Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 88 of 410
Found at i:25644862 original size:40 final size:40
Alignment explanation
Indices: 25644807--25645016 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
25644797 AACATTGGAA
25644807 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
25644847 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
25644887 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
25644927 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
25644966 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
25645007 CTATATCCGG
1 ATATATCCGG
25645017 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:25648852 original size:42 final size:42
Alignment explanation
Indices: 25648741--25648903 Score: 200
Period size: 42 Copynumber: 3.9 Consensus size: 42
25648731 TACCATACCA
* *
25648741 ATGCCATATCCCAGATATAGTCTTACATGAAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCGTATCG
* * *
25648783 ATGCCAATAGCCCAGCTATGGTCTTACACGAAGTCTCGTATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAATCTCGTATCG
* * ** * *
25648826 ATGCCATATCCCAGGTGTGGTCTTACAAAAAATCTCATATAG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCGTATCG
* *
25648868 ATGTCATATCCCAGATATGGTCTTACACGTAATCTC
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTC
25648904 AGTAATAATG
Statistics
Matches: 101, Mismatches: 19, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
42 64 0.63
43 37 0.37
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCGTATCG
Found at i:25660127 original size:24 final size:24
Alignment explanation
Indices: 25660073--25660119 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
25660063 CCCACAAAAG
**
25660073 CTACTGCTGAAGCACCCACTCAAC
1 CTACTGCCAAAGCACCCACTCAAC
*
25660097 CTACTGCCAAAGCACCTACTCAA
1 CTACTGCCAAAGCACCCACTCAA
25660120 TCTGCTGCGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.32, C:0.40, G:0.11, T:0.17
Consensus pattern (24 bp):
CTACTGCCAAAGCACCCACTCAAC
Found at i:25669474 original size:3 final size:3
Alignment explanation
Indices: 25669468--25669551 Score: 168
Period size: 3 Copynumber: 28.0 Consensus size: 3
25669458 GATGATGATG
25669468 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
25669516 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
25669552 TGCTATTTCT
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 81 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:25671044 original size:18 final size:18
Alignment explanation
Indices: 25671021--25671057 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
25671011 CATTGATTAA
25671021 GTATTTGGCGATAAACTT
1 GTATTTGGCGATAAACTT
25671039 GTATTTGGCGATAAACTT
1 GTATTTGGCGATAAACTT
25671057 G
1 G
25671058 CCTTAGAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.11, G:0.24, T:0.38
Consensus pattern (18 bp):
GTATTTGGCGATAAACTT
Found at i:25675060 original size:418 final size:418
Alignment explanation
Indices: 25674283--25675101 Score: 1485
Period size: 418 Copynumber: 2.0 Consensus size: 418
25674273 CTATGTTTGA
* *
25674283 AAGAATTTTAGCTTTCAAGTATAGAATTTTTATCGTAAAGGGAAAGTAGGTTAAGCAAGAACGTC
1 AAGAATTTTAACTTTCAAGAATAGAATTTTTATCGTAAAGGGAAAGTAGGTTAAGCAAGAACGTC
*
25674348 TAACGGTACAATTCCGCATTTCTCTCAGGATGATTTTTCCCACATCAATGGTCTTTCCAGTTAAA
66 TAACGGCACAATTCCGCATTTCTCTCAGGATGATTTTTCCCACATCAATGGTCTTTCCAGTTAAA
*
25674413 ATCGAGTATATTAAGACCATTCGCTCTAATGAAATTGTAGTCCCATGTGAGTTAGGCATAAGGCT
131 ATCGAGTATATTAAGACCATTCACTCTAATGAAATTGTAGTCCCATGTGAGTTAGGCATAAGGCT
25674478 AAAACAGATGAAATAGAACCTTAACTTTGCGAGTGGTCTCAAATATTCTGTTCGACAAGTGTAGA
196 AAAACAGATGAAATAGAACCTTAACTTTGCGAGTGGTCTCAAATATTCTGTTCGACAAGTGTAGA
*
25674543 TTCCTTGCTTTGACACAATCCAGTTAGAACCTAGAACTGTAAGTTCCTCGAGAATATCTTGCAAA
261 TTCCTTGCTTTGACACAATCCACTTAGAACCTAGAACTGTAAGTTCCTCGAGAATATCTTGCAAA
25674608 TTTTCAGGCTCTATATTGCTCATCAAGGAAGAATATTCGTCATTTTCGAAATTAGGCAATTCAAA
326 TTTTCAGGCTCTATATTGCTCATCAAGGAAGAATATTCGTCATTTTCGAAATTAGGCAATTCAAA
*
25674673 TAATTTATTAATAGCGTTTGAAGTTATT
391 TAAGTTATTAATAGCGTTTGAAGTTATT
*
25674701 AAGAATTTTAACTTTCAAGAATAGAATTTTTATCGTAAAGGGAAAGTAGGTTAAGCAAGAATGTC
1 AAGAATTTTAACTTTCAAGAATAGAATTTTTATCGTAAAGGGAAAGTAGGTTAAGCAAGAACGTC
25674766 TAACGGCACAATTCCGCATTTCTCTCAGGATGATTTTTCCCACATCAATGGTCTTTCCAGTTAAA
66 TAACGGCACAATTCCGCATTTCTCTCAGGATGATTTTTCCCACATCAATGGTCTTTCCAGTTAAA
* *
25674831 ATTGAGTATATTAAGACCATTCACTCTAATGAAATTTTAGTCCCATGTGAGTTAGGCATAAGGCT
131 ATCGAGTATATTAAGACCATTCACTCTAATGAAATTGTAGTCCCATGTGAGTTAGGCATAAGGCT
* * * *
25674896 GAAACAGATGAAATAGAACCTTAGCTTTGCGAGTGGTGTCAAATATTCTGTTTGACAAGTGTAGA
196 AAAACAGATGAAATAGAACCTTAACTTTGCGAGTGGTCTCAAATATTCTGTTCGACAAGTGTAGA
* * *
25674961 TTCCTTGCTTTGACACAATCCACTTAGAACTTGGAACTGTAAGTTCCTCGAGAATTTCTTGCAAA
261 TTCCTTGCTTTGACACAATCCACTTAGAACCTAGAACTGTAAGTTCCTCGAGAATATCTTGCAAA
*
25675026 TTTTCAGGCTCTATATTGCTCATCAAGGAAGAATATTCGTCGTTTTCGAAATTAGGCAATTCAAA
326 TTTTCAGGCTCTATATTGCTCATCAAGGAAGAATATTCGTCATTTTCGAAATTAGGCAATTCAAA
25675091 TAAGTTATTAA
391 TAAGTTATTAA
25675102 GTGTAGATTC
Statistics
Matches: 384, Mismatches: 17, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
418 384 1.00
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (418 bp):
AAGAATTTTAACTTTCAAGAATAGAATTTTTATCGTAAAGGGAAAGTAGGTTAAGCAAGAACGTC
TAACGGCACAATTCCGCATTTCTCTCAGGATGATTTTTCCCACATCAATGGTCTTTCCAGTTAAA
ATCGAGTATATTAAGACCATTCACTCTAATGAAATTGTAGTCCCATGTGAGTTAGGCATAAGGCT
AAAACAGATGAAATAGAACCTTAACTTTGCGAGTGGTCTCAAATATTCTGTTCGACAAGTGTAGA
TTCCTTGCTTTGACACAATCCACTTAGAACCTAGAACTGTAAGTTCCTCGAGAATATCTTGCAAA
TTTTCAGGCTCTATATTGCTCATCAAGGAAGAATATTCGTCATTTTCGAAATTAGGCAATTCAAA
TAAGTTATTAATAGCGTTTGAAGTTATT
Found at i:25685396 original size:21 final size:21
Alignment explanation
Indices: 25685357--25685411 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
25685347 TTTTTTTAGA
**
25685357 TTAATTAA-TATAATAATAC-
1 TTAATTAATTATTTTAATACT
*
25685376 TTGATTATATTATTTTAATACT
1 TTAATTA-ATTATTTTAATACT
25685398 TTAATTAATTATTT
1 TTAATTAATTATTT
25685412 ATGACCTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 6 0.21
20 1 0.03
21 16 0.55
22 6 0.21
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.55
Consensus pattern (21 bp):
TTAATTAATTATTTTAATACT
Found at i:25687165 original size:24 final size:24
Alignment explanation
Indices: 25687129--25687174 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
25687119 CCGATAGATC
*
25687129 AGCTCATAAGAGCTTACTATTTTT
1 AGCTCATAAGAGCTTACCATTTTT
**
25687153 AGCTCATCGGAGCTTACCATTT
1 AGCTCATAAGAGCTTACCATTT
25687175 CAGCTCAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (24 bp):
AGCTCATAAGAGCTTACCATTTTT
Found at i:25688753 original size:39 final size:38
Alignment explanation
Indices: 25688701--25688798 Score: 124
Period size: 39 Copynumber: 2.5 Consensus size: 38
25688691 GGTTATAGCG
*
25688701 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AATGCCTTCGGG-CTTAACCCGGATTTAGTA
* * *
25688741 ACTTGCACAATGCCTTCGGGCTTAGCCCGGATTTATTA
1 ACTCGCACAATGCCTTCGGGCTTAACCCGGATTTAGTA
*
25688779 ACTCGCATGAATGCCTTCGG
1 ACTCGCA-CAATGCCTTCGG
25688799 ATCCTAGTCC
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
38 21 0.41
39 23 0.45
40 7 0.14
ACGTcount: A:0.21, C:0.28, G:0.23, T:0.28
Consensus pattern (38 bp):
ACTCGCACAATGCCTTCGGGCTTAACCCGGATTTAGTA
Found at i:25690639 original size:19 final size:19
Alignment explanation
Indices: 25690617--25690683 Score: 64
Period size: 20 Copynumber: 3.5 Consensus size: 19
25690607 TGTTACACGA
25690617 ATGAATTACTGTTATATGG
1 ATGAATTACTGTTATATGG
* * *
25690636 ATGAAGTATTGTTTAAATGG
1 ATGAATTACTG-TTATATGG
* * *
25690656 ATGAGTTACTGTTAT-CGA
1 ATGAATTACTGTTATATGG
25690674 ATGAATTACT
1 ATGAATTACT
25690684 ATTTATATGA
Statistics
Matches: 37, Mismatches: 10, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
18 10 0.27
19 12 0.32
20 15 0.41
ACGTcount: A:0.33, C:0.06, G:0.21, T:0.40
Consensus pattern (19 bp):
ATGAATTACTGTTATATGG
Found at i:25694995 original size:19 final size:20
Alignment explanation
Indices: 25694956--25695007 Score: 65
Period size: 19 Copynumber: 2.6 Consensus size: 20
25694946 ATTTAAGTCT
25694956 AAAATTATTA-AAATATTATA
1 AAAATTA-TAGAAATATTATA
25694976 ATAAATT-TAGAAAT-TTATA
1 A-AAATTATAGAAATATTATA
25694995 AAAATTATAGAAA
1 AAAATTATAGAAA
25695008 ATGTAAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
18 5 0.17
19 14 0.48
20 5 0.17
21 5 0.17
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (20 bp):
AAAATTATAGAAATATTATA
Found at i:25695009 original size:28 final size:30
Alignment explanation
Indices: 25694956--25695032 Score: 81
Period size: 29 Copynumber: 2.7 Consensus size: 30
25694946 ATTTAAGTCT
* *
25694956 AAAATTAT-TAAAATATTATAATAAATTTA
1 AAAATTTTATAAAATATTATAATAAATGTA
*
25694985 GAAA-TTTATAAAA-ATTATAGA-AAATGTA
1 AAAATTTTATAAAATATTATA-ATAAATGTA
*
25695013 AAAATTTTATAAAATGTTAT
1 AAAATTTTATAAAATATTAT
25695033 TACTATATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
28 17 0.44
29 18 0.46
30 4 0.10
