Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 328 of 328
Found at i:97315953 original size:16 final size:17
Alignment explanation
Indices: 97315915--97315953 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
97315905 TAAGTAAATA
97315915 ATATT-ATATTATAATT
1 ATATTAATATTATAATT
97315931 ATATTAATATTATAA-T
1 ATATTAATATTATAATT
97315947 ATATTAA
1 ATATTAA
97315954 GTAAATAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATTAATATTATAATT
Found at i:97323730 original size:60 final size:59
Alignment explanation
Indices: 97323606--97323744 Score: 158
Period size: 60 Copynumber: 2.3 Consensus size: 59
97323596 CCCAACTGTG
* * *
97323606 TTGATATGGGCAAGCCCCAATATATCTCGACTTGTATAGGGCTACAGCCCAGATTGATA
1 TTGATATGGGCTAGGCCCAATATATCTCGACTTGTATAGGGCTACAGCCCAGATTAATA
* **
97323665 CTGATATGGGCTAGGCCCAATATA-CTCTGA-TACTGTA-AGGGGCTATGGCCCAGATTAATA
1 TTGATATGGGCTAGGCCCAATATATCTC-GACT--TGTATA-GGGCTACAGCCCAGATTAATA
97323725 TTGATATGGGCTAAGGCCCA
1 TTGATATGGGCT-AGGCCCA
97323745 GTTAACACTG
Statistics
Matches: 68, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
58 4 0.06
59 24 0.35
60 33 0.49
61 7 0.10
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (59 bp):
TTGATATGGGCTAGGCCCAATATATCTCGACTTGTATAGGGCTACAGCCCAGATTAATA
Found at i:97324355 original size:2 final size:2
Alignment explanation
Indices: 97324350--97324374 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
97324340 TTTTTTTCGA
97324350 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
97324375 TACATGTTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:97326384 original size:45 final size:45
Alignment explanation
Indices: 97326334--97326438 Score: 140
Period size: 45 Copynumber: 2.3 Consensus size: 45
97326324 AGCAGTAGCA
* **
97326334 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTACT-GAATTT
1 GTAACAGTAACAGTAACAATATTCAACACACAAAGT-CTCGAATCG
* * *
97326379 GTAACAGTAACGGTAACAATATTCGACACACAAAGTGTCGAATCG
1 GTAACAGTAACAGTAACAATATTCAACACACAAAGTCTCGAATCG
97326424 GTAACAGTAACAGTA
1 GTAACAGTAACAGTA
97326439 GTCGGCACCA
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
44 1 0.02
45 51 0.98
ACGTcount: A:0.43, C:0.18, G:0.17, T:0.22
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAATATTCAACACACAAAGTCTCGAATCG
Found at i:97327635 original size:3 final size:3
Alignment explanation
Indices: 97327627--97327688 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
97327617 TATTTAACAT
97327627 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
97327675 TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TA
97327689 TCTTTTACTT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:97328598 original size:15 final size:15
Alignment explanation
Indices: 97328578--97328607 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
97328568 TTCAATATTA
*
97328578 TGTCTTTTGTATTTT
1 TGTCTTTTATATTTT
97328593 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
97328608 GCATGTATAG
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:0.10, C:0.07, G:0.10, T:0.73
Consensus pattern (15 bp):
TGTCTTTTATATTTT
Found at i:97329380 original size:2 final size:2
Alignment explanation
Indices: 97329373--97329424 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
97329363 TTATTATTGT
97329373 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
97329415 TA TA TA TA TA
1 TA TA TA TA TA
97329425 GTAAAACAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:97331101 original size:5 final size:5
Alignment explanation
Indices: 97331086--97331132 Score: 67
Period size: 5 Copynumber: 9.2 Consensus size: 5
97331076 AGTGAAAAAG
* *
97331086 TGAATT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT GGAAT GGAAT T
1 TGAA-T TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT T
97331133 ATGATTAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
5 35 0.90
6 4 0.10
ACGTcount: A:0.38, C:0.00, G:0.23, T:0.38
Consensus pattern (5 bp):
TGAAT
Found at i:97331605 original size:45 final size:45
Alignment explanation
Indices: 97331541--97331780 Score: 347
Period size: 45 Copynumber: 5.3 Consensus size: 45
97331531 TTGTTACTGC
97331541 TACTGCTACTGTTACCGATTCGGCACATTGTGTGTCGAATATTGT
1 TACTGCTACTGTTACCGATTCGGCACATTGTGTGTCGAATATTGT
97331586 TACTGCTACTGTTACCGATTCGGCACATTGTGTGTCGAATATTGT
1 TACTGCTACTGTTACCGATTCGGCACATTGTGTGTCGAATATTGT
97331631 TACTGCTACTGTTACCGATTCGGCAC-TATGTGTGTCGAATATTGT
1 TACTGCTACTGTTACCGATTCGGCACAT-TGTGTGTCGAATATTGT
* ** * *
97331676 TACTGTTACCATTACCGATTTGGCACTTTGTGTGTCGAATATTGT
1 TACTGCTACTGTTACCGATTCGGCACATTGTGTGTCGAATATTGT
* * * * * * *
97331721 TACTGTTACCGTTATCGATTCAGCACTTTGTGTGTTGAATACTGT
1 TACTGCTACTGTTACCGATTCGGCACATTGTGTGTCGAATATTGT
*
97331766 TACTGTTACTGTTAC
1 TACTGCTACTGTTAC
97331781 TGTTCCGGAT
Statistics
Matches: 181, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
44 1 0.01
45 179 0.99
46 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.21, T:0.40
Consensus pattern (45 bp):
TACTGCTACTGTTACCGATTCGGCACATTGTGTGTCGAATATTGT
Found at i:97331771 original size:6 final size:6
Alignment explanation
Indices: 97331760--97331784 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
97331750 GTGTGTTGAA
97331760 TACTGT TACTGT TACTGT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT T
97331785 CCGGATTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.52
Consensus pattern (6 bp):
TACTGT
Found at i:97331975 original size:18 final size:18
Alignment explanation
Indices: 97331954--97332131 Score: 118
Period size: 18 Copynumber: 9.9 Consensus size: 18
97331944 TAACTGATTA
97331954 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
*
