Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 111 of 310
Found at i:35388651 original size:40 final size:39
Alignment explanation
Indices: 35388598--35388702 Score: 165
Period size: 40 Copynumber: 2.6 Consensus size: 39
35388588 TTGAGATTTA
*
35388598 TTTTTGGTGTTTTTTATAAAAACGCCGTTATTGTTAATT
1 TTTTTGGCGTTTTTTATAAAAACGCCGTTATTGTTAATT
35388637 TTTTATGGCGTTTTTTATAAAAACGCCGTTATTGTTAATT
1 TTTT-TGGCGTTTTTTATAAAAACGCCGTTATTGTTAATT
* *
35388677 TTTTGTAGCGTTTTTCATAAAAACGC
1 TTTT-TGGCGTTTTTTATAAAAACGC
35388703 TGGTAAAAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
39 4 0.07
40 57 0.93
ACGTcount: A:0.25, C:0.10, G:0.15, T:0.50
Consensus pattern (39 bp):
TTTTTGGCGTTTTTTATAAAAACGCCGTTATTGTTAATT
Found at i:35392258 original size:40 final size:39
Alignment explanation
Indices: 35392205--35392309 Score: 165
Period size: 40 Copynumber: 2.6 Consensus size: 39
35392195 TTGAGATTTA
*
35392205 TTTTTGGTGTTTTTTATAAAAACGCCGTTATTGTTAATT
1 TTTTTGGCGTTTTTTATAAAAACGCCGTTATTGTTAATT
35392244 TTTTATGGCGTTTTTTATAAAAACGCCGTTATTGTTAATT
1 TTTT-TGGCGTTTTTTATAAAAACGCCGTTATTGTTAATT
* *
35392284 TTTTGTAGCGTTTTTCATAAAAACGC
1 TTTT-TGGCGTTTTTTATAAAAACGC
35392310 TGGTAAAAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
39 4 0.07
40 57 0.93
ACGTcount: A:0.25, C:0.10, G:0.15, T:0.50
Consensus pattern (39 bp):
TTTTTGGCGTTTTTTATAAAAACGCCGTTATTGTTAATT
Found at i:35392617 original size:21 final size:22
Alignment explanation
Indices: 35392575--35392617 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
35392565 AATCAATAAA
* * *
35392575 CCCTGAATTCCTAACTCTTAAC
1 CCCTGAATCCCTAACCCCTAAC
35392597 CCCT-AATCCCTAACCCCTAAC
1 CCCTGAATCCCTAACCCCTAAC
35392618 TCATAAACCT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.28, C:0.44, G:0.02, T:0.26
Consensus pattern (22 bp):
CCCTGAATCCCTAACCCCTAAC
Found at i:35392667 original size:14 final size:15
Alignment explanation
Indices: 35392650--35392682 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
35392640 CTTAAATCAG
35392650 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
35392664 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
35392679 AATC
1 AATC
35392683 TATAAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:35393151 original size:41 final size:41
Alignment explanation
Indices: 35393096--35393240 Score: 184
Period size: 41 Copynumber: 3.5 Consensus size: 41
35393086 TTGCGGCACT
* * *
35393096 TTTTTCAAAAACGCCGCTAAAGATCTAATCATTAGCGGCGC
1 TTTTCCAAAAACGCCGCTAAAGATCTGAGCATTAGCGGCGC
* *
35393137 TTTTCCAAAAACGCCGCTAAAGATATGGGCATTAGCGGCGC
1 TTTTCCAAAAACGCCGCTAAAGATCTGAGCATTAGCGGCGC
* * *
35393178 TTTTCCAAAAATGCCGCTAAAGATCTGAGCATTGGCAGCGC
1 TTTTCCAAAAACGCCGCTAAAGATCTGAGCATTAGCGGCGC
*
35393219 -TTTCCTTAAAAATGCCGCTAAA
1 TTTTCC--AAAAACGCCGCTAAA
35393241 TCCCCGAAAG
Statistics
Matches: 92, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
40 5 0.05
41 72 0.78
42 15 0.16
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (41 bp):
TTTTCCAAAAACGCCGCTAAAGATCTGAGCATTAGCGGCGC
Found at i:35393376 original size:40 final size:39
Alignment explanation
Indices: 35393332--35393458 Score: 132
Period size: 40 Copynumber: 3.2 Consensus size: 39
35393322 TCAGAAAAAT
*
35393332 GCCGCTAATGCTTGATCTTTAGCGGCGTTTTCTA-AAAGGC
1 GCCGCTAATGCTCGATCTTTAGCGGCGTTTT-TAGAAA-GC
* * * *
35393372 GCCGCTAAAGGTGGA-CATATAGCGGCGTTTTTAGAAAAGC
1 GCCGCTAATGCTCGATC-TTTAGCGGCGTTTTTAG-AAAGC
* **
35393412 GCCGCTAATACTCGATCTTTAGTAGCGTTTTTAGAAAGC
1 GCCGCTAATGCTCGATCTTTAGCGGCGTTTTTAGAAAGC
35393451 GCCGCTAA
1 GCCGCTAA
35393459 AGCCACCAAC
Statistics
Matches: 72, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
39 16 0.22
40 52 0.72
41 4 0.06
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.28
Consensus pattern (39 bp):
GCCGCTAATGCTCGATCTTTAGCGGCGTTTTTAGAAAGC
Found at i:35398234 original size:16 final size:16
Alignment explanation
Indices: 35398213--35398245 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
35398203 AAAAATAATC
35398213 ATCCAACTATACCTTG
1 ATCCAACTATACCTTG
35398229 ATCCAACTATACCTTG
1 ATCCAACTATACCTTG
35398245 A
1 A
35398246 GTTTTATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.30, G:0.06, T:0.30
Consensus pattern (16 bp):
ATCCAACTATACCTTG
Found at i:35398473 original size:61 final size:58
Alignment explanation
Indices: 35398380--35398557 Score: 169
Period size: 60 Copynumber: 2.9 Consensus size: 58
35398370 GTCTAATAAC
* * * *
35398380 AAATTTAACCCTCCAATGTTTATACATTTTATCAATTTAATCTTAACTCTAAAAAGTTCAAT
1 AAATTTAACCGT-CAATGTTTACAAAATTTATCAATTTAAT-TTAA-TCTAAAAA-TTCAAT
* * *
35398442 AAATTTAACCGTCAATGTTTACAAAATTTATCATTTTAATTTGATTTATGAAAATTCAAT
1 AAATTTAACCGTCAATGTTTACAAAATTTATCAATTTAATTTAATCTA--AAAATTCAAT
* ** *
35398502 AAATTTAA-CGTTTAACATTTACAAAATTTATCAATTTAGTTCTAAATCTAAAAATT
1 AAATTTAACCG-TCAATGTTTACAAAATTTATCAATTTAATT-T-AATCTAAAAATT
35398558 TCAAGGAAAA
Statistics
Matches: 97, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
59 5 0.05
60 48 0.49
61 29 0.30
62 15 0.15
ACGTcount: A:0.41, C:0.13, G:0.04, T:0.42
Consensus pattern (58 bp):
AAATTTAACCGTCAATGTTTACAAAATTTATCAATTTAATTTAATCTAAAAATTCAAT
Found at i:35411481 original size:26 final size:23
Alignment explanation
Indices: 35411450--35411504 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 23
35411440 AAAAAATACA
35411450 AAATATTAAATTAAAATATAACAATT
1 AAATATTAAATTAAAAT-T-AC-ATT
* *
35411476 AAATATTTAATTTAAATTACATT
1 AAATATTAAATTAAAATTACATT
35411499 AAATAT
1 AAATAT
35411505 AATAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 9 0.33
24 2 0.07
25 1 0.04
26 15 0.56
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (23 bp):
AAATATTAAATTAAAATTACATT
Found at i:35413615 original size:37 final size:38
Alignment explanation
Indices: 35413561--35413647 Score: 131
Period size: 37 Copynumber: 2.3 Consensus size: 38
35413551 GGTAATAATG
*
35413561 TTAGTTAATTTATTGATGTTTTTAACATTGATACA-TT
1 TTAGTTAATTTACTGATGTTTTTAACATTGATACAGTT
*
35413598 TTAGTTAATTTACTGATGTTTTTAATATTGATACATGTT
1 TTAGTTAATTTACTGATGTTTTTAACATTGATACA-GTT
35413637 TTAGTTGAATT
1 TTAGTT-AATT
35413648 ATTAGGATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
37 33 0.73
39 8 0.18
40 4 0.09
ACGTcount: A:0.29, C:0.05, G:0.13, T:0.54
Consensus pattern (38 bp):
TTAGTTAATTTACTGATGTTTTTAACATTGATACAGTT
Found at i:35413637 original size:19 final size:19
Alignment explanation
Indices: 35413576--35413638 Score: 53
Period size: 19 Copynumber: 3.4 Consensus size: 19
35413566 TAATTTATTG
*
35413576 ATGTTTTTAACATTGATAC
1 ATGTTTTTAATATTGATAC
*
35413595 AT-TTTAGTTAAT-TT-ACT-G
1 ATGTTT--TTAATATTGA-TAC
35413613 ATGTTTTTAATATTGATAC
1 ATGTTTTTAATATTGATAC
35413632 ATGTTTT
1 ATGTTTT
35413639 AGTTGAATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 14
0.67 0.06 0.27
Matches are distributed among these distances:
17 5 0.15
18 9 0.26
19 16 0.47
20 4 0.12
ACGTcount: A:0.29, C:0.06, G:0.11, T:0.54
Consensus pattern (19 bp):
ATGTTTTTAATATTGATAC
Found at i:35415078 original size:14 final size:14
Alignment explanation
Indices: 35415059--35415087 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
35415049 TCCCATAGGG
35415059 CTGGCCGTGTGTCA
1 CTGGCCGTGTGTCA
35415073 CTGGCCGTGTGTCA
1 CTGGCCGTGTGTCA
35415087 C
1 C
35415088 ACACGGCCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.07, C:0.31, G:0.34, T:0.28
Consensus pattern (14 bp):
CTGGCCGTGTGTCA
Found at i:35417579 original size:46 final size:46
Alignment explanation
Indices: 35417485--35417653 Score: 170
Period size: 46 Copynumber: 3.7 Consensus size: 46
35417475 CTATACATGT
*
35417485 CGATGCCATGTCCCAGACATGGTCTTACACT-GAC--ACATCTTGTAGC
1 CGATGCCATGTCCCAGACAT-GTCTTACACTAG-CTTACATCTCG-AGC
*
35417531 CGATG-CATGTCCCAGACATATCTTACACTAGCTTACATCTCGAGGC
1 CGATGCCATGTCCCAGACATGTCTTACACTAGCTTACATCTCGA-GC
* * *
35417577 CGATG-CATGTCCTAGACATGTCTTACACTAGCTCT-CGTCTCCATGC
1 CGATGCCATGTCCCAGACATGTCTTACACTAGCT-TACATCTCGA-GC
* *
35417623 CGATGCCATGTCCCAAATATGGTCTTACACT
1 CGATGCCATGTCCCAGACAT-GTCTTACACT
35417654 GGCTCTCATA
Statistics
Matches: 106, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
44 10 0.09
45 16 0.15
46 58 0.55
47 12 0.11
48 10 0.09
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.28
Consensus pattern (46 bp):
CGATGCCATGTCCCAGACATGTCTTACACTAGCTTACATCTCGAGC
Found at i:35417659 original size:48 final size:47
Alignment explanation
Indices: 35417240--35417660 Score: 224
Period size: 47 Copynumber: 8.9 Consensus size: 47
35417230 ATAGGGTATA
** **
35417240 ATGCCGATATCATGTCCCAGACATGGTCTTATGCTAGCTCATC-CAT-C
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCTC-TCC
* * * * * * *
35417287 AAGTCGATACCATGTCCCAAACATGGTCTTACACT-GACTAT-TGAAATCA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTCT---CTCC
* * * * *
35417336 AGGCCAACGCCATGTCCCAGACATGGTATTACACTAGCTCTTACATATCC
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-T-C-TCTCC
* * * * * **
35417386 GTGTCGATGCCATGTCCCAAACATGGTCTTACACTAACAC-CTCTATA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCTCT-CC
* * * * *
35417433 AGTGCCAATGCCATG-CCCAAACATGGTCTTACACT-GACACCTCTATAC
1 A-TGCCGATGCCATGTCCCAGACATGGTCTTACACTAG-C-TCTCTCTCC
* * **
35417481 ATGTCGATGCCATGTCCCAGACATGGTCTTACACT-GACACATCT-TGT
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTC-TCTCTCC
* *
35417528 A-GCCGATG-CATGTCCCAGACAT-ATCTTACACTAGCT-TACATCTCG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-C-TCTCC
* *
35417573 AGGCCGATG-CATGTCCTAGACAT-GTCTTACACTAGCTCTCGTCTCC
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-TCTCC
* * *
35417619 ATGCCGATGCCATGTCCCAAATATGGTCTTACACTGGCTCTC
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC
35417661 ATAATGTGGT
Statistics
Matches: 290, Mismatches: 58, Indels: 51
0.73 0.15 0.13
Matches are distributed among these distances:
42 1 0.00
43 1 0.00
44 11 0.04
45 17 0.06
46 56 0.19
47 79 0.27
48 55 0.19
49 33 0.11
50 36 0.12
53 1 0.00
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (47 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCTCTCC
Found at i:35425324 original size:48 final size:48
Alignment explanation
Indices: 35425113--35425666 Score: 473
Period size: 48 Copynumber: 11.6 Consensus size: 48
35425103 ATAATACCGG
* * * * * *
35425113 TGCCATGTCTCAGACATGGTCTTACACTGGCTCATCCATCAAGT--CGA
1 TGCCATGTCCCAGACATGGTCTTACACTGACACCTCTAT-ATGTGCCGA
* * * * *
35425160 TGCCATGTCCCAAACATGGTCTTACACTGACTA--TCAAAATCGAGGGCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGAC-ACCTCTATAT-G-TGCCGA
* * *
35425209 CGCCATGTCCCAGACATGGTCTTACACT-AGCTCTTAC-ATATCCGTGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGA-CACCT-CTATAT--GTGCCGA
* * *
35425259 TGCCATGTCCCAAACATGGTCTCACACTGACACCTCTATAAGTGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATATGTGCCGA
* * **
35425307 TGCCATGTCCCACACATGGTCTTATACTGACACCTCTATATGTGTTGA
1 TGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATATGTGCCGA
*
35425355 TGCCATGTCCCAGACATGGTCTTACACTGACACATC--T-TGTAGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATATGT-GCCGA
* * *
35425401 TG-CATGTCCCAGACATGGTCTTACACT-AGCTCTTATATATCTGTGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGA-CACCTCTATA--TGTGCCGA
* * * *
35425450 TGCCATGTCCCAAACATGGTCTCACACTAACACCTCTATAAGTGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATATGTGCCGA
* **
35425498 TGCCATGTCCCAGACATGGTCTTATACTGACACCTCTATATGTGTTGA
1 TGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATATGTGCCGA
* * *
35425546 TGCCATGTCCCAAACATGGTCTTTCACTGACACATC--T-TGTAGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATATGT-GCCGA
* * *
35425592 TG-CATGTCCCAGACAT-GTCTTACACT-AGCTTTCTTCTCA-A--TGCTGA
1 TGCCATGTCCCAGACATGGTCTTACACTGA-C--ACCTCT-ATATGTGCCGA
35425638 TGCCATGTCCCAGACATGGTCTTACACTG
1 TGCCATGTCCCAGACATGGTCTTACACTG
35425667 GCTCTCACAA
Statistics
Matches: 417, Mismatches: 58, Indels: 62
0.78 0.11 0.12
Matches are distributed among these distances:
43 1 0.00
44 11 0.03
45 48 0.12
46 25 0.06
47 44 0.11
48 173 0.41
49 38 0.09
50 72 0.17
51 5 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (48 bp):
TGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATATGTGCCGA
Found at i:35425449 original size:191 final size:191
Alignment explanation
Indices: 35425158--35425666 Score: 783
Period size: 191 Copynumber: 2.7 Consensus size: 191
35425148 CCATCAAGTC
** * * *
35425158 GATGCCATGTCCCAAACATGGTCTTACACTGACTATCAAAATCG-AGGGCGACGCCATGTCCCAG
1 GATGCCATGTCCCAAACATGGTCTTACACTGAC-A-C-ATCTTGTA-GCCGATG-CATGTCCCAG
* *
35425222 ACATGGTCTTACACTAGCTCTTACATATCCGTGCCGATGCCATGTCCCAAACATGGTCTCACACT
61 ACATGGTCTTACACTAGCTCTTATATATCAGTGCCGATGCCATGTCCCAAACATGGTCTCACACT
35425287 GACACCTCTATAAGTGCCGATGCCATGTCCCACACATGGTCTTATACTGACACCTCTATATGTGT
126 GACACCTCTATAAGTGCCGATGCCATGTCCCACACATGGTCTTATACTGACACCTCTATATGTGT
35425352 T
191 T
*
35425353 GATGCCATGTCCCAGACATGGTCTTACACTGACACATCTTGTAGCCGATGCATGTCCCAGACATG
1 GATGCCATGTCCCAAACATGGTCTTACACTGACACATCTTGTAGCCGATGCATGTCCCAGACATG
* *
35425418 GTCTTACACTAGCTCTTATATATCTGTGCCGATGCCATGTCCCAAACATGGTCTCACACTAACAC
66 GTCTTACACTAGCTCTTATATATCAGTGCCGATGCCATGTCCCAAACATGGTCTCACACTGACAC
*
35425483 CTCTATAAGTGCCGATGCCATGTCCCAGACATGGTCTTATACTGACACCTCTATATGTGTT
131 CTCTATAAGTGCCGATGCCATGTCCCACACATGGTCTTATACTGACACCTCTATATGTGTT
*
35425544 GATGCCATGTCCCAAACATGGTCTTTCACTGACACATCTTGTAGCCGATGCATGTCCCAGACAT-
1 GATGCCATGTCCCAAACATGGTCTTACACTGACACATCTTGTAGCCGATGCATGTCCCAGACATG
* * * * * *
35425608 GTCTTACACTAGCT-TTCT-TCTCAATGCTGATGCCATGTCCCAGACATGGTCTTACACTG
66 GTCTTACACTAGCTCTTATATATCAGTGCCGATGCCATGTCCCAAACATGGTCTCACACTG
35425667 GCTCTCACAA
Statistics
Matches: 293, Mismatches: 20, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
188 34 0.12
189 3 0.01
190 14 0.05
191 199 0.68
192 8 0.03
193 2 0.01
194 1 0.00
195 32 0.11
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (191 bp):
GATGCCATGTCCCAAACATGGTCTTACACTGACACATCTTGTAGCCGATGCATGTCCCAGACATG
GTCTTACACTAGCTCTTATATATCAGTGCCGATGCCATGTCCCAAACATGGTCTCACACTGACAC
CTCTATAAGTGCCGATGCCATGTCCCACACATGGTCTTATACTGACACCTCTATATGTGTT
Found at i:35425470 original size:143 final size:142
Alignment explanation
Indices: 35425113--35425666 Score: 444
Period size: 146 Copynumber: 3.9 Consensus size: 142
35425103 ATAATACCGG
* **
35425113 TGCCATGTCTCAGACATGGTCTTACACTGGCTC-ATCCATCAAGT--CGATGCCATGTCCCAAAC
1 TGCCATGTCCCAGACATGGTCTTACACT-GCTCTATATATC-AGTGCCGATGCCATGTCCCAAAC
* * * * *
35425175 ATGGTCTTACACTGACTA--TCAAAATCGAGGGCGACGCCATGTCCCAGACATGGTCTTACACTA
64 ATGGTCTTACACTGAC-ACCTCTATAT-G-TGCCGATGCCATGTCCCAGACATGGTCTTACACT-
*
35425238 GCTCTTACATATCCGTGCCGA
125 G-AC--ACATATCCGTGCCGA
* * * * *
35425259 TGCCATGTCCCAAACATGGTCTCACACTGACACCTCTATA--AGTGCCGATGCCATGTCCCACAC
1 TGCCATGTCCCAGACATGGTCTTACACTG-C-TCTATATATCAGTGCCGATGCCATGTCCCAAAC
* **
35425322 ATGGTCTTATACTGACACCTCTATATGTGTTGATGCCATGTCCCAGACATGGTCTTACACTGACA
64 ATGGTCTTACACTGACACCTCTATATGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACA
* *
35425387 CATCT-TGTAGCCGA
129 CATATCCGT-GCCGA
*
35425401 TG-CATGTCCCAGACATGGTCTTACACTAGCTCTTATATATCTGTGCCGATGCCATGTCCCAAAC
1 TGCCATGTCCCAGACATGGTCTTACACT-GCTC-TATATATCAGTGCCGATGCCATGTCCCAAAC
* * * *
35425465 ATGGTCTCACACTAACACCTCTATAAGTGCCGATGCCATGTCCCAGACATGGTCTTATACTGACA
64 ATGGTCTTACACTGACACCTCTATATGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACA
* ** **
35425530 CCTCTATATGTGTTGA
129 -C-ATATCCGTGCCGA
* * * * *
35425546 TGCCATGTCCCAAACATGGTCTTTCACTGACAC-ATCT-T--GTAGCCGATG-CATGTCCCAGAC
1 TGCCATGTCCCAGACATGGTCTTACACTG-CTCTATATATCAGT-GCCGATGCCATGTCCCAAAC
* * *
35425606 AT-GTCTTACACT-AGCTTTCTTCTCA-A--TGCTGATGCCATGTCCCAGACATGGTCTTACACT
64 ATGGTCTTACACTGA-C--ACCTCT-ATATGTGCCGATGCCATGTCCCAGACATGGTCTTACACT
35425666 G
125 G
35425667 GCTCTCACAA
Statistics
Matches: 341, Mismatches: 45, Indels: 50
0.78 0.10 0.11
Matches are distributed among these distances:
139 1 0.00
140 44 0.13
141 46 0.13
142 25 0.07
143 81 0.24
144 5 0.01
145 13 0.04
146 85 0.25
147 34 0.10
148 7 0.02
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (142 bp):
TGCCATGTCCCAGACATGGTCTTACACTGCTCTATATATCAGTGCCGATGCCATGTCCCAAACAT
GGTCTTACACTGACACCTCTATATGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACA
TATCCGTGCCGA
Found at i:35425719 original size:140 final size:141
Alignment explanation
Indices: 35425157--35425724 Score: 433
Period size: 143 Copynumber: 4.0 Consensus size: 141
35425147 TCCATCAAGT
* * * *** * * *
35425157 CGATGCCATGTCCCAAACATGGTCTTACACTGACTATCAAAATCGAGGGC-GACGCCATGTCCCA
1 CGATGCCATGTCCCAAACATGGTCTCACACTAAC-ACCTCTA-CAAGTGCTGATGCCATGTCCCA
* * * * *
35425221 GACATGGTCTTACACTAGCTCTTACATATCCGTGCCGATGCCATGTCCCAAACATGGTCTCACAC
64 GACATGGTCTTACACTGGCAC-T-CACAT--GTGCCGATG-CATGTCCCAGACATGGTCTTACAC
* **
35425286 T-G-ACACCTCTATAAGTGC
124 TAGCACA-C-ATATCTGTGC
* * * * * * *
35425304 CGATGCCATGTCCCACACATGGTCTTATACTGACACCTCTATATGTGTTGATGCCATGTCCCAGA
1 CGATGCCATGTCCCAAACATGGTCTCACACTAACACCTCTACAAGTGCTGATGCCATGTCCCAGA
* * *
35425369 CATGGTCTTACACT-G-ACACATCTTGTAGCCGATGCATGTCCCAGACATGGTCTTACACTAGCT
66 CATGGTCTTACACTGGCACTCA-CATGT-GCCGATGCATGTCCCAGACATGGTCTTACACTAGCA
*
35425432 CTTATATATCTGTGC
129 C--ACATATCTGTGC
* *
35425447 CGATGCCATGTCCCAAACATGGTCTCACACTAACACCTCTATAAGTGCCGATGCCATGTCCCAGA
1 CGATGCCATGTCCCAAACATGGTCTCACACTAACACCTCTACAAGTGCTGATGCCATGTCCCAGA
* * * ** * *
35425512 CATGGTCTTATACTGACACCTCTATATGTGTTGATGCCATGTCCCAAACATGGTCTTTCACT-G-
66 CATGGTCTTACACTGGCA-CTC-ACATGTGCCGATG-CATGTCCCAGACATGGTCTTACACTAGC
*
35425575 ACACATCT-TGTAGC
128 ACACATATCTGT-GC
* * * * *
35425589 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTTTCTTCT-CAA-TGCTGATGCCATGTCCCA
1 CGATGCCATGTCCCAAACATGGTCTCACACTAAC--ACCTCTACAAGTGCTGATGCCATGTCCCA
* * *
35425650 GACATGGTCTTACACTGGCTCTCACAATGTGGCCAATGCATGTCCTAGACAT-GTCTTACACTAG
64 GACATGGTCTTACACTGGCACTCAC-ATGT-GCCGATGCATGTCCCAGACATGGTCTTACACTAG
35425714 CACACAATATC
127 CACAC-ATATC
35425725 CCAAATGTCC
Statistics
Matches: 340, Mismatches: 60, Indels: 47
0.76 0.13 0.11
Matches are distributed among these distances:
138 10 0.03
139 20 0.06
140 53 0.16
141 46 0.14
142 25 0.07
143 80 0.24
144 2 0.01
145 11 0.03
146 60 0.18
147 33 0.10
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.28
Consensus pattern (141 bp):
CGATGCCATGTCCCAAACATGGTCTCACACTAACACCTCTACAAGTGCTGATGCCATGTCCCAGA
CATGGTCTTACACTGGCACTCACATGTGCCGATGCATGTCCCAGACATGGTCTTACACTAGCACA
CATATCTGTGC
Found at i:35428957 original size:30 final size:31
Alignment explanation
Indices: 35428918--35428976 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
35428908 ACAATTTATA
* *
35428918 ATTTGGCAAAATGATCATTTTGCCCCTAGAC
1 ATTTGGCAAAATGACCATTTTACCCCTAGAC
35428949 ATTT-GCAAAATGACCATTTTACCCCTAG
1 ATTTGGCAAAATGACCATTTTACCCCTAG
35428977 GTCCGAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.32
Consensus pattern (31 bp):
ATTTGGCAAAATGACCATTTTACCCCTAGAC
Found at i:35433770 original size:20 final size:18
Alignment explanation
Indices: 35433739--35433781 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 18
35433729 AAATTATATT
35433739 AATTTGACTTAAAATGATTAA
1 AATTTGACTT--AA-GATTAA
35433760 AATTT-ACTTAAGATTAA
1 AATTTGACTTAAGATTAA
35433777 AATTT
1 AATTT
35433782 TACTAATCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 11 0.50
18 2 0.09
20 4 0.18
21 5 0.23
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.42
Consensus pattern (18 bp):
AATTTGACTTAAGATTAA
Found at i:35444015 original size:106 final size:106
Alignment explanation
Indices: 35443830--35444042 Score: 408
Period size: 106 Copynumber: 2.0 Consensus size: 106
35443820 CACAAACTTT
35443830 TAAACCAACCAATCCTTATATATATATTTATTTAAAAATACCACATAGCCAAATATAATTTTAAT
1 TAAACCAACCAATCCTTATATATATATTTATTTAAAAATACCACATAGCCAAATATAATTTTAAT
*
35443895 GTAACTTAAATAATATGAAAAATATTCAAATTACATTACAC
66 GTAACTTAAATAATATGAAAAATATGCAAATTACATTACAC
35443936 TAAACCAACCAATCCTTATATATATATTTATTTAAAAATACCACATAGCCAAATATAATTTTAAT
1 TAAACCAACCAATCCTTATATATATATTTATTTAAAAATACCACATAGCCAAATATAATTTTAAT
*
35444001 GTAACTTAAATAATATGTAAAATATGCAAATTACATTACAC
66 GTAACTTAAATAATATGAAAAATATGCAAATTACATTACAC
35444042 T
1 T
35444043 TCAAAAGCAA
Statistics
Matches: 105, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
106 105 1.00
ACGTcount: A:0.47, C:0.15, G:0.03, T:0.34
Consensus pattern (106 bp):
TAAACCAACCAATCCTTATATATATATTTATTTAAAAATACCACATAGCCAAATATAATTTTAAT
GTAACTTAAATAATATGAAAAATATGCAAATTACATTACAC
Found at i:35445090 original size:37 final size:37
Alignment explanation
Indices: 35445049--35445122 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
35445039 ATACACAAAG
*
35445049 TAAGCTTTTATAGCTTAGTAAATCATAAGCAAATAAA
1 TAAGCTTTTATAGCTTAATAAATCATAAGCAAATAAA
*
35445086 TAAGCTTTTATAGCTTAATAAGTCATAAGCAAATAAA
1 TAAGCTTTTATAGCTTAATAAATCATAAGCAAATAAA
35445123 CAGTTCAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (37 bp):
TAAGCTTTTATAGCTTAATAAATCATAAGCAAATAAA
Found at i:35465776 original size:41 final size:41
Alignment explanation
Indices: 35465725--35465914 Score: 231
Period size: 41 Copynumber: 4.6 Consensus size: 41
35465715 GCCGGAGTGT
* * * * *
35465725 AAACAGGGGCAAGTAGGTGCTATTCAGGGGTACCGAAGTAC
1 AAACAAGGGCAAGTATGTGCAATTCAGGGGTATCAAAGTAC
* * *
35465766 AAATAAGGGCACGTATGTTCAATTCAGGGGTATCAAAGTAC
1 AAACAAGGGCAAGTATGTGCAATTCAGGGGTATCAAAGTAC
* * *
35465807 AAACAGGGGCATA-TATGTGCAATTCAGTGGTATCAAAGTAG
1 AAACAAGGGCA-AGTATGTGCAATTCAGGGGTATCAAAGTAC
*
35465848 AAACAGGGGCACA-TATGTGCAATTCAGGGGTATCAAAGTAC
1 AAACAAGGGCA-AGTATGTGCAATTCAGGGGTATCAAAGTAC
*
35465889 AAACAAGGGCATGTATGTGCAATTCA
1 AAACAAGGGCAAGTATGTGCAATTCA
35465915 AAGAATAATT
Statistics
Matches: 128, Mismatches: 19, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
41 128 1.00
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.22
Consensus pattern (41 bp):
AAACAAGGGCAAGTATGTGCAATTCAGGGGTATCAAAGTAC
Found at i:35465813 original size:20 final size:20
Alignment explanation
Indices: 35465790--35465893 Score: 68
Period size: 20 Copynumber: 5.1 Consensus size: 20
35465780 ATGTTCAATT
35465790 CAGGGGTATCAAAGTACAAA
1 CAGGGGTATCAAAGTACAAA
* * * *
35465810 CAGGGGCAT-ATATGTGCAATT
1 CAGGGGTATCA-AAGTACAA-A
* *
35465831 CAGTGGTATCAAAGTAGAAA
1 CAGGGGTATCAAAGTACAAA
* * * *
35465851 CAGGGGCA-CATATGTGCAATT
1 CAGGGGTATCA-AAGTACAA-A
35465872 CAGGGGTATCAAAGTACAAA
1 CAGGGGTATCAAAGTACAAA
35465892 CA
1 CA
35465894 AGGGCATGTA
Statistics
Matches: 58, Mismatches: 20, Indels: 12
0.64 0.22 0.13
Matches are distributed among these distances:
19 3 0.05
20 27 0.47
21 25 0.43
22 3 0.05
ACGTcount: A:0.38, C:0.15, G:0.26, T:0.20
Consensus pattern (20 bp):
CAGGGGTATCAAAGTACAAA
Found at i:35465846 original size:82 final size:82
Alignment explanation
Indices: 35465725--35465914 Score: 256
Period size: 82 Copynumber: 2.3 Consensus size: 82
35465715 GCCGGAGTGT
* * * * * *
35465725 AAACAGGGGCA-AGTAGGTGCTATTCAGGGGTACCGAAGTACAAATAAGGGCACGTATGTTCAAT
1 AAACAGGGGCATA-TATGTGCAATTCAGGGGTACCAAAGTACAAACAAGGGCACATATGTGCAAT
35465789 TCAGGGGTATCAAAGTAC
65 TCAGGGGTATCAAAGTAC
* * * *
35465807 AAACAGGGGCATATATGTGCAATTCAGTGGTATCAAAGTAGAAACAGGGGCACATATGTGCAATT
1 AAACAGGGGCATATATGTGCAATTCAGGGGTACCAAAGTACAAACAAGGGCACATATGTGCAATT
35465872 CAGGGGTATCAAAGTAC
66 CAGGGGTATCAAAGTAC
* *
35465889 AAACAAGGGCATGTATGTGCAATTCA
1 AAACAGGGGCATATATGTGCAATTCA
35465915 AAGAATAATT
Statistics
Matches: 95, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
82 94 0.99
83 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.22
Consensus pattern (82 bp):
AAACAGGGGCATATATGTGCAATTCAGGGGTACCAAAGTACAAACAAGGGCACATATGTGCAATT
CAGGGGTATCAAAGTAC
Found at i:35473157 original size:22 final size:21
Alignment explanation
Indices: 35473104--35473158 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 21
35473094 GGCTGTCACA
35473104 GATGTATTATGCCAATATAATT
1 GATGT-TTATGCCAATATAATT
*
35473126 GATCGATTATGCCAATATAATT
1 GAT-GTTTATGCCAATATAATT
35473148 GAATGTTTATG
1 G-ATGTTTATG
35473159 TGTTAAAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 26 0.90
23 3 0.10
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.40
Consensus pattern (21 bp):
GATGTTTATGCCAATATAATT
Found at i:35478525 original size:93 final size:93
Alignment explanation
Indices: 35478366--35478537 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
35478356 CGCCCATAAG
* * * *
35478366 CGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
35478431 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCAGATGCCTAGTTACATCTCA
*
35478459 CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
