Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 70 of 199
Found at i:20817290 original size:15 final size:14
Alignment explanation
Indices: 20817176--20817287 Score: 86
Period size: 15 Copynumber: 7.8 Consensus size: 14
20817166 AATAAACTCC
20817176 AAAAAGAAGAAAAAG
1 AAAAAG-AGAAAAAG
***
20817191 AAAAA-AGAACTTG
1 AAAAAGAGAAAAAG
*
20817204 AAAAAGAGATTGAAA-
1 AAAAAGAGA--AAAAG
* * *
20817219 AATAAGAAAACAAAA
1 AAAAAGAGAA-AAAG
20817234 AAAAAG-GAAAAAG
1 AAAAAGAGAAAAAG
20817247 AAAAAGAGGAAAAAG
1 AAAAAGA-GAAAAAG
20817262 AAAAAGAGAAAGAAG
1 AAAAAGAGAAA-AAG
20817277 AAAAAGAGAAA
1 AAAAAGAGAAA
20817288 GAAATTGAAA
Statistics
Matches: 76, Mismatches: 13, Indels: 16
0.72 0.12 0.15
Matches are distributed among these distances:
13 19 0.25
14 12 0.16
15 45 0.59
ACGTcount: A:0.74, C:0.02, G:0.20, T:0.04
Consensus pattern (14 bp):
AAAAAGAGAAAAAG
Found at i:20821386 original size:16 final size:15
Alignment explanation
Indices: 20821349--20821398 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 15
20821339 GGCTCATTTA
*
20821349 AAGCTAGGTGCATGC
1 AAGCTAGGTTCATGC
*
20821364 ATGGCTAGGTTCATTGC
1 A-AGCTAGGTTCA-TGC
*
20821381 AAGCTAGATTCATGC
1 AAGCTAGGTTCATGC
20821396 AAG
1 AAG
20821399 GTTACCTACA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 7 0.24
16 18 0.62
17 4 0.14
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (15 bp):
AAGCTAGGTTCATGC
Found at i:20822560 original size:17 final size:17
Alignment explanation
Indices: 20822538--20822596 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
20822528 TATTTGAAGT
20822538 AAAAAAATTCGAGATTA
1 AAAAAAATTCGAGATTA
* *
20822555 AAAAAAATACGA-AGTA
1 AAAAAAATTCGAGATTA
* *
20822571 TAAAAAATTTCGTGTATTA
1 -AAAAAAATTCGAG-ATTA
20822590 AAAAAAA
1 AAAAAAA
20822597 GTGAAGTCTT
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
16 3 0.09
17 20 0.62
18 6 0.19
19 3 0.09
ACGTcount: A:0.61, C:0.05, G:0.10, T:0.24
Consensus pattern (17 bp):
AAAAAAATTCGAGATTA
Found at i:20822603 original size:34 final size:30
Alignment explanation
Indices: 20822532--20822603 Score: 81
Period size: 35 Copynumber: 2.2 Consensus size: 30
20822522 TTCTTATATT
20822532 TGAAGTAAAAAAATTCGAGATTAAAAAAAA
1 TGAAGTAAAAAAATTCGAGATTAAAAAAAA
*
20822562 TACGAAGTATAAAAAATTTCGTGTATTAAAAAAAA
1 T--GAAGTA-AAAAAA-TTCGAG-ATTAAAAAAAA
20822597 GTGAAGT
1 -TGAAGT
20822604 CTTGGAAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
30 1 0.03
32 6 0.17
33 6 0.17
34 10 0.29
35 11 0.31
36 1 0.03
ACGTcount: A:0.56, C:0.04, G:0.15, T:0.25
Consensus pattern (30 bp):
TGAAGTAAAAAAATTCGAGATTAAAAAAAA
Found at i:20824729 original size:17 final size:16
Alignment explanation
Indices: 20824707--20824745 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
20824697 ATTGAGAGAA
* *
20824707 AGAAAATTGAGCGTTG
1 AGAAAAATGAGAGTTG
*
20824723 AGAAAAATGAGAGTTT
1 AGAAAAATGAGAGTTG
20824739 AGAAAAA
1 AGAAAAA
20824746 GAAAAAGAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.51, C:0.03, G:0.26, T:0.21
Consensus pattern (16 bp):
AGAAAAATGAGAGTTG
Found at i:20827548 original size:30 final size:30
Alignment explanation
Indices: 20827512--20827645 Score: 130
Period size: 30 Copynumber: 4.5 Consensus size: 30
20827502 TTACCACCCA
*
20827512 TTTTCATAATTCGATAGCCCAAGCTATCCC
1 TTTTCATAATTTGATAGCCCAAGCTATCCC
* * * * *
20827542 TTTTCATATTTTGATGGTCGTC-A-CCATCTC
1 TTTTCATAATTTGATAG-C-CCAAGCTATCCC
**
20827572 -TTTCATAATTTGATAGCTGAAGCTATCCC
1 TTTTCATAATTTGATAGCCCAAGCTATCCC
* *
20827601 TTTTCATAATTTGATAGCCGAAGCAATCCC
1 TTTTCATAATTTGATAGCCCAAGCTATCCC
*
20827631 TTCTCATAATTTGAT
1 TTTTCATAATTTGAT
20827646 GGTCATCGCC
Statistics
Matches: 85, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
27 1 0.01
28 2 0.02
29 19 0.22
30 60 0.71
31 2 0.02
32 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.40
Consensus pattern (30 bp):
TTTTCATAATTTGATAGCCCAAGCTATCCC
Found at i:20827667 original size:60 final size:59
Alignment explanation
Indices: 20827601--20827786 Score: 210
Period size: 60 Copynumber: 3.1 Consensus size: 59
20827591 AAGCTATCCC
* * * * **
20827601 TTTTCATAATTTGATAGCCGAAGCAATCCCTTCTCATAATTTGATGGTCATCGCCATCTT
1 TTTTCATAATTTGATAGCCGAAGC-ATCCCTTTTCATAATTCGATGGTCGTCACCATCAA
* * * * * **
20827661 TTTTCATAATTTAATAGCCGAGGCATCCTTTTTCATAACTCGATGGTTGTCACCATCCC
1 TTTTCATAATTTGATAGCCGAAGCATCCCTTTTCATAATTCGATGGTCGTCACCATCAA
* * *
20827720 TTTTAATAATTTGATATCCAAAGCCATCCCTTTTCATAATTCGATGGTCGTCACCATCAA
1 TTTTCATAATTTGATAGCCGAAG-CATCCCTTTTCATAATTCGATGGTCGTCACCATCAA
20827780 TTTTCAT
1 TTTTCAT
20827787 TAGTCGATGG
Statistics
Matches: 103, Mismatches: 22, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
59 44 0.43
60 59 0.57
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.39
Consensus pattern (59 bp):
TTTTCATAATTTGATAGCCGAAGCATCCCTTTTCATAATTCGATGGTCGTCACCATCAA
Found at i:20827694 original size:89 final size:89
Alignment explanation
Indices: 20827512--20827704 Score: 253
Period size: 89 Copynumber: 2.2 Consensus size: 89
20827502 TTACCACCCA
* * * *
20827512 TTTTCATAATTCGATAGCCCAAGCTATCCCTTTTCATATTTTGATGGTCGTCACCATCTCTTTCA
1 TTTTCATAATTCGATAGCCCAAGCAATCCCTTCTCATAATTTGATGGTCATCACCATCTCTTTCA
* *
20827577 TAATTTGATAGCTGAAGCTATCCC
66 TAATTTAATAGCCGAAGCTATCCC
* * * *
20827601 TTTTCATAATTTGATAGCCGAAGCAATCCCTTCTCATAATTTGATGGTCATCGCCATCTTTTTTC
1 TTTTCATAATTCGATAGCCCAAGCAATCCCTTCTCATAATTTGATGGTCATCACCATC-TCTTTC
* *
20827666 ATAATTTAATAGCCGAGGC-ATCCT
65 ATAATTTAATAGCCGAAGCTATCCC
*
20827690 TTTTCATAACTCGAT
1 TTTTCATAATTCGAT
20827705 GGTTGTCACC
Statistics
Matches: 89, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
89 68 0.76
90 21 0.24
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.39
Consensus pattern (89 bp):
TTTTCATAATTCGATAGCCCAAGCAATCCCTTCTCATAATTTGATGGTCATCACCATCTCTTTCA
TAATTTAATAGCCGAAGCTATCCC
Found at i:20827777 original size:30 final size:31
Alignment explanation
Indices: 20827537--20827786 Score: 153
Period size: 30 Copynumber: 8.4 Consensus size: 31
20827527 AGCCCAAGCT
*
20827537 ATCCCTTTTCATATTTTGATGGTCGTCA-CC
1 ATCCCTTTTCATAATTTGATGGTCGTCAGCC
* * * *
20827567 ATCTC-TTTCATAATTTGATAG-C-TGAAGCT
1 ATCCCTTTTCATAATTTGATGGTCGT-CAGCC
* * * *
20827596 ATCCCTTTTCATAATTTGATAGCCG-AAGCA
1 ATCCCTTTTCATAATTTGATGGTCGTCAGCC
* *
20827626 ATCCCTTCTCATAATTTGATGGTCATC-GCC
1 ATCCCTTTTCATAATTTGATGGTCGTCAGCC
** * * * *
20827656 ATCTTTTTTCATAATTTAATAGCCG--AGGC
1 ATCCCTTTTCATAATTTGATGGTCGTCAGCC
* * * *
20827685 ATCCTTTTTCATAACTCGATGGTTGTCA-CC
1 ATCCCTTTTCATAATTTGATGGTCGTCAGCC
* * ***
20827715 ATCCCTTTTAATAATTTGAT-ATCCAAAGCC
1 ATCCCTTTTCATAATTTGATGGTCGTCAGCC
*
20827745 ATCCCTTTTCATAATTCGATGGTCGTCA-CC
1 ATCCCTTTTCATAATTTGATGGTCGTCAGCC
**
20827775 ATCAATTTTCAT
1 ATCCCTTTTCAT
20827787 TAGTCGATGG
Statistics
Matches: 163, Mismatches: 46, Indels: 22
0.71 0.20 0.10
Matches are distributed among these distances:
27 1 0.01
28 2 0.01
29 41 0.25
30 114 0.70
31 5 0.03
ACGTcount: A:0.25, C:0.24, G:0.12, T:0.39
Consensus pattern (31 bp):
ATCCCTTTTCATAATTTGATGGTCGTCAGCC
Found at i:20828262 original size:21 final size:21
Alignment explanation
Indices: 20828232--20828271 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
20828222 AAAATCACTT
**
20828232 AACAAAAGTTGTTTTTCTAAC
1 AACAAAAGTTCATTTTCTAAC
*
20828253 AACAAGAGTTCATTTTCTA
1 AACAAAAGTTCATTTTCTA
20828272 CTATCAAACT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.38
Consensus pattern (21 bp):
AACAAAAGTTCATTTTCTAAC
Found at i:20830128 original size:29 final size:29
Alignment explanation
Indices: 20830028--20830300 Score: 271
Period size: 29 Copynumber: 9.4 Consensus size: 29
20830018 GCATCGATTA
*
20830028 ATGAAAAGGGATGGT-A-AACCATCAAAT
1 ATGAAAAGGGATGGTGATGACCATCAAAT
* * *
20830055 ATGAAAAGGGACGGTGATGACCATCGATT
1 ATGAAAAGGGATGGTGATGACCATCAAAT
* * ** *
20830084 AATGAAAAAGAATGGTTTTGACCTTCAAAT
1 -ATGAAAAGGGATGGTGATGACCATCAAAT
* * * * *
20830114 ATGCAAAGCGATGGTGACGACCCTCGAAT
1 ATGAAAAGGGATGGTGATGACCATCAAAT
20830143 ATGAAAAGGGATGGTGATGACCATCAAAT
1 ATGAAAAGGGATGGTGATGACCATCAAAT
* ** ** * *
20830172 ATGAAAAGGGATAGTTTTGAGTATCGACT
1 ATGAAAAGGGATGGTGATGACCATCAAAT
*
20830201 ATGAAATGGGATGGTGATGACCATCAAAT
1 ATGAAAAGGGATGGTGATGACCATCAAAT
* *
20830230 AAGAAAAGGGATGGTGATGACCATCAATT
1 ATGAAAAGGGATGGTGATGACCATCAAAT
** *
20830259 AATGAAAAGGGATGGTTTTGACCATCGAAT
1 -ATGAAAAGGGATGGTGATGACCATCAAAT
20830289 ATGAAAAGGGAT
1 ATGAAAAGGGAT
20830301 CGTTTCAACC
Statistics
Matches: 193, Mismatches: 49, Indels: 6
0.78 0.20 0.02
Matches are distributed among these distances:
27 14 0.07
28 1 0.01
29 133 0.69
30 45 0.23
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.23
Consensus pattern (29 bp):
ATGAAAAGGGATGGTGATGACCATCAAAT
Found at i:20830164 original size:58 final size:59
Alignment explanation
Indices: 20830019--20830300 Score: 304
Period size: 58 Copynumber: 4.8 Consensus size: 59
20830009 TATCAACGAG
* * *
20830019 CATCGATTAATGAAAAGGGATGGT-A-AACCATCAAATATGAAAAGGGACGGTGATGAC
1 CATCGAATAATGAAAAGGGATGGTGATGACCATCAAATATGAAAAGGGATGGTGATGAC
* * * ** * * * *
20830076 CATCGATTAATGAAAAAGAATGGTTTTGACCTTCAAATATGCAAAGCGATGGTGACGAC
1 CATCGAATAATGAAAAGGGATGGTGATGACCATCAAATATGAAAAGGGATGGTGATGAC
* * ** *
20830135 CCTCGAAT-ATGAAAAGGGATGGTGATGACCATCAAATATGAAAAGGGATAGTTTTGAG
1 CATCGAATAATGAAAAGGGATGGTGATGACCATCAAATATGAAAAGGGATGGTGATGAC
* * * *
20830193 TATCGACT-ATGAAATGGGATGGTGATGACCATCAAATAAGAAAAGGGATGGTGATGAC
1 CATCGAATAATGAAAAGGGATGGTGATGACCATCAAATATGAAAAGGGATGGTGATGAC
** *
20830251 CATC-AATTAATGAAAAGGGATGGTTTTGACCATCGAATATGAAAAGGGAT
1 CATCGAA-TAATGAAAAGGGATGGTGATGACCATCAAATATGAAAAGGGAT
20830301 CGTTTCAACC
Statistics
Matches: 182, Mismatches: 39, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
57 23 0.13
58 91 0.50
59 68 0.37
ACGTcount: A:0.39, C:0.12, G:0.26, T:0.23
Consensus pattern (59 bp):
CATCGAATAATGAAAAGGGATGGTGATGACCATCAAATATGAAAAGGGATGGTGATGAC
Found at i:20830264 original size:117 final size:117
Alignment explanation
Indices: 20830014--20830314 Score: 313
Period size: 117 Copynumber: 2.6 Consensus size: 117
20830004 CAACGTATCA
* * * ** **
20830014 ACGAGCATCGATTAATGAAAAGGGATGGTA-AACCATCAAATATGAAAAGGGACGGTGATGACCA
1 ACGACCATCAATTAATGAAAAGGGATGGTATGACCATCAAATATGAAAAGGGATAGTTTTGACCA
* ** * * *
20830078 TCGATTAATGAAAAAGAATGGTTTTGACCTTCAAATATGCAAAGCGATGGTG
66 TCGACTAATGAAAAAGAATGGTGATGACCATCAAATAAGAAAAGCGATGGTG
* *
20830130 ACGACCCTCGAA-T-ATGAAAAGGGATGGTGATGACCATCAAATATGAAAAGGGATAGTTTTGAG
1 ACGACCATC-AATTAATGAAAAGGGATGGT-ATGACCATCAAATATGAAAAGGGATAGTTTTGAC
* ** * *
20830193 TATCGACT-ATGAAATGGGATGGTGATGACCATCAAATAAGAAAAGGGATGGTG
64 CATCGACTAATGAAAAAGAATGGTGATGACCATCAAATAAGAAAAGCGATGGTG
* * * * **
20830246 ATGACCATCAATTAATGAAAAGGGATGGTTTTGACCATCGAATATGAAAAGGGATCGTTTCAACC
1 ACGACCATCAATTAATGAAAAGGGATGG-TATGACCATCAAATATGAAAAGGGATAGTTTTGACC
20830311 ATCG
65 ATCG
20830315 TTTACCACAC
Statistics
Matches: 150, Mismatches: 29, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
115 17 0.11
116 53 0.35
117 79 0.53
118 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.26, T:0.23
Consensus pattern (117 bp):
ACGACCATCAATTAATGAAAAGGGATGGTATGACCATCAAATATGAAAAGGGATAGTTTTGACCA
TCGACTAATGAAAAAGAATGGTGATGACCATCAAATAAGAAAAGCGATGGTG
Found at i:20833110 original size:25 final size:25
Alignment explanation
Indices: 20833082--20833131 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
20833072 ATCCGTCAAT
*
20833082 TTTTGTATATGTATGCTCATACGAG
1 TTTTGAATATGTATGCTCATACGAG
* *
20833107 TTTTGAATCTGTATGCTCTTACGAG
1 TTTTGAATATGTATGCTCATACGAG
20833132 CTGTAATCGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.22, C:0.14, G:0.20, T:0.44
Consensus pattern (25 bp):
TTTTGAATATGTATGCTCATACGAG
Found at i:20833205 original size:25 final size:24
