Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 72 of 221
Found at i:20937643 original size:30 final size:30
Alignment explanation
Indices: 20937586--20937647 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
20937576 GTTTTTTGAA
* ** * *
20937586 AATATTTACCAAAAGAGGCATCTAATTTTT
1 AATATTTACAAAAAGAGAAACCAAATTTTT
20937616 AATATTTACAAAAAGAGAAACCAAATTTTT
1 AATATTTACAAAAAGAGAAACCAAATTTTT
20937646 AA
1 AA
20937648 AAATAATTCA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.48, C:0.11, G:0.08, T:0.32
Consensus pattern (30 bp):
AATATTTACAAAAAGAGAAACCAAATTTTT
Found at i:20949713 original size:102 final size:101
Alignment explanation
Indices: 20949583--20949922 Score: 479
Period size: 102 Copynumber: 3.4 Consensus size: 101
20949573 GATGAACACA
* * *
20949583 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATTGATAAATAATGGTCACATGTGTAGTACTAAG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTACTAAG
* *
20949648 TGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCATG
66 TGAAGGCTACTATGTGTACCGA-AAGCTTTGGTCACG
20949685 TGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTACTAAG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTACTAAG
*
20949750 TGAAGGCTATTATGTGTACCGAAAAGCTTTGGTCACG
66 TGAAGGCTACTATGTGTACCG-AAAGCTTTGGTCACG
* * * * *
20949787 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-ACTTGATCACCTGTGTAGTACTAT
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATA-ATGGTCACATGTGTAGTACTAA
* * * *
20949850 GTGAAGGCTACTCTGTGAACCGTAAAAC-TTGATCACG
65 GTGAAGGCTACTATGTGTACCG-AAAGCTTTGGTCACG
*
20949887 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAATCGA
20949923 ATGATAAAAG
Statistics
Matches: 216, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
100 42 0.19
101 45 0.21
102 128 0.59
103 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.31
Consensus pattern (101 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTACTAAG
TGAAGGCTACTATGTGTACCGAAAGCTTTGGTCACG
Found at i:20949849 original size:50 final size:50
Alignment explanation
Indices: 20949583--20949916 Score: 354
Period size: 51 Copynumber: 6.6 Consensus size: 50
20949573 GATGAACACA
* * ** * *
20949583 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATTGATAAATA-ATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-ACTTGGTCACG
* * * * * *
20949634 TGTGTAGTACTAAGTGAAGGCTACAATGTGTACCG-AGAAGCTTTGGTCATG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTA-AAAC-TTGGTCACG
* * *
20949685 TGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATA-ATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-ACTTGGTCACG
* * * *
20949736 TGTGTAGTACTAAGTGAAGGCTATTATGTGTACCG-AAAAGCTTTGGTCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAA-C-TTGGTCACG
* *
20949787 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGATCACC
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGGTCACG
*
20949837 TGTGTAGTACTATGTGAAGGCTACT-CTGTGAACCGTAAAACTTGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTAC-GTGAACCGTAAAACTTGGTCACG
20949887 TGTGTAGTACTATGTGAAGGCTACTACGTG
1 TGTGTAGTACTATGTGAAGGCTACTACGTG
20949917 TATCGAATGA
Statistics
Matches: 238, Mismatches: 33, Indels: 25
0.80 0.11 0.08
Matches are distributed among these distances:
48 1 0.00
49 5 0.02
50 84 0.35
51 141 0.59
52 6 0.03
53 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGGTCACG
Found at i:20956779 original size:18 final size:18
Alignment explanation
Indices: 20956735--20956772 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
20956725 TGCCATTGTA
* *
20956735 CTTAGGCTTTGCCTTTGC
1 CTTAGCCTTAGCCTTTGC
20956753 CTTAGCCTTAGCCTTT-C
1 CTTAGCCTTAGCCTTTGC
20956770 CTT
1 CTT
20956773 TGCCCTTGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.08, C:0.32, G:0.16, T:0.45
Consensus pattern (18 bp):
CTTAGCCTTAGCCTTTGC
Found at i:20960133 original size:56 final size:50
Alignment explanation
Indices: 20960045--20960283 Score: 185
Period size: 50 Copynumber: 4.7 Consensus size: 50
20960035 GATGAGATCT
* * * *
20960045 CATGTAAGACCATGTTTGGAACATGGCATTGGCATCATTGAGGTTATGAGGGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGA-G--ATGAGAGGTCC
**
20960101 CATGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
** * * * **
20960151 CCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATGAGAACTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
* * * * * * **
20960201 CATGTAAGACCATATCTAGGATATGGCATTGGCA--GTACAAGAAACATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAGGTCC
* * *
20960250 CATGTAAGACTATGTCTGGGACATAGCTTTGGCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA
20960284 TGTTATATTT
Statistics
Matches: 149, Mismatches: 33, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
49 36 0.24
50 79 0.53
52 1 0.01
53 2 0.01
55 1 0.01
56 30 0.20
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.24
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
Found at i:20964787 original size:5 final size:5
Alignment explanation
Indices: 20964777--20964804 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
20964767 GTAATTAGTC
20964777 AATTA AATTA AATTA AATTA AATTA AAT
1 AATTA AATTA AATTA AATTA AATTA AAT
20964805 CAAAATGCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
AATTA
Found at i:20975504 original size:6 final size:6
Alignment explanation
Indices: 20975493--20975553 Score: 113
Period size: 6 Copynumber: 10.2 Consensus size: 6
20975483 GTCAAAACTA
*
20975493 TTCCTT TTCCTT TTTCTT TTCCTT TTCCTT TTCCTT TTCCTT TTCCTT
1 TTCCTT TTCCTT TTCCTT TTCCTT TTCCTT TTCCTT TTCCTT TTCCTT
20975541 TTCCTT TTCCTT T
1 TTCCTT TTCCTT T
20975554 ACATCGATGC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 53 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (6 bp):
TTCCTT
Found at i:20977147 original size:85 final size:85
Alignment explanation
Indices: 20977004--20977182 Score: 358
Period size: 85 Copynumber: 2.1 Consensus size: 85
20976994 GGCCGGCCAT
20977004 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
20977069 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
20977089 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
20977154 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
20977174 GAGCATGGG
1 GAGCATGGG
20977183 CAATAAAATA
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 94 1.00
ACGTcount: A:0.38, C:0.08, G:0.27, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:20978449 original size:39 final size:40
Alignment explanation
Indices: 20978341--20978525 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
20978331 TCGAATGATG
* * *
20978341 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
20978380 ATCCGGACTAAGAT-CTGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
20978421 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
20978460 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
20978499 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
20978526 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:20978547 original size:79 final size:79
Alignment explanation
Indices: 20978396--20978558 Score: 206
Period size: 79 Copynumber: 2.1 Consensus size: 79
20978386 ACTAAGATCT
* **
20978396 GAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAAT
1 GAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAAT
*
20978461 CCGGGTTAAGTCCC
66 CCGGGTTAAATCCC
* *
20978475 GAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTA
1 GAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTA
* *
20978538 TATCC-GGTTAAATTCC
63 AATCCGGGTTAAATCCC
20978554 GAAGG
1 GAAGG
20978559 TACGTGATTC
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 24 0.33
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (79 bp):
GAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAAT
CCGGGTTAAATCCC
Found at i:20985077 original size:84 final size:85
Alignment explanation
Indices: 20984933--20985110 Score: 349
Period size: 84 Copynumber: 2.1 Consensus size: 85
20984923 GGCCGGCCAT
20984933 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
20984998 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
20985018 GAGCATGGGTGGACAAGATGTTATGGCT-AAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
20985082 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
20985102 GAGCATGGG
1 GAGCATGGG
20985111 CAATAAAATA
Statistics
Matches: 93, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
84 65 0.70
85 28 0.30
ACGTcount: A:0.38, C:0.08, G:0.28, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:20986407 original size:79 final size:81
Alignment explanation
Indices: 20986271--20986453 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
20986261 TCAAATGATG
* *
20986271 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
20986335 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
20986350 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
20986412 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
20986430 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
20986454 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:20986469 original size:40 final size:40
Alignment explanation
Indices: 20986272--20986455 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
20986262 CAAATGATGT
* * * *
20986272 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
20986312 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
20986352 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
20986390 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
20986431 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
20986456 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:20986477 original size:79 final size:79
Alignment explanation
Indices: 20986324--20986488 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
20986314 GGACTAAGAT
* **
20986324 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
20986389 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
20986403 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
20986466 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
20986482 CCGAAGG
1 CCGAAGG
20986489 TACGTGATTC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:20991791 original size:144 final size:144
Alignment explanation
Indices: 20991516--20991793 Score: 317
Period size: 144 Copynumber: 1.9 Consensus size: 144
20991506 TTTAGGGTGG
* * * * * *
20991516 CAAGCTTAACTCAATTTACTCAAATAAGTGAAGGTTGTGAGTATAACTCATTTAACTTTTAAACA
1 CAAGCTTAACTCAACTTACTCAAATAAATAAAGGTTGTAAGTATAACTCATCTAACCTTTAAACA
* * * * * * *
20991581 TTGGCTGGGAGAGTAAGACCGCGAGCTATGTTGAAGTTTATCAGCTGGAAGAGTAGGTCCGCGAG
66 TAGGCTGAGAGAGTAAGACCACAAGCTATGTTGAAGTATATCAGCTGGAAGAGTAGATCCACGAG
20991646 CTGTTCTAGAGTAA
131 CTGTTCTAGAGTAA
* *
20991660 CAAGCTTAACTCAGCTTACTCAAATAAATAAAGGTTTTAAGTATAACTCATCTAACCTTTAAACA
1 CAAGCTTAACTCAACTTACTCAAATAAATAAAGGTTGTAAGTATAACTCATCTAACCTTTAAACA
* * ** * * * *
20991725 TCAGTCT-AGAGCGTAAGTTCACAAGCTGTGTTGAAG-ATATTCAGCTGGGAGCGTAGATCCATG
66 T-AGGCTGAGAGAGTAAGACCACAAGCTATGTTGAAGTATA-TCAGCTGGAAGAGTAGATCCACG
20991788 AGCTGT
129 AGCTGT
20991794 CAGCTAGGAG
Statistics
Matches: 109, Mismatches: 23, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
143 2 0.02
144 104 0.95
145 3 0.03
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (144 bp):
CAAGCTTAACTCAACTTACTCAAATAAATAAAGGTTGTAAGTATAACTCATCTAACCTTTAAACA
TAGGCTGAGAGAGTAAGACCACAAGCTATGTTGAAGTATATCAGCTGGAAGAGTAGATCCACGAG
CTGTTCTAGAGTAA
Found at i:20991951 original size:104 final size:104
Alignment explanation
Indices: 20991804--20992131 Score: 494
Period size: 104 Copynumber: 3.2 Consensus size: 104
20991794 CAGCTAGGAG
* * * * *
20991804 CATAGGTCCGCGAGCTATTCCAAAGTAGCGAGCTTAACTCAGCTTACTCAAATAAATGAAGGTTG
1 CATAGGTCTGTGAGCTGTTCCAGAGTAGCAAGCTTAACTCAGCTTACTCAAATAAATGAAGGTTG
20991869 TGAGTATAACTCATCTAACCTTTAAACATCAACTGGGAA
66 TGAGTATAACTCATCTAACCTTTAAACATCAACTGGGAA
** *
20991908 TGTAGGTCTGTGAGCTGTTCCAGAGTAGCAAGCTTAACTCAGCTTACTCAAATAAATAAAGGTTG
1 CATAGGTCTGTGAGCTGTTCCAGAGTAGCAAGCTTAACTCAGCTTACTCAAATAAATGAAGGTTG
*
20991973 TGAGTATAACTCATCTAACCTTTCAACATCAACTGGGAA
66 TGAGTATAACTCATCTAACCTTTAAACATCAACTGGGAA
** * ** *
20992012 CATAATTCTGTGAGCTGTTCCAGAGTAGCAAGCTTAACTCAACTTACTCAAATAAATGAACATTT
1 CATAGGTCTGTGAGCTGTTCCAGAGTAGCAAGCTTAACTCAGCTTACTCAAATAAATGAAGGTTG
*
20992077 TGAGTATAACTCATCTAACCTTTAAACATCAGCTGGGAA
66 TGAGTATAACTCATCTAACCTTTAAACATCAACTGGGAA
* *
20992116 CATAGTTTTGTGAGCT
1 CATAGGTCTGTGAGCT
20992132 ATGTTGACAA
Statistics
Matches: 202, Mismatches: 22, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
104 202 1.00
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.29
Consensus pattern (104 bp):
CATAGGTCTGTGAGCTGTTCCAGAGTAGCAAGCTTAACTCAGCTTACTCAAATAAATGAAGGTTG
TGAGTATAACTCATCTAACCTTTAAACATCAACTGGGAA
Found at i:20993746 original size:20 final size:20
Alignment explanation
Indices: 20993721--20993759 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
20993711 ACGATTGAAC
*
20993721 GACACTTCTTTAGAACTAAT
1 GACACTTCTTCAGAACTAAT
20993741 GACACTTCTTCAGAACTAA
1 GACACTTCTTCAGAACTAA
20993760 CTCTTTCACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.31
Consensus pattern (20 bp):
GACACTTCTTCAGAACTAAT
Found at i:20995340 original size:16 final size:15
Alignment explanation
Indices: 20995315--20995346 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
20995305 ACCAAGCATG
20995315 TCCATAGCTAGTCAT
1 TCCATAGCTAGTCAT
20995330 TCCATTAGCTAGTCAT
1 TCCA-TAGCTAGTCAT
20995346 T
1 T
20995347 ATCAAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (15 bp):
TCCATAGCTAGTCAT
