Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr3
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: 26558743
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1281270 characters in sequence are not A, C, G, or T
File 28 of 79
Found at i:9601302 original size:37 final size:37
Alignment explanation
Indices: 9601245--9601345 Score: 103
Period size: 37 Copynumber: 2.7 Consensus size: 37
9601235 TATTGAATTG
** *
9601245 ATTGATATGCGAAACCGTTTGTTATTATGTTAAATAA
1 ATTGATATGCGAAATTGTTTGTTATTATATTAAATAA
* * * * **
9601282 ATTGATATGCAAAATTGTTTGTCATTGTATTGAATTG
1 ATTGATATGCGAAATTGTTTGTTATTATATTAAATAA
* *
9601319 ATTGACATGTGAAATTGTTTGTTATTA
1 ATTGATATGCGAAATTGTTTGTTATTA
9601346 CTTTACATAT
Statistics
Matches: 50, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.32, C:0.06, G:0.18, T:0.45
Consensus pattern (37 bp):
ATTGATATGCGAAATTGTTTGTTATTATATTAAATAA
Found at i:9601985 original size:28 final size:29
Alignment explanation
Indices: 9601953--9602010 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 29
9601943 ATCAGTTCAA
* *
9601953 TTTTATTTTTTTGAATGT-CCCCTAAAAT
1 TTTTATTTTTTTCAATATACCCCTAAAAT
9601981 TTTTATTTTTTTCAATATAACCCCTAAAAT
1 TTTTATTTTTTTCAATAT-ACCCCTAAAAT
9602011 CGAAATAGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 16 0.62
30 10 0.38
ACGTcount: A:0.29, C:0.16, G:0.03, T:0.52
Consensus pattern (29 bp):
TTTTATTTTTTTCAATATACCCCTAAAAT
Found at i:9602928 original size:23 final size:21
Alignment explanation
Indices: 9602888--9602951 Score: 83
Period size: 23 Copynumber: 2.9 Consensus size: 21
9602878 ACTTAAATCC
9602888 TTTTTCTCAAATTCTCTCATA
1 TTTTTCTCAAATTCTCTCATA
9602909 TTTTTCTCCAATATTCTCTCATA
1 TTTTTCT-CAA-ATTCTCTCATA
**
9602932 TTTCCCTCAAATTCCTCTCA
1 TTTTTCTCAAATT-CTCTCA
9602952 AATTCCTCTT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
21 10 0.26
22 12 0.32
23 16 0.42
ACGTcount: A:0.22, C:0.30, G:0.00, T:0.48
Consensus pattern (21 bp):
TTTTTCTCAAATTCTCTCATA
Found at i:9602951 original size:11 final size:11
Alignment explanation
Indices: 9602892--9602965 Score: 55
Period size: 11 Copynumber: 6.7 Consensus size: 11
9602882 AAATCCTTTT
9602892 TCTCAAATT-C
1 TCTCAAATTCC
* **
9602902 TCTCATATTTT
1 TCTCAAATTCC
9602913 TCTCCAATATT-C
1 TCT-CAA-ATTCC
*
9602925 TCTCATATTTCC
1 TCTCA-AATTCC
9602937 -CTCAAATTCC
1 TCTCAAATTCC
9602947 TCTCAAATTCC
1 TCTCAAATTCC
*
9602958 TCTTAAAT
1 TCTCAAAT
9602966 CTCTCTTTAA
Statistics
Matches: 51, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
10 13 0.25
11 28 0.55
12 7 0.14
13 3 0.06
ACGTcount: A:0.26, C:0.30, G:0.00, T:0.45
Consensus pattern (11 bp):
TCTCAAATTCC
Found at i:9604790 original size:18 final size:18
Alignment explanation
Indices: 9604754--9604796 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
9604744 TGCCAGGTGC
* * *
9604754 GTATCCTAGCCTTTTTAT
1 GTATCCTAACCCTTATAT
9604772 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
9604790 GTTTCCT
1 GTATCCT
9604797 TTTTCTAGTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.19, C:0.26, G:0.09, T:0.47
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:9607565 original size:39 final size:39
Alignment explanation
Indices: 9607522--9607601 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
9607512 GTATTAAAGG
9607522 TTAGAAGTTTTCTTAGATTAGCTGGTTATTACAGACGGT
1 TTAGAAGTTTTCTTAGATTAGCTGGTTATTACAGACGGT
9607561 TTAGAAGTTTTCTTAGATTAGCTGGTTATTACAGACGGT
1 TTAGAAGTTTTCTTAGATTAGCTGGTTATTACAGACGGT
9607600 TT
1 TT
9607602 GTAAAGGGAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.25, C:0.10, G:0.23, T:0.42
Consensus pattern (39 bp):
TTAGAAGTTTTCTTAGATTAGCTGGTTATTACAGACGGT
Found at i:9610907 original size:50 final size:50
Alignment explanation
Indices: 9610849--9611090 Score: 233
Period size: 50 Copynumber: 4.9 Consensus size: 50
9610839 CATTTGGGTA
* *
9610849 AAGAGGTCCCATGTAAGACTATGTTTGGGACATGACATTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGACATTGGCACCGAGAT
* *
9610899 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGACATTGGCACCGAGAT
* ** * *
9610949 GAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCCACC-A-AT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGACATTGG-CACCGAGAT
* ** * * * *
9610998 ATGGAATTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTACAT
1 A-AGAGGTCCCATGTAAGACCATGTCTGGGACATGACATTGGCACCG-AGAT
** * *
9611048 GAA-ACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 -AAGAGGTCCCATGTAAGACCATGTCTGGGACATGACATTGGCA
9611091 TGTTATTATC
Statistics
Matches: 162, Mismatches: 24, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
49 40 0.25
50 117 0.72
51 5 0.03
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGACATTGGCACCGAGAT
Found at i:9614841 original size:125 final size:126
Alignment explanation
Indices: 9614596--9614881 Score: 472
Period size: 125 Copynumber: 2.3 Consensus size: 126
9614586 GCCAAATAGC
* *
9614596 AACTATTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATCC
1 AACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATCC
*
9614661 TTCTTAAAGCATTTTTGACACTATTTGCTCAGAAACGTCTTCTCAAAATTATTTTTTCAGG
66 TTCTTAAAGCATTTTTGACACTATTTGCTCAGAAACGACTTCTCAAAATTATTTTTTCAGG
*
9614722 AACTA-TGTAGCAAAAGAGCATCTACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCAT-C
1 AACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATCC
*
9614785 TTGCTTAAAGCATTTTTGACAC-ATTTGCTCAGAAACGACTTCTCGAAATTATTTTTTCAGG
66 TT-CTTAAAGCATTTTTGACACTATTTGCTCAGAAACGACTTCTCAAAATTATTTTTTCAGG
*
9614846 AACTACTATAGCAAAAGAG-AGTCCACGTGGGAGCTT
1 AACTACTGTAGCAAAAGAGCA-TCCACGTGGGAGCTT
9614882 TTTTAAATTA
Statistics
Matches: 151, Mismatches: 6, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
124 46 0.30
125 100 0.66
126 5 0.03
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (126 bp):
AACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATCC
TTCTTAAAGCATTTTTGACACTATTTGCTCAGAAACGACTTCTCAAAATTATTTTTTCAGG
Found at i:9615098 original size:96 final size:94
Alignment explanation
Indices: 9614924--9615241 Score: 359
Period size: 96 Copynumber: 3.2 Consensus size: 94
9614914 CCTAAACTCC
* *
9614924 AAACCCTAATTTATTTGAATTTTTTCCTTAAACTCTAAACTC-TAAACCCTAAAACCTAATTTAT
1 AAACCCTAATTTATTT-AA-TTTTTCCTT-AA----AAAC-CATAAACACTAAACCCTAA-TTAT
*
9614988 TTTCTTTAAAATTTATAATTAATTTACTCAAGTAACCCT
57 TTT-TTAAAAATTTATAATTAATTTACTCAAGTAACCCT
* * *
9615027 AAACCCTAATTTATTTTATTTTTCCTTAAAAACCCTTAACACTAAACCCTAATATGATTTTTTAA
1 AAACCCTAATTTATTTAATTTTTCCTTAAAAACCATAAACACTAAACCCTAAT-T-ATTTTTTAA
9615092 AAATTTATAATTAATTTACTCAAGTAACCCT
64 AAATTTATAATTAATTTACTCAAGTAACCCT
* * * * * *
9615123 AAACTCTAATTTAATTGATTTTTTCCTTAAAAACCATAAACACGAAACCCTAATCTAATTTTGAA
1 AAACCCTAATTT-ATTTAATTTTTCCTTAAAAACCATAAACACTAAACCCTAAT-TATTTTTTAA
* * *
9615188 AAATTTATAATTAATTTAATTAAGAAACCCT
64 AAATTTATAATTAATTTACTCAAGTAACCCT
*
9615219 AAACCCTTATTTATTTAATTTTT
1 AAACCCTAATTTATTTAATTTTT
9615242 TCTTTAAACC
Statistics
Matches: 189, Mismatches: 22, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
95 11 0.06
96 109 0.58
97 41 0.22
100 2 0.01
101 9 0.05
102 1 0.01
103 16 0.08
ACGTcount: A:0.39, C:0.18, G:0.03, T:0.41
Consensus pattern (94 bp):
AAACCCTAATTTATTTAATTTTTCCTTAAAAACCATAAACACTAAACCCTAATTATTTTTTAAAA
ATTTATAATTAATTTACTCAAGTAACCCT
Found at i:9615242 original size:96 final size:97
Alignment explanation
Indices: 9614995--9615249 Score: 361
Period size: 96 Copynumber: 2.6 Consensus size: 97
9614985 TATTTTCTTT
*
9614995 AAAATTTATAATTAATTTACTCAAGTAACCCTAAACCCTAATTTATTTTA-TTTTTCCTTAAAAA
1 AAAATTTATAATTAATTTACTCAAGTAACCCTAAACCCTAATTTATTTAATTTTTTCCTTAAAAA
* * * * *
9615059 CCCTTAACACTAAACCCTAATATGATTTTTTA
66 CCATAAACACGAAACCCTAATATGAATTTTGA
* * *
9615091 AAAATTTATAATTAATTTACTCAAGTAACCCTAAACTCTAATTTAATTGATTTTTTCCTTAAAAA
1 AAAATTTATAATTAATTTACTCAAGTAACCCTAAACCCTAATTTATTTAATTTTTTCCTTAAAAA
*
9615156 CCATAAACACGAAACCCTAATCT-AATTTTGA
66 CCATAAACACGAAACCCTAATATGAATTTTGA
* * * * *
9615187 AAAATTTATAATTAATTTAATTAAGAAACCCTAAACCCTTATTTATTTAATTTTTTCTTTAAA
1 AAAATTTATAATTAATTTACTCAAGTAACCCTAAACCCTAATTTATTTAATTTTTTCCTTAAA
9615250 CCCCAAAACT
Statistics
Matches: 141, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
96 108 0.77
97 33 0.23
ACGTcount: A:0.40, C:0.16, G:0.03, T:0.40
Consensus pattern (97 bp):
AAAATTTATAATTAATTTACTCAAGTAACCCTAAACCCTAATTTATTTAATTTTTTCCTTAAAAA
CCATAAACACGAAACCCTAATATGAATTTTGA
Found at i:9615263 original size:8 final size:8
Alignment explanation
Indices: 9615247--9615276 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
9615237 TTTTTTCTTT
9615247 AAACCCCA
1 AAACCCCA
*
9615255 AAACTCCA
1 AAACCCCA
9615263 AAACCCCA
1 AAACCCCA
9615271 AAACCC
1 AAACCC
9615277 TACCCCTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.47, G:0.00, T:0.03
Consensus pattern (8 bp):
AAACCCCA
Found at i:9615303 original size:27 final size:29
Alignment explanation
Indices: 9615249--9615312 Score: 87
Period size: 27 Copynumber: 2.3 Consensus size: 29
9615239 TTTTCTTTAA
*
9615249 ACCCCAAAACTCCAAAACCCCAAAACCCT
1 ACCCCTAAACTCCAAAACCCCAAAACCCT
*
9615278 ACCCCTAAAC-CCAAAA-TCCAAAACCCT
1 ACCCCTAAACTCCAAAACCCCAAAACCCT
*
9615305 AACCCTAA
1 ACCCCTAA
9615313 TGCAGGAGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
27 17 0.53
28 6 0.19
29 9 0.28
ACGTcount: A:0.45, C:0.45, G:0.00, T:0.09
Consensus pattern (29 bp):
ACCCCTAAACTCCAAAACCCCAAAACCCT
Found at i:9620382 original size:87 final size:85
Alignment explanation
Indices: 9620291--9620508 Score: 235
Period size: 86 Copynumber: 2.5 Consensus size: 85
9620281 TTAAAGGTGT
* * **
9620291 AAAAAGTCCTCAAACTTTTTTCAAAAAAAGCAATTAAGCCTTTTTTTTTTTGCACTCAATTGAGC
1 AAAAAGCCCTCAAACTTTTTTCAAAAAAAGCAATTAAGCC-CTGCTTTTTT-CACTCAATTGAGC
*
9620356 ACTTGAACTTTCAAAATGCATC
64 ACTTGAACTTTCAAAATGCAAC
** * * * * *
9620378 AAAAAGGCTTTCAAAC-ATTTTCAAGAAAAGCAATTACGCACCTGCTTTTTTCACTCAATTGGGT
1 AAAAA-GCCCTCAAACTTTTTTCAAAAAAAGCAATTAAGC-CCTGCTTTTTTCACTCAATTGAGC
9620442 ACTTGAACTTTCAAAATGCAAC
64 ACTTGAACTTTCAAAATGCAAC
* *
9620464 AAAAAGACCCTCAAAATTTTTT--AAAAATGCAATTAAGCCCCTGCT
1 AAAAAG-CCCTCAAACTTTTTTCAAAAAAAGCAATTAAG-CCCTGCT
9620509 CTTATTAAAA
Statistics
Matches: 107, Mismatches: 19, Indels: 12
0.78 0.14 0.09
Matches are distributed among these distances:
85 19 0.18
86 44 0.41
87 36 0.34
88 8 0.07
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.32
Consensus pattern (85 bp):
AAAAAGCCCTCAAACTTTTTTCAAAAAAAGCAATTAAGCCCTGCTTTTTTCACTCAATTGAGCAC
TTGAACTTTCAAAATGCAAC
Found at i:9620564 original size:19 final size:19
Alignment explanation
Indices: 9620542--9620578 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
9620532 TATAAAAAAT
9620542 AAAAAATAATAAATTTTAG
1 AAAAAATAATAAATTTTAG
* *
9620561 AAAAATTATTAAATTTTA
1 AAAAAATAATAAATTTTA
9620579 ATAAAAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (19 bp):
AAAAAATAATAAATTTTAG
Found at i:9620954 original size:94 final size:90
Alignment explanation
Indices: 9620856--9621087 Score: 242
Period size: 94 Copynumber: 2.5 Consensus size: 90
9620846 AATTTTTAAT
*
9620856 AAAAACATGGGCTTAATTGTTTTTTCTTTGAAAAAGTTTGAGAGTATTTTTGATGTATTTTGAAA
1 AAAAACA-GGGCTTAATTGTTTTTTCTTT-AAAAAGTTTGAGAGT-TTTTTGATGCATTTTGAAA
* *
9620921 GTTCAAGCATCCAATTGAGTGCAAAAAAA
63 GTTCAAGCACCCAAATGAGTGC-AAAAAA
* * * *
9620950 AAAAACCAGAGGCTTAATTGCTTTTTTC--TAAAAAGCATTGAGGGCCTTTTTCATGCATTTTGA
1 AAAAA-CAG-GGCTTAATTG-TTTTTTCTTTAAAAAG-TTTGAGAG-TTTTTTGATGCATTTTGA
* *
9621013 AAGTTGAAGTACCCAAATGAGTGCAAAAAA
61 AAGTTCAAGCACCCAAATGAGTGCAAAAAA
* *
9621043 AAAAA-AGGACTTAATTG--TTTT-TTTAAAAAGTTTGAGAATTTTTTG
1 AAAAACAGGGCTTAATTGTTTTTTCTTTAAAAAGTTTGAGAGTTTTTTG
9621088 CACCCTTAAG
Statistics
Matches: 116, Mismatches: 15, Indels: 22
0.76 0.10 0.14
Matches are distributed among these distances:
86 5 0.04
87 9 0.08
88 7 0.06
90 9 0.08
91 2 0.02
93 17 0.15
94 48 0.41
95 12 0.10
96 7 0.06
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.36
Consensus pattern (90 bp):
AAAAACAGGGCTTAATTGTTTTTTCTTTAAAAAGTTTGAGAGTTTTTTGATGCATTTTGAAAGTT
CAAGCACCCAAATGAGTGCAAAAAA
Found at i:9649481 original size:16 final size:18
Alignment explanation
Indices: 9649460--9649496 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
9649450 CCCTTACTGA
9649460 TCATTCA-A-CTCATCCC
1 TCATTCACATCTCATCCC
9649476 TCATTCACATCTCATCCC
1 TCATTCACATCTCATCCC
9649494 TCA
1 TCA
9649497 CACTCTCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.37
17 1 0.05
18 11 0.58
ACGTcount: A:0.24, C:0.43, G:0.00, T:0.32
Consensus pattern (18 bp):
TCATTCACATCTCATCCC
Found at i:9652597 original size:25 final size:25
Alignment explanation
Indices: 9652496--9652598 Score: 95
Period size: 25 Copynumber: 4.2 Consensus size: 25
9652486 GGCTCTTCGA
*
9652496 AGCTACCCGTTAT-TGGCTCACATG
1 AGCTTCCCGTTATATGGCTCACATG
**
9652520 AGCTTCCCG--ATGATGGCTCTTATG
1 AGCTTCCCGTTAT-ATGGCTCACATG
** * ** *
9652544 AGCTTCCCGTTATACAGCCCGGATA
1 AGCTTCCCGTTATATGGCTCACATG
9652569 AGCTTCCCGTTATATGGCTCACATG
1 AGCTTCCCGTTATATGGCTCACATG
9652594 AGCTT
1 AGCTT
9652599 TCTATTATAT
Statistics
Matches: 60, Mismatches: 15, Indels: 7
0.73 0.18 0.09
Matches are distributed among these distances:
22 2 0.03
24 26 0.43
25 30 0.50
26 2 0.03
ACGTcount: A:0.20, C:0.28, G:0.21, T:0.30
Consensus pattern (25 bp):
AGCTTCCCGTTATATGGCTCACATG
Found at i:9653524 original size:15 final size:16
Alignment explanation
Indices: 9653499--9653528 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
9653489 TCTCTAATTT
9653499 TTATATCTTTTTTTTG
1 TTATATCTTTTTTTTG
9653515 TTAT-TCTTTTTTTT
1 TTATATCTTTTTTTT
9653529 TTTCATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.10, C:0.07, G:0.03, T:0.80
Consensus pattern (16 bp):
TTATATCTTTTTTTTG
Found at i:9654338 original size:31 final size:31
Alignment explanation
Indices: 9654277--9654338 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
9654267 TTTAATATAT
*
9654277 ATATACATTATTTAGTTTAAATTGTCTTTTA
1 ATATACATTATTTAGTTTAAATTATCTTTTA
* *
9654308 ATATATATTATTTAGTTTAAATTATTTTTTA
1 ATATACATTATTTAGTTTAAATTATCTTTTA
9654339 TATGTTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.58
Consensus pattern (31 bp):
ATATACATTATTTAGTTTAAATTATCTTTTA
Found at i:9654341 original size:28 final size:30
Alignment explanation
Indices: 9654276--9654348 Score: 96
Period size: 31 Copynumber: 2.5 Consensus size: 30
9654266 TTTTAATATA
* *
9654276 TATATACATTATTTAGTTTAAATTGTCTTT
1 TATATATATTATTTAGTTTAAATTATCTTT
9654306 TAATATATATTATTTAGTTTAAATTAT-TTT
1 T-ATATATATTATTTAGTTTAAATTATCTTT
*
9654336 T-TATATGTTATTT
1 TATATATATTATTT
9654349 CAAAATTTGA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
28 11 0.28
30 5 0.13
31 23 0.59
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.60
Consensus pattern (30 bp):
TATATATATTATTTAGTTTAAATTATCTTT
Found at i:9654494 original size:25 final size:25
Alignment explanation
Indices: 9654444--9654494 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
9654434 TACTTTGCAA
*
9654444 ATGATTTATTTTAAGTTATTTATAT
1 ATGATTTATTTTAAGTTACTTATAT
* *
9654469 ATGATTTTATTTTTAGTTGCTT-TAT
1 ATGA-TTTATTTTAAGTTACTTATAT
9654494 A
1 A
9654495 CATAAATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.27, C:0.02, G:0.10, T:0.61
Consensus pattern (25 bp):
ATGATTTATTTTAAGTTACTTATAT
Found at i:9662107 original size:16 final size:17
Alignment explanation
Indices: 9662082--9662114 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
9662072 TATCTCGGGA
*
9662082 ATTAATTTA-TAAAGTT
1 ATTAAATTATTAAAGTT
9662098 ATTAAATTATTAAAGTT
1 ATTAAATTATTAAAGTT
9662115 TTTCCATGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (17 bp):
ATTAAATTATTAAAGTT
Found at i:9662992 original size:25 final size:23
Alignment explanation
Indices: 9662934--9662994 Score: 59
Period size: 25 Copynumber: 2.6 Consensus size: 23
9662924 TTAATGGCTC
*
9662934 TCTGGAGCTTCCCGATATGACTC
1 TCTGGAGCTTCCCGATATGACTA
* * * *
9662957 GCTTGAACTTCCCGATATATGCCTA
1 TCTGGAGCTTCCCG--ATATGACTA
9662982 TCTGGAGCTTCCC
1 TCTGGAGCTTCCC
9662995 ATTAATGGCT
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
23 11 0.39
25 17 0.61
ACGTcount: A:0.18, C:0.31, G:0.20, T:0.31
Consensus pattern (23 bp):
TCTGGAGCTTCCCGATATGACTA
Found at i:9671203 original size:66 final size:66
Alignment explanation
Indices: 9671089--9671217 Score: 172
Period size: 66 Copynumber: 2.0 Consensus size: 66
9671079 AATCTGACTG
*
9671089 AGACATGTAATAATGATGTACAAACTAAGACATAATTAATAGACTTGAAACAACTAAA-AACAAT
1 AGACATGTAATAATGATGTACAAACTAAAACATAATTAATAGACTTGAAACAACTAAAGAACAAT
9671153 C
66 C
* ** * *
9671154 AGACATGTAATAATGTTGTATGGAATTAAAACATAATTAATATGA-TTGAAATAACTAAAGAACA
1 AGACATGTAATAATGATGTA-CAAACTAAAACATAATTAATA-GACTTGAAACAACTAAAGAACA
9671218 TTTAAGTCTT
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
65 19 0.35
66 30 0.55
67 6 0.11
ACGTcount: A:0.51, C:0.10, G:0.12, T:0.26
Consensus pattern (66 bp):
AGACATGTAATAATGATGTACAAACTAAAACATAATTAATAGACTTGAAACAACTAAAGAACAAT
C
Found at i:9673903 original size:11 final size:11
Alignment explanation
Indices: 9673887--9673923 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
9673877 CAGCTAATTT
9673887 GTTAGCTGTTA
1 GTTAGCTGTTA
9673898 GTTAGCTGTTA
1 GTTAGCTGTTA
*
9673909 GTTAATCTGTTA
1 GTT-AGCTGTTA
9673921 GTT
1 GTT
9673924 TGTTCTTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 14 0.58
12 10 0.42
ACGTcount: A:0.19, C:0.08, G:0.24, T:0.49
Consensus pattern (11 bp):
GTTAGCTGTTA
Found at i:9687358 original size:821 final size:821
Alignment explanation
Indices: 9685775--9687408 Score: 3268
Period size: 821 Copynumber: 2.0 Consensus size: 821
9685765 TCTAATTACC
9685775 ATAATGTTAAATATTAATATTTAATTTGAAATATCTTTTAAACATAATAATAATTAAAATAAAAA
1 ATAATGTTAAATATTAATATTTAATTTGAAATATCTTTTAAACATAATAATAATTAAAATAAAAA
9685840 ATTATTTAAGTTTTTTTTTTGCTTTTACGTAACCCTAGCACTCGCTATATTTCCTACTCTTCCAT
66 ATTATTTAAGTTTTTTTTTTGCTTTTACGTAACCCTAGCACTCGCTATATTTCCTACTCTTCCAT
9685905 TCTGTAGAAGTTGCCGGAGTCGCCTTTGATCAACTCTTTTTTACACAAAAACCAACTAAAATTCT
131 TCTGTAGAAGTTGCCGGAGTCGCCTTTGATCAACTCTTTTTTACACAAAAACCAACTAAAATTCT
9685970 TTGAAAGCACCAAAAAAAGTTTCAACCCTGATAACATTGATCTGTCAAGTCCATCATTCCATCAA
196 TTGAAAGCACCAAAAAAAGTTTCAACCCTGATAACATTGATCTGTCAAGTCCATCATTCCATCAA
9686035 AATGGCCACTAAAGTTTGCATGATTTGTCAAAATGGTCCTAATTATATTTTTGAGCTTTTTTTGG
261 AATGGCCACTAAAGTTTGCATGATTTGTCAAAATGGTCCTAATTATATTTTTGAGCTTTTTTTGG
9686100 CCATTAACATTTGTTCCTATTTTCAATATGTTTTTTTCTATTAGATTTAATAAATAAATTCAAAG
326 CCATTAACATTTGTTCCTATTTTCAATATGTTTTTTTCTATTAGATTTAATAAATAAATTCAAAG
9686165 TTTCAATATTTGTTTTCTTTCAAAAGGTTTTAATCTTTCATACGTTTGTTTATTGAAAAGTTTTT
391 TTTCAATATTTGTTTTCTTTCAAAAGGTTTTAATCTTTCATACGTTTGTTTATTGAAAAGTTTTT
9686230 CTACTTAGTTAATTTTTTTTAGATAATCACGCTTATTTTTTAAAATTAAGAGTTGTTTTTTAATT
456 CTACTTAGTTAATTTTTTTTAGATAATCACGCTTATTTTTTAAAATTAAGAGTTGTTTTTTAATT
9686295 TAATGTATTATTTATTTTTTTATTTTTCACATGTAATTGTCTTATTGGGTTATCTAAGTAATAAA
521 TAATGTATTATTTATTTTTTTATTTTTCACATGTAATTGTCTTATTGGGTTATCTAAGTAATAAA
9686360 TTATATATCAATAAAAATATTCCACATTTGAAATTCCACATCATCCCCGTTAACTTTTTTAATGT
586 TTATATATCAATAAAAATATTCCACATTTGAAATTCCACATCATCCCCGTTAACTTTTTTAATGT
9686425 TATTTTCATTAAATCTGTTAGAAAAAGTAGATTGAAAAAAAGAACAAAGGTTGATAGCCAAAAAC
651 TATTTTCATTAAATCTGTTAGAAAAAGTAGATTGAAAAAAAGAACAAAGGTTGATAGCCAAAAAC
9686490 GACTAAAAAATACAATTAGGGTCATTTTGACAAAACATACAAACGTTAGTGGCCAAATGTGTTGT
716 GACTAAAAAATACAATTAGGGTCATTTTGACAAAACATACAAACGTTAGTGGCCAAATGTGTTGT
9686555 TAAGCCTTTTTTATAGCTTCCAACATCAATAATAATTTATA
781 TAAGCCTTTTTTATAGCTTCCAACATCAATAATAATTTATA
9686596 ATAATGTTAAATATTAATATTTAATTTGAAATATCTTTTAAACATAATAATAATTAAAATAAAAA
1 ATAATGTTAAATATTAATATTTAATTTGAAATATCTTTTAAACATAATAATAATTAAAATAAAAA
9686661 ATTATTTAAGTTTTTTTTTTGCTTTTACGTAACCCTAGCACTCGCTATATTTCCTACTCTTCCAT
66 ATTATTTAAGTTTTTTTTTTGCTTTTACGTAACCCTAGCACTCGCTATATTTCCTACTCTTCCAT
9686726 TCTGTAGAAGTTGCCGGAGTCGCCTTTGATCAACTCTTTTTTACACAAAAACCAACTAAAATTCT
131 TCTGTAGAAGTTGCCGGAGTCGCCTTTGATCAACTCTTTTTTACACAAAAACCAACTAAAATTCT
9686791 TTGAAAGCACCAAAAAAAGTTTCAACCCTGATAACATTGATCTGTCAAGTCCATCATTCCATCAA
196 TTGAAAGCACCAAAAAAAGTTTCAACCCTGATAACATTGATCTGTCAAGTCCATCATTCCATCAA
9686856 AATGGCCACTAAAGTTTGCATGATTTGTCAAAATGGTCCTAATTATATTTTTGAGCTTTTTTTGG
261 AATGGCCACTAAAGTTTGCATGATTTGTCAAAATGGTCCTAATTATATTTTTGAGCTTTTTTTGG
9686921 CCATTAACATTTGTTCCTATTTTCAATATGTTTTTTTCTATTAGATTTAATAAATAAATTCAAAG
326 CCATTAACATTTGTTCCTATTTTCAATATGTTTTTTTCTATTAGATTTAATAAATAAATTCAAAG
9686986 TTTCAATATTTGTTTTCTTTCAAAAGGTTTTAATCTTTCATACGTTTGTTTATTGAAAAGTTTTT
391 TTTCAATATTTGTTTTCTTTCAAAAGGTTTTAATCTTTCATACGTTTGTTTATTGAAAAGTTTTT
9687051 CTACTTAGTTAATTTTTTTTAGATAATCACGCTTATTTTTTAAAATTAAGAGTTGTTTTTTAATT
456 CTACTTAGTTAATTTTTTTTAGATAATCACGCTTATTTTTTAAAATTAAGAGTTGTTTTTTAATT
9687116 TAATGTATTATTTATTTTTTTATTTTTCACATGTAATTGTCTTATTGGGTTATCTAAGTAATAAA
521 TAATGTATTATTTATTTTTTTATTTTTCACATGTAATTGTCTTATTGGGTTATCTAAGTAATAAA
9687181 TTATATATCAATAAAAATATTCCACATTTGAAATTCCACATCATCCCCGTTAACTTTTTTAATGT
586 TTATATATCAATAAAAATATTCCACATTTGAAATTCCACATCATCCCCGTTAACTTTTTTAATGT
9687246 TATTTTCATTAAATCTGTTAGAAAAAGTAGATTGAAAAAAAGAACAAAGGTTGATAGCCAAAAAC
651 TATTTTCATTAAATCTGTTAGAAAAAGTAGATTGAAAAAAAGAACAAAGGTTGATAGCCAAAAAC
9687311 GACTAAAAAATACAATTAGGGTCATTTTGACAAAACATACAAACGTTAGTGGCCAAATGTGTTGT
716 GACTAAAAAATACAATTAGGGTCATTTTGACAAAACATACAAACGTTAGTGGCCAAATGTGTTGT
9687376 TAAGCCTTTTTTATAGCTTCCAACATCAATAAT
781 TAAGCCTTTTTTATAGCTTCCAACATCAATAAT
9687409 TAATCCACTA
Statistics
Matches: 813, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
821 813 1.00
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (821 bp):
ATAATGTTAAATATTAATATTTAATTTGAAATATCTTTTAAACATAATAATAATTAAAATAAAAA
ATTATTTAAGTTTTTTTTTTGCTTTTACGTAACCCTAGCACTCGCTATATTTCCTACTCTTCCAT
TCTGTAGAAGTTGCCGGAGTCGCCTTTGATCAACTCTTTTTTACACAAAAACCAACTAAAATTCT
TTGAAAGCACCAAAAAAAGTTTCAACCCTGATAACATTGATCTGTCAAGTCCATCATTCCATCAA
AATGGCCACTAAAGTTTGCATGATTTGTCAAAATGGTCCTAATTATATTTTTGAGCTTTTTTTGG
CCATTAACATTTGTTCCTATTTTCAATATGTTTTTTTCTATTAGATTTAATAAATAAATTCAAAG
TTTCAATATTTGTTTTCTTTCAAAAGGTTTTAATCTTTCATACGTTTGTTTATTGAAAAGTTTTT
CTACTTAGTTAATTTTTTTTAGATAATCACGCTTATTTTTTAAAATTAAGAGTTGTTTTTTAATT
TAATGTATTATTTATTTTTTTATTTTTCACATGTAATTGTCTTATTGGGTTATCTAAGTAATAAA
TTATATATCAATAAAAATATTCCACATTTGAAATTCCACATCATCCCCGTTAACTTTTTTAATGT
TATTTTCATTAAATCTGTTAGAAAAAGTAGATTGAAAAAAAGAACAAAGGTTGATAGCCAAAAAC
GACTAAAAAATACAATTAGGGTCATTTTGACAAAACATACAAACGTTAGTGGCCAAATGTGTTGT
TAAGCCTTTTTTATAGCTTCCAACATCAATAATAATTTATA
Found at i:9696999 original size:7 final size:7
Alignment explanation
Indices: 9696989--9697043 Score: 58
Period size: 7 Copynumber: 7.4 Consensus size: 7
9696979 AAAAAAGGAA
9696989 AAAGAAC
1 AAAGAAC
9696996 AAAGAAC
1 AAAGAAC
*
9697003 AAAGAAG
1 AAAGAAC
9697010 ATAACGGGAA-
1 A-AA---GAAC
9697020 AAAGAAC
1 AAAGAAC
9697027 AAAGAAC
1 AAAGAAC
9697034 AAAGAAC
1 AAAGAAC
9697041 AAA
1 AAA
9697044 AAAGAGGAGG
Statistics
Matches: 42, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
6 3 0.07
7 31 0.74
8 2 0.05
9 2 0.05
10 1 0.02
11 3 0.07
ACGTcount: A:0.69, C:0.11, G:0.18, T:0.02
Consensus pattern (7 bp):
AAAGAAC
Found at i:9698862 original size:21 final size:22
Alignment explanation
Indices: 9698836--9698878 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
9698826 TTTATAATAT
*
9698836 TTAAAATTTTATAAAAA-CATA
1 TTAAAATTCTATAAAAATCATA
9698857 TTAAAATTCTATAAAAATCATA
1 TTAAAATTCTATAAAAATCATA
9698879 AAAAATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (22 bp):
TTAAAATTCTATAAAAATCATA
Found at i:9698883 original size:21 final size:21
Alignment explanation
Indices: 9698838--9698885 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
9698828 TATAATATTT
* *
9698838 AAAATTTTATAAAAACATATT
1 AAAATTCTATAAAAACATATA
9698859 AAAATTCTATAAAAATCATA-A
1 AAAATTCTATAAAAA-CATATA
9698880 AAAATT
1 AAAATT
9698886 ATAAAATTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAATTCTATAAAAACATATA
Found at i:9698888 original size:19 final size:19
Alignment explanation
Indices: 9698844--9698891 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 19
9698834 ATTTAAAATT
*
9698844 TTATAAAAACATATTAAAAT
1 TTATAAAAACATA-TAAAAA
9698864 TCTATAAAAATCATA-AAAAA
1 T-TATAAAAA-CATATAAAAA
9698884 TTATAAAA
1 TTATAAAA
9698892 TTACTAAANN
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 7 0.28
20 6 0.24
21 8 0.32
22 4 0.16
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (19 bp):
TTATAAAAACATATAAAAA
Found at i:9699279 original size:10 final size:9
Alignment explanation
Indices: 9699256--9699295 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
9699246 TTTATATCAA
9699256 TTTTAATAT
1 TTTTAATAT
9699265 TTTTAATACT
1 TTTTAATA-T
9699275 TTTTAA-AT
1 TTTTAATAT
*
9699283 ATTTAATAT
1 TTTTAATAT
9699292 TTTT
1 TTTT
9699296 CTGATTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 6 0.22
9 14 0.52
10 7 0.26
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (9 bp):
TTTTAATAT
Found at i:9701466 original size:22 final size:22
Alignment explanation
Indices: 9701435--9701483 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
9701425 TCATGGACAT
*
9701435 GGAAGGTCATACTAATGAGCAA
1 GGAAGATCATACTAATGAGCAA
* *
9701457 GGAAGATCATACTAATGGGCGA
1 GGAAGATCATACTAATGAGCAA
9701479 GGAAG
1 GGAAG
9701484 TGATTGAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.39, C:0.12, G:0.33, T:0.16
Consensus pattern (22 bp):
GGAAGATCATACTAATGAGCAA
Found at i:9705573 original size:21 final size:19
Alignment explanation
Indices: 9705527--9705601 Score: 123
Period size: 19 Copynumber: 3.8 Consensus size: 19
9705517 AATCTTCAAG
9705527 GATATGCAATCTTGGATAT
1 GATATGCAATCTTGGATAT
*
9705546 GATATGCAATCTTAGATAT
1 GATATGCAATCTTGGATAT
9705565 GATATATGCAATCTTGGATAT
1 G--ATATGCAATCTTGGATAT
9705586 GATATGCAATCTTGGA
1 GATATGCAATCTTGGA
9705602 AGATATGATT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
19 34 0.65
21 18 0.35
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTGGATAT
Found at i:9712848 original size:65 final size:65
Alignment explanation
Indices: 9712744--9712872 Score: 206
Period size: 65 Copynumber: 2.0 Consensus size: 65
9712734 TAACAGATCT
* *
9712744 TGCCTTCCTGCACCGATAGCAAAGCAGATCGAAGACACCAACCTTGCCTC-CTTGGGTTGTAGCG
1 TGCCTTCCTGCACCGACAGCAAAGCAGATCGAAGACACCAACCTTGCCTCTC-TGGGTTGCAGCG
9712808 G
65 G
* *
9712809 TGCCTTCCTGCACCGACAGCGAAGTAGATCGAAGACACCAACCTTGCCTCTCTGGGTTGCAGCG
1 TGCCTTCCTGCACCGACAGCAAAGCAGATCGAAGACACCAACCTTGCCTCTCTGGGTTGCAGCG
9712873 AAGCAGGTTG
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
65 58 0.98
66 1 0.02
ACGTcount: A:0.22, C:0.32, G:0.25, T:0.21
Consensus pattern (65 bp):
TGCCTTCCTGCACCGACAGCAAAGCAGATCGAAGACACCAACCTTGCCTCTCTGGGTTGCAGCGG
Found at i:9712958 original size:88 final size:87
Alignment explanation
Indices: 9712809--9714089 Score: 1278
Period size: 88 Copynumber: 14.6 Consensus size: 87
9712799 GTTGTAGCGG
* * * * * * * *
9712809 TGCCTTCCTGCACCGACAGCGAAGTAGATCGAAGACACCAACCTTGCCTCTCTGGGTTGCAGCGA
1 TGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTCGGTTGCAGCGG
*
9712874 AGCAGGTTGAAAATAACAGATCT
66 AGCAGGTT-AAAATAGCAGATCT
* * * *
9712897 TGCCTTCCTGTACTAACAACGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTGGGTTGCAGTGG
1 TGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTCGGTTGCAGCGG
* * *
9712962 AGCAGATTAAAAATAACAAATCT
66 AGCAGGTT-AAAATAGCAGATCT
* * * * * ** *
9712985 TGCCTTCCTGTACCGGCAGCGAAGCAGATCAAAGACACCAGCCTTGCCTTCCTAAGTTGCAGCAG
1 TGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTCGGTTGCAGCGG
* *
9713050 AGCAGGTTGAAAATTGCAAATCT
66 AGCAGGTT-AAAATAGCAGATCT
** * * * * * * * * *
9713073 TATCTCCCT-AAGCAG-TAGTGGAGTAGATCGAAGACACTAGCCTTACCTCCCTCGGTGGCAGCG
1 TGCCTTCCTGTA-CTGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTCGGTTGCAGCG
9713136 GAGCAGGTTAAAGATAGCAGATCT
65 GAGCAGGTTAAA-ATAGCAGATCT
* * * * *
9713160 TGCCTTCCTGTACTGACAGTGAAGCAGATTGAAGACACTAACCTTGCCTCCATCGGTGGCAGCGG
1 TGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTCGGTTGCAGCGG
*
9713225 AGCAGGTTAAAGATAACAGATCT
66 AGCAGGTTAAA-ATAGCAGATCT
* * ** * * * * * *
9713248 TACCTTCCTATACTGACAGTAAAGTAGATTGAAGACACTAGCCTTGCTTCCCTCTGTGGCAACGG
1 TGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTCGGTTGCAGCGG
*
9713313 AGCAGGTTAAGGATAGCAGATCT
66 AGCAGGTTAA-AATAGCAGATCT
* * * * *
9713336 TGCCTTCTTGTACTAACAGTGAAGCAGATTGAAGACACTAGCCTTGCCTCCCTCGGTGGCAGCGG
1 TGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTCGGTTGCAGCGG
*
9713401 AGTAGGTTAAAGATAGCAGATCT
66 AGCAGGTTAAA-ATAGCAGATCT
* * * * * * * *
9713424 TGCCTTCTTATACTAACAACGAAGTAGGTCGAAGACACTAGCCTTGCCTCCCTGGGTTGCAGCAG
1 TGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTCGGTTGCAGCGG
*
9713489 AGCAGGTTAAAAATAGCAGATCA
66 AGCAGGTT-AAAATAGCAGATCT
* * * * * * * * *
9713512 TGCCTTCCTGTACCGGCAGCGAAGTAGATCAAAGACACCAGCCTTACCTCCCTGGGTTACAGCAG
1 TGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTCGGTTGCAGCGG
*
9713577 AGCAGGTTGAAAATTGCAGATCT
66 AGCAGGTT-AAAATAGCAGATCT
** * * * * * * * * * *
9713600 TATCTCCCT-AAGCAG-TAGTGGAGTAGATTGAAGACACTAGCCTTGCCTCCCTCGGTGGCAGTG
1 TGCCTTCCTGTA-CTGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTCGGTTGCAGCG
* * *
9713663 GAACAGGTTAAAGATAACAGATAT
65 GAGCAGGTTAAA-ATAGCAGATCT
** * *
9713687 TGCCTTCCTGTACTGACAGTAAAGCAGATTGAAGACACTAGCCTTGCCTCCCTCGGTGGCAGCGG
1 TGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTCGGTTGCAGCGG
9713752 AGCAGGTTAAAGATAGCAGATCT
66 AGCAGGTTAAA-ATAGCAGATCT
* * * * *
9713775 TGCCTTCCTGTACTAACAGTGAAACAGATTGAAGACACTAGCCTTGCCTCCCTCGGTGGCAGCGG
1 TGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTCGGTTGCAGCGG
9713840 AGCAGGTTAAAGATAGCAGATCT
66 AGCAGGTTAAA-ATAGCAGATCT
* ** * * *
9713863 TGCCTTCCTGCACCAACAGCGAAGCAGATTGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCGG
1 TGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTCGGTTGCAGCGG
*
9713928 AACAGGTTAAAAATAGCAGATCT
66 AGCAGGTT-AAAATAGCAGATCT
* * * * * * *
9713951 TGCCTTCCTGCACCGACAACGAAGCAGATCGAAGACACCAACCTTACCTCCCT-GAGTTGCAACG
1 TGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTCG-GTTGCAGCG
*
9714015 GAGCAGGTTAAAAATAACAGATCT
65 GAGCAGGTT-AAAATAGCAGATCT
* *
9714039 TGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACA-TCAGCCTTGCCTCC
1 TGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACT-AGCCTTGCCTCC
9714090 TTGAGTTGCA
Statistics
Matches: 1015, Mismatches: 164, Indels: 28
0.84 0.14 0.02
Matches are distributed among these distances:
86 6 0.01
87 125 0.12
88 878 0.87
89 6 0.01
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (87 bp):
TGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTCGGTTGCAGCGG
AGCAGGTTAAAATAGCAGATCT
Found at i:9713630 original size:439 final size:439
Alignment explanation
Indices: 9712834--9714089 Score: 1577
Period size: 439 Copynumber: 2.9 Consensus size: 439
9712824 ACAGCGAAGT
* * * * * * * * *
9712834 AGATCGAAGACACCAACCTTGCCTCTCTGGGTTGCAGCGAAGCAGGTTGAAA-ATAACAGATCTT
1 AGATTGAAGACACTAGCCTTGCCTCCCTCGGTGGCAACGGAGCAGGTT-AAAGATAGCAGATCTT
** * * * *
9712898 GCCTTCCTGTACTAACAACGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTGGGTTGCAGTGGA
65 GCCTTCCTGTACTAACAGTGAAGCAGATTGAAGACACTAGCCTTGCCTCCCTCGGTGGCAGCGGA
* * * * ** *
9712963 GCAGATTAAAAATAACAAATCTTGCCTTCCTGTACCGGCAGCGAAGCAGATCAAAGACACCAGCC
130 GCAGGTTAAAGATAGCAGATCTTGCCTTCCTGTACCAACAGCGAAGCAGATCGAAGACACCAGCC
* ** * * * ** * * * * *
9713028 TTGCCTTCCTAAGTTGCAGCAGAGCAGGTTGAAAATTGCAAATCTTATCTCCCT-AAGCAGTAGT
195 TTGCCTCCCTGGGTTGCAGCAGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGAACCGGCAGC
* * * *
9713092 GGAGTAGATCGAAGACACTAGCCTTACCTCCCTCGGTGGCAGCGGAGCAGGTTAAAGATAGCAGA
260 GAAGTAGATCGAAGACACCAGCCTTACCTCCCTGGGTTGCAGCGGAGCAGGTTAAA-ATAGCAGA
* * * *
9713157 TCTTGCCTTCCTGTACTGACAGTGAAGCAGATTGAAGACACTAACCTTGCCTCCATCGGTGGCAG
324 TCTTACCTCCCTGAACAGACAGTGAAGCAGATTGAAGACACTAACCTTGCCTCCATCGGTGGCAG
* * *
9713222 CGGAGCAGGTTAAAGATAACAGATCTTACCTTCCTATACTGACAGTAAAGT
389 CGGAACAGGTTAAAGATAACAGATATTACCTTCCTATACTGACAGTAAAGC
* * *
9713273 AGATTGAAGACACTAGCCTTGCTTCCCTCTGTGGCAACGGAGCAGGTTAAGGATAGCAGATCTTG
1 AGATTGAAGACACTAGCCTTGCCTCCCTCGGTGGCAACGGAGCAGGTTAAAGATAGCAGATCTTG
*
9713338 CCTTCTTGTACTAACAGTGAAGCAGATTGAAGACACTAGCCTTGCCTCCCTCGGTGGCAGCGGAG
66 CCTTCCTGTACTAACAGTGAAGCAGATTGAAGACACTAGCCTTGCCTCCCTCGGTGGCAGCGGAG
* * * * * * * *
9713403 TAGGTTAAAGATAGCAGATCTTGCCTTCTTATACTAACAACGAAGTAGGTCGAAGACACTAGCCT
131 CAGGTTAAAGATAGCAGATCTTGCCTTCCTGTACCAACAGCGAAGCAGATCGAAGACACCAGCCT
* *
9713468 TGCCTCCCTGGGTTGCAGCAGAGCAGGTTAAAAATAGCAGATCATGCCTTCCTGTACCGGCAGCG
196 TGCCTCCCTGGGTTGCAGCAGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGAACCGGCAGCG
* * * *
9713533 AAGTAGATCAAAGACACCAGCCTTACCTCCCTGGGTTACAGCAGAGCAGGTTGAAAATTGCAGAT
261 AAGTAGATCGAAGACACCAGCCTTACCTCCCTGGGTTGCAGCGGAGCAGGTT-AAAATAGCAGAT
* * * * * *
9713598 CTTATCTCCCT-AAGCAG-TAGTGGAGTAGATTGAAGACACTAGCCTTGCCTCCCTCGGTGGCAG
325 CTTACCTCCCTGAA-CAGACAGTGAAGCAGATTGAAGACACTAACCTTGCCTCCATCGGTGGCAG
* * *
9713661 TGGAACAGGTTAAAGATAACAGATATTGCCTTCCTGTACTGACAGTAAAGC
389 CGGAACAGGTTAAAGATAACAGATATTACCTTCCTATACTGACAGTAAAGC
*
9713712 AGATTGAAGACACTAGCCTTGCCTCCCTCGGTGGCAGCGGAGCAGGTTAAAGATAGCAGATCTTG
1 AGATTGAAGACACTAGCCTTGCCTCCCTCGGTGGCAACGGAGCAGGTTAAAGATAGCAGATCTTG
*
9713777 CCTTCCTGTACTAACAGTGAAACAGATTGAAGACACTAGCCTTGCCTCCCTCGGTGGCAGCGGAG
66 CCTTCCTGTACTAACAGTGAAGCAGATTGAAGACACTAGCCTTGCCTCCCTCGGTGGCAGCGGAG
* *
9713842 CAGGTTAAAGATAGCAGATCTTGCCTTCCTGCACCAACAGCGAAGCAGATTGAAGACACCAGCCT
131 CAGGTTAAAGATAGCAGATCTTGCCTTCCTGTACCAACAGCGAAGCAGATCGAAGACACCAGCCT
* * * * *
9713907 TGCCTCCCTGGGTTGCAGCGGAACAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAACG
196 TGCCTCCCTGGGTTGCAGCAGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGAACCGGCAGCG
* * * * *
9713972 AAGCAGATCGAAGACACCAACCTTACCTCCCTGAGTTGCAACGGAGCAGGTTAAAAATAACAGAT
261 AAGTAGATCGAAGACACCAGCCTTACCTCCCTGGGTTGCAGCGGAGCAGGTT-AAAATAGCAGAT
* * * * * * *
9714037 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACA-TCAGCCTTGCCTCC
325 CTTACCTCCCTGAACAGACAGTGAAGCAGATTGAAGACACT-AACCTTGCCTCC
9714090 TTGAGTTGCA
Statistics
Matches: 695, Mismatches: 115, Indels: 13
0.84 0.14 0.02
Matches are distributed among these distances:
438 2 0.00
439 592 0.85
440 98 0.14
441 3 0.00
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.22
Consensus pattern (439 bp):
AGATTGAAGACACTAGCCTTGCCTCCCTCGGTGGCAACGGAGCAGGTTAAAGATAGCAGATCTTG
CCTTCCTGTACTAACAGTGAAGCAGATTGAAGACACTAGCCTTGCCTCCCTCGGTGGCAGCGGAG
CAGGTTAAAGATAGCAGATCTTGCCTTCCTGTACCAACAGCGAAGCAGATCGAAGACACCAGCCT
TGCCTCCCTGGGTTGCAGCAGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGAACCGGCAGCG
AAGTAGATCGAAGACACCAGCCTTACCTCCCTGGGTTGCAGCGGAGCAGGTTAAAATAGCAGATC
TTACCTCCCTGAACAGACAGTGAAGCAGATTGAAGACACTAACCTTGCCTCCATCGGTGGCAGCG
GAACAGGTTAAAGATAACAGATATTACCTTCCTATACTGACAGTAAAGC
Found at i:9713778 original size:44 final size:44
Alignment explanation
Indices: 9713641--9713955 Score: 149
Period size: 44 Copynumber: 7.2 Consensus size: 44
9713631 AGACACTAGC
* * *
9713641 CTTGCCTCCCTCGGTGGCAGTGGAACAGGTTAAAGATAACAGAT
1 CTTGCCTCCCTCGGTGGCAGCGGAGCAGGTTAAAGATAGCAGAT
* * * * *** * * * *
9713685 ATTGCCTTCCT-GTACTGACAGTAAAGCAGATTGAAGACA-CTAG-C
1 CTTGCCTCCCTCG--GTGGCAGCGGAGCAGGTTAAAGATAGC-AGAT
9713729 CTTGCCTCCCTCGGTGGCAGCGGAGCAGGTTAAAGATAGCAGAT
1 CTTGCCTCCCTCGGTGGCAGCGGAGCAGGTTAAAGATAGCAGAT
* * ** * * * * * * *
9713773 CTTGCCTTCCT-GTACTAACAGTGAAACAGATTGAAGACA-CTAG-C
1 CTTGCCTCCCTCG--GTGGCAGCGGAGCAGGTTAAAGATAGC-AGAT
9713817 CTTGCCTCCCTCGGTGGCAGCGGAGCAGGTTAAAGATAGCAGAT
1 CTTGCCTCCCTCGGTGGCAGCGGAGCAGGTTAAAGATAGCAGAT
* ***** * * * * * *
9713861 CTTGCCTTCCTGCACCAACAGCGAAGCAGATTGAAGACACCAG-C
1 CTTGCCTCCCT-CGGTGGCAGCGGAGCAGGTTAAAGATAGCAGAT
* * * *
9713905 CTTGCCTCCCTGGGTTGCAGCGGAACAGGTTAAAAATAGCAGAT