97331972 TTAC-CAGATAATTGACTG
1 TTACTGA-ATAATTGACTG
*
97331990 TTACTGGAT-ATTAGACTG
1 TTACTGAATAATT-GACTG
* * * *
97332008 TTGCTGAATAACTGAATA
1 TTACTGAATAATTGACTG
*
97332026 TTACTGAATAATTGA-TCA
1 TTACTGAATAATTGACT-G
* * *
97332044 TTACTGAATAACTAATTG
1 TTACTGAATAATTGACTG
*
97332062 TCACTGAATGAA-TGACTG
1 TTACTGAAT-AATTGACTG
* *
97332080 CTACTGAATAACTT-AATAG
1 TTACTGAATAA-TTGACT-G
*
97332099 TTACTGAAT-ATCTGA-TT
1 TTACTGAATAAT-TGACTG
97332116 TTACTGAATAATTGAC
1 TTACTGAATAATTGAC
97332132 AGCTACTGGA
Statistics
Matches: 125, Mismatches: 21, Indels: 28
0.72 0.12 0.16
Matches are distributed among these distances:
17 20 0.16
18 89 0.71
19 16 0.13
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (18 bp):
TTACTGAATAATTGACTG
Found at i:97332137 original size:54 final size:55
Alignment explanation
Indices: 97332027--97332145 Score: 138
Period size: 54 Copynumber: 2.2 Consensus size: 55
97332017 AACTGAATAT
* *
97332027 TACTGAATAA-TTGATCATTACTGAATAACTAATTGTCACTGAATGAATGACTGC
1 TACTGAATAACTTAATCATTACTGAATAACTAATTGTCACTGAATGAATGACAGC
* * *
97332081 TACTGAATAACTTAAT-AGTTACTGAATATCTGATT-TTACTGAAT-AATTGACAGC
1 TACTGAATAACTTAATCA-TTACTGAATAACTAATTGTCACTGAATGAA-TGACAGC
*
97332135 TACTGGATAAC
1 TACTGAATAAC
97332146 AGATCAATTG
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
53 2 0.04
54 35 0.62
55 19 0.34
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.34
Consensus pattern (55 bp):
TACTGAATAACTTAATCATTACTGAATAACTAATTGTCACTGAATGAATGACAGC
Found at i:97332204 original size:18 final size:18
Alignment explanation
Indices: 97332183--97332224 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
97332173 GGTTATTATT
* *
97332183 GAATAATTGATTGTTACC
1 GAATAACTGACTGTTACC
*
97332201 GAATAACTGACTGTTACT
1 GAATAACTGACTGTTACC
97332219 GAATAA
1 GAATAA
97332225 ATAATTATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (18 bp):
GAATAACTGACTGTTACC
Found at i:97332222 original size:36 final size:36
Alignment explanation
Indices: 97331942--97332224 Score: 144
Period size: 36 Copynumber: 7.6 Consensus size: 36
97331932 AAAGGTATAA
* * * *
97331942 AATAACTGATTATTACTGAATAATTGACTGTTAC-C
1 AATAACTGACTGTTACTGAATAATTGATTGTTACTG
* * * *
97331977 AGATAATTGACTGTTACTGGAT-ATTAGACTGTTGCTG
1 A-ATAACTGACTGTTACTGAATAATT-GATTGTTACTG
* * **
97332014 AATAACTGAATATTACTGAATAATTGATCATTACTG
1 AATAACTGACTGTTACTGAATAATTGATTGTTACTG
* * * * *
97332050 AATAACTAATTGTCACTGAATGAA-TGACTGCTACTG
1 AATAACTGACTGTTACTGAAT-AATTGATTGTTACTG
* *
97332086 AATAACTTAATAGTTACTGAAT-ATCTGATT-TTACTG
1 AATAACTGACT-GTTACTGAATAAT-TGATTGTTACTG
* * * * * *
97332122 AATAATTGACAGCTACTGGATAACAGATCAATTGATCGATCCTG
1 AATAACTGACTGTTACT-G-----A-AT-AATTGATTGTTACTG
** * * *
97332166 AATAACTGGTTATTATTGAATAATTGATTGTTACCG
1 AATAACTGACTGTTACTGAATAATTGATTGTTACTG
97332202 AATAACTGACTGTTACTGAATAA
1 AATAACTGACTGTTACTGAATAA
97332225 ATAATTATTC
Statistics
Matches: 180, Mismatches: 50, Indels: 35
0.68 0.19 0.13
Matches are distributed among these distances:
35 10 0.06
36 124 0.69
37 21 0.12
38 1 0.01
41 1 0.01
42 2 0.01
43 5 0.03
44 16 0.09
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (36 bp):
AATAACTGACTGTTACTGAATAATTGATTGTTACTG
Found at i:97335015 original size:74 final size:74
Alignment explanation
Indices: 97334937--97335085 Score: 289
Period size: 74 Copynumber: 2.0 Consensus size: 74
97334927 TCTTAATTGA
97334937 TTGATTATTTTTATTATAAGTTCATTTTAAATTTCTCTAATGAAAAATGTAATGCTCTATATTCG
1 TTGATTATTTTTATTATAAGTTCATTTTAAATTTCTCTAATGAAAAATGTAATGCTCTATATTCG
97335002 ATTGTATTT
66 ATTGTATTT
*
97335011 TTGATTATTTTTATTATAAGTTCATTTTAAATTTCTCTAATGAAAAATGTGATGCTCTATATTCG
1 TTGATTATTTTTATTATAAGTTCATTTTAAATTTCTCTAATGAAAAATGTAATGCTCTATATTCG
97335076 ATTGTATTT
66 ATTGTATTT
97335085 T
1 T
97335086 GAGTAGGGTA
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.30, C:0.08, G:0.10, T:0.52
Consensus pattern (74 bp):
TTGATTATTTTTATTATAAGTTCATTTTAAATTTCTCTAATGAAAAATGTAATGCTCTATATTCG
ATTGTATTT
Found at i:97336093 original size:2 final size:2
Alignment explanation
Indices: 97336086--97336113 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
97336076 ATCATTTGCT
97336086 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
97336114 ATTTCAACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:97337488 original size:20 final size:21
Alignment explanation
Indices: 97337433--97337493 Score: 63
Period size: 20 Copynumber: 2.9 Consensus size: 21
97337423 TTTTTTATAT
97337433 ATTTTTAAAAATATAAATTTTGAA
1 ATTTTTAAAAAT-T--ATTTTGAA
*
97337457 ATTTTT-ATAATTATTTTG-A
1 ATTTTTAAAAATTATTTTGAA
*
97337476 ATTTTTAAAAATTTTTTT
1 ATTTTTAAAAATTATTTT
97337494 ATTTTTTTGT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
19 7 0.21
20 15 0.45
22 1 0.03
23 4 0.12
24 6 0.18
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.57
Consensus pattern (21 bp):
ATTTTTAAAAATTATTTTGAA
Found at i:97337489 original size:29 final size:29
Alignment explanation
Indices: 97337455--97337510 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
97337445 ATAAATTTTG
97337455 AAATTTTTATAATTATTTTG-AATTTTTAA
1 AAATTTTT-TAATTATTTTGTAATTTTTAA
* *
97337484 AAATTTTTTTATTTTTTTGTAATTTTT
1 AAATTTTTTAATTATTTTGTAATTTTT
97337511 GTTAAGAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 9 0.38
29 15 0.62
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (29 bp):
AAATTTTTTAATTATTTTGTAATTTTTAA
Found at i:97337492 original size:19 final size:20
Alignment explanation
Indices: 97337449--97337485 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
97337439 AAAAATATAA
*
97337449 ATTTTGAAATTTTTATAATT
1 ATTTTGAAATTTTTAAAATT
97337469 ATTTTG-AATTTTTAAAA
