Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1685
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: 116540
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Found at i:21362 original size:18 final size:16
Alignment explanation
Indices: 21336--21385 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 16
21326 CCTTCGTATA
21336 AAAAAACAAAAACAAAC
1 AAAAAACAAAAA-AAAC
21353 AAACAAACAAAAAAAAC
1 AAA-AAACAAAAAAAAC
*
21370 TAAAAACTAAAAAAAA
1 AAAAAAC-AAAAAAAA
21386 AGGGGGGGTC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 4 0.13
17 17 0.57
18 9 0.30
ACGTcount: A:0.82, C:0.14, G:0.00, T:0.04
Consensus pattern (16 bp):
AAAAAACAAAAAAAAC
Found at i:23473 original size:52 final size:52
Alignment explanation
Indices: 23328--23473 Score: 123
Period size: 52 Copynumber: 2.8 Consensus size: 52
23318 CTAATGTCGC
* * * * * * ** *
23328 TGGCCCTAAATCAGTATATTAGCACTTTTTTCATCTTTAAGTCCGATGTTGT
1 TGGCCTTAAATCAGCATATTGGCACTTCTATCATCTTTAAGTCCAACATCGT
* * ** * *
23380 TGGCCTTGAATCAGCACATTGTTACCTTC-ACCATCTCTAAGTCCAACATCGT
1 TGGCCTTAAATCAGCATATTGGCA-CTTCTATCATCTTTAAGTCCAACATCGT
* *
23432 TGGCCTTAAATCAGCATATTGGCACTTCTGTCATTTTTAAGT
1 TGGCCTTAAATCAGCATATTGGCACTTCTATCATCTTTAAGT
23474 TTGATATCGC
Statistics
Matches: 69, Mismatches: 23, Indels: 4
0.72 0.24 0.04
Matches are distributed among these distances:
51 4 0.06
52 62 0.90
53 3 0.04
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.38
Consensus pattern (52 bp):
TGGCCTTAAATCAGCATATTGGCACTTCTATCATCTTTAAGTCCAACATCGT
Found at i:23690 original size:60 final size:60
Alignment explanation
Indices: 23529--23690 Score: 155
Period size: 60 Copynumber: 2.7 Consensus size: 60
23519 TCTAAGCCCG
* * * * *
23529 ATATCGCTGGCCATGAATTAGCATATTGGCA-TATTTATCATTCTTTGCATCTTTAAGTCCA
1 ATATCACTGGCCTTGAATCAG-ATATTGGCACT-TTTATCATCCTTAGCATCTTTAAGTCCA
** * * ** ** *
23590 ATATCACTAACTTTCAATCAGCCATTGGCACCCTTCTCATCCTTAGCATCTTTAAGTCCA
1 ATATCACTGGCCTTGAATCAGATATTGGCACTTTTATCATCCTTAGCATCTTTAAGTCCA
* *
23650 ATGTCACTGGCCTTGAATCAGATATTGGCACTTTTGTCATC
1 ATATCACTGGCCTTGAATCAGATATTGGCACTTTTATCATC
23691 TTTAAGTCCA
Statistics
Matches: 76, Mismatches: 24, Indels: 3
0.74 0.23 0.03
Matches are distributed among these distances:
60 62 0.82
61 14 0.18
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (60 bp):
ATATCACTGGCCTTGAATCAGATATTGGCACTTTTATCATCCTTAGCATCTTTAAGTCCA
Found at i:23714 original size:51 final size:50
Alignment explanation
Indices: 23636--24333 Score: 230
Period size: 52 Copynumber: 13.1 Consensus size: 50
23626 TCATCCTTAG
**
23636 CATCTTTAAGTCCAATGTCACTGGCCTTGAATCAGATATTGGCACTTTTGT
1 CATCTTTAAGTCCAATGTCGTTGGCCTTGAATCAGATATTGGCACTTTT-T
* * * *
23687 CATCTTTAAGTCCATTGTCGTTAGCCTTGAATCAGTACATTGACACCTTTTT
1 CATCTTTAAGTCCAATGTCGTTGGCCTTGAATCAG-ATATTGGCA-CTTTTT
* * * * *
23739 C-TTTCTTAAGTCCAATATCGTCGGCCTTTAATCAGGATATTGGCATTTTTAT
1 CATCT-TTAAGTCCAATGTCGTTGGCCTTGAATCA-GATATTGGCACTTTT-T
** ** * * * **
23791 CATCTTTAAGTCCAACATCACTAGACTTGAATCAGCATATTAGCATCTTTAA
1 CATCTTTAAGTCCAATGTCGTTGGCCTTGAATCAG-ATATTGGCA-CTTTTT
* *** * *
23843 CAT-TCTTAA-ACCTAATGTTACTAGCCTTGAATCAGCACATTGGCA-TTCTTCT
1 CATCT-TTAAGTCC-AATGTCGTTGGCCTTGAATCAG-ATATTGGCACTT-TT-T
* * * * * * * *
23895 CATCTTCAAGTCTAATGTTGCTGGTCGTGAATCAGCACATTGGCA-TTCTT
1 CATCTTTAAGTCCAATGTCGTTGGCCTTGAATCAG-ATATTGGCACTTTTT
* * * * *
23945 CATAGTTTTAAG-CCTAATATCACTT-GCCTTAAATCATCATATTGGCACCTTTAGCATTCCTCT
1 CAT--CTTTAAGTCC-AATGTC-GTTGGCCTTGAATCA-GATATTGGCA-C--T----TT--T-T
* * * *
24008 CATCTTTAA-ACCTAATGTCGTTGGCCTTGAATCAACACATTAGCACATTTTT
1 CATCTTTAAGTCC-AATGTCGTTGGCCTTGAATC-AGATATTGGCAC-TTTTT
* * * * * *
24060 CTTTCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCACATTAGCACCTTTTT
1 C-ATCTTTAAGTCCAATGTCGTTGGCCTTGAATCAG-ATATTGGCA-CTTTTT
* * * * * *
24113 CTTTTTTGAGTCCAGCATCTC--TGGCCTTGAATCAGCATATTGGCGCCTTTGT
1 CATCTTTAAGTCCA--ATGTCGTTGGCCTTGAATCAG-ATATTGGC-ACTTTTT
* * * * * *
24165 GATCTTTAAGTCCAATGTTGCTGGCCTTGAATCAACACATTGGCAACTTTGT
1 CATCTTTAAGTCCAATGTCGTTGGCCTTGAATC-AGATATTGGC-ACTTTTT
* *
24217 CATCTTTAAG-CACAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCATTCTTT
1 CATCTTTAAGTC-CAATGTCGTTGGCCTTGAATCAG-ATATTGG---C---A-C-TT-TTT
* * *
24277 GCATCTTTAAGTCCAATGTTGTTGACCTTGAATCAGCATATTGGCACTCTTCT
1 -CATCTTTAAGTCCAATGTCGTTGGCCTTGAATCAG-ATATTGGCACT-TTTT
24330 CATC
1 CATC
24334 CTTATCATCT
Statistics
Matches: 491, Mismatches: 100, Indels: 111
0.70 0.14 0.16
Matches are distributed among these distances:
50 9 0.02
51 46 0.09
52 279 0.57
53 58 0.12
54 8 0.02
55 4 0.01
56 1 0.00
57 1 0.00
58 2 0.00
59 3 0.01
60 6 0.01
61 67 0.14
62 3 0.01
63 4 0.01
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (50 bp):
CATCTTTAAGTCCAATGTCGTTGGCCTTGAATCAGATATTGGCACTTTTT
Found at i:24186 original size:104 final size:104
Alignment explanation
Indices: 24063--24266 Score: 284
Period size: 104 Copynumber: 2.0 Consensus size: 104
24053 CATTTTTCTT
* * * * * *
24063 TCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCACATTAGCACCTTTTTCTTTTTTGAGTC-CA
1 TCTTTAAGTCCAATATTGCTGGCCTTGAATCAACACATTAGCAACTTTGTCATCTTTAAG-CACA
* * *
24127 GCATCTCTGGCCTTGAATCAGCATATTGGCGCCTTTGTGA
65 ACATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTGA
* *
24167 TCTTTAAGTCCAATGTTGCTGGCCTTGAATCAACACATTGGCAACTTTGTCATCTTTAAGCACAA
1 TCTTTAAGTCCAATATTGCTGGCCTTGAATCAACACATTAGCAACTTTGTCATCTTTAAGCACAA
*
24232 TATCGCTGGCCTTGAATCAGCATATTGGCACCTTT
66 CATCGCTGGCCTTGAATCAGCATATTGGCACCTTT
24267 ATCATTCTTT
Statistics
Matches: 87, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
103 1 0.01
104 86 0.99
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.36
Consensus pattern (104 bp):
TCTTTAAGTCCAATATTGCTGGCCTTGAATCAACACATTAGCAACTTTGTCATCTTTAAGCACAA
CATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTGA
Found at i:24367 original size:61 final size:61
Alignment explanation
Indices: 24211--24371 Score: 177
Period size: 61 Copynumber: 2.6 Consensus size: 61
24201 ACATTGGCAA
* * *
24211 CTTTGTCATCTTTAAG-CACAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCATT
1 CTTTG-CATCTTTAAGTC-CAATATTGTTGGCCTTGAATCAGCATATTGGCACCTTTATCATC
* * *
24273 CTTTGCATCTTTAAGTCCAATGTTGTTGACCTTGAATCAGCATATTGGCA-CTCTTCTCATC
1 CTTTGCATCTTTAAGTCCAATATTGTTGGCCTTGAATCAGCATATTGGCACCT-TTATCATC
* *
24334 CTTAT-CATCTTTAAGTTCAGTATT-TTAGGCCTTGAATC
1 CTT-TGCATCTTTAAGTCCAATATTGTT-GGCCTTGAATC
24372 TATACACTAG
Statistics
Matches: 85, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
60 4 0.05
61 74 0.87
62 7 0.08
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.40
Consensus pattern (61 bp):
CTTTGCATCTTTAAGTCCAATATTGTTGGCCTTGAATCAGCATATTGGCACCTTTATCATC
Found at i:25022 original size:21 final size:21
Alignment explanation
Indices: 24996--25045 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
24986 ACAATTTGTT
*
24996 TCGATATAAATAGTAAATGTA
1 TCGATACAAATAGTAAATGTA
25017 TCGATACAAATAGTAAATGTA
1 TCGATACAAATAGTAAATGTA
25038 TCGATACA
1 TCGATACA
25046 TAAGTTTTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.46, C:0.10, G:0.14, T:0.30
Consensus pattern (21 bp):
TCGATACAAATAGTAAATGTA
Found at i:25071 original size:13 final size:13
Alignment explanation
Indices: 25053--25078 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25043 ACATAAGTTT
25053 TGTATCGATACAA
1 TGTATCGATACAA
25066 TGTATCGATACAA
1 TGTATCGATACAA
25079 AACTACCTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:25127 original size:20 final size:20
Alignment explanation
Indices: 25102--25156 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
25092 ACTGCTAAGG
25102 AAATGTATCGATACATTACT
1 AAATGTATCGATACATTACT
25122 AAATGTATCGATACATTACT
1 AAATGTATCGATACATTACT
25142 AAATGTATC-ATACAT
1 AAATGTATCGATACAT
25157 GCTTACATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 6 0.17