1 CTTGCCTCCCTCGGTGGCAGCGGAGCAGGTTAAAGATAGCAGAT
9713949 CTTGCCT
1 CTTGCCT
9713956 TCCTGCACCG
Statistics
Matches: 186, Mismatches: 71, Indels: 28
0.65 0.25 0.10
Matches are distributed among these distances:
43 57 0.31
44 69 0.37
45 60 0.32
ACGTcount: A:0.27, C:0.26, G:0.25, T:0.22
Consensus pattern (44 bp):
CTTGCCTCCCTCGGTGGCAGCGGAGCAGGTTAAAGATAGCAGAT
Found at i:9713806 original size:527 final size:526
Alignment explanation
Indices: 9712809--9714089 Score: 1952
Period size: 527 Copynumber: 2.4 Consensus size: 526
9712799 GTTGTAGCGG
* * * * * *
9712809 TGCCTTCCTGCACCGACAGCGAAGTAGATCGAAGACACCAACCTTGCCTCTCTGGGTTGCAGCGA
1 TGCCTTCCTGCACCAACAGCGAAGCAGATTGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCGG
*
9712874 AGCAGGTTGAAAATAACAGATCTTGCCTTCCTGTACTAACAACGAAGCAGATCGAAGACACTAGC
66 AGCAGGTT-AAAATAGCAGATCTTGCCTTCCTGTACTAACAACGAAGCAGATCGAAGACACTAGC
* * *
9712939 CTTGCCTCCCTGGGTTGCAGTGGAGCAGATTAAAAATAACAAATCTTGCCTTCCTGTACCGGCAG
130 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAACAGATCTTGCCTTCCTGTACCGGCAG
* *
9713004 CGAAGCAGATCAAAGACACCAGCCTTGCCTTCCTAAGTTGCAGCAGAGCAGGTTGAAAATTGCAA
195 CGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTAAGTTACAGCAGAGCAGGTTGAAAATTGCAA
9713069 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACACTAGCCTTACCTCCCTCGGTGGCAG
260 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACACTAGCCTTACCTCCCTCGGTGGCAG
* * * *
9713134 CGGAGCAGGTTAAAGATAGCAGATCTTGCCTTCCTGTACTGACAGTGAAGCAGATTGAAGACACT
325 CGGAACAGGTTAAAGATAACAGATATTGCCTTCCTGTACTGACAGTAAAGCAGATTGAAGACACT
*
9713199 AACCTTGCCTCCATCGGTGGCAGCGGAGCAGGTTAAAGATAACAGATCTTACCTTCCTATACTGA
390 AACCTTGCCTCCATCGGTGGCAGCGGAGCAGGTTAAAGATAACAGATCTTACCTTCCTATACTAA
* * * *
9713264 CAGTAAAGTAGATTGAAGACACTAGCCTTGCTTCCCTCTGTGGCAACGGAGCAGGTTAAGGATAG
455 CAGTAAAGCAGATTGAAGACACTAGCCTTGCCTCCCTCGGTGGCAACGGAGCAGGTTAAAGATAG
9713329 CAGATCT
520 CAGATCT
* * * * * * *
9713336 TGCCTTCTTGTACTAACAGTGAAGCAGATTGAAGACACTAGCCTTGCCTCCCTCGGTGGCAGCGG
1 TGCCTTCCTGCACCAACAGCGAAGCAGATTGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCGG
* * * * *
9713401 AGTAGGTTAAAGATAGCAGATCTTGCCTTCTTATACTAACAACGAAGTAGGTCGAAGACACTAGC
66 AGCAGGTTAAA-ATAGCAGATCTTGCCTTCCTGTACTAACAACGAAGCAGATCGAAGACACTAGC
* * *
9713466 CTTGCCTCCCTGGGTTGCAGCAGAGCAGGTTAAAAATAGCAGATCATGCCTTCCTGTACCGGCAG
130 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAACAGATCTTGCCTTCCTGTACCGGCAG
* * ** *
9713531 CGAAGTAGATCAAAGACACCAGCCTTACCTCCCTGGGTTACAGCAGAGCAGGTTGAAAATTGCAG
195 CGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTAAGTTACAGCAGAGCAGGTTGAAAATTGCAA
* *
9713596 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGACACTAGCCTTGCCTCCCTCGGTGGCAG
260 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACACTAGCCTTACCTCCCTCGGTGGCAG
*
9713661 TGGAACAGGTTAAAGATAACAGATATTGCCTTCCTGTACTGACAGTAAAGCAGATTGAAGACACT
325 CGGAACAGGTTAAAGATAACAGATATTGCCTTCCTGTACTGACAGTAAAGCAGATTGAAGACACT
* * * * *
9713726 AGCCTTGCCTCCCTCGGTGGCAGCGGAGCAGGTTAAAGATAGCAGATCTTGCCTTCCTGTACTAA
390 AACCTTGCCTCCATCGGTGGCAGCGGAGCAGGTTAAAGATAACAGATCTTACCTTCCTATACTAA
*
9713791 CAGTGAAA-CAGATTGAAGACACTAGCCTTGCCTCCCTCGGTGGCAGCGGAGCAGGTTAAAGATA
455 CAGT-AAAGCAGATTGAAGACACTAGCCTTGCCTCCCTCGGTGGCAACGGAGCAGGTTAAAGATA
9713855 GCAGATCT
519 GCAGATCT
9713863 TGCCTTCCTGCACCAACAGCGAAGCAGATTGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCGG
1 TGCCTTCCTGCACCAACAGCGAAGCAGATTGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCGG
* * ** * *
9713928 AACAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAACGAAGCAGATCGAAGACACCAAC
66 AGCAGGTT-AAAATAGCAGATCTTGCCTTCCTGTACTAACAACGAAGCAGATCGAAGACACTAGC
* * * * *
9713993 CTTACCTCCCTGAGTTGCAACGGAGCAGGTTAAAAATAACAGATCTTGCCTTCCTGCACCGACAG
130 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAACAGATCTTGCCTTCCTGTACCGGCAG
* *
9714058 CGAAGCAGATCGAAGACATCAGCCTTGCCTCC
195 CGAAGCAGATCAAAGACACCAGCCTTGCCTCC
9714090 TTGAGTTGCA
Statistics
Matches: 671, Mismatches: 80, Indels: 6
0.89 0.11 0.01
Matches are distributed among these distances:
526 3 0.00
527 662 0.99
528 6 0.01
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (526 bp):
TGCCTTCCTGCACCAACAGCGAAGCAGATTGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCGG
AGCAGGTTAAAATAGCAGATCTTGCCTTCCTGTACTAACAACGAAGCAGATCGAAGACACTAGCC
TTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAACAGATCTTGCCTTCCTGTACCGGCAGC
GAAGCAGATCAAAGACACCAGCCTTGCCTCCCTAAGTTACAGCAGAGCAGGTTGAAAATTGCAAA
TCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACACTAGCCTTACCTCCCTCGGTGGCAGC
GGAACAGGTTAAAGATAACAGATATTGCCTTCCTGTACTGACAGTAAAGCAGATTGAAGACACTA
ACCTTGCCTCCATCGGTGGCAGCGGAGCAGGTTAAAGATAACAGATCTTACCTTCCTATACTAAC
AGTAAAGCAGATTGAAGACACTAGCCTTGCCTCCCTCGGTGGCAACGGAGCAGGTTAAAGATAGC
AGATCT
Found at i:9714507 original size:40 final size:40
Alignment explanation
Indices: 9714462--9714692 Score: 462
Period size: 40 Copynumber: 5.8 Consensus size: 40
9714452 ATCTTCAAGG
9714462 ATATGCAATCTTGGATATGATATGCAATCTTAGATATGAT
1 ATATGCAATCTTGGATATGATATGCAATCTTAGATATGAT
9714502 ATATGCAATCTTGGATATGATATGCAATCTTAGATATGAT
1 ATATGCAATCTTGGATATGATATGCAATCTTAGATATGAT
9714542 ATATGCAATCTTGGATATGATATGCAATCTTAGATATGAT
1 ATATGCAATCTTGGATATGATATGCAATCTTAGATATGAT
9714582 ATATGCAATCTTGGATATGATATGCAATCTTAGATATGAT
1 ATATGCAATCTTGGATATGATATGCAATCTTAGATATGAT
9714622 ATATGCAATCTTGGATATGATATGCAATCTTAGATATGAT
1 ATATGCAATCTTGGATATGATATGCAATCTTAGATATGAT
9714662 ATATGCAATCTTGGATATGATATGCAATCTT
1 ATATGCAATCTTGGATATGATATGCAATCTT
9714693 GGAAGATATG
Statistics
Matches: 191, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 191 1.00
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (40 bp):
ATATGCAATCTTGGATATGATATGCAATCTTAGATATGAT
Found at i:9717873 original size:18 final size:18
Alignment explanation
Indices: 9717850--9717884 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
9717840 CAGTTAGGAT
9717850 CTATGTCCATTGGATGAA
1 CTATGTCCATTGGATGAA
9717868 CTATGTCCATTGGATGA
1 CTATGTCCATTGGATGA
9717885 GGTTCAGGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (18 bp):
CTATGTCCATTGGATGAA
Found at i:9727020 original size:6 final size:6
Alignment explanation
Indices: 9727011--9727056 Score: 74
Period size: 6 Copynumber: 7.7 Consensus size: 6
9727001 GTAATAGGAC
* *
9727011 CGGAGG CGGAGG CGGAGG CGGAGG CGGAGG CCGAGG CCGAGG CGGA
1 CGGAGG CGGAGG CGGAGG CGGAGG CGGAGG CGGAGG CGGAGG CGGA
9727057 AACAGTCCGG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.17, C:0.22, G:0.61, T:0.00
Consensus pattern (6 bp):
CGGAGG
Found at i:9731975 original size:42 final size:41
Alignment explanation
Indices: 9731911--9732073 Score: 193
Period size: 42 Copynumber: 3.9 Consensus size: 41
9731901 CAACTAAAAA
* * **
9731911 CGCCGTTAAAGAACATGATCTTTAGCGGCGTTTTTCCCTAAG
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTT-TATAAG
* *
9731953 CGCCGCTAAAGAAGATGTTCTTTAGCGGCGTTTTTTTTAAG
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTATAAG
** *
9731994 CGCATCTAAATAACATGTTCTTTAGCGGC-TTTTTTATATGAG
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTATA--AG
*
9732036 CGCCGCTAAAGAACATGTTCTTTAGCGGCTCTTTTTTA
1 CGCCGCTAAAGAACATGTTCTTTAGCGGC-GTTTTTTA
9732074 CAAAAATGCC
Statistics
Matches: 104, Mismatches: 13, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
40 8 0.08
41 29 0.28
42 60 0.58
44 7 0.07
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.36
Consensus pattern (41 bp):
CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTATAAG
Found at i:9732061 original size:83 final size:82
Alignment explanation
Indices: 9731917--9732073 Score: 224
Period size: 83 Copynumber: 1.9 Consensus size: 82
9731907 AAAACGCCGT
* * *
9731917 TAAAGAACATGATCTTTAGCGGCGTTTTTCCCTAAGCGCCGCTAAAGAAGATGTTCTTTAGCGGC
1 TAAAGAACATGATCTTTAGCGGCGTTTTTACATAAGCGCCGCTAAAGAACATGTTCTTTAGCGGC
*
9731982 GTTTTTTTTAAGCGCATC
66 -TCTTTTTTAAGCGCATC
* * * * *
9732000 TAAATAACATGTTCTTTAGCGGCTTTTTTATATGAGCGCCGCTAAAGAACATGTTCTTTAGCGGC
1 TAAAGAACATGATCTTTAGCGGCGTTTTTACATAAGCGCCGCTAAAGAACATGTTCTTTAGCGGC
9732065 TCTTTTTTA
66 TCTTTTTTA
9732074 CAAAAATGCC
Statistics
Matches: 65, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
82 8 0.12
83 57 0.88
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (82 bp):
TAAAGAACATGATCTTTAGCGGCGTTTTTACATAAGCGCCGCTAAAGAACATGTTCTTTAGCGGC
TCTTTTTTAAGCGCATC
Found at i:9732480 original size:21 final size:21
Alignment explanation
Indices: 9732456--9732506 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
9732446 TTCTTTTGAA
*
9732456 CCTCTGCTTCTCTCGCTGCAG
1 CCTCTGCTTCCCTCGCTGCAG
*
9732477 CCTCTGCTTCCCTCGCTGCCG
1 CCTCTGCTTCCCTCGCTGCAG
*
9732498 CATCTGCTT
1 CCTCTGCTT
9732507 TAAGTTGTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.04, C:0.45, G:0.18, T:0.33
Consensus pattern (21 bp):
CCTCTGCTTCCCTCGCTGCAG
Found at i:9732559 original size:87 final size:87
Alignment explanation
Indices: 9732391--9732550 Score: 230
Period size: 87 Copynumber: 1.8 Consensus size: 87
9732381 TTCTGCTCTG
* * * *
9732391 CTCTGCTTCTCTCGCTGCAGCCTCTGCTTTAAGTTTTAGCTGCAGTTCTTCATAATTCTTTTGAA
1 CTCTGCTTCCCTCGCTGCAGCATCTGCTTTAAGTTGTAGCTGCAGTTCTTCATAATTCCTTTGAA
* *
9732456 CCTCTGCTTCTCTCGCTGCAGC
66 CCTCAGCTTCGCTCGCTGCAGC
* * *
9732478 CTCTGCTTCCCTCGCTGCCGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATTTCCTTTGAA
1 CTCTGCTTCCCTCGCTGCAGCATCTGCTTTAAGTTGTAGCTGCAGTTCTTCATAATTCCTTTGAA
*
9732543 CTTCAGCT
66 CCTCAGCT
9732551 GTGGTCGCTT
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
87 64 1.00
ACGTcount: A:0.13, C:0.30, G:0.17, T:0.40
Consensus pattern (87 bp):
CTCTGCTTCCCTCGCTGCAGCATCTGCTTTAAGTTGTAGCTGCAGTTCTTCATAATTCCTTTGAA
CCTCAGCTTCGCTCGCTGCAGC
Found at i:9733486 original size:9 final size:9
Alignment explanation
Indices: 9733469--9733567 Score: 108
Period size: 9 Copynumber: 10.9 Consensus size: 9
9733459 NNNNNNNNNN
*
9733469 TGTAGGTTA
1 TGTAAGTTA
9733478 TGTAAGTTA
1 TGTAAGTTA
9733487 TGTAAGTTA
1 TGTAAGTTA
* *
9733496 TTTAATTTA
1 TGTAAGTTA
*
9733505 TGCAAGTTTA
1 TGTAAG-TTA
9733515 TGTAAGTTA
1 TGTAAGTTA
*
9733524 TGTGAGTTA
1 TGTAAGTTA
* *
9733533 TTTAATTTA
1 TGTAAGTTA
9733542 TGTAAGTTA
1 TGTAAGTTA
* *
9733551 TTTAATTTA
1 TGTAAGTTA
9733560 TGTAAGTT
1 TGTAAGTT
9733568 TCTATATATG
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
9 64 0.89
10 8 0.11
ACGTcount: A:0.30, C:0.01, G:0.18, T:0.51
Consensus pattern (9 bp):
TGTAAGTTA
Found at i:9733495 original size:18 final size:18
Alignment explanation
Indices: 9733469--9733567 Score: 126
Period size: 18 Copynumber: 5.4 Consensus size: 18
9733459 NNNNNNNNNN
* * *
9733469 TGTAGGTTATGTAAGTTA
1 TGTAAGTTATTTAATTTA
9733487 TGTAAGTTATTTAATTTA
1 TGTAAGTTATTTAATTTA
* * *
9733505 TGCAAGTTTATGTAAGTTA
1 TGTAAG-TTATTTAATTTA
*
9733524 TGTGAGTTATTTAATTTA
1 TGTAAGTTATTTAATTTA
9733542 TGTAAGTTATTTAATTTA
1 TGTAAGTTATTTAATTTA
9733560 TGTAAGTT
1 TGTAAGTT
9733568 TCTATATATG
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
18 55 0.80
19 14 0.20
ACGTcount: A:0.30, C:0.01, G:0.18, T:0.51
Consensus pattern (18 bp):
TGTAAGTTATTTAATTTA
Found at i:9733609 original size:8 final size:8
Alignment explanation
Indices: 9733596--9733648 Score: 52
Period size: 8 Copynumber: 6.0 Consensus size: 8
9733586 TTGTATGTTA
9733596 GTTATTAT
1 GTTATTAT
9733604 GTTATTAT
1 GTTATTAT
9733612 GTTATTATAT
1 GTTA-T-TAT
*
9733622 AAGTTATTTAA
1 --GTTA-TTAT
9733633 GTTATTAT
1 GTTATTAT
9733641 GTTATTAT
1 GTTATTAT
9733649 ATAATGTATT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
8 23 0.59
9 5 0.13
10 3 0.08
11 2 0.05
12 6 0.15
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.58
Consensus pattern (8 bp):
GTTATTAT
Found at i:9733658 original size:29 final size:32
Alignment explanation
Indices: 9733590--9733685 Score: 101
Period size: 29 Copynumber: 3.1 Consensus size: 32
9733580 TATATATTGT
* *
9733590 ATGTTAGTTATTATGTTATTATGTTATTATATA
1 ATGTTA-TTATGAAGTTATTATGTTATTATATA