Alignment explanation
Indices: 20833121--20833205 Score: 100
Period size: 25 Copynumber: 3.5 Consensus size: 24
20833111 GAATCTGTAT
*
20833121 GCTCTTACGAGCTG-TAATCGGTAA
1 GCTCATACGAGCTGATAAT-GGTAA
* *
20833145 GCTCATACAAGTTGAGTAATGGTAA
1 GCTCATACGAGCTGA-TAATGGTAA
*
20833170 GCTCATGCGAGCTGAATAATGGTAA
1 GCTCATACGAGCTG-ATAATGGTAA
20833195 GCTCATACGAG
1 GCTCATACGAG
20833206 TCGGTAAGCT
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
24 11 0.22
25 35 0.69
26 5 0.10
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.26
Consensus pattern (24 bp):
GCTCATACGAGCTGATAATGGTAA
Found at i:20836249 original size:39 final size:39
Alignment explanation
Indices: 20836199--20836273 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
20836189 ATTTTGAGTT
20836199 TTAACTATGTCTTCA-TTTGAACATCACTAATATGTGACA
1 TTAACTATGTC-TCAGTTTGAACATCACTAATATGTGACA
* * *
20836238 TTAATTATGTCTGAGTTTGAACATCATTAATATGTG
1 TTAACTATGTCTCAGTTTGAACATCACTAATATGTG
20836274 TTTCAATTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
38 2 0.06
39 30 0.94
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.41
Consensus pattern (39 bp):
TTAACTATGTCTCAGTTTGAACATCACTAATATGTGACA
Found at i:20854766 original size:12 final size:13
Alignment explanation
Indices: 20854749--20854777 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
20854739 CTCATACATG
20854749 AATAAATAAA-GC
1 AATAAATAAATGC
20854761 AATAAATAAATGC
1 AATAAATAAATGC
20854774 AATA
1 AATA
20854778 GTTATAGCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
AATAAATAAATGC
Found at i:20856828 original size:33 final size:33
Alignment explanation
Indices: 20856791--20856862 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 33
20856781 TATTAATAAA
*
20856791 CATGATAAATCAAATATGTTATTACAACCATCT
1 CATGATAAATCAAATAGGTTATTACAACCATCT
** *** *
20856824 CATGATTGATCTTTTGGGTTATTACAACCATCT
1 CATGATAAATCAAATAGGTTATTACAACCATCT
20856857 CATGAT
1 CATGAT
20856863 TGATCTTTTG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.38
Consensus pattern (33 bp):
CATGATAAATCAAATAGGTTATTACAACCATCT
Found at i:20856863 original size:33 final size:33
Alignment explanation
Indices: 20856808--20856874 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
20856798 AATCAAATAT
20856808 GTTATTACAACCATCTCATGATTGATCTTTTGG
1 GTTATTACAACCATCTCATGATTGATCTTTTGG
20856841 GTTATTACAACCATCTCATGATTGATCTTTTGG
1 GTTATTACAACCATCTCATGATTGATCTTTTGG
20856874 G
1 G
20856875 CATACTCTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.42
Consensus pattern (33 bp):
GTTATTACAACCATCTCATGATTGATCTTTTGG
Found at i:20858085 original size:36 final size:36
Alignment explanation
Indices: 20858044--20858116 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
20858034 AACTAAAATC
20858044 ACATAGATTCATCAAATGAAAACATTCACAATCTTT
1 ACATAGATTCATCAAATGAAAACATTCACAATCTTT
20858080 ACATAGATTCATCAAATGAAAACATTCACAATCTTT
1 ACATAGATTCATCAAATGAAAACATTCACAATCTTT
20858116 A
1 A
20858117 ACGGTTTCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.45, C:0.19, G:0.05, T:0.30
Consensus pattern (36 bp):
ACATAGATTCATCAAATGAAAACATTCACAATCTTT
Found at i:20868295 original size:13 final size:13
Alignment explanation
Indices: 20868259--20868295 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
20868249 AAACCTAAGA
20868259 AAAGAGAAAATCT
1 AAAGAGAAAATCT
**
20868272 AAAGACTAAATCT
1 AAAGAGAAAATCT
20868285 AAAGAGAAAAT
1 AAAGAGAAAAT
20868296 TATACAATAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.62, C:0.08, G:0.14, T:0.16
Consensus pattern (13 bp):
AAAGAGAAAATCT
Found at i:20879828 original size:45 final size:45
Alignment explanation
Indices: 20879776--20879953 Score: 229
Period size: 45 Copynumber: 4.0 Consensus size: 45
20879766 GAATAGAACA
20879776 AATATCATTGAATATAAAGGTGGTTGCTATGTGCTGATTCCACCG
1 AATATCATTGAATATAAAGGTGGTTGCTATGTGCTGATTCCACCG
* * *
20879821 GATATCATTGAAAATAAAGGTGGTTGCTATGTGCTGACTCCACCG
1 AATATCATTGAATATAAAGGTGGTTGCTATGTGCTGATTCCACCG
* * *
20879866 AAAATCATTGATTATAAAGGTGGTTGCTATGTGCTTATTCCACCG
1 AATATCATTGAATATAAAGGTGGTTGCTATGTGCTGATTCCACCG
* **
20879911 AATAT-ACTTG-ATTTTTAGGATGG-TGCTATGTGCTGA-TCCACCG
1 AATATCA-TTGAATATAAAGG-TGGTTGCTATGTGCTGATTCCACCG
20879954 TGTAACTGTT
Statistics
Matches: 116, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
43 7 0.06
44 18 0.16
45 91 0.78
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (45 bp):
AATATCATTGAATATAAAGGTGGTTGCTATGTGCTGATTCCACCG
Found at i:20882989 original size:40 final size:40
Alignment explanation
Indices: 20882945--20883196 Score: 256
Period size: 40 Copynumber: 6.3 Consensus size: 40
20882935 GCACAAACAA
* *
20882945 GGGCACGTATGTGCATTCAGGGGTACCGAAGTACAACCAG
1 GGGCACGTATGTGCATTTAGGGGTACCGAAGTACAATCAG
* * *
20882985 GGGCACATATGTGCATTTAGGGGTACC-ATAGTACAATTAA
1 GGGCACGTATGTGCATTTAGGGGTACCGA-AGTACAATCAG
* * * * * *
20883025 AGGCACGTATGTGCGTTTAGGGGTATCAAAGTAAAATTAG
1 GGGCACGTATGTGCATTTAGGGGTACCGAAGTACAATCAG
* * * * *
20883065 GGGCACGTATGTCCATTTAGGGGTATCGTAGTAGAATTA-
1 GGGCACGTATGTGCATTTAGGGGTACCGAAGTACAATCAG
* * * *
20883104 GGACACGTATGTGCATTTAGGGGTACTGAAATATAATCAG
1 GGGCACGTATGTGCATTTAGGGGTACCGAAGTACAATCAG
* * * *
20883144 GGGCACATATGTGCATTCAGGGGTACCGTAGTACAAACAG
1 GGGCACGTATGTGCATTTAGGGGTACCGAAGTACAATCAG
*
20883184 GGGTACGTATGTG
1 GGGCACGTATGTG
20883197 TGTTCAAGTT
Statistics
Matches: 174, Mismatches: 35, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
39 32 0.18
40 141 0.81
41 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.25
Consensus pattern (40 bp):
GGGCACGTATGTGCATTTAGGGGTACCGAAGTACAATCAG
Found at i:20883006 original size:20 final size:20
Alignment explanation
Indices: 20882983--20883087 Score: 52
Period size: 20 Copynumber: 5.2 Consensus size: 20
20882973 AAGTACAACC
*
20882983 AGGGGCACATATGTGCATTT
1 AGGGGCACATATGTACATTT
* *
20883003 AGGGGTACCATA-GTACAATT
1 AGGGGCA-CATATGTACATTT
** * * *
20883023 AAAGGCACGTATGTGCGTTT
1 AGGGGCACATATGTACATTT
* * * *
20883043 AGGGGTATCA-AAGTAAAATT
1 AGGGGCA-CATATGTACATTT
* *
20883063 AGGGGCACGTATGTCCATTT
1 AGGGGCACATATGTACATTT
20883083 AGGGG
1 AGGGG
20883088 TATCGTAGTA
Statistics
Matches: 56, Mismatches: 25, Indels: 8
0.63 0.28 0.09
Matches are distributed among these distances:
19 4 0.07
20 47 0.84
21 5 0.09
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.27
Consensus pattern (20 bp):
AGGGGCACATATGTACATTT
Found at i:20883082 original size:80 final size:78
Alignment explanation
Indices: 20882946--20883179 Score: 290
Period size: 80 Copynumber: 3.0 Consensus size: 78
20882936 CACAAACAAG
* * * * *
20882946 GGCACGTATGTGCATTCAGGGGTACCGAAGTACAACCAGGGGCACATATGTGCATTTAGGGGTAC
1 GGCACGTATGTGCATTTAGGGGTATCAAAGTAAAATCAGGGGCACATATGTGCATTTAGGGGTAC
*
20883011 CATAGTACAATTAAA
66 CGTAGTACAATT--A
* * * * *
20883026 GGCACGTATGTGCGTTTAGGGGTATCAAAGTAAAATTAGGGGCACGTATGTCCATTTAGGGGTAT
1 GGCACGTATGTGCATTTAGGGGTATCAAAGTAAAATCAGGGGCACATATGTGCATTTAGGGGTAC
*
20883091 CGTAGTAGAATTA
66 CGTAGTACAATTA
* * *
20883104 GGACACGTATGTGCATTTAGGGGTACTGAAA-TATAATCAGGGGCACATATGTGCATTCAGGGGT
1 GG-CACGTATGTGCATTTAGGGGTA-TCAAAGTAAAATCAGGGGCACATATGTGCATTTAGGGGT
20883168 ACCGTAGTACAA
64 ACCGTAGTACAA
20883180 ACAGGGGTAC
Statistics
Matches: 131, Mismatches: 21, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
78 3 0.02
79 59 0.45
80 69 0.53
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.26
Consensus pattern (78 bp):
GGCACGTATGTGCATTTAGGGGTATCAAAGTAAAATCAGGGGCACATATGTGCATTTAGGGGTAC
CGTAGTACAATTA
Found at i:20883104 original size:20 final size:20
Alignment explanation
Indices: 20883041--20883105 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
20883031 GTATGTGCGT
**
20883041 TTAGGGGTATCAAAGTAAAA
1 TTAGGGGTATCGTAGTAAAA
* ** *
20883061 TTAGGGGCA-CGTATGTCCAT
1 TTAGGGGTATCGTA-GTAAAA
*
20883081 TTAGGGGTATCGTAGTAGAA
1 TTAGGGGTATCGTAGTAAAA
20883101 TTAGG
1 TTAGG
20883106 ACACGTATGT
Statistics
Matches: 33, Mismatches: 10, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
19 2 0.06
20 27 0.82
21 4 0.12
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (20 bp):
TTAGGGGTATCGTAGTAAAA
Found at i:20889740 original size:20 final size:20
Alignment explanation
Indices: 20889675--20889742 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
20889665 AGGGCATCGT
*
20889675 AGTGCGAACA-AGGACACCGA
1 AGTGCAAACAGAGG-CACCGA
*** *
20889695 AGTGTGTACAGGGGCACCGA
1 AGTGCAAACAGAGGCACCGA
20889715 AGTGCAAACAGAGGCACCGA
1 AGTGCAAACAGAGGCACCGA
20889735 AGTGCAAA
1 AGTGCAAA
20889743 TCCCGTTCAA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 38 0.95
21 2 0.05
ACGTcount: A:0.37, C:0.22, G:0.32, T:0.09
Consensus pattern (20 bp):
AGTGCAAACAGAGGCACCGA
Found at i:20895108 original size:28 final size:27
Alignment explanation
Indices: 20895010--20895197 Score: 132
Period size: 27 Copynumber: 6.9 Consensus size: 27
20895000 TTATTCTCCT
** * * *
20895010 AGGGGTATAACGGTCATTCTACCTTTC
1 AGGGGTATTTCGGTAATTTTACCCTTC
* ** *
20895037 TGGGGTATTTTAGTAATTCTACCCTTC
1 AGGGGTATTTCGGTAATTTTACCCTTC
* * * *
20895064 -GAGGATATTTCAGTAATTATTACCTTTT
1 AG-GGGTATTTCGGTAATT-TTACCCTTC
20895092 AGGGGTAGTTT-GGTAATTTTTACCCTTC
1 AGGGGTA-TTTCGGTAA-TTTTACCCTTC
* *
20895120 AGGGGTATTTCGATAATTTTACCCATC
1 AGGGGTATTTCGGTAATTTTACCCTTC
*
20895147 -GAGGGTATTTCGGTAATTTTACCCATC
1 AG-GGGTATTTCGGTAATTTTACCCTTC
* *
20895174 -GAAGGTATTTTGGTAATTTTACCC
1 AG-GGGTATTTCGGTAATTTTACCC
20895198 ATTGTGGCTC
Statistics
Matches: 133, Mismatches: 21, Indels: 14
0.79 0.12 0.08
Matches are distributed among these distances:
26 2 0.02
27 93 0.70
28 32 0.24
29 6 0.05
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.40
Consensus pattern (27 bp):
AGGGGTATTTCGGTAATTTTACCCTTC
Found at i:20895152 original size:27 final size:27
Alignment explanation
Indices: 20895039--20895199 Score: 139
Period size: 27 Copynumber: 5.9 Consensus size: 27
20895029 TACCTTTCTG
** * *
20895039 GGGTATTTTAGTAATTCTACCCTTCGA
1 GGGTATTTCGGTAATTTTACCCATCGA
* * * **
20895066 GGATATTTCAGTAATTATTA-CCTTTTA
1 GGGTATTTCGGTAATT-TTACCCATCGA
*
20895093 GGGGTAGTTT-GGTAATTTTTACCCTTC-A
1 -GGGTA-TTTCGGTAA-TTTTACCCATCGA
*
20895121 GGGGTATTTCGATAATTTTACCCATCGA
1 -GGGTATTTCGGTAATTTTACCCATCGA
20895149 GGGTATTTCGGTAATTTTACCCATCGA
1 GGGTATTTCGGTAATTTTACCCATCGA
* *
20895176 AGGTATTTTGGTAATTTTACCCAT
1 GGGTATTTCGGTAATTTTACCCAT
20895200 TGTGGCTCAG
Statistics
Matches: 114, Mismatches: 13, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
27 80 0.70
28 25 0.22
29 9 0.08
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.42
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACCCATCGA
Found at i:20899763 original size:17 final size:17
Alignment explanation
Indices: 20899741--20899775 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
20899731 GAAATATAAC
20899741 TGGTGTAGGCAAAGAAA
1 TGGTGTAGGCAAAGAAA
20899758 TGGTGTAGGCAAAGAAA
1 TGGTGTAGGCAAAGAAA
20899775 T
1 T
20899776 TTTATTGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.06, G:0.34, T:0.20
Consensus pattern (17 bp):
TGGTGTAGGCAAAGAAA
Found at i:20903007 original size:27 final size:26
Alignment explanation
Indices: 20902925--20903017 Score: 73
Period size: 27 Copynumber: 3.5 Consensus size: 26
20902915 TAATAAAGCA
* * *
20902925 GCAGAGCTACCAGTACAGTATATGTG
1 GCAGAGCCACCAGTACAGTATTTCTG
* * *
20902951 GCA-ACACCACCAGTAACGGTAATTGC-G
1 GCAGA-GCCACCAGT-ACAGT-ATTTCTG
20902978 GCAGAGCCACCAGTATCAGTATTTCTG
1 GCAGAGCCACCAGTA-CAGTATTTCTG
*
20903005 GCAAAGCCACCAG
1 GCAGAGCCACCAG
20903018 AAACAAAACT
Statistics
Matches: 51, Mismatches: 10, Indels: 11
0.71 0.14 0.15
Matches are distributed among these distances:
25 1 0.02
26 15 0.29
27 32 0.63
28 3 0.06
ACGTcount: A:0.31, C:0.27, G:0.24, T:0.18
Consensus pattern (26 bp):
GCAGAGCCACCAGTACAGTATTTCTG
Found at i:20903221 original size:27 final size:27
Alignment explanation
Indices: 20903191--20903468 Score: 360
Period size: 27 Copynumber: 10.3 Consensus size: 27
20903181 TATAACGGTC
* **
20903191 ATTTTACCCTTCGAGGGTATTTTAATA
1 ATTTTACCCATCGAGGGTATTTTGGTA
* * **
20903218 ATTTTACCCTTTGAGGGTATTTTAATA
1 ATTTTACCCATCGAGGGTATTTTGGTA
* * *
20903245 ATTTTACCCTTTGAGGGTATTTTAGTA
1 ATTTTACCCATCGAGGGTATTTTGGTA
**
20903272 ATTTTTACCC-TTTAGGGGTATTTTGGTA
1 A-TTTTACCCATCGA-GGGTATTTTGGTA
* * *
20903300 ATATTACCCATCGAGGGTATGTCGGTA
1 ATTTTACCCATCGAGGGTATTTTGGTA
20903327 ATTTTACCCATCGAGGGTATTTTGGTA
1 ATTTTACCCATCGAGGGTATTTTGGTA
*
20903354 ATTTTACCCATCAAGGGTATTTTGGTA
1 ATTTTACCCATCGAGGGTATTTTGGTA
* *
20903381 ATTTTACCCATCGAGGGCATTTCGGTA
1 ATTTTACCCATCGAGGGTATTTTGGTA
20903408 ATTTTACCCATCGAGGGTATTTTGGTA
1 ATTTTACCCATCGAGGGTATTTTGGTA
*
20903435 ATTTTACCCATCGAGGGTATTTTCGTA
1 ATTTTACCCATCGAGGGTATTTTGGTA
20903462 ATTTTAC
1 ATTTTAC
20903469 GGCCTAAGCC
Statistics
Matches: 229, Mismatches: 19, Indels: 6
0.90 0.07 0.02
Matches are distributed among these distances:
27 206 0.90
28 23 0.10
ACGTcount: A:0.23, C:0.15, G:0.19, T:0.42
Consensus pattern (27 bp):
ATTTTACCCATCGAGGGTATTTTGGTA
Found at i:20905735 original size:20 final size:20
Alignment explanation
Indices: 20905710--20905786 Score: 66
Period size: 20 Copynumber: 3.9 Consensus size: 20
20905700 TGCATAGTAG
20905710 GGGCACCGAAGTGCAAACAA
1 GGGCACCGAAGTGCAAACAA
* * * *
20905730 GGGCA-CAAATATTCAAGCAA
1 GGGCACCGAA-GTGCAAACAA
* * *
20905750 GGGCACTGAAGTGTATACAA
1 GGGCACCGAAGTGCAAACAA
*
20905770 AGGCACCGAAGTGCAAA
1 GGGCACCGAAGTGCAAA
20905787 TCACGTACAA
Statistics
Matches: 40, Mismatches: 15, Indels: 4
0.68 0.25 0.07
Matches are distributed among these distances:
19 3 0.08
20 35 0.88
21 2 0.05
ACGTcount: A:0.40, C:0.21, G:0.27, T:0.12
Consensus pattern (20 bp):
GGGCACCGAAGTGCAAACAA
Found at i:20923507 original size:26 final size:26
Alignment explanation
Indices: 20923478--20923527 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
20923468 TGAGCAGGCC
20923478 TATTTCATAGCTCGTGTGAGCATACT
1 TATTTCATAGCTCGTGTGAGCATACT
*
20923504 TATTTCATAGCTTGTGTGAGCATA
1 TATTTCATAGCTCGTGTGAGCATA
20923528 TATGTAAAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (26 bp):
TATTTCATAGCTCGTGTGAGCATACT
Found at i:20924734 original size:54 final size:53
Alignment explanation
Indices: 20924652--20924780 Score: 186
Period size: 53 Copynumber: 2.4 Consensus size: 53
20924642 AAAGTCAGGA
* * *
20924652 AGTTACATGGCTTAGCACAAGGCTTGGCACATGGGCGTGTGAGGCAATTTCGAG
1 AGTTACACGGCCTAGCACAAGGCCTGGCACATGGG-GTGTGAGGCAATTTCGAG
* *
20924706 AGTTACACGGCCTAGCACAAGGCCTGGCACATGGGGTGTGAGGCCATTTTGAG
1 AGTTACACGGCCTAGCACAAGGCCTGGCACATGGGGTGTGAGGCAATTTCGAG
* *
20924759 AGTTACACAGCCTGGCACAAGG
1 AGTTACACGGCCTAGCACAAGG
20924781 GCGTGTGGCT
Statistics
Matches: 68, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
53 36 0.53
54 32 0.47
ACGTcount: A:0.25, C:0.22, G:0.33, T:0.21
Consensus pattern (53 bp):
AGTTACACGGCCTAGCACAAGGCCTGGCACATGGGGTGTGAGGCAATTTCGAG
Found at i:20939670 original size:11 final size:11
Alignment explanation
Indices: 20939654--20939693 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
20939644 AGAATGAATT
20939654 AGGGATGCCTG
1 AGGGATGCCTG
*
20939665 AGGGATGCTTG
1 AGGGATGCCTG
*
20939676 AGGGATGCCTA
1 AGGGATGCCTG
20939687 AGGGATG
1 AGGGATG
20939694 ATGAATGAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.23, C:0.12, G:0.45, T:0.20
Consensus pattern (11 bp):
AGGGATGCCTG
Found at i:20953711 original size:12 final size:12
Alignment explanation
Indices: 20953694--20953719 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
20953684 CCACTACGCA
20953694 CCGTGAACTCAC
1 CCGTGAACTCAC
20953706 CCGTGAACTCAC
1 CCGTGAACTCAC
20953718 CC
1 CC
20953720 TGCCACACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.46, G:0.15, T:0.15
Consensus pattern (12 bp):
CCGTGAACTCAC
Found at i:20956504 original size:18 final size:19
Alignment explanation
Indices: 20956481--20956516 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
20956471 AGCTTCATTA
20956481 TTTTCGGTCGGC-TGCCAG
1 TTTTCGGTCGGCATGCCAG
20956499 TTTTCGGTCGGCATGCCA
1 TTTTCGGTCGGCATGCCA
20956517 ACTGGCAGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.08, C:0.28, G:0.31, T:0.33
Consensus pattern (19 bp):
TTTTCGGTCGGCATGCCAG
Found at i:20961150 original size:29 final size:29
Alignment explanation
Indices: 20961082--20961152 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
20961072 TATAAGAAAA
* * * *
20961082 CCTTTGTGGCGATCTCTGTCAAAAGGATT
1 CCTTTGTGGCTATATCTGTCAAAACGATG
* *
20961111 CCTTTGTGGCTATATTTGTCCAAACGATG
1 CCTTTGTGGCTATATCTGTCAAAACGATG
20961140 CCTTTGTGGCTAT
1 CCTTTGTGGCTAT
20961153 CGCTATTAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.38
Consensus pattern (29 bp):
CCTTTGTGGCTATATCTGTCAAAACGATG
Found at i:20964085 original size:26 final size:27
Alignment explanation
Indices: 20964015--20964086 Score: 85
Period size: 26 Copynumber: 2.7 Consensus size: 27
20964005 GGTAAGCTGC
*
20964015 GAACTGGGGTTCGCCAGTCTGTTTGGT
1 GAACTGGGGTTCGCCAGTCTGGTTGGT
*
20964042 GAACTGGTGTTCGCCAGT-TGAGTT-GT
1 GAACTGGGGTTCGCCAGTCTG-GTTGGT
* *
20964068 TAATTGGGGTTCGCCAGTC
1 GAACTGGGGTTCGCCAGTC
20964087 AAAGATTGAG
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
26 19 0.50
27 19 0.50
ACGTcount: A:0.14, C:0.18, G:0.35, T:0.33
Consensus pattern (27 bp):
GAACTGGGGTTCGCCAGTCTGGTTGGT
Found at i:20965858 original size:52 final size:51
Alignment explanation
Indices: 20965737--20965901 Score: 237
Period size: 52 Copynumber: 3.3 Consensus size: 51
20965727 CGGATACCTG
* * *
20965737 GTGGCCTGCACATAGTACCACCCTTGT-AGCCAAAGCTACCTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGA-CCAAAGCTATCTTCTTCACAAA
20965788 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATC-TTCTTCACAAA
* * *
20965840 GTGGCCTTCACATTGTACCACACTTGTGATCAAA-CTATC-TCTTCTCAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTCTTCACAAA
20965889 GTGGCCTTCACAT
1 GTGGCCTTCACAT
20965902 CCACACTTGA
Statistics
Matches: 106, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
49 22 0.21
51 40 0.38
52 44 0.42
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTCTTCACAAA
Found at i:20967426 original size:13 final size:13
Alignment explanation
Indices: 20967408--20967448 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
20967398 TCTGAGACTC
*
20967408 TATTTTCAAGATA
1 TATTTTAAAGATA
*
20967421 TATTTTAAAGTTA
1 TATTTTAAAGATA
20967434 TGATTTTAAAGATA
1 T-ATTTTAAAGATA
20967448 T
1 T
20967449 GGTTTATACG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.39, C:0.02, G:0.10, T:0.49
Consensus pattern (13 bp):
TATTTTAAAGATA
Found at i:20967441 original size:14 final size:14
Alignment explanation
Indices: 20967409--20967449 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
20967399 CTGAGACTCT
*
20967409 ATTTTCAAGATAT-
1 ATTTTAAAGATATG
*
20967422 ATTTTAAAGTTATG
1 ATTTTAAAGATATG
20967436 ATTTTAAAGATATG
1 ATTTTAAAGATATG
20967450 GTTTATACGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.39, C:0.02, G:0.12, T:0.46
Consensus pattern (14 bp):
ATTTTAAAGATATG
Found at i:20968919 original size:101 final size:102
Alignment explanation
Indices: 20968784--20968977 Score: 293
Period size: 102 Copynumber: 1.9 Consensus size: 102
20968774 AATGTGATGG
* *
20968784 TCACATGTGTAGTACTATGTGCAGGCTACAACGTGTATCGGAATGAT-A-GGTCGCATGTGTAGT
1 TCACATGTGTAGTACTATGTGCAGCCTACAACGTGTATCGG-ATGATAATGGTCACATGTGTAGT
* *
20968847 ACTATGTGCAGGCTATTATGCGTACCGAATAGTTTCGA
65 ACTATGTGCAGGCTACTATGCGAACCGAATAGTTTCGA
* * *
20968885 TCACGTGTGTAGTACTATGTGCAGCCTACTACGTGTATCGGATGGTAATGGTCACATGTGTAGTA
1 TCACATGTGTAGTACTATGTGCAGCCTACAACGTGTATCGGATGATAATGGTCACATGTGTAGTA
*
20968950 CTATGTGCAGGCTACTATGTGAACCGAA
66 CTATGTGCAGGCTACTATGCGAACCGAA
20968978 CATCATTGAT
Statistics
Matches: 83, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
100 4 0.05
101 39 0.47
102 40 0.48
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (102 bp):
TCACATGTGTAGTACTATGTGCAGCCTACAACGTGTATCGGATGATAATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATGCGAACCGAATAGTTTCGA
Found at i:20968945 original size:51 final size:50
Alignment explanation
Indices: 20968780--20968966 Score: 223
Period size: 51 Copynumber: 3.7 Consensus size: 50
20968770 AGTGAATGTG
* *
20968780 ATGGTCACATGTGTAGTACTATGTGCAGGCTACAACGTGTATCGGAATGAT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGG-ATGGT
* * * * * * *
20968831 A-GGTCGCATGTGTAGTACTATGTGCAGGCTATTATGCGTACCGAATAGT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGT
* * * *
20968880 TTCGATCACGTGTGTAGTACTATGTGCAGCCTACTACGTGTATCGGATGGT
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGT
20968931 AATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
1 -ATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
20968967 TGTGAACCGA
Statistics
Matches: 109, Mismatches: 24, Indels: 6
0.78 0.17 0.04
Matches are distributed among these distances:
49 3 0.03
50 36 0.33
51 69 0.63
52 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (50 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGT
Found at i:20969033 original size:45 final size:45
Alignment explanation
Indices: 20968972--20969066 Score: 145
Period size: 45 Copynumber: 2.1 Consensus size: 45
20968962 TACTATGTGA
* *
20968972 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
* * *
20969017 ACCGGACATTATTGATTAATAAGGTGGTTGCTATGTGTTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
20969062 ACCGA
1 ACCGA
20969067 GTATCTGTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
Found at i:20974664 original size:25 final size:25
Alignment explanation
Indices: 20974616--20974664 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
20974606 CAAACTGCGA
* * *
20974616 TTATTCTGCGAACTCATGTTTTATG
1 TTATACTGCGAACTCATATGTTATG
*
20974641 TTATACTGCGAGCTCATATGTTAT
1 TTATACTGCGAACTCATATGTTAT
20974665 TGTGTTGAGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.22, C:0.16, G:0.16, T:0.45
Consensus pattern (25 bp):
TTATACTGCGAACTCATATGTTATG
Found at i:20993703 original size:21 final size:21
Alignment explanation
Indices: 20993679--20993783 Score: 56
Period size: 21 Copynumber: 5.1 Consensus size: 21
20993669 TACAAAGAAA
20993679 GGCACGTATGTGCAATACAGG
1 GGCACGTATGTGCAATACAGG
* * *
20993700 GGCAC-TAAAGTACAA-ATAGG
1 GGCACGT-ATGTGCAATACAGG
* * * *
20993720 AGCATGTATGAGCAATTCAGG
1 GGCACGTATGTGCAATACAGG
* * * *
20993741 GGCA-TTGAAGTACAA-ATAGG
1 GGCACGT-ATGTGCAATACAGG
*
20993761 GGCACGTATGTGCAATTCAGG
1 GGCACGTATGTGCAATACAGG
20993782 GG
1 GG
20993784 TACCAAAGTA
Statistics
Matches: 56, Mismatches: 22, Indels: 12
0.62 0.24 0.13
Matches are distributed among these distances:
20 27 0.48
21 29 0.52
ACGTcount: A:0.33, C:0.15, G:0.31, T:0.20
Consensus pattern (21 bp):
GGCACGTATGTGCAATACAGG
Found at i:20993792 original size:82 final size:81
Alignment explanation
Indices: 20993652--20993823 Score: 238
Period size: 82 Copynumber: 2.1 Consensus size: 81
20993642 ACAAAAGTGC
* *
20993652 ATTCAGGGGTATTGAAGTACAAAGAAAGGCACGTATGTGCAATACAGGGGCACTAAAGTACAAAT
1 ATTCAGGGGCATTGAAGTACAAAGAAAGGCACGTATGTGCAATACAGGGGCACCAAAGTACAAA-
20993717 AG-GAGCATGTATGAGCA
65 AGAG-GCATGTATGAGCA
* ** * *
20993734 ATTCAGGGGCATTGAAGTACAAATAGGGGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAAA
1 ATTCAGGGGCATTGAAGTACAAAGAAAGGCACGTATGTGCAATACAGGGGCACCAAAGTACAAAA
*
20993799 GAGGCATGTATGTGCA
66 GAGGCATGTATGAGCA
*
20993815 ATTTAGGGG
1 ATTCAGGGG
20993824 TAGTCTTCTA
Statistics
Matches: 80, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