20 29 0.83
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.35
Consensus pattern (20 bp):
AAATGTATCGATACATTACT
Found at i:25240 original size:20 final size:20
Alignment explanation
Indices: 25215--25269 Score: 110
Period size: 20 Copynumber: 2.8 Consensus size: 20
25205 TTTTGACCCA
25215 AATGTATCGATACATTCTTC
1 AATGTATCGATACATTCTTC
25235 AATGTATCGATACATTCTTC
1 AATGTATCGATACATTCTTC
25255 AATGTATCGATACAT
1 AATGTATCGATACAT
25270 GCAGGCAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.38
Consensus pattern (20 bp):
AATGTATCGATACATTCTTC
Found at i:27766 original size:95 final size:97
Alignment explanation
Indices: 27578--27768 Score: 235
Period size: 95 Copynumber: 2.0 Consensus size: 97
27568 CTCTAACCCC
27578 ATTATTCCGAGGGGATACTCCAACTCCTTTTTTAAAAATTATCAAGATTCAAACCTTAATTTTGC
1 ATTATTCCGAGGGGATACTCCAAC-CCTTTTTTAAAAATTATCAAGATTCAAACCTTAATTTTGC
* * *
27643 TTAAATTATCATCGTTGGGGATACTCCAACCTT
65 TTAAATTATCATCGTTAGGAACACTCCAACCTT
* * * * * ** *
27676 ATTATTCTGAGGGGATACTCTAA-CCTTATTTTTAAACTTGTCAAGA-T-AATTCTTATTTTTGC
1 ATTATTCCGAGGGGATACTCCAACCCTT-TTTTAAAAATTATCAAGATTCAAACCTTAATTTTGC
*
27738 TTAAATTGTCATCGTTAGGAACACTCCAACC
65 TTAAATTATCATCGTTAGGAACACTCCAACC
27769 CCATTCCTCC
Statistics
Matches: 80, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
95 39 0.49
96 5 0.06
97 15 0.19
98 21 0.26
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (97 bp):
ATTATTCCGAGGGGATACTCCAACCCTTTTTTAAAAATTATCAAGATTCAAACCTTAATTTTGCT
TAAATTATCATCGTTAGGAACACTCCAACCTT
Found at i:27801 original size:95 final size:95
Alignment explanation
Indices: 27567--27803 Score: 233
Period size: 95 Copynumber: 2.5 Consensus size: 95
27557 CATTGGGGAT
* * * * * *
27567 ACTCTAACCCCATTATTCCGAGGGGATACTCCAACTCCT-TTTTTAAAAATTATCAAGATTCAAA
1 ACTCCAACCCCATTACTCCGAAGGGATACTCCAAC-CCTATTTTT-AAACTTGTCAAGA-T-AAT
* * * *
27631 CCTTAATTTTGCTTAAATTATCATCGTTGGGGAT
62 TCTTAATTTTGCTTAAATTATCATCGTTAGGAAC
** * * * * *
27665 ACTCCAACCTTATTATTCTGAGGGGATACTCTAACCTTATTTTTAAACTTGTCAAGATAATTCTT
1 ACTCCAACCCCATTACTCCGAAGGGATACTCCAACCCTATTTTTAAACTTGTCAAGATAATTCTT
* *
27730 ATTTTTGCTTAAATTGTCATCGTTAGGAAC
66 AATTTTGCTTAAATTATCATCGTTAGGAAC
* * *
27760 ACTCCAACCCCATTCCTCCGAAGGGATATTCCAGCCCTATTTTT
1 ACTCCAACCCCATTACTCCGAAGGGATACTCCAACCCTATTTTT
27804 CAATCAAAAG
Statistics
Matches: 113, Mismatches: 25, Indels: 5
0.79 0.17 0.03
Matches are distributed among these distances:
95 64 0.57
96 1 0.01
97 13 0.12
98 35 0.31
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.37
Consensus pattern (95 bp):
ACTCCAACCCCATTACTCCGAAGGGATACTCCAACCCTATTTTTAAACTTGTCAAGATAATTCTT
AATTTTGCTTAAATTATCATCGTTAGGAAC
Found at i:32564 original size:166 final size:166
Alignment explanation
Indices: 32389--32712 Score: 463
Period size: 166 Copynumber: 2.0 Consensus size: 166
32379 GGAAAATTTC
* * * * *
32389 ATTTCGTACCTGATAGAAAA-CTAAGAAGATATGAAAA-GTCTTGAGAATTTTTATACCCCTATA
1 ATTTCGTACCTGATAGAAAATC-AAGAAGATA-CAAAACCTCTTAAAAATTTCTATACCCCTATA
* * *
32452 GAAGGCCATATGAATAATTGAAATATTTAAAAATGACTAAAATGATGATTTTACCTCTAAAAACT
64 GAAGGCCATAGGAATAATAGAAATATTTAAAAATAACTAAAATGATGATTTTACCTCTAAAAACT
* * *
32517 TAAATTTGCTACTTGATCTCTAAACTTTTACAAGTTTA
129 AAAATTTGCTACTTAATCCCTAAACTTTTACAAGTTTA
* * * *
32555 ATTTCGTACCTGATGGAAAATCGAGAGGATACAAAACCTCTTAAAAATTTCTATACCCCTATGGA
1 ATTTCGTACCTGATAGAAAATCAAGAAGATACAAAACCTCTTAAAAATTTCTATACCCCTATAGA
*
32620 AGGTCATAGGAATAATAGAAATATTTAAAAATAACTAAAATGATGATTTTACCTCTAAAAACTAA
66 AGGCCATAGGAATAATAGAAATATTTAAAAATAACTAAAATGATGATTTTACCTCTAAAAACTAA
*
32685 AATTTGCTATTTAATCCCTAAACTTTTA
131 AATTTGCTACTTAATCCCTAAACTTTTA
32713 AAAATTTCAT
Statistics
Matches: 139, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
165 4 0.03
166 134 0.96
167 1 0.01
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (166 bp):
ATTTCGTACCTGATAGAAAATCAAGAAGATACAAAACCTCTTAAAAATTTCTATACCCCTATAGA
AGGCCATAGGAATAATAGAAATATTTAAAAATAACTAAAATGATGATTTTACCTCTAAAAACTAA
AATTTGCTACTTAATCCCTAAACTTTTACAAGTTTA
Found at i:35875 original size:9 final size:9
Alignment explanation
Indices: 35858--35890 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
35848 TGAAGATCAC
*
35858 TTAGCAAGA
1 TTAGAAAGA
35867 TTAGAAAGA
1 TTAGAAAGA
35876 TTAGAAAGA
1 TTAGAAAGA
35885 TTAGAA
1 TTAGAA
35891 GAAAATTATC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.52, C:0.03, G:0.21, T:0.24
Consensus pattern (9 bp):
TTAGAAAGA
Found at i:40046 original size:121 final size:121
Alignment explanation
Indices: 39892--40130 Score: 424
Period size: 121 Copynumber: 2.0 Consensus size: 121
39882 CCATTTTAAG
*
39892 TAAGAAATCGTACATGTGGCAGATTACAAAATATAATGGACCGCAAAATTAGGTAAATCTAGCTT
1 TAAGAAATCGTACATGTGGCAGACTACAAAATATAATGGACCGCAAAATTAGGTAAATCTAGCTT
*
39957 TGTCACAAGATCATCAGAAGTTAGACTTTGCAATGATCTGTTCTTACATTTTGCAA
66 TGTCACAAGATCATCAGAAGTTAGACTTTACAATGATCTGTTCTTACATTTTGCAA
* * *
40013 TAAGAAATCGTACATGTGGCATACTACAAAATATAATGGACCGCACAATTATGTAAATCTAGCTT
1 TAAGAAATCGTACATGTGGCAGACTACAAAATATAATGGACCGCAAAATTAGGTAAATCTAGCTT
*
40078 TGTCGCAAGATCATCAGAAGTTAGACTTTACAATGATCTGTTCTTACATTTTG
66 TGTCACAAGATCATCAGAAGTTAGACTTTACAATGATCTGTTCTTACATTTTG
40131 TAGTTGGTTA
Statistics
Matches: 112, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
121 112 1.00
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (121 bp):
TAAGAAATCGTACATGTGGCAGACTACAAAATATAATGGACCGCAAAATTAGGTAAATCTAGCTT
TGTCACAAGATCATCAGAAGTTAGACTTTACAATGATCTGTTCTTACATTTTGCAA
Found at i:41475 original size:23 final size:24
Alignment explanation
Indices: 41448--41504 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
41438 TAGATTGATC
41448 TATTTATAATAAC-T-ATTTATTTA
1 TATTTATAAT-ACTTGATTTATTTA
* *
41471 TATTTTATAATACTTGTTTTTTTTA
1 TA-TTTATAATACTTGATTTATTTA
41496 TATTTATAA
1 TATTTATAA
41505 CATTAGTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
23 4 0.14
24 16 0.55
25 9 0.31
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (24 bp):
TATTTATAATACTTGATTTATTTA
Found at i:41550 original size:23 final size:23
Alignment explanation
Indices: 41463--41563 Score: 73
Period size: 24 Copynumber: 4.3 Consensus size: 23
41453 ATAATAACTA
* *
41463 TTTATTTATATTTTATAATACTTG
1 TTTATTT-TATTTTATAACAATTG
*
41487 TTTTTTTTATATTTATAAC-ATTAG
1 TTTATTTTAT-TTTATAACAATT-G
***
41511 TTTATGGCCATTTTATAACAATTG
1 TTTAT-TTTATTTTATAACAATTG
*
41535 TTTGTTTTATTTTATATA-AATTG
1 TTTATTTTATTTTATA-ACAATTG
41558 -TTATTT
1 TTTATTT
41564 CTTTATATAT
Statistics
Matches: 60, Mismatches: 12, Indels: 12
0.71 0.14 0.14
Matches are distributed among these distances:
22 5 0.08
23 18 0.30
24 32 0.53
25 5 0.08
ACGTcount: A:0.28, C:0.05, G:0.07, T:0.60
Consensus pattern (23 bp):
TTTATTTTATTTTATAACAATTG
Found at i:41969 original size:68 final size:68
Alignment explanation
Indices: 41857--42061 Score: 347
Period size: 68 Copynumber: 3.0 Consensus size: 68
41847 AATTACGAGT
*
41857 TACATGATTGTCATTGTAAGAAGTTTAAACATGTCAATCCACTCGAACCACTTATTCCTTATTTA
1 TACATGATTGTCATTGTAAGAAGTTTAAACATGTCAATCCACTCGAACCACTCATTCCTTATTTA
41922 CAA
66 CAA
* * *
41925 TACATGATTGTCATTGTAAGAAGTTTAAGCATGTCAATCTACTCGAACCACTCATTCCTTAATTA
1 TACATGATTGTCATTGTAAGAAGTTTAAACATGTCAATCCACTCGAACCACTCATTCCTTATTTA
41990 CAA
66 CAA
* * *
41993 TACATGATTGTCATTGTAAGAAGTTTAAATATGTCGATCCACTCGAACCACTCATTCTTTATTTA
1 TACATGATTGTCATTGTAAGAAGTTTAAACATGTCAATCCACTCGAACCACTCATTCCTTATTTA
42058 CAA
66 CAA
42061 T
1 T
42062 CTTATGGATC
Statistics
Matches: 127, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
68 127 1.00
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (68 bp):
TACATGATTGTCATTGTAAGAAGTTTAAACATGTCAATCCACTCGAACCACTCATTCCTTATTTA
CAA
Found at i:45511 original size:23 final size:22
Alignment explanation
Indices: 45484--45529 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
45474 CAAGTATAAA
45484 TATTTATTT-TTTAAAGTGAATTT
1 TATTT-TTTATTTAAA-TGAATTT
*
45507 TATTTTTTATTTAAATTAATTT
1 TATTTTTTATTTAAATGAATTT
45529 T
1 T
45530 TTAAATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.65
Consensus pattern (22 bp):
TATTTTTTATTTAAATGAATTT
Found at i:45538 original size:18 final size:18
Alignment explanation
Indices: 45489--45540 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 18
45479 ATAAATATTT
* * *
45489 ATTTTTTAAAGTGAATTTT
1 ATTTTTTAAA-TTAAATTA
*
45508 ATTTTTT-ATTTAAATTA
1 ATTTTTTAAATTAAATTA
45525 ATTTTTTAAATTAAAT
1 ATTTTTTAAATTAAAT
45541 ATTTTAATCC
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
17 12 0.44
18 8 0.30
19 7 0.26
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.60
Consensus pattern (18 bp):
ATTTTTTAAATTAAATTA
Found at i:51923 original size:21 final size:21
Alignment explanation
Indices: 51881--51920 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
51871 ATTGGACATG
*
51881 TTAAAATGCATGGAATATGGC
1 TTAAAATGCATGGAAGATGGC
51902 TTAAAATGCAT-GAAGATGG
1 TTAAAATGCATGGAAGATGG
51921 GCTGTTTAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.40, C:0.07, G:0.25, T:0.28
Consensus pattern (21 bp):
TTAAAATGCATGGAAGATGGC
Found at i:52962 original size:20 final size:21
Alignment explanation
Indices: 52939--52992 Score: 76
Period size: 20 Copynumber: 2.6 Consensus size: 21
52929 CATTTCAGAG
52939 ATGTATCGATACATT-CACTT
1 ATGTATCGATACATTCCACTT
*
52959 ATGTATCCATAC-TTCCACTT
1 ATGTATCGATACATTCCACTT
52979 ATTGTATCGATACA
1 A-TGTATCGATACA
52993 AATTATTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 2 0.07
20 17 0.59
21 10 0.34
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.39
Consensus pattern (21 bp):
ATGTATCGATACATTCCACTT
Found at i:55898 original size:155 final size:156
Alignment explanation
Indices: 55521--55899 Score: 420
Period size: 155 Copynumber: 2.4 Consensus size: 156
55511 GCTAAGTTTA
* * * * *
55521 AAAAAAATTATGAAAATACCCCTAGGGGATACCTTCGACATAAAAGTACCTGATACCCCTGAAGG
1 AAAAAAATTATGAAAATACCCCTAGGGGATACCTTTGACGTAAAAGTAACAGATACCCCTAAAGG
* * * * * * *
55586 ACTTAAAAACGATTATAGACAGAATGAACCTATCTTTAATACCTACCTTTGGCATGAAAGTGGAC
66 ACTTAAAAAAGATAATAGACAGAATGAACCTATCTTAAATACCTACCTTCGGCATAAAAGCGAAC
* * * * **
55651 TCGGTGACGACCTAGGAGTTGGTTCT
131 CCGATGACAACCTAGGACTCAGTTCT
* * * * * * * *
55677 AGAAAAA-TATGAAAACACCCCTAGGGGACACCTTTGACGTCAAAGTATCCGATACCTCTAAGGG
1 AAAAAAATTATGAAAATACCCCTAGGGGATACCTTTGACGTAAAAGTAACAGATACCCCTAAAGG
** * **
55741 ACTTAAAAAAGATAATAGATGGGATGAACCTATCTTAAATATTTACCTTCGGCATAAAAGCGAAC
66 ACTTAAAAAAGATAATAGACAGAATGAACCTATCTTAAATACCTACCTTCGGCATAAAAGCGAAC
55806 CCGATGACAACCTAGGACTCAGTTCT
131 CCGATGACAACCTAGGACTCAGTTCT
** * * *
55832 AAAAAAATTACAAAAATACTCCTAGGGGATACCTTTGATGTAAAAGTAACAG-TTCCCCTAAAGG
1 AAAAAAATTATGAAAATACCCCTAGGGGATACCTTTGACGTAAAAGTAACAGATACCCCTAAAGG
55896 ACTT
66 ACTT
55900 GGGATAATGC
Statistics
Matches: 180, Mismatches: 42, Indels: 3
0.80 0.19 0.01
Matches are distributed among these distances:
155 139 0.77
156 41 0.23
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (156 bp):
AAAAAAATTATGAAAATACCCCTAGGGGATACCTTTGACGTAAAAGTAACAGATACCCCTAAAGG
ACTTAAAAAAGATAATAGACAGAATGAACCTATCTTAAATACCTACCTTCGGCATAAAAGCGAAC
CCGATGACAACCTAGGACTCAGTTCT
Found at i:58529 original size:167 final size:164
Alignment explanation
Indices: 58097--58536 Score: 491
Period size: 164 Copynumber: 2.6 Consensus size: 164
58087 TCCAAAACGC
* *
58097 ATGAAAATGAATTACTTTTTGAAAGATAATTTAATATGGAATAAATAATAATATTTTATGAATTT
1 ATGAAAATGAATGA-TTTTTGAAA-ATAATTTAATATGGAATAAATAATAATATTTGATGAATTT
* * *
58162 AAAAAATTAAAAACC-AAGAAAAATCC-ATCGAAAAAATTTTA-TAGAGCAGAAAACTCAGTTTT
64 -AAAAATTAAAAACCTAAGAAAAATCCTCTCGAAAAAA-TTTACGAGAGCAGAAAACTCAGTATT
* * **
58224 TCAAAAAAGGGGAATTTTGAGGAAAAAATAAAAAATTA
127 TCAAAAAAAGGAAATTTAAAGGAAAAAATAAAAAATTA
* * *
58262 ATGAAAATTAATGAATTTT-AAAAAAATTTTTAATATGGAATAAATAATAATATTTGATGAATTT
1 ATGAAAATGAATGATTTTTGAAAATAA--TTTAATATGGAATAAATAATAATATTTGATGAA-TT
* * * *
58326 TAAAAA-TAAAAAACTAAGAAAAAT-CTCTTTGAAAAAATTTACGA-AGTAGAAAACTCTGTATT
63 TAAAAATTAAAAACCTAAGAAAAATCCTC-TCGAAAAAATTTACGAGAGCAGAAAACTCAGTATT
* *
58388 TCAAAAACAAGGAAATTTAAAGGAAAAAAATTTAAAAATTG
127 TCAAAAA-AAGGAAATTTAAAGG-AAAAAA-TAAAAAATTA
**
58429 ATGAAAATGAATGATTTTTGAAAATTAATTTAATATAAAATAAATAATAATATTTGATGAATTTA
1 ATGAAAATGAATGATTTTTGAAAA-TAATTTAATATGGAATAAATAATAATATTTGATGAATTTA
** *
58494 AAAATTTTTAAACCTATG-AAAATCCTCTCGAAAAAAATTTACG
65 AAAA-TTAAAAACCTAAGAAAAATCCTCTCG-AAAAAATTTACG
58537 GAGAAAAAAA
Statistics
Matches: 231, Mismatches: 28, Indels: 29
0.80 0.10 0.10
Matches are distributed among these distances:
162 3 0.01
163 11 0.05
164 76 0.33
165 35 0.15
166 14 0.06
167 63 0.27
168 27 0.12
169 2 0.01
ACGTcount: A:0.52, C:0.06, G:0.10, T:0.32
Consensus pattern (164 bp):
ATGAAAATGAATGATTTTTGAAAATAATTTAATATGGAATAAATAATAATATTTGATGAATTTAA
AAATTAAAAACCTAAGAAAAATCCTCTCGAAAAAATTTACGAGAGCAGAAAACTCAGTATTTCAA
AAAAAGGAAATTTAAAGGAAAAAATAAAAAATTA
Found at i:63140 original size:86 final size:86
Alignment explanation
Indices: 62994--63307 Score: 303
Period size: 86 Copynumber: 3.6 Consensus size: 86
62984 TCTGTTATGT
* * * * *
62994 CATTAGTCAAATATTTTATGTCGTGTCAGAA-AACTCTGATA-CGCATGCATCTATCACATCTTT
1 CATTAGTCAAATATTTTCTGTCATGTCAAAAGAAATCTGATACCCCATGCATCTAT-ACATCTTT
*
63057 CGAGTTCTAAGAAATTTATCAAG
65 -GAGTTCTAAGAAATTTATTAAG
* * * * *
63080 CATTAGTCAAATATTTTTTCTCATGTTAGAAGAAATCTGATACCCCATACATCTAT-CATCTTTT
1 CATTAGTCAAATATTTTCTGTCATGTCAAAAGAAATCTGATACCCCATGCATCTATACATC-TTT
* *
63144 GGGTTCTAAGAAATTTATTATG
65 GAGTTCTAAGAAATTTATTAAG
* * * * * * ** *
63166 CATTAGTAAAAAATTTTCTATCATGTTAAAAGGAAT-TAGATATCATATGTATCTATCACATCTT
1 CATTAGTCAAATATTTTCTGTCATGTCAAAAGAAATCT-GATACCCCATGCATCTAT-ACATCTT
* * * *
63230 TTAGGTTCCAAGAAACTTATTAGG
64 TGA-GTTCTAAGAAATTTATTAAG
*
63254 CATTAGTCAAATATTTTCTGTCATGTCAAAAAAAATCTGATACCCCATGCATCT
1 CATTAGTCAAATATTTTCTGTCATGTCAAAAGAAATCTGATACCCCATGCATCT
63308 TTTCCATATA
Statistics
Matches: 184, Mismatches: 36, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
85 1 0.01
86 93 0.51
87 15 0.08
88 74 0.40
89 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.37
Consensus pattern (86 bp):
CATTAGTCAAATATTTTCTGTCATGTCAAAAGAAATCTGATACCCCATGCATCTATACATCTTTG
AGTTCTAAGAAATTTATTAAG
Found at i:66600 original size:3 final size:3
Alignment explanation
Indices: 66592--66645 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
66582 CTTCAATATG
66592 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
66640 TAA TAA
1 TAA TAA
66646 ATAGAAGGTA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:71043 original size:20 final size:21
Alignment explanation
Indices: 71008--71056 Score: 73
Period size: 20 Copynumber: 2.4 Consensus size: 21
70998 CTACAATTTG
*
71008 TATCGATACAATAAGTTAATA
1 TATCGATACAATAAGTGAATA
*
71029 TATCGATAC-ATAAGTGAATG
1 TATCGATACAATAAGTGAATA
71049 TATCGATA
1 TATCGATA
71057 TATGCTTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (21 bp):
TATCGATACAATAAGTGAATA
Found at i:71143 original size:20 final size:20
Alignment explanation
Indices: 71116--71170 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
71106 TTCTGAAAAA
**
71116 AATGTATCGATACATTTTTC
1 AATGTATCGATACATTCATC
*
71136 ATTGTATCGATACATTCATC
1 AATGTATCGATACATTCATC
71156 AATGTATCGATACAT
1 AATGTATCGATACAT
71171 GGAGGCTGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (20 bp):
AATGTATCGATACATTCATC
Found at i:72744 original size:363 final size:363
Alignment explanation
Indices: 72076--72805 Score: 1388
Period size: 363 Copynumber: 2.0 Consensus size: 363
72066 ATATTGTTTG
72076 CATATTCATCACTATAACAACCTTTGTTCATGCATTTCTTGCTCATTCCTTCCATATTCATATCT
1 CATATTCATCACTATAACAACCTTTGTTCATGCATTTCTTGCTCATTCCTTCCATATTCATATCT