35478524 ACGAGTTCAGATGC
66 ACGAGTTCAGATGC
35478538 TCAACCATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCAGATGCCTAGTTACATCTCA
Found at i:35478527 original size:46 final size:46
Alignment explanation
Indices: 35478359--35478534 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
35478349 TGTAACCCGC
* * * *
35478359 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
* * * *
35478405 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC--A-GAC-A-TTCGCAT
*
35478455 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
*
35478498 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGA
35478535 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 3 0.03
45 3 0.03
46 59 0.55
47 26 0.24
48 3 0.03
49 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
Found at i:35478553 original size:46 final size:46
Alignment explanation
Indices: 35478410--35478546 Score: 131
Period size: 47 Copynumber: 3.0 Consensus size: 46
35478400 CGCATCCATG
*
35478410 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCTC-A---ACCATCTC
* * * * *
35478458 A-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCA--TA
1 AGTGAACTCGGACTCAACTCAACGAGTTCAG--ATGCTCAACCATCTC
35478503 AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCTCAACCATC
1 AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCTCAACCATC
35478547 CTAGTGACAT
Statistics
Matches: 73, Mismatches: 9, Indels: 16
0.74 0.09 0.16
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 28 0.38
47 29 0.40
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCTCAACCATCTC
Found at i:35484630 original size:38 final size:38
Alignment explanation
Indices: 35484579--35484659 Score: 162
Period size: 38 Copynumber: 2.1 Consensus size: 38
35484569 CAGCTCTGTT
35484579 TCCTTAGTGTTCAGTACAAATGCAAGGTAGGCTTCATA
1 TCCTTAGTGTTCAGTACAAATGCAAGGTAGGCTTCATA
35484617 TCCTTAGTGTTCAGTACAAATGCAAGGTAGGCTTCATA
1 TCCTTAGTGTTCAGTACAAATGCAAGGTAGGCTTCATA
35484655 TCCTT
1 TCCTT
35484660 TCCTTATATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (38 bp):
TCCTTAGTGTTCAGTACAAATGCAAGGTAGGCTTCATA
Found at i:35486903 original size:55 final size:55
Alignment explanation
Indices: 35486842--35486947 Score: 153
Period size: 55 Copynumber: 1.9 Consensus size: 55
35486832 TGAATTTTAA
*
35486842 ACACGGCCATGGCACATGCCCGTAT-AGCCTACCCGTGTTCA-ATACTGACTTTGGG
1 ACACGGCCATGGCACATGCCCGTATGA-CCTACCCGTG-TCATATACTAACTTTGGG
* *
35486897 ACACGGCTATGGCACATGCCCGTGTGACCTACCCGTGTCATATACTAACTT
1 ACACGGCCATGGCACATGCCCGTATGACCTACCCGTGTCATATACTAACTT
35486948 AAAATTTTAA
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
54 3 0.07
55 42 0.91
56 1 0.02
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.25
Consensus pattern (55 bp):
ACACGGCCATGGCACATGCCCGTATGACCTACCCGTGTCATATACTAACTTTGGG
Found at i:35496572 original size:28 final size:28
Alignment explanation
Indices: 35496532--35496588 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
35496522 ATCATATCTC
35496532 ATGTCATTCTCATTAGTTCGATGTACAT
1 ATGTCATTCTCATTAGTTCGATGTACAT
35496560 ATGTCATTCTCATTAGTTCGATGTACAT
1 ATGTCATTCTCATTAGTTCGATGTACAT
35496588 A
1 A
35496589 CCTGTGCCAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.42
Consensus pattern (28 bp):
ATGTCATTCTCATTAGTTCGATGTACAT
Found at i:35496941 original size:45 final size:45
Alignment explanation
Indices: 35496891--35496978 Score: 167
Period size: 45 Copynumber: 2.0 Consensus size: 45
35496881 AGACATGTGT
*
35496891 CACATATATCATGAACTCAGACCATAACTCAATGAGTTCAGATGC
1 CACATATATCATGAACTCAGACCACAACTCAATGAGTTCAGATGC
35496936 CACATATATCATGAACTCAGACCACAACTCAATGAGTTCAGAT
1 CACATATATCATGAACTCAGACCACAACTCAATGAGTTCAGAT
35496979 CACAATAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.39, C:0.25, G:0.12, T:0.24
Consensus pattern (45 bp):
CACATATATCATGAACTCAGACCACAACTCAATGAGTTCAGATGC
Found at i:35496955 original size:24 final size:21
Alignment explanation
Indices: 35496891--35496957 Score: 57
Period size: 21 Copynumber: 3.0 Consensus size: 21
35496881 AGACATGTGT
35496891 CACATATATCATGAACTCAGA
1 CACATATATCATGAACTCAGA
**
35496912 C-CATA-ACTCAATGAGTTCAGA
1 CACATATA-TC-ATGAACTCAGA
35496933 TGCCACATATATCATGAACTCAGA
1 ---CACATATATCATGAACTCAGA
35496957 C
1 C
35496958 CACAACTCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 14
0.66 0.08 0.26
Matches are distributed among these distances:
19 1 0.03
20 6 0.17
21 11 0.31
24 10 0.29
25 6 0.17
26 1 0.03
ACGTcount: A:0.39, C:0.25, G:0.12, T:0.24
Consensus pattern (21 bp):
CACATATATCATGAACTCAGA
Found at i:35496976 original size:21 final size:21
Alignment explanation
Indices: 35496907--35496983 Score: 66
Period size: 21 Copynumber: 3.5 Consensus size: 21
35496897 TATCATGAAC
*
35496907 TCAGACCATAACTCAATGAGT
1 TCAGACCACAACTCAATGAGT
* **
35496928 TCAGATGCCACATATATC-ATGAAC
1 TCAGA--CCACA-A-CTCAATGAGT
35496952 TCAGACCACAACTCAATGAGT
1 TCAGACCACAACTCAATGAGT
*
35496973 TCAGATCACAA
1 TCAGACCACAA
35496984 TAATTCCTAA
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
20 2 0.05
21 20 0.47
22 5 0.12
23 4 0.09
24 10 0.23
25 2 0.05
ACGTcount: A:0.39, C:0.26, G:0.13, T:0.22
Consensus pattern (21 bp):
TCAGACCACAACTCAATGAGT
Found at i:35521960 original size:46 final size:46
Alignment explanation
Indices: 35521910--35522085 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
35521900 TGGTTGAGCA
35521910 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
35521956 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAT-G
* * *
35522000 ACATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACG
1 ---TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *
35522049 TCCGAGCTCCTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
35522086 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 7 0.06
44 1 0.01
45 2 0.02
46 61 0.56
47 28 0.26
48 2 0.02
49 1 0.01
50 6 0.06
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:35522067 original size:93 final size:93
Alignment explanation
Indices: 35521908--35522078 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
35521898 GATGGTTGAG
* * * *
35521908 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGTT
1 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCCGAACTCCTTGAGTT
35521973 GAGTCCGAGTTCGTGAGATGTAACTAGA
66 GAGTCCGAGTTCGTGAGATGTAACTAGA
*
35522001 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCCGAGCTCCTTGAGTT
1 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCCGAACTCCTTGAGTT
35522066 GAGTCCGAGTTCG
66 GAGTCCGAGTTCG
35522079 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.28
Consensus pattern (93 bp):
CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCCGAACTCCTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAGA
Found at i:35525028 original size:15 final size:15
Alignment explanation
Indices: 35525008--35525093 Score: 120
Period size: 15 Copynumber: 5.7 Consensus size: 15
35524998 GTATCTTGGG
*
35525008 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
35525023 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
35525038 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
35525053 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
*
35525068 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
35525083 TTTCTTTATTC
1 TTTCTTTATTC
35525094 GATTTTCTTG
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
14 2 0.03
15 58 0.94
16 2 0.03
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:35527444 original size:29 final size:29
Alignment explanation
Indices: 35527401--35527466 Score: 105
Period size: 29 Copynumber: 2.2 Consensus size: 29
35527391 TTAGAAGATG
* *
35527401 GTTGAGACATATGATTGGGAAAAATGTCCC
1 GTTGA-ACACATGATTGGGAAAAAGGTCCC
35527431 GTTGAACACATGATTGGGAAAAAGGTCCC
1 GTTGAACACATGATTGGGAAAAAGGTCCC
35527460 GTTGAAC
1 GTTGAAC
35527467 CTTAGGAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
29 29 0.85
30 5 0.15
ACGTcount: A:0.33, C:0.15, G:0.27, T:0.24
Consensus pattern (29 bp):
GTTGAACACATGATTGGGAAAAAGGTCCC
Found at i:35527567 original size:46 final size:46
Alignment explanation
Indices: 35527517--35527692 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
35527507 TGGTTGAGCA
*
35527517 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
35527563 TCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * * *
35527610 TCCGAACTCGTTGAGTTGAGCCCGAGTTCACTCATGGATGCGAACA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
35527656 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
35527693 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 63 0.59
47 27 0.25
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:35527673 original size:93 final size:93
Alignment explanation
Indices: 35527514--35527684 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
35527504 GGATGGTTGA
* * ***
35527514 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTCATGGATGCAAACACCCGAACTCGTTGAGT
*
35527579 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
35527607 GCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTCATGGATGCGAACACCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTCATGGATGCAAACACCCGAACTCGTTGAGT
35527672 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
35527685 ACTTATGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTCATGGATGCAAACACCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:35528374 original size:37 final size:37
Alignment explanation
Indices: 35528332--35528409 Score: 147
Period size: 37 Copynumber: 2.1 Consensus size: 37
35528322 ATTTACCATC
35528332 AAATAGATTCAGACAGCAGTAGTGACGTGAATTTGAA
1 AAATAGATTCAGACAGCAGTAGTGACGTGAATTTGAA
*
35528369 AAATAGATTCAGACAGCTGTAGTGACGTGAATTTGAA
1 AAATAGATTCAGACAGCAGTAGTGACGTGAATTTGAA
35528406 AAAT
1 AAAT
35528410 CACTAAAAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.41, C:0.10, G:0.23, T:0.26
Consensus pattern (37 bp):
AAATAGATTCAGACAGCAGTAGTGACGTGAATTTGAA
Found at i:35539444 original size:40 final size:40
Alignment explanation
Indices: 35539366--35539546 Score: 276
Period size: 40 Copynumber: 4.5 Consensus size: 40
35539356 ACCCAAGTAT
* *
35539366 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
35539405 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
35539445 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
35539485 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
35539525 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
35539547 CATCCGAATA
Statistics
Matches: 130, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 11 0.08
40 118 0.91
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:35543040 original size:265 final size:265
Alignment explanation
Indices: 35542552--35543080 Score: 959
Period size: 265 Copynumber: 2.0 Consensus size: 265
35542542 CTTTGTCTCC
35542552 CACCTGATACTCAATATCTCTTCGTTTTAAATCCGCATACGACTTCTGACGATCTGATGCTGCCT
1 CACCTGATACTCAATATCTCTTCGTTTTAAATCCGCATACGACTTCTGACGATCTGATGCTGCCT
* *
35542617 TCAGACTTTCATGAATTACCTTTACTTTCTGCTCAGCATCTTTAATCAAATCAACTCCGAAAATT
66 CCAGACTTTCACGAATTACCTTTACTTTCTGCTCAGCATCTTTAATCAAATCAACTCCGAAAATT
35542682 TTACTTTCACCGAGCTCGGTCCAAAACAATGGTGTACGGCATTTACGACCGTACAAAGCCTCGTA
131 TTACTTTCACCGAGCTCGGTCCAAAACAATGGTGTACGGCATTTACGACCGTACAAAGCCTCGTA
*
35542747 AGGTGCCATCTTAATGCTTGACTGAAAACTATTGTTGTAAGCGAATTCAATCAAAGGTAAATACC
196 AGGTGCCATCTTAATACTTGACTGAAAACTATTGTTGTAAGCGAATTCAATCAAAGGTAAATACC
35542812 GCTCA
261 GCTCA
* *
35542817 CACCTGATACTCAATATCTCTTCGTTTTAAATCCGCGTACGACTTCTGACGATCTGATGCTGTCT
1 CACCTGATACTCAATATCTCTTCGTTTTAAATCCGCATACGACTTCTGACGATCTGATGCTGCCT
** *
35542882 CCAGACTTTCACGAATTATTTTTACTTTCTGCTCAGCATCTTTAATCAAATCAACTCTGAAAATT
66 CCAGACTTTCACGAATTACCTTTACTTTCTGCTCAGCATCTTTAATCAAATCAACTCCGAAAATT
35542947 TTACTTTCACCGAGCTCGGTCCAAAACAATGGTGTACGGCATTTACGACCGTACAAAGCCTCGTA
131 TTACTTTCACCGAGCTCGGTCCAAAACAATGGTGTACGGCATTTACGACCGTACAAAGCCTCGTA
* * *
35543012 AGGTGCCATCTTAGTACTTGATTGAAAACTATTGTTGTGAGCGAATTCAATCAAAGGTAAATACC
196 AGGTGCCATCTTAATACTTGACTGAAAACTATTGTTGTAAGCGAATTCAATCAAAGGTAAATACC
35543077 GCTC
261 GCTC
35543081 CCATGAACCA
Statistics
Matches: 253, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
265 253 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.32
Consensus pattern (265 bp):