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (30 bp):
AAAATTTTATAAAATATTATAATAAATGTA
Found at i:25695014 original size:18 final size:18
Alignment explanation
Indices: 25694993--25695029 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
25694983 TAGAAATTTA
25694993 TAAAAATTATAGAAAATG
1 TAAAAATTATAGAAAATG
* *
25695011 TAAAAATTTTATAAAATG
1 TAAAAATTATAGAAAATG
25695029 T
1 T
25695030 TATTACTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (18 bp):
TAAAAATTATAGAAAATG
Found at i:25695474 original size:29 final size:29
Alignment explanation
Indices: 25695442--25695497 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
25695432 AAAATACTGC
*
25695442 AAAAAAT-TAGAATATTATTAAAAAATAGA
1 AAAAAATATAGAA-ATAATTAAAAAATAGA
*
25695471 AAAAAATATATAAATAATTAAAAAATA
1 AAAAAATATAGAAATAATTAAAAAATA
25695498 AGATTACTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.27
Consensus pattern (29 bp):
AAAAAATATAGAAATAATTAAAAAATAGA
Found at i:25695528 original size:18 final size:17
Alignment explanation
Indices: 25695505--25695557 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 17
25695495 ATAAGATTAC
25695505 TACTTTTTAGAAATTTTA
1 TACTTTTTA-AAATTTTA
25695523 TAC-TTTTAAATATTTTTA
1 TACTTTTTAAA-A-TTTTA
*
25695541 TATTTTTTATAAATTTT
1 TACTTTTTA-AAATTTT
25695558 TAATATTTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
16 2 0.07
17 6 0.20
18 14 0.47
19 6 0.20
20 2 0.07
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (17 bp):
TACTTTTTAAAATTTTA
Found at i:25705619 original size:27 final size:28
Alignment explanation
Indices: 25705563--25705632 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
25705553 AAATTTGTAC
25705563 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
25705591 AGCACTAGGTGTGCGAG-TTGATTTTAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
25705618 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
25705633 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:25707532 original size:38 final size:38
Alignment explanation
Indices: 25707480--25707566 Score: 111
Period size: 38 Copynumber: 2.3 Consensus size: 38
25707470 ACCGTACGAG
* * **
25707480 CTCACACGCTCGTGTGGCCCACATGACCTGGCCCAATA
1 CTCACACACCCGTGTGGCCCACACAACCTGGCCCAATA
*
25707518 CTCACACACCCGTGTGGCCTACACAACCTGGCCCAATA
1 CTCACACACCCGTGTGGCCCACACAACCTGGCCCAATA
* *
25707556 CCCATACACCC
1 CTCACACACCC
25707567 AACTTGGCCT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.24, C:0.44, G:0.16, T:0.16
Consensus pattern (38 bp):
CTCACACACCCGTGTGGCCCACACAACCTGGCCCAATA
Found at i:25708710 original size:3 final size:3
Alignment explanation
Indices: 25708702--25708727 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
25708692 TTAAATAGAG
25708702 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
25708728 GTTTAAATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:25713065 original size:20 final size:22
Alignment explanation
Indices: 25713021--25713063 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 22
25713011 AATTTAGTTA
25713021 TTATATTTTTATTTTTAAGAAT
1 TTATATTTTTATTTTTAAGAAT
25713043 TTAT-TTTTTA-TTTTAA-AAT
1 TTATATTTTTATTTTTAAGAAT
25713062 TT
1 TT
25713064 TAAAATTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.24
20 6 0.29
21 6 0.29
22 4 0.19
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (22 bp):
TTATATTTTTATTTTTAAGAAT
Found at i:25715364 original size:14 final size:14
Alignment explanation
Indices: 25715312--25715379 Score: 66
Period size: 14 Copynumber: 4.9 Consensus size: 14
25715302 CAACTCATTG
* * *
25715312 TTCTCGATTTATTG
1 TTCTCAATTTTTTA
*
25715326 TTCTCAATTTGTTA
1 TTCTCAATTTTTTA
25715340 TTCTCAATTTTTTA
1 TTCTCAATTTTTTA
* **
25715354 TTCTAAATTTTCAA
1 TTCTCAATTTTTTA
25715368 TTC-CAATTTTTT
1 TTCTCAATTTTTT
25715380 TAAAAAAAAA
Statistics
Matches: 44, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
13 6 0.14
14 38 0.86
ACGTcount: A:0.22, C:0.15, G:0.04, T:0.59
Consensus pattern (14 bp):
TTCTCAATTTTTTA
Found at i:25721462 original size:22 final size:22
Alignment explanation
Indices: 25721428--25721471 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
25721418 AAAAATTGTA
* *
25721428 AAAATTTATTATAAAAATAATT
1 AAAATTCAATATAAAAATAATT
**
25721450 AAAATTCAATATATTAATAATT
1 AAAATTCAATATAAAAATAATT
25721472 TAATTGCAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAATTCAATATAAAAATAATT
Found at i:25725015 original size:50 final size:49
Alignment explanation
Indices: 25724897--25725026 Score: 190
Period size: 50 Copynumber: 2.6 Consensus size: 49
25724887 CTGGTACGCA
* * **
25724897 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
*
25724946 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-TCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAACAGTCTAATACACG
25724996 TAGTAGCCTGCACTTAGTACTACACACGTGA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA
25725027 TCACAGTTTT
Statistics
Matches: 74, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
49 29 0.39
50 41 0.55
51 4 0.05
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
Found at i:25725072 original size:101 final size:99
Alignment explanation
Indices: 25724897--25725083 Score: 259
Period size: 101 Copynumber: 1.9 Consensus size: 99
25724887 CTGGTACGCA
* * *
25724897 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCGGGTACACATAGTAGCCTGCACTTA
*
25724962 GTACTACACACGTGACCTCACCATCTAATACACG
66 GTACTACACACGCGACCTCACCATCTAATACACG
* * **
25724996 TAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTCGGGTACGTATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG---TCGGGTACACATAGTAGCCTGCAC
*
25725060 TTAGTACTACACATGCGACCTCAC
63 TTAGTACTACACACGCGACCTCAC
25725084 AATAGATCAT
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
98 4 0.05
99 30 0.39
101 42 0.55
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCGGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTCACCATCTAATACACG
Found at i:25727502 original size:16 final size:15
Alignment explanation
Indices: 25727477--25727506 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
25727467 ATTCAATTAA
25727477 TTAACTAAATGCAAG
1 TTAACTAAATGCAAG
25727492 TTAACCTAAATGCAA
1 TTAA-CTAAATGCAA
25727507 ATGAAATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.47, C:0.17, G:0.10, T:0.27
Consensus pattern (15 bp):
TTAACTAAATGCAAG
Found at i:25729944 original size:35 final size:35
Alignment explanation
Indices: 25729900--25730096 Score: 234
Period size: 35 Copynumber: 5.6 Consensus size: 35
25729890 TCCTCATTGA
*
25729900 AATACCATACCTACATTTCACAACTCGGTATGAGA-
1 AATACCATACCTACATTTCACAACTCAGTATG-GAT
* ****
25729935 AATGCCATACCTACATTTTTTTACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
* * *
25729970 AATACCATACCTACGTTTCACAACTCAATATAGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
* * *
25730005 GATACCATACCCACGTTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
* * *
25730040 GATACCATACCTACGTTTCACAACTCAGTATGGTT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
25730075 AATACTATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
25730097 CTTTTCCGTG
Statistics
Matches: 138, Mismatches: 23, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
34 2 0.01
35 136 0.99
ACGTcount: A:0.34, C:0.25, G:0.10, T:0.30
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:25730085 original size:105 final size:105
Alignment explanation
Indices: 25729901--25730096 Score: 259
Period size: 105 Copynumber: 1.9 Consensus size: 105
25729891 CCTCATTGAA
* * * ****
25729901 ATACCATACCTACATTTCACAACTCGGTATGAGAAATGCCATACCTACATTTTTTTACTCAGTAT
1 ATACCATACCCACATTTCACAACTCAGTATGAGAAATACCATACCTACATTTCACAACTCAGTAT
*
25729966 GGATAATACCATACCTACGTTTCACAACTCAATATAGATG
66 GGATAATACCATACCTACATTTCACAACTCAATATAGATG
* * *
25730006 ATACCATACCCACGTTTCACAACTCAGTATG-GATGATACCATACCTACGTTTCACAACTCAGTA
1 ATACCATACCCACATTTCACAACTCAGTATGAGA-AATACCATACCTACATTTCACAACTCAGTA
* *
25730070 TGGTTAATACTATACCTACATTTCACA
65 TGGATAATACCATACCTACATTTCACA
25730097 CTTTTCCGTG
Statistics
Matches: 77, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
104 2 0.03
105 75 0.97
ACGTcount: A:0.34, C:0.26, G:0.10, T:0.31
Consensus pattern (105 bp):
ATACCATACCCACATTTCACAACTCAGTATGAGAAATACCATACCTACATTTCACAACTCAGTAT
GGATAATACCATACCTACATTTCACAACTCAATATAGATG
Found at i:25733805 original size:12 final size:13
Alignment explanation
Indices: 25733788--25733825 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
25733778 ATCCTGGAAT
25733788 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
25733800 ATTAAGAACACATA
1 ATTAAGAACA-AGA
25733814 ATTAAGAACAAG
1 ATTAAGAACAAG
25733826 TCAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:25739118 original size:46 final size:46
Alignment explanation
Indices: 25739051--25739226 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
25739041 TATTTGGGCA
25739051 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
25739097 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
* * *