72141 TTACCTCATATTTGGATGTCATTTCAACATGTCATAAACATGTTCATGCATATTTAGCAACTTGA
66 TTACCTCATATTTGGATGTCATTTCAACATGTCATAAACATGTTCATGCATATTTAGCAACTTGA
72206 TAGGTTCCATGAAATCAAAATGCCTTTTCCAAGCATGTTCATCTCAATGATATTTTGTCATCACC
131 TAGGTTCCATGAAATCAAAATGCCTTTTCCAAGCATGTTCATCTCAATGATATTTTGTCATCACC
*
72271 ATGAATTTTTTTCTTTTTCCTTCCATAAAAAAATGTCATCTTGGTCTATGCATATCTACTCTCCA
196 ATGAACTTTTTTCTTTTTCCTTCCATAAAAAAATGTCATCTTGGTCTATGCATATCTACTCTCCA
72336 TGTTCTACATCATGTTTGTTGCATTTTGCTTGTGTCAAAATGCTTATTGTGTGCCAAAAATCTGG
261 TGTTCTACATCATGTTTGTTGCATTTTGCTTGTGTCAAAATGCTTATTGTGTGCCAAAAATCTGG
72401 TTTTAAAAAATTCCCCAAGTCAAGTTCATGCTACCTCC
326 TTTTAAAAAATTCCCCAAGTCAAGTTCATGCTACCTCC
*
72439 CATATTCATCACTATAACAGCCTTTGTTCATGCATTTCTTGCTCATTCCTTCCATATTCATATCT
1 CATATTCATCACTATAACAACCTTTGTTCATGCATTTCTTGCTCATTCCTTCCATATTCATATCT
72504 TTACCTCATATTTGGATGTCATTTCAACATGTCATAAACATGTTCATGCATATTTAGCAACTTGA
66 TTACCTCATATTTGGATGTCATTTCAACATGTCATAAACATGTTCATGCATATTTAGCAACTTGA
72569 TAGGTTCCATGAAATCAAAATGCCTTTTCCAAGCATGTTCATCTCAATGATATTTTGTCATCACC
131 TAGGTTCCATGAAATCAAAATGCCTTTTCCAAGCATGTTCATCTCAATGATATTTTGTCATCACC
* * *
72634 ATGAACTTTTTTCTTTTTCTTTCCATTAAAAAATGTCATCTTGGTCTATGCATATCTACTCTCGA
196 ATGAACTTTTTTCTTTTTCCTTCCATAAAAAAATGTCATCTTGGTCTATGCATATCTACTCTCCA
* *
72699 TGTTCTACATCATGTTTGTTGCATTTTTCTTGTGTCAAGATGCTTATTGTGTGCCAAAAATCTGG
261 TGTTCTACATCATGTTTGTTGCATTTTGCTTGTGTCAAAATGCTTATTGTGTGCCAAAAATCTGG
*
72764 TTTTAAGAAATTCCCCAAGTCAAGTTCATGCTACCTCC
326 TTTTAAAAAATTCCCCAAGTCAAGTTCATGCTACCTCC
72802 CATA
1 CATA
72806 CATGGAGATT
Statistics
Matches: 359, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
363 359 1.00
ACGTcount: A:0.27, C:0.22, G:0.11, T:0.40
Consensus pattern (363 bp):
CATATTCATCACTATAACAACCTTTGTTCATGCATTTCTTGCTCATTCCTTCCATATTCATATCT
TTACCTCATATTTGGATGTCATTTCAACATGTCATAAACATGTTCATGCATATTTAGCAACTTGA
TAGGTTCCATGAAATCAAAATGCCTTTTCCAAGCATGTTCATCTCAATGATATTTTGTCATCACC
ATGAACTTTTTTCTTTTTCCTTCCATAAAAAAATGTCATCTTGGTCTATGCATATCTACTCTCCA
TGTTCTACATCATGTTTGTTGCATTTTGCTTGTGTCAAAATGCTTATTGTGTGCCAAAAATCTGG
TTTTAAAAAATTCCCCAAGTCAAGTTCATGCTACCTCC
Found at i:77480 original size:20 final size:21
Alignment explanation
Indices: 77455--77507 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
77445 ATTGATACAT
*
77455 TGTATCGATACATG-ACCA-AA
1 TGTATCGATACATGCA-AAGAA
*
77475 TGTATCGATACTTGCAAAGAA
1 TGTATCGATACATGCAAAGAA
77496 TGTATCGATACA
1 TGTATCGATACA
77508 GGTGATTGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGCAAAGAA
Found at i:77575 original size:13 final size:13
Alignment explanation
Indices: 77557--77582 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
77547 ATATACAAGA
77557 TGTATCGATACAT
1 TGTATCGATACAT
77570 TGTATCGATACAT
1 TGTATCGATACAT
77583 GACCAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:77578 original size:32 final size:33
Alignment explanation
Indices: 77537--77604 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
77527 CCTTAACTGT
* *
77537 TTGTATCGATATAT-A-CAAGATGTATCGATACA
1 TTGTATCGATACATGACCAA-ATATATCGATACA
77569 TTGTATCGATACATGACCAAATATATCGATACA
1 TTGTATCGATACATGACCAAATATATCGATACA
77602 TTG
1 TTG
77605 ACTTGTAACG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
32 13 0.41
33 16 0.50
34 3 0.09
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.34
Consensus pattern (33 bp):
TTGTATCGATACATGACCAAATATATCGATACA
Found at i:84243 original size:20 final size:22
Alignment explanation
Indices: 84214--84254 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
84204 CACTCACCAG
*
84214 GTCGCGACC-GGCA-CCCCCAA
1 GTCGCAACCGGGCAGCCCCCAA
84234 GTCGCAACCGGGCAGCCCCCA
1 GTCGCAACCGGGCAGCCCCCA
84255 CACTCACAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 4 0.22
22 6 0.33
ACGTcount: A:0.20, C:0.49, G:0.27, T:0.05
Consensus pattern (22 bp):
GTCGCAACCGGGCAGCCCCCAA
Found at i:85633 original size:22 final size:24
Alignment explanation
Indices: 85608--85651 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
85598 GTGATTAAAG
85608 GAAA-TTGTTTT-ATTAAGGGGAA
1 GAAATTTGTTTTGATTAAGGGGAA
*
85630 GAAATTTTTTTTGATTAAGGGG
1 GAAATTTGTTTTGATTAAGGGG
85652 GAGAGAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 6 0.32
24 9 0.47
ACGTcount: A:0.32, C:0.00, G:0.27, T:0.41
Consensus pattern (24 bp):
GAAATTTGTTTTGATTAAGGGGAA
Found at i:86188 original size:20 final size:20
Alignment explanation
Indices: 86163--86219 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
86153 GTCAAAACCC
86163 TCAAATGTATCGATACACCT
1 TCAAATGTATCGATACACCT
86183 TCAAATGTATCGATACACCT
1 TCAAATGTATCGATACACCT
*
86203 TCAGATGTATCGATACA
1 TCAAATGTATCGATACA
86220 TAATGCACAG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.30
Consensus pattern (20 bp):
TCAAATGTATCGATACACCT
Found at i:86247 original size:13 final size:13
Alignment explanation
Indices: 86229--86253 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
86219 ATAATGCACA
86229 GTATCGATACATT
1 GTATCGATACATT
86242 GTATCGATACAT
1 GTATCGATACAT
86254 AACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:86266 original size:33 final size:33
Alignment explanation
Indices: 86208--86271 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
86198 CACCTTCAGA
* *
86208 TGTATCGATACATAATGCACAGTATCGATACAT
1 TGTATCGATACATAATCCAAAGTATCGATACAT
86241 TGTATCGATACATAA-CCAAATGTATCGATAC
1 TGTATCGATACATAATCCAAA-GTATCGATAC
86272 TTGCAAAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 3 0.11
33 25 0.89
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.30
Consensus pattern (33 bp):
TGTATCGATACATAATCCAAAGTATCGATACAT
Found at i:86372 original size:13 final size:13
Alignment explanation
Indices: 86354--86379 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
86344 ACATACAAGA
86354 TGTATCGATACAT
1 TGTATCGATACAT
86367 TGTATCGATACAT
1 TGTATCGATACAT
86380 GACCAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:86378 original size:32 final size:33
Alignment explanation
Indices: 86334--86401 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
86324 CCTTAACTAT
*
86334 TTGTATCAATACAT-A-CAAGATGTATCGATACA
1 TTGTATCAATACATGACCAA-ATATATCGATACA
*
86366 TTGTATCGATACATGACCAAATATATCGATACA
1 TTGTATCAATACATGACCAAATATATCGATACA
86399 TTG
1 TTG
86402 ACTTGTAATG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
32 13 0.41
33 16 0.50
34 3 0.09
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.32
Consensus pattern (33 bp):
TTGTATCAATACATGACCAAATATATCGATACA
Found at i:87887 original size:49 final size:49
Alignment explanation
Indices: 87814--88103 Score: 340
Period size: 49 Copynumber: 6.0 Consensus size: 49
87804 CCAGCGGCAC
* *
87814 CTTTAAGTCCAATATAGCTGGCCTTGAACCAGCATATTGGCACCTTTAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTAT
* * * * *
87863 CTTTAAGTCCAATGTAGCTAGCCTTGACTCAGCACATTGGCACCTTCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTAT
* * *
87912 CATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTAT
* *
87961 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACACC----T
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTAT
* * *
88006 -TTT-GGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC-TTT--AT
* * *
88056 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-CCTTT
88104 TTCTCATCTT
Statistics
Matches: 203, Mismatches: 28, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
43 34 0.17
44 3 0.01
45 1 0.00
49 125 0.62
50 1 0.00
51 3 0.01
52 34 0.17
53 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.32
Consensus pattern (49 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTAT
Found at i:87985 original size:98 final size:97
Alignment explanation
Indices: 87811--88102 Score: 423
Period size: 98 Copynumber: 3.0 Consensus size: 97
87801 GCGCCAGCGG
* *
87811 CACCTTTAAGTCCAATATAGCTGGCCTTGAACCAGCATATTGGCACCTTTATCTTTAAGTCCAAT
1 CACC-TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAAT
* * *
87876 GTAGCTAGCCTTGACTCAGCACATTGGCACCTT
65 GTAGCTGGCCTTGAATCAGCACATTGACACCTT
87909 CACCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAAT
1 CACC-TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAAT
87974 GTAGCTGGCCTTGAATCAGCACATTGACACCTT
65 GTAGCTGGCCTTGAATCAGCACATTGACACCTT
* * *
88007 ----TT-GGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCA
1 CACCTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTTTAAGTCCA
88067 ATGTAGCTGGCCTTGAATCAGCACATTGACATCCTT
63 ATGTAGCTGGCCTTGAATCAGCACATTGACA-CCTT
88103 TTTCTCATCT
Statistics
Matches: 181, Mismatches: 9, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
92 37 0.20
93 2 0.01
94 2 0.01
95 44 0.24
96 4 0.02
98 92 0.51
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (97 bp):
CACCTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
TAGCTGGCCTTGAATCAGCACATTGACACCTT
Found at i:88028 original size:43 final size:43
Alignment explanation
Indices: 87967--88051 Score: 134
Period size: 43 Copynumber: 2.0 Consensus size: 43
87957 TCATCTTTAA
* *
87967 GTCCAATGTAGCTGGCCTTGAATCAGCACATTGACACCTTTTG
1 GTCCAATATAGCTAGCCTTGAATCAGCACATTGACACCTTTTG
* *
88010 GTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTTT
1 GTCCAATATAGCTAGCCTTGAATCAGCACATTGACACCTTTT
88052 CCATCTTTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (43 bp):
GTCCAATATAGCTAGCCTTGAATCAGCACATTGACACCTTTTG
Found at i:88092 original size:95 final size:93
Alignment explanation
Indices: 87918--88104 Score: 322
Period size: 95 Copynumber: 2.0 Consensus size: 93
87908 TCACCATTAA
*
87918 GTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGC
1 GTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGC
87983 CTTGAATCAGCACATTGACA-CCTTTTG
66 CTTGAATCAGCACATTGACATCCTTTTG
*
88010 GTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAATGTAGCT
1 GTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACC--TT-CATCTTTAAGTCCAATGTAGCT
88075 GGCCTTGAATCAGCACATTGACATCCTTTT
63 GGCCTTGAATCAGCACATTGACATCCTTTT
88105 TCTCATCTTT
Statistics
Matches: 89, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
92 37 0.42
94 2 0.02
95 44 0.49
96 6 0.07
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (93 bp):
GTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGC
CTTGAATCAGCACATTGACATCCTTTTG
Found at i:88133 original size:55 final size:52
Alignment explanation
Indices: 88013--88141 Score: 143
Period size: 52 Copynumber: 2.4 Consensus size: 52
88003 CCTTTTGGTC
* * * *
88013 CAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTT
1 CAATATAGCTGGCCTTGAATCAGCACATTGACACCTTTTCCATCTTTAAGCT
*
88065 CAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAGC-
1 CAATATAGCTGGCCTTGAATCAGCACATTGACA-CC-TTTTC-CATCTTTAAGCT
* * *
88119 CTAATATCGTTGGCCGTGAATCA
1 C-AATATAGCTGGCCTTGAATCA
88142 ACATATTGGC
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
52 29 0.45
53 2 0.03
54 6 0.09
55 27 0.42
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.35
Consensus pattern (52 bp):
CAATATAGCTGGCCTTGAATCAGCACATTGACACCTTTTCCATCTTTAAGCT
Found at i:88986 original size:33 final size:33
Alignment explanation
Indices: 88949--89015 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
88939 TTCAACGATT
88949 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
88982 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
89015 T
1 T
89016 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:88987 original size:13 final size:13
Alignment explanation
Indices: 88969--88993 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
88959 CATAAAATGT
88969 TGTATCGATACAA
1 TGTATCGATACAA
88982 TGTATCGATACA
1 TGTATCGATACA
88994 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:89074 original size:13 final size:13
Alignment explanation
Indices: 89056--89080 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
89046 ATTACTCAAA
89056 TGTATCGATACAT
1 TGTATCGATACAT
89069 TGTATCGATACA
1 TGTATCGATACA
89081 CCGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:89145 original size:52 final size:52
Alignment explanation
Indices: 89089--89208 Score: 213
Period size: 52 Copynumber: 2.3 Consensus size: 52
89079 CACCGATCTT
* *
89089 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATCTGCCCAGATGTATCGATACACTATAAAA
*
89141 TGTATCGATACATGCAGGCAAATCTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATCTGCCCAGATGTATCGATACACTATAAAA
89193 TGTATCGATACATGCA
1 TGTATCGATACATGCA
89209 AGTAACTTTT
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATCTGCCCAGATGTATCGATACACTATAAAA
Found at i:95080 original size:20 final size:20
Alignment explanation
Indices: 95032--95090 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
95022 TGCAATGAGA
95032 AATGTATCGATACAATTGTAAG
1 AATGTATCGATAC-ATT-TAAG
* *
95054 CATGTATCGATACATTTAAT
1 AATGTATCGATACATTTAAG
*
95074 AATGTATTGATACATTT
1 AATGTATCGATACATTT
95091 CCTTGGTAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 18 0.55
21 3 0.09
22 12 0.36
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39
Consensus pattern (20 bp):
AATGTATCGATACATTTAAG
Found at i:95784 original size:16 final size:16
Alignment explanation
Indices: 95760--95830 Score: 54
Period size: 16 Copynumber: 4.4 Consensus size: 16
95750 ATAGCTTTTA
*
95760 TTTATAACAACTCT-TG
1 TTTAAAACAACT-TATG
95776 TTTAAAACAACTTATG
1 TTTAAAACAACTTATG
* * *
95792 TTTAGAACAACATACG
1 TTTAAAACAACTTATG
* * *
95808 TTTAGAATAACCTATG
1 TTTAAAACAACTTATG
*
95824 TTCAAAA
1 TTTAAAA
95831 TAGCTTTTGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
15 1 0.02
16 44 0.98
ACGTcount: A:0.41, C:0.15, G:0.08, T:0.35
Consensus pattern (16 bp):
TTTAAAACAACTTATG
Found at i:97821 original size:41 final size:40
Alignment explanation
Indices: 97772--97852 Score: 135
Period size: 41 Copynumber: 2.0 Consensus size: 40
97762 TCTTCTCTTT
* *
97772 TTTTCTTTTCTTTCTCCCTTCTCTTCTCCTTTTTTTGCTAG
1 TTTTCTTTTCTTTCTCCCTTCTCTT-TCCCTTGTTTGCTAG
97813 TTTTCTTTTCTTTCTCCCTTCTCTTTCCCTTGTTTGCTAG
1 TTTTCTTTTCTTTCTCCCTTCTCTTTCCCTTGTTTGCTAG
97853 AGCTGGTGGC
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
40 13 0.34
41 25 0.66
ACGTcount: A:0.02, C:0.30, G:0.06, T:0.62
Consensus pattern (40 bp):
TTTTCTTTTCTTTCTCCCTTCTCTTTCCCTTGTTTGCTAG
Found at i:98844 original size:12 final size:12
Alignment explanation
Indices: 98827--98852 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
98817 GCGAGTATAG
98827 TACTCATGATAC
1 TACTCATGATAC
98839 TACTCATGATAC
1 TACTCATGATAC
98851 TA
1 TA
98853 TAAAAATTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.35
Consensus pattern (12 bp):
TACTCATGATAC
Found at i:99937 original size:82 final size:82
Alignment explanation
Indices: 99800--99963 Score: 231
Period size: 82 Copynumber: 2.0 Consensus size: 82
99790 TTCTCTCCTT
* * * * * *
99800 TATATGAATCTTTTTTCCAAGAAGAGCTAAATAAACATCATAAAAAACAATATCCTTTGTCTTTT
1 TATATAAACCTTTTTACCAAGAAGAGCTAAAGAAACATCATAAAAAACAATATCCTTTCTCTTCT
* *
99865 TCATAACAGCCCAAGAA
66 TCAGAAAAGCCCAAGAA
*
99882 TATATAAACCTTTTTACCAA-AAGGAGCTGAAGAAACATCATAAAAAACAATATCCTTTCTCTTC
1 TATATAAACCTTTTTACCAAGAA-GAGCTAAAGAAACATCATAAAAAACAATATCCTTTCTCTTC
99946 TTCAGAAAAGCCCAAGAA
65 TTCAGAAAAGCCCAAGAA
99964 GTGCAAAAAA
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
81 2 0.03
82 70 0.97
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.29
Consensus pattern (82 bp):
TATATAAACCTTTTTACCAAGAAGAGCTAAAGAAACATCATAAAAAACAATATCCTTTCTCTTCT
TCAGAAAAGCCCAAGAA
Found at i:102246 original size:21 final size:21
Alignment explanation
Indices: 102222--102274 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
102212 TTCTACAATT