Found at i:21001452 original size:30 final size:30
Alignment explanation
Indices: 21001417--21001475 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
21001407 TATTTTATTG
*
21001417 TTAATTTTTTTATGATTTTAAAGACATTTA
1 TTAATTTTGTTATGATTTTAAAGACATTTA
* * *
21001447 TTAATTTTGTTATTATTTTAGAGGCATTT
1 TTAATTTTGTTATGATTTTAAAGACATTT
21001476 GCTTATTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.29, C:0.03, G:0.10, T:0.58
Consensus pattern (30 bp):
TTAATTTTGTTATGATTTTAAAGACATTTA
Found at i:21016543 original size:5 final size:5
Alignment explanation
Indices: 21016530--21016588 Score: 50
Period size: 5 Copynumber: 12.2 Consensus size: 5
21016520 TTTTAATATT
* * * * *
21016530 TATAT TATAA TATAA TAT-A TTTAA TTTTA TATAA TATAA T-TTA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
*
21016578 AATAA TATAA T
1 TATAA TATAA T
21016589 TTACATAAAA
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
4 6 0.14
5 37 0.86
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (5 bp):
TATAA
Found at i:21016561 original size:19 final size:21
Alignment explanation
Indices: 21016525--21016591 Score: 72
Period size: 19 Copynumber: 3.3 Consensus size: 21
21016515 TGTTTTTTTA
21016525 ATATTTATATTATAATATAAT
1 ATATTTATATTATAATATAAT
*
21016546 ATATTTA-ATT-TTATATAAT
1 ATATTTATATTATAATATAAT
21016565 ATAATTTATA-TA-AA-ATAAT
1 AT-ATTTATATTATAATATAAT
21016584 ATAATTTA
1 AT-ATTTA
21016592 CATAAAATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
19 23 0.56
20 10 0.24
21 8 0.20
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATATTTATATTATAATATAAT
Found at i:21016596 original size:19 final size:19
Alignment explanation
Indices: 21016560--21016600 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
21016550 TTAATTTTAT
*
21016560 ATAATATAATTTATATAAA
1 ATAATATAATTTACATAAA
21016579 ATAATATAATTTACATAAA
1 ATAATATAATTTACATAAA
21016598 ATA
1 ATA
21016601 TTAAAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (19 bp):
ATAATATAATTTACATAAA
Found at i:21018391 original size:11 final size:12
Alignment explanation
Indices: 21018358--21018385 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
21018348 CGGCCCACCC
21018358 ATATTAATTTTT
1 ATATTAATTTTT
21018370 ATATTAATTTTT
1 ATATTAATTTTT
21018382 ATAT
1 ATAT
21018386 AGTTTTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:21018551 original size:30 final size:30
Alignment explanation
Indices: 21018515--21018579 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
21018505 CAACTTAACA
*
21018515 AACAAATGCCTCTAAAATAATAATAAAATT
1 AACAAATGCCTCTAAAATAATAACAAAATT
*
21018545 AACAAATGCCTTTAAAATAATAACAAAATT
1 AACAAATGCCTCTAAAATAATAACAAAATT
21018575 AACAA
1 AACAA
21018580 TAAAATAAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.58, C:0.14, G:0.03, T:0.25
Consensus pattern (30 bp):
AACAAATGCCTCTAAAATAATAACAAAATT
Found at i:21018634 original size:22 final size:22
Alignment explanation
Indices: 21018609--21018651 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
21018599 TATCCAAACA
21018609 ATAAAAACAAAATAGTAGCAAC
1 ATAAAAACAAAATAGTAGCAAC
* **
21018631 ATAATAGTAAAATAGTAGCAA
1 ATAAAAACAAAATAGTAGCAA
21018652 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.60, C:0.09, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAAAAACAAAATAGTAGCAAC
Found at i:21018655 original size:11 final size:11
Alignment explanation
Indices: 21018616--21018656 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
21018606 ACAATAAAAA
21018616 CAAAATAGTAG
1 CAAAATAGTAG
* *
21018627 CAACATAATAG
1 CAAAATAGTAG
*
21018638 TAAAATAGTAG
1 CAAAATAGTAG
21018649 CAAAATAG
1 CAAAATAG
21018657 GGAGAAAACA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:21020463 original size:3 final size:3
Alignment explanation
Indices: 21020266--21020446 Score: 86
Period size: 3 Copynumber: 61.7 Consensus size: 3
21020256 TTTATTGTTG
* * *
21020266 TTA TTA TTA TTA TTA TTA TCA TTA CTA GTA TTA TTA TTA GTT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
* * * ** * ** * *
21020311 TTG CTA TT- TTA TTA CTA TTA ACA TCA TTA TTA GAA TTA TTA TTA ATG
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
21020358 TTA TTA CTA TTTA TT- TTA TT- TTA TT- TT- TTC TTA TTA TTA ATA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * ** * *
21020400 CTA TTA ATA TTG TTA TTG CCA TTA TTA TTA TAA TTA TAA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
21020447 TTCATTACCA
Statistics
Matches: 128, Mismatches: 43, Indels: 14
0.69 0.23 0.08
Matches are distributed among these distances:
2 12 0.09
3 112 0.88
4 4 0.03
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:21029966 original size:24 final size:24
Alignment explanation
Indices: 21029938--21029985 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
21029928 GCTACAGTAG
21029938 AGCATGTTGAAGTAACAAACCTTA
1 AGCATGTTGAAGTAACAAACCTTA
21029962 AGCATGTTGAAGTAACAAACCTTA
1 AGCATGTTGAAGTAACAAACCTTA
21029986 TTCCCCTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.25
Consensus pattern (24 bp):
AGCATGTTGAAGTAACAAACCTTA
Found at i:21030327 original size:49 final size:46
Alignment explanation
Indices: 21030224--21031487 Score: 579
Period size: 45 Copynumber: 27.6 Consensus size: 46
21030214 CATATCAAAC
* * * * * * *
21030224 CTTATCTCCCTGAAGTCGCAATGGAGCAGGTT-AAAAATAAATCAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACT-TATAAAT
* *
21030270 CTTATCTCCTTGAAGTTGCAGTAGAGCAGATTGAAGACGGGTTATAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAC---TTATAAAT
*
21030319 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-C-CACT-AAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACTTA-TAAAT
* * * *
21030363 CTTATCCCCCTGAAGTTGCAGTAGG-GCAGATTG-A-TCATACTAAGT
1 CTTATCTCCCTGAAGTTGCAGT-GGAGCAGATTGAAGACTTA-TAAAT
* * * **
21030408 CTTATCTCCTTGAAGTTGCAGTGGAGGAGACTGAAGA--TAGCGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACTTA-TAAAT
* * *
21030453 CTTATTTCACTGAAGTTGCAGTGGAACAGATTGAAG-CTATAGATTACAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACT-T--A-TA-A-AT
* * *
21030504 CTTATCTCTCTGAAGTTGCAGTAGAGCAGA-T-----CATATCAAA-
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACTTAT-AAAT
** * * * * * *
21030544 CATTATCTCTTTGAAGTTGCAGTGGAGCAGGTT-AAAAATAAATCAAC
1 C-TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACT-TATAAAT
* * * *
21030591 CTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGATGGGTTACAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA---CTTATAAAT
*
21030640 CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAG-C-TACT-AAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACTTA-TAAAT
* * * * *
21030684 CTTATCCCCCTGAAGTTGCAGTGGGGCAGATTGAATA--AATCAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACTTAT-AAAT
* * * * * **
21030729 CCTATCTCCTTGAAGTTGTAGTGGAGCAGACTGAAGA-TAACGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACTTATAAAT
* * *
21030774 CTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTATAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-----ACTTATAAAT
* * *
21030825 CTTATCTCCCTGAAGTTGCAGTGGAGAAAATTGAAG-C-CACT-AAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACTTA-TAAAT
* * * * * * * *
21030869 CTTATCCCCCTGAAGTTGCACTGGGGTAAATTGAATA--AATCAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACTTAT-AAAT
* * *
21030914 CTTATCTCCCTGAAATTGCAGTGGAGCAGACTGAAGA--TAGTGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACTTA-TAAAT
* *
21030959 CTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAG-CTATAAATTATAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACT-T--A-TA-A-AT
* * * * * *
21031010 CTTATTTCTCTGAAGTTGCAATAGAGCAGA-T-----CATATCAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACTTAT-AAAT
* * * * *
21031051 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTT-AAAAATAAATCAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACT-TATAAAT
* **
21031097 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGA--TAGCGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACTTA-TAAAT
* * * * * * *
21031142 CTTATTTCCTTGATGTTACAGTGGAACAAATTGAAG-CTATAAATTACGGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACT-T--A-TA--AAT
** * * * *
21031193 CTTATCTCTTTGAAGTTGCAGTAGAGCAGA-T-CATA--T-TAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACTTATAAAT
* * * * * * *
21031234 CTTATCTTCTTGAAGTTGCAGTGGAACATG-TT-AAAAATAAATCAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCA-GATTGAAGACT-TATAAAT
* * * * **
21031280 CTTATCTCCTTAAAGTTGTAGTGGAGCAGATTGAAGACAGGCTACGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAC---TTATAAAT
* * *
21031329 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-C-CATAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACTTATAAAT
* * * * * *
21031373 CTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAA-A-TAACAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACTTATAAAT
* *
21031417 CTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAG-C-TACT-AAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACTTA-TAAAT
* *
21031461 CCTATCTCCCTGAAGTTGTAGTGGAGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGC
21031488 GAATTAAAAC
Statistics
Matches: 927, Mismatches: 203, Indels: 178
0.71 0.16 0.14
Matches are distributed among these distances:
40 1 0.00
41 78 0.08
42 10 0.01
43 10 0.01
44 210 0.23
45 231 0.25
46 122 0.13
47 21 0.02
48 2 0.00
49 116 0.13
50 8 0.01
51 118 0.13
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (46 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACTTATAAAT
Found at i:21030794 original size:321 final size:321
Alignment explanation
Indices: 21030212--21030846 Score: 1031
Period size: 321 Copynumber: 2.0 Consensus size: 321
21030202 AGCGGATCTT
* *
21030212 ATCATATCAAACCTTATCTCCCTGAAGTCGCAATGGAGCAGGTTAAAAATAAATCAATCTTATCT
1 ATCATATCAAACATTATCTCCCTGAAGTCGCAATGGAGCAGGTTAAAAATAAATCAACCTTATCT
* * *
21030277 CCTTGAAGTTGCAGTAGAGCAGATTGAAGACGGGTTATAAATCTTATCTCCCTGAAGTTGCAGTG
66 CCCTAAAGTTGCAGTAGAGCAGATTGAAGACGGGTTACAAATCTTATCTCCCTGAAGTTGCAGTG
*
21030342 GAGCAGATTGAAGCCACTAATCTTATCCCCCTGAAGTTGCAGTAGGGCAGATTGATCATACTAAG
131 GAGCAGATTGAAGCCACTAATCTTATCCCCCTGAAGTTGCAGTAGGGCAGATTGATAATACTAAG
* * *
21030407 TCTTATCTCCTTGAAGTTGCAGTGGAGGAGACTGAAGATAGCGAATCTTATTTCACTGAAGTTGC
196 TCCTATCTCCTTGAAGTTGCAGTGGAGCAGACTGAAGATAACGAATCTTATTTCACTGAAGTTGC
* * *
21030472 AGTGGAACAGATTGAAGCTATAGATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAG
261 AGTGGAACAGATTGAAGCTATAAATTACAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAG
** * *
21030533 ATCATATCAAACATTATCTCTTTGAAGTTGCAGTGGAGCAGGTTAAAAATAAATCAACCTTATCT
1 ATCATATCAAACATTATCTCCCTGAAGTCGCAATGGAGCAGGTTAAAAATAAATCAACCTTATCT
* *
21030598 CCCTAAAGTTGCAGTAGAGCAGATTGAAGATGGGTTACAAATCTTATCTCCCTGAAGTTGTAGTG
66 CCCTAAAGTTGCAGTAGAGCAGATTGAAGACGGGTTACAAATCTTATCTCCCTGAAGTTGCAGTG
* *
21030663 GAGCAGATTGAAGCTACTAATCTTATCCCCCTGAAGTTGCAGTGGGGCAGATTGAATAA-A-TCA
131 GAGCAGATTGAAGCCACTAATCTTATCCCCCTGAAGTTGCAGTAGGGCAGATTG-ATAATACT-A
* *
21030726 AGTCCTATCTCCTTGAAGTTGTAGTGGAGCAGACTGAAGATAACGAATCTTATTTCCCTGAAGTT
194 AGTCCTATCTCCTTGAAGTTGCAGTGGAGCAGACTGAAGATAACGAATCTTATTTCACTGAAGTT
*
21030791 GCAGTGGAACAGATTGAAGCTATAAATTATAAATCTTATCTCCCTGAAGTTGCAGT
259 GCAGTGGAACAGATTGAAGCTATAAATTACAAATCTTATCTCCCTGAAGTTGCAGT
21030847 GGAGAAAATT
Statistics
Matches: 289, Mismatches: 23, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
320 1 0.00
321 285 0.99
322 3 0.01
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (321 bp):
ATCATATCAAACATTATCTCCCTGAAGTCGCAATGGAGCAGGTTAAAAATAAATCAACCTTATCT
CCCTAAAGTTGCAGTAGAGCAGATTGAAGACGGGTTACAAATCTTATCTCCCTGAAGTTGCAGTG
GAGCAGATTGAAGCCACTAATCTTATCCCCCTGAAGTTGCAGTAGGGCAGATTGATAATACTAAG
TCCTATCTCCTTGAAGTTGCAGTGGAGCAGACTGAAGATAACGAATCTTATTTCACTGAAGTTGC
AGTGGAACAGATTGAAGCTATAAATTACAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAG
Found at i:21030842 original size:185 final size:182
Alignment explanation
Indices: 21030267--21031487 Score: 886
Period size: 183 Copynumber: 6.6 Consensus size: 182
21030257 AAAATAAATC
* *
21030267 AATCTTATCTC-CTTGAAGTTGCAGTAGAGCAGATTGAAGACGGGTTATAAATCTTATCTCCCTG
1 AATCTTATCTCTC-TGAAGTTGCAGTAGAGCAGATTGAATAC------T-AACCTTATCTCCCTG
*** * *
21030331 AAGTTGCAGTGGAGCAGATTGAAGCCA-CTAATCTTATCCCCCTGAAGTTGCAGTAGG-GCAGAT
58 AAGTTGCAGTGGAGCAGATTGAATAAATC-AATCTTATCTCCCTGAAGTTGCAGT-GGAGCAGAC
** * * * ** * ***
21030394 TGATCAT-ACTAAGTCTTATCTCCTTGAAGTTGCAGTGGAGGAGACTGAAG--AT--A--GCG
121 TGAAGATAACGAA-TCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTATA
* * * * *
21030450 AATCTTATTTCACTGAAGTTGCAGTGGAACAGATTGAAGCTA-TAGATTACAGATCTTATCTCTC
1 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAA--TACT--A--AC----CTTATCTCCC
* * * ** *
21030514 TGAAGTTGCAGTAGAGCAGA-T-CAT--ATCAAACATTATCTCTTTGAAGTTGCAGTGGAGCAGG
56 TGAAGTTGCAGTGGAGCAGATTGAATAAATCAATC-TTATCTCCCTGAAGTTGCAGTGGAGCAGA
* * * * * * * * *** *
21030575 TTAAAAATAAATC-AACCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAG--ATGGGTTACA
120 CTGAAGAT-AA-CGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTATA
* * * * *
21030637 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACTAATCTTATCCCCCTGAAGTTG
1 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAA--TACTAACCTTATCTCCCTGAAGTTG
* * * *
21030702 CAGTGGGGCAGATTGAATAAATCAAGTCCTATCTCCTTGAAGTTGTAGTGGAGCAGACTGAAGAT
64 CAGTGGAGCAGATTGAATAAATCAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAT
21030767 AACGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTATA
128 AACGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTATA
* * * * * * *
21030822 AATCTTATCTCCCTGAAGTTGCAGTGGAGAAAATTGAAGCCACTAATCTTATCCCCCTGAAGTTG
1 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAA--TACTAACCTTATCTCCCTGAAGTTG
* * * * *
21030887 CACTGGGGTAAATTGAATAAATCAAGTCTTATCTCCCTGAAATTGCAGTGGAGCAGACTGAAGAT
64 CAGTGGAGCAGATTGAATAAATCAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAT
**
21030952 AGTGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTATA
128 AACGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTATA
* * * * *
21031007 GATCTTATTTCTCTGAAGTTGCAATAGAGCAGA-T-CATATCAAACCTTATCTCCCTGAAGTTGC
1 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAATA-CTAACCTTATCTCCCTGAAGTTGC
* *
21031070 AGTGGAGCAGGTTAAAAATAAATCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAT
65 AGTGGAGCAGATT--GAATAAATCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAT
* * * * * **
21031135 AGCGAATCTTATTTCCTTGATGTTACAGTGGAACAAATTGAAGCTATAAATTACG
128 AACGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTATA
* * * * * *
21031190 GATCTTATCTCTTTGAAGTTGCAGTAGAGCAGA-T-CATATTAAACCTTATCTTCTTGAAGTTGC
1 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAATACT-AACCTTATCTCCCTGAAGTTGC
* * * * * *
21031253 AGTGGAACATG-TTAAAAATAAATCAATCTTATCTCCTTAAAGTTGTAGTGGAGCAGATTGAAGA
65 AGTGGAGCA-GATT--GAATAAATCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGA
* * * * *
21031317 CAGGCTACGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC-------CATA
127 TA----ACGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTATA
* * *
21031370 AACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAATAACAAACCTTATCTCCCTGAAGTTG
1 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTG-AAT-ACTAACCTTATCTCCCTGAAGTTG
* * * * *
21031435 TAGTGGAGTAGATTGAAGCT-ACT-AATCCTATCTCCCTGAAGTTGTAGTGGAGC
64 CAGTGGAGCAGATTGAA--TAAATCAATCTTATCTCCCTGAAGTTGCAGTGGAGC
21031488 GAATTAAAAC
Statistics
Matches: 859, Mismatches: 134, Indels: 92
0.79 0.12 0.08
Matches are distributed among these distances:
178 1 0.00
179 1 0.00
180 56 0.07
181 39 0.05
182 63 0.07
183 334 0.39
184 54 0.06
185 235 0.27
186 1 0.00
187 74 0.09
188 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (182 bp):
AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAATACTAACCTTATCTCCCTGAAGTTGCA
GTGGAGCAGATTGAATAAATCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAAC
GAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTATA
Found at i:21031074 original size:92 final size:92
Alignment explanation
Indices: 21030588--21031455 Score: 363
Period size: 96 Copynumber: 9.5 Consensus size: 92
21030578 AAAATAAATC
* * * *** * *
21030588 AACCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAG--ATGGGTTACAAATCTTATCTCCCT
1 AACCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAGATCTTATCTCTCT
* * * *
21030651 GAAGTTGTAGTGGAGCAGATTGA-AGCTACT
66 GAAGTTGCAGTAGAGCAGA-TCATA--T-CA
* * ** * *
21030681 AATCTTATCCCCCTGAAGTTGCAGTGGGGCAGATTG-A---ATAAATCA-AG-TCCTATCTC-CT
1 AACCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAGATCTTATCTCTC-
* * * * *
21030739 TGAAGTTGTAGTGGAGCAGACTGAAGATAACG
65 TGAAGTTGCAGTAGAGCAGA-T---CATATCA
* * * * *
21030771 AATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTATAAATCTTATCTCCCT
1 AACCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAGATCTTATCTCTCT
* * * * *
21030836 GAAGTTGCAGTGGAGAAAATTGA-AGCCA
66 GAAGTTGCAGTAGAGCAGA-TCATA-TCA
* * * *** * * *
21030864 CTAATCTTATCCCCCTGAAGTTGCACTGGGGTAAATTG-A---ATAAATCA-AG-TCTTATCTCC
1 --AACCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAGATCTTATCTCT
* * * *
21030923 CTGAAATTGCAGTGGAGCAGACTGAAGATAGT-G
64 CTGAAGTTGCAGTAGAGCAGA-T---CATA-TCA
* * * *
21030956 AATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTATAGATCTTATTTCTCT
1 AACCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAGATCTTATCTCTCT
*
21031021 GAAGTTGCAATAGAGCAGATCATATCA
66 GAAGTTGCAGTAGAGCAGATCATATCA
* * ** *
21031048 AACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTT-AA-AAATAAA-T-CA-ATCTTATCTCCCT
1 AACCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAGATCTTATCTCTCT
* * * *
21031108 GAAGTTGCAGTGGAGCAGACTGAAGATAGCG
66 GAAGTTGCAGTAGAGCAGA-T---CATATCA
* * * * * * * *
21031139 AATCTTATTTCCTTGATGTTACAGTGGAACAAATTGAAGCTATAAATTACGGATCTTATCTCTTT
1 AACCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAGATCTTATCTCTCT
*
21031204 GAAGTTGCAGTAGAGCAGATCATATTA
66 GAAGTTGCAGTAGAGCAGATCATATCA
* * **
21031231 AACCTTATCTTCTTGAAGTTGCAGTGGAACATG-TT-AA-AAATAAA-T-CA-ATCTTATCTC-C
1 AACCTTATCTCCCTGAAGTTGCAGTGGAACA-GATTGAAGCTATAAATTACAGATCTTATCTCTC
* * * *
21031289 TTAAAGTTGTAGTGGAGCAGATTGAAGACAGGCTA-CG
65 -TGAAGTTGCAGTAGAGCAGA-T-----CA---TATCA
* * * *
21031326 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAT-AA--AC----CTTATCTCTCT
1 AACCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAGATCTTATCTCTCT
* * *
21031384 GAAGTTGCAGTAGAGCAGGTTGAAATAACA
66 GAAGTTGCAGTAGAGCA-GAT--CATATCA
* **
21031414 AACCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGCTA
1 AACCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTA
21031456 CTAATCCTAT
Statistics
Matches: 601, Mismatches: 121, Indels: 111
0.72 0.15 0.13
Matches are distributed among these distances:
87 57 0.09
88 43 0.07
89 60 0.10
90 77 0.13
91 49 0.08
92 73 0.12
93 68 0.11
94 19 0.03
95 64 0.11
96 88 0.15
97 3 0.00
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (92 bp):
AACCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAGATCTTATCTCTCT
GAAGTTGCAGTAGAGCAGATCATATCA
Found at i:21031283 original size:506 final size:498
Alignment explanation
Indices: 21030212--21031485 Score: 1544
Period size: 506 Copynumber: 2.5 Consensus size: 498
21030202 AGCGGATCTT
* * *
21030212 ATCATATCAAACCTTATCTCCCTGAAGTCGCAATGGAGCAGGTTAAAAATAAATCAATCTTATCT
1 ATCATATCAAACCTTATCTCCTTGAAGTTGCAGTGGAGCA-GTTAAAAATAAATCAATCTTATCT
* *
21030277 CCTTGAAGTTGCAGTAGAGCAGATTGAAGACGGGTTATAAATCTTATCTCCCTGAAGTTGCAGTG
65 CCTTGAAGTTGCAGTGGAGCAGATTGAAGACAGGTTATAAATCTTATCTCCCTGAAGTTGCAGTG
*
21030342 GAGCAGATTGAAGCCACTAATCTTATCCCCCTGAAGTTGCAGTAGGGCAGATTG-AT-CATACTA
130 GAGCAGATTGAAGCCACTAATCTTATCCCCCTGAAGTTGCAGTAGGGCAGATTGAATAAAT-C-A
* * * *
21030405 AGTCTTATCTCCTTGAAGTTGCAGTGGAGGAGACTGAAGATAGCGAATCTTATTTCACTGAAGTT
193 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGTGAATCTTATTTCCCTGAAGTT
* *
21030470 GCAGTGGAACAGATTGAAGCTATAGATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGAT
258 GCAGTGGAACAGATTGAAGCTATAAATTACAGATCTTATCTCTCTGAAGTTGCAATAGAGCAGAT
**
21030535 CATATCAAACATTATCTCTTTGAAGTTGCAGTGGAGCAGGTTAAAAATAAATCAACCTTATCTCC
323 CATATCAAACATTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAAATAAATCAACCTTATCTCC
* * **
21030600 CTAAAGTTGCAGTAGAGCAGATTGAAGATGGGTTACAAATCTTATCTCCCTGAAGTTGTAGTGGA
388 CTAAAGTTGCAGTAGAGCAGACTGAAGATGAG-T-CAAATCTTATCTCCCTGAAGTTACAGTGGA
* * * *
21030665 GCAGATTGAAGCTACTAATCTTATCCCCCTGAAGTTGCAGTGGGGCAG
451 ACAAATTGAAGCTACTAATCTTATCCCCCTGAAGTTGCAGTAGAGCAG
* * * * * *
21030713 ATTGAATAAATCAAGTCC-TATCTCCTTGAAGTTGTAGTGGAGCAGACTGAAGAT-AA-CGAATC
1 A-T-CAT--ATCAA-ACCTTATCTCCTTGAAGTTGCAGTGGAGCAG-TTAAAAATAAATC-AATC
* * * * **
21030775 TTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTATAAATCTTATCTCCCTGAAG
59 TTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAG--ACAGGTTATAAATCTTATCTCCCTGAAG
* * * * * *
21030840 TTGCAGTGGAGAAAATTGAAGCCACTAATCTTATCCCCCTGAAGTTGCACTGGGGTAAATTGAAT
122 TTGCAGTGGAGCAGATTGAAGCCACTAATCTTATCCCCCTGAAGTTGCAGTAGGGCAGATTGAAT
*
21030905 AAATCAAGTCTTATCTCCCTGAAATTGCAGTGGAGCAGACTGAAGATAGTGAATCTTATTTCCCT
187 AAATCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGTGAATCTTATTTCCCT
* *
21030970 GAAGTTGCAGTGGAACAGATTGAAGCTATAAATTATAGATCTTATTTCTCTGAAGTTGCAATAGA
252 GAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAGATCTTATCTCTCTGAAGTTGCAATAGA
* *
21031035 GCAGATCATATCAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAAATAAATCAATCTT
317 GCAGATCATATCAAACATTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAAATAAATCAACCTT
* * * * * *
21031100 ATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAT-AG-CGAATCTTATTTCCTTGATGTTACAG
382 ATCTCCCTAAAGTTGCAGTAGAGCAGACTGAAGATGAGTCAAATCTTATCTCCCTGAAGTTACAG
* * **
21031163 TGGAACAAATTGAAGCTATAAATTACGGATCTTATCTCTTTGAAGTTGCAGTAGAGCAG
447 TGGAACAAATTGAAGC--T--ACTA---ATCTTATCCCCCTGAAGTTGCAGTAGAGCAG
* * *
21031222 ATCATATTAAACCTTATCTTCTTGAAGTTGCAGTGGAACATGTTAAAAATAAATCAATCTTATCT
1 ATCATATCAAACCTTATCTCCTTGAAGTTGCAGTGGAGCA-GTTAAAAATAAATCAATCTTATCT
* * * **
21031287 CCTTAAAGTTGTAGTGGAGCAGATTGAAGACAGGCTACGAATCTTATCTCCCTGAAGTTGCAGTG
65 CCTTGAAGTTGCAGTGGAGCAGATTGAAGACAGGTTATAAATCTTATCTCCCTGAAGTTGCAGTG
* * * * * *
21031352 GAGCAGATTAAAGCCA-TAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAA-ATAA-CA
130 GAGCAGATTGAAGCCACT-AATCTTATCCCCCTGAAGTTGCAGTAGGGCAGATTGAATA-AATCA
** * * * * * * *
21031414 AACCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGCTACT-AATCCTATCTCCCTGAAGTT
193 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGTGAATCTTATTTCCCTGAAGTT
*
21031478 GTAGTGGA
258 GCAGTGGA
21031486 GCGAATTAAA
Statistics
Matches: 651, Mismatches: 98, Indels: 47
0.82 0.12 0.06
Matches are distributed among these distances:
501 1 0.00
502 60 0.09
503 43 0.07
504 115 0.18
505 65 0.10
506 331 0.51
507 6 0.01
508 3 0.00
509 27 0.04
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (498 bp):
ATCATATCAAACCTTATCTCCTTGAAGTTGCAGTGGAGCAGTTAAAAATAAATCAATCTTATCTC
CTTGAAGTTGCAGTGGAGCAGATTGAAGACAGGTTATAAATCTTATCTCCCTGAAGTTGCAGTGG
AGCAGATTGAAGCCACTAATCTTATCCCCCTGAAGTTGCAGTAGGGCAGATTGAATAAATCAAGT
CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGTGAATCTTATTTCCCTGAAGTTGCA
GTGGAACAGATTGAAGCTATAAATTACAGATCTTATCTCTCTGAAGTTGCAATAGAGCAGATCAT
ATCAAACATTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAAATAAATCAACCTTATCTCCCTA
AAGTTGCAGTAGAGCAGACTGAAGATGAGTCAAATCTTATCTCCCTGAAGTTACAGTGGAACAAA
TTGAAGCTACTAATCTTATCCCCCTGAAGTTGCAGTAGAGCAG
Found at i:21031494 original size:132 final size:136
Alignment explanation
Indices: 21031229--21031528 Score: 339
Period size: 132 Copynumber: 2.2 Consensus size: 136
21031219 CAGATCATAT
* * * *
21031229 TAAACCTTATCT-TCTTGAAGTTGCAGTGGAACATGTTAAAAATAAATCAATCTTATCTCCTTAA
1 TAAACCTTATCTCTC-TGAAGTTGCAGTAGAACAGGTTAAAAATAAA-CAACCTTATCTCCCTAA
*
21031293 AGTTGTAGTGGAGCAGATTGAAGACAGGCTACGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
64 AGTTGTAGTGGAGCAGATT--AGACAGGCTACGAATCCTATCTCCCTGAAGTTGCAGTGGAGCAG
*
21031358 ATTAAAGCCA
127 ATTAAAACCA
* * *
21031368 TAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTT-GAAAT-AACAAACCTTATCTCCCTGAA
1 TAAACCTTATCTCTCTGAAGTTGCAGTAGAACAGGTTAAAAATAAAC-AACCTTATCTCCCTAAA
* * *
21031431 GTTGTAGTGGAGTAGATT-GA-A-GCTACTAATCCTATCTCCCTGAAGTTGTAGTGGAGC-GAAT
65 GTTGTAGTGGAGCAGATTAGACAGGCTACGAATCCTATCTCCCTGAAGTTGCAGTGGAGCAG-AT
*
21031492 TAAAACGA
129 TAAAACCA
*
21031500 TGAATCC-TATAC-CTCTGAAGTTGCAGTAG
1 T-AAACCTTAT-CTCTCTGAAGTTGCAGTAG
21031529 TTGCAGTGAG
Statistics
Matches: 142, Mismatches: 14, Indels: 17
0.82 0.08 0.10
Matches are distributed among these distances:
131 1 0.01
132 62 0.44
133 6 0.04
134 2 0.01
136 1 0.01
137 33 0.23
138 4 0.03
139 31 0.22
140 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (136 bp):
TAAACCTTATCTCTCTGAAGTTGCAGTAGAACAGGTTAAAAATAAACAACCTTATCTCCCTAAAG
TTGTAGTGGAGCAGATTAGACAGGCTACGAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTA
AAACCA
Found at i:21031506 original size:44 final size:44
Alignment explanation
Indices: 21031326--21031522 Score: 134
Period size: 44 Copynumber: 4.5 Consensus size: 44
21031316 ACAGGCTACG
* * * * *
21031326 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-T
1 AATCCTATCTCCCTGAAGTTGTAGTGGAGGAGATTAAAACGACT
* * * * * * * **
21031369 AAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAATAAC-
1 AATCC-TATCTCCCTGAAGTTGTAGTGGAGGAGATTAAAACGACT
* * * * *
21031413 AAACCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGCTACT
1 AATCC-TATCTCCCTGAAGTTGTAGTGGAGGAGATTAAAACGACT
21031458 AATCCTATCTCCCTGAAGTTGTAGTGGAGCGA-ATTAAAACGA-T
1 AATCCTATCTCCCTGAAGTTGTAGTGGAG-GAGATTAAAACGACT
*
21031501 GAATCCTATAC-CTCTGAAGTTG
1 -AATCCTAT-CTCCCTGAAGTTG
21031523 CAGTAGTTGC
Statistics
Matches: 125, Mismatches: 23, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
43 4 0.03
44 115 0.92
45 6 0.05
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (44 bp):
AATCCTATCTCCCTGAAGTTGTAGTGGAGGAGATTAAAACGACT
Found at i:21033149 original size:3 final size:3
Alignment explanation
Indices: 21032938--21033132 Score: 114
Period size: 3 Copynumber: 66.3 Consensus size: 3
21032928 AATTTTGTCC
* * *
21032938 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAC TAG TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
** * * * * *
21032986 TAT TAGT T-T TAT TGC TAT T-T TAT TAC TAT TAA CAT CAT TAT TAG
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
21033030 AAT TAT TAT TAA TGT TAT TAC TATT TAT T-T TAT T-T TAT T-T T-T
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
* * * * ** * *
21033072 TCT TAT TAT TAA TAC TAT TAA TAT TAT TAT TGC CAT TAT TAT TAT AAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
21033120 TAT AAG TAT TAT T
1 TAT TAT TAT TAT T
21033133 TTCATTACCA
Statistics
Matches: 142, Mismatches: 43, Indels: 14
0.71 0.22 0.07
Matches are distributed among these distances:
2 12 0.08
3 126 0.89
4 4 0.03
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:21033188 original size:14 final size:15
Alignment explanation
Indices: 21033169--21033203 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
21033159 GTTATTTTTC
*
21033169 TTATTTTTTTGTT-T
1 TTATTTTTTTCTTGT
21033183 TTATTTTTTTCTTGT
1 TTATTTTTTTCTTGT
21033198 TTATTT
1 TTATTT
21033204 ACTTATGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.09, C:0.03, G:0.06, T:0.83
Consensus pattern (15 bp):
TTATTTTTTTCTTGT
Found at i:21035287 original size:44 final size:44
Alignment explanation
Indices: 21035238--21035328 Score: 121
Period size: 44 Copynumber: 2.1 Consensus size: 44
21035228 GGTGAAATAA
* * * *
21035238 AATAGAAGTTGTGGTAATTATGCATTTAAAACA-AATTGTAATTT
1 AATAGAAGTTCTGATAATTACGCATTTAAAA-ATAATTATAATTT
*
21035282 AATAGAAGTTCTGATAATTACGTATTTAAAAATAATTATAATTT
1 AATAGAAGTTCTGATAATTACGCATTTAAAAATAATTATAATTT
21035326 AAT
1 AAT
21035329 TTACATTATT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
43 1 0.02
44 40 0.98
ACGTcount: A:0.44, C:0.04, G:0.12, T:0.40
Consensus pattern (44 bp):
AATAGAAGTTCTGATAATTACGCATTTAAAAATAATTATAATTT
Found at i:21038645 original size:12 final size:12
Alignment explanation
Indices: 21038627--21038658 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
21038617 GTTATTTGTT
21038627 ATTTATTAATTA
1 ATTTATTAATTA
*
21038639 GTTTATTAATTA
1 ATTTATTAATTA
21038651 ATTTATTA
1 ATTTATTA
21038659 TTATTATCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (12 bp):
ATTTATTAATTA
Found at i:21038695 original size:18 final size:18
Alignment explanation
Indices: 21038651--21038696 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
21038641 TTATTAATTA
*
21038651 ATTTATTATTATTATCAT
1 ATTTATTATTATAATCAT
21038669 AGTTT-TTATTACTAAT-AT
1 A-TTTATTATTA-TAATCAT
21038687 ATTTATTATT
1 ATTTATTATT
21038697 GATATGGTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
17 3 0.12
18 15 0.62
19 6 0.25
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (18 bp):
ATTTATTATTATAATCAT
Found at i:21049686 original size:29 final size:28
Alignment explanation
Indices: 21049646--21049736 Score: 101
Period size: 29 Copynumber: 3.1 Consensus size: 28
21049636 CCCATAAACT
21049646 TTTTCAAAATTACATTTCAACCCCTTAAA
1 TTTTCAAAATTACATTTCAACCCC-TAAA
* * * *
21049675 TTTTCTAAATTACTTTTTAACCCCTACAC
1 TTTTCAAAATTACATTTCAACCCCTA-AA
* *
21049704 TTTCTCAAAATTACATTTCTACCCCAAAA
1 TTT-TCAAAATTACATTTCAACCCCTAAA
21049733 TTTT
1 TTTT
21049737 TGCTGCCATT
Statistics
Matches: 50, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
28 3 0.06
29 29 0.58
30 18 0.36
ACGTcount: A:0.33, C:0.25, G:0.00, T:0.42
Consensus pattern (28 bp):
TTTTCAAAATTACATTTCAACCCCTAAA
Found at i:21049965 original size:21 final size:21
Alignment explanation
Indices: 21049941--21049983 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
21049931 AAGCAAAGAC
21049941 ACAAAAAACAAAAAAAAGCAA
1 ACAAAAAACAAAAAAAAGCAA
* *
21049962 ACAAAAAAGAAAAAAGAGCAA
1 ACAAAAAACAAAAAAAAGCAA
21049983 A
1 A
21049984 GAAAGAAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.79, C:0.12, G:0.09, T:0.00
Consensus pattern (21 bp):
ACAAAAAACAAAAAAAAGCAA
Found at i:21050099 original size:13 final size:13
Alignment explanation
Indices: 21050081--21050153 Score: 62
Period size: 13 Copynumber: 5.6 Consensus size: 13
21050071 GGGCTGATCG
21050081 AGAAAGAAGAAAA
1 AGAAAGAAGAAAA
21050094 AGAAAGAAGAAAA
1 AGAAAGAAGAAAA
*
21050107 GAGAAAG-A-AAGA
1 -AGAAAGAAGAAAA
** *
21050119 AGAAAAGGGGAAGA
1 AG-AAAGAAGAAAA
21050133 AGAAAGAAGAAGAA
1 AGAAAGAAGAA-AA
21050147 A-AAAGAA
1 AGAAAGAA
21050154 AATAATTTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
11 2 0.04
12 7 0.14
13 27 0.54
14 14 0.28
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (13 bp):
AGAAAGAAGAAAA
Found at i:21050103 original size:7 final size:7
Alignment explanation
Indices: 21050081--21050153 Score: 59
Period size: 7 Copynumber: 11.1 Consensus size: 7
21050071 GGGCTGATCG
21050081 AGAAAGA
1 AGAAAGA
21050088 AGAAA-A
1 AGAAAGA
21050094 AGAAAGA
1 AGAAAGA
21050101 AG-AA-A
1 AGAAAGA
*
21050106 AGAGA-A
1 AGAAAGA
21050112 AGAAAGA
1 AGAAAGA
21050119 AGAAA-A
1 AGAAAGA
* *
21050125 GGGGAAGA
1 -AGAAAGA
21050133 AGAAAGA
1 AGAAAGA
21050140 AG-AAGA
1 AGAAAGA
*
21050146 AAAAAGA
1 AGAAAGA
21050153 A
1 A
21050154 AATAATTTTT
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
5 3 0.06
6 20 0.38
7 29 0.55
8 1 0.02
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (7 bp):
AGAAAGA
Found at i:21050113 original size:18 final size:18
Alignment explanation
Indices: 21050087--21050154 Score: 75
Period size: 18 Copynumber: 3.7 Consensus size: 18
21050077 ATCGAGAAAG
21050087 AAGAAAAAGAAAGAAGAA
1 AAGAAAAAGAAAGAAGAA
*
21050105 AAGAGAAAGAAAGAAGAA
1 AAGAAAAAGAAAGAAGAA
*
21050123 AAGGGGAAGAAGAAAGAAGAA
1 AA---GAAAAAGAAAGAAGAA
*
21050144 GA-AAAAAGAAA
1 AAGAAAAAGAAA
21050155 ATAATTTTTG
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
17 8 0.19
18 19 0.45
21 15 0.36
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (18 bp):
AAGAAAAAGAAAGAAGAA
Found at i:21050119 original size:31 final size:31
Alignment explanation
Indices: 21050081--21050155 Score: 91
Period size: 31 Copynumber: 2.4 Consensus size: 31
21050071 GGGCTGATCG
21050081 AGAAAGAAGAAAA-AGAAAGAAGAAA-AGAGAA
1 AGAAAGAAGAAAAGAGAAAGAAGAAAGA-AG-A
* *
21050112 AGAAAGAAGAAAAGGGGAAGAAGAAAGAAGA
1 AGAAAGAAGAAAAGAGAAAGAAGAAAGAAGA
*
21050143 AGAAAAAAGAAAA
1 AGAAAGAAGAAAA
21050156 TAATTTTTGT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
31 26 0.67
32 12 0.31
33 1 0.03
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (31 bp):
AGAAAGAAGAAAAGAGAAAGAAGAAAGAAGA
Found at i:21050821 original size:21 final size:21
Alignment explanation
Indices: 21050777--21050821 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
21050767 GTAAATATTC
**
21050777 AAAAATTCTCGTGTTTTTTAA
1 AAAAATTCTCGTGTTTAATAA
21050798 AAAAATTCTCGTGTTTAAATAA
1 AAAAATTCTCGTGTTT-AATAA
21050820 AA
1 AA
21050822 TCACGATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (21 bp):
AAAAATTCTCGTGTTTAATAA
Found at i:21051006 original size:16 final size:16
Alignment explanation
Indices: 21050941--21051010 Score: 56
Period size: 16 Copynumber: 4.5 Consensus size: 16
21050931 ATCCGTATTT
*
21050941 TTTCAAAAATTTCATG
1 TTTCAAAATTTTCATG
*
21050957 TTTAAAAATTTT-AT-
1 TTTCAAAATTTTCATG
****
21050971 TTTC-GTGCTTTCATG
1 TTTCAAAATTTTCATG
21050986 TTTTCAAAATTTTCATG
1 -TTTCAAAATTTTCATG
21051003 TTTCAAAA
1 TTTCAAAA
21051011 ATCCTTTTGT
Statistics
Matches: 39, Mismatches: 11, Indels: 8
0.67 0.19 0.14
Matches are distributed among these distances:
13 3 0.08
14 5 0.13
15 2 0.05
16 22 0.56
17 7 0.18
ACGTcount: A:0.31, C:0.11, G:0.07, T:0.50
Consensus pattern (16 bp):
TTTCAAAATTTTCATG
Found at i:21051012 original size:17 final size:17
Alignment explanation
Indices: 21050979--21051010 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
21050969 ATTTTCGTGC
21050979 TTTCATGTTTTCAAAAT
1 TTTCATGTTTTCAAAAT
21050996 TTTCATG-TTTCAAAA
1 TTTCATGTTTTCAAAA
21051011 ATCCTTTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.31, C:0.12, G:0.06, T:0.50
Consensus pattern (17 bp):
TTTCATGTTTTCAAAAT
Found at i:21051068 original size:19 final size:18
Alignment explanation
Indices: 21050979--21051390 Score: 225
Period size: 17 Copynumber: 22.9 Consensus size: 18
21050969 ATTTTCGTGC
*
21050979 TTTCATGTTTTC-AAAAT
1 TTTCGTGTTTTCAAAAAT
*
21050996 TTTCATG-TTTCAAAAAT
1 TTTCGTGTTTTCAAAAAT
*
21051013 CCTTT--TGTTTTCCAAAA-
1 --TTTCGTGTTTTCAAAAAT
* *
21051030 TTCCG-GCGTTTCAAAAAATT
1 TTTCGTG-TTTTC-AAAAA-T
*
21051050 TTTCGTGTTTTCAAGAA-
1 TTTCGTGTTTTCAAAAAT
*
21051067 TTTCGATG-ATTCAAAAAAT
1 TTTCG-TGTTTTC-AAAAAT
* *
21051086 TTCCGTGTTTTCAAGAAT
1 TTTCGTGTTTTCAAAAAT
*
21051104 TTTCACGT-TTTTTATAAAAT
1 TTT--CGTGTTTTCA-AAAAT
*
21051124 TTTCGTGTTTTTAAAAAAT
1 TTTCGTG-TTTTCAAAAAT
** *
21051143 TCCCGTGTTTTTAAAGATAAAT
1 TTTCGTG-TTTT-CA-A-AAAT
21051165 TTTCGTGTTTTCAAAAAT
1 TTTCGTGTTTTCAAAAAT
*
21051183 TTTCTTG-TTTCAAAAAT
1 TTTCGTGTTTTCAAAAAT
** *
21051200 CCTCCTGTTTTCAAAAA-
1 TTTCGTGTTTTCAAAAAT
*
21051217 TTCCAGTG-TTTCAAAAAT
1 TTTC-GTGTTTTCAAAAAT
21051235 TTTCGTGTTTTCAAAAA-
1 TTTCGTGTTTTCAAAAAT
*
21051252 TTTCG-GTGATTCAAAAAAT
1 TTTCGTGT-TTTC-AAAAAT
21051271 TTTCGTGTTTTCAAAAAAT
1 TTTCGTGTTTTC-AAAAAT
* *
21051290 TCTCGTG-TTTCAAAAAA
1 TTTCGTGTTTTCAAAAAT
* *
21051307 TTTCTTGTTTT-TAAAAT
1 TTTCGTGTTTTCAAAAAT
* * * *
21051324 CTTGGTGTTTGCAACAAT
1 TTTCGTGTTTTCAAAAAT
* *
21051342 TCTC--GTTTTCTAAAAT
1 TTTCGTGTTTTCAAAAAT
* *
21051358 TCTCGTG-TTTCAAAATT
1 TTTCGTGTTTTCAAAAAT
21051375 TTTCGTGTTTT-AAAAA
1 TTTCGTGTTTTCAAAAA
21051391 AATTTGCTTC
Statistics
Matches: 305, Mismatches: 54, Indels: 72
0.71 0.13 0.17
Matches are distributed among these distances:
15 2 0.01
16 20 0.07
17 100 0.33
18 84 0.28
19 56 0.18
20 28 0.09
21 6 0.02
22 9 0.03
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.46
Consensus pattern (18 bp):
TTTCGTGTTTTCAAAAAT
Found at i:21051104 original size:18 final size:18
Alignment explanation
Indices: 21051038--21051310 Score: 168
Period size: 18 Copynumber: 14.7 Consensus size: 18
21051028 AATTCCGGCG
*
21051038 TTTCAAAAAATTTTTCGTGT
1 TTTC-AAAAA-TTTCCGTGT
*
21051058 TTTCAAGAATTT-CGATG-
1 TTTCAAAAATTTCCG-TGT
*
21051075 ATTCAAAAAATTTCCGTGT
1 TTTC-AAAAATTTCCGTGT
*
21051094 TTTCAAGAATTTTCACGT-T
1 TTTCAA-AAATTTC-CGTGT
* *
21051113 TTTTATAAAATTTTCGTGTT
1 TTTCA-AAAATTTCCGTG-T
* *
21051133 TTTAAAAAATTCCCGTGTT
1 TTTCAAAAATTTCCGTG-T
* *
21051152 TTTAAAGATAAATTTTCGTGT
1 TTT-CA-A-AAATTTCCGTGT
* *
21051173 TTTCAAAAATTTTCTTG-
1 TTTCAAAAATTTCCGTGT
*
21051190 TTTCAAAAATCCTCC-TGT
1 TTTCAAAAAT-TTCCGTGT
21051208 TTTCAAAAA-TTCCAGTG-
1 TTTCAAAAATTTCC-GTGT
*
21051225 TTTCAAAAATTTTCGTGT
1 TTTCAAAAATTTCCGTGT
*
21051243 TTTCAAAAATTTCGGTG-
1 TTTCAAAAATTTCCGTGT
* *
21051260 ATTCAAAAAATTTTCGTGT
1 TTTC-AAAAATTTCCGTGT
*
21051279 TTTCAAAAAATTCTCGTG-
1 TTTCAAAAATTTC-CGTGT
21051297 TTTCAAAAAATTTC
1 TTTC-AAAAATTTC
21051311 TTGTTTTTAA
Statistics
Matches: 203, Mismatches: 28, Indels: 45
0.74 0.10 0.16
Matches are distributed among these distances:
16 3 0.01
17 32 0.16
18 82 0.40
19 56 0.28
20 16 0.08
21 5 0.02
22 9 0.04
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.45
Consensus pattern (18 bp):
TTTCAAAAATTTCCGTGT
Found at i:21051216 original size:35 final size:35
Alignment explanation
Indices: 21050979--21051391 Score: 263
Period size: 35 Copynumber: 11.5 Consensus size: 35
21050969 ATTTTCGTGC
* *
21050979 TTTCATGTTTTCAAAATTTTCA-TGTTTCAAAAAT
1 TTTCGTGTTTTCAAAAATTTCAGTGTTTCAAAAAT
* * * *
21051013 CCTTT--TGTTTTCCAAAATTCCGGCGTTTCAAAAAATT
1 --TTTCGTGTTTTCAAAAATTTCAGTGTTTC-AAAAA-T
* *
21051050 TTTCGTGTTTTCAAGAATTTC-GATGATTCAAAAAAT
1 TTTCGTGTTTTCAAAAATTTCAG-TGTTTC-AAAAAT
* * * *
21051086 TTCCGTGTTTTCAAGAATTTTCACGTTTTTTATAAAAT
1 TTTCGTGTTTTCAA-AAATTTCA-GTGTTTCA-AAAAT
* * * *
21051124 TTTCGTGTTTTTAAAAAATTCCCGTGTTTTTAAAGATAAAT
1 TTTCGTG-TTTTCAAAAATTTCAGTG--TTT-CA-A-AAAT
*
21051165 TTTCGTGTTTTCAAAAATTTTC-TTGTTTCAAAAAT
1 TTTCGTGTTTTCAAAAA-TTTCAGTGTTTCAAAAAT
** * *
21051200 CCTCCTGTTTTCAAAAATTCCAGTGTTTCAAAAAT
1 TTTCGTGTTTTCAAAAATTTCAGTGTTTCAAAAAT
* *
21051235 TTTCGTGTTTTCAAAAATTTCGGTGATTCAAAAAAT
1 TTTCGTGTTTTCAAAAATTTCAGTGTTTC-AAAAAT
*
21051271 TTTCGTGTTTTCAAAAAATTCTC-GTGTTTCAAAAAA
1 TTTCGTGTTTTC-AAAAATT-TCAGTGTTTCAAAAAT
* * * *
21051307 TTTCTTGTTTT-TAAAATCTT-GGTGTTTGCAACAAT
1 TTTCGTGTTTTCAAAAAT-TTCAGTGTTT-CAAAAAT
* * *
21051342 TCTC--GTTTTCTAAAATTCTC-GTGTTTCAAAATT
1 TTTCGTGTTTTCAAAAATT-TCAGTGTTTCAAAAAT
*
21051375 TTTCGTGTTTTAAAAAA
1 TTTCGTGTTTTCAAAAA
21051392 ATTTGCTTCA
Statistics
Matches: 298, Mismatches: 51, Indels: 57
0.73 0.13 0.14
Matches are distributed among these distances:
33 14 0.05
34 41 0.14
35 79 0.27
36 57 0.19
37 46 0.15
38 24 0.08
39 10 0.03
40 13 0.04
41 14 0.05
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.46
Consensus pattern (35 bp):
TTTCGTGTTTTCAAAAATTTCAGTGTTTCAAAAAT
Found at i:21051358 original size:16 final size:16
Alignment explanation
Indices: 21051161--21051389 Score: 99
Period size: 18 Copynumber: 13.2 Consensus size: 16
21051151 TTTTAAAGAT
*
21051161 AAATTTTCGTGTTTTCAA
1 AAATTCTCGTG-TTTC-A
* *
21051179 AAATTTTCTTGTTTCAA
1 AAATTCTCGTGTTTC-A
* *
21051196 AAATCCTCCTGTTTTCAA
1 AAATTCTCGTG-TTTC-A
21051214 AAATTC-CAGTGTTTCAA
1 AAATTCTC-GTGTTTC-A
*
21051231 AAATTTTCGTGTTTTCAA
1 AAATTCTCGTG-TTTC-A
*
21051249 AAATT-TCGGTGATTCAAA
1 AAATTCTC-GTGTTTC--A
*
21051267 AAATTTTCGTGTTTTCAAA
1 AAATTCTCGTG-TTTC--A
21051286 AAATTCTCGTGTTTCAAA
1 AAATTCTCGTGTTTC--A
* *
21051304 AAATT-TCTTGTTTTTA
1 AAATTCTCGTG-TTTCA
*
21051320 AAA-TCTTGGTGTTTGCA
1 AAATTC-TCGTGTTT-CA
21051337 ACAATTCTCGT-TTTCTA
1 A-AATTCTCGTGTTTC-A
21051354 AAATTCTCGTGTTTCA
1 AAATTCTCGTGTTTCA
* *
21051370 AAATTTTTCGTGTTTTA
1 AAA-TTCTCGTGTTTCA
21051387 AAA
1 AAA
21051390 AAATTTGCTT
Statistics
Matches: 176, Mismatches: 18, Indels: 35
0.77 0.08 0.15
Matches are distributed among these distances:
15 1 0.01
16 21 0.12
17 66 0.38
18 68 0.39
19 20 0.11
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.45
Consensus pattern (16 bp):
AAATTCTCGTGTTTCA
Found at i:21053120 original size:4 final size:4
Alignment explanation
Indices: 21053105--21053143 Score: 71
Period size: 4 Copynumber: 10.0 Consensus size: 4
21053095 GCATGACTAA
21053105 CATT CA-T CATT CATT CATT CATT CATT CATT CATT CATT
1 CATT CATT CATT CATT CATT CATT CATT CATT CATT CATT
21053144 GGATGTGCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.09
4 31 0.91
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.49
Consensus pattern (4 bp):
CATT
Found at i:21058141 original size:78 final size:76
Alignment explanation
Indices: 21057990--21058823 Score: 1050
Period size: 78 Copynumber: 10.8 Consensus size: 76
21057980 TTTCACAAAT
* * *
21057990 TATTTTTCAATCTCTGTTTTTGCAAAAATCAACTCATATTGCCAGAGGTGAGTTGAGCCTCGGAT
1 TATTTTTCAATTTCTGTTTTT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
*
21058055 CACATGCCGAGG
65 CACATGCTGAGG
* * *
21058067 TATTTCTTTTAAATTTCTG-TTTTCAAAAATCAACTCATATTGTGAGAGGTGAGCTGAGCCTCGG
1 TA--T-TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
* *
21058131 GTCACATGCCGATG
63 GTCACATGCTGAGG
* * * *
21058145 TATTTCTTTTAAGTTTCTGTTTTTCAAAAATCAACTCATATTGCTAGAAGTAAGTTGAGCCTCGG
1 TA-TT-TTTCAA-TTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
21058210 GTCACATGCTGAGG
63 GTCACATGCTGAGG
* * * * * *
21058224 TATTTTTCAATTTCTGTCTTTTTCAAAAATCCACCCATTTTGCTAGAAGTGAGTTGAGCCTCGAG
1 TATTTTTCAATTTCTG--TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
21058289 TCACATGCTGAGG
64 TCACATGCTGAGG
* * *
21058302 TATTTCTTTTAAGTTTCTGTTTTTCAAAAATCAACTCATATTGCTAGAAGTGAGTTGAGCCTCGG
1 TA-TT-TTTCAA-TTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
21058367 GTCACATGCTGAGG
63 GTCACATGCTGAGG
* *
21058381 TACTTTTCAATTTATGTCCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
1 TATTTTTCAATTTCTGT--TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
* * *
21058446 CCGCACGCTGAGG
64 TCACATGCTGAGG
* *
21058459 TA-TTTTAAATTTC-GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCC
1 TATTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
** *
21058522 GTACGCTGAGG
66 ACATGCTGAGG
* *
21058533 TA-TTTTAAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
1 TATTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
* *
21058597 ACACG-TCAAGG
66 ACATGCT-GAGG
* *
21058608 TA-TTTTCAATTTCTGTTTTTCAAAAATCAACTCATGTTGCGAGAGGTGAGTTGAGTCTCGGGTC
1 TATTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
*
21058672 ACACGCTGAGG
66 ACATGCTGAGG
*
21058683 TATTTTTCAATTTCTGTTTTTTCAAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGG
1 TATTTTTCAATTTCTG-TTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
* *
21058748 TCGCATGCCGAGG
64 TCACATGCTGAGG
* * *
21058761 TATTATTTTCAATTTCTATTTTTCAAAAATCAACTCATATTACGATAGGTGAGTTGAGCCTCG
1 TA-T-TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
21058824 AGTCGCACGC
Statistics
Matches: 679, Mismatches: 57, Indels: 41
0.87 0.07 0.05
Matches are distributed among these distances:
74 72 0.11
75 124 0.18
76 29 0.04
77 34 0.05
78 260 0.38
79 126 0.19
80 28 0.04
81 6 0.01
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (76 bp):
TATTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
ACATGCTGAGG
Found at i:21058305 original size:157 final size:154
Alignment explanation
Indices: 21057992--21058823 Score: 1047
Period size: 157 Copynumber: 5.4 Consensus size: 154
21057982 TCACAAATTA
* * * *
21057992 TTTTTCAATCTCTGTTTTTGCAAAAATCAACTCATATTGCCAGAGGTGAGTTGAGCCTCGGATCA
1 TTTTTTAATTTCTGTTTTT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
* *
21058057 CATGCCGAGGTATTTCTTTTAAATTTCTG--TTTTCAAAAATCAACTCATATTG-TGAGAGGTGA
65 CATGCTGAGGTA--T-TTTTCAATTTCTGTTTTTTCAAAAATCAACTCATATTGCT-AGAGGTGA
* * *
21058119 GCTGAGCCTCGGGTCACATGCCGATGTAT
126 GTTGAGCCTCGGGTCACATGCTGAGGTAT
* * *
21058148 TTCTTTTAAGTTTCTGTTTTTCAAAAATCAACTCATATTGCTAGAAGTAAGTTGAGCCTCGGGTC
1 TT-TTTTAA-TTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
* * * *
21058213 ACATGCTGAGGTATTTTTCAATTTCTGTCTTTTTCAAAAATCCACCCATTTTGCTAGAAGTGAGT
64 ACATGCTGAGGTATTTTTCAATTTCTGT-TTTTTCAAAAATCAACTCATATTGCTAGAGGTGAGT
*
21058278 TGAGCCTCGAGTCACATGCTGAGGTAT
128 TGAGCCTCGGGTCACATGCTGAGGTAT
* *
21058305 TTCTTTTAAGTTTCTGTTTTTCAAAAATCAACTCATATTGCTAGAAGTGAGTTGAGCCTCGGGTC
1 TT-TTTTAA-TTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
* * * *
21058370 ACATGCTGAGGTACTTTTCAATTTATGTCCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGT
64 ACATGCTGAGGTATTTTTCAATTTCTGT-TTTTTCAAAAATCAACTCATATTGCTAGAGGTGAGT
* * *
21058435 TGAGCCTCGGGCCGCACGCTGAGGTA-
128 TGAGCCTCGGGTCACATGCTGAGGTAT
* * **
21058461 -TTTTAAATTTC-GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCCGT
1 TTTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
* * * *
21058524 ACGCTGAGGTA-TTTTAAATTTCT-ATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
66 ATGCTGAGGTATTTTTCAATTTCTGTTTTTTCAAAAATCAACTCATATTGCTAGAGGTGAGTTGA
* *
21058587 GCCTCGGGTCACACG-TCAAGGTA-
131 GCCTCGGGTCACATGCT-GAGGTAT
* * *
21058610 -TTTTCAATTTCTGTTTTTCAAAAATCAACTCATGTTGCGAGAGGTGAGTTGAGTCTCGGGTCAC
1 TTTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
*
21058674 ACGCTGAGGTATTTTTCAATTTCTGTTTTTTCAAAAAATCAACTCATATTGCTAGAGGTGAGTTG
66 ATGCTGAGGTATTTTTCAATTTCTGTTTTTTC-AAAAATCAACTCATATTGCTAGAGGTGAGTTG
* *
21058739 AGCCTCGGGTCGCATGCCGAGGTAT
130 AGCCTCGGGTCACATGCTGAGGTAT
* * * *
21058764 TATTTTCAATTTCTATTTTTCAAAAATCAACTCATATTACGATAGGTGAGTTGAGCCTCG
1 T-TTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
21058824 AGTCGCACGC
Statistics
Matches: 600, Mismatches: 61, Indels: 30
0.87 0.09 0.04
Matches are distributed among these distances:
148 1 0.00
149 66 0.11
150 58 0.10
151 21 0.04
152 63 0.10
153 54 0.09
154 17 0.03
155 2 0.00
156 55 0.09
157 252 0.42
158 11 0.02
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (154 bp):
TTTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
ATGCTGAGGTATTTTTCAATTTCTGTTTTTTCAAAAATCAACTCATATTGCTAGAGGTGAGTTGA
GCCTCGGGTCACATGCTGAGGTAT
Found at i:21059053 original size:30 final size:30
Alignment explanation
Indices: 21059017--21059156 Score: 133
Period size: 30 Copynumber: 4.7 Consensus size: 30
21059007 TAAAAATTTT
*
21059017 CATTTTGACCCTTAAACTTTTCTAAAATTA
1 CATTTTGACCCCTAAACTTTTCTAAAATTA
*
21059047 CATTTTGACCCCTAACATTTTTC-AAAATTA
1 CATTTTGACCCCTAA-ACTTTTCTAAAATTA
* ** *
21059077 TATTTCAACCCCTTAACTTTTCT-AAATTA
1 CATTTTGACCCCTAAACTTTTCTAAAATTA
* * *
21059106 TATTTTGACCCCTACAC-TTTCTCAAAATTG
1 CATTTTGACCCCTAAACTTTTCT-AAAATTA
* * *
21059136 CATTTTTACCCCAAAATTTTT
1 CATTTTGACCCCTAAACTTTT
21059157 GCTGTCATTA
Statistics
Matches: 88, Mismatches: 17, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
28 5 0.06
29 25 0.28
30 49 0.56
31 9 0.10
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.43
Consensus pattern (30 bp):
CATTTTGACCCCTAAACTTTTCTAAAATTA
Found at i:21059116 original size:29 final size:29
Alignment explanation
Indices: 21059018--21059118 Score: 116
Period size: 29 Copynumber: 3.4 Consensus size: 29
21059008 AAAAATTTTC
*
21059018 ATTTTGA-CCCTTAAACTTTTCTAAAATTAC
1 ATTTTGACCCCTT-AACTTTTCT-AAATTAT
*
21059048 ATTTTGACCCC-TAACATTTTTCAAAATTAT
1 ATTTTGACCCCTTAAC--TTTTCTAAATTAT
**
21059078 ATTTCAACCCCTTAACTTTTCTAAATTAT
1 ATTTTGACCCCTTAACTTTTCTAAATTAT
21059107 ATTTTGACCCCT
1 ATTTTGACCCCT
21059119 ACACTTTCTC
Statistics
Matches: 60, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
29 25 0.42
30 23 0.38
31 12 0.20
ACGTcount: A:0.31, C:0.23, G:0.03, T:0.44
Consensus pattern (29 bp):
ATTTTGACCCCTTAACTTTTCTAAATTAT
Found at i:21059147 original size:59 final size:61
Alignment explanation
Indices: 21059017--21059147 Score: 162
Period size: 59 Copynumber: 2.2 Consensus size: 61
21059007 TAAAAATTTT
* *
21059017 CATTTTGA-CCCTTAAACTTTTCTAAAATTACATTTTGACCCCTAACATTTTTCAAAATTA
1 CATTTTAACCCCTTAAACTTTTCTAAAATTACATTTTGACCCCTAACATTTCTCAAAATTA
* * * *
21059077 TATTTCAACCCCTT-AACTTTTCT-AAATTATATTTTGACCCCT-ACACTTTCTCAAAATTG
1 CATTTTAACCCCTTAAACTTTTCTAAAATTACATTTTGACCCCTAACA-TTTCTCAAAATTA
*
21059136 CATTTTTACCCC
1 CATTTTAACCCC
21059148 AAAATTTTTG
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
58 3 0.05
59 38 0.63
60 14 0.23
61 5 0.08
ACGTcount: A:0.30, C:0.25, G:0.03, T:0.42
Consensus pattern (61 bp):
CATTTTAACCCCTTAAACTTTTCTAAAATTACATTTTGACCCCTAACATTTCTCAAAATTA
Found at i:21059509 original size:21 final size:22
Alignment explanation
Indices: 21059478--21059519 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
21059468 AAAGACACAA
21059478 AAAAAATTAAAAAAAAGCAAAC
1 AAAAAATTAAAAAAAAGCAAAC
*
21059500 AAAAAA-TAAAAAATAGCAAA
1 AAAAAATTAAAAAAAAGCAAA
21059520 GAAAGAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.79, C:0.07, G:0.05, T:0.10
Consensus pattern (22 bp):
AAAAAATTAAAAAAAAGCAAAC
Found at i:21059640 original size:7 final size:6
Alignment explanation
Indices: 21059618--21059716 Score: 78
Period size: 6 Copynumber: 16.0 Consensus size: 6
21059608 GGGCTAAGCG
*
21059618 AGAAAGA AGAAAA AGAAAGA AGAAAA A-AGAA AGAAAGA AGAAAA AGAAAGA
1 AGAAA-A AGAAAA AGAAA-A AGAAAA AGAAAA AGAAA-A AGAAAA AGAAA-A
*** *
21059669 AG-AAA AGGGGA AGAAGAA AGAAGA A-AAAA AGAAAA AGAAAAA AGAAAA
1 AGAAAA AGAAAA AGAA-AA AGAAAA AGAAAA AGAAAA AG-AAAA AGAAAA
21059717 TAATTTTTTT
Statistics
Matches: 75, Mismatches: 9, Indels: 17
0.74 0.09 0.17
Matches are distributed among these distances:
5 11 0.15
6 33 0.44
7 31 0.41
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:21059656 original size:31 final size:31
Alignment explanation
Indices: 21059618--21059715 Score: 128
Period size: 31 Copynumber: 3.0 Consensus size: 31
21059608 GGGCTAAGCG
21059618 AGAAAGAAGAAAAAGAAAGAAGAAAAAAGAA
1 AGAAAGAAGAAAAAGAAAGAAGAAAAAAGAA
21059649 AGAAAGAAGAAAAAGAAAGAAGAAAAGGGGAAG-A
1 AGAAAGAAGAAAAAGAAAGAAGAAAA----AAGAA
21059683 AGAAAGAAGAAAAAAAGAAA-AAGAAAAAAGAA
1 AGAAAGAAG--AAAAAGAAAGAAGAAAAAAGAA
21059715 A
1 A
21059716 ATAATTTTTT
Statistics
Matches: 60, Mismatches: 0, Indels: 13
0.82 0.00 0.18
Matches are distributed among these distances:
31 29 0.48
32 2 0.03
34 10 0.17
35 10 0.17
36 9 0.15
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (31 bp):
AGAAAGAAGAAAAAGAAAGAAGAAAAAAGAA
Found at i:21059714 original size:42 final size:45
Alignment explanation
Indices: 21059634--21059716 Score: 127
Period size: 42 Copynumber: 1.9 Consensus size: 45
21059624 AAGAAAAAGA
*
21059634 AAGAAGAAAAAAGAAAGAAAGAAGAAAAAGAAAGAAGAAAAGGGG
1 AAGAAGAAAAAAGAAAGAAAGAAGAAAAAGAAAAAAGAAAAGGGG
*
21059679 AAGAAGAAAGAAG-AA-AAA-AAGAAAAAGAAAAAAGAAAA
1 AAGAAGAAAAAAGAAAGAAAGAAGAAAAAGAAAAAAGAAAA
21059717 TAATTTTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
42 19 0.53
43 3 0.08
44 2 0.06
45 12 0.33
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (45 bp):
AAGAAGAAAAAAGAAAGAAAGAAGAAAAAGAAAAAAGAAAAGGGG
Found at i:21059716 original size:21 final size:21
Alignment explanation
Indices: 21059620--21059716 Score: 95
Period size: 21 Copynumber: 4.4 Consensus size: 21
21059610 GCTAAGCGAG
21059620 AAAGAAGAAAAAGAAAGAAGAAA
1 AAAGAA-AAAAAGAAA-AAGAAA
21059643 AAAGAAAGAAAGAAGAAAAAGAAA
1 AAAG-AA-AAA-AAGAAAAAGAAA
* *** *
21059667 GAAGAAAAGGGGAAGAAGAAA
1 AAAGAAAAAAAGAAAAAGAAA
*
21059688 GAAGAAAAAAAGAAAAAGAAA
1 AAAGAAAAAAAGAAAAAGAAA
21059709 AAAGAAAA
1 AAAGAAAA
21059717 TAATTTTTTT
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
21 33 0.53
22 2 0.03
23 6 0.10
24 15 0.24
25 6 0.10
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (21 bp):
AAAGAAAAAAAGAAAAAGAAA
Found at i:21059950 original size:12 final size:12
Alignment explanation
Indices: 21059933--21059959 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
21059923 GTCCAGTAGG
21059933 CCACCAGCAGGC
1 CCACCAGCAGGC
21059945 CCACCAGCAGGC
1 CCACCAGCAGGC
21059957 CCA
1 CCA
21059960 GCAGGCTAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.52, G:0.22, T:0.00
Consensus pattern (12 bp):
CCACCAGCAGGC
Found at i:21060023 original size:10 final size:10
Alignment explanation
Indices: 21060008--21060047 Score: 62
Period size: 10 Copynumber: 3.9 Consensus size: 10
21059998 GAGGCAAGCC
21060008 AGAAAAAAAA
1 AGAAAAAAAA
21060018 AGAAAAAAAGA
1 AGAAAAAAA-A
*
21060029 AGAAAGAAAA
1 AGAAAAAAAA
21060039 AGAAAAAAA
1 AGAAAAAAA
21060048 GGTTCAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
10 18 0.67
11 9 0.33
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (10 bp):
AGAAAAAAAA
Found at i:21060032 original size:21 final size:21
Alignment explanation
Indices: 21060008--21060048 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
21059998 GAGGCAAGCC
21060008 AGAAAAAAAAAGAAAAAAAGA
1 AGAAAAAAAAAGAAAAAAAGA
*
21060029 AGAAAGAAAAAGAAAAAAAG
1 AGAAAAAAAAAGAAAAAAAG
21060049 GTTCAATTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (21 bp):
AGAAAAAAAAAGAAAAAAAGA
Found at i:21060402 original size:21 final size:21
Alignment explanation
Indices: 21060359--21060403 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
21060349 GTAAATATTC
**
21060359 AAAAATTCTCGTGTTTTTTTA
1 AAAAATTCTCGTGTTTTAATA
21060380 AAAAATTCTCGTGTTTTAATA
1 AAAAATTCTCGTGTTTTAATA
21060401 AAA
1 AAA
21060404 TCACGATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.44
Consensus pattern (21 bp):
AAAAATTCTCGTGTTTTAATA
Found at i:21060685 original size:18 final size:18
Alignment explanation
Indices: 21060634--21060942 Score: 160
Period size: 18 Copynumber: 16.9 Consensus size: 18
21060624 ATTTTTTTTT
* *
21060634 GTGTTTTCAAGAATTTCA
1 GTGTTTTCAAAAATTTCC
*
21060652 GTG-ATTCAAAAGATTTCC
1 GTGTTTTCAAAA-ATTTCC
*
21060670 GTGTTTTCAAGAATTTTCAC
1 GTGTTTTCAA-AAATTTC-C
* * *
21060690 AAT-TTTTTATAAAATTTTC
1 -GTGTTTTCA-AAAATTTCC
* *
21060709 GTGTTTTTAAAAAATTCGC
1 GTGTTTTCAAAAATTTC-C
* * *
21060728 ATGTTTTTAAAGATAAATTTTC
1 GTG-TTTT-CA-A-AAATTTCC
*
21060750 GTGTTTTCAAAAATTTTC
1 GTGTTTTCAAAAATTTCC
*
21060768 TTG-TTTCAAAAATCCTT-C
1 GTGTTTTCAAAAAT--TTCC
21060786 -TGTTTTCAAAAA-TTCC
1 GTGTTTTCAAAAATTTCC
21060802 G-GTGTTTCAAAAATCTT-C
1 GTGT-TTTCAAAAAT-TTCC
*
21060820 GTGTTTTCAAAAATTTCG
1 GTGTTTTCAAAAATTTCC
* *
21060838 GTG-ATTCAAAAAATTTTC
1 GTGTTTTC-AAAAATTTCC
21060856 GTGTTTTCAAAAATTTCTC
1 GTGTTTTCAAAAATTTC-C
* *
21060875 GT-ATTTCAAAAATTTTC
1 GTGTTTTCAAAAATTTCC
* *
21060892 TTTTTTTC-AAAATGTT-C
1 GTGTTTTCAAAAAT-TTCC
*
21060909 GTGTTTTCAACAA-TTCTC
1 GTGTTTTCAAAAATTTC-C
21060927 GTG-TTTCAAAAATTTC
1 GTGTTTTCAAAAATTTC
21060943 TGTTTCGATC
Statistics
Matches: 227, Mismatches: 33, Indels: 62
0.70 0.10 0.19
Matches are distributed among these distances:
15 2 0.01
16 5 0.02
17 54 0.24
18 100 0.44
19 32 0.14
20 18 0.08
21 7 0.03
22 4 0.02
23 5 0.02
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (18 bp):
GTGTTTTCAAAAATTTCC
Found at i:21060857 original size:36 final size:35
Alignment explanation
Indices: 21060558--21060942 Score: 228
Period size: 35 Copynumber: 10.6 Consensus size: 35
21060548 ATTTTCGTGC
* *
21060558 TTTCGTGTTTTCAAAATTTTC-ATGTTTCAAAAAT
1 TTTCGTGTTTTCAAAAATTTCGGTGTTTCAAAAAT
* * * * *
21060592 AATTT--TGTTTTCCAAAATTCCAGCGTTTCAAAATTTTT
1 --TTTCGTGTTTTCAAAAATTTCGGTGTTTCAAAA---AT
* * * *
21060630 TTTTGTGTTTTCAAGAATTTCAGTGATTCAAAAGAT
1 TTTCGTGTTTTCAAAAATTTCGGTGTTTCAAAA-AT
* * ** * *
21060666 TTCCGTGTTTTCAAGAATTTTCACAATTTTTTATAAAAT
1 TTTCGTGTTTTCAA-AAATTT--CGGTGTTTCA-AAAAT
* * * *
21060705 TTTCGTGTTTTTAAAAAATTCGCATGTTTTTAAAGATAAAT
1 TTTCGTGTTTTCAAAAATTTCG---GTGTTT-CA-A-AAAT
*
21060746 TTTCGTGTTTTCAAAAATTTTC-TTGTTTCAAAAAT
1 TTTCGTGTTTTCAAAAA-TTTCGGTGTTTCAAAAAT
* *
21060781 CCTTC-TGTTTTCAAAAATTCCGGTGTTTCAAAAAT
1 -TTTCGTGTTTTCAAAAATTTCGGTGTTTCAAAAAT
* *
21060816 CTTCGTGTTTTCAAAAATTTCGGTGATTCAAAAAAT
1 TTTCGTGTTTTCAAAAATTTCGGTGTTTC-AAAAAT
* *
21060852 TTTCGTGTTTTCAAAAATTTCTCGTATTTCAAAAAT
1 TTTCGTGTTTTCAAAAATTTC-GGTGTTTCAAAAAT
* * *
21060888 TTTCTTTTTTTC-AAAATGTTC-GTGTTTTCAACAAT
1 TTTCGTGTTTTCAAAAAT-TTCGGTG-TTTCAAAAAT
*
21060923 TCTCGTG-TTTCAAAAATTTC
1 TTTCGTGTTTTCAAAAATTTC
21060943 TGTTTCGATC
Statistics
Matches: 275, Mismatches: 50, Indels: 50
0.73 0.13 0.13
Matches are distributed among these distances:
34 29 0.11
35 82 0.30
36 69 0.25
37 10 0.04
38 32 0.12
39 25 0.09
40 5 0.02
41 20 0.07
42 3 0.01
ACGTcount: A:0.30, C:0.13, G:0.10, T:0.47
Consensus pattern (35 bp):
TTTCGTGTTTTCAAAAATTTCGGTGTTTCAAAAAT
Found at i:21060943 original size:18 final size:17
Alignment explanation
Indices: 21060742--21060941 Score: 174
Period size: 18 Copynumber: 11.4 Consensus size: 17
21060732 TTTTAAAGAT
21060742 AAATTTTCGTGTTTTCAA
1 AAATTTTCGTG-TTTCAA
*
21060760 AAATTTTCTTGTTTCAA
1 AAATTTTCGTGTTTCAA
*
21060777 AAATCCTTC-TGTTTTCAA
1 AAAT-TTTCGTG-TTTCAA
*
21060795 AAA-TTCCGGTGTTTCAA
1 AAATTTTC-GTGTTTCAA
*
21060812 AAATCTTCGTGTTTTCAA
1 AAATTTTCGTG-TTTCAA
*
21060830 AAA-TTTCGGTGATTCAAA
1 AAATTTTC-GTGTTTC-AA
21060848 AAATTTTCGTGTTTTCAA
1 AAATTTTCGTG-TTTCAA
*
21060866 AAATTTCTCGTATTTCAA
1 AAATTT-TCGTGTTTCAA
* *
21060884 AAATTTTCTTTTTTTC-A
1 AAATTTTC-GTGTTTCAA
*
21060901 AAATGTTCGTGTTTTCAA
1 AAATTTTCGTG-TTTCAA
* *
21060919 CAATTCTCGTGTTTCAA
1 AAATTTTCGTGTTTCAA
21060936 AAATTT
1 AAATTT
21060942 CTGTTTCGAT
Statistics
Matches: 148, Mismatches: 20, Indels: 29
0.75 0.10 0.15
Matches are distributed among these distances:
16 3 0.02
17 54 0.36
18 80 0.54
19 11 0.07
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.46
Consensus pattern (17 bp):
AAATTTTCGTGTTTCAA
Found at i:21062932 original size:44 final size:43
Alignment explanation
Indices: 21062869--21063329 Score: 274
Period size: 44 Copynumber: 10.6 Consensus size: 43
21062859 GAAGATGGCA
*
21062869 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAACCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAA-CAAT
* * *** *
21062913 AATCCTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGTTAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACAAT
* * * *
21062956 AAGTCTTATCTCTCTAAAGTTGCAGTGGAGCAGACTGAAGAA-AAC
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAA-AACAAT
* * * ***
21063001 AAGTCTTATC-CCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGT
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAAACAAT
* *
21063045 AAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCAAT
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA-ACAAT
* * *** *
21063090 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGTTAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACAAT
* * **
21063133 AAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTGAAGAA-AGC
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAA-AACAAT
** * * * * *****
21063178 AAGTCTTATC-CTTTGAAGTTGTAGTGGGGCAAACTGAAGATGGCG
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAA-AACAAT
* * * *
21063223 AATCTTGTCTCCCTGAAGTTGCAGTGGAG-AAAGT--GAC-A-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACAAT
* * * *
21063261 AATCTTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAATGATT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAA-CAAT
* *
21063305 GATCTTATCTCTCTGAAGTTGCAGT
1 AATCTTATCTCCCTGAAGTTGCAGT
21063330 AGGGCAAATC
Statistics
Matches: 327, Mismatches: 72, Indels: 36
0.75 0.17 0.08
Matches are distributed among these distances:
38 27 0.08
39 2 0.01
41 1 0.00
43 7 0.02
44 218 0.67
45 70 0.21
46 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACAAT
Found at i:21063062 original size:133 final size:133
Alignment explanation
Indices: 21062871--21063204 Score: 383
Period size: 133 Copynumber: 2.5 Consensus size: 133
21062861 AGATGGCAAA
* * * *
21062871 TCTTATCTCCCTGAAGTTGCAGTGGAACAGA-T-TA-AAACCAATAATCCTATCTCCCTGAAGTT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAGC-A-AATCTTATCTCCCTGAAGTT
** * * * *
21062933 GTAGTGGAGCAGATTAAAGTTACA-AGTCTTATCTCTCTAAAGTTGCAGTGGAGCAGACTGAAGA
64 GTAGTGGAGCAGATTAAAGCCA-ATAATCCTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAG-
21062997 AAACAAG
127 AAACAAG
* ** *
21063004 TCTTATC-CCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGTAAATCTTATCTCCCTGAAGTTGT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAGCAAATCTTATCTCCCTGAAGTTGT
* * * **
21063068 AGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGTTAC
66 AGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAGAAAC
21063133 AAG
131 AAG
* * **
21063136 TCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTGAAGAAAGCAAGTCTTATC-CTTTGAAGTTGT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAGCAAATCTTATCTCCCTGAAGTTGT
21063200 AGTGG
66 AGTGG
21063205 GGCAAACTGA
Statistics
Matches: 169, Mismatches: 27, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
132 49 0.29
133 117 0.69
134 2 0.01
135 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.28
Consensus pattern (133 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAGCAAATCTTATCTCCCTGAAGTTGT
AGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAGAAAC
AAG
Found at i:21063155 original size:177 final size:177
Alignment explanation
Indices: 21062859--21063329 Score: 652
Period size: 177 Copynumber: 2.7 Consensus size: 177
21062849 ATGGATTGAA
* *
21062859 GAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAACCAATAATCCTATCTC
1 GAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTC
* *
21062924 CCTGAAGTTGTAGTGGAGCAGATTAAAGTTACAAGTCTTATCTCTCTAAAGTTGCAGTGGAGCAG
66 CCTGAAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCTCTAAAGTTGCAGTGGAGCAG
*
21062989 ACTGAAGAAAACAAGTCTTATCCCCTGAAGTTGCAGTGGGGCAGACT
131 ACTGAAGAAAACAAGTCTTATCCCCTGAAGTTGCAGTGGGGCAAACT
* *
21063036 GAAGATGGTAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCAATAATCCTATCTC
1 GAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTC
*
21063101 CCTGAAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTC-CTTGAAGTTGCAGTGGAGCA
66 CCTGAAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCTC-TAAAGTTGCAGTGGAGCA
* ** *
21063165 GACTGAAGAAAGCAAGTCTTATCCTTTGAAGTTGTAGTGGGGCAAACT
130 GACTGAAGAAAACAAGTCTTATCCCCTGAAGTTGCAGTGGGGCAAACT
* * ** * *
21063213 GAAGATGGCGAATCTTGTCTCCCTGAAGTTGCAGTGGAG-A-A--AGTGAC-A-AATCTTATCTC
1 GAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTC
* * * ** *
21063272 CCTGAAGTTGCAGTAGAGCGGATTAAAATGA-TTGATCTTATCTCTCTGAAGTTGCAGT
66 CCTGAAGTTGCAGTGGAGCGGATTAAAGTTACAAG-TCTTATCTCTCTAAAGTTGCAGT
21063330 AGGGCAAATC
Statistics
Matches: 266, Mismatches: 25, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
170 1 0.00
171 59 0.22
172 2 0.01
173 3 0.01
175 1 0.00
176 2 0.01
177 198 0.74
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (177 bp):
GAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTC
CCTGAAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCTCTAAAGTTGCAGTGGAGCAG
ACTGAAGAAAACAAGTCTTATCCCCTGAAGTTGCAGTGGGGCAAACT
Found at i:21063234 original size:133 final size:130
Alignment explanation
Indices: 21062871--21063290 Score: 365
Period size: 133 Copynumber: 3.2 Consensus size: 130
21062861 AGATGGCAAA
* * * *
21062871 TCTTATCTCCCTGAAGTTGCAGTGGAACAGA-T-TA-AAACCAATAATCCTATCTCCCTGAAGTT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAGC-A-AATCTTATCTCCCTGAAGTT
* * ** * * * * * *
21062933 GTAGTGGAGCAGATTAAAGTTACAAGTCTTATCTCTCTAAAGTTGCAGTGGAGCAGACTGAAGAA
64 GTAGTGGAGCAAATGAAAGCCAGAA-TCCTATCTCCCTGAAGTTGCAGTGGAGC-GA-TAAAG-T
21062998 AACAAG
125 AACAAG
* ** *
21063004 TCTTATC-CCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGTAAATCTTATCTCCCTGAAGTTGT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAGCAAATCTTATCTCCCTGAAGTTGT
* * * *
21063068 AGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGTTAC
66 AGTGGAGCAAATGAAAGCC-AGAATCCTATCTCCCTGAAGTTGCAGTGGAGC-GA-TAAAGTAAC
21063133 AAG
128 AAG
* * **
21063136 TCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTGAAGAAAGCAAGTCTTATC-CTTTGAAGTTGT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAGCAAATCTTATCTCCCTGAAGTTGT
* * * * *
21063200 AGTGGGGCAAACTGAAGATGGC-GAATCTTGTCTCCCTGAAGTTGCAGTGGA--G--AAAGTGAC
66 AGTGGAGCAAA-TGAA-A-GCCAGAATCCTATCTCCCTGAAGTTGCAGTGGAGCGATAAAGTAAC
*
21063260 AAA
128 AAG
*
21063263 TCTTATCTCCCTGAAGTTGCAGTAGAGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGC
21063291 GGATTAAAAT
Statistics
Matches: 241, Mismatches: 38, Indels: 22
0.80 0.13 0.07
Matches are distributed among these distances:
127 35 0.15
130 1 0.00
132 52 0.22
133 144 0.60
134 6 0.02
135 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (130 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAGCAAATCTTATCTCCCTGAAGTTGT
AGTGGAGCAAATGAAAGCCAGAATCCTATCTCCCTGAAGTTGCAGTGGAGCGATAAAGTAACAAG
Found at i:21063322 original size:127 final size:129
Alignment explanation
Indices: 21063097--21063337 Score: 285
Period size: 127 Copynumber: 1.9 Consensus size: 129
21063087 AATAATCCTA
* * * *
21063097 TCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCTTGAAGTTGCAGTGGA
1 TCTCCCTGAAGTTGCAGTGGA--GG--TAAAGTGACAAATCTTATCTCCCTGAAGTTGCAGTAGA
* * *
21063162 GCAGACTGAAGAAAGCAAGTCTTATCCTTTGAAGTTGTAGTGGGGCAAACTGAAGATGGCGAATC
62 GCAGACTGAAGAAAGCAAGTCTTATCCTCTGAAGTTGCAGTAGGGCAAACTGAAGATGGCGAATC
21063227 TTG
127 TTG
*
21063230 TCTCCCTGAAGTTGCAGTGGA-G-AAAGTGACAAATCTTATCTCCCTGAAGTTGCAGTAGAGCGG
1 TCTCCCTGAAGTTGCAGTGGAGGTAAAGTGACAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAG
* * *
21063293 A-TTAA-AATG-ATTGATCTTATCTCTCTGAAGTTGCAGTAGGGCAAA
66 ACTGAAGAAAGCA-AG-TCTTATC-CTCTGAAGTTGCAGTAGGGCAAA
21063338 TCGCATCAGA
Statistics
Matches: 94, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
124 1 0.01
125 4 0.04
126 10 0.11
127 57 0.61
130 1 0.01
133 21 0.22
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (129 bp):
TCTCCCTGAAGTTGCAGTGGAGGTAAAGTGACAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAG
ACTGAAGAAAGCAAGTCTTATCCTCTGAAGTTGCAGTAGGGCAAACTGAAGATGGCGAATCTTG
Found at i:21070181 original size:11 final size:11
Alignment explanation
Indices: 21070105--21070255 Score: 58
Period size: 11 Copynumber: 13.8 Consensus size: 11
21070095 ATTCCAAAAA
21070105 TAATATTAATT
1 TAATATTAATT
21070116 TAATAGTTTTAATAT
1 TAATA---TTAAT-T
21070131 TAA-ATTAAATT
1 TAATATT-AATT
21070142 TAATACTT-ATCT
1 TAATA-TTAAT-T
*
21070154 TAATAGT-ATT
1 TAATATTAATT
21070164 T--TATTAATT
1 TAATATTAATT
21070173 TAATATTAA--
1 TAATATTAATT
21070182 -AATGATT-ATCT
1 TAAT-ATTAAT-T
*
21070193 TAATATTAAAT
1 TAATATTAATT
*
21070204 TAA-ATTAAATA
1 TAATATT-AATT
*
21070215 TAATATTTATCT
1 TAATATTAAT-T
*
21070227 TGATA--AATAT
1 TAATATTAAT-T
21070237 T-ATATTAATT
1 TAATATTAATT
21070247 TAATATTAA
1 TAATATTAA
21070256 AGTGATTAAG
Statistics
Matches: 107, Mismatches: 10, Indels: 46
0.66 0.06 0.28
Matches are distributed among these distances:
8 7 0.07
9 10 0.09
10 11 0.10
11 46 0.43
12 21 0.20
13 2 0.02
14 6 0.06
15 4 0.04
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (11 bp):
TAATATTAATT
Found at i:21070263 original size:74 final size:74
Alignment explanation
Indices: 21070124--21070263 Score: 210
Period size: 74 Copynumber: 1.9 Consensus size: 74
21070114 TTTAATAGTT
* * *
21070124 TTAATATTAAATTAAATTTAATACTTATCTTAATAGTATTTTATTAATTTAATATTAAAATGATT
1 TTAATATTAAATTAAATATAATACTTATCTTAATAATATTATATTAATTTAATATTAAAATGATT
21070189 ATCTTAATA
66 ATCTTAATA
* * *
21070198 TTAA-ATTAAATTAAATATAATATTTATCTTGATAAATATTATATTAATTTAATATTAAAGTGAT
1 TTAATATTAAATTAAATATAATACTTATCTTAAT-AATATTATATTAATTTAATATTAAAATGAT
21070262 TA
65 TA
21070264 AGTTTAATCA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
73 26 0.44
74 33 0.56
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.49
Consensus pattern (74 bp):
TTAATATTAAATTAAATATAATACTTATCTTAATAATATTATATTAATTTAATATTAAAATGATT
ATCTTAATA
Found at i:21070701 original size:14 final size:16
Alignment explanation
Indices: 21070682--21070714 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
21070672 TTTCCGTTGA
21070682 ATTTTCCAA-ACTT-G
1 ATTTTCCAACACTTCG
21070696 ATTTTCCAACACTTCG
1 ATTTTCCAACACTTCG
21070712 ATT
1 ATT
21070715 CCAGTTGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.53
15 4 0.24
16 4 0.24
ACGTcount: A:0.27, C:0.24, G:0.06, T:0.42
Consensus pattern (16 bp):
ATTTTCCAACACTTCG
Found at i:21072774 original size:25 final size:27
Alignment explanation
Indices: 21072702--21072780 Score: 92
Period size: 25 Copynumber: 2.9 Consensus size: 27
21072692 ATAAATCTTA
21072702 AAATTATATATAATTTT-AGTTTAGTAGGT
1 AAATTATATATAATTTTGA-TTT-G-AGGT
*
21072731 AAATTATACATGAATTTTGATTTGA-GT
1 AAATTATATAT-AATTTTGATTTGAGGT
21072758 -AATTATATATAATTTTGATTTGA
1 AAATTATATATAATTTTGATTTGA
21072781 TTCAATTCTC
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
25 13 0.28
26 9 0.20
27 2 0.04
28 1 0.02
29 11 0.24
30 9 0.20
31 1 0.02
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.48
Consensus pattern (27 bp):
AAATTATATATAATTTTGATTTGAGGT
Found at i:21074794 original size:51 final size:51
Alignment explanation
Indices: 21074674--21074858 Score: 187
Period size: 51 Copynumber: 3.6 Consensus size: 51
21074664 AAAGTGATGG
* * * * *
21074674 TCACATGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGA-A-TGATAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTAAT-GA
* * *
21074724 TCGCATGTGTAGTACTATGTGCAAGCTACTATGCGTACCGGATAGT-TTCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTAAT-GA
** * * * * *
21074775 TCATGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCGGATAGTAATGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTAATGA
*
21074826 TCACATGTGTAGTACTATGTGCAGGCTATTATG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATG
21074859 TGAACCGAAC
Statistics
Matches: 109, Mismatches: 23, Indels: 5
0.80 0.17 0.04
Matches are distributed among these distances:
50 37 0.34
51 70 0.64
52 2 0.02
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (51 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTAATGA
Found at i:21074916 original size:45 final size:45
Alignment explanation
Indices: 21074862--21074953 Score: 157
Period size: 45 Copynumber: 2.0 Consensus size: 45
21074852 TATTATGTGA
* *
21074862 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
*
21074907 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
21074952 AC
1 AC
21074954 TGAGTATTTG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
Found at i:21083803 original size:11 final size:11
Alignment explanation
Indices: 21083789--21083841 Score: 54
Period size: 11 Copynumber: 4.6 Consensus size: 11
21083779 ATTCAATGGT
21083789 TATTTTAATTC
1 TATTTTAATTC
* *
21083800 TATTTTGAGTC
1 TATTTTAATTC
21083811 TATTTTGAATTC
1 TATTTT-AATTC
21083823 ATATATTTAATT-
1 -TAT-TTTAATTC
21083835 TATTTTA
1 TATTTTA
21083842 GAACTTTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
10 4 0.11
11 18 0.51
12 3 0.09
13 7 0.20
14 3 0.09
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.60
Consensus pattern (11 bp):
TATTTTAATTC
Found at i:21088518 original size:15 final size:16
Alignment explanation
Indices: 21088491--21088527 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
21088481 TTAGATCCTT
21088491 TCAAAAAACATCAAAA
1 TCAAAAAACATCAAAA
21088507 TCAAAAAA-ATCAAAA
1 TCAAAAAACATCAAAA
21088522 T-AAAAA
1 TCAAAAA
21088528 TGAGAGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 5 0.24
15 8 0.38
16 8 0.38
ACGTcount: A:0.73, C:0.14, G:0.00, T:0.14
Consensus pattern (16 bp):
TCAAAAAACATCAAAA
Found at i:21089508 original size:14 final size:14
Alignment explanation
Indices: 21089469--21089510 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
21089459 TTCTCAAAAA
21089469 AAAAGGTGAAAAATG
1 AAAAGGT-AAAAATG
* *
21089484 AAAA-ATGAAAATG
1 AAAAGGTAAAAATG
21089497 AAAAGGTAAAAATG
1 AAAAGGTAAAAATG
21089511 GAGAGGCTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
13 10 0.45
14 8 0.36
15 4 0.18
ACGTcount: A:0.64, C:0.00, G:0.21, T:0.14
Consensus pattern (14 bp):
AAAAGGTAAAAATG
Found at i:21091169 original size:23 final size:23
Alignment explanation
Indices: 21091138--21091183 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
21091128 GGCGATGCAA
*
21091138 TGGAGCAGATTAAAGCCACATCG
1 TGGAACAGATTAAAGCCACATCG
21091161 TGGAACAGATTAAAGCCACATCG
1 TGGAACAGATTAAAGCCACATCG
21091184 GTGAATCTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (23 bp):
TGGAACAGATTAAAGCCACATCG
Found at i:21091250 original size:50 final size:49
Alignment explanation
Indices: 21091167--21091524 Score: 218
Period size: 50 Copynumber: 7.2 Consensus size: 49
21091157 ATCGTGGAAC
* * * *
21091167 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACACTGCAGTTAAAA
1 AGATTAAAGCCACAACAGCGAATCTTACTTCCCTGACA-TGCAGTTAAAA
* * * * ** **
21091217 ATATTAAAGCTACAACAGCGAATCTTACCTCCCTGGCGATGCAGTGGAGC
1 AGATTAAAGCCACAACAGCGAATCTTACTTCCCTGAC-ATGCAGTTAAAA
* * * * *
21091267 AGATTAAAGCCACATCGGTGAA-CTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACAGCGAATCTTACTTCCCTGACA-TGCAGTTAAAA
* * * * ** *
21091316 AGATTAAAGCCACAGCAGCAAATCTTACCTCCTTGACGATGCAGTGGAAC
1 AGATTAAAGCCACAACAGCGAATCTTACTTCCCTGAC-ATGCAGTTAAAA
** * * * *
21091366 AGATTAAAGCCACATTAGTGAATCTTGCTTCCCCGACATTACAGTTAAAA
1 AGATTAAAGCCACAACAGCGAATCTTACTTCCCTGACA-TGCAGTTAAAA
* * * * * * ** *
21091416 GGATTAAAGCTACAACAGCAAATCTTACTT-CCTAGGCGGTGTAGTGGAAC
1 AGATTAAAGCCACAACAGCGAATCTTACTTCCCT-GAC-ATGCAGTTAAAA
* * * * *
21091466 AGATTGAAGCTACAACAGCGAATCTTGCTT-CCTCGACATCACAGTTAAAC
1 AGATTAAAGCCACAACAGCGAATCTTACTTCCCT-GACAT-GCAGTTAAAA
21091516 AGATTAAAG
1 AGATTAAAG
21091525 TTGCGAGTTA
Statistics
Matches: 225, Mismatches: 75, Indels: 16
0.71 0.24 0.05
Matches are distributed among these distances:
48 1 0.00
49 39 0.17
50 183 0.81
51 2 0.01
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (49 bp):
AGATTAAAGCCACAACAGCGAATCTTACTTCCCTGACATGCAGTTAAAA
Found at i:21091462 original size:100 final size:99
Alignment explanation
Indices: 21091160--21091524 Score: 471
Period size: 100 Copynumber: 3.7 Consensus size: 99
21091150 AAGCCACATC
* * * * *
21091160 GTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACACTGCAGTTAAAAATATTAAA
1 GTGGAACAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACATTACAGTTAAAAAGATTAAA
* *
21091225 GCTACAACAGCGAATCTTACCTCCCTGGCGATGCA
66 GCTACAACAGCAAATCTTA-CTTCCTGGCGATGCA
* * *
21091260 GTGGAGCAGATTAAAGCCACATCGGTGAA-CTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAA
1 GTGGAACAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACATTACAGTTAAAAAGATTAAA
* * * *
21091324 GCCACAGCAGCAAATCTTACCTCCTTGACGATGCA
66 GCTACAACAGCAAATCTTACTTCC-TGGCGATGCA
* *
21091359 GTGGAACAGATTAAAGCCACATTAGTGAATCTTGCTTCCCCGACATTACAGTTAAAAGGATTAAA
1 GTGGAACAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACATTACAGTTAAAAAGATTAAA
* *
21091424 GCTACAACAGCAAATCTTACTTCCTAGGCGGTGTA
66 GCTACAACAGCAAATCTTACTTCCT-GGCGATGCA
* * * * * * *
21091459 GTGGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCTCGACATCACAGTTAAACAGATTAAA
1 GTGGAACAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACATTACAGTTAAAAAGATTAAA
21091524 G
66 G
21091525 TTGCGAGTTA
Statistics
Matches: 232, Mismatches: 30, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
98 3 0.01
99 84 0.36
100 145 0.62
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.24
Consensus pattern (99 bp):
GTGGAACAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACATTACAGTTAAAAAGATTAAA
GCTACAACAGCAAATCTTACTTCCTGGCGATGCA
Found at i:21093144 original size:11 final size:11
Alignment explanation
Indices: 21093130--21093182 Score: 54
Period size: 11 Copynumber: 4.6 Consensus size: 11
21093120 ATTCAATGGT
21093130 TATTTTAATTC
1 TATTTTAATTC
* *
21093141 TATTTTGAGTC
1 TATTTTAATTC
21093152 TATTTTGAATTC
1 TATTTT-AATTC
21093164 ATATATTTAATT-
1 -TAT-TTTAATTC
21093176 TATTTTA
1 TATTTTA
21093183 GAACTTTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
10 4 0.11
11 18 0.51
12 3 0.09
13 7 0.20
14 3 0.09
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.60
Consensus pattern (11 bp):
TATTTTAATTC
Found at i:21098501 original size:43 final size:43
Alignment explanation
Indices: 21098449--21098604 Score: 158
Period size: 43 Copynumber: 3.7 Consensus size: 43
21098439 ATGTGTTTTT
* *
21098449 GTGTAAGACCACGTCTGGAACATTGGCATCGATTTGTGTTTAC
1 GTGTAAGACCACGTCTGGGACATTGGCATCGATTTGTGATTAC
* * *
21098492 GTGTAAGACCATGTCTGGGACATTGGCATTG-TATT-TAATT-C
1 GTGTAAGACCACGTCTGGGACATTGGCATCGAT-TTGTGATTAC
* * *
21098533 GTGTAAGACC-CTGTCTGGGACAGTGGTATCGATATGTGATTAC
1 GTGTAAGACCAC-GTCTGGGACATTGGCATCGATTTGTGATTAC
* * * *
21098576 ATGTAAGAACACATCTGGGACGTTGGCAT
1 GTGTAAGACCACGTCTGGGACATTGGCAT
21098605 TGTACGAGCC
Statistics
Matches: 90, Mismatches: 17, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
41 28 0.31
42 9 0.10
43 52 0.58
44 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (43 bp):
GTGTAAGACCACGTCTGGGACATTGGCATCGATTTGTGATTAC
Found at i:21098593 original size:84 final size:84
Alignment explanation
Indices: 21098449--21098608 Score: 214
Period size: 84 Copynumber: 1.9 Consensus size: 84
21098439 ATGTGTTTTT
* * * * * **
21098449 GTGTAAGACCACGTCTGGAACATTGGCATCGATTTGTGTTTACGTGTAAGACCATGTCTGGGACA
1 GTGTAAGACCACGTCTGGAACAGTGGCATCGATATGTGATTACATGTAAGAACACATCTGGGACA
21098514 TTGGCATTGTATTTAATTC
66 TTGGCATTGTATTTAATTC
* *
21098533 GTGTAAGACC-CTGTCTGGGACAGTGGTATCGATATGTGATTACATGTAAGAACACATCTGGGAC
1 GTGTAAGACCAC-GTCTGGAACAGTGGCATCGATATGTGATTACATGTAAGAACACATCTGGGAC
*
21098597 GTTGGCATTGTA
65 ATTGGCATTGTA
21098609 CGAGCCTTCC
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
83 1 0.02
84 64 0.98
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (84 bp):
GTGTAAGACCACGTCTGGAACAGTGGCATCGATATGTGATTACATGTAAGAACACATCTGGGACA
TTGGCATTGTATTTAATTC
Found at i:21102106 original size:40 final size:40
Alignment explanation
Indices: 21102046--21102257 Score: 252
Period size: 40 Copynumber: 5.3 Consensus size: 40
21102036 CATTTGAATG
* * *
21102046 ATATTCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
21102086 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* *
21102126 ATA-CTCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATC-CGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
21102166 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * *
21102206 ATATCCGGGCTAAGACCCGGAGGCATTTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
21102246 ATATCC-GGCTAA
1 ATATCCGGGCTAA
21102258 ATTCCGAAGA
Statistics
Matches: 146, Mismatches: 20, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
39 11 0.08
40 129 0.88
41 6 0.04
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:21102183 original size:80 final size:79
Alignment explanation
Indices: 21102044--21102257 Score: 324
Period size: 80 Copynumber: 2.7 Consensus size: 79
21102034 AGCATTTGAA
*
21102044 TGATAT-TCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAG
1 TGATATATCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAG
21102108 GCATTTGTGCGAGT
66 GCATTTGTGCGAGT
* *
21102122 TGCTATACTCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAA
1 TGATATA-TCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAA
21102187 GGCATTTGTGCGAGT
65 GGCATTTGTGCGAGT
* * * * *
21102202 TGATATATCCGGGCTAAGACCCGGAGGCATTTGTGCTTGTGGTTATATCC-GGCTAA
1 TGATATAT-CGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAA
21102258 ATTCCGAAGA
Statistics
Matches: 123, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
78 5 0.04
79 7 0.06
80 111 0.90
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.29
Consensus pattern (79 bp):
TGATATATCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAG
GCATTTGTGCGAGT
Found at i:21106354 original size:20 final size:20
Alignment explanation
Indices: 21106331--21106409 Score: 68
Period size: 20 Copynumber: 4.0 Consensus size: 20
21106321 TTATCTGTAA
*
21106331 TACTGGTAGCTTGTCTGCAT
1 TACTGGCAGCTTGTCTGCAT
* *
21106351 TACTGGCAGTTTATCTGCAT
1 TACTGGCAGCTTGTCTGCAT
* *** ***
21106371 TATTGATGGCTTGTCCATAT
1 TACTGGCAGCTTGTCTGCAT
21106391 TACTGGCAGCTTGTCTGCA
1 TACTGGCAGCTTGTCTGCA
21106410 ATTTTGGTGG
Statistics
Matches: 40, Mismatches: 19, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.18, C:0.20, G:0.23, T:0.39
Consensus pattern (20 bp):
TACTGGCAGCTTGTCTGCAT
Found at i:21106383 original size:40 final size:40
Alignment explanation
Indices: 21106314--21106411 Score: 106
Period size: 40 Copynumber: 2.5 Consensus size: 40
21106304 TTGTCCACAT
* * **
21106314 TGGCAGTTTATCTGTAATACTGGTAGCTTGTCTGCATTAC
1 TGGCAGTTTATCTGCAATACTGATAGCTTGTCCACATTAC
* * * *
21106354 TGGCAGTTTATCTGCATTATTGATGGCTTGTCCATATTAC
1 TGGCAGTTTATCTGCAATACTGATAGCTTGTCCACATTAC
* *
21106394 TGGCAGCTTGTCTGCAAT
1 TGGCAGTTTATCTGCAAT
21106412 TTTGGTGGTT
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.19, C:0.18, G:0.22, T:0.40
Consensus pattern (40 bp):
TGGCAGTTTATCTGCAATACTGATAGCTTGTCCACATTAC
Found at i:21111186 original size:22 final size:22
Alignment explanation
Indices: 21111147--21111188 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
21111137 TGAATAAACC
* * *
21111147 AAATAAATTTTATTTCTGTAGA
1 AAATAAACTTAATATCTGTAGA
21111169 AAATAAACTTAATATCTGTA
1 AAATAAACTTAATATCTGTA
21111189 AACTGAAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.40
Consensus pattern (22 bp):
AAATAAACTTAATATCTGTAGA
Found at i:21116876 original size:25 final size:25
Alignment explanation
Indices: 21116842--21116893 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
21116832 TGTACTTGTG
21116842 TTCTCGGCTTAGCAAACGTTCGTTA
1 TTCTCGGCTTAGCAAACGTTCGTTA
* * * *
21116867 TTCTTGGCTTAGCGAATGTTTGTTA
1 TTCTCGGCTTAGCAAACGTTCGTTA
21116892 TT
1 TT
21116894 ATCAGCTTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.17, C:0.17, G:0.21, T:0.44
Consensus pattern (25 bp):
TTCTCGGCTTAGCAAACGTTCGTTA
