Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032245.1 Gossypioides kirkii chromosome KI_2_4
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: 41238926
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 6100 characters in sequence are not A, C, G, or T
File 7 of 132
Found at i:1901642 original size:30 final size:30
Alignment explanation
Indices: 1901544--1901911 Score: 273
Period size: 29 Copynumber: 12.6 Consensus size: 30
1901534 CCCTAAATTG
* **
1901544 TCCAAAAATTATA-TTTTGACCCCTTAACT
1 TCCAAAAATTACATTTTTGACCCCAAAACT
* * **
1901573 TCTCCAAAATTACA-TCTTGACATCAAAACTAT
1 TC-CAAAAATTACATTTTTGACCCCAAAAC--T
*
1901605 TCC-AAAATTACATTTTTGTCCCCAAAACT
1 TCCAAAAATTACATTTTTGACCCCAAAACT
** *
1901634 TCCAAAAATTACATTTTTGACCCTGATACT
1 TCCAAAAATTACATTTTTGACCCCAAAACT
* *
1901664 TTCAAAAATTACATTTTTG--CCCACGAACT
1 TCCAAAAATTACATTTTTGACCCCA-AAACT
* * *
1901693 TCCAAAAATTATACTTTTGACCTCAAAAC-
1 TCCAAAAATTACATTTTTGACCCCAAAACT
* *
1901722 TCTCAAAAAATACA-TTTT--CCCCTAAACT
1 TC-CAAAAATTACATTTTTGACCCCAAAACT
* *
1901750 TCTAGAAATT-C-TATTTTGACCCCAAAACT
1 TCCAAAAATTACAT-TTTTGACCCCAAAACT
* * *
1901779 TCCACAAATTCCATTTTTG-CCCCTAAACT
1 TCCAAAAATTACATTTTTGACCCCAAAACT
* * *
1901808 TTCAAAAATTCCATTTTTG-CCCCTAAACT
1 TCCAAAAATTACATTTTTGACCCCAAAACT
* *
1901837 TTCAAAAATTCCA-TTTTGACCCC-AAACT
1 TCCAAAAATTACATTTTTGACCCCAAAACT
* * **
1901865 TCCAAAAATTCCATTTTTAACCCGGAAAC-
1 TCCAAAAATTACATTTTTGACCCCAAAACT
1901894 TCCAAAAATTACCATTTT
1 TCCAAAAATTA-CATTTT
1901912 ACCGCCGGAT
Statistics
Matches: 277, Mismatches: 42, Indels: 39
0.77 0.12 0.11
Matches are distributed among these distances:
26 1 0.00
27 16 0.06
28 26 0.09
29 119 0.43
30 96 0.35
31 16 0.06
32 3 0.01
ACGTcount: A:0.36, C:0.26, G:0.04, T:0.34
Consensus pattern (30 bp):
TCCAAAAATTACATTTTTGACCCCAAAACT
Found at i:1901894 original size:58 final size:59
Alignment explanation
Indices: 1901546--1901911 Score: 302
Period size: 57 Copynumber: 6.3 Consensus size: 59
1901536 CTAAATTGTC
* * * * * **
1901546 CAAAAATTATA-TTTTGACCCCTTAACTTCTCCAAAATTACA-TCTTGACATCAAAACTATT
1 CAAAAATTACATTTTTG-CCCCTAAACTTC-CAAAAATTCCATTTTTGACCCCAAAACT-TT
* * * ** *
1901606 CCAAAATTACATTTTTGTCCCCAAAACTTCCAAAAATTACATTTTTGACCCTGATACTTT
1 CAAAAATTACATTTTTG-CCCCTAAACTTCCAAAAATTCCATTTTTGACCCCAAAACTTT
* ** * * *
1901666 CAAAAATTACATTTTTGCCCAC-GAACTTCCAAAAATTATACTTTTGACCTCAAAACTCT
1 CAAAAATTACATTTTTGCCC-CTAAACTTCCAAAAATTCCATTTTTGACCCCAAAACTTT
* * * * *
1901725 CAAAAAATACA-TTTT-CCCCTAAACTTCTAGAAATTCTA-TTTTGACCCCAAAACTTC
1 CAAAAATTACATTTTTGCCCCTAAACTTCCAAAAATTCCATTTTTGACCCCAAAACTTT
* * * *
1901781 CACAAATTCCATTTTTGCCCCTAAACTTTCAAAAATTCCATTTTTG-CCCCTAAACTTT
1 CAAAAATTACATTTTTGCCCCTAAACTTCCAAAAATTCCATTTTTGACCCCAAAACTTT
* * ** *
1901839 CAAAAATTCCA-TTTTGACCCC-AAACTTCCAAAAATTCCATTTTTAACCCGGAAAC-TC
1 CAAAAATTACATTTTTG-CCCCTAAACTTCCAAAAATTCCATTTTTGACCCCAAAACTTT
1901896 CAAAAATTACCATTTT
1 CAAAAATTA-CATTTT
1901912 ACCGCCGGAT
Statistics
Matches: 250, Mismatches: 45, Indels: 23
0.79 0.14 0.07
Matches are distributed among these distances:
56 24 0.10
57 57 0.23
58 56 0.22
59 50 0.20
60 38 0.15
61 25 0.10
ACGTcount: A:0.36, C:0.26, G:0.04, T:0.34
Consensus pattern (59 bp):
CAAAAATTACATTTTTGCCCCTAAACTTCCAAAAATTCCATTTTTGACCCCAAAACTTT
Found at i:1902028 original size:145 final size:143
Alignment explanation
Indices: 1901848--1902353 Score: 415
Period size: 144 Copynumber: 3.5 Consensus size: 143
1901838 TCAAAAATTC
* * * *
1901848 CATTTTGACCCCAAA-CTTCCAAAAATT-CCATTTTTAACC-CGGAAACTCCAAAAATTACCATT
1 CATTTTAACCCCAAATTTTCC-AAAATTACCA-TTTTACCCTCGGAAAGTCC-AAAATTACCATT
*
1901910 TTACCGCCGGATGTCCAAAAAATCCCTTTTTTGATCACC-ATTTTTTAAAAATTACCGTTTTACC
63 TTACC-CCGGATGTCCAAAAAATCCCTTTTTTGATC-CCGATTTTTTAAAAATTACCATTTTACC
1901974 CTCGGTTGTCTAAAATGT
126 CTCGGTTGTCTAAAATGT
** * **
1901992 CATTTTAACCCCCAAATTTTCCAAAATTACCATTTTACCC-CCAAAAGACCAAAATTATTATTTT
1 CATTTTAA-CCCCAAATTTTCCAAAATTACCATTTTACCCTCGGAAAGTCCAAAATTACCATTTT
* * * * * * *
1902056 GCCCCCGAGCGTCCAAAAAGTCCC-GTTTTGATCCCGATTCTTCTGAAAATTACCATTTTA-CCT
65 ACCCCGGA-TGTCCAAAAAATCCCTTTTTTGATCCCGATT-TTTTAAAAATTACCATTTTACCCT
* **
1902119 CTGATCATCTAAAATGT
128 C-GGTTGTCTAAAATGT
* * * * *
1902136 CATTTCTAACCCCAAATTTTTCAAAAATTACCAGTTTACCCTC-GAGAGACCAAAATTACAATTT
1 CATTT-TAACCCCAAA-TTTTCCAAAATTACCATTTTACCCTCGGAAAGTCCAAAATTACCATTT
* * * ** * *
1902200 TGCCCTTGGGCAT-CCCAAAAGTTCCGTTTTTT-ATCCCGATTTTTTTGAAATATTACCATTTTA
64 TACCC--CGG-ATGTCCAAAAAATCCCTTTTTTGATCCCGA-TTTTTT-AAAAATTACCATTTTA
**
1902263 CCCTTAAG-TGTCTAAAATGT
124 CCC-TCGGTTGTCTAAAATGT
* * * *
1902283 CATTTTTAACTCGAAATTTTCCAAAATTACCATTTTATCCTC-GAAAGTCCAAAATTACCTTTTT
1 CA-TTTTAACCCCAAATTTTCCAAAATTACCATTTTACCCTCGGAAAGTCCAAAATTACCATTTT
1902347 ACTCCCG
65 AC-CCCG
1902354 AGTATCCAAA
Statistics
Matches: 289, Mismatches: 53, Indels: 39
0.76 0.14 0.10
Matches are distributed among these distances:
142 2 0.01
143 19 0.07
144 75 0.26
145 74 0.26
146 69 0.24
147 43 0.15
148 6 0.02
149 1 0.00
ACGTcount: A:0.31, C:0.25, G:0.09, T:0.35
Consensus pattern (143 bp):
CATTTTAACCCCAAATTTTCCAAAATTACCATTTTACCCTCGGAAAGTCCAAAATTACCATTTTA
CCCCGGATGTCCAAAAAATCCCTTTTTTGATCCCGATTTTTTAAAAATTACCATTTTACCCTCGG
TTGTCTAAAATGT
Found at i:1902317 original size:30 final size:29
Alignment explanation
Indices: 1902283--1902347 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 29
1902273 TCTAAAATGT
*
1902283 CATTTTTA-ACTCGAAATTTTCCAAAATTAC
1 CATTTTTATACTCGAAA--GTCCAAAATTAC
*
1902313 CA-TTTTATCCTCGAAAGTCCAAAATTAC
1 CATTTTTATACTCGAAAGTCCAAAATTAC
1902341 C-TTTTTA
1 CATTTTTA
1902348 CTCCCGAGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
28 17 0.55
29 5 0.16
30 9 0.29
ACGTcount: A:0.34, C:0.22, G:0.05, T:0.40
Consensus pattern (29 bp):
CATTTTTATACTCGAAAGTCCAAAATTAC
Found at i:1902736 original size:98 final size:97
Alignment explanation
Indices: 1902581--1902768 Score: 220
Period size: 98 Copynumber: 1.9 Consensus size: 97
1902571 AAACTTTAAA
* * ** *
1902581 ATCGAGGCAATATTCTCTTATTTTGAGTTTCAAAATTTTGAATCTTAACTTACTAGGTGTGATTT
1 ATCGAGGCAATATTCTCTTATTTCGAGTTTCAAAATTTTGAACCTTAACTTACTAGGTGCAATCT
1902646 TTCTTCAAATCGAA-ATAATCGAATACCCTTTT
66 TTCTTCAAATC-AAGATAATCGAATACCCTTTT
* * * *
1902678 ATCGAGGCAATGTT-TCCTTATCTTCGA-TTTTAAAATTTTTGCACCTTAACTTATTAGGTGCAA
1 ATCGAGGCAATATTCT-CTTAT-TTCGAGTTTCAAAA-TTTTGAACCTTAACTTACTAGGTGCAA
* *
1902741 TCTTTCTTTAAATCAAGATAATCTAATA
63 TCTTTCTTCAAATCAAGATAATCGAATA
1902769 TCTTCTTTCA
Statistics
Matches: 76, Mismatches: 11, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
96 1 0.01
97 27 0.36
98 48 0.63
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.42
Consensus pattern (97 bp):
ATCGAGGCAATATTCTCTTATTTCGAGTTTCAAAATTTTGAACCTTAACTTACTAGGTGCAATCT
TTCTTCAAATCAAGATAATCGAATACCCTTTT
Found at i:1903908 original size:24 final size:24
Alignment explanation
Indices: 1903876--1903922 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
1903866 ATGTGGAACC
*
1903876 AGTAGAAAATGAAGATCCAACTCT
1 AGTAGAAAATAAAGATCCAACTCT
1903900 AGTAGAAAATAAAGATCCAACTC
1 AGTAGAAAATAAAGATCCAACTC
1903923 CGTGTTTGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.49, C:0.17, G:0.15, T:0.19
Consensus pattern (24 bp):
AGTAGAAAATAAAGATCCAACTCT
Found at i:1904679 original size:11 final size:11
Alignment explanation
Indices: 1904645--1904720 Score: 82
Period size: 11 Copynumber: 6.8 Consensus size: 11
1904635 AACCATTTGA
*
1904645 AAATTAAATTT
1 AAATTTAATTT
*
1904656 -ATTTTAATCTT
1 AAATTTAAT-TT
*
1904667 AAATTTATTTT
1 AAATTTAATTT
*
1904678 AAATTCAATTT
1 AAATTTAATTT
1904689 AAATTTAAATTT
1 AAATTT-AATTT
*
1904701 GAATTTAATTT
1 AAATTTAATTT
1904712 AAATTTAAT
1 AAATTTAAT
1904721 ATTATTATAA
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
10 6 0.11
11 31 0.58
12 16 0.30
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (11 bp):
AAATTTAATTT
Found at i:1904717 original size:17 final size:16
Alignment explanation
Indices: 1904645--1904736 Score: 80
Period size: 17 Copynumber: 5.5 Consensus size: 16
1904635 AACCATTTGA
*
1904645 AAATTAAATTT-ATTT
1 AAATTTAATTTAATTT
* *
1904660 TAATCTTAAATTTATTTT
1 AAAT-TT-AATTTAATTT
*
1904678 AAATTCAATTTAAATTT
1 AAATTTAATTT-AATTT
1904695 AAATTTGAATTTAATTT
1 AAATTT-AATTTAATTT
1904712 AAATTTAATATT-ATTAT
1 AAATTTAAT-TTAATT-T
1904729 AAATTTAA
1 AAATTTAA
1904737 AAAGAAAAGT
Statistics
Matches: 63, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
15 3 0.05
16 12 0.19
17 37 0.59
18 11 0.17
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (16 bp):
AAATTTAATTTAATTT
Found at i:1904737 original size:6 final size:6
Alignment explanation
Indices: 1904648--1904719 Score: 64
Period size: 6 Copynumber: 12.7 Consensus size: 6
1904638 CATTTGAAAA
* * *
1904648 TTAAAT TT--AT TTTAAT CTTAAAT TT-ATT TTAAA- TTCAAT TTAAAT
1 TTAAAT TTAAAT TTAAAT -TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
1904693 TTAAAT TTGAAT TT-AAT TTAAAT TTAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAA
1904720 TATTATTATA
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
4 4 0.07
5 13 0.24
6 32 0.59
7 5 0.09
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (6 bp):
TTAAAT
Found at i:1905919 original size:11 final size:11
Alignment explanation
Indices: 1905903--1905929 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
1905893 TTGAACTTAC
1905903 CGGCGGTCGGA
1 CGGCGGTCGGA
1905914 CGGCGGTCGGA
1 CGGCGGTCGGA
1905925 CGGCG
1 CGGCG
1905930 TGCGAGTCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.07, C:0.30, G:0.56, T:0.07
Consensus pattern (11 bp):
CGGCGGTCGGA
Found at i:1906514 original size:162 final size:162
Alignment explanation
Indices: 1906331--1906641 Score: 561
Period size: 162 Copynumber: 1.9 Consensus size: 162
1906321 AGCTTTCAAT
*
1906331 TTAGTCCTTTTACTGTTTGACTGTACCAGAGGCTGCCACGTGTCACGTTTTGGCTTATTTATGCA
1 TTAGTCCTTTTACTGTTTGACTGTACCAGAGGCTGCCACATGTCACGTTTTGGCTTATTTATGCA
*
1906396 TTTAGTCCTTTTCATTTTTAATTTGTTTTAATTTAAT-CCTCAAATCAACTTTATTTTAGTTACG
66 TTTAGTCCTTTTCATTTTTAATTTGTTTTAATTTAATCCCT-AAATCAACTTTATTTTAATTACG
1906460 AAATTGGCCCAAGAATTTTTTAGGGTTTATAAA
130 AAATTGGCCCAAGAATTTTTTAGGGTTTATAAA
* *
1906493 TTAGTCCTTTTACTTTTTGACTGTACCAGAGGCTGCCACATGTCACTTTTTGGCTTATTTATGCA
1 TTAGTCCTTTTACTGTTTGACTGTACCAGAGGCTGCCACATGTCACGTTTTGGCTTATTTATGCA
*
1906558 TTTAGTCTTTTTCATTTTTAATTTGTTTTAATTTAATCCCTAAATCAACTTTATTTTAATTACGA
66 TTTAGTCCTTTTCATTTTTAATTTGTTTTAATTTAATCCCTAAATCAACTTTATTTTAATTACGA
1906623 AATTGGCCCAAGAATTTTT
131 AATTGGCCCAAGAATTTTT
1906642 CCAGACTTAC
Statistics
Matches: 143, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
162 140 0.98
163 3 0.02
ACGTcount: A:0.24, C:0.16, G:0.13, T:0.46
Consensus pattern (162 bp):
TTAGTCCTTTTACTGTTTGACTGTACCAGAGGCTGCCACATGTCACGTTTTGGCTTATTTATGCA
TTTAGTCCTTTTCATTTTTAATTTGTTTTAATTTAATCCCTAAATCAACTTTATTTTAATTACGA
AATTGGCCCAAGAATTTTTTAGGGTTTATAAA
Found at i:1907194 original size:58 final size:58
Alignment explanation
Indices: 1906742--1907166 Score: 696
Period size: 58 Copynumber: 7.4 Consensus size: 58
1906732 AAACAGTCCA
1906742 AAAATTACCA-TTTA-CCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACT
1 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACT
** *
1906798 AAAATTACCATTTTACCCCCGAAC-TTCCAAAATTCCATTTTTAACCCTAATTTCACCA
1 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA-CT
*
1906856 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACT
1 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACT
* * *
1906914 AAAATTACCATTTTACCCCCGAAC-TTCCAAAATTCTATTTTTAACTCCGATTTCACCA
1 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA-CT
** *
1906972 AAAATTACCATTTTACCCCCGAGTTTTCCAAAATTCCATTTTTAACCTCGATTTCACT
1 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACT
*
1907030 AAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACT
1 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACT
*
1907088 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTTCATTTTTAACCCCGATTTCACT
1 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACT
1907146 AAAATTACCATTTTACCCCCG
1 AAAATTACCATTTTACCCCCG
1907167 GGTATCCAAA
Statistics
Matches: 340, Mismatches: 23, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
56 10 0.03
57 62 0.18
58 211 0.62
59 57 0.17
ACGTcount: A:0.32, C:0.30, G:0.03, T:0.35
Consensus pattern (58 bp):
AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACT
Found at i:1914008 original size:51 final size:53
Alignment explanation
Indices: 1913951--1914065 Score: 130
Period size: 51 Copynumber: 2.2 Consensus size: 53
1913941 GGTATAATAA
* * *
1913951 CAAATTTAGCTCTCA-AAATTTTACACATTATGTCAATTTGGTATTG-TTT-AT
1 CAAATTTAGCCCACACAAA-TTTACACATTATATCAATTTGGTATTGATTTAAT
* * * *
1914002 CAAATTTAACCCACACACATTTACACATTCTATCAATTTGGTTTTGATTTAAT
1 CAAATTTAGCCCACACAAATTTACACATTATATCAATTTGGTATTGATTTAAT
1914055 -AAATTTAGCCC
1 CAAATTTAGCCC
1914066 GTAACATTTA
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
51 36 0.68
52 15 0.28
53 2 0.04
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.41
Consensus pattern (53 bp):
CAAATTTAGCCCACACAAATTTACACATTATATCAATTTGGTATTGATTTAAT
Found at i:1914073 original size:51 final size:51
Alignment explanation
Indices: 1913970--1914083 Score: 133
Period size: 51 Copynumber: 2.2 Consensus size: 51
1913960 CTCTCAAAAT
* *
1913970 TTTACACATTATGTCAATTTGGTATTGTTTATCAAATTTAACCCACACACA
1 TTTACACATTCTATCAATTTGGTATTGTTTATCAAATTTAACCCACACACA
* * **
1914021 TTTACACATTCTATCAATTTGGTTTTGATTTAAT-AAATTTAGCCCGTA-ACA
1 TTTACACATTCTATCAATTTGGTATTG-TTT-ATCAAATTTAACCCACACACA
*
1914072 TTTACATATTCT
1 TTTACACATTCT
1914084 GTCTAACAAC
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
51 38 0.70
52 14 0.26
53 2 0.04
ACGTcount: A:0.32, C:0.18, G:0.08, T:0.43
Consensus pattern (51 bp):
TTTACACATTCTATCAATTTGGTATTGTTTATCAAATTTAACCCACACACA
Found at i:1914561 original size:30 final size:30
Alignment explanation
Indices: 1914525--1914583 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 30
1914515 TTTTGACGTT
1914525 TTTAAAA-ATAATAAAAATATAATT-TTATCA
1 TTTAAAATATAA-AAAAATA-AATTATTATCA
1914555 TTTAAAATTATAAAAAAATAAATTATTAT
1 TTTAAAA-TATAAAAAAATAAATTATTAT
1914584 TAAATTGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
30 11 0.42
31 11 0.42
32 4 0.15
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (30 bp):
TTTAAAATATAAAAAAATAAATTATTATCA
Found at i:1915718 original size:16 final size:15
Alignment explanation
Indices: 1915677--1915733 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
1915667 TTAAGATATA
1915677 TTTAAGTTTTTTGAG
1 TTTAAGTTTTTTGAG
1915692 TTTAAGTTTTTTGAG
1 TTTAAGTTTTTTGAG
*
1915707 TTTAAGTCTTTTTTAG
1 TTTAAGT-TTTTTGAG
*
1915723 TTTAAATTTTT
1 TTTAAGTTTTT
1915734 AGGGGTTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
15 26 0.67
16 13 0.33
ACGTcount: A:0.21, C:0.02, G:0.14, T:0.63
Consensus pattern (15 bp):
TTTAAGTTTTTTGAG
Found at i:1926442 original size:29 final size:29
Alignment explanation
Indices: 1926399--1926462 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
1926389 TTAACTTTAT
* * * *
1926399 TTGATTCTTTTTAATAGTACAAGGATTAAA
1 TTGA-TCTATTTAATAATAAAAGAATTAAA
*
1926429 TTGATCTATTTAATAATAAAAGAATTAAT
1 TTGATCTATTTAATAATAAAAGAATTAAA
1926458 TTGAT
1 TTGAT
1926463 TTAATCCCTA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 25 0.86
30 4 0.14
ACGTcount: A:0.41, C:0.05, G:0.11, T:0.44
Consensus pattern (29 bp):
TTGATCTATTTAATAATAAAAGAATTAAA
Found at i:1929681 original size:22 final size:23
Alignment explanation
Indices: 1929656--1929699 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
1929646 GGGTTCGAAA
1929656 TTAGGGATTTTAGTAG-GATTTG
1 TTAGGGATTTTAGTAGTGATTTG
* *
1929678 TTAGGGGTTTTGGTAGTGATTT
1 TTAGGGATTTTAGTAGTGATTT
1929700 ATTGATTAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.18, C:0.00, G:0.34, T:0.48
Consensus pattern (23 bp):
TTAGGGATTTTAGTAGTGATTTG
Found at i:1930291 original size:18 final size:19
Alignment explanation
Indices: 1930253--1930315 Score: 65
Period size: 19 Copynumber: 3.1 Consensus size: 19
1930243 TCAACAAAAT
1930253 AATTCAAAATAATTTTAAA
1 AATTCAAAATAATTTTAAA
1930272 AATTCAAAAT-ATTTATAAAA
1 AATTCAAAATAATTT-T-AAA
*
1930292 AATTCGAAATTTATATTTTAAA
1 AATTC-AAA-ATA-ATTTTAAA
1930314 AA
1 AA
1930316 AATAAAAATT
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
18 4 0.11
19 11 0.30
20 8 0.22
21 3 0.08
22 6 0.16
23 1 0.03
24 4 0.11
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.38
Consensus pattern (19 bp):
AATTCAAAATAATTTTAAA
Found at i:1930324 original size:23 final size:24
Alignment explanation
Indices: 1930280--1930325 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
1930270 AAAATTCAAA
* **
1930280 ATATTTATAAAAAATTCGAAATTT
1 ATATTTATAAAAAAATAAAAATTT
1930304 ATATTT-TAAAAAAATAAAAATT
1 ATATTTATAAAAAAATAAAAATT
1930326 CTAAAAAGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (24 bp):
ATATTTATAAAAAAATAAAAATTT
Found at i:1946555 original size:51 final size:51
Alignment explanation
Indices: 1946417--1946556 Score: 176
Period size: 51 Copynumber: 2.7 Consensus size: 51
1946407 TGTGTAAATG
* * * *
1946417 TTGACAGAATATGTAAATGTTGA-GAGCTAAATTTATTAAATCAAGACCACA
1 TTGACAGAATGTGTAAATGTTGAGGA-CTAAATTTGTTAAATCAAAACCAAA
* *
1946468 TTGATAGAATGTGTAAATGTTGCGGACTAAATTTGTTAAATCAAAACCAAA
1 TTGACAGAATGTGTAAATGTTGAGGACTAAATTTGTTAAATCAAAACCAAA
* *
1946519 TTGACAAAATGTGTAAACT-TTGAGGACTAAAATTGTTA
1 TTGACAGAATGTGTAAA-TGTTGAGGACTAAATTTGTTA
1946557 TTATAATAAT
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
51 74 0.96
52 3 0.04
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.31
Consensus pattern (51 bp):
TTGACAGAATGTGTAAATGTTGAGGACTAAATTTGTTAAATCAAAACCAAA
Found at i:1952409 original size:22 final size:22
Alignment explanation
Indices: 1952396--1952450 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
1952386 TATTTTAATC
1952396 TTAAATTTACTTTAAATTCAAT
1 TTAAATTTACTTTAAATTCAAT
* * *
1952418 TTAAATTTAAATTTGAATTTAAT
1 TTAAATTT-ACTTTAAATTCAAT
1952441 TTAAAATTTA
1 TT-AAATTTA
1952451 ATATTATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 8 0.29
23 14 0.50
24 6 0.21
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.51
Consensus pattern (22 bp):
TTAAATTTACTTTAAATTCAAT
Found at i:1952426 original size:6 final size:6
Alignment explanation
Indices: 1952379--1952451 Score: 57
Period size: 6 Copynumber: 12.7 Consensus size: 6
1952369 CATTTGAAAA
* * *
1952379 TTAAAT TT--AT TTTAAT CTTAAAT TT-ACT TTAAA- TTCAAT TTAAAT
1 TTAAAT TTAAAT TTAAAT -TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
1952424 TTAAAT TTGAAT TT-AAT TTAAAAT TTAA
1 TTAAAT TTAAAT TTAAAT TT-AAAT TTAA
1952452 TATTATTATA
Statistics
Matches: 54, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
4 4 0.07
5 13 0.24
6 27 0.50
7 10 0.19
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.52
Consensus pattern (6 bp):
TTAAAT
Found at i:1952426 original size:17 final size:17
Alignment explanation
Indices: 1952399--1952466 Score: 61
Period size: 17 Copynumber: 3.9 Consensus size: 17
1952389 TTTAATCTTA
*
1952399 AATTTACTTTAAA-TTC
1 AATTTAATTTAAATTTC
*
1952415 AATTTAAATTTAAATTTG
1 AATTT-AATTTAAATTTC
1952433 AATTTAATTTAAAATTT-
1 AATTTAATTT-AAATTTC
1952450 AATATT-ATTATAAATTT
1 AAT-TTAATT-TAAATTT
1952467 AAAAAAAAAG
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
16 5 0.11
17 24 0.53
18 16 0.36
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.51
Consensus pattern (17 bp):
AATTTAATTTAAATTTC
Found at i:1952436 original size:12 final size:12
Alignment explanation
Indices: 1952379--1952451 Score: 57
Period size: 11 Copynumber: 6.3 Consensus size: 12
1952369 CATTTGAAAA
1952379 TTAAATTT--AT
1 TTAAATTTAAAT
*
1952389 TTTAATCTTAAAT
1 TTAAAT-TTAAAT
*
1952402 TT-ACTTTAAA-
1 TTAAATTTAAAT
*
1952412 TTCAATTTAAAT
1 TTAAATTTAAAT
*
1952424 TTAAATTTGAAT
1 TTAAATTTAAAT
1952436 TT-AATTTAAAAT
1 TTAAATTT-AAAT
1952448 TTAA
1 TTAA
1952452 TATTATTATA
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
10 7 0.14
11 19 0.38
12 19 0.38
13 5 0.10
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.52
Consensus pattern (12 bp):
TTAAATTTAAAT
Found at i:1952452 original size:12 final size:11
Alignment explanation
Indices: 1952376--1952452 Score: 75
Period size: 12 Copynumber: 6.8 Consensus size: 11
1952366 AACCATTTGA
*
1952376 AAATTAAATTT
1 AAATTTAATTT
*
1952387 -ATTTTAATCTT
1 AAATTTAAT-TT
*
1952398 AAATTTACTTT
1 AAATTTAATTT
*
1952409 AAATTCAATTT
1 AAATTTAATTT
1952420 AAATTTAAATTT
1 AAATTT-AATTT
*
1952432 GAATTTAATTT
1 AAATTTAATTT
1952443 AAAATTTAAT
1 -AAATTTAAT
1952453 ATTATTATAA
Statistics
Matches: 53, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
10 6 0.11
11 23 0.43
12 24 0.45
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.51
Consensus pattern (11 bp):
AAATTTAATTT
Found at i:1954186 original size:162 final size:162
Alignment explanation
Indices: 1953986--1954299 Score: 463
Period size: 162 Copynumber: 1.9 Consensus size: 162
1953976 CTTTTCAATT
* *
1953986 TAGTCCTTTGACTGCTTGACTATACCATAGGCTGCCACGTGTCACTTTTTAGATTATTTATGCAT
1 TAGTCCTTTGACTGCTTGACTACACCAGAGGCTGCCACGTGTCACTTTTTAGATTATTTATGCAT
* *
1954051 TTAGTCCTTTTTATTTTTTTATTTGTTTTAATTTAATCC-CAAATCAAC-TTTATTTTAATTACA
66 TTAGTCCTTTTTA-TTTTTAATTTATTTTAATTTAATCCTCAAATCAACTTTTA-TTTAATTACA
*
1954114 AAATTGGCCCAATAATTTTTCAAGGTTTATAAAC
129 AAATTGGCCCAAAAATTTTTCAAGGTTTATAAAC
* * * * *
1954148 TAGTCCTTTGACTGTTTGAC-AGCACCAGAGGTTGCCACGTGTCATTTTTTGGATTATTTTTGCA
1 TAGTCCTTTGACTGCTTGACTA-CACCAGAGGCTGCCACGTGTCACTTTTTAGATTATTTATGCA
* *
1954212 TTTAGTCCTTTTTATTTTTAATTTATTTTAATTTAATCCTTAAATCGACTTTTATTTAATTACAA
65 TTTAGTCCTTTTTATTTTTAATTTATTTTAATTTAATCCTCAAATCAACTTTTATTTAATTACAA
*
1954277 AATTGGTCCAAAAATTTTTCAAG
130 AATTGGCCCAAAAATTTTTCAAG
1954300 ATTTTCAAAT
Statistics
Matches: 136, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
161 24 0.18
162 108 0.79
163 4 0.03
ACGTcount: A:0.27, C:0.16, G:0.11, T:0.46
Consensus pattern (162 bp):
TAGTCCTTTGACTGCTTGACTACACCAGAGGCTGCCACGTGTCACTTTTTAGATTATTTATGCAT
TTAGTCCTTTTTATTTTTAATTTATTTTAATTTAATCCTCAAATCAACTTTTATTTAATTACAAA
ATTGGCCCAAAAATTTTTCAAGGTTTATAAAC
Found at i:1954432 original size:30 final size:30
Alignment explanation
Indices: 1954396--1954618 Score: 331
Period size: 30 Copynumber: 7.4 Consensus size: 30
1954386 AAATTGTCCA
*
1954396 AAAATTATATTTTGACCCCAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
1954426 AAAATTACATTTTGACCCCAAAACGTTTT-C
1 AAAATTACATTTTGACCCCAAAAC-TTTTCC
* *
1954456 AAAATTATATTTTGACCCCAAAATTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* *
1954486 AAAATTACATTTTGACCCTAAAACTTTTTC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* *
1954516 AAAATTATATTTTGACCCTAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* * *
1954546 AAAATCACATTTTGACCCTAAAACTTTACC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
1954576 AAAATTACATTTTGACCCCAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
*
1954606 AAAATTATATTTT
1 AAAATTACATTTT
1954619 TAACCCCGAT
Statistics
Matches: 175, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
29 4 0.02
30 167 0.95
31 4 0.02
ACGTcount: A:0.38, C:0.22, G:0.04, T:0.37
Consensus pattern (30 bp):
AAAATTACATTTTGACCCCAAAACTTTTCC
Found at i:1954640 original size:30 final size:30
Alignment explanation
Indices: 1954606--1954760 Score: 77
Period size: 30 Copynumber: 5.2 Consensus size: 30
1954596 AAACTTTTCC
1954606 AAAATTATATTTTTAACCCCGATTTCACCG
1 AAAATTATATTTTTAACCCCGATTTCACCG
* * ** ****
1954636 AAAATTACCA-TTTT-ACCCCCAAATCTTTT
1 AAAATTA-TATTTTTAACCCCGATTTCACCG
** *
1954665 AAAATTCCATTTTTAACCCCGATTTCACCA
1 AAAATTATATTTTTAACCCCGATTTCACCG
* ** ** *
1954695 AAAATT-TCCA-TTTTACCCCCGA-AGCTTCT
1 AAAATTAT--ATTTTTAACCCCGATTTCACCG
* *
1954724 AAAATTCTGTTTTTAACCCCGATTTCACCG
1 AAAATTATATTTTTAACCCCGATTTCACCG
1954754 AAAATTA
1 AAAATTA
1954761 CCATTTTACC
Statistics
Matches: 86, Mismatches: 31, Indels: 16
0.65 0.23 0.12
Matches are distributed among these distances:
28 2 0.02
29 37 0.43
30 45 0.52
31 2 0.02
ACGTcount: A:0.33, C:0.26, G:0.05, T:0.35
Consensus pattern (30 bp):
AAAATTATATTTTTAACCCCGATTTCACCG
Found at i:1954640 original size:60 final size:58
Alignment explanation
Indices: 1954396--1954889 Score: 318
Period size: 59 Copynumber: 8.3 Consensus size: 58
1954386 AAATTGTCCA
* * * *
1954396 AAAATTATATTTTGACCCCAAAACTTTTCCAAAATTACA-TTTTGACCCCAAAACGTTT--TC
1 AAAATTACATTTT-ACCCCAAAACTTTTCCAAAATTACATTTTTAACCCC--GA--TTTCACC
* * * ** **
1954456 AAAATTATATTTTGACCCCAAAATTTTTCCAAAATTACA-TTTTGACCCTAAAACTTT-TTC
1 AAAATTACATTTT-ACCCCAAAACTTTTCCAAAATTACATTTTTAACCC--CGA-TTTCACC
* * * * **
1954516 AAAATTATATTTTGACCCTAAAACTTTTCCAAAATCACA-TTTTGACCCTAAAACTTT-ACC
1 AAAATTACATTTT-ACCCCAAAACTTTTCCAAAATTACATTTTTAACCC--CGA-TTTCACC
*
1954576 AAAATTACATTTTGACCCCAAAACTTTTCCAAAATTATATTTTTAACCCCGATTTCACC
1 AAAATTACATTTT-ACCCCAAAACTTTTCCAAAATTACATTTTTAACCCCGATTTCACC
* *
1954635 GAAAATTACCATTTTACCCCCAAATCTTTT--AAAATTCCATTTTTAACCCCGATTTCACC
1 -AAAATTA-CATTTTA-CCCCAAAACTTTTCCAAAATTACATTTTTAACCCCGATTTCACC
* * * * *
1954694 AAAAATTTCCATTTTACCCCCGAAGC--TTCTAAAATT-CTGTTTTTAACCCCGATTTCACC
1 -AAAA-TTACATTTTA-CCCCAAAACTTTTCCAAAATTAC-ATTTTTAACCCCGATTTCACC
* *
1954753 GAAAATTACCATTTTACCCCTAAAACTTTT--AAAATTCCATTTTTAACCTCGATTTCACC
1 -AAAATTA-CATTTTACCCC-AAAACTTTTCCAAAATTACATTTTTAACCCCGATTTCACC
* * * * * * *
1954812 GAAAATTGCCATTTTACCCTCGAATCTTTT--AAAATTCCATTTTTAATCTCGATTACACC
1 -AAAATT-ACATTTTACCC-CAAAACTTTTCCAAAATTACATTTTTAACCCCGATTTCACC
1954871 AAAATTACCATTTTACCCC
1 AAAATTA-CATTTTACCCC
1954890 CGGGTATCCA
Statistics
Matches: 379, Mismatches: 35, Indels: 43
0.83 0.08 0.09
Matches are distributed among these distances:
57 3 0.01
58 26 0.07
59 169 0.45
60 153 0.40
61 28 0.07
ACGTcount: A:0.34, C:0.25, G:0.04, T:0.36
Consensus pattern (58 bp):
AAAATTACATTTTACCCCAAAACTTTTCCAAAATTACATTTTTAACCCCGATTTCACC
Found at i:1954684 original size:59 final size:59
Alignment explanation
Indices: 1954576--1954890 Score: 411
Period size: 59 Copynumber: 5.3 Consensus size: 59
1954566 AAACTTTACC
**
1954576 AAAATTA-CATTTTGA-CCCCAAAACTTTTCCAAAATTATATTTTTAACCCCGATTTCACCG
1 AAAATTACCATTTT-ACCCCCAAAACTTTT--AAAATTCCATTTTTAACCCCGATTTCACCG
* *
1954636 AAAATTACCATTTTACCCCCAAATCTTTTAAAATTCCATTTTTAACCCCGATTTCACCA
1 AAAATTACCATTTTACCCCCAAAACTTTTAAAATTCCATTTTTAACCCCGATTTCACCG
* * * * **
1954695 AAAATTTCCATTTTACCCCCGAAGCTTCTAAAATTCTGTTTTTAACCCCGATTTCACCG
1 AAAATTACCATTTTACCCCCAAAACTTTTAAAATTCCATTTTTAACCCCGATTTCACCG
* *
1954754 AAAATTACCATTTTACCCCTAAAACTTTTAAAATTCCATTTTTAACCTCGATTTCACCG
1 AAAATTACCATTTTACCCCCAAAACTTTTAAAATTCCATTTTTAACCCCGATTTCACCG
* * * * * * *
1954813 AAAATTGCCATTTTACCCTCGAATCTTTTAAAATTCCATTTTTAATCTCGATTACACC-
1 AAAATTACCATTTTACCCCCAAAACTTTTAAAATTCCATTTTTAACCCCGATTTCACCG
1954871 AAAATTACCATTTTACCCCC
1 AAAATTACCATTTTACCCCC
1954891 GGGTATCCAT
Statistics
Matches: 225, Mismatches: 28, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
58 18 0.08
59 181 0.80
60 8 0.04
61 18 0.08
ACGTcount: A:0.32, C:0.27, G:0.04, T:0.36
Consensus pattern (59 bp):
AAAATTACCATTTTACCCCCAAAACTTTTAAAATTCCATTTTTAACCCCGATTTCACCG
Found at i:1958361 original size:54 final size:54
Alignment explanation
Indices: 1958297--1958401 Score: 174
Period size: 54 Copynumber: 1.9 Consensus size: 54
1958287 ATATGGTTAA
*
1958297 CCATATTATCTCATTTACTGAAACATACAAACGATGGTCGACATTGATAACTAC
1 CCATATTATCTCATTTACTGAAACATACAAACGATGGTCGACATCGATAACTAC
* * *
1958351 CCATATTATCTCATTTTCTGAAACATACAAACTATGGTTGACATCGATAAC
1 CCATATTATCTCATTTACTGAAACATACAAACGATGGTCGACATCGATAAC
1958402 AATTCGAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.36, C:0.22, G:0.10, T:0.31
Consensus pattern (54 bp):
CCATATTATCTCATTTACTGAAACATACAAACGATGGTCGACATCGATAACTAC
Found at i:1961857 original size:24 final size:26
Alignment explanation
Indices: 1961820--1961869 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
1961810 ACCCGTTTTA
*
1961820 TATTTTTGTAATATATT-TTTAATTT
1 TATTTTTATAATATATTATTTAATTT
1961845 TATTTTTAT-ATATATTATTTAATTT
1 TATTTTTATAATATATTATTTAATTT
1961870 ATTAAATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (26 bp):
TATTTTTATAATATATTATTTAATTT
Found at i:1963641 original size:16 final size:16
Alignment explanation
Indices: 1963620--1963667 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 16
1963610 TTGTTAAATT
1963620 AAAAAATTAAGTGTTG
1 AAAAAATTAAGTGTTG
* *
1963636 AAAAAA-TAAGT-ATA
1 AAAAAATTAAGTGTTG
*
1963650 AAAAAATTAATTGTTG
1 AAAAAATTAAGTGTTG
1963666 AA
1 AA
1963668 TTTAAGCTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
14 7 0.28
15 9 0.36
16 9 0.36
ACGTcount: A:0.58, C:0.00, G:0.12, T:0.29
Consensus pattern (16 bp):
AAAAAATTAAGTGTTG
Found at i:1967055 original size:13 final size:13
Alignment explanation
Indices: 1967037--1967069 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
1967027 TAAGGTTGAT
1967037 GGTTTGGGGTTTG
1 GGTTTGGGGTTTG
1967050 GGTTT-GGGTTTG
1 GGTTTGGGGTTTG
1967062 GAGTTTGG
1 G-GTTTGG
1967070 ATTTGAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 8 0.44
13 9 0.50
14 1 0.06
ACGTcount: A:0.03, C:0.00, G:0.52, T:0.45
Consensus pattern (13 bp):
GGTTTGGGGTTTG
Found at i:1973269 original size:19 final size:18
Alignment explanation
Indices: 1973245--1973294 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
1973235 GAATTCGAAT
*
1973245 AAAATATAAATACAATATA
1 AAAATATAAATAAAAT-TA
1973264 AAAATA-AAATAAAATTA
1 AAAATATAAATAAAATTA
*
1973281 TAAATATAAA-AAAA
1 AAAATATAAATAAAA
1973295 AGTCATATTG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 11 0.39
18 11 0.39
19 6 0.21
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (18 bp):
AAAATATAAATAAAATTA
Found at i:1973294 original size:17 final size:17
Alignment explanation
Indices: 1973242--1973294 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
1973232 TTTGAATTCG
*
1973242 AATA-AAATATAAATAC
1 AATATAAATATAAATAA
*
1973258 AATATAAAAATAAAATAA
1 AATATAAATAT-AAATAA
1973276 AATTATAAATATAAA-AA
1 AA-TATAAATATAAATAA
1973293 AA
1 AA
1973295 AGTCATATTG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 4 0.13
17 9 0.29
18 10 0.32
19 8 0.26
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.25
Consensus pattern (17 bp):
AATATAAATATAAATAA
Found at i:1973697 original size:21 final size:21
Alignment explanation
Indices: 1973646--1973702 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
1973636 ATATAAACCC
* **
1973646 TTTAATTCTCATTTTTTTCAA
1 TTTAATTCTCAATTTTCACAA
* * *
1973667 CTCAACTCTCAATTTTCACAA
1 TTTAATTCTCAATTTTCACAA
1973688 TTTAATTCTCAATTT
1 TTTAATTCTCAATTT
1973703 CTTGTTCTCG
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.28, C:0.21, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTAATTCTCAATTTTCACAA
Found at i:1973710 original size:14 final size:14
Alignment explanation
Indices: 1973692--1973756 Score: 53
Period size: 14 Copynumber: 4.7 Consensus size: 14
1973682 TCACAATTTA
1973692 ATTCTCAATTTCTT
1 ATTCTCAATTTCTT
* * *
1973706 GTTCTCGATTTGTT
1 ATTCTCAATTTCTT
*
1973720 ATTCTCAA-TTCTCA
1 ATTCTCAATTTCT-T
*
1973734 ATTCTCGATTT-TT
1 ATTCTCAATTTCTT
*
1973747 ATTCTAAATT
1 ATTCTCAATT
1973757 CTCAATTACA
Statistics
Matches: 38, Mismatches: 11, Indels: 5
0.70 0.20 0.09
Matches are distributed among these distances:
13 11 0.29
14 25 0.66
15 2 0.05
ACGTcount: A:0.22, C:0.18, G:0.06, T:0.54
Consensus pattern (14 bp):
ATTCTCAATTTCTT
Found at i:1973723 original size:28 final size:28
Alignment explanation
Indices: 1973692--1973763 Score: 87
Period size: 27 Copynumber: 2.6 Consensus size: 28
1973682 TCACAATTTA
**
1973692 ATTCTCAATTTCT-TGTTCTCGATTTGTT
1 ATTCTCAATTTCTCAATTCTCGATTT-TT
1973720 ATTCTCAA-TTCTCAATTCTCGATTTTT
1 ATTCTCAATTTCTCAATTCTCGATTTTT
*
1973747 ATTCT-AAATTCTCAATT
1 ATTCTCAATTTCTCAATT
1973764 ACAATTTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
26 2 0.05
27 20 0.50
28 18 0.45
ACGTcount: A:0.22, C:0.19, G:0.06, T:0.53
Consensus pattern (28 bp):
ATTCTCAATTTCTCAATTCTCGATTTTT
Found at i:1973748 original size:27 final size:28
Alignment explanation
Indices: 1973707--1973763 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 28
1973697 CAATTTCTTG
*
1973707 TTCTCGATTTGTTATTCTCAATTCTCAA
1 TTCTCGATTTGTTATTCTAAATTCTCAA
1973735 TTCTCGATTT-TTATTCTAAATTCTCAA
1 TTCTCGATTTGTTATTCTAAATTCTCAA
1973762 TT
1 TT
1973764 ACAATTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
27 18 0.64
28 10 0.36
ACGTcount: A:0.23, C:0.19, G:0.05, T:0.53
Consensus pattern (28 bp):
TTCTCGATTTGTTATTCTAAATTCTCAA
Found at i:1973772 original size:27 final size:28
Alignment explanation
Indices: 1973713--1973773 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
1973703 CTTGTTCTCG
* * * *
1973713 ATTTGTTATTCTCAATTCTCAATTCTCG
1 ATTTTTTATTCTAAATTCTCAATTCACA
1973741 A-TTTTTATTCTAAATTCTCAATT-ACA
1 ATTTTTTATTCTAAATTCTCAATTCACA
1973767 ATTTTTT
1 ATTTTTT
1973774 TTAAAAAGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
26 2 0.07
27 25 0.89
28 1 0.04
ACGTcount: A:0.26, C:0.16, G:0.03, T:0.54
Consensus pattern (28 bp):
ATTTTTTATTCTAAATTCTCAATTCACA
Found at i:1973930 original size:51 final size:51
Alignment explanation
Indices: 1973870--1973968 Score: 155
Period size: 51 Copynumber: 1.9 Consensus size: 51
1973860 AATGGTAAAA
* *
1973870 AAATATTATTTAATTATTTAATTTT-AATATGTTAATTATTATGATATTAAG
1 AAATATTATTAAATTATTTAATTTTAAATA-GTTAATGATTATGATATTAAG
*
1973921 AAATATTATTAAATTATTTAATTTTAAATAGTTAATGATTATGCTATT
1 AAATATTATTAAATTATTTAATTTTAAATAGTTAATGATTATGATATT
1973969 TAGATTATTA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
51 40 0.91
52 4 0.09
ACGTcount: A:0.41, C:0.01, G:0.06, T:0.52
Consensus pattern (51 bp):
AAATATTATTAAATTATTTAATTTTAAATAGTTAATGATTATGATATTAAG
Found at i:1977266 original size:30 final size:31
Alignment explanation
Indices: 1977227--1977307 Score: 103
Period size: 31 Copynumber: 2.6 Consensus size: 31
1977217 TTCAATAATC
* *
1977227 TATATTTTTATAATTATTAAAA-AATTAAAT
1 TATATTTTTATCATTATTAAAAGAATCAAAT
*
1977257 TA-ATTTTTTATCATTTTTAAAAGAATCAAAT
1 TATA-TTTTTATCATTATTAAAAGAATCAAAT
*
1977288 TATAATTTTATCATTATTAA
1 TATATTTTTATCATTATTAA
1977308 TTTTAAAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
29 1 0.02
30 18 0.42
31 23 0.53
32 1 0.02
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.51
Consensus pattern (31 bp):
TATATTTTTATCATTATTAAAAGAATCAAAT
Found at i:1978181 original size:2 final size:2
Alignment explanation
Indices: 1978174--1978199 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1978164 ATTATTTAAA
1978174 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
1978200 GAATTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1983464 original size:18 final size:18
Alignment explanation
Indices: 1983441--1983488 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
1983431 TTTCATCCGA
*
1983441 ATAAAATATAAATACAAT
1 ATAAAATATAAATAAAAT
1983459 ATAAAAT-TAAAATAAAAT
1 ATAAAATAT-AAATAAAAT
1983477 -TATAAATATAAA
1 ATA-AAATATAAA
1983489 ATAGGAGTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 3 0.12
18 22 0.85
19 1 0.04
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (18 bp):
ATAAAATATAAATAAAAT
Found at i:1985925 original size:36 final size:36
Alignment explanation
Indices: 1985885--1985992 Score: 144
Period size: 36 Copynumber: 3.0 Consensus size: 36
1985875 AGATCAGTGA
* * *
1985885 TCAACCCCAACGTGCACATGAAAACGAGGCTAAAGT
1 TCAACCCCAACATGCACATGAAGACGAGGCCAAAGT
* * * *
1985921 TCAACCCCAATATGCACATGAGGACGAGGCCGAAGA
1 TCAACCCCAACATGCACATGAAGACGAGGCCAAAGT
*
1985957 TCAACCCCGACATGCACATGAAGACGAGGCCAAAGT
1 TCAACCCCAACATGCACATGAAGACGAGGCCAAAGT
1985993 CCTAGTGGAG
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 60 1.00
ACGTcount: A:0.37, C:0.29, G:0.22, T:0.12
Consensus pattern (36 bp):
TCAACCCCAACATGCACATGAAGACGAGGCCAAAGT
Found at i:1986373 original size:15 final size:15
Alignment explanation
Indices: 1986353--1986385 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
1986343 GGAAAGAAAT
1986353 TGAGTATTTACTGTA
1 TGAGTATTTACTGTA
1986368 TGAGTATTTACTGTA
1 TGAGTATTTACTGTA
1986383 TGA
1 TGA
1986386 CTTAGTCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.27, C:0.06, G:0.21, T:0.45
Consensus pattern (15 bp):
TGAGTATTTACTGTA
Found at i:1987318 original size:15 final size:16
Alignment explanation
Indices: 1987282--1987321 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
1987272 CGGAATTAAA
1987282 TATAATTTTATCATTTT
1 TATAA-TTTATCATTTT
*
1987299 AATAATTTAT-ATTTT
1 TATAATTTATCATTTT
1987314 TATAATTT
1 TATAATTT
1987322 TTAAAAGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 12 0.57
16 5 0.24
17 4 0.19
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (16 bp):
TATAATTTATCATTTT
Found at i:1987343 original size:30 final size:31
Alignment explanation
Indices: 1987302--1987361 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
1987292 TCATTTTAAT
*
1987302 AATTTATATTTTTATAATTTTTAAA-AGATA
1 AATTTAAATTTTTATAATTTTTAAAGAGATA
**
1987332 AATTTAAATTTTTATCTTTTTTAAAGAGAT
1 AATTTAAATTTTTATAATTTTTAAAGAGAT
1987362 CAAAGTATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (31 bp):
AATTTAAATTTTTATAATTTTTAAAGAGATA
Found at i:1987571 original size:11 final size:11
Alignment explanation
Indices: 1987557--1987587 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
1987547 GAAAACAATG
*
1987557 TAAAAATTTTA
1 TAAAAATTATA
1987568 TAAAAATTATA
1 TAAAAATTATA
1987579 TAAAAATTA
1 TAAAAATTA
1987588 AATGTCGCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:2004430 original size:267 final size:267
Alignment explanation
Indices: 2003955--2004496 Score: 1075
Period size: 267 Copynumber: 2.0 Consensus size: 267
2003945 CCGAGCAGCA
2003955 AGGTAGTACCACTTCCTAGGCCAAGTCCTATCCTTAAGCCAGTATTATCCTCTTTGTATACCTCA
1 AGGTAGTACCACTTCCTAGGCCAAGTCCTATCCTTAAGCCAGTATTATCCTCTTTGTATACCTCA
2004020 TGTACTCTTTGCAACGCTGGGTACATTTGGTCTTATAATTGAAGGTCCATGACTCATGAGTTCAA
66 TGTACTCTTTGCAACGCTGGGTACATTTGGTCTTATAATTGAAGGTCCATGACTCATGAGTTCAA
2004085 ACATGGGAGGCACATCTTCACCGACACATGTACCATTTGGTCTTATAACAAAAGGTCCTGAACTC
131 ACATGGGAGGCACATCTTCACCGACACATGTACCATTTGGTCTTATAACAAAAGGTCCTGAACTC
2004150 CAACACAGGAGCCTTGAGAAGCTGTTGGGCATCCAAAGAGGACAACAGCAGCTTATGGGCATGAC
196 CAACACAGGAGCCTTGAGAAGCTGTTGGGCATCCAAAGAGGACAACAGCAGCTTATGGGCATGAC
2004215 ATGGCTC
261 ATGGCTC
2004222 AGGTAGTACCACTTCCTAGGCCAAGTCCTATCCTTAAGCCAGTATTATCCTCTTTGTATACCTCA
1 AGGTAGTACCACTTCCTAGGCCAAGTCCTATCCTTAAGCCAGTATTATCCTCTTTGTATACCTCA
2004287 TGTACTCTTTGCAACGCTGGGTACATTTGGTCTTATAATTGAAGGTCCATGACTCATGAGTTCAA
66 TGTACTCTTTGCAACGCTGGGTACATTTGGTCTTATAATTGAAGGTCCATGACTCATGAGTTCAA
2004352 ACATGGGAGGCACATCTTCACCGACACATGTACCATTTGGTCTTATAACAAAAGGTCCTGAACTC
131 ACATGGGAGGCACATCTTCACCGACACATGTACCATTTGGTCTTATAACAAAAGGTCCTGAACTC
2004417 CAACACAGGAGCCTTGAGAAGCTGTTGGGCATCCAAAGAGGACAACAGCAGCTTATGGGCATGAC
196 CAACACAGGAGCCTTGAGAAGCTGTTGGGCATCCAAAGAGGACAACAGCAGCTTATGGGCATGAC
2004482 ATGGCTC
261 ATGGCTC
2004489 AGGGTAGT
1 A-GGTAGT
2004497 GCTAGTATCT
Statistics
Matches: 274, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
267 268 0.98
268 6 0.02
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (267 bp):
AGGTAGTACCACTTCCTAGGCCAAGTCCTATCCTTAAGCCAGTATTATCCTCTTTGTATACCTCA
TGTACTCTTTGCAACGCTGGGTACATTTGGTCTTATAATTGAAGGTCCATGACTCATGAGTTCAA
ACATGGGAGGCACATCTTCACCGACACATGTACCATTTGGTCTTATAACAAAAGGTCCTGAACTC
CAACACAGGAGCCTTGAGAAGCTGTTGGGCATCCAAAGAGGACAACAGCAGCTTATGGGCATGAC
ATGGCTC
Found at i:2006421 original size:22 final size:22
Alignment explanation
Indices: 2006393--2006474 Score: 76
Period size: 22 Copynumber: 3.5 Consensus size: 22
2006383 AAACGGAACA
*
2006393 AACAGAGAGTACCAAAGTACTG
1 AACAGAGAGCACCAAAGTACTG
*
2006415 AACAGAGAGCA-CATAAGTGCTGGG
1 AACAGAGAGCACCA-AAGTACT--G
*
2006439 CAACAGAGAGGACACAAAGTACTG
1 -AACAGAGAGCAC-CAAAGTACTG
*
2006463 ATCAGAGAGCAC
1 AACAGAGAGCAC
2006475 ATACAGTGCT
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
21 2 0.04
22 16 0.33
23 10 0.21
24 2 0.04
25 10 0.21
26 6 0.12
27 2 0.04
ACGTcount: A:0.43, C:0.20, G:0.27, T:0.11
Consensus pattern (22 bp):
AACAGAGAGCACCAAAGTACTG
Found at i:2006463 original size:48 final size:48
Alignment explanation
Indices: 2006393--2006484 Score: 150
Period size: 48 Copynumber: 1.9 Consensus size: 48
2006383 AAACGGAACA
*
2006393 AACAGAGAGTACCAAAGTACTGAACAGAGAGCACATA-AGTGCTGGGC
1 AACAGAGAGGACCAAAGTACTGAACAGAGAGCACATACAGTGCTGGGC
*
2006440 AACAGAGAGGACACAAAGTACTGATCAGAGAGCACATACAGTGCT
1 AACAGAGAGGAC-CAAAGTACTGAACAGAGAGCACATACAGTGCT
2006485 AATCAAAGAG
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
47 11 0.27
48 24 0.59
49 6 0.15
ACGTcount: A:0.41, C:0.20, G:0.26, T:0.13
Consensus pattern (48 bp):
AACAGAGAGGACCAAAGTACTGAACAGAGAGCACATACAGTGCTGGGC
Found at i:2006468 original size:23 final size:23
Alignment explanation
Indices: 2006395--2006530 Score: 96
Period size: 23 Copynumber: 5.9 Consensus size: 23
2006385 ACGGAACAAA
* * *
2006395 CAGAGAGTAC-CAAAGTACTGAA
1 CAGAGAGCACACAAAGTGCTGAT
* *
2006417 CAGAGAGCACA-TAAGTGCTGGGCAA
1 CAGAGAGCACACAAAGTGCT--G-AT
* *
2006442 CAGAGAGGACACAAAGTACTGAT
1 CAGAGAGCACACAAAGTGCTGAT
* * *
2006465 CAGAGAGCACATACAGTGCTAAT
1 CAGAGAGCACACAAAGTGCTGAT
* * *
2006488 CAAAGAGCACACACAGTGCTAAT
1 CAGAGAGCACACAAAGTGCTGAT
* *
2006511 CAGAGAGCGCACACAGTGCT
1 CAGAGAGCACACAAAGTGCT
2006531 AAATAGAGAC
Statistics
Matches: 93, Mismatches: 16, Indels: 9
0.79 0.14 0.08
Matches are distributed among these distances:
22 15 0.16
23 58 0.62
24 2 0.02
25 12 0.13
26 6 0.06
ACGTcount: A:0.40, C:0.22, G:0.25, T:0.13
Consensus pattern (23 bp):
CAGAGAGCACACAAAGTGCTGAT
Found at i:2006502 original size:48 final size:49
Alignment explanation
Indices: 2006393--2006532 Score: 146
Period size: 46 Copynumber: 3.0 Consensus size: 49
2006383 AAACGGAACA
* * **
2006393 AACAGAGAGTAC-CAAAGTACTGAACAGAGAGCACATA-AGTGCTGGGC
1 AACAGAGAGCACACAAAGTACTGATCAGAGAGCACATACAGTGCTAAGC
* *
2006440 AACAGAGAGGACACAAAGTACTGATCAGAGAGCACATACAGTGCTAATC
1 AACAGAGAGCACACAAAGTACTGATCAGAGAGCACATACAGTGCTAAGC
* * * * *
2006489 -A-A-AGAGCACACACAGTGCTAATCAGAGAGCGCACACAGTGCTAA
1 AACAGAGAGCACACAAAGTACTGATCAGAGAGCACATACAGTGCTAA
2006533 ATAGAGACCA
Statistics
Matches: 80, Mismatches: 11, Indels: 5
0.83 0.11 0.05
Matches are distributed among these distances:
46 36 0.45
47 12 0.15
48 25 0.31
49 7 0.09
ACGTcount: A:0.41, C:0.21, G:0.24, T:0.13
Consensus pattern (49 bp):
AACAGAGAGCACACAAAGTACTGATCAGAGAGCACATACAGTGCTAAGC
Found at i:2006539 original size:23 final size:23
Alignment explanation
Indices: 2006442--2006532 Score: 119
Period size: 23 Copynumber: 4.0 Consensus size: 23
2006432 TGCTGGGCAA
* * * *
2006442 CAGAGAGGACACAAAGTACTGAT
1 CAGAGAGCACACACAGTGCTAAT
*
2006465 CAGAGAGCACATACAGTGCTAAT
1 CAGAGAGCACACACAGTGCTAAT
*
2006488 CAAAGAGCACACACAGTGCTAAT
1 CAGAGAGCACACACAGTGCTAAT
*
2006511 CAGAGAGCGCACACAGTGCTAA
1 CAGAGAGCACACACAGTGCTAA
2006533 ATAGAGACCA
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 59 1.00
ACGTcount: A:0.41, C:0.23, G:0.23, T:0.13
Consensus pattern (23 bp):
CAGAGAGCACACACAGTGCTAAT
Found at i:2008401 original size:14 final size:14
Alignment explanation
Indices: 2008382--2008411 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2008372 AGTTGACGGT
2008382 GGTTATGCAGTCAC
1 GGTTATGCAGTCAC
*
2008396 GGTTATGCGGTCAC
1 GGTTATGCAGTCAC
2008410 GG
1 GG
2008412 GTTAAAGCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.20, G:0.37, T:0.27
Consensus pattern (14 bp):
GGTTATGCAGTCAC
Found at i:2008984 original size:14 final size:15
Alignment explanation
Indices: 2008953--2008987 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
2008943 AACTAAATAG
2008953 TTGAGAGAATAGATAA
1 TTGAGAGAATAGA-AA
*
2008969 TTGAGAGAATAGAAT
1 TTGAGAGAATAGAAA
2008984 TTGA
1 TTGA
2008988 ATGCAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.46, C:0.00, G:0.26, T:0.29
Consensus pattern (15 bp):
TTGAGAGAATAGAAA
Found at i:2011739 original size:58 final size:58
Alignment explanation
Indices: 2011632--2011741 Score: 132
Period size: 58 Copynumber: 1.9 Consensus size: 58
2011622 TTACTAACAC
* * * *
2011632 AAAATAATTTAATTAATATAAAAATCGATAAGACAACTCATACATGATTTACTTAAAT
1 AAAATAATTTAACTAATATAAAAATCGATAAAACAACCCATACAAGATTTACTTAAAT
* * * *
2011690 AAAATAATTTACCTAATATGAAAATCGTTAAAATAACCCCA-ACAAGATTTAC
1 AAAATAATTTAACTAATATAAAAATCGATAAAACAA-CCCATACAAGATTTAC
2011742 CCAATATAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
58 40 0.93
59 3 0.07
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.30
Consensus pattern (58 bp):
AAAATAATTTAACTAATATAAAAATCGATAAAACAACCCATACAAGATTTACTTAAAT
Found at i:2012593 original size:44 final size:44
Alignment explanation
Indices: 2012543--2012632 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
2012533 ATTTATGATT
2012543 TAAGAATAAAATTGAAATAGTATATGTCACGCAAAATGACTAGA
1 TAAGAATAAAATTGAAATAGTATATGTCACGCAAAATGACTAGA
2012587 TAAGAATAAAATTGAAATAGTATATGTCACGCAAAATGACTAGA
1 TAAGAATAAAATTGAAATAGTATATGTCACGCAAAATGACTAGA
2012631 TA
1 TA
2012633 CATCATACAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.50, C:0.09, G:0.16, T:0.26
Consensus pattern (44 bp):
TAAGAATAAAATTGAAATAGTATATGTCACGCAAAATGACTAGA
Found at i:2012622 original size:25 final size:25
Alignment explanation
Indices: 2012550--2012623 Score: 70
Period size: 25 Copynumber: 3.2 Consensus size: 25
2012540 ATTTAAGAAT
2012550 AAAATTGAAATAGTATATGTCACGC
1 AAAATTGAAATAGTATATGTCACGC
* * **
2012575 AAAA-TG-ACTAG-ATAAG--A-AT
1 AAAATTGAAATAGTATATGTCACGC
2012594 AAAATTGAAATAGTATATGTCACGC
1 AAAATTGAAATAGTATATGTCACGC
2012619 AAAAT
1 AAAAT
2012624 GACTAGATAC
Statistics
Matches: 35, Mismatches: 8, Indels: 12
0.64 0.15 0.22
Matches are distributed among these distances:
19 4 0.11
20 3 0.09
21 4 0.11
22 8 0.23
23 4 0.11
24 3 0.09
25 9 0.26
ACGTcount: A:0.50, C:0.09, G:0.15, T:0.26
Consensus pattern (25 bp):
AAAATTGAAATAGTATATGTCACGC
Found at i:2024606 original size:59 final size:59
Alignment explanation
Indices: 2024497--2024816 Score: 464
Period size: 59 Copynumber: 5.4 Consensus size: 59
2024487 ACTTATGGAT
* * *
2024497 ATTCGGGGGTAAAATGGTAA-TTTTGGTGTAATCGGGATTAAAAATGGAATTTTAAAAG
1 ATTCGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAG
**
2024555 ATTCGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAACAGAATTTTAGAAG
1 ATTCGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAG
* * ** * *
2024614 CTTCGGGGGTAAAATGGTAATTTTTGATGAAATTAGGGTTAAAAATAGAATTTTAAAAG
1 ATTCGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAG
**
2024673 ATTCGGGGGTAAAATGGTAATTTTCAGTGAAATCGGGGTT-AAAATGGAATTTTAGAAG
1 ATTCGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAG
* * * *
2024731 CTTCGAGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAACGGAATTTTAGAAG
1 ATTCGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAG
2024790 ATTCGGGGGGTAAAATGGTAATTTTTG
1 ATTC-GGGGGTAAAATGGTAATTTTTG
2024817 AAAGTTTTGG
Statistics
Matches: 233, Mismatches: 26, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
58 73 0.31
59 140 0.60
60 20 0.09
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (59 bp):
ATTCGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAG
Found at i:2024743 original size:117 final size:118
Alignment explanation
Indices: 2024498--2024814 Score: 469
Period size: 117 Copynumber: 2.7 Consensus size: 118
2024488 CTTATGGATA
* *
2024498 TTCGGGGGTAAAATGGTAA-TTTTGGTGTAA-TCGGGATTAAAAATGGAATTTTAAAAGATTCGG
1 TTCGGGGGTAAAATGGTAATTTTTGGTGAAATTAGGG-TTAAAAATGGAATTTTAAAAGATTCGG
**
2024561 GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAACAGAATTTTAGAAGC
65 GGGTAAAATGGTAATTTTCAGTGAAATCGGGGTTAAAAACAGAATTTTAGAAGC
* *
2024615 TTCGGGGGTAAAATGGTAATTTTTGATGAAATTAGGGTTAAAAATAGAATTTTAAAAGATTCGGG
1 TTCGGGGGTAAAATGGTAATTTTTGGTGAAATTAGGGTTAAAAATGGAATTTTAAAAGATTCGGG
**
2024680 GGTAAAATGGTAATTTTCAGTGAAATCGGGGTT-AAAATGGAATTTTAGAAGC
66 GGTAAAATGGTAATTTTCAGTGAAATCGGGGTTAAAAACAGAATTTTAGAAGC
* * ** * *
2024732 TTCGAGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAACGGAATTTTAGAAGATTCGGG
1 TTCGGGGGTAAAATGGTAATTTTTGGTGAAATTAGGGTTAAAAATGGAATTTTAAAAGATTC-GG
2024797 GGGTAAAATGGTAATTTT
65 GGGTAAAATGGTAATTTT
2024815 TGAAAGTTTT
Statistics
Matches: 181, Mismatches: 16, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
117 90 0.50
118 87 0.48
119 4 0.02
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (118 bp):
TTCGGGGGTAAAATGGTAATTTTTGGTGAAATTAGGGTTAAAAATGGAATTTTAAAAGATTCGGG
GGTAAAATGGTAATTTTCAGTGAAATCGGGGTTAAAAACAGAATTTTAGAAGC
Found at i:2024762 original size:176 final size:177
Alignment explanation
Indices: 2024497--2024817 Score: 538
Period size: 176 Copynumber: 1.8 Consensus size: 177
2024487 ACTTATGGAT
* * *
2024497 ATTCGGGGGTAAAATGGTAATTTTGGTGTAATCGGGATTAAAAATGGAATTTTAAAAGATTCGGG
1 ATTCGGGGGTAAAATGGTAATTTTAGTGAAATCGGGATTAAAAATGGAATTTTAAAAGATTCGAG
* *
2024562 GGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAACAGAATTTTAGAAGCTTC-GGGGGTAA
66 GGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAACAGAATTTTAGAAGATTCGGGGGGTAA
2024626 AATGGTAATTTTTGATGAAATTAGGGTTAAAAATAGAATTTTAAAAG
131 AATGGTAATTTTTGATGAAATTAGGGTTAAAAATAGAATTTTAAAAG
* * *
2024673 ATTCGGGGGTAAAATGGTAATTTTCAGTGAAATCGGGGTT-AAAATGGAATTTTAGAAGCTTCGA
1 ATTCGGGGGTAAAATGGTAATTTT-AGTGAAATCGGGATTAAAAATGGAATTTTAAAAGATTCGA
*
2024737 GGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAACGGAATTTTAGAAGATTCGGGGGGTA
65 GGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAACAGAATTTTAGAAGATTCGGGGGGTA
2024802 AAATGGTAATTTTTGA
130 AAATGGTAATTTTTGA
2024818 AAGTTTTGGG
Statistics
Matches: 134, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
176 99 0.74
177 35 0.26
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (177 bp):
ATTCGGGGGTAAAATGGTAATTTTAGTGAAATCGGGATTAAAAATGGAATTTTAAAAGATTCGAG
GGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAACAGAATTTTAGAAGATTCGGGGGGTAA
AATGGTAATTTTTGATGAAATTAGGGTTAAAAATAGAATTTTAAAAG
Found at i:2024835 original size:30 final size:30
Alignment explanation
Indices: 2024808--2025088 Score: 429
Period size: 30 Copynumber: 9.3 Consensus size: 30
2024798 GGTAAAATGG
* * *
2024808 TAATTTTTG-AAAGTTTTGGGGTCAAAATG
1 TAATTTTGGAAAAGTTTTAGGGTCAAAATA
* *
2024837 TAATTTTGGAAAAGTTTTAAGGTCAAAATG
1 TAATTTTGGAAAAGTTTTAGGGTCAAAATA
2024867 TAATTTTGGGAAAAGTTTTAGGGTCAAAATA
1 TAATTTT-GGAAAAGTTTTAGGGTCAAAATA
* *
2024898 TAATTTTGGAAAAGTTTTAGGGTTAAAATG
1 TAATTTTGGAAAAGTTTTAGGGTCAAAATA
2024928 TAATTTTGGAAAAGTTTTAGGGTCAAAATA
1 TAATTTTGGAAAAGTTTTAGGGTCAAAATA
*
2024958 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
1 TAATTTTGGAAAAGTTTTAGGGTCAAAATA
*
2024988 TAATTTTGGAAAAGTTTTAGGGTTAAAATA
1 TAATTTTGGAAAAGTTTTAGGGTCAAAATA
*
2025018 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
1 TAATTTTGGAAAAGTTTTAGGGTCAAAATA
* *
2025048 TAATTTTGAAAAAGTTTTAGGGTTAAAATA
1 TAATTTTGGAAAAGTTTTAGGGTCAAAATA
2025078 TAATTTCTGGA
1 TAATTT-TGGA
2025089 TTGTTTGGGG
Statistics
Matches: 231, Mismatches: 18, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
29 8 0.03
30 192 0.83
31 31 0.13
ACGTcount: A:0.38, C:0.02, G:0.21, T:0.38
Consensus pattern (30 bp):
TAATTTTGGAAAAGTTTTAGGGTCAAAATA
Found at i:2026801 original size:14 final size:14
Alignment explanation
Indices: 2026782--2026815 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
2026772 GGCCGAAAAA
*
2026782 TGGGCCTTTGTAAT
1 TGGGCCATTGTAAT
2026796 TGGGCCATTGTAAT
1 TGGGCCATTGTAAT
2026810 TGGGCC
1 TGGGCC
2026816 GTGGGCCATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.15, C:0.18, G:0.32, T:0.35
Consensus pattern (14 bp):
TGGGCCATTGTAAT
Found at i:2026905 original size:48 final size:48
Alignment explanation
Indices: 2026845--2026951 Score: 119
Period size: 48 Copynumber: 2.2 Consensus size: 48
2026835 ATTTGGACTT
* * ** *
2026845 TTAAATGTTAAAT-TTAATATTTTAATTTTTATTTAAATTTAAATTCAAA
1 TTAAAT-TTAAATATTAA-ATTTTAAATTTAAAATAAATCTAAATTCAAA
* *
2026894 TTAAATTTAAATATTTAATTTTAAATTTAAAATAAATCTAAATTTAAA
1 TTAAATTTAAATATTAAATTTTAAATTTAAAATAAATCTAAATTCAAA
2026942 -TAAATTTAAA
1 TTAAATTTAAA
2026952 ATCAATTTAA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
47 10 0.20
48 31 0.62
49 9 0.18
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.49
Consensus pattern (48 bp):
TTAAATTTAAATATTAAATTTTAAATTTAAAATAAATCTAAATTCAAA
Found at i:2026909 original size:31 final size:31
Alignment explanation
Indices: 2026874--2026936 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
2026864 TTTTAATTTT
* *
2026874 TATTTAAATTTAAATTCAAATTAAATTTAAA
1 TATTTAAATTTAAATTCAAAATAAATCTAAA
* *
2026905 TATTTAATTTTAAATTTAAAATAAATCTAAA
1 TATTTAAATTTAAATTCAAAATAAATCTAAA
2026936 T
1 T
2026937 TTAAATAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (31 bp):
TATTTAAATTTAAATTCAAAATAAATCTAAA
Found at i:2026924 original size:6 final size:6
Alignment explanation
Indices: 2026844--2026951 Score: 89
Period size: 6 Copynumber: 18.0 Consensus size: 6
2026834 CATTTGGACT
* ** *
2026844 TTTAAA TGTTAAA TTTAATA TTTTAA TTTTTA TTTAAA TTTAAA TTCAAA
1 TTTAAA T-TTAAA TTTAA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * *
2026894 -TTAAA TTTAAATA TTTAAT TTTAAA TTTAAA -ATAAA TCTAAA TTTAAA
1 TTTAAA TTT-AA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
2026942 --TAAA TTTAAA
1 TTTAAA TTTAAA
2026952 ATCAATTTAA
Statistics
Matches: 83, Mismatches: 11, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
4 4 0.05
5 8 0.10
6 52 0.63
7 15 0.18
8 4 0.05
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (6 bp):
TTTAAA
Found at i:2026937 original size:42 final size:43
Alignment explanation
Indices: 2026847--2026942 Score: 110
Period size: 42 Copynumber: 2.2 Consensus size: 43
2026837 TTGGACTTTT
* *
2026847 AAATGTTAAATTTAATATTTTAATTTTTATTTAAATTTAAATTC
1 AAAT-TTAAATTTAATATTTTAATTTTAATTTAAATATAAATTC
2026891 AAA-TTAAATTTAA-ATATTTAATTTTAAATTTAAA-ATAAA-TC
1 AAATTTAAATTTAATAT-TTTAATTTT-AATTTAAATATAAATTC
2026932 TAAATTTAAAT
1 -AAATTTAAAT
2026943 AAATTTAAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
41 4 0.09
42 26 0.57
43 13 0.28
44 3 0.07
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (43 bp):
AAATTTAAATTTAATATTTTAATTTTAATTTAAATATAAATTC
Found at i:2027356 original size:69 final size:68
Alignment explanation
Indices: 2027268--2027750 Score: 831
Period size: 69 Copynumber: 7.0 Consensus size: 68
2027258 TTCAATAAGA
* * * *
2027268 GGATGACGTTGCTCTTACTTCAATTTCAGAGGTAAAGATGTGTTATCCACTCTACTTCAATTTCG
1 GGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCA
2027333 AGG
66 AGG
2027336 GGATGACGTTGCTTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTC
1 GGATGACGTTGC-TCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTC
2027401 AAAGG
65 -AAGG
*
2027406 GGATGACGTTGTTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCA
1 GGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCA
2027471 AGG
66 AGG
* * * * *
2027474 GAATGACGTTGCTCTTACTTCAATTTCAGAGGTAAAGATGTGTTATCCACTCTACTTCAATTTCG
1 GGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCA
2027539 AGG
66 AGG
2027542 GGATGACGTTGCTTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTC
1 GGATGACGTTGC-TCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTC
2027607 AAGGG
65 AA-GG
*
2027612 GGATGATGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCA
1 GGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCA
2027677 AGG
66 AGG
2027680 GGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCA
1 GGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCA
2027745 AGG
66 AGG
2027748 GGA
1 GGA
2027751 CGATGTTGAG
Statistics
Matches: 393, Mismatches: 18, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
68 161 0.41
69 205 0.52
70 27 0.07
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (68 bp):
GGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCA
AGG
Found at i:2027564 original size:137 final size:136
Alignment explanation
Indices: 2027268--2027750 Score: 831
Period size: 137 Copynumber: 3.5 Consensus size: 136
2027258 TTCAATAAGA
* * * *
2027268 GGATGACGTTGCTCTTACTTCAATTTCAGAGGTAAAGATGTGTTATCCACTCTACTTCAATTTCG
1 GGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCA
2027333 AGGGGATGACGTTGCTTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAAT
66 AGGGGATGACGTTGC-TCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAAT
2027398 TTCAAAGG
130 TTC-AAGG
*
2027406 GGATGACGTTGTTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCA
1 GGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCA
* * * *
2027471 AGGGAATGACGTTGCTCTTACTTCAATTTCAGAGGTAAAGATGTGTTATCCACTCTACTTCAATT
66 AGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATT
*
2027536 TCGAGG
131 TCAAGG
2027542 GGATGACGTTGCTTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTC
1 GGATGACGTTGC-TCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTC
*
2027607 AAGGGGGATGATGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAA
65 AA-GGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAA
2027672 TTTCAAGG
129 TTTCAAGG
2027680 GGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCA
1 GGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCA
2027745 AGGGGA
66 AGGGGA
2027751 CGATGTTGAG
Statistics
Matches: 326, Mismatches: 17, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
136 19 0.06
137 157 0.48
138 150 0.46
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (136 bp):
GGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCA
AGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATT
TCAAGG
Found at i:2027630 original size:206 final size:206
Alignment explanation
Indices: 2027270--2027750 Score: 890
Period size: 206 Copynumber: 2.3 Consensus size: 206
2027260 CAATAAGAGG
2027270 ATGACGTTGCTCTTACTTCAATTTCAGAGGTAAAGATGTGTTATCCACTCTACTTCAATTTCGAG
1 ATGACGTTGCTCTTACTTCAATTTCAGAGGTAAAGATGTGTTATCCACTCTACTTCAATTTCGAG
2027335 GGGATGACGTTGCTTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTT
66 GGGATGACGTTGCTTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTT
*
2027400 CAAAGGGGATGACGTTGTTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCA
131 CAAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCA
2027465 ATTTCAAGGGA
196 ATTTCAAGGGA
2027476 ATGACGTTGCTCTTACTTCAATTTCAGAGGTAAAGATGTGTTATCCACTCTACTTCAATTTCGAG
1 ATGACGTTGCTCTTACTTCAATTTCAGAGGTAAAGATGTGTTATCCACTCTACTTCAATTTCGAG
2027541 GGGATGACGTTGCTTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTT
66 GGGATGACGTTGCTTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTT
* *
2027606 CAAGGGGGATGATGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCA
131 CAAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCA
*
2027671 ATTTCAAGGGG
196 ATTTCAAGGGA
* * * *
2027682 ATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAG
1 ATGACGTTGCTCTTACTTCAATTTCAGAGGTAAAGATGTGTTATCCACTCTACTTCAATTTCGAG
2027747 GGGA
66 GGGA
2027751 CGATGTTGAG
Statistics
Matches: 267, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
206 267 1.00
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (206 bp):
ATGACGTTGCTCTTACTTCAATTTCAGAGGTAAAGATGTGTTATCCACTCTACTTCAATTTCGAG
GGGATGACGTTGCTTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTT
CAAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCA
ATTTCAAGGGA
Found at i:2039727 original size:29 final size:30
Alignment explanation
Indices: 2039693--2039776 Score: 91
Period size: 29 Copynumber: 2.8 Consensus size: 30
2039683 ATTTTGGTGT
*
2039693 AATCGGGATTAAAAATGGAATTTTAAAAG-
1 AATCGGGGTTAAAAATGGAATTTTAAAAGA
* * ** *
2039722 ATTCGGGGGT-AAAATGGTAATTTTTGATGA
1 AATCGGGGTTAAAAATGG-AATTTTAAAAGA
2039752 AATCGGGGTTAAAAATGGAATTTTA
1 AATCGGGGTTAAAAATGGAATTTTA
2039777 GAAGCTTTGG
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
28 7 0.16
29 15 0.35
30 14 0.33
31 7 0.16
ACGTcount: A:0.39, C:0.04, G:0.25, T:0.32
Consensus pattern (30 bp):
AATCGGGGTTAAAAATGGAATTTTAAAAGA
Found at i:2039767 original size:59 final size:59
Alignment explanation
Indices: 2039667--2039925 Score: 360
Period size: 59 Copynumber: 4.4 Consensus size: 59
2039657 TATGGATACC
* * * * * *
2039667 CGGGGGCAAAATGGTAA-TTTTGGTGTAATCGGGATTAAAAATGGAATTTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTTTGATGAAATCGGGGTTAAAAACGGAATTTTAGAAGATT
* *
2039725 CGGGGGTAAAATGGTAATTTTTGATGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTT
1 CGGGGGTAAAATGGTAATTTTTGATGAAATCGGGGTTAAAAACGGAATTTTAGAAGATT
* * * *
2039784 TGGGGGTAAAATGGTAATTTTTGGTGAAATCAGGGTT-AAAACGGAATTTTAGAAGCTT
1 CGGGGGTAAAATGGTAATTTTTGATGAAATCGGGGTTAAAAACGGAATTTTAGAAGATT
* * *
2039842 CGAGGGTAAAATGGTAATTTTCGATGAAATCGAGGTTAAAAACGGAATTTTAGAAGATT
1 CGGGGGTAAAATGGTAATTTTTGATGAAATCGGGGTTAAAAACGGAATTTTAGAAGATT
2039901 CGGGGGGTAAAATGGTAATTTTTGA
1 C-GGGGGTAAAATGGTAATTTTTGA
2039926 AAGTTTTGGG
Statistics
Matches: 179, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
58 67 0.37
59 91 0.51
60 21 0.12
ACGTcount: A:0.35, C:0.05, G:0.29, T:0.31
Consensus pattern (59 bp):
CGGGGGTAAAATGGTAATTTTTGATGAAATCGGGGTTAAAAACGGAATTTTAGAAGATT
Found at i:2039788 original size:29 final size:29
Alignment explanation
Indices: 2039704--2039922 Score: 158
Period size: 30 Copynumber: 7.5 Consensus size: 29
2039694 ATCGGGATTA
*
2039704 AAAATGG-AATTTTAAAAGATTCGGGGGT
1 AAAATGGTAATTTTAGAAGATTCGGGGGT
* * * *
2039732 AAAATGGTAATTTTTGATGAAATCGGGGTT
1 AAAATGGTAATTTTAGAAG-ATTCGGGGGT
* *
2039762 AAAAATGG-AATTTTAGAAGCTTTGGGGGT
1 -AAAATGGTAATTTTAGAAGATTCGGGGGT
* ** * * *
2039791 AAAATGGTAATTTTTGGTGAAATCAGGGTT
1 AAAATGGTAATTTTAGAAG-ATTCGGGGGT
* * *
2039821 AAAACGG-AATTTTAGAAGCTTCGAGGGT
1 AAAATGGTAATTTTAGAAGATTCGGGGGT
* * * * *
2039849 AAAATGGTAATTTTCGATGAAATCGAGGTT
1 AAAATGGTAATTTTAGAAG-ATTCGGGGGT
*
2039879 AAAAACGG-AATTTTAGAAGATTCGGGGGGT
1 -AAAATGGTAATTTTAGAAGATTC-GGGGGT
2039909 AAAATGGTAATTTT
1 AAAATGGTAATTTT
2039923 TGAAAGTTTT
Statistics
Matches: 140, Mismatches: 41, Indels: 18
0.70 0.21 0.09
Matches are distributed among these distances:
28 25 0.18
29 48 0.34
30 54 0.39
31 13 0.09
ACGTcount: A:0.36, C:0.05, G:0.27, T:0.32
Consensus pattern (29 bp):
AAAATGGTAATTTTAGAAGATTCGGGGGT
Found at i:2039849 original size:117 final size:119
Alignment explanation
Indices: 2039668--2039924 Score: 378
Period size: 117 Copynumber: 2.2 Consensus size: 119
2039658 ATGGATACCC
* * * *
2039668 GGGGGCAAAATGGTAA-TTTTGGTGTAATCGGGATTAAAAATGGAATTTTAAAAGATTCGGGGGT
1 GGGGGTAAAATGGTAATTTTTGGTGAAATCGGGATTAAAAACGGAATTTTAAAAGATTCGAGGGT
* * * * *
2039732 AAAATGGTAATTTTTGATGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTT-T
66 AAAATGGTAATTTTCGATGAAATCGAGGTTAAAAACGGAATTTTAGAAGATTCG
* *
2039785 GGGGGTAAAATGGTAATTTTTGGTGAAATCAGGG-TT-AAAACGGAATTTTAGAAGCTTCGAGGG
1 GGGGGTAAAATGGTAATTTTTGGTGAAATC-GGGATTAAAAACGGAATTTTAAAAGATTCGAGGG
2039848 TAAAATGGTAATTTTCGATGAAATCGAGGTTAAAAACGGAATTTTAGAAGATTCG
65 TAAAATGGTAATTTTCGATGAAATCGAGGTTAAAAACGGAATTTTAGAAGATTCG
2039903 GGGGGTAAAATGGTAATTTTTG
1 GGGGGTAAAATGGTAATTTTTG
2039925 AAAGTTTTGG
Statistics
Matches: 126, Mismatches: 11, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
117 87 0.69
118 36 0.29
119 3 0.02
ACGTcount: A:0.35, C:0.05, G:0.29, T:0.32
Consensus pattern (119 bp):
GGGGGTAAAATGGTAATTTTTGGTGAAATCGGGATTAAAAACGGAATTTTAAAAGATTCGAGGGT
AAAATGGTAATTTTCGATGAAATCGAGGTTAAAAACGGAATTTTAGAAGATTCG
Found at i:2039943 original size:30 final size:30
Alignment explanation
Indices: 2039916--2040252 Score: 559
Period size: 30 Copynumber: 11.2 Consensus size: 30
2039906 GGTAAAATGG
* *
2039916 TAATTTTTG-AAAGTTTTGGGGTCAAAATG
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
* *
2039945 TAATTTTGGAAAAGTTTTAGGGTCAAAATG
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
*
2039975 TAATTTTGGGAAAAGTTTTGGGGTTAAAATA
1 TAATTTT-GGAAAAGTTTTGGGGTCAAAATA
* *
2040006 TAATTTTGGAAAAGTTTTGGGGTTAAAATG
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
2040036 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
*
2040066 TAATTTTGGAAAAGTTTTGGGGTTAAAATA
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
2040096 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
2040126 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
*
2040156 TAATTTTGGAAAAGGTTTGGGGTCAAAATA
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
*
2040186 TAATTTTGGAAAAGTTTTGGGGTTAAAATA
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
*
2040216 TAATTTTAGAAAAGTTTTGGGGTCAAAATA
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
2040246 TAATTTT
1 TAATTTT
2040253 TGGATTGTTT
Statistics
Matches: 291, Mismatches: 15, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
29 8 0.03
30 256 0.88
31 27 0.09
ACGTcount: A:0.36, C:0.02, G:0.23, T:0.39
Consensus pattern (30 bp):
TAATTTTGGAAAAGTTTTGGGGTCAAAATA
Found at i:2041142 original size:29 final size:29
Alignment explanation
Indices: 2041110--2041396 Score: 169
Period size: 29 Copynumber: 9.8 Consensus size: 29
2041100 TTTGGTGTAA
* *
2041110 TCGGGATTAAAAATGGAATTTTAAAAGAT
1 TCGGGGTTAAAAATGGAATTTTAGAAGAT
* *
2041139 TCGGGGGT-AAAATGGTAATTTTGGTGAA-A-
1 TCGGGGTTAAAAATGG-AATTTT--AGAAGAT
** *
2041168 TCGGGGTTAAAAACAGAATTTTAGAAGCT
1 TCGGGGTTAAAAATGGAATTTTAGAAGAT
* * *
2041197 TCGGGGGT-AAAATGGTAATTTTTGATAAAAT
1 TCGGGGTTAAAAATGG-AA-TTTT-AGAAGAT
* * *
2041228 T-AGGGTTAAAAATAGAATTTTAAAAGAT
1 TCGGGGTTAAAAATGGAATTTTAGAAGAT
* * ** *
2041256 TCAAGGG-T-AAAATGGTAATTTTTGGTGAAA
1 TC-GGGGTTAAAAATGG-AATTTTAGAAG-AT
*
2041286 TCGGGGTTAAAAATGGAATTTTAGAAGCT
1 TCGGGGTTAAAAATGGAATTTTAGAAGAT
* * ** *
2041315 TCGGGGGT-AAAATGGTAATTTTCGGTGAAA
1 TCGGGGTTAAAAATGG-AATTTTAGAAG-AT
2041345 TCGGGGTTAAAAATGGAATTTTAGAAGAT
1 TCGGGGTTAAAAATGGAATTTTAGAAGAT
*
2041374 TCGGGGGGT-AAAATGGTAATTTT
1 TC-GGGGTTAAAAATGG-AATTTT
2041397 TGAAAGTTTT
Statistics
Matches: 193, Mismatches: 44, Indels: 41
0.69 0.16 0.15
Matches are distributed among these distances:
27 3 0.02
28 31 0.16
29 74 0.38
30 58 0.30
31 27 0.14
ACGTcount: A:0.37, C:0.05, G:0.27, T:0.32
Consensus pattern (29 bp):
TCGGGGTTAAAAATGGAATTTTAGAAGAT
Found at i:2041248 original size:59 final size:59
Alignment explanation
Indices: 2041082--2041398 Score: 458
Period size: 59 Copynumber: 5.4 Consensus size: 59
2041072 TATGGATATC
* * * *
2041082 CGGGGGTAAAATGGCAA-TTTTGGTGTAATCGGGATTAAAAATGGAATTTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGATT
** *
2041140 CGGGGGTAAAATGGTAA-TTTTGGTGAAATCGGGGTTAAAAACAGAATTTTAGAAGCTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGATT
* * ** * *
2041198 CGGGGGTAAAATGGTAATTTTTGATAAAATTAGGGTTAAAAATAGAATTTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGATT
** *
2041257 CAAGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGATT
*
2041316 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGATT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGATT
2041375 CGGGGGGTAAAATGGTAATTTTTG
1 C-GGGGGTAAAATGGTAATTTTTG
2041399 AAAGTTTTGG
Statistics
Matches: 229, Mismatches: 28, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
58 68 0.30
59 140 0.61
60 21 0.09
ACGTcount: A:0.36, C:0.05, G:0.28, T:0.32
Consensus pattern (59 bp):
CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGATT
Found at i:2041417 original size:30 final size:30
Alignment explanation
Indices: 2041390--2041639 Score: 421