9733623 A-GTTATT-T-AAGTTATTATGTTATTATATA
1 ATGTTATTATGAAGTTATTATGTTATTATATA
* * *
9733652 ATG-TATTATGTAGTTTATTATGTTGTTACATA
1 ATGTTATTATGAAG-TTATTATGTTATTATATA
9733684 AT
1 AT
9733686 AAGTTTATGT
Statistics
Matches: 55, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
29 25 0.45
30 3 0.05
31 4 0.07
32 22 0.40
33 1 0.02
ACGTcount: A:0.31, C:0.01, G:0.12, T:0.55
Consensus pattern (32 bp):
ATGTTATTATGAAGTTATTATGTTATTATATA
Found at i:9733931 original size:16 final size:16
Alignment explanation
Indices: 9733906--9733943 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
9733896 GAAAACGAAG
*
9733906 TAAA-TTTAATACTAA
1 TAAATTTTAATACAAA
9733921 TAAATTTTAATACAAA
1 TAAATTTTAATACAAA
9733937 TAAATTT
1 TAAATTT
9733944 AGAAAACTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (16 bp):
TAAATTTTAATACAAA
Found at i:9733958 original size:13 final size:13
Alignment explanation
Indices: 9733940--9733967 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
9733930 ATACAAATAA
9733940 ATTTAGAAAACTT
1 ATTTAGAAAACTT
9733953 ATTTAGAAAACTT
1 ATTTAGAAAACTT
9733966 AT
1 AT
9733968 AAATTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.39
Consensus pattern (13 bp):
ATTTAGAAAACTT
Found at i:9733975 original size:17 final size:17
Alignment explanation
Indices: 9733936--9733985 Score: 72
Period size: 17 Copynumber: 3.2 Consensus size: 17
9733926 TTTAATACAA
9733936 ATAAATTTAGAAAAC-T
1 ATAAATTTAGAAAACTT
9733952 -T--ATTTAGAAAACTT
1 ATAAATTTAGAAAACTT
9733966 ATAAATTTAGAAAACTT
1 ATAAATTTAGAAAACTT
9733983 ATA
1 ATA
9733986 TAGATATTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 11 0.37
14 1 0.03
15 2 0.07
17 16 0.53
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.36
Consensus pattern (17 bp):
ATAAATTTAGAAAACTT
Found at i:9734809 original size:27 final size:29
Alignment explanation
Indices: 9734755--9734809 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 29
9734745 TAATTATCAC
*
9734755 AACAATAAACTTAATAATAATTGATAAAGT
1 AACAATAAACTTAATAATAAAT-ATAAAGT
*
9734785 AACAATCAACTTAAT-ATAAAT-TAAA
1 AACAATAAACTTAATAATAAATATAAA
9734810 ATCAGAAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 4 0.17
29 5 0.22
30 14 0.61
ACGTcount: A:0.58, C:0.09, G:0.04, T:0.29
Consensus pattern (29 bp):
AACAATAAACTTAATAATAAATATAAAGT
Found at i:9737266 original size:15 final size:15
Alignment explanation
Indices: 9737246--9737294 Score: 66
Period size: 14 Copynumber: 3.3 Consensus size: 15
9737236 ATTAACTATA
9737246 AACCCCTAAACCCAT
1 AACCCCTAAACCCAT
*
9737261 AACCCCT-AACCCCT
1 AACCCCTAAACCCAT
9737275 AA-CCCTAAACCCAT
1 AACCCCTAAACCCAT
9737289 GAACCC
1 -AACCC
9737295 TTAACCCCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
13 4 0.14
14 14 0.48
15 9 0.31
16 2 0.07
ACGTcount: A:0.37, C:0.49, G:0.02, T:0.12
Consensus pattern (15 bp):
AACCCCTAAACCCAT
Found at i:9737270 original size:7 final size:7
Alignment explanation
Indices: 9737246--9737307 Score: 56
Period size: 7 Copynumber: 8.7 Consensus size: 7
9737236 ATTAACTATA
9737246 AACCCCT
1 AACCCCT
*
9737253 AAACCCAT
1 -AACCCCT
9737261 AACCCCT
1 AACCCCT
9737268 AACCCCT
1 AACCCCT
9737275 AA-CCCT
1 AACCCCT
*
9737281 AAACCCAT
1 -AACCCCT
*
9737289 GAACCCTT
1 -AACCCCT
9737297 AACCCC-
1 AACCCCT
9737303 AACCC
1 AACCC
9737308 TTAAACCATA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
6 9 0.20
7 22 0.48
8 15 0.33
ACGTcount: A:0.35, C:0.50, G:0.02, T:0.13
Consensus pattern (7 bp):
AACCCCT
Found at i:9737285 original size:28 final size:28
Alignment explanation
Indices: 9737249--9737336 Score: 99
Period size: 28 Copynumber: 3.1 Consensus size: 28
9737239 AACTATAAAC
*
9737249 CCCTAAACCCATAACCCCTAACCCCTAA
1 CCCTAAACCCATAACCCATAACCCCTAA
*
9737277 CCCTAAACCCATGAACCCTTAACCCC-AA
1 CCCTAAACCCAT-AACCCATAACCCCTAA
* *
9737305 CCCTTAAA-CCATAATCCATAAGCCTCTAA
1 CCC-TAAACCCATAACCCATAA-CCCCTAA
9737334 CCC
1 CCC
9737337 ATATCCCTTA
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
27 7 0.13
28 24 0.46
29 21 0.40
ACGTcount: A:0.35, C:0.45, G:0.02, T:0.17
Consensus pattern (28 bp):
CCCTAAACCCATAACCCATAACCCCTAA
Found at i:9737295 original size:15 final size:14
Alignment explanation
Indices: 9737249--9737318 Score: 65
Period size: 14 Copynumber: 5.0 Consensus size: 14
9737239 AACTATAAAC
9737249 CCCTAAACCCATAA
1 CCCTAAACCCATAA
*
9737263 CCCCT-AACCCCTAA
1 -CCCTAAACCCATAA
9737277 CCCTAAACCCATGAA
1 CCCTAAACCCAT-AA
* *
9737292 CCCTTAACCC-CAA
1 CCCTAAACCCATAA
9737305 CCCTTAAA-CCATAA
1 CCC-TAAACCCATAA
9737319 TCCATAAGCC
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
13 11 0.24
14 19 0.42
15 15 0.33
ACGTcount: A:0.37, C:0.46, G:0.01, T:0.16
Consensus pattern (14 bp):
CCCTAAACCCATAA
Found at i:9737510 original size:20 final size:20
Alignment explanation
Indices: 9737482--9737520 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9737472 AACTATAAAC
9737482 CCCTAAACCCCTAACCCCAG
1 CCCTAAACCCCTAACCCCAG
* *
9737502 CCCTTAACCCTTAACCCCA
1 CCCTAAACCCCTAACCCCA
9737521 ATCCTTAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.54, G:0.03, T:0.15
Consensus pattern (20 bp):
CCCTAAACCCCTAACCCCAG
Found at i:9737526 original size:20 final size:20
Alignment explanation
Indices: 9737482--9737528 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
9737472 AACTATAAAC
* *
9737482 CCCTAAACCCCTAACCCCAG
1 CCCTTAACCCCTAACCCCAA
*
9737502 CCCTTAACCCTTAACCCCAA
1 CCCTTAACCCCTAACCCCAA
*
9737522 TCCTTAA
1 CCCTTAA
9737529 ACTATATCCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.49, G:0.02, T:0.19
Consensus pattern (20 bp):
CCCTTAACCCCTAACCCCAA
Found at i:9738442 original size:114 final size:113
Alignment explanation
Indices: 9738209--9738528 Score: 308
Period size: 114 Copynumber: 2.8 Consensus size: 113
9738199 TTAGACAAGT
* * * *
9738209 GCCACTAAAGTCTCGAAAAGATAAATGAAAAACGACATCATTTTCTTAACAGTTTTGCGGCACTT
1 GCCACTAAAGTCTCGAAAAGATAAATGAAAAACGGCAACGTTTTCTTAACAGTTTTGCGGCGCTT
* * ** * *
9738274 CTGATAAAGCGCCACTAAAGCTTCGCTACTACGGTGTTTTCTGAAATTC
66 ATGATAAAGCGCCGCTAATTCTT-GCTACTACGGCGTTTTCTGAAATGC
* * * * *
9738323 TCCACTAACGTCTCGAAAAGATAAATGAAAAATGGCAACGTTTTCTTAACAGTCTTACGGCGCTT
1 GCCACTAAAGTCTCGAAAAGATAAATGAAAAACGGCAACGTTTTCTTAACAGTTTTGCGGCGCTT
*
9738388 ATGATAAAGCGCCGCTAATTCTTGACTA-TAGCGGCGTTTTTCAT-TAA-GC
66 ATGATAAAGCGCCGCTAATTCTTG-CTACTA-CGGCG-TTTTC-TGAAATGC
* * ** *
9738437 GCCACTAAAGTCCCCAAAACCTAAACTG-AAAACGGCAGCGTTTTTCTTAACAGTTTTTGCGGCG
1 GCCACTAAAGTCTCGAAAAGATAAA-TGAAAAACGGCAACG-TTTTCTTAACAG-TTTTGCGGCG
* * *
9738501 TTTATGACCAAA-CGCCGGTAATTCTTGC
63 CTTATGA-TAAAGCGCCGCTAATTCTTGC
9738529 ATATTGCGGT
Statistics
Matches: 169, Mismatches: 29, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
113 3 0.02
114 112 0.66
115 22 0.13
116 29 0.17
117 3 0.02
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.29
Consensus pattern (113 bp):
GCCACTAAAGTCTCGAAAAGATAAATGAAAAACGGCAACGTTTTCTTAACAGTTTTGCGGCGCTT
ATGATAAAGCGCCGCTAATTCTTGCTACTACGGCGTTTTCTGAAATGC
Found at i:9739724 original size:12 final size:12
Alignment explanation
Indices: 9739707--9739735 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
9739697 ATTCATGAAG
9739707 AAATTTTTTAGA
1 AAATTTTTTAGA
9739719 AAATTTTTTAGA
1 AAATTTTTTAGA
9739731 AAATT
1 AAATT
9739736 CTTCTAGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (12 bp):
AAATTTTTTAGA
Found at i:9743442 original size:45 final size:46
Alignment explanation
Indices: 9743409--9743848 Score: 506
Period size: 46 Copynumber: 9.3 Consensus size: 46
9743399 TGTTGTCTAT
*
9743409 AGCTTTAATCTATTGCAACGCCAGGGAAA-AAGATTCGCTGCCTTC
1 AGCTTTAATCTACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTC
* * * *
9743454 AGCTTTATTCTACTGCAATGCTAGGGAAATAAGATTCGCTACCTTC
1 AGCTTTAATCTACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTC
*
9743500 AGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTGCCTTC
1 AGCTTTAATC---T--ACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTC
* * *
9743551 AGCTTTAATTTACTGCAACGCCAGAGAAATAAAATTCGCTGCCTTC
1 AGCTTTAATCTACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTC
**
9743597 AGCTTTAATCTGTTCCACTGCAACGCCAAAGAAATAAGATTCGCTGCCTTC
1 AGCTTTAATC---T--ACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTC
* * * *
9743648 AGCTTTAATCTACTGCAATGCTAGGGAAA-AAGATTCACTGCCTCC
1 AGCTTTAATCTACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTC
* ** *
9743693 AGCTTTAATCAACTGCAACGCCAATGAAATAAGATTCGCTACCTTC
1 AGCTTTAATCTACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTC
* * * *
9743739 AACTTTAATCTATTCCACTACAACGCCAAGGGAAAAAAAATTCGCTGCCTTC
1 AGCTTTAATC---T--ACTGCAACGCC-AGGGAAATAAGATTCGCTGCCTTC
*
9743791 AGCTTTAATCTGCTGCAACGCCAGGGAAATAAGATTCGCTGCCTTC
1 AGCTTTAATCTACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTC
9743837 AGCTTTAATCTA
1 AGCTTTAATCTA
9743849 TTCCACTGCA
Statistics
Matches: 332, Mismatches: 45, Indels: 35
0.81 0.11 0.08
Matches are distributed among these distances:
45 63 0.19
46 134 0.40
47 9 0.03
48 2 0.01
49 3 0.01
51 93 0.28
52 28 0.08
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (46 bp):
AGCTTTAATCTACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTC
Found at i:9743565 original size:97 final size:96
Alignment explanation
Indices: 9743422--9743845 Score: 510
Period size: 97 Copynumber: 4.4 Consensus size: 96
9743412 TTTAATCTAT
* *
9743422 TGCAACGCCAGGGAAA-AAGATTCGCTGCCTTCAGCTTT-ATTCTACTGCAATGCTAGGGAAATA
1 TGCAACGCCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATT-TACTGCAACGCTAGGGAAATA
* *
9743485 AGATTCGCTACCTTCAGCTTTAATCTGTTCCAC
65 AAATTCGCTGCCTTCAGCTTTAATCTG-TCCAC
* *
9743518 TGCAACGCCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATTTACTGCAACGCCAGAGAAATAA
1 TGCAACGCCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATTTACTGCAACGCTAGGGAAATAA
9743583 AATTCGCTGCCTTCAGCTTTAATCTGTTCCAC
66 AATTCGCTGCCTTCAGCTTTAATCTG-TCCAC
* * *
9743615 TGCAACGCCAAAGAAATAAGATTCGCTGCCTTCAGCTTTAATCTACTGCAATGCTAGGGAAA-AA
1 TGCAACGCCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATTTACTGCAACGCTAGGGAAATAA
* * * *
9743679 GATTCACTGCCTCCAGCTTTAA----TCAAC
66 AATTCGCTGCCTTCAGCTTTAATCTGTCCAC
* * * * *
9743706 TGCAACGCCAATGAAATAAGATTCGCTACCTTCAACTTTAATCTATTCCACTACAACGCCAAGGG
1 TGCAACGCCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAA--T-TT--ACTGCAACG-CTAGGG
*
9743771 AAAAAAAATTCGCTGCCTTCAGCTTTAATCTG----C
60 AAATAAAATTCGCTGCCTTCAGCTTTAATCTGTCCAC
*
9743804 TGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAAT
1 TGCAACGCCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAAT
9743846 CTATTCCACT
Statistics
Matches: 286, Mismatches: 29, Indels: 26
0.84 0.09 0.08
Matches are distributed among these distances:
91 42 0.15
93 1 0.00
94 1 0.00
96 44 0.15
97 136 0.48
98 62 0.22
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (96 bp):
TGCAACGCCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATTTACTGCAACGCTAGGGAAATAA
AATTCGCTGCCTTCAGCTTTAATCTGTCCAC
Found at i:9744783 original size:7 final size:7
Alignment explanation
Indices: 9744771--9744820 Score: 100
Period size: 7 Copynumber: 7.1 Consensus size: 7
9744761 CAAGGATGAT
9744771 ATAAAAA
1 ATAAAAA
9744778 ATAAAAA
1 ATAAAAA
9744785 ATAAAAA
1 ATAAAAA
9744792 ATAAAAA
1 ATAAAAA
9744799 ATAAAAA
1 ATAAAAA
9744806 ATAAAAA
1 ATAAAAA
9744813 ATAAAAA
1 ATAAAAA
9744820 A
1 A
9744821 GGGAATTGAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 43 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
ATAAAAA
Found at i:9747421 original size:23 final size:23
Alignment explanation
Indices: 9747395--9747445 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
9747385 CCGGACTAGG
9747395 TGTAATATCC-CGAAAATTACTAC
1 TGTAATA-CCTCGAAAATTACTAC
9747418 TGTAATACCTCGAAAATTACTAC
1 TGTAATACCTCGAAAATTACTAC
*
9747441 AGTAA
1 TGTAA
9747446 GAAAATAGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 2 0.08
23 24 0.92