Found at i:21128729 original size:79 final size:79
Alignment explanation
Indices: 21128598--21128755 Score: 316
Period size: 79 Copynumber: 2.0 Consensus size: 79
21128588 GACAAGTTGA
21128598 AAGAAGCCAGTTAAAAGCACATTCTGTAAAATGACAATAAGCATGCACAAAGGCGTGAAACTCAT
1 AAGAAGCCAGTTAAAAGCACATTCTGTAAAATGACAATAAGCATGCACAAAGGCGTGAAACTCAT
21128663 TTTTACAGCATTCC
66 TTTTACAGCATTCC
21128677 AAGAAGCCAGTTAAAAGCACATTCTGTAAAATGACAATAAGCATGCACAAAGGCGTGAAACTCAT
1 AAGAAGCCAGTTAAAAGCACATTCTGTAAAATGACAATAAGCATGCACAAAGGCGTGAAACTCAT
21128742 TTTTACAGCATTCC
66 TTTTACAGCATTCC
21128756 TTCGTTTATA
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 79 1.00
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.23
Consensus pattern (79 bp):
AAGAAGCCAGTTAAAAGCACATTCTGTAAAATGACAATAAGCATGCACAAAGGCGTGAAACTCAT
TTTTACAGCATTCC
Found at i:21136738 original size:31 final size:30
Alignment explanation
Indices: 21136670--21136738 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 30
21136660 TGGTTTCAAT
21136670 TCAGTCACTTAACTTTCAAAAAATGAAAAA
1 TCAGTCACTTAACTTTCAAAAAATGAAAAA
* * * *
21136700 TCGGTCAC-TAACGTTATCGAAAAGTGACAAA
1 TCAGTCACTTAAC-TT-TCAAAAAATGAAAAA
21136731 TCAGTCAC
1 TCAGTCAC
21136739 CCACTAACAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
29 4 0.12
30 9 0.28
31 19 0.59
ACGTcount: A:0.42, C:0.20, G:0.13, T:0.25
Consensus pattern (30 bp):
TCAGTCACTTAACTTTCAAAAAATGAAAAA
Found at i:21138576 original size:34 final size:34
Alignment explanation
Indices: 21138536--21138659 Score: 144
Period size: 34 Copynumber: 3.6 Consensus size: 34
21138526 TTTTAAAAAA
21138536 TAAATTAGGGTTTA-ATTTTTTAAAAAAAATTAAT
1 TAAATTAGGGTTTAGA-TTTTTAAAAAAAATTAAT
* * * **
21138570 TGAATTAGGTTTTAGGAGTTTTAAGTAAAATTAAT
1 TAAATTAGGGTTTA-GATTTTTAAAAAAAATTAAT
21138605 TAAATTAGGGTTTAGGATTTTT-AAAAAAATTAAT
1 TAAATTAGGGTTTA-GATTTTTAAAAAAAATTAAT
* *
21138639 TAAATTAAGGTTTAGGTTTTT
1 TAAATTAGGGTTTAGATTTTT
21138660 TTAAAATAAT
Statistics
Matches: 76, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
33 6 0.08
34 35 0.46
35 34 0.45
36 1 0.01
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.44
Consensus pattern (34 bp):
TAAATTAGGGTTTAGATTTTTAAAAAAAATTAAT
Found at i:21138661 original size:35 final size:34
Alignment explanation
Indices: 21138536--21138670 Score: 141
Period size: 35 Copynumber: 3.9 Consensus size: 34
21138526 TTTTAAAAAA
*
21138536 TAAATTAGGGTTTA--ATTTTTTAAAAAAAATTAAT
1 TAAATTAAGGTTTAGGA-TTTTT-AAAAAAATTAAT
* * *
21138570 TGAATT-AGGTTTTAGGAGTTTTAAGTAAAATTAAT
1 TAAATTAAGG-TTTAGGATTTTTAA-AAAAATTAAT
*
21138605 TAAATTAGGGTTTAGGATTTTTAAAAAAATTAAT
1 TAAATTAAGGTTTAGGATTTTTAAAAAAATTAAT
* *
21138639 TAAATTAAGGTTTAGGTTTTTTTAAAATAATT
1 TAAATTAAGGTTTAGG-ATTTTTAAAAAAATT
21138671 GTGTTTAGCT
Statistics
Matches: 84, Mismatches: 11, Indels: 11
0.79 0.10 0.10
Matches are distributed among these distances:
33 2 0.02
34 35 0.42
35 44 0.52
36 3 0.04
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.44
Consensus pattern (34 bp):
TAAATTAAGGTTTAGGATTTTTAAAAAAATTAAT
Found at i:21138974 original size:124 final size:124
Alignment explanation
Indices: 21138749--21139071 Score: 425
Period size: 124 Copynumber: 2.6 Consensus size: 124
21138739 AGAATTTTGT
* * *
21138749 TTTTTCTATAGTAGTTCTTGAAAAATTAATTTTGAGAAGACGATTCTGAAAAGATAATGTCAAAA
1 TTTTTCTATAGTAGTTCTTG-AAAA-TAATTTTGAGAAGACGATTCTGAAAAAATAGTGTAAAAA
*
21138814 ACGCTTTAAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAAAAGCTCCCACGTGGACGCTA
64 ACGCTTCAAGCAGGATGCACTGTCAGCAAAAGTACTG-AAAAAAGCTCCCACGTGGACGCTA
*
21138876 TTTTTCTACAGTAGTTCTTGAAAA-AATTTTGAGAAGACGATTCTGAAAAAATAGTGTAAAAAAC
1 TTTTTCTATAGTAGTTCTTGAAAATAATTTTGAGAAGACGATTCTGAAAAAATAGTGTAAAAAAC
* * * * * * *
21138940 TCTTCAAGTAGGATGCACTGTTAGCAAAATTACTGAAAAAAGCTCTCACGTGGATGCTC
66 GCTTCAAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGCTA
* * * * *
21138999 TTTTTCTATAGTAGTTCTTGAGAAAATAAATTTGAGAAGACGGTTAC-GTAAAAATAGTGTCAAT
1 TTTTTCTATAGTAGTTCTT--GAAAATAATTTTGAGAAGACGATT-CTGAAAAAATAGTGTAAAA
21139063 AACGCTTCA
63 AACGCTTCA
21139072 CGGCATACTT
Statistics
Matches: 173, Mismatches: 19, Indels: 9
0.86 0.09 0.04
Matches are distributed among these distances:
123 39 0.23
124 67 0.39
125 5 0.03
126 42 0.24
127 20 0.12
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.30
Consensus pattern (124 bp):
TTTTTCTATAGTAGTTCTTGAAAATAATTTTGAGAAGACGATTCTGAAAAAATAGTGTAAAAAAC
GCTTCAAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGCTA
Found at i:21140911 original size:24 final size:24
Alignment explanation
Indices: 21140861--21140911 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
21140851 AATAAAGAAT
* * *
21140861 GCGGAGGTGTTTGCATCACCCATG
1 GCGGAGGTGTTTGAATCACACAAG
* *
21140885 GCGGAGGTGTTTGAATCTCATAAG
1 GCGGAGGTGTTTGAATCACACAAG
21140909 GCG
1 GCG
21140912 ATGGAGACTG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.20, C:0.20, G:0.35, T:0.25
Consensus pattern (24 bp):
GCGGAGGTGTTTGAATCACACAAG
Found at i:21145101 original size:28 final size:29
Alignment explanation
Indices: 21145020--21145115 Score: 97
Period size: 29 Copynumber: 3.3 Consensus size: 29
21145010 AAGATATAAC
* * *
21145020 AATTTTTACTAT-TTTTAAATTTTTTAAAT
1 AATTTTTACAATATTTTAAAATTTCT-AAT
*
21145049 AATTTTTTACAATCTTTTAAAATTTCTAAT
1 AA-TTTTTACAATATTTTAAAATTTCTAAT
* *
21145079 AATTTTTACAGTATTTT-CAATTTCTAAT
1 AATTTTTACAATATTTTAAAATTTCTAAT
21145107 ATATTTTTA
1 A-ATTTTTA
21145116 AATTTGTAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
28 11 0.19
29 22 0.38
30 14 0.24
31 11 0.19
ACGTcount: A:0.34, C:0.07, G:0.01, T:0.57
Consensus pattern (29 bp):
AATTTTTACAATATTTTAAAATTTCTAAT
Found at i:21145147 original size:14 final size:13
Alignment explanation
Indices: 21145128--21145157 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
21145118 TTTGTAAACA
21145128 ATTATATATTATTT
1 ATTATATATT-TTT
21145142 ATTATATATTTTT
1 ATTATATATTTTT
21145155 ATT
1 ATT
21145158 TTTAAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
ATTATATATTTTT
Found at i:21154050 original size:25 final size:27
Alignment explanation
Indices: 21154022--21154072 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
21154012 CCCGATATAT
*
21154022 GGCTC-TTC-GGAGCTTTCTGATTAAA
1 GGCTCTTTCAGGAGCTTCCTGATTAAA
*
21154047 GGCTCTTTCATGAGCTTCCTGATTAA
1 GGCTCTTTCAGGAGCTTCCTGATTAA
21154073 TTTTCTCTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 5 0.23
26 3 0.14
27 14 0.64
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.37
Consensus pattern (27 bp):
GGCTCTTTCAGGAGCTTCCTGATTAAA
Found at i:21160580 original size:31 final size:31
Alignment explanation
Indices: 21160536--21160595 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
21160526 CTTTTAACCA
* *
21160536 TATTATTTTTAAAATTTAAATTCTATTTTTT
1 TATTATTTCTAAAATTTAAATTCGATTTTTT
* *
21160567 TATTGTTTCTAAAATTTGAATTCGATTTT
1 TATTATTTCTAAAATTTAAATTCGATTTT
21160596 CCTTTTAGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (31 bp):
TATTATTTCTAAAATTTAAATTCGATTTTTT
Found at i:21161833 original size:24 final size:24
Alignment explanation
Indices: 21161818--21161869 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
21161808 AATCAATGTC
*
21161818 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATGCT
*
21161842 AAATATATTATACTAATAAATACT
1 AAATATATTATACTAATAAATGCT
21161866 AAAT
1 AAAT
21161870 CTTCTAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATGCT
Found at i:21161993 original size:29 final size:29
Alignment explanation
Indices: 21161960--21162018 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
21161950 TCCACATTGA
*
21161960 CACGAATTCTCAACGAACAAGTTCTTCAC
1 CACGAACTCTCAACGAACAAGTTCTTCAC
*
21161989 CACGAACTCTCAATGAACAAGTTCTTCAC
1 CACGAACTCTCAACGAACAAGTTCTTCAC
21162018 C
1 C
21162019 TCTTCCACGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.34, C:0.32, G:0.10, T:0.24
Consensus pattern (29 bp):
CACGAACTCTCAACGAACAAGTTCTTCAC
Found at i:21165485 original size:24 final size:24
Alignment explanation
Indices: 21165470--21165522 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
21165460 AATCAATGTC
21165470 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
** *
21165494 AAATATATTAAACTAATAAAATACT
1 AAATATATTATGCTAAT-AAATGCT
21165519 AAAT
1 AAAT
21165523 CTTTTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 15 0.60
25 10 0.40
ACGTcount: A:0.55, C:0.08, G:0.04, T:0.34
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:21165886 original size:16 final size:16
Alignment explanation
Indices: 21165849--21165888 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
21165839 TTAATAAAAT
* *
21165849 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
21165865 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
21165881 TAAAATTA
1 TAAAATTA
21165889 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:21165888 original size:22 final size:22
Alignment explanation
Indices: 21165821--21165873 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
21165811 TAATTAAAAT
* * *
21165821 TAAAATTAAAATTATTTTTTAA
1 TAAAATTAAAACTAATTGTTAA
*
21165843 TAAAATTAAAACTAATTGTTAT
1 TAAAATTAAAACTAATTGTTAA
21165865 TAAAATTAA
1 TAAAATTAA
21165874 TTGTTAGTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (22 bp):
TAAAATTAAAACTAATTGTTAA
Found at i:21165967 original size:59 final size:59
Alignment explanation
Indices: 21165899--21166038 Score: 262
Period size: 59 Copynumber: 2.4 Consensus size: 59
21165889 TCAAATTATT
*
21165899 AATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
*
21165958 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAATATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
21166017 AATTATTAATTGTATTAATTGT
1 AATTATTAATTGTATTAATTGT
21166039 ATTAATTGTT
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 79 1.00
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.48
Consensus pattern (59 bp):
AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
Found at i:21166032 original size:9 final size:9
Alignment explanation
Indices: 21166020--21166047 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
21166010 TTTATCAAAT
21166020 TATTAATTG
1 TATTAATTG
21166029 TATTAATTG
1 TATTAATTG
21166038 TATTAATTG
1 TATTAATTG
21166047 T
1 T
21166048 TGTAACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:21166187 original size:26 final size:28
Alignment explanation
Indices: 21166144--21166196 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 28
21166134 AAATAAACTT
21166144 AAAATAAAAAAAACTA-TT-ATATTTTA
1 AAAATAAAAAAAACTATTTAATATTTTA
*
21166170 AAAATAAAAATATA-TATTTAATATTTT
1 AAAATAAAAA-AAACTATTTAATATTTT
21166197 TCGGGCCGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 12 0.52
27 4 0.17
28 7 0.30
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (28 bp):
AAAATAAAAAAAACTATTTAATATTTTA
Found at i:21167079 original size:17 final size:19
Alignment explanation
Indices: 21167046--21167080 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
21167036 TATGCTAATT
21167046 TTATTACTATAAAATAGAG
1 TTATTACTATAAAATAGAG
21167065 TTATTACT-T-AAATAGA
1 TTATTACTATAAAATAGA
21167081 ATTAATAGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 1 0.06
19 8 0.50
ACGTcount: A:0.46, C:0.06, G:0.09, T:0.40
Consensus pattern (19 bp):
TTATTACTATAAAATAGAG
Found at i:21169136 original size:25 final size:25
Alignment explanation
Indices: 21169100--21169152 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 25
21169090 GGGACTGGTT
21169100 ATTATTATTATTTAATATTAATA-TA
1 ATTATTATTATTTAAT-TTAATATTA
21169125 ATTATT-TATATTTAATTTAATATTA
1 ATTATTAT-TATTTAATTTAATATTA
21169150 ATT
1 ATT
21169153 TAAATTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
24 7 0.27
25 19 0.73
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (25 bp):
ATTATTATTATTTAATTTAATATTA
Found at i:21169147 original size:12 final size:12
Alignment explanation
Indices: 21169108--21169171 Score: 55
Period size: 11 Copynumber: 5.3 Consensus size: 12
21169098 TTATTATTAT
21169108 TATTTAATATTAA
1 TATTTAAT-TTAA
21169121 TATAATT-ATTT-A
1 TAT--TTAATTTAA
21169133 TATTTAATTTAA
1 TATTTAATTTAA
21169145 TA-TTAATTTAA
1 TATTTAATTTAA
*
21169156 -ATTTAAATTTAT
1 TATTT-AATTTAA
21169168 TATT
1 TATT
21169172 ATGTATTTTA
Statistics
Matches: 43, Mismatches: 1, Indels: 14
0.74 0.02 0.24
Matches are distributed among these distances:
10 3 0.07
11 15 0.35
12 13 0.30
13 8 0.19
14 2 0.05
15 2 0.05
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
TATTTAATTTAA
Found at i:21169786 original size:16 final size:17
Alignment explanation
Indices: 21169758--21169802 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
21169748 TCTTAAAAAA
21169758 TAATATAAT-AAATTAT
1 TAATATAATAAAATTAT
21169774 TAAT-TAATAAAATTAT
1 TAATATAATAAAATTAT
* *
21169790 AAATCT-ATAAAAT
1 TAATATAATAAAAT
21169803 CATTGCATTG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 4 0.15
16 21 0.81
17 1 0.04
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
TAATATAATAAAATTAT
Found at i:21169933 original size:22 final size:21
Alignment explanation
Indices: 21169882--21169948 Score: 53
Period size: 22 Copynumber: 3.0 Consensus size: 21
21169872 ATAAATATGA
* *
21169882 TTTTATAAAATTAAATATAATA
1 TTTTATAATATTAAA-ATAATT
* *
21169904 ATTAATAATATTAAAATCAATT
1 TTTTATAATATTAAAAT-AATT
*
21169926 TTTTATAATTAATAAAATTAATT
1 TTTTATAA-TATTAAAA-TAATT
21169949 GAGTGAGGTT
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
21 2 0.06
22 21 0.60
23 11 0.31
24 1 0.03
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (21 bp):
TTTTATAATATTAAAATAATT
Done.