81 22 0.28
82 58 0.73
ACGTcount: A:0.36, C:0.13, G:0.30, T:0.21
Consensus pattern (81 bp):
ATTCAGGGGCATTGAAGTACAAAGAAAGGCACGTATGTGCAATACAGGGGCACCAAAGTACAAAA
GAGGCATGTATGAGCA
Found at i:20993825 original size:40 final size:41
Alignment explanation
Indices: 20993648--20993823 Score: 187
Period size: 41 Copynumber: 4.3 Consensus size: 41
20993638 GGGTACAAAA
* * * * *
20993648 GTGC-ATTCAGGGGTATTGAAGTACAAAGAAAGGCACGTAT
1 GTGCAATTCAGGGGCACTAAAGTACAAATAGAGGCACGTAT
* *
20993688 GTGCAATACAGGGGCACTAAAGTACAAATAG-GAGCATGTAT
1 GTGCAATTCAGGGGCACTAAAGTACAAATAGAG-GCACGTAT
* * * *
20993729 GAGCAATTCAGGGGCATTGAAGTACAAATAGGGGCACGTAT
1 GTGCAATTCAGGGGCACTAAAGTACAAATAGAGGCACGTAT
* * *
20993770 GTGCAATTCAGGGGTACCAAAGTACAAA-AGAGGCATGTAT
1 GTGCAATTCAGGGGCACTAAAGTACAAATAGAGGCACGTAT
*
20993810 GTGCAATTTAGGGG
1 GTGCAATTCAGGGG
20993824 TAGTCTTCTA
Statistics
Matches: 113, Mismatches: 20, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
40 28 0.25
41 84 0.74
42 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.30, T:0.21
Consensus pattern (41 bp):
GTGCAATTCAGGGGCACTAAAGTACAAATAGAGGCACGTAT
Found at i:20999268 original size:6 final size:6
Alignment explanation
Indices: 20999257--20999283 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
20999247 CTCTTGTGGC
20999257 AAAAAG AAAAAG AAAAAG AAAAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAA
20999284 GAGATGGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:21003326 original size:6 final size:6
Alignment explanation
Indices: 21003315--21003341 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
21003305 ATCTTGTGGA
21003315 AAAAAG AAAAAG AAAAAG AAAAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAA
21003342 GATATGGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:21006809 original size:45 final size:45
Alignment explanation
Indices: 21006752--21006932 Score: 231
Period size: 45 Copynumber: 4.1 Consensus size: 45
21006742 TATTACGTGT
* *
21006752 ACCGAGTATCATTGATTATAAAGGTGGTTGCTATGTGTTGATTCC
1 ACCGAATATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
* * ** * *
21006797 ATCGGATATCATTGAAAATAAAGGTGGTTGCCATGTGCTGACTCC
1 ACCGAATATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
*
21006842 ACCGAAAATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAATATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
* * * *
21006887 ACCGAATATAATTGATTATAAGGGTGG-TGCTTTGTGTTGA-TCC
1 ACCGAATATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
21006930 ACC
1 ACC
21006933 ATGTAACTGT
Statistics
Matches: 116, Mismatches: 20, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
43 6 0.05
44 11 0.09
45 99 0.85
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (45 bp):
ACCGAATATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
Found at i:21030420 original size:18 final size:18
Alignment explanation
Indices: 21030399--21030437 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
21030389 AAAGGAAGAC
21030399 AGAAAAAGA-AATCGAAAA
1 AGAAAAAGAGAAT-GAAAA
21030417 AGAAAAAGAGAATGAAAA
1 AGAAAAAGAGAATGAAAA
21030435 AGA
1 AGA
21030438 GCAAAAAGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.72, C:0.03, G:0.21, T:0.05
Consensus pattern (18 bp):
AGAAAAAGAGAATGAAAA
Found at i:21032245 original size:33 final size:34
Alignment explanation
Indices: 21032208--21032279 Score: 119
Period size: 33 Copynumber: 2.1 Consensus size: 34
21032198 GAGTTAGTTT
21032208 ATTAAATTTAGTTCAGCTCAAATAAGTGTTAG-A
1 ATTAAATTTAGTTCAGCTCAAATAAGTGTTAGTA
* *
21032241 ATTAATTTTAGTTCAGCTTAAATAAGTGTTAGTA
1 ATTAAATTTAGTTCAGCTCAAATAAGTGTTAGTA
21032275 ATTAA
1 ATTAA
21032280 TTTGTTTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
33 30 0.83
34 6 0.17
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.40
Consensus pattern (34 bp):
ATTAAATTTAGTTCAGCTCAAATAAGTGTTAGTA
Found at i:21043336 original size:15 final size:15
Alignment explanation
Indices: 21043318--21043356 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
21043308 ATACAATAAC
21043318 AATTAATAATGTTAA
1 AATTAATAATGTTAA
* *
21043333 AATTAATATTTTTAA
1 AATTAATAATGTTAA
21043348 AATTAATAA
1 AATTAATAA
21043357 AATTAAATGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (15 bp):
AATTAATAATGTTAA
Found at i:21043362 original size:15 final size:15
Alignment explanation
Indices: 21043318--21043363 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
21043308 ATACAATAAC
*
21043318 AATTAATAATGTTAA
1 AATTAATAATATTAA
* *
21043333 AATTAATATTTTTAA
1 AATTAATAATATTAA
*
21043348 AATTAATAAAATTAA
1 AATTAATAATATTAA
21043363 A
1 A
21043364 TGTGTGTGAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (15 bp):
AATTAATAATATTAA
Found at i:21047492 original size:15 final size:16
Alignment explanation
Indices: 21047463--21047492 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21047453 CAAACGTGCT
21047463 TTAACACATTATCAAA
1 TTAACACATTATCAAA
21047479 TTAACACA-TATCAA
1 TTAACACATTATCAA
21047493 CAAGACACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:21048710 original size:29 final size:29
Alignment explanation
Indices: 21048678--21048924 Score: 117
Period size: 29 Copynumber: 8.5 Consensus size: 29
21048668 TAACCGTCTG
*
21048678 TTTTCATATTCGATGGTCGAAACCATACC
1 TTTTCATATTCGATGGTCGAAACCATCCC
* * ***
21048707 TTTTCATTAATCGATGGTTGTCGCCATCCC
1 TTTTCA-TATTCGATGGTCGAAACCATCCC
** * *
21048737 TTTTCATAGTT-GAT-GTCGTCAGCATTCC
1 TTTTCATA-TTCGATGGTCGAAACCATCCC
* * * *
21048765 TTTTCATAATCGATAGTCGAAGCTATCCC
1 TTTTCATATTCGATGGTCGAAACCATCCC
* * * * *
21048794 TTTTCATATTTGATAG-CTTAAGCAATCCC
1 TTTTCATATTCGATGGTC-GAAACCATCCC
* ** *
21048823 TTTTAATATTCGATGGTCGTCATCATCCC
1 TTTTCATATTCGATGGTCGAAACCATCCC
* * * *
21048852 TTTTCATAATT-GATAGCCGAAGCTATCCC
1 TTTTCAT-ATTCGATGGTCGAAACCATCCC
* * * * * *
21048881 TTTTTATATTTGATAG-CCAAAGCTATCTC
1 TTTTCATATTCGATGGTCGAAA-CCATCCC
21048910 TTTTCATATTCGATG
1 TTTTCATATTCGATG
21048925 ATCGCCGATA
Statistics
Matches: 163, Mismatches: 46, Indels: 18
0.72 0.20 0.08
Matches are distributed among these distances:
27 1 0.01
28 28 0.17
29 106 0.65
30 28 0.17
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.40
Consensus pattern (29 bp):
TTTTCATATTCGATGGTCGAAACCATCCC
Found at i:21048842 original size:87 final size:87
Alignment explanation
Indices: 21048732--21048924 Score: 273
Period size: 87 Copynumber: 2.2 Consensus size: 87
21048722 GGTTGTCGCC
* *
21048732 ATCCCTTTTCATAGTT-GAT-GTCGTCAGCATTCCTTTTCATAATCGATAGTCGAAGCTATCCCT
1 ATCCCTTTTCATA-TTCGATGGTCGTCAGCATCCCTTTTCATAATCGATAGCCGAAGCTATCCCT
**
21048795 TTTCATATTTGATAGCTTAAGCA
65 TTTCATATTTGATAGCCAAAGCA
* * *
21048818 ATCCCTTTTAATATTCGATGGTCGTCATCATCCCTTTTCATAATTGATAGCCGAAGCTATCCCTT
1 ATCCCTTTTCATATTCGATGGTCGTCAGCATCCCTTTTCATAATCGATAGCCGAAGCTATCCCTT
* *
21048883 TTTATATTTGATAGCCAAAGCT
66 TTCATATTTGATAGCCAAAGCA
*
21048905 ATCTCTTTTCATATTCGATG
1 ATCCCTTTTCATATTCGATG
21048925 ATCGCCGATA
Statistics
Matches: 94, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
85 2 0.02
86 15 0.16
87 77 0.82
ACGTcount: A:0.24, C:0.22, G:0.13, T:0.40
Consensus pattern (87 bp):
ATCCCTTTTCATATTCGATGGTCGTCAGCATCCCTTTTCATAATCGATAGCCGAAGCTATCCCTT
TTCATATTTGATAGCCAAAGCA
Found at i:21048913 original size:58 final size:59
Alignment explanation
Indices: 21048732--21048917 Score: 157
Period size: 58 Copynumber: 3.2 Consensus size: 59
21048722 GGTTGTCGCC
* * * * * * *
21048732 ATCCCTTTTCATAGTTGAT-GTCGTCAGC-ATTCCTTTTCATAATCGATAGT-CGAAGCT
1 ATCCCTTTTCATAATTGATAGCCG-AAGCAATCCCTTTTAATATTCGATAGTCCAAAGCT
* ** * *** *
21048789 ATCCCTTTTCATATTTGATAGCTTAAGCAATCCCTTTTAATATTCGATGGTCGTCATC-
1 ATCCCTTTTCATAATTGATAGCCGAAGCAATCCCTTTTAATATTCGATAGTCCAAAGCT
* * *
21048847 ATCCCTTTTCATAATTGATAGCCGAAGCTATCCCTTTTTATATTTGATAG-CCAAAGCT
1 ATCCCTTTTCATAATTGATAGCCGAAGCAATCCCTTTTAATATTCGATAGTCCAAAGCT
*
21048905 ATCTCTTTTCATA
1 ATCCCTTTTCATA
21048918 TTCGATGATC
Statistics
Matches: 100, Mismatches: 25, Indels: 7
0.76 0.19 0.05
Matches are distributed among these distances:
57 24 0.24
58 74 0.74
59 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.40
Consensus pattern (59 bp):
ATCCCTTTTCATAATTGATAGCCGAAGCAATCCCTTTTAATATTCGATAGTCCAAAGCT
Found at i:21050783 original size:31 final size:31
Alignment explanation
Indices: 21050746--21050809 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
21050736 GAGCAGTGCA
21050746 AAAAATTATTTGTTTCTAACATTCCCAAGTC
1 AAAAATTATTTGTTTCTAACATTCCCAAGTC
*
21050777 AAAAATTATTTGTTTCTAACGTTCCCAAGTC
1 AAAAATTATTTGTTTCTAACATTCCCAAGTC
21050808 AA
1 AA
21050810 GGGCCATACT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.36, C:0.19, G:0.08, T:0.38
Consensus pattern (31 bp):
AAAAATTATTTGTTTCTAACATTCCCAAGTC
Found at i:21053859 original size:65 final size:65
Alignment explanation
Indices: 21053766--21053922 Score: 219
Period size: 65 Copynumber: 2.4 Consensus size: 65
21053756 TATTTTAATC
* * * * *
21053766 ATTATTTATGTTTTA-TTCGTACAA-CATTAATACATGTTTGAGTATTTTAATTTGTTCTAAGTC
1 ATTATTTGTGTCTTAGTTCGTA-AAGCATTAACACATGTCTGAGTATTTTAATATGTTCTAAGTC
21053829 T
65 T
21053830 ATTATTTGTGTCTTAGTTCGTAAAGCATTAACACATGTCTGAGTATTTTAATATGTTCTAAGTCT
1 ATTATTTGTGTCTTAGTTCGTAAAGCATTAACACATGTCTGAGTATTTTAATATGTTCTAAGTCT
* * *
21053895 ATTAATTGTGTCTTAGTTCATACAGCAT
1 ATTATTTGTGTCTTAGTTCGTAAAGCAT
21053923 CTGTAAATGT
Statistics
Matches: 83, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
64 15 0.18
65 68 0.82
ACGTcount: A:0.28, C:0.11, G:0.13, T:0.47
Consensus pattern (65 bp):
ATTATTTGTGTCTTAGTTCGTAAAGCATTAACACATGTCTGAGTATTTTAATATGTTCTAAGTCT
Found at i:21057146 original size:14 final size:14
Alignment explanation
Indices: 21057127--21057153 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21057117 CATTTCTTGG
21057127 TCGGTTCAGTTCAC
1 TCGGTTCAGTTCAC
21057141 TCGGTTCAGTTCA
1 TCGGTTCAGTTCA
21057154 ACTGGACCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.26, G:0.22, T:0.37
Consensus pattern (14 bp):
TCGGTTCAGTTCAC
Found at i:21057680 original size:21 final size:21
Alignment explanation
Indices: 21057647--21057686 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
21057637 TAGAACAGCA
*
21057647 ATTGGAACCACTCCAAGAATG
1 ATTGGAACAACTCCAAGAATG
* *
21057668 ATTGGATCAACTCGAAGAA
1 ATTGGAACAACTCCAAGAA
21057687 AGAAACCCAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (21 bp):
ATTGGAACAACTCCAAGAATG
Found at i:21058027 original size:65 final size:65
Alignment explanation
Indices: 21057951--21058105 Score: 238
Period size: 65 Copynumber: 2.4 Consensus size: 65
21057941 GTTTTATTCG
*
21057951 TACAACATTAATACATTTCTGAGTATTTTAATTTGTTCTAAGTCTATTAATTGTGTCTTAGTTCA
1 TACAACATTAATACATGTCTGAGTATTTTAATTTGTTCTAAGTCTATTAATTGTGTCTTAGTTCA
* * * *
21058016 TACAACATTAATACATGTCTTAGTATTTTAATTTTTTCTTAGTCTATTAATTGTGTCTTAGTTCG
1 TACAACATTAATACATGTCTGAGTATTTTAATTTGTTCTAAGTCTATTAATTGTGTCTTAGTTCA
* *
21058081 TACAACATCAGTACATGTCTTGAGT
1 TACAACATTAATACATGTC-TGAGT
21058106 CAGACACTAT
Statistics
Matches: 81, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
65 77 0.95
66 4 0.05
ACGTcount: A:0.28, C:0.14, G:0.12, T:0.46
Consensus pattern (65 bp):
TACAACATTAATACATGTCTGAGTATTTTAATTTGTTCTAAGTCTATTAATTGTGTCTTAGTTCA
Found at i:21058057 original size:19 final size:19
Alignment explanation
Indices: 21058031--21058077 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
21058021 CATTAATACA
* *
21058031 TGTCTTAGTATTTTAATTT
1 TGTCTTAGTATATTAATTG
* *
21058050 TTTCTTAGTCTATTAATTG
1 TGTCTTAGTATATTAATTG
21058069 TGTCTTAGT
1 TGTCTTAGT
21058078 TCGTACAACA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.19, C:0.09, G:0.13, T:0.60
Consensus pattern (19 bp):
TGTCTTAGTATATTAATTG
Found at i:21058649 original size:35 final size:35
Alignment explanation
Indices: 21058595--21058666 Score: 90
Period size: 35 Copynumber: 2.1 Consensus size: 35
21058585 TCTAAGTCCA
* * *
21058595 CTTCAATGACTATTTGGGAACTTCAATTGTCAAAG
1 CTTCAATGACTATTCGGGAACTCCAAATGTCAAAG
* * *
21058630 CTTCAATGTCTGTTCGGGAACTCCAAATGTCGAAG
1 CTTCAATGACTATTCGGGAACTCCAAATGTCAAAG
21058665 CT
1 CT
21058667 GATCAATTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (35 bp):
CTTCAATGACTATTCGGGAACTCCAAATGTCAAAG
Found at i:21060752 original size:65 final size:64
Alignment explanation
Indices: 21060643--21060794 Score: 232
Period size: 65 Copynumber: 2.3 Consensus size: 64
21060633 TTATTTGTAG
* * *
21060643 AACATTAATACATGTCTGATTATTTTAATTTGTTCTAAGTCTATTAATTGTGTCTTAGTTCGTAC
1 AACA-TAATACATGTCTGAGTATTTTAATTGGTTCTAAGTCTATTAATTGTGTCTTAGTTCATAC
21060708 AACAGTAATACATGTCTGAGTATTTTAATTGGTTCTAAGTCTATTAATTGTGTCTTAGTTCATAC
1 AACA-TAATACATGTCTGAGTATTTTAATTGGTTCTAAGTCTATTAATTGTGTCTTAGTTCATAC
*
21060773 AACATCAGTACATGTCCTGAGT
1 AACAT-AATACATGT-CTGAGT
21060795 CAGACATTAT
Statistics
Matches: 80, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
64 1 0.01
65 73 0.91
66 6 0.08
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (64 bp):
AACATAATACATGTCTGAGTATTTTAATTGGTTCTAAGTCTATTAATTGTGTCTTAGTTCATAC
Found at i:21064273 original size:20 final size:20
Alignment explanation
Indices: 21064250--21064287 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
21064240 GAACCACTCC
*
21064250 ATTTACTTTCTTACCATTCG
1 ATTTACTTACTTACCATTCG
*
21064270 ATTTACTTACTTTCCATT
1 ATTTACTTACTTACCATT
21064288 TCATTTAATT
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:0.21, C:0.24, G:0.03, T:0.53
Consensus pattern (20 bp):
ATTTACTTACTTACCATTCG
Found at i:21064293 original size:20 final size:19
Alignment explanation
Indices: 21064249--21064294 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
21064239 TGAACCACTC
*
21064249 CATTTACTTTCTTACCATT
1 CATTTACTTACTTACCATT
*
21064268 CGATTTACTTACTTTCCATTT
1 C-ATTTACTTACTTACCA-TT
21064289 CATTTA
1 CATTTA
21064295 ATTAGCATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 1 0.04
20 19 0.83
21 3 0.13
ACGTcount: A:0.22, C:0.24, G:0.02, T:0.52
Consensus pattern (19 bp):
CATTTACTTACTTACCATT
Found at i:21067716 original size:20 final size:20
Alignment explanation
Indices: 21067693--21067995 Score: 126
Period size: 20 Copynumber: 15.3 Consensus size: 20
21067683 AATGAGCATT
21067693 CAGGGGTACTGAAGTACAAA
1 CAGGGGTACTGAAGTACAAA
* * *
21067713 CAGGGGCA-TGTAAGTGCAAT
1 CAGGGGTACTG-AAGTACAAA
* *
21067733 CAGGGGCACCGAAGTACAAA
1 CAGGGGTACTGAAGTACAAA
* * * *
21067753 TAGGGGCACGTG-TGT--AAT
1 CAGGGGTAC-TGAAGTACAAA
*
21067771 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACTGAAGTACAAA
* *
21067791 TAGGGG--CTGTAAGTACAAC
1 CAGGGGTACTG-AAGTACAAA
* * *
21067810 CAAGGTTATTGAAGTACAAA
1 CAGGGGTACTGAAGTACAAA
* * *
21067830 TAGGGGCATA-T-AAGTGCAAT
1 CAGGGG--TACTGAAGTACAAA
**
21067850 CAGGGGTACCAAAGTACAAA
1 CAGGGGTACTGAAGTACAAA
* * *
21067870 CAGGGGCACAT-AAGTGCAAT
1 CAGGGGTAC-TGAAGTACAAA
* *
21067890 CAGGGTTACCGAAGTACAAA
1 CAGGGGTACTGAAGTACAAA
* * *
21067910 CAGGGGCAC-GTAAGTGCAAT
1 CAGGGGTACTG-AAGTACAAA
*
21067930 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACTGAAGTACAAA
* * *
21067950 TAGGGGCAC-GTAAGTGCAATA
1 CAGGGGTACTG-AAGTACAA-A
* *
21067971 -AGGGGTACCGAACTACAAA
1 CAGGGGTACTGAAGTACAAA
*
21067990 AAGGGG
1 CAGGGG
21067996 CACGTAAGTG
Statistics
Matches: 208, Mismatches: 54, Indels: 42
0.68 0.18 0.14
Matches are distributed among these distances:
17 1 0.00
18 15 0.07
19 16 0.08
20 166 0.80
21 8 0.04
22 2 0.01
ACGTcount: A:0.37, C:0.17, G:0.31, T:0.16
Consensus pattern (20 bp):
CAGGGGTACTGAAGTACAAA
Found at i:21067736 original size:40 final size:40
Alignment explanation
Indices: 21067692--21068011 Score: 421
Period size: 40 Copynumber: 8.1 Consensus size: 40
21067682 AAATGAGCAT
* * *
21067692 TCAGGGGTACTGAAGTACAAACAGGGGCATGTAAGTGCAA
1 TCAGGGGTACCGAAGTACAAATAGGGGCACGTAAGTGCAA
* *
21067732 TCAGGGGCACCGAAGTACAAATAGGGGCACGT--GTGTAA
1 TCAGGGGTACCGAAGTACAAATAGGGGCACGTAAGTGCAA
* *
21067770 TCAGGGGTACCGAAGTACAAATAGGGGC-TGTAAGTACAA
1 TCAGGGGTACCGAAGTACAAATAGGGGCACGTAAGTGCAA
* * * ** **
21067809 CCAAGGTTATTGAAGTACAAATAGGGGCATATAAGTGCAA
1 TCAGGGGTACCGAAGTACAAATAGGGGCACGTAAGTGCAA
* * *
21067849 TCAGGGGTACCAAAGTACAAACAGGGGCACATAAGTGCAA
1 TCAGGGGTACCGAAGTACAAATAGGGGCACGTAAGTGCAA
* *
21067889 TCAGGGTTACCGAAGTACAAACAGGGGCACGTAAGTGCAA
1 TCAGGGGTACCGAAGTACAAATAGGGGCACGTAAGTGCAA
21067929 TCAGGGGTACCGAAGTACAAATAGGGGCACGTAAGTGCAA
1 TCAGGGGTACCGAAGTACAAATAGGGGCACGTAAGTGCAA
* * *
21067969 TAAGGGGTACCGAACTACAAAAAGGGGCACGTAAGTGCAA
1 TCAGGGGTACCGAAGTACAAATAGGGGCACGTAAGTGCAA
21068009 TCA
1 TCA
21068012 TTCAATAAAT
Statistics
Matches: 244, Mismatches: 33, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
37 2 0.01
38 32 0.13
39 27 0.11
40 183 0.75
ACGTcount: A:0.37, C:0.17, G:0.30, T:0.16
Consensus pattern (40 bp):
TCAGGGGTACCGAAGTACAAATAGGGGCACGTAAGTGCAA
Found at i:21068989 original size:21 final size:21
Alignment explanation
Indices: 21068965--21069008 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
21068955 CTTAATTAAC
21068965 TATCAAAACGTGAAAATTTCT
1 TATCAAAACGTGAAAATTTCT
* *
21068986 TATCGAAACGTTAAAATTTCT
1 TATCAAAACGTGAAAATTTCT
21069007 TA
1 TA
21069009 ACGAAACTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (21 bp):
TATCAAAACGTGAAAATTTCT
Found at i:21069013 original size:21 final size:21
Alignment explanation
Indices: 21068970--21069020 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
21068960 TTAACTATCA
* *
21068970 AAACGTGAAAATTTCTTATCG
1 AAACGTTAAAATTTCTTAACG
21068991 AAACGTTAAAATTTCTTAACG
1 AAACGTTAAAATTTCTTAACG
*
21069012 AAACTTTAA
1 AAACGTTAA
21069021 TACAACCTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (21 bp):
AAACGTTAAAATTTCTTAACG
Found at i:21070117 original size:41 final size:41
Alignment explanation
Indices: 21070050--21070191 Score: 187
Period size: 41 Copynumber: 3.5 Consensus size: 41
21070040 GAGTGTAAAC
** *
21070050 AGGGGCACAAATGTGC-ATTCAAGGGTACCGAAGTACAAAT
1 AGGGGCACGTATGTGCAATTCAGGGGTACCGAAGTACAAAT
* * *
21070090 AGGAGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAAC
1 AGGGGCACGTATGTGCAATTCAGGGGTACCGAAGTACAAAT
* * *
21070131 AGGGGCGCGTATGTGCAATTAAGGGGTACCGAAGTACGAAT
1 AGGGGCACGTATGTGCAATTCAGGGGTACCGAAGTACAAAT
*
21070172 AGGGGCACGTATGTGTAATT
1 AGGGGCACGTATGTGCAATT
21070192 TATACAATAA
Statistics
Matches: 87, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
40 13 0.15
41 74 0.85
ACGTcount: A:0.33, C:0.16, G:0.31, T:0.20
Consensus pattern (41 bp):
AGGGGCACGTATGTGCAATTCAGGGGTACCGAAGTACAAAT
Found at i:21076056 original size:46 final size:46
Alignment explanation
Indices: 21075983--21076124 Score: 203
Period size: 46 Copynumber: 3.1 Consensus size: 46
21075973 GTTATTCATT
* * *
21075983 AGTGGTAGCTACAACTATATATTAGTGGTAGCTTCGACTACATTTC
1 AGTGGTAGCTACGACTATATATCAGTGGTAGCTTCGGCTACATTTC
* * *
21076029 AGTGGTAGCTACGGCTACATATCAGTGGTAGCTTCGGCTACATTTT
1 AGTGGTAGCTACGACTATATATCAGTGGTAGCTTCGGCTACATTTC
* * *
21076075 AGTGGTAGCTACGACTATGTATCAGTGGTAGCTTTGGCTACATATC
1 AGTGGTAGCTACGACTATATATCAGTGGTAGCTTCGGCTACATTTC
21076121 AGTG
1 AGTG
21076125 TGACACTTAT
Statistics
Matches: 84, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 84 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33
Consensus pattern (46 bp):
AGTGGTAGCTACGACTATATATCAGTGGTAGCTTCGGCTACATTTC
Found at i:21076120 original size:23 final size:23
Alignment explanation
Indices: 21075983--21076124 Score: 149
Period size: 23 Copynumber: 6.2 Consensus size: 23
21075973 GTTATTCATT
* ** * *
21075983 AGTGGTAGCTACAACTATATATT
1 AGTGGTAGCTTCGGCTACATATC
* *
21076006 AGTGGTAGCTTCGACTACATTTC
1 AGTGGTAGCTTCGGCTACATATC
*
21076029 AGTGGTAGCTACGGCTACATATC
1 AGTGGTAGCTTCGGCTACATATC
* *
21076052 AGTGGTAGCTTCGGCTACATTTT
1 AGTGGTAGCTTCGGCTACATATC
* * **
21076075 AGTGGTAGCTACGACTATGTATC
1 AGTGGTAGCTTCGGCTACATATC
*
21076098 AGTGGTAGCTTTGGCTACATATC
1 AGTGGTAGCTTCGGCTACATATC
21076121 AGTG
1 AGTG
21076125 TGACACTTAT
Statistics
Matches: 97, Mismatches: 22, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 97 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33
Consensus pattern (23 bp):
AGTGGTAGCTTCGGCTACATATC
Found at i:21077334 original size:49 final size:49
Alignment explanation
Indices: 21077277--21077409 Score: 185
Period size: 49 Copynumber: 2.7 Consensus size: 49
21077267 CAATAAGTGA
* *
21077277 TATGTGATTTCGTGTAAAACCATAGCTGGGCTATGACATCGGTATATGT
1 TATGTGATTACGTGTAAGACCATAGCTGGGCTATGACATCGGTATATGT
* * * *
21077326 TATGTGATTACTTATAAGAGCATAGCTGGGCTATGGCATCGGTATATGT
1 TATGTGATTACGTGTAAGACCATAGCTGGGCTATGACATCGGTATATGT
* * *
21077375 TATGTGATTACGTGTAAGACTATAGTTGGACTATG
1 TATGTGATTACGTGTAAGACCATAGCTGGGCTATG
21077410 GGATTGAGAA
Statistics
Matches: 72, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
49 72 1.00
ACGTcount: A:0.27, C:0.12, G:0.26, T:0.35
Consensus pattern (49 bp):
TATGTGATTACGTGTAAGACCATAGCTGGGCTATGACATCGGTATATGT
Found at i:21078313 original size:29 final size:29
Alignment explanation
Indices: 21078267--21078324 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
21078257 CACTCATATC
**
21078267 TACTTAATTTACTGTTTAACATTTAGCAT
1 TACTTAATTTACCATTTAACATTTAGCAT
21078296 TACTTAATTTACCATTTAACATTTAGCAT
1 TACTTAATTTACCATTTAACATTTAGCAT
21078325 CATAAGCCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.33, C:0.16, G:0.05, T:0.47
Consensus pattern (29 bp):
TACTTAATTTACCATTTAACATTTAGCAT
Found at i:21079906 original size:33 final size:33
Alignment explanation
Indices: 21079851--21079964 Score: 138
Period size: 33 Copynumber: 3.4 Consensus size: 33
21079841 ATATTGTCAG
* * *
21079851 TCCAACCAAACGCATCAGATGCTCACAAGAGCCAA
1 TCCAACC-AACACATCA-ATGCTCATAAGAGCTAA
** *
21079886 TCCCTCCAACACATCAATGCTCATAAGAGTTAA
1 TCCAACCAACACATCAATGCTCATAAGAGCTAA
* *
21079919 TCCAACTAACACACCAATGCTCATAAGAGCTAA
1 TCCAACCAACACATCAATGCTCATAAGAGCTAA
21079952 TCCAACCAACACA
1 TCCAACCAACACA
21079965 CCAAACAGAG
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
33 54 0.81
34 8 0.12
35 5 0.07
ACGTcount: A:0.40, C:0.33, G:0.10, T:0.17
Consensus pattern (33 bp):
TCCAACCAACACATCAATGCTCATAAGAGCTAA
Found at i:21081826 original size:40 final size:39
Alignment explanation
Indices: 21081799--21081913 Score: 149
Period size: 40 Copynumber: 2.9 Consensus size: 39
21081789 ATTTAAGGGC
* *
21081799 ACCAAAGTATAAACAGGGCCACATATGTGCAATGAGGGGT
1 ACCAAAGTACAAACAGGG-CACATATGTGCAATCAGGGGT
* * *
21081839 GCCAGAGTACAAACAAGGGAACATATGTGCAATCAGGGGT
1 ACCAAAGTACAAAC-AGGGCACATATGTGCAATCAGGGGT
*
21081879 ACCAATGTACAAACAGGGGCACATATGTGCAATCA
1 ACCAAAGTACAAACA-GGGCACATATGTGCAATCA
21081914 TACAATAATT
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
39 1 0.02
40 59 0.92
41 4 0.06
ACGTcount: A:0.38, C:0.19, G:0.26, T:0.17
Consensus pattern (39 bp):
ACCAAAGTACAAACAGGGCACATATGTGCAATCAGGGGT
Found at i:21081895 original size:20 final size:20
Alignment explanation
Indices: 21081845--21081906 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
21081835 GGGTGCCAGA
*
21081845 GTACAAACAAGGGAACATAT
1 GTACAAACAGGGGAACATAT
* * *
21081865 GTGCAATCAGGGGTACCA-AT
1 GTACAAACAGGGG-AACATAT
*
21081885 GTACAAACAGGGGCACATAT
1 GTACAAACAGGGGAACATAT
21081905 GT
1 GT
21081907 GCAATCATAC
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
19 2 0.06
20 27 0.84
21 3 0.09
ACGTcount: A:0.39, C:0.18, G:0.26, T:0.18
Consensus pattern (20 bp):
GTACAAACAGGGGAACATAT
Found at i:21082118 original size:14 final size:14
Alignment explanation
Indices: 21082098--21082140 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
21082088 TCTATATGGT
21082098 AATTAAATACATTC
1 AATTAAATACATTC
*
21082112 TATTAAATTCACATTC
1 AATTAAA-T-ACATTC
*
21082128 AATTTAATACATT
1 AATTAAATACATT
21082141 TAACCCTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
14 11 0.46
15 2 0.08
16 11 0.46
ACGTcount: A:0.44, C:0.14, G:0.00, T:0.42
Consensus pattern (14 bp):
AATTAAATACATTC
Found at i:21089564 original size:164 final size:163
Alignment explanation
Indices: 21089282--21089607 Score: 451
Period size: 164 Copynumber: 2.0 Consensus size: 163
21089272 TTTCGAAACG
* *
21089282 AAATTTTTATAGACACTACTAAATTACTGTAGATATTAAAATAATAATAAAATTAATATTTCCAC
1 AAATTTTTATAGACACTACTAAATTACTGTAGACATTAAAATAATAATAAAATAAATATTTCCAC
* *
21089347 ATCAAATTTGAGGTCCCAAAACCACTTTTCTAATTTCACTAAAAATGGGCTGTTACAACGGTGAT
66 ATCAAATTTGAGGTCCCAAAACCACTTTTCGAATTTCACTAAAAATGGGCTGTTACAACAGTGAT
* *
21089412 ACACTCGACCGAATAAACCCTCTATCTTTAACA
131 ACACTCAACAGAATAAACCCTCTATCTTTAACA
*
21089445 AAATTTTTATACGACACTACTAACATT-CTGTAGACATTAAAATAATAATAAAATAAATATTTTC
1 AAATTTTTATA-GACACTACTAA-ATTACTGTAGACATTAAAATAATAATAAAATAAATATTTCC
* * * * * * * *
21089509 GCATTAGATTTGTGGTCCTAAAATCATTGTTTCG-ATATT-ACTAAAAATGGGCTGTTACAATAG
64 ACATCAAATTTGAGGTCCCAAAACCACT-TTTCGAAT-TTCACTAAAAATGGGCTGTTACAACAG
*
21089572 TGATACACTCAATAGAATAAACCCTCTATCTTTAAC
127 TGATACACTCAACAGAATAAACCCTCTATCTTTAAC
21089608 TCTTTGAGCT
Statistics
Matches: 143, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
163 11 0.08
164 123 0.86
165 9 0.06
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (163 bp):
AAATTTTTATAGACACTACTAAATTACTGTAGACATTAAAATAATAATAAAATAAATATTTCCAC
ATCAAATTTGAGGTCCCAAAACCACTTTTCGAATTTCACTAAAAATGGGCTGTTACAACAGTGAT
ACACTCAACAGAATAAACCCTCTATCTTTAACA
Found at i:21092762 original size:11 final size:10
Alignment explanation
Indices: 21092734--21092788 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 10
21092724 AATTAAAATG
21092734 TTAAAATAAA
1 TTAAAATAAA
*
21092744 TTTAAATAAA
1 TTAAAATAAA
21092754 TTAACAAT--A
1 TTAA-AATAAA
* *
21092763 TTGAAATAAG
1 TTAAAATAAA
*
21092773 TTGAAATAAA
1 TTAAAATAAA
21092783 TTAAAA
1 TTAAAA
21092789 AATGTTAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
8 3 0.08
9 4 0.11
10 26 0.72
11 3 0.08
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (10 bp):
TTAAAATAAA
Found at i:21092805 original size:29 final size:29
Alignment explanation
Indices: 21092724--21092807 Score: 93
Period size: 29 Copynumber: 2.9 Consensus size: 29
21092714 ATAATATATG
21092724 AATT-AAAATGTTAAAATAAATTT-AAATA
1 AATTAAAAATGTTAAAAT-AATTTGAAATA
* * * *
21092752 AATTAACAATATTGAAATAAGTTGAAATA
1 AATTAAAAATGTTAAAATAATTTGAAATA
21092781 AATTAAAAAATGTTAAAAT-ATTTGAAA
1 AATT-AAAAATGTTAAAATAATTTGAAA
21092808 GAGATAAAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
28 8 0.18
29 26 0.58
30 11 0.24
ACGTcount: A:0.58, C:0.01, G:0.07, T:0.33
Consensus pattern (29 bp):
AATTAAAAATGTTAAAATAATTTGAAATA
Found at i:21094885 original size:50 final size:50
Alignment explanation
Indices: 21094831--21095713 Score: 604
Period size: 50 Copynumber: 17.7 Consensus size: 50
21094821 TACACCTCCT
* * * * *
21094831 GGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCA
1 GGGAAGTAAGATTCACCGATGTGGCTTTAATCTGTTTAACTGCAATGTCA
* * *** * *
21094881 GGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCGCTG-TATCGCCTA
1 GGGAAGTAAGATTCACCGATGTGGCTTTAATCTGTTTAACTGCAAT-GTC-A
* * *
21094932 GGG-GGTAAGATTCGCC-ACTGTGGCTTTAATCTTTTTAACTGCAATGTC-
1 GGGAAGTAAGATTCACCGA-TGTGGCTTTAATCTGTTTAACTGCAATGTCA
* ** ** * *
21094980 GGGAAAGCAAGATTCACCGATGT-GCTTTTAATCTACTCCACGGC-ATCGCCA
1 GGG-AAGTAAGATTCACCGATGTGGC-TTTAATCTGTTTAACTGCAAT-GTCA
* * * * * *
21095031 GGGCAGTAGGATTCACC-ACTGTGGCTTTAATCTTTTTAATTGTAATGTCG
1 GGGAAGTAAGATTCACCGA-TGTGGCTTTAATCTGTTTAACTGCAATGTCA
* * ** **
21095081 GGGAAGCAATATTCACCGATGTGGCTTTAATCTGTTCCACTGC-ATCACCA
1 GGGAAGTAAGATTCACCGATGTGGCTTTAATCTGTTTAACTGCAAT-GTCA
* * * * * *
21095131 GGGCAGTAGGATTCGCCGCTGTGGCTTTAATCTTTTTAACTGCAATGTCG
1 GGGAAGTAAGATTCACCGATGTGGCTTTAATCTGTTTAACTGCAATGTCA
* * **
21095181 GGGAA-TAAGATTCACCGATGTGGTTTTAATCTGCTCCAC-G-ACATCG-CTA
1 GGGAAGTAAGATTCACCGATGTGGCTTTAATCTGTTTAACTGCA-AT-GTC-A
** * * * * *
21095230 GGGCTGTAGGATTCACCGCTGTGGCTTTAATCTTTTTAACTGTAATGTCG
1 GGGAAGTAAGATTCACCGATGTGGCTTTAATCTGTTTAACTGCAATGTCA
* * ** *
21095280 GGGAAGCAAGATTCACCAATGTGGCTTTAATCTGTTCCACTGC-ATCGCCA
1 GGGAAGTAAGATTCACCGATGTGGCTTTAATCTGTTTAACTGCAAT-GTCA
* * ** * * *
21095330 GGGCAGTAGGATTTGCCGCTGTGGCTTTAATCTTTTTAACTGCAATGTCG
1 GGGAAGTAAGATTCACCGATGTGGCTTTAATCTGTTTAACTGCAATGTCA
* * ** ** *
21095380 GGGAAGCAAGATTTACCGATGTGGCTTTAATCTGTTCCACTGCACCGCCA
1 GGGAAGTAAGATTCACCGATGTGGCTTTAATCTGTTTAACTGCAATGTCA
* ** * * *
21095430 GGGAAGTAAGGTTTGCCGCTGTGGCTTTAATCTTTTTAACTGCAATGTCG
1 GGGAAGTAAGATTCACCGATGTGGCTTTAATCTGTTTAACTGCAATGTCA
** * * ** ** *
21095480 GGGAAGCGAGATTCACTGATGTGGCTTTAATCTGCTCCACTGCACCGCCA
1 GGGAAGTAAGATTCACCGATGTGGCTTTAATCTGTTTAACTGCAATGTCA
** * * * *
21095530 GGGAAGTAAGATTTGCCGCTGTGGCTTTAATCTTTTTAACTGTAATGTCG
1 GGGAAGTAAGATTCACCGATGTGGCTTTAATCTGTTTAACTGCAATGTCA
** * ** * *
21095580 GGGAAGCGAGATTCACCGATGTGGCTTTAATCTGCTCCACTGCACTGCCA
1 GGGAAGTAAGATTCACCGATGTGGCTTTAATCTGTTTAACTGCAATGTCA
* * * * * * **
21095630 AGGAAGTAGGATTCGCCGCTGTGGCTTTAATCTTTTTAACTGTAATGTTG
1 GGGAAGTAAGATTCACCGATGTGGCTTTAATCTGTTTAACTGCAATGTCA
*
21095680 GGGAAGCAAGATTCACCGATGTGGCTTTAATCTG
1 GGGAAGTAAGATTCACCGATGTGGCTTTAATCTG
21095714 CTCCACTGCA
Statistics
Matches: 612, Mismatches: 196, Indels: 50
0.71 0.23 0.06
Matches are distributed among these distances:
47 1 0.00
48 7 0.01
49 41 0.07
50 539 0.88
51 23 0.04
52 1 0.00
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.32
Consensus pattern (50 bp):
GGGAAGTAAGATTCACCGATGTGGCTTTAATCTGTTTAACTGCAATGTCA
Found at i:21094940 original size:100 final size:100
Alignment explanation
Indices: 21094755--21095723 Score: 1266
Period size: 100 Copynumber: 9.7 Consensus size: 100
21094745 TAACTAGTAA
* ** ** * * * * * *
21094755 CTTTAATCTGTTTAACTGTGATGTCAAGGAAGCAAGATTCGCTGTTCTAGCTTCAATCTGTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
* * * * * * * * *
21094820 CTACACCTCCTGGGAAGTAAGATTCGCTGTTGTAG
66 CTGCATCGCCAGGGCAGTAGGATTCGCCGCTGTGG
* * *
21094855 CTTTAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCG
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
* * * *
21094920 CTGTATCGCCTAGGG-GGTAAGATTCGCCACTGTGG
66 CTGCATCGCC-AGGGCAGTAGGATTCGCCGCTGTGG
* **
21094955 CTTTAATCTTTTTAACTGCAATGTCGGGAAAGCAAGATTCACCGATGT-GCTTTTAATCTACTCC
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGC-TTTAATCTGTTCC
* * *
21095019 ACGGCATCGCCAGGGCAGTAGGATTCACCACTGTGG
65 ACTGCATCGCCAGGGCAGTAGGATTCGCCGCTGTGG
* * *
21095055 CTTTAATCTTTTTAATTGTAATGTCGGGGAAGCAATATTCACCGATGTGGCTTTAATCTGTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
*
21095120 CTGCATCACCAGGGCAGTAGGATTCGCCGCTGTGG
66 CTGCATCGCCAGGGCAGTAGGATTCGCCGCTGTGG
* * *
21095155 CTTTAATCTTTTTAACTGCAATGTCGGGGAA-TAAGATTCACCGATGTGGTTTTAATCTGCTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
* * *
21095219 C-GACATCGCTAGGGCTGTAGGATTCACCGCTGTGG
66 CTG-CATCGCCAGGGCAGTAGGATTCGCCGCTGTGG
* *
21095254 CTTTAATCTTTTTAACTGTAATGTCGGGGAAGCAAGATTCACCAATGTGGCTTTAATCTGTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
*
21095319 CTGCATCGCCAGGGCAGTAGGATTTGCCGCTGTGG
66 CTGCATCGCCAGGGCAGTAGGATTCGCCGCTGTGG
*
21095354 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTTACCGATGTGGCTTTAATCTGTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
* * *
21095419 CTGCACCGCCAGGGAAGTAAGG-TTTGCCGCTGTGG
66 CTGCATCGCCAGGGCAGT-AGGATTCGCCGCTGTGG
* * *
21095454 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCGAGATTCACTGATGTGGCTTTAATCTGCTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
* * * *
21095519 CTGCACCGCCAGGGAAGTAAGATTTGCCGCTGTGG
66 CTGCATCGCCAGGGCAGTAGGATTCGCCGCTGTGG
* * *
21095554 CTTTAATCTTTTTAACTGTAATGTCGGGGAAGCGAGATTCACCGATGTGGCTTTAATCTGCTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
* *
21095619 CTGCA-CTGCCAAGGAAGTAGGATTCGCCGCTGTGG
66 CTGCATC-GCCAGGGCAGTAGGATTCGCCGCTGTGG
* * *
21095654 CTTTAATCTTTTTAACTGTAATGTTGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGCTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
21095719 CTGCA
66 CTGCA
21095724 CTGCCTGAGA
Statistics
Matches: 782, Mismatches: 77, Indels: 20
0.89 0.09 0.02
Matches are distributed among these distances:
98 1 0.00
99 97 0.12
100 675 0.86
101 9 0.01
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (100 bp):
CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
CTGCATCGCCAGGGCAGTAGGATTCGCCGCTGTGG
Found at i:21095839 original size:44 final size:44
Alignment explanation
Indices: 21095762--21096134 Score: 204
Period size: 44 Copynumber: 8.0 Consensus size: 44
21095752 TTCGGTCTAT
* * * *
21095762 TCCACCGTAATCTCAGGGAAATAGGATTACTGGCTTCAATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGC
*
21095806 TCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATC
1 TCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATC---T--G--C
* * * * *
21095857 TACTCTACTGTAA-CTTCAGAGATATAAGACCATTTAT---TTTAATCCGC
1 T-C-C-ACTGTAATC-TCAGGGAGATAAG---ATTTCTGGCTTCAATCTGC
* *
21095904 TCCACTGTAATCTCAGGGAGATAGGATTACTGGCTTCAATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGC
* * *
21095948 TCCGCTGTAATCCCAGGGAGATAAAATTTCTGGCTTCAATCTGATGCGATC
1 TCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATC---T--G--C
* * * *
21095999 TACTCTACTGTAA-CTTTAGAGAGATAAGATCCTTCAT---TTTAATCCGC
1 T-C-C-ACTGTAATC-TCAGGGAGATAAGAT--TTC-TGGCTTCAATCTGC
* * * * **
21096046 TCCACAGTAATCTTAGGGAGATAGGATTACAAGCTTCAATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGC
*
21096090 TCCACTGTAATCTCAGGGAGATAAGATTTCTTGCTTCAATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGC
21096134 T
1 T
21096135 TCTTTTCACT
Statistics
Matches: 250, Mismatches: 43, Indels: 72
0.68 0.12 0.20
Matches are distributed among these distances:
41 4 0.02
42 2 0.01
44 163 0.65
45 4 0.02
46 2 0.01
47 6 0.02
49 4 0.02
51 4 0.02
52 2 0.01
53 4 0.02
54 46 0.18
56 3 0.01
57 6 0.02
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (44 bp):
TCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGC
Found at i:21095929 original size:142 final size:142
Alignment explanation
Indices: 21095762--21096132 Score: 609
Period size: 142 Copynumber: 2.6 Consensus size: 142
21095752 TTCGGTCTAT
* *
21095762 TCCACCGTAATCTCAGGGAAATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGA
1 TCCACAGTAATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGA
*
21095827 TAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGATATAAGA-CCATT
66 TAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCC-TT
*
21095891 TATTTTAATCCGC
130 CATTTTAATCCGC
* *
21095904 TCCACTGTAATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCCCAGGGAGA
1 TCCACAGTAATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGA
* *
21095969 TAAAATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTTAGAGAGATAAGATCCTTC
66 TAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTC
21096034 ATTTTAATCCGC
131 ATTTTAATCCGC
* ** *
21096046 TCCACAGTAATCTTAGGGAGATAGGATTACAAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGA
1 TCCACAGTAATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGA
*
21096111 TAAGATTTCTTGCTTCAATCTG
66 TAAGATTTCTGGCTTCAATCTG
21096133 CTTCTTTTCA
Statistics
Matches: 213, Mismatches: 15, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
142 211 0.99
143 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (142 bp):
TCCACAGTAATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGA
TAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTC
ATTTTAATCCGC
Found at i:21102633 original size:19 final size:19
Alignment explanation
Indices: 21102588--21102635 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
21102578 TCAAAATAAT
* *
21102588 AATATATT-ATAATATTGA
1 AATATATTAATAAAATTAA
21102606 AATAGTATTAATAAAATTAA
1 AATA-TATTAATAAAATTAA
21102626 AATATATTAA
1 AATATATTAA
21102636 ACTTAAACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 4 0.15
19 10 0.38
20 12 0.46
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (19 bp):
AATATATTAATAAAATTAA
Found at i:21103285 original size:21 final size:20
Alignment explanation
Indices: 21103256--21103301 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
21103246 CGAAAAACAA
21103256 TCAACCTAACA-TGAATTAAAT
1 TCAACCTAA-ATTG-ATTAAAT
*
21103277 TCAAGCTAAATTGATTAAAT
1 TCAACCTAAATTGATTAAAT
21103297 T-AACC
1 TCAACC
21103302 ATTCCAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.30
Consensus pattern (20 bp):
TCAACCTAAATTGATTAAAT
Found at i:21112576 original size:30 final size:30
Alignment explanation
Indices: 21112519--21112580 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
21112509 GTTTTTTGAA
*
21112519 AATATTTACAAAAAGAGGCATCTAATTTTT
1 AATATTTACAAAAAGAGGCATCAAATTTTT
* *
21112549 AATATTTACAAAAGGA-GTAGTCAAATTTTT
1 AATATTTACAAAAAGAGGCA-TCAAATTTTT
21112579 AA
1 AA
21112581 AAATAATTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 2 0.07
30 26 0.93
ACGTcount: A:0.45, C:0.08, G:0.11, T:0.35
Consensus pattern (30 bp):
AATATTTACAAAAAGAGGCATCAAATTTTT
Found at i:21119093 original size:9 final size:9
Alignment explanation
Indices: 21119081--21119106 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
21119071 ACATAAACAC
21119081 AATTTTAAT
1 AATTTTAAT
21119090 AATTTTAAT
1 AATTTTAAT
21119099 AATTTTAA
1 AATTTTAA
21119107 CAAACGAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (9 bp):
AATTTTAAT
Found at i:21127117 original size:10 final size:10
Alignment explanation
Indices: 21127104--21127136 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
21127094 TACATCATTG
21127104 AATTAATCAA
1 AATTAATCAA
21127114 AATTAATCAA
1 AATTAATCAA
*
21127124 AATTAAACAA
1 AATTAATCAA
21127134 AAT
1 AAT
21127137 ACAATTCATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.27
Consensus pattern (10 bp):
AATTAATCAA
Found at i:21131187 original size:27 final size:27
Alignment explanation
Indices: 21131157--21131534 Score: 334
Period size: 27 Copynumber: 14.1 Consensus size: 27
21131147 GGCAAATGAT
* *
21131157 CGAAATACCCTTGAAGGGTAAATTTAC
1 CGAAATACCCTCGAAGGGTAAAATTAC
* ** *
21131184 CGAAATATCCTTAAAGGGTAAAATGAC
1 CGAAATACCCTCGAAGGGTAAAATTAC
* * *
21131211 AGAAATACCCTTGAAGGGTAAAATGAC
1 CGAAATACCCTCGAAGGGTAAAATTAC
* *
21131238 TGAAATATCCTCGAAGGGTAAAATTAC
1 CGAAATACCCTCGAAGGGTAAAATTAC
* *
21131265 CAAAATACCCTCGATGGGT-AAATTAC
1 CGAAATACCCTCGAAGGGTAAAATTAC
* *
21131291 C-AAATACCCTTGAAGGGTAAAATGAC
1 CGAAATACCCTCGAAGGGTAAAATTAC
* * *
21131317 CAAAATACCCTCTAAGGGTAAAATTAT
1 CGAAATACCCTCGAAGGGTAAAATTAC
* ** * * *
21131344 TGAAATATTCTCGATGGTTAAAATTAT
1 CGAAATACCCTCGAAGGGTAAAATTAC
* * *
21131371 CGAAATACCCTCGATGGGTAAAATAAT
1 CGAAATACCCTCGAAGGGTAAAATTAC
* *
21131398 C-AGAATACCCTCAAAAGGTAAAATTAC
1 CGA-AATACCCTCGAAGGGTAAAATTAC
* *
21131425 CGAAATACCCTCAAAAGGTAAAATTAC
1 CGAAATACCCTCGAAGGGTAAAATTAC
* *
21131452 CAAAATACCC-CTTAAGGGTAAAATTAC
1 CGAAATACCCTC-GAAGGGTAAAATTAC
* * * *
21131479 CAAAATACCCCCAAAAGGTAAAATTAC
1 CGAAATACCCTCGAAGGGTAAAATTAC
* * *
21131506 CAAAATACCAC-CAAAGGGTAAAATAAC
1 CGAAATACC-CTCGAAGGGTAAAATTAC
21131533 CG
1 CG
21131535 TTATACCCCT
Statistics
Matches: 297, Mismatches: 47, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
25 15 0.05
26 17 0.06
27 262 0.88
28 3 0.01
ACGTcount: A:0.44, C:0.19, G:0.15, T:0.22
Consensus pattern (27 bp):
CGAAATACCCTCGAAGGGTAAAATTAC
Found at i:21133892 original size:23 final size:23
Alignment explanation
Indices: 21133866--21133912 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
21133856 TACACATGCC
21133866 ATAATTCATAATATTGCTTTCAA
1 ATAATTCATAATATTGCTTTCAA
21133889 ATAATTCATAATATTGCTTTCAA
1 ATAATTCATAATATTGCTTTCAA
21133912 A
1 A
21133913 ATACCAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.13, G:0.04, T:0.43
Consensus pattern (23 bp):
ATAATTCATAATATTGCTTTCAA
Found at i:21137525 original size:50 final size:50
Alignment explanation
Indices: 21137365--21137551 Score: 189
Period size: 50 Copynumber: 3.7 Consensus size: 50
21137355 GGTAAAGAGA
* **
21137365 TCCCATGTAAGACCATTTCTGGGACATGGCATTGGCACCGAGT-TGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA-TATGAGAAC
* * * * * **
21137415 TCCGATGGAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATAAGAGGT
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATATGAGA-AC
* * *
21137466 TCCC-CGTAAGACCATGTCTGGGACATGGCATGGGCACTGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATATGAGAAC
* * * *
21137515 TCCCATGTAAGACCATATTTGGGATATGGAATTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
21137552 GTACAGAAAA
Statistics
Matches: 111, Mismatches: 23, Indels: 6
0.79 0.16 0.04
Matches are distributed among these distances:
49 4 0.04
50 103 0.93
51 4 0.04
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATATGAGAAC
Found at i:21137550 original size:100 final size:100
Alignment explanation
Indices: 21137371--21137551 Score: 238
Period size: 100 Copynumber: 1.8 Consensus size: 100
21137361 GAGATCCCAT
* * ** * *
21137371 GTAAGACCATTTCTGGGACATGGCATTGGCACCGAGTTGAGAGGTCCGATGGAAGACCATGTCTG
1 GTAAGACCATGTCTGGGACATGGCATGGGCACCGAGTTGAGAACTCCCATGGAAGACCATATCTG
**
21137436 GGACATGGCGTTGGCACCGAGATAAGAGGTTCCCC
66 GGACATGGAATTGGCACCGAGATAAGAGGTTCCCC
* * *
21137471 GTAAGACCATGTCTGGGACATGGCATGGGCACTGA-TATGAGAACTCCCATGTAAGACCATATTT
1 GTAAGACCATGTCTGGGACATGGCATGGGCACCGAGT-TGAGAACTCCCATGGAAGACCATATCT
*
21137535 GGGATATGGAATTGGCA
65 GGGACATGGAATTGGCA
21137552 GTACAGAAAA
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
99 1 0.01
100 67 0.99
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.23
Consensus pattern (100 bp):
GTAAGACCATGTCTGGGACATGGCATGGGCACCGAGTTGAGAACTCCCATGGAAGACCATATCTG
GGACATGGAATTGGCACCGAGATAAGAGGTTCCCC
Found at i:21144741 original size:49 final size:49
Alignment explanation
Indices: 21144629--21144957 Score: 243
Period size: 49 Copynumber: 6.8 Consensus size: 49
21144619 TCATTGAGAT
* *
21144629 TATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCACT-G-A-G-
1 TATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACGA
* ** *
21144674 T-TGAGAGGTCCCCCGTAAGA-CATGTCTGGGACATGGCATGGGCACCGA
1 TATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CGA
* * * * *
21144722 TATGAGAACTCCCATGTAAGACCATATTTGGGATATGGCATTGGTA-G-
1 TATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACGA
** * *
21144769 TACAAAAAATGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGA
1 TA-TGAGAA-GTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAC-GA
* **
21144821 GT-TGAGAGGTCCCCCGTAAGA-CATGTCTGGGACATGGCA-TGGACACCGA
1 -TATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGCATTGG-CA-CGA
* * * *
21144870 TATGAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGTA-G-
1 TATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACGA
** * * *
21144917 TACAAAAAACATCCCATGTTAGACCATGTCTGGGACATGGC
1 TA-TGAGAA-GTCCCATGTAAGACCATGTCTGGGACATGGC
21144958 TTTTTCATGT
Statistics
Matches: 221, Mismatches: 43, Indels: 36
0.74 0.14 0.12
Matches are distributed among these distances:
43 18 0.08
44 18 0.08
45 2 0.01
47 5 0.02
48 13 0.06
49 110 0.50
50 48 0.22
51 6 0.03
53 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (49 bp):
TATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACGA
Found at i:21144827 original size:99 final size:95
Alignment explanation
Indices: 21144573--21144859 Score: 258
Period size: 99 Copynumber: 3.0 Consensus size: 95
21144563 TGACATTTGG
* * **
21144573 GTAAAGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGG
1 GTAAAAAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--TGAG--TATGAGAAC
*
21144638 TCCCATGTAAGACCATGTCTGGGACATGGCACTGA
61 TCCCATGTAAGACCATATCTGGGACATGGCACTGA
** * ** * *
21144673 GTTGAGAGGTCCCCCGTAAGA-CATGTCTGGGACATGGCATGGGCACCGA-TATGAGAACTCCCA
1 GTAAAAAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGTATGAGAACTCCCA
* * *
21144736 TGTAAGACCATATTTGGGATATGGCATTGGTA
66 TGTAAGACCATATCTGGGACATGGCACT-G-A
* * **
21144768 GTACAAAAAATGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGT-TGAGAGGTC
1 GT---AAAAAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGTATGAGAACTC
** *
21144832 CCCCGTAAGA-CATGTCTGGGACATGGCA
63 CCATGTAAGACCATATCTGGGACATGGCA
21144860 TGGACACCGA
Statistics
Matches: 151, Mismatches: 29, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
93 36 0.24
94 1 0.01
95 3 0.02
96 2 0.01
98 29 0.19
99 63 0.42
100 17 0.11
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (95 bp):
GTAAAAAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGTATGAGAACTCCCA
TGTAAGACCATATCTGGGACATGGCACTGA
Found at i:21144851 original size:148 final size:146
Alignment explanation
Indices: 21144637--21144958 Score: 553
Period size: 148 Copynumber: 2.2 Consensus size: 146
21144627 ATTATGAGAG
21144637 GTCCCATGTAAGACCATGTCTGGGACA----TGGCACTGAGTTGAGAGGTCCCCCGTAAGACATG
1 GTCCCATGTAAGACCATGTCTGGGACATGGCTGGCACTGAGTTGAGAGGTCCCCCGTAAGACATG
* *
21144698 TCTGGGACATGGCATGGGCACCGATATGAGAACTCCCATGTAAGACCATATTTGGGATATGGCAT
66 TCTGGGACATGGCATGGACACCGATATGAGAACTCCCATGTAAGACCATATCTGGGATATGGCAT
*
21144763 TGGTAGTACAAAAAAT
131 TGGTAGTACAAAAAAC
21144779 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGTTGAGAGGTCCCCCGTAAGACA
1 GTCCCATGTAAGACCATGTCTGGGACATGGC--TGGCACTGAGTTGAGAGGTCCCCCGTAAGACA
21144844 TGTCTGGGACATGGCATGGACACCGATATGAGAACTCCCATGTAAGACCATATCTGGGATATGGC
64 TGTCTGGGACATGGCATGGACACCGATATGAGAACTCCCATGTAAGACCATATCTGGGATATGGC
21144909 ATTGGTAGTACAAAAAAC
129 ATTGGTAGTACAAAAAAC
* *
21144927 ATCCCATGTTAGACCATGTCTGGGACATGGCT
1 GTCCCATGTAAGACCATGTCTGGGACATGGCT
21144959 TTTTCATGTT
Statistics
Matches: 169, Mismatches: 5, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
142 27 0.16
146 1 0.01
148 141 0.83
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.23
Consensus pattern (146 bp):
GTCCCATGTAAGACCATGTCTGGGACATGGCTGGCACTGAGTTGAGAGGTCCCCCGTAAGACATG
TCTGGGACATGGCATGGACACCGATATGAGAACTCCCATGTAAGACCATATCTGGGATATGGCAT
TGGTAGTACAAAAAAC
Found at i:21156780 original size:25 final size:25
Alignment explanation
Indices: 21156761--21156891 Score: 147
Period size: 25 Copynumber: 5.3 Consensus size: 25
21156751 TAGCTCTTAT
* *
21156761 GAGCTTATAGTTATTCAGCTTGGAG
1 GAGCTTATCGTTATTCAGCTCGGAG
* * **
21156786 GAGCTTATCATTATTTAGCTC-GTT
1 GAGCTTATCGTTATTCAGCTCGGAG
* *
21156810 GAGCTTACCGTTATTCAGCTCGAAG
1 GAGCTTATCGTTATTCAGCTCGGAG
* * *
21156835 GAGTTTACCGTTATTCAGCTCGGAA
1 GAGCTTATCGTTATTCAGCTCGGAG
*
21156860 GAGCTTATCGTTATTCAGCTTGGAG
1 GAGCTTATCGTTATTCAGCTCGGAG
21156885 GAGCTTA
1 GAGCTTA
21156892 CTGTTTACAA
Statistics
Matches: 86, Mismatches: 19, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
24 19 0.22
25 67 0.78
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (25 bp):
GAGCTTATCGTTATTCAGCTCGGAG
Found at i:21156813 original size:49 final size:49
Alignment explanation
Indices: 21156741--21156891 Score: 169
Period size: 49 Copynumber: 3.1 Consensus size: 49
21156731 GACATTAGGG
* * *
21156741 TTATCAAT-TTTAGCTCTTATGAGCTTATAGTTATTCAGCTTGGAGGAGC
1 TTATCATTATTTAGCTCGT-TGAGCTTATCGTTATTCAGCTTGGAGGAGC
* * * *
21156790 TTATCATTATTTAGCTCGTTGAGCTTACCGTTATTCAGCTCGAAGGAGT
1 TTATCATTATTTAGCTCGTTGAGCTTATCGTTATTCAGCTTGGAGGAGC
* * * **
21156839 TTACCGTTATTCAGCTCGGAAGAGCTTATCGTTATTCAGCTTGGAGGAGC
1 TTATCATTATTTAGCTC-GTTGAGCTTATCGTTATTCAGCTTGGAGGAGC