25739144 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * *
25739190 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
25739227 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 66 0.61
47 31 0.28
48 2 0.02
50 4 0.04
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:25739206 original size:93 final size:93
Alignment explanation
Indices: 25739047--25739219 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
25739037 GGGATATTTG
* *
25739047 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
25739112 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
25739140 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
25739205 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
25739220 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:25744809 original size:55 final size:55
Alignment explanation
Indices: 25744721--25744829 Score: 191
Period size: 55 Copynumber: 2.0 Consensus size: 55
25744711 TTGAATAGGC
*
25744721 ACGGGCGTGTAGTCTACCCATGTAAATCATGCTTCTATCCTACCAAATGGACACA
1 ACGGGCGTGTAGTCTACCCATGTAAATCATGCTTCGATCCTACCAAATGGACACA
* *
25744776 ACGGGCGTGTAGTCTACCCGTGTAAATCGTGCTTCGATCCTACCAAATGGACAC
1 ACGGGCGTGTAGTCTACCCATGTAAATCATGCTTCGATCCTACCAAATGGACAC
25744830 GGCCGTGTGC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (55 bp):
ACGGGCGTGTAGTCTACCCATGTAAATCATGCTTCGATCCTACCAAATGGACACA
Found at i:25754787 original size:14 final size:14
Alignment explanation
Indices: 25754768--25754798 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
25754758 AAAATTCTAT
25754768 AAATTTTATGGTAG
1 AAATTTTATGGTAG
25754782 AAATTTTATGGTAG
1 AAATTTTATGGTAG
25754796 AAA
1 AAA
25754799 GGTATATGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.39
Consensus pattern (14 bp):
AAATTTTATGGTAG
Found at i:25756907 original size:93 final size:92
Alignment explanation
Indices: 25756764--25756932 Score: 250
Period size: 93 Copynumber: 1.8 Consensus size: 92
25756754 TTTGTGTGCC
* * * *
25756764 AGTGTAAGACATGTTTGGGACATGCATCGGCCGCATTATGATAGCCAGTGTAAGACCATGTCTAG
1 AGTGTAAGACATGTTTGGGACATGCATCAGCCACAGTATGAGAGCCAGTGTAAGA-CATGTCTAG
25756829 GACATGGCATCGGTATTGAGACGAGGGCT
65 GACAT-GCATCGGTATTGAGACGAGGGCT
* * *
25756858 AGTGTAAGGCATG-TTGGGACATGCATCAGCCACAGTATGAGAGCCAGTGTAAGACATGTTTGGG
1 AGTGTAAGACATGTTTGGGACATGCATCAGCCACAGTATGAGAGCCAGTGTAAGACATGTCTAGG
25756922 ACATGCATCGG
66 ACATGCATCGG
25756933 CTTCGAGATG
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
91 7 0.10
92 12 0.18
93 37 0.54
94 12 0.18
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (92 bp):
AGTGTAAGACATGTTTGGGACATGCATCAGCCACAGTATGAGAGCCAGTGTAAGACATGTCTAGG
ACATGCATCGGTATTGAGACGAGGGCT
Found at i:25756949 original size:46 final size:46
Alignment explanation
Indices: 25756761--25757004 Score: 205
Period size: 46 Copynumber: 5.3 Consensus size: 46
25756751 AGATTTGTGT
*
25756761 GCCAGTGTAAGACATGTTTGGGACATGCATCGGC--CGCATTATGATA
1 GCCAGTGTAAGACATGTTTGGGACATGCATCGGCTACG-A-GATGATA
* * * * **
25756807 GCCAGTGTAAGACCATGTCTAGGACATGGCATCGG-TATTGAGACGAGG
1 GCCAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCTA-CGAGATGATA
* * * * *
25756855 GCTAGTGTAAGGCATG-TTGGGACATGCATCAGCCAC-AGTATGAGA
1 GCCAGTGTAAGACATGTTTGGGACATGCATCGGCTACGAG-ATGATA
* *
25756900 GCCAGTGTAAGACATGTTTGGGACATGCATCGGCTTCGAGATGTTA
1 GCCAGTGTAAGACATGTTTGGGACATGCATCGGCTACGAGATGATA
* * * * *
25756946 GCCAGTGTCAGACATGTCTAGGACATGCGTCGGCTACGAAATG-T-
1 GCCAGTGTAAGACATGTTTGGGACATGCATCGGCTACGAGATGATA
*
25756990 GCTAGTGTAAGACAT
1 GCCAGTGTAAGACAT
25757005 ATCTGAGACA
Statistics
Matches: 158, Mismatches: 31, Indels: 20
0.76 0.15 0.10
Matches are distributed among these distances:
44 15 0.09
45 25 0.16
46 78 0.49
47 18 0.11
48 20 0.13
49 1 0.01
50 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTTTGGGACATGCATCGGCTACGAGATGATA
Found at i:25763379 original size:12 final size:13
Alignment explanation
Indices: 25763362--25763399 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
25763352 ATCCTGGAAT
25763362 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
25763374 ATTAAGAACACATA
1 ATTAAGAACA-AGA
25763388 ATTAAGAACAAG
1 ATTAAGAACAAG
25763400 TCAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:25769304 original size:46 final size:45
Alignment explanation
Indices: 25769203--25769296 Score: 127
Period size: 46 Copynumber: 2.1 Consensus size: 45
25769193 TGTAACCCGC
* *
25769203 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGA-ATGCGCAA
* * *
25769249 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG-ATGCTCAA
1 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGAATGCGCAA
25769293 CCAT
1 CCAT
25769297 CCTAGTGACA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 9 0.21
46 34 0.79
ACGTcount: A:0.32, C:0.30, G:0.18, T:0.20
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGAATGCGCAA
Found at i:25789516 original size:230 final size:231
Alignment explanation
Indices: 25789205--25789660 Score: 756
Period size: 230 Copynumber: 2.0 Consensus size: 231
25789195 CAGAAAAAAG
* * *
25789205 TTAGGTGCCGCCTTCTTCATGTCCACCATCCCTTGGTATTGATGCAAATATAATATTTTGGTAGA
1 TTAGGTGCCGCCTCCTTCATGTCCACCATCCCTTGGTATTGATGCAAATATAATATTTTGATAAA
*
25789270 TAATGATATTAGCATACTATTTAGGAATTTATTTTTTAGTTT-TGTATTATGTAATTAAAAATTC
66 TAATGATATTAGCATACTATTTAGGAATTTATTTTTTA-TTTATGTATTATGTAATTAAAAAATC
* *
25789334 TGCTGTTTGCTACTAATCAATTCATATGTTTTGCTTTATTACTATCTTACTGCAGTATCTGATTT
130 TGCTGTTTGCTACTAATCAATTCATATGTTTTGCTTTATTACTATCTTACTGCAGCATCTGACTT
*
25789399 TTGAGTCTCTTCATACAAACGATAAAAAAAAATTGCA
195 TTGAGTCTCTTCATACAAACCATAAAAAAAAATTGCA
* *
25789436 TTAGGTGCCGCCTCCTTCATGTCCACCTTCCCTT-GTATTGTTGCAAATATAATATTTTGATAAA
1 TTAGGTGCCGCCTCCTTCATGTCCACCATCCCTTGGTATTGATGCAAATATAATATTTTGATAAA
* *
25789500 TAAT-AGTATTAGCATACTATTTAGGTATTTATTTTTTATTTATGTATTATTTAATTAAAAAATC
66 TAATGA-TATTAGCATACTATTTAGGAATTTATTTTTTATTTATGTATTATGTAATTAAAAAATC
*
25789564 TGCTGTTTGTTACTAATCAATTCATATGTTTTGCTTTATTACTATCTTACTGCAGCATCTGACTT
130 TGCTGTTTGCTACTAATCAATTCATATGTTTTGCTTTATTACTATCTTACTGCAGCATCTGACTT
*
25789629 TTGAGTCTGTTCATACAAACCATAAAAAAAAA
195 TTGAGTCTCTTCATACAAACCATAAAAAAAAA
25789661 AAATTGGCCG
Statistics
Matches: 210, Mismatches: 13, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
229 4 0.02
230 174 0.83
231 32 0.15
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.43
Consensus pattern (231 bp):
TTAGGTGCCGCCTCCTTCATGTCCACCATCCCTTGGTATTGATGCAAATATAATATTTTGATAAA
TAATGATATTAGCATACTATTTAGGAATTTATTTTTTATTTATGTATTATGTAATTAAAAAATCT
GCTGTTTGCTACTAATCAATTCATATGTTTTGCTTTATTACTATCTTACTGCAGCATCTGACTTT
TGAGTCTCTTCATACAAACCATAAAAAAAAATTGCA
Found at i:25799162 original size:56 final size:55
Alignment explanation
Indices: 25799097--25799205 Score: 191
Period size: 56 Copynumber: 2.0 Consensus size: 55
25799087 TAATAGATTG
*
25799097 CAAATTAATTATTCATGAGCACTATTCAAATTAAAAATGATGATTTATCATCTTA
1 CAAATTAATTATTCATAAGCACTATTCAAATTAAAAATGATGATTTATCATCTTA
*
25799152 CAAATTTAATTATTCATAAGCACTATTCAAATTAAAAGTGATGATTTATCATCT
1 CAAA-TTAATTATTCATAAGCACTATTCAAATTAAAAATGATGATTTATCATCT
25799206 AATGGATACA
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
55 4 0.08
56 47 0.92
ACGTcount: A:0.41, C:0.13, G:0.07, T:0.39
Consensus pattern (55 bp):
CAAATTAATTATTCATAAGCACTATTCAAATTAAAAATGATGATTTATCATCTTA
Found at i:25799780 original size:27 final size:27
Alignment explanation
Indices: 25799750--25799804 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
25799740 ATTAATTTAT
*
25799750 GTAGGGAGAGGGGGAATATAGGGATAG
1 GTAGGGAGAGAGGGAATATAGGGATAG
* *
25799777 GTAGGGGGAGAGGGTATATAGGGATAG
1 GTAGGGAGAGAGGGAATATAGGGATAG
25799804 G
1 G
25799805 GATGTTATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.31, C:0.00, G:0.53, T:0.16
Consensus pattern (27 bp):
GTAGGGAGAGAGGGAATATAGGGATAG
Found at i:25802587 original size:2 final size:2
Alignment explanation
Indices: 25802580--25802615 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
25802570 ACGCCATGTT
25802580 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
25802616 AATTCTTATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:25808692 original size:40 final size:40
Alignment explanation
Indices: 25808648--25808727 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
25808638 TACATAATTC
25808648 CACTGATTATTCAGGTAATATTTCTCTTCGTATAGGTGAT
1 CACTGATTATTCAGGTAATATTTCTCTTCGTATAGGTGAT
*
25808688 CACTGATTATTTAGGTAATATTTCTCTTCGTATAGGTGAT
1 CACTGATTATTCAGGTAATATTTCTCTTCGTATAGGTGAT
25808728 AGTACAAGTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.25, C:0.14, G:0.17, T:0.44
Consensus pattern (40 bp):
CACTGATTATTCAGGTAATATTTCTCTTCGTATAGGTGAT
Found at i:25811205 original size:28 final size:28
Alignment explanation
Indices: 25811163--25811220 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
25811153 CTCGTCCTGA
25811163 CATAACTTATACCATTAATCGCATATGT
1 CATAACTTATACCATTAATCGCATATGT
* *
25811191 CATAGCTTATGCCATTAATCGCATATGT
1 CATAACTTATACCATTAATCGCATATGT
25811219 CA
1 CA
25811221 GTTTATGCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.33, C:0.22, G:0.10, T:0.34
Consensus pattern (28 bp):
CATAACTTATACCATTAATCGCATATGT
Found at i:25813994 original size:19 final size:21
Alignment explanation
Indices: 25813966--25814004 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
25813956 ATTTGGAAAC
25813966 TATAAATTTA-ACA-AATAAT
1 TATAAATTTATACATAATAAT
*
25813985 TATAATTTTATACATAATAA
1 TATAAATTTATACATAATAA
25814005 GATTTTTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (21 bp):
TATAAATTTATACATAATAAT
Found at i:25814119 original size:17 final size:17
Alignment explanation
Indices: 25814097--25814129 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
25814087 AAAATAAATA
25814097 AAGTTTATTTCCAGTTT
1 AAGTTTATTTCCAGTTT
25814114 AAGTTTATTTCCAGTT
1 AAGTTTATTTCCAGTT
25814130 GCAATCAGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.52
Consensus pattern (17 bp):
AAGTTTATTTCCAGTTT
Found at i:25814143 original size:27 final size:27
Alignment explanation
Indices: 25814112--25814168 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
25814102 TATTTCCAGT
25814112 TTAAGTTTATTTCCAGTTGCAATCAGC
1 TTAAGTTTATTTCCAGTTGCAATCAGC
25814139 TTAAGTTTATTTCCAGTTGCAATCAGC
1 TTAAGTTTATTTCCAGTTGCAATCAGC
25814166 TTA
1 TTA
25814169 CTTACAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.42
Consensus pattern (27 bp):
TTAAGTTTATTTCCAGTTGCAATCAGC
Found at i:25815108 original size:49 final size:49
Alignment explanation
Indices: 25815028--25815126 Score: 119
Period size: 49 Copynumber: 2.0 Consensus size: 49
25815018 CGAGTTGAAA
* * * *
25815028 TATAACTAGGGCTCCTAGTTGACGATAGTTATGCGTTCATGGGTTCAAG
1 TATAACTAGGGCCCCTAGTTGACGATAGTTATGCGGTCACGGGATCAAG
* * *
25815077 TATAACTCA-GGCCCCTAGTTGATGGTGGTTATGCGGTCACGGGATCAAG
1 TATAACT-AGGGCCCCTAGTTGACGATAGTTATGCGGTCACGGGATCAAG
25815126 T
1 T
25815127 TAGAAAATGT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
49 41 0.98
50 1 0.02
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.30
Consensus pattern (49 bp):
TATAACTAGGGCCCCTAGTTGACGATAGTTATGCGGTCACGGGATCAAG
Found at i:25820282 original size:23 final size:23
Alignment explanation
Indices: 25820231--25820282 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
25820221 TTATATATAT
*
25820231 TGTATACAATACAATCATACATT
1 TGTATACAATACAATCATACATA
* *
25820254 TATATACAATACAATCATGCATA
1 TGTATACAATACAATCATACATA
25820277 TGTATA
1 TGTATA
25820283 TTATATTATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.44, C:0.15, G:0.06, T:0.35
Consensus pattern (23 bp):
TGTATACAATACAATCATACATA
Found at i:25820287 original size:5 final size:5
Alignment explanation
Indices: 25820274--25820318 Score: 81
Period size: 5 Copynumber: 8.8 Consensus size: 5
25820264 ACAATCATGC
25820274 ATATGT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATAT
1 ATAT-T ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATAT
25820319 ATAAAACCAA
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
5 35 0.90
6 4 0.10
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (5 bp):
ATATT
Found at i:25826508 original size:26 final size:26
Alignment explanation
Indices: 25826472--25826555 Score: 143
Period size: 26 Copynumber: 3.2 Consensus size: 26
25826462 TGATACAAAT
25826472 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
25826498 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
25826524 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
25826550 TGATAA
1 TGATAA
25826556 GAATTTCATG
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
26 53 0.95
27 3 0.05
ACGTcount: A:0.36, C:0.04, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:25828276 original size:27 final size:27
Alignment explanation
Indices: 25828174--25828279 Score: 126
Period size: 27 Copynumber: 3.9 Consensus size: 27
25828164 GAGGAAGCGT
* *
25828174 TCTGGTGGCTATGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCAC-ATTATCTGTA
*
25828201 TCTGGTGGCTCTACCACATATATCTGT-
1 TCTGGTGGCTCTGCCACAT-TATCTGTA
25828228 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCAC-ATTATCTGTA
* *
25828256 TCTGGTGACTCTGTCACATTATCT
1 TCTGGTGGCTCTGCCACATTATCT
25828280 ATTCTAGCAG
Statistics
Matches: 69, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
26 1 0.01
27 51 0.74
28 17 0.25
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACATTATCTGTA
Found at i:25828279 original size:54 final size:54
Alignment explanation
Indices: 25828172--25828284 Score: 147
Period size: 54 Copynumber: 2.1 Consensus size: 54
25828162 TGGAGGAAGC
*
25828172 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTACCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTACCACATATATCT
* * * **
25828226 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTACCACATATATCT
*
25828280 ATTCT
1 GTTCT
25828285 AGCAGCCATG
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTACCACATATATCT
Found at i:25828372 original size:19 final size:22
Alignment explanation
Indices: 25828348--25828387 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
25828338 CTCCCCACAC
25828348 GGTGTA-A-GGTTGG-TATGGG
1 GGTGTATACGGTTGGATATGGG
25828367 GGTGTATACGGTTGGATATGG
1 GGTGTATACGGTTGGATATGG
25828388 TTGGGTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.17, C:0.03, G:0.47, T:0.33
Consensus pattern (22 bp):
GGTGTATACGGTTGGATATGGG
Found at i:25832860 original size:2 final size:2
Alignment explanation
Indices: 25832853--25832885 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
25832843 GTACATTCTG
*
25832853 AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
25832886 CTGCATTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:25844380 original size:19 final size:19
Alignment explanation
Indices: 25844347--25844392 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
25844337 AGATATATTT
*
25844347 TAAAT-TTATTTAGGTAGA
1 TAAATCTTATTCAGGTAGA
25844365 TAAATCTTATTCAGGTAGA
1 TAAATCTTATTCAGGTAGA
25844384 TAAATCTTA
1 TAAATCTTA
25844393 AAATAAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 5 0.19
19 21 0.81
ACGTcount: A:0.39, C:0.07, G:0.13, T:0.41
Consensus pattern (19 bp):
TAAATCTTATTCAGGTAGA
Found at i:25845400 original size:21 final size:20
Alignment explanation
Indices: 25845360--25845398 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
25845350 CCCTGTAATA
*
25845360 AAATATAATATAGATCAAAG
1 AAATATAATATAGAGCAAAG
25845380 AAATAGTAAT-TAGAGCAAA
1 AAATA-TAATATAGAGCAAA
25845399 AGTTTCAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.59, C:0.05, G:0.13, T:0.23
Consensus pattern (20 bp):
AAATATAATATAGAGCAAAG
Found at i:25852145 original size:26 final size:26
Alignment explanation
Indices: 25852095--25852148 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
25852085 TTGATTTTTT
* * *
25852095 TTCGAATTGAGTTGAGTGAAATGAAA
1 TTCGAATTGAGTCGAATCAAATGAAA
*
25852121 TTCGAATTGAGTCGAATCAAGTGAAA
1 TTCGAATTGAGTCGAATCAAATGAAA
25852147 TT
1 TT
25852149 GTTCGAGTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.37, C:0.07, G:0.24, T:0.31
Consensus pattern (26 bp):
TTCGAATTGAGTCGAATCAAATGAAA
Found at i:25852395 original size:10 final size:10
Alignment explanation
Indices: 25852352--25852415 Score: 51
Period size: 10 Copynumber: 6.3 Consensus size: 10
25852342 TTCTATAAAA
25852352 TTTT-TAATT
1 TTTTATAATT
*
25852361 TTTTGA-ACTT
1 TTTT-ATAATT
25852371 TCTTTATATATT
1 T-TTTATA-ATT
25852383 TTTTATAATT
1 TTTTATAATT
* **
25852393 TTTTTTAAAA
1 TTTTATAATT
25852403 TTTTATAATT
1 TTTTATAATT
25852413 TTT
1 TTT
25852416 AAAAAATATA
Statistics
Matches: 42, Mismatches: 8, Indels: 9
0.71 0.14 0.15
Matches are distributed among these distances:
9 4 0.10
10 25 0.60
11 10 0.24
12 3 0.07
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.69
Consensus pattern (10 bp):
TTTTATAATT
Found at i:25856386 original size:42 final size:43
Alignment explanation
Indices: 25856309--25856445 Score: 120
Period size: 43 Copynumber: 3.2 Consensus size: 43
25856299 TCCTAGACGT
* * * * * *
25856309 GGTCTTACATGTAATTC-AATATTGATGCCTCTGTCCCAGACAG
1 GGTCTTACACGTAAATCTAA-ATCGAGGCCTGTGTCCCAGACAC
* *
25856352 GGTCTTACAC-TAAATC-AAATACGATGCC-GATGTCCCAGACAT
1 GGTCTTACACGTAAATCTAAAT-CGAGGCCTG-TGTCCCAGACAC
* * *
25856394 GGTCTTATACGTAAATCTCAATCGAGGCCTGTGTCCTAGACAC
1 GGTCTTACACGTAAATCTAAATCGAGGCCTGTGTCCCAGACAC
25856437 GGTCTTACA
1 GGTCTTACA
25856446 TGATGTCTCA
Statistics
Matches: 78, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
41 2 0.03
42 33 0.42
43 39 0.50
44 4 0.05
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (43 bp):
GGTCTTACACGTAAATCTAAATCGAGGCCTGTGTCCCAGACAC
Found at i:25861764 original size:49 final size:49
Alignment explanation
Indices: 25861686--25861931 Score: 296
Period size: 49 Copynumber: 5.0 Consensus size: 49
25861676 GTAGCCGAAG
* *
25861686 CTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAA
* * *
25861735 TTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AA
* * * * *
25861785 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCAAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA
* * *
25861835 GTTAT-TAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 -CTATCT-GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAA
* * * *
25861885 CAATCTGGTACACGTAGTAGCCTGCACTTAGTACTACATACGTGACC
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
25861932 TCACAATAGC
Statistics
Matches: 166, Mismatches: 26, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
49 80 0.48
50 49 0.30
51 37 0.22
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAA
Found at i:25861873 original size:101 final size:98
Alignment explanation
Indices: 25861700--25861930 Score: 336
Period size: 100 Copynumber: 2.3 Consensus size: 98
25861690 CTGGTACGCA
* * * *
25861700 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACAAATTATCAGGTACACATAGTAGCCTGCACTTA
* *
25861765 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACC-AACAATCTGATACACG
* *
25861799 TAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTATTAGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CAAA-TTATCAGGTACACATAGTAGCCTGCACT
* *
25861864 TAGTACTACACATGCGACCAACAATCTGGTACACG
64 TAGTACTACACACGCGACCAACAATCTGATACACG
*
25861899 TAGTAGCCTGCACTTAGTACTACATACGTGAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGAC
25861931 CTCACAATAG
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
99 30 0.25
100 47 0.39
101 42 0.35
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACAAATTATCAGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCAACAATCTGATACACG
Found at i:25862613 original size:30 final size:30
Alignment explanation
Indices: 25862579--25862638 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
25862569 CTTTAATACG
25862579 AACTTTGGCAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCCTA
* *
25862609 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
25862639 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.27, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:25865466 original size:39 final size:39
Alignment explanation
Indices: 25865397--25865556 Score: 248
Period size: 39 Copynumber: 4.1 Consensus size: 39
25865387 AATTATATTA
* * *
25865397 CCAGCACAAAGCTTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTT
*
25865436 CCTGCACGAAGCCTACGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTT
*
25865475 CCAGCACGAAGCCTACGGGACTTTAGCTCGGATACATTT
1 CCAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTT
* * *
25865514 CCAGCACGAAGCCTGCGGAACTTTAGCCCAGATACATTT
1 CCAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTT
25865553 CCAG
1 CCAG
25865557 TATCTTGCAT
Statistics
Matches: 111, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 111 1.00
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.22
Consensus pattern (39 bp):
CCAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTT
Found at i:25868890 original size:15 final size:15
Alignment explanation
Indices: 25868861--25868899 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
25868851 AACAGAGAAG
25868861 CCAAGAATAAAGAAAT
1 CCAAG-ATAAAGAAAT
25868877 CCAAGATAAAGAAAT
1 CCAAGATAAAGAAAT
*
25868892 CCATGATA
1 CCAAGATA
25868900 CGAAAATCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.56, C:0.15, G:0.13, T:0.15
Consensus pattern (15 bp):
CCAAGATAAAGAAAT
Found at i:25871699 original size:49 final size:49
Alignment explanation
Indices: 25871646--25871872 Score: 251
Period size: 49 Copynumber: 4.6 Consensus size: 49
25871636 CTGGTACGCA
* *
25871646 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATTC-GGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTA-TCGGGTACACG
* * ** * *
25871695 TAGTAGCTTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCGGGTACACG
* * ** * *
25871745 TAGTAGCCTGCACTTAGTACTAAACACGTGATTGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCGGGTACACG
*
25871796 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATTC-GGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTA-TCGGGTACACG
*
25871845 TAGTAGCCTACACTTAGTACTACACACG
1 TAGTAGCCTGCACTTAGTACTACACACG
25871873 GAGACACACT
Statistics
Matches: 147, Mismatches: 26, Indels: 10
0.80 0.14 0.05
Matches are distributed among these distances:
49 67 0.46
50 44 0.30
51 36 0.24
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCGGGTACACG
Found at i:25874732 original size:23 final size:23
Alignment explanation
Indices: 25874704--25874753 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
25874694 AGTGTTGCTA
*
25874704 CTAATAGTAACATAGCAAAGCTG
1 CTAATAGTAACACAGCAAAGCTG
25874727 CTAATAGTAACACAGCAAAGCTG
1 CTAATAGTAACACAGCAAAGCTG
25874750 CTAA
1 CTAA
25874754 GAGCGGTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.44, C:0.20, G:0.16, T:0.20
Consensus pattern (23 bp):
CTAATAGTAACACAGCAAAGCTG
Found at i:25882945 original size:46 final size:45
Alignment explanation
Indices: 25882895--25883066 Score: 197
Period size: 46 Copynumber: 3.7 Consensus size: 45
25882885 TGAGCATCCA
25882895 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATGTCCG
* * *
25882941 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G--TCCG
* *
25882988 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATGTCCG
* *
25883034 AGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
25883067 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 59 0.55
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (45 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATGTCCG
Found at i:25883047 original size:93 final size:93
Alignment explanation
Indices: 25882888--25883059 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
25882878 GGATGGTTGA
* *
25882888 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
25882953 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
25882981 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
25883046 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
25883060 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:25887332 original size:40 final size:40
Alignment explanation
Indices: 25887224--25887473 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
25887214 CGGGATTTAA
* * * * *
25887224 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
25887264 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
25887304 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
25887344 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
25887384 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
25887424 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
25887464 CCGGATATAT
1 CCGGATATAT
25887474 TTCCAATGTT
Statistics
Matches: 193, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 192 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:25895508 original size:40 final size:40
Alignment explanation
Indices: 25895400--25895609 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
25895390 CGGGATTTAA
* * * * *
25895400 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
25895440 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
25895480 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
25895520 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
25895560 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
25895600 CCGGATATAT
1 CCGGATATAT
25895610 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:25900761 original size:29 final size:27
Alignment explanation
Indices: 25900727--25900828 Score: 89
Period size: 29 Copynumber: 3.6 Consensus size: 27
25900717 TACTCGACCG
*
25900727 CGCACACTTAGTGCCATGTGATTTAAGCC
1 CGCACACTTAGTGCCAT-T-ATTTAAGCT
**
25900756 CGCACAC-TAGTGCCATATAGTCCAAGCT
1 CGCACACTTAGTGCCAT-TA-TTTAAGCT
* *
25900784 CGTACACTTAGTGCCATACATTTCAAGCT
1 CGCACACTTAGTGCCAT-TATTT-AAGCT
*
25900813 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
25900829 ATCTCGTCAC
Statistics
Matches: 60, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
27 1 0.02
28 22 0.37
29 37 0.62
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTTAAGCT
Found at i:25907421 original size:29 final size:29
Alignment explanation
Indices: 25907286--25907420 Score: 216
Period size: 29 Copynumber: 4.7 Consensus size: 29
25907276 GCTTGGAAGG
25907286 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
25907315 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
25907344 TATGGCACTAAGTGTGCAAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
* * **
25907373 TATGGCACTATGTGTGCGAGCTTAAATCG
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
25907402 CATGGCACTAAGTGTGCGA
1 TATGGCACTAAGTGTGCGA
25907421 GATCGTTTAT
Statistics
Matches: 98, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 98 1.00
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.30
Consensus pattern (29 bp):
TATGGCACTAAGTGTGCGAACTTAAATTA
Found at i:25910509 original size:92 final size:92
Alignment explanation
Indices: 25910309--25910477 Score: 229
Period size: 92 Copynumber: 1.8 Consensus size: 92