1 ATTTTGAAATTTTTAAAA
97337486 ATTTTTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (20 bp):
ATTTTGAAATTTTTAAAATT
Found at i:97340933 original size:3 final size:3
Alignment explanation
Indices: 97340925--97340954 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
97340915 TGTTACACGT
97340925 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
97340955 GAGATGGTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:97343059 original size:26 final size:26
Alignment explanation
Indices: 97343002--97343051 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
97342992 ATTGTTTTCT
97343002 TGTCTTCTGCTTATAATAGCTAAGCG
1 TGTCTTCTGCTTATAATAGCTAAGCG
97343028 TGTCTTCTGCTTATAATAGCTAAG
1 TGTCTTCTGCTTATAATAGCTAAG
97343052 TGCTTCTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.40
Consensus pattern (26 bp):
TGTCTTCTGCTTATAATAGCTAAGCG
Found at i:97345224 original size:14 final size:14
Alignment explanation
Indices: 97345201--97345252 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
97345191 TGACATGGTA
*
97345201 AAACCCTAAATCCT
1 AAACCTTAAATCCT
*
97345215 AAACCTTAAATCTT
1 AAACCTTAAATCCT
* *
97345229 AAAACTCTAAACCCT
1 AAACCT-TAAATCCT
97345244 AAAACCTTA
1 -AAACCTTA
97345253 GGCACTAAAC
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
14 17 0.57
15 8 0.27
16 5 0.17
ACGTcount: A:0.46, C:0.29, G:0.00, T:0.25
Consensus pattern (14 bp):
AAACCTTAAATCCT
Found at i:97345233 original size:15 final size:15
Alignment explanation
Indices: 97345199--97345252 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
97345189 ACTGACATGG
*
97345199 TAAAACCCTAAATCC
1 TAAAACCTTAAATCC
*
97345214 T-AAACCTTAAATCT
1 TAAAACCTTAAATCC
*
97345228 TAAAA-CTCTAAACCC
1 TAAAACCT-TAAATCC
97345243 TAAAACCTTA
1 TAAAACCTTA
97345253 GGCACTAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
14 14 0.44
15 16 0.50
16 2 0.06
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAACCTTAAATCC
Found at i:97345837 original size:36 final size:36
Alignment explanation
Indices: 97345797--97345962 Score: 91
Period size: 36 Copynumber: 4.6 Consensus size: 36
97345787 TATTAATTTT
*
97345797 TAATATTATTTAATATACATAT-TTATTTAT-ATTTAA
1 TAATATTATTTAATATA-ATATATT-TTAATAATTTAA
*
97345833 TAATATAATATATAATA-AATATATTTTAATAATTTAA
1 TAATAT--TATTTAATATAATATATTTTAATAATTTAA
* * *
97345870 -AAAATTATTTAATATAA-A-ATTCTAATATATATAA
1 TAATATTATTTAATATAATATATTTTAATA-ATTTAA
* * *
97345904 TAATTTTAAATTTTAA-ATAATCT-TTTTAAT-ATTTAT
1 TAATATT--A-TTTAATATAATATATTTTAATAATTTAA
97345940 TGAA-ATTATTTATATATTAATAT
1 T-AATATTATTTA-ATA-TAATAT
97345963 TAATATTAAT
Statistics
Matches: 100, Mismatches: 14, Indels: 32
0.68 0.10 0.22
Matches are distributed among these distances:
33 12 0.12
34 16 0.16
35 7 0.07
36 30 0.30
37 16 0.16
38 19 0.19
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.51
Consensus pattern (36 bp):
TAATATTATTTAATATAATATATTTTAATAATTTAA
Found at i:97345964 original size:6 final size:6
Alignment explanation
Indices: 97345953--97345977 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
97345943 AATTATTTAT
97345953 ATATTA ATATTA ATATTA ATATTA A
1 ATATTA ATATTA ATATTA ATATTA A
97345978 ATATATACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
ATATTA
Found at i:97346402 original size:16 final size:17
Alignment explanation
Indices: 97346369--97346412 Score: 67
Period size: 16 Copynumber: 2.8 Consensus size: 17
97346359 TACTATTACT
97346369 AATT-TAAAATTTTATA
1 AATTATAAAATTTTATA
97346385 AATTATAAAATTTT-TA
1 AATTATAAAATTTTATA
97346401 AATTA-AAAATTT
1 AATTATAAAATTT
97346413 ACTATTTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.26
16 11 0.41
17 9 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
AATTATAAAATTTTATA
Found at i:97346704 original size:20 final size:20
Alignment explanation
Indices: 97346662--97346714 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
97346652 ATATTTTATT
* *
97346662 ATTTCA-TATTTAAAAATAT
1 ATTTCATTAATTAAAAATAA
*
97346681 ATTTCATTAATTAAAATTAA
1 ATTTCATTAATTAAAAATAA
*
97346701 ATTTTATTACATTA
1 ATTTCATTA-ATTA
97346715 TACTTTATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 6 0.21
20 18 0.64
21 4 0.14
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (20 bp):
ATTTCATTAATTAAAAATAA
Found at i:97359889 original size:39 final size:39
Alignment explanation
Indices: 97359843--97359943 Score: 175
Period size: 39 Copynumber: 2.6 Consensus size: 39
97359833 GCTCTGATGA
97359843 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
*
97359882 GCTTCAGTTAGCCTTCGGGCTACCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* *
97359921 GCTTCAGCTAGACTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
97359944 AGATCACGAT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 58 1.00
ACGTcount: A:0.14, C:0.27, G:0.24, T:0.36
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:97361729 original size:3 final size:3
Alignment explanation
Indices: 97361721--97361785 Score: 51
Period size: 3 Copynumber: 21.7 Consensus size: 3
97361711 GGGATTTAAA
* * * * * * *
97361721 AAT AAT AAT ATT AAT AAT GAT GAT AGT AAT ATT AAT AAT AAA AAT AAC
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
97361769 AAT AAT ACA- AAT AAT AA
1 AAT AAT A-AT AAT AAT AA
97361786 ATATTCTAAA
Statistics
Matches: 48, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
2 1 0.02
3 46 0.96
4 1 0.02
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:97361772 original size:21 final size:21
Alignment explanation
Indices: 97361717--97361772 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
97361707 AAGAGGGATT
97361717 TAAAAATAATAATATTAATAA
1 TAAAAATAATAATATTAATAA
* ** *
97361738 TGATGATAGTAATATTAATAA
1 TAAAAATAATAATATTAATAA
*
97361759 TAAAAATAACAATA
1 TAAAAATAATAATA
97361773 ATACAAATAA
Statistics
Matches: 26, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (21 bp):
TAAAAATAATAATATTAATAA
Found at i:97361959 original size:3 final size:3
Alignment explanation
Indices: 97361953--97362027 Score: 64
Period size: 3 Copynumber: 25.7 Consensus size: 3
97361943 AAAAGAAAAT
* * * * * *
97361953 ATA ATA ATG ATA ATA ATA ATA GTA AT- ACA ATA GTA ATA GTA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
97362000 ATA ATA ATA TTA ATA ATA AAA AT- ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
97362028 TAATTAATTT
Statistics
Matches: 54, Mismatches: 16, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
2 3 0.06
3 51 0.94
ACGTcount: A:0.59, C:0.01, G:0.07, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:97361970 original size:12 final size:12
Alignment explanation
Indices: 97361953--97362018 Score: 82
Period size: 12 Copynumber: 5.6 Consensus size: 12
97361943 AAAAGAAAAT
97361953 ATAATAAT-GATA
1 ATAATAATAG-TA
97361965 ATAATAATAGTA
1 ATAATAATAGTA
*
97361977 AT-ACAATAGTA
1 ATAATAATAGTA
*
97361988 ATAGTAATAGTA
1 ATAATAATAGTA
*
97362000 ATAATAATATTA
1 ATAATAATAGTA
97362012 ATAATAA
1 ATAATAA
97362019 AAATATAATT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
11 10 0.21
12 36 0.77
13 1 0.02
ACGTcount: A:0.58, C:0.02, G:0.08, T:0.33
Consensus pattern (12 bp):
ATAATAATAGTA
Found at i:97363519 original size:45 final size:44
Alignment explanation
Indices: 97363452--97363564 Score: 122
Period size: 45 Copynumber: 2.5 Consensus size: 44
97363442 TAATCTATTC
* * *
97363452 CACTGCAACTTCAGGGAAATAAGATTTGT-TATTTTCAGTC-TGCTT
1 CACTGCAACTTCAGAGAGATAAGATTTGTGTACTTT-A-TCTTGC-T
* *
97363497 CACTGCAACTTTAGAGAGATAAGGTTTGTGTACTTTATCTTGCT
1 CACTGCAACTTCAGAGAGATAAGATTTGTGTACTTTATCTTGCT
*
97363541 CTACTGCAACTTCAGAGTGATAAG
1 C-ACTGCAACTTCAGAGAGATAAG
97363565 GATTGTGGCT
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
44 4 0.07
45 49 0.84
46 5 0.09
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.35
Consensus pattern (44 bp):
CACTGCAACTTCAGAGAGATAAGATTTGTGTACTTTATCTTGCT
Found at i:97363688 original size:89 final size:86
Alignment explanation
Indices: 97363595--97363867 Score: 219
Period size: 89 Copynumber: 3.1 Consensus size: 86
97363585 CCAATGTAAT
* *
97363595 TTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCTGCTGGAACTTCAAGGAGATAAGAATTGAT
1 TTCAGGGAGAAGAGATTTGTAG-TTCAATCTACTCTACTGGAACTTCAAGGAGATAAGAATTG-T
97363660 AATTTCTGTATGCTCCACTGCAAC
64 AATTTC-GTATGCTCCACTGCAAC
* ** * * * * *
97363684 TTCAGGGAGATA-ATACTTGTGTA-TTTTATCCTGCTTTACTGCAACTTCAAAGAGATAAGGATT
1 TTCAGGGAGA-AGAGA-TT-TGTAGTTCAAT-CTACTCTACTGGAACTTCAAGGAGATAAGAATT
*** * * *
97363747 GTGGCTTCGATATGCTCCAATGTAAT
62 GTAATTTCG-TATGCTCCACTGCAAC
* * * * *
97363773 TTTAGAGAGAAGAGATTTGTAGTTTCAATCTACTCCACTGGAACTTCAAGGAGGTTAGAATTGGT
1 TTCAGGGAGAAGAGATTTGTAG-TTCAATCTACTCTACTGGAACTTCAAGGAGATAAGAATT-GT
*
97363838 AATTTC-AACCTGCTCCACTGCAAC
64 AATTTCGTA--TGCTCCACTGCAAC
97363862 TTCAGG
1 TTCAGG
97363868 AAGATAAGAT
Statistics
Matches: 136, Mismatches: 37, Indels: 22
0.70 0.19 0.11
Matches are distributed among these distances:
87 5 0.04
88 29 0.21
89 67 0.49
90 31 0.23
91 4 0.03
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (86 bp):
TTCAGGGAGAAGAGATTTGTAGTTCAATCTACTCTACTGGAACTTCAAGGAGATAAGAATTGTAA
TTTCGTATGCTCCACTGCAAC
Found at i:97363706 original size:178 final size:178
Alignment explanation
Indices: 97363429--97363876 Score: 563
Period size: 178 Copynumber: 2.5 Consensus size: 178
97363419 CAGAGAGGCT
* * * * * * * * *
97363429 AGATTTGTAGTTTTAATCTATTCCACTGCAACTTCAGGGAAATAAGATTTGTTATTTTCAGTCTG
1 AGATTTGTAGCTTCAATCTACTCCACTGGAACTTCAAGGAGATAAGAATTGATAATTTCAGTCTG
* * * ** * * *
97363494 CTTCACTGCAACTTTAGAGAGATAAGGTTTGTGTACTTTATCTTGCTCTACTGCAACTTCAGAGT
66 CTCCACTGCAACTTCAGGGAGATAAGACTTGTGTACTTTATCCTGCTCTACTGCAACTTCAAAGA
* *
97363559 GATAAGGATTGTGGCTCCGATCTACTCCAATGTAATTTCAGGGAGAAG
131 GATAAGGATTGTGGCTCCGATATACTCCAATGTAATTTCAGAGAGAAG
* ** * *
97363607 AGATTTGTAGCTTCGATCTACTCTGCTGGAACTTCAAGGAGATAAGAATTGATAATTTCTGTATG
1 AGATTTGTAGCTTCAATCTACTCCACTGGAACTTCAAGGAGATAAGAATTGATAATTTCAGTCTG
* * *
97363672 CTCCACTGCAACTTCAGGGAGATAATACTTGTGTATTTTATCCTGCTTTACTGCAACTTCAAAGA
66 CTCCACTGCAACTTCAGGGAGATAAGACTTGTGTACTTTATCCTGCTCTACTGCAACTTCAAAGA
* * *
97363737 GATAAGGATTGTGGCTTCGATATGCTCCAATGTAATTTTAGAGAGAAG
131 GATAAGGATTGTGGCTCCGATATACTCCAATGTAATTTCAGAGAGAAG
* * * * **
97363785 AGATTTGTAGTTTCAATCTACTCCACTGGAACTTCAAGGAGGTTAGAATTGGTAATTTCAACCTG
1 AGATTTGTAGCTTCAATCTACTCCACTGGAACTTCAAGGAGATAAGAATTGATAATTTCAGTCTG
*
97363850 CTCCACTGCAACTTCAGGAAGATAAGA
66 CTCCACTGCAACTTCAGGGAGATAAGA
97363877 TTCGTTATAA
Statistics
Matches: 227, Mismatches: 43, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
178 227 1.00
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (178 bp):
AGATTTGTAGCTTCAATCTACTCCACTGGAACTTCAAGGAGATAAGAATTGATAATTTCAGTCTG
CTCCACTGCAACTTCAGGGAGATAAGACTTGTGTACTTTATCCTGCTCTACTGCAACTTCAAAGA
GATAAGGATTGTGGCTCCGATATACTCCAATGTAATTTCAGAGAGAAG
Found at i:97364106 original size:143 final size:143
Alignment explanation
Indices: 97363847--97364118 Score: 329
Period size: 143 Copynumber: 1.9 Consensus size: 143
97363837 TAATTTCAAC
** *
97363847 CTGCTCCACTGCAACTTCAGGAAGATAAGATTCGTTATAATTTGTAACTTTAATCTATTCCCTTG
1 CTGCTCCACTGCAACTTCAGGAAGATAAGATTCGCCATAATTTGTAACTTCAATCTATTCCCTTG
* ** * *
97363912 CAATATCAGGAAAACAAGATTCGCTGTCTTCAGTCTGCTCTGTTGCTACTTCAGGGAGATAAGAC