21156889 TTA
1 TTA
21156892 CTGTTTACAA
Statistics
Matches: 84, Mismatches: 16, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
49 46 0.55
50 38 0.45
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.38
Consensus pattern (49 bp):
TTATCATTATTTAGCTCGTTGAGCTTATCGTTATTCAGCTTGGAGGAGC
Found at i:21163130 original size:25 final size:24
Alignment explanation
Indices: 21163051--21163135 Score: 75
Period size: 25 Copynumber: 3.4 Consensus size: 24
21163041 CGAGCTATAG
*
21163051 TCGGTAAGCTCATATGAGCTGAGTAA
1 TCGGTAAGCTCATACGAG-TGAG-AA
*
21163077 T-GGTAAGCTCATGCGAGTGA-AA
1 TCGGTAAGCTCATACGAGTGAGAA
*
21163099 TAACGGTAAGCTTATACGAGATGAGAA
1 T--CGGTAAGCTCATACGAG-TGAGAA
*
21163126 TCGGTCAGCT
1 TCGGTAAGCT
21163136 TTCACGAGTT
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
22 3 0.06
24 3 0.06
25 36 0.73
26 4 0.08
27 3 0.06
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.25
Consensus pattern (24 bp):
TCGGTAAGCTCATACGAGTGAGAA
Found at i:21166522 original size:24 final size:26
Alignment explanation
Indices: 21166474--21166522 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
21166464 ACATTCATTT
*
21166474 ATTGAAACATACTTATGAAAGAAATA
1 ATTGAAACATACTTATGAAAAAAATA
*
21166500 ATTGAAGCATAC-T-TGAAAAAAAT
1 ATTGAAACATACTTATGAAAAAAAT
21166523 TTAAAAGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 9 0.43
25 1 0.05
26 11 0.52
ACGTcount: A:0.53, C:0.08, G:0.12, T:0.27
Consensus pattern (26 bp):
ATTGAAACATACTTATGAAAAAAATA
Found at i:21175353 original size:45 final size:45
Alignment explanation
Indices: 21175261--21175355 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 45
21175251 TACTATGTGA
* * **
21175261 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGAGTTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGAGCTGAACCC
* *
21175306 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAACCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGAGCTGAACCC
21175351 ACCGA
1 ACCGA
21175356 GTATCTGTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.29
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGAGCTGAACCC
Found at i:21179450 original size:353 final size:353
Alignment explanation
Indices: 21178804--21179469 Score: 1152
Period size: 353 Copynumber: 1.9 Consensus size: 353
21178794 TGTACGGAAG
*
21178804 ATTAATAATGTGGTCGAAAAAGTGAATGAATTAGCAAATGAAGACAATATAAAAAGAGAGATATT
1 ATTAATAATGTGGTCGAAAAAGTAAATGAATTAGCAAATGAAGACAATATAAAAAGAGAGATATT
*
21178869 GGATAGTTCTGAAAACTACTCAGATTATGCAAAGTTACTGTCACAAAAGAAGTTAAATCTGATTA
66 GGATAGTTCTGAAAACTACTCAGATTATGCAAAGTTACTGTCACAAAAGAAGTTAAATCCGATTA
* *
21178934 AATGATTTATTTGGGTATGTTATTTAAAGAAAGAATTAACCAGAAGTTTTTCTAGATCGATTTCT
131 AATGATTTATTCGGGTATGTTATTTAAAGAAAGAATTAACCAGAAGTTTATCTAGATCGATTTCT
*
21178999 ATTAGTAAAGAGATAATTTGAAAATTCTGATGACAAAATTAGACAATTAAGTAATGATTGTATTG
196 ATTAGTAAAGAGATAATGTGAAAATTCTGATGACAAAATTAGACAATTAAGTAATGATTGTATTG
* * * *
21179064 TATTAATAACTTAGTACAATAGCTATAATGGGGTAATTACTATGATTCTTTTTGAAACTAAACAG
261 TATTAATAACTAAGTACAATAACTATAATGGGGTAACTACTATGATTCCTTTTGAAACTAAACAG
21179129 TCACATATACCTCTGAGGATAATTGTAC
326 TCACATATACCTCTGAGGATAATTGTAC
*
21179157 ATTAATAATGTGGTCGGAAAAGTAAATGAATTAGCAAATGAAGACAATATAAAAAGAGAGATATT
1 ATTAATAATGTGGTCGAAAAAGTAAATGAATTAGCAAATGAAGACAATATAAAAAGAGAGATATT
*
21179222 GGATAGTTCTGAAAACTACTCAGATTATGCAAAGTTACTGTCACAAAAGATGTTAAATCCGATTA
66 GGATAGTTCTGAAAACTACTCAGATTATGCAAAGTTACTGTCACAAAAGAAGTTAAATCCGATTA
* * *
21179287 AATTATTTATTCGGGTATGTTATTTAAAGAAAGAATTAACCGGAAGTTTATCTGGATCGATTTCT
131 AATGATTTATTCGGGTATGTTATTTAAAGAAAGAATTAACCAGAAGTTTATCTAGATCGATTTCT
* * *
21179352 GTTAGTAAAGAGATAATGTGAAAATTCTGATGACAGAATTAGACAATTAAGTAATGTTTGTATTG
196 ATTAGTAAAGAGATAATGTGAAAATTCTGATGACAAAATTAGACAATTAAGTAATGATTGTATTG
* * *
21179417 TATTAATAGCTAAGTATAGTAACTATAATGGGGTAACTACTATGATTCCTTTT
261 TATTAATAACTAAGTACAATAACTATAATGGGGTAACTACTATGATTCCTTTT
21179470 AGATATTCTG
Statistics
Matches: 293, Mismatches: 20, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
353 293 1.00
ACGTcount: A:0.40, C:0.09, G:0.18, T:0.33
Consensus pattern (353 bp):
ATTAATAATGTGGTCGAAAAAGTAAATGAATTAGCAAATGAAGACAATATAAAAAGAGAGATATT
GGATAGTTCTGAAAACTACTCAGATTATGCAAAGTTACTGTCACAAAAGAAGTTAAATCCGATTA
AATGATTTATTCGGGTATGTTATTTAAAGAAAGAATTAACCAGAAGTTTATCTAGATCGATTTCT
ATTAGTAAAGAGATAATGTGAAAATTCTGATGACAAAATTAGACAATTAAGTAATGATTGTATTG
TATTAATAACTAAGTACAATAACTATAATGGGGTAACTACTATGATTCCTTTTGAAACTAAACAG
TCACATATACCTCTGAGGATAATTGTAC
Found at i:21179792 original size:2 final size:2
Alignment explanation
Indices: 21179785--21179816 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
21179775 CTTTCTAGGC
21179785 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21179817 TATCATCGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21181227 original size:51 final size:51
Alignment explanation
Indices: 21181142--21181329 Score: 297
Period size: 51 Copynumber: 3.7 Consensus size: 51
21181132 AGTGAAAGTG
* * * *
21181142 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT-
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTA
* * *
21181192 TTCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTA
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTA
21181244 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTA
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTA
21181295 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
21181330 TGTGAACCGA
Statistics
Matches: 126, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
50 1 0.01
51 124 0.98
52 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.31
Consensus pattern (51 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTA
Found at i:21181309 original size:25 final size:25
Alignment explanation
Indices: 21181229--21181309 Score: 62
Period size: 25 Copynumber: 3.2 Consensus size: 25
21181219 AGGCTACTAC
21181229 GTGTATCGGATGGTAATGGTCACAT
1 GTGTATCGGATGGTAATGGTCACAT
* * *
21181254 GTGTAGTAC-TAT-GTGCA-GG-CTACTAC
1 GTGTA-T-CGGATGGT-AATGGTC-AC-AT
21181280 GTGTATCGGATGGTAATGGTCACAT
1 GTGTATCGGATGGTAATGGTCACAT
21181305 GTGTA
1 GTGTA
21181310 GTACTATGTG
Statistics
Matches: 41, Mismatches: 6, Indels: 18
0.63 0.09 0.28
Matches are distributed among these distances:
24 2 0.05
25 21 0.51
26 16 0.39
27 2 0.05
ACGTcount: A:0.23, C:0.14, G:0.31, T:0.32
Consensus pattern (25 bp):
GTGTATCGGATGGTAATGGTCACAT
Found at i:21181426 original size:45 final size:45
Alignment explanation
Indices: 21181335--21181429 Score: 120
Period size: 45 Copynumber: 2.1 Consensus size: 45
21181325 TACTATGTGA
* ** *
21181335 ACCGAACATCTTTGATTAGTAAGGTGGTTGCTATGTGCTAATTCC
1 ACCGAACATCATTGATTAACAAGGTGGTTGCTATGTGATAATTCC
* *
21181380 ACCGTACATCATTGATTAACAATGTGGTTGCTATGTGATGAA-TCC
1 ACCGAACATCATTGATTAACAAGGTGGTTGCTATGTGAT-AATTCC
21181425 ACCGA
1 ACCGA
21181430 GTATCTATTA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
45 40 0.95
46 2 0.05
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (45 bp):
ACCGAACATCATTGATTAACAAGGTGGTTGCTATGTGATAATTCC
Found at i:21184236 original size:50 final size:50
Alignment explanation
Indices: 21184179--21184364 Score: 205
Period size: 50 Copynumber: 3.7 Consensus size: 50
21184169 TTGGTTCACA
* * *
21184179 TAGTAGCCTGCACATAGTACTAC-CATGTGACCATTACCATCTGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATCCGGTACACG
* * * * *
21184229 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAACTATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATCCGGTACACG
* * * *
21184280 TAGTAGCCTGCACATAGTACTACAGATGCGACC-TATCATTCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATACCA-TCCGGTACACG
* *
21184330 TAGTAGCTTGCACATAGTACAACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
21184365 CACTTTCACT
Statistics
Matches: 110, Mismatches: 22, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
49 2 0.02
50 61 0.55
51 45 0.41
52 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATACCATCCGGTACACG
Found at i:21184355 original size:101 final size:100
Alignment explanation
Indices: 21184177--21184360 Score: 271
Period size: 101 Copynumber: 1.8 Consensus size: 100
21184167 GTTTGGTTCA
* *
21184177 CATAGTAGCCTGCACATAGTACTACCATGTGACCATTACCATCTGATACACGTAGTAGCCTGCAC
1 CATAGTAGCCTGCACATAGTACTACCATGCGACCA-TACCATCCGATACACGTAGTAGCCTGCAC
*
21184242 ATAGTACTACACACGTGATCGAAACTATCCGGTACG
65 ATAGTACAACACACGTGATCGAAACTATCCGGTACG
* * * *
21184278 CATAGTAGCCTGCACATAGTACTACAGATGCGACC-TATCATTCCGGTACACGTAGTAGCTTGCA
1 CATAGTAGCCTGCACATAGTACTAC-CATGCGACCATACCA-TCCGATACACGTAGTAGCCTGCA
21184342 CATAGTACAACACACGTGA
64 CATAGTACAACACACGTGA
21184361 CCATCACTTT
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
100 4 0.05
101 63 0.85
102 7 0.09
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.23
Consensus pattern (100 bp):
CATAGTAGCCTGCACATAGTACTACCATGCGACCATACCATCCGATACACGTAGTAGCCTGCACA
TAGTACAACACACGTGATCGAAACTATCCGGTACG
Found at i:21184555 original size:19 final size:19
Alignment explanation
Indices: 21184531--21184573 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
21184521 CTTTCTTGAT
21184531 TTATAACAATACATTTAAC
1 TTATAACAATACATTTAAC
*
21184550 TTATAACAATACATTTAAG
1 TTATAACAATACATTTAAC
21184569 TTATA
1 TTATA
21184574 TAACNNNNNN
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.40
Consensus pattern (19 bp):
TTATAACAATACATTTAAC
Found at i:21198906 original size:41 final size:41
Alignment explanation
Indices: 21198860--21198955 Score: 122
Period size: 41 Copynumber: 2.3 Consensus size: 41
21198850 TTCAGCTCTG
***
21198860 TGCCTAGCAGGCTTTATG-TCGATGAATTTTATCAGGCTTTA
1 TGCCTAGCAGGCTTTATGCT-GATGAATCAGATCAGGCTTTA
** *
21198901 TGCCTAGCAGGCTTTATGCTTTTGTATCAGATCAGGCTTTA
1 TGCCTAGCAGGCTTTATGCTGATGAATCAGATCAGGCTTTA
21198942 TGCCTAGCAGGCTT
1 TGCCTAGCAGGCTT
21198956 CGTGCCGGTG
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
41 47 0.98
42 1 0.02
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.38
Consensus pattern (41 bp):
TGCCTAGCAGGCTTTATGCTGATGAATCAGATCAGGCTTTA
Found at i:21198968 original size:41 final size:41
Alignment explanation
Indices: 21198890--21198970 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 41
21198880 GATGAATTTT
* ***
21198890 ATCAGGCTTTATGCCTAGCAGGCTTTATGCTTTTGTATCAG
1 ATCAGGCTTTATGCCTAGCAGGCTTCATGCCGGTGTATCAG
*
21198931 ATCAGGCTTTATGCCTAGCAGGCTTCGTGCCGGTGTATCA
1 ATCAGGCTTTATGCCTAGCAGGCTTCATGCCGGTGTATCA
21198971 TATCTGGATT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.19, C:0.22, G:0.25, T:0.35
Consensus pattern (41 bp):
ATCAGGCTTTATGCCTAGCAGGCTTCATGCCGGTGTATCAG
Found at i:21199144 original size:46 final size:46
Alignment explanation
Indices: 21199093--21199192 Score: 184
Period size: 46 Copynumber: 2.2 Consensus size: 46
21199083 AATTTGGTTG
21199093 GTTATATAACAAAAATGATACACATTGCAATTATAAGTATATGTGT
1 GTTATATAACAAAAATGATACACATTGCAATTATAAGTATATGTGT
*
21199139 GTTATATAACAAAAATGATACACATTGCTATTATAAGTATATGTGT
1 GTTATATAACAAAAATGATACACATTGCAATTATAAGTATATGTGT
21199185 -TTATATAA
1 GTTATATAA
21199193 TAGGTATATT
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
45 8 0.15
46 45 0.85
ACGTcount: A:0.43, C:0.08, G:0.12, T:0.37
Consensus pattern (46 bp):
GTTATATAACAAAAATGATACACATTGCAATTATAAGTATATGTGT
Found at i:21206907 original size:25 final size:25
Alignment explanation
Indices: 21206865--21206917 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 25
21206855 TTTTCTCAAA
*
21206865 AATTTAATTAATATAAAATATTA-AT
1 AATTTAATAAATATAAAA-ATTAGAT
21206890 AATTTAATAAAT-TGAAAAATTAGAT
1 AATTTAATAAATAT-AAAAATTAGAT
21206915 AAT
1 AAT
21206918 AAAATTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.40
Consensus pattern (25 bp):
AATTTAATAAATATAAAAATTAGAT
Done.