25910299 AACGACACAA
* * *
25910309 ATTAAAAAATATTTTTTTACTGTCTCAACTTTTTTTGGACACCGTTTTCTTTTTTAAATTCATTG
1 ATTAAAAAATATTTTTTTACTGTCTCAACTTTTTGTGAACACCGTTTTCTTTTTTAAATTCATTC
* *
25910374 GTGTTGCTTGACACACCGATGGCACCC
66 ATGTTGCCTGACACACCGATGGCACCC
*
25910401 ATTAAAAAATATTTTTTT-CTTGTCTCAACTTTTTGTGTAACACTGTTTT-TTTTTTAAATTCA-
1 ATTAAAAAATATTTTTTTAC-TGTCTCAACTTTTTGTG-AACACCGTTTTCTTTTTTAAATTCAT
25910463 TCATGCTT-CCTGACA
64 TCATG-TTGCCTGACA
25910478 GATTGGTGAC
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
91 10 0.15
92 49 0.72
93 9 0.13
ACGTcount: A:0.25, C:0.18, G:0.11, T:0.47
Consensus pattern (92 bp):
ATTAAAAAATATTTTTTTACTGTCTCAACTTTTTGTGAACACCGTTTTCTTTTTTAAATTCATTC
ATGTTGCCTGACACACCGATGGCACCC
Found at i:25911177 original size:2 final size:2
Alignment explanation
Indices: 25911170--25911197 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
25911160 GAGATATGCA
25911170 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
25911198 CAAATGTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:25914449 original size:19 final size:20
Alignment explanation
Indices: 25914418--25914462 Score: 74
Period size: 19 Copynumber: 2.3 Consensus size: 20
25914408 CGGAAAATGA
*
25914418 TTTCTGAAAAATGATTTATT
1 TTTCTGAAAAATGATTTACT
25914438 TTTCTG-AAAATGATTTACT
1 TTTCTGAAAAATGATTTACT
25914457 TTTCTG
1 TTTCTG
25914463 GTGTTTGTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.29, C:0.09, G:0.11, T:0.51
Consensus pattern (20 bp):
TTTCTGAAAAATGATTTACT
Found at i:25914578 original size:14 final size:16
Alignment explanation
Indices: 25914544--25914584 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
25914534 CTATTTTTAC
25914544 ATATATTAATAAATTT
1 ATATATTAATAAATTT
25914560 ATATATTAATAAATTT
1 ATATATTAATAAATTT
*
25914576 ATATTTTAA
1 ATATATTAA
25914585 ATTATTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
ATATATTAATAAATTT
Found at i:25919143 original size:2 final size:2
Alignment explanation
Indices: 25919136--25919184 Score: 71
Period size: 2 Copynumber: 24.5 Consensus size: 2
25919126 ATTCTTGTTT
* *
25919136 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA GA TA TA GA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
25919178 TA GA TA T
1 TA TA TA T
25919185 TTCAAACCTC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (2 bp):
TA
Found at i:25919980 original size:38 final size:37
Alignment explanation
Indices: 25919884--25919981 Score: 124
Period size: 38 Copynumber: 2.6 Consensus size: 37
25919874 ACAATATAGA
* *
25919884 AACAATAGACATGTTTAACATGTATTTAGTTCAACAGT
1 AACAATAGACATG-TTAACATGTATTTAGTTAAACAAT
*
25919922 AGCAATAGACATGCTTAACATGTATTTAGTTAAACAAT
1 AACAATAGACATG-TTAACATGTATTTAGTTAAACAAT
* *
25919960 AACAGTAGGCATGTTGAACATG
1 AACAATAGACATGTT-AACATG
25919982 CAATCAATAA
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
37 2 0.04
38 50 0.96
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (37 bp):
AACAATAGACATGTTAACATGTATTTAGTTAAACAAT
Found at i:25921862 original size:14 final size:15
Alignment explanation
Indices: 25921838--25921870 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
25921828 TATCATCATC
25921838 TCATGTTTTCATATA
1 TCATGTTTTCATATA
*
25921853 TCAT-TTTTCATGTA
1 TCATGTTTTCATATA
25921867 TCAT
1 TCAT
25921871 CATTTGCTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.24, C:0.15, G:0.06, T:0.55
Consensus pattern (15 bp):
TCATGTTTTCATATA
Found at i:25925857 original size:42 final size:42
Alignment explanation
Indices: 25925811--25925957 Score: 105
Period size: 42 Copynumber: 3.1 Consensus size: 42
25925801 ATTAATAGTT
25925811 TTTGTAAAGTGATTTTTGACAAAAATGTCAAAAAGGGATTAA
1 TTTGTAAAGTGATTTTTGACAAAAATGTCAAAAAGGGATTAA
** * * *
25925853 TTTGTGAAAATGTGAAATTTTTTGGTTAAAAGTATCAATAAATTGAAGATTAATA
1 TTTGT--AAA-GTG--A-TTTTT-GACAAAAATGTCAA-AAA--G-GGATT-A-A
25925908 GTTTTTGTAAAGTGATTTTTGACAAAAATGTCAAAAAGGGATTAA
1 ---TTTGTAAAGTGATTTTTGACAAAAATGTCAAAAAGGGATTAA
25925953 TTTGT
1 TTTGT
25925958 GAAAATGTGA
Statistics
Matches: 79, Mismatches: 10, Indels: 32
0.65 0.08 0.26
Matches are distributed among these distances:
42 10 0.13
44 3 0.04
45 4 0.05
46 1 0.01
47 5 0.06
48 6 0.08
49 10 0.13
50 6 0.08
51 10 0.13
52 6 0.08
53 5 0.06
54 1 0.01
55 4 0.05
56 3 0.04
58 5 0.06
ACGTcount: A:0.40, C:0.03, G:0.18, T:0.38
Consensus pattern (42 bp):
TTTGTAAAGTGATTTTTGACAAAAATGTCAAAAAGGGATTAA
Found at i:25925972 original size:100 final size:100
Alignment explanation
Indices: 25925799--25925999 Score: 393
Period size: 100 Copynumber: 2.0 Consensus size: 100
25925789 GTTTAATGTT
25925799 AGATTAATAGTTTTTGTAAAGTGATTTTTGACAAAAATGTCAAAAAGGGATTAATTTGTGAAAAT
1 AGATTAATAGTTTTTGTAAAGTGATTTTTGACAAAAATGTCAAAAAGGGATTAATTTGTGAAAAT
*
25925864 GTGAAATTTTTTGGTTAAAAGTATCAATAAATTGA
66 GTGAAATTTGTTGGTTAAAAGTATCAATAAATTGA
25925899 AGATTAATAGTTTTTGTAAAGTGATTTTTGACAAAAATGTCAAAAAGGGATTAATTTGTGAAAAT
1 AGATTAATAGTTTTTGTAAAGTGATTTTTGACAAAAATGTCAAAAAGGGATTAATTTGTGAAAAT
25925964 GTGAAATTTGTTGGTTAAAAGTATCAATAAATTGA
66 GTGAAATTTGTTGGTTAAAAGTATCAATAAATTGA
25925999 A
1 A
25926000 AATATGGGTT
Statistics
Matches: 100, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 100 1.00
ACGTcount: A:0.41, C:0.03, G:0.18, T:0.37
Consensus pattern (100 bp):
AGATTAATAGTTTTTGTAAAGTGATTTTTGACAAAAATGTCAAAAAGGGATTAATTTGTGAAAAT
GTGAAATTTGTTGGTTAAAAGTATCAATAAATTGA
Found at i:25937300 original size:28 final size:28
Alignment explanation
Indices: 25937254--25937322 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
25937244 TTTAAAACCC
*
25937254 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
25937281 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
25937309 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
25937323 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:25939146 original size:19 final size:18
Alignment explanation
Indices: 25939109--25939152 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
25939099 ATACATACAG
25939109 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
25939126 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
25939145 TACTAATT
1 TAATAATT
25939153 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:25941573 original size:28 final size:28
Alignment explanation
Indices: 25941527--25941595 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
25941517 TTTAAAACCC
*
25941527 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
25941554 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
25941582 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
25941596 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:25943422 original size:19 final size:18
Alignment explanation
Indices: 25943385--25943428 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
25943375 ATACATACAG
25943385 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
25943402 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
25943421 TACTAATT
1 TAATAATT
25943429 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:25947809 original size:20 final size:20
Alignment explanation
Indices: 25947784--25947827 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
25947774 AATATTAGAT
25947784 TAAATTTAATATTAAGA-TAA
1 TAAATTTAATATTAA-ATTAA
25947804 TAAATTTAATATTAAATTAA
1 TAAATTTAATATTAAATTAA
25947824 TAAA
1 TAAA
25947828 ATACTATCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 1 0.04
20 22 0.96
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (20 bp):
TAAATTTAATATTAAATTAA
Found at i:25949303 original size:26 final size:26
Alignment explanation
Indices: 25949250--25949317 Score: 84
Period size: 26 Copynumber: 2.7 Consensus size: 26
25949240 TCTCATTTCT
* *
25949250 ATTTTACCCC-AGCAAAACTTTGAGG
1 ATTTTACCCCTAGTAAAACTTTGACG
*
25949275 ATTTTACCCCTAGTAAAATTTTGACG
1 ATTTTACCCCTAGTAAAACTTTGACG
**
25949301 ATTTTGTCCCTAGTAAA
1 ATTTTACCCCTAGTAAA
25949318 GTTTCAAGAA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
25 10 0.27
26 27 0.73
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (26 bp):
ATTTTACCCCTAGTAAAACTTTGACG
Found at i:25953337 original size:40 final size:40
Alignment explanation
Indices: 25953292--25953459 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
25953282 CGGAATATAA
25953292 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
25953332 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
25953372 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
25953412 CCGGATATAATTTCCAGCATAATTGTCTTCGAGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCG-GGTCTTAGC
25953452 CCGGATAT
1 CCGGATAT
25953460 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 104 0.97
41 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:25959875 original size:48 final size:46
Alignment explanation
Indices: 25959703--25959877 Score: 126
Period size: 48 Copynumber: 3.7 Consensus size: 46
25959693 GGATAAATTA
* * *
25959703 CCGATGCCATGTCACAGACATGGTCTTACACTGGCTCTCATATATGCATGG
1 CCGATG-CATGTCCCAGACATGGTCTTACACTGGCTATC-TCT-TG-A-GG
* * * *
25959754 -TGATGCATGTCCCAGACAT-GTCTTACACTAGCACAACTCTT-A-G
1 CCGATGCATGTCCCAGACATGGTCTTACACTGGC-TATCTCTTGAGG
* * * * **
25959797 CCAATACGTGTCCCATACA-CATCTTACACTGGCTATCTCTGTCGAGG
1 CCGATGCATGTCCCAGACATGGTCTTACACTGGCTATCTCT-T-GAGG
25959844 CCGATGCATGTCCCAGACATGGTCTTACACTGGC
1 CCGATGCATGTCCCAGACATGGTCTTACACTGGC
25959878 GCACAAATCA
Statistics
Matches: 94, Mismatches: 22, Indels: 19
0.70 0.16 0.14
Matches are distributed among these distances:
43 6 0.06
44 25 0.27
45 1 0.01
46 1 0.01
47 17 0.18
48 26 0.28
49 14 0.15
50 4 0.04
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (46 bp):
CCGATGCATGTCCCAGACATGGTCTTACACTGGCTATCTCTTGAGG
Found at i:25962499 original size:27 final size:26
Alignment explanation
Indices: 25962451--25962510 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
25962441 GCGAGGCTGC
*
25962451 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
25962478 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
25962504 CAGATAT
1 CAGATAT
25962511 ATATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:25962514 original size:2 final size:2
Alignment explanation
Indices: 25962507--25962548 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
25962497 ACCAGAACAG
25962507 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25962549 GTGGCGAAGC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25962629 original size:27 final size:26
Alignment explanation
Indices: 25962581--25962632 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
25962571 GTGAGGCTGG
*
25962581 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
25962607 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
25962633 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:25969720 original size:47 final size:46
Alignment explanation
Indices: 25969561--25969828 Score: 172
Period size: 47 Copynumber: 5.7 Consensus size: 46
25969551 GGATAAATTA
* * * * * *
25969561 CCGATGCCATGTCTCAGACATGGTCTTTCACTGGCTTTCATATATGCGTG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGC-ATCATCTTTGAG-G
* * * * *
25969611 CTGATGCATGTCCTAGACATGTCTTATACTAGCA-CAACTCTT-A-G
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCATCATCT-TTGAGG
** *
25969655 CCGATGCGCGTCCCAGACACGTCTTACACTGGCTATC-TCTGTTGAGG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGC-ATCATCT-TTGAGG
* * * *
25969702 CCGATGCATGTCCTAGACATGTCTTACTCTAGCACTCATCTTTG-TG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCA-TCATCTTTGAGG
* * *
25969748 CCGATGCCATGTCCCAGACATGGCCTTACACTGGC-TC-TCATAATGTGG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCATCATC-T-TTGAGG
* *
25969796 CTGAAGCATGTCCCAGACATGTCTTACACTGGC
1 CCGATGCATGTCCCAGACATGTCTTACACTGGC
25969829 GCACAAATCA
Statistics
Matches: 170, Mismatches: 36, Indels: 28
0.73 0.15 0.12
Matches are distributed among these distances:
44 27 0.16
45 7 0.04
46 28 0.16
47 63 0.37
48 28 0.16
49 12 0.07
50 5 0.03
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (46 bp):
CCGATGCATGTCCCAGACATGTCTTACACTGGCATCATCTTTGAGG
Found at i:25972681 original size:58 final size:58
Alignment explanation
Indices: 25972611--25972727 Score: 234
Period size: 58 Copynumber: 2.0 Consensus size: 58
25972601 TATCATGAAT
25972611 GTAAATTCCCAATCCAGAGCCATCCATAACACCCCCGTACCAGCCTTACACCATGTGG
1 GTAAATTCCCAATCCAGAGCCATCCATAACACCCCCGTACCAGCCTTACACCATGTGG
25972669 GTAAATTCCCAATCCAGAGCCATCCATAACACCCCCGTACCAGCCTTACACCATGTGG
1 GTAAATTCCCAATCCAGAGCCATCCATAACACCCCCGTACCAGCCTTACACCATGTGG
25972727 G
1 G
25972728 GAGACTACTC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.29, C:0.38, G:0.15, T:0.19
Consensus pattern (58 bp):
GTAAATTCCCAATCCAGAGCCATCCATAACACCCCCGTACCAGCCTTACACCATGTGG
Found at i:25975748 original size:18 final size:18
Alignment explanation
Indices: 25975721--25975766 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
25975711 TAGAATAGTT
25975721 AAAT-AAAGAAACAAAAG
1 AAATAAAAGAAACAAAAG
*
25975738 AAATAAAAGAAAGAAAAG
1 AAATAAAAGAAACAAAAG
25975756 -AATAGAAAGAA
1 AAATA-AAAGAA
25975767 CAGAACATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 8 0.31
18 18 0.69
ACGTcount: A:0.76, C:0.02, G:0.15, T:0.07
Consensus pattern (18 bp):
AAATAAAAGAAACAAAAG
Found at i:25976858 original size:6 final size:6
Alignment explanation
Indices: 25976847--25976879 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
25976837 TGTGTACCAC
*
25976847 TACTAT TACTAT TACTAT TACTAT TACTGT TAC
1 TACTAT TACTAT TACTAT TACTAT TACTAT TAC
25976880 CCTTATGGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.30, C:0.18, G:0.03, T:0.48
Consensus pattern (6 bp):
TACTAT
Found at i:25977054 original size:18 final size:18
Alignment explanation
Indices: 25977012--25977060 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
25977002 ACTGTCTGCT
* **
25977012 ACTGAATAATTGACTGTT
1 ACTGAATAAATGACTGAC
*
25977030 ACAGAATAAATGACTGAC
1 ACTGAATAAATGACTGAC
25977048 ACTGAATAAATGA
1 ACTGAATAAATGA
25977061 ATATTACTGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.45, C:0.12, G:0.16, T:0.27
Consensus pattern (18 bp):
ACTGAATAAATGACTGAC
Found at i:25977069 original size:18 final size:18
Alignment explanation
Indices: 25977011--25977070 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
25977001 GACTGTCTGC
* *
25977011 TACTGAATAATTGACTGT
1 TACTGAATAAATGACTAT
*
25977029 TACAGAATAAATGACTGA-
1 TACTGAATAAATGACT-AT
* *
25977047 CACTGAATAAATGAATAT
1 TACTGAATAAATGACTAT
25977065 TACTGA
1 TACTGA
25977071 TTAATCGATT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
17 1 0.03
18 32 0.97
ACGTcount: A:0.43, C:0.12, G:0.15, T:0.30
Consensus pattern (18 bp):
TACTGAATAAATGACTAT
Found at i:25982219 original size:9 final size:9
Alignment explanation
Indices: 25982205--25982244 Score: 53
Period size: 9 Copynumber: 4.2 Consensus size: 9
25982195 ATAGTTAAAT
*
25982205 AAAGAAACA
1 AAAGAAAGA
25982214 AAAGAAAGA
1 AAAGAAAGA
25982223 AAAGAAAGAA
1 AAAGAAAG-A
25982233 AAAGAATAGA
1 AAAGAA-AGA
25982243 AA
1 AA
25982245 GAACAGAACA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
9 16 0.57
10 10 0.36
11 2 0.07
ACGTcount: A:0.78, C:0.03, G:0.17, T:0.03
Consensus pattern (9 bp):
AAAGAAAGA
Found at i:25982223 original size:13 final size:13
Alignment explanation
Indices: 25982205--25982295 Score: 50
Period size: 11 Copynumber: 6.9 Consensus size: 13
25982195 ATAGTTAAAT
25982205 AAAGAAACA-AAAG
1 AAAGAAA-AGAAAG
25982218 AAAGAAAAGAAAG
1 AAAGAAAAGAAAG
25982231 --A-AAAAGAATAG
1 AAAGAAAAGAA-AG
*
25982242 AAAGAACAGAACATG
1 AAAGAAAAGAA-A-G
**
25982257 AAACGAAAATGGGTAG
1 AAA-GAAAA--GAAAG
25982273 AAAGAAAAG--AG
1 AAAGAAAAGAAAG
25982284 AAAGAAAAGAAA
1 AAAGAAAAGAAA
25982296 AAGGGAAAAC
Statistics
Matches: 62, Mismatches: 5, Indels: 22
0.70 0.06 0.25
Matches are distributed among these distances:
10 7 0.11
11 14 0.23
12 1 0.02
13 14 0.23
14 7 0.11
15 9 0.15
16 8 0.13
17 1 0.02
18 1 0.02
ACGTcount: A:0.69, C:0.04, G:0.22, T:0.04
Consensus pattern (13 bp):
AAAGAAAAGAAAG
Found at i:25982238 original size:15 final size:15
Alignment explanation
Indices: 25982218--25982247 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
25982208 GAAACAAAAG
25982218 AAAGAAAAGAAAGAA
1 AAAGAAAAGAAAGAA
*
25982233 AAAGAATAGAAAGAA
1 AAAGAAAAGAAAGAA
25982248 CAGAACATGA
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:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (15 bp):
AAAGAAAAGAAAGAA
Found at i:25982919 original size:3 final size:3
Alignment explanation
Indices: 25982911--25982956 Score: 83
Period size: 3 Copynumber: 15.0 Consensus size: 3
25982901 GAATGGTAAG
25982911 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TATT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT
25982957 GGTATTGAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 39 0.93
4 3 0.07
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:25983245 original size:20 final size:20
Alignment explanation
Indices: 25983220--25983265 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
25983210 ATTCCGACTG
*
25983220 TGTGTCAATGAGACACTATA
1 TGTGTCAACGAGACACTATA
*
25983240 TGTGTCGACGAGACACTATA
1 TGTGTCAACGAGACACTATA
25983260 TGTGTC
1 TGTGTC
25983266 GACTACTGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.30
Consensus pattern (20 bp):
TGTGTCAACGAGACACTATA
Found at i:25983266 original size:20 final size:20
Alignment explanation
Indices: 25983229--25983268 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
25983219 GTGTGTCAAT
25983229 GAGACACTATATGTGTCGAC
1 GAGACACTATATGTGTCGAC
25983249 GAGACACTATATGTGTCGAC
1 GAGACACTATATGTGTCGAC
25983269 TACTGTGACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (20 bp):
GAGACACTATATGTGTCGAC
Found at i:25983353 original size:51 final size:54
Alignment explanation
Indices: 25983285--25983386 Score: 140
Period size: 51 Copynumber: 1.9 Consensus size: 54
25983275 GACTGTTCCG
*
25983285 GATTCGTTCCGAAGAGGTAC-TT-TGTA-C-CTGACTGTTACTGTTACTATTTTA
1 GATTCGTTCCGAAGAGGTACTTTGTGTACCACT-ACTGTTACTATTACTATTTTA
* *
25983336 GATTTGTTCCGATGAGGTACTTTGTGTACCACTACTGTTACTATTACTATT
1 GATTCGTTCCGAAGAGGTACTTTGTGTACCACTACTGTTACTATTACTATT
25983387 ACTATTACTA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
51 18 0.41
52 2 0.05
53 4 0.09
54 18 0.41
55 2 0.05
ACGTcount: A:0.22, C:0.18, G:0.19, T:0.42
Consensus pattern (54 bp):
GATTCGTTCCGAAGAGGTACTTTGTGTACCACTACTGTTACTATTACTATTTTA
Found at i:25983382 original size:6 final size:6
Alignment explanation
Indices: 25983368--25983400 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
25983358 TGTGTACCAC
*
25983368 TACTGT TACTAT TACTAT TACTAT TACTAT TAC
1 TACTAT TACTAT TACTAT TACTAT TACTAT TAC
25983401 CCTTACGGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.30, C:0.18, G:0.03, T:0.48
Consensus pattern (6 bp):
TACTAT
Found at i:25983406 original size:18 final size:18
Alignment explanation
Indices: 25983362--25983406 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
25983352 GTACTTTGTG
* *
25983362 TACCACTACTGTTACTAT
1 TACCATTACTATTACTAT
*
25983380 TACTATTACTATTACTAT
1 TACCATTACTATTACTAT
*
25983398 TACCCTTAC
1 TACCATTAC
25983407 GGTGTATTCC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.29, C:0.27, G:0.02, T:0.42
Consensus pattern (18 bp):
TACCATTACTATTACTAT
Found at i:25983589 original size:18 final size:19
Alignment explanation
Indices: 25983532--25983591 Score: 56
Period size: 18 Copynumber: 3.3 Consensus size: 19
25983522 GACTGTCTGC
*
25983532 TACTGAAT-AATTAACTG-T
1 TACTGAATAAATGAA-TGAT
* *
25983550 TACAGAATAAATGACTGA-
1 TACTGAATAAATGAATGAT
25983568 TACTGAATAAATGAAT-AT
1 TACTGAATAAATGAATGAT
25983586 TACTGA
1 TACTGA
25983592 TTAACCGATT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
17 1 0.03
18 29 0.85
19 4 0.12
ACGTcount: A:0.45, C:0.10, G:0.13, T:0.32
Consensus pattern (19 bp):
TACTGAATAAATGAATGAT
Found at i:25989560 original size:46 final size:46
Alignment explanation
Indices: 25989493--25989585 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
25989483 ACCTGTACGA
25989493 CCCTAACGAAGATTTTGGAAATATGGACCCACACGCCCAGATTGGC
1 CCCTAACGAAGATTTTGGAAATATGGACCCACACGCCCAGATTGGC
25989539 CCCTAACGAAGATTTTGGAAATATGGACCCACACGCCCAGATTGGC
1 CCCTAACGAAGATTTTGGAAATATGGACCCACACGCCCAGATTGGC
25989585 C
1 C
25989586 TTACCTGTGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.30, C:0.29, G:0.22, T:0.19
Consensus pattern (46 bp):
CCCTAACGAAGATTTTGGAAATATGGACCCACACGCCCAGATTGGC
Found at i:25993130 original size:40 final size:40
Alignment explanation
Indices: 25993022--25993271 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
25993012 CGGGATTTAA
* * * * *
25993022 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
25993062 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
25993102 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
25993142 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
25993182 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
25993222 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
25993262 CCGGATATAT
1 CCGGATATAT
25993272 TTCCAATGTT
Statistics
Matches: 193, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 192 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:26006504 original size:28 final size:27
Alignment explanation
Indices: 26006441--26006510 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
26006431 ATAGTGAGTC
*
26006441 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
26006468 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
26006496 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
26006511 GTACAAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:26012831 original size:18 final size:19
Alignment explanation
Indices: 26012798--26012833 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
26012788 AAATCGGTGT
*
26012798 AAAAAAACGTTGAAAAAGA
1 AAAAAAACGTTAAAAAAGA
26012817 AAAAAAAC-TTAAAAAAG
1 AAAAAAACGTTAAAAAAG
26012834 TAAATAGGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.72, C:0.06, G:0.11, T:0.11
Consensus pattern (19 bp):
AAAAAAACGTTAAAAAAGA
Found at i:26013107 original size:25 final size:26
Alignment explanation
Indices: 26013065--26013114 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
26013055 TTTTTATAAT
*
26013065 AATTTGTATATTATGTTAATGCTTAA
1 AATTTGTATATTATGTTAATACTTAA
26013091 AATTT-TA-ATTATTGTTAATACTTA
1 AATTTGTATATTA-TGTTAATACTTA
26013115 GATTTAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 4 0.18
25 13 0.59
26 5 0.23
ACGTcount: A:0.36, C:0.04, G:0.08, T:0.52
Consensus pattern (26 bp):
AATTTGTATATTATGTTAATACTTAA
Found at i:26022454 original size:25 final size:25
Alignment explanation
Indices: 26022425--26022472 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
26022415 CCTTATAATG
* * *
26022425 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
26022450 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
26022473 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:26022541 original size:20 final size:20
Alignment explanation
Indices: 26022516--26022574 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
26022506 TAAATATGGT
26022516 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
26022536 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
26022556 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
26022575 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:26022556 original size:11 final size:11
Alignment explanation
Indices: 26022520--26022574 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
26022510 TATGGTATGT
26022520 ATGATATGCAC
1 ATGATATGCAC
* *
26022531 ATGAAATG--T
1 ATGATATGCAC
26022540 ATGATATGCAC
1 ATGATATGCAC
*
26022551 ATGATATG--T
1 ATGATATGCAC
26022560 ATGATATGCAC
1 ATGATATGCAC
26022571 ATGA
1 ATGA
26022575 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:26022651 original size:24 final size:24
Alignment explanation
Indices: 26022624--26022766 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
26022614 GAGGAAGTGA
26022624 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
26022648 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
26022672 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
26022695 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
26022719 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
26022743 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
26022767 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 77 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:26022717 original size:47 final size:47
Alignment explanation
Indices: 26022624--26022766 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
26022614 GAGGAAGTGA
26022624 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
26022672 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
26022719 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
26022767 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 43 0.49
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:26022740 original size:71 final size:72
Alignment explanation
Indices: 26022624--26022767 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
26022614 GAGGAAGTGA
*
26022624 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
26022687 CCAGTTAT
65 CCAGTTAT
** * *
26022695 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
26022760 CAGTTAT
66 CAGTTAT
26022767 A
1 A
26022768 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 54 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:26023020 original size:31 final size:31
Alignment explanation
Indices: 26022958--26023049 Score: 136
Period size: 31 Copynumber: 3.1 Consensus size: 31
26022948 CGTTTACAGT
* *
26022958 AAAGGCTTCGGCCCATTAGTA-G-AA-ATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
26022986 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
26023017 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
26023048 AA
1 AA
26023050 TATGAAAAGG
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
28 19 0.33
29 1 0.02
30 2 0.03
31 36 0.62
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:26029069 original size:25 final size:25
Alignment explanation
Indices: 26029041--26029088 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
26029031 TTATACCATG
* * *
26029041 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
26029066 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
26029089 GTTTATGTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:26029157 original size:20 final size:20
Alignment explanation
Indices: 26029132--26029190 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
26029122 TAAATATGGT
26029132 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
26029152 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
26029172 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
26029191 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Done.