66 CAATATCAGGAAAACAAGATTCGCTGTCTTCAGCCTGCTCTACTGATACTTCAAGGAGATAAGAC
97363977 TGGTGGATTTGAT
131 TGGTGGATTTGAT
* * *
97363990 CTGCTCCACTGCAACTTCAGGAAGATAAGA-TCTGCCATTATTTGTAGCTTCAATCTGTTCCAC-
1 CTGCTCCACTGCAACTTCAGGAAGATAAGATTC-GCCATAATTTGTAACTTCAATCTATTCC-CT
* * * *
97364053 TGCAAT-TCCAGGGAAATAAGATTCGCTTTCTT-GGACCTGCTCTACT-ATAACTTCAAGGAGAT
64 TGCAATAT-CAGGAAAACAAGATTCGCTGTCTTCAG-CCTGCTCTACTGAT-ACTTCAAGGAGAT
97364115 AAGA
126 AAGA
97364119 TTTATAACTT
Statistics
Matches: 109, Mismatches: 15, Indels: 10
0.81 0.11 0.07
Matches are distributed among these distances:
142 5 0.05
143 103 0.94
144 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (143 bp):
CTGCTCCACTGCAACTTCAGGAAGATAAGATTCGCCATAATTTGTAACTTCAATCTATTCCCTTG
CAATATCAGGAAAACAAGATTCGCTGTCTTCAGCCTGCTCTACTGATACTTCAAGGAGATAAGAC
TGGTGGATTTGAT
Found at i:97364158 original size:44 final size:44
Alignment explanation
Indices: 97364102--97364209 Score: 128
Period size: 44 Copynumber: 2.5 Consensus size: 44
97364092 CTCTACTATA
*
97364102 ACTTCA-AGGAGATAAGATTTATAACTTCAATATGCTCCGCTGCT
1 ACTTCAGA-GAGATAAGATTTATAACTTCAATATGCTCCACTGCT
* * * **
97364146 ACTTTAGAGAGATAAGATTTATGACTTCAATCTGCTTTACTGCT
1 ACTTCAGAGAGATAAGATTTATAACTTCAATATGCTCCACTGCT
* *
97364190 ACTTCAGGGAGATGAGATTT
1 ACTTCAGAGAGATAAGATTT
97364210 GTGGATTCAT
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 53 0.98
45 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.34
Consensus pattern (44 bp):
ACTTCAGAGAGATAAGATTTATAACTTCAATATGCTCCACTGCT
Found at i:97365157 original size:53 final size:53
Alignment explanation
Indices: 97365089--97365241 Score: 200
Period size: 53 Copynumber: 2.9 Consensus size: 53
97365079 GCATAGCTCA
* * *
97365089 AAATGAATAAATTAATCAAAGATAACAAATGCAATAATAAGGAAATTAACTTG
1 AAATGAATAAGTTAATCAAAGATAACAAATGCAATAAGAAGGAAATTAACTCG
*
97365142 AAATGAATAAGTTAATCAAAGATAGA-AAATGTAATAAGAAGGAAATTAACTCG
1 AAATGAATAAGTTAATCAAAGATA-ACAAATGCAATAAGAAGGAAATTAACTCG
* * * ** *
97365195 AAATAAATAAGTTAATTAAAGATAGCAAATATAATAAGAAGAAAATT
1 AAATGAATAAGTTAATCAAAGATAACAAATGCAATAAGAAGGAAATT
97365242 GATTGGGAGT
Statistics
Matches: 89, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
53 88 0.99
54 1 0.01
ACGTcount: A:0.58, C:0.05, G:0.13, T:0.24
Consensus pattern (53 bp):
AAATGAATAAGTTAATCAAAGATAACAAATGCAATAAGAAGGAAATTAACTCG
Found at i:97369888 original size:5 final size:5
Alignment explanation
Indices: 97369880--97369904 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
97369870 ATGCAATCAT
97369880 AAACA AAACA AAACA AAACA AAACA
1 AAACA AAACA AAACA AAACA AAACA
97369905 CGTCAGTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.20, G:0.00, T:0.00
Consensus pattern (5 bp):
AAACA
Found at i:97371451 original size:3 final size:3
Alignment explanation
Indices: 97371445--97371522 Score: 61
Period size: 3 Copynumber: 26.7 Consensus size: 3
97371435 AAAAAAAAAT
* * * * * *
97371445 ATA ATA ATG ATA ATA ATA ATA GTA AT- ACA ATA GTA ATA GTA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
97371492 ATA ATA ATA ATG TTA ATA ATA AAA AT- ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
97371523 TAATTAATTT
Statistics
Matches: 55, Mismatches: 18, Indels: 4
0.71 0.23 0.05
Matches are distributed among these distances:
2 3 0.05
3 52 0.95
ACGTcount: A:0.58, C:0.01, G:0.08, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:97371536 original size:28 final size:26
Alignment explanation
Indices: 97371492--97371543 Score: 68
Period size: 28 Copynumber: 1.9 Consensus size: 26
97371482 AGTAATAGTA
*
97371492 ATAATAATAATGTTAATAATAAAAAT
1 ATAATAATAATGTTAATAACAAAAAT
*
97371518 ATAATTAATTAATTTTAATAACAAAA
1 ATAA-TAA-TAATGTTAATAACAAAA
97371544 TAGCAAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.18
27 3 0.14
28 15 0.68
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (26 bp):
ATAATAATAATGTTAATAACAAAAAT
Found at i:97375481 original size:15 final size:16
Alignment explanation
Indices: 97375454--97375494 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
97375444 AAAGGGGAAA
*
97375454 TTTTT-TTTCTTTA-G
1 TTTTTATTTTTTTAGG
97375468 TTTTTATTTTTTTAGG
1 TTTTTATTTTTTTAGG
*
97375484 TGTTTATTTTT
1 TTTTTATTTTT
97375495 ATTTATTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 5 0.22
15 7 0.30
16 11 0.48
ACGTcount: A:0.10, C:0.02, G:0.10, T:0.78
Consensus pattern (16 bp):
TTTTTATTTTTTTAGG
Found at i:97375886 original size:14 final size:13
Alignment explanation
Indices: 97375867--97375914 Score: 55
Period size: 12 Copynumber: 3.8 Consensus size: 13
97375857 AAATAGAAGA
97375867 TATTATTTTAATTT
1 TATTATTTT-ATTT
*
97375881 TATTA-TTTATTA
1 TATTATTTTATTT
97375893 T-TTATTTTATTT
1 TATTATTTTATTT
*
97375905 TATTAATTTA
1 TATTATTTTA
97375915 GGATTAGGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
11 3 0.10
12 11 0.38
13 10 0.34
14 5 0.17
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
TATTATTTTATTT
Found at i:97388333 original size:3 final size:3
Alignment explanation
Indices: 97388325--97388351 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
97388315 TGTCTTGGAA
97388325 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
97388352 TGCTTGATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:97389302 original size:24 final size:24
Alignment explanation
Indices: 97389240--97389303 Score: 101
Period size: 24 Copynumber: 2.7 Consensus size: 24
97389230 ATTGACTTCG
* *
97389240 GCACTATGTGTGCGAAATTGTATG
1 GCACTATGTGTGCGGAATTGTATA
*
97389264 GCACTATGTGTGCGGACTTGTATA
1 GCACTATGTGTGCGGAATTGTATA
97389288 GCACTATGTGTGCGGA
1 GCACTATGTGTGCGGA
97389304 TTTAAATGTC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.31
