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 202 of 328
Found at i:60548882 original size:28 final size:29
Alignment explanation
Indices: 60548850--60548948 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
60548840 ATAATAAGCC
*
60548850 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
60548878 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
60548906 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
60548935 CGCACACTTAGTGC
1 CGCACACTTAGTGC
60548949 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:60560199 original size:28 final size:28
Alignment explanation
Indices: 60560131--60560229 Score: 110
Period size: 28 Copynumber: 3.5 Consensus size: 28
60560121 CATGAGATTG
* * *
60560131 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-AGATTATATA
* *
60560160 GCACTAAATGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTAGATTATATA
* *
60560188 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTAGATTATAT-A
60560216 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
60560230 GGCTTATTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 44 0.72
29 16 0.26
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTAGATTATATA
Found at i:60562524 original size:116 final size:116
Alignment explanation
Indices: 60562381--60562613 Score: 421
Period size: 116 Copynumber: 2.0 Consensus size: 116
60562371 TTACCATATT
* *
60562381 ACTATAACACACTTTTCTGGTAAGTCATGGTATGTATTACTAAATTATCAAGAGGTTATTCTAAA
1 ACTATAACACACTTTTCTAGTAAGTCATGGTATGTATTACCAAATTATCAAGAGGTTATTCTAAA
*
60562446 TATAAGTTCTAATTAAACCATTCATTTTCTCATCATTTTCATAGAAAATGA
66 TATAAGTTCTAATTAAACCATTCATTGTCTCATCATTTTCATAGAAAATGA
* *
60562497 ACTATAACACACTTTTCTATTAAGTCATGGTATGTATTACCAAATTATCGAGAGGTTATTCTAAA
1 ACTATAACACACTTTTCTAGTAAGTCATGGTATGTATTACCAAATTATCAAGAGGTTATTCTAAA
60562562 TATAAGTTCTAATTAAACCATTCATTGTCTCATCATTTTCATAGAAAATGA
66 TATAAGTTCTAATTAAACCATTCATTGTCTCATCATTTTCATAGAAAATGA
60562613 A
1 A
60562614 TTCTAATTTT
Statistics
Matches: 112, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
116 112 1.00
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.38
Consensus pattern (116 bp):
ACTATAACACACTTTTCTAGTAAGTCATGGTATGTATTACCAAATTATCAAGAGGTTATTCTAAA
TATAAGTTCTAATTAAACCATTCATTGTCTCATCATTTTCATAGAAAATGA
Found at i:60567360 original size:40 final size:39
Alignment explanation
Indices: 60567302--60567454 Score: 162
Period size: 40 Copynumber: 3.8 Consensus size: 39
60567292 GAAAAAGCTG
* * * *
60567302 CTGAATGCACATGTGTGCCCCTGTTTGTACTTTGGTACCC
1 CTGAATGCACA-GCGTGCCCCTGTTTGCACTTTAGTGCCC
* * *
60567342 CTGAATGCACAGACGTGCCCCTATATGCACTTCAGTGCCC
1 CTGAATGCACAG-CGTGCCCCTGTTTGCACTTTAGTGCCC
*
60567382 CTGAATGCACATCCGTGCCCCTGTTTGCACTTTAGTGCCC
1 CTGAATGCACA-GCGTGCCCCTGTTTGCACTTTAGTGCCC
* ** *
60567422 CTAAATGCACATTTGTGCCCCTGTTTGAACTTT
1 CTGAATGCACA-GCGTGCCCCTGTTTGCACTTT
60567455 GGTTCCATTA
Statistics
Matches: 96, Mismatches: 15, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
39 1 0.01
40 95 0.99
ACGTcount: A:0.18, C:0.31, G:0.20, T:0.31
Consensus pattern (39 bp):
CTGAATGCACAGCGTGCCCCTGTTTGCACTTTAGTGCCC
Found at i:60567362 original size:20 final size:20
Alignment explanation
Indices: 60567339--60567444 Score: 83
Period size: 20 Copynumber: 5.3 Consensus size: 20
60567329 TACTTTGGTA
*
60567339 CCCCTGAATGCACAGACGTG
1 CCCCTGAATGCACATACGTG
*
60567359 CCCCT-ATATGCAC-TTCAGTG
1 CCCCTGA-ATGCACATAC-GTG
*
60567379 CCCCTGAATGCACATCCGTG
1 CCCCTGAATGCACATACGTG
** *
60567399 CCCCTGTTTGCACTTTA-GTG
1 CCCCTGAATGCAC-ATACGTG
* **
60567419 CCCCTAAATGCACATTTGTG
1 CCCCTGAATGCACATACGTG
60567439 CCCCTG
1 CCCCTG
60567445 TTTGAACTTT
Statistics
Matches: 67, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
19 3 0.04
20 60 0.90
21 4 0.06
ACGTcount: A:0.19, C:0.36, G:0.19, T:0.26
Consensus pattern (20 bp):
CCCCTGAATGCACATACGTG
Found at i:60583357 original size:34 final size:34
Alignment explanation
Indices: 60583306--60583390 Score: 91
Period size: 34 Copynumber: 2.5 Consensus size: 34
60583296 GTAGTGCAAA
* *
60583306 CAGTCTGGGCCTAAGCCC-TTAACAGTAGCAATAT
1 CAGTGTGGGCCTAAGCCCATT-ACAGTAACAATAT
* * * *
60583340 TAGTGTGGGCCTCAGCCCATTACGGTAACAGTAT
1 CAGTGTGGGCCTAAGCCCATTACAGTAACAATAT
*
60583374 CAGTGTGGGCCTTAGCC
1 CAGTGTGGGCCTAAGCC
60583391 TAATTCAGTA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
34 40 0.95
35 2 0.05
ACGTcount: A:0.24, C:0.26, G:0.26, T:0.25
Consensus pattern (34 bp):
CAGTGTGGGCCTAAGCCCATTACAGTAACAATAT
Found at i:60586867 original size:30 final size:29
Alignment explanation
Indices: 60586773--60586874 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
60586763 TATAGTGAAT
* * *
60586773 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
60586802 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
60586830 GCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
60586860 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
60586875 CAATCTTGTC
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
28 22 0.37
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.28
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:60595267 original size:78 final size:78
Alignment explanation
Indices: 60595149--60595377 Score: 237
Period size: 78 Copynumber: 2.9 Consensus size: 78
60595139 TGTTAGCAAC
* * * ** * *
60595149 AGAAATTGAATAAATTCTATTGAACAATA-GAAAAAGAATCCTGAAACATAATTATTCAATTGAT
1 AGAAATTGAACAAATCCTATTAAACAGCAGGAATAA-AATCCTGAAACAGAATTATTCAATTGAT
60595213 TTCTATTTGAAACA
65 TTCTATTTGAAACA
* * * *
60595227 AGAAATTGAACAAATCCTATTAAACAGCAGGAATAAAATCCTAAAACAGAATTGTTTAATAGATT
1 AGAAATTGAACAAATCCTATTAAACAGCAGGAATAAAATCCTGAAACAGAATTATTCAATTGA-T
* *
60595292 TTTTGTTTGAAACA
65 TTCTATTTGAAACA
* * ** * * *
60595306 A-AAATAGAACAAATCCTGTTAAATGGCAGGAATAAAATCCTGAAATAGAATTTTTCAGTTGAAT
1 AGAAATTGAACAAATCCTATTAAACAGCAGGAATAAAATCCTGAAACAGAATTATTCAATTG-AT
60595370 TTCTATTT
65 TTCTATTT
60595378 ACAAACAATA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
78 103 0.84
79 20 0.16
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.32
Consensus pattern (78 bp):
AGAAATTGAACAAATCCTATTAAACAGCAGGAATAAAATCCTGAAACAGAATTATTCAATTGATT
TCTATTTGAAACA
Found at i:60604029 original size:48 final size:48
Alignment explanation
Indices: 60603973--60604329 Score: 389
Period size: 48 Copynumber: 7.4 Consensus size: 48
60603963 TATGCCTGCA
* * * * *
60603973 TAAGACCATTTATAGGACATGGAAATGGCCATGATATATGTGCCTGTG
1 TAAGACCATGTCTGGGACATGGCAATGGCGATGATATATGTGCCTGTG
* * * *
60604021 TAATACCATGTCTAGGACATGGCATTGGCGATGATATATGTGACTGTG
1 TAAGACCATGTCTGGGACATGGCAATGGCGATGATATATGTGCCTGTG
* * *
60604069 AAAGACTATGTCTGGGACATGGC-ATCGGCGATGAAATATGTGCCTGTG
1 TAAGACCATGTCTGGGACATGGCAAT-GGCGATGATATATGTGCCTGTG
*
60604117 TAAGACCATGTCTGGAACATGGC-ATCGGCGATGATATATGTGCCTGTG
1 TAAGACCATGTCTGGGACATGGCAAT-GGCGATGATATATGTGCCTGTG
** * *
60604165 TAAGACCATGTCTGGGACATGGCGTTGGCAATGATATATGTGCCAGTG
1 TAAGACCATGTCTGGGACATGGCAATGGCGATGATATATGTGCCTGTG
* * * * ***
60604213 TAAGACCATGTCTGGGACATGGCATTGGCAATGATATGTGTCCCAACG
1 TAAGACCATGTCTGGGACATGGCAATGGCGATGATATATGTGCCTGTG
* ** *
60604261 TAAGACCATGTCTGGGACATGGC-ATCGGCGATGATATGTG-GATTCATG
1 TAAGACCATGTCTGGGACATGGCAAT-GGCGATGATATATGTGCCT-GTG
*
60604309 TAAGACCATGTCGGGGACATG
1 TAAGACCATGTCTGGGACATG
60604330 CCATTGGTAC
Statistics
Matches: 270, Mismatches: 35, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
47 2 0.01
48 267 0.99
49 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (48 bp):
TAAGACCATGTCTGGGACATGGCAATGGCGATGATATATGTGCCTGTG
Found at i:60604225 original size:144 final size:144
Alignment explanation
Indices: 60604003--60604336 Score: 445
Period size: 144 Copynumber: 2.3 Consensus size: 144
60603993 GGAAATGGCC
* * * *
60604003 ATGATATATGTGCCTGTGTAATACCATGTCTAGGACATGGCATTGGCGATGATATATGTGACTGT
1 ATGATATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATTGGCAATGATATATGTGACAGT
* * * ***
60604068 GAAAGACTATGTCTGGGACATGGCATCGGCGATGAAATATGTGCCTGTGTAAGACCATGTCTGGA
66 GAAAGACCATGTCTGGGACATGGCATCGGCAATGAAATATGTCCCAACGTAAGACCATGTCTGGA
60604133 ACATGGCATCGGCG
131 ACATGGCATCGGCG
* *
60604147 ATGATATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCGTTGGCAATGATATATGTGCCAGT
1 ATGATATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATTGGCAATGATATATGTGACAGT
* * * * *
60604212 GTAAGACCATGTCTGGGACATGGCATTGGCAATGATATGTGTCCCAACGTAAGACCATGTCTGGG
66 GAAAGACCATGTCTGGGACATGGCATCGGCAATGAAATATGTCCCAACGTAAGACCATGTCTGGA
60604277 ACATGGCATCGGCG
131 ACATGGCATCGGCG
* ** * * *
60604291 ATGATATGTG-GATTCATGTAAGACCATGTCGGGGACATGCCATTGG
1 ATGATATATGTGCCT-GTGTAAGACCATGTCTGGGACATGGCATTGG
60604337 TACTTTATTT
Statistics
Matches: 165, Mismatches: 24, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
143 2 0.01
144 163 0.99
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (144 bp):
ATGATATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATTGGCAATGATATATGTGACAGT
GAAAGACCATGTCTGGGACATGGCATCGGCAATGAAATATGTCCCAACGTAAGACCATGTCTGGA
ACATGGCATCGGCG
Found at i:60605645 original size:19 final size:19
Alignment explanation
Indices: 60605599--60605645 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
60605589 CTGGGGACAT
*
60605599 AGGCGTGTCAAAGGCGCAT
1 AGGCGTGTCAAAGGCGCAC
* *
60605618 GGGCGTGTCAAGGGCGCAC
1 AGGCGTGTCAAAGGCGCAC
*
60605637 AGGCATGTC
1 AGGCGTGTC
60605646 CTTGTGTCCA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.40, T:0.15
Consensus pattern (19 bp):
AGGCGTGTCAAAGGCGCAC
Found at i:60606233 original size:67 final size:66
Alignment explanation
Indices: 60606094--60606267 Score: 203
Period size: 67 Copynumber: 2.7 Consensus size: 66
60606084 TGTATTGACT
* * **
60606094 TTTC-ATTCTTGTATCAGCTTCAATTATTTACATATATT--ATTATGTATCTTATTTCGCATTGA
1 TTTCAATTCTTGTATCAACTTCAATTATTTATATATATTGCATTATGTATCCCATTTCGCATTGA
60606156 A
66 A
* * * * * *
60606157 TTTCCATTCTTGTAT-ATATTTTAGTTATTTATATATATCTGCATTATGTATCCCATTTTGTATT
1 TTTCAATTCTTGTATCA-ACTTCAATTATTTATATATAT-TGCATTATGTATCCCATTTCGCATT
60606221 GAA
64 GAA
60606224 TTTCAATTCTTGTATCAACTTCAATTATTTATATATATTTGCAT
1 TTTCAATTCTTGTATCAACTTCAATTATTTATATATA-TTGCAT
60606268 GAACTTGATT
Statistics
Matches: 91, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
63 5 0.05
64 26 0.29
65 1 0.01
67 57 0.63
68 2 0.02
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.52
Consensus pattern (66 bp):
TTTCAATTCTTGTATCAACTTCAATTATTTATATATATTGCATTATGTATCCCATTTCGCATTGA
A
Found at i:60607556 original size:29 final size:30
Alignment explanation
Indices: 60607523--60607582 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
60607513 CCTTTTTGCA
*
60607523 TTTATTT-CATTATAATTTAAA-CCCTTATT
1 TTTATTTAAATTATAA-TTAAATCCCTTATT
*
60607552 TTTATTTAAATTCTAATTAAATCCCTTATT
1 TTTATTTAAATTATAATTAAATCCCTTATT
60607582 T
1 T
60607583 AATTCAGTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 12 0.44
30 15 0.56
ACGTcount: A:0.32, C:0.13, G:0.00, T:0.55
Consensus pattern (30 bp):
TTTATTTAAATTATAATTAAATCCCTTATT
Found at i:60614166 original size:46 final size:45
Alignment explanation
Indices: 60614099--60614276 Score: 185
Period size: 46 Copynumber: 3.9 Consensus size: 45
60614089 TGTAACCCGC
*
60614099 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCG-AT
* * *
60614145 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG-TTCGAT
* *** * **
60614191 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGTAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGATGTTCG-AT
** * *
60614238 CCATAAGTGAACTCAAACTCAACTCAACAAGTTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG
60614277 CCCAAATATC
Statistics
Matches: 106, Mismatches: 23, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
46 71 0.67
47 35 0.33
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGAT
Found at i:60614219 original size:93 final size:93
Alignment explanation
Indices: 60614107--60614278 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
60614097 GCCCATAAGT
*** **
60614107 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAAACTCAACTCAA
*
60614172 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CAAGCTCGGATGCCTAGTTACATCTCTC
* *
60614200 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGTATCCATAAGTGAACTCAAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAAACTCAACTCAA
*
60614265 CAAGTTCGGATGCC
66 CAAGCTCGGATGCC
60614279 CAAATATCCT
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAAACTCAACTCAA
CAAGCTCGGATGCCTAGTTACATCTCTC
Found at i:60618844 original size:80 final size:80
Alignment explanation
Indices: 60618746--60618976 Score: 453
Period size: 80 Copynumber: 2.9 Consensus size: 80
60618736 TCATATTGAG
*
60618746 CAAATATTCTTTTATTCTTTCCATTTCATTCATAATAATACTATACAAATAATTATTCTTAGATT
1 CAAATATTCTTTTATTCTTTCCATTTCATTCATAATCATACTATACAAATAATTATTCTTAGATT
60618811 CTTTTGACTTTCTTT
66 CTTTTGACTTTCTTT
60618826 CAAATATTCTTTTATTCTTTCCATTTCATTCATAATCATACTATACAAATAATTATTCTTAGATT
1 CAAATATTCTTTTATTCTTTCCATTTCATTCATAATCATACTATACAAATAATTATTCTTAGATT
60618891 CTTTTGACTTTCTTT
66 CTTTTGACTTTCTTT
60618906 CAAATATTCTTTTATTCTTTCCATTTCATTCATAATCATACTATACAAATAATTATTCTTAGATT
1 CAAATATTCTTTTATTCTTTCCATTTCATTCATAATCATACTATACAAATAATTATTCTTAGATT
60618971 CTTTTG
66 CTTTTG
60618977 CTCTTTGGAC
Statistics
Matches: 150, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 150 1.00
ACGTcount: A:0.30, C:0.17, G:0.03, T:0.51
Consensus pattern (80 bp):
CAAATATTCTTTTATTCTTTCCATTTCATTCATAATCATACTATACAAATAATTATTCTTAGATT
CTTTTGACTTTCTTT
Found at i:60630554 original size:39 final size:40
Alignment explanation
Indices: 60630500--60630654 Score: 224
Period size: 39 Copynumber: 3.9 Consensus size: 40
60630490 TGTGTATGAA
*
60630500 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGTCCCGAAGGCAAT
60630539 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGTCCCGAAGGCAAT
* *
60630578 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAGTCCCGAAGGCAAT
* * * * *
60630618 TGTGCGGGTTATCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTGTGATATCCGGGCTAAGTCCCGAAGGC
60630655 GTCTGAACGA
Statistics
Matches: 106, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 64 0.60
40 42 0.40
ACGTcount: A:0.22, C:0.21, G:0.32, T:0.25
Consensus pattern (40 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGTCCCGAAGGCAAT
Found at i:60630639 original size:79 final size:79
Alignment explanation
Indices: 60630500--60630654 Score: 222
Period size: 79 Copynumber: 2.0 Consensus size: 79
60630490 TGTGTATGAA
* * *
60630500 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAA
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATCATAACCGGGCTAA
60630565 G-CCCGAAGGCAAT
66 GTCCCGAAGGCAAT
* * * *
60630578 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTATCATAACCGGGCTA
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTATCATAACCGGGCTA
*
60630643 TGTCCCGAAGGC
65 AGTCCCGAAGGC
60630655 GTCTGAACGA
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
78 25 0.37
79 33 0.49
80 9 0.13
ACGTcount: A:0.22, C:0.21, G:0.32, T:0.25
Consensus pattern (79 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATCATAACCGGGCTAA
GTCCCGAAGGCAAT
Found at i:60630681 original size:79 final size:78
Alignment explanation
Indices: 60630510--60630692 Score: 192
Period size: 79 Copynumber: 2.3 Consensus size: 78
60630500 TGTGCGAATT
* * * *
60630510 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGC
1 GTGATATCCGGGTTAAGCCCGAAGGCAATTGTGCGAGTTATCATAACCGGGCTAAGCCCGAAGGC
** *
60630575 AATTGTGCGAGTT
66 AATTGAACGAGTA
* * *
60630588 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTATCATAACCGGGCTATGTCCCGAAG
1 GTGATATCCGGGTTAAG-CCCGAAGGCAATTGTGCGAGTTATCATAACCGGGCTAAG-CCCGAAG
*
60630653 GC-GTCTGAACGAGTA
64 GCAAT-TGAACGAGTA
*
60630668 GCT-ATATCC-GGTTAAACTCCGAAGG
1 G-TGATATCCGGGTTAAGC-CCGAAGG
60630693 TATGTGATCT
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
78 17 0.19
79 47 0.53
80 23 0.26
81 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.24
Consensus pattern (78 bp):
GTGATATCCGGGTTAAGCCCGAAGGCAATTGTGCGAGTTATCATAACCGGGCTAAGCCCGAAGGC
AATTGAACGAGTA
Found at i:60634220 original size:29 final size:29
Alignment explanation
Indices: 60634085--60634219 Score: 216
Period size: 29 Copynumber: 4.7 Consensus size: 29
60634075 GCTTGGAAGG
60634085 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
60634114 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
60634143 TATGGCACTAAGTGTGCAAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
* * **
60634172 TATGGCACTATGTGTGCGAGCTTAAATCG
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
60634201 CATGGCACTAAGTGTGCGA
1 TATGGCACTAAGTGTGCGA
60634220 GATCGTTTAT
Statistics
Matches: 98, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 98 1.00
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.30
Consensus pattern (29 bp):
TATGGCACTAAGTGTGCGAACTTAAATTA
Found at i:60642239 original size:29 final size:29
Alignment explanation
Indices: 60642104--60642238 Score: 216
Period size: 29 Copynumber: 4.7 Consensus size: 29
60642094 GCTTGGAAGG
60642104 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
60642133 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
60642162 TATGGCACTAAGTGTGCAAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
* * **
60642191 TATGGCACTATGTGTGCGAGCTTAAATCG
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
60642220 CATGGCACTAAGTGTGCGA
1 TATGGCACTAAGTGTGCGA
60642239 GATCGTTTAT
Statistics
Matches: 98, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 98 1.00
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.30
Consensus pattern (29 bp):
TATGGCACTAAGTGTGCGAACTTAAATTA
Found at i:60645930 original size:28 final size:29
Alignment explanation
Indices: 60645862--60645934 Score: 112
Period size: 29 Copynumber: 2.6 Consensus size: 29
60645852 TGATTGTGAC
*
60645862 TGGGCCTAATGGGCCATATAAATGTGATT
1 TGGGCCTAATGGGCCATATAAATATGATT
*
60645891 TGGGCCTAATGGGCCATATGAATATGA-T
1 TGGGCCTAATGGGCCATATAAATATGATT
*
60645919 TGGGCTTAATGGGCCA
1 TGGGCCTAATGGGCCA
60645935 GATACAGGTA
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 16 0.39
29 25 0.61
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.29
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAATATGATT
Found at i:60650450 original size:28 final size:29
Alignment explanation
Indices: 60650337--60650451 Score: 128
Period size: 29 Copynumber: 4.0 Consensus size: 29
60650327 GTGAGCATGA
* *
60650337 ATATGAATGTGA-CTGGGCCTTATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
60650365 ATATAAATGTAATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
60650394 ATATAGAGT-TGATTTGGGCCTAATGGGCC
1 ATAT-GAATGTGATTTGGGCCTAATGGGCC
* * *
60650423 ATATGAATATGA-TTGGGCTTAATAGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
60650451 A
1 A
60650452 AATACAGGTA
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
28 28 0.38
29 44 0.59
30 2 0.03
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:60654719 original size:3 final size:3
Alignment explanation
Indices: 60654706--60654735 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
60654696 TCATACGGGT
60654706 TAA TAAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TA
60654736 TATATAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:60671611 original size:40 final size:40
Alignment explanation
Indices: 60671556--60671737 Score: 269
Period size: 40 Copynumber: 4.6 Consensus size: 40
60671546 TACTCGGATG
*
60671556 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
60671596 ATATCCGGGCTAAGTCCCGAAGGCCTTTGCGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
60671636 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * * *
60671676 GTATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
60671716 ATATCC-GGCTAATTCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
60671738 TACTTGGATT
Statistics
Matches: 128, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 13 0.10
40 113 0.88
41 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:60680716 original size:80 final size:80
Alignment explanation
Indices: 60680632--60680780 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
60680622 TATGGTAACC
* * * *
60680632 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
60680696 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
60680712 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
60680777 CCGG
66 CCGG
60680781 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:60680722 original size:40 final size:38
Alignment explanation
Indices: 60680673--60680780 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
60680663 ATCACGATTT
*
60680673 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
60680713 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
60680753 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
60680781 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:60688807 original size:80 final size:80
Alignment explanation
Indices: 60688723--60688871 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
60688713 TATGGTAACC
* * * *
60688723 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
60688787 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
60688803 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
60688868 CCGG
66 CCGG
60688872 TTAGCATAAT
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:60688813 original size:40 final size:38
Alignment explanation
Indices: 60688764--60688871 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
60688754 ATCACGATTT
*
60688764 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
60688804 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
60688844 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
60688872 TTAGCATAAT
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:60688883 original size:31 final size:31
Alignment explanation
Indices: 60688842--60688905 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
60688832 ATGTAGCCAC
60688842 TAGCACAATTGCCTTCGGGTCTTAACCCGGT
1 TAGCACAATTGCCTTCGGGTCTTAACCCGGT
*
60688873 TAGCATAATTGCCTTCGGGTCTTAACCCGGT
1 TAGCACAATTGCCTTCGGGTCTTAACCCGGT
60688904 TA
1 TA
60688906 TAATTTCAGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (31 bp):
TAGCACAATTGCCTTCGGGTCTTAACCCGGT
Found at i:60696795 original size:40 final size:39
Alignment explanation
Indices: 60696750--60696958 Score: 195
Period size: 40 Copynumber: 5.2 Consensus size: 39
60696740 CGGAATACAA
*
60696750 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
60696790 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
60696830 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
60696870 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
60696910 CCGGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CC-GGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
60696951 CCGGATAT
1 CCGGATAT
60696959 CATTCAATTG
Statistics
Matches: 141, Mismatches: 24, Indels: 8
0.82 0.14 0.05
Matches are distributed among these distances:
39 4 0.03
40 106 0.75
41 28 0.20
42 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:60696890 original size:80 final size:80
Alignment explanation
Indices: 60696750--60696957 Score: 231
Period size: 80 Copynumber: 2.6 Consensus size: 80
60696740 CGGAATACAA
* * *
60696750 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
60696814 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
60696830 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
60696894 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
60696910 CCGGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CC-GGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
60696958 TCATTCAATT
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
79 3 0.03
80 66 0.62
81 38 0.36
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:60700153 original size:38 final size:38
Alignment explanation
Indices: 60700110--60700240 Score: 136
Period size: 38 Copynumber: 3.2 Consensus size: 38
60700100 TTTCAAATTA
60700110 ACATGTATAACCGTGGCATATCCACTTAGCACCATGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCATGTT
* * *
60700148 ACATGTTTAATCGTGGTATATCCACTTAGCACCATGTTAAT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCATG-T--T
* *
60700189 GAATCGATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCATGTT
60700233 ACATGTAT
1 ACATGTAT
60700241 CAATATGTGT
Statistics
Matches: 75, Mismatches: 9, Indels: 18
0.74 0.09 0.18
Matches are distributed among these distances:
38 34 0.45
39 1 0.01
40 4 0.05
41 2 0.03
42 1 0.01
43 1 0.01
44 2 0.03
45 3 0.04
46 1 0.01
47 26 0.35
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (38 bp):
ACATGTATAACCGTGGCATATCCACTTAGCACCATGTT
Found at i:60700271 original size:48 final size:48
Alignment explanation
Indices: 60700150--60700421 Score: 271
Period size: 48 Copynumber: 5.9 Consensus size: 48
60700140 ACCATGTTAC
* * * * *
60700150 ATGTTTAATCGTGGTATATCCACTTAGCACCATGTTA-ATGAATCGAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* *
60700197 ATATGTAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* *
60700245 ATGTGTAATCATGGTATATCCACTTAGCACCACGTTAC----A-C---
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* * * * *
60700285 --GTATAACCGTGGTATATTCACTTAGTACCACGTTA-ATGAATCGAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* *
60700330 ATATGTAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* * * * *
60700378 ATGTGTAATCGTAGTTTATCCACATAGCACCACGTTACACGTAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTAT
60700422 AACCGTGGTA
Statistics
Matches: 183, Mismatches: 30, Indels: 23
0.78 0.13 0.10
Matches are distributed among these distances:
38 30 0.16
41 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
47 62 0.34
48 87 0.48
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.32
Consensus pattern (48 bp):
ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
Found at i:60700282 original size:133 final size:133
Alignment explanation
Indices: 60700127--60700451 Score: 551
Period size: 133 Copynumber: 2.4 Consensus size: 133
60700117 TAACCGTGGC
* * * * *
60700127 ATATCCACTTAGCACCATGTTACATGTTTAATCGTGGTATATCCACTTAGCACCATGTTAATGAA
1 ATATCCACTTAGCACCACGTTACACGTATAACCGTGGTATATCCACTTAGCACCACGTTAATGAA
60700192 TCGATATATGTAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATCAT
66 TCGATATATGTAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATCAT
*
60700257 GGT
131 AGT
* *
60700260 ATATCCACTTAGCACCACGTTACACGTATAACCGTGGTATATTCACTTAGTACCACGTTAATGAA
1 ATATCCACTTAGCACCACGTTACACGTATAACCGTGGTATATCCACTTAGCACCACGTTAATGAA
*
60700325 TCGATATATGTAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATCGT
66 TCGATATATGTAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATCAT
60700390 AGT
131 AGT
* *
60700393 TTATCCACATAGCACCACGTTACACGTATAACCGTGGTATATCCACTTAGCACCACGTT
1 ATATCCACTTAGCACCACGTTACACGTATAACCGTGGTATATCCACTTAGCACCACGTT
60700452 TTTCCATTCC
Statistics
Matches: 179, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
133 179 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.31
Consensus pattern (133 bp):
ATATCCACTTAGCACCACGTTACACGTATAACCGTGGTATATCCACTTAGCACCACGTTAATGAA
TCGATATATGTAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATCAT
AGT
Found at i:60700307 original size:38 final size:38
Alignment explanation
Indices: 60700256--60700451 Score: 149
Period size: 38 Copynumber: 4.7 Consensus size: 38
60700246 TGTGTAATCA
60700256 TGGTATATCCACTTAGCACCACGTTACACGTATAACCG
1 TGGTATATCCACTTAGCACCACGTTACACGTATAACCG
* * *
60700294 TGGTATATTCACTTAGTACCACGTTAATGAATCGATATATGTAACCG
1 TGGTATATCCACTTAGCACCACGTT-A--CA-CG---TA--TAACCG
* * **
60700341 TGGCATATCCACTTAGCACCACGTTACATGTATCAATATG
1 TGGTATATCCACTTAGCACCACGTTACACGTAT-AA-CCG
*
60700381 TGTAATCGTAGTTTATCCACATAGCACCACGTTACACGTATAACCG
1 TG-----GTA---TATCCACTTAGCACCACGTTACACGTATAACCG
60700427 TGGTATATCCACTTAGCACCACGTT
1 TGGTATATCCACTTAGCACCACGTT
60700452 TTTCCATTCC
Statistics
Matches: 123, Mismatches: 16, Indels: 38
0.69 0.09 0.21
Matches are distributed among these distances:
38 43 0.35
39 3 0.02
40 5 0.04
41 4 0.03
42 2 0.02
43 1 0.01
44 1 0.01
45 4 0.03
46 4 0.03
47 30 0.24
48 26 0.21
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (38 bp):
TGGTATATCCACTTAGCACCACGTTACACGTATAACCG
Found at i:60700364 original size:85 final size:86
Alignment explanation
Indices: 60700202--60700373 Score: 247
Period size: 85 Copynumber: 2.0 Consensus size: 86
60700192 TCGATATATG
* * * *
60700202 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATCATGGTATATCCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGAATCAATATATGTAACCATGGCATATCCA
60700267 CTTAGCACCACGTTACACGTA
66 CTTAGCACCACGTTACACGTA
* * * * *
60700288 TAACCGTGGTATATTCACTTAGTACCACGTTA-ATGAATCGATATATGTAACCGTGGCATATCCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGAATCAATATATGTAACCATGGCATATCCA
*
60700352 CTTAGCACCACGTTACATGTA
66 CTTAGCACCACGTTACACGTA
60700373 T
1 T
60700374 CAATATGTGT
Statistics
Matches: 76, Mismatches: 10, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
85 47 0.62
86 29 0.38
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (86 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTACATGAATCAATATATGTAACCATGGCATATCCA
CTTAGCACCACGTTACACGTA
Found at i:60703293 original size:40 final size:39
Alignment explanation
Indices: 60703248--60703377 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
60703238 CGGAATACAA
60703248 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
60703288 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
60703328 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
60703368 CCGGATATAA
1 CCGGATATAA
60703378 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:60705704 original size:30 final size:30
Alignment explanation
Indices: 60705669--60705725 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
60705659 GAAAACTGAG
* *
60705669 TAAAGAAATTCA-AGATAGAGAAACCCAGAA
1 TAAAGAAATCCATA-ATAAAGAAACCCAGAA
60705699 TAAAGAAATCCATAATAAAGAAACCCA
1 TAAAGAAATCCATAATAAAGAAACCCA
60705726 AGATACGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.96
31 1 0.04
ACGTcount: A:0.58, C:0.16, G:0.12, T:0.14
Consensus pattern (30 bp):
TAAAGAAATCCATAATAAAGAAACCCAGAA
Found at i:60705705 original size:15 final size:15
Alignment explanation
Indices: 60705687--60705725 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
60705677 TTCAAGATAG
60705687 AGAAACCCAGAATAA
1 AGAAACCCAGAATAA
* *
60705702 AGAAATCCATAATAA
1 AGAAACCCAGAATAA
60705717 AGAAACCCA
1 AGAAACCCA
60705726 AGATACGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.59, C:0.21, G:0.10, T:0.10
Consensus pattern (15 bp):
AGAAACCCAGAATAA
Found at i:60708661 original size:38 final size:39
Alignment explanation
Indices: 60708618--60708955 Score: 171
Period size: 38 Copynumber: 7.9 Consensus size: 39
60708608 TTTCAAATTA
*
60708618 ACATGTA-TAACCGTGGCATATCCACTTAGCACCACGTT
1 ACATGTAGTAACCGTGGTATATCCACTTAGCACCACGTT
* *
60708656 ACATGT-TTAACCATGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTAGTAACCGTGGTATATCCACTTAGCACCACG-T--T
* * * * *
60708697 GAATCGATATATGTAACCGTTGCATATCCAATTAGCTCCACGTT
1 --A-C-ATGTA-GTAACCGTGGTATATCCACTTAGCACCACGTT
* * *
60708741 ACATGTATCAATATGTGTAATCATGGAATATCCACTTAGCACCACGTT
1 ACATG------TA---GTAACCGTGGTATATCCACTTAGCACCACGTT
* *
60708789 ACACGTA-TAACCGTGGTATATCCACTTAGTACCACGTTAAT
1 ACATGTAGTAACCGTGGTATATCCACTTAGCACCACG-T--T
* *
60708830 GAATCGATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA-GTAACCGTGGTATATCCACTTAGCACCACGTT
* * *
60708874 ACATGTATCAATATGTGTAATCGTGGTATATCCATTTAGCTCCACGTT
1 ACATG------TA---GTAACCGTGGTATATCCACTTAGCACCACGTT
*
60708922 ACATGTA-TAACCATGGTATATCCACTTAGCACCA
1 ACATGTAGTAACCGTGGTATATCCACTTAGCACCA
60708956 AGTTTTTCCA
Statistics
Matches: 231, Mismatches: 34, Indels: 70
0.69 0.10 0.21
Matches are distributed among these distances:
38 81 0.35
39 2 0.01
40 4 0.02
41 4 0.02
42 6 0.03
43 2 0.01
44 4 0.02
45 6 0.03
46 6 0.03
47 51 0.22
48 65 0.28
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (39 bp):
ACATGTAGTAACCGTGGTATATCCACTTAGCACCACGTT
Found at i:60708780 original size:48 final size:48
Alignment explanation
Indices: 60708658--60708929 Score: 271
Period size: 48 Copynumber: 5.9 Consensus size: 48
60708648 ACCACGTTAC
* * * *
60708658 ATGTTTAACCATGGTATATCCACTTAGCACCACGTTA-ATGAATCGAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* * * * *
60708705 ATATGTAACCGTTGCATATCCAATTAGCTCCACGTTACATGTATCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* * *
60708753 ATGTGTAATCATGGAATATCCACTTAGCACCACGTTAC----A-C---
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* * * *
60708793 --GTATAACCGTGGTATATCCACTTAGTACCACGTTA-ATGAATCGAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* *
60708838 ATATGTAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* * *
60708886 ATGTGTAATCGTGGTATATCCATTTAGCTCCACGTTACATGTAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTAT
60708930 AACCATGGTA
Statistics
Matches: 181, Mismatches: 32, Indels: 23
0.77 0.14 0.10
Matches are distributed among these distances:
38 30 0.17
41 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
47 61 0.34
48 86 0.48
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (48 bp):
ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
Found at i:60708789 original size:133 final size:133
Alignment explanation
Indices: 60708635--60708955 Score: 543
Period size: 133 Copynumber: 2.4 Consensus size: 133
60708625 TAACCGTGGC
*
60708635 ATATCCACTTAGCACCACGTTACATGTTTAACCATGGTATATCCACTTAGCACCACGTTAATGAA
1 ATATCCACTTAGCACCACGTTACATGTATAACCATGGTATATCCACTTAGCACCACGTTAATGAA
* *
60708700 TCGATATATGTAACCGTTGCATATCCAATTAGCTCCACGTTACATGTATCAATATGTGTAATCAT
66 TCGATATATGTAACCGTGGCATATCCAATTAGCACCACGTTACATGTATCAATATGTGTAATCAT
60708765 GGA
131 GGA
* * *
60708768 ATATCCACTTAGCACCACGTTACACGTATAACCGTGGTATATCCACTTAGTACCACGTTAATGAA
1 ATATCCACTTAGCACCACGTTACATGTATAACCATGGTATATCCACTTAGCACCACGTTAATGAA
* *
60708833 TCGATATATGTAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATCGT
66 TCGATATATGTAACCGTGGCATATCCAATTAGCACCACGTTACATGTATCAATATGTGTAATCAT
*
60708898 GGT
131 GGA
* *
60708901 ATATCCATTTAGCTCCACGTTACATGTATAACCATGGTATATCCACTTAGCACCA
1 ATATCCACTTAGCACCACGTTACATGTATAACCATGGTATATCCACTTAGCACCA
60708956 AGTTTTTCCA
Statistics
Matches: 174, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
133 174 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.31
Consensus pattern (133 bp):
ATATCCACTTAGCACCACGTTACATGTATAACCATGGTATATCCACTTAGCACCACGTTAATGAA
TCGATATATGTAACCGTGGCATATCCAATTAGCACCACGTTACATGTATCAATATGTGTAATCAT
GGA
Found at i:60716079 original size:79 final size:79
Alignment explanation
Indices: 60715948--60716106 Score: 318
Period size: 79 Copynumber: 2.0 Consensus size: 79
60715938 GACTATATGG
60715948 CCTGATTTTATTCGAACCTTGCAATAATAAGCTATCTTTTCTCTCATAATTATCTCTAAATTGTC
1 CCTGATTTTATTCGAACCTTGCAATAATAAGCTATCTTTTCTCTCATAATTATCTCTAAATTGTC
60716013 CCATACACTAGACT
66 CCATACACTAGACT
60716027 CCTGATTTTATTCGAACCTTGCAATAATAAGCTATCTTTTCTCTCATAATTATCTCTAAATTGTC
1 CCTGATTTTATTCGAACCTTGCAATAATAAGCTATCTTTTCTCTCATAATTATCTCTAAATTGTC
60716092 CCATACACTAGACT
66 CCATACACTAGACT
60716106 C
1 C
60716107 AATCTATCCA
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 80 1.00
ACGTcount: A:0.29, C:0.25, G:0.08, T:0.39
Consensus pattern (79 bp):
CCTGATTTTATTCGAACCTTGCAATAATAAGCTATCTTTTCTCTCATAATTATCTCTAAATTGTC
CCATACACTAGACT
Found at i:60718253 original size:10 final size:10
Alignment explanation
Indices: 60718235--60718286 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
60718225 ATTATTAACA
*
60718235 TAATGAATTT
1 TAATTAATTT
60718245 TAATTAATTTT
1 TAATTAA-TTT
60718256 ATAATTAATTT
1 -TAATTAATTT
*
60718267 TGATTAATTT
1 TAATTAATTT
*
60718277 TGATT-ATTT
1 TAATTAATTT
60718286 T
1 T
60718287 CGACAGATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
9 5 0.13
10 20 0.53
11 6 0.16
12 7 0.18
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.60
Consensus pattern (10 bp):
TAATTAATTT
Found at i:60718259 original size:22 final size:22
Alignment explanation
Indices: 60718234--60718277 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
60718224 AATTATTAAC
60718234 ATAATGAATTTTAATTAATTTT
1 ATAATGAATTTTAATTAATTTT
* *
60718256 ATAATTAATTTTGATTAATTTT
1 ATAATGAATTTTAATTAATTTT
60718278 GATTATTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (22 bp):
ATAATGAATTTTAATTAATTTT
Found at i:60729830 original size:40 final size:39
Alignment explanation
Indices: 60729786--60729870 Score: 125
Period size: 39 Copynumber: 2.2 Consensus size: 39
60729776 TATGGTAACC
*
60729786 CGCACAAATGCCTTTGGGACTTAACCCGGATATCACAACT
1 CGCACAAATGCCTTCGGG-CTTAACCCGGATATCACAACT
* * *
60729826 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAAATGCCTTCGGGCTTAACCCGGATATCACAACT
60729865 CGCACA
1 CGCACA
60729871 TTCATACACA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 25 0.61
40 16 0.39
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.22
Consensus pattern (39 bp):
CGCACAAATGCCTTCGGGCTTAACCCGGATATCACAACT
Found at i:60729861 original size:39 final size:40
Alignment explanation
Indices: 60729750--60729870 Score: 127
Period size: 40 Copynumber: 3.0 Consensus size: 40
60729740 GCTACTCGTT
* * * * *** *
60729750 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCA
*
60729790 CAAATGCCTTTGGGACTTAACCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCA
* * *
60729830 CAATTGCCTTCGGG-CTTAGCCCGGATATCACAATTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCA
60729869 CA
1 CA
60729871 TTCATACACA
Statistics
Matches: 68, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
39 25 0.37
40 43 0.63
ACGTcount: A:0.26, C:0.31, G:0.21, T:0.21
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCA
Found at i:60767470 original size:27 final size:27
Alignment explanation
Indices: 60767440--60767528 Score: 117
Period size: 27 Copynumber: 3.3 Consensus size: 27
60767430 GGGGCATTTC
* *
60767440 AGTCATTTTACCACATAAGGGTAAAAT
1 AGTCATTTTACCTCATAAGGGAAAAAT
* * *
60767467 AGTCATTTTACCTTATAAGGGCAAAAC
1 AGTCATTTTACCTCATAAGGGAAAAAT
60767494 AGTCATTTTACCTCA-AGAGGGAAAAAT
1 AGTCATTTTACCTCATA-AGGGAAAAAT
60767521 AGTCATTT
1 AGTCATTT
60767529 CATCAAATTA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 1 0.02
27 53 0.98
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (27 bp):
AGTCATTTTACCTCATAAGGGAAAAAT
Found at i:60769190 original size:36 final size:28
Alignment explanation
Indices: 60769142--60769228 Score: 167
Period size: 28 Copynumber: 3.1 Consensus size: 28
60769132 TTCAATCATA
60769142 ATAATATCATGCATGTATGCAACATATC
1 ATAATATCATGCATGTATGCAACATATC
60769170 ATAATATCATGCATGTATGCAACATATC
1 ATAATATCATGCATGTATGCAACATATC
60769198 ATAATATCATGCATGTATGCAACATAT-
1 ATAATATCATGCATGTATGCAACATATC
60769225 ATAA
1 ATAA
60769229 AATGGCATGC
Statistics
Matches: 59, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 4 0.07
28 55 0.93
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.32
Consensus pattern (28 bp):
ATAATATCATGCATGTATGCAACATATC
Found at i:60771249 original size:15 final size:15
Alignment explanation
Indices: 60771229--60771258 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
60771219 TAGGGACTTG
60771229 GTCATTTTGTTATGT
1 GTCATTTTGTTATGT
*
60771244 GTCATTTTTTTATGT
1 GTCATTTTGTTATGT
60771259 ATACTGAACT
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:0.13, C:0.07, G:0.17, T:0.63
Consensus pattern (15 bp):
GTCATTTTGTTATGT
Found at i:60776691 original size:29 final size:29
Alignment explanation
Indices: 60776667--60776760 Score: 161
Period size: 29 Copynumber: 3.2 Consensus size: 29
60776657 CCGCACACCC
*
60776667 AGTGCCGTATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
60776696 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
**
60776725 AGTGCCATATATTTCCAGCACACACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
60776754 AGTGCCA
1 AGTGCCA
60776761 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 62 1.00
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.29
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCACACTT
Found at i:60776700 original size:58 final size:58
Alignment explanation
Indices: 60776629--60776760 Score: 158
Period size: 58 Copynumber: 2.3 Consensus size: 58
60776619 TACTCGATTT
* * *
60776629 CGCACACTTAGTGCCATGCGATTT-AAGCCCGCACACCCAGTGCCGTATATTTCCAGCA
1 CGCACACTTAGTGCCAT-AGATTTCAAGCACGCACACCCAGTGCCATATATTTCCAGCA
* * * * **
60776687 TGCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATAGATTTCAAGCACGCACACCCAGTGCCATATATTTCCAGCA
*
60776745 CACACACTTAGTGCCA
1 CGCACACTTAGTGCCA
60776761 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
57 4 0.06
58 58 0.94
ACGTcount: A:0.27, C:0.32, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCATAGATTTCAAGCACGCACACCCAGTGCCATATATTTCCAGCA
Found at i:60778597 original size:40 final size:39
Alignment explanation
Indices: 60778552--60778681 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
60778542 CGGAACATAA
60778552 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
60778592 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
60778632 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
60778672 CCGGATATAA
1 CCGGATATAA
60778682 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:60778696 original size:40 final size:40
Alignment explanation
Indices: 60778568--60778719 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
60778558 ATAACCATGT
* * *
60778568 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
60778608 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
60778648 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
60778688 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
60778720 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:60778702 original size:80 final size:80
Alignment explanation
Indices: 60778568--60778717 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
60778558 ATAACCATGT
*
60778568 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
60778632 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
60778648 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
60778711 CCCGGAT
64 CCCGGAT
60778718 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:60789235 original size:20 final size:20
Alignment explanation
Indices: 60789210--60789247 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
60789200 GTTTATTCGC
*
60789210 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
60789230 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
60789248 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:60792759 original size:24 final size:24
Alignment explanation
Indices: 60792708--60792803 Score: 142
Period size: 24 Copynumber: 4.0 Consensus size: 24
60792698 GTTTTATCAT
*
60792708 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
60792733 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
60792757 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
60792780 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
60792804 CACTTCCTCC
Statistics
Matches: 66, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
23 23 0.35
24 31 0.47
25 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:60792783 original size:23 final size:23
Alignment explanation
Indices: 60792729--60792801 Score: 128
Period size: 23 Copynumber: 3.1 Consensus size: 23
60792719 CCTAGCCTCT
*
60792729 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
60792752 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
60792776 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
60792799 TTT
1 TTT
60792802 TACACTTCCT
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
23 26 0.54
24 22 0.46
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:60792878 original size:20 final size:20
Alignment explanation
Indices: 60792853--60792891 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
60792843 TATGAATACA
60792853 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATG
60792873 TCATGTGCATATCATACAT
1 TCATGTGCATATCATACAT
60792892 ACCATGTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.36
Consensus pattern (20 bp):
TCATGTGCATATCATACATG
Found at i:60792897 original size:20 final size:20
Alignment explanation
Indices: 60792854--60792898 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
60792844 ATGAATACAT
**
60792854 CATGTGCATATCATACATGT
1 CATGTGCATATCATACATAC
60792874 CATGTGCATATCATACATAC
1 CATGTGCATATCATACATAC
60792894 CATGT
1 CATGT
60792899 TTATCAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.33
Consensus pattern (20 bp):
CATGTGCATATCATACATAC
Found at i:60793419 original size:8 final size:8
Alignment explanation
Indices: 60793406--60793433 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
60793396 AAATGCCAGA
60793406 ATTTCGGC
1 ATTTCGGC
60793414 ATTTCGGC
1 ATTTCGGC
60793422 ATTTCGGC
1 ATTTCGGC
60793430 ATTT
1 ATTT
60793434 ATCGCTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.43
Consensus pattern (8 bp):
ATTTCGGC
Found at i:60797856 original size:28 final size:28
Alignment explanation
Indices: 60797815--60797872 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
60797805 CCATCAGATT
*
60797815 CTTACCTATCACATTTATCATTTCATTG
1 CTTACCTATCACATTTATCACTTCATTG
* *
60797843 CTTACCTGTTACATTTATCACTTCATTG
1 CTTACCTATCACATTTATCACTTCATTG
60797871 CT
1 CT
60797873 CGATGCATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.22, C:0.26, G:0.05, T:0.47
Consensus pattern (28 bp):
CