Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 73 of 343
Found at i:23888064 original size:37 final size:38
Alignment explanation
Indices: 23888006--23888092 Score: 131
Period size: 37 Copynumber: 2.3 Consensus size: 38
23887996 AAATCCTAAT
*
23888006 AATTCAACTAAAACATGTATCAATATTAAAAACATCAGTA
1 AATT-AACT-AAACATGTATCAATATTAAAAACATCAATA
*
23888046 AATTAACTAAA-ATGTATCAATGTTAAAAACATCAATA
1 AATTAACTAAACATGTATCAATATTAAAAACATCAATA
23888083 AATTAACTAA
1 AATTAACTAA
23888093 CATTATTACC
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
37 34 0.76
38 3 0.07
39 4 0.09
40 4 0.09
ACGTcount: A:0.54, C:0.13, G:0.05, T:0.29
Consensus pattern (38 bp):
AATTAACTAAACATGTATCAATATTAAAAACATCAATA
Found at i:23890235 original size:26 final size:23
Alignment explanation
Indices: 23890181--23890235 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 23
23890171 TTTTTTTATT
23890181 ATATTTAATGTAATTTAAATTAA
1 ATATTTAATGTAATTTAAATTAA
* *
23890204 ATATTTAATTGTTATATTTTAATTTA
1 ATATTTAA-TG-TA-ATTTAAATTAA
23890230 ATATTT
1 ATATTT
23890236 TGTATTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 8 0.30
24 2 0.07
25 2 0.07
26 15 0.56
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (23 bp):
ATATTTAATGTAATTTAAATTAA
Found at i:23908287 original size:16 final size:16
Alignment explanation
Indices: 23908266--23908298 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
23908256 AAAATAGAAC
23908266 TCAAGGTATAGTTGGA
1 TCAAGGTATAGTTGGA
23908282 TCAAGGTATAGTTGGA
1 TCAAGGTATAGTTGGA
23908298 T
1 T
23908299 GATTATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.06, G:0.30, T:0.33
Consensus pattern (16 bp):
TCAAGGTATAGTTGGA
Found at i:23913124 original size:40 final size:40
Alignment explanation
Indices: 23913063--23913214 Score: 125
Period size: 40 Copynumber: 3.8 Consensus size: 40
23913053 TTTGGTGGCT
* * **
23913063 TTAGCGGCGC-TTTCTAAAAACGCTGCTAAAGATTGAGTA
1 TTAGCAGCGCTTTTCTAAAAACGCCGCTAAAGATAAAGTA
* **
23913102 TTAGCAGCGCTTTTCTAAAAACGCCGCTATATG-TACACCT-
1 TTAGCAGCGCTTTTCTAAAAACGCCGCTA-AAGATA-AAGTA
* * *
23913142 TTAGCAGCGCCTTT-TAGAAAACGCCGCTAAAGATCAAGCA
1 TTAGCAGCGCTTTTCTA-AAAACGCCGCTAAAGATAAAGTA
* *
23913182 TTAGCGGCG-TTTTCTAAAAAGCGCTGCTAAAGA
1 TTAGCAGCGCTTTTCTAAAAA-CGCCGCTAAAGA
23913215 ATTTTGTAAA
Statistics
Matches: 89, Mismatches: 16, Indels: 15
0.74 0.13 0.12
Matches are distributed among these distances:
39 21 0.24
40 65 0.73
41 3 0.03
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.26
Consensus pattern (40 bp):
TTAGCAGCGCTTTTCTAAAAACGCCGCTAAAGATAAAGTA
Found at i:23913314 original size:40 final size:40
Alignment explanation
Indices: 23913246--23913353 Score: 121
Period size: 40 Copynumber: 2.7 Consensus size: 40
23913236 ATTTTAGTGG
* *
23913246 CTTTAGTGGCGCTTTTTTAAGAAACGCCGCTATAAG-TAC-AC
1 CTTTAGCGGCGC-TTTTTAAAAAACGCCGCTA-AAGCT-CGAC
* *
23913287 CTTTAGCGGCGCTTTTTAAAAAACGCCGCTAATGCTCGAT
1 CTTTAGCGGCGCTTTTTAAAAAACGCCGCTAAAGCTCGAC
* *
23913327 CTTTAGCGGCGTTTTTTGAAAAACGCC
1 CTTTAGCGGCGCTTTTTAAAAAACGCC
23913354 ACAAAATAGA
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
39 3 0.05
40 45 0.76
41 11 0.19
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.31
Consensus pattern (40 bp):
CTTTAGCGGCGCTTTTTAAAAAACGCCGCTAAAGCTCGAC
Found at i:23913595 original size:7 final size:7
Alignment explanation
Indices: 23913580--23913609 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
23913570 ATGTATTCTG
23913580 GGTTTAT
1 GGTTTAT
*
23913587 GGATTAT
1 GGTTTAT
23913594 GGTTTAT
1 GGTTTAT
23913601 GGTTTAT
1 GGTTTAT
23913608 GG
1 GG
23913610 GTTAAAGGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (7 bp):
GGTTTAT
Found at i:23913599 original size:14 final size:14
Alignment explanation
Indices: 23913565--23913609 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
23913555 ACTATTGTAA
* *
23913565 GGTTTATGTATTCT
1 GGTTTATGGATTAT
23913579 GGGTTTATGGATTAT
1 -GGTTTATGGATTAT
*
23913594 GGTTTATGGTTTAT
1 GGTTTATGGATTAT
23913608 GG
1 GG
23913610 GTTAAAGGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 15 0.56
15 12 0.44
ACGTcount: A:0.16, C:0.02, G:0.31, T:0.51
Consensus pattern (14 bp):
GGTTTATGGATTAT
Found at i:23913625 original size:21 final size:21
Alignment explanation
Indices: 23913579--23913627 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
23913569 TATGTATTCT
*
23913579 GGGTTTATGGATTATGGTTTA
1 GGGTTTATGGATTAAGGTTTA
* *
23913600 TGGTTTATGGGTTAAAGG-TTA
1 GGGTTTATGGATT-AAGGTTTA
23913621 GGGTTTA
1 GGGTTTA
23913628 AGTTTTAGGG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.20, C:0.00, G:0.35, T:0.45
Consensus pattern (21 bp):
GGGTTTATGGATTAAGGTTTA
Found at i:23913678 original size:22 final size:20
Alignment explanation
Indices: 23913616--23913678 Score: 63
Period size: 22 Copynumber: 3.0 Consensus size: 20
23913606 ATGGGTTAAA
23913616 GGTTAGGGTTTAAGTTTTAG
1 GGTTAGGGTTTAAGTTTTAG
* *
23913636 GGTATTGGGGTTTAAGGTTTAGG
1 GG--TTAGGGTTTAAGTTTTA-G
*
23913659 GGTTAAGGGTTTATGTTTTA
1 GGTT-AGGGTTTAAGTTTTA
23913679 TTGTTTAAGG
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
20 2 0.06
21 2 0.06
22 27 0.79
23 3 0.09
ACGTcount: A:0.19, C:0.00, G:0.37, T:0.44
Consensus pattern (20 bp):
GGTTAGGGTTTAAGTTTTAG
Found at i:23925530 original size:35 final size:36
Alignment explanation
Indices: 23925431--23925530 Score: 112
Period size: 35 Copynumber: 2.8 Consensus size: 36
23925421 ATTTTGCCAA
* *
23925431 TTTTATCAACTTTATCAACTTCATCAACTATTGGTG
1 TTTTAGCAACTTCATCAACTTCATCAACTATTGGTG
* * * *
23925467 TTTTAGCAACTTCATTAGCTTTATCAACTGTT-GTG
1 TTTTAGCAACTTCATCAACTTCATCAACTATTGGTG
* * *
23925502 TTTTAGTAACTTCATCAAATTCAACAACT
1 TTTTAGCAACTTCATCAACTTCATCAACT
23925531 TGCCCTTTTG
Statistics
Matches: 52, Mismatches: 12, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
35 26 0.50
36 26 0.50
ACGTcount: A:0.29, C:0.19, G:0.09, T:0.43
Consensus pattern (36 bp):
TTTTAGCAACTTCATCAACTTCATCAACTATTGGTG
Found at i:23926852 original size:65 final size:65
Alignment explanation
Indices: 23926723--23926943 Score: 193
Period size: 65 Copynumber: 3.4 Consensus size: 65
23926713 TGACTTTAAT
* * * * * ****
23926723 TCTTTAAGGTAACATGTTTCTTTGAAGC-AACC-TAAGTTATACACTTCTTTAAAGCAAATTTAC
1 TCTTTAAGGTAACAAGCTTCTTTAAAGCAAACCTTTA-TTACACACTTCTTTAAAGTGGCTTTAC
23926786 C
65 C
23926787 TCTTTAAGGTAACACAG-TTCTTTAAAGCAAACCTTTATTACACACTTCTTTAAAGTGGCTTTAC
1 TCTTTAAGGTAACA-AGCTTCTTTAAAGCAAACCTTTATTACACACTTCTTTAAAGTGGCTTTAC
23926851 C
65 C
* * ** * * *
23926852 T-TTATAAGGTAATACA-CTTTTTTAAATTAAA-GTTGTGTTGCACACTTCTTTAAAGTGGCTTT
1 TCTT-TAAGGTAACA-AGCTTCTTTAAAGCAAACCTT-TATTACACACTTCTTTAAAGTGGCTTT
23926914 ACC
63 ACC
* *
23926917 TCTTTAAAGTAACATGCTTCTTTAAAG
1 TCTTTAAGGTAACAAGCTTCTTTAAAG
23926944 TGAACTTAGA
Statistics
Matches: 129, Mismatches: 20, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
64 28 0.22
65 97 0.75
66 4 0.03
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (65 bp):
TCTTTAAGGTAACAAGCTTCTTTAAAGCAAACCTTTATTACACACTTCTTTAAAGTGGCTTTACC
Found at i:23933454 original size:46 final size:48
Alignment explanation
Indices: 23933308--23933625 Score: 281
Period size: 47 Copynumber: 6.8 Consensus size: 48
23933298 GTGGGTAAAG
* * * *
23933308 TGCCGATGCCATGTCCTAGACATGGTATTACACTGGCT-TATATCTCAA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-CATCTCAA
* * * *
23933356 -GTCGATGCCATGTCCTAGACATGGTCTTACACT-GACTATCATCTC-G
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTCATCTCAA
* *
23933402 TAGCCGATG-CATGTCCCAGACAT-ATCTTACACTAACTCTCATCTCAA
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAA
*
23933449 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCT-TACGA-CTCAA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-C-ATCTCAA
* * * *
23933497 GGCCGATG-CATGTCTCAGACAT-ATCTTACACTAGCTCTCGTCTCAA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAA
* * *
23933543 TGCTGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCA--T-AA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAA
23933588 TGTGGCCGATG-CATGTCCC-GAACAT-GTCTTACACTAGC
1 --T-GCCGATGCCATGTCCCAG-ACATGGTCTTACACTAGC
23933626 CAACAATAAC
Statistics
Matches: 224, Mismatches: 28, Indels: 38
0.77 0.10 0.13
Matches are distributed among these distances:
45 2 0.01
46 64 0.29
47 104 0.46
48 53 0.24
49 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (48 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAA
Found at i:23933624 original size:94 final size:93
Alignment explanation
Indices: 23933309--23933625 Score: 333
Period size: 94 Copynumber: 3.4 Consensus size: 93
23933299 TGGGTAAAGT
* * * * * * *
23933309 GCCGATGCCATGTCCTAGACATGGTATTACACTGGCT-TATATCTCAA-GTCGATGCCATGTCCT
1 GCCGATG-CATGTCCCAGACAT-ATCTTACACTAGCTCT-CATCTCAATGCCGATGCCATGTCCC
* * * *
23933372 AGACATGGTCTTACACTGACTATCAT-CTCGTA
63 AAACATGGTCTTACACTGGCT-TCATAAT-GTG
*
23933404 GCCGATGCATGTCCCAGACATATCTTACACTAACTCTCATCTCAATGCCGATGCCATGTCCCAAA
1 GCCGATGCATGTCCCAGACATATCTTACACTAGCTCTCATCTCAATGCCGATGCCATGTCCCAAA
*
23933469 CATGGTCTTACACTAGCTTACGACTCAA---G
66 CATGGTCTTACACTGGCTT-C-A-T-AATGTG
* * *
23933498 GCCGATGCATGTCTCAGACATATCTTACACTAGCTCTCGTCTCAATGCTGATGCCATGTCCCAAA
1 GCCGATGCATGTCCCAGACATATCTTACACTAGCTCTCATCTCAATGCCGATGCCATGTCCCAAA
23933563 CATGGTCTTACACTGGCTCTCATAATGTG
66 CATGGTCTTACACTGGCT-TCATAATGTG
*
23933592 GCCGATGCATGTCCC-GAACATGTCTTACACTAGC
1 GCCGATGCATGTCCCAG-ACATATCTTACACTAGC
23933626 CAACAATAAC
Statistics
Matches: 190, Mismatches: 20, Indels: 25
0.81 0.09 0.11
Matches are distributed among these distances:
91 2 0.01
92 1 0.01
93 20 0.11
94 157 0.83
95 9 0.05
96 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (93 bp):
GCCGATGCATGTCCCAGACATATCTTACACTAGCTCTCATCTCAATGCCGATGCCATGTCCCAAA
CATGGTCTTACACTGGCTTCATAATGTG
Found at i:23945823 original size:19 final size:19
Alignment explanation
Indices: 23945799--23945838 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
23945789 ATAGACTTTC
23945799 ATACACTAAATTCTTCCTA
1 ATACACTAAATTCTTCCTA
23945818 ATACACTAAATTCTTCCTA
1 ATACACTAAATTCTTCCTA
23945837 AT
1 AT
23945839 TCTGGTATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.25, G:0.00, T:0.38
Consensus pattern (19 bp):
ATACACTAAATTCTTCCTA
Found at i:23950139 original size:7 final size:7
Alignment explanation
Indices: 23950129--23950155 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
23950119 CTTTTGGGGT
23950129 TTGGGAA
1 TTGGGAA
23950136 TTGGGAA
1 TTGGGAA
23950143 TTGGGAA
1 TTGGGAA
23950150 TTGGGA
1 TTGGGA
23950156 CCAAAAGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.44, T:0.30
Consensus pattern (7 bp):
TTGGGAA
Found at i:23952348 original size:82 final size:82
Alignment explanation
Indices: 23952257--23952422 Score: 316
Period size: 82 Copynumber: 2.0 Consensus size: 82
23952247 TCTAATACAA
23952257 TAAACCTAATCG-TCCAAAAAAAATAAAATTATATACTTCATCATACTTAAACCTACGTATATAC
1 TAAACCTAATCGCT-CAAAAAAAATAAAATTATATACTTCATCATACTTAAACCTACGTATATAC
23952321 TTCATCATACTCAAAACC
65 TTCATCATACTCAAAACC
23952339 TAAACCTAATCGCTCAAAAAAAATAAAATTATATACTTCATCATACTTAAACCTACGTATATACT
1 TAAACCTAATCGCTCAAAAAAAATAAAATTATATACTTCATCATACTTAAACCTACGTATATACT
23952404 TCATCATACTCAAAACC
66 TCATCATACTCAAAACC
23952421 TA
1 TA
23952423 CGTCCTCTTA
Statistics
Matches: 83, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
82 82 0.99
83 1 0.01
ACGTcount: A:0.45, C:0.23, G:0.02, T:0.30
Consensus pattern (82 bp):
TAAACCTAATCGCTCAAAAAAAATAAAATTATATACTTCATCATACTTAAACCTACGTATATACT
TCATCATACTCAAAACC
Found at i:23952420 original size:29 final size:28
Alignment explanation
Indices: 23952286--23952425 Score: 110
Period size: 28 Copynumber: 5.0 Consensus size: 28
23952276 AAAATAAAAT
*
23952286 TATATACTTCATCATACTTAAACCTACG
1 TATATACTTCATCATACTAAAACCTACG
*
23952314 TATATACTTCATCATACTCAAAACCTAAACC
1 TATATACTTCATCATACT-AAAACCT--ACG
* ** *** **
23952345 TA-AT-C-GC-TCA-AAAAAAATAAAAT
1 TATATACTTCATCATACTAAAACCTACG
*
23952368 TATATACTTCATCATACTTAAACCTACG
1 TATATACTTCATCATACTAAAACCTACG
23952396 TATATACTTCATCATACTCAAAACCTACG
1 TATATACTTCATCATACT-AAAACCTACG
23952425 T
1 T
23952426 CCTCTTATAT
Statistics
Matches: 83, Mismatches: 20, Indels: 17
0.69 0.17 0.14
Matches are distributed among these distances:
23 3 0.04
24 2 0.02
25 5 0.06
26 2 0.02
27 6 0.07
28 42 0.51
29 17 0.20
30 2 0.02
31 4 0.05
ACGTcount: A:0.41, C:0.24, G:0.03, T:0.31
Consensus pattern (28 bp):
TATATACTTCATCATACTAAAACCTACG
Found at i:23953339 original size:48 final size:46
Alignment explanation
Indices: 23953209--23953347 Score: 117
Period size: 48 Copynumber: 3.0 Consensus size: 46
23953199 CTGTGTGATA
*
23953209 ATTATTT-TCTCTAATTAATTTAAATTAATAA-AGA-AATATTAAAT
1 ATTATTTATCTCTAATTAA-TTAAATTAATAAGAGATAATATCAAAT
* * * * * *
23953253 TTTATATTACCACTAATTAA-AAAAATAATTAAGTGATAATATCAAAT
1 ATTAT-TTATCTCTAATTAATTAAATTAA-TAAGAGATAATATCAAAT
* *
23953300 GATTATTGTATCTCTAATTAATTAAATTAATAAGGGATAA-ATAAAAT
1 -ATTATT-TATCTCTAATTAATTAAATTAATAAGAGATAATATCAAAT
23953347 A
1 A
23953348 GTTTAAAATC
Statistics
Matches: 73, Mismatches: 14, Indels: 14
0.72 0.14 0.14
Matches are distributed among these distances:
44 10 0.14
45 5 0.07
46 12 0.16
47 16 0.22
48 24 0.33
49 6 0.08
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.40
Consensus pattern (46 bp):
ATTATTTATCTCTAATTAATTAAATTAATAAGAGATAATATCAAAT
Found at i:23953453 original size:53 final size:53
Alignment explanation
Indices: 23953368--23953473 Score: 149
Period size: 53 Copynumber: 2.0 Consensus size: 53
23953358 TTTTAGAATA
* * ** * * *
23953368 ATCAAATGGAGTAGTTAAATTCTACATGAACTCTTTTTTATTCATGTGATTGG
1 ATCAAATGGAGCAGATAAATTCTACAAAAACTCTCTTTTATTCAAGTAATTGG
23953421 ATCAAATGGAGCAGATAAATTCTACAAAAACTCTCTTTTATTCAAGTAATTGG
1 ATCAAATGGAGCAGATAAATTCTACAAAAACTCTCTTTTATTCAAGTAATTGG
23953474 CACTATAAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
53 46 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (53 bp):
ATCAAATGGAGCAGATAAATTCTACAAAAACTCTCTTTTATTCAAGTAATTGG
Found at i:23957575 original size:40 final size:37
Alignment explanation
Indices: 23957529--23957705 Score: 160
Period size: 39 Copynumber: 4.6 Consensus size: 37
23957519 TACTCGTTCA
*
23957529 AATGCCTTCGGACATAGCCCGGTTATAGTGAACTCGCAC
1 AATGCCTTCGGACTTAGCCCGGTT-TAGT-AACTCGCAC
*
23957568 AATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
1 AA-TGCCTTC-GGACTTAGCCCGG-TTTAGTAACTCGCAC
** *
23957608 AAATGCCTTCGG--TTAGCCCGAATTAGTATCTCGCAC
1 -AATGCCTTCGGACTTAGCCCGGTTTAGTAACTCGCAC
* * * * *
23957644 AATGCCTTCGGATCTTAGTCCGGATTGGTCACTTAGCAC
1 AATGCCTTCGGA-CTTAGCCCGGTTTAGTAAC-TCGCAC
*
23957683 AAAGCCTTCGGGACTTAGCCCGG
1 AATGCCTTC-GGACTTAGCCCGG
23957706 ACATCATTCA
Statistics
Matches: 115, Mismatches: 14, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
35 11 0.10
36 13 0.11
37 7 0.06
38 13 0.11
39 26 0.23
40 26 0.23
41 17 0.15
42 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (37 bp):
AATGCCTTCGGACTTAGCCCGGTTTAGTAACTCGCAC
Found at i:23957641 original size:36 final size:38
Alignment explanation
Indices: 23957527--23957656 Score: 124
Period size: 40 Copynumber: 3.4 Consensus size: 38
23957517 GCTACTCGTT
* * *
23957527 CAAATGCCTTCGGACATAGCCCGG-TTATAGTGAACTCGCA
1 CAAATGCCTTCGGA-TTAACCCGGAAT-TAGT-AACTCGCA
* *
23957567 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGA-TTAACCCGGAATTAGTAACTCGCA
* *
23957607 CAAATGCCTTCGG-TTAGCCC-GAATTAGTATCTCGCA
1 CAAATGCCTTCGGATTAACCCGGAATTAGTAACTCGCA
23957643 C-AATGCCTTCGGAT
1 CAAATGCCTTCGGAT
23957657 CTTAGTCCGG
Statistics
Matches: 80, Mismatches: 7, Indels: 10
0.82 0.07 0.10
Matches are distributed among these distances:
35 11 0.14
36 16 0.20
37 6 0.08
39 2 0.03
40 28 0.35
41 15 0.19
42 2 0.03
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (38 bp):
CAAATGCCTTCGGATTAACCCGGAATTAGTAACTCGCA
Found at i:23960503 original size:38 final size:39
Alignment explanation
Indices: 23960368--23960570 Score: 200
Period size: 40 Copynumber: 5.1 Consensus size: 39
23960358 CGGAATTTAA
* ** *
23960368 CCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATTTAG-TACTCGCACAAATGCCTTCGGGACTTAGC
* *
23960408 CCGG-TTATAGTGACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATT-TAGT-ACTCGCACAAATGCCTTCGGGACTTAGC
23960448 CCGGATTTAGTAACTCGCACAAATGCCTTC-GG-CTTAGC
1 CCGGATTTAGT-ACTCGCACAAATGCCTTCGGGACTTAGC
* *
23960486 CCGGAATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATTTAGTA-CTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
23960526 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATTTAGT-AC-TCGCACAAATGCCTTCGGGACTTAGC
23960566 CCGGA
1 CCGGA
23960571 CACCATTCAA
Statistics
Matches: 138, Mismatches: 16, Indels: 18
0.80 0.09 0.10
Matches are distributed among these distances:
37 1 0.01
38 34 0.25
39 4 0.03
40 85 0.62
41 14 0.10
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATTTAGTACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:23960515 original size:78 final size:82
Alignment explanation
Indices: 23960387--23960570 Score: 213
Period size: 78 Copynumber: 2.3 Consensus size: 82
23960377 GCTACTCGTT
* * *
23960387 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTGACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTGACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
23960450 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
**
23960467 CAAATGCCTTC-GG-CTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTCGGATCTTAGTCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTGA-CTCGCACAAATGCCTTCGGATCTTAACCC
* *
23960528 GGATATGGTCACTTAGCA
65 GGATATAGTAACTTAGCA
23960546 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
23960571 CACCATTCAA
Statistics
Matches: 89, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
77 4 0.04
78 50 0.56
79 13 0.15
80 22 0.25
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTGACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:23973682 original size:13 final size:13
Alignment explanation
Indices: 23973666--23973697 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
23973656 AATAAAACCC
23973666 TTAAATATTTATA
1 TTAAATATTTATA
23973679 TTAAATATTTATA
1 TTAAATATTTATA
23973692 TTAAAT
1 TTAAAT
23973698 GCTTACGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TTAAATATTTATA
Found at i:23976638 original size:9 final size:9
Alignment explanation
Indices: 23976624--23976653 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
23976614 TTATTATATA
23976624 ATTTTCAAT
1 ATTTTCAAT
23976633 ATTTTCAAT
1 ATTTTCAAT
*
23976642 ATTTTTAAT
1 ATTTTCAAT
23976651 ATT
1 ATT
23976654 ATTTAAGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (9 bp):
ATTTTCAAT
Found at i:23977135 original size:681 final size:668
Alignment explanation
Indices: 23975751--23977331 Score: 1684
Period size: 681 Copynumber: 2.3 Consensus size: 668
23975741 TATTGAAAAC
* *
23975751 TTGTTGACAATATGACT-AATTCCAAGTTAAATAACATAAATACCATATGAATTTAAGAACTCAT
1 TTGTTAACAATATGACTAAATTCCAAGTTAAATAACATAAATACCATATAAATTTAAGAACTC-T
* * *
23975815 TTTAGAACAAAATAAGAGAAAAAAACCAAGATAATTAGAATGATAAACTTGAATTGATAGTTTAC
65 TTTAAAACAAAATAAGAG-AAAAAACAAAGATAATTAGAATGATAGACTTGAATTGATAGTTTAC
* * * *
23975880 TTGTTTAAGGCTACGAATTTATCATTTT-GAA-ATTT--TAAAAAATAATTTAGCTTTATTATAT
129 TTGTTTAAGGCTTCAAATTTATCATTTTAGAATTTTTAATAAAAAATAATTTAGCATTATTATAT
* *
23975941 AATTTTCAAGAATTTTAAATATTTTTATATAATATTTAAGTTTTTTTAATTTATATATATTTATA
194 AATTTTCAA-TATTTTAAATATTTTTATATAATATTTAAGTTGTTTTAATTTATATATATTTATA
* * **
23976006 AAATTTTGTGAAAACGTTTTATAAAAATGTTGAATTTTTTAAGATTATTTGAATTTTGTTTTTAC
258 AAATTTTGGGAAAACG-ATTATAAAAATGTTGAATTTTAGAAGATTATTTGAATTTTGTTTTTAC
* * * * * * * *
23976071 AGAGGCTTATTTGCACATTTTCAAAACTATCAGCAACCCAAGGGGTATTTACCTCAGTTTGTTAT
322 AGAAGATTATTTGCACATTTTCAAAACTACCAGCAACCCAAGGAGTACTTACATCAATTTATTAT
* *
23976136 TCAAGTTGTGAAATTCAACTAACTCAAACTCGAAAAAATGAATCACTTATTCGAGTTGATTCAAA
387 CCAAGTTGTGAAATTCAACTAACTCAAACTCGAAAAAATGAAT-AC-TA-T--AGTTGATTAAAA
*
23976201 AAAATCGATTAACTAGAAATTTAAAGAAATTATACATTCTTCAAATCAAATTGAGTTTTGCTCAC
447 AAAATCGATTAACTAGAAATTCAAAGAAATTATACATTCTTCAAATCAAATTGAGTTTTGCTCAC
* * * ** **
23976266 CACTAATCAAAAGAATGTAGCTTCGATGAGTTGATTACTATGTTTTCTTTAAATGGGAATAAGAT
512 CACTAACCAAAAGAATGTAGATTCGATGAATTGATTACTATGTAATCTAAAAATGGGAATAAGAT
** * * *
23976331 TGTTACTTTACCTCTATTTAACAGAATCCACAAATATAATCGAAAAATTTGTTAGAGTCAAATAA
577 AATTACTTTACCTCTAATTAACAGAATCCACAAATACAATCAAAAAATTTGTTAGAGTCAAATAA
* * *
23976396 AAGAAAGTAAACTAGTCATATTGAAATT
642 AAAAAAGTAAACCAATCATATT-AAATT
* * * * *
23976424 TTGTTAACAATATGATTAAATTCTAAGTTAAAGAACATAAATATCATA-AAAGTCTAAGAACTCT
1 TTGTTAACAATATGACTAAATTCCAAGTTAAATAACATAAATACCATATAAA-TTTAAGAACTCT
* * ** * *
23976488 TTATAAAACAAAATAAGAGAAAAACACAAAGATATTTCGAATGATAGGTTTAAATGGATAGTTTA
65 TT-TAAAACAAAATAAGAGAAAAA-ACAAAGATAATTAGAATGATAGACTTGAATTGATAGTTTA
23976553 CTTGTTTAAGGCTTCAAATTTATCATTTTAGAATTTTTAAAATAATAATAATAATTTAGCATTAT
128 CTTGTTTAAGGCTTCAAATTTATCATTTTAGAATTTTT--AATAA-AA-AATAATTTAGCATTAT
* * * *
23976618 TATATAATTTTCAATATTTTCAATATTTTTA-ATATTATTTAAG-TGTTTTCATTTATATGTATT
189 TATATAATTTTCAATATTTTAAATATTTTTATATAATATTTAAGTTGTTTTAATTTATATATATT
* *
23976681 TAT-AAATTTTGGGAAAAC-ATTATAAATATTTTGAATTTTAGAAGATTATTTGAATTTTTTTTT
254 TATAAAATTTTGGGAAAACGATTATAAAAATGTTGAATTTTAGAAGATTATTTGAA-----TTTT
** * * * * *
23976744 GGATTTTTTTTGAGAAAGATTAATTTGCACATTTTCAAAACTGCCAAG-GACCTAATGATTACTT
314 -G---TTTTTACAG-AAGATT-ATTTGCACATTTTCAAAACTACC-AGCAACCCAAGGAGTACTT
*
23976808 ACATCAATTTATTATCCAAGTTGTGAAATTCAACTCAACTCGAAACTC-ATAAAATTGAAT-C-A
372 ACATCAATTTATTATCCAAGTTGTGAAATTCAACT-AACTC-AAACTCGA-AAAAATGAATACTA
* * *
23976870 -AGTTGATTAAAAAAAATTGATTAAATTA-AAATTCGAAGAAAATT-T-CTATTCTTC-AATCAA
434 TAGTTGATTAAAAAAAATCGATT-AACTAGAAATTCAAAG-AAATTATAC-ATTCTTCAAATCAA
* * * * * *
23976930 TTTGAGTTTTGCTCTCCTCTAGCCAAAAGTATGTAGATTATGATGAATTGATTACT-TAGTAATC
496 ATTGAGTTTTGCTCACCACTAACCAAAAGAATGTAGATT-CGATGAATTGATTACTAT-GTAATC
* *
23976994 TAAAAATGGGGATAAGATAATTACTTTACCTCTAATTAATAGAATCCA-AAAGTACAATCAAATA
559 TAAAAATGGGAATAAGATAATTACTTTACCTCTAATTAACAGAATCCACAAA-TACAATCAAA-A
* * *
23977058 AATTTGTTTGAGTCAAATTTTAAAAAAAATTAAACCAATCTTA-T-AATT
622 AATTTGTTAGAGTCAAA---TAAAAAAAAGTAAACCAATCATATTAAATT
** * *
23977106 ATTGTTGGC-A-ATGACTAAATTCCAAGTTAATTAATATAAATACCATATAAATTTAAGAACTCT
1 -TTGTTAACAATATGACTAAATTCCAAGTTAAATAACATAAATACCATATAAATTTAAGAACTCT
* *
23977169 TTTAGAAACAAAATAAGAGTAAAAACTAAGATAATTAGAATGATAGACTTGAATTGATAGTTTAC
65 TTTA-AAACAAAATAAGAGAAAAAACAAAGATAATTAGAATGATAGACTTGAATTGATAGTTTAC
* * * * * * * * * *
23977234 TTATTTAAGACTTTAAATTTATTATTCTACATTTTTTAA-AAAACAATAATTTAGTATCATTACA
129 TTGTTTAAGGCTTCAAATTTATCATTTTAGAATTTTTAATAAAA-AATAATTTAGCATTATTATA
* *
23977298 TAATTTTCAATATTTTTAATAATTTTTATTTAAT
193 TAATTTTCAATATTTTAAAT-ATTTTTATATAAT
23977332 TTATATATTT
Statistics
Matches: 755, Mismatches: 111, Indels: 79
0.80 0.12 0.08
Matches are distributed among these distances:
673 25 0.03
674 111 0.15
675 3 0.00
676 72 0.10
677 9 0.01
678 19 0.03
679 20 0.03
680 123 0.16
681 186 0.25
682 64 0.08
683 6 0.01
684 1 0.00
685 26 0.03
686 4 0.01
687 63 0.08
688 8 0.01
689 15 0.02
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.39
Consensus pattern (668 bp):
TTGTTAACAATATGACTAAATTCCAAGTTAAATAACATAAATACCATATAAATTTAAGAACTCTT
TTAAAACAAAATAAGAGAAAAAACAAAGATAATTAGAATGATAGACTTGAATTGATAGTTTACTT
GTTTAAGGCTTCAAATTTATCATTTTAGAATTTTTAATAAAAAATAATTTAGCATTATTATATAA
TTTTCAATATTTTAAATATTTTTATATAATATTTAAGTTGTTTTAATTTATATATATTTATAAAA
TTTTGGGAAAACGATTATAAAAATGTTGAATTTTAGAAGATTATTTGAATTTTGTTTTTACAGAA
GATTATTTGCACATTTTCAAAACTACCAGCAACCCAAGGAGTACTTACATCAATTTATTATCCAA
GTTGTGAAATTCAACTAACTCAAACTCGAAAAAATGAATACTATAGTTGATTAAAAAAAATCGAT
TAACTAGAAATTCAAAGAAATTATACATTCTTCAAATCAAATTGAGTTTTGCTCACCACTAACCA
AAAGAATGTAGATTCGATGAATTGATTACTATGTAATCTAAAAATGGGAATAAGATAATTACTTT
ACCTCTAATTAACAGAATCCACAAATACAATCAAAAAATTTGTTAGAGTCAAATAAAAAAAAGTA
AACCAATCATATTAAATT
Found at i:23977770 original size:13 final size:13
Alignment explanation
Indices: 23977745--23977779 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
23977735 GTAATTTTTT
23977745 ATGCAAC-AGATA
1 ATGCAACGAGATA
23977757 ATGCAACGAGATA
1 ATGCAACGAGATA
23977770 ATGCAACGAG
1 ATGCAACGAG
23977780 TGGGAAAGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 7 0.32
13 15 0.68
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.14
Consensus pattern (13 bp):
ATGCAACGAGATA
Found at i:23979197 original size:20 final size:20
Alignment explanation
Indices: 23979172--23979210 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
23979162 ACATATTATC
*
23979172 ACTGTTCATGATTTAACCTT
1 ACTGTTCATAATTTAACCTT
*
23979192 ACTGTTTATAATTTAACCT
1 ACTGTTCATAATTTAACCT
23979211 CATTATTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.18, G:0.08, T:0.46
Consensus pattern (20 bp):
ACTGTTCATAATTTAACCTT
Found at i:23980325 original size:36 final size:35
Alignment explanation
Indices: 23980285--23980353 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 35
23980275 AGAGATGTGT
*
23980285 TTGAAAATAA-TATACAATAAATAATGAAACTATGGG
1 TTGAAAATAATTA-ACAATAAAAAATGAAA-TATGGG
* *
23980321 TTGAAACTAATTAATAATAAAAAATGAAATATG
1 TTGAAAATAATTAACAATAAAAAATGAAATATG
23980354 TGCAATATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
35 4 0.14
36 23 0.79
37 2 0.07
ACGTcount: A:0.55, C:0.04, G:0.12, T:0.29
Consensus pattern (35 bp):
TTGAAAATAATTAACAATAAAAAATGAAATATGGG
Found at i:23985827 original size:13 final size:13
Alignment explanation
Indices: 23985809--23985833 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23985799 TTAAACGATA
23985809 AAATTTTCACACG
1 AAATTTTCACACG
23985822 AAATTTTCACAC
1 AAATTTTCACAC
23985834 ATATCTCATT
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:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:23986096 original size:7 final size:7
Alignment explanation
Indices: 23986084--23986117 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
23986074 CTAAAGAGAC
23986084 TTTCTTA
1 TTTCTTA
23986091 TTTCTTA
1 TTTCTTA
23986098 TTTCTTA
1 TTTCTTA
23986105 TTTCTTA
1 TTTCTTA
*
23986112 ATTCTT
1 TTTCTT
23986118 TAACCTTACG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTCTTA
Found at i:23991660 original size:10 final size:10
Alignment explanation
Indices: 23991645--23991670 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
23991635 CCATTTTAAC
23991645 TACCAAATCA
1 TACCAAATCA
23991655 TACCAAATCA
1 TACCAAATCA
23991665 TACCAA
1 TACCAA
23991671 GATTACCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (10 bp):
TACCAAATCA
Found at i:23992392 original size:42 final size:43
Alignment explanation
Indices: 23992295--23992404 Score: 132
Period size: 42 Copynumber: 2.6 Consensus size: 43
23992285 TACCAACGTT
* ** *
23992295 CCAGACATGGTCTTACATGTTATCAAATATCGATGTCACTGTC
1 CCAGACATGGTCTTACACGAAATCAAATATCGATGCCACTGTC
* * *
23992338 TCAGACAGGGTCTTACACGAAATCATATAT-GATGCCACTGTC
1 CCAGACATGGTCTTACACGAAATCAAATATCGATGCCACTGTC
* *
23992380 CCAGACTTGGTCTTACACAAAATCA
1 CCAGACATGGTCTTACACGAAATCA
23992405 CATACCGGAA
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
42 32 0.57
43 24 0.43
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (43 bp):
CCAGACATGGTCTTACACGAAATCAAATATCGATGCCACTGTC
Found at i:23999117 original size:20 final size:20
Alignment explanation
Indices: 23999073--23999119 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
23999063 ATTTTGATAA
* *
23999073 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATAC
23999093 ACATGATATGTATGATATAC
1 ACATGATATGTATGATATAC
*
23999113 TCATGAT
1 ACATGAT
23999120 GTATTCATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (20 bp):
ACATGATATGTATGATATAC
Found at i:23999200 original size:26 final size:24
Alignment explanation
Indices: 23999170--23999319 Score: 212
Period size: 24 Copynumber: 6.1 Consensus size: 24
23999160 AAGGAAGTGC
*
23999170 AAAAGGGTTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
23999194 AAAAAAGGGCTTATGCCCTAGTTATT
1 --AAAAGGGCTTATGCCCCAGTTATT
* * *
23999220 AAAAGAGGGCTTATGCTCTAGTTACT
1 -AAA-AGGGCTTATGCCCCAGTTATT
23999246 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
23999270 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
23999294 AAAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
23999317 AAA
1 AAA
23999320 GAGGCTAGGC
Statistics
Matches: 116, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
23 16 0.14
24 52 0.45
25 7 0.06
26 41 0.35
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:24008054 original size:20 final size:20
Alignment explanation
Indices: 24008014--24008196 Score: 84
Period size: 20 Copynumber: 9.5 Consensus size: 20
24008004 TTAAATTTTA
24008014 ATAAAAA-TA-AAAAAAA-T
1 ATAAAAATTAGAAAAAAATT
24008031 -TAAAAATTAGAAAAAAATT
1 ATAAAAATTAGAAAAAAATT
*
24008050 ATAAAAGTT-GCAAAAAAATT
1 ATAAAAATTAG-AAAAAAATT
* * * *
24008070 GTAAAATTTTATAAAAATATT
1 ATAAAA-ATTAGAAAAAAATT
*
24008091 A-AAAAAATAG-AAAAAA-T
1 ATAAAAATTAGAAAAAAATT
* ** *
24008108 AGAAAAATT-TTATAAAATT
1 ATAAAAATTAGAAAAAAATT
* * *
24008127 TTACAAATTCGTAAAAAAATT
1 ATAAAAATTAG-AAAAAAATT
* *
24008148 ATAAAAAAT-GTAAAGAAA-T
1 ATAAAAATTAG-AAAAAAATT
* *
24008167 AT-AAAATTGGTAAAAGAATT
1 ATAAAAATTAG-AAAAAAATT
24008187 ATAAAAATTA
1 ATAAAAATTA
24008197 TCGTACTAAA
Statistics
Matches: 124, Mismatches: 27, Indels: 26
0.70 0.15 0.15
Matches are distributed among these distances:
16 6 0.05
17 4 0.03
18 28 0.23
19 21 0.17
20 36 0.29
21 29 0.23
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.28
Consensus pattern (20 bp):
ATAAAAATTAGAAAAAAATT
Found at i:24008415 original size:19 final size:20
Alignment explanation
Indices: 24008389--24008426 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
24008379 ATTTTCTAAT
*
24008389 AAATTTTATAATTTTTATTA
1 AAATTTAATAATTTTTATTA
*
24008409 AAATTTAATAGTTTTTAT
1 AAATTTAATAATTTTTAT
24008427 AATTTATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (20 bp):
AAATTTAATAATTTTTATTA
Found at i:24009386 original size:16 final size:15
Alignment explanation
Indices: 24009329--24009387 Score: 52
Period size: 16 Copynumber: 3.9 Consensus size: 15
24009319 TAGAAAAATA
24009329 ATTATATT-AATTAT
1 ATTATATTAAATTAT
* *
24009343 A-TATTTTAAATAAT
1 ATTATATTAAATTAT
24009357 AATTATA-TATAATTAT
1 -ATTATATTA-AATTAT
24009373 ATTTATATTAAATTA
1 A-TTATATTAAATTA
24009388 GTAACACAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
13 5 0.14
14 6 0.17
15 4 0.11
16 18 0.51
17 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTATATTAAATTAT
Found at i:24009853 original size:16 final size:17
Alignment explanation
Indices: 24009828--24009874 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
24009818 CAACTCGGCC
24009828 CATAAATAGTTATAG-T
1 CATAAATAGTTATAGTT
*
24009844 CATAATTAGTCT-T-GTT
1 CATAAATAGT-TATAGTT
24009860 CATAAATAGTTATAG
1 CATAAATAGTTATAG
24009875 CCCGAATACT
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
15 2 0.08
16 21 0.84
17 2 0.08
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (17 bp):
CATAAATAGTTATAGTT
Found at i:24012546 original size:12 final size:12
Alignment explanation
Indices: 24012529--24012554 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
24012519 GTAAATATAA
24012529 AAAAATAATCTT
1 AAAAATAATCTT
24012541 AAAAATAATCTT
1 AAAAATAATCTT
24012553 AA
1 AA
24012555 TAGATAAGGA
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:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (12 bp):
AAAAATAATCTT
Found at i:24015102 original size:49 final size:49
Alignment explanation
Indices: 24014977--24015104 Score: 148
Period size: 49 Copynumber: 2.6 Consensus size: 49
24014967 CACTATGCTA
** *
24014977 GTTAGCAACTATCATGCCTTACCAGAAACCTAGCACTCATGTCAATCTG
1 GTTAGCAACTATCATGCCTTACCAGTGACCTAGCACTCATGCCAATCTG
* * * * * *
24015026 GTTAGTAACTATGATACCGTACCAGTGACCTATCATTCATGCCAATCTG
1 GTTAGCAACTATCATGCCTTACCAGTGACCTAGCACTCATGCCAATCTG
* * *
24015075 GTTAGCAACTAACATGGCTTACTAGTGACC
1 GTTAGCAACTATCATGCCTTACCAGTGACC
24015105 CATCTTATTT
Statistics
Matches: 63, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
49 63 1.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (49 bp):
GTTAGCAACTATCATGCCTTACCAGTGACCTAGCACTCATGCCAATCTG
Found at i:24017002 original size:13 final size:14
Alignment explanation
Indices: 24016984--24017014 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
24016974 TATAAAATCA
24016984 CCAAAATTTAA-GT
1 CCAAAATTTAATGT
24016997 CCAAAATTTAATGT
1 CCAAAATTTAATGT
24017011 CCAA
1 CCAA
24017015 TGTCTATTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.45, C:0.19, G:0.06, T:0.29
Consensus pattern (14 bp):
CCAAAATTTAATGT
Found at i:24021486 original size:13 final size:13
Alignment explanation
Indices: 24021470--24021496 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
24021460 CCTAGACACA
24021470 TGCCCGTGTCCTT
1 TGCCCGTGTCCTT
24021483 TGCCCGTGTCCTT
1 TGCCCGTGTCCTT
24021496 T
1 T
24021497 CACACGGCCA
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:0.00, C:0.37, G:0.22, T:0.41
Consensus pattern (13 bp):
TGCCCGTGTCCTT
Found at i:24022582 original size:47 final size:46
Alignment explanation
Indices: 24022509--24022685 Score: 196
Period size: 47 Copynumber: 3.8 Consensus size: 46
24022499 AAAACTCTTA
* *
24022509 GCCGATGCATGTCCCAGACATGTCTTACATTGGCTA-TCATCGTCGAG
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGC-ACTCATC-TCGAG
* * ** * *
24022556 GCCAATGCATGTCCCAGACATGTCTTACACTAACACTCATCTCCAT
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGCACTCATCTCGAG
* * *
24022602 GCCGATGCCATGTCCCAAACATAGTCTTACATTGGCACTCATAAT-GTG
1 GCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCACTCAT-CTCGAG
24022650 GCCGATGCATGTCCCAAACATGTCTTACACTGGCAC
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGCAC
24022686 ACAAGAAATT
Statistics
Matches: 110, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
46 24 0.22
47 62 0.56
48 23 0.21
49 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (46 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTGGCACTCATCTCGAG
Found at i:24022664 original size:94 final size:93
Alignment explanation
Indices: 24022509--24022680 Score: 249
Period size: 94 Copynumber: 1.8 Consensus size: 93
24022499 AAAACTCTTA
* ** *
24022509 GCCGATGCATGTCCCAGACATGTCTTACATTGGCTATCATCGTCGAGGCCAATGCATGTCCCAGA
1 GCCGATGCATGTCCCAAACATGTCTTACATTGGCTATCATAATCGAGGCCAATGCATGTCCCAAA
24022574 CATGTCTTACACTAACACTCATCTCCAT
66 CATGTCTTACACTAACACTCATCTCCAT
* *
24022602 GCCGATGCCATGTCCCAAACATAGTCTTACATTGGC-ACTCATAAT-GTGGCCGATGCATGTCCC
1 GCCGATG-CATGTCCCAAACAT-GTCTTACATTGGCTA-TCATAATCGAGGCCAATGCATGTCCC
24022665 AAACATGTCTTACACT
63 AAACATGTCTTACACT
24022681 GGCACACAAG
Statistics
Matches: 70, Mismatches: 6, Indels: 5
0.86 0.07 0.06
Matches are distributed among these distances:
93 7 0.10
94 45 0.64
95 18 0.26
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (93 bp):
GCCGATGCATGTCCCAAACATGTCTTACATTGGCTATCATAATCGAGGCCAATGCATGTCCCAAA
CATGTCTTACACTAACACTCATCTCCAT
Found at i:24025754 original size:70 final size:70
Alignment explanation
Indices: 24025678--24025812 Score: 225
Period size: 70 Copynumber: 1.9 Consensus size: 70
24025668 TAGTTTATTA
* * * * *
24025678 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTGGCTGTCCAAATTAGGACAAATTTATGGTG
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAAGACAAAATCATGGTG
24025743 CTTAG
66 CTTAG
24025748 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAAGACAAAATCATGGTG
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAAGACAAAATCATGGTG
24025813 TTATGTGCTA
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
70 60 1.00
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAAGACAAAATCATGGTG
CTTAG
Found at i:24026648 original size:43 final size:43
Alignment explanation
Indices: 24026601--24026727 Score: 182
Period size: 43 Copynumber: 3.0 Consensus size: 43
24026591 ATGGGCTTCA
*
24026601 GGCCTAGCAGGCTATAATACCGGTGAAATGATATCGGGCTTTG
1 GGCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCTTTG
* * * *
24026644 GGCCTAGCAGGATATAATGCCGGTGAGATAATATCGGGCCTTG
1 GGCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCTTTG
** *
24026687 GGCCTAGCAGGCTATAATGCTAGTGAAATGATGTCGGGCTT
1 GGCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCTT
24026728 CAAGTCTAGC
Statistics
Matches: 72, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 72 1.00
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.25
Consensus pattern (43 bp):
GGCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCTTTG
Found at i:24026737 original size:43 final size:43
Alignment explanation
Indices: 24026589--24026755 Score: 178
Period size: 43 Copynumber: 3.9 Consensus size: 43
24026579 GAAATGTGAT
* *
24026589 ATAT-GGGCTTCAGGCCTAGCAGGCTATAATACCGGTGAAATG
1 ATATCGGGCTTCAGGCCTAGCAGGCTATAATGCCAGTGAAATG
** * * * *
24026631 ATATCGGGCTTTGGGCCTAGCAGGATATAATGCCGGTGAGATA
1 ATATCGGGCTTCAGGCCTAGCAGGCTATAATGCCAGTGAAATG
* *
24026674 ATATCGGGCCTT-GGGCCTAGCAGGCTATAATGCTAGTGAAATG
1 ATATCGGG-CTTCAGGCCTAGCAGGCTATAATGCCAGTGAAATG
* * * *
24026717 ATGTCGGGCTTCAAGTCTAGCAGGCGA-AATGCCAGTGAA
1 ATATCGGGCTTCAGGCCTAGCAGGCTATAATGCCAGTGAA
24026756 TGAATTCAGA
Statistics
Matches: 105, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
42 18 0.17
43 84 0.80
44 3 0.03
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.24
Consensus pattern (43 bp):
ATATCGGGCTTCAGGCCTAGCAGGCTATAATGCCAGTGAAATG
Found at i:24030461 original size:30 final size:30
Alignment explanation
Indices: 24030421--24030509 Score: 106
Period size: 30 Copynumber: 3.0 Consensus size: 30
24030411 GATTTTAGGA
*
24030421 CCACACGGGCTGGGCACATGCCCATGTGAG
1 CCACATGGGCTGGGCACATGCCCATGTGAG
* * *
24030451 CCACATGGGCTAGGCACACGCCCATATGAG
1 CCACATGGGCTGGGCACATGCCCATGTGAG
* * * *
24030481 TCACATGAGCTGGACACATGCCCAAGTGA
1 CCACATGGGCTGGGCACATGCCCATGTGA
24030510 CAACCCGTGT
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 48 1.00
ACGTcount: A:0.26, C:0.31, G:0.28, T:0.15
Consensus pattern (30 bp):
CCACATGGGCTGGGCACATGCCCATGTGAG
Found at i:24040798 original size:54 final size:54
Alignment explanation
Indices: 24040616--24040809 Score: 232
Period size: 55 Copynumber: 3.6 Consensus size: 54
24040606 TTAACATTTT
* * * * * * *
24040616 CATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTT-TTGAACTCACCAATGC
1 CATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATAGAACTTATCAATGC
**
24040669 CATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA-TTCATCAATGC
1 CATGCCTTGGCATGGTCTTACATGATATCC-TTGCCTTATAG-AACTT-ATCAATGC
* *
24040724 CATGTCTTGGCATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGC
1 CATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATAGAACTTATCAATGC
*
24040778 CATGCCTTGTCATGGTCTTACATGATATCCTT
1 CATGCCTTGGCATGGTCTTACATGATATCCTT
24040810 ATCTTACCAA
Statistics
Matches: 121, Mismatches: 14, Indels: 11
0.83 0.10 0.08
Matches are distributed among these distances:
52 2 0.02
53 30 0.25
54 42 0.35
55 45 0.37
56 2 0.02
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (54 bp):
CATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATAGAACTTATCAATGC
Found at i:24040843 original size:47 final size:47
Alignment explanation
Indices: 24040788--24040909 Score: 217
Period size: 47 Copynumber: 2.6 Consensus size: 47
24040778 CATGCCTTGT
*
24040788 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
*
24040835 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
*
24040882 CATGGTTTTACATGGTATCCTTATCTTA
1 CATGGTCTTACATGGTATCCTTATCTTA
24040910 GTGACAATGC
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
Found at i:24047111 original size:20 final size:20
Alignment explanation
Indices: 24047078--24047115 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
24047068 ATAGTCTTAA
24047078 AATAGAATAAAAATAAAAAC
1 AATAGAATAAAAATAAAAAC
24047098 AATA-AATAATAAATAAAA
1 AATAGAATAA-AAATAAAA
24047116 GTTTTTAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (20 bp):
AATAGAATAAAAATAAAAAC
Found at i:24064939 original size:39 final size:38
Alignment explanation
Indices: 24064851--24065032 Score: 188
Period size: 39 Copynumber: 4.7 Consensus size: 38
24064841 TTGAATGATG
* * *
24064851 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTA-A
* *
24064891 T-CGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAA
* *
24064929 TTCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACT-AA
* *
24064968 TCCGGGTTAAGTCCGAAGGCAATTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTA-A
* *
24065007 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
24065033 AACGAGTAGC
Statistics
Matches: 120, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
38 26 0.22
39 73 0.61
40 21 0.17
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (38 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:24064985 original size:77 final size:80
Alignment explanation
Indices: 24064852--24065032 Score: 219
Period size: 77 Copynumber: 2.3 Consensus size: 80
24064842 TGAATGATGT
* *
24064852 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCGGACTAAGATCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCGGACTAAGATCCGAAGGCAATTG
*
24064916 TGCGAGATACTA-AT
66 TGCGAGATACTATAA
* * * * **
24064930 TCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCGAAGGCAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAAT-CGGACTAAGATCCGAAGGCAATT
*
24064992 GTGCGAGTTACTATAA
65 GTGCGAGATACTATAA
*
24065008 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
24065033 AACGAGTAGC
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
77 41 0.47
78 32 0.37
79 14 0.16
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCGGACTAAGATCCGAAGGCAATTG
TGCGAGATACTATAA
Found at i:24065050 original size:79 final size:76
Alignment explanation
Indices: 24064897--24065065 Score: 196
Period size: 79 Copynumber: 2.2 Consensus size: 76
24064887 CATATCGGAC
* ** **
24064897 TAAGATCCGAAGGCATTTGTGCGAGATACTAATTCGGGCTAAGCCCGAAGGCATTTGTGCGAGTT
1 TAAG-TCCGAAGGCAATTGTGCGAGATACTAAACCGGGCTAAGCCCGAAGGCATTTGAACGAGTT
24064962 ACTAAATCCGGGT
65 ACTAAATCC-GGT
* *
24064975 TAAGTCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-
1 TAAGTCCGAAGGCAATTGTGCGAGATACTA-AACCGGGCTAAG-CCCGAAGGCATTTGAACGAGT
*
24065039 TAGCTATATCCGGT
64 TA-CTAAATCCGGT
*
24065053 TAAATTCCGAAGG
1 T-AAGTCCGAAGG
24065066 TACGTGATTT
Statistics
Matches: 78, Mismatches: 9, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
77 24 0.31
78 19 0.24
79 35 0.45
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (76 bp):
TAAGTCCGAAGGCAATTGTGCGAGATACTAAACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTA
CTAAATCCGGT
Found at i:24069416 original size:55 final size:53
Alignment explanation
Indices: 24069287--24069489 Score: 230
Period size: 55 Copynumber: 3.8 Consensus size: 53
24069277 AAGTTACCAT
* * * *
24069287 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAATTCATCAA
* *
24069340 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAATTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AATTCATCAA
* * *
24069395 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTT-ATCAA
1 TGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAA-TTCATCAA
* * *
24069449 TGCCATGCCTTGGCATGGTCTTACATGATATCCTTGTCTTA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTA
24069490 CCAAATGCCA
Statistics
Matches: 128, Mismatches: 16, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
52 2 0.02
53 36 0.28
54 42 0.33
55 46 0.36
56 2 0.02
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.36
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAATTCATCAA
Found at i:24069472 original size:54 final size:54
Alignment explanation
Indices: 24069287--24069489 Score: 250
Period size: 54 Copynumber: 3.8 Consensus size: 54
24069277 AAGTTACCAT
* * * * *
24069287 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTTATCAA
* **
24069340 TGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA-TTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATAG-AACTT-ATCAA
* *
24069395 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTTATCAA
* *
24069449 TGCCATGCCTTGGCATGGTCTTACATGATATCCTTGTCTTA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTA
24069490 CCAAATGCCA
Statistics
Matches: 129, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
52 2 0.02
53 35 0.27
54 46 0.36
55 44 0.34
56 2 0.02
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.36
Consensus pattern (54 bp):
TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTTATCAA
Found at i:24069517 original size:47 final size:47
Alignment explanation
Indices: 24069462--24069574 Score: 217
Period size: 47 Copynumber: 2.4 Consensus size: 47
24069452 CATGCCTTGG
*
24069462 CATGGTCTTACATGATATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
24069509 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
24069556 CATGGTCTTACATGGTATC
1 CATGGTCTTACATGGTATC
24069575 ATTATTTTAG
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 65 1.00
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.35
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:24069772 original size:44 final size:44
Alignment explanation
Indices: 24069723--24069806 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
24069713 TCCTTAACCG
* *
24069723 TCAATTCCTCCTTAAATGCCATGTTATGAA-CATGGACTTTTCCA
1 TCAATTCCTCCTTAAATGCCATGGTA-CAACCATGGACTTTTCCA
* *
24069767 TCAATTCTTCCTTAATTGCCATGGTACAACCATGGACTTT
1 TCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTT
24069807 GAGATATCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 2 0.06
44 33 0.94
ACGTcount: A:0.26, C:0.25, G:0.12, T:0.37
Consensus pattern (44 bp):
TCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTTTCCA
Found at i:24072166 original size:50 final size:49
Alignment explanation
Indices: 24072052--24072234 Score: 190
Period size: 51 Copynumber: 3.7 Consensus size: 49
24072042 CTGGTACGCA
* * **
24072052 TAGTAGCCTGCACTTAGTACTATACATGCGACCAACAGTCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAACAGTCTAATACACG
* *
24072101 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-TCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-C-CAACAGTCTAATACACG
* *** * *
24072151 TAGTAGCCTGCACTTAGTACTACACATGTGATC-ACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAACAG---TCTAATACACG
*
24072202 TAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC
24072235 TCACAATAGA
Statistics
Matches: 112, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
49 28 0.25
50 40 0.36
51 41 0.37
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAACAGTCTAATACACG
Found at i:24072225 original size:101 final size:99
Alignment explanation
Indices: 24072052--24072238 Score: 268
Period size: 101 Copynumber: 1.9 Consensus size: 99
24072042 CTGGTACGCA
* * *
24072052 TAGTAGCCTGCACTTAGTACTATACATGCGACCAACAGTCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCGGGTACACATAGTAGCCTGCACTTA
*
24072117 GTACTACACACGTGACCTCACCATCTAATACACG
66 GTACTACACACGCGACCTCACCATCTAATACACG
* * *
24072151 TAGTAGCCTGCACTTAGTACTACACATGTGATC-ACAGTTTTCGGGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG---TCGGGTACACATAGTAGCCTGCAC
*
24072215 TTAGTACTACACATGCGACCTCAC
63 TTAGTACTACACACGCGACCTCAC
24072239 AATAGATCAT
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
98 4 0.05
99 30 0.39
101 43 0.56
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCGGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTCACCATCTAATACACG
Found at i:24073754 original size:25 final size:25
Alignment explanation
Indices: 24073726--24073776 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
24073716 CACTATTCTA
*
24073726 ATTAGGCCCTAATTCGGGATATTAC
1 ATTAGGCCCTAATTCAGGATATTAC
* *
24073751 ATTAGGCCCTATTTCAGGATGTTAC
1 ATTAGGCCCTAATTCAGGATATTAC
24073776 A
1 A
24073777 CATTGTGTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (25 bp):
ATTAGGCCCTAATTCAGGATATTAC
Found at i:24079107 original size:46 final size:46
Alignment explanation
Indices: 24079039--24079175 Score: 184
Period size: 46 Copynumber: 3.0 Consensus size: 46
24079029 TATATATACA
* * *
24079039 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTTGGCTTTACCACATATC
* * * *
24079085 CATCTTATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTTGGCTTTACCACATATC
* * *
24079131 TATCTCATACACATTTTGCATTAGCCATTTGGCCTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTTGGCTTTACCACATAT
24079176 ATACATGTTC
Statistics
Matches: 77, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.26, C:0.29, G:0.09, T:0.36
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTTGGCTTTACCACATATC
Found at i:24079212 original size:47 final size:47
Alignment explanation
Indices: 24079149--24079475 Score: 357
Period size: 47 Copynumber: 7.1 Consensus size: 47
24079139 ACACATTTTG
* * * *
24079149 CATTAGCCATTTGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
24079196 CATTGGCCATTCGGCCTTATCTCATATATGCATG-------T--TCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * *
24079234 CATTGGACATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * *
24079281 CATTGGCCATTCGACCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
24079328 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
24079375 CATTGGCCATTCGGCCTTATCACGCATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C--ATATATGCATGTTCACATTCATCA
** * * * **
24079426 CATTTTCCATTCGGCCTTATCTCATGTATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
24079473 CAT
1 CAT
24079476 AAAATCCTAA
Statistics
Matches: 245, Mismatches: 22, Indels: 26
0.84 0.08 0.09
Matches are distributed among these distances:
38 33 0.13
40 1 0.00
45 1 0.00
47 169 0.69
49 2 0.01
51 39 0.16
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:24079236 original size:38 final size:38
Alignment explanation
Indices: 24079193--24079275 Score: 130
Period size: 38 Copynumber: 2.2 Consensus size: 38
24079183 TTCACATTCA
* * * *
24079193 TCACATTGGCCATTCGGCCTTATCTCATATATGCATGT
1 TCACATTGGACATTCGGCCTTATCACACATACGCATGT
24079231 TCACATTGGACATTCGGCCTTATCACACATACGCATGT
1 TCACATTGGACATTCGGCCTTATCACACATACGCATGT
24079269 TCACATT
1 TCACATT
24079276 CATCACATTG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.24, C:0.28, G:0.14, T:0.34
Consensus pattern (38 bp):
TCACATTGGACATTCGGCCTTATCACACATACGCATGT
Found at i:24079376 original size:25 final size:25
Alignment explanation
Indices: 24079252--24079329 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 25
24079242 ATTCGGCCTT
24079252 ATCACACATACGCATGTTCACATTC
1 ATCACACATACGCATGTTCACATTC
** *
24079277 AT--CACATTGGCCA--TTCGACCTT-
1 ATCACACATACG-CATGTTC-ACATTC
24079299 ATCACACATACGCATGTTCACATTC
1 ATCACACATACGCATGTTCACATTC
24079324 ATCACA
1 ATCACA
24079330 TTGGCCATTC
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 5 0.12
23 12 0.30
24 12 0.30
25 11 0.28
ACGTcount: A:0.31, C:0.32, G:0.09, T:0.28
Consensus pattern (25 bp):
ATCACACATACGCATGTTCACATTC
Found at i:24082152 original size:57 final size:57
Alignment explanation
Indices: 24082061--24082192 Score: 153
Period size: 57 Copynumber: 2.3 Consensus size: 57
24082051 GAAACACACT
* *
24082061 TCGCATACACAGTGCC-C-ACTGACTGATTTCGCACACATAGCGCTCGATTAAAGAAC
1 TCGCACACACAGTGCCTCAACT-ACTGATCTCGCACACATAGCGCTCGATTAAAGAAC
* * * **
24082117 TCGCACAC-CTAGTGCCTCAACTACTGATCTGGCACACATAGTGCTCGGTTGGAGAAC
1 TCGCACACAC-AGTGCCTCAACTACTGATCTCGCACACATAGCGCTCGATTAAAGAAC
*
24082174 TTGCACACACAGTGCCTCA
1 TCGCACACACAGTGCCTCA
24082193 TAATTCTAGC
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
55 1 0.02
56 13 0.20
57 46 0.72
58 4 0.06
ACGTcount: A:0.27, C:0.31, G:0.20, T:0.22
Consensus pattern (57 bp):
TCGCACACACAGTGCCTCAACTACTGATCTCGCACACATAGCGCTCGATTAAAGAAC
Found at i:24082274 original size:40 final size:40
Alignment explanation
Indices: 24082198--24082434 Score: 343
Period size: 40 Copynumber: 6.0 Consensus size: 40
24082188 CCTCATAATT
* * *
24082198 CTAGCATGAATGC-CTTCGAGG-TTTAACCCGGATATATCA
1 CTAGCACGAATGCTCTTCG-GGACTTAGCCCGGATATATCA
* * *
24082237 CTAGCACGATTGCTCTTCGGGACTTAGCCCAGTTATATCA
1 CTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCA
* *
24082277 TTAGCACGAATGCTCTTCGGAACTTAGCCCGGATATATCA
1 CTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCA
*
24082317 CTAGCACGAATGCTCTTCGGAACTTAGCCCGGATATATCA
1 CTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCA
*
24082357 CTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
1 CTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCA
* *
24082397 CCAGCACGAATGCACTTCGGGACTTAGCCCGGATATAT
1 CTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAT
24082435 AAGTCTCAAT
Statistics
Matches: 179, Mismatches: 17, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
39 13 0.07
40 166 0.93
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCA
Found at i:24085492 original size:28 final size:28
Alignment explanation
Indices: 24085429--24085554 Score: 182
Period size: 28 Copynumber: 4.5 Consensus size: 28
24085419 ATATTAAGTC
*
24085429 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
24085456 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
24085484 CGCACACTTAGTGCTATATAAGCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
24085512 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
24085541 CGCACACTTAGTGC
1 CGCACACTTAGTGC
24085555 CAATCTCATG
Statistics
Matches: 90, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.24
28 50 0.56
29 18 0.20
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:24093336 original size:28 final size:28
Alignment explanation
Indices: 24093273--24093398 Score: 182
Period size: 28 Copynumber: 4.5 Consensus size: 28
24093263 ATATTAAGTC
*
24093273 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
24093300 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
24093328 CGCACACTTAGTGCTATATAAGCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
24093356 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
24093385 CGCACACTTAGTGC
1 CGCACACTTAGTGC
24093399 CAATCTCATG
Statistics
Matches: 90, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.24
28 50 0.56
29 18 0.20
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:24095320 original size:46 final size:46
Alignment explanation
Indices: 24095264--24095400 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 46
24095254 TATATATACA
* * * * *
24095264 CATCTTATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
24095310 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
24095356 TATCTCATACACATTTCGCATTAGCCATTCGGCCTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
24095401 ATACATGTTC
Statistics
Matches: 80, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.35
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:24095435 original size:47 final size:47
Alignment explanation
Indices: 24095374--24095856 Score: 592
Period size: 47 Copynumber: 10.1 Consensus size: 47
24095364 ACACATTTCG
* *
24095374 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* *
24095421 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* **
24095468 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* **
24095515 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* *
24095562 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* * **
24095609 CATTGGACATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* *
24095656 CATCGGCCATTCGGCCTTATCACGTATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCAC----ATATATACATGTTCACATTCATCA
* * *
24095707 CATCGGCCATTCGGCCTTATCACGCATATATATACAGGTTCGCATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C--ATATATACATGTTCACATTCATCA
* *
24095758 CATCGGCCATTCGGCCTTATCACGCATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C--ATATATACATGTTCACATTCATCA
* * ** *
24095809 CATTTGCCATTC-G-CTTATCTCATATATACACATTCACATTTATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
24095854 CAT
1 CAT
24095857 AAAATCCTAA
Statistics
Matches: 406, Mismatches: 24, Indels: 14
0.91 0.05 0.03
Matches are distributed among these distances:
45 24 0.06
47 247 0.61
49 6 0.01
50 1 0.00
51 127 0.31
53 1 0.00
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.32
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
Found at i:24095609 original size:25 final size:25
Alignment explanation
Indices: 24095580--24095657 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
24095570 ATTCGGCCTT
24095580 ATCACACATACACATGTTCACATTC
1 ATCACACATACACATGTTCACATTC
* ** * *
24095605 ATCACA-TTGGACA--TTCGGCCTT-
1 ATCACACATACACATGTTC-ACATTC
*
24095627 ATCACACATACGCATGTTCACATTC
1 ATCACACATACACATGTTCACATTC
24095652 ATCACA
1 ATCACA
24095658 TCGGCCATTC
Statistics
Matches: 37, Mismatches: 11, Indels: 10
0.64 0.19 0.17
Matches are distributed among these distances:
22 9 0.24
23 6 0.16
24 7 0.19
25 15 0.41
ACGTcount: A:0.32, C:0.31, G:0.09, T:0.28
Consensus pattern (25 bp):
ATCACACATACACATGTTCACATTC
Found at i:24097955 original size:13 final size:15
Alignment explanation
Indices: 24097927--24097959 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
24097917 TAATGCTATA
24097927 TAAATCATATTTTTT
1 TAAATCATATTTTTT
24097942 TAAAT-ATA-TTTTT
1 TAAATCATATTTTTT
24097955 TAAAT
1 TAAAT
24097960 TTAATGTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.56
14 3 0.17
15 5 0.28
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (15 bp):
TAAATCATATTTTTT
Found at i:24097997 original size:16 final size:16
Alignment explanation
Indices: 24097972--24098008 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
24097962 AATGTCTTGT
*
24097972 GATTTTTTATTGCATA
1 GATTTGTTATTGCATA
24097988 GATTTGTTATTGCATA
1 GATTTGTTATTGCATA
*
24098004 TATTT
1 GATTT
24098009 ATGTTGTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.24, C:0.05, G:0.14, T:0.57
Consensus pattern (16 bp):
GATTTGTTATTGCATA
Found at i:24100307 original size:692 final size:683
Alignment explanation
Indices: 24098960--24100322 Score: 2047
Period size: 692 Copynumber: 2.0 Consensus size: 683
24098950 CTAATTGGTT
* * *
24098960 CAATTTTATCTCTCAGTCACCATTTTATCAAATTAGACAATTTAGTTTGATTTATCTATTGATCT
1 CAATTTTACCTCTCAGTCACCATTTTACCAAATTAGACAATTTAGTCTGATTTATCTATTGATCT
* * * *
24099025 CACAAAATTAAATCAGGACAACCAAATTGGTGTTCGATAGGCTCTCTTCTCGGTCTCACCTACCT
66 CACAAAAGTAAATCAGGACAACCAAATTGGTGTTCAATAGGCTCTCCTCTCAGTCTCACCTACCT
* * *
24099090 AAATATTCACCTAGAGTTGTCAATTCTAAGTTTTGAAGTTTATTCAATTTGGTCCATTTTTTACG
131 AAATATTCACCTAAAGTTGTCAATTCTAAGTTTTGAACTTTATTCAATTTGATCCATTTTTTA--
* *
24099155 ACTTAGTCTCTACACCAATAACTAACTAAGCAACATTCCCATCAACCAACCACTATAGATTTAGT
194 ACTTAGTCTCTAAACCAATAACTAACTAAGCAACATTCCCATCAACCAACCACCATAGATTTAGT
*
24099220 TACCAATCATCATCATGCAAACAACAATCAAACACATGCTCAAATGGTTCATTAAAGGAAACACA
259 TACCAATCATCATCATGAAAACAACAATCAAACACATGCTCAAATGGTTCATTAAAGGAAACACA
* * *
24099285 AAAGCAAGGTTAAAGGAATCTTATCGGTTTTTTATAGATGCTTTAAAGAGGATGATAGTAGCAAC
324 AAAGCAAGGTTAAAGGAATCTTATAGGTTTTTGATAGATGCTTTAAAGAAGATGATAGTAGCAAC
*
24099350 AATAAAGGTGAAAACACAACTAAAGTTAAGACTTTTATGCTTTTAAAGGTAAATAAGACTATAAT
389 AATAAAGGTGAAAACACAACTAAAGTTAAGACTTTTATGCTTTTAAAGGTAAATAAGACTAAAAT
*
24099415 ATATTGAAGGATTTTGTCACGAATTTTCTTATGATGTGCAAGTATACACAATCATTAGCAAGTAA
454 ATATTGAAGGATTTTGTCACGAATTTTCTTATGATGTGCAAGTATACACAATCACTAGCAAGTAA
* * * * *
24099480 TATAGTAGTCAATATTAGAGTTATCATCTCCACGGGGACTGATTTTAAAACATAGATTGTAAAAT
519 TATAGTAGTAAATACTAGAGTTATCATCTCCACAGAGACTGATTTTAAAACATAAATTGTAAAAT
*
24099545 TAACAAACAACAACTTGGAAAGTAAATAAAAATTTGATTGAATGCAAAGAAATATGCAAAGCAAT
584 TAACAAACAACAACTTGGAAAGTAAATAAAAATATGATTGAATGCAAAGAAATATGCAAAGCAAT
24099610 TTAAAAATAGTAATACAAATTAGATTCAATGCAAAG
649 TT-AAAATAGTAATACAAATTAGATTCAATGCAAAG
* * *
24099646 CAATTTTACCTCTCGGTCACCATTTTACCAAATTAGACAATTTAGTCTGATTTATCTGTTGATTT
1 CAATTTTACCTCTCAGTCACCATTTTACCAAATTAGACAATTTAGTCTGATTTATCTATTGATCT
*
24099711 CACCAAAGTAAATCAGGACAACCAAATTGGT-TCTCAATAGGCTCTCCTCTCAGTCTCACCTACC
66 CACAAAAGTAAATCAGGACAACCAAATTGGTGT-TCAATAGGCTCTCCTCTCAGTCTCACCTACC
* * *
24099775 TAAATATTCGCTTAAATTTGTCAATTCTAAGTTTTGAACTTTATT-AGATTTGATCCAATCCTTT
130 TAAATATTCACCTAAAGTTGTCAATTCTAAGTTTTGAACTTTATTCA-ATTTGATCC-AT--TTT
* * * *
24099839 TT-ATTTGGTCTCTAAACCAATAACTAA-TCAAGCAACATTTCCATCAACCAACCACCATAGGTT
191 TTAACTTAGTCTCTAAACCAATAACTAACT-AAGCAACATTCCCATCAACCAACCACCATAGATT
*
24099902 TAGTTACCAATCATCATCATCATCATGAAAACAATAATCAAACACATGCTCAAATGGTTCATTAA
255 TAGTTA-C---CA--ATCATCATCATGAAAACAACAATCAAACACATGCTCAAATGGTTCATTAA
* * * * * *
24099967 AGGAAACACAAAAGCAATGTTAGAGGGATCTTATAGGTTTTTGATAGATGCTTTGAATAAGTTGA
314 AGGAAACACAAAAGCAAGGTTAAAGGAATCTTATAGGTTTTTGATAGATGCTTTAAAGAAGATGA
* * *
24100032 TAGTAGCAACAATGAAGGTGAAAACACAGCTAAAGTTAAGA-TTTCTATTCTTTTAAAGGTAAAT
379 TAGTAGCAACAATAAAGGTGAAAACACAACTAAAGTTAAGACTTT-TATGCTTTTAAAGGTAAAT
*
24100096 AAGACTAAAATATATTGAAGGATTTTGTCACGAATTTTCTTATGATGTGCAAGCT-TACACAATT
443 AAGACTAAAATATATTGAAGGATTTTGTCACGAATTTTCTTATGATGTGCAAG-TATACACAATC
* * * * *
24100160 GCTAGCAAGTAATATAGTAGTAAATACTAGAGTTATCGTCTCCATAGAGATTGGTTTTAAAACAT
507 ACTAGCAAGTAATATAGTAGTAAATACTAGAGTTATCATCTCCACAGAGACTGATTTTAAAACAT
24100225 AAATTGTAAAATTAACAAACAACAACTTGGAAAGTAAAT-AAAATATGATTGAATGCAAAGAAAT
572 AAATTGTAAAATTAACAAACAACAACTTGGAAAGTAAATAAAAATATGATTGAATGCAAAGAAAT
*
24100289 ATGCAAAGTAATTTTAAAATAGTAATACAAATTA
637 ATGCAAAGCAA-TTTAAAATAGTAATACAAATTA
24100323 ATAGTAATGA
Statistics
Matches: 610, Mismatches: 52, Indels: 25
0.89 0.08 0.04
Matches are distributed among these distances:
685 3 0.00
686 223 0.37
687 3 0.00
689 5 0.01
690 2 0.00
691 56 0.09
692 317 0.52
693 1 0.00
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (683 bp):
CAATTTTACCTCTCAGTCACCATTTTACCAAATTAGACAATTTAGTCTGATTTATCTATTGATCT
CACAAAAGTAAATCAGGACAACCAAATTGGTGTTCAATAGGCTCTCCTCTCAGTCTCACCTACCT
AAATATTCACCTAAAGTTGTCAATTCTAAGTTTTGAACTTTATTCAATTTGATCCATTTTTTAAC
TTAGTCTCTAAACCAATAACTAACTAAGCAACATTCCCATCAACCAACCACCATAGATTTAGTTA
CCAATCATCATCATGAAAACAACAATCAAACACATGCTCAAATGGTTCATTAAAGGAAACACAAA
AGCAAGGTTAAAGGAATCTTATAGGTTTTTGATAGATGCTTTAAAGAAGATGATAGTAGCAACAA
TAAAGGTGAAAACACAACTAAAGTTAAGACTTTTATGCTTTTAAAGGTAAATAAGACTAAAATAT
ATTGAAGGATTTTGTCACGAATTTTCTTATGATGTGCAAGTATACACAATCACTAGCAAGTAATA
TAGTAGTAAATACTAGAGTTATCATCTCCACAGAGACTGATTTTAAAACATAAATTGTAAAATTA
ACAAACAACAACTTGGAAAGTAAATAAAAATATGATTGAATGCAAAGAAATATGCAAAGCAATTT
AAAATAGTAATACAAATTAGATTCAATGCAAAG
Found at i:24102064 original size:79 final size:82
Alignment explanation
Indices: 24101953--24102137 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
24101943 GCTACTCGTT
* *
24101953 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
24102016 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
24102033 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
24102096 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
24102113 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
24102138 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:24102137 original size:40 final size:40
Alignment explanation
Indices: 24101934--24102137 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
24101924 CGGAATTTAA
** *
24101934 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
24101974 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
24102014 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
24102053 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
24102093 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
24102133 CCGGA
1 CCGGA
24102138 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:24110010 original size:79 final size:82
Alignment explanation
Indices: 24109899--24110083 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
24109889 GCTACTCGTT
* *
24109899 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
24109962 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
24109979 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
24110042 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
24110059 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
24110084 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:24110083 original size:40 final size:40
Alignment explanation
Indices: 24109880--24110083 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
24109870 CGGAATTTAA
** *
24109880 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
24109920 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
24109960 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
24109999 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
24110039 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
24110079 CCGGA
1 CCGGA
24110084 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:24131823 original size:40 final size:40
Alignment explanation
Indices: 24131779--24131855 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
24131769 AGTATTGTAC
*
24131779 ATAGCCGAAGCTATCTCAAATCGTACACTAAGTGCCATAT
1 ATAGCCGAAGCTATCTCAAATCGCACACTAAGTGCCATAT
* *
24131819 ATAGCCGAAGCTATGTCGAATCGCACACTAAGTGCCA
1 ATAGCCGAAGCTATCTCAAATCGCACACTAAGTGCCA
24131856 CAAATAACTG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (40 bp):
ATAGCCGAAGCTATCTCAAATCGCACACTAAGTGCCATAT
Found at i:24139702 original size:26 final size:25
Alignment explanation
Indices: 24139657--24139805 Score: 106
Period size: 26 Copynumber: 5.7 Consensus size: 25
24139647 TGAGTTTAAA
* *
24139657 TTAATAATTTCAAAAATAATATTATT
1 TTAATAATTT-AATATTAATATTATT
*
24139683 TTAATAGATTTAATATTAATATTAAT
1 TTAATA-ATTTAATATTAATATTATT
* *
24139709 TTAAT-ACTTAAT-TTAATAGTATT
1 TTAATAATTTAATATTAATATTATT
* *
24139732 TTATTAATTTAATATTAAAGTAATTAAAT
1 TTAATAATTTAATATT-AA-T-ATT-ATT
* *
24139761 TTAATTATAGTTGAAT-TTAATAGTATT
1 TTAA-TA-A-TTTAATATTAATATTATT
*
24139788 TTATTAATTTAATATTAA
1 TTAATAATTTAATATTAA
24139806 AGTAATTAAA
Statistics
Matches: 96, Mismatches: 16, Indels: 23
0.71 0.12 0.17
Matches are distributed among these distances:
23 13 0.14
24 17 0.18
25 7 0.07
26 27 0.28
27 10 0.10
28 4 0.04
29 6 0.06
30 4 0.04
31 3 0.03
32 5 0.05
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.50
Consensus pattern (25 bp):
TTAATAATTTAATATTAATATTATT
Found at i:24139719 original size:12 final size:11
Alignment explanation
Indices: 24139673--24139805 Score: 73
Period size: 11 Copynumber: 11.8 Consensus size: 11
24139663 ATTTCAAAAA
*
24139673 TAATATTATTT
1 TAATATTAATT
24139684 TAATAGATTTAATAT
1 TAAT--A-TTAAT-T
24139699 TAATATTAATT
1 TAATATTAATT
24139710 TAATACTTAATT
1 TAATA-TTAATT
*
24139722 TAATAGT-ATT
1 TAATATTAATT
24139732 T--TATTAATT
1 TAATATTAATT
**
24139741 TAATATTAAAG
1 TAATATTAATT
*
24139752 TAAT-TAAATT
1 TAATATTAATT
24139762 TAATTATAGTTGAATT
1 T-A--ATA-TT-AATT
*
24139778 TAATAGT-ATT
1 TAATATTAATT
24139788 T--TATTAATT
1 TAATATTAATT
24139797 TAATATTAA
1 TAATATTAA
24139806 AGTAATTAAA
Statistics
Matches: 94, Mismatches: 11, Indels: 34
0.68 0.08 0.24
Matches are distributed among these distances:
8 6 0.06
9 8 0.09
10 12 0.13
11 28 0.30
12 17 0.18
13 7 0.07
14 4 0.04
15 7 0.07
16 5 0.05
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.52
Consensus pattern (11 bp):
TAATATTAATT
Found at i:24139740 original size:19 final size:19
Alignment explanation
Indices: 24139716--24139801 Score: 70
Period size: 19 Copynumber: 4.6 Consensus size: 19
24139706 AATTTAATAC
24139716 TTAATTTAATAGTATTTTA
1 TTAATTTAATAGTATTTTA
* ** *
24139735 TTAATTTAATATTAAAGTAA
1 TTAATTTAATAGT-ATTTTA
**
24139755 TTAAATTTAAT--TATAGT-
1 TT-AATTTAATAGTATTTTA
*
24139772 TGAATTTAATAGTATTTTA
1 TTAATTTAATAGTATTTTA
24139791 TTAATTTAATA
1 TTAATTTAATA
24139802 TTAAAGTAAT
Statistics
Matches: 50, Mismatches: 12, Indels: 10
0.69 0.17 0.14
Matches are distributed among these distances:
16 8 0.16
17 1 0.02
18 5 0.10
19 23 0.46
20 5 0.10
21 8 0.16
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (19 bp):
TTAATTTAATAGTATTTTA
Found at i:24139794 original size:56 final size:56
Alignment explanation
Indices: 24139718--24139831 Score: 228
Period size: 56 Copynumber: 2.0 Consensus size: 56
24139708 TTTAATACTT
24139718 AATTTAATAGTATTTTATTAATTTAATATTAAAGTAATTAAATTTAATTATAGTTG
1 AATTTAATAGTATTTTATTAATTTAATATTAAAGTAATTAAATTTAATTATAGTTG
24139774 AATTTAATAGTATTTTATTAATTTAATATTAAAGTAATTAAATTTAATTATAGTTG
1 AATTTAATAGTATTTTATTAATTTAATATTAAAGTAATTAAATTTAATTATAGTTG
24139830 AA
1 AA
24139832 CTCTTTAAAC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (56 bp):
AATTTAATAGTATTTTATTAATTTAATATTAAAGTAATTAAATTTAATTATAGTTG
Found at i:24139959 original size:25 final size:26
Alignment explanation
Indices: 24139909--24139960 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
24139899 AGTTATAAAG
24139909 AGAAAATTTTCTAAAGAAATTATTTT
1 AGAAAATTTTCTAAAGAAATTATTTT
* * *
24139935 AGAAAA-TTTCTAGAGATATTTTTTT
1 AGAAAATTTTCTAAAGAAATTATTTT
24139960 A
1 A
24139961 TTTACAACTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 17 0.74
26 6 0.26
ACGTcount: A:0.42, C:0.04, G:0.10, T:0.44
Consensus pattern (26 bp):
AGAAAATTTTCTAAAGAAATTATTTT
Found at i:24142989 original size:29 final size:28
Alignment explanation
Indices: 24142957--24143059 Score: 79
Period size: 26 Copynumber: 3.8 Consensus size: 28
24142947 GTATTGGCAA
24142957 ACTTCCAACATATTAGATAGTCTTTACGG
1 ACTTCC-ACATATTAGATAGTCTTTACGG
* * * **
24142986 ACTT--TCATATAAGATAGTCCTGGCGG
1 ACTTCCACATATTAGATAGTCTTTACGG
* * *
24143012 ATTTCCTACATATTGGATAGTCTTTACTG
1 ACTTCC-ACATATTAGATAGTCTTTACGG
*
24143041 ACTTCTACATA--AGATAGTC
1 ACTTCCACATATTAGATAGTC
24143060 CTGGTGGACT
Statistics
Matches: 55, Mismatches: 16, Indels: 9
0.69 0.20 0.11
Matches are distributed among these distances:
26 27 0.49
28 5 0.09
29 23 0.42
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (28 bp):
ACTTCCACATATTAGATAGTCTTTACGG
Found at i:24143002 original size:55 final size:55
Alignment explanation
Indices: 24142910--24143063 Score: 139
Period size: 55 Copynumber: 2.8 Consensus size: 55
24142900 CAGACTTTGT
* * ** * * * *
24142910 CATATTAGCTAGTCCTTACAAATTTCCACATACGATAGTATTGGCAAACTTCCAA
1 CATATTAGATAGTCTTTACGGACTTCTACATAAGATAGTACTGGCAAACTTCCAA
* * ** * *
24142965 CATATTAGATAGTCTTTACGGACTT-TCATATAAGATAGTCCTGGCGGATTTCCTA
1 CATATTAGATAGTCTTTACGGACTTCT-ACATAAGATAGTACTGGCAAACTTCCAA
* * *
24143020 CATATTGGATAGTCTTTACTGACTTCTACATAAGATAGTCCTGG
1 CATATTAGATAGTCTTTACGGACTTCTACATAAGATAGTACTGG
24143064 TGGACTTCCC
Statistics
Matches: 80, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
55 79 0.99
56 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (55 bp):
CATATTAGATAGTCTTTACGGACTTCTACATAAGATAGTACTGGCAAACTTCCAA
Found at i:24147747 original size:140 final size:141
Alignment explanation
Indices: 24147494--24147775 Score: 435
Period size: 140 Copynumber: 2.0 Consensus size: 141
24147484 AATCAGATTT
* * *
24147494 TTCCTCCTGATTTTTAGCATTTTTAGTTAAATTTGAATTTTTTTTCAGGAGAGAAAAGCTGAAAA
1 TTCCTCCTGATTTTTAGCATTTTTAATTAAATTTGAATTTTTTCTCAGGAGAAAAAAGCTGAAAA
* * *
24147559 TTAGGAAGAAAAATTTGATTTGTCATTCTCCCATTGGAAAGGGATAAGGATGACGTGGAATCACA
66 TCAGGAAGAAAAATATAATTTGTCATTCTCCCATTGGAAAGGGATAAGGATGACGTGGAATCACA
24147624 GTTTCATACAA
131 GTTTCATACAA
* **
24147635 TTCCTCTTGATTTTTAGCATTTTTAATTGGATTTGAA-TTTTTCT-AGGAGAAAAAAAGCTGAAA
1 TTCCTCCTGATTTTTAGCATTTTTAATTAAATTTGAATTTTTTCTCAGGAG-AAAAAAGCTGAAA
*
24147698 ATCAGGAGGAAAAATATAATTTGTCATTCTCCCATT-GACAAGGGATAAGGATGACGTGGAATCA
65 ATCAGGAAGAAAAATATAATTTGTCATTCTCCCATTGGA-AAGGGATAAGGATGACGTGGAATCA
24147762 CAGTTTCATACAA
129 CAGTTTCATACAA
24147775 T
1 T
24147776 CATTTCTCCT
Statistics
Matches: 129, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
139 7 0.05
140 89 0.69
141 33 0.26
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.35
Consensus pattern (141 bp):
TTCCTCCTGATTTTTAGCATTTTTAATTAAATTTGAATTTTTTCTCAGGAGAAAAAAGCTGAAAA
TCAGGAAGAAAAATATAATTTGTCATTCTCCCATTGGAAAGGGATAAGGATGACGTGGAATCACA
GTTTCATACAA
Found at i:24150724 original size:91 final size:89
Alignment explanation
Indices: 24150542--24150726 Score: 212
Period size: 91 Copynumber: 2.0 Consensus size: 89
24150532 CTGAACAATA
* ** * * * *
24150542 AGTGTTGCAGGTTAATATGCTGCTAGTAGTTGTGAATACACAACATATTTGTAGATAAAAGTTGT
1 AGTGTTGCAGGGTAATACACTGCCAGTAGTTGTGAATACACAACAGATTTGCAGATAAAAGTTGC
24150607 CAGTAAAAGTTGTGAATAAACCACT
66 CAG-AAAAGTTGTGAATAAACCACT
* *
24150632 AGTGTTTGCAGGGTAATACACTGCCAGTAAGTTGTGACTGCACAACAGATTTGCAGATAAAAGCT
1 AGTG-TTGCAGGGTAATACACTGCCAGT-AGTTGTGAATACACAACAGATTTGCAGATAAAAG-T
* *
24150697 T-CCA-ATAAGTTTGTGGATAAACCACT
63 TGCCAGAAAAG-TTGTGAATAAACCACT
24150723 AGTG
1 AGTG
24150727 ACTGCAAATA
Statistics
Matches: 80, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
90 8 0.10
91 38 0.47
92 32 0.40
93 2 0.03
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (89 bp):
AGTGTTGCAGGGTAATACACTGCCAGTAGTTGTGAATACACAACAGATTTGCAGATAAAAGTTGC
CAGAAAAGTTGTGAATAAACCACT
Found at i:24154251 original size:22 final size:22
Alignment explanation
Indices: 24154224--24154268 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
24154214 TTCTTATATC
*
24154224 AATTCCCTATCAATTAGGAACT
1 AATTCCCTATAAATTAGGAACT
24154246 AATTCCCTATAAATTAGGAACT
1 AATTCCCTATAAATTAGGAACT
24154268 A
1 A
24154269 TGTCTAGAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (22 bp):
AATTCCCTATAAATTAGGAACT
Found at i:24161399 original size:28 final size:29
Alignment explanation
Indices: 24161368--24161427 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
24161358 TGATTTTTAT
*
24161368 AAAAATGCATATT-AGGGATTAAATTGAG
1 AAAAATGCAAATTGAGGGATTAAATTGAG
* * * *
24161396 AAAAGTGTAAATTGAGGGGTTAAATTGTG
1 AAAAATGCAAATTGAGGGATTAAATTGAG
24161425 AAA
1 AAA
24161428 TAAATGATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 10 0.38
29 16 0.62
ACGTcount: A:0.45, C:0.02, G:0.25, T:0.28
Consensus pattern (29 bp):
AAAAATGCAAATTGAGGGATTAAATTGAG
Found at i:24164819 original size:48 final size:47
Alignment explanation
Indices: 24164748--24164938 Score: 265
Period size: 48 Copynumber: 4.0 Consensus size: 47
24164738 ACTAGGAAGT
* *
24164748 CTCGCACCCTAGGTGCCAATATCATTGCCCGAAGCCAAATCAATGAAA
1 CTCGCACCCGAAGTGCCAATATCA-TGCCCGAAGCCAAATCAATGAAA
*
24164796 CTCGCACCCGAAGTGCCAATATCATGACCCGAAGCCAAATCAATGTAA
1 CTCGCACCCGAAGTGCCAATATCATG-CCCGAAGCCAAATCAATGAAA
* * *
24164844 CTTGCACCCGAAGTGCTAATATCATGGCCCGAAGCCAAATCAATGTAA
1 CTCGCACCCGAAGTGCCAATATCAT-GCCCGAAGCCAAATCAATGAAA
* * *
24164892 CTCGCACCCGAAGTGCTAATATCATGGCCGAAAGTCAAATCAATGAA
1 CTCGCACCCGAAGTGCCAATATCATGCCCG-AAGCCAAATCAATGAA
24164939 GCTCCTAATG
Statistics
Matches: 131, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
47 6 0.05
48 124 0.95
49 1 0.01
ACGTcount: A:0.35, C:0.29, G:0.18, T:0.19
Consensus pattern (47 bp):
CTCGCACCCGAAGTGCCAATATCATGCCCGAAGCCAAATCAATGAAA
Found at i:24165517 original size:21 final size:20
Alignment explanation
Indices: 24165489--24165527 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
24165479 CAAAACTTGT
24165489 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
*
24165509 ATAATCTATCATGAAACAT
1 ATAA-CTATCATCAAACAT
24165528 CAAAATACTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.46, C:0.21, G:0.03, T:0.31
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:24174917 original size:7 final size:7
Alignment explanation
Indices: 24174905--24174940 Score: 72
Period size: 7 Copynumber: 5.1 Consensus size: 7
24174895 CAAAATACAT
24174905 ACCTTGA
1 ACCTTGA
24174912 ACCTTGA
1 ACCTTGA
24174919 ACCTTGA
1 ACCTTGA
24174926 ACCTTGA
1 ACCTTGA
24174933 ACCTTGA
1 ACCTTGA
24174940 A
1 A
24174941 GATATGACTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.28
Consensus pattern (7 bp):
ACCTTGA
Found at i:24190583 original size:13 final size:13
Alignment explanation
Indices: 24190565--24190589 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24190555 AGACCGTGTA
24190565 AAGGACACGAGCC
1 AAGGACACGAGCC
24190578 AAGGACACGAGC
1 AAGGACACGAGC
24190590 ATGTGCTTGG
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:0.40, C:0.28, G:0.32, T:0.00
Consensus pattern (13 bp):
AAGGACACGAGCC
Found at i:24194837 original size:31 final size:31
Alignment explanation
Indices: 24194802--24194873 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
24194792 CACATGCCCA
*
24194802 TGTGGCCTACCCGTGTGGGCCCACAAACCCG
1 TGTGGCCTACCCGTGTAGGCCCACAAACCCG
* * **
24194833 TGTGG-TTCACCCGTGTAGTCCCACATGCCCG
1 TGTGGCCT-ACCCGTGTAGGCCCACAAACCCG
24194864 TGTGGCCTAC
1 TGTGGCCTAC
24194874 ACGACCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
30 1 0.03
31 31 0.94
32 1 0.03
ACGTcount: A:0.14, C:0.36, G:0.28, T:0.22
Consensus pattern (31 bp):
TGTGGCCTACCCGTGTAGGCCCACAAACCCG
Found at i:24199417 original size:40 final size:40
Alignment explanation
Indices: 24199373--24199453 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
24199363 GAAGTGTATA
* *
24199373 TAGGGGCACCAAAGTGCGAATAGGGGCAAAAATGTGCATT
1 TAGGGGCACCAAAGTGCAAACAGGGGCAAAAATGTGCATT
** **
24199413 TAGGGGCACTGAAGTGCAAACAGGGGCACTAATGTGCATT
1 TAGGGGCACCAAAGTGCAAACAGGGGCAAAAATGTGCATT
24199453 T
1 T
24199454 TAGGAACACT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.32, C:0.16, G:0.32, T:0.20
Consensus pattern (40 bp):
TAGGGGCACCAAAGTGCAAACAGGGGCAAAAATGTGCATT
Found at i:24199442 original size:20 final size:20
Alignment explanation
Indices: 24199254--24199441 Score: 80
Period size: 20 Copynumber: 9.4 Consensus size: 20
24199244 TACGTGTAGT
* *
24199254 CAGGGGCACTGAAGTGCGAA
1 CAGGGGCACAGAAGTGCAAA
*
24199274 CAAGGGCACA-AACGTGCAAA
1 CAGGGGCACAGAA-GTGCAAA
* * *
24199294 C-GGGGACACCGAAGTGTATA
1 CAGGGG-CACAGAAGTGCAAA
* * * *
24199314 CAAGGGCA-AGTAGTACGAA
1 CAGGGGCACAGAAGTGCAAA
* *
24199333 CAAGGGCACAGACGTGCAAA
1 CAGGGGCACAGAAGTGCAAA
* * * * *
24199353 CAAGGACACCGAAGTGTATA
1 CAGGGGCACAGAAGTGCAAA
* *
24199373 TAGGGGCACCA-AAGTGCGAA
1 CAGGGGCA-CAGAAGTGCAAA
* * **
24199393 TAGGGGCA-AAAATGTGCATT
1 CAGGGGCACAGAA-GTGCAAA
* *
24199413 TAGGGGCACTGAAGTGCAAA
1 CAGGGGCACAGAAGTGCAAA
24199433 CAGGGGCAC
1 CAGGGGCAC
24199442 TAATGTGCAT
Statistics
Matches: 121, Mismatches: 38, Indels: 18
0.68 0.21 0.10
Matches are distributed among these distances:
18 1 0.01
19 20 0.17
20 92 0.76
21 8 0.07
ACGTcount: A:0.36, C:0.20, G:0.32, T:0.12
Consensus pattern (20 bp):
CAGGGGCACAGAAGTGCAAA
Found at i:24203969 original size:3 final size:3
Alignment explanation
Indices: 24203963--24203995 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
24203953 GACGACGATG
24203963 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
24203996 TGTTTCAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:24204556 original size:27 final size:28
Alignment explanation
Indices: 24204501--24204574 Score: 69
Period size: 29 Copynumber: 2.6 Consensus size: 28
24204491 GTATTAAACC
*
24204501 TATATAAATATGCTATTTTTAAAAAAAAT-
1 TATATAAAAAT-C-ATTTTTAAAAAAAATA
**
24204530 TATATAAAAATCATTTTTAAATTAAATAA
1 TATATAAAAATCATTTTTAAAAAAAAT-A
* *
24204559 AAAATAAAAATCATTT
1 TATATAAAAATCATTT
24204575 CATTCTAACA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
27 13 0.34
28 1 0.03
29 24 0.63
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.39
Consensus pattern (28 bp):
TATATAAAAATCATTTTTAAAAAAAATA
Found at i:24206131 original size:32 final size:32
Alignment explanation
Indices: 24206090--24206153 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
24206080 ATTTTTGTCA
24206090 CATAGTTAAAGTTATCCTAATCCAATCAATAT
1 CATAGTTAAAGTTATCCTAATCCAATCAATAT
24206122 CATAGTTAAAGTTATCCTAATCCAATCAATAT
1 CATAGTTAAAGTTATCCTAATCCAATCAATAT
24206154 ATCAAATATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.41, C:0.19, G:0.06, T:0.34
Consensus pattern (32 bp):
CATAGTTAAAGTTATCCTAATCCAATCAATAT
Found at i:24207113 original size:3 final size:3
Alignment explanation
Indices: 24207105--24207129 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
24207095 TTTGTTAAAA
24207105 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
24207130 TTGAGGAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:24208330 original size:17 final size:16
Alignment explanation
Indices: 24208293--24208340 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
24208283 TATTCATTCA
*
24208293 TAATTTATTTTTAATG
1 TAATTTATTTTTTATG
24208309 T--TTTATTTTTTTATG
1 TAATTTA-TTTTTTATG
24208324 TAATTTATTTTTTATG
1 TAATTTATTTTTTATG
24208340 T
1 T
24208341 GTGTTTTAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
14 4 0.14
15 9 0.32
16 11 0.39
17 4 0.14
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (16 bp):
TAATTTATTTTTTATG
Found at i:24208562 original size:21 final size:23
Alignment explanation
Indices: 24208536--24208579 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
24208526 AGAATAAGAG
*
24208536 TTTATGTT-TTT-TAAATTTTAT
1 TTTATGTTATTTATAAATATTAT
24208557 TTTATGTTATTTATAAATATTAT
1 TTTATGTTATTTATAAATATTAT
24208580 AAATGAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 8 0.40
22 3 0.15
23 9 0.45
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.66
Consensus pattern (23 bp):
TTTATGTTATTTATAAATATTAT
Found at i:24209161 original size:13 final size:13
Alignment explanation
Indices: 24209143--24209168 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24209133 TTAATCATGG
24209143 GTTCCCTTAAAAA
1 GTTCCCTTAAAAA
24209156 GTTCCCTTAAAAA
1 GTTCCCTTAAAAA
24209169 AAATCTACAT
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:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (13 bp):
GTTCCCTTAAAAA
Found at i:24210667 original size:12 final size:12
Alignment explanation
Indices: 24210652--24210686 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
24210642 GGCCAAGCTA
24210652 GAGCTAGAGCCC
1 GAGCTAGAGCCC
*
24210664 GAGCTCGAGCCC
1 GAGCTAGAGCCC
*
24210676 GAGCTTGAGCC
1 GAGCTAGAGCC
24210687 TAAGCCACAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.20, C:0.34, G:0.34, T:0.11
Consensus pattern (12 bp):
GAGCTAGAGCCC
Found at i:24214380 original size:14 final size:16
Alignment explanation
Indices: 24214361--24214397 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
24214351 AATAATAATA
24214361 TCTTTTCGTTC-TTC-
1 TCTTTTCGTTCTTTCT
*
24214375 TCTTTTCTTTCTTTCT
1 TCTTTTCGTTCTTTCT
24214391 TCTTTTC
1 TCTTTTC
24214398 TCCCTTTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 10 0.50
15 3 0.15
16 7 0.35
ACGTcount: A:0.00, C:0.27, G:0.03, T:0.70
Consensus pattern (16 bp):
TCTTTTCGTTCTTTCT
Found at i:24214863 original size:17 final size:17
Alignment explanation
Indices: 24214841--24214874 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
24214831 TCAATCCTTA
24214841 ACCTTTACACATTTATT
1 ACCTTTACACATTTATT
24214858 ACCTTTACACATTTATT
1 ACCTTTACACATTTATT
24214875 TAATTTGACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.47
Consensus pattern (17 bp):
ACCTTTACACATTTATT
Found at i:24215006 original size:26 final size:26
Alignment explanation
Indices: 24214977--24215038 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 26
24214967 ATTACGATTT
24214977 TAAAATTTAAA-AATATTA-AAAAATCA
1 TAAAATTTAAACAA-ATTATAAAAAT-A
24215003 TAAAAATTATAAACAAATTATAAAAATA
1 T-AAAATT-TAAACAAATTATAAAAATA
24215031 -AAAATTTA
1 TAAAATTTA
24215039 TTAACTTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
25 2 0.06
26 7 0.22
27 6 0.19
28 9 0.28
29 8 0.25
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (26 bp):
TAAAATTTAAACAAATTATAAAAATA
Found at i:24215020 original size:20 final size:20
Alignment explanation
Indices: 24214984--24215029 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
24214974 TTTTAAAATT
24214984 TAAAAA-TATTAAAAAATCA
1 TAAAAATTATTAAAAAATCA
*
24215003 TAAAAATTA-TAAACAAATTA
1 TAAAAATTATTAAA-AAATCA
24215023 TAAAAAT
1 TAAAAAT
24215030 AAAAATTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.28
Consensus pattern (20 bp):
TAAAAATTATTAAAAAATCA
Found at i:24219942 original size:33 final size:31
Alignment explanation
Indices: 24219892--24219955 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 31
24219882 TAGATATTTG
24219892 AGTTTGAATGTAAATTTGTTTAAGGATTAGA
1 AGTTTGAATGTAAATTTGTTTAAGGATTAGA
*
24219923 AGTTATGAATAGTAGATTTGTTTAAGGATTAGA
1 AGTT-TGAAT-GTAAATTTGTTTAAGGATTAGA
24219956 TTATTCATTC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 4 0.13
32 5 0.17
33 21 0.70
ACGTcount: A:0.36, C:0.00, G:0.23, T:0.41
Consensus pattern (31 bp):
AGTTTGAATGTAAATTTGTTTAAGGATTAGA
Found at i:24226925 original size:21 final size:21
Alignment explanation
Indices: 24226886--24226925 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
24226876 ACAAATGTTG
*
24226886 TTTTCTAACAACAACCATCCA
1 TTTTCTAACAACAAACATCCA
* *
24226907 TTTTCTACCATCAAACATC
1 TTTTCTAACAACAAACATC
24226926 AAAACGCATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.33, G:0.00, T:0.33
Consensus pattern (21 bp):
TTTTCTAACAACAAACATCCA
Found at i:24228949 original size:26 final size:26
Alignment explanation
Indices: 24228913--24228964 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
24228903 CCACACTGAA
* *
24228913 TCGGGGAATCATCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
24228939 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
24228965 CTTTTCATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.21, T:0.15
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:24229074 original size:70 final size:70
Alignment explanation
Indices: 24228920--24229054 Score: 198
Period size: 71 Copynumber: 1.9 Consensus size: 70
24228910 GAATCGGGGA
* * *
24228920 ATCATCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTTCATTTCAAATATACA
1 ATCA-CACTGAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATACA
24228985 ATGGAT
65 ATGGAT
* *
24228991 ATCGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
1 ATCACACTGAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTT-ACATTTCAAAGATA
24229055 TGGTGGATAT
Statistics
Matches: 59, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
70 16 0.27
71 31 0.53
72 12 0.20
ACGTcount: A:0.32, C:0.31, G:0.14, T:0.23
Consensus pattern (70 bp):
ATCACACTGAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATACAA
TGGAT
Found at i:24234201 original size:26 final size:26
Alignment explanation
Indices: 24234165--24234216 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
24234155 CACCACTGAA
* *
24234165 TCGGGGAATCATCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
24234191 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
24234217 CTTTTCATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.21, T:0.15
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:24234296 original size:70 final size:70
Alignment explanation
Indices: 24234177--24234325 Score: 237
Period size: 70 Copynumber: 2.1 Consensus size: 70
24234167 GGGGAATCAT
* *
24234177 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTTCATTTCAAATATACAATGGA
1 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATACAATGGA
24234242 TATCG
66 TATCG
***
24234247 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAA-CCCCTTTCACATTTCAAAGATATGGTGG
1 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTT-ACATTTCAAAGATACAATGG
24234311 ATATCG
65 ATATCG
24234317 CACTTAGCA
1 CACTTAGCA
24234326 CCACCAATGA
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
69 7 0.10
70 66 0.90
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.23
Consensus pattern (70 bp):
CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATACAATGGA
TATCG
Found at i:24234368 original size:26 final size:26
Alignment explanation
Indices: 24234338--24234388 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
24234328 ACCAATGAAC
*
24234338 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
24234364 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
24234389 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:24234371 original size:102 final size:103
Alignment explanation
Indices: 24234246--24234466 Score: 365
Period size: 103 Copynumber: 2.2 Consensus size: 103
24234236 AATGGATATC
24234246 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAA-CCCCTTTCACATTTCAAAGATATGGTG
1 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
* *
24234310 GAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
24234348 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
* *
24234413 GATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
24234451 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
24234467 TTTATATACA
Statistics
Matches: 111, Mismatches: 6, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
102 37 0.33
103 73 0.66
104 1 0.01
ACGTcount: A:0.32, C:0.32, G:0.19, T:0.18
Consensus pattern (103 bp):
GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
GATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:24234828 original size:29 final size:29
Alignment explanation
Indices: 24234795--24234858 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
24234785 TAATCCACCA
24234795 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
24234824 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
24234854 CCCAA
1 CCCAA
24234859 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Done.