CACCTGATACTCAATATCTCTTCGTTTTAAATCCGCATACGACTTCTGACGATCTGATGCTGCCT
CCAGACTTTCACGAATTACCTTTACTTTCTGCTCAGCATCTTTAATCAAATCAACTCCGAAAATT
TTACTTTCACCGAGCTCGGTCCAAAACAATGGTGTACGGCATTTACGACCGTACAAAGCCTCGTA
AGGTGCCATCTTAATACTTGACTGAAAACTATTGTTGTAAGCGAATTCAATCAAAGGTAAATACC
GCTCA
Found at i:35543418 original size:228 final size:228
Alignment explanation
Indices: 35543014--35543436 Score: 711
Period size: 228 Copynumber: 1.9 Consensus size: 228
35543004 GCCTCGTAAG
* * *
35543014 GTGCCATCTTAGTACTTGATTGAAAACTATTGTTGTGAGCGAATTCAATCAAAGGTAAATACCGC
1 GTGCCATCTTAATACTTGACTGAAAACTATTGTTGTAAGCGAATTCAATCAAAGGTAAATACCGC
* *
35543079 TCCCATGAACCACTAAACTCAAGGATGCAACATCTCAACATATCCTCAAGCATCTGAATTATCCG
66 TCCCACGAACCACTAAACTCAAGAATGCAACATCTCAACATATCCTCAAGCATCTGAATTATCCG
* * *
35543144 CTCGGATTGACCATCAGTTTGTGGATGAAAAGCGGTGCTAAAATGCAACTTGGTACCCAAAGCTT
131 CTCAGATTGACCATCAGTCTGGGGATGAAAAGCGGTGCTAAAATGCAACTTGGTACCCAAAGCTT
35543209 GAGTATTCTATAGTCTCACCTAAATAGCTTGGC
196 GAGTATTCTATAGTCTCACCTAAATAGCTTGGC
* *
35543242 GTGCCATCTTAATGCTTGACTGAAAACTATTGTTGTAAGCGAATTCAATCAAAGGTAAATACCGT
1 GTGCCATCTTAATACTTGACTGAAAACTATTGTTGTAAGCGAATTCAATCAAAGGTAAATACCGC
* *
35543307 TCCCACGAACCACTAAACTCAAGAATGCAACATCTCAACATATCCTCGAGTATCTGAATTATCCG
66 TCCCACGAACCACTAAACTCAAGAATGCAACATCTCAACATATCCTCAAGCATCTGAATTATCCG
* * *
35543372 CTCAGATTGACCATCGGTCTGGGGATGAAAAGCGGTGCTGAAATGCAATTTGGTACCCAAAGCTT
131 CTCAGATTGACCATCAGTCTGGGGATGAAAAGCGGTGCTAAAATGCAACTTGGTACCCAAAGCTT
35543437 CTTGAAATTT
Statistics
Matches: 180, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
228 180 1.00
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (228 bp):
GTGCCATCTTAATACTTGACTGAAAACTATTGTTGTAAGCGAATTCAATCAAAGGTAAATACCGC
TCCCACGAACCACTAAACTCAAGAATGCAACATCTCAACATATCCTCAAGCATCTGAATTATCCG
CTCAGATTGACCATCAGTCTGGGGATGAAAAGCGGTGCTAAAATGCAACTTGGTACCCAAAGCTT
GAGTATTCTATAGTCTCACCTAAATAGCTTGGC
Found at i:35546232 original size:24 final size:24
Alignment explanation
Indices: 35546182--35546235 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
35546172 AATCGAATTT
*
35546182 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
35546206 GCACACATAGTGCCTTAG-CACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
35546230 GCACAC
1 GCACAC
35546236 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 6 0.22
26 2 0.07
ACGTcount: A:0.28, C:0.39, G:0.17, T:0.17
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:35551922 original size:40 final size:40
Alignment explanation
Indices: 35551853--35551978 Score: 209
Period size: 40 Copynumber: 3.2 Consensus size: 40
35551843 AACCCAAGTA
* *
35551853 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
35551892 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
35551932 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
35551972 CCTTCGG
1 CCTTCGG
35551979 ATCTTAGTCC
Statistics
Matches: 82, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 13 0.16
40 69 0.84
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:35554018 original size:55 final size:55
Alignment explanation
Indices: 35553899--35554020 Score: 127
Period size: 55 Copynumber: 2.2 Consensus size: 55
35553889 TTAAAATTTT
* * * * * **
35553899 AAGTTAGTATCGGACACGGGTAGGTCACACGGGCGTGTGCCATAGCCGTGTCCCG
1 AAGTTAGTATTGAACACGGGCAGGCCACACGGGCGTGTGCCATAGCCATGTCCAA
* * * * **
35553954 AAGTCAGTATTGAACACGGGCAGGCCATACGGGCGTGTGTCATGGCCATGTTTAA
1 AAGTTAGTATTGAACACGGGCAGGCCACACGGGCGTGTGCCATAGCCATGTCCAA
35554009 AAGTTAGTATTG
1 AAGTTAGTATTG
35554021 CCCACGGACT
Statistics
Matches: 53, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (55 bp):
AAGTTAGTATTGAACACGGGCAGGCCACACGGGCGTGTGCCATAGCCATGTCCAA
Found at i:35555571 original size:23 final size:25
Alignment explanation
Indices: 35555530--35555583 Score: 67
Period size: 23 Copynumber: 2.2 Consensus size: 25
35555520 CAAACTAAAG
**
35555530 AAAAAAAAATGTAACAATTAAATTT
1 AAAAAAAAATGTAACAATTAAAAAT
*
35555555 AAAAAAATAT-TAA-AATTAAAAAT
1 AAAAAAAAATGTAACAATTAAAAAT
35555578 AAAAAA
1 AAAAAA
35555584 TGACAAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 14 0.54
24 3 0.12
25 9 0.35
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.24
Consensus pattern (25 bp):
AAAAAAAAATGTAACAATTAAAAAT
Found at i:35562794 original size:23 final size:23
Alignment explanation
Indices: 35562767--35562814 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
35562757 TTCATTAGGA
*
35562767 TTAATGTTGGACTAAGCTATTAG
1 TTAATGTTGCACTAAGCTATTAG
* *
35562790 TTAATGTTTCACTAAGCTTTTAG
1 TTAATGTTGCACTAAGCTATTAG
35562813 TT
1 TT
35562815 TTAATTGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.27, C:0.10, G:0.17, T:0.46
Consensus pattern (23 bp):
TTAATGTTGCACTAAGCTATTAG
Found at i:35563247 original size:25 final size:25
Alignment explanation
Indices: 35563219--35563267 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
35563209 TTATTTTGGC
*
35563219 TTTTCTTCTCCCAATTAAACTCTAT
1 TTTTATTCTCCCAATTAAACTCTAT
* * *
35563244 TTTTATTTTTCCACTTAAACTCTA
1 TTTTATTCTCCCAATTAAACTCTA
35563268 ACTAACCTAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.51
Consensus pattern (25 bp):
TTTTATTCTCCCAATTAAACTCTAT
Found at i:35569811 original size:26 final size:26
Alignment explanation
Indices: 35569782--35569889 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
35569772 TGGTACAAAT
35569782 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
35569808 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
35569834 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
35569860 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
35569886 TGAT
1 TGAT
35569890 GGGAATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:35571474 original size:54 final size:54
Alignment explanation
Indices: 35571392--35572210 Score: 1611
Period size: 54 Copynumber: 15.2 Consensus size: 54
35571382 AGGAAGCGTC
***
35571392 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCTTGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
35571446 CTGGTGGCTATGCCTTGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCTTGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
35571500 CTGGTGGCTATGCCTTGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCTTGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
35571554 CTGGTGGCTATGCCTTGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCTTGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
35571608 CTGGTGGCTATGCCTTGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCTTGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
35571662 CTGGTGGCTATGCCTTGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCTTGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
35571716 CTGGTGGCTATGCCTTGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCTTGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
35571770 CTGGTGGCTATGCCTTGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCTTGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
35571824 CTGGTGGCTATGCCTTGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCTTGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
35571878 CTGGTGGCTATGCCTTGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCTTGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
35571932 CTGGTGGCTATGCCTTGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCTTGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
35571986 CTGGTGGCTATGCCTTGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCTTGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
35572040 CTGGTGGCTATGCCTTGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCTTGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
35572094 CTGGTGGCTATGCCTTGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCTTGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
35572148 CTGGTGGCTATGCCTTGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCTTGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
35572202 CTGGTGGCT
1 CTGGTGGCT
35572211 CTACCACAAT
Statistics
Matches: 762, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 762 1.00
ACGTcount: A:0.15, C:0.22, G:0.24, T:0.39
Consensus pattern (54 bp):
CTGGTGGCTATGCCTTGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:35572230 original size:32 final size:27
Alignment explanation
Indices: 35571392--35572222 Score: 623
Period size: 27 Copynumber: 30.8 Consensus size: 27
35571382 AGGAAGCGTC
* *
35571392 CTGGTGGCTATGCCACA-ATTATCTGAT
1 CTGGTGGCTCTACCACATA-TATCTGAT
* *
35571419 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTACCACATATATCTGAT
* * **
35571446 CTGGTGGCTATGCCTTGAT-TATCTGAT
1 CTGGTGGCTCTACC-ACATATATCTGAT
* *
35571473 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTACCACATATATCTGAT
* * **
35571500 CTGGTGGCTATGCCTTGAT-TATCTGAT
1 CTGGTGGCTCTACC-ACATATATCTGAT
* *
35571527 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTACCACATATATCTGAT
* * **
35571554 CTGGTGGCTATGCCTTGAT-TATCTGAT
1 CTGGTGGCTCTACC-ACATATATCTGAT
* *
35571581 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTACCACATATATCTGAT
* * **
35571608 CTGGTGGCTATGCCTTGAT-TATCTGAT
1 CTGGTGGCTCTACC-ACATATATCTGAT
* *
35571635 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTACCACATATATCTGAT
* * **
35571662 CTGGTGGCTATGCCTTGAT-TATCTGAT
1 CTGGTGGCTCTACC-ACATATATCTGAT
* *
35571689 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTACCACATATATCTGAT
* * **
35571716 CTGGTGGCTATGCCTTGAT-TATCTGAT
1 CTGGTGGCTCTACC-ACATATATCTGAT
* *
35571743 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTACCACATATATCTGAT
* * **
35571770 CTGGTGGCTATGCCTTGAT-TATCTGAT
1 CTGGTGGCTCTACC-ACATATATCTGAT
* *
35571797 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTACCACATATATCTGAT
* * **
35571824 CTGGTGGCTATGCCTTGAT-TATCTGAT
1 CTGGTGGCTCTACC-ACATATATCTGAT
* *
35571851 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTACCACATATATCTGAT
* * **
35571878 CTGGTGGCTATGCCTTGAT-TATCTGAT
1 CTGGTGGCTCTACC-ACATATATCTGAT
* *
35571905 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTACCACATATATCTGAT
* * **
35571932 CTGGTGGCTATGCCTTGAT-TATCTGAT
1 CTGGTGGCTCTACC-ACATATATCTGAT
* *
35571959 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTACCACATATATCTGAT
* * **
35571986 CTGGTGGCTATGCCTTGAT-TATCTGAT
1 CTGGTGGCTCTACC-ACATATATCTGAT
* *
35572013 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTACCACATATATCTGAT
* * **
35572040 CTGGTGGCTATGCCTTGAT-TATCTGAT
1 CTGGTGGCTCTACC-ACATATATCTGAT
* *
35572067 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTACCACATATATCTGAT
* * **
35572094 CTGGTGGCTATGCCTTGAT-TATCTGAT
1 CTGGTGGCTCTACC-ACATATATCTGAT
* *
35572121 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTACCACATATATCTGAT
* * **
35572148 CTGGTGGCTATGCCTTGAT-TATCTGAT
1 CTGGTGGCTCTACC-ACATATATCTGAT
* *
35572175 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTACCACATATATCTGAT
35572202 CTGGTGGCTCTACCACA-ATAT
1 CTGGTGGCTCTACCACATATAT
35572223 TTGTATCTAG
Statistics
Matches: 660, Mismatches: 115, Indels: 59
0.79 0.14 0.07
Matches are distributed among these distances:
26 32 0.05
27 599 0.91
28 29 0.04
ACGTcount: A:0.15, C:0.23, G:0.24, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTACCACATATATCTGAT
Found at i:35577200 original size:51 final size:51
Alignment explanation
Indices: 35577124--35577225 Score: 195
Period size: 51 Copynumber: 2.0 Consensus size: 51
35577114 GGAAAGGGGA
*
35577124 AGGAATTTGTCTAGGGCATTCGGCTATCTTGGAGGTTAAATAAGGTAGGAG
1 AGGAATTTGTCCAGGGCATTCGGCTATCTTGGAGGTTAAATAAGGTAGGAG
35577175 AGGAATTTGTCCAGGGCATTCGGCTATCTTGGAGGTTAAATAAGGTAGGAG
1 AGGAATTTGTCCAGGGCATTCGGCTATCTTGGAGGTTAAATAAGGTAGGAG
35577226 TTCATGTTAT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.27, C:0.11, G:0.33, T:0.28
Consensus pattern (51 bp):
AGGAATTTGTCCAGGGCATTCGGCTATCTTGGAGGTTAAATAAGGTAGGAG
Found at i:35580338 original size:26 final size:26
Alignment explanation
Indices: 35580309--35580389 Score: 72
Period size: 28 Copynumber: 3.0 Consensus size: 26
35580299 TCTCTTTGAA
* * *
35580309 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
35580335 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
* * *
35580363 CCATTCTCAATATTTCGTACACTAAGT
1 TCA-T-TCAATATCTCGCACACTAAGT
35580390 ACCATATTTG
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
26 3 0.06
27 1 0.02
28 43 0.91
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.36
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:35580354 original size:28 final size:28
Alignment explanation
Indices: 35580323--35580394 Score: 108
Period size: 28 Copynumber: 2.6 Consensus size: 28
35580313 TCGATATTTT
*
35580323 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGCCATTCTCAATATCTC
*
35580351 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTGCCATTCTCAATATCTC
* *
35580379 GTACACTAAGTACCAT
1 GCACACTAAGTGCCAT
35580395 ATTTGATTGC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.31, C:0.28, G:0.11, T:0.31
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATATCTC
Found at i:35585049 original size:26 final size:26
Alignment explanation
Indices: 35585020--35585127 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
35585010 TGGTACAAAT
35585020 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
35585046 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
35585072 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
35585098 TGATAATGGCTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
35585124 TGAT
1 TGAT
35585128 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:35586789 original size:27 final size:26
Alignment explanation
Indices: 35586749--35587096 Score: 462
Period size: 27 Copynumber: 12.9 Consensus size: 26
35586739 AGGAAGCGTC
*
35586749 CTGGTGGCTATGCCACAATTACCTGAT
1 CTGGTGGCTATGCCAC-ATTATCTGAT
* *
35586776 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAT-TATCTGAT
35586803 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTATGCCAC-ATTATCTGAT
* *
35586830 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAT-TATCTGAT
35586857 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTATGCCAC-ATTATCTGAT
* *
35586884 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAT-TATCTGAT
35586911 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTATGCCAC-ATTATCTGAT
* *
35586938 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAT-TATCTGAT
35586965 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTATGCCAC-ATTATCTGAT
* *
35586992 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAT-TATCTGAT
35587019 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTATGCCAC-ATTATCTGAT
* *
35587046 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAT-TATCTGAT
35587073 CTGGTGGCTATGCCACGATTATCT
1 CTGGTGGCTATGCCAC-ATTATCT
35587097 TTGAATATTT
Statistics
Matches: 285, Mismatches: 24, Indels: 24
0.86 0.07 0.07
Matches are distributed among these distances:
26 12 0.04
27 261 0.92
28 12 0.04
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTATGCCACATTATCTGAT
Found at i:35586831 original size:54 final size:54
Alignment explanation
Indices: 35586749--35587096 Score: 678
Period size: 54 Copynumber: 6.4 Consensus size: 54
35586739 AGGAAGCGTC
* *
35586749 CTGGTGGCTATGCCACAATTACCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
35586803 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
35586857 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
35586911 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
35586965 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
35587019 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
35587073 CTGGTGGCTATGCCACGATTATCT
1 CTGGTGGCTATGCCACGATTATCT
35587097 TTGAATATTT
Statistics
Matches: 292, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
54 292 1.00
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (54 bp):
CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:35587502 original size:27 final size:26
Alignment explanation
Indices: 35587462--35587926 Score: 615
Period size: 27 Copynumber: 17.2 Consensus size: 26
35587452 AGGAAGCGTC
*
35587462 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
35587489 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
35587516 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
35587543 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
35587570 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
35587597 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
35587624 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
35587651 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
35587678 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
35587705 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
35587732 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
35587759 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
35587786 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
35587813 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
35587840 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
* *
35587867 CTGGTGGCTCTGCCACATATATATGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
35587894 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACATTATCTG-AT
35587921 CTGGTG
1 CTGGTG
35587927 ACTTCGTCAC
Statistics
Matches: 388, Mismatches: 34, Indels: 32
0.85 0.07 0.07
Matches are distributed among these distances:
26 21 0.05
27 353 0.91
28 14 0.04
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:35587544 original size:54 final size:54
Alignment explanation
Indices: 35587462--35587926 Score: 887
Period size: 54 Copynumber: 8.6 Consensus size: 54
35587452 AGGAAGCGTC
35587462 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
35587516 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
35587570 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
35587624 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
35587678 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
35587732 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
35587786 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
*
35587840 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATATGTT
1 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* *
35587894 CTGGTGGCTCTGCCAC-AATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACGATTATCTG-ATCTGGTG
35587927 ACTTCGTCAC
Statistics
Matches: 407, Mismatches: 3, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
53 7 0.02
54 400 0.98
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (54 bp):
CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:35587748 original size:713 final size:713
Alignment explanation
Indices: 35586383--35587809 Score: 2773
Period size: 713 Copynumber: 2.0 Consensus size: 713
35586373 GATAGTTGGG
*
35586383 TTTGAATATTTGGTAATCTAAAGTAATAAACTGCAGTACACGCGATTTCGTACATTTTGATAATT
1 TTTGAATATTTGGTAATCTAAAGTAATAAACTGCAGTACACGCGATTTCATACATTTTGATAATT
* * *
35586448 TGGGCTTAATGGGCCAAAGATCGGGTTCATGGGCCAACAGGCCCAATTCGGTAAGTATGCGCGGT
66 TGGGCTTAATGGGCCAAAGATCGAGTTCATGGGCCAACAGGCCCAATTCAGTAAGTATGCGCGAT
*
35586513 AAGTGTTCTGATAGTATGTAAATAGTTAGGATATGCATGAAAACCCTAAAAGTAGCTAAATTACT
131 AAGTGTTCTAATAGTATGTAAATAGTTAGGATATGCATGAAAACCCTAAAAGTAGCTAAATTACT
35586578 ATAATACCCCTATGTATGGAAAATTACTGTTATACCCCTAGGTGCAAAATTATCGTTATACCCCT
196 ATAATACCCCTATGTATGGAAAATTACTGTTATACCCCTAGGTGCAAAATTATCGTTATACCCCT
35586643 AGGGTTAATTTTGACTAAAAAGCATGACGATCTGATTCTGTATGATGTATGCCATGATTATATAT
261 AGGGTTAATTTTGACTAAAAAGCATGACGATCTGATTCTGTATGATGTATGCCATGATTATATAT
35586708 CTGTTGCATGGGGACATGGGTTATATTATGGAGGAAGCGTCCTGGTGGCTATGCCACAATTACCT
326 CTGTTGCATGGGGACATGGGTTATATTATGGAGGAAGCGTCCTGGTGGCTATGCCACAATTACCT
35586773 GATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTATGCCACGATTATCTGATCTGGTGGC
391 GATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTATGCCACGATTATCTGATCTGGTGGC
35586838 TCTGCCACATATATCTGTTCTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATA
456 TCTGCCACATATATCTGTTCTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATA
35586903 TATCTGTTCTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTG
521 TATCTGTTCTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTG
35586968 GTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTATGCC
586 GTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTATGCC
35587033 ACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTATGCCACGATTATC
651 ACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTATGCCACGATTATC
35587096 TTTGAATATTTGGTAATCTAAAGTAATAAACTGCAGTACACGCGATTTCATACATTTTGATAATT
1 TTTGAATATTTGGTAATCTAAAGTAATAAACTGCAGTACACGCGATTTCATACATTTTGATAATT
* *
35587161 TGGGCTTAATGGGCCAAAGATCGAGTTCATGGGCTAACGGGCCCAATTCAGTAAGTATGCGCGAT
66 TGGGCTTAATGGGCCAAAGATCGAGTTCATGGGCCAACAGGCCCAATTCAGTAAGTATGCGCGAT
35587226 AAGTGTTCTAATAGTATGTAAATAGTTAGGATATGCATGAAAACCCTAAAAGTAGCTAAATTACT
131 AAGTGTTCTAATAGTATGTAAATAGTTAGGATATGCATGAAAACCCTAAAAGTAGCTAAATTACT
35587291 ATAATACCCCTATGTATGGAAAATTACTGTTATACCCCTAGGTGCAAAATTATCGTTATACCCCT
196 ATAATACCCCTATGTATGGAAAATTACTGTTATACCCCTAGGTGCAAAATTATCGTTATACCCCT
35587356 AGGGTTAATTTTGACTAAAAAGCATGACGATCTGATTCTGTATGATGTATGCCATGATTATATAT
261 AGGGTTAATTTTGACTAAAAAGCATGACGATCTGATTCTGTATGATGTATGCCATGATTATATAT
* *
35587421 CTGTTGCATGGGGACATGGGTTATATTATGGAGGAAGCGTCCTGGTGGCTATGCCACGATTATCT
326 CTGTTGCATGGGGACATGGGTTATATTATGGAGGAAGCGTCCTGGTGGCTATGCCACAATTACCT
35587486 GATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTATGCCACGATTATCTGATCTGGTGGC
391 GATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTATGCCACGATTATCTGATCTGGTGGC
35587551 TCTGCCACATATATCTGTTCTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATA
456 TCTGCCACATATATCTGTTCTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATA
35587616 TATCTGTTCTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTG
521 TATCTGTTCTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTG
35587681 GTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTATGCC
586 GTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTATGCC
35587746 ACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTATGCCACGATTATC
651 ACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTATGCCACGATTATC
35587809 T
1 T
35587810 GATCTGGTGG
Statistics
Matches: 705, Mismatches: 9, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
713 705 1.00
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (713 bp):
TTTGAATATTTGGTAATCTAAAGTAATAAACTGCAGTACACGCGATTTCATACATTTTGATAATT
TGGGCTTAATGGGCCAAAGATCGAGTTCATGGGCCAACAGGCCCAATTCAGTAAGTATGCGCGAT
AAGTGTTCTAATAGTATGTAAATAGTTAGGATATGCATGAAAACCCTAAAAGTAGCTAAATTACT
ATAATACCCCTATGTATGGAAAATTACTGTTATACCCCTAGGTGCAAAATTATCGTTATACCCCT
AGGGTTAATTTTGACTAAAAAGCATGACGATCTGATTCTGTATGATGTATGCCATGATTATATAT
CTGTTGCATGGGGACATGGGTTATATTATGGAGGAAGCGTCCTGGTGGCTATGCCACAATTACCT
GATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTATGCCACGATTATCTGATCTGGTGGC
TCTGCCACATATATCTGTTCTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATA
TATCTGTTCTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTG
GTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTATGCC
ACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTATGCCACGATTATC
Found at i:35589904 original size:46 final size:46
Alignment explanation
Indices: 35589854--35589997 Score: 177
Period size: 46 Copynumber: 3.1 Consensus size: 46
35589844 TTGAGTATCC
35589854 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCT
* * * * * *
35589900 GAACTTGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG--TCT
35589947 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCT
35589993 GAACT
1 GAACT
35589998 TACTACTTGT
Statistics
Matches: 79, Mismatches: 12, Indels: 14
0.75 0.11 0.13
Matches are distributed among these distances:
43 6 0.08
45 4 0.05
46 32 0.41
47 27 0.34
48 4 0.05
50 6 0.08
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.31
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCT
Found at i:35595169 original size:24 final size:26
Alignment explanation
Indices: 35595128--35595179 Score: 65
Period size: 24 Copynumber: 2.1 Consensus size: 26
35595118 TCGGGACTAA
*
35595128 TTTAATATCCACATTTAA-TCCTAAAT
1 TTTAATATCCACAATTAACT-CTAAAT
35595154 TTTAATAT-CA-AATTAACTCTAAAT
1 TTTAATATCCACAATTAACTCTAAAT
35595178 TT
1 TT
35595180 CCCTAATTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 13 0.54
25 3 0.12
26 8 0.33
ACGTcount: A:0.40, C:0.15, G:0.00, T:0.44
Consensus pattern (26 bp):
TTTAATATCCACAATTAACTCTAAAT
Found at i:35596888 original size:24 final size:21
Alignment explanation
Indices: 35596840--35596880 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
35596830 GCTATATATT
35596840 ATAAAAATAATATAGTTTTTC
1 ATAAAAATAATATAGTTTTTC
35596861 ATAAAAA-AATTATAGTTTTT
1 ATAAAAATAA-TATAGTTTTT
35596881 TATCATAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (21 bp):
ATAAAAATAATATAGTTTTTC
Found at i:35605257 original size:38 final size:37
Alignment explanation
Indices: 35605190--35605263 Score: 121
Period size: 38 Copynumber: 2.0 Consensus size: 37
35605180 AACACAAATG
*
35605190 CCACCAAAAGTCGTAAGCCAAAAACCTGCAGTCTTTC
1 CCACCAAAAGTCATAAGCCAAAAACCTGCAGTCTTTC
*
35605227 CCACCAAAAGTCATAATCACAAAAACCTGCAGTCTTT
1 CCACCAAAAGTCATAAGC-CAAAAACCTGCAGTCTTT
35605264 TTCTATAAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
37 16 0.47
38 18 0.53
ACGTcount: A:0.38, C:0.31, G:0.11, T:0.20
Consensus pattern (37 bp):
CCACCAAAAGTCATAAGCCAAAAACCTGCAGTCTTTC
Found at i:35613326 original size:45 final size:45
Alignment explanation
Indices: 35613270--35613358 Score: 126
Period size: 45 Copynumber: 2.0 Consensus size: 45
35613260 TTGAGTAATC
*
35613270 ATGGCGAATCTTAT-CTCCTTGAAGTTGCAATGGAGTAGATCGAAA
1 ATGGCGAATCTTATACTCC-TGAAGTTGCAATGGAGCAGATCGAAA
* * *
35613315 ATGGCGAATCTTATATTCCTGAAGTTGTACTGGAGCAGATCGAA
1 ATGGCGAATCTTATACTCCTGAAGTTGCAATGGAGCAGATCGAA
35613359 GCCACCAGTC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
45 36 0.92
46 3 0.08
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (45 bp):
ATGGCGAATCTTATACTCCTGAAGTTGCAATGGAGCAGATCGAAA
Found at i:35613597 original size:143 final size:143
Alignment explanation
Indices: 35613334--35613597 Score: 321
Period size: 143 Copynumber: 1.8 Consensus size: 143
35613324 CTTATATTCC
* * * * * *
35613334 TGAAGTTGTACTGGAGCAGATCGAAGCCACCAGTCTTATCTCCCTAAAGTTGTAGTGGGGCAGAC
1 TGAAGTTGCACTGGAGCAGATCGAAACCACCAGCCTTATCTCCCTAAAGTTGCAGTAGAGCAGAC
* * ** ** * *
35613399 TAAAGACAGCAAATCTTATTTCTCTGAAGTTGCAGTGGAACATATTAAAGTTACAAATTATGGTG
66 TAAAGACAGCAAATCTCATTTCCCTGAAGCCGCAGCAGAACAGATTAAAGCTACAAATTATGGTG
35613464 AACTTTCTCTCCT
131 AACTTTCTCTCCT
* * * *
35613477 TGAAGTTGCAGTGGAGCAGATTGAAACCACCAGCCTTATTTCCCTGAAGTTGCAGTAGAGCAGAC
1 TGAAGTTGCACTGGAGCAGATCGAAACCACCAGCCTTATCTCCCTAAAGTTGCAGTAGAGCAGAC
** * **
35613542 TAAAGTTAGCGAATCTCATTTCCCTGAAGCCGCAGCAGAACAGATTGCAGCTACAA
66 TAAAGACAGCAAATCTCATTTCCCTGAAGCCGCAGCAGAACAGATTAAAGCTACAA
35613598 GTCATAATCC
Statistics
Matches: 98, Mismatches: 23, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
143 98 1.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.27
Consensus pattern (143 bp):
TGAAGTTGCACTGGAGCAGATCGAAACCACCAGCCTTATCTCCCTAAAGTTGCAGTAGAGCAGAC
TAAAGACAGCAAATCTCATTTCCCTGAAGCCGCAGCAGAACAGATTAAAGCTACAAATTATGGTG
AACTTTCTCTCCT
Found at i:35618537 original size:40 final size:40
Alignment explanation
Indices: 35618488--35618628 Score: 178
Period size: 40 Copynumber: 3.5 Consensus size: 40
35618478 CGGATGTAAC
35618488 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
35618528 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* ** * *
35618568 AACTAGCAC-AATTGCCTTC-GGATCTTAGTCCGGATATAGT
1 AACCAGCACGAA-TGCCTTCGGGA-CTTAACCCGGTTATAAT
* *
35618608 AACTAGCACAAATGCCTTCGG
1 AACCAGCACGAATGCCTTCGG
35618629 ATCTTAGTCC
Statistics
Matches: 90, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
39 5 0.06
40 82 0.91
41 3 0.03
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (40 bp):
AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:35620581 original size:15 final size:15
Alignment explanation
Indices: 35620563--35620592 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
35620553 TTTTAATAAC
35620563 AAAGCTTTTATTCAT
1 AAAGCTTTTATTCAT
35620578 AAAGCTTTTATTCAT
1 AAAGCTTTTATTCAT
35620593 TTGAACTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.07, T:0.47
Consensus pattern (15 bp):
AAAGCTTTTATTCAT
Found at i:35622971 original size:31 final size:32
Alignment explanation
Indices: 35622936--35623004 Score: 113
Period size: 31 Copynumber: 2.2 Consensus size: 32
35622926 TACTAATAGA
35622936 AAATAAAATGAAATTCATATATATAAATG-TT
1 AAATAAAATGAAATTCATATATATAAATGATT
*
35622967 AAATAAAATGAAATTCATATTTATAAATGATT
1 AAATAAAATGAAATTCATATATATAAATGATT
*
35622999 TAATAA
1 AAATAA
35623005 TTCTAAATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
31 28 0.80
32 7 0.20
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (32 bp):
AAATAAAATGAAATTCATATATATAAATGATT
Found at i:35625327 original size:93 final size:93
Alignment explanation
Indices: 35625215--35625385 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
35625205 GCCCATAAGT
* *
35625215 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
35625280 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
35625308 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
35625373 CGAGTTCGGATGC
66 CGAGCTCGGATGC
35625386 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:35625382 original size:46 final size:46
Alignment explanation
Indices: 35625207--35625382 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
35625197 TGTAACCCGC
* *
35625207 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
35625253 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
35625299 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
35625346 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
35625383 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:35627817 original size:30 final size:30
Alignment explanation
Indices: 35627773--35627861 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
35627763 CAAAGATAAC
*
35627773 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
*
35627802 GAGAAACCCGGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGGAATAAAGAAATCCAAG-ATA
* * *
35627832 AAGAGATCCAGG-ATAAAGAAACCCAAGATA
1 AAGA-AACCCGGAATAAAGAAATCCAAGATA
35627862 CGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 9 0.18
30 34 0.68
31 7 0.14
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATCCAAGATA
Found at i:35627821 original size:15 final size:14
Alignment explanation
Indices: 35627773--35627855 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
35627763 CAAAGATAAC
*
35627773 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
35627787 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
35627802 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
*
35627817 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
* * *
35627832 AAGAGATCCAGGATA
1 AAGA-AACCCGAATA
35627847 AAGAAACCC
1 AAGAAACCC
35627856 AAGATACGAT
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
14 12 0.22
15 38 0.70
16 4 0.07
ACGTcount: A:0.55, C:0.17, G:0.18, T:0.10
Consensus pattern (14 bp):
AAGAAACCCGAATA
Found at i:35627861 original size:15 final size:15
Alignment explanation
Indices: 35627784--35627861 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
35627774 AGAAAACCGA
35627784 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
35627799 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
35627813 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
35627828 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
35627844 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
35627859 ATA
1 ATA
35627862 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:35630877 original size:46 final size:46
Alignment explanation
Indices: 35630776--35630864 Score: 133
Period size: 46 Copynumber: 1.9 Consensus size: 46
35630766 TGTAACCCGC
** *
35630776 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCCCACAT
* *
35630822 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCCCA
35630865 AACATCCTAG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCCCACAT
Found at i:35645751 original size:127 final size:130
Alignment explanation
Indices: 35645616--35645852 Score: 354
Period size: 134 Copynumber: 1.8 Consensus size: 130
35645606 TAAAAATATA
* *
35645616 TTTTTTTAGTCATTTTAAAGGAAAATTTAAATTTTT-AA-AACA-AATTTTTTTTTCCACTATTT
1 TTTTTTTAGTCATTTTAAAGGAAAATTTAAATTTTTAAATAAAATAATTTTTTTTTCAACTATTT
* *
35645678 CAAAATAAAAGCTTTGATATTTAAGAAAAGTATTTTTTTTTTTGGAAAAAGAGAAAGTTTAGTTG
66 CAAAATAAAAGCTTTGATATTTAAGAAAAATAGTTTTTTTTTTGGAAAAAGAGAAAGTTTAGTTG
* *
35645743 TTTTTTTAGTTATTTTAAAGGAAAATTTAAATTTTTAAAATAAAATTTTAATTTTTTTTTCAATT
1 TTTTTTTAGTCATTTTAAAGGAAAATTTAAATTTTT-AAATAAAA---TAATTTTTTTTTCAACT
*
35645808 ATTTCAAAATAAAAGCTTTGATCTTTAAGAAAAATAGTTTTTTTT
62 ATTTCAAAATAAAAGCTTTGATATTTAAGAAAAATAGTTTTTTTT
35645853 AAAAAAGAGA
Statistics
Matches: 96, Mismatches: 7, Indels: 7
0.87 0.06 0.06
Matches are distributed among these distances:
127 35 0.36
129 2 0.02
130 3 0.03
134 56 0.58
ACGTcount: A:0.38, C:0.05, G:0.09, T:0.49
Consensus pattern (130 bp):
TTTTTTTAGTCATTTTAAAGGAAAATTTAAATTTTTAAATAAAATAATTTTTTTTTCAACTATTT
CAAAATAAAAGCTTTGATATTTAAGAAAAATAGTTTTTTTTTTGGAAAAAGAGAAAGTTTAGTTG
Found at i:35645780 original size:20 final size:20
Alignment explanation
Indices: 35645755--35645798 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
35645745 TTTTTAGTTA
*
35645755 TTTTAAAGGAAAATTTAAAT
1 TTTTAAAAGAAAATTTAAAT
* *
35645775 TTTTAAAATAAAATTTTAAT
1 TTTTAAAAGAAAATTTAAAT
35645795 TTTT
1 TTTT
35645799 TTTTCAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (20 bp):
TTTTAAAAGAAAATTTAAAT
Found at i:35645798 original size:21 final size:21
Alignment explanation
Indices: 35645746--35645799 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
35645736 TTAGTTGTTT
* *
35645746 TTTTAGTTATTTTAAAGGAAAA
1 TTTTAATT-TTTTAAAAGAAAA
* *
35645768 -TTTAAATTTTTAAAATAAAA
1 TTTTAATTTTTTAAAAGAAAA
35645788 TTTTAATTTTTT
1 TTTTAATTTTTT
35645800 TTTCAATTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.54
Consensus pattern (21 bp):
TTTTAATTTTTTAAAAGAAAA
Found at i:35646030 original size:146 final size:145
Alignment explanation
Indices: 35645744--35646033 Score: 340
Period size: 145 Copynumber: 2.0 Consensus size: 145
35645734 GTTTAGTTGT
* * * *
35645744 TTTTTTAGTTATTTTAAAGGAAAATTTAAATTTTTAAAATAAAATTTTAATTTTTTTTTCAATTA
1 TTTTTTAGTAATTTTAAAGGAAAATTTAAATTTTTAAAACAAAATTTTAA-TTCTTTTTCAACTA
*
35645809 TTTCAAAATAAAAGCTTTGATCTTTAAGAAAAATAGTTTTTTTTAAAAAAGAGAGTTTAGATTTT
65 TTTCAAAATAAAAGCTTTGATCTTTAAGAAAAATAGTTTTTTTTAAAAAAGAGACTTTAGATTTT
*
35645874 TAAAATAAAAAAAATG
130 TAAAAAAAAAAAAATG
* * *
35645890 TTTTTTAGTAATTTTAAAGGAAAAATTTAGATTTTTTAAAACAAAGTTTTGA-TCTTTTTCAACT
1 TTTTTTAGTAATTTTAAAGG-AAAATTTA-AATTTTTAAAACAAAATTTTAATTCTTTTTCAACT
** * * *
35645954 ATTTTGAAAT-AAAGTTTTGAT-TTGTAAGAAAAGTAGTGATTTTTTTAAAGAA-A-ACTTT-GA
64 ATTTCAAAATAAAAGCTTTGATCTT-TAAGAAAAATAGT--TTTTTTTAAAAAAGAGACTTTAGA
*
35646014 TTTTGTAAAGAAAAAAAAAT
126 TTTT-TAAAAAAAAAAAAAT
35646034 CCAGCCACCG
Statistics
Matches: 123, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
144 8 0.07
145 39 0.32
146 38 0.31
147 20 0.16
148 18 0.15
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.44
Consensus pattern (145 bp):
TTTTTTAGTAATTTTAAAGGAAAATTTAAATTTTTAAAACAAAATTTTAATTCTTTTTCAACTAT
TTCAAAATAAAAGCTTTGATCTTTAAGAAAAATAGTTTTTTTTAAAAAAGAGACTTTAGATTTTT
AAAAAAAAAAAAATG
Found at i:35646960 original size:27 final size:27
Alignment explanation
Indices: 35646929--35646987 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
35646919 GTAGGTGTTG
* *
35646929 CATTTTAATGAAACCATAAGTTTTTTA
1 CATTTTAATAAAACCATAAGATTTTTA
35646956 CATTTTAATAAAACCATAAGATTTTTA
1 CATTTTAATAAAACCATAAGATTTTTA
35646983 CATTT
1 CATTT
35646988 GGATTTATGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.44
Consensus pattern (27 bp):
CATTTTAATAAAACCATAAGATTTTTA
Found at i:35647098 original size:52 final size:52
Alignment explanation
Indices: 35647036--35647142 Score: 196
Period size: 52 Copynumber: 2.1 Consensus size: 52
35647026 CCCTAGAAAA
35647036 ATTATAAATAATATGTAAGATATTTTTTTAGGGTTTTAAACTAATTCTAAAT
1 ATTATAAATAATATGTAAGATATTTTTTTAGGGTTTTAAACTAATTCTAAAT
* *
35647088 ATTATAAATAATATGTAATATATTTTTTTGGGGTTTTAAACTAATTCTAAAT
1 ATTATAAATAATATGTAAGATATTTTTTTAGGGTTTTAAACTAATTCTAAAT
35647140 ATT
1 ATT
35647143 GTATATTATT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.48
Consensus pattern (52 bp):
ATTATAAATAATATGTAAGATATTTTTTTAGGGTTTTAAACTAATTCTAAAT
Found at i:35649115 original size:27 final size:27
Alignment explanation
Indices: 35649085--35649262 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
35649075 ATATTGAGTC
* * * *
35649085 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
35649112 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
35649139 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
35649167 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
35649194 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
35649221 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
35649248 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
35649263 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:35649224 original size:82 final size:81
Alignment explanation
Indices: 35649106--35649261 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
35649096 TGCTATATAA
* *
35649106 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
35649171 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
35649188 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
35649252 CACTTAGTGC
65 CACTTAGTGC
35649262 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:35660772 original size:21 final size:21
Alignment explanation
Indices: 35660746--35660788 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
35660736 GTTACATGAT
35660746 AACTATGGGGTATGGTTCCTA
1 AACTATGGGGTATGGTTCCTA
35660767 AACTATGGGGTATGGTTCCTA
1 AACTATGGGGTATGGTTCCTA
35660788 A
1 A
35660789 CTTGATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.33
Consensus pattern (21 bp):
AACTATGGGGTATGGTTCCTA
Found at i:35663693 original size:43 final size:43
Alignment explanation
Indices: 35663558--35663707 Score: 139
Period size: 43 Copynumber: 3.5 Consensus size: 43
35663548 TCTGAAACAT
* * * *
35663558 CGTGTAAGACCGTGTCTGGGACATAGGCCTCGAT-TAAGAATTA
1 CGTGTAAGACCATGTCTGGGACACAGGCATCGATAT-TGAATTA
* *
35663601 CGTATAAGACCATGTCTGGGACATCA-GCATC-ATATTTG-ATTT
1 CGTGTAAGACCATGTCTGGGACA-CAGGCATCGATA-TTGAATTA
*
35663643 CGTGTAAGACGC-TGTCTGGGACAGAGGCATCGATATTGAATTA
1 CGTGTAAGAC-CATGTCTGGGACACAGGCATCGATATTGAATTA
* * *
35663686 CATGTAAGACCACGTCCGGGAC
1 CGTGTAAGACCATGTCTGGGAC
35663708 GTCGGCATTG
Statistics
Matches: 87, Mismatches: 12, Indels: 16
0.76 0.10 0.14
Matches are distributed among these distances:
41 1 0.01
42 34 0.39
43 50 0.57
44 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACACAGGCATCGATATTGAATTA
Found at i:35687307 original size:45 final size:46
Alignment explanation
Indices: 35687211--35687383 Score: 216
Period size: 45 Copynumber: 3.9 Consensus size: 46
35687201 TTTTCTCAAA
* * * *
35687211 TCACCGGCATT-TCGCCTGCTAGGATCG--AGGCCCGATTA-TCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAAGGCCCGAATAGT-ATC
*
35687254 TCATCGGCATTATAGCCTGCTAGGCTCGAAA-GCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAAGGCCCGAATAGTATC
* *
35687299 TCACCGGCATTATAGCCTGCTAGGC-CCAAAGGCCCGAATAGTGTC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAAGGCCCGAATAGTATC
*
35687344 TCACCGGCATAATAGCCTGCTAGGCTC-AAAGGCCCGAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAAGGCCCGAATA
35687384 TAATACCAGC
Statistics
Matches: 115, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
43 10 0.09
44 18 0.16
45 84 0.73
46 3 0.03
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (46 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAAGGCCCGAATAGTATC
Found at i:35687424 original size:38 final size:38
Alignment explanation
Indices: 35687376--35687611 Score: 348
Period size: 38 Copynumber: 6.2 Consensus size: 38
35687366 GGCTCAAAGG
* * *
35687376 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
35687414 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
35687452 CCCGGATATATTACCAGCACGAAGCCTGCGGGAATTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
35687490 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
35687528 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* * **
35687566 CCCGGATATAATTCCAGCA-TATAGCCTGCGGTCTTTAA
1 CCCGGATATAATACCAGCACGA-AGCCTGCGGGATTTAA
*
35687604 GCCGGATA
1 CCCGGATA
35687612 CAAATATCAT
Statistics
Matches: 185, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
37 1 0.01
38 184 0.99
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.21
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:35691993 original size:23 final size:22
Alignment explanation
Indices: 35691967--35692011 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
35691957 TTTAATTCAT
35691967 GACCAAATGCTCACAACACAAC
1 GACCAAATGCTCACAACACAAC
*
35691989 NGACCGAATGCTCACAACACAAC
1 -GACCAAATGCTCACAACACAAC
35692012 CAAAAATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.42, C:0.36, G:0.11, T:0.09
Consensus pattern (22 bp):
GACCAAATGCTCACAACACAAC
Found at i:35694529 original size:33 final size:32
Alignment explanation
Indices: 35694492--35694569 Score: 84
Period size: 33 Copynumber: 2.4 Consensus size: 32
35694482 TGGCCCTGCC
* * * *
35694492 ATGGTCTTACATCCGTAGTGCCATAACCCAGTT
1 ATGGTCTTACATCAG-AATACCATAACCCAGCT
* *
35694525 ATGGTCTTATCATTAGAATACCATAGCCCAGCT
1 ATGGTCTTA-CATCAGAATACCATAACCCAGCT
35694558 ATGGTCTTACAT
1 ATGGTCTTACAT
35694570 ATAAACACTG
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
32 3 0.08
33 31 0.82
34 4 0.11
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (32 bp):
ATGGTCTTACATCAGAATACCATAACCCAGCT
Found at i:35718153 original size:3 final size:3
Alignment explanation
Indices: 35718129--35718168 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
35718119 AATATTTAAG
* *
35718129 TAT TAA TAT TAT AAT ATAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
35718169 ATAAAACATA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 30 0.94
4 2 0.06
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:35719748 original size:29 final size:30
Alignment explanation
Indices: 35719695--35719752 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
35719685 TGGAAGTTTT
35719695 GGCACTAAGTGTGCGATTTAAACTAGCTTG
1 GGCACTAAGTGTGCGATTTAAACTAGCTTG
35719725 GGCACTAAGTGTGCGATTT-AACTAGCTT
1 GGCACTAAGTGTGCGATTTAAACTAGCTT
35719753 CGGCTATTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 9 0.32
30 19 0.68
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (30 bp):
GGCACTAAGTGTGCGATTTAAACTAGCTTG
Found at i:35743582 original size:40 final size:40
Alignment explanation
Indices: 35743499--35743706 Score: 235
Period size: 40 Copynumber: 5.2 Consensus size: 40
35743489 CGGATGATAA
* * *
35743499 CCGGGCTAAGTCCCG-AGAGCATTTGAGCTAG-TGGCTA-ATT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGCT-ACTATA-T
*
35743539 CCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
* *
35743579 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGCTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
* * * *
35743619 CTGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
* * * *
35743659 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTTGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
35743699 CC-GGCTAA
1 CCGGGCTAA
35743707 ACTCCGAAGG
Statistics
Matches: 147, Mismatches: 18, Indels: 7
0.85 0.10 0.04
Matches are distributed among these distances:
39 6 0.04
40 137 0.93
41 4 0.03
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
Found at i:35743698 original size:80 final size:80
Alignment explanation
Indices: 35743495--35743706 Score: 277
Period size: 80 Copynumber: 2.7 Consensus size: 80
35743485 TGTTCGGATG
*
35743495 ATAACCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTA-ATTCCGGGCTAAGTCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAG-GCATTTGAGCTAGTTGCTATA-TCCGGGCTAAGTCCCGAAGG
* *
35743558 CGTTTGTGCGAGCTACT
64 CATTTGTGCAAGCTACT
* * * * * ** *
35743575 ATATCCGGGCTAAGTCCCAAAGGCATTTGTGCGAGCTATTATATCTGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTTGCTATATCCGGGCTAAGTCCCGAAGGCA
*
35743640 TTTGTGCAAGTTACT
66 TTTGTGCAAGCTACT
35743655 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTTGCTATATCC-GGCTAA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTTGCTATATCCGGGCTAA
35743707 ACTCCGAAGG
Statistics
Matches: 110, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
79 6 0.05
80 101 0.92
81 3 0.03
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTTGCTATATCCGGGCTAAGTCCCGAAGGCA
TTTGTGCAAGCTACT
Found at i:35760163 original size:41 final size:41
Alignment explanation
Indices: 35760110--35760259 Score: 167
Period size: 41 Copynumber: 3.7 Consensus size: 41
35760100 CGCTGACTCA
* * *
35760110 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTGGCCC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATAACACTGGCTC
* * * * * * *
35760151 GAAGGCCCTTCGAAACTAGGTTCGG-TTATAACACTGACTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATAACACTGGCTC
* * *
35760191 AAAAGCCCTTCAAGACCAAGCTTGGATTATTACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATAACACTGGCTC
*
35760232 AAAATCCCTTCGAGACCAAGCTCGGATT
1 AAAAGCCCTTCGAGACCAAGCTCGGATT
35760260 TAAACCCCAA
Statistics
Matches: 85, Mismatches: 23, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
40 28 0.33
41 57 0.67
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (41 bp):
AAAAGCCCTTCGAGACCAAGCTCGGATTATAACACTGGCTC
Found at i:35765179 original size:33 final size:33
Alignment explanation
Indices: 35765137--35765202 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
35765127 GGGAACCTGA
35765137 ATATCTCTTAACATACTGTCCATATGATCGTTT
1 ATATCTCTTAACATACTGTCCATATGATCGTTT
35765170 ATATCTCTTAACATACTGTCCATATGATCGTTT
1 ATATCTCTTAACATACTGTCCATATGATCGTTT
35765203 CGTTACTTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.21, G:0.09, T:0.42
Consensus pattern (33 bp):
ATATCTCTTAACATACTGTCCATATGATCGTTT
Found at i:35776965 original size:29 final size:29
Alignment explanation
Indices: 35776926--35777004 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
35776916 CTTAATAATC
*
35776926 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
35776956 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
35776985 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
35777005 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:35778139 original size:41 final size:41
Alignment explanation
Indices: 35778090--35778172 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
35778080 TTCACATAAA
35778090 AGTGAGCTCATGTGACATAGATATATCGTATGATTTCACAT
1 AGTGAGCTCATGTGACATAGATATATCGTATGATTTCACAT
35778131 AGTGAGCTCATGTGACATAGATATATCGTATGATTTCACAT
1 AGTGAGCTCATGTGACATAGATATATCGTATGATTTCACAT
35778172 A
1 A
35778173 ACCTCTCACA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.34
Consensus pattern (41 bp):
AGTGAGCTCATGTGACATAGATATATCGTATGATTTCACAT
Found at i:35778397 original size:37 final size:37
Alignment explanation
Indices: 35778347--35778425 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
35778337 TTATTACGAA
* * *
35778347 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
35778384 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
35778421 GTCTT
1 GTCTT
35778426 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:35778622 original size:47 final size:47
Alignment explanation
Indices: 35778544--35779240 Score: 1133
Period size: 47 Copynumber: 14.7 Consensus size: 47
35778534 CCCTTCGAGA
* * * * * *
35778544 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
35778591 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35778638 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35778685 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35778732 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35778779 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
35778826 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
35778873 CTTATCACATATATATACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
35778920 CTTATCACATATATATACTTTCACATTGATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
35778967 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
35779014 CTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
35779061 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
35779108 CTTATCACACATATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTAT--CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
35779157 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
35779204 CTTATCACATATATATACATGTTCACATCCATCACAT
1 CTTATCACATATATACAC-T-TTCACATTCATCACAT
35779241 AGAATCCTAA
Statistics
Matches: 609, Mismatches: 37, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
47 550 0.90
48 1 0.00
49 58 0.10
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:35779023 original size:22 final size:22
Alignment explanation
Indices: 35778995--35779116 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
35778985 TTTCACATTC
35778995 ATCACATTGGCCATTCGACCTT
1 ATCACATTGGCCATTCGACCTT
* * *
35779017 ATCACATATATGCACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGACCTT
* * *
35779041 CATCACATCGGCCATTAGGCCTT
1 -ATCACATTGGCCATTCGACCTT
* *
35779064 ATCACATAT-ACACACTTTC-ACATT
1 ATCACAT-TGGC-CA--TTCGACCTT
*
35779088 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGACCTT
35779111 ATCACA
1 ATCACA
35779117 CATATATGCA
Statistics
Matches: 71, Mismatches: 17, Indels: 24
0.63 0.15 0.21
Matches are distributed among these distances:
22 27 0.38
23 11 0.15
24 12 0.17
25 21 0.30
ACGTcount: A:0.28, C:0.31, G:0.10, T:0.31
Consensus pattern (22 bp):
ATCACATTGGCCATTCGACCTT
Found at i:35779995 original size:54 final size:54
Alignment explanation
Indices: 35779913--35780020 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 54
35779903 TATAAGAAAC
35779913 TAGACTCATTAAGCTTTAATTTCATGTCTCATTAAGCCTCTAATTCAAATCCAT
1 TAGACTCATTAAGCTTTAATTTCATGTCTCATTAAGCCTCTAATTCAAATCCAT
*
35779967 TAGACTCATTAAGCTTTAATTTCATGTCTCATTCAGCCTCTAATTCAAATCCAT
1 TAGACTCATTAAGCTTTAATTTCATGTCTCATTAAGCCTCTAATTCAAATCCAT
35780021 AATTTTATGG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (54 bp):
TAGACTCATTAAGCTTTAATTTCATGTCTCATTAAGCCTCTAATTCAAATCCAT
Found at i:35786729 original size:47 final size:47
Alignment explanation
Indices: 35786660--35786751 Score: 175
Period size: 47 Copynumber: 2.0 Consensus size: 47
35786650 AAATTATTGT
35786660 ACTAACTTGAATGTTGAGTTTGTGCATGTTAAGGTAATAATGCATAA
1 ACTAACTTGAATGTTGAGTTTGTGCATGTTAAGGTAATAATGCATAA
*
35786707 ACTAACTTGAATGTTGAGTTTGTGCATGTTAGGGTAATAATGCAT
1 ACTAACTTGAATGTTGAGTTTGTGCATGTTAAGGTAATAATGCAT
35786752 TAAATGGATA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.32, C:0.09, G:0.23, T:0.37
Consensus pattern (47 bp):
ACTAACTTGAATGTTGAGTTTGTGCATGTTAAGGTAATAATGCATAA
Found at i:35791316 original size:18 final size:18
Alignment explanation
Indices: 35791293--35791328 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
35791283 TGATTAAGAA
35791293 AGTAAAAATATCATTTGT
1 AGTAAAAATATCATTTGT
35791311 AGTAAAAATATCATTTGT
1 AGTAAAAATATCATTTGT
35791329 TCAGATTTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.39
Consensus pattern (18 bp):
AGTAAAAATATCATTTGT
Found at i:35794696 original size:23 final size:23
Alignment explanation
Indices: 35794669--35794715 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
35794659 TTATTTAATT
35794669 GATTTAGGGTTAGGATTCTTTAA
1 GATTTAGGGTTAGGATTCTTTAA
*
35794692 GATTTAGGGTTAGGATTTTTTAA
1 GATTTAGGGTTAGGATTCTTTAA
35794715 G
1 G
35794716 TTAAGGTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.02, G:0.28, T:0.45
Consensus pattern (23 bp):
GATTTAGGGTTAGGATTCTTTAA
Found at i:35794891 original size:20 final size:20
Alignment explanation
Indices: 35794830--35794903 Score: 75
Period size: 20 Copynumber: 3.8 Consensus size: 20
35794820 GTTTAGGGTA
35794830 TTAGGGTTAATTGATTAAA-
1 TTAGGGTTAATTGATTAAAT
* *
35794849 TTA-GG--AATTGATTTTGGAGT
1 TTAGGGTTAATTGA--TT-AAAT
35794869 TTAGGGTTAATTGATTAAAT
1 TTAGGGTTAATTGATTAAAT
35794889 TTAGGGTTAATTGAT
1 TTAGGGTTAATTGAT
35794904 ACATAATGGT
Statistics
Matches: 44, Mismatches: 4, Indels: 13
0.72 0.07 0.21
Matches are distributed among these distances:
16 6 0.14
18 4 0.09
19 4 0.09
20 20 0.45
21 4 0.09
23 6 0.14
ACGTcount: A:0.31, C:0.00, G:0.24, T:0.45
Consensus pattern (20 bp):
TTAGGGTTAATTGATTAAAT
Found at i:35797448 original size:16 final size:16
Alignment explanation
Indices: 35797427--35797460 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
35797417 AAATAAATAT
35797427 ACTTTAACACGTTCGA
1 ACTTTAACACGTTCGA
35797443 ACTTTAACACGTTCGA
1 ACTTTAACACGTTCGA
35797459 AC
1 AC
35797461 CTGCATTCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.29
Consensus pattern (16 bp):
ACTTTAACACGTTCGA
Found at i:35797484 original size:14 final size:14
Alignment explanation
Indices: 35797465--35797494 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
35797455 TCGAACCTGC
35797465 ATTCCCTATAACTA
1 ATTCCCTATAACTA
35797479 ATTCCCTATAACTA
1 ATTCCCTATAACTA
35797493 AT
1 AT
35797495 GACAGGATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.27, G:0.00, T:0.37
Consensus pattern (14 bp):
ATTCCCTATAACTA
Found at i:35799748 original size:15 final size:15
Alignment explanation
Indices: 35799730--35799759 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
35799720 AAATTTTAAT
*
35799730 TTTTTATAGTTTATA
1 TTTTTATAATTTATA
35799745 TTTTTATAATTTATA
1 TTTTTATAATTTATA
35799760 AAGGATTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (15 bp):
TTTTTATAATTTATA
Found at i:35801113 original size:42 final size:42
Alignment explanation
Indices: 35801049--35801137 Score: 124
Period size: 42 Copynumber: 2.1 Consensus size: 42
35801039 TCCTAATTGG
** * *
35801049 GAAAATAGTTCTTTTATTCTAATAAACTACTAAAATATAAAA
1 GAAAATAGTTCCCTTATCCTAATAAACTACTAAAAGATAAAA
*
35801091 GAAAATAGTTCCCTTGTCCTAATAAACTACTAAAAGATAAAA
1 GAAAATAGTTCCCTTATCCTAATAAACTACTAAAAGATAAAA
*
35801133 TAAAA
1 GAAAA
35801138 ATATTCTTAG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.51, C:0.12, G:0.07, T:0.30
Consensus pattern (42 bp):
GAAAATAGTTCCCTTATCCTAATAAACTACTAAAAGATAAAA
Found at i:35801184 original size:19 final size:18
Alignment explanation
Indices: 35801162--35801201 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
35801152 TGAATAAAAC
35801162 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
35801181 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
35801199 TTA
1 TTA
35801202 AAATATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:35805067 original size:42 final size:42
Alignment explanation
Indices: 35805003--35805091 Score: 124
Period size: 42 Copynumber: 2.1 Consensus size: 42
35804993 TCCTAATTGG
* *
35805003 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAATATAAAA
1 GAAAATAGTTCCCTTATCCTAATAAACTACTAAAAGATAAAA
* * *
35805045 GAAAATAGTTGCTTTGTCCTAATAAACTACTAAAAGATAAAA
1 GAAAATAGTTCCCTTATCCTAATAAACTACTAAAAGATAAAA
*
35805087 CAAAA
1 GAAAA
35805092 ATATTCCTAG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.51, C:0.13, G:0.08, T:0.28
Consensus pattern (42 bp):
GAAAATAGTTCCCTTATCCTAATAAACTACTAAAAGATAAAA
Found at i:35805138 original size:19 final size:18
Alignment explanation
Indices: 35805108--35805155 Score: 78
Period size: 19 Copynumber: 2.6 Consensus size: 18
35805098 CTAGAATATG
35805108 AATAAATCTTATCTACCTA
1 AATAAAT-TTATCTACCTA
35805127 AATAAGATTTATCTACCTA
1 AATAA-ATTTATCTACCTA
35805146 AATAAATTTA
1 AATAAATTTA
35805156 AAATATATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.18
19 21 0.75
20 2 0.07
ACGTcount: A:0.46, C:0.15, G:0.02, T:0.38
Consensus pattern (18 bp):
AATAAATTTATCTACCTA
Found at i:35810598 original size:46 final size:46
Alignment explanation
Indices: 35810545--35810849 Score: 378
Period size: 46 Copynumber: 6.6 Consensus size: 46
35810535 TGTCATAGTG
* * * *
35810545 TCTTTCAACTACGGTCTTACTCATTTCCTGTCATC-TTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATGTCA-CGTTGCCATGGTA
* * *
35810591 TCTTTCAACCATGGTCTTGTTCATTTAATGTCACATTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTA
* *** *
35810637 TCTTTCAACCGTGGTCTTATTCATTTCCCATCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTA
* * *
35810683 TCTTTCAACCATGGTCTTGTTCATTTCATGTCACGTTTCCATGATA
1 TCTTTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTA
*
35810729 TCTTTCAACCATGGTCTTGTTCATTTCATGTCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTA
* * * * *
35810775 TCTTTCAACCATGGTCTTATACATTTCATATCATGTTTCCATGATA
1 TCTTTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTA
* **
35810821 TCTTTCAAACATGGTCTTACACATTTCAT
1 TCTTTCAACCATGGTCTTATTCATTTCAT
35810850 TTCAGAAAGC
Statistics
Matches: 226, Mismatches: 32, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
45 1 0.00
46 225 1.00
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.42
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTA
Found at i:35810702 original size:92 final size:92
Alignment explanation
Indices: 35810545--35810839 Score: 419
Period size: 92 Copynumber: 3.2 Consensus size: 92
35810535 TGTCATAGTG
* * * *
35810545 TCTTTCAACTACGGTCTTACTCATTTCCTGTCATCTTGCCATGGTATCTTTCAACCATGGTCTTG
1 TCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTG
* * * *
35810610 TTCATTTAATGTCACATTGCCATGGTA
66 TTCATTTCATGTCACGTTTCCATGATA
* **
35810637 TCTTTCAACCGTGGTCTTATTCATTTCCCATCATGTTGCCATGGTATCTTTCAACCATGGTCTTG
1 TCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTG
35810702 TTCATTTCATGTCACGTTTCCATGATA
66 TTCATTTCATGTCACGTTTCCATGATA
* * * *
35810729 TCTTTCAACCATGGTCTTGTTCATTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTG
* * *
35810794 TACATTTCATATCATGTTTCCATGATA
66 TTCATTTCATGTCACGTTTCCATGATA
*
35810821 TCTTTCAAACATGGTCTTA
1 TCTTTCAACCATGGTCTTA
35810840 CACATTTCAT
Statistics
Matches: 180, Mismatches: 23, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
92 180 1.00
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.42
Consensus pattern (92 bp):
TCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTG
TTCATTTCATGTCACGTTTCCATGATA
Found at i:35810793 original size:138 final size:138
Alignment explanation
Indices: 35810545--35810849 Score: 441
Period size: 138 Copynumber: 2.2 Consensus size: 138
35810535 TGTCATAGTG
* * * *
35810545 TCTTTCAACTACGGTCTTACTCATTTCCTGTCATCTTGCCATGGTATCTTTCAACCATGGTCTTG
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCATCTTGCCATGATATCTTTCAACCATGGTCTTG
* * *
35810610 TTCATTTAATGTCACATTGCCATGGTATCTTTCAACCGTGGTCTTATTCATTTCCCATCATGTTG
66 TTCATTTAATGTCACATTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCACATCATGTTG
*
35810675 CCATGGTA
131 CCATGATA
** *
35810683 TCTTTCAACCATGGTCTTGTTCATTTCATGTCA-CGTTTCCATGATATCTTTCAACCATGGTCTT
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCATC-TTGCCATGATATCTTTCAACCATGGTCTT
* * *
35810747 GTTCATTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCATGTT
65 GTTCATTTAATGTCACATTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCACATCATGTT
*
35810812 TCCATGATA
130 GCCATGATA
* *
35810821 TCTTTCAAACATGGTCTTACACATTTCAT
1 TCTTTCAACCATGGTCTTACTCATTTCAT
35810850 TTCAGAAAGC
Statistics
Matches: 147, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
137 1 0.01
138 146 0.99
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.42
Consensus pattern (138 bp):
TCTTTCAACCATGGTCTTACTCATTTCATGTCATCTTGCCATGATATCTTTCAACCATGGTCTTG
TTCATTTAATGTCACATTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCACATCATGTTG
CCATGATA
Found at i:35818744 original size:20 final size:20
Alignment explanation
Indices: 35818719--35818770 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
35818709 TAGAAATTCA
35818719 ACACGGGCGTGTCCCAAAAC
1 ACACGGGCGTGTCCCAAAAC
35818739 ACACGGGCGTGTCCCAAAAC
1 ACACGGGCGTGTCCCAAAAC
*
35818759 ACATGGGCGTGT
1 ACACGGGCGTGT
35818771 GAGGCTTAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.27, C:0.31, G:0.29, T:0.13
Consensus pattern (20 bp):
ACACGGGCGTGTCCCAAAAC
Found at i:35820717 original size:6 final size:6
Alignment explanation
Indices: 35820690--35820758 Score: 59
Period size: 6 Copynumber: 11.5 Consensus size: 6
35820680 AATTAGGGAT
* * * * *
35820690 ATTTCG ATTTCAA ATTT-A ATTTCG ATTTTG ATTTTG ATTTTG ATTTCG
1 ATTTCG ATTTC-G ATTTCG ATTTCG ATTTCG ATTTCG ATTTCG ATTTCG
* *
35820738 ATTTCT ATTTCG ATTTTG ATT
1 ATTTCG ATTTCG ATTTCG ATT
35820759 ACAATTTTGA
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
5 5 0.09
6 45 0.83
7 4 0.07
ACGTcount: A:0.22, C:0.09, G:0.12, T:0.58
Consensus pattern (6 bp):
ATTTCG
Done.