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (23 bp):
TGTAATACCTCGAAAATTACTAC
Found at i:9756814 original size:16 final size:16
Alignment explanation
Indices: 9756793--9756826 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9756783 TTTTATGATG
* *
9756793 AAATGCTATGCAGTCA
1 AAATGCCATGCAATCA
9756809 AAATGCCATGCAATCA
1 AAATGCCATGCAATCA
9756825 AA
1 AA
9756827 GCAAAACACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.21
Consensus pattern (16 bp):
AAATGCCATGCAATCA
Found at i:9759724 original size:30 final size:30
Alignment explanation
Indices: 9759688--9759775 Score: 97
Period size: 30 Copynumber: 2.8 Consensus size: 30
9759678 TAATAGGGAT
*
9759688 GACTTAATTGATCTTTAATTATTTTACAAAG
1 GACTTAATTGATTTTTAATTATTTTA-AAAG
9759719 G-CTTAATTGAATTTTTTAAAATTATTTTAAAAG
1 GACTTAATTG-A-TTTTT--AATTATTTTAAAAG
* *
9759752 GAATTACTTGATTTTTAATTATTT
1 GACTTAATTGATTTTTAATTATTT
9759776 AAGCCTAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
30 16 0.33
31 2 0.04
32 9 0.18
33 6 0.12
34 16 0.33
ACGTcount: A:0.35, C:0.06, G:0.09, T:0.50
Consensus pattern (30 bp):
GACTTAATTGATTTTTAATTATTTTAAAAG
Found at i:9759766 original size:33 final size:34
Alignment explanation
Indices: 9759704--9759767 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
9759694 ATTGATCTTT
*
9759704 AATTATTTTACAAAGGCTTAATTGAATTTTTTAA
1 AATTATTTTACAAAGGATTAATTGAATTTTTTAA
*
9759738 AATTATTTTA-AAAGGAATTACTTG-ATTTTT
1 AATTATTTTACAAAGG-ATTAATTGAATTTTT
9759768 AATTATTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
33 11 0.41
34 16 0.59
ACGTcount: A:0.38, C:0.05, G:0.09, T:0.48
Consensus pattern (34 bp):
AATTATTTTACAAAGGATTAATTGAATTTTTTAA
Found at i:9759854 original size:19 final size:19
Alignment explanation
Indices: 9759822--9759877 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
9759812 AAATATCAAA
9759822 ATTATAGAAAATTATAAAT
1 ATTATAGAAAATTATAAAT
* *
9759841 ATTATTGAATATTATAAA-
1 ATTATAGAAAATTATAAAT
* *
9759859 AATCTAGAAAAATTATAAA
1 ATTATAG-AAAATTATAAA
9759878 ATTTTATTAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
18 4 0.13
19 26 0.87
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (19 bp):
ATTATAGAAAATTATAAAT
Found at i:9759878 original size:9 final size:9
Alignment explanation
Indices: 9759819--9759965 Score: 73
Period size: 10 Copynumber: 15.3 Consensus size: 9
9759809 TGGAAATATC
9759819 AAAATTATA
1 AAAATTATA
9759828 GAAAATTATA
1 -AAAATTATA
* *
9759838 AATATTATTG
1 AAAATTA-TA
*
9759848 AATATTATA
1 AAAATTATA
*
9759857 AAAATCTAGA
1 AAAAT-TATA
9759867 AAAATTATA
1 AAAATTATA
*
9759876 AAATTTTATTA
1 AAA-ATTA-TA
**
9759887 ATATGTTATGA
1 A-AAATTAT-A
9759898 AAAA-TATGA
1 AAAATTAT-A
*
9759907 ACATATTATA
1 A-AAATTATA
* *
9759917 TAAATAATA
1 AAAATTATA
*
9759926 TAAAATTTTA
1 -AAAATTATA
9759936 AAAA-TATA
1 AAAATTATA
*
9759944 AAAACTATA
1 AAAATTATA
9759953 AAAATATATA
1 AAAAT-TATA
9759963 AAA
1 AAA
9759966 GAGATTTTAT
Statistics
Matches: 106, Mismatches: 20, Indels: 22
0.72 0.14 0.15
Matches are distributed among these distances:
8 7 0.07
9 41 0.39
10 46 0.43
11 11 0.10
12 1 0.01
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (9 bp):
AAAATTATA
Found at i:9759947 original size:17 final size:17
Alignment explanation
Indices: 9759915--9759965 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
9759905 GAACATATTA
*
9759915 TATAAATAATAT-AAAAT
1 TATAAA-AATATAAAAAC
*
9759932 TTTAAAAATATAAAAAC
1 TATAAAAATATAAAAAC
9759949 TATAAAAATATATAAAA
1 TATAAAAATATA-AAAA
9759966 GAGATTTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
16 5 0.17
17 20 0.69
18 4 0.14
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (17 bp):
TATAAAAATATAAAAAC
Found at i:9767969 original size:190 final size:191
Alignment explanation
Indices: 9767641--9768025 Score: 693
Period size: 190 Copynumber: 2.0 Consensus size: 191
9767631 GTGATTATGG
9767641 GTACGTTCTTTATTTTTAATGCCCCTTACTTTACATTGATAGACATAAGGTCAACACATTCCTAT
1 GTACGTTCTTTATTTTTAATGCCCCTTACTTTACATTGATAGACATAAGGTCAACACATTCCTAT
9767706 GTAGCTAGTTCTATTTTTGTAAACTTTGAGATTCCTGTTAAGAGCACTTCCGATGAGATTTCTGT
66 GTAGCTAGTTCTATTTTTGTAAACTTTGAGATTCCTGTTAAGAGCACTTCCGATGAGATTTCTGT
* * *
9767771 ACTTAGTTCGTTAGGTCAATCTGTTCGGGTGAATAGATTGTATAATAATATACCGTTGGAT
131 ACTTAGTTCGTTAAGCCAATCTGTTCGGGTGAATAGATTGTATAAGAATATACCGTTGGAT
* *
9767832 GTAC-TTCTTTATTTTTGATGCCCCTTATTTTACATTGATAGACAT-AGAGTCAACACATTCCTA
1 GTACGTTCTTTATTTTTAATGCCCCTTACTTTACATTGATAGACATAAG-GTCAACACATTCCTA
9767895 TGTAGCTAGTTCTATTTTTGTAAACTTTGAGATTCCTGTTAAGAGCACTTCCGATGAGATTTCTG
65 TGTAGCTAGTTCTATTTTTGTAAACTTTGAGATTCCTGTTAAGAGCACTTCCGATGAGATTTCTG
*
9767960 TACTTAGTTCGTTAAGCCAATTTGTTCGGGTGAATAGATTGTATAAGAATATACCGTTGGAT
130 TACTTAGTTCGTTAAGCCAATCTGTTCGGGTGAATAGATTGTATAAGAATATACCGTTGGAT
9768022 GTAC
1 GTAC
9768026 AAAGGGTTGT
Statistics
Matches: 187, Mismatches: 6, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
189 2 0.01
190 181 0.97
191 4 0.02
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.40
Consensus pattern (191 bp):
GTACGTTCTTTATTTTTAATGCCCCTTACTTTACATTGATAGACATAAGGTCAACACATTCCTAT
GTAGCTAGTTCTATTTTTGTAAACTTTGAGATTCCTGTTAAGAGCACTTCCGATGAGATTTCTGT
ACTTAGTTCGTTAAGCCAATCTGTTCGGGTGAATAGATTGTATAAGAATATACCGTTGGAT
Found at i:9786672 original size:25 final size:25
Alignment explanation
Indices: 9786644--9786693 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
9786634 TAGATATACA
*
9786644 TTGCCAAATTTGAA-TGTTTTATATT
1 TTGCCAAATTCGAATTG-TTTATATT
*
9786669 TTGCCGAATTCGAATTGTTTATATT
1 TTGCCAAATTCGAATTGTTTATATT
9786694 GTCGAAGTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.26, C:0.10, G:0.14, T:0.50
Consensus pattern (25 bp):
TTGCCAAATTCGAATTGTTTATATT
Found at i:9786857 original size:31 final size:31
Alignment explanation
Indices: 9786729--9786967 Score: 149
Period size: 31 Copynumber: 7.7 Consensus size: 31
9786719 TATTAATTCG
* *
9786729 TATATGGTTGAACACTGCTGAAAATAAATTTT
1 TATATGGTTGAACATTGCTGAAAAT-AATTTA
*
9786761 TATATGGTT-ATACATTGCTGAAATTGAA-TTA
1 TATATGGTTGA-ACATTGCTGAAAAT-AATTTA
** * * **
9786792 TATAT-GTAT-ATTAGTTGCCG-AAATGATTCG
1 TATATGGT-TGAACA-TTGCTGAAAATAATTTA
9786822 TATATGGTTGAACATTGCTGAAAATAATTTA
1 TATATGGTTGAACATTGCTGAAAATAATTTA
* * *
9786853 TATATGGTTGTACATTGCTGAAATTGAA-TTG
1 TATATGGTTGAACATTGCTGAAAAT-AATTTA
** * *
9786884 TATAT-GTACATA-AGTTG-TCG-AAATGATTCA
1 TATATGGTTGA-ACA-TTGCT-GAAAATAATTTA
*
9786914 TATATGGTTGAACATTGCTGAAAATAATTTG
1 TATATGGTTGAACATTGCTGAAAATAATTTA
*
9786945 TATATGGTT-ATACATTGTTGAAA
1 TATATGGTTGA-ACATTGCTGAAA
9786968 TTAAATTGTT
Statistics
Matches: 157, Mismatches: 33, Indels: 35
0.70 0.15 0.16
Matches are distributed among these distances:
29 2 0.01
30 37 0.24
31 93 0.59
32 25 0.16
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.40
Consensus pattern (31 bp):
TATATGGTTGAACATTGCTGAAAATAATTTA
Found at i:9786876 original size:61 final size:62
Alignment explanation
Indices: 9786729--9786967 Score: 201
Period size: 61 Copynumber: 3.9 Consensus size: 62
9786719 TATTAATTCG
* * *
9786729 TATATGGTTGAACACTGCTGAAAATAAATTTTTATATGGTTATACATTGCTGAAATTGAA-TTA
1 TATATGGTTGAACATTGCTGAAAAT-AATTTGTATATGGTTATACATTGCTGAAAAT-AATTTA
** * * *
9786792 TATAT-GTAT-ATTAGTTGCCG-AAATGATTCGTATATGGTTGA-ACATTGCTGAAAATAATTTA
1 TATATGGT-TGAACA-TTGCTGAAAATAATTTGTATATGGTT-ATACATTGCTGAAAATAATTTA
* * * * *
9786853 TATATGGTTGTACATTGCTGAAATTGAA-TTGTATAT-GTACATA-AGTTG-TCG-AAATGATTC
1 TATATGGTTGAACATTGCTGAAAAT-AATTTGTATATGGT-TATACA-TTGCT-GAAAATAATTT
9786913 A
62 A
*
9786914 TATATGGTTGAACATTGCTGAAAATAATTTGTATATGGTTATACATTGTTGAAA
1 TATATGGTTGAACATTGCTGAAAATAATTTGTATATGGTTATACATTGCTGAAA
9786968 TTAAATTGTT
Statistics
Matches: 138, Mismatches: 21, Indels: 35
0.71 0.11 0.18
Matches are distributed among these distances:
60 4 0.03
61 90 0.65
62 33 0.24
63 11 0.08
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.40
Consensus pattern (62 bp):
TATATGGTTGAACATTGCTGAAAATAATTTGTATATGGTTATACATTGCTGAAAATAATTTA
Found at i:9786975 original size:92 final size:92
Alignment explanation
Indices: 9786724--9786981 Score: 399
Period size: 92 Copynumber: 2.8 Consensus size: 92
9786714 GGATATATTA
* *
9786724 ATTCGTATATGGTTGAACACTGCTGAAAATAAATTTTTATATGGTTATACATTGCTGAAATTGAA
1 ATTCGTATATGGTTGAACATTGCTGAAAAT-AATTTATATATGGTTATACATTGCTGAAATTGAA
* * *
9786789 TTATATATGTATATTAGTTGCCGAAATG
65 TTGTATATGTACATAAGTTGCCGAAATG
*
9786817 ATTCGTATATGGTTGAACATTGCTGAAAATAATTTATATATGGTTGTACATTGCTGAAATTGAAT
1 ATTCGTATATGGTTGAACATTGCTGAAAATAATTTATATATGGTTATACATTGCTGAAATTGAAT
*
9786882 TGTATATGTACATAAGTTGTCGAAATG
66 TGTATATGTACATAAGTTGCCGAAATG
* * * *
9786909 ATTCATATATGGTTGAACATTGCTGAAAATAATTTGTATATGGTTATACATTGTTGAAATTAAAT
1 ATTCGTATATGGTTGAACATTGCTGAAAATAATTTATATATGGTTATACATTGCTGAAATTGAAT
*
9786974 TGTTTATG
66 TGTATATG
9786982 AATATAGGAT
Statistics
Matches: 152, Mismatches: 13, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
92 123 0.81
93 29 0.19
ACGTcount: A:0.34, C:0.07, G:0.18, T:0.41
Consensus pattern (92 bp):
ATTCGTATATGGTTGAACATTGCTGAAAATAATTTATATATGGTTATACATTGCTGAAATTGAAT
TGTATATGTACATAAGTTGCCGAAATG
Found at i:9787031 original size:31 final size:31
Alignment explanation
Indices: 9786978--9787126 Score: 124
Period size: 31 Copynumber: 4.9 Consensus size: 31
9786968 TTAAATTGTT
* *
9786978 TATGAATATAGGA-TGCCGAATTTGATTTGTA
1 TATGAATATA-CATTGCCGAATTTGATTCGTA
* *
9787009 TATGATTATACATTGCCAAATTTGATTCGTA
1 TATGAATATACATTGCCGAATTTGATTCGTA
** * ** * *
9787040 TATGGTTATATATTATCGAA-TTGTTTGGTA
1 TATGAATATACATTGCCGAATTTGATTCGTA
* * *
9787070 TATCAATATTCATTGTCGAATTTGATTCGTA
1 TATGAATATACATTGCCGAATTTGATTCGTA
* *
9787101 TATGAATATATATTGCTGAA-TTGATT
1 TATGAATATACATTGCCGAATTTGATT
9787127 TGAGCATTAG
Statistics
Matches: 92, Mismatches: 24, Indels: 5
0.76 0.20 0.04
Matches are distributed among these distances:
30 29 0.32
31 63 0.68
ACGTcount: A:0.31, C:0.08, G:0.17, T:0.44
Consensus pattern (31 bp):
TATGAATATACATTGCCGAATTTGATTCGTA
Found at i:9790315 original size:16 final size:16
Alignment explanation
Indices: 9790294--9790325 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
9790284 ATGCTAAGCT
9790294 ACCAAACTTTAAACTA
1 ACCAAACTTTAAACTA
9790310 ACCAAACTTTAAACTA
1 ACCAAACTTTAAACTA
9790326 TCACAGACCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (16 bp):
ACCAAACTTTAAACTA
Found at i:9796535 original size:13 final size:13
Alignment explanation
Indices: 9796517--9796545 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
9796507 TTGGGAAATA
9796517 TTTATTTTGATGT
1 TTTATTTTGATGT
9796530 TTTATTTTGATGT
1 TTTATTTTGATGT
9796543 TTT
1 TTT
9796546 TAGTATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.00, G:0.14, T:0.72
Consensus pattern (13 bp):
TTTATTTTGATGT
Found at i:9799374 original size:282 final size:277
Alignment explanation
Indices: 9798863--9799381 Score: 580
Period size: 282 Copynumber: 1.9 Consensus size: 277
9798853 AAAAAATGGC
*
9798863 AATAGCATGATAAACAATTTGAGTGCATTTAATATTTTTTAAACGTGATGTATTTACCTATTTAA
1 AATACCATGATAAACAATTTGAGTGCATTTAATATTTTTTAAACGTGATGTATTTACCTATTTAA
* * *
9798928 TTTTTTTACTCACAATTTAAACTAATTTTCATTTTAATTTCACACATATCACGTATGTGTTATTA
66 TTTCTTTACTCACAATTTAAACTAATTTTAATTTTAATTTCACACATATCACATATGTGTTATTA
* * * * * *
9798993 TTTTTATTTTCAAATAATACATTTTTTATTTATTGTATGTTACTTTTAAAAGCATACATGTGTTC
131 TTATTAGTTTCAAATAATACATTTTTTATTTATTATATGTTACTTTTAAAAGCACACATATATTC
* * * *
9799058 TAAATATATGGTTTCTATACGCATGCGCGTGTGATAGAATTTTTAATATTGTTAATCTTGTTGGT
196 TAAATATATGGTTTCCACAAGCAT-CACGTGTGATAG-ATTTTTAATATTGTTAATCTTGTTGGT
9799123 TCAGTTGGTGTCACAAGTT
259 TCAGTTGGTGTCACAAGTT
* ** * *
9799142 AATACCATGATAAAC-ATTTAGATTGCATTTAATA-TTTTT-AATTTGATGTATTTATCTTTTTA
1 AATACCATGATAAACAATTT-GAGTGCATTTAATATTTTTTAAACGTGATGTATTTACCTATTT-
** * **** **
9799204 AATTTCGCTTTACTTGCAATTTAACCTAATTTTTTAATTTTAATTTTGTGCATATTGCATATGTG
64 AATTT--CTTTACTCACAATTTAAACTAA--TTTTAATTTTAATTTCACACATATCACATATGTG
* * ** *
9799269 TTGTTATTATTAGTTTCAAACT-TTACATTTTAATTATTTATTATATGTTTTTTTTAAACGCACA
125 TTATTATTATTAGTTTCAAA-TAATACATTTT--TTATTTATTATATGTTACTTTTAAAAGCACA
* * *
9799333 CCTATATTCTAAATATATTGTTTCCACAAGCAT-ATGTGTGATAGATTTT
187 CATATATTCTAAATATATGGTTTCCACAAGCATCACGTGTGATAGATTTT
9799382 CTAGTTGTAC
Statistics
Matches: 195, Mismatches: 36, Indels: 16
0.79 0.15 0.06
Matches are distributed among these distances:
277 18 0.09
278 14 0.07
279 27 0.14
280 18 0.09
281 5 0.03
282 60 0.31
283 1 0.01
284 52 0.27
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.48
Consensus pattern (277 bp):
AATACCATGATAAACAATTTGAGTGCATTTAATATTTTTTAAACGTGATGTATTTACCTATTTAA
TTTCTTTACTCACAATTTAAACTAATTTTAATTTTAATTTCACACATATCACATATGTGTTATTA
TTATTAGTTTCAAATAATACATTTTTTATTTATTATATGTTACTTTTAAAAGCACACATATATTC
TAAATATATGGTTTCCACAAGCATCACGTGTGATAGATTTTTAATATTGTTAATCTTGTTGGTTC
AGTTGGTGTCACAAGTT
Found at i:9800883 original size:6 final size:6
Alignment explanation
Indices: 9800863--9800906 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
9800853 ACCCTTCTTC
* **
9800863 TCCCCTT TCCTCT TCCCCT TCCCCT TCCTTT TCCCCT TCCCCT T
1 TCCCC-T TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT T
9800907 GGGTTGCAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
6 27 0.87
7 4 0.13
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (6 bp):
TCCCCT
Found at i:9800890 original size:18 final size:18
Alignment explanation
Indices: 9800863--9800906 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
9800853 ACCCTTCTTC
9800863 TCCCCTTTCCTCTTCCCCT
1 TCCCC-TTCCTCTTCCCCT
*
9800882 TCCCCTTCCTTTTCCCCT
1 TCCCCTTCCTCTTCCCCT
9800900 TCCCCTT
1 TCCCCTT
9800907 GGGTTGCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 19 0.79
19 5 0.21
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (18 bp):
TCCCCTTCCTCTTCCCCT
Found at i:9801025 original size:25 final size:27
Alignment explanation
Indices: 9800965--9801025 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 27
9800955 CCAGGTAAGG
* *
9800965 CTTCTTCTCCTTCTTCTGTTCTTCATTC
1 CTTC-TCTTCTTCTTCCGTTCTTCATTC
9800993 CTT-T-TTCTTCTTCCGTTCTTCA-T-
1 CTTCTCTTCTTCTTCCGTTCTTCATTC
9801016 CTTCTCTTCT
1 CTTCTCTTCT
9801026 CAGCATATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
23 3 0.10
24 2 0.07
25 20 0.69
26 1 0.03
28 3 0.10
ACGTcount: A:0.03, C:0.34, G:0.03, T:0.59
Consensus pattern (27 bp):
CTTCTCTTCTTCTTCCGTTCTTCATTC
Found at i:9805627 original size:17 final size:16
Alignment explanation
Indices: 9805602--9805640 Score: 60
Period size: 17 Copynumber: 2.4 Consensus size: 16
9805592 AAACTGTTCG
*
9805602 TTTAAAATAATTTAATA
1 TTTATAATAATTTAA-A
9805619 TTTATAATAATTTAAA
1 TTTATAATAATTTAAA
9805635 TTTATA
1 TTTATA
9805641 TTTATATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TTTATAATAATTTAAA
Found at i:9808911 original size:19 final size:19
Alignment explanation
Indices: 9808887--9808935 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
9808877 TTTGGTACAA
*
9808887 AGACTAAATCGTAAAAATT
1 AGACTAAATCGTAAAAACT
9808906 AGACTAAATCGTAAAAACT
1 AGACTAAATCGTAAAAACT
*
9808925 GGACTAAATCG
1 AGACTAAATCG
9808936 AATAAAGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.22
Consensus pattern (19 bp):
AGACTAAATCGTAAAAACT
Found at i:9821808 original size:31 final size:31
Alignment explanation
Indices: 9821773--9821833 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
9821763 ATTATTTTGT
* *
9821773 TCACTCTTATTAGATAAGTTGTCAATTTTAA
1 TCACTCTCATTAAATAAGTTGTCAATTTTAA
* *
9821804 TCACTCTCATTAAATTAGTTGTCGATTTTA
1 TCACTCTCATTAAATAAGTTGTCAATTTTA
9821834 GTTACTCTAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.46
Consensus pattern (31 bp):
TCACTCTCATTAAATAAGTTGTCAATTTTAA
Found at i:9821841 original size:31 final size:31
Alignment explanation
Indices: 9821766--9821841 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 31
9821756 AAAATTTATT
* *
9821766 ATTTT-GTTCACTCTTATTAGATAAGTTGTCA
1 ATTTTAGTT-ACTCTCATTAAATAAGTTGTCA
* * * *
9821797 ATTTTAATCACTCTCATTAAATTAGTTGTCG
1 ATTTTAGTTACTCTCATTAAATAAGTTGTCA
9821828 ATTTTAGTTACTCT
1 ATTTTAGTTACTCT
9821842 ACCGTTATAA
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
31 35 0.97
32 1 0.03
ACGTcount: A:0.26, C:0.14, G:0.11, T:0.49
Consensus pattern (31 bp):
ATTTTAGTTACTCTCATTAAATAAGTTGTCA
Found at i:9824092 original size:14 final size:13
Alignment explanation
Indices: 9824066--9824106 Score: 55
Period size: 14 Copynumber: 3.0 Consensus size: 13
9824056 TAATTATTGA
9824066 ATATAATTAAAAT
1 ATATAATTAAAAT
*
9824079 ATATCAATTTAAAT
1 ATAT-AATTAAAAT
9824093 ATTATAATTAAAAT
1 A-TATAATTAAAAT
9824107 TTTTAAACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 4 0.17
14 17 0.71
15 3 0.12
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (13 bp):
ATATAATTAAAAT
Found at i:9824111 original size:22 final size:23
Alignment explanation
Indices: 9824086--9824140 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 23
9824076 AATATATCAA
9824086 TTTAAATATTATAATTAAA-ATT
1 TTTAAATATTATAATTAAACATT
*
9824108 TTT-AA-ACTATAATTAAAGCATT
1 TTTAAATATTATAATTAAA-CATT
9824130 TTTAATATATT
1 TTTAA-ATATT
9824141 CAACATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
20 11 0.42
21 2 0.08
22 9 0.35
23 1 0.04
24 1 0.04
25 2 0.08
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (23 bp):
TTTAAATATTATAATTAAACATT
Found at i:9824118 original size:20 final size:21
Alignment explanation
Indices: 9824095--9824134 Score: 64
Period size: 20 Copynumber: 1.9 Consensus size: 21
9824085 ATTTAAATAT
9824095 TATAATTAAA-ATTTTTAAAC
1 TATAATTAAACATTTTTAAAC
9824115 TATAATTAAAGCATTTTTAA
1 TATAATTAAA-CATTTTTAA
9824135 TATATTCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
22 8 0.44
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (21 bp):
TATAATTAAACATTTTTAAAC
Found at i:9834205 original size:29 final size:28
Alignment explanation
Indices: 9834160--9834247 Score: 99
Period size: 29 Copynumber: 3.0 Consensus size: 28
9834150 TTAAAATTTA
*
9834160 AAAATTCAAAATATAATTAAAACTATTTTT
1 AAAATT-AAAA-ATAATTAAAAATATTTTT
9834190 AGAAATTAAAAATAATTAAAAATA-TTTT
1 A-AAATTAAAAATAATTAAAAATATTTTT
9834218 AAAATATAAAAA-ATATTAAAAAATATTTTT
1 AAAAT-TAAAAATA-ATT-AAAAATATTTTT
9834248 GTTCAAATTT
Statistics
Matches: 52, Mismatches: 1, Indels: 10
0.83 0.02 0.16
Matches are distributed among these distances:
27 5 0.10
28 14 0.27
29 19 0.37
30 9 0.17
31 5 0.10
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.38
Consensus pattern (28 bp):
AAAATTAAAAATAATTAAAAATATTTTT
Found at i:9834240 original size:10 final size:10
Alignment explanation
Indices: 9834197--9834244 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
9834187 TTTAGAAATT
9834197 AAAAATAATT-
1 AAAAAT-ATTA
*
9834207 AAAAATATTT
1 AAAAATATTA
*
9834217 TAAAATA-TA
1 AAAAATATTA
9834226 AAAAATATTA
1 AAAAATATTA
9834236 AAAAATATT
1 AAAAATATT
9834245 TTTGTTCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
9 10 0.30
10 23 0.70
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
AAAAATATTA
Found at i:9834240 original size:19 final size:19
Alignment explanation
Indices: 9834197--9834243 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
9834187 TTTAGAAATT
* *
9834197 AAAAATAATTAAAAATATTT
1 AAAAAT-ATAAAAAATATTA
*
9834217 TAAAATATAAAAAATATTA
1 AAAAATATAAAAAATATTA
9834236 AAAAATAT
1 AAAAATAT
9834244 TTTTGTTCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 18 0.78
20 5 0.22
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAAATATAAAAAATATTA
Found at i:9836952 original size:31 final size:31
Alignment explanation
Indices: 9836826--9836954 Score: 79
Period size: 31 Copynumber: 4.2 Consensus size: 31
9836816 TGGTCAAAAG
* *
9836826 AAGTTCAAGCCTCAATGTGGGAACAATTGCC
1 AAGTTCAGGCCTCAATGTGGGAAAAATTGCC
* * * * * *
9836857 TAGTCCAGGCCCCAATATGGGAACAATTGTC
1 AAGTTCAGGCCTCAATGTGGGAAAAATTGCC
* * ***
9836888 AAGTTTAGG-ATCTAACT-T-GGATAAAA--AAA
1 AAGTTCAGGCCTC-AA-TGTGGGA-AAAATTGCC
9836917 AAGTTCAGGCCTCAATGTGGGAAAAATTGCC
1 AAGTTCAGGCCTCAATGTGGGAAAAATTGCC
9836948 AAGTTCA
1 AAGTTCA
9836955 AGCTCCAAAT
Statistics
Matches: 70, Mismatches: 20, Indels: 16
0.66 0.19 0.15
Matches are distributed among these distances:
28 1 0.01
29 15 0.21
30 9 0.13
31 44 0.63
32 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.24
Consensus pattern (31 bp):
AAGTTCAGGCCTCAATGTGGGAAAAATTGCC
Found at i:9844091 original size:25 final size:25
Alignment explanation
Indices: 9844004--9844105 Score: 109
Period size: 25 Copynumber: 4.1 Consensus size: 25
9843994 ATACAAGTGT
* *
9844004 GCTCATACGAG-CATATGAACGGGAA
1 GCTCATGCGAGCCATGT-AACGGGAA
*
9844029 GCTCATGCGAGCCATGTAAAGGGAA
1 GCTCATGCGAGCCATGTAACGGGAA
* *
9844054 GCTCATCCGAGCCATGTAACGGAAA
1 GCTCATGCGAGCCATGTAACGGGAA
* * *
9844079 GCTCATGCAAGCCA-ATATCGGGAA
1 GCTCATGCGAGCCATGTAACGGGAA
9844103 GCT
1 GCT
9844106 TCGGAGAGCC
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
24 10 0.15
25 51 0.78
26 4 0.06
ACGTcount: A:0.32, C:0.24, G:0.27, T:0.17
Consensus pattern (25 bp):
GCTCATGCGAGCCATGTAACGGGAA
Found at i:9844137 original size:25 final size:25
Alignment explanation
Indices: 9844023--9844166 Score: 102
Period size: 25 Copynumber: 5.8 Consensus size: 25
9844013 AGCATATGAA
*
9844023 CGGGAAGCTCATGCGAGCCATGTAA-
1 CGGGAAGCTCATGAGAGCCAT-TAAT
* **
9844048 AGGGAAGCTCATCCGAGCCATGTAA-
1 CGGGAAGCTCATGAGAGCCAT-TAAT
* *
9844073 CGGAAAGCTCATGCA-AGCCAAT-AT
1 CGGGAAGCTCATG-AGAGCCATTAAT
*
9844097 CGGGAAGCTTC-GGAGAGCCATTAAT
1 CGGGAAGC-TCATGAGAGCCATTAAT
* *
9844122 CGAGAAGCTCATGAGAGTCAATT-AT
1 CGGGAAGCTCATGAGAG-CCATTAAT
* *
9844147 GGGGAAGCTCGTGAGAGCCA
1 CGGGAAGCTCATGAGAGCCA
9844167 AATAACGGAA
Statistics
Matches: 95, Mismatches: 17, Indels: 15
0.75 0.13 0.12
Matches are distributed among these distances:
23 2 0.02
24 19 0.20
25 70 0.74
26 4 0.04
ACGTcount: A:0.31, C:0.22, G:0.30, T:0.17
Consensus pattern (25 bp):
CGGGAAGCTCATGAGAGCCATTAAT
Found at i:9844180 original size:50 final size:48
Alignment explanation
Indices: 9844070--9844198 Score: 120
Period size: 50 Copynumber: 2.6 Consensus size: 48
9844060 CCGAGCCATG
*
9844070 TAACGGAAAGCTCATGCAAGCCAATATCGGGAAGCTTCGGAGAGCCAT
1 TAACGGAAAGCTCATGCAAGCCAATATCGGGAAGCTTCGGAGAGCCAA
* *
9844118 TAATC-GAGAAGCTCATG-AGAGTCAATTATGGGGAAGC-TCGTGAGAGCCAAA
1 TAA-CGGA-AAGCTCATGCA-AGCCAA-TATCGGGAAGCTTCG-GAGAGCC-AA
* * *
9844169 TAACGGAAAGCTAAAGAAAGCCATATATCG
1 TAACGGAAAGCTCATGCAAGCCA-ATATCG
9844199 AGATGCTCAG
Statistics
Matches: 65, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
48 6 0.09
49 18 0.28
50 33 0.51
51 8 0.12
ACGTcount: A:0.37, C:0.19, G:0.26, T:0.18
Consensus pattern (48 bp):
TAACGGAAAGCTCATGCAAGCCAATATCGGGAAGCTTCGGAGAGCCAA
Found at i:9854001 original size:25 final size:25
Alignment explanation
Indices: 9853900--9854091 Score: 149
Period size: 25 Copynumber: 7.7 Consensus size: 25
9853890 ATACAGGTAT
*
9853900 GCTCATACGAG-CATATAAACGAGAA
1 GCTCATGCGAGCCATAT-AACGAGAA
* *
9853925 GCTCTTTCGAGCCATATAAC-AGGAA
1 GCTCATGCGAGCCATATAACGA-GAA
* * * *
9853950 GCTCATGTGAGCCATGTAAAGGGAA
1 GCTCATGCGAGCCATATAACGAGAA
* *
9853975 GCTCATGCGAGCCATGTAACGAAAA
1 GCTCATGCGAGCCATATAACGAGAA
* * *
9854000 GCTCATGCGAGCTA-ATATCGTGAA
1 GCTCATGCGAGCCATATAACGAGAA
* *
9854024 GCTCATGAGAGCCA-ATTATCGAGAA
1 GCTCATGCGAGCCATA-TAACGAGAA
* * * *
9854049 GCTCGTGAGAGCCAAATAACGGGAA
1 GCTCATGCGAGCCATATAACGAGAA
* *
9854074 GCTCAAGAGAGCCATATA
1 GCTCATGCGAGCCATATA
9854092 CCGGGATGCT
Statistics
Matches: 136, Mismatches: 26, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
24 20 0.15
25 110 0.81
26 6 0.04
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (25 bp):
GCTCATGCGAGCCATATAACGAGAA
Found at i:9854096 original size:25 final size:25
Alignment explanation
Indices: 9853933--9854110 Score: 153
Period size: 25 Copynumber: 7.2 Consensus size: 25
9853923 AAGCTCTTTC
* *
9853933 GAGCCATATAACAGGAAGCTCATGT
1 GAGCCATATAACGGGAAGCTCATGA
* * *
9853958 GAGCCATGTAAAGGGAAGCTCATGC
1 GAGCCATATAACGGGAAGCTCATGA
* ** *
9853983 GAGCCATGTAACGAAAAGCTCATGC
1 GAGCCATATAACGGGAAGCTCATGA
* * *
9854008 GAGCTA-ATATCGTGAAGCTCATGA
1 GAGCCATATAACGGGAAGCTCATGA
* * *
9854032 GAGCCA-ATTATCGAGAAGCTCGTGA
1 GAGCCATA-TAACGGGAAGCTCATGA
* *
9854057 GAGCCAAATAACGGGAAGCTCAAGA
1 GAGCCATATAACGGGAAGCTCATGA
* * *
9854082 GAGCCATATACCGGGATGCTCATAA
1 GAGCCATATAACGGGAAGCTCATGA
9854107 GAGC
1 GAGC
9854111 TGTGGTAAGT
Statistics
Matches: 126, Mismatches: 25, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
24 19 0.15
25 106 0.84
26 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (25 bp):
GAGCCATATAACGGGAAGCTCATGA
Found at i:9856076 original size:4 final size:4
Alignment explanation
Indices: 9856067--9856091 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
9856057 AGTACTCATT
9856067 TAAA TAAA TAAA TAAA TAAA TAAA T
1 TAAA TAAA TAAA TAAA TAAA TAAA T
9856092 TTGCTAATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (4 bp):
TAAA
Found at i:9858431 original size:20 final size:20
Alignment explanation
Indices: 9858406--9858456 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
9858396 CATTTTAGTA
9858406 AGTTTTTAAAACATTTTT-AT
1 AGTTTTTAAAAC-TTTTTAAT
*
9858426 AGTTTTTTAATACTTTTTAAT
1 AG-TTTTTAAAACTTTTTAAT
9858447 A-TTTTTAAAA
1 AGTTTTTAAAA
9858457 ATTAATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 8 0.30
20 7 0.26
21 12 0.44
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (20 bp):
AGTTTTTAAAACTTTTTAAT
Found at i:9860908 original size:21 final size:25
Alignment explanation
Indices: 9860884--9860942 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 25
9860874 TGGAATGTAT
9860884 TTATTTATTTTAAA-C-TT-TA-TA
1 TTATTTATTTTAAATCATTCTATTA
9860905 TTATTTATTTTAAATCATTCTATTA
1 TTATTTATTTTAAATCATTCTATTA
*
9860930 TTACTTATTTTAA
1 TTATTTATTTTAA
9860943 GTTTTTTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
21 14 0.42
22 1 0.03
23 2 0.06
24 2 0.06
25 14 0.42
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (25 bp):
TTATTTATTTTAAATCATTCTATTA
Found at i:9863576 original size:2 final size:2
Alignment explanation
Indices: 9863571--9863601 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
9863561 ATATATATAT
9863571 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
9863602 AACCCATGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:9864586 original size:20 final size:21
Alignment explanation
Indices: 9864549--9864594 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
9864539 AGCCAAATAT
9864549 AAAAGTGAAAAAGCAGAAAAAA
1 AAAAGTGAAAAA-CAGAAAAAA
*
9864571 AAAAGTTAAAAA-AGAAAAAA
1 AAAAGTGAAAAACAGAAAAAA
9864591 AAAA
1 AAAA
9864595 AAAAGAAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.52
22 11 0.48
ACGTcount: A:0.78, C:0.02, G:0.13, T:0.07
Consensus pattern (21 bp):
AAAAGTGAAAAACAGAAAAAA
Found at i:9864607 original size:21 final size:22
Alignment explanation
Indices: 9864565--9864608 Score: 54
Period size: 24 Copynumber: 2.0 Consensus size: 22
9864555 GAAAAAGCAG
9864565 AAAAAAAAAAGTTAAAAAAGAAAA
1 AAAAAAAAAAG-T-AAAAAGAAAA
*
9864589 AAAAAAAAAAG-AAAGAGAAA
1 AAAAAAAAAAGTAAAAAGAAA
9864609 GGTAAAGTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 8 0.42
24 11 0.58
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.05
Consensus pattern (22 bp):
AAAAAAAAAAGTAAAAAGAAAA
Found at i:9871826 original size:15 final size:15
Alignment explanation
Indices: 9871792--9871829 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
9871782 TATTAAAATC
*
9871792 AATTTTATTTTATTA
1 AATTTTATTTTATAA
9871807 AATTTTATTTT-TAA
1 AATTTTATTTTATAA
9871821 ATATTTTAT
1 A-ATTTTAT
9871830 ATATTAATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 3 0.14
15 18 0.86
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
AATTTTATTTTATAA
Found at i:9873365 original size:49 final size:49
Alignment explanation
Indices: 9873312--9873409 Score: 124
Period size: 49 Copynumber: 2.0 Consensus size: 49
9873302 TACAGTAATG
* **
9873312 AGTTGAAGTATAACTAGGGCTCCTAGCTGACAGTGGTTATGCGATCACA
1 AGTTGAAGTATAACTAGAGAGCCTAGCTGACAGTGGTTATGCGATCACA
* * * * *
9873361 AGTTGGAGTATAACTCGAGAGCCTAGTTGATAGTGGTTATGCGGTCACA
1 AGTTGAAGTATAACTAGAGAGCCTAGCTGACAGTGGTTATGCGATCACA
9873410 GGTTCATGTT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.28
Consensus pattern (49 bp):
AGTTGAAGTATAACTAGAGAGCCTAGCTGACAGTGGTTATGCGATCACA
Found at i:9876448 original size:15 final size:15
Alignment explanation
Indices: 9876425--9876454 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9876415 GACATGCACG
*
9876425 TTCTTATTACCACAC
1 TTCTCATTACCACAC
9876440 TTCTCATTACCACAC
1 TTCTCATTACCACAC
9876455 ATGTATTTTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.37, G:0.00, T:0.37
Consensus pattern (15 bp):
TTCTCATTACCACAC
Found at i:9877790 original size:25 final size:26
Alignment explanation
Indices: 9877757--9877815 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
9877747 TTTACCCCTA
* *
9877757 AAAATTTTTGATGATTTT-ACCCTGGT
1 AAAA-TTTTGACGATTTTGACCCTAGT
*
9877783 AAAATTTTGACGATTTTGCCCCTAGT
1 AAAATTTTGACGATTTTGACCCTAGT
9877809 AAAATTT
1 AAAATTT
9877816 CAAGAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 12 0.41
26 17 0.59
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.42
Consensus pattern (26 bp):
AAAATTTTGACGATTTTGACCCTAGT
Found at i:9877805 original size:26 final size:25
Alignment explanation
Indices: 9877745--9877815 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 25
9877735 TCTCATCCCT
*
9877745 ATTTTACCCCTA--AAAATTTTTGATG
1 ATTTTA-CCCTAGTAAAA-TTTTGACG
*
9877770 ATTTTACCCTGGTAAAATTTTGACG
1 ATTTTACCCTAGTAAAATTTTGACG
*
9877795 ATTTTGCCCCTAGTAAAATTT
1 ATTTT-ACCCTAGTAAAATTT
9877816 CAAGAAAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
24 4 0.10
25 18 0.46
26 17 0.44
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.42
Consensus pattern (25 bp):
ATTTTACCCTAGTAAAATTTTGACG
Found at i:9881530 original size:15 final size:15
Alignment explanation
Indices: 9881506--9881566 Score: 104
Period size: 15 Copynumber: 4.1 Consensus size: 15
9881496 CTCTAAAGTT
9881506 AGTGGTGTTGGAAAC
1 AGTGGTGTTGGAAAC
*
9881521 AGTAGTGTTGGAAAC
1 AGTGGTGTTGGAAAC
9881536 AGTGGTGTTGGAAAC
1 AGTGGTGTTGGAAAC
*
9881551 AGTGGTGTTTGAAAC
1 AGTGGTGTTGGAAAC
9881566 A
1 A
9881567 ATTGATATTA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 43 1.00
ACGTcount: A:0.30, C:0.07, G:0.36, T:0.28
Consensus pattern (15 bp):
AGTGGTGTTGGAAAC
Found at i:9883506 original size:22 final size:22
Alignment explanation
Indices: 9883477--9883559 Score: 69
Period size: 22 Copynumber: 3.8 Consensus size: 22
9883467 TACACCACAC
* *
9883477 CAGAGAGCATTGTAGTGATAAG
1 CAGAGAGCACTGAAGTGATAAG
* *
9883499 TAGAGAGCACTGAAGTGCTAAG
1 CAGAGAGCACTGAAGTGATAAG
* * * *
9883521 CAGAGACCACCGAAGTGCTAAT
1 CAGAGAGCACTGAAGTGATAAG
*
9883543 CAAAGAGCA-TCGAAGTG
1 CAGAGAGCACT-GAAGTG
9883560 TTGAAAAAAG
Statistics
Matches: 49, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.37, C:0.17, G:0.29, T:0.17
Consensus pattern (22 bp):
CAGAGAGCACTGAAGTGATAAG
Found at i:9883569 original size:22 final size:22
Alignment explanation
Indices: 9883544--9883608 Score: 85
Period size: 22 Copynumber: 3.0 Consensus size: 22
9883534 AGTGCTAATC
9883544 AAAGAGCATCGAAGTGTTGAAA
1 AAAGAGCATCGAAGTGTTGAAA
**
9883566 AAAGAGCATCGAAGTGTTGAGT
1 AAAGAGCATCGAAGTGTTGAAA
* * *
9883588 AGAGAGCATAGAAATGTTGAA
1 AAAGAGCATCGAAGTGTTGAA
9883609 CTCGTACAAG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.43, C:0.08, G:0.29, T:0.20
Consensus pattern (22 bp):
AAAGAGCATCGAAGTGTTGAAA
Found at i:9900515 original size:5 final size:5
Alignment explanation
Indices: 9900505--9900535 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
9900495 TGAGCATTTG
*
9900505 ATCGA ATCGA ATTGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
9900536 AATTTTTGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.23
Consensus pattern (5 bp):
ATCGA
Found at i:9903618 original size:185 final size:186
Alignment explanation
Indices: 9903337--9903722 Score: 602
Period size: 185 Copynumber: 2.1 Consensus size: 186
9903327 AGTAAATTAA
* *
9903337 AAATTAAT-TAATA-TAATAGTACAGCAACATAAATTAAACAAAAAAAGTATGTTAAACTACATT
1 AAATTAATATAATAGTAATAGTACAACAACATAAATTAAACAAAAAAAGTATGTTAAACTACATG
* *
9903400 TTAAACTTTAAAGTTAGTTAATTGAATCCTAAATTAATATAATAGTACAATAGCATAAATTAAAC
66 TTAAAATTTAAAGTTAGTTAATTGAAGCCTAAATTAATATAATAGTACAATAGCATAAATTAAAC
* * * * *
9903465 -AGAAAAAAGTCTGTTAAGCTATCGTTTAAAATTTAAAGTTAGTTAATTGAAGCCT
131 AAAAAAAAAGTCTGTTAAACCATAGTTTAAAATTCAAAGTTAGTTAATTGAAGCCT
*
9903520 AAATTAATATAATAGT-ATAAGTACAACAGCATAAATTAAACCAAAAAAAGTATGTTAAACTACA
1 AAATTAATATAATAGTAAT-AGTACAACAACATAAATTAAA-CAAAAAAAGTATGTTAAACTACA
*
9903584 -GTTAAAATTTAAAGTTAGTTAATTGAAGCCTAAATTAATATAATAGTAGAATAGCATAAATTAA
64 TGTTAAAATTTAAAGTTAGTTAATTGAAGCCTAAATTAATATAATAGTACAATAGCATAAATTAA
*
9903648 ACAAAAAAAAAAGTCTGTTAAACCATAGTTTAAACTTCAAAGTTAGTTAATTGAAGCCT
129 AC-AAAAAAAAAGTCTGTTAAACCATAGTTTAAAATTCAAAGTTAGTTAATTGAAGCCT
9903707 AAATTAATATAATAGT
1 AAATTAATATAATAGT
9903723 GCAACAGCAT
Statistics
Matches: 185, Mismatches: 12, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
183 8 0.04
184 7 0.04
185 82 0.44
186 23 0.12
187 65 0.35
ACGTcount: A:0.49, C:0.09, G:0.10, T:0.31
Consensus pattern (186 bp):
AAATTAATATAATAGTAATAGTACAACAACATAAATTAAACAAAAAAAGTATGTTAAACTACATG
TTAAAATTTAAAGTTAGTTAATTGAAGCCTAAATTAATATAATAGTACAATAGCATAAATTAAAC
AAAAAAAAAGTCTGTTAAACCATAGTTTAAAATTCAAAGTTAGTTAATTGAAGCCT
Found at i:9903907 original size:7 final size:7
Alignment explanation
Indices: 9903895--9903921 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
9903885 TAAGGTCTGG
9903895 TATTTAA
1 TATTTAA
9903902 TATTTAA
1 TATTTAA
9903909 TATTTAA
1 TATTTAA
9903916 TATTTA
1 TATTTA
9903922 TTTATAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
TATTTAA
Found at i:9904064 original size:17 final size:17
Alignment explanation
Indices: 9904042--9904093 Score: 86
Period size: 17 Copynumber: 3.1 Consensus size: 17
9904032 TTTTCTCTAT
*
9904042 TAATATTACGTTATTAC
1 TAATATTACATTATTAC
*
9904059 TAATATTATATTATTAC
1 TAATATTACATTATTAC
9904076 TAATATTACATTATTAC
1 TAATATTACATTATTAC
9904093 T
1 T
9904094 TTGGGAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.38, C:0.10, G:0.02, T:0.50
Consensus pattern (17 bp):
TAATATTACATTATTAC
Found at i:9904507 original size:19 final size:19
Alignment explanation
Indices: 9904483--9904544 Score: 72
Period size: 19 Copynumber: 3.2 Consensus size: 19
9904473 GGAGAAGGAA
9904483 AATAGAGCGAAAATCATTC
1 AATAGAGCGAAAATCATTC
* *
9904502 AATAGAGCGAAACA-GATGC
1 AATAGAGCGAAA-ATCATTC
*
9904521 AAATAGAGCTAAAATCATTC
1 -AATAGAGCGAAAATCATTC
9904541 AATA
1 AATA
9904545 ATTCAAAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
19 20 0.57
20 15 0.43
ACGTcount: A:0.50, C:0.15, G:0.16, T:0.19
Consensus pattern (19 bp):
AATAGAGCGAAAATCATTC
Found at i:9917707 original size:20 final size:19
Alignment explanation
Indices: 9917680--9917721 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
9917670 CTTTCCAAAT
9917680 TTTCTTACTTT-CATTTGCA
1 TTTCTTACTTTCCA-TTGCA
9917699 TTTCGTTACTTTCCATTGCA
1 TTTC-TTACTTTCCATTGCA
9917719 TTT
1 TTT
9917722 ACTTTCTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 15 0.71
21 2 0.10
ACGTcount: A:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (19 bp):
TTTCTTACTTTCCATTGCA
Found at i:9919692 original size:12 final size:12
Alignment explanation
Indices: 9919675--9919705 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
9919665 GAGAATCCAT
*
9919675 AAATATTTATAA
1 AAATATTCATAA
9919687 AAATATTCATAA
1 AAATATTCATAA
9919699 AAATATT
1 AAATATT
9919706 GACGGCTTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (12 bp):
AAATATTCATAA
Done.