** *
102222 TGTATCGATACAATTGGTGCA
1 TGTATCGATACAATAAGTGAA
*
102243 TGTATTGATAC-ATAAGTGAA
1 TGTATCGATACAATAAGTGAA
102263 TGTATCGATACA
1 TGTATCGATACA
102275 TGTCTCAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.34
Consensus pattern (21 bp):
TGTATCGATACAATAAGTGAA
Found at i:103439 original size:12 final size:12
Alignment explanation
Indices: 103424--103458 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
103414 GTCACAACCT
103424 ATGTCACAAAAC
1 ATGTCACAAAAC
103436 ATGTCACAAAAC
1 ATGTCACAAAAC
103448 ATGTCACAAAA
1 ATGTCACAAAA
103459 TTTCCAGCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.51, C:0.23, G:0.09, T:0.17
Consensus pattern (12 bp):
ATGTCACAAAAC
Found at i:108301 original size:78 final size:78
Alignment explanation
Indices: 108208--108619 Score: 431
Period size: 79 Copynumber: 5.2 Consensus size: 78
108198 TTTACTTCTG
* *
108208 AGGGGATACTCCAACTTCGGTTTTATTTCTAAAACACCAATTTTTCATAATCGGGGATACTCCGA
1 AGGGGATACTCCAACCTCGGTTTTATTTCTAAAACACCAATTTTTCATAATCGGGGATACTCCAA
*
108273 CCTGTTATTTTCA
66 CCCGTTATTTTCA
* * *
108286 AGGGGATACTCCAACTTCTGTTTTATTTCTAAAACACCAATTTTCCATAATCGGGGATACTCCAA
1 AGGGGATACTCCAACCTCGGTTTTATTTCTAAAACACCAATTTTTCATAATCGGGGATACTCCAA
* *
108351 CCCCATTATTTCCGA
66 -CCCGTTATTTTC-A
* * * * * * *
108366 A-GAGATACTCTAACCCCGGTTTTATTT-TCAAAACATCGATTTTTCACAATCGAGGATACTCCA
1 AGGGGATACTCCAACCTCGGTTTTATTTCT-AAAACACCAATTTTTCATAATCGGGGATACTCCA
**
108429 ACCTCGTTATTTTTG
65 ACC-CGTTATTTTCA
* **
108444 AGGGAATACTCCAACCTCGGTTTTATTT-TCAAAACACTGATTTTTCACT-ATCGGGGATACTCC
1 AGGGGATACTCCAACCTCGGTTTTATTTCT-AAAACACCAATTTTTCA-TAATCGGGGATACTCC
*
108507 AACCCCGTTATTTTCG
64 AA-CCCGTTATTTTCA
* * * * * *
108523 AGGGGATA-TCTAACC-CTAGTTTTATTTCCAAAACACTAATTTTTCACAATTGGGGATACTCCA
1 AGGGGATACTCCAACCTC-GGTTTTATTTCTAAAACACCAATTTTTCATAATCGGGGATACTCCA
**
108586 ACTCCGTTATTTTTT
65 AC-CCGTTATTTTCA
*
108601 AGGAGATACTCCAACCTCG
1 AGGGGATACTCCAACCTCG
108620 AGATTTATCT
Statistics
Matches: 280, Mismatches: 41, Indels: 25
0.81 0.12 0.07
Matches are distributed among these distances:
77 2 0.01
78 129 0.46
79 144 0.51
80 5 0.02
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (78 bp):
AGGGGATACTCCAACCTCGGTTTTATTTCTAAAACACCAATTTTTCATAATCGGGGATACTCCAA
CCCGTTATTTTCA
Found at i:108599 original size:157 final size:157
Alignment explanation
Indices: 108227--108619 Score: 481
Period size: 157 Copynumber: 2.5 Consensus size: 157
108217 TCCAACTTCG
* * * * * * *
108227 GTTTTATTTCTAAAACACCAATTTTTCATAATCGGGGATACTCCGACCTGTTATTTTCAAGGGGA
1 GTTTTATTTCCAAAACACTAATTTTTCACAATCGGGGATACTCCAACCCGTTATTTTTAAGGGAA
* *
108292 TACTCCAACTTCTGTTTTATTTCTAAAACACCAATTTTCCATAATCGGGGATACTCCAACCCCAT
66 TACTCCAACCTCGGTTTTATTTCTAAAACACCAATTTTCCATAATCGGGGATACTCCAACCCCAT
*
108357 TATTTCCGAAGAGATACTCTAACCCCG
131 TATTTCCGAAGAGATACTCTAACCCCA
* * * *
108384 GTTTTATTTTCAAAACA-TCGATTTTTCACAATCGAGGATACTCCAACCTCGTTATTTTTGAGGG
1 GTTTTATTTCCAAAACACT-AATTTTTCACAATCGGGGATACTCCAACC-CGTTATTTTTAAGGG
** *
108448 AATACTCCAACCTCGGTTTTATTT-TCAAAACACTGATTTTTCACT-ATCGGGGATACTCCAACC
64 AATACTCCAACCTCGGTTTTATTTCT-AAAACACCAATTTTCCA-TAATCGGGGATACTCCAACC
* * * * *
108511 CCGTTATTTTCGAGGGGATA-TCTAACCCTA
127 CCATTATTTCCGAAGAGATACTCTAACCCCA
* *
108541 GTTTTATTTCCAAAACACTAATTTTTCACAATTGGGGATACTCCAACTCCGTTATTTTTTA-GGA
1 GTTTTATTTCCAAAACACTAATTTTTCACAATCGGGGATACTCCAAC-CCGTTATTTTTAAGGGA
108605 GATACTCCAACCTCG
65 -ATACTCCAACCTCG
108620 AGATTTATCT
Statistics
Matches: 202, Mismatches: 27, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
156 3 0.01
157 115 0.57
158 83 0.41
159 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (157 bp):
GTTTTATTTCCAAAACACTAATTTTTCACAATCGGGGATACTCCAACCCGTTATTTTTAAGGGAA
TACTCCAACCTCGGTTTTATTTCTAAAACACCAATTTTCCATAATCGGGGATACTCCAACCCCAT
TATTTCCGAAGAGATACTCTAACCCCA
Found at i:112956 original size:20 final size:21
Alignment explanation
Indices: 112933--112977 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
112923 AGAGAAGAAA
112933 AAAAG-AAAAAATGCAAAC-AC
1 AAAAGCAAAAAA-GCAAACAAC
*
112953 AAAAGCAAAAAAGGAAACAAC
1 AAAAGCAAAAAAGCAAACAAC
112974 AAAA
1 AAAA
112978 ATTGAAAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.73, C:0.13, G:0.11, T:0.02
Consensus pattern (21 bp):
AAAAGCAAAAAAGCAAACAAC
Found at i:112956 original size:21 final size:22
Alignment explanation
Indices: 112932--112978 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 22
112922 AAGAGAAGAA
112932 AAAAAG-AAAAAATGCAAAC-AC
1 AAAAAGCAAAAAA-GCAAACAAC
*
112953 -AAAAGCAAAAAAGGAAACAAC
1 AAAAAGCAAAAAAGCAAACAAC
112974 AAAAA
1 AAAAA
112979 TTGAAAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
20 10 0.45
21 8 0.36
22 4 0.18
ACGTcount: A:0.74, C:0.13, G:0.11, T:0.02
Consensus pattern (22 bp):
AAAAAGCAAAAAAGCAAACAAC
Found at i:114403 original size:29 final size:29
Alignment explanation
Indices: 114361--114492 Score: 115
Period size: 29 Copynumber: 4.4 Consensus size: 29
114351 CAACCCCCAA
114361 TGGCATCCTTTTTCAAAGTC-TACACTCAG
1 TGGCATCCTTTTTCAAAGTCATA-ACTCAG
**
114390 TGGCATTTTTTTTCAAAGTTCATAACTCAG
1 TGGCATCCTTTTTCAAAG-TCATAACTCAG
* **
114420 TGGCATCCTTTTT-AAAGTCCACAACTTTG
1 TGGCATCCTTTTTCAAAGT-CATAACTCAG
* * *
114449 TGGCACCCTTTTTCTAAAGTCCACAACTCCG
1 TGGCATCCTTTTTC-AAAGT-CATAACTCAG
* *
114480 TGACACCCTTTTT
1 TGGCATCCTTTTT
114493 TTTTAAAGCC
Statistics
Matches: 87, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
28 1 0.01
29 39 0.45
30 19 0.22
31 28 0.32
ACGTcount: A:0.23, C:0.27, G:0.13, T:0.37
Consensus pattern (29 bp):
TGGCATCCTTTTTCAAAGTCATAACTCAG
Found at i:114420 original size:30 final size:29
Alignment explanation
Indices: 114369--114438 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 29
114359 AATGGCATCC
114369 TTTTTCAAAGTCTACACTCAGTGGCATTT
1 TTTTTCAAAGTCTACACTCAGTGGCATTT
**
114398 TTTTTCAAAGTTCATA-ACTCAGTGGCATCC
1 TTTTTCAAAG-TC-TACACTCAGTGGCATTT
114428 TTTTT-AAAGTC
1 TTTTTCAAAGTC
114439 CACAACTTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
28 2 0.05
29 14 0.38
30 19 0.51
31 2 0.05
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.41
Consensus pattern (29 bp):
TTTTTCAAAGTCTACACTCAGTGGCATTT
Found at i:114461 original size:59 final size:60
Alignment explanation
Indices: 114361--114492 Score: 142
Period size: 59 Copynumber: 2.2 Consensus size: 60
114351 CAACCCCCAA
* *** * *
114361 TGGCATCCTTTTTCAAAGTCTACACTCAGTGGCATTTTTTTTC-AAAGTTCATAACTCAG
1 TGGCATCCTTTTTCAAAGTCCACACTCAGTGGCACCCTTTTTCTAAAGTCCACAACTCAG
** *
114420 TGGCATCCTTTTT-AAAGTCCACAACTTTGTGGCACCCTTTTTCTAAAGTCCACAACTCCG
1 TGGCATCCTTTTTCAAAGTCCAC-ACTCAGTGGCACCCTTTTTCTAAAGTCCACAACTCAG
* *
114480 TGACACCCTTTTT
1 TGGCATCCTTTTT
114493 TTTTAAAGCC
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
58 8 0.13
59 28 0.47
60 24 0.40
ACGTcount: A:0.23, C:0.27, G:0.13, T:0.37
Consensus pattern (60 bp):
TGGCATCCTTTTTCAAAGTCCACACTCAGTGGCACCCTTTTTCTAAAGTCCACAACTCAG
Found at i:114655 original size:78 final size:83
Alignment explanation
Indices: 114559--114746 Score: 217
Period size: 78 Copynumber: 2.3 Consensus size: 83
114549 ATTTTTTTTT
* * *
114559 CTTTTTTCCTTTGTCCTCAAGGAGTAGGACCCATTTCATTCT-CCTTTAT-CTTTGTCCTCAAAA
1 CTTTTTCCCTTTGTCCTCAAGGAGCAGGACCCATTTCATTCTCCCTTTATCCTCTGTCCTCAAAA
* *
114622 AGCAG-G-ACTCTTA-CTC
66 AGCAGAGCACT-TAATCCC
* * * * * *
114638 C-TTTTCCCTTTGTCCTCAAGAAGCAGGACGCATTTCTTTTTCCCTTTTTCCTCTGTCCTCAAAG
1 CTTTTTCCCTTTGTCCTCAAGGAGCAGGACCCATTTCATTCTCCCTTTATCCTCTGTCCTCAAAA
114702 AGCAGACGCACTTAATCCC
66 AGCAGA-GCACTTAATCCC
114721 CTTTTTCCCTTTGTCCTCAAGGAGCA
1 CTTTTTCCCTTTGTCCTCAAGGAGCA
114747 AGAACAATAT
Statistics
Matches: 90, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
78 34 0.38
79 7 0.08
80 17 0.19
82 3 0.03
83 6 0.07
84 23 0.26
ACGTcount: A:0.19, C:0.30, G:0.13, T:0.37
Consensus pattern (83 bp):
CTTTTTCCCTTTGTCCTCAAGGAGCAGGACCCATTTCATTCTCCCTTTATCCTCTGTCCTCAAAA
AGCAGAGCACTTAATCCC
Found at i:114685 original size:43 final size:40
Alignment explanation
Indices: 114637--114746 Score: 107
Period size: 43 Copynumber: 2.6 Consensus size: 40
114627 GACTCTTACT
* *
114637 CCTTTTCCCTTTGTCCTCAAGAAGCAGGACGCATTTCTT-TTTC
1 CCTTTTCCCTTTGTCCTCAAGAAGCA-GACGCA---CTTAATCC
* *
114680 CCTTTTTCCTCTGTCCTCAA-AGAGCAGACGCACTTAATCC
1 CCTTTTCCCTTTGTCCTCAAGA-AGCAGACGCACTTAATCC
*
114720 CCTTTTTCCCTTTGTCCTCAAGGAGCA
1 CC-TTTTCCCTTTGTCCTCAAGAAGCA
114747 AGAACAATAT
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
39 3 0.05
40 4 0.07
41 20 0.36
42 7 0.12
43 22 0.39
ACGTcount: A:0.18, C:0.33, G:0.14, T:0.35
Consensus pattern (40 bp):
CCTTTTCCCTTTGTCCTCAAGAAGCAGACGCACTTAATCC
Found at i:114690 original size:36 final size:36
Alignment explanation
Indices: 114608--114690 Score: 105
Period size: 37 Copynumber: 2.3 Consensus size: 36
114598 TCTCCTTTAT
*
114608 CTTTGTCCTCAAAAAGCAGGACTCTTACTCCTTTTCC
1 CTTTGTCCTCAAAAAGCAGGACGCTTA-TCCTTTTCC
* *
114645 CTTTGTCCTCAAGAAGCAGGACGCATT-TCTTTTTCC
1 CTTTGTCCTCAAAAAGCAGGACGC-TTATCCTTTTCC
*
114681 CTTTTTCCTC
1 CTTTGTCCTC
114691 TGTCCTCAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
36 17 0.41
37 22 0.54
38 2 0.05
ACGTcount: A:0.18, C:0.31, G:0.12, T:0.39
Consensus pattern (36 bp):
CTTTGTCCTCAAAAAGCAGGACGCTTATCCTTTTCC
Found at i:114746 original size:41 final size:42
Alignment explanation
Indices: 114559--114746 Score: 137
Period size: 41 Copynumber: 4.6 Consensus size: 42
114549 ATTTTTTTTT
* * * *
114559 CTTTTTTCCTTTGTCCTCAAGGAGTAGGACCCAT-TTCATTCTC
1 CTTTTTCCCTTTGTCCTCAAGGAGCAGGACGCATCTT-A-TCCC
* ** *
114602 CTTTAT--CTTTGTCCTCAAAAAGCAGGA--C-TCTTA-CTC
1 CTTTTTCCCTTTGTCCTCAAGGAGCAGGACGCATCTTATCCC
* * *
114638 C-TTTTCCCTTTGTCCTCAAGAAGCAGGACGCATTTCTTTTTCC
1 CTTTTTCCCTTTGTCCTCAAGGAGCAGGACGCA--TCTTATCCC
* *
114681 CTTTTT-CCTCTGTCCTCAAAGAGCA-GACGCA-CTTAATCCC
1 CTTTTTCCCTTTGTCCTCAAGGAGCAGGACGCATCTT-ATCCC
114721 CTTTTTCCCTTTGTCCTCAAGGAGCA
1 CTTTTTCCCTTTGTCCTCAAGGAGCA
114747 AGAACAATAT
Statistics
Matches: 117, Mismatches: 16, Indels: 26
0.74 0.10 0.16
Matches are distributed among these distances:
35 3 0.03
36 4 0.03
37 20 0.17
38 2 0.02
39 7 0.06
40 9 0.08
41 35 0.30
42 10 0.09
43 23 0.20
44 4 0.03
ACGTcount: A:0.19, C:0.30, G:0.13, T:0.37
Consensus pattern (42 bp):
CTTTTTCCCTTTGTCCTCAAGGAGCAGGACGCATCTTATCCC
Found at i:114985 original size:293 final size:283
Alignment explanation
Indices: 114554--115201 Score: 752
Period size: 293 Copynumber: 2.2 Consensus size: 283
114544 CGCCTATTTT
*
114554 TTTTTCTTTTTTCCTTTGTCCTCAAGGAGTAGGACCCATTTCATTCTCCTTTAT-CTTTGTCCTC
1 TTTTTCTTTTTTCCTTTGTCCTCAAGGAG-CGGACCCATTTCATTCTCCTTTATCCTTTGTCCTC
* * * * *
114618 AAAAAGCAGGACTCTTACTCCTTTTCCCTTTGTCCTCAAGAAGCAGGACGCATTTCTTTTTCCCT
65 AAAAAGAAAGACTCCTACTCCTTTTACCTTTGTCCTCAAGAAGCAAGACGCATTTCTTTTTCCCT
* * *
114683 TTTTCCTCTGTCCTCAAAGAGCA-GACGCACTTAATCCCCTTTTTCCCTTTGTCCTCAAGGAGCA
130 TTTTCCTCTGTCCTCAAAGAACAGGACACACTTAATCCCC-TTTTCCCTTTATCCTCAAGGAGCA
* *
114747 AGA-ACAATATTTATTTTTCCTTTTTCTTTTTATCCTCGAGGAGCATGATGCAATTCATCCCTTT
194 AGACAC-AT-TTTATTTTTCCTTTTTC-TTTTATCCTCAAGGAGC---A-GCAATTCAT-CCTCT
114811 TTTCCCTTTGTCCTCAAAGAGCAAGA-CACGCAG
251 TTTCCCTTTGTCCTCAAAGAGCAAGAGCAC-CAG
114844 TTTTTCTTTTTTCCTTTGTCCTCAAGGAGCGGACCCCATTTCAATTCTCCTTTATCCTTTGTCCT
1 TTTTTCTTTTTTCCTTTGTCCTCAAGGAGCGGA-CCCATTTC-ATTCTCCTTTATCCTTTGTCCT
* * **
114909 CAAAGAGAAAGA-TGCCTACTTCCTTTTACCTTTGTCGTCAA-AGAGCAAGATTCA-TTCTTTTT
64 CAAAAAGAAAGACT-CCTAC-TCCTTTTACCTTTGTCCTCAAGA-AGCAAGACGCATTTC-TTTT
* * * *
114971 TTCCTTTTTCCTCTGTCCTTAAAGAACAGGACATAGTTAATCCCCTTTTCCCTTTATCCTCAAGG
125 TCCCTTTTTCCTCTGTCCTCAAAGAACAGGACACACTTAATCCCCTTTTCCCTTTATCCTCAAGG
* * *
115036 AGCAAGACACATTTTTTTTTTCTTTTTTCTTTTATCCTCAAGGAGCAGCACTTCATCCTCTTTTC
190 AGCAAGACACATTTTATTTTTCCTTTTTCTTTTATCCTCAAGGAGCAGCAATTCATCCTCTTTTC
* * * * **
115101 CCTTTGTCCTCATAGAGGAGGATGTACCTT
255 CCTTTGTCCTCAAAGAGCAAGA-GCACCAG
* * * * * * * *
115131 TTTTTCTTTTCTCTTTTGTCTTCAAAGAGCAGAACCCATTTCATTTTCTTTTATCCTTTGTCCTT
1 TTTTTCTTTTTTCCTTTGTCCTCAAGGAGC-GGACCCATTTCATTCTCCTTTATCCTTTGTCCTC
115196 AAAAAG
65 AAAAAG
115202 TAGGACATAT
Statistics
Matches: 309, Mismatches: 37, Indels: 28
0.83 0.10 0.07
Matches are distributed among these distances:
286 52 0.17
287 43 0.14
288 5 0.02
289 3 0.01
290 37 0.12
291 29 0.09
292 41 0.13
293 84 0.27
294 15 0.05
ACGTcount: A:0.21, C:0.26, G:0.12, T:0.41
Consensus pattern (283 bp):
TTTTTCTTTTTTCCTTTGTCCTCAAGGAGCGGACCCATTTCATTCTCCTTTATCCTTTGTCCTCA
AAAAGAAAGACTCCTACTCCTTTTACCTTTGTCCTCAAGAAGCAAGACGCATTTCTTTTTCCCTT
TTTCCTCTGTCCTCAAAGAACAGGACACACTTAATCCCCTTTTCCCTTTATCCTCAAGGAGCAAG
ACACATTTTATTTTTCCTTTTTCTTTTATCCTCAAGGAGCAGCAATTCATCCTCTTTTCCCTTTG
TCCTCAAAGAGCAAGAGCACCAG
Found at i:115319 original size:83 final size:82
Alignment explanation
Indices: 114807--115559 Score: 395
Period size: 83 Copynumber: 9.1 Consensus size: 82
114797 CAATTCATCC
* * * * *
114807 CTTTTTTCCCTTTGTCCTCAAAGAGCAAGACACGCAGTT-TTTCTTTTTTCCTTTGTCCTCAAGG
1 CTTTTTT-CCTTTGTCCTCAAAGAGC-AG-GACGCACTTAATCCCTTTTTCCTTTGTCCTCAAGG
* * ** *
114871 AGC-GGACCCCATTTCAATTCT
63 AGCAAGA-CACA-TTCTTTTTT
* * * * * * * * * *
114892 CCTTTATCCTTTGTCCTCAAAGAGAAAGATGC-C-TACTTCCTTTTACCTTTGTCGTCAAAGAGC
1 CTTTTTTCCTTTGTCCTCAAAGAGCAGGACGCACTTAATCCCTTTTTCCTTTGTCCTCAAGGAGC
**
114955 AAGATTCATTCTTTTTTT
66 AAGACACATTC-TTTTTT
* * * * ** * * *
114973 CCTTTTTCCTCTGTCCTTAAAGAACAGGACATAGTTAATCCCCTTTTCCCTTTATCCTCAAGGAG
1 CTTTTTTCCTTTGTCCTCAAAGAGCAGGACGCACTTAAT-CCCTTTTTCCTTTGTCCTCAAGGAG
*
115038 CAAGACACATTTTTTTTTT
65 CAAGACACA-TTCTTTTTT
* * * * *
115057 CTTTTTTCTTTTATCCTC-AAG-G-AGCA-GCACTTCATCCTCTTTTCCCTTTGTCCTCATAGAG
1 CTTTTTTCCTTTGTCCTCAAAGAGCAGGACGCACTTAATCC-CTTTTTCCTTTGTCCTC--A-AG
* *
115118 GAGGATGTAC-C--T-TTTTTT
62 GAGCAAG-ACACATTCTTTTTT
* * * * * * * ** * **
115136 CTTTTCTCTTTTGTCTTCAAAGAGCAGAACCCATTTCATTTTCTTTTATCCTTTGTCCTTAAAAA
1 CTTTTTTCCTTTGTCCTCAAAGAGCAGGACGCACTT-AATCCCTTTT-TCCTTTGTCCTCAAGGA
* * *
115201 GTAGGACATATTCTTTTTTT
64 GCAAGACACATTC-TTTTTT
* * * *
115221 CTTTTTTCCTCTGTCCTCAATGAGCAGGACGCACTTAATCCCTTTTTCCTTTTATCCTTAAGGAG
1 CTTTTTTCCTTTGTCCTCAAAGAGCAGGACGCACTTAATCCCTTTTTCC-TTTGTCCTCAAGGAG
115286 CAAGACACATTCTTTTTT
65 CAAGACACATTCTTTTTT
* * * * * * *
115304 CTTTTTTCCTTTGTCCTCAAGGAGTAGGACGCACTTTATCCCCTTTTCCCTTGGTCCTGAAAGAG
1 CTTTTTTCCTTTGTCCTCAAAGAGCAGGACGCACTTAAT-CCCTTTTTCCTTTGTCCTCAAGGAG
* * **
115369 TAGGACGTATTCTTCTTTT
65 CAAGACACATTCTT-TTTT
* * * * ** * *
115388 C-CTTTTCCTTTGTCATCAAAGAGTAAGATACACTTAATCCCTTTTTTCTTTGTCCTCAAGAAGC
1 CTTTTTTCCTTTGTCCTCAAAGAGCAGGACGCACTTAATCCCTTTTTCCTTTGTCCTCAAGGAGC
*
115452 AA-A-ACACT-TTTTTT
66 AAGACACATTCTTTTTT
* * * * * * *
115466 CTTTTTTTCTCTATCCTCAAGGAGCAGAATGCACTTTATCTCCTTTTTCCTTTGTCCTCAAGGAG
1 CTTTTTTCCTTTGTCCTCAAAGAGCAGGACGCACTTAATC-CCTTTTTCCTTTGTCCTCAAGGAG
* * **
115531 TAGGACGTATTCTTTTTT
65 CAAGACACATTCTTTTTT
* *
115549 CCTTTCTCCTT
1 CTTTTTTCCTT
115560 ATTCTTCTTT
Statistics
Matches: 499, Mismatches: 138, Indels: 64
0.71 0.20 0.09
Matches are distributed among these distances:
78 5 0.01
79 52 0.10
80 56 0.11
81 62 0.12
82 32 0.06
83 133 0.27
84 118 0.24
85 41 0.08
ACGTcount: A:0.20, C:0.25, G:0.12, T:0.42
Consensus pattern (82 bp):
CTTTTTTCCTTTGTCCTCAAAGAGCAGGACGCACTTAATCCCTTTTTCCTTTGTCCTCAAGGAGC
AAGACACATTCTTTTTT
Found at i:115485 original size:162 final size:165
Alignment explanation
Indices: 115185--115559 Score: 443
Period size: 162 Copynumber: 2.3 Consensus size: 165
115175 TTTCTTTTAT
* * * * * * * *
115185 CCTTTGTCCTTAAAAAGTAGGACATATTCTTTTTTTCTTTTTTCCTCTGTCCTCAATGAGCAGGA
1 CCTTTGTCCTCAAAGAGTAGGACGTATTC-TTTTTTC-CTTTTCCTTTGTCATCAAAGAGCAAGA
* * * * *
115250 CGCACTTAATCCCTTTTTCCTTTTATCCTTAAGGAGCAAGACACATTCTTTTTTCTTTTTTCCTT
64 CACACTTAATCCCTTTTTCCTTTTATCCTCAAGAAGCAAGACACACTCTTTTTTCTTTTTTCCTC
* * *
115315 TGTCCTCAAGGAGTAGGACGCACTTTATCCCCTTTTC
129 TATCCTCAAGGAGCAGAACGCACTTTATCCCCTTTTC
* * * *
115352 CCTTGGTCCTGAAAGAGTAGGACGTATTCTTCTTTTCCTTTTCCTTTGTCATCAAAGAGTAAGAT
1 CCTTTGTCCTCAAAGAGTAGGACGTATTCTT-TTTTCCTTTTCCTTTGTCATCAAAGAGCAAGAC
* * *
115417 ACACTTAATCCCTTTTTTC-TTTGTCCTCAAGAAGCAA-A-ACACT-TTTTTTCTTTTTTTCTCT
65 ACACTTAATCCCTTTTTCCTTTTATCCTCAAGAAGCAAGACACACTCTTTTTTCTTTTTTCCTCT
* * *
115478 ATCCTCAAGGAGCAGAATGCACTTTATCTCCTTTTT
130 ATCCTCAAGGAGCAGAACGCACTTTATCCCCTTTTC
*
115514 CCTTTGTCCTCAAGGAGTAGGACGTATTCTTTTTTCCTTTCTCCTT
1 CCTTTGTCCTCAAAGAGTAGGACGTATTCTTTTTTCCTTT-TCCTT
115560 ATTCTTCTTT
Statistics
Matches: 178, Mismatches: 28, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
161 9 0.05
162 79 0.44
163 4 0.02
164 1 0.01
165 15 0.08
166 40 0.22
167 30 0.17
ACGTcount: A:0.20, C:0.24, G:0.13, T:0.43
Consensus pattern (165 bp):
CCTTTGTCCTCAAAGAGTAGGACGTATTCTTTTTTCCTTTTCCTTTGTCATCAAAGAGCAAGACA
CACTTAATCCCTTTTTCCTTTTATCCTCAAGAAGCAAGACACACTCTTTTTTCTTTTTTCCTCTA
TCCTCAAGGAGCAGAACGCACTTTATCCCCTTTTC
Found at i:115513 original size:41 final size:39
Alignment explanation
Indices: 115390--115530 Score: 122
Period size: 41 Copynumber: 3.5 Consensus size: 39
115380 CTTCTTTTCC
* * * * *
115390 TTTTCCTTTGTCATCAAAGAGTAAGATACACTTAATC-CCT
1 TTTTTCTTTGTCCTCAAGGAGCAA-A-ACACTTTATCTCCT
* * * *
115430 TTTTTCTTTGTCCTCAAGAAGCAAAACACTTTTTTTCTT
1 TTTTTCTTTGTCCTCAAGGAGCAAAACACTTTATCTCCT
* * *
115469 TTTTTCTCTATCCTCAAGGAGCAGAATGCACTTTATCTCCT
1 TTTTTCTTTGTCCTCAAGGAGCA-AA-ACACTTTATCTCCT
*
115510 TTTTCCTTTGTCCTCAAGGAG
1 TTTTTCTTTGTCCTCAAGGAG
115531 TAGGACGTAT
Statistics
Matches: 79, Mismatches: 19, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
38 7 0.09
39 23 0.29
40 21 0.27
41 28 0.35
ACGTcount: A:0.23, C:0.23, G:0.11, T:0.42
Consensus pattern (39 bp):
TTTTTCTTTGTCCTCAAGGAGCAAAACACTTTATCTCCT
Found at i:115898 original size:30 final size:31
Alignment explanation
Indices: 115828--115935 Score: 103
Period size: 30 Copynumber: 3.5 Consensus size: 31
115818 ATGGCACCTT
* * * *
115828 AGTCAAAGCCCACACAAAATTGGTGACACCCT
1 AGTCAAAGCTCACAC-AAGTTGGTTACACCCG
*
115860 AGTCAAAGCTCGCACAAGTT-GTTACACCCG
1 AGTCAAAGCTCACACAAGTTGGTTACACCCG
* * *
115890 AGTTAAAGCTCACACGAGTTGGTTATACCCTG
1 AGTCAAAGCTCACACAAGTTGGTTACACCC-G
*
115922 -GTCTAAGCTCACAC
1 AGTCAAAGCTCACAC
115936 GATGGTTGGC
Statistics
Matches: 63, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
30 25 0.40
31 24 0.38
32 14 0.22
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (31 bp):
AGTCAAAGCTCACACAAGTTGGTTACACCCG
Found at i:115996 original size:31 final size:31
Alignment explanation
Indices: 115807--116006 Score: 127
Period size: 31 Copynumber: 6.4 Consensus size: 31
115797 CAAAGAAGTT
** * *
115807 CACACGAGTTAATGGCACCTTAGTCAAAGCC
1 CACACGAGTTGGTGACACCCTAGTCAAAGCC
* * *
115838 CACACAAAATTGGTGACACCCTAGTCAAAGCT
1 CACAC-GAGTTGGTGACACCCTAGTCAAAGCC
* * * * * *
115870 CGCACAAGTT-GTTACACCCGAGTTAAAGCT
1 CACACGAGTTGGTGACACCCTAGTCAAAGCC
* * * * *
115900 CACACGAGTTGGTTATACCCTGGTCTAAGCT
1 CACACGAGTTGGTGACACCCTAGTCAAAGCC
* *
115931 CACACGATGGTTGGCATG-CA-TCTGAATCAAAGCC
1 CACACGA--GTTGG--TGACACCCT-AGTCAAAGCC
* *
115965 CACACGAGTTGGTGGCACCCTAGTTAAAGCC
1 CACACGAGTTGGTGACACCCTAGTCAAAGCC
115996 CACACGAGTTG
1 CACACGAGTTG
116007 CCGGGTACCC
Statistics
Matches: 131, Mismatches: 29, Indels: 18
0.74 0.16 0.10
Matches are distributed among these distances:
30 27 0.21
31 52 0.40
32 30 0.23
33 7 0.05
34 14 0.11
35 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (31 bp):
CACACGAGTTGGTGACACCCTAGTCAAAGCC
Found at i:116131 original size:31 final size:31
Alignment explanation
Indices: 116093--116479 Score: 144
Period size: 31 Copynumber: 12.5 Consensus size: 31
116083 TAGTCAAAGC
* *
116093 CACCCGAGTCTAAGCCCGTATAAGTTGGTGG
1 CACCCGAGTCAAAGCCCGCATAAGTTGGTGG
* * * ***
116124 CACCCGAGTCAAAGCTCGCACAAGTTAGCAA
1 CACCCGAGTCAAAGCCCGCATAAGTTGGTGG
* * * * * * * *
116155 AACCCAAGCCTAAGTCTGCACAAGTTGGCGG
1 CACCCGAGTCAAAGCCCGCATAAGTTGGTGG
* * *
116186 CACCCGAGTCTAAGCCCACATGAGTTGGTGG
1 CACCCGAGTCAAAGCCCGCATAAGTTGGTGG
* * * * *
116217 CACCCTAGTCAAAGTCCACATTAGTTAGTGG
1 CACCCGAGTCAAAGCCCGCATAAGTTGGTGG
* * ** * * * *
116248 CACCCTAGTCAAAGCTCAAATGAGTTAGCGA
1 CACCCGAGTCAAAGCCCGCATAAGTTGGTGG
** * * * * ***
116279 CACTTGAGTCTAAGCTCACATGAGTTGACAG
1 CACCCGAGTCAAAGCCCGCATAAGTTGGTGG
** *
116310 CACCCGAGTCAAAGCCTACATGAGTTGGTGG
1 CACCCGAGTCAAAGCCCGCATAAGTTGGTGG
* * **** ** *
116341 CACCCTAGTTAAAGTTTACACGAGTTAGTGG
1 CACCCGAGTCAAAGCCCGCATAAGTTGGTGG
* * * **
116372 CACTCAAGTCAAAGCCCACACGAGTTGGTGG
1 CACCCGAGTCAAAGCCCGCATAAGTTGGTGG
** * * * *
116403 CACCTTAATCAAAGCCCGCATGAGTTGATGA
1 CACCCGAGTCAAAGCCCGCATAAGTTGGTGG
* * * * *
116434 CAACCTAGTCAAAGCTCGCACAAGTTGGCGG
1 CACCCGAGTCAAAGCCCGCATAAGTTGGTGG
*
116465 CACCCGAGTTAAAGC
1 CACCCGAGTCAAAGC
116480 TCATACGAGT
Statistics
Matches: 268, Mismatches: 88, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
31 268 1.00
ACGTcount: A:0.29, C:0.27, G:0.24, T:0.20
Consensus pattern (31 bp):
CACCCGAGTCAAAGCCCGCATAAGTTGGTGG
Found at i:116428 original size:62 final size:62
Alignment explanation
Indices: 116184--116479 Score: 215
Period size: 62 Copynumber: 4.8 Consensus size: 62
116174 ACAAGTTGGC
* * * *
116184 GGCACCCGAGTCTAAGCCCACATGAGTTGGTGGCACCCTAGTCAAAGTCCACATTAGTTAGT
1 GGCACCCAAGTCAAAGCCCACATGAGTTGGTGGCACCCTAGTCAAAGCCCACATGAGTTAGT
* * * * * * * * * *
116246 GGCACCCTAGTCAAAGCTCAAATGAGTTAGCGACA-CTTGAGTCTAAGCTCACATGAGTT-GAC
1 GGCACCCAAGTCAAAGCCCACATGAGTTGGTGGCACCCT-AGTCAAAGCCCACATGAGTTAG-T
* * * * *** *
116308 AGCACCCGAGTCAAAGCCTACATGAGTTGGTGGCACCCTAGTTAAAGTTTACACGAGTTAGT
1 GGCACCCAAGTCAAAGCCCACATGAGTTGGTGGCACCCTAGTCAAAGCCCACATGAGTTAGT
* * * * *
116370 GGCACTCAAGTCAAAGCCCACACGAGTTGGTGGCACCTTAATCAAAGCCCGCATGAGTT-GAT
1 GGCACCCAAGTCAAAGCCCACATGAGTTGGTGGCACCCTAGTCAAAGCCCACATGAGTTAG-T
* * * * * *
116432 GACAACCTAGTCAAAGCTCGCACA--AGTTGGCGGCACCCGAGTTAAAGC
1 GGCACCCAAGTCAAAGC-C-CACATGAGTTGGTGGCACCCTAGTCAAAGC
116480 TCATACGAGT
Statistics
Matches: 177, Mismatches: 50, Indels: 14
0.73 0.21 0.06
Matches are distributed among these distances:
61 4 0.02
62 165 0.93
63 4 0.02
64 4 0.02
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.21
Consensus pattern (62 bp):
GGCACCCAAGTCAAAGCCCACATGAGTTGGTGGCACCCTAGTCAAAGCCCACATGAGTTAGT
Found at i:116467 original size:93 final size:93
Alignment explanation
Indices: 116173--116494 Score: 295
Period size: 93 Copynumber: 3.5 Consensus size: 93
116163 CCTAAGTCTG
* * * *
116173 CACAAGTTGGCGGCACCCGAGTCTAAGCCCACATGAGTTGGTGGCACCCTAGTCAAAGTCCACAT
1 CACAAGTTAGCGGCACCCGAGTCAAAGCCCACACGAGTTGGTGGCACCCTAGTCAAAGCCCACAT
*
116238 TAGTT-AGTGGCACCCTAGTCAAAGCTCA
66 GAGTTGA-TGGCACCCTAGTCAAAGCTCA
* ** * ** * * * *** * *
116266 AATGAGTTAGCGACACTTGAGTCTAAGCTCACATGAGTTGACAGCACCCGAGTCAAAGCCTACAT
1 CACAAGTTAGCGGCACCCGAGTCAAAGCCCACACGAGTTGGTGGCACCCTAGTCAAAGCCCACAT
* * * *
116331 GAGTTGGTGGCACCCTAGTTAAAGTTTA
66 GAGTTGATGGCACCCTAGTCAAAGCTCA
* * * * * * *
116359 CACGAGTTAGTGGCACTCAAGTCAAAGCCCACACGAGTTGGTGGCACCTTAATCAAAGCCCGCAT
1 CACAAGTTAGCGGCACCCGAGTCAAAGCCCACACGAGTTGGTGGCACCCTAGTCAAAGCCCACAT
* * *
116424 GAGTTGATGACAACCTAGTCAAAGCTCG
66 GAGTTGATGGCACCCTAGTCAAAGCTCA
* * * *
116452 CACAAGTTGGCGGCACCCGAGTTAAAGCTCATACGAGTTGGTG
1 CACAAGTTAGCGGCACCCGAGTCAAAGCCCACACGAGTTGGTG
116495 TCACGTAAGT
Statistics
Matches: 177, Mismatches: 51, Indels: 2
0.77 0.22 0.01
Matches are distributed among these distances:
93 177 1.00
ACGTcount: A:0.29, C:0.25, G:0.25, T:0.21
Consensus pattern (93 bp):
CACAAGTTAGCGGCACCCGAGTCAAAGCCCACACGAGTTGGTGGCACCCTAGTCAAAGCCCACAT
GAGTTGATGGCACCCTAGTCAAAGCTCA
Done.