGAATTAG
42540353 AGATTATGG-ATTAG
1 AGATTATGGAATTAG
*
42540367 GGATT
1 AGATT
42540372 CTGGTTTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.35, C:0.00, G:0.29, T:0.35
Consensus pattern (15 bp):
AGATTATGGAATTAG
Found at i:42540538 original size:7 final size:7
Alignment explanation
Indices: 42540526--42540618 Score: 64
Period size: 7 Copynumber: 13.3 Consensus size: 7
42540516 AAATAATGTA
42540526 TAGGGGT
1 TAGGGGT
42540533 TAGGGGT
1 TAGGGGT
42540540 T-GGGGTT
1 TAGGGG-T
*
42540547 TGGGGGT
1 TAGGGGT
***
42540554 TAGTAAT
1 TAGGGGT
42540561 TAGGGGT
1 TAGGGGT
*
42540568 TTGGGGTT
1 TAGGGG-T
42540576 TA-GGGT
1 TAGGGGT
*
42540582 TTGGGGT
1 TAGGGGT
*
42540589 TTGGGGT
1 TAGGGGT
*
42540596 TTGGGGT
1 TAGGGGT
*
42540603 TAGTGGT
1 TAGGGGT
*
42540610 TAGAGGT
1 TAGGGGT
42540617 TA
1 TA
42540619 AGAGTTAGTG
Statistics
Matches: 69, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
6 6 0.09
7 57 0.83
8 6 0.09
ACGTcount: A:0.12, C:0.00, G:0.51, T:0.38
Consensus pattern (7 bp):
TAGGGGT
Found at i:42540553 original size:21 final size:21
Alignment explanation
Indices: 42540528--42540603 Score: 82
Period size: 21 Copynumber: 3.6 Consensus size: 21
42540518 ATAATGTATA
42540528 GGGGTTAGGGGTTGGGGTTTG
1 GGGGTTAGGGGTTGGGGTTTG
***
42540549 GGGGTTAGTAATTAGGGGTTTG
1 GGGGTTAGGGGTT-GGGGTTTG
* *
42540571 GGGTTTAGGGTTTGGGGTTT-
1 GGGGTTAGGGGTTGGGGTTTG
*
42540591 GGGGTTTGGGGTT
1 GGGGTTAGGGGTT
42540604 AGTGGTTAGA
Statistics
Matches: 44, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
20 10 0.23
21 17 0.39
22 17 0.39
ACGTcount: A:0.08, C:0.00, G:0.54, T:0.38
Consensus pattern (21 bp):
GGGGTTAGGGGTTGGGGTTTG
Found at i:42540610 original size:14 final size:14
Alignment explanation
Indices: 42540528--42540610 Score: 71
Period size: 14 Copynumber: 5.9 Consensus size: 14
42540518 ATAATGTATA
42540528 GGGGTTAGGGG-TT
1 GGGGTTAGGGGTTT
* *
42540541 GGGGTTTGGGGGTTA
1 GGGG-TTAGGGGTTT
***
42540556 GTAATTAGGGGTTT
1 GGGGTTAGGGGTTT
42540570 GGGGTTTA-GGGTTT
1 GGGG-TTAGGGGTTT
*
42540584 GGGGTTTGGGGTTT
1 GGGGTTAGGGGTTT
*
42540598 GGGGTTAGTGGTT
1 GGGGTTAGGGGTT
42540611 AGAGGTTAAG
Statistics
Matches: 53, Mismatches: 13, Indels: 7
0.73 0.18 0.10
Matches are distributed among these distances:
13 6 0.11
14 42 0.79
15 5 0.09
ACGTcount: A:0.08, C:0.00, G:0.53, T:0.39
Consensus pattern (14 bp):
GGGGTTAGGGGTTT
Found at i:42540774 original size:7 final size:7
Alignment explanation
Indices: 42540731--42540770 Score: 62
Period size: 7 Copynumber: 5.6 Consensus size: 7
42540721 ATTGTAAAAG
42540731 AGGGGTT
1 AGGGGTT
42540738 AGGGGTT
1 AGGGGTT
*
42540745 AGAGGTT
1 AGGGGTT
42540752 AGGGGTT
1 AGGGGTT
42540759 AGGGGTTT
1 AGGGG-TT
42540767 AGGG
1 AGGG
42540771 TTTATGTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
7 24 0.80
8 6 0.20
ACGTcount: A:0.17, C:0.00, G:0.55, T:0.28
Consensus pattern (7 bp):
AGGGGTT
Found at i:42541508 original size:147 final size:147
Alignment explanation
Indices: 42541331--42541624 Score: 463
Period size: 147 Copynumber: 2.0 Consensus size: 147
42541321 GCGGCGTTTT
*
42541331 GGTAAGCAATAGCGGCGTTTTATAAAAAAAATGCCACAAAAAATAATTTTACTTT-AAAAAAATA
1 GGTAAGCAATAGCGACGTTTTATAAAAAAAATGCCACAAAAAATAATTTT--TTTAAAAAAAATA
42541395 GCGCCATTTTATATAGCAAAACAGTGTCGTTTTAATCCAAATGAAATAA-TTTTTGCGGC-GTTT
64 GCGCCATTTTATATAGCAAAACAGTGTCGTTTTAATCCAAATGAAATAATTTTTTGCGGCAGTTT
42541458 TTATGAAAAACG-CTGCAAAA
129 TTAT-AAAAACGTC-GCAAAA
*
42541478 GGTAAGCAATAGCGACATTTT-TATAAAAAAATGCCACAAAAAATAATTTTTTTAAAAAAAATAG
1 GGTAAGCAATAGCGACGTTTTATA-AAAAAAATGCCACAAAAAATAATTTTTTTAAAAAAAATAG
* * *
42541542 CGCCATTTTATATAGCAAAACAGTGTCGTTTTATTCCAAATGAAATAATTTTTTGTGGCATTTTT
65 CGCCATTTTATATAGCAAAACAGTGTCGTTTTAATCCAAATGAAATAATTTTTTGCGGCAGTTTT
42541607 TATAAAAACGTCGCAAAA
130 TATAAAAACGTCGCAAAA
42541625 TTCATTTCAC
Statistics
Matches: 137, Mismatches: 5, Indels: 10
0.90 0.03 0.07
Matches are distributed among these distances:
145 3 0.02
146 59 0.43
147 67 0.49
148 8 0.06
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.32
Consensus pattern (147 bp):
GGTAAGCAATAGCGACGTTTTATAAAAAAAATGCCACAAAAAATAATTTTTTTAAAAAAAATAGC
GCCATTTTATATAGCAAAACAGTGTCGTTTTAATCCAAATGAAATAATTTTTTGCGGCAGTTTTT
ATAAAAACGTCGCAAAA
Found at i:42542360 original size:6 final size:6
Alignment explanation
Indices: 42542344--42542376 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
42542334 TGTGGTTTGA
42542344 TTTTA- TTTTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
42542377 TTGAGGGGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:42543779 original size:18 final size:18
Alignment explanation
Indices: 42543756--42543791 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
42543746 TATTTTTCAT
*
42543756 TTGCTTCAATTTCTATGC
1 TTGCTTCAATTTCCATGC
42543774 TTGCTTCAATTTCCATGC
1 TTGCTTCAATTTCCATGC
42543792 CTTACAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.25, G:0.11, T:0.47
Consensus pattern (18 bp):
TTGCTTCAATTTCCATGC
Found at i:42544764 original size:43 final size:43
Alignment explanation
Indices: 42544631--42544764 Score: 166
Period size: 43 Copynumber: 3.1 Consensus size: 43
42544621 AAAGTCATGT
* * *
42544631 TTTTAGCGGCGTTTGT-GAAAAAGCGTCGCTAAAGGTCAT-TC
1 TTTTAGTGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGAC
* * *
42544672 TTTATAGTGGCGTTTGTGGTAGAAGCGCCGCAAAAGGTCATGA-
1 TTT-TAGTGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGAC
*
42544715 TCTTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGAC
1 T-TTTAGTGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGAC
42544759 TTTTAG
1 TTTTAG
42544765 CGGCATTTTT
Statistics
Matches: 79, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
41 3 0.04
42 12 0.15
43 61 0.77
44 3 0.04
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.31
Consensus pattern (43 bp):
TTTTAGTGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGAC
Found at i:42544784 original size:85 final size:84
Alignment explanation
Indices: 42544619--42544814 Score: 211
Period size: 85 Copynumber: 2.3 Consensus size: 84
42544609 TAATTTTTTT
* * * * *
42544619 TAAAAGTCATGTTTTTAGCGGCGTTTGTGAAAAAGCGTCGCTAAAGGTCATTCTTTATAGTGGCG
1 TAAAAGTCATGTCTTTAGCGGCGTTTGTGAAAAAGCGCCGCTAAAGGTCATACTTTATAGCGGCA
*
42544684 TTTGTGGTAGAAGCGCCGC
66 TTTGTGATAGAAGCGCCGC
* *
42544703 -AAAAGGTCATGATCTTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGACTTT-TAGC
1 TAAAA-GTCATG-TCTTTAGCGGCGTTTGT-GAAAAAGCGCCGCTAAAGGTCAT-ACTTTATAGC
* *
42544766 GGCATTT-TTATA-ATAGCGCTGC
62 GGCATTTGTGATAGA-AGCGCCGC
*
42544788 TAAAAGTCATGGCCTTTAGCGGCGTTT
1 TAAAAGTCAT-GTCTTTAGCGGCGTTT
42544815 ATTTCTAAAA
Statistics
Matches: 93, Mismatches: 12, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
83 4 0.04
84 7 0.08
85 43 0.46
86 35 0.38
87 4 0.04
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (84 bp):
TAAAAGTCATGTCTTTAGCGGCGTTTGTGAAAAAGCGCCGCTAAAGGTCATACTTTATAGCGGCA
TTTGTGATAGAAGCGCCGC
Found at i:42546007 original size:90 final size:90
Alignment explanation
Indices: 42545854--42546034 Score: 317
Period size: 90 Copynumber: 2.0 Consensus size: 90
42545844 AAAACCACAA
* * * *
42545854 ACATATTGGTTAAAATTATTAACATAATTGCATGCTTTACTGTGCATTTGAGCTTGAATTCCATC
1 ACATATTGGTCAAAATTATTAACATAATTGCATGCATTACTGTACATTTGAGCTTGAATTCCATA
42545919 TATTAACTCCCATTATACCTATTAT
66 TATTAACTCCCATTATACCTATTAT
42545944 ACATATTGGTCAAAATTATTAACATAATTGCATGCATTACTGTACATTTGAGCTTGAATTCCATA
1 ACATATTGGTCAAAATTATTAACATAATTGCATGCATTACTGTACATTTGAGCTTGAATTCCATA
*
42546009 TATTAACTCCCATTATACCTGTTAT
66 TATTAACTCCCATTATACCTATTAT
42546034 A
1 A
42546035 GCTTAAATTT
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
90 86 1.00
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.40
Consensus pattern (90 bp):
ACATATTGGTCAAAATTATTAACATAATTGCATGCATTACTGTACATTTGAGCTTGAATTCCATA
TATTAACTCCCATTATACCTATTAT
Found at i:42546285 original size:16 final size:16
Alignment explanation
Indices: 42546261--42546328 Score: 84
Period size: 16 Copynumber: 4.2 Consensus size: 16
42546251 TGGTTCACTA
*
42546261 TAATGAAATAGAGCTG
1 TAATTAAATAGAGCTG
*
42546277 TAATTAAATAGAGTTG
1 TAATTAAATAGAGCTG
* *
42546293 TAATTGAATAGAGTTG
1 TAATTAAATAGAGCTG
42546309 TAATGT-AATAGAGCTG
1 TAAT-TAAATAGAGCTG
42546325 TAAT
1 TAAT
42546329 CAGTAATCCA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
16 46 0.98
17 1 0.02
ACGTcount: A:0.41, C:0.03, G:0.22, T:0.34
Consensus pattern (16 bp):
TAATTAAATAGAGCTG
Found at i:42546584 original size:58 final size:58
Alignment explanation
Indices: 42546505--42546627 Score: 167
Period size: 58 Copynumber: 2.1 Consensus size: 58
42546495 TTTTAATAAG
* * *
42546505 ATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAACCATATT-TTAACATA
1 ATTATTAATAAAAATAATTTAAT-AAAATAATAAATAATTTAACAAAATTCTTAACATA
* * * *
42546563 ATTATTAATAAATATAATTTAATAAAATAATATATAATTTAATAAAATTCTTAATATA
1 ATTATTAATAAAAATAATTTAATAAAATAATAAATAATTTAACAAAATTCTTAACATA
42546621 ATTATTA
1 ATTATTA
42546628 TATGAATTAA
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
57 22 0.39
58 35 0.61
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.42
Consensus pattern (58 bp):
ATTATTAATAAAAATAATTTAATAAAATAATAAATAATTTAACAAAATTCTTAACATA
Found at i:42546599 original size:20 final size:19
Alignment explanation
Indices: 42546569--42546610 Score: 75
Period size: 20 Copynumber: 2.2 Consensus size: 19
42546559 CATAATTATT
42546569 AATAAATATAATTTAATAA
1 AATAAATATAATTTAATAA
42546588 AATAATATATAATTTAATAA
1 AATAA-ATATAATTTAATAA
42546608 AAT
1 AAT
42546611 TCTTAATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AATAAATATAATTTAATAA
Found at i:42552097 original size:3 final size:3
Alignment explanation
Indices: 42552089--42552119 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
42552079 TAATATTACC
42552089 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
42552120 GCTTTTTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:42556327 original size:19 final size:17
Alignment explanation
Indices: 42556293--42556328 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
42556283 CGCCTTCTTG
42556293 CATTCATCATTGCATTA
1 CATTCATCATTGCATTA
42556310 CATTGCATCATATGCATTA
1 CATT-CATCAT-TGCATTA
42556329 AAGTCCACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 6 0.35
19 7 0.41
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (17 bp):
CATTCATCATTGCATTA
Done.