Consensus pattern (24 bp):
GCACTATGTGTGCGGAATTGTATA
Found at i:97397435 original size:2 final size:2
Alignment explanation
Indices: 97397428--97397471 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
97397418 ACAAGCAGAT
* *
97397428 AG AG AG AG AG AG AG AG AG TG AG AA AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
97397470 AG
1 AG
97397472 CTCTCAATTC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.48, T:0.02
Consensus pattern (2 bp):
AG
Found at i:97410108 original size:27 final size:27
Alignment explanation
Indices: 97410074--97410128 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
97410064 GGTTAGAAAG
97410074 TAAGATTTTAATGTTTGGTTAATGGGA
1 TAAGATTTTAATGTTTGGTTAATGGGA
97410101 TAAGATTTTAATGTTTGGTTAATGGGA
1 TAAGATTTTAATGTTTGGTTAATGGGA
97410128 T
1 T
97410129 GTAAGACTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.00, G:0.25, T:0.45
Consensus pattern (27 bp):
TAAGATTTTAATGTTTGGTTAATGGGA
Found at i:97413644 original size:25 final size:25
Alignment explanation
Indices: 97413611--97413662 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
97413601 GTTATCTATT
*
97413611 AATATTTATATTAATACTAAATAAA
1 AATAATTATATTAATACTAAATAAA
*
97413636 AATAATTATATTAATATTAAATAAA
1 AATAATTATATTAATACTAAATAAA
97413661 AA
1 AA
97413663 AATAAAAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (25 bp):
AATAATTATATTAATACTAAATAAA
Found at i:97414950 original size:10 final size:10
Alignment explanation
Indices: 97414935--97414994 Score: 70
Period size: 10 Copynumber: 6.0 Consensus size: 10
97414925 TAATTTTAGG
97414935 ATTTAT-TTT
1 ATTTATCTTT
97414944 CATTTATCTTT
1 -ATTTATCTTT
97414955 ATTTATCTTT
1 ATTTATCTTT
*
97414965 AATTATCTTT
1 ATTTATCTTT
*
97414975 AATTAT-TTGT
1 ATTTATCTT-T
97414985 ATTTATCTTT
1 ATTTATCTTT
97414995 TAGTATTTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.23, C:0.08, G:0.02, T:0.67
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:97422486 original size:24 final size:24
Alignment explanation
Indices: 97422459--97422543 Score: 80
Period size: 25 Copynumber: 3.3 Consensus size: 24
97422449 ACTGTTATAA
*
97422459 AAAATTATAAAATGCAAATTAATT
1 AAAATTATAAAATGAAAATTAATT
*
97422483 AAAATTATATAAATGAAAAATATATT
1 AAAATTATA-AAATGAAAATTA-ATT
* *
97422509 AAATAATATTCAAAAATTAAAATTAATT
1 AAA-ATTA-T--AAAATGAAAATTAATT
97422537 AAAATTA
1 AAAATTA
97422544 CATAGATAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
24 9 0.18
25 10 0.20
26 6 0.12
27 6 0.12
28 7 0.14
29 10 0.20
30 1 0.02
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (24 bp):
AAAATTATAAAATGAAAATTAATT
Found at i:97422512 original size:25 final size:25
Alignment explanation
Indices: 97422459--97422557 Score: 74
Period size: 25 Copynumber: 3.8 Consensus size: 25
97422449 ACTGTTATAA
* *
97422459 AAAATTATA-AAATGCAAATTAATT
1 AAAATTATATAAATGAAAAATAATT
97422483 AAAATTATATAAATGAAAAATATATT
1 AAAATTATATAAATGAAAAATA-ATT
* * * *
97422509 AAATAATATTCAAAAATTAAAATTAATT
1 AAA-ATTA-T-ATAAATGAAAAATAATT
* * *
97422537 AAAATTACATAGATAAAAAAT
1 AAAATTATATAAATGAAAAAT
97422558 TTTAAATAAT
Statistics
Matches: 58, Mismatches: 12, Indels: 9
0.73 0.15 0.11
Matches are distributed among these distances:
24 9 0.16
25 19 0.33
26 6 0.10
27 6 0.10
28 7 0.12
29 11 0.19
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (25 bp):
AAAATTATATAAATGAAAAATAATT
Found at i:97422582 original size:52 final size:54
Alignment explanation
Indices: 97422474--97422583 Score: 163
Period size: 52 Copynumber: 2.1 Consensus size: 54
97422464 TATAAAATGC
*
97422474 AAATTAATTAAAATTATATAAATGAAAAATATATTAAATAATATTCAAAAATTA
1 AAATTAATTAAAATTACATAAATGAAAAATATATTAAATAATATTCAAAAATTA
* *
97422528 AAATTAATTAAAATTACATAGAT-AAAAA-ATTTTAAATAATATTC-AAAATCTA
1 AAATTAATTAAAATTACATAAATGAAAAATATATTAAATAATATTCAAAAAT-TA
97422580 AAAT
1 AAAT
97422584 AAACTGTTAC
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
51 5 0.10
52 21 0.40
53 5 0.10
54 21 0.40
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.35
Consensus pattern (54 bp):
AAATTAATTAAAATTACATAAATGAAAAATATATTAAATAATATTCAAAAATTA
Found at i:97427741 original size:33 final size:33
Alignment explanation
Indices: 97427704--97427767 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
97427694 AATACATTGG
* *
97427704 AAATCAGCATGCAGGTGGTTTAAATACTATTCC
1 AAATCAGCATGCAGATGGTGTAAATACTATTCC
97427737 AAATCAGCATGCAGATGGTGTAAATACTATT
1 AAATCAGCATGCAGATGGTGTAAATACTATT
97427768 TCAACTGAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.30
Consensus pattern (33 bp):
AAATCAGCATGCAGATGGTGTAAATACTATTCC
Found at i:97427916 original size:2 final size:2
Alignment explanation
Indices: 97427909--97427946 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
97427899 CTAAATGTTC
* *
97427909 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
97427947 TAGATGTTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
AT
Found at i:97440167 original size:21 final size:20
Alignment explanation
Indices: 97440127--97440168 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 20
97440117 AATATGTTTT
97440127 AAATTGAAATTTTATGATAG
1 AAATTGAAATTTTATGATAG
97440147 AAATTGAAAGGTTTT-TGATAG
1 AAATTGAAA--TTTTATGATAG
97440168 A
1 A
97440169 TAAACAACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 9 0.45
21 7 0.35
22 4 0.20
ACGTcount: A:0.43, C:0.00, G:0.19, T:0.38
Consensus pattern (20 bp):
AAATTGAAATTTTATGATAG
Found at i:97440653 original size:2 final size:2
Alignment explanation
Indices: 97440646--97440670 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
97440636 TTGAAATGTG
97440646 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
97440671 ATTGATGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:97440866 original size:32 final size:32
Alignment explanation
Indices: 97440830--97440974 Score: 118
Period size: 32 Copynumber: 4.5 Consensus size: 32
97440820 AAAGGGTGAT
97440830 ACTTGAAAAGGATACATGTAC-CTAAATG-GTAC
1 ACTTGAAAAGGA-A-ATGTACACTAAATGTGTAC
***
97440862 ACTTGAAAAGGAAATGTACACTTTGTGTGTAC
1 ACTTGAAAAGGAAATGTACACTAAATGTGTAC
** *
97440894 ACTTGAAAAGGAAATGTACACTTTATGTATAC
1 ACTTGAAAAGGAAATGTACACTAAATGTGTAC
* * *
97440926 TATTTGAAAAGG-AATGTGCACCTCAA-GTGTAC
1 -ACTTGAAAAGGAAATGTACA-CTAAATGTGTAC
*
97440958 AATTGGAAAAGGGAAAT
1 ACTT-GAAAA-GGAAAT
97440975 ATCCATCGGA
Statistics
Matches: 95, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
30 6 0.06
31 8 0.08
32 63 0.66
33 15 0.16
34 3 0.03
ACGTcount: A:0.39, C:0.12, G:0.21, T:0.28
Consensus pattern (32 bp):
ACTTGAAAAGGAAATGTACACTAAATGTGTAC
Found at i:97440938 original size:33 final size:32
Alignment explanation
Indices: 97440859--97440939 Score: 126
Period size: 32 Copynumber: 2.5 Consensus size: 32
97440849 ACCTAAATGG
* *
97440859 TACACTTGAAAAGGAAATGTACACTTTGTGTG
1 TACACTTGAAAAGGAAATGTACACTTTATGTA
97440891 TACACTTGAAAAGGAAATGTACACTTTATGTA
1 TACACTTGAAAAGGAAATGTACACTTTATGTA
*
97440923 TACTATTTGAAAAGGAA
1 TAC-ACTTGAAAAGGAA
97440940 TGTGCACCTC
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
32 33 0.73
33 12 0.27
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.31
Consensus pattern (32 bp):
TACACTTGAAAAGGAAATGTACACTTTATGTA
Found at i:97441445 original size:5 final size:5
Alignment explanation
Indices: 97441435--97441470 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
97441425 ATATTTTGAG
97441435 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT A
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT A
97441471 AGTATGTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.39
Consensus pattern (5 bp):
ATGAT
Found at i:97442993 original size:53 final size:51
Alignment explanation
Indices: 97442852--97443011 Score: 187
Period size: 52 Copynumber: 3.1 Consensus size: 51
97442842 TGACGGAAAA
* * *
97442852 GATGTGATATGTGCTTCCGTATAAGACCATAGCAGGGCTATGGCATTGGTAC
1 GATGTGATATGTG-TTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAT
* * * *
97442904 AATATGAT-TCGTGTTCTTGTATAAGACCATAGCTGGGCTATGGCATCGGTGT
1 GATGTGATAT-GTGTTC-CGTATAAGACCATAGCTGGGCTATGGCATCGGTAT
* *
97442956 GATGTGATAATGTGATTCCGTATAAGACCATATCTGGGATATGGCATCGGTAT
1 GATGTGAT-ATGTG-TTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAT
97443009 GAT
1 GAT
97443012 ATGTGATCCG
Statistics
Matches: 90, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
51 4 0.04
52 45 0.50
53 37 0.41
54 4 0.04
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.32
Consensus pattern (51 bp):
GATGTGATATGTGTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAT
Found at i:97444534 original size:18 final size:18
Alignment explanation
Indices: 97444511--97444545 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
97444501 GTGTTCCAAG
*
97444511 CCACACGGGCGTGTGTGA
1 CCACACGGGCATGTGTGA
97444529 CCACACGGGCATGTGTG
1 CCACACGGGCATGTGTG
97444546 GTACTGTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.29, G:0.37, T:0.17
Consensus pattern (18 bp):
CCACACGGGCATGTGTGA
Found at i:97445368 original size:15 final size:14
Alignment explanation
Indices: 97445342--97445383 Score: 59
Period size: 13 Copynumber: 3.0 Consensus size: 14
97445332 GGCTTCATTA
*
97445342 TTATGGTTAAGGGT
1 TTATGTTTAAGGGT
97445356 TTAGTGTTTAAGGG-
1 TTA-TGTTTAAGGGT
97445370 TTATGTTTAAGGGT
1 TTATGTTTAAGGGT
97445384 CTAATGTTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 10 0.40
14 6 0.24
15 9 0.36
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.45
Consensus pattern (14 bp):
TTATGTTTAAGGGT
Found at i:97445390 original size:15 final size:14
Alignment explanation
Indices: 97445348--97445391 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
97445338 ATTATTATGG
*
97445348 TTAAGGGTTTAGTGT
1 TTAAGGG-TTAATGT
97445363 TTAAGGGTT-ATGT
1 TTAAGGGTTAATGT
97445376 TTAAGGGTCTAATGT
1 TTAAGGGT-TAATGT
97445391 T
1 T
97445392 AGGGTTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
13 11 0.42
14 3 0.12
15 12 0.46
ACGTcount: A:0.23, C:0.02, G:0.30, T:0.45
Consensus pattern (14 bp):
TTAAGGGTTAATGT
Found at i:97445424 original size:18 final size:19
Alignment explanation
Indices: 97445397--97445446 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
97445387 ATGTTAGGGT
* *
97445397 TTAAAATTTAGGGTTAAGG
1 TTAAAGTTTAAGGTTAAGG
*
97445416 -TAAAGTTTAAGGTTAGGG
1 TTAAAGTTTAAGGTTAAGG
97445434 TTAAGAGTTTAAG
1 TTAA-AGTTTAAG
97445447 ATTTAAGTCG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 15 0.58
19 3 0.12
20 8 0.31
ACGTcount: A:0.36, C:0.00, G:0.28, T:0.36
Consensus pattern (19 bp):
TTAAAGTTTAAGGTTAAGG
Found at i:97446663 original size:46 final size:46
Alignment explanation
Indices: 97446596--97446684 Score: 178
Period size: 46 Copynumber: 1.9 Consensus size: 46
97446586 TGTTAATTCA
97446596 CTGTCTCCAAAGCCATATTTCTAATATGGACTTACATGGCTCAATC
1 CTGTCTCCAAAGCCATATTTCTAATATGGACTTACATGGCTCAATC
97446642 CTGTCTCCAAAGCCATATTTCTAATATGGACTTACATGGCTCA
1 CTGTCTCCAAAGCCATATTTCTAATATGGACTTACATGGCTCA
97446685 TTTCTGTTCT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (46 bp):
CTGTCTCCAAAGCCATATTTCTAATATGGACTTACATGGCTCAATC
Found at i:97453647 original size:46 final size:44
Alignment explanation
Indices: 97453543--97453650 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
97453533 TGTCTTTGAC
** * * *
97453543 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
97453587 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
97453633 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
97453651 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:97456454 original size:46 final size:44
Alignment explanation
Indices: 97456350--97456457 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
97456340 TGTCTTTGAC
** * * *
97456350 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
97456394 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
97456440 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
97456458 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:97457797 original size:28 final size:28
Alignment explanation
Indices: 97457765--97457824 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
97457755 TTTTATTTTC
*
97457765 GTTTTAGGTTTCAAGTTTAGGGTTTAAT
1 GTTTTAGGTTTCAAGATTAGGGTTTAAT
* *
97457793 GTTTTAGGTTTCATGATTAGGGTTTTAT
1 GTTTTAGGTTTCAAGATTAGGGTTTAAT
97457821 GTTT
1 GTTT
97457825 AAGGCTTATG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.18, C:0.03, G:0.25, T:0.53
Consensus pattern (28 bp):
GTTTTAGGTTTCAAGATTAGGGTTTAAT
Found at i:97457816 original size:14 final size:14
Alignment explanation
Indices: 97457767--97457825 Score: 59
Period size: 14 Copynumber: 4.3 Consensus size: 14
97457757 TTATTTTCGT
*
97457767 TTTA-GGTTTCAAG
1 TTTAGGGTTTCATG
*
97457780 TTTAGGGTTTAATG
1 TTTAGGGTTTCATG
97457794 TTTTA-GGTTTCATG
1 -TTTAGGGTTTCATG
* *
97457808 ATTAGGGTTTTATG
1 TTTAGGGTTTCATG
97457822 TTTA
1 TTTA
97457826 AGGCTTATGG
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
13 7 0.19
14 26 0.70
15 4 0.11
ACGTcount: A:0.20, C:0.03, G:0.24, T:0.53
Consensus pattern (14 bp):
TTTAGGGTTTCATG
Found at i:97462390 original size:25 final size:25
Alignment explanation
Indices: 97462354--97462404 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
97462344 TAGAAGTTAT
97462354 TAAAGTTTAAACTCATATTTACATA
1 TAAAGTTTAAACTCATATTTACATA
*
97462379 TAAA-TTTAAAACTTATATTTACATA
1 TAAAGTTT-AAACTCATATTTACATA
97462404 T
1 T
97462405 TTATATGGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 3 0.12
25 21 0.88
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (25 bp):
TAAAGTTTAAACTCATATTTACATA
Found at i:97467023 original size:13 final size:13
Alignment explanation
Indices: 97467005--97467051 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
97466995 GTAAATTTTG
97467005 ATGTTATTTATAA
1 ATGTTATTTATAA
*
97467018 ATGTTATTTATGTA
1 ATGTTATTTAT-AA
*
97467032 AT-TTATTAAATAA
1 ATGTTATT-TATAA
97467045 ATGTTAT
1 ATGTTAT
97467052 CAAATTAAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 19 0.68
14 9 0.32
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (13 bp):
ATGTTATTTATAA
Found at i:97468576 original size:30 final size:30
Alignment explanation
Indices: 97468542--97468613 Score: 93
Period size: 24 Copynumber: 2.6 Consensus size: 30
97468532 TTTGAATGTA
97468542 TTTGATTTGAATTACATTTGTTTGATGAAT
1 TTTGATTTGAATTACATTTGTTTGATGAAT
97468572 TTTGATTTG----A-A-TTGTTTGATGAAT
1 TTTGATTTGAATTACATTTGTTTGATGAAT
*
97468596 TTCGATTTGAATTACATT
1 TTTGATTTGAATTACATT
97468614 CGTCCAAGAC
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
24 21 0.60
25 1 0.03
26 1 0.03
28 1 0.03
29 1 0.03
30 10 0.29
ACGTcount: A:0.26, C:0.04, G:0.17, T:0.53
Consensus pattern (30 bp):
TTTGATTTGAATTACATTTGTTTGATGAAT
Found at i:97481207 original size:22 final size:22
Alignment explanation
Indices: 97481181--97481230 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
97481171 ATGTATTTGG
*
97481181 TTTTTACATACTAGATGTT-CAT
1 TTTTTACATACGAGA-GTTACAT
*
97481203 TTTTTAGATACGAGAGTTACAT
1 TTTTTACATACGAGAGTTACAT
*
97481225 GTTTTA
1 TTTTTA
97481231 ATTATAATTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 3 0.12
22 21 0.88
ACGTcount: A:0.28, C:0.10, G:0.14, T:0.48
Consensus pattern (22 bp):
TTTTTACATACGAGAGTTACAT
Found at i:97482341 original size:19 final size:21
Alignment explanation
Indices: 97482317--97482355 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
97482307 TTGGTGAATA
97482317 TTAAATATT-ATAA-TATTTT
1 TTAAATATTAATAACTATTTT
97482336 TTAAATATTAATAACTATTT
1 TTAAATATTAATAACTATTT
97482356 AAACACTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
20 4 0.22
21 5 0.28
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (21 bp):
TTAAATATTAATAACTATTTT
Found at i:97488433 original size:51 final size:51
Alignment explanation
Indices: 97488316--97488451 Score: 148
Period size: 51 Copynumber: 2.7 Consensus size: 51
97488306 CTACCACCAA
* * *
97488316 ATCTCTAAGAATATAATATCATATCTTCTAAGATTACATATCTTAGATAAG
1 ATCTCTAAGACTATAATATCATATCTTATAAGATTACATATCATAGATAAG
* * * * * * **
97488367 ATATGTAA-TCTTATAAAATAATATCTTATAAGATTTCATATCATATCTAAG
1 ATCTCTAAGAC-TATAATATCATATCTTATAAGATTACATATCATAGATAAG
*
97488418 ATCTCTAAGACTATAATATCATATCTTTTAAGAT
1 ATCTCTAAGACTATAATATCATATCTTATAAGAT
97488452 CATGTTTCCA
Statistics
Matches: 66, Mismatches: 17, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
51 65 0.98
52 1 0.02
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.40
Consensus pattern (51 bp):
ATCTCTAAGACTATAATATCATATCTTATAAGATTACATATCATAGATAAG
Found at i:97496294 original size:21 final size:22
Alignment explanation
Indices: 97496270--97496310 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
97496260 TTGTACAATT
*
97496270 TGTTATG-GTAATAAAATTGTG
1 TGTTATGCCTAATAAAATTGTG
97496291 TGTTATGCCTAATAAAATTG
1 TGTTATGCCTAATAAAATTG
97496311 ATGAATGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.34, C:0.05, G:0.20, T:0.41
Consensus pattern (22 bp):
TGTTATGCCTAATAAAATTGTG
Done.