Period size: 30 Copynumber: 8.3 Consensus size: 30
2041380 GGTAAAATGG
*
2041390 TAATTTTTG-AAAGTTTTGGGGTCAAAATA
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
* *
2041419 TAATTTTGGAAAAGTTTTGGGGTTAAAATG
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
2041449 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
*
2041479 TAATTTTGGAAAAGTTTTGGGGTTAAAATA
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
*
2041509 TAATTTTTGAAAAGTTTTGGGGTCAAAATA
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
*
2041539 TAATTTTGGAAAAGGTTTGGGGTCAAAATA
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
2041569 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
*
2041599 TAATTTTAGAAAAGTTTTGGGGTCAAAATA
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
2041629 TAATTTCTGGA
1 TAATTT-TGGA
2041640 TTGTTTGGGG
Statistics
Matches: 206, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
29 8 0.04
30 195 0.95
31 3 0.01
ACGTcount: A:0.36, C:0.03, G:0.23, T:0.38
Consensus pattern (30 bp):
TAATTTTGGAAAAGTTTTGGGGTCAAAATA
Found at i:2041417 original size:59 final size:58
Alignment explanation
Indices: 2041117--2041609 Score: 328
Period size: 60 Copynumber: 8.3 Consensus size: 58
2041107 TAATCGGGAT
* * *
2041117 TAAAAATGGAATTTTAAAAGATTCGGGGGTAAAATGGTAATTTTGGTGAAA---TCGGGG
1 TAAAAATAGAATTTTAGAAGATTCGGGGGTAAAATGGTAATTTT--TGAAAGTTTTGGGG
* * ** * *
2041174 TTAAAAACAGAATTTTAGAAGCTTCGGGGGTAAAATGGTAATTTTTGATAAAATTAGGGT
1 -TAAAAATAGAATTTTAGAAGATTCGGGGGTAAAATGGTAATTTTTGA-AAGTTTTGGGG
* ** *
2041234 TAAAAATAGAATTTTAAAAGATTCAAGGGTAAAATGGTAATTTTTGGTGAAA---TCGGGG
1 TAAAAATAGAATTTTAGAAGATTCGGGGGTAAAATGGTAA-TTTT--TGAAAGTTTTGGGG
* * *
2041292 TTAAAAATGGAATTTTAGAAGCTTCGGGGGTAAAATGGTAATTTTCGGTGAAA---TCGGGG
1 -TAAAAATAGAATTTTAGAAGATTCGGGGGTAAAATGGTAATTTT---TGAAAGTTTTGGGG
*
2041351 TTAAAAATGGAATTTTAGAAGATTCGGGGGGTAAAATGGTAATTTTTGAAAGTTTTGGGG
1 -TAAAAATAGAATTTTAGAAGATTC-GGGGGTAAAATGGTAATTTTTGAAAGTTTTGGGG
* * * * * * *
2041411 TCAAAATATAATTTTGGAAAAGTTTTGGGGTTAAAAT-GTAATTTTGGAAAAGTTTTGGGG
1 TAAAAATAGAATTTT--AGAAGATTCGGGGGTAAAATGGTAATTTTTG-AAAGTTTTGGGG
* * * * * * *
2041471 TCAAAATATAATTTTGGAAAAGTTTTGGGGTTAAAAT-ATAATTTTTGAAAAGTTTTGGGG
1 TAAAAATAGAATTTT--AGAAGATTCGGGGGTAAAATGGTAATTTTTG-AAAGTTTTGGGG
* * * * * * *
2041531 TCAAAATATAATTTTGGAAAAGGTT-TGGGGTCAAAAT-ATAATTTTGGAAAAGTTTTGGGG
1 TAAAAATAGAATTTT--AGAAGATTCGGGGGT-AAAATGGTAATTTTTG-AAAGTTTTGGGG
* *
2041591 TCAAAATATAATTTTAGAA
1 TAAAAATAGAATTTTAGAA
2041610 AAGTTTTGGG
Statistics
Matches: 383, Mismatches: 35, Indels: 34
0.85 0.08 0.08
Matches are distributed among these distances:
56 3 0.01
57 7 0.02
58 51 0.13
59 132 0.34
60 179 0.47
61 8 0.02
62 3 0.01
ACGTcount: A:0.37, C:0.03, G:0.25, T:0.34
Consensus pattern (58 bp):
TAAAAATAGAATTTTAGAAGATTCGGGGGTAAAATGGTAATTTTTGAAAGTTTTGGGG
Found at i:2042502 original size:29 final size:28
Alignment explanation
Indices: 2042464--2042778 Score: 136
Period size: 29 Copynumber: 10.8 Consensus size: 28
2042454 TATGGATATC
*
2042464 CGGGGGTAAAATGGTAATTTTGGTGTAAT
1 CGGGGTTAAAATGGTAATTTTGGTG-AAT
* * *** *
2042493 CGGGATTAAAAATAG-AATTTTAAAAGATT
1 CGGGGTT-AAAATGGTAATTTT-GGTGAAT
*
2042522 CGGGGGTAAAATGGTAATTTTGGTGAAAT
1 CGGGGTTAAAATGGTAATTTTGGTG-AAT
* ** **
2042551 CGGGGTTAAAAATAG-AATTTTAGAAGCTT
1 CGGGGTT-AAAATGGTAATTTT-GGTGAAT
* *
2042580 CGGGGGTAAAATGGTAATTTTTGATGAAAT
1 CGGGGTTAAAATGGTAA-TTTTGGTG-AAT
** * *** *
2042610 TAGGGTTAAAAATAG-AATTTTAAAAGATT
1 CGGGGTT-AAAATGGTAATTTT-GGTGAAT
*
2042639 CGGGGGTAAAATGGTAATTTTTGGTGAAAT
1 CGGGGTTAAAATGGTAA-TTTTGGTG-AAT
** **
2042669 CGGGGTTAAAAATGG-AATTTTAGAAGCTT
1 CGGGGTT-AAAATGGTAATTTT-GGTGAAT
*
2042698 CGGGGGTAAAATGGTAATTTTCGGTGAAAT
1 CGGGGTTAAAATGGTAATTTT-GGTG-AAT
** *
2042728 CGGGGTTAAAAATGG-AATTTTAGAAGATT
1 CGGGGTT-AAAATGGTAATTTT-GGTGAAT
*
2042757 CGGGGGGTAAAATGGTAATTTT
1 C-GGGGTTAAAATGGTAATTTT
2042779 TGAAAGTTTT
Statistics
Matches: 208, Mismatches: 57, Indels: 41
0.68 0.19 0.13
Matches are distributed among these distances:
28 26 0.12
29 92 0.44
30 70 0.34
31 20 0.10
ACGTcount: A:0.35, C:0.04, G:0.29, T:0.32
Consensus pattern (28 bp):
CGGGGTTAAAATGGTAATTTTGGTGAAT
Found at i:2042630 original size:59 final size:59
Alignment explanation
Indices: 2042464--2042780 Score: 503
Period size: 59 Copynumber: 5.4 Consensus size: 59
2042454 TATGGATATC
* * *
2042464 CGGGGGTAAAATGGTAA-TTTTGGTGTAATCGGGATTAAAAATAGAATTTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATAGAATTTTAGAAGATT
*
2042522 CGGGGGTAAAATGGTAA-TTTTGGTGAAATCGGGGTTAAAAATAGAATTTTAGAAGCTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATAGAATTTTAGAAGATT
* ** *
2042580 CGGGGGTAAAATGGTAATTTTTGATGAAATTAGGGTTAAAAATAGAATTTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATAGAATTTTAGAAGATT
* *
2042639 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATAGAATTTTAGAAGATT
* *
2042698 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGATT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATAGAATTTTAGAAGATT
2042757 CGGGGGGTAAAATGGTAATTTTTG
1 C-GGGGGTAAAATGGTAATTTTTG
2042781 AAAGTTTTGG
Statistics
Matches: 239, Mismatches: 18, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
58 71 0.30
59 147 0.62
60 21 0.09
ACGTcount: A:0.35, C:0.04, G:0.29, T:0.32
Consensus pattern (59 bp):
CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATAGAATTTTAGAAGATT
Found at i:2042799 original size:30 final size:30
Alignment explanation
Indices: 2042772--2042991 Score: 361
Period size: 30 Copynumber: 7.3 Consensus size: 30
2042762 GGTAAAATGG
* *
2042772 TAATTTTTG-AAAGTTTTGGAGTCAAAATA
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
* *
2042801 TAATTTTGGAAAAGTTTTGAGGTTAAAATA
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
*
2042831 TAATTTTTGAAAAGTTTTGGGGTCAAAATA
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
2042861 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
*
2042891 TAATTTTGGAAAAGGTTTGGGGTCAAAATA
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
2042921 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
*
2042951 TAATTTTAGAAAAGTTTTGGGGTCAAAATA
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
2042981 TAATTTCTGGA
1 TAATTT-TGGA
2042992 TTGTTTGGGG
Statistics
Matches: 177, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
29 8 0.05
30 166 0.94
31 3 0.02
ACGTcount: A:0.37, C:0.03, G:0.21, T:0.38
Consensus pattern (30 bp):
TAATTTTGGAAAAGTTTTGGGGTCAAAATA
Found at i:2042806 original size:59 final size:56
Alignment explanation
Indices: 2042464--2042986 Score: 299
Period size: 60 Copynumber: 8.8 Consensus size: 56
2042454 TATGGATATC
* * * * * *
2042464 CGGGGGTAAAATGGTAATTTTGGTGTAA-TCGGGATTAAAAATAGAATTTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTT--TGAAATTTGGG-GTCAAAATATAATTTTAGAAGATT
* * * *
2042522 CGGGGGTAAAATGGTAATTTTGGTGAAA-TCGGGGTTAAAAATAGAATTTTAGAAGCTT
1 CGGGGGTAAAATGGTAATTTT--TGAAATTTGGGG-TCAAAATATAATTTTAGAAGATT
* * * * *
2042580 CGGGGGTAAAATGGTAATTTTTGATGAAATTAGGGTTAAAAATAGAATTTTAAAAGATT
1 CGGGGGTAAAATGGTAA-TTTT--TGAAATTTGGGGTCAAAATATAATTTTAGAAGATT
* * *
2042639 CGGGGGTAAAATGGTAATTTTTGGTGAAA-TCGGGGTTAAAA-ATGGAATTTTAGAAGCTT
1 CGGGGGTAAAATGGTAA-TTTT--TGAAATTTGGGGTCAAAATAT--AATTTTAGAAGATT
* *
2042698 CGGGGGTAAAATGGTAATTTTCGGTGAAA-TCGGGGTTAAAA-ATGGAATTTTAGAAGATT
1 CGGGGGTAAAATGGTAATTTT---TGAAATTTGGGGTCAAAATAT--AATTTTAGAAGATT
* * *
2042757 CGGGGGGTAAAATGGTAATTTTTGAAAGTTTTGGAGTCAAAATATAATTTTGGAAAAGTTT
1 C-GGGGGTAAAATGGTAATTTTTGAAA--TTTGGGGTCAAAATATAATTTT--AGAAGATT
* * * * * *
2042818 TGAGGTTAAAAT-ATAATTTTTGAAAAGTTTTGGGGTCAAAATATAATTTTGGAAAAGTT
1 CGGGGGTAAAATGGTAATTTTTG-AAA--TTTGGGGTCAAAATATAATTTTAGAAGA-TT
** * * * *
2042877 TTGGGGTCAAAAT-ATAATTTTGGAAAAGGTTTGGGGTCAAAATATAATTTTGGAAAAGTT
1 CGGGGGT-AAAATGGTAATTTTTG-AAA--TTTGGGGTCAAAATATAATTTTAGAAGA-TT
** * *
2042937 TTGGGGTCAAAAT-ATAATTTTAGAAAAGTTTTGGGGTCAAAATATAATTT
1 CGGGGGT-AAAATGGTAATTTTTG-AAA--TTTGGGGTCAAAATATAATTT
2042987 CTGGATTGTT
Statistics
Matches: 411, Mismatches: 38, Indels: 30
0.86 0.08 0.06
Matches are distributed among these distances:
57 6 0.01
58 85 0.21
59 146 0.36
60 166 0.40
61 8 0.02
ACGTcount: A:0.36, C:0.04, G:0.26, T:0.34
Consensus pattern (56 bp):
CGGGGGTAAAATGGTAATTTTTGAAATTTGGGGTCAAAATATAATTTTAGAAGATT
Found at i:2044707 original size:14 final size:14
Alignment explanation
Indices: 2044688--2044721 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
2044678 GGCCGAAAAA
*
2044688 TGGGCCTTTGTAAT
1 TGGGCCATTGTAAT
2044702 TGGGCCATTGTAAT
1 TGGGCCATTGTAAT
2044716 TGGGCC
1 TGGGCC
2044722 GTGGGCCATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.15, C:0.18, G:0.32, T:0.35
Consensus pattern (14 bp):
TGGGCCATTGTAAT
Found at i:2044778 original size:6 final size:6
Alignment explanation
Indices: 2044750--2044857 Score: 80
Period size: 6 Copynumber: 18.0 Consensus size: 6
2044740 CATTTGGACT
* ** *
2044750 TTTAAA TGTTAAA TTTAATA TTTTAA TTTTTA TTTAAA TTTAAA TTCAAA
1 TTTAAA T-TTAAA TTTAA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
** * *
2044800 -TTAAA TTTAAATA TTTACT TTTAAA TTTAAA -ATAAA TCTAAA TTTAAA
1 TTTAAA TTT-AA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
2044848 --TAAA TTTAAA
1 TTTAAA TTTAAA
2044858 ATCAATTTAA
Statistics
Matches: 81, Mismatches: 13, Indels: 16
0.74 0.12 0.15
Matches are distributed among these distances:
4 4 0.05
5 8 0.10
6 51 0.63
7 14 0.17
8 4 0.05
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (6 bp):
TTTAAA
Found at i:2044815 original size:31 final size:31
Alignment explanation
Indices: 2044780--2044842 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
2044770 TTTTAATTTT
* *
2044780 TATTTAAATTTAAATTCAAATTAAATTTAAA
1 TATTTAAATTTAAATTCAAAATAAATCTAAA
** *
2044811 TATTTACTTTTAAATTTAAAATAAATCTAAA
1 TATTTAAATTTAAATTCAAAATAAATCTAAA
2044842 T
1 T
2044843 TTAAATAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (31 bp):
TATTTAAATTTAAATTCAAAATAAATCTAAA
Found at i:2044850 original size:16 final size:17
Alignment explanation
Indices: 2044821--2044857 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
2044811 TATTTACTTT
2044821 TAAATTTAAAATAAATC
1 TAAATTTAAAATAAATC
*
2044838 TAAATTT-AAATAAATT
1 TAAATTTAAAATAAATC
2044854 TAAA
1 TAAA
2044858 ATCAATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
TAAATTTAAAATAAATC
Found at i:2045969 original size:23 final size:25
Alignment explanation
Indices: 2045941--2045986 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
2045931 CCAATTAAAG
2045941 AATTAT-TGTTTAG-ATTTAATTCT
1 AATTATCTGTTTAGAATTTAATTCT
*
2045964 AATTATCTTTTTAGAATTTAATT
1 AATTATCTGTTTAGAATTTAATT
2045987 TGGATCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.57
Consensus pattern (25 bp):
AATTATCTGTTTAGAATTTAATTCT
Found at i:2055298 original size:29 final size:30
Alignment explanation
Indices: 2055240--2055298 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 30
2055230 AAAATCATAC
* *
2055240 ATGAACTTTGGTTTAATGTGCAATTATATAT
1 ATGAACTTTGATTT-ATGTGAAATTATATAT
*
2055271 ATGAACTTTGATTT-TGTGAAATTTTATA
1 ATGAACTTTGATTTATGTGAAATTATATA
2055299 CATGTATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 12 0.48
31 13 0.52
ACGTcount: A:0.32, C:0.05, G:0.15, T:0.47
Consensus pattern (30 bp):
ATGAACTTTGATTTATGTGAAATTATATAT
Found at i:2061722 original size:43 final size:43
Alignment explanation
Indices: 2061675--2061756 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
2061665 AGTTTCAAGT
* ** *
2061675 TTGATTCTTTTACTATTCGTATTTGTATTTTTTATTTCACAAC
1 TTGATTCTTTTACTACTCACATTTATATTTTTTATTTCACAAC
*
2061718 TTGATTCTTTTAGTACTCACATTTATATTTTTTATTTCA
1 TTGATTCTTTTACTACTCACATTTATATTTTTTATTTCA
2061757 TGATGCTTCG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.22, C:0.13, G:0.06, T:0.59
Consensus pattern (43 bp):
TTGATTCTTTTACTACTCACATTTATATTTTTTATTTCACAAC
Found at i:2061789 original size:21 final size:21
Alignment explanation
Indices: 2061763--2061806 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
2061753 TTCATGATGC
2061763 TTCGAGTTTTTTTATTCTTAA
1 TTCGAGTTTTTTTATTCTTAA
2061784 TTCGAGTTTTTTTATTCTTAA
1 TTCGAGTTTTTTTATTCTTAA
2061805 TT
1 TT
2061807 AATATTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.18, C:0.09, G:0.09, T:0.64
Consensus pattern (21 bp):
TTCGAGTTTTTTTATTCTTAA
Found at i:2061814 original size:20 final size:20
Alignment explanation
Indices: 2061769--2061816 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
2061759 ATGCTTCGAG
*
2061769 TTTTTTTATTCTTAATTCGAG
1 TTTTTTTATTCTTAATTC-AA
2061790 TTTTTTTATTCTTAATT-AA
1 TTTTTTTATTCTTAATTCAA
*
2061809 TATTTTTA
1 TTTTTTTA
2061817 ACGTATTAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 8 0.32
21 17 0.68
ACGTcount: A:0.23, C:0.06, G:0.04, T:0.67
Consensus pattern (20 bp):
TTTTTTTATTCTTAATTCAA
Found at i:2061929 original size:20 final size:22
Alignment explanation
Indices: 2061881--2061931 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
2061871 TTGAGATTCC
* *
2061881 ATTATTTTTAATTAACGTATTT
1 ATTATTTTTAATAAACATATTT
*
2061903 TTTATTTTT-ATAAACATA-TT
1 ATTATTTTTAATAAACATATTT
2061923 ATTATTTTT
1 ATTATTTTT
2061932 CTTTCAATTG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 10 0.40
21 7 0.28
22 8 0.32
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (22 bp):
ATTATTTTTAATAAACATATTT
Found at i:2062574 original size:195 final size:195
Alignment explanation
Indices: 2062242--2062628 Score: 693
Period size: 195 Copynumber: 2.0 Consensus size: 195
2062232 ATAGATATGC
2062242 TAAATGAGTAATGCATATATACAAAGAACAACCATAGGTAGATAATCAGCCGTATACAACCCGAC
1 TAAATGAGTAATGCATATATACAAAGAACAACCATAGGTAGATAATCAGCCGTATACAACCCGAC
* *
2062307 GATGAAGCAGAAGTACGACACATACTAGACTAGGCTGATTCTCTGATAACCATAGGTAGACAATC
66 GATGAAGCAGAAGTACGACACATACTAGACTAGGCTGATTCTCCGATAAACATAGGTAGACAATC
2062372 AGCCATATACAACCAGATCATATAGGCTAGGCCAATTCTCCGACGTTTATTTGTGCCTATAGCAT
131 AGCCATATACAACCAGATCATATAGGCTAGGCCAATTCTCCGACGTTTATTTGTGCCTATAGCAT
** *
2062437 TAAATGAGTAATGCATATATACAAAGAACAACCATAGGTAGATAATCAGCCGTATACAACTTGAT
1 TAAATGAGTAATGCATATATACAAAGAACAACCATAGGTAGATAATCAGCCGTATACAACCCGAC
* *
2062502 GATGAAGCAGAAGTACGACACGTACTAGACTATGCTGATTCTCCGATAAACATAGGTAGACAATC
66 GATGAAGCAGAAGTACGACACATACTAGACTAGGCTGATTCTCCGATAAACATAGGTAGACAATC
* *
2062567 AGCCATATACAACCTGATCATATAGGCTAGGCCGATTCTCCGACGTTTATTTGTGCCTATAG
131 AGCCATATACAACCAGATCATATAGGCTAGGCCAATTCTCCGACGTTTATTTGTGCCTATAG
2062629 AATTCACCAA
Statistics
Matches: 183, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
195 183 1.00
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (195 bp):
TAAATGAGTAATGCATATATACAAAGAACAACCATAGGTAGATAATCAGCCGTATACAACCCGAC
GATGAAGCAGAAGTACGACACATACTAGACTAGGCTGATTCTCCGATAAACATAGGTAGACAATC
AGCCATATACAACCAGATCATATAGGCTAGGCCAATTCTCCGACGTTTATTTGTGCCTATAGCAT
Found at i:2069070 original size:20 final size:20
Alignment explanation
Indices: 2069035--2069072 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2069025 TAATACATAA
* *
2069035 AATAAATAAGTTAATATATT
1 AATAAATAAATAAATATATT
2069055 AATAAATAAATAAATATA
1 AATAAATAAATAAATATA
2069073 AAAAGGTTAA
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:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (20 bp):
AATAAATAAATAAATATATT
Found at i:2073321 original size:58 final size:58
Alignment explanation
Indices: 2073227--2073386 Score: 207
Period size: 59 Copynumber: 2.8 Consensus size: 58
2073217 TATGGATACC
* ** * *
2073227 CGGGGGCAAAATGGTAA-TTTTGGTGTCATCGAGGTTAAAAATGGAATTTT-AAGATT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAACGGAATTTTAAAGATT
* *
2073283 CGGGGGGTAAAATGGTAATTTTTGGTGAAACCGGGGTTAAAAACGGAATTTTAAAAGCTT
1 C-GGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAACGGAATTTT-AAAGATT
* *
2073343 CGGGGGTAAAATAGTAATTTTCGGTGAAATCGGGGTTAAAAACG
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAACG
2073387 AGATTTAGGG
Statistics
Matches: 90, Mismatches: 10, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
56 1 0.01
57 15 0.17
58 28 0.31
59 40 0.44
60 6 0.07
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (58 bp):
CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAACGGAATTTTAAAGATT
Found at i:2073434 original size:30 final size:31
Alignment explanation
Indices: 2073400--2073653 Score: 278
Period size: 30 Copynumber: 8.5 Consensus size: 31
2073390 TTTAGGGAAG
* *
2073400 TTTGGGGGT-AAAATGATAGTTTTTG-AAAGT
1 TTTGGGGGTCAAAATG-TAATTTTGGAAAAGT
* *
2073430 TTT-GGGATCAAAATGTGATTTTGGAAAAGT
1 TTTGGGGGTCAAAATGTAATTTTGGAAAAGT
*
2073460 TTT-AGGGTCAAAATGTAATTTTGGAAAAG-
1 TTTGGGGGTCAAAATGTAATTTTGGAAAAGT
* * * *
2073489 TTTCGAGGTTAAAATGTAATTTTAGAAAAGT
1 TTTGGGGGTCAAAATGTAATTTTGGAAAAGT
* *
2073520 TTT-GAGGTTAAAATGTAATTTTGGAAAAGT
1 TTTGGGGGTCAAAATGTAATTTTGGAAAAGT
*
2073550 TTT-GGGGTTAAAATGTAATTTTGGAAAAGT
1 TTTGGGGGTCAAAATGTAATTTTGGAAAAGT
* *
2073580 TTT-AGGGTCAAAATATAATTTTGGAAAAGT
1 TTTGGGGGTCAAAATGTAATTTTGGAAAAGT
*
2073610 TAT-GGGGTCAAAATGTAATTTTGGAAAA-T
1 TTTGGGGGTCAAAATGTAATTTTGGAAAAGT
2073639 TTCT-GGGGTCAAAAT
1 TT-TGGGGGTCAAAAT
2073654 ATGATTTCTG
Statistics
Matches: 199, Mismatches: 20, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
29 15 0.08
30 181 0.91
31 3 0.02
ACGTcount: A:0.35, C:0.03, G:0.24, T:0.37
Consensus pattern (31 bp):
TTTGGGGGTCAAAATGTAATTTTGGAAAAGT
Found at i:2073563 original size:90 final size:89
Alignment explanation
Indices: 2073397--2073653 Score: 324
Period size: 90 Copynumber: 2.9 Consensus size: 89
2073387 AGATTTAGGG
* * * *
2073397 AAGTTTG-GGGGTAAAATGATAGTTTTTG-AAAGTTTTGGGATCAAAATGTGATTTTGGAAAAGT
1 AAGTTTGAGGGTTAAAATG-TAATTTTAGAAAAGTTTTGGG-TCAAAATGTAATTTTGGAAAAGT
*
2073460 TTTAGGGTCAAAATGTAATTTTGGAA
64 TTTGGGGTCAAAATGTAATTTTGGAA
*
2073486 AAGTTTCGA-GGTTAAAATGTAATTTTAGAAAAGTTTTGAGGTTAAAATGTAATTTTGGAAAAGT
1 AAGTTT-GAGGGTTAAAATGTAATTTTAGAAAAGTTTTG-GGTCAAAATGTAATTTTGGAAAAGT
*
2073550 TTTGGGGTTAAAATGTAATTTTGGAA
64 TTTGGGGTCAAAATGTAATTTTGGAA
* * * * *
2073576 AAGTTTTAGGGTCAAAATATAATTTTGGAAAAGTTATGGGGTCAAAATGTAATTTTGGAAAA-TT
1 AAGTTTGAGGGTTAAAATGTAATTTTAGAAAAGTT-TTGGGTCAAAATGTAATTTTGGAAAAGTT
2073640 TCTGGGGTCAAAAT
65 T-TGGGGTCAAAAT
2073654 ATGATTTCTG
Statistics
Matches: 147, Mismatches: 14, Indels: 13
0.84 0.08 0.07
Matches are distributed among these distances:
89 17 0.12
90 126 0.86
91 4 0.03
ACGTcount: A:0.36, C:0.03, G:0.25, T:0.37
Consensus pattern (89 bp):
AAGTTTGAGGGTTAAAATGTAATTTTAGAAAAGTTTTGGGTCAAAATGTAATTTTGGAAAAGTTT
TGGGGTCAAAATGTAATTTTGGAA
Found at i:2073654 original size:60 final size:60
Alignment explanation
Indices: 2073397--2073665 Score: 328
Period size: 60 Copynumber: 4.5 Consensus size: 60
2073387 AGATTTAGGG
* * * * *
2073397 AAGTTTGGGGGT-AAAATGATAGTTTTTG-AAAGTTTTGGGATCAAAATGTGATTTTGGAA
1 AAGTTTTGGGGTCAAAAT-ATAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTGGAA
* * * * * *
2073456 AAGTTTTAGGGTCAAAATGTAATTTTGGAAAAGTTTCGAGGTTAAAATGTAATTTTAGAA
1 AAGTTTTGGGGTCAAAATATAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTGGAA
* * * *
2073516 AAGTTTTGAGGTTAAAATGTAATTTTGGAAAAGTTTTGGGGTTAAAATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATATAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTGGAA
* *
2073576 AAGTTTTAGGGTCAAAATATAATTTTGGAAAAGTTATGGGGTCAAAATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATATAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTGGAA
*
2073636 AA-TTTCTGGGGTCAAAATATGATTTCTGGA
1 AAGTTT-TGGGGTCAAAATATAATTT-TGGA
2073666 CAATTTAAGA
Statistics
Matches: 181, Mismatches: 25, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
59 20 0.11
60 157 0.87
61 4 0.02
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.37
Consensus pattern (60 bp):
AAGTTTTGGGGTCAAAATATAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTGGAA
Found at i:2074717 original size:25 final size:26
Alignment explanation
Indices: 2074682--2074738 Score: 89
Period size: 25 Copynumber: 2.2 Consensus size: 26
2074672 TTTATTTATT
2074682 TATTATTAATTAATAATATCATTAAA
1 TATTATTAATTAATAATATCATTAAA
* *
2074708 -ATTATTAATTAATGATATTATTAAA
1 TATTATTAATTAATAATATCATTAAA
2074733 TATTAT
1 TATTAT
2074739 ATTAAACTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 23 0.82
26 5 0.18
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (26 bp):
TATTATTAATTAATAATATCATTAAA
Found at i:2075391 original size:17 final size:16
Alignment explanation
Indices: 2075371--2075439 Score: 77
Period size: 17 Copynumber: 4.1 Consensus size: 16
2075361 GACTTTCTTT
2075371 TTAAATTTATAA-TAACA
1 TTAAATTTA-AATTAA-A
2075388 TTAAATTTAAATTAAA
1 TTAAATTTAAATTAAA
2075404 TTCAAATTTAAATTTAAA
1 TT-AAATTTAAA-TTAAA
* *
2075422 TTGAATTTAAAATAAA
1 TTAAATTTAAATTAAA
2075438 TT
1 TT
2075440 TGATTTTCAA
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
16 11 0.23
17 29 0.62
18 7 0.15
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.43
Consensus pattern (16 bp):
TTAAATTTAAATTAAA
Found at i:2075397 original size:6 final size:6
Alignment explanation
Indices: 2075388--2075432 Score: 58
Period size: 6 Copynumber: 7.8 Consensus size: 6
2075378 TATAATAACA
* *
2075388 TTAAAT TTAAA- TTAAAT TCAAAT TTAAAT TTAAA- TTGAAT TTAAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAA
2075433 ATAAATTTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
5 9 0.27
6 24 0.73
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (6 bp):
TTAAAT
Found at i:2075403 original size:11 final size:11
Alignment explanation
Indices: 2075387--2075440 Score: 72
Period size: 11 Copynumber: 4.8 Consensus size: 11
2075377 TTATAATAAC
2075387 ATTAAATTTAA
1 ATTAAATTTAA
*
2075398 ATTAAATTCAA
1 ATTAAATTTAA
2075409 ATTTAAATTTAA
1 A-TTAAATTTAA
*
2075421 ATTGAATTTAA
1 ATTAAATTTAA
*
2075432 AATAAATTT
1 ATTAAATTT
2075441 GATTTTCAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
11 27 0.73
12 10 0.27
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (11 bp):
ATTAAATTTAA
Found at i:2075930 original size:31 final size:31
Alignment explanation
Indices: 2075892--2076069 Score: 106
Period size: 31 Copynumber: 5.3 Consensus size: 31
2075882 CCAACTCTAC
2075892 TTCAATTTCAAGAGGATGACGTTGCTCTTAT
1 TTCAATTTCAAGAGGATGACGTTGCTCTTAT
* * * *
2075923 TTCAATTTCAGAGATGAAGACGTGTTATCCACTCTAT
1 TTCAATTTCA-AGAGGATGAC--G-T-TGCTCT-TAT
* * * *
2075960 TTCAATTTCGAGGGGATGACGTCGCTCTTAC
1 TTCAATTTCAAGAGGATGACGTTGCTCTTAT
** * *
2075991 TTCAATTTCAGAGATCAAGACTTGTTGTCCAACTCTACT
1 TTCAATTTCA-AGAGGATGAC--GTTG--C-TCT-TA-T
*
2076030 TT-AATTTCAAGAGGATGACGTTGCTCTTAC
1 TTCAATTTCAAGAGGATGACGTTGCTCTTAT
2076060 TTCAATTTCA
1 TTCAATTTCA
2076070 GAGATCAAGA
Statistics
Matches: 107, Mismatches: 25, Indels: 30
0.66 0.15 0.19
Matches are distributed among these distances:
30 2 0.02
31 30 0.28
32 19 0.18
33 2 0.02
34 5 0.05
35 5 0.05
36 12 0.11
37 21 0.20
38 9 0.08
39 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (31 bp):
TTCAATTTCAAGAGGATGACGTTGCTCTTAT
Found at i:2075953 original size:137 final size:137
Alignment explanation
Indices: 2075776--2076378 Score: 870
Period size: 137 Copynumber: 4.5 Consensus size: 137
2075766 GGAAATGATC
* * * *
2075776 TTGCTCTTACTTCAATTTCAGAGATAAAGGCGTGTTATCCACTCTACTTAAATTTTAAGGGGATG
1 TTGCTCTTACTTCAATTTCAGAGATCAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATG
* * * *
2075841 ACATTGCTCTTACTTCAATTTCAGAGATAAAGACCTGATATCCAACTCTACTTCAATTTCAAGAG
66 ACGTTGCTCTTACTTCAATTTCAGAGATCAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
2075906 GATGACG
131 GATGACG
* * * *
2075913 TTGCTCTTATTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTATTTCAATTTCGAGGGGATG
1 TTGCTCTTACTTCAATTTCAGAGATCAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATG
* * *
2075978 ACGTCGCTCTTACTTCAATTTCAGAGATCAAGACTTGTTGTCCAACTCTACTTTAATTTCAAGAG
66 ACGTTGCTCTTACTTCAATTTCAGAGATCAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
2076043 GATGACG
131 GATGACG
* *
2076050 TTGCTCTTACTTCAATTTCAGAGATCAAGACTTGATATCCAACTCTA---C--TTT--A----AT
1 TTGCTCTTACTTCAATTTCAGAGATCAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGGGGAT
* *
2076104 GACGTTGCTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTCAATTTCTAGA
65 GACGTTGCTCTTACTTCAATTTCAGAGATCAAGACTTGTTATCCAACTCTACTTCAATTTCAAGA
2076169 GGATGACG
130 GGATGACG
*
2076177 TTGCTCTTACTTGAATTTCAGAGATCAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATG
1 TTGCTCTTACTTCAATTTCAGAGATCAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATG
* * *
2076242 ACGTTGCTCTTACTTCAATTTCAGAGATCAAGACGTGTTATCC-GCTCTTCTTCAATTTCAAGAG
66 ACGTTGCTCTTACTTCAATTTCAGAGATCAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
2076306 GATGACG
131 GATGACG
* * * *
2076313 TTGCTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCATTCTACTTCAATTTCAAGAGGATG
1 TTGCTCTTACTTCAATTTCAGAGATCAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATG
2076378 A
66 A
2076379 GAAATGATCT
Statistics
Matches: 418, Mismatches: 36, Indels: 25
0.87 0.08 0.05
Matches are distributed among these distances:
126 6 0.01
127 107 0.26
129 1 0.00
131 4 0.01
133 4 0.01
135 1 0.00
136 86 0.21
137 203 0.49
138 6 0.01
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (137 bp):
TTGCTCTTACTTCAATTTCAGAGATCAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATG
ACGTTGCTCTTACTTCAATTTCAGAGATCAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
GATGACG
Found at i:2075995 original size:68 final size:68
Alignment explanation
Indices: 2075776--2076378 Score: 823
Period size: 68 Copynumber: 9.0 Consensus size: 68
2075766 GGAAATGATC
* * * * *
2075776 TTGCTCTTACTTCAATTTCAGAGATAAAGGCGTGTTATCCACTCTACTTAAATTTTAAGGGGATG
1 TTGCTCTTACTTCAATTTCAGAGATCAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATG
*
2075841 ACA
66 ACG
* * *
2075844 TTGCTCTTACTTCAATTTCAGAGATAAAGACCTGATATCCAACTCTACTTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATCAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGAGGAT
2075909 GACG
65 GACG
* * * * *
2075913 TTGCTCTTATTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTATTTCAATTTCGAGGGGATG
1 TTGCTCTTACTTCAATTTCAGAGATCAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATG
2075978 ACG
66 ACG
* * * *
2075981 TCGCTCTTACTTCAATTTCAGAGATCAAGACTTGTTGTCCAACTCTACTTTAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATCAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGAGGAT
2076046 GACG
65 GACG
* *
2076050 TTGCTCTTACTTCAATTTCAGAGATCAAGACTTGATATCCAACTCTA---C--TTT----A--AT
1 TTGCTCTTACTTCAATTTCAGAGATCAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGAGGAT
2076104 GACG
65 GACG
* * *
2076108 TTGCTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTCAATTTCTAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATCAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGAGGAT
2076173 GACG
65 GACG
* *
2076177 TTGCTCTTACTTGAATTTCAGAGATCAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATG
1 TTGCTCTTACTTCAATTTCAGAGATCAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATG
2076242 ACG
66 ACG
* *
2076245 TTGCTCTTACTTCAATTTCAGAGATCAAGACGTGTTATCCGCTCTTCTTCAATTTCAAGAGGATG
1 TTGCTCTTACTTCAATTTCAGAGATCAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATG
2076310 ACG
66 ACG
* * *
2076313 TTGCTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCATTCTACTTCAATTTCAAGAGGATG
1 TTGCTCTTACTTCAATTTCAGAGATCAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATG
2076378 A
66 A
2076379 GAAATGATCT
Statistics
Matches: 479, Mismatches: 43, Indels: 26
0.87 0.08 0.05
Matches are distributed among these distances:
58 51 0.11
60 1 0.00
61 1 0.00
63 3 0.01
64 3 0.01
67 1 0.00
68 248 0.52
69 171 0.36
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (68 bp):
TTGCTCTTACTTCAATTTCAGAGATCAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATG
ACG
Found at i:2076036 original size:38 final size:38
Alignment explanation
Indices: 2075988--2076099 Score: 112
Period size: 38 Copynumber: 3.1 Consensus size: 38
2075978 ACGTCGCTCT
2075988 TACTTCAATTTCAGAGATCAAGACTTGTTGTCCAACTC
1 TACTTCAATTTCAGAGATCAAGACTTGTTGTCCAACTC
* ** * *
2076026 TACTTTAATTTCA-AGAGGATGAC--GTTG--C-TCT-
1 TACTTCAATTTCAGAGATCAAGACTTGTTGTCCAACTC
* *
2076057 TACTTCAATTTCAGAGATCAAGACTTGATATCCAACTC
1 TACTTCAATTTCAGAGATCAAGACTTGTTGTCCAACTC
2076095 TACTT
1 TACTT
2076100 TAATGACGTT
Statistics
Matches: 55, Mismatches: 12, Indels: 14
0.68 0.15 0.17
Matches are distributed among these distances:
31 12 0.22
32 9 0.16
33 1 0.02
34 2 0.04
35 4 0.07
36 1 0.02
37 9 0.16
38 17 0.31
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.36
Consensus pattern (38 bp):
TACTTCAATTTCAGAGATCAAGACTTGTTGTCCAACTC
Found at i:2076135 original size:195 final size:200
Alignment explanation
Indices: 2075778--2076378 Score: 811
Period size: 195 Copynumber: 3.0 Consensus size: 200
2075768 AAATGATCTT
* * * * *
2075778 GCTCTTACTTCAATTTCAGAGATAAAGGCGTGTTATCCACTCTACTTAAATTTTAAGGGGATGAC
1 GCTCTTACTTCAATTTCAGAGATCAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATGAC
* * *
2075843 ATTGCTCTTACTTCAATTTCAGAGATAAAGACCTGATATCC-AACTCTACTTCAATTTCAAGAGG
66 GTTGCTCTTACTTCAATTTCAGAGATCAAGACGTGATATCCGAACT-T-CTTCAATTT--A-A-G
* * * *
2075907 ATGACGTTGCTCTTATTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTATTTCAATTTCGAG
125 ATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCACTCTACTTCAATTTCAAG
*
2075972 GGGATGACGTC
190 AGGATGACGTC
* * *
2075983 GCTCTTACTTCAATTTCAGAGATCAAGACTTGTTGTCCAACTCTACTTTAATTTCAAGAGGATGA
1 GCTCTTACTTCAATTTCAGAGATCAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGAGGATGA
* *
2076048 CGTTGCTCTTACTTCAATTTCAGAGATCAAGACTTGATATCC-AAC-TC-T-ACTTT-A-ATGAC
65 CGTTGCTCTTACTTCAATTTCAGAGATCAAGACGTGATATCCGAACTTCTTCAATTTAAGATGAC
*
2076107 GTTGCTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTCAATTTCTAGAGGA
130 GTTGCTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCC-ACTCTACTTCAATTTCAAGAGGA
*
2076172 TGACGTT
194 TGACGTC
* *
2076179 GCTCTTACTTGAATTTCAGAGATCAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGAC
1 GCTCTTACTTCAATTTCAGAGATCAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATGAC
* **
2076244 GTTGCTCTTACTTCAATTTCAGAGATCAAGACGTGTTATCCGCTCTTCTTCAATTTCAAGAGGAT
66 GTTGCTCTTACTTCAATTTCAGAGATCAAGACGTGATATCCGAACTTCTTCAATTT--A-A-GAT
*
2076309 GACGTTGCTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCATTCTACTTCAATTTCAAGAG
127 GACGTTGCTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCACTCTACTTCAATTTCAAGAG
2076374 GATGA
192 GATGA
2076379 GAAATGATCT
Statistics
Matches: 355, Mismatches: 29, Indels: 25
0.87 0.07 0.06
Matches are distributed among these distances:
195 108 0.30
196 62 0.17
197 3 0.01
198 1 0.00
199 4 0.01
201 4 0.01
202 1 0.00
203 2 0.01
204 25 0.07
205 80 0.23
206 65 0.18
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (200 bp):
GCTCTTACTTCAATTTCAGAGATCAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATGAC
GTTGCTCTTACTTCAATTTCAGAGATCAAGACGTGATATCCGAACTTCTTCAATTTAAGATGACG
TTGCTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCACTCTACTTCAATTTCAAGAGGATG
ACGTC
Found at i:2076194 original size:31 final size:29
Alignment explanation
Indices: 2076153--2076339 Score: 124
Period size: 31 Copynumber: 5.7 Consensus size: 29
2076143 TATCCAACTC
2076153 TACTTCAATTTCTAGAGGATGACGTTGCTCT
1 TACTTCAATTTC-AGA-GATGACGTTGCTCT
* * *
2076184 TACTTGAATTTCAGAGATCAAGACGTGTTATCCACT
1 TACTTCAATTTCAGAGAT---GAC--G-T-TGCTCT
*
2076220 CTACTTCAATTTCAAGGGGATGACGTTGCTCT
1 -TACTTCAATTTC-A-GAGATGACGTTGCTCT
2076252 TACTTCAATTTCAGAGATCAAGACGTGTTATCCGCTCT
1 TACTTCAATTTCAGAGAT---GAC--G-T-T--GCTCT
2076290 T-CTTCAATTTCAAGAGGATGACGTTGCTCT
1 TACTTCAATTTC-AGA-GATGACGTTGCTCT
2076320 TACTTCAATTTCAGAGATGA
1 TACTTCAATTTCAGAGATGA
2076340 AGACTTGTTA
Statistics
Matches: 126, Mismatches: 8, Indels: 46
0.70 0.04 0.26
Matches are distributed among these distances:
29 12 0.10
30 13 0.10
31 33 0.26
32 11 0.09
33 2 0.02
34 4 0.03
35 2 0.02
36 11 0.09
37 21 0.17
38 10 0.08
39 7 0.06
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.35
Consensus pattern (29 bp):
TACTTCAATTTCAGAGATGACGTTGCTCT
Found at i:2076201 original size:127 final size:128
Alignment explanation
Indices: 2075974--2076361 Score: 548
Period size: 127 Copynumber: 3.0 Consensus size: 128
2075964 ATTTCGAGGG
* * *
2075974 GATGACGTCGCTCTTACTTCAATTTCAGAGATCAAGACTTGTTGTCCAACTCTACTTTAATTTCA
1 GATGACGTTGCTCTTACTTCAATTTCAGAGATCAAGACTTGTTATCCAACTCTACTTCAATTTCA
*
2076039 AGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATCAAGACTTGATATCCAACTCTACTTT-A
66 AGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATCAAGACTTGTTATCC-ACTCTACTTTAA
* *
2076102 -ATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTCAATTTCT
1 GATGACGTTGCTCTTACTTCAATTTCAGAGATCAAGACTTGTTATCCAACTCTACTTCAATTTCA
* *
2076166 AGAGGATGACGTTGCTCTTACTTGAATTTCAGAGATCAAGACGTGTTATCCACTCTACTTCAATT
66 AGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATCAAGACTTGTTATCCACTCTA---C--TT
2076231 TCAA
126 T-AA
* * *
2076235 GGGGATGACGTTGCTCTTACTTCAATTTCAGAGATCAAGACGTGTTATCC-GCTCTTCTTCAATT
1 ---GATGACGTTGCTCTTACTTCAATTTCAGAGATCAAGACTTGTTATCCAACTCTACTTCAATT
* *
2076299 TCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCATTCTACTT
63 TCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATCAAGACTTGTTATCCACTCTACTT
2076362 CAATTTCAAG
Statistics
Matches: 232, Mismatches: 17, Indels: 19
0.87 0.06 0.07
Matches are distributed among these distances:
126 6 0.03
127 107 0.46
129 1 0.00
131 5 0.02
133 2 0.01
136 67 0.29
137 44 0.19
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (128 bp):
GATGACGTTGCTCTTACTTCAATTTCAGAGATCAAGACTTGTTATCCAACTCTACTTCAATTTCA
AGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATCAAGACTTGTTATCCACTCTACTTTAA
Found at i:2076301 original size:37 final size:37
Alignment explanation
Indices: 2076110--2076378 Score: 188
Period size: 37 Copynumber: 7.7 Consensus size: 37
2076100 TAATGACGTT
2076110 GCTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCC
1 GCTCTTACTTCAATTTCAGAGATGAAGAC-TGTTATCC
* *
2076148 AACTC-TACTTCAATTTCTAGAG--GATGAC-G-T-T--
1 -GCTCTTACTTCAATTTC-AGAGATGAAGACTGTTATCC
* *
2076179 GCTCTTACTTGAATTTCAGAGATCAAGACGTGTTATCC
1 GCTCTTACTTCAATTTCAGAGATGAAGAC-TGTTATCC
* ** *
2076217 ACTC-TACTTCAATTTCA-AGGGGATGAC-G-T-T--
1 GCTCTTACTTCAATTTCAGAGATGAAGACTGTTATCC
*
2076247 GCTCTTACTTCAATTTCAGAGATCAAGACGTGTTATCC
1 GCTCTTACTTCAATTTCAGAGATGAAGAC-TGTTATCC
* *
2076285 GCTCTT-CTTCAATTTCA-AGAGGATGAC-G-T-T--
1 GCTCTTACTTCAATTTCAGAGATGAAGACTGTTATCC
2076315 GCTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCC
1 GCTCTTACTTCAATTTCAGAGATGAAGAC-TGTTATCC
**
2076353 ATTC-TACTTCAATTTCAAGAGGATGA
1 GCTCTTACTTCAATTTC-AGA-GATGA
2076379 GAAATGATCT
Statistics
Matches: 178, Mismatches: 24, Indels: 56
0.69 0.09 0.22
Matches are distributed among these distances:
30 16 0.09
31 35 0.20
32 20 0.11
33 3 0.02
34 6 0.03
35 4 0.02
36 16 0.09
37 40 0.22
38 26 0.15
39 12 0.07
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.35
Consensus pattern (37 bp):
GCTCTTACTTCAATTTCAGAGATGAAGACTGTTATCC
Found at i:2088648 original size:59 final size:59
Alignment explanation
Indices: 2088494--2088627 Score: 182
Period size: 59 Copynumber: 2.3 Consensus size: 59
2088484 GTATCATCGA
* * * * *
2088494 GGTTAAAAATGGAATTTT--AAGATTCGGGGGGTAAAATGGTAATTTTTGGTGAAACCGG
1 GGTTAAAAACGAAATTTTAAAAGCTTC-GGGGGTAAAATAGTAATTTTCGGTGAAACCGG
*
2088552 GGTTAAAAACGAAATTTTAAAAGCTTCGGGGGTAAAATAGTAATTTTCGGTGAAATCGG
1 GGTTAAAAACGAAATTTTAAAAGCTTCGGGGGTAAAATAGTAATTTTCGGTGAAACCGG
*
2088611 GGTTAAAAACGAGATTT
1 GGTTAAAAACGAAATTT
2088628 AGGGAAGTTT
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
58 16 0.24
59 45 0.67
60 6 0.09
ACGTcount: A:0.36, C:0.07, G:0.28, T:0.30
Consensus pattern (59 bp):
GGTTAAAAACGAAATTTTAAAAGCTTCGGGGGTAAAATAGTAATTTTCGGTGAAACCGG
Found at i:2088678 original size:30 final size:29
Alignment explanation
Indices: 2088660--2088887 Score: 287
Period size: 30 Copynumber: 7.6 Consensus size: 29
2088650 ATAGTTTTTG
*
2088660 AAAGTTTTGGGATCAAAATGTGATTTTGGA
1 AAAGTTTTGGG-TCAAAATGTAATTTTGGA
2088690 AAAGTTTTAGGGTCAAAATGTAATTTTGGA
1 AAAGTTTT-GGGTCAAAATGTAATTTTGGA
* * * *
2088720 AAAGTTTCGAGGTTAAAATTTAA-TTTAGA
1 AAAGTTTTG-GGTCAAAATGTAATTTTGGA
*
2088749 AAAGTTTTGAGGTTAAAATGTAATTTTGGA
1 AAAGTTTTG-GGTCAAAATGTAATTTTGGA
*
2088779 AAAGTTTTGGGGTTAAAATGTAATTTTGGA
1 AAAGTTTT-GGGTCAAAATGTAATTTTGGA
*
2088809 AAAGTTTTAGGGTCAAAATATAATTTTGGA
1 AAAGTTTT-GGGTCAAAATGTAATTTTGGA
*
2088839 AAAGTTATGGGGTCAAAATGTAATTTTGGA
1 AAAGTT-TTGGGTCAAAATGTAATTTTGGA
*
2088869 AAAGTTCTGGGGTCAAAAT
1 AAAGTT-TTGGGTCAAAAT
2088888 ATGATTTCTG
Statistics
Matches: 179, Mismatches: 14, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
29 27 0.15
30 147 0.82
31 5 0.03
ACGTcount: A:0.37, C:0.03, G:0.24, T:0.36
Consensus pattern (29 bp):
AAAGTTTTGGGTCAAAATGTAATTTTGGA
Found at i:2088783 original size:89 final size:89
Alignment explanation
Indices: 2088632--2088887 Score: 322
Period size: 89 Copynumber: 2.9 Consensus size: 89
2088622 AGATTTAGGG
* * * *
2088632 AAGTTTGGGGGT-AAAATGATAGTTTTTG-AAAGTTTTGGGATCAAAATGTGATTTTGGAAAAGT
1 AAGTTTGAGGGTCAAAAT-ATAATTTTAGAAAAGTTTTGGG-TCAAAATGTAATTTTGGAAAAGT
*
2088695 TTTAGGGTCAAAATGTAATTTTGGAA
64 TTTGGGGTCAAAATGTAATTTTGGAA
* * *
2088721 AAGTTTCGA-GGTTAAAATTTAA-TTTAGAAAAGTTTTGAGGTTAAAATGTAATTTTGGAAAAGT
1 AAGTTT-GAGGGTCAAAATATAATTTTAGAAAAGTTTTG-GGTCAAAATGTAATTTTGGAAAAGT
*
2088784 TTTGGGGTTAAAATGTAATTTTGGAA
64 TTTGGGGTCAAAATGTAATTTTGGAA
* * *
2088810 AAGTTTTAGGGTCAAAATATAATTTTGGAAAAGTTATGGGGTCAAAATGTAATTTTGGAAAAGTT
1 AAGTTTGAGGGTCAAAATATAATTTTAGAAAAGTT-TTGGGTCAAAATGTAATTTTGGAAAAGTT
*
2088875 CTGGGGTCAAAAT
65 TTGGGGTCAAAAT
2088888 ATGATTTCTG
Statistics
Matches: 144, Mismatches: 16, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
88 5 0.03
89 82 0.57
90 55 0.38
91 2 0.01
ACGTcount: A:0.36, C:0.03, G:0.25, T:0.37
Consensus pattern (89 bp):
AAGTTTGAGGGTCAAAATATAATTTTAGAAAAGTTTTGGGTCAAAATGTAATTTTGGAAAAGTTT
TGGGGTCAAAATGTAATTTTGGAA
Found at i:2088857 original size:119 final size:120
Alignment explanation
Indices: 2088643--2088874 Score: 335
Period size: 119 Copynumber: 1.9 Consensus size: 120
2088633 AGTTTGGGGG
* * *
2088643 TAAAATGATAGTTTTTGAAAGTTTTGGGATCAAAATGTGATTTTGGAAAAGTTTTAGGGTCAAAA
1 TAAAATGATAATTTTGGAAAGTTTTGGGATCAAAATGTAATTTTGGAAAAGTTTTAGGGTCAAAA
* * *
2088708 TGTAATTTTGGAAAAGTTTCGAGGTTAAAATTTAA-TTTAGAAAAGTTTTGAGGT
66 TATAATTTTGGAAAAGTTTCGAGGTCAAAATGTAATTTTAGAAAAGTTTTGAGGT
* *
2088762 TAAAATG-TAATTTTGGAAAAGTTTTGGGGTTAAAATGTAATTTTGGAAAAGTTTTAGGGTCAAA
1 TAAAATGATAATTTTGG-AAAGTTTTGGGATCAAAATGTAATTTTGGAAAAGTTTTAGGGTCAAA
* *
2088826 ATATAATTTTGGAAAAGTTAT-GGGGTCAAAATGTAATTTTGGAAAAGTT
65 ATATAATTTTGGAAAAGTT-TCGAGGTCAAAATGTAATTTTAGAAAAGTT
2088875 CTGGGGTCAA
Statistics
Matches: 100, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
118 7 0.07
119 81 0.81
120 12 0.12
ACGTcount: A:0.37, C:0.02, G:0.23, T:0.38
Consensus pattern (120 bp):
TAAAATGATAATTTTGGAAAGTTTTGGGATCAAAATGTAATTTTGGAAAAGTTTTAGGGTCAAAA
TATAATTTTGGAAAAGTTTCGAGGTCAAAATGTAATTTTAGAAAAGTTTTGAGGT
Found at i:2088888 original size:60 final size:60
Alignment explanation
Indices: 2088632--2088899 Score: 317
Period size: 60 Copynumber: 4.5 Consensus size: 60
2088622 AGATTTAGGG
* * * * *
2088632 AAGTTTGGGGGT-AAAATGATAGTTTTTG-AAAGTTTTGGGATCAAAATGTGATTTTGGAA
1 AAGTTTTGGGGTCAAAAT-ATAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTGGAA
* * * * * * *
2088691 AAGTTTTAGGGTCAAAATGTAATTTTGGAAAAGTTTCGAGGTTAAAATTTAA-TTTAGAA
1 AAGTTTTGGGGTCAAAATATAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTGGAA
* * * *
2088750 AAGTTTTGAGGTTAAAATGTAATTTTGGAAAAGTTTTGGGGTTAAAATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATATAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTGGAA
* *
2088810 AAGTTTTAGGGTCAAAATATAATTTTGGAAAAGTTATGGGGTCAAAATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATATAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTGGAA
* *
2088870 AAGTTCTGGGGTCAAAATATGATTTCTGGA
1 AAGTTTTGGGGTCAAAATATAATTT-TGGA
2088900 CAATTTAAGA
Statistics
Matches: 177, Mismatches: 28, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
59 69 0.39
60 104 0.59
61 4 0.02
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.37
Consensus pattern (60 bp):
AAGTTTTGGGGTCAAAATATAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTGGAA
Done.