Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 267 of 344
Found at i:89181128 original size:24 final size:23
Alignment explanation
Indices: 89181077--89181135 Score: 68
Period size: 24 Copynumber: 2.6 Consensus size: 23
89181067 CTACCTTTGA
89181077 TTTTAATCTCAC--TATTACAAT
1 TTTTAATCTCACTGTATTACAAT
***
89181098 AACTAATCTCACTGTCATTACAAT
1 TTTTAATCTCACTGT-ATTACAAT
89181122 TTTTAATCTCACTG
1 TTTTAATCTCACTG
89181136 GAATGAATCA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
21 9 0.31
23 1 0.03
24 19 0.66
ACGTcount: A:0.32, C:0.22, G:0.03, T:0.42
Consensus pattern (23 bp):
TTTTAATCTCACTGTATTACAAT
Found at i:89183392 original size:26 final size:26
Alignment explanation
Indices: 89183356--89183410 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
89183346 TTCCCTATCA
89183356 CATGCACTCATTCATCAAGTTAGTCT
1 CATGCACTCATTCATCAAGTTAGTCT
*
89183382 CATGCACTCATTCATCAAGTTAGTTT
1 CATGCACTCATTCATCAAGTTAGTCT
89183408 CAT
1 CAT
89183411 AACAGTGCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.36
Consensus pattern (26 bp):
CATGCACTCATTCATCAAGTTAGTCT
Found at i:89186285 original size:88 final size:87
Alignment explanation
Indices: 89186131--89186297 Score: 217
Period size: 88 Copynumber: 1.9 Consensus size: 87
89186121 TTTTTCTTTT
* * * ** * *
89186131 TTTTTTTTCATTTACTTGAGCACTTAAACTTTCAAAATACATTCAAAAGGCCCTCAAACTTCTTC
1 TTTTTTTTCACTCAATTGAGCACTTAAACTTTCAAAATACATAAAAAAGACCCTCAAAATTCTTC
89186196 AAAAAAAGCAATTAATCCCTTGC
66 -AAAAAAGCAATTAATCCCTTGC
* * ** *
89186219 TTTTTTTTCACTCAATTGGGCACTTGAACTTTCAAAATGTATAAAAAAGACCCTCAAAATTTTTC
1 TTTTTTTTCACTCAATTGAGCACTTAAACTTTCAAAATACATAAAAAAGACCCTCAAAATTCTTC
89186284 AAAAAAGCAATTAA
66 AAAAAAGCAATTAA
89186298 GCCCCTACTC
Statistics
Matches: 67, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
87 14 0.21
88 53 0.79
ACGTcount: A:0.38, C:0.20, G:0.08, T:0.35
Consensus pattern (87 bp):
TTTTTTTTCACTCAATTGAGCACTTAAACTTTCAAAATACATAAAAAAGACCCTCAAAATTCTTC
AAAAAAGCAATTAATCCCTTGC
Found at i:89186351 original size:18 final size:18
Alignment explanation
Indices: 89186325--89186379 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
89186315 AAATTAGGAA
*
89186325 AAATATTAGAAAAATATT
1 AAATTTTAGAAAAATATT
* *
89186343 AAATTTTAGAAAAAAAAAT
1 AAATTTTAG-AAAAATATT
*
89186362 AAATTTTAATAAAAATAT
1 AAATTTT-AGAAAAATAT
89186380 AAAACTTTAA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
18 8 0.28
19 20 0.69
20 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.33
Consensus pattern (18 bp):
AAATTTTAGAAAAATATT
Found at i:89186381 original size:18 final size:19
Alignment explanation
Indices: 89186325--89186382 Score: 66
Period size: 18 Copynumber: 3.2 Consensus size: 19
89186315 AAATTAGGAA
* *
89186325 AAATATTAGAAAAATAT-T
1 AAATTTTAGAAAAAAATAT
*
89186343 AAATTTTAGAAAAAAAAAT
1 AAATTTTAGAAAAAAATAT
*
89186362 AAATTTTA-ATAAAAATAT
1 AAATTTTAGAAAAAAATAT
89186380 AAA
1 AAA
89186383 ACTTTAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
18 25 0.74
19 9 0.26
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (19 bp):
AAATTTTAGAAAAAAATAT
Found at i:89186465 original size:19 final size:19
Alignment explanation
Indices: 89186413--89186468 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 19
89186403 TTATATTTTT
*
89186413 TTATAAATATCATTAAAAAA
1 TTATAAAAATCA-TAAAAAA
* *
89186433 -TA-AAAATTGA-AAAAAA
1 TTATAAAAATCATAAAAAA
89186449 TTATAAAAATCATAAAAAA
1 TTATAAAAATCATAAAAAA
89186468 T
1 T
89186469 GAATGACCTC
Statistics
Matches: 28, Mismatches: 5, Indels: 7
0.70 0.12 0.17
Matches are distributed among these distances:
16 6 0.21
17 2 0.07
18 11 0.39
19 9 0.32
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.29
Consensus pattern (19 bp):
TTATAAAAATCATAAAAAA
Found at i:89186685 original size:19 final size:19
Alignment explanation
Indices: 89186663--89186716 Score: 74
Period size: 19 Copynumber: 2.9 Consensus size: 19
89186653 TTCTTTTGAC
89186663 TTTATAAAATTTTATAATT
1 TTTATAAAATTTTATAATT
* *
89186682 TTTATTATATTTTATAATT
1 TTTATAAAATTTTATAATT
*
89186701 TTT-TACAATTTTATAA
1 TTTATAAAATTTTATAA
89186717 AAATTTACAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 10 0.33
19 20 0.67
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTATAAAATTTTATAATT
Found at i:89186711 original size:18 final size:18
Alignment explanation
Indices: 89186670--89186741 Score: 65
Period size: 18 Copynumber: 3.9 Consensus size: 18
89186660 GACTTTATAA
89186670 AATTTTATAATTTTTATTA-
1 AATTTTATAA-TTTT-TTAC
*
89186689 TATTTTATAATTTTTTAC
1 AATTTTATAATTTTTTAC
***
89186707 AATTTTATAAAAATTTAC
1 AATTTTATAATTTTTTAC
*
89186725 AATTTTTTAATATTTTT
1 AATTTTATAAT-TTTTT
89186742 TTACTTTTTT
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
17 3 0.07
18 27 0.64
19 12 0.29
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (18 bp):
AATTTTATAATTTTTTAC
Found at i:89186750 original size:20 final size:19
Alignment explanation
Indices: 89186726--89186774 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
89186716 AAAATTTACA
89186726 ATTTTTTAATATTTTTTT-
1 ATTTTTTAATATTTTTTTC
89186744 ACTTTTTT-ATATTTTTTTC
1 A-TTTTTTAATATTTTTTTC
*
89186763 TAATTTTTAATA
1 -ATTTTTTAATA
89186775 AAATTTAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 11 0.42
19 11 0.42
20 4 0.15
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.71
Consensus pattern (19 bp):
ATTTTTTAATATTTTTTTC
Found at i:89186750 original size:47 final size:47
Alignment explanation
Indices: 89186663--89186752 Score: 119
Period size: 47 Copynumber: 1.9 Consensus size: 47
89186653 TTCTTTTGAC
* * *
89186663 TTTATAAAATTTTATAATTTTTATTATATTTTATAATTTTTTACAAT
1 TTTATAAAAATTTACAATTTTTAATATATTTTATAATTTTTTACAAT
* *
89186710 TTTATAAAAATTTACAATTTTTTAATAT-TTTTTTACTTTTTTA
1 TTTATAAAAATTTACAA-TTTTTAATATATTTTATAATTTTTTA
89186753 TATTTTTTTC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
47 28 0.76
48 9 0.24
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (47 bp):
TTTATAAAAATTTACAATTTTTAATATATTTTATAATTTTTTACAAT
Found at i:89186781 original size:10 final size:10
Alignment explanation
Indices: 89186768--89186801 Score: 68
Period size: 10 Copynumber: 3.4 Consensus size: 10
89186758 TTTTCTAATT
89186768 TTTAATAAAA
1 TTTAATAAAA
89186778 TTTAATAAAA
1 TTTAATAAAA
89186788 TTTAATAAAA
1 TTTAATAAAA
89186798 TTTA
1 TTTA
89186802 TAGATTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
TTTAATAAAA
Found at i:89188944 original size:20 final size:18
Alignment explanation
Indices: 89188919--89188957 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
89188909 TAGCTTTGGT
89188919 TTTAATAATACAAAATATTA
1 TTTAAT-ATAC-AAATATTA
*
89188939 TTTAATTTACAAATATTA
1 TTTAATATACAAATATTA
89188957 T
1 T
89188958 ATATATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 3 0.17
20 6 0.33
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (18 bp):
TTTAATATACAAATATTA
Found at i:89191675 original size:2 final size:2
Alignment explanation
Indices: 89191668--89191696 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
89191658 TTTTTGCTTT
89191668 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
89191697 TCAGCTTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:89194377 original size:3 final size:3
Alignment explanation
Indices: 89194369--89194394 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
89194359 TCTTGGTGAT
89194369 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
89194395 TTTTTTTGTA
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:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:89195158 original size:5 final size:5
Alignment explanation
Indices: 89195094--89195156 Score: 117
Period size: 5 Copynumber: 12.6 Consensus size: 5
89195084 CAGAGCAGCG
89195094 CAGGA CAGGA CAGGA CAGGA CAGGA CAGGA CAGGA CAGGA CAGGA CAGGA
1 CAGGA CAGGA CAGGA CAGGA CAGGA CAGGA CAGGA CAGGA CAGGA CAGGA
*
89195144 CAGGA CAGAA CAG
1 CAGGA CAGGA CAG
89195157 AAAGGAAGGA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
5 57 1.00
ACGTcount: A:0.41, C:0.21, G:0.38, T:0.00
Consensus pattern (5 bp):
CAGGA
Found at i:89200354 original size:20 final size:20
Alignment explanation
Indices: 89200331--89200368 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
89200321 TATTCATAAC
* *
89200331 ATTTTAGAATTTTTCATTAA
1 ATTTTACAACTTTTCATTAA
89200351 ATTTTACAACTTTTCATT
1 ATTTTACAACTTTTCATT
89200369 TTAGTCCCTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.11, G:0.03, T:0.55
Consensus pattern (20 bp):
ATTTTACAACTTTTCATTAA
Found at i:89206187 original size:35 final size:35
Alignment explanation
Indices: 89206138--89206358 Score: 232
Period size: 35 Copynumber: 6.2 Consensus size: 35
89206128 AAAAAAATTA
* *
89206138 CCTTAGACGTGTCTATCCCAACTTTTTTAAGGTTG
1 CCTTAGAAGGGTCTATCCCAACTTTTTTAAGGTTG
89206173 CCTTAGAAGGGTCTATCCCAACCTTTTTTAAAGGTTG
1 CCTTAGAAGGGTCTATCCCAA-CTTTTTT-AAGGTTG
* * * *
89206210 CCTTAGACAAGGTTTATCTCAACTTTTTTAATGTTG
1 CCTTAGA-AGGGTCTATCCCAACTTTTTTAAGGTTG
*
89206246 CCTTACG-A--GTCTATCTCAACTTTTTTTAAAGGTTG
1 CCTTA-GAAGGGTCTATCCCAAC-TTTTTT-AAGGTTG
* * *
89206281 CCTTAGACATGGTCTATCCCAACCTTTTTAAAGTTG
1 CCTTAGA-AGGGTCTATCCCAACTTTTTTAAGGTTG
* * * *
89206317 TCTTAGACGGGTCTTTCCCAACCTTTTTAAGGTTG
1 CCTTAGAAGGGTCTATCCCAACTTTTTTAAGGTTG
89206352 CCTTAGA
1 CCTTAGA
89206359 TGAGTTTAAA
Statistics
Matches: 159, Mismatches: 17, Indels: 20
0.81 0.09 0.10
Matches are distributed among these distances:
33 11 0.07
34 7 0.04
35 61 0.38
36 31 0.19
37 27 0.17
38 22 0.14
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (35 bp):
CCTTAGAAGGGTCTATCCCAACTTTTTTAAGGTTG
Found at i:89206280 original size:71 final size:70
Alignment explanation
Indices: 89206148--89206358 Score: 246
Period size: 71 Copynumber: 2.9 Consensus size: 70
89206138 CCTTAGACGT
*
89206148 GTCTATCCCAACTTTTTTAAGGTTGCCTTA-GAAGGGTCTATCCCAACCTTTTTTAAAGGTTGCC
1 GTCTATCCCAACTTTTTTAAAGTTGCCTTACG-A--GTCTATCCCAA-CTTTTTTAAAGGTTGCC
89206212 TTAGACAAG
62 TTAGACAAG
* * * *
89206221 GTTTATCTCAACTTTTTTAATGTTGCCTTACGAGTCTATCTCAACTTTTTTTAAAGGTTGCCTTA
1 GTCTATCCCAACTTTTTTAAAGTTGCCTTACGAGTCTATCCCAAC-TTTTTTAAAGGTTGCCTTA
*
89206286 GACATG
65 GACAAG
* * * * *
89206292 GTCTATCCCAACCTTTTTAAAGTTGTCTTAGACGGGTCTTTCCCAACCTTTTT-AAGGTTGCCTT
1 GTCTATCCCAACTTTTTTAAAGTTGCCTT--ACGAGTCTATCCCAACTTTTTTAAAGGTTGCCTT
89206356 AGA
64 AGA
89206359 TGAGTTTAAA
Statistics
Matches: 120, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
70 1 0.01
71 72 0.60
72 5 0.04
73 41 0.34
74 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.40
Consensus pattern (70 bp):
GTCTATCCCAACTTTTTTAAAGTTGCCTTACGAGTCTATCCCAACTTTTTTAAAGGTTGCCTTAG
ACAAG
Found at i:89207083 original size:13 final size:13
Alignment explanation
Indices: 89207065--89207091 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
89207055 TATGTGAATC
89207065 TCTATGATACTTT
1 TCTATGATACTTT
89207078 TCTATGATACTTT
1 TCTATGATACTTT
89207091 T
1 T
89207092 ACGGAAGCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.15, G:0.07, T:0.56
Consensus pattern (13 bp):
TCTATGATACTTT
Found at i:89211835 original size:46 final size:47
Alignment explanation
Indices: 89211685--89212045 Score: 187
Period size: 46 Copynumber: 7.7 Consensus size: 47
89211675 TGTGTGAGCT
* * * *
89211685 AGTGTAAGA-CATGTTTGGGACATGCATCGACCAC-ATTATG-AGAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGA-GATGTA-AGCC
* * * * * *
89211731 AGTGTATGACCATGTTTGGGACATGGCATCGGCATTGAGACG--AGTTCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCGAGATGTAAG--CC
89211779 AGTGTAAGA-CATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCC
* * * * *
89211825 AGAGTGAGA-CATGTTTGGGACATGCATCGG-CTATGAGATGT--GTC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCCT-CGAGATGTAAGCC
* * * * *
89211869 AGTGTAAGACCATATCTGGGACATGGCATCGGCATGGACATGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCGAGATGT-A-AGCC
* * * **
89211919 AGTGTAAGACCATGTCTGGGACATGGCGTCGTCCTC-A-ATTTCGATAGTT
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCGAGATGT--A-AGCC
* * * *
89211968 AGTGTAA-AACATGTCTGGGACATGGCATC-GACTTGATGAATG--AGCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCGA-G-ATGTAAGCC
*
89212014 AGTGTAAGACTATGTCTGGGACATGGCATCGG
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGG
89212046 TATTATACCC
Statistics
Matches: 248, Mismatches: 45, Indels: 42
0.74 0.13 0.13
Matches are distributed among these distances:
44 9 0.04
45 14 0.06
46 82 0.33
47 50 0.20
48 45 0.18
49 14 0.06
50 32 0.13
51 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCC
Found at i:89213042 original size:42 final size:42
Alignment explanation
Indices: 89212988--89213078 Score: 164
Period size: 42 Copynumber: 2.2 Consensus size: 42
89212978 GGGCATGTCG
*
89212988 TGGCCGTGTGAGGGACACGGGCCATTGACACGGGCGTGTGTA
1 TGGCCGTATGAGGGACACGGGCCATTGACACGGGCGTGTGTA
*
89213030 TGGCCGTATGAGGGACACGGGCCATTGACACGGGGGTGTGTA
1 TGGCCGTATGAGGGACACGGGCCATTGACACGGGCGTGTGTA
89213072 TGGCCGT
1 TGGCCGT
89213079 GTGAAAACCC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.16, C:0.21, G:0.43, T:0.20
Consensus pattern (42 bp):
TGGCCGTATGAGGGACACGGGCCATTGACACGGGCGTGTGTA
Found at i:89214811 original size:28 final size:27
Alignment explanation
Indices: 89214710--89214811 Score: 80
Period size: 28 Copynumber: 3.5 Consensus size: 27
89214700 TCAGTGTTAA
* *
89214710 CTGGGCCTTAGCCCATATCAATATTAAT
1 CTGGGCC-TAGCCCATATCAGTATCAAT
*
89214738 CTGGGCCATAGCCC-TTTACAGTATCAGAGTATT
1 CTGGGCC-TAGCCCATAT-CAGTATC--A--A-T
*
89214771 TTGGGCCTAGCCCATATCAGTATCAAT
1 CTGGGCCTAGCCCATATCAGTATCAAT
89214798 CTGGGCCGTAGCCC
1 CTGGGCC-TAGCCC
89214812 TATTACAAGT
Statistics
Matches: 59, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
27 9 0.15
28 25 0.42
30 2 0.03
32 14 0.24
33 9 0.15
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (27 bp):
CTGGGCCTAGCCCATATCAGTATCAAT
Found at i:89214835 original size:60 final size:59
Alignment explanation
Indices: 89214711--89214847 Score: 161
Period size: 60 Copynumber: 2.3 Consensus size: 59
89214701 CAGTGTTAAC
* *
89214711 TGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCTTTACAGTATCAGAGTATTT
1 TGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCTTTACAG-ATCAGAGTATAT
* *
89214772 TGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACA-AGTC-GAGATATAT
1 TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCT-TTACAGA-TCAGAG-TATAT
* *
89214832 TGGGCCTTGGCCATAT
1 TGGGCCTAGCCCATAT
89214848 TAACACAGTT
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
59 4 0.06
60 52 0.78
61 11 0.16
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (59 bp):
TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTTTACAGATCAGAGTATAT
Found at i:89214894 original size:19 final size:20
Alignment explanation
Indices: 89214852--89214894 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
89214842 CCATATTAAC
** *
89214852 ACAGTTGGGCCCATTTCAAT
1 ACAGTTGGGCCCATAACAAA
89214872 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCATAACAAA
89214891 ACAG
1 ACAG
89214895 CCTCATATGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.21
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAA
Found at i:89215524 original size:8 final size:8
Alignment explanation
Indices: 89215497--89215527 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
89215487 ACAAAATGCT
89215497 GGCTTTTC
1 GGCTTTTC
*
89215505 GGCATTTC
1 GGCTTTTC
89215513 GGCTTTTC
1 GGCTTTTC
89215521 GGCTTTT
1 GGCTTTT
89215528 GCCGATCTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.03, C:0.23, G:0.26, T:0.48
Consensus pattern (8 bp):
GGCTTTTC
Found at i:89217806 original size:21 final size:21
Alignment explanation
Indices: 89217782--89217826 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
89217772 TCTCTCAACA
89217782 ACAC-AACTGTGTCTCTTAGAC
1 ACACGAAC-GTGTCTCTTAGAC
**
89217803 ACACGGGCGTGTCTCTTAGAC
1 ACACGAACGTGTCTCTTAGAC
89217824 ACA
1 ACA
89217827 TGGCCATGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (21 bp):
ACACGAACGTGTCTCTTAGAC
Found at i:89230072 original size:33 final size:33
Alignment explanation
Indices: 89230030--89230096 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
89230020 CATACCGAAA
*
89230030 TCACATATCGATGCCAACGTATTAAACGTGGTC
1 TCACATATCGACGCCAACGTATTAAACGTGGTC
89230063 TCACATATCGACGCCAACGTATTAAACGTGGTC
1 TCACATATCGACGCCAACGTATTAAACGTGGTC
89230096 T
1 T
89230097 TACTCACACA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (33 bp):
TCACATATCGACGCCAACGTATTAAACGTGGTC
Found at i:89233435 original size:5 final size:5
Alignment explanation
Indices: 89233425--89233450 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
89233415 TCAAAATCAG
89233425 CTTTT CTTTT CTTTT CTTTT CTTTT C
1 CTTTT CTTTT CTTTT CTTTT CTTTT C
89233451 GTATAACTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (5 bp):
CTTTT
Found at i:89234129 original size:26 final size:26
Alignment explanation
Indices: 89234100--89234155 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
89234090 TGATACAAAT
89234100 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
89234126 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
89234152 TGAT
1 TGAT
89234156 GGGAATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:89235777 original size:25 final size:22
Alignment explanation
Indices: 89235712--89235765 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
89235702 CATGTTTGAC
*
89235712 TGTTGTTATTTGCTGCATGCCA
1 TGTTGTTATTTACTGCATGCCA
89235734 TGTTGTTATTTACTGCATGCCA
1 TGTTGTTATTTACTGCATGCCA
89235756 TGTTGTTATT
1 TGTTGTTATT
89235766 ATCTGATGCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.15, C:0.15, G:0.20, T:0.50
Consensus pattern (22 bp):
TGTTGTTATTTACTGCATGCCA
Found at i:89241209 original size:26 final size:26
Alignment explanation
Indices: 89241171--89241226 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
89241161 TGATACAAAT
*
89241171 TGATAATGTGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
89241197 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
89241223 TGAT
1 TGAT
89241227 GGGAATTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.30, C:0.07, G:0.25, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:89244221 original size:9 final size:9
Alignment explanation
Indices: 89244205--89244237 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
89244195 ATTATTCCGT
89244205 AAATAAATC
1 AAATAAATC
*
89244214 ATATAAATC
1 AAATAAATC
89244223 AAATAAAT-
1 AAATAAATC
89244231 AAATAAA
1 AAATAAA
89244238 AAACATATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (9 bp):
AAATAAATC
Found at i:89245452 original size:29 final size:29
Alignment explanation
Indices: 89245410--89245469 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
89245400 ATACACACAC
89245410 AGTAAGCTATCACAGCTTAGTAAGTCATA
1 AGTAAGCTATCACAGCTTAGTAAGTCATA
89245439 AGTAAGCTATCACAGCTTAGTAAGTCATA
1 AGTAAGCTATCACAGCTTAGTAAGTCATA
89245468 AG
1 AG
89245470 CAAATAAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.27
Consensus pattern (29 bp):
AGTAAGCTATCACAGCTTAGTAAGTCATA
Found at i:89246080 original size:56 final size:56
Alignment explanation
Indices: 89246029--89246331 Score: 426
Period size: 56 Copynumber: 5.4 Consensus size: 56
89246019 CTACTCATAA
* * * *
89246029 ACACATAACGGAATTATATATCAATGCCAACGTATTAAACGTGGTCTTACTCGCAC
1 ACACATATCGGAATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCAC
* *
89246085 ACACATATCGAAATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCACAC
1 ACACATATCGGAATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCAC
*
89246141 ACACATATCGGAATCACATATCGATGCCAACGTATGAAACGTGGTCTTACTCGCAC
1 ACACATATCGGAATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCAC
** * * *
89246197 ACACATATTAGAATCACATATTGATGCCAACGTATTAAACGTGGCCTTACTCGCAA
1 ACACATATCGGAATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCAC
* * * * * *
89246253 ACACATATCTGTATCACATGTTGATGCCAACTTATTAAATGTGGTCTTACTCGCAC
1 ACACATATCGGAATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCAC
**
89246309 ACACATATCAAAATCACATATCG
1 ACACATATCGGAATCACATATCG
89246332 GTGCTAAAAA
Statistics
Matches: 219, Mismatches: 28, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 219 1.00
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.27
Consensus pattern (56 bp):
ACACATATCGGAATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCAC
Found at i:89248367 original size:24 final size:23
Alignment explanation
Indices: 89248303--89248371 Score: 63
Period size: 24 Copynumber: 3.0 Consensus size: 23
89248293 GAATTTAAAG
* *
89248303 GATATATAATGCTCTCCTTTAAAT
1 GATAAATAATGCTCT-CTTTAAGT
*
89248327 GATGTAA-AA-GCTC-CTTTAAGT
1 GAT-AAATAATGCTCTCTTTAAGT
89248348 GATAAATAATGCTCTTCTTTAAGT
1 GATAAATAATGCTC-TCTTTAAGT
89248372 AATGTAACAG
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
20 2 0.06
21 12 0.33
22 4 0.11
23 4 0.11
24 13 0.36
25 1 0.03
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.39
Consensus pattern (23 bp):
GATAAATAATGCTCTCTTTAAGT
Found at i:89248682 original size:40 final size:40
Alignment explanation
Indices: 89248638--89248737 Score: 137
Period size: 40 Copynumber: 2.5 Consensus size: 40
89248628 ATGTAATAAA
* *
89248638 AATAAAGTCCAGTAGATCAAAAATTAACTAAGATGAGTTT
1 AATAAAGTCCAGCAAATCAAAAATTAACTAAGATGAGTTT
* * * *
89248678 AATAAAATCTAGCAAATTAAGAATTAACTAAGATGAGTTT
1 AATAAAGTCCAGCAAATCAAAAATTAACTAAGATGAGTTT
*
89248718 AATAAAGTCCAGCAACTCAA
1 AATAAAGTCCAGCAAATCAA
89248738 GTATTAAACT
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.49, C:0.12, G:0.13, T:0.26
Consensus pattern (40 bp):
AATAAAGTCCAGCAAATCAAAAATTAACTAAGATGAGTTT
Found at i:89248744 original size:40 final size:39
Alignment explanation
Indices: 89248638--89248749 Score: 134
Period size: 40 Copynumber: 2.8 Consensus size: 39
89248628 ATGTAATAAA
* *
89248638 AATAAAGTCCAGTAGATCAAAAATTAACTAAGATGAGTTT
1 AATAAAGTCCAGCA-ATCAAGAATTAACTAAGATGAGTTT
* * *
89248678 AATAAAATCTAGCAAATTAAGAATTAACTAAGATGAGTTT
1 AATAAAGTCCAGC-AATCAAGAATTAACTAAGATGAGTTT
*
89248718 AATAAAGTCCAGCAACTCAAGTATTAAACTAA
1 AATAAAGTCCAGCAA-TCAAGAATT-AACTAA
89248750 AATTATAAGT
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
39 2 0.03
40 51 0.85
41 7 0.12
ACGTcount: A:0.49, C:0.12, G:0.12, T:0.27
Consensus pattern (39 bp):
AATAAAGTCCAGCAATCAAGAATTAACTAAGATGAGTTT
Found at i:89250514 original size:17 final size:16
Alignment explanation
Indices: 89250476--89250518 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
89250466 TTTCTCACAA
* *
89250476 TCTTTTTTTTTCATTT
1 TCTTTTTCTTTCATTC
*
89250492 TATTTTTCTTTCATATC
1 TCTTTTTCTTTCAT-TC
89250509 TCTTTTTCTT
1 TCTTTTTCTT
89250519 CTTTCAATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.74
Consensus pattern (16 bp):
TCTTTTTCTTTCATTC
Found at i:89252725 original size:40 final size:40
Alignment explanation
Indices: 89252670--89252781 Score: 136
Period size: 40 Copynumber: 2.8 Consensus size: 40
89252660 ATGTAATAAA
89252670 AATAAAGT-CATGCAAATCAATAATTAACTAAGATGAGTTT
1 AATAAAGTCCA-GCAAATCAATAATTAACTAAGATGAGTTT
* * *
89252710 AATAAAGTCCAGCAAATCAAGAATTAACTAAGATTATTTT
1 AATAAAGTCCAGCAAATCAATAATTAACTAAGATGAGTTT
* * * *
89252750 AATAAAATCCAACAACTCAATTATTAAACTAA
1 AATAAAGTCCAGCAAATCAATAATT-AACTAA
89252782 AATTATAAGC
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
40 54 0.87
41 8 0.13
ACGTcount: A:0.50, C:0.13, G:0.08, T:0.29
Consensus pattern (40 bp):
AATAAAGTCCAGCAAATCAATAATTAACTAAGATGAGTTT
Found at i:89255985 original size:16 final size:15
Alignment explanation
Indices: 89255960--89255989 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
89255950 TAAATGTTAT
89255960 TAAAGGTTAAAATGG
1 TAAAGGTTAAAATGG
89255975 TAAATGGTTAAAATG
1 TAAA-GGTTAAAATG
89255990 ACATAATAAT
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:0.00, G:0.23, T:0.30
Consensus pattern (15 bp):
TAAAGGTTAAAATGG
Found at i:89257459 original size:17 final size:18
Alignment explanation
Indices: 89257422--89257462 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
89257412 AGTGTTTTTC
* *
89257422 GAAAACCCTATTTTCTTT
1 GAAAACCCTATCTTATTT
89257440 GAAAACCCT-TCTTATTT
1 GAAAACCCTATCTTATTT
89257457 GAAAAC
1 GAAAAC
89257463 TTGAGTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.34, C:0.22, G:0.07, T:0.37
Consensus pattern (18 bp):
GAAAACCCTATCTTATTT
Found at i:89260665 original size:40 final size:40
Alignment explanation
Indices: 89260621--89260805 Score: 266
Period size: 40 Copynumber: 4.6 Consensus size: 40
89260611 TTTGATGTGT
* *
89260621 GTATCCGGGCTTAAAGACCCGCAGGCT-TCGTGCTGGAATA
1 GTATCCGGGTTTAAAGACCCGCAGGCTAT-ATGCTGGAATA
89260661 GTATCCGGGTTTAAAGACCCGCAGGCTATATGCTGGAA-A
1 GTATCCGGGTTTAAAGACCCGCAGGCTATATGCTGGAATA
* * * *
89260700 TGTATCCGGGTTTAAAGACCTGCAGGCTATATGTTGGAGTT
1 -GTATCCGGGTTTAAAGACCCGCAGGCTATATGCTGGAATA
* *
89260741 GTATCCGGGTTTAAAGACCCGCAGGCTATATGATGGAATT
1 GTATCCGGGTTTAAAGACCCGCAGGCTATATGCTGGAATA
89260781 GTATCCGGGTTTAAAGACCCGCAGG
1 GTATCCGGGTTTAAAGACCCGCAGG
89260806 TTTCGTACTG
Statistics
Matches: 133, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
39 1 0.01
40 131 0.98
41 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (40 bp):
GTATCCGGGTTTAAAGACCCGCAGGCTATATGCTGGAATA
Found at i:89260753 original size:80 final size:80
Alignment explanation
Indices: 89260620--89260846 Score: 287
Period size: 80 Copynumber: 2.9 Consensus size: 80
89260610 ATTTGATGTG
* *
89260620 TGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATAGTATCCGGGTTTAAAGACCCGCAG
1 TGTATCCGGGTTTAAAGACCCGCAGGCTTCATGCTGGAATAGTATCCGGGTTTAAAGACCCGCAG
*
89260685 GCTATATGCTGGAAA
66 GCTATATGATGGAAA
* * * *
89260700 TGTATCCGGGTTTAAAGACCTGCAGGCTAT-ATGTTGGAGTTGTATCCGGGTTTAAAGACCCGCA
1 TGTATCCGGGTTTAAAGACCCGCAGGCT-TCATGCTGGAATAGTATCCGGGTTTAAAGACCCGCA
*
89260764 GGCTATATGATGGAAT
65 GGCTATATGATGGAAA
* * * * * * * *
89260780 TGTATCCGGGTTTAAAGACCCGCAGGTTTCGTACTGGAATGGAATCC-GGATTAAAGATCCGTAG
1 TGTATCCGGGTTTAAAGACCCGCAGGCTTCATGCTGGAATAGTATCCGGGTTTAAAGACCCGCAG
89260844 GCT
66 GCT
89260847 CGTGTTAGAA
Statistics
Matches: 126, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
79 18 0.14
80 107 0.85
81 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (80 bp):
TGTATCCGGGTTTAAAGACCCGCAGGCTTCATGCTGGAATAGTATCCGGGTTTAAAGACCCGCAG
GCTATATGATGGAAA
Found at i:89260818 original size:40 final size:40
Alignment explanation
Indices: 89260620--89260846 Score: 232
Period size: 40 Copynumber: 5.7 Consensus size: 40
89260610 ATTTGATGTG
* * *
89260620 TGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAAT
1 TGTATCCGGGTTTAAAGACCCGCAGGCTTTGTACTGGAAT
* * * * *
89260660 AGTATCCGGGTTTAAAGACCCGCAGGCTATATGCTGGAAA
1 TGTATCCGGGTTTAAAGACCCGCAGGCTTTGTACTGGAAT
* *
89260700 TGTATCCGGGTTTAAAGACCTGCAGGCTATATGT--TGGAGT
1 TGTATCCGGGTTTAAAGACCCGCAGGCT-T-TGTACTGGAAT
89260740 TGTATCCGGGTTTAAAGACCCGCAGGCTATATG-A-TGGAAT
1 TGTATCCGGGTTTAAAGACCCGCAGGCT-T-TGTACTGGAAT
89260780 TGTATCCGGGTTTAAAGACCCGCAGG-TTTCGTACTGGAAT
1 TGTATCCGGGTTTAAAGACCCGCAGGCTTT-GTACTGGAAT
* * * * *
89260820 GGAATCC-GGATTAAAGATCCGTAGGCT
1 TGTATCCGGGTTTAAAGACCCGCAGGCT
89260847 CGTGTTAGAA
Statistics
Matches: 161, Mismatches: 19, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
37 1 0.01
38 2 0.01
39 17 0.11
40 139 0.86
42 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (40 bp):
TGTATCCGGGTTTAAAGACCCGCAGGCTTTGTACTGGAAT
Found at i:89261887 original size:26 final size:25
Alignment explanation
Indices: 89261830--89261923 Score: 116
Period size: 27 Copynumber: 3.6 Consensus size: 25
89261820 GTGCATTTTG
* *
89261830 GTAATTTTACACTACAAGGGTAATTC
1 GTAATTTTACA-AACAAGGGTATTTC
*
89261856 GATAATTTTACAAACCAGGGTATTTC
1 G-TAATTTTACAAACAAGGGTATTTC
89261882 TGTAATTTTACAAATCAAGGGTATTTC
1 -GTAATTTTACAAA-CAAGGGTATTTC
89261909 GGTAATTTTACAAAC
1 -GTAATTTTACAAAC
89261924 TGAGGTCTTA
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
26 25 0.42
27 35 0.58
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Consensus pattern (25 bp):
GTAATTTTACAAACAAGGGTATTTC
Found at i:89265356 original size:26 final size:26
Alignment explanation
Indices: 89265296--89265398 Score: 122
Period size: 26 Copynumber: 4.0 Consensus size: 26
89265286 CTACAAGTGC
*
89265296 ATTTTGGTAATTTTAC--ACAAGGGT
1 ATTTTGGTAATTTTACAAACTAGGGT
* *
89265320 AATTTGATAATTTTACAAACTAGGGT
1 ATTTTGGTAATTTTACAAACTAGGGT
*
89265346 ATTTTAGTAATTTTACAAA-TCAGGAGT
1 ATTTTGGTAATTTTACAAACT-AGG-GT
*
89265373 ATTTTGGTAATTTGACAAACTAGGGT
1 ATTTTGGTAATTTTACAAACTAGGGT
89265399 CTTAACGACC
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
24 14 0.21
25 1 0.02
26 28 0.42
27 22 0.33
28 1 0.02
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.40
Consensus pattern (26 bp):
ATTTTGGTAATTTTACAAACTAGGGT
Found at i:89265396 original size:53 final size:50
Alignment explanation
Indices: 89265296--89265398 Score: 134
Period size: 53 Copynumber: 2.0 Consensus size: 50
89265286 CTACAAGTGC
* * *
89265296 ATTTTGGTAATTTTACACAAGGGTAATTTGATAATTTTACAAACTAGGGT
1 ATTTTAGTAATTTTACAAAAGGGTAATTTGATAATTTGACAAACTAGGGT
* *
89265346 ATTTTAGTAATTTTACAAATCAGGAGTATTTTGGTAATTTGACAAACTAGGGT
1 ATTTTAGTAATTTTACAAA--AGG-GTAATTTGATAATTTGACAAACTAGGGT
89265399 CTTAACGACC
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
50 17 0.38
52 3 0.07
53 25 0.56
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.40
Consensus pattern (50 bp):
ATTTTAGTAATTTTACAAAAGGGTAATTTGATAATTTGACAAACTAGGGT
Found at i:89277266 original size:6 final size:7
Alignment explanation
Indices: 89277245--89277269 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
89277235 GAAATAAAGG
89277245 AAAGAAA
1 AAAGAAA
89277252 AAAGAAA
1 AAAGAAA
89277259 AAAGAAA
1 AAAGAAA
89277266 AAAG
1 AAAG
89277270 GGAAGGACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (7 bp):
AAAGAAA
Found at i:89277323 original size:218 final size:214
Alignment explanation
Indices: 89276908--89277341 Score: 678
Period size: 211 Copynumber: 2.0 Consensus size: 214
89276898 AAGTGTTGAA
* *
89276908 ATTTGATTGGATGATGGAATAAATGGACTAAAATGAAAAAAAAAGAAGGAAAAGTGTAGATTTTT
1 ATTTGATTGGATGATGGAATAAATGGACTAAAATG--AAAAAAAGAAGGAAAAGCGTAGAATTTT
*
89276973 CTAAATAATTGGAAGTTTGAAGGCATCAGCTTGGGGCAACAAAAATAAAAGGGAAATAAAGGAAA
64 CTAAATAATTGGAAGGTTGAAGGCATCAGCTTGGGGCAACAAAAATAAAAGGGAAATAAAGGAAA
* * *
89277038 GAAAAAAGAAAAAGGTAATGACTAGGAGTGTAATTATACCAAGAAAATGTCATGAATCAAGAATG
129 GAAAAAAGAAAAAGGGAAGGACTAGGAGTGTAATTATACCAAGAAAATGTCATGAATCAAAAATG
89277103 ACA-TGTAAAGAAAGTCAAGG
194 ACATTGTAAAGAAAGTCAAGG
89277123 ATTTGATTGGATGATGGAATAAATGGACTAAAATG-AAAAAA-AAGGAAAAGCGTAGAATTTTCT
1 ATTTGATTGGATGATGGAATAAATGGACTAAAATGAAAAAAAGAAGGAAAAGCGTAGAATTTTCT
*
89277186 AAATAATTGGAAGGTTGAAGGCATCAGCTTTGGGCAAC-AAAATAAAAGGGAAATAAAGGAAAGA
66 AAATAATTGGAAGGTTGAAGGCATCAGCTTGGGGCAACAAAAATAAAAGGGAAATAAA-G---G-
89277250 AAAAAGAAAAAAGAAAAAAGGGAAGGACTAGGAGTGTAATTATACCAAGAAAATGTCATGAATCA
126 --AAAGAAAAAAG-AAAAAGGGAAGGACTAGGAGTGTAATTATACCAAGAAAATGTCATGAATCA
*
89277315 AAAATGACATTGTAGAGAAAGTCAAGG
188 AAAATGACATTGTAAAGAAAGTCAAGG
89277342 GCAAAATAGT
Statistics
Matches: 202, Mismatches: 8, Indels: 14
0.90 0.04 0.06
Matches are distributed among these distances:
210 19 0.09
211 57 0.28
212 6 0.03
214 1 0.00
215 35 0.17
217 11 0.05
218 57 0.28
219 16 0.08
ACGTcount: A:0.49, C:0.07, G:0.24, T:0.21
Consensus pattern (214 bp):
ATTTGATTGGATGATGGAATAAATGGACTAAAATGAAAAAAAGAAGGAAAAGCGTAGAATTTTCT
AAATAATTGGAAGGTTGAAGGCATCAGCTTGGGGCAACAAAAATAAAAGGGAAATAAAGGAAAGA
AAAAAGAAAAAGGGAAGGACTAGGAGTGTAATTATACCAAGAAAATGTCATGAATCAAAAATGAC
ATTGTAAAGAAAGTCAAGG
Found at i:89278053 original size:12 final size:12
Alignment explanation
Indices: 89278033--89278064 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
89278023 AATATTTTTG
*
89278033 TTATGTACATTT
1 TTATATACATTT
89278045 TTATATACATTT
1 TTATATACATTT
89278057 TTATATAC
1 TTATATAC
89278065 TTTCTGGTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.31, C:0.09, G:0.03, T:0.56
Consensus pattern (12 bp):
TTATATACATTT
Found at i:89278256 original size:62 final size:61
Alignment explanation
Indices: 89278181--89278341 Score: 205
Period size: 62 Copynumber: 2.6 Consensus size: 61
89278171 CACATAGGCT
* *
89278181 AGGGACAGAGGCGTGTGTCTAGGTCGTTTAACTCATTGTTTGTATTTCTGGTCACACGAGCC
1 AGGGACAG-GGCGTGTGTCTAGGTCGTGTAACTCACTGTTTGTATTTCTGGTCACACGAGCC
** * * *
89278243 AGGGACACGGGCGTGTGTCTAGAACGTGTAACTCACTGTTTGTATTTCTGGTCACATGGGCT
1 AGGGACA-GGGCGTGTGTCTAGGTCGTGTAACTCACTGTTTGTATTTCTGGTCACACGAGCC
* * *
89278305 AGGGACATGGACGTGTGTCCAGGTTGTGTAACTCACT
1 AGGGACA-GGGCGTGTGTCTAGGTCGTGTAACTCACT
89278342 ATTTTGGATT
Statistics
Matches: 85, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
62 84 0.99
63 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.30
Consensus pattern (61 bp):
AGGGACAGGGCGTGTGTCTAGGTCGTGTAACTCACTGTTTGTATTTCTGGTCACACGAGCC
Found at i:89289527 original size:22 final size:22
Alignment explanation
Indices: 89289499--89289553 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
89289489 AAACCCGGTT
89289499 ACACGCCCGTGTGGACGCAGGA
1 ACACGCCCGTGTGGACGCAGGA
89289521 ACACGCCCGTGTGGACGCAGGA
1 ACACGCCCGTGTGGACGCAGGA
89289543 ACACGCCCGTG
1 ACACGCCCGTG
89289554 CGCCCTGGAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.22, C:0.35, G:0.35, T:0.09
Consensus pattern (22 bp):
ACACGCCCGTGTGGACGCAGGA
Found at i:89297028 original size:35 final size:35
Alignment explanation
Indices: 89296965--89297064 Score: 98
Period size: 35 Copynumber: 2.8 Consensus size: 35
89296955 TACTTATAAA
* **
89296965 TTTAGTATAAATATAATTTAATGTATATTTT-AT-T
1 TTTATTATAAATATAATTTAA-AAATATTTTGATAT
*
89296999 GTTTGATT-TAAATATAATTTGTAAAATATTTTGATAT
1 -TTT-ATTATAAATATAATTT-AAAAATATTTTGATAT
*
89297036 TTTATTATGAATATAATTTAAAAATATTT
1 TTTATTATAAATATAATTTAAAAATATTT
89297065 AAATTTTATT
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
35 34 0.63
36 19 0.35
37 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (35 bp):
TTTATTATAAATATAATTTAAAAATATTTTGATAT
Found at i:89297285 original size:21 final size:21
Alignment explanation
Indices: 89297261--89297313 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
89297251 CATTGTTTCT
* *
89297261 AATCTCACCGCTATAGTATCC
1 AATCTCACCGCTACAGTAACC
*
89297282 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
89297303 AATCTCACCGC
1 AATCTCACCGC
89297314 CACTGCTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.30, C:0.36, G:0.09, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:89301663 original size:48 final size:48
Alignment explanation
Indices: 89301591--89301762 Score: 249
Period size: 48 Copynumber: 3.6 Consensus size: 48
89301581 TTACGAGTTA
* *
89301591 CATTGATTTGGCTTCGGGCGATGATATTAGCACTTTGGGTGCGAG-TT
1 CATTGATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCGAGCTT
* * * *
89301638 ACATTGATTTGGATTTGGGCCATGATATTAGCACTTCAGGTACGAGCTT
1 -CATTGATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCGAGCTT
*
89301687 CATTGATTTGGCTTCGAGCCATGATATTAGCACTTCGGGTGCGAGCTT
1 CATTGATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCGAGCTT
89301735 CATTGATTTGGCGTT-GGGCCATGATATT
1 CATTGATTTGGC-TTCGGGCCATGATATT
89301763 GGAAATCAGG
Statistics
Matches: 110, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
48 106 0.96
49 4 0.04
ACGTcount: A:0.20, C:0.17, G:0.28, T:0.35
Consensus pattern (48 bp):
CATTGATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCGAGCTT
Found at i:89301752 original size:96 final size:96
Alignment explanation
Indices: 89301582--89301762 Score: 285
Period size: 96 Copynumber: 1.9 Consensus size: 96
89301572 GACATGTCAT
* * *
89301582 TACGAGTTACATTGATTTGGCTTCGGGCGATGATATTAGCACTTTGGGTGCGAGTTACATTGATT
1 TACGAGTTACATTGATTTGGCTTCGAGCCATGATATTAGCACTTCGGGTGCGAGTTACATTGATT
*
89301647 TGGATTTGGGCCATGATATTAGCACTTCAGG
66 TGGAGTTGGGCCATGATATTAGCACTTCAGG
89301678 TACGAGCTT-CATTGATTTGGCTTCGAGCCATGATATTAGCACTTCGGGTGCGAGCTT-CATTGA
1 TACGAG-TTACATTGATTTGGCTTCGAGCCATGATATTAGCACTTCGGGTGCGAG-TTACATTGA
*
89301741 TTTGGCGTTGGGCCATGATATT
64 TTTGGAGTTGGGCCATGATATT
89301763 GGAAATCAGG
Statistics
Matches: 78, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
96 74 0.95
97 4 0.05
ACGTcount: A:0.20, C:0.17, G:0.28, T:0.35
Consensus pattern (96 bp):
TACGAGTTACATTGATTTGGCTTCGAGCCATGATATTAGCACTTCGGGTGCGAGTTACATTGATT
TGGAGTTGGGCCATGATATTAGCACTTCAGG
Found at i:89306375 original size:37 final size:37
Alignment explanation
Indices: 89306325--89306403 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
89306315 TTATTACGAA
* * *
89306325 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
89306362 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
89306399 GTCTT
1 GTCTT
89306404 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:89306681 original size:47 final size:47
Alignment explanation
Indices: 89306521--89306886 Score: 624
Period size: 47 Copynumber: 7.7 Consensus size: 47
89306511 GCCCTTCGGG
*
89306521 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* *
89306571 ACTTTCACATTCATCACATCGGCCATTAGGCCCTGTCACATATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
89306620 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
89306667 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
89306714 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* *
89306761 ACTTTCACATTCATCACATGGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
89306808 ACTTTCACATTCATCACATCGGGCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
89306855 ACTTTCACATTCATCACATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
89306887 ATACTATCAT
Statistics
Matches: 307, Mismatches: 9, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
47 222 0.72
49 81 0.26
50 4 0.01
ACGTcount: A:0.30, C:0.29, G:0.10, T:0.31
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
Found at i:89306777 original size:25 final size:24
Alignment explanation
Indices: 89306699--89306826 Score: 75
Period size: 25 Copynumber: 5.4 Consensus size: 24
89306689 CCATTAGGCC
89306699 TTATCACATATATACACTTTCACA
1 TTATCACATATATACACTTTCACA
**** ***
89306723 TTCATCACAT-CGGCCA-TTAGGCA
1 TT-ATCACATATATACACTTTCACA
89306746 TTATCACATATATACACTTTCACA
1 TTATCACATATATACACTTTCACA
**** ***
89306770 TTCATCACAT-GGGCCA-TTAGGCA
1 TT-ATCACATATATACACTTTCACA
89306793 TTATCACATATATACACTTTCACA
1 TTATCACATATATACACTTTCACA
89306817 TTCATCACAT
1 TT-ATCACAT
89306827 CGGGCATTAG
Statistics
Matches: 69, Mismatches: 28, Indels: 13
0.63 0.25 0.12
Matches are distributed among these distances:
22 14 0.20
23 16 0.23
24 18 0.26
25 21 0.30
ACGTcount: A:0.33, C:0.27, G:0.07, T:0.34
Consensus pattern (24 bp):
TTATCACATATATACACTTTCACA
Found at i:89310357 original size:40 final size:40
Alignment explanation
Indices: 89310298--89310454 Score: 161
Period size: 40 Copynumber: 3.9 Consensus size: 40
89310288 CGAATACACG
* * * * *
89310298 TCACCAGCATGATTACTCTTTGGGACCTAGCCCAGATATA
1 TCACCAGCACGAATGCTCTTTGGGACTTAGCCCGGATATA
* ** *
89310338 ACACCAGCACGAATGCTCTTTGGGGTTTAGCACGGATATA
1 TCACCAGCACGAATGCTCTTTGGGACTTAGCCCGGATATA
* * * *
89310378 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACCAGCACGAATGCTCTTTGGGACTTAGCCCGGATATA
* * * *
89310418 TCACTAGCACGAATGCTCCTCGGGATTTAGCCCGGAT
1 TCACCAGCACGAATGCTCTTTGGGACTTAGCCCGGAT
89310455 TTAGTAACTC
Statistics
Matches: 97, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 97 1.00
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TCACCAGCACGAATGCTCTTTGGGACTTAGCCCGGATATA
Found at i:89310447 original size:80 final size:80
Alignment explanation
Indices: 89310325--89310495 Score: 200
Period size: 80 Copynumber: 2.1 Consensus size: 80
89310315 CTTTGGGACC
* * * * * * *
89310325 TAGCCCAGATATAACACCAGCACGAATGCTCTTTGGGGTTTAGCACGGATATA-TCACTAGCACG
1 TAGCCCGGATACAACACCAGCACGAATGCTCCTCGGGATTTAGCACGGATATAGTAACTAGCACC
89310389 AATGCTCTTCGGAACT
66 AATGC-CTTCGGAACT
* * * * *
89310405 TAGCCCGGATACATCACTAGCACGAATGCTCCTCGGGATTTAGCCCGGATTTAGTAACTCGCACC
1 TAGCCCGGATACAACACCAGCACGAATGCTCCTCGGGATTTAGCACGGATATAGTAACTAGCACC
*
89310470 AATGCCTTCGGATCT
66 AATGCCTTCGGAACT
*
89310485 TAGTCCGGATA
1 TAGCCCGGATA
89310496 TGGTCACTTA
Statistics
Matches: 76, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
80 63 0.83
81 13 0.17
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
TAGCCCGGATACAACACCAGCACGAATGCTCCTCGGGATTTAGCACGGATATAGTAACTAGCACC
AATGCCTTCGGAACT
Found at i:89310521 original size:80 final size:81
Alignment explanation
Indices: 89310384--89310533 Score: 189
Period size: 80 Copynumber: 1.9 Consensus size: 81
89310374 TATATCACTA
* * *
89310384 GCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCCTCGGGATTTAGC
1 GCACCAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAAAGCTCCTCGGGACTTAGC
89310449 CCGGATTTAGTAACTC
66 CCGGATTTAGTAACTC
* * ** *
89310465 GCACCAATGC-CTTCGGATCTTAGTCCGGATATGGTCACTTAGCAC-AAAGC-CTTCGGGACTTA
1 GCACCAATGCTCTTCGGAACTTAGCCCGGATA-CATCAC-TAGCACGAAAGCTCCTCGGGACTTA
89310527 GCCCGGA
64 GCCCGGA
89310534 CATCATTCGA
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
80 36 0.61
81 17 0.29
82 6 0.10
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (81 bp):
GCACCAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAAAGCTCCTCGGGACTTAGC
CCGGATTTAGTAACTC
Found at i:89310878 original size:29 final size:29
Alignment explanation
Indices: 89310839--89310917 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
89310829 CTTAATAATC
*
89310839 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
89310869 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
89310898 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
89310918 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:89310960 original size:43 final size:43
Alignment explanation
Indices: 89310899--89311001 Score: 197
Period size: 43 Copynumber: 2.4 Consensus size: 43
89310889 TGCATTTCAA
89310899 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
89310942 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTCTT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
89310985 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
89311002 TGAAAACCAA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.25, C:0.37, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:89312905 original size:37 final size:37
Alignment explanation
Indices: 89312855--89312933 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
89312845 TTATTACGAA
* * *
89312855 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
* *
89312892 GTCTTACCCGGACAAAATCCCCACAGGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
89312929 GTCTT
1 GTCTT
89312934 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:89313260 original size:47 final size:48
Alignment explanation
Indices: 89313051--89313371 Score: 549
Period size: 47 Copynumber: 6.7 Consensus size: 48
89313041 GCCCTTCGGG
89313051 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCCTATCACA-ATATATAC
89313101 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACA-ATATATAC
89313150 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACA-ATATATAC
*
89313199 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACAATATATAC
**
89313246 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCAC-ATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACAATATATAC
*
89313293 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACAATATATAC
89313340 ACTTTCACATTCATCACATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
89313372 ATACTATCAT
Statistics
Matches: 268, Mismatches: 3, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
47 132 0.49
49 132 0.49
50 4 0.01
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (48 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACAATATATAC
Found at i:89313309 original size:25 final size:25
Alignment explanation
Indices: 89313233--89313311 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 25
89313223 ATTAGGCCTT
89313233 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
**** ***
89313258 ATCACAT-CGGCCA-TTAGGCATT-
1 ATCACATATATACACTTTCACATTC
89313280 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
89313305 ATCACAT
1 ATCACAT
89313312 CGGCCATTAG
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 7 0.19
23 8 0.22
24 8 0.22
25 14 0.38
ACGTcount: A:0.34, C:0.28, G:0.05, T:0.33
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:89314562 original size:47 final size:48
Alignment explanation
Indices: 89314493--89314618 Score: 141
Period size: 47 Copynumber: 2.6 Consensus size: 48
89314483 TATAGTGCTG
* *
89314493 ATGCCATGTCCTAAACATGGTCTTACACTGGCTCATC-CAT-CAAGT-CA
1 ATGCCATGTCCTAGACATGGTCTTACACTGACTC-TCACATAC-AGTCCA
* * *
89314540 ATGCCATGTCCTAGACATGGTCTTACATTGACTCTCACATATCCGTGCCG
1 ATGCCATGTCCTAGACATGGTCTTACACTGACTCTCACATA-CAGT-CCA
*
89314590 ATGCCATGTCCCAGACATGGTCTTACACT
1 ATGCCATGTCCTAGACATGGTCTTACACT
89314619 AACACATTTT
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
46 2 0.03
47 34 0.51
48 2 0.03
49 1 0.01
50 28 0.42
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.29
Consensus pattern (48 bp):
ATGCCATGTCCTAGACATGGTCTTACACTGACTCTCACATACAGTCCA
Found at i:89314692 original size:47 final size:46
Alignment explanation
Indices: 89314594--89314759 Score: 167
Period size: 47 Copynumber: 3.6 Consensus size: 46
89314584 GTGCCGATGC
* * * * *
89314594 CATGTCCCAGACATGGTCTTACACTA--ACACATTTTGTAGCCAATG
1 CATGTCCCAGACAT-GTCTTACACTAGCTCTCATATTATGGCCAATG
* * * * *
89314639 CATGTCCCAAACATGTCTCACACTAGCTCTCGTCTTAAT-GCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATATT-ATGGCCAATG
* *
89314685 CCATGTCCCAGACATGGTATTACACTAGCTCTCATATTGTGGCCAATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCTCTCATATTATGGCCAATG
89314733 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
89314760 ACACAAATGA
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
44 10 0.10
45 13 0.13
46 23 0.23
47 29 0.29
48 24 0.24
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATATTATGGCCAATG
Found at i:89314697 original size:92 final size:93
Alignment explanation
Indices: 89314585--89314759 Score: 271
Period size: 94 Copynumber: 1.9 Consensus size: 93
89314575 CACATATCCG
* *
89314585 TGCCGATGCCATGTCCCAGACATGGTCTTACACTA-ACACATTTTGTAGCCAATGCATGTCCCAA
1 TGCCGATGCCATGTCCCAGACATGGTATTACACTACACACATATTGTAGCCAATGCATGTCCCAA
89314649 ACATGTCTCACACTAGCTCTCGTCTTAA
66 ACATGTCTCACACTAGCTCTCGTCTTAA
* * *
89314677 TGCCGATGCCATGTCCCAGACATGGTATTACACTAGCTCTCATATTGTGGCCAATGCATGTCCCA
1 TGCCGATGCCATGTCCCAGACATGGTATTACACTA-CACACATATTGTAGCCAATGCATGTCCCA
* *
89314742 GACATGTCTTACACTAGC
65 AACATGTCTCACACTAGC
89314760 ACACAAATGA
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
92 34 0.46
94 40 0.54
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (93 bp):
TGCCGATGCCATGTCCCAGACATGGTATTACACTACACACATATTGTAGCCAATGCATGTCCCAA
ACATGTCTCACACTAGCTCTCGTCTTAA
Found at i:89326247 original size:46 final size:45
Alignment explanation
Indices: 89326195--89326453 Score: 169
Period size: 46 Copynumber: 5.7 Consensus size: 45
89326185 GTCGATGCCG
* * *
89326195 TGTCCCAGACAGGTCTTACACTGA-CACATGTAACCGT-GCTGACGCA
1 TGTCCCAGACATGTCTTACACTGAGCACATCT--CC-TAGCCGACGCA
89326241 TGTCCCAGACATGTCTTACACT-AGCACATCTCCTAGCCGACGCA
1 TGTCCCAGACATGTCTTACACTGAGCACATCTCCTAGCCGACGCA
* * * *
89326285 TGTCCCAGACATGTCTGACACTG-CCTAACATCT-CGAGGCCGATGCA
1 TGTCCCAGACATGTCTTACACTGAGC--ACATCTCCTA-GCCGACGCA
* * * * *
89326331 TGTCCCAGACATGTCTTACACTG-GCTC-TCATACTGTGGCTGATGCA
1 TGTCCCAGACATGTCTTACACTGAGCACATC-T-C-CTAGCCGACGCA
* * * *
89326377 TGTCCTAGACATGTCTTACACT-AGC-CCTCGTCTCAATGCCGATGCCA
1 TGTCCCAGACATGTCTTACACTGAGCACATC-TC-CTA-GCCGACG-CA
*
89326424 TGTTCCAGACATGGTCTTACACTG-GCACAT
1 TGTCCCAGACAT-GTCTTACACTGAGCACAT
89326454 AAATCTCATG
Statistics
Matches: 173, Mismatches: 23, Indels: 31
0.76 0.10 0.14
Matches are distributed among these distances:
43 3 0.02
44 34 0.20
45 6 0.03
46 104 0.60
47 12 0.07
48 12 0.07
49 2 0.01
ACGTcount: A:0.23, C:0.32, G:0.20, T:0.25
Consensus pattern (45 bp):
TGTCCCAGACATGTCTTACACTGAGCACATCTCCTAGCCGACGCA
Found at i:89326418 original size:92 final size:90
Alignment explanation
Indices: 89326238--89326453 Score: 233
Period size: 92 Copynumber: 2.4 Consensus size: 90
89326228 CCGTGCTGAC
*
89326238 GCATGTCCCAGACATGTCTTACACTAG-CACATCTCCTAGCCGACGCATGTCCCAGACATGTCTG
1 GCATGTCCCAGACATGTCTTACACTGGCCACATCTCCTAGCCGACGCATGTCCCAGACATGTCTG
*
89326302 ACACTGCCTAACATCTCGAGGCCGAT
66 ACACTGCCT-ACATCTCAAGGCCGAT
* * * * * *
89326328 GCATGTCCCAGACATGTCTTACACTGGCTCTCATACT-GTGGCTGATGCATGTCCTAGACATGTC
1 GCATGTCCCAGACATGTCTTACACTGGC-CACAT-CTCCTAGCCGACGCATGTCCCAGACATGTC
* * *
89326392 TTACACTAGCCCT-CGTCTCAATGCCGAT
64 TGACACT-G-CCTACATCTCAAGGCCGAT
*
89326420 GCCATGTTCCAGACATGGTCTTACACTGG-CACAT
1 G-CATGTCCCAGACAT-GTCTTACACTGGCCACAT
89326454 AAATCTCATG
Statistics
Matches: 106, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
90 26 0.25
92 49 0.46
93 16 0.15
94 15 0.14
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.26
Consensus pattern (90 bp):
GCATGTCCCAGACATGTCTTACACTGGCCACATCTCCTAGCCGACGCATGTCCCAGACATGTCTG
ACACTGCCTACATCTCAAGGCCGAT
Found at i:89332000 original size:46 final size:46
Alignment explanation
Indices: 89331842--89332106 Score: 208
Period size: 47 Copynumber: 5.7 Consensus size: 46
89331832 CGGGGTATAG
89331842 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGG--CTCATCCATCAA
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-C-TCAA
* * * * * ** *
89331890 -GTCGATCCCAAGTCCCAGACATGGTCTTACACTGACACATTTTGT-AA
1 TGCCGAT-GCATGTCCCAGACAT-GTCTTACACTGGCTC-TCATCTCAA
*
89331937 --CCGATGCATGTCCCAGACATGTCTTACACTGGCT-TACATCTCGA
1 TGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATCTCAA
* * * *
89331981 TGCTGATGCATGTCTCAGACATGTCTTACACTAGCTCTCGTCTCAA
1 TGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCAA
*
89332027 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGGTCTCA--T-AA
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTCAA
*
89332072 TGTGGCCGATGCATGTCCCAAACATGTCTTACACT
1 --T-GCCGATGCATGTCCCAGACATGTCTTACACT
89332107 AGCACACAAA
Statistics
Matches: 176, Mismatches: 27, Indels: 30
0.76 0.12 0.13
Matches are distributed among these distances:
42 1 0.01
43 2 0.01
44 13 0.07
45 15 0.09
46 59 0.34
47 60 0.34
48 23 0.13
49 1 0.01
50 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (46 bp):
TGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCAA
Found at i:89332083 original size:94 final size:92
Alignment explanation
Indices: 89331937--89332109 Score: 235
Period size: 94 Copynumber: 1.9 Consensus size: 92
89331927 CATTTTGTAA
* * * *
89331937 CCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGATGCTGATGCATGTCTCAGACA
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATATCGATGCCGATGCATGTCCCAAACA
89332002 TGTCTTACACTAGCTCTCGTCTCAATG
66 TGTCTTACACTAGCTCTCGTCTCAATG
*
89332029 CCGATGCCATGTCCCAGACATGGTCTTACACTGGGTCT-CATAAT-G-TGGCCGATGCATGTCCC
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACAT-ATCGAT-GCCGATGCATGTCCC
89332091 AAACATGTCTTACACTAGC
61 AAACATGTCTTACACTAGC
89332110 ACACAAATGA
Statistics
Matches: 71, Mismatches: 5, Indels: 8
0.85 0.06 0.10
Matches are distributed among these distances:
92 6 0.08
93 15 0.21
94 48 0.68
95 2 0.03
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (92 bp):
CCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATATCGATGCCGATGCATGTCCCAAACA
TGTCTTACACTAGCTCTCGTCTCAATG
Found at i:89332087 original size:47 final size:45
Alignment explanation
Indices: 89331841--89332106 Score: 190
Period size: 46 Copynumber: 5.7 Consensus size: 45
89331831 ACGGGGTATA
89331841 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAA-
1 GTGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTC-T-CAT-AAT
* * * * **
89331890 GT--CGATCCCAAGTCCCAGACATGGTCTTACACT-G-ACACATTTT
1 GTGCCGAT-GCATGTCCCAGACAT-GTCTTACACTGGCTCTCATAAT
* *
89331933 GTAACCGATGCATGTCCCAGACATGTCTTACACTGGCT-TACAT-CT
1 GT-GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATAAT
* * * *
89331978 CGATGCTGATGCATGTCTCAGACATGTCTTACACTAGCTCTCGTCTCAA-
1 -G-TGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTC--AT-AAT
*
89332027 -TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGGTCTCATAAT
1 GTGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATAAT
*
89332073 GTGGCCGATGCATGTCCCAAACATGTCTTACACT
1 GT-GCCGATGCATGTCCCAGACATGTCTTACACT
89332107 AGCACACAAA
Statistics
Matches: 174, Mismatches: 23, Indels: 43
0.73 0.10 0.18
Matches are distributed among these distances:
43 5 0.03
44 10 0.06
45 18 0.10
46 59 0.34
47 57 0.33
48 23 0.13
49 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (45 bp):
GTGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAAT
Found at i:89332338 original size:62 final size:63
Alignment explanation
Indices: 89332239--89332363 Score: 225
Period size: 62 Copynumber: 2.0 Consensus size: 63
89332229 CATATCAAAC
*
89332239 TAAACACATATAATAACAATGTTGTTGTATTTTTTACATAAAATTAACCTCGGTATACAAAAT
1 TAAACACATATAATAACAATGTTGTTGTATTTTTTACATAAAACTAACCTCGGTATACAAAAT
*
89332302 TAAACACATATAATAA-AATGTTGTTGTATTTTTTACATACAACTAACCTCGGTATACAAAAT
1 TAAACACATATAATAACAATGTTGTTGTATTTTTTACATAAAACTAACCTCGGTATACAAAAT
89332364 GTAGACTACT
Statistics
Matches: 60, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
62 44 0.73
63 16 0.27
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.36
Consensus pattern (63 bp):
TAAACACATATAATAACAATGTTGTTGTATTTTTTACATAAAACTAACCTCGGTATACAAAAT
Found at i:89342981 original size:37 final size:37
Alignment explanation
Indices: 89342922--89343067 Score: 229
Period size: 37 Copynumber: 3.9 Consensus size: 37
89342912 AGCTCAGACG
* *
89342922 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
89342959 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* * *
89342996 TACTCTCCACACATAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
89343033 TAATCTCCACACGTAGTCATCGGGTCTCACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
89343068 ATATATTTCC
Statistics
Matches: 101, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 101 1.00
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:89343305 original size:47 final size:47
Alignment explanation
Indices: 89343229--89343620 Score: 523
Period size: 47 Copynumber: 8.1 Consensus size: 47
89343219 CATACATATC
* * * * * *
89343229 TCACATTAGCCATTTGGCTTTACCACATATATACATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
* *
89343276 TCACATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
* *
89343323 TCACATTGGCCATTCGGCCTTATCACCCATACGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
89343370 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
* * *
89343417 TCACATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCA--C----ACATATGCATGTTCACATTCA
* *
89343470 TCACATTGGCCATTCGGCCTTATCTCACATACGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
* **
89343517 TCACATTGGCCATTCGGCCTTATCACGCATATATATATAGGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCA--CACATATGCAT--GTTCACATTCA
*
89343568 TCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
89343615 TCACAT
1 TCACAT
89343621 AAAATCCTAA
Statistics
Matches: 306, Mismatches: 29, Indels: 20
0.86 0.08 0.06
Matches are distributed among these distances:
47 212 0.69
49 15 0.05
51 37 0.12
53 42 0.14
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
Found at i:89343335 original size:94 final size:98
Alignment explanation
Indices: 89343229--89343620 Score: 584
Period size: 94 Copynumber: 4.1 Consensus size: 98
89343219 CATACATATC
* * *
89343229 TCACATTAGCCATTTGG-CTT-T-AC-CACATATATACATGTTCACATTCATCACATTGGCCATT
1 TCACATTGGCCATTCGGCCTTATCACGCACATATATACAGGTTCACATTCATCACATTGGCCATT
* * *
89343290 CGGCCTTATCTCATATATGCATGTTCACATTCA
66 CGGCCTTATCACACATACGCATGTTCACATTCA
** *
89343323 TCACATTGGCCATTCGGCCTTATCAC-C-C--ATACGCATGTTCACATTCATCACATTGGCCATT
1 TCACATTGGCCATTCGGCCTTATCACGCACATATATACAGGTTCACATTCATCACATTGGCCATT
*
89343384 CGGCCTTATCACACATATGCATGTTCACATTCA
66 CGGCCTTATCACACATACGCATGTTCACATTCA
*
89343417 TCACATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCACATTGGCCA
1 TCACATTGGCCATTCGGCCTTATCACGC--ACATATATACAGGTTCACATTCATCACATTGGCCA
*
89343482 TTCGGCCTTATCTCACATACGCATGTTCACATTCA
64 TTCGGCCTTATCACACATACGCATGTTCACATTCA
* *
89343517 TCACATTGGCCATTCGGCCTTATCACGCATATATATATAGGTTCACATTCATCACATTGGCCATT
1 TCACATTGGCCATTCGGCCTTATCACGCACATATATACAGGTTCACATTCATCACATTGGCCATT
89343582 CGGCCTTATCACACATACGCATGTTCACATTCA
66 CGGCCTTATCACACATACGCATGTTCACATTCA
89343615 TCACAT
1 TCACAT
89343621 AAAATCCTAA
Statistics
Matches: 275, Mismatches: 14, Indels: 14
0.91 0.05 0.05
Matches are distributed among these distances:
94 103 0.37
95 4 0.01
96 2 0.01
97 3 0.01
98 74 0.27
100 89 0.32
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (98 bp):
TCACATTGGCCATTCGGCCTTATCACGCACATATATACAGGTTCACATTCATCACATTGGCCATT
CGGCCTTATCACACATACGCATGTTCACATTCA
Found at i:89343506 original size:100 final size:98
Alignment explanation
Indices: 89343255--89343620 Score: 587
Period size: 100 Copynumber: 3.8 Consensus size: 98
89343245 GCTTTACCAC
* * * * *
89343255 ATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACAT
1 ATATATATAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACAT
*
89343320 TCATCACATTGGCCATTCGGCCTTATCAC-C-C
66 TCATCACATTGGCCATTCGGCCTTATCACGCAT
*** *
89343351 ATACGCAT--GTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACAT
1 ATATATATAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACAT
89343414 TCATCACATTGGCCATTCGGCCTTATCACGCAT
66 TCATCACATTGGCCATTCGGCCTTATCACGCAT
*
89343447 ATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCACATACGCATGTTCAC
1 ATATATAT--AGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCAC
89343512 ATTCATCACATTGGCCATTCGGCCTTATCACGCAT
64 ATTCATCACATTGGCCATTCGGCCTTATCACGCAT
89343547 ATATATATAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACAT
1 ATATATATAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACAT
89343612 TCATCACAT
66 TCATCACAT
89343621 AAAATCCTAA
Statistics
Matches: 251, Mismatches: 13, Indels: 10
0.92 0.05 0.04
Matches are distributed among these distances:
94 82 0.33
95 1 0.00
96 9 0.04
98 65 0.26
100 94 0.37
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (98 bp):
ATATATATAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACAT
TCATCACATTGGCCATTCGGCCTTATCACGCAT
Found at i:89346215 original size:47 final size:47
Alignment explanation
Indices: 89346092--89346217 Score: 198
Period size: 47 Copynumber: 2.7 Consensus size: 47
89346082 CATACATGTT
* * *
89346092 TCACATTAGCCATTTGGCCTTATCACACATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
89346139 TCACATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
89346186 TCACATTGGTCATTCGGCCTTATCTCATATAT
1 TCACATTGGCCATTCGGCCTTATCACATATAT
89346218 ACACATAAAA
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.26, C:0.27, G:0.12, T:0.35
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:89352991 original size:58 final size:58
Alignment explanation
Indices: 89352853--89352996 Score: 168
Period size: 57 Copynumber: 2.5 Consensus size: 58
89352843 CCTCATAACA
* * ** * *
89352853 TATAACAGGATTA-TAGTCCAGGATAAATCCTTTTTGTAATATATGCTCAGAAGAGCT
1 TATATCAGGATTACTAGTCCAGGCTAAATCCTAATTGTAACATATGCTCAGAAGAGAT
* * * *
89352910 CA-ATTAGGATTACCAGTCTAGGCTAAATCCTAATTGTAACATATGCTCGAGAAG-GAT
1 TATATCAGGATTACTAGTCCAGGCTAAATCCTAATTGTAACATATGCTC-AGAAGAGAT
89352967 TATATCAGGATTACTAGTCCAGGCTAAATC
1 TATATCAGGATTACTAGTCCAGGCTAAATC
89352997 TCGTCAGTAA
Statistics
Matches: 70, Mismatches: 14, Indels: 5
0.79 0.16 0.06
Matches are distributed among these distances:
56 8 0.11
57 33 0.47
58 29 0.41
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.31
Consensus pattern (58 bp):
TATATCAGGATTACTAGTCCAGGCTAAATCCTAATTGTAACATATGCTCAGAAGAGAT
Found at i:89354867 original size:43 final size:43
Alignment explanation
Indices: 89354806--89354887 Score: 155
Period size: 43 Copynumber: 1.9 Consensus size: 43
89354796 CAGCTTCAAC
89354806 TGTCTTGAAGCATAAGAAACGACTTTGCCTTCTTGCATCCAAT
1 TGTCTTGAAGCATAAGAAACGACTTTGCCTTCTTGCATCCAAT
*
89354849 TGTCTTGAAGCATAAGAAATGACTTTGCCTTCTTGCATC
1 TGTCTTGAAGCATAAGAAACGACTTTGCCTTCTTGCATC
89354888 AAAACACATC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (43 bp):
TGTCTTGAAGCATAAGAAACGACTTTGCCTTCTTGCATCCAAT
Found at i:89363027 original size:15 final size:14
Alignment explanation
Indices: 89363007--89363052 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
89362997 AAAATGCCTA
89363007 TTATTTTTCTTCTTT
1 TTATTTTT-TTCTTT
*
89363022 TTATTTTGGTTCTTT
1 TTATTTT-TTTCTTT
*
89363037 TTCTTTTTTTCTTT
1 TTATTTTTTTCTTT
89363051 TT
1 TT
89363053 GATAACTCCA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 8 0.30
15 19 0.70
ACGTcount: A:0.04, C:0.11, G:0.04, T:0.80
Consensus pattern (14 bp):
TTATTTTTTTCTTT
Found at i:89368489 original size:38 final size:38
Alignment explanation
Indices: 89368445--89368659 Score: 319
Period size: 38 Copynumber: 5.7 Consensus size: 38
89368435 GCTTAAAGGT
89368445 CCGCAGGCTTCGTGCTGGTATTATATCCAGGTTAAATC
1 CCGCAGGCTTCGTGCTGGTATTATATCCAGGTTAAATC
*
89368483 CCGCAGGCTTCGTGCTGGTACTATATCCAGGTTAAATC
1 CCGCAGGCTTCGTGCTGGTATTATATCCAGGTTAAATC
* * *
89368521 CCG-ATGGCTTCGAGCTGGTACTATATCCGGGTTAAATC
1 CCGCA-GGCTTCGTGCTGGTATTATATCCAGGTTAAATC
*
89368559 CCGCAGGCTTCGTGCTGGTATTATAT-CTGAGTTAAATC
1 CCGCAGGCTTCGTGCTGGTATTATATCCAG-GTTAAATC
* *
89368597 TCGCA-GCTTCGTGCTGGTATTATATCCGGGTTAAATC
1 CCGCAGGCTTCGTGCTGGTATTATATCCAGGTTAAATC
*
89368634 CCGCAGGCTTAGTGCTGGTATTATAT
1 CCGCAGGCTTCGTGCTGGTATTATAT
89368660 TTGAGCTTAA
Statistics
Matches: 162, Mismatches: 10, Indels: 10
0.89 0.05 0.05
Matches are distributed among these distances:
37 35 0.22
38 126 0.78
39 1 0.01
ACGTcount: A:0.20, C:0.23, G:0.25, T:0.32
Consensus pattern (38 bp):
CCGCAGGCTTCGTGCTGGTATTATATCCAGGTTAAATC
Found at i:89368649 original size:75 final size:76
Alignment explanation
Indices: 89368445--89368692 Score: 340
Period size: 76 Copynumber: 3.2 Consensus size: 76
89368435 GCTTAAAGGT
* *
89368445 CCGCAGGCTTCGTGCTGGTATTATATCCAGGTTAAATCCCGCAGGCTTCGTGCTGGTACTATATC
1 CCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
*
89368510 -CAGGTTAAATC
66 TGA-GTTAAATC
* *
89368521 CCG-ATGGCTTCGAGCTGGTACTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATAT
1 CCGCA-GGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATAT
89368585 CTGAGTTAAATC
65 CTGAGTTAAATC
* * *
89368597 TCGCA-GCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTATTATATT
1 CCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
89368661 TGAGCTTAAAGTC
66 TGAG-TTAAA-TC
* * *
89368674 CTGCAGGTTTTGTGCTGGT
1 CCGCAGGCTTCGTGCTGGT
89368693 GACTAGATTT
Statistics
Matches: 152, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
75 60 0.39
76 74 0.49
77 7 0.05
78 11 0.07
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.33
Consensus pattern (76 bp):
CCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
TGAGTTAAATC
Found at i:89376275 original size:38 final size:38
Alignment explanation
Indices: 89376230--89376437 Score: 263
Period size: 38 Copynumber: 5.4 Consensus size: 38
89376220 TAAAGGTCCA
89376230 CAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCG
1 CAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCG
* * *
89376268 CAGGCTTCGTGCTGGTACTATATCTGAGTTAAATCCCG
1 CAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCG
* * *
89376306 CAGGCTTCGTGCTGGTACTATATCCGGGTAAAATCCTG
1 CAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCG
* * *
89376344 TAGGCTTCGTGTTGGTATTATATCCGGGTTGAATCCCG
1 CAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCG
* * *
89376382 CAGGCTTAGTGCTGGTATTATATTCGAGCTTAAAGTCCCG
1 CAGGCTTCGTGCTGGTATTATATCCG-GGTTAAA-TCCCG
* * *
89376422 TAGGTTTTGTGCTGGT
1 CAGGCTTCGTGCTGGT
89376438 GACTGGATTG
Statistics
Matches: 146, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
38 123 0.84
39 5 0.03
40 18 0.12
ACGTcount: A:0.19, C:0.21, G:0.27, T:0.34
Consensus pattern (38 bp):
CAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCG
Found at i:89378953 original size:22 final size:19
Alignment explanation
Indices: 89378924--89378980 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
89378914 TATTCCTCCA
*
89378924 TTCT-TTTTTTATTATTTTT
1 TTCTCTTTTTTATT-TTCTT
*
89378943 TCTCTCCTTTTTTCTTTTCTT
1 T-TCT-CTTTTTTATTTTCTT
89378964 TTCTCTTTTTTATTTTC
1 TTCTCTTTTTTATTTTC
89378981 CTTTGTTCCT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
19 13 0.41
20 6 0.19
21 5 0.16
22 8 0.25
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (19 bp):
TTCTCTTTTTTATTTTCTT
Found at i:89384020 original size:27 final size:27
Alignment explanation
Indices: 89383982--89384038 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
89383972 GTTGGATGGG
89383982 GTTATCATGCATTAATCATATGAGACT
1 GTTATCATGCATTAATCATATGAGACT
89384009 GTTATCATGCATTAATCATATGAGACT
1 GTTATCATGCATTAATCATATGAGACT
89384036 GTT
1 GTT
89384039 TTGTTATGGG
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:0.32, C:0.14, G:0.16, T:0.39
Consensus pattern (27 bp):
GTTATCATGCATTAATCATATGAGACT
Found at i:89391481 original size:15 final size:15
Alignment explanation
Indices: 89391461--89391503 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
89391451 TATTAGAAAT
89391461 AAATAGATATTATAA
1 AAATAGATATTATAA
89391476 AAATAGA-A--AT--
1 AAATAGATATTATAA
89391486 AAATAGATATTATAA
1 AAATAGATATTATAA
89391501 AAA
1 AAA
89391504 GAAACTAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 10
0.70 0.00 0.30
Matches are distributed among these distances:
10 7 0.30
11 1 0.04
12 2 0.09
13 2 0.09
14 1 0.04
15 10 0.43
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (15 bp):
AAATAGATATTATAA
Found at i:89391482 original size:25 final size:25
Alignment explanation
Indices: 89391454--89391503 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
89391444 AAATATTTAT
89391454 TAGAAATAAATAGATATTATAAAAA
1 TAGAAATAAATAGATATTATAAAAA
89391479 TAGAAATAAATAGATATTATAAAAA
1 TAGAAATAAATAGATATTATAAAAA
89391504 GAAACTAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (25 bp):
TAGAAATAAATAGATATTATAAAAA
Found at i:89392813 original size:30 final size:30
Alignment explanation
Indices: 89392757--89392813 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
89392747 TTTCGGGACA
* **
89392757 AGGGGTAAAATGGTCATTTTGTCAAAGTCT
1 AGGGGCAAAATGGTCATTTTACCAAAGTCT
89392787 AGGGGCAAAATGGTCATTTTACCAAAG
1 AGGGGCAAAATGGTCATTTTACCAAAG
89392814 ATATGAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.28
Consensus pattern (30 bp):
AGGGGCAAAATGGTCATTTTACCAAAGTCT
Found at i:89393301 original size:46 final size:44
Alignment explanation
Indices: 89393199--89393359 Score: 164
Period size: 46 Copynumber: 3.5 Consensus size: 44
89393189 TATGAGAGCT
* * *
89393199 AGTGTAAGACAATGTCTGGGACATAGCATCGGTATTGAGAC-TAGTGAT
1 AGTGTAAGAC-ATGTCTGGGACAT-GCATCGG-CTCGAGACGTAGT--C
* *
89393247 AATATAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTAAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTCGAGACGT-AGTC
*
89393293 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGT-GTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCT-CGAGACGTAGTC
*
89393337 AGTGTAAGACCATGTTTGGGACA
1 AGTGTAAGA-CATGTCTGGGACA
89393360 CAACATCGGC
Statistics
Matches: 99, Mismatches: 10, Indels: 11
0.82 0.08 0.09
Matches are distributed among these distances:
44 12 0.12
45 14 0.14
46 48 0.48
47 14 0.14
48 11 0.11
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTCGAGACGTAGTC
Found at i:89393368 original size:92 final size:94
Alignment explanation
Indices: 89393199--89393369 Score: 210
Period size: 92 Copynumber: 1.8 Consensus size: 94
89393189 TATGAGAGCT
*
89393199 AGTGTAAGACAATGTCTGGGACATAGCATCGGTATTGAGACTAGTGATAATATAAGACATGTCTG
1 AGTGTAAGACAATGTCTGGGACATAGCATCGGTATCGAGACTAGTGATAATATAAGACATGTCTG
**
89393264 GGACATGCATCGGCCTCGAGACGTAAGTC
66 GGACAAACATCGGCCTCGAGACGTAAGTC
* *
89393293 AGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCTA-CGAGA-T-GTG-TCAGTGTAAGACCATGT
1 AGTGTAAGACAATGTCTGGGACATAGCATCGG-TATCGAGACTAGTGAT-AATATAAGA-CATGT
*
89393352 TTGGGACACAACATCGGC
63 CTGGGACA-AACATCGGC
89393370 ACAGATATGC
Statistics
Matches: 67, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
89 1 0.01
90 10 0.15
91 13 0.19
92 18 0.27
93 15 0.22
94 10 0.15
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (94 bp):
AGTGTAAGACAATGTCTGGGACATAGCATCGGTATCGAGACTAGTGATAATATAAGACATGTCTG
GGACAAACATCGGCCTCGAGACGTAAGTC
Found at i:89395607 original size:27 final size:27
Alignment explanation
Indices: 89395533--89395607 Score: 75
Period size: 27 Copynumber: 2.8 Consensus size: 27
89395523 TCTTAACCTT
* *
89395533 ATTTTACCCCCAATGAAA-TTTTGACG
1 ATTTTACCCCTAATAAAATTTTTGACG
**
89395559 ATTTTA-CCCTAGA-AACTTTTTTTGACG
1 ATTTTACCCCTA-ATAA-AATTTTTGACG
89395586 ATTTTACCCCTAATAAAATTTT
1 ATTTTACCCCTAATAAAATTTT
89395608 GATAAAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
25 5 0.13
26 7 0.18
27 19 0.50
28 7 0.18
ACGTcount: A:0.31, C:0.20, G:0.08, T:0.41
Consensus pattern (27 bp):
ATTTTACCCCTAATAAAATTTTTGACG
Found at i:89397496 original size:31 final size:31
Alignment explanation
Indices: 89397458--89397528 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
89397448 AAACAAATGG
*
89397458 GTGACCAAAATAATAAATTATTGC-AACAGTA
1 GTGACCAAAACAATAAATTATT-CTAACAGTA
*
89397489 GTGACCAAAACAATAAATTATTCTAATAGTA
1 GTGACCAAAACAATAAATTATTCTAACAGTA
*
89397520 GTGATCAAA
1 GTGACCAAA
89397529 TTTAAAGTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
30 1 0.03
31 35 0.97
ACGTcount: A:0.48, C:0.13, G:0.13, T:0.27
Consensus pattern (31 bp):
GTGACCAAAACAATAAATTATTCTAACAGTA
Found at i:89400729 original size:16 final size:16
Alignment explanation
Indices: 89400708--89400759 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 16
89400698 GTAGTAGGGG
*
89400708 TTTTTTGAGGAGTTTT
1 TTTTTTGAGAAGTTTT
*
89400724 TTTTTTTAGAAGTTTTT
1 TTTTTTGAGAAG-TTTT
*
89400741 TTTTTTGAATAAGTTTT
1 TTTTTTG-AGAAGTTTT
89400758 TT
1 TT
89400760 GGGGGGGAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
16 10 0.33
17 16 0.53
18 4 0.13
ACGTcount: A:0.17, C:0.00, G:0.15, T:0.67
Consensus pattern (16 bp):
TTTTTTGAGAAGTTTT
Found at i:89400759 original size:18 final size:16
Alignment explanation
Indices: 89400708--89400746 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
89400698 GTAGTAGGGG
* *
89400708 TTTTTTGAGGAGTTTT
1 TTTTTTTAGAAGTTTT
89400724 TTTTTTTAGAAGTTTT
1 TTTTTTTAGAAGTTTT
89400740 TTTTTTT
1 TTTTTTT
89400747 GAATAAGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.13, C:0.00, G:0.15, T:0.72
Consensus pattern (16 bp):
TTTTTTTAGAAGTTTT
Found at i:89401162 original size:23 final size:25
Alignment explanation
Indices: 89401136--89401181 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
89401126 TTTTTTTTGT
89401136 TATTAT-TATATT-TCTTAATATCA
1 TATTATATATATTCTCTTAATATCA
*
89401159 TATTATATATATTCTTTTAATAT
1 TATTATATATATTCTCTTAATAT
89401182 ATTAGGTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.59
Consensus pattern (25 bp):
TATTATATATATTCTCTTAATATCA
Found at i:89401268 original size:29 final size:28
Alignment explanation
Indices: 89401236--89401324 Score: 73
Period size: 27 Copynumber: 3.3 Consensus size: 28
89401226 ATTATACTAT
89401236 TTTATGTATATATCTTTAATACTATATTA
1 TTTATGTATATAT-TTTAATACTATATTA
* ** *
89401265 TTTA--TAT-TTTTTTTCTAC-ATGTTA
1 TTTATGTATATATTTTAATACTATATTA
89401289 TCTTATGTATATATTTTAAT--TATATTA
1 T-TTATGTATATATTTTAATACTATATTA
*
89401316 TGTATGTAT
1 TTTATGTAT
89401325 TTTGTACACT
Statistics
Matches: 46, Mismatches: 9, Indels: 13
0.68 0.13 0.19
Matches are distributed among these distances:
24 6 0.13
25 9 0.20
26 9 0.20
27 12 0.26
28 6 0.13
29 4 0.09
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.60
Consensus pattern (28 bp):
TTTATGTATATATTTTAATACTATATTA
Found at i:89401311 original size:22 final size:22
Alignment explanation
Indices: 89401286--89401394 Score: 66
Period size: 22 Copynumber: 4.9 Consensus size: 22
89401276 TTTCTACATG
*
89401286 TTATCTTATGTATATATTTTAA
1 TTATATTATGTATATATTTTAA
*
89401308 TTATATTATGTATGTATTTTGTACA
1 TTATATTATGTATATA-TTT-TA-A
* * *
89401333 CTATATTATGTACAT-TTTT-T
1 TTATATTATGTATATATTTTAA
89401353 TTAATATTATCACGTATATATTTT--
1 TT-ATATTAT---GTATATATTTTAA
*
89401377 TTATA-TATGTACATATTT
1 TTATATTATGTATATATTT
89401395 ATGTAGTATT
Statistics
Matches: 70, Mismatches: 9, Indels: 19
0.71 0.09 0.19
Matches are distributed among these distances:
19 9 0.13
20 1 0.01
21 7 0.10
22 18 0.26
23 9 0.13
24 9 0.13
25 17 0.24
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.57
Consensus pattern (22 bp):
TTATATTATGTATATATTTTAA
Found at i:89418715 original size:73 final size:73
Alignment explanation
Indices: 89418595--89418761 Score: 235
Period size: 73 Copynumber: 2.3 Consensus size: 73
89418585 ATTTCCGTTT
*
89418595 TTTCAATTTATGCTTTTCAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACA
1 TTTCAATTTATGCTTTTC-AAAAATCAACTCATATTACGAGAGGTGAGCTGAGCCTCAGGACACA
*
89418660 CTGAGGTAA
65 CCGAGGTAA
* * * *
89418669 TTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCGGGGCACGC
1 TTTCAATTTATGCTTTTCAAAAATCAACTCATATTACGAGAGGTGAGCTGAGCCTCAGGACACAC
*
89418734 CGAGGTAT
66 CGAGGTAA
* * *
89418742 TTTTAATTTCTGTTTTTCAA
1 TTTCAATTTATGCTTTTCAA
89418762 TTTCTGCTTT
Statistics
Matches: 83, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
73 65 0.78
74 18 0.22
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.34
Consensus pattern (73 bp):
TTTCAATTTATGCTTTTCAAAAATCAACTCATATTACGAGAGGTGAGCTGAGCCTCAGGACACAC
CGAGGTAA
Found at i:89418763 original size:14 final size:13
Alignment explanation
Indices: 89418741--89418785 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
89418731 CGCCGAGGTA
89418741 TTTTTAATTTCTG
1 TTTTTAATTTCTG
89418754 TTTTTCAATTTCTG
1 TTTTT-AATTTCTG
* *
89418768 CTTTTAATTTCTA
1 TTTTTAATTTCTG
89418781 TTTTT
1 TTTTT
89418786 CAAAAATCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 16 0.57
14 12 0.43
ACGTcount: A:0.16, C:0.11, G:0.04, T:0.69
Consensus pattern (13 bp):
TTTTTAATTTCTG
Found at i:89418776 original size:13 final size:13
Alignment explanation
Indices: 89418742--89418779 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
89418732 GCCGAGGTAT
*
89418742 TTTTAATTTCTGT
1 TTTTAATTTCTGC
89418755 TTTTCAATTTCTGC
1 TTTT-AATTTCTGC
89418769 TTTTAATTTCT
1 TTTTAATTTCT
89418780 ATTTTTCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.16, C:0.13, G:0.05, T:0.66
Consensus pattern (13 bp):
TTTTAATTTCTGC
Found at i:89418808 original size:100 final size:101
Alignment explanation
Indices: 89418681--89418949 Score: 409
Period size: 100 Copynumber: 2.7 Consensus size: 101
89418671 TCAATTTATG
* * * *
89418681 CTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCGGGGCACGCCGAGGTATTTTT
1 CTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTC
** *
89418746 AATTTCTGTTTTTCAATTTCTG-CTTTTAATTTCTA
66 AATTTCTGTTTTTCAATTTCTGCCTTACAAATTCTA
* *
89418781 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGGCACGCTGAGGTATTTTC
1 CTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTC
* *
89418846 AATTTCTGTTTTTCAATTTTTGCCTTACAAATTCTG
66 AATTTCTGTTTTTCAATTTCTGCCTTACAAATTCTA
*
89418882 CTTTTC--AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTC
1 CTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTC
89418945 AATTT
66 AATTT
89418950 TCAATTTTTA
Statistics
Matches: 154, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
99 60 0.39
100 80 0.52
101 14 0.09
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (101 bp):
CTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTC
AATTTCTGTTTTTCAATTTCTGCCTTACAAATTCTA
Found at i:89419171 original size:73 final size:74
Alignment explanation
Indices: 89418953--89419236 Score: 371
Period size: 75 Copynumber: 3.9 Consensus size: 74
89418943 TCAATTTTCA
* * * * * *
89418953 ATTTTTAATTTATGT-TTTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCTTCAAGACA
1 ATTTTCAATTTTTGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACA
89419017 CGTTGAGGT
66 CGTTGAGGT
* * *
89419026 ATTTTCAGTTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAG--
1 ATTTTCAATTTTTGTCTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGAC
*
89419089 ACGCTGAGGT
65 ACGTTGAGGT
* *
89419099 AATTTCAATTTTTGT-TTGTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
1 ATTTTCAATTTTTGTCTT-TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGAC
89419162 ACGTTGAGGT
65 ACGTTGAGGT
** *
89419172 ATTTTCAATTTTTGTCTTTCAAAAAAATCAGGTCGTATTGCGAGAGGTGAGTTGAACCTCAAGAC
1 ATTTTCAATTTTTGTCTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGAC
89419237 GCTGAGGTGT
Statistics
Matches: 183, Mismatches: 20, Indels: 14
0.84 0.09 0.06
Matches are distributed among these distances:
71 39 0.21
72 2 0.01
73 60 0.33
74 5 0.03
75 77 0.42
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (74 bp):
ATTTTCAATTTTTGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACA
CGTTGAGGT
Found at i:89419223 original size:146 final size:145
Alignment explanation
Indices: 89418953--89419765 Score: 965
Period size: 146 Copynumber: 5.4 Consensus size: 145
89418943 TCAATTTTCA
* * * * *
89418953 ATTTTTAATTTATGTTTTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCTTCAAGACAC
1 ATTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
* * * * *
89419018 GTTGAGGTATTTTCAGTTTCTGTCTT-TCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAA
66 GTTGAGGTAATTTCAATTTTTGT-TTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
*
89419082 CCTCAAG-ACGCTGAGGT
128 CCTCAAGAACGTTGAGGT
* *
89419099 AATTTCAATTTTTGTTTGTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
1 ATTTTCAATTTCTGTTT-TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* ** *
89419163 CGTTGAGGTATTTTCAATTTTTGTCTT-TCAAAAAAATCAGGTCGTATTGCGAGAGGTGAGTTGA
65 CGTTGAGGTAATTTCAATTTTTGT-TTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* *
89419227 ACCTCAAG-ACGCTGAGGTGTTTT
127 GCCTCAAGAACGTTGA-G-G---T
* *
89419250 CCATTTCTGTTCTTCAATTTCTGTTTTTCAAAAACATCAAGTCATATTGCAAGAGGTGAGTTGAG
1 --A------TT-TTCAATTTCTG-TTTTCAAAAA-ATCAACTCATATTGCGAGAGGTGAGTTGAG
* * * * *
89419315 CTTCAGGACACGCTGAGGTAATTTCAATTTTTTTTTGTCAAAACTCAACTCATATTGCGAGAGGT
55 CCTCAAGACACGTTGAGGTAATTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGT
89419380 GAGTTGAGCCTCAAGACACGTTGAGGT
120 GAGTTGAGCCTCAAGA-ACGTTGAGGT
* * *
89419407 ATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTAAGTTGAGCCTCAGGAC
1 ATTTTCAATTTCTG-TTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
89419472 ACGTTGAGGTAATTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
64 ACGTTGAGGTAATTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
89419537 CTCAAGACACGTTGAGGT
129 CTCAAGA-ACGTTGAGGT
* *
89419555 ATTTTCAATTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAG--
1 ATTTTCAATTTCTGT-TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
* * *
89419618 ACGCTGAGGTAATTTCAATTTTTATTTGTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGC
64 ACGTTGAGGTAATTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
89419683 CTCAAGACACGTTGAGGT
129 CTCAAGA-ACGTTGAGGT
* *
89419701 ATTTTCAATTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGAC
1 ATTTTCAATTTCTGT-TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
89419766 GCTAAGGTGT
Statistics
Matches: 601, Mismatches: 41, Indels: 48
0.87 0.06 0.07
Matches are distributed among these distances:
146 274 0.46
147 3 0.00
148 188 0.31
149 7 0.01
151 1 0.00
153 1 0.00
155 1 0.00
157 1 0.00
159 1 0.00
160 49 0.08
161 10 0.02
162 65 0.11
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (145 bp):
ATTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
GTTGAGGTAATTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
CAAGAACGTTGAGGT
Found at i:89419243 original size:73 final size:72
Alignment explanation
Indices: 89418953--89419795 Score: 663
Period size: 73 Copynumber: 11.3 Consensus size: 72
89418943 TCAATTTTCA
* * * *
89418953 ATTTTTAATTTATGTTTT-AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCTTCAAGACA
1 ATTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG--A
89419017 CGTTGAGGT
64 CGTTGAGGT
* * *
89419026 ATTTTCAGTTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGAC
1 ATTTTCAATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
*
89419091 GCTGAGGT
65 GTTGAGGT
* *
89419099 AATTTCAATTTTTGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
1 ATTTTCAATTTCTGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG--
89419162 ACGTTGAGGT
63 ACGTTGAGGT
* ** * *
89419172 ATTTTCAATTTTTGTCTTTCAAAAAAATCAGGTCGTATTGCGAGAGGTGAGTTGAACCTCAAGAC
1 ATTTTCAATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
*
89419237 GCTGAGGT
65 GTTGAGGT
* * ***** * * ** *
89419245 GTTTTCCATTTCTGTTCTTCAATTTCTGTTTTTCAAAAACATCA-AGT-C-ATATTGCAAGAGGT
1 ATTTTCAATTTCTGTT-TTCAA-----AAAAATC---AAC-TCATATTGCGAGA--G-GTGAGTT
** * *
89419307 GAG--TTGAG-C-TTCAGGAC
53 GAGCCTCAAGACGTTGAGG-T
** * *** *
89419324 ACGCTGAGGT-AATTTCAATTTTTTTTTGTCAAAACTCAACTCATATTGCGAGAGGTGAGTTGAG
1 A---T--TTTCAATTTC-----TGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
89419388 CCTCAAGACACGTTGAGGT
56 CCTCAAG--ACGTTGAGGT
* * *
89419407 ATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTAAGTTGAGCCTCAGGAC
1 ATTTTCAATTTCTG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA--AG
89419472 ACGTTGAGGT
63 ACGTTGAGGT
* *
89419482 AATTTCAATTTTTGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
1 ATTTTCAATTTCTGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG--
89419545 ACGTTGAGGT
63 ACGTTGAGGT
* *
89419555 ATTTTCAATTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGAC
1 ATTTTCAATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
*
89419620 GCTGAGGT
65 GTTGAGGT
* * * *
89419628 AATTTCAATTTTTATTTGTC--AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGAC
1 ATTTTCAATTTCTGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG--
89419691 ACGTTGAGGT
63 ACGTTGAGGT
* *
89419701 ATTTTCAATTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGAC
1 ATTTTCAATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
* *
89419766 GCTAAGGT
65 GTTGAGGT
* *
89419774 GTTTTCCATTTCTGTTCTTCAA
1 ATTTTCAATTTCTGTT-TTCAA
89419796 TTTCTGTGTT
Statistics
Matches: 611, Mismatches: 101, Indels: 116
0.74 0.12 0.14
Matches are distributed among these distances:
71 78 0.13
72 6 0.01
73 220 0.36
74 13 0.02
75 217 0.36
77 1 0.00
78 17 0.03
79 15 0.02
80 9 0.01
81 6 0.01
82 11 0.02
83 7 0.01
84 6 0.01
87 2 0.00
88 3 0.00
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (72 bp):
ATTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACG
TTGAGGT
Found at i:89419461 original size:148 final size:148
Alignment explanation
Indices: 89419262--89419761 Score: 824
Period size: 148 Copynumber: 3.4 Consensus size: 148
89419252 ATTTCTGTTC
* * * * *
89419262 TTCAATTTCTGTTTTTCAAAAACATCAAGTCATATTGCAAGAGGTGAGTTGAGCTTCAGGACACG
1 TTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
* *
89419327 CTGAGGTAATTTCAATTTTTTTTTGTCAAAACTCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
66 CTGAGGTAATTTCAATTTTTATTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
89419392 AAGACACGTTGAGGTATT
131 AAGACACGTTGAGGTATT
* * *
89419410 TTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTAAGTTGAGCCTCAGGACACG
1 TTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
* *
89419475 TTGAGGTAATTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
66 CTGAGGTAATTTCAATTTTTATTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
89419540 AAGACACGTTGAGGTATT
131 AAGACACGTTGAGGTATT
* * *
89419558 TTCAATTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCA--AGACG
1 TTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
*
89419621 CTGAGGTAATTTCAATTTTTATTTGTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC
66 CTGAGGTAATTTCAATTTTTATTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
89419686 AAGACACGTTGAGGTATT
131 AAGACACGTTGAGGTATT
* *
89419704 TTCAATTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCA
1 TTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
89419762 AGACGCTAAG
Statistics
Matches: 334, Mismatches: 18, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
146 142 0.43
148 192 0.57
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.33
Consensus pattern (148 bp):
TTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
CTGAGGTAATTTCAATTTTTATTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
AAGACACGTTGAGGTATT
Found at i:89419903 original size:15 final size:14
Alignment explanation
Indices: 89419867--89419899 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
89419857 CGCTGAGGTA
89419867 TTTTCAAATTTTGT
1 TTTTCAAATTTTGT
89419881 TTTTCAAATTTTGT
1 TTTTCAAATTTTGT
89419895 TTTTC
1 TTTTC
89419900 CAAAAAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.18, C:0.09, G:0.06, T:0.67
Consensus pattern (14 bp):
TTTTCAAATTTTGT
Found at i:89420017 original size:91 final size:90
Alignment explanation
Indices: 89419702--89420243 Score: 423
Period size: 92 Copynumber: 6.0 Consensus size: 90
89419692 CGTTGAGGTA
* * * * *
89419702 TTTTCAATTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCA--AGA
1 TTTTCAATTTATGT-TTTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACA
* * *
89419765 CGCTAAGGTGTTTTCCATTTC--TGT
65 CGCTGAGGTATTTTCAATTTCTTTGT
* * * * * * **
89419789 TCTTCAATTTCTGTGTTTCAAAAAAAATCAGCTCATATTGCGAGTGGTGAGTTGAGCCTTGACTC
1 TTTTCAATTTATGT-TTTC-AAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCC-TCA-GG
*
89419854 ACACGCTGAGGTATTTTCAA-AT-TTTGT
62 ACACGCTGAGGTATTTTCAATTTCTTTGT
*
89419881 TTTTCAAATTT-TGTTTTTCCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTCAGCCTCAGGA
1 TTTTC-AATTTATG-TTTT-CAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGA
* *
89419945 CACACTGAGGTATTTTCAATTTCTTTTT
63 CACGCTGAGGTATTTTCAATTTCTTTGT
89419973 TTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGTCA
1 TTTTCAATTTATGTTT-TCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGG--A
* * *
89420038 CACGCCGAGGTATTTTCAATTGATGTTTTTT
63 CACGCTGAGGTATTTTCAATT--T-CTTTGT
* * * *
89420069 TTTTCCAATTTATGCTTTGC--AAAAATCAACTCATATTATGAGAGGTGAGTCGAGCCTCGGGTC
1 TTTT-CAATTTATG-TTTTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGG--
** * * **
89420132 ACATACCGAAGTATTTTCAAAATC--TGT
62 ACACGCTGAGGTATTTTCAATTTCTTTGT
* * * * *
89420159 TTTACAAATTT-TGTTTT---AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT-TGGCTC
1 TTTTC-AATTTATGTTTTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGG-AC
*
89420219 ACGTGCTGAGCTATTTTCAATTTCT
64 AC--GCTGAGGTATTTTCAATTTCT
89420244 ATTTTTAATG
Statistics
Matches: 379, Mismatches: 51, Indels: 49
0.79 0.11 0.10
Matches are distributed among these distances:
85 3 0.01
86 2 0.01
87 64 0.17
88 39 0.10
89 5 0.01
90 29 0.08
91 55 0.15
92 74 0.20
93 28 0.07
95 58 0.15
96 9 0.02
97 10 0.03
98 3 0.01
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.37
Consensus pattern (90 bp):
TTTTCAATTTATGTTTTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACAC
GCTGAGGTATTTTCAATTTCTTTGT
Found at i:89420115 original size:95 final size:93
Alignment explanation
Indices: 89419810--89420212 Score: 370
Period size: 95 Copynumber: 4.4 Consensus size: 93
89419800 TGTGTTTCAA
* * * * * * *
89419810 AAAAAATCAGCTCATATTGCGAGTGGTGAGTTGAGCCT-TGACTCACACGCTGAGGTATTTTCAA
1 AAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAG-GTCACACACCGAGGTATTTTCAA
* * *
89419874 --A-TTTTGTTTTTCAAATTT-TGTTTTTCC
65 TTATTTTTTTTTTTCCAATTTATG--TTTGC
* *
89419901 AAAAAAATCAACTCATATTGTGAGAGGTGAGTTCAGCCTCAGG--ACACACTGAGGTATTTTCAA
1 -AAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGTCACACACCGAGGTATTTTCAA
*
89419964 TT-TCTTTTTTTTT-CAATTTATGTTTGTC
65 TTATTTTTTTTTTTCCAATTTATGTTTG-C
*
89419992 AAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAA
1 -AAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGTCACACACCGAGGTATTTTCAA
89420057 TTGATGTTTTTTTTTTCCAATTTATGCTTTGC
65 TT-AT-TTTTTTTTTTCCAATTTATG-TTTGC
* * * * *
89420089 -AAAAATCAACTCATATTATGAGAGGTGAGTCGAGCCTCGGGTCACATACCGAAGTATTTTCAA-
1 AAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGTCACACACCGAGGTATTTTCAAT
* * * * *
89420152 -A-ATCTGTTTTACAAATTT-TGTTT--
66 TATTTTTTTTTTTCCAATTTATGTTTGC
* * *
89420175 TAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
1 AAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCT
89420213 TGGCTCACGT
Statistics
Matches: 267, Mismatches: 30, Indels: 33
0.81 0.09 0.10
Matches are distributed among these distances:
87 33 0.12
88 3 0.01
89 2 0.01
90 34 0.13
91 48 0.18
92 45 0.17
93 21 0.08
95 58 0.22
96 9 0.03
97 10 0.04
98 4 0.01
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.36
Consensus pattern (93 bp):
AAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGTCACACACCGAGGTATTTTCAAT
TATTTTTTTTTTTCCAATTTATGTTTGC
Found at i:89420236 original size:182 final size:181
Alignment explanation
Indices: 89419810--89420240 Score: 468
Period size: 183 Copynumber: 2.4 Consensus size: 181
89419800 TGTGTTTCAA
* * *
89419810 AAAAAATCAGCTCATATTGCGAGTGGTGAGTTGAGCCTTGACTCACACGCTGAGGTATTTTCAA-
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAAT
* *
89419874 -ATTTTGTTTTTCAAATTTTGTTTTTCCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTCAGC
66 TATTTTGTTTTTCAAATTTTGTCTTTCC-AAAAAATCAACTCATATTATGAGAGGTGAGTTCAGC
* * ** * *
89419938 CTCAGGACACACTGAGGTATTTTCAATTTCTTTTTTTTTCAATTTATGTTTGT
130 CTCAGGACACACCGAAGTATTTTCAAAATC-TTGTTTTACAATTTATGTTTGT
* * *
89419991 CAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGG-TCACACGCCGAGGTATTTTC
1 --AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACACGCTGAGGTATTTTC
* * *
89420055 AATTGATGTTTTTTTTTTCCAATTTATG-CTTTGC-AAAAATCAACTCATATTATGAGAGGTGAG
63 AATT-A--TTTTGTTTTTCAAATTT-TGTCTTTCCAAAAAATCAACTCATATTATGAGAGGTGAG
* *
89420118 -TCGAGCCTCGGGTCACATACCGAAGTATTTTCAAAATC-TGTTTTACAAATTT-TGTTT-T
124 TTC-AGCCTCAGG--ACACACCGAAGTATTTTCAAAATCTTGTTTTAC-AATTTATGTTTGT
* ** *
89420176 -AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAAT
89420240 T
66 T
89420241 TCTATTTTTA
Statistics
Matches: 210, Mismatches: 26, Indels: 25
0.80 0.10 0.10
Matches are distributed among these distances:
181 2 0.01
182 55 0.26
183 56 0.27
184 1 0.00
185 3 0.01
186 48 0.23
187 5 0.02
188 38 0.18
189 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (181 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAAT
TATTTTGTTTTTCAAATTTTGTCTTTCCAAAAAATCAACTCATATTATGAGAGGTGAGTTCAGCC
TCAGGACACACCGAAGTATTTTCAAAATCTTGTTTTACAATTTATGTTTGT
Found at i:89421058 original size:15 final size:15
Alignment explanation
Indices: 89421038--89421085 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
89421028 TAGTAGGGGG
89421038 TTTTTGAGGATTTTT
1 TTTTTGAGGATTTTT
**
89421053 TTTTTGA-GAAGTTT
1 TTTTTGAGGATTTTT
* *
89421067 TTTTTAAGAATTTTT
1 TTTTTGAGGATTTTT
89421082 TTTT
1 TTTT
89421086 GGGGGGGAGA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
14 11 0.42
15 15 0.58
ACGTcount: A:0.19, C:0.00, G:0.15, T:0.67
Consensus pattern (15 bp):
TTTTTGAGGATTTTT
Found at i:89421067 original size:14 final size:14
Alignment explanation
Indices: 89421050--89421086 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
89421040 TTTGAGGATT
89421050 TTTTTTTTGAGAAG
1 TTTTTTTTGAGAAG
* *
89421064 TTTTTTTTAAGAAT
1 TTTTTTTTGAGAAG
89421078 TTTTTTTTG
1 TTTTTTTTG
89421087 GGGGGGAGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.19, C:0.00, G:0.14, T:0.68
Consensus pattern (14 bp):
TTTTTTTTGAGAAG
Found at i:89421495 original size:23 final size:23
Alignment explanation
Indices: 89421458--89421539 Score: 62
Period size: 23 Copynumber: 3.5 Consensus size: 23
89421448 CTTTTTTTGT
89421458 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATATTA
* *
89421481 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATATTA
** *
89421503 TATTAGGTATATTCTAAAT-TCTA
1 TATTATATATATTCTTAATAT-TA
89421526 TATTACGTATATAT
1 TATTA--TATATAT
89421540 ATTATACTAT
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
22 17 0.38
23 19 0.42
24 4 0.09
25 5 0.11
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.55
Consensus pattern (23 bp):
TATTATATATATTCTTAATATTA
Found at i:89421626 original size:22 final size:22
Alignment explanation
Indices: 89421601--89421667 Score: 71
Period size: 25 Copynumber: 2.9 Consensus size: 22
89421591 TTTCTACATG
*
89421601 TTATCTTATGTATATATTTTAA
1 TTATATTATGTATATATTTTAA
*
89421623 TTATATTATGTATGTATTTTTTACA
1 TTATATTATGTA--TATATTTTA-A
* *
89421648 CTATATTATGTACATATTTT
1 TTATATTATGTATATATTTT
89421668 TAATATTATC
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
22 11 0.30
23 6 0.16
24 8 0.22
25 12 0.32
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (22 bp):
TTATATTATGTATATATTTTAA
Found at i:89421843 original size:16 final size:15
Alignment explanation
Indices: 89421819--89421866 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 15
89421809 TAATTATTAT
*
89421819 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
89421835 TATTTTAATATTTTA
1 TATTTTAATATTTTA
*
89421850 TATTTTATATACTTTA
1 TATTTTA-ATATTTTA
89421866 T
1 T
89421867 TATTCACATC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 8 0.28
16 21 0.72
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:89421854 original size:7 final size:8
Alignment explanation
Indices: 89421819--89421870 Score: 52
Period size: 8 Copynumber: 6.5 Consensus size: 8
89421809 TAATTATTAT
*
89421819 TATTCTAA
1 TATTTTAA
*
89421827 TATTTTGA
1 TATTTTAA
89421835 TATTTTAA
1 TATTTTAA
89421843 TATTTT-A
1 TATTTTAA
89421850 TATTTTATA
1 TATTTTA-A
* *
89421859 TACTTTAT
1 TATTTTAA
89421867 TATT
1 TATT
89421871 CACATCACTA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
7 7 0.19
8 22 0.61
9 7 0.19
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (8 bp):
TATTTTAA
Found at i:89425151 original size:38 final size:39
Alignment explanation
Indices: 89425109--89425192 Score: 116
Period size: 38 Copynumber: 2.2 Consensus size: 39
89425099 AAAAAATTAG
* * *
89425109 TATGTATATCATGTACGTTATGTATATTACTATTTATA-
1 TATGTATATCAGGTACGTTATGTATATTACAATTTACAT
* *
89425147 TATGTATATTAGGTATGTTATGTATATTACAATTTACAT
1 TATGTATATCAGGTACGTTATGTATATTACAATTTACAT
89425186 TATGTAT
1 TATGTAT
89425193 GTGTAGTGTT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
38 33 0.82
39 7 0.17
ACGTcount: A:0.32, C:0.06, G:0.12, T:0.50
Consensus pattern (39 bp):
TATGTATATCAGGTACGTTATGTATATTACAATTTACAT
Done.