Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold25
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: 9553305
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 6276 characters in sequence are not A, C, G, or T
File 42 of 56
Found at i:7123535 original size:40 final size:40
Alignment explanation
Indices: 7123480--7123559 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
7123470 TCGTGTGAAC
7123480 ACATGTATGGAATTATGAAATGAAAGCATGAAATCCAATG
1 ACATGTATGGAATTATGAAATGAAAGCATGAAATCCAATG
*
7123520 ACATGTATGGAATTATGAAATGAAAGCTTGAAATCCAATG
1 ACATGTATGGAATTATGAAATGAAAGCATGAAATCCAATG
7123560 CAATGCAATG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.44, C:0.10, G:0.20, T:0.26
Consensus pattern (40 bp):
ACATGTATGGAATTATGAAATGAAAGCATGAAATCCAATG
Found at i:7123618 original size:55 final size:55
Alignment explanation
Indices: 7123534--7123637 Score: 163
Period size: 55 Copynumber: 1.9 Consensus size: 55
7123524 GTATGGAATT
* *
7123534 ATGAAATGAAAGCTTGAAATCCAATGCAATGCAATGACATATATGGAATTATGAA
1 ATGAAATGAAAGCATGAAATCCAATGCAATGCAATGACACATATGGAATTATGAA
* * *
7123589 ATGAAATGAAAGCATGGAATCGAATGCAATGCAATGACACGTATGGAAT
1 ATGAAATGAAAGCATGAAATCCAATGCAATGCAATGACACATATGGAAT
7123638 CCAATGCAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 44 1.00
ACGTcount: A:0.44, C:0.12, G:0.21, T:0.23
Consensus pattern (55 bp):
ATGAAATGAAAGCATGAAATCCAATGCAATGCAATGACACATATGGAATTATGAA
Found at i:7123736 original size:30 final size:31
Alignment explanation
Indices: 7123702--7123765 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 31
7123692 CATTAATTCA
** *
7123702 ATTTTTTTAAT-TTTATTTTATTTTTTTATT
1 ATTTTTTTAATACATATTTTATTTATTTATT
7123732 A-TTTTTTAATACATATTTTATTTATTTATT
1 ATTTTTTTAATACATATTTTATTTATTTATT
7123762 -TTTT
1 ATTTT
7123766 ATTTTTATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.31
30 20 0.69
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (31 bp):
ATTTTTTTAATACATATTTTATTTATTTATT
Found at i:7124340 original size:42 final size:41
Alignment explanation
Indices: 7124294--7125012 Score: 356
Period size: 42 Copynumber: 17.1 Consensus size: 41
7124284 AAAAGGTGGA
* *
7124294 AAAGTCTCCAGGGTTAAAGCCGATAGGCAGACTGAGGGTAGG
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGA-GGTAGG
* * * *
7124336 AAAGTTTCCAAGGTCAAAGCCGACAAGCAAACTTGAGGTAAGG
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGAC-TGAGGT-AGG
* * * * * * *
7124379 -CAGTCTCCAGGGTCAAAGCCAATAGGTATACTTTAGATGAGG
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGAC-TGAGGT-AGG
* * ** * **
7124421 -CAGTCTCTAGGGTCAAAGCTAACAGGCAGACTGAAAGTATA
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTG-AGGTAGG
* * * *
7124462 AAAGTCTCCAGGGTCAAAGCTGATAGGCAGACTTCAGATAAGG
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGAC-TGAGGT-AGG
* * * *
7124505 -CAGTCTCTAGGGTCAAAGCCAACAGGCAGATTGAGGGTAGG
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGA-GGTAGG
* * * * *
7124546 AAAGCCTCAAGGGTCAAAGTCGACAGGCAGACATTAGATGAGG
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGAC-TGAGGT-AGG
* * *
7124589 -CAGTCTCCAAGGTCAAAGCCGACAGGCAAACTGAGGGTAGG
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGA-GGTAGG
* * * * * *
7124630 AAAGTCTCCAAGATCAAAGCTGACACGCAGACTAAGGGTAAG
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGA-GGTAGG
* ** * * *
7124672 AAAGTCTCCAAGGTCAAAGATGACAGACAGACTTTAGATGAGG
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGAC-TGAGGT-AGG
* * ** * *
7124715 -TAGTCTCTAGGGTCAAAGCCGACAACCAGACTAAAGGTAAG
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGACT-GAGGTAGG
* * * * ** *
7124756 AAAGTCTCTAGGGTCAAAGCTGACATGCAGACTTTA-AAATG
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGAC-TGAGGTAGG
* * * * * *
7124797 ACGCAGTCTTCAGAGTCAAAGCCGATAGACAGACTGAGGGTAGA
1 A--AAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGA-GGTAGG
* * * * * *
7124841 AAAGTCTCTAGGGTCAAAGCTGACAAGTAGACTTTAGATGAGG
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGAC-TGAGGT-AGG
* * * * *
7124884 -CAGTCTCCAAGGTTAAACCCGACAAGCAGACTGAGGGTAGG
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGA-GGTAGG
* * * * *
7124925 AAAGTCTCTAGGGTCAAAGCCGACAAGCAAACTTTAGAT-GAG
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGAC-TGAGGTAG-G
* * * * * *
7124967 ATAGTCTCTAGGGTCAAAGCCGATAGGTAGATTGAGGTAGA
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAGGTAGG
7125008 AAAGT
1 AAAGT
7125013 TTCCTAGCGC
Statistics
Matches: 505, Mismatches: 144, Indels: 57
0.72 0.20 0.08
Matches are distributed among these distances:
41 32 0.06
42 424 0.84
43 47 0.09
44 2 0.00
ACGTcount: A:0.35, C:0.19, G:0.28, T:0.18
Consensus pattern (41 bp):
AAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAGGTAGG
Found at i:7124875 original size:169 final size:168
Alignment explanation
Indices: 7124657--7125012 Score: 425
Period size: 169 Copynumber: 2.1 Consensus size: 168
7124647 AGCTGACACG
* *
7124657 CAGACTAAGGGTA-AGAAAGTCTCCAAGGTCAAAGATGACAGACAGACTTTAGATGAGGTAGTCT
1 CAGACTGAGGGTAGA-AAAGTCTCCAAGGTCAAAGATGACAGACAGACTTTAGATGAGGCAGTCT
* * * * * *
7124721 CTAGGGTCAAAGCCGACAACCAGACTAAAGGTAAGAAAGTCTCTAGGGTCAAAGCTGACATGCAG
65 CCAAGGTCAAACCCGACAACCAGACTAAAGGTAAGAAAGTCTCTAGGGTCAAAGCCGACAAGCAA
7124786 ACTTTAAAATGACG-CAGTCT-TCAGAGTCAAAGCCGATAGA
130 ACTTT-AAATGA-GACAGTCTCT-AGAGTCAAAGCCGATAGA
* * * *
7124826 CAGACTGAGGGTAGAAAAGTCTCTAGGGTCAAAGCTGACA-AGTAGACTTTAGATGAGGCAGTCT
1 CAGACTGAGGGTAGAAAAGTCTCCAAGGTCAAAGATGACAGA-CAGACTTTAGATGAGGCAGTCT
* * * * *
7124890 CCAAGGTTAAACCCGACAAGCAGACTGAGGGTAGGAAAGTCTCTAGGGTCAAAGCCGACAAGCAA
65 CCAAGGTCAAACCCGACAACCAGACTAAAGGTAAGAAAGTCTCTAGGGTCAAAGCCGACAAGCAA
* * * *
7124955 ACTTTAGATGAGATAGTCTCTAGGGTCAAAGCCGATAGG
130 ACTTTAAATGAGACAGTCTCTAGAGTCAAAGCCGATAGA
* *
7124994 TAGATTGA-GGTAGAAAAGT
1 CAGACTGAGGGTAGAAAAGT
7125013 TTCCTAGCGC
Statistics
Matches: 160, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
167 12 0.08
168 33 0.21
169 114 0.71
170 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.19
Consensus pattern (168 bp):
CAGACTGAGGGTAGAAAAGTCTCCAAGGTCAAAGATGACAGACAGACTTTAGATGAGGCAGTCTC
CAAGGTCAAACCCGACAACCAGACTAAAGGTAAGAAAGTCTCTAGGGTCAAAGCCGACAAGCAAA
CTTTAAATGAGACAGTCTCTAGAGTCAAAGCCGATAGA
Found at i:7125003 original size:84 final size:84
Alignment explanation
Indices: 7124643--7124989 Score: 394
Period size: 84 Copynumber: 4.1 Consensus size: 84
7124633 GTCTCCAAGA
* * * * * * *
7124643 TCAAAGCTGACACGCAGACTAAGGGTAAGAAAGTCTCCAAGGTCAAAGATGAC-AGACAGACTTT
1 TCAAAGCCGACAAGCAGACTGAGGGTAGGAAAGTCTCTAGGGTCAAAGCTGACAAG-CAGACTTT
*
7124707 AGATGAGGTAGTCTCTAGGG
65 AGATGAGGCAGTCTCTAGGG
* * * * *
7124727 TCAAAGCCGACAACCAGACTAAAGGTAAGAAAGTCTCTAGGGTCAAAGCTGACATGCAGACTTTA
1 TCAAAGCCGACAAGCAGACTGAGGGTAGGAAAGTCTCTAGGGTCAAAGCTGACAAGCAGACTTT-
* * *
7124792 AAATGACGCAGTCT-TCAGAG
65 AGATGAGGCAGTCTCT-AGGG
* * *
7124812 TCAAAGCCGA-TAGACAGACTGAGGGTAGAAAAGTCTCTAGGGTCAAAGCTGACAAGTAGACTTT
1 TCAAAGCCGACAAG-CAGACTGAGGGTAGGAAAGTCTCTAGGGTCAAAGCTGACAAGCAGACTTT
* *
7124876 AGATGAGGCAGTCTCCAAGG
65 AGATGAGGCAGTCTCTAGGG
* * * *
7124896 TTAAACCCGACAAGCAGACTGAGGGTAGGAAAGTCTCTAGGGTCAAAGCCGACAAGCAAACTTTA
1 TCAAAGCCGACAAGCAGACTGAGGGTAGGAAAGTCTCTAGGGTCAAAGCTGACAAGCAGACTTTA
**
7124961 GATGAGATAGTCTCTAGGG
66 GATGAGGCAGTCTCTAGGG
7124980 TCAAAGCCGA
1 TCAAAGCCGA
7124990 TAGGTAGATT
Statistics
Matches: 219, Mismatches: 38, Indels: 12
0.81 0.14 0.04
Matches are distributed among these distances:
84 148 0.68
85 71 0.32
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.19
Consensus pattern (84 bp):
TCAAAGCCGACAAGCAGACTGAGGGTAGGAAAGTCTCTAGGGTCAAAGCTGACAAGCAGACTTTA
GATGAGGCAGTCTCTAGGG
Found at i:7126437 original size:18 final size:18
Alignment explanation
Indices: 7126383--7126437 Score: 74
Period size: 18 Copynumber: 2.9 Consensus size: 18
7126373 TTCATTCGAT
*
7126383 TTTTTTTCTTTTTTTTCA
1 TTTTTTTCTTTTTTTTTA
7126401 TTTTTTTCTTTTTAATTTTA
1 TTTTTTTCTTTTT--TTTTA
*
7126421 TTTTTCTCTTTTTTTTT
1 TTTTTTTCTTTTTTTTT
7126438 TTTGCACAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 17 0.52
20 16 0.48
ACGTcount: A:0.07, C:0.09, G:0.00, T:0.84
Consensus pattern (18 bp):
TTTTTTTCTTTTTTTTTA
Found at i:7126439 original size:20 final size:20
Alignment explanation
Indices: 7126391--7126439 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
7126381 ATTTTTTTTC
* *
7126391 TTTTTTTTCATTTTTTTCTT
1 TTTTTTTTTATTTTTCTCTT
**
7126411 TTTAATTTTATTTTTCTCTT
1 TTTTTTTTTATTTTTCTCTT
7126431 TTTTTTTTT
1 TTTTTTTTT
7126440 TGCACAATAT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (20 bp):
TTTTTTTTTATTTTTCTCTT
Found at i:7140087 original size:72 final size:72
Alignment explanation
Indices: 7139970--7140113 Score: 279
Period size: 72 Copynumber: 2.0 Consensus size: 72
7139960 TTTTCATTTA
7139970 TTACAATTGTTCACGTGTGAACACATGTATGGAATTATGAAGTGAAAGCATGAAATCCAATGCAA
1 TTACAATTGTTCACGTGTGAACACATGTATGGAATTATGAAGTGAAAGCATGAAATCCAATGCAA
7140035 TGCAATG
66 TGCAATG
7140042 TTACAATTGTTCACGTGTGAACACATGTATGGAATTATGAAGTGAAAGCATGAAATCCAATGCAA
1 TTACAATTGTTCACGTGTGAACACATGTATGGAATTATGAAGTGAAAGCATGAAATCCAATGCAA
*
7140107 TTCAATG
66 TGCAATG
7140114 ACACGTATGC
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (72 bp):
TTACAATTGTTCACGTGTGAACACATGTATGGAATTATGAAGTGAAAGCATGAAATCCAATGCAA
TGCAATG
Found at i:7140294 original size:30 final size:29
Alignment explanation
Indices: 7140258--7140345 Score: 85
Period size: 30 Copynumber: 3.0 Consensus size: 29
7140248 TAATTTGATT
7140258 TTTTTTAATTTTAATTTTATTTTATTATTA
1 TTTTTTAATTTT-ATTTTATTTTATTATTA
*
7140288 TTTTTTAATACATT-TTTTATTTT-TTAATTA
1 TTTTTTAAT--TTTATTTTATTTTATT-ATTA
7140318 TTTATTT-A-TTTATTTTATTTTTATTATT
1 TTT-TTTAATTTTATTTTA-TTTTATTATT
7140346 CATATTAAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
27 2 0.04
28 5 0.10
29 9 0.18
30 28 0.57
31 3 0.06
32 2 0.04
ACGTcount: A:0.25, C:0.01, G:0.00, T:0.74
Consensus pattern (29 bp):
TTTTTTAATTTTATTTTATTTTATTATTA
Found at i:7140309 original size:19 final size:19
Alignment explanation
Indices: 7140285--7140328 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
7140275 TATTTTATTA
7140285 TTATTTTTTAATACATTT-T
1 TTATTTTTTAAT-CATTTAT
*
7140304 TTATTTTTTAATTATTTAT
1 TTATTTTTTAATCATTTAT
7140323 TTATTT
1 TTATTT
7140329 ATTTTATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (19 bp):
TTATTTTTTAATCATTTAT
Found at i:7140862 original size:30 final size:30
Alignment explanation
Indices: 7140826--7140885 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
7140816 AAGAGAATGT
*
7140826 TTCTTACACTTGTAATAGGAGGACCATCAA
1 TTCTTACACTTGTAATAAGAGGACCATCAA
7140856 TTCTTACACTTGTAATAAGAGGACCATCAA
1 TTCTTACACTTGTAATAAGAGGACCATCAA
7140886 ACGAATTGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (30 bp):
TTCTTACACTTGTAATAAGAGGACCATCAA
Found at i:7143760 original size:24 final size:23
Alignment explanation
Indices: 7143699--7143760 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 23
7143689 GACATGAATT
*
7143699 TAAAATAATTAAAAATTGGCTCAA
1 TAAAATAATT-AAAATAGGCTCAA
* *
7143723 TATAAGTAAATAAAATAGGCTCAAA
1 TA-AAATAATTAAAATAGGCTC-AA
*
7143748 TAAATTAATTAAA
1 TAAAATAATTAAA
7143761 TAAGCACGTG
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
24 21 0.68
25 10 0.32
ACGTcount: A:0.56, C:0.06, G:0.08, T:0.29
Consensus pattern (23 bp):
TAAAATAATTAAAATAGGCTCAA
Found at i:7143761 original size:23 final size:24
Alignment explanation
Indices: 7143701--7143762 Score: 63
Period size: 23 Copynumber: 2.6 Consensus size: 24
7143691 CATGAATTTA
* *
7143701 AAATAATTAAAAATTGGCTCAATAT
1 AAATAAAT-AAAATAGGCTCAATAT
*
7143726 AAGTAAATAAAATAGGCTCAA-AT
1 AAATAAATAAAATAGGCTCAATAT
* *
7143749 AAATTAATTAAATA
1 AAATAAATAAAATA
7143763 AGCACGTGAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
23 13 0.42
24 12 0.39
25 6 0.19
ACGTcount: A:0.56, C:0.06, G:0.08, T:0.29
Consensus pattern (24 bp):
AAATAAATAAAATAGGCTCAATAT
Found at i:7144445 original size:17 final size:17
Alignment explanation
Indices: 7144423--7144461 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
7144413 CACTAAAAGA
*
7144423 ATAATTAATACTAAAAC
1 ATAATTAATAATAAAAC
7144440 ATAATTAATAATAAAAC
1 ATAATTAATAATAAAAC
7144457 ATAAT
1 ATAAT
7144462 ATTATAATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (17 bp):
ATAATTAATAATAAAAC
Found at i:7147105 original size:21 final size:21
Alignment explanation
Indices: 7147068--7147110 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
7147058 TATCCCAACT
*
7147068 TATATAGTCAAAATATTTATG
1 TATATAGTCAAAATATTAATG
*
7147089 TATATA-TCAACACTATTAATG
1 TATATAGTCAA-AATATTAATG
7147110 T
1 T
7147111 TAAATCTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.42
Consensus pattern (21 bp):
TATATAGTCAAAATATTAATG
Found at i:7151234 original size:17 final size:17
Alignment explanation
Indices: 7151212--7151244 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
7151202 ATCAAAAAAT
*
7151212 CAAACATAGATAAATCC
1 CAAACACAGATAAATCC
7151229 CAAACACAGATAAATC
1 CAAACACAGATAAATC
7151245 AATCTTGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.24, G:0.06, T:0.15
Consensus pattern (17 bp):
CAAACACAGATAAATCC
Found at i:7158696 original size:52 final size:52
Alignment explanation
Indices: 7158618--7158744 Score: 209
Period size: 52 Copynumber: 2.4 Consensus size: 52
7158608 AAATATAAAC
* *
7158618 ATTTGCGTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGAAA
1 ATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGAAA
* *
7158670 ATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTAGGCAA
1 ATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGAAA
*
7158722 ATTTGCCTGCATGTATCAATACA
1 ATTTGCCTGCATGTATCGATACA
7158745 AAGATTAGTA
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.35
Consensus pattern (52 bp):
ATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGAAA
Found at i:7158759 original size:52 final size:52
Alignment explanation
Indices: 7158618--7158764 Score: 170
Period size: 52 Copynumber: 2.8 Consensus size: 52
7158608 AAATATAAAC
* * ** *
7158618 ATTTGCGTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGAAA
1 ATTTGCCTGCATGTATCAATACATAACATAGTGTATCGATACATCTAGGAAA
* * ** *
7158670 ATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTAGGCAA
1 ATTTGCCTGCATGTATCAATACATAACATAGTGTATCGATACATCTAGGAAA
* *
7158722 ATTTGCCTGCATGTATCAATACA-AAGATTAGTATATCGATACA
1 ATTTGCCTGCATGTATCAATACATAACA-TAGTGTATCGATACA
7158765 ATGTATCGAT
Statistics
Matches: 84, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
51 1 0.01
52 83 0.99
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (52 bp):
ATTTGCCTGCATGTATCAATACATAACATAGTGTATCGATACATCTAGGAAA
Found at i:7158864 original size:32 final size:33
Alignment explanation
Indices: 7158818--7158883 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 33
7158808 AGTAGCTTAA
*
7158818 ATTGTATCGATACAAAAC-TTATGTATCGATAC
1 ATTGCATCGATACAAAACTTTATGTATCGATAC
*
7158850 ATTGCATCGATACAACACTTTATGTATCGATAC
1 ATTGCATCGATACAAAACTTTATGTATCGATAC
7158883 A
1 A
7158884 AATCGTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 16 0.52
33 15 0.48
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGCATCGATACAAAACTTTATGTATCGATAC
Found at i:7159102 original size:19 final size:19
Alignment explanation
Indices: 7159078--7159117 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
7159068 CATTTTCGTC
*
7159078 CCCACATACGTCGAATATT
1 CCCACATACGTCGAAAATT
7159097 CCCACATACGTCGAAAATT
1 CCCACATACGTCGAAAATT
7159116 CC
1 CC
7159118 ACCTACTAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.35, G:0.10, T:0.23
Consensus pattern (19 bp):
CCCACATACGTCGAAAATT
Found at i:7159962 original size:43 final size:43
Alignment explanation
Indices: 7159846--7160264 Score: 415
Period size: 43 Copynumber: 9.2 Consensus size: 43
7159836 TAAAGATGGA
* ** *
7159846 AAAGGTGCCAATAAGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
* *
7159889 AAAGGTGAAGGTGCCAATGTGATGATTCAAGGCCAGCGACATTGGACTT
1 AAA---G-A--TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
* *
7159938 AAAGATGCCAATGTGTTGACTCAAGGCCAGCTACATTGGACTT
1 AAAGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
* * *
7159981 AAAGATGAGGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 -AA-A-GA---TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
* *
7160030 AAAGGTGCCAATGTGCTGATTCAAGGCAAGCTACATTGGACTT
1 AAAGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
* * *
7160073 AAAAGATGAGGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 --AA-A-GA---TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
* *
7160123 AAAGGTGCCAATGTGCTGATTCAAGGTCAGCTACATTGGACTT
1 AAAGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
* * *
7160166 AAAGTTGAAGGTGCCAATATGTTGATTCAAGGCCAGCTATATTGGACTT
1 AAA---G-A--TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
*
7160215 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
7160258 AAAGATG
1 AAAGATG
7160265 AAGGTGCCAA
Statistics
Matches: 312, Mismatches: 39, Indels: 50
0.78 0.10 0.12
Matches are distributed among these distances:
43 150 0.48
44 2 0.01
45 4 0.01
46 9 0.03
47 3 0.01
48 4 0.01
49 106 0.34
50 34 0.11
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (43 bp):
AAAGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
Found at i:7160008 original size:92 final size:92
Alignment explanation
Indices: 7159846--7160312 Score: 754
Period size: 92 Copynumber: 5.1 Consensus size: 92
7159836 TAAAGATGGA
** * * * *
7159846 AAAGGTGCCAATAAGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGCCAATGTGA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
*
7159911 TGATTCAAGGCCAGCGACATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* * * *
7159938 AAAGATGCCAATGTGTTGACTCAAGGCCAGCTACATTGGACTTAAAGATGAGGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
7160003 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* *
7160030 AAAGGTGCCAATGTGCTGATTCAAGGCAAGCTACATTGGACTTAAAAGATGAGGGTGCCAATATG
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT-AAAGATGAAGGTGCCAATATG
7160095 CTGATTCAAGGCCAGCGATATTGGACTT
65 CTGATTCAAGGCCAGCGATATTGGACTT
* * *
7160123 AAAGGTGCCAATGTGCTGATTCAAGGTCAGCTACATTGGACTTAAAGTTGAAGGTGCCAATATGT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
*
7160188 TGATTCAAGGCCAGCTATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
7160215 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
*
7160280 TGATTCAAGGCCAGCGATATTGGGCTT
66 TGATTCAAGGCCAGCGATATTGGACTT
7160307 AGAAGG
1 A-AAGG
7160313 GTTGCCACCG
Statistics
Matches: 347, Mismatches: 26, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
92 253 0.73
93 94 0.27
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
TGATTCAAGGCCAGCGATATTGGACTT
Found at i:7160134 original size:185 final size:184
Alignment explanation
Indices: 7159846--7160312 Score: 754
Period size: 185 Copynumber: 2.5 Consensus size: 184
7159836 TAAAGATGGA
** * * * *
7159846 AAAGGTGCCAATAAGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGCCAATGTGA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* * *
7159911 TGATTCAAGGCCAGCGACATTGGACTTAAAGATGCCAATGTGTTGACTCAAGGCCAGCTACATTG
66 TGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGACTCAAGGCCAGCTACATTG
*
7159976 GACTTAAAGATGAGGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
131 GACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
* *
7160030 AAAGGTGCCAATGTGCTGATTCAAGGCAAGCTACATTGGACTTAAAAGATGAGGGTGCCAATATG
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT-AAAGATGAAGGTGCCAATATG
* *
7160095 CTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGTCAGCTACATT
65 CTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGACTCAAGGCCAGCTACATT
* * *
7160160 GGACTTAAAGTTGAAGGTGCCAATATGTTGATTCAAGGCCAGCTATATTGGACTT
130 GGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
7160215 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
*
7160280 TGATTCAAGGCCAGCGATATTGGGCTTAGAAGG
66 TGATTCAAGGCCAGCGATATTGGACTTA-AAGG
7160313 GTTGCCACCG
Statistics
Matches: 261, Mismatches: 20, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
184 87 0.33
185 174 0.67
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (184 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
TGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGACTCAAGGCCAGCTACATTG
GACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
Found at i:7160490 original size:36 final size:33
Alignment explanation
Indices: 7160346--7161166 Score: 361
Period size: 34 Copynumber: 25.8 Consensus size: 33
7160336 TTAGAAGAGA
*
7160346 AAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA-G
1 AAAAG-GTGCCACGGAGTTGTGGACTTT-AAAAGG
* *
7160380 --AAGGTGCCACGGAGTCGCGGACTTTAAAAGG
1 AAAAGGTGCCACGGAGTTGTGGACTTTAAAAGG
*
7160411 --AAGGTGCCACGGAGTCGTGGAC-TTAAAAGG
1 AAAAGGTGCCACGGAGTTGTGGACTTTAAAAGG
* *
7160441 AACTAGGTGCCACGGGGTTGTGGACTTTAAAAGGG
1 AA-AAGGTGCCACGGAGTTGTGGACTTTAAAA-GG
*
7160476 AAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA-G
1 -AAAAG-GTGCCACGGAGTTGTGGACTTT-AAAAGG
* * *
7160511 --AAGGTGCCACAGAGTCGTGGAC-TTAAAAAG
1 AAAAGGTGCCACGGAGTTGTGGACTTTAAAAGG
* * *
7160541 AAAAGGTGCCACGAAG-TGATGGGCTTTGAAAAGA
1 AAAAGGTGCCACGGAGTTG-TGGACTTT-AAAAGG
*
7160575 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA-G
1 AAAAGGTGCCACGGAGTTGTGGACTTT-AAAAGG
* *
7160608 --AAGGTGCCACGGAGTCGTGGACTTTGAAAAGA
1 AAAAGGTGCCACGGAGTTGTGGACTTT-AAAAGG
* *
7160640 AAAAGGTGCCATGGAGTCGTGGACTTT-----G
1 AAAAGGTGCCACGGAGTTGTGGACTTTAAAAGG
** *
7160668 ---A--TGCCACTAAATTGTGGACTTTGAGACAAGATG
1 AAAAGGTGCCACGGAGTTGTGGACTTT-A-A-AAG--G
* ** * * **** *
7160701 CCACTAA-GT--CGTGGA-CT-T-AAAAGGAACA--
1 --A-AAAGGTGCCACGGAGTTGTGGACTTTAAAAGG
*
7160729 AAGA-GTGCCACGGAGTTGTGGACTTTAAAAGGG
1 AAAAGGTGCCACGGAGTTGTGGACTTTAAAA-GG
* *
7160762 AAAAAGAGTGCCACGGAGTTCTGGGCTTTGAAAA-G
1 -AAAAG-GTGCCACGGAGTTGTGGACTTT-AAAAGG
* * *
7160797 --AAGGTGCCACGGAGTCGCGGACTTTGAAAGG
1 AAAAGGTGCCACGGAGTTGTGGACTTTAAAAGG
*
7160828 --AAGGTGCCACGGAGTCGTGGAC-TTAAAAGG
1 AAAAGGTGCCACGGAGTTGTGGACTTTAAAAGG
*
7160858 AACAAGAGTGCCACGGAGTTGTGGGC-TTAAAA-G
1 AA-AAG-GTGCCACGGAGTTGTGGACTTTAAAAGG
*
7160891 ----GGTGCCACGGAGTTGTGGAC-TTAGAAGG
1 AAAAGGTGCCACGGAGTTGTGGACTTTAAAAGG
*
7160919 AAAAAAAGTGCCACGGAGTTGTAGG-C-TTAAAA-G
1 --AAAAGGTGCCACGGAGTTGT-GGACTTTAAAAGG
* *
7160952 ----GGTGCCACAGAGTTGTGGAC-TTAGAAGG
1 AAAAGGTGCCACGGAGTTGTGGACTTTAAAAGG
* * *
7160980 AAAAAGAGTGCCACAGAGTTGTGGGC-TT-AAACG
1 -AAAAG-GTGCCACGGAGTTGTGGACTTTAAAAGG
*
7161013 ----GGTGCCACGGAGTTGTGGAC-TTAGAAGG
1 AAAAGGTGCCACGGAGTTGTGGACTTTAAAAGG
* * *
7161041 AAAAAGAGTGCCACAGAGTTGTGGGC-TTAGAAGG
1 -AAAAG-GTGCCACGGAGTTGTGGACTTTAAAAGG
* *
7161075 AAAAAGAGTGCCACGGAGTTATGGGCTTT-AAA--
1 -AAAAG-GTGCCACGGAGTTGTGGACTTTAAAAGG
* *
7161107 AAGA-GTGCCACGGAGTTGTGGACTTTGAAAAGA
1 AAAAGGTGCCACGGAGTTGTGGACTTT-AAAAGG
* *
7161140 AAAAGGTGCCACAGAGTCGTGGACTTT
1 AAAAGGTGCCACGGAGTTGTGGACTTT
7161167 GGAAAGAGAT
Statistics
Matches: 615, Mismatches: 90, Indels: 164
0.71 0.10 0.19
Matches are distributed among these distances:
23 16 0.03
25 4 0.01
26 3 0.00
27 66 0.11
28 8 0.01
29 25 0.04
30 29 0.05
31 132 0.21
32 26 0.04
33 36 0.06
34 201 0.33
35 13 0.02
36 43 0.07
37 9 0.01
38 2 0.00
39 1 0.00
40 1 0.00
ACGTcount: A:0.32, C:0.15, G:0.34, T:0.20
Consensus pattern (33 bp):
AAAAGGTGCCACGGAGTTGTGGACTTTAAAAGG
Found at i:7160584 original size:34 final size:32
Alignment explanation
Indices: 7160327--7160668 Score: 267
Period size: 31 Copynumber: 10.4 Consensus size: 32
7160317 CCACCGACTT
* *
7160327 GTGTGAGCTTTAGAAGAGAAAAAGAGTGCCACGGA
1 GTGTGGGCTTT-GAAAAG-AAAAG-GTGCCACGGA
7160362 GTTGTGGGCTTTGAAAAG--AAGGTGCCACGGA
1 G-TGTGGGCTTTGAAAAGAAAAGGTGCCACGGA
* * *
7160393 GTCGCGGACTTT-AAAAG-GAAGGTGCCACGGA
1 GT-GTGGGCTTTGAAAAGAAAAGGTGCCACGGA
* * *
7160424 GTCGTGGAC-TT-AAAAGGAACTAGGTGCCACGGG
1 GT-GTGGGCTTTGAAAA-GAA-AAGGTGCCACGGA
*
7160457 GTTGTGGACTTT-AAAAGGGAAAAAGAGTGCCACGGA
1 G-TGTGGGCTTTGAAAA--G-AAAAG-GTGCCACGGA
*
7160493 GTTGTGGGCTTTGAAAAG--AAGGTGCCACAGA
1 G-TGTGGGCTTTGAAAAGAAAAGGTGCCACGGA
* * *
7160524 GTCGTGGAC-TTAAAAAGAAAAGGTGCCACGAA
1 GT-GTGGGCTTTGAAAAGAAAAGGTGCCACGGA
7160556 GTGATGGGCTTTGAAAAGAAAAAGGTGCCACGGA
1 GTG-TGGGCTTTGAAAAG-AAAAGGTGCCACGGA
7160590 GTTGTGGGCTTTGAAAAG--AAGGTGCCACGGA
1 G-TGTGGGCTTTGAAAAGAAAAGGTGCCACGGA
* *
7160621 GTCGTGGACTTTGAAAAGAAAAAGGTGCCATGGA
1 GT-GTGGGCTTTGAAAAG-AAAAGGTGCCACGGA
*
7160655 GTCGTGGACTTTGA
1 GT-GTGGGCTTTGA
7160669 TGCCACTAAA
Statistics
Matches: 263, Mismatches: 21, Indels: 47
0.79 0.06 0.14
Matches are distributed among these distances:
30 21 0.08
31 84 0.32
32 23 0.09
33 25 0.10
34 62 0.24
35 13 0.05
36 31 0.12
37 4 0.02
ACGTcount: A:0.32, C:0.14, G:0.35, T:0.20
Consensus pattern (32 bp):
GTGTGGGCTTTGAAAAGAAAAGGTGCCACGGA
Found at i:7160646 original size:131 final size:128
Alignment explanation
Indices: 7160347--7161165 Score: 524
Period size: 122 Copynumber: 6.4 Consensus size: 128
7160337 TAGAAGAGAA
* * *
7160347 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGCGGACTTTAAAAGGA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAAGAA
* ** *
7160412 AGGTGCCACGGAGTCGTGGACTTAAAAGGAACTAGGTGCCACGGGGTTGTGGACTTTAAAAGGG
66 AGGTGCCACGAAGTCGTGGACTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTTAAAA-GG
*
7160476 AAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACAGAGTCGTGGACTTAAAAAG
1 --AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAAG
* *
7160541 AAAAGGTGCCACGAAGT-GATGGGCTTTGAAAA-GAAAAAGGTGCCACGGAGTTGTGGGCTTTGA
64 -AAAGGTGCCACGAAGTCG-TGGAC-TT-AAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTT-A
7160604 AAA-G
124 AAAGG
* * * *
7160608 -AAG-GTGCCACGGAGTCGTGGACTTTGAAAAGAAAAAGGTGCCATGGAGTCGTGGACTT----T
1 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAG---AAGGTGCCACGGAGTCGTGGACTTAAAAA
* * * ** * * ** *
7160667 G--A--TGCCACTAAATTGTGGACTT-TGA-G-ACAAGATGCCACTAAGTCGTGGAC-TTAAAAG
63 GAAAGGTGCCACGAAGTCGTGGACTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTTAAAAG
7160724 G
128 G
* *
7160725 AACAAAGAGTGCCACGGAGTTGTGGACTTT-AAAAGGGAAAAAGAGTGCCACGGAGTTC-TGGGC
1 ---AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA--G---AAG-GTGCCACGGAG-TCGTGGAC
* * * * *
7160788 TTTGAAAAG-AAGGTGCCACGGAGTCGCGGACTTTGAAAGG---AAGGTGCCACGGAGTCGTGGA
56 -TTAAAAAGAAAGGTGCCACGAAGTCGTGGAC-TTAAAAGGAAAAAGGTGCCACGGAGTTGTGGA
7160849 C-TTAAAAGG
119 CTTTAAAAGG
*
7160858 AACAAGAGTGCCACGGAGTTGTGGGC-TT-AAAAG--GGTGCCACGGAGTTGTGGACTTAGAAGG
1 -A-AAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTA-AA--
* * * * * *
7160919 AAAAAAAGTGCCACGGAGTTGTAGG-CTTAAAA-G-----GGTGCCACAGAGTTGTGGAC-TTAG
61 AAGAAAGGTGCCACGAAGTCGT-GGACTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTTAA
7160976 AAGG
125 AAGG
* * *
7160980 AAAAAGAGTGCCACAGAGTTGTGGGC-TT-AAACG--GGTGCCACGGAGTTGTGGACTTAGAAGG
1 --AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTA-AA--
* * * * *
7161041 AA-AAAGAGTGCCAC-AGAGTTGTGGGCTTAGAAGGAAAAAGAGTGCCACGGAGTTATGGGCTTT
61 AAGAAAG-GTGCCACGA-AGTCGTGGACTTAAAAGGAAAAAG-GTGCCACGGAGTTGTGGACTTT
7161104 --AA--
123 AAAAGG
* *
7161106 AAAGAGTGCCACGGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACAGAGTCGTGGACTT
1 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAG---AAGGTGCCACGGAGTCGTGGACTT
7161166 TGGAAAGAGA
Statistics
Matches: 566, Mismatches: 66, Indels: 112
0.76 0.09 0.15
Matches are distributed among these distances:
116 4 0.01
117 3 0.01
118 18 0.03
119 2 0.00
121 14 0.02
122 139 0.25
123 28 0.05
124 39 0.07
125 13 0.02
126 20 0.04
127 3 0.01
128 29 0.05
129 21 0.04
130 3 0.01
131 110 0.19
132 54 0.10
133 56 0.10
134 9 0.02
135 1 0.00
ACGTcount: A:0.32, C:0.15, G:0.34, T:0.20
Consensus pattern (128 bp):
AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAAGAA
AGGTGCCACGAAGTCGTGGACTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTTAAAAGG
Found at i:7160902 original size:61 final size:61
Alignment explanation
Indices: 7160830--7161074 Score: 400
Period size: 61 Copynumber: 4.0 Consensus size: 61
7160820 TTGAAAGGAA
* * * *
7160830 GGTGCCACGGAGTCGTGGACTTAAAAGGAACAAGAGTGCCACGGAGTTGTGGGCTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTAAAAG
* * *
7160891 GGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAAAGTGCCACGGAGTTGTAGGCTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTAAAAG
* *
7160952 GGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTAAACG
1 GGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTAAAAG
*
7161013 GGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTAGAAG
1 GGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTAAAAG
7161074 G
1 G
7161075 AAAAAGAGTG
Statistics
Matches: 171, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 171 1.00
ACGTcount: A:0.31, C:0.14, G:0.36, T:0.19
Consensus pattern (61 bp):
GGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTAAAAG
Found at i:7160903 original size:27 final size:27
Alignment explanation
Indices: 7160865--7161040 Score: 138
Period size: 27 Copynumber: 6.0 Consensus size: 27
7160855 AGGAACAAGA
*
7160865 GTGCCACGGAGTTGTGGGCTTAAAAGG
1 GTGCCACGGAGTTGTGGACTTAAAAGG
*
7160892 GTGCCACGGAGTTGTGGACTTAGAAGG
1 GTGCCACGGAGTTGTGGACTTAAAAGG
7160919 AAAAAAAGTGCCACGGAGTTGTAGG-CTTAAAAGG
1 -------GTGCCACGGAGTTGT-GGACTTAAAAGG
* *
7160953 GTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGA
1 GTGCCACGGAGTTGTGGACTT-------AAAAGG
* * *
7160987 GTGCCACAGAGTTGTGGGCTTAAACGG
1 GTGCCACGGAGTTGTGGACTTAAAAGG
*
7161014 GTGCCACGGAGTTGTGGACTTAGAAGG
1 GTGCCACGGAGTTGTGGACTTAAAAGG
7161041 AAAAAGAGTG
Statistics
Matches: 121, Mismatches: 12, Indels: 32
0.73 0.07 0.19
Matches are distributed among these distances:
26 2 0.02
27 69 0.57
34 48 0.40
35 2 0.02
ACGTcount: A:0.29, C:0.14, G:0.36, T:0.20
Consensus pattern (27 bp):
GTGCCACGGAGTTGTGGACTTAAAAGG
Found at i:7160985 original size:95 final size:89
Alignment explanation
Indices: 7160926--7161131 Score: 245
Period size: 95 Copynumber: 2.2 Consensus size: 89
7160916 AGGAAAAAAA
*
7160926 GTGCCACGGAGTTGTAGG-CTT-AAAAGGGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAGT
1 GTGCCACGGAGTTGT-GGACTTAAAAAGAGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAGT
* *
7160989 GCCACAGAGTTGTGGGCTTAAACGG
65 GCCACGGAGTTGTGGACTTAAACGG
*
7161014 GTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTAGAAGGAAAA
1 GTGCCACGGAGTTGTGGACTT------AAAAAGAGTGCCACAGAGTTGTGGACTTAGAAGGAAAA
* * * *
7161079 AGAGTGCCACGGAGTTATGGGCTTTAAAAAGA
60 AGAGTGCCACGGAGTTGTGGAC-TT-AAACGG
7161111 GTGCCACGGAGTTGTGGACTT
1 GTGCCACGGAGTTGTGGACTT
7161132 TGAAAAGAAA
Statistics
Matches: 102, Mismatches: 6, Indels: 11
0.86 0.05 0.09
Matches are distributed among these distances:
87 2 0.02
88 18 0.18
95 55 0.54
96 2 0.02
97 25 0.25
ACGTcount: A:0.30, C:0.14, G:0.35, T:0.21
Consensus pattern (89 bp):
GTGCCACGGAGTTGTGGACTTAAAAAGAGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAGTG
CCACGGAGTTGTGGACTTAAACGG
Found at i:7161173 original size:63 final size:63
Alignment explanation
Indices: 7161041--7161196 Score: 172
Period size: 63 Copynumber: 2.5 Consensus size: 63
7161031 ACTTAGAAGG
* * * * * *
7161041 AAAAAGAGTGCCACAGAGTTGTGGGCTTAGAAGGAAAAAGAGTGCCACGGAGTTATGGGCTTT
1 AAAAAGAGTGCCACAGAGTTGTGGACTTTGAAAGAAAAAGAGTGCCACAGAGTCATGGACTTT
* *
7161104 AAAAAGAGTGCCACGGAGTTGTGGACTTTGAAAAGAAAAAG-GTGCCACAGAGTCGTGGACTTT
1 AAAAAGAGTGCCACAGAGTTGTGGACTTTG-AAAGAAAAAGAGTGCCACAGAGTCATGGACTTT
** *
7161167 GGAAAGAGATGCCACTA-AATTGTGGACTTT
1 AAAAAGAG-TGCCAC-AGAGTTGTGGACTTT
7161197 AAGAAGGAAA
Statistics
Matches: 78, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
63 51 0.65
64 27 0.35
ACGTcount: A:0.34, C:0.13, G:0.31, T:0.22
Consensus pattern (63 bp):
AAAAAGAGTGCCACAGAGTTGTGGACTTTGAAAGAAAAAGAGTGCCACAGAGTCATGGACTTT
Found at i:7161213 original size:97 final size:95
Alignment explanation
Indices: 7160947--7161198 Score: 228
Period size: 95 Copynumber: 2.7 Consensus size: 95
7160937 TTGTAGGCTT
* * * * *
7160947 AAAAGGGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCAC-AGAGTTGTGGGC-TT-A
1 AAAAGAGTGCCACAGAGTCGTGGACTT--AAGGAAAAAGAGTGCCACGA-AATTATGGACTTTAA
*** *
7161009 AACGGGTGCCACGGAGTTGTGGACTTAGAAGGA
63 AAAAAGTGCCACGGAGTTGTGGACTTAGAAAGA
* * * * *
7161042 AAAAGAGTGCCACAGAGTTGTGGGCTTAGAAGGAAAAAGAGTGCCACGGAGTTATGGGCTTTAAA
1 AAAAGAGTGCCACAGAGTCGTGGACTT--AAGGAAAAAGAGTGCCACGAAATTATGGACTTTAAA
* *
7161107 AAGAGTGCCACGGAGTTGTGGACTTTGAAAAGA
64 AAAAGTGCCACGGAGTTGTGGACTTAG-AAAGA
* * * *
7161140 AAAAG-GTGCCACAGAGTCGTGGACTT-TGGAAAGAGA-TGCCACTAAATTGTGGACTTTAA
1 AAAAGAGTGCCACAGAGTCGTGGACTTAAGGAAAAAGAGTGCCACGAAATTATGGACTTTAA
7161199 GAAGGAAAGA
Statistics
Matches: 136, Mismatches: 17, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
93 18 0.13
94 8 0.06
95 54 0.40
96 2 0.01
97 45 0.33
98 9 0.07
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.21
Consensus pattern (95 bp):
AAAAGAGTGCCACAGAGTCGTGGACTTAAGGAAAAAGAGTGCCACGAAATTATGGACTTTAAAAA
AAGTGCCACGGAGTTGTGGACTTAGAAAGA
Found at i:7162204 original size:29 final size:32
Alignment explanation
Indices: 7162171--7162231 Score: 83
Period size: 30 Copynumber: 2.0 Consensus size: 32
7162161 GGGTTTTTCC
7162171 TTTC-TCTTCTTTTT-TTTTTTG-TTTGTTTG
1 TTTCTTCTTCTTTTTCTTTTTTGTTTTGTTTG
*
7162200 TTTCTTCTTTTTTTTCCTTTTTTGTTTTGTTT
1 TTTCTTCTTCTTTTT-CTTTTTTGTTTTGTTT
7162232 TTTTTTTTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
29 4 0.15
30 9 0.33
32 7 0.26
33 7 0.26
ACGTcount: A:0.00, C:0.11, G:0.08, T:0.80
Consensus pattern (32 bp):
TTTCTTCTTCTTTTTCTTTTTTGTTTTGTTTG
Found at i:7162205 original size:24 final size:24
Alignment explanation
Indices: 7162177--7162239 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 24
7162167 TTCCTTTCTC
*
7162177 TTCTTTTTTTTTTTGTTTGTTTG-T
1 TTCTTTTTTTTTTTCTTT-TTTGTT
*
7162201 TTCTTCTTTTTTTTCCTTTTTTGTT
1 TTCTT-TTTTTTTTTCTTTTTTGTT
*
7162226 TTGTTTTTTTTTTT
1 TTCTTTTTTTTTTT
7162240 TGGAAAAGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 17 0.52
25 16 0.48
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.84
Consensus pattern (24 bp):
TTCTTTTTTTTTTTCTTTTTTGTT
Found at i:7162499 original size:16 final size:18
Alignment explanation
Indices: 7162480--7162520 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 18
7162470 CCTTTGCACC
7162480 TTTTTTGTTT-TGTTT--
1 TTTTTTGTTTGTGTTTCA
*
7162495 TTTTTTTTTTGTGTTTCA
1 TTTTTTGTTTGTGTTTCA
7162513 TTTTTTGT
1 TTTTTTGT
7162521 GTTTACTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 9 0.43
16 5 0.24
18 7 0.33
ACGTcount: A:0.02, C:0.02, G:0.12, T:0.83
Consensus pattern (18 bp):
TTTTTTGTTTGTGTTTCA
Found at i:7169507 original size:52 final size:52
Alignment explanation
Indices: 7169422--7169546 Score: 232
Period size: 52 Copynumber: 2.4 Consensus size: 52
7169412 ATATGAAAAG
*
7169422 TTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
7169474 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
7169526 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
7169547 AAGATCAGTG
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:7169559 original size:52 final size:51
Alignment explanation
Indices: 7169422--7169566 Score: 220
Period size: 52 Copynumber: 2.8 Consensus size: 51
7169412 ATATGAAAAG
7169422 TTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* *
7169474 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
*
7169526 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
7169567 ATGTATCGAT
Statistics
Matches: 86, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 84 0.98
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Found at i:7169573 original size:13 final size:13
Alignment explanation
Indices: 7169555--7169614 Score: 60
Period size: 13 Copynumber: 5.0 Consensus size: 13
7169545 CAAAGATCAG
7169555 TGTATCGATACAA
1 TGTATCGATACAA
7169568 TGTATCGATAC-A
1 TGTATCGATACAA
7169580 T-T-T-GAGT--AA
1 TGTATCGA-TACAA
*
7169589 TGTATCGATACAT
1 TGTATCGATACAA
7169602 TGTATCGATACAA
1 TGTATCGATACAA
7169615 CACTTTATGT
Statistics
Matches: 38, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
9 4 0.11
10 3 0.08
11 3 0.08
12 4 0.11
13 24 0.63
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:7171673 original size:22 final size:21
Alignment explanation
Indices: 7171623--7171676 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
7171613 ATATTATGAA
7171623 AAATTAAAA-AATAAAAATAT
1 AAATTAAAATAATAAAAATAT
* * *
7171643 ATATTTAAAATAATTAAAATTT
1 A-AATTAAAATAATAAAAATAT
7171665 AAATATAAAATA
1 AAAT-TAAAATA
7171677 GTAATAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
20 1 0.04
21 9 0.33
22 17 0.63
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
AAATTAAAATAATAAAAATAT
Found at i:7172077 original size:19 final size:19
Alignment explanation
Indices: 7172055--7172091 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
7172045 TATTTTTATT
7172055 TAAAT-TTAATTATAAAATA
1 TAAATATTAA-TATAAAATA
7172074 TAAATATTAATATAAAAT
1 TAAATATTAATATAAAAT
7172092 TATTTTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
TAAATATTAATATAAAATA
Found at i:7173405 original size:6 final size:6
Alignment explanation
Indices: 7173382--7173530 Score: 88
Period size: 6 Copynumber: 24.2 Consensus size: 6
7173372 AAATTACTCA
* * *
7173382 TTCTTT TT-TTT CTTCTCT TTCTCT TTCTTTT TTCTTTT TTCTTA TTCTTT
1 TTCTTT TTCTTT -TTCTTT TTCTTT TTC-TTT TTC-TTT TTCTTT TTCTTT
* * * *
7173432 TTC-TT TTCTTT TTCTTT TT-TTT TCCTTT TTGTTT TCCTTT TTTTTCAT
1 TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTCTT--T
*** * * * *
7173480 CTTCTTT TTCCCA TGCTTTT TTCTTT TTCTTT TACTCT TTCTTC TTCTTT
1 -TTCTTT TTCTTT TTC-TTT TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT
7173530 T
1 T
7173531 CTTCTACTTT
Statistics
Matches: 108, Mismatches: 26, Indels: 18
0.71 0.17 0.12
Matches are distributed among these distances:
5 12 0.11
6 74 0.69
7 17 0.16
8 1 0.01
9 4 0.04
ACGTcount: A:0.03, C:0.21, G:0.01, T:0.75
Consensus pattern (6 bp):
TTCTTT
Found at i:7173417 original size:11 final size:10
Alignment explanation
Indices: 7173385--7173477 Score: 80
Period size: 11 Copynumber: 8.9 Consensus size: 10
7173375 TTACTCATTC
7173385 TTTTTTTTCT
1 TTTTTTTTCT
* *
7173395 TCTCTTTCTCT
1 T-TTTTTTTCT
7173406 TTCTTTTTTCT
1 TT-TTTTTTCT
* *
7173417 TTTTTCTT-A
1 TTTTTTTTCT
*
7173426 TTCTTTTTCT
1 TTTTTTTTCT
7173436 TTTCTTTTTCT
1 TTT-TTTTTCT
7173447 TTTTTTTTCCT
1 TTTTTTTT-CT
*
7173458 TTTTGTTTTCC
1 TTTT-TTTTCT
7173469 TTTTTTTTC
1 TTTTTTTTC
7173478 ATCTTCTTTT
Statistics
Matches: 66, Mismatches: 11, Indels: 12
0.74 0.12 0.13
Matches are distributed among these distances:
9 6 0.09
10 19 0.29
11 37 0.56
12 4 0.06
ACGTcount: A:0.01, C:0.18, G:0.01, T:0.80
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:7173442 original size:41 final size:39
Alignment explanation
Indices: 7173388--7173477 Score: 110
Period size: 41 Copynumber: 2.3 Consensus size: 39
7173378 CTCATTCTTT
* *
7173388 TTTTTCTTCTCTTTCTCTTTCTTTTTTCTTTTTTCTTATTC
1 TTTTTCTTTTCTTTCTCTTT-TTTTTTCCTTTTTCTT-TTC
* *
7173429 TTTTTCTTTTCTTTTTCTTTTTTTTTCCTTTTTGTTTTC
1 TTTTTCTTTTCTTTCTCTTTTTTTTTCCTTTTTCTTTTC
*
7173468 CTTTT-TTTTC
1 TTTTTCTTTTC
7173478 ATCTTCTTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
38 5 0.11
39 7 0.16
40 14 0.32
41 18 0.41
ACGTcount: A:0.01, C:0.19, G:0.01, T:0.79
Consensus pattern (39 bp):
TTTTTCTTTTCTTTCTCTTTTTTTTTCCTTTTTCTTTTC
Found at i:7173459 original size:17 final size:16
Alignment explanation
Indices: 7173385--7173466 Score: 71
Period size: 17 Copynumber: 5.2 Consensus size: 16
7173375 TTACTCATTC
*
7173385 TTTTTTTTC-TTCTCT
1 TTTTTTTTCTTTTTCT
* *
7173400 TTCTCTTTC-TTTT-T
1 TTTTTTTTCTTTTTCT
* *
7173414 TCTTTTTTCTTATTCT
1 TTTTTTTTCTTTTTCT
7173430 TTTTCTTTTCTTTTTCT
1 TTTT-TTTTCTTTTTCT
*
7173447 TTTTTTTTCCTTTTTGT
1 TTTTTTTT-CTTTTTCT
7173464 TTT
1 TTT
7173467 CCTTTTTTTT
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
14 7 0.13
15 13 0.25
16 8 0.15
17 25 0.47
ACGTcount: A:0.01, C:0.17, G:0.01, T:0.80
Consensus pattern (16 bp):
TTTTTTTTCTTTTTCT
Found at i:7173490 original size:22 final size:20
Alignment explanation
Indices: 7173384--7173490 Score: 74
Period size: 22 Copynumber: 5.0 Consensus size: 20
7173374 ATTACTCATT
*
7173384 CTTTTTTTTCTTCTCTTTCTC
1 CTTTTTTTTCTT-TCTTTTTC
*
7173405 TTTCTTTTTTCTTT-TTTCTT-
1 CTT-TTTTTTCTTTCTTT-TTC
* *
7173425 ATTCTTTTTCTTTTCTTTTTC
1 CTTTTTTTTC-TTTCTTTTTC
* *
7173446 TTTTTTTTTCCTTTTTGTTTTC
1 CTTTTTTTT-CTTTCT-TTTTC
7173468 CTTTTTTTTCATCTTCTTTTTC
1 CTTTTTTTTC-T-TTCTTTTTC
7173490 C
1 C
7173491 CATGCTTTTT
Statistics
Matches: 68, Mismatches: 9, Indels: 17
0.72 0.10 0.18
Matches are distributed among these distances:
19 6 0.09
20 10 0.15
21 19 0.28
22 30 0.44
23 3 0.04
ACGTcount: A:0.02, C:0.21, G:0.01, T:0.77
Consensus pattern (20 bp):
CTTTTTTTTCTTTCTTTTTC
Found at i:7173531 original size:11 final size:11
Alignment explanation
Indices: 7173382--7173541 Score: 60
Period size: 11 Copynumber: 14.9 Consensus size: 11
7173372 AAATTACTCA
7173382 TTCTT-TTTT-
1 TTCTTCTTTTC
7173391 TTCTTCTCTTTC
1 TTCTTCT-TTTC
7173403 -TCTTTCTTTT-
1 TTC-TTCTTTTC
7173413 TTCTT-TTTTC
1 TTCTTCTTTTC
*
7173423 TTATTCTTTTTC
1 TTCTTC-TTTTC
7173435 TT-TTCTTTTTC
1 TTCTTC-TTTTC
*
7173446 TT-TTTTTTTCC
1 TTCTTCTTTT-C
* *
7173457 TTTTTGTTTTCC
1 TTCTTCTTTT-C
7173469 TT-TT-TTTTC
1 TTCTTCTTTTC
*
7173478 ATCTTCTTTT-
1 TTCTTCTTTTC
* *
7173488 TCCCATGCTTTT-
1 T-TC-TTCTTTTC
7173500 TTC-T-TTTTC
1 TTCTTCTTTTC
7173509 TT-TTACTCTTTC
1 TTCTT-CT-TTTC
7173521 TTCTTCTTTTC
1 TTCTTCTTTTC
*
7173532 TTCTACTTTT
1 TTCTTCTTTT
7173542 TTTTGTTTCT
Statistics
Matches: 121, Mismatches: 10, Indels: 38
0.72 0.06 0.22
Matches are distributed among these distances:
8 4 0.03
9 14 0.12
10 17 0.14
11 48 0.40
12 36 0.30
13 2 0.02
ACGTcount: A:0.03, C:0.21, G:0.01, T:0.74
Consensus pattern (11 bp):
TTCTTCTTTTC
Found at i:7177822 original size:46 final size:46
Alignment explanation
Indices: 7177764--7177857 Score: 143
Period size: 46 Copynumber: 2.0 Consensus size: 46
7177754 TTTCAATTTC
* * **
7177764 AATGGGTTTATGATGTGATATGTGCAAGAAAGTGTGGCAATTATGA
1 AATGGGTTTATGATGTGATATATACAAGAAAGCATGGCAATTATGA
*
7177810 AATGGGTTTATGATGTGATATATACAGGAAAGCATGGCAATTATGA
1 AATGGGTTTATGATGTGATATATACAAGAAAGCATGGCAATTATGA
7177856 AA
1 AA
7177858 CAGTCGTGCC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.36, C:0.05, G:0.28, T:0.31
Consensus pattern (46 bp):
AATGGGTTTATGATGTGATATATACAAGAAAGCATGGCAATTATGA
Found at i:7179567 original size:12 final size:13
Alignment explanation
Indices: 7179542--7179570 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
7179532 CAAAGGAAAG
7179542 AAACAAAGCATAT
1 AAACAAAGCATAT
7179555 AAACAAA-CATAT
1 AAACAAAGCATAT
7179567 AAAC
1 AAAC
7179571 CTCCGCCAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.66, C:0.17, G:0.03, T:0.14
Consensus pattern (13 bp):
AAACAAAGCATAT
Found at i:7180018 original size:20 final size:22
Alignment explanation
Indices: 7179981--7180023 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
7179971 TCTCTTTTTT
7179981 TTTTTCTTTTTTAAAGTTTTTCC
1 TTTTTCTTTTTT-AAGTTTTTCC
7180004 TTTTT-TTTTTT-AGTTTTTCC
1 TTTTTCTTTTTTAAGTTTTTCC
7180024 ATGTCTTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 9 0.45
22 6 0.30
23 5 0.25
ACGTcount: A:0.09, C:0.12, G:0.05, T:0.74
Consensus pattern (22 bp):
TTTTTCTTTTTTAAGTTTTTCC
Found at i:7181712 original size:30 final size:31
Alignment explanation
Indices: 7181658--7181717 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
7181648 CCTAAGAAAG
7181658 TATCGATACATATCCAGATGTATCGATACAT
1 TATCGATACATATCCAGATGTATCGATACAT
*
7181689 TATCGATACATA-CTCA-TTGTATCGATACA
1 TATCGATACATATC-CAGATGTATCGATACA
7181718 CACTCAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 13 0.48
31 14 0.52
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (31 bp):
TATCGATACATATCCAGATGTATCGATACAT
Found at i:7181713 original size:19 final size:20
Alignment explanation
Indices: 7181689--7181738 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
7181679 ATCGATACAT
*
7181689 TATCGATACATACTC-ATTG
1 TATCGATACATACTCAATTA
*
7181708 TATCGATACACACTCAATTA
1 TATCGATACATACTCAATTA
*
7181728 TATTGATACAT
1 TATCGATACAT
7181739 GAAACTAGCG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 14 0.54
20 12 0.46
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.36
Consensus pattern (20 bp):
TATCGATACATACTCAATTA
Found at i:7181808 original size:13 final size:13
Alignment explanation
Indices: 7181790--7181814 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7181780 TGGGATATTA
7181790 TATCGATACATTG
1 TATCGATACATTG
7181803 TATCGATACATT
1 TATCGATACATT
7181815 ATGCCCAACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (13 bp):
TATCGATACATTG
Found at i:7187945 original size:13 final size:13
Alignment explanation
Indices: 7187927--7187963 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
7187917 AATGTTCTAA
7187927 GTATCGATACATT
1 GTATCGATACATT
*
7187940 GTATCGAAACATT
1 GTATCGATACATT
7187953 GTATCGATACA
1 GTATCGATACA
7187964 GGGTTACTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:7188098 original size:21 final size:19
Alignment explanation
Indices: 7188074--7188126 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 19
7188064 CAAATCCTTT
7188074 TCAAAATTCATCATTTTCACA
1 TCAAAA-TCATCATTTT-ACA
*
7188095 TCAAAA-CTATCTATTTTTCA
1 TCAAAATC-ATC-ATTTTACA
7188115 TCAAAATCATCA
1 TCAAAATCATCA
7188127 ACAAAAACAC
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
19 2 0.07
20 14 0.50
21 12 0.43
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.38
Consensus pattern (19 bp):
TCAAAATCATCATTTTACA
Found at i:7189781 original size:14 final size:15
Alignment explanation
Indices: 7189756--7189784 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
7189746 AATTATTTTC
7189756 ATTAAGGGGAGAATT
1 ATTAAGGGGAGAATT
7189771 ATTAA-GGGAGAATT
1 ATTAAGGGGAGAATT
7189785 TTGTTGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.41, C:0.00, G:0.31, T:0.28
Consensus pattern (15 bp):
ATTAAGGGGAGAATT
Found at i:7190437 original size:13 final size:13
Alignment explanation
Indices: 7190419--7190443 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7190409 CATTATGCTT
7190419 TGTATCGATACAA
1 TGTATCGATACAA
7190432 TGTATCGATACA
1 TGTATCGATACA
7190444 TGCTCATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:7190440 original size:33 final size:32
Alignment explanation
Indices: 7190398--7190462 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
7190388 ACAGATCCAG
* *
7190398 ATGTATCGATACATTATGCTTTGTATCGATACA
1 ATGTATCGATACATGAT-CATTGTATCGATACA
*
7190431 ATGTATCGATACATGCTCATTGTATCGATACA
1 ATGTATCGATACATGATCATTGTATCGATACA
7190463 CACTCAATTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (32 bp):
ATGTATCGATACATGATCATTGTATCGATACA
Found at i:7190456 original size:19 final size:20
Alignment explanation
Indices: 7190432--7190484 Score: 81
Period size: 19 Copynumber: 2.7 Consensus size: 20
7190422 ATCGATACAA
7190432 TGTATCGATACATGCTC-AT
1 TGTATCGATACATGCTCAAT
**
7190451 TGTATCGATACACACTCAAT
1 TGTATCGATACATGCTCAAT
7190471 TGTATCGATACATG
1 TGTATCGATACATG
7190485 AAACTAGCAG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (20 bp):
TGTATCGATACATGCTCAAT
Found at i:7190547 original size:13 final size:13
Alignment explanation
Indices: 7190529--7190558 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
7190519 AATACATGGG
*
7190529 ACATTGTATCGAT
1 ACATTGTATCAAT
7190542 ACATTGTATCAAT
1 ACATTGTATCAAT
7190555 ACAT
1 ACAT
7190559 GAAGAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.37
Consensus pattern (13 bp):
ACATTGTATCAAT
Found at i:7190555 original size:33 final size:33
Alignment explanation
Indices: 7190513--7190579 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
7190503 GTAAGCGAAA
* *
7190513 TGTATCAATACATG-GGACATTGTATCGATACAT
1 TGTATCAATACATGAAGA-ATTATATCGATACAT
7190546 TGTATCAATACATGAAGAATTATATCGATACAT
1 TGTATCAATACATGAAGAATTATATCGATACAT
7190579 T
1 T
7190580 ATGCCCAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 29 0.94
34 2 0.06
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.34
Consensus pattern (33 bp):
TGTATCAATACATGAAGAATTATATCGATACAT
Found at i:7192772 original size:23 final size:24
Alignment explanation
Indices: 7192737--7192803 Score: 79
Period size: 23 Copynumber: 2.9 Consensus size: 24
7192727 AAACACGAAA
7192737 TAAATATATGATA-AGAAAAATAAT
1 TAAATATATGATATA-AAAAATAAT
*
7192761 TAAA-ATATGATATAAAAAATACT
1 TAAATATATGATATAAAAAATAAT
7192784 ATAAATATA--ATATAAAAAAT
1 -TAAATATATGATATAAAAAAT
7192804 GATTGTGTCA
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
23 27 0.69
24 9 0.23
25 3 0.08
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.30
Consensus pattern (24 bp):
TAAATATATGATATAAAAAATAAT
Found at i:7192922 original size:23 final size:23
Alignment explanation
Indices: 7192881--7192924 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
7192871 TGAATTATCA
* *
7192881 AAAAATAATACGAATACAATACG
1 AAAAATAATACAAACACAATACG
*
7192904 AAAAATAATATAAACACAATA
1 AAAAATAATACAAACACAATA
7192925 TGAATACATG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.66, C:0.11, G:0.05, T:0.18
Consensus pattern (23 bp):
AAAAATAATACAAACACAATACG
Found at i:7193237 original size:46 final size:46
Alignment explanation
Indices: 7193185--7193272 Score: 176
Period size: 46 Copynumber: 1.9 Consensus size: 46
7193175 CATACAAAAA
7193185 TTTTTCTAAATTGAATTACTATGACAAACTATGTAAAATAATAATT
1 TTTTTCTAAATTGAATTACTATGACAAACTATGTAAAATAATAATT
7193231 TTTTTCTAAATTGAATTACTATGACAAACTATGTAAAATAAT
1 TTTTTCTAAATTGAATTACTATGACAAACTATGTAAAATAAT
7193273 GGATGAATTG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (46 bp):
TTTTTCTAAATTGAATTACTATGACAAACTATGTAAAATAATAATT
Found at i:7194619 original size:79 final size:80
Alignment explanation
Indices: 7194526--7194700 Score: 221
Period size: 79 Copynumber: 2.2 Consensus size: 80
7194516 TCAAAAATAA
* ** *
7194526 CGAGATTGGAGTATCCCCTTGA-AAATAAAGGGGTTAGAGTATCTTCGATTGTGAAAAATTGATG
1 CGAGGTTGGAGTATCCCCTTGAGAAATAAAGGGGTTAGAGTATCCCCGATTGTGAAAAATTGATA
7194590 TTTTGAAAATAAAAC
66 TTTTGAAAATAAAAC
* * * * * *
7194605 CGAGGTTGGAGTAT-CCTTTTAGAAATAACGGGGTTGGAGTATCCCCGATTGTGGAAAATTTATA
1 CGAGGTTGGAGTATCCCCTTGAGAAATAAAGGGGTTAGAGTATCCCCGATTGTGAAAAATTGATA
*
7194669 TTTTGGAAATAAAAC
66 TTTTGAAAATAAAAC
7194684 C-AGGGTTGGAGTATCCC
1 CGA-GGTTGGAGTATCCC
7194701 TGATTGTGAT
Statistics
Matches: 82, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
78 6 0.07
79 74 0.90
80 2 0.02
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (80 bp):
CGAGGTTGGAGTATCCCCTTGAGAAATAAAGGGGTTAGAGTATCCCCGATTGTGAAAAATTGATA
TTTTGAAAATAAAAC
Found at i:7194699 original size:51 final size:51
Alignment explanation
Indices: 7194635--7194752 Score: 150
Period size: 51 Copynumber: 2.3 Consensus size: 51
7194625 AGAAATAACG
**
7194635 GGGTTGGAGTATCCCCGATTGTGGA-AAATTTA-TATTTTGGAAATAAAACCA
1 GGGTTGGAGTATCCCCGATTGT-GATAAA-TTAGTATTTTAAAAATAAAACCA
* * *
7194686 GGGTTGGAGTATCCCTGATTGTGATAAATTAGTGTTTTAAAAATAAAACCG
1 GGGTTGGAGTATCCCCGATTGTGATAAATTAGTATTTTAAAAATAAAACCA
*
7194737 GGGTTGGAATATCCCC
1 GGGTTGGAGTATCCCC
7194753 TTGGAAATGA
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
50 5 0.09
51 53 0.91
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.31
Consensus pattern (51 bp):
GGGTTGGAGTATCCCCGATTGTGATAAATTAGTATTTTAAAAATAAAACCA
Found at i:7194789 original size:130 final size:129
Alignment explanation
Indices: 7194572--7194831 Score: 346
Period size: 130 Copynumber: 2.0 Consensus size: 129
7194562 GAGTATCTTC
* * **
7194572 GATTGTGAAAAATTGATGTTTTGAAAATAAAACCGAGGTTGGAGTATCCTTTTAGAAATAACGGG
1 GATTGTGAAAAATTGATGTTTTAAAAATAAAACCGAGGTTGGAATATCCCCTTAGAAATAACGGG
* *
7194637 GTTGGAGTATCCCCGATTGTGGAAAATTTATAT-TTTGGAAATAAAACCAGGG-TTGGAGTATCC
66 GTTAGAGTATCCCCGATTGTGGAAAA-TCAT-TCTTTGGAAATAAAACC-GGGATTGGAGTATCC
7194700 CT
128 CT
* * * * *
7194702 GATTGTGATAAATT-AGTGTTTTAAAAATAAAACCGGGGTTGGAATATCCCCTTGGAAATGATGG
1 GATTGTGAAAAATTGA-TGTTTTAAAAATAAAACCGAGGTTGGAATATCCCCTTAGAAATAACGG
*
7194766 GGTTAGAGTATCCTCGATTGTGGAAAATCATTGCTTTGGAAATAAAACCGGGATTGGAGTATCCC
65 GGTTAGAGTATCCCCGATTGTGGAAAATCATT-CTTTGGAAATAAAACCGGGATTGGAGTATCCC
7194831 T
129 T
7194832 CCTCGGAAAT
Statistics
Matches: 114, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
128 1 0.01
129 7 0.06
130 106 0.93
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.31
Consensus pattern (129 bp):
GATTGTGAAAAATTGATGTTTTAAAAATAAAACCGAGGTTGGAATATCCCCTTAGAAATAACGGG
GTTAGAGTATCCCCGATTGTGGAAAATCATTCTTTGGAAATAAAACCGGGATTGGAGTATCCCT
Found at i:7197236 original size:50 final size:50
Alignment explanation
Indices: 7197179--7197281 Score: 170
Period size: 50 Copynumber: 2.1 Consensus size: 50
7197169 TGCCTGAAAG
*
7197179 TGTATCGATACATTGAAAAATGTATCGATACATCTGGATAAAACCCAAAA
1 TGTATCGATACAATGAAAAATGTATCGATACATCTGGATAAAACCCAAAA
* * *
7197229 TGTATCGATACAATGAACAATGTATCGATACATCTGGGTAAAACCCAGAA
1 TGTATCGATACAATGAAAAATGTATCGATACATCTGGATAAAACCCAAAA
7197279 TGT
1 TGT
7197282 GTTAATATAA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.26
Consensus pattern (50 bp):
TGTATCGATACAATGAAAAATGTATCGATACATCTGGATAAAACCCAAAA
Found at i:7197294 original size:50 final size:50
Alignment explanation
Indices: 7197179--7197310 Score: 165
Period size: 50 Copynumber: 2.6 Consensus size: 50
7197169 TGCCTGAAAG
* * *
7197179 TGTATCGATACATTGAAAAATGTATCGATACATCTGGATAAAACCCAAAA
1 TGTATCAATACAATGAACAATGTATCGATACATCTGGATAAAACCCAAAA
* * *
7197229 TGTATCGATACAATGAACAATGTATCGATACATCTGGGTAAAACCCAGAA
1 TGTATCAATACAATGAACAATGTATCGATACATCTGGATAAAACCCAAAA
* * * * *
7197279 TGTGTTAATATAATGAACAATATATCAATACA
1 TGTATCAATACAATGAACAATGTATCGATACA
7197311 AATTGTAAAA
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 72 1.00
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.27
Consensus pattern (50 bp):
TGTATCAATACAATGAACAATGTATCGATACATCTGGATAAAACCCAAAA
Found at i:7197735 original size:3 final size:3
Alignment explanation
Indices: 7197729--7197768 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
7197719 TTCTTTCTTC
* * *
7197729 ATA ATA ATA CTA ATA ATG ATA ATA ATA ACA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
7197769 ATTACTCTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:7198922 original size:13 final size:13
Alignment explanation
Indices: 7198904--7198961 Score: 56
Period size: 13 Copynumber: 4.9 Consensus size: 13
7198894 TTGGGCATAT
7198904 TGTATCGATACAA
1 TGTATCGATACAA
7198917 TGTATCGATAC-A
1 TGTATCGATACAA
* *
7198929 T-T-T--TTTC-A
1 TGTATCGATACAA
7198937 TGTATCGATACAA
1 TGTATCGATACAA
7198950 TGTATCGATACA
1 TGTATCGATACA
7198962 TTATCCCATG
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
8 4 0.11
9 1 0.03
10 2 0.06
11 1 0.03
12 4 0.11
13 24 0.67
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:7198946 original size:33 final size:33
Alignment explanation
Indices: 7198904--7198981 Score: 129
Period size: 33 Copynumber: 2.4 Consensus size: 33
7198894 TTGGGCATAT
* **
7198904 TGTATCGATACAATGTATCGATACATTTTTTCA
1 TGTATCGATACAATGTATCGATACATTATCCCA
7198937 TGTATCGATACAATGTATCGATACATTATCCCA
1 TGTATCGATACAATGTATCGATACATTATCCCA
7198970 TGTATCGATACA
1 TGTATCGATACA
7198982 TTTCACTTAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (33 bp):
TGTATCGATACAATGTATCGATACATTATCCCA
Found at i:7199063 original size:19 final size:19
Alignment explanation
Indices: 7199010--7199065 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
7199000 CTGTCATTTT
*
7199010 CATGTATCAATACAATTGAG
1 CATGTATCAATACAA-TGAA
* *
7199030 TATGCATCAATACAATGAA
1 CATGTATCAATACAATGAA
*
7199049 CATGTATCGATACAATG
1 CATGTATCAATACAATG
7199066 TATCAATATA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 17 0.57
20 13 0.43
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.29
Consensus pattern (19 bp):
CATGTATCAATACAATGAA
Found at i:7200567 original size:12 final size:12
Alignment explanation
Indices: 7200547--7200583 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
7200537 ATCATGAGGT
*
7200547 GGAAGAAGGGTA
1 GGAAAAAGGGTA
7200559 GGAAAAAGGGTA
1 GGAAAAAGGGTA
*
7200571 GGAAAAATGGTA
1 GGAAAAAGGGTA
7200583 G
1 G
7200584 CTTTGTTACC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.43, T:0.11
Consensus pattern (12 bp):
GGAAAAAGGGTA
Found at i:7201603 original size:13 final size:13
Alignment explanation
Indices: 7201584--7201623 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
7201574 ATAGTAACCC
7201584 ATGTATCGATACA
1 ATGTATCGATACA
*
7201597 TTGTATCGATACA
1 ATGTATCGATACA
*
7201610 ATGTATCAATACA
1 ATGTATCGATACA
7201623 A
1 A
7201624 AGAACATTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:7207789 original size:13 final size:12
Alignment explanation
Indices: 7207770--7207854 Score: 60
Period size: 13 Copynumber: 7.6 Consensus size: 12
7207760 TATATTTTTT
7207770 CATGTATCGATA
1 CATGTATCGATA
*
7207782 CAATGTATCGACA
1 C-ATGTATCGATA
*
7207795 CAT-T-TC--TT
1 CATGTATCGATA
7207803 CATGTATCGATA
1 CATGTATCGATA
*
7207815 CAATGTATCGACA
1 C-ATGTATCGATA
*
7207828 CAT-T-TC--TT
1 CATGTATCGATA
7207836 CATGTATCGATA
1 CATGTATCGATA
7207848 CATGTAT
1 CATGTAT
7207855 TGACACATTC
Statistics
Matches: 55, Mismatches: 8, Indels: 20
0.66 0.10 0.24
Matches are distributed among these distances:
8 6 0.11
9 2 0.04
10 8 0.15
11 2 0.04
12 15 0.27
13 22 0.40
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (12 bp):
CATGTATCGATA
Found at i:7207805 original size:33 final size:33
Alignment explanation
Indices: 7207763--7207879 Score: 195
Period size: 33 Copynumber: 3.6 Consensus size: 33
7207753 GTATCAATAT
*
7207763 ATTTTTTCATGTATCGATACAATGTATCGACAC
1 ATTTCTTCATGTATCGATACAATGTATCGACAC
7207796 ATTTCTTCATGTATCGATACAATGTATCGACAC
1 ATTTCTTCATGTATCGATACAATGTATCGACAC
*
7207829 ATTTCTTCATGTATCGATAC-ATGTATTGACAC
1 ATTTCTTCATGTATCGATACAATGTATCGACAC
7207861 A-TTC-TCATGTATCGATACA
1 ATTTCTTCATGTATCGATACA
7207880 TTTCACTTAG
Statistics
Matches: 81, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
30 14 0.17
31 3 0.04
32 12 0.15
33 52 0.64
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (33 bp):
ATTTCTTCATGTATCGATACAATGTATCGACAC
Found at i:7207809 original size:20 final size:20
Alignment explanation
Indices: 7207784--7207850 Score: 67
Period size: 20 Copynumber: 3.7 Consensus size: 20
7207774 TATCGATACA
7207784 ATGTATCGACACATTTCTTC
1 ATGTATCGACACATTTCTTC
*
7207804 ATGTATCGATACA-------
1 ATGTATCGACACATTTCTTC
7207817 ATGTATCGACACATTTCTTC
1 ATGTATCGACACATTTCTTC
*
7207837 ATGTATCGATACAT
1 ATGTATCGACACAT
7207851 GTATTGACAC
Statistics
Matches: 37, Mismatches: 3, Indels: 14
0.69 0.06 0.26
Matches are distributed among these distances:
13 12 0.32
20 25 0.68
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.37
Consensus pattern (20 bp):
ATGTATCGACACATTTCTTC
Found at i:7209595 original size:2 final size:2
Alignment explanation
Indices: 7209588--7209623 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
7209578 ATAAGACAAA
* *
7209588 AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7209624 GTAATAGAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:7211251 original size:13 final size:13
Alignment explanation
Indices: 7211214--7211251 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
7211204 AACTCACTCA
*
7211214 GTATCGATACAGT
1 GTATCGATACATT
*
7211227 GTATTGATACATT
1 GTATCGATACATT
7211240 GTATCGATACAT
1 GTATCGATACAT
7211252 GGTCAAATGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:7211747 original size:36 final size:34
Alignment explanation
Indices: 7211701--7211793 Score: 120
Period size: 36 Copynumber: 2.8 Consensus size: 34
7211691 TTAAGTGATT
*
7211701 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGGG
1 GAGAGATTCTATCTTAGCCTTTGAAAAAGATA-GG
*
7211736 AGAGAGATTCTATCTTAGCCTGTG-AAAAGATAGG
1 -GAGAGATTCTATCTTAGCCTTTGAAAAAGATAGG
*
7211770 GAG-GTTTCTATCTTAGCC-TTGAAA
1 GAGAGATTCTATCTTAGCCTTTGAAA
7211794 GATAGTATTG
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
31 2 0.04
32 16 0.31
33 3 0.06
34 2 0.04
35 8 0.15
36 21 0.40
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (34 bp):
GAGAGATTCTATCTTAGCCTTTGAAAAAGATAGG
Found at i:7211784 original size:32 final size:31
Alignment explanation
Indices: 7211701--7211798 Score: 119
Period size: 32 Copynumber: 3.0 Consensus size: 31
7211691 TTAAGTGATT
7211701 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGG
1 GAGAGGTTCTATCTTAGCC-TTG-AAAAGATA-G
7211735 GAGAGAGATTCTATCTTAGCCTGTGAAAAGATAG
1 GAGAG-G-TTCTATCTTAGCCT-TGAAAAGATAG
7211769 G-GAGGTTTCTATCTTAGCCTTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTGAAAAGATAG
7211799 TATTGTAAGG
Statistics
Matches: 60, Mismatches: 1, Indels: 10
0.85 0.01 0.14
Matches are distributed among these distances:
30 8 0.13
31 2 0.03
32 15 0.25
33 3 0.05
34 7 0.12
35 10 0.17
36 15 0.25
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.30
Consensus pattern (31 bp):
GAGAGGTTCTATCTTAGCCTTGAAAAGATAG
Found at i:7213613 original size:33 final size:33
Alignment explanation
Indices: 7213576--7213677 Score: 168
Period size: 33 Copynumber: 3.1 Consensus size: 33
7213566 CCGTTGGAAG
* * **
7213576 CAATGTATCGATATAATTTATCATGTATCGATA
1 CAATGTATCGATACAATGTGCCATGTATCGATA
7213609 CAATGTATCGATACAATGTGCCATGTATCGATA
1 CAATGTATCGATACAATGTGCCATGTATCGATA
7213642 CAATGTATCGATACAATGTGCCATGTATCGATA
1 CAATGTATCGATACAATGTGCCATGTATCGATA
7213675 CAA
1 CAA
7213678 ACAGTAGCAG
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 65 1.00
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (33 bp):
CAATGTATCGATACAATGTGCCATGTATCGATA
Found at i:7213614 original size:13 final size:13
Alignment explanation
Indices: 7213598--7213660 Score: 75
Period size: 13 Copynumber: 5.3 Consensus size: 13
7213588 ATAATTTATC
7213598 ATGTATCGATACA
1 ATGTATCGATACA
7213611 ATGTATCGATACA
1 ATGTATCGATACA
*
7213624 ATG--T-G---CC
1 ATGTATCGATACA
7213631 ATGTATCGATACA
1 ATGTATCGATACA
7213644 ATGTATCGATACA
1 ATGTATCGATACA
7213657 ATGT
1 ATGT
7213661 GCCATGTATC
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
7 4 0.10
9 1 0.02
10 2 0.05
11 1 0.02
13 34 0.81
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:7213617 original size:20 final size:20
Alignment explanation
Indices: 7213578--7213617 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
7213568 GTTGGAAGCA
* *
7213578 ATGTATCGATATAATTTATC
1 ATGTATCGATACAATGTATC
7213598 ATGTATCGATACAATGTATC
1 ATGTATCGATACAATGTATC
7213618 GATACAATGT
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:0.35, C:0.12, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACAATGTATC
Found at i:7213634 original size:20 final size:20
Alignment explanation
Indices: 7213611--7213677 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 20
7213601 TATCGATACA
7213611 ATGTATCGATACAATGTGCC
1 ATGTATCGATACAATGTGCC
7213631 ATGTATCGATAC-A------
1 ATGTATCGATACAATGTGCC
7213644 ATGTATCGATACAATGTGCC
1 ATGTATCGATACAATGTGCC
7213664 ATGTATCGATACAA
1 ATGTATCGATACAA
7213678 ACAGTAGCAG
Statistics
Matches: 40, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 12 0.30
14 1 0.03
19 1 0.03
20 26 0.65
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACAATGTGCC
Found at i:7213725 original size:13 final size:13
Alignment explanation
Indices: 7213707--7213733 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7213697 TGCTAGTTTC
7213707 ATGTATCGATACA
1 ATGTATCGATACA
7213720 ATGTATCGATACA
1 ATGTATCGATACA
7213733 A
1 A
7213734 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:7216103 original size:2 final size:2
Alignment explanation
Indices: 7216096--7216131 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
7216086 ACAATGTTTC
7216096 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7216132 GCAAACATTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7218069 original size:24 final size:25
Alignment explanation
Indices: 7218042--7218103 Score: 69
Period size: 24 Copynumber: 2.6 Consensus size: 25
7218032 AAATATTAAT
7218042 TATATAATATAT-TTAT-ACATTATA
1 TATATAATATATATTATAAC-TTATA
* *
7218066 TATAT-TTATCTATTATAACTTATA
1 TATATAATATATATTATAACTTATA
7218090 TAT-TAATATATATT
1 TATATAATATATATT
7218104 TCATATTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
23 5 0.16
24 24 0.77
25 2 0.06
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (25 bp):
TATATAATATATATTATAACTTATA
Found at i:7218070 original size:17 final size:17
Alignment explanation
Indices: 7218048--7218122 Score: 61
Period size: 17 Copynumber: 4.5 Consensus size: 17
7218038 TAATTATATA
7218048 ATATATTTATACATTAT
1 ATATATTTATACATTAT
7218065 ATATATTTAT-C--TAT
1 ATATATTTATACATTAT
* *
7218079 -TATAACTTATATATTAAT
1 ATAT-ATTTATACATT-AT
*
7218097 ATATATTTCATA-TTTAT
1 ATATATTT-ATACATTAT
7218114 ATATATTTA
1 ATATATTTA
7218123 AATATATTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 15
0.71 0.06 0.23
Matches are distributed among these distances:
13 3 0.06
14 8 0.17
16 2 0.04
17 21 0.45
18 7 0.15
19 6 0.13
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (17 bp):
ATATATTTATACATTAT
Found at i:7218599 original size:38 final size:39
Alignment explanation
Indices: 7218540--7218614 Score: 102
Period size: 38 Copynumber: 1.9 Consensus size: 39
7218530 TATTGTATTA
7218540 TTTTTTAAATTTAATAAAAATAAT-T-TAATTAATATAAT
1 TTTTTTAAA-TTAATAAAAATAATCTGTAATTAATATAAT
7218578 TTTTTTAAA-TAATAAATAAATAATCTGTAATTAATAT
1 TTTTTTAAATTAAT-AA-AAATAATCTGTAATTAATAT
7218615 TTAAAATACC
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
36 4 0.12
37 2 0.06
38 16 0.48
39 1 0.03
40 10 0.30
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (39 bp):
TTTTTTAAATTAATAAAAATAATCTGTAATTAATATAAT
Found at i:7219580 original size:37 final size:37
Alignment explanation
Indices: 7219521--7219599 Score: 90
Period size: 37 Copynumber: 2.1 Consensus size: 37
7219511 TTTAATTTTT
*
7219521 TAAAAAAATTAATGATATTAATTAAGATAATATATTAAA
1 TAAAAAAATTAAT-ATAATAATTAAGATAATAT-TTAAA
* **
7219560 TAAAAATATTAAT-TAATAATTAATTTAATATTTAAA
1 TAAAAAAATTAATATAATAATTAAGATAATATTTAAA
7219596 -AAAA
1 TAAAA
7219600 GGAGACATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
35 4 0.11
36 5 0.14
37 15 0.42
39 12 0.33
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (37 bp):
TAAAAAAATTAATATAATAATTAAGATAATATTTAAA
Found at i:7221387 original size:3 final size:3
Alignment explanation
Indices: 7221379--7221414 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
7221369 TAAATAAAAG
7221379 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
7221415 GAATGGTTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:7223502 original size:2 final size:2
Alignment explanation
Indices: 7223495--7223525 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
7223485 ACATGAGTTT
7223495 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7223526 GTATGTATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7223839 original size:16 final size:16
Alignment explanation
Indices: 7223818--7223908 Score: 86
Period size: 16 Copynumber: 6.0 Consensus size: 16
7223808 ACAGGTTTGC
7223818 ATTATTTTTAATTTAA
1 ATTATTTTTAATTTAA
7223834 ATTATTTTTAATTTAA
1 ATTATTTTTAATTTAA
**
7223850 A-T-TTTAAAATTTAA
1 ATTATTTTTAATTTAA
* *
7223864 GTT-TTTTTAAGTTTTA
1 ATTATTTTTAA-TTTAA
7223880 ATTA--TTTAATTT-A
1 ATTATTTTTAATTTAA
*
7223893 ATTATTTTAAATTTAA
1 ATTATTTTTAATTTAA
7223909 GTTTGAGTTA
Statistics
Matches: 61, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
13 5 0.08
14 13 0.21
15 19 0.31
16 24 0.39
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (16 bp):
ATTATTTTTAATTTAA
Found at i:7223862 original size:30 final size:30
Alignment explanation
Indices: 7223827--7223908 Score: 89
Period size: 30 Copynumber: 2.8 Consensus size: 30
7223817 CATTATTTTT
7223827 AATTTAAATTATTTTTAATTTAAATT-TTAA
1 AATTTAAATTATTTTTAATTTAAATTATT-A
* * *
7223857 AATTTAAGTT-TTTTTAAGTTTTAATTATTT
1 AATTTAAATTATTTTTAA-TTTAAATTATTA
*
7223887 AATTT-AATTATTTTAAATTTAA
1 AATTTAAATTATTTTTAATTTAA
7223909 GTTTGAGTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
29 14 0.33
30 27 0.63
31 2 0.05
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (30 bp):
AATTTAAATTATTTTTAATTTAAATTATTA
Found at i:7223905 original size:45 final size:44
Alignment explanation
Indices: 7223822--7223912 Score: 123
Period size: 45 Copynumber: 2.0 Consensus size: 44
7223812 GTTTGCATTA
7223822 TTTTTAATTTAAATTATTTTTAATTTAAATTTTAAAATTTAAGTT
1 TTTTTAATTTAAATTA-TTTTAATTTAAATTTTAAAATTTAAGTT
*
7223867 TTTTTAAGTTTTAATTA-TTTAATTTAATTATTTT-AAATTTAAGTT
1 TTTTTAA-TTTAAATTATTTTAATTTAA--ATTTTAAAATTTAAGTT
7223912 T
1 T
7223913 GAGTTAAGAT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
44 10 0.24
45 19 0.45
46 13 0.31
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (44 bp):
TTTTTAATTTAAATTATTTTAATTTAAATTTTAAAATTTAAGTT
Found at i:7224879 original size:16 final size:16
Alignment explanation
Indices: 7224851--7224905 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 16
7224841 TTTAAGTTGG
7224851 ATCA-TTTAAGTTTTA
1 ATCATTTTAAGTTTTA
* *
7224866 ATCATTTTAGGTTTAA
1 ATCATTTTAAGTTTTA
* *
7224882 ATTATTTTAATTTTTA
1 ATCATTTTAAGTTTTA
*
7224898 ATTATTTT
1 ATCATTTT
7224906 GAATTTAATG
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
15 4 0.12
16 29 0.88
ACGTcount: A:0.31, C:0.04, G:0.05, T:0.60
Consensus pattern (16 bp):
ATCATTTTAAGTTTTA
Found at i:7224914 original size:15 final size:15
Alignment explanation
Indices: 7224855--7224911 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 15
7224845 AGTTGGATCA
*
7224855 TTTAAGTTTTAATCAT
1 TTTAA-TTTTAATTAT
* *
7224871 TTTAGGTTTAAATTAT
1 TTTA-ATTTTAATTAT
7224887 TTTAATTTTTAATTAT
1 TTTAA-TTTTAATTAT
7224903 TTTGAATTT
1 TTT-AATTT
7224912 AATGCATTTC
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
16 31 0.94
17 2 0.06
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (15 bp):
TTTAATTTTAATTAT
Found at i:7225758 original size:11 final size:11
Alignment explanation
Indices: 7225727--7225821 Score: 63
Period size: 11 Copynumber: 8.5 Consensus size: 11
7225717 ATTATTTATC
*
7225727 TATTTATATCA
1 TATTTATATTA
7225738 TATTTATATTA
1 TATTTATATTA
*
7225749 TTTTTATATTA
1 TATTTATATTA
* *
7225760 TGTTGTATTTTAA
1 TATT-TATATT-A
7225773 TTATTT-TATTA
1 -TATTTATATTA
*
7225784 TA-TTCTATTA
1 TATTTATATTA
7225794 T-TTTATATTTA
1 TATTTATA-TTA
7225805 TACTTTACT-TTA
1 TA-TTTA-TATTA
7225817 TATTT
1 TATTT
7225822 TTTTCCAAAT
Statistics
Matches: 68, Mismatches: 7, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
9 2 0.03
10 12 0.18
11 31 0.46
12 13 0.19
13 6 0.09
14 4 0.06
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.65
Consensus pattern (11 bp):
TATTTATATTA
Found at i:7225837 original size:13 final size:12
Alignment explanation
Indices: 7225818--7225843 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
7225808 TTTACTTTAT
7225818 ATTTTTTTCCAA
1 ATTTTTTTCCAA
7225830 ATTTTTTTCCAA
1 ATTTTTTTCCAA
7225842 AT
1 AT
7225844 GGATAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.15, G:0.00, T:0.58
Consensus pattern (12 bp):
ATTTTTTTCCAA
Found at i:7225888 original size:2 final size:2
Alignment explanation
Indices: 7225881--7225913 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
7225871 ACTCAAAAAC
7225881 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7225914 TTCAACCCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7230089 original size:55 final size:55
Alignment explanation
Indices: 7230004--7230108 Score: 138
Period size: 55 Copynumber: 1.9 Consensus size: 55
7229994 TGTAGGTACG
* **
7230004 ATGCTTAGTTACTTTCATTTTTATTAGTTTTACCATGCAAAGTAGTGGTGGCATT
1 ATGCTTAGTTACTCTCATTTCCATTAGTTTTACCATGCAAAGTAGTGGTGGCATT
* * * * *
7230059 ATGCTTAGTTGCTCTCATTTCCATTGGTTTTGCCATGTAGAGTAGTGGTG
1 ATGCTTAGTTACTCTCATTTCCATTAGTTTTACCATGCAAAGTAGTGGTG
7230109 CAACAACTCT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 42 1.00
ACGTcount: A:0.20, C:0.14, G:0.22, T:0.44
Consensus pattern (55 bp):
ATGCTTAGTTACTCTCATTTCCATTAGTTTTACCATGCAAAGTAGTGGTGGCATT
Found at i:7233739 original size:19 final size:20
Alignment explanation
Indices: 7233696--7233742 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
7233686 GAAGGTCGTC
7233696 AATGATGCAAATGTATGTGA
1 AATGATGCAAATGTATGTGA
*
7233716 AATGATGCATATGT-TGAT-A
1 AATGATGCAAATGTATG-TGA
7233735 AATGATGC
1 AATGATGC
7233743 TCGAGTGCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.38, C:0.06, G:0.23, T:0.32
Consensus pattern (20 bp):
AATGATGCAAATGTATGTGA
Found at i:7235256 original size:22 final size:22
Alignment explanation
Indices: 7235212--7235256 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
7235202 AATTTCTTGT
* *
7235212 AAATGTGAAAGAATGATGTAAG
1 AAATGTGAAAGAATGAAGAAAG
7235234 AAATGTGAAAGAATGAAGAAAG
1 AAATGTGAAAGAATGAAGAAAG
7235256 A
1 A
7235257 TGATCATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.27, T:0.18
Consensus pattern (22 bp):
AAATGTGAAAGAATGAAGAAAG
Found at i:7236756 original size:20 final size:21
Alignment explanation
Indices: 7236731--7236769 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
7236721 TTCCCGTGTA
7236731 AATGTATCGATACA-ATTTTT
1 AATGTATCGATACATATTTTT
7236751 AATGTATCGATACATATTT
1 AATGTATCGATACATATTT
7236770 GAAAATATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.44
Consensus pattern (21 bp):
AATGTATCGATACATATTTTT
Found at i:7236842 original size:13 final size:13
Alignment explanation
Indices: 7236824--7236849 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7236814 CAATTTTTTG
7236824 TGTATCGATACAT
1 TGTATCGATACAT
7236837 TGTATCGATACAT
1 TGTATCGATACAT
7236850 ACTTTCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:7236865 original size:32 final size:33
Alignment explanation
Indices: 7236804--7236867 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
7236794 TACAAGCCAA
** *
7236804 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTCTGTATCGATACAT
7236837 TGTATCGATAC-ATACTTTCTGTATCGATACA
1 TGTATCGATACAATACTTTCTGTATCGATACA
7236868 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTCTGTATCGATACAT
Found at i:7236914 original size:21 final size:21
Alignment explanation
Indices: 7236888--7236963 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
7236878 CTGCCAAGAA
*
7236888 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
7236909 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
7236929 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
7236950 ATGTATCGATACAT
1 ATGTATCGATACAT
7236964 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:7236934 original size:20 final size:20
Alignment explanation
Indices: 7236909--7236981 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
7236899 CATCTTTTTT
7236909 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
7236929 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
7236950 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
7236970 ATGTATCGATAC
1 ATGTATCGATAC
7236982 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:7236945 original size:41 final size:41
Alignment explanation
Indices: 7236888--7236981 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
7236878 CTGCCAAGAA
*
7236888 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
7236929 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
7236970 ATGTATCGATAC
1 ATGTATCGATAC
7236982 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:7239457 original size:13 final size:13
Alignment explanation
Indices: 7239439--7239477 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
7239429 ATAATCACCC
7239439 TGTATCGATACAA
1 TGTATCGATACAA
7239452 TGTATCGATACAA
1 TGTATCGATACAA
7239465 TGTATCGATACAA
1 TGTATCGATACAA
7239478 AGAAAAATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:7239488 original size:20 final size:20
Alignment explanation
Indices: 7239463--7239541 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
7239453 GTATCGATAC
7239463 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
7239483 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
*
7239508 GATGTATCGATACACAA-AAA
1 AATGTATCGATACA-AAGAAA
*
7239528 CATGTATCGATACA
1 AATGTATCGATACA
7239542 TTTTGGACAT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
20 32 0.65
25 16 0.33
26 1 0.02
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:7241577 original size:15 final size:15
Alignment explanation
Indices: 7241557--7241587 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7241547 ATTTCGTTTG
*
7241557 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
7241572 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
7241587 G
1 G
7241588 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:7245666 original size:13 final size:13
Alignment explanation
Indices: 7245648--7245673 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7245638 CAATTTTTTG
7245648 TGTATCGATACAT
1 TGTATCGATACAT
7245661 TGTATCGATACAT
1 TGTATCGATACAT
7245674 ACTTTCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:7245689 original size:32 final size:33
Alignment explanation
Indices: 7245628--7245691 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
7245618 TACAAGCCAA
** *
7245628 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTCTGTATCGATACAT
7245661 TGTATCGATAC-ATACTTTCTGTATCGATACA
1 TGTATCGATACAATACTTTCTGTATCGATACA
7245692 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTCTGTATCGATACAT
Found at i:7245738 original size:21 final size:21
Alignment explanation
Indices: 7245712--7245787 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
7245702 CTGCCAAGAA
*
7245712 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
7245733 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
7245753 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
7245774 ATGTATCGATACAT
1 ATGTATCGATACAT
7245788 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:7245758 original size:20 final size:20
Alignment explanation
Indices: 7245733--7245805 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
7245723 CATCTTTTTT
7245733 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
7245753 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
7245774 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
7245794 ATGTATCGATAC
1 ATGTATCGATAC
7245806 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:7245769 original size:41 final size:41
Alignment explanation
Indices: 7245712--7245805 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
7245702 CTGCCAAGAA
*
7245712 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
7245753 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
7245794 ATGTATCGATAC
1 ATGTATCGATAC
7245806 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:7247617 original size:420 final size:420
Alignment explanation
Indices: 7246833--7247671 Score: 1453
Period size: 420 Copynumber: 2.0 Consensus size: 420
7246823 ATCTTTTTAA
* *
7246833 AGAAAATCATATTCATAAAGCTTTTTATGGAATTCTCGTGAGCTTGTCATCAAAAGAAGCATTCA
1 AGAAAATCATATTCATAAAGCTTTTTATGAAATTCTCGTGAGCTTGTCATCAAAAGAAGCATGCA
* *
7246898 ATGTTTCTAGAAAATACACTGCCATATCTTTCTTAGTTAGTGAAAGATGCATTTAATAGCTTCAT
66 ATGTTTCTAGAAAATACAATGCCATATCTTTCTTAGTTAGTGAAAGATGCATCTAATAGCTTCAT
7246963 CTTTGTATCTCTATGCATATTGCCTGAAAGTCTCAATGGACTTTTTATCCATGTTCTGAAGTGAG
131 CTTTGTATCTCTATGCATATTGCCTGAAAGTCTCAATGGACTTTTTATCCATGTTCTGAAGTGAG
* *
7247028 AAATGATCTAGTGCCTAATCAATCACATGCTTATACTATTCTAAGAAGGCCTTGGCTAAATCTGT
196 AAATAATCTAGTGCCTAATCAATCACATGCTTATACTATTCTAAGAAGGCCTTGGCTAAATCTAT
* *
7247093 CCAAGTTTGAATTTTGTTCCCTTCTAGCTTGATATACCAACGAGTTATTATCCCAGTTCAACTAC
261 CCAAGTTTGAATTTTGTTCCCTTCTAGCTTGATATACCAACAAGCTATTATCCCAGTTCAACTAC
*
7247158 TCTAAAAGTAATGAACCAAAAATTTCTCACTAACCTCATATCCTGCCATCTTTCAACAATATATT
326 TCTAAAAGTAATGAACCAAAAACTTCTCACTAACCTCATATCCTGCCATCTTTCAACAATATATT
7247223 ATGAAGTGAGCTAATGGAGAGGTAGTTTCT
391 ATGAAGTGAGCTAATGGAGAGGTAGTTTCT
* * *
7247253 AGAAAATCATATTCATAAAGCTTTTTGTGAAATTCTTGTGAGCTTGTCATCGAAAGAAGCATGCA
1 AGAAAATCATATTCATAAAGCTTTTTATGAAATTCTCGTGAGCTTGTCATCAAAAGAAGCATGCA
* *
7247318 ATGTTTCTAGAAAATACAATGCCATATCTTTCTTAGTTATTGGAAGATGCATCTAATAGCTTCAT
66 ATGTTTCTAGAAAATACAATGCCATATCTTTCTTAGTTAGTGAAAGATGCATCTAATAGCTTCAT
* * *
7247383 CTTTTTATCTCTATGCATATTGCCTGAAAGTTTCAATGGACTTTTTGTCCATGTTCTGAAGTGAG
131 CTTTGTATCTCTATGCATATTGCCTGAAAGTCTCAATGGACTTTTTATCCATGTTCTGAAGTGAG
* *
7247448 AAATAATCTAGTGCCTAATCAGTTACATGCTTATACTATTCTAAGAAGGCCTTGGCTAAATCTAT
196 AAATAATCTAGTGCCTAATCAATCACATGCTTATACTATTCTAAGAAGGCCTTGGCTAAATCTAT
* *
7247513 CCAAGTTTGAATTTTGTTCCCTTCTAGCTTGATATACCAACAAGCTATTGTTCCAGTTCAACTAC
261 CCAAGTTTGAATTTTGTTCCCTTCTAGCTTGATATACCAACAAGCTATTATCCCAGTTCAACTAC
* * *
7247578 TCTAAAAGTAATGAACCAAAAACTTCTCACTATCCTCATATCTTGCCATCTTTCAATAATATATT
326 TCTAAAAGTAATGAACCAAAAACTTCTCACTAACCTCATATCCTGCCATCTTTCAACAATATATT
*
7247643 ATGAGGTGAGCTAATGGAGAGGTAGTTTC
391 ATGAAGTGAGCTAATGGAGAGGTAGTTTC
7247672 ATTGTATTTT
Statistics
Matches: 394, Mismatches: 25, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
420 394 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (420 bp):
AGAAAATCATATTCATAAAGCTTTTTATGAAATTCTCGTGAGCTTGTCATCAAAAGAAGCATGCA
ATGTTTCTAGAAAATACAATGCCATATCTTTCTTAGTTAGTGAAAGATGCATCTAATAGCTTCAT
CTTTGTATCTCTATGCATATTGCCTGAAAGTCTCAATGGACTTTTTATCCATGTTCTGAAGTGAG
AAATAATCTAGTGCCTAATCAATCACATGCTTATACTATTCTAAGAAGGCCTTGGCTAAATCTAT
CCAAGTTTGAATTTTGTTCCCTTCTAGCTTGATATACCAACAAGCTATTATCCCAGTTCAACTAC
TCTAAAAGTAATGAACCAAAAACTTCTCACTAACCTCATATCCTGCCATCTTTCAACAATATATT
ATGAAGTGAGCTAATGGAGAGGTAGTTTCT
Found at i:7248641 original size:13 final size:13
Alignment explanation
Indices: 7248623--7248649 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7248613 ATATGCTGCT
7248623 TTGTATCGATACA
1 TTGTATCGATACA
7248636 TTGTATCGATACA
1 TTGTATCGATACA
7248649 T
1 T
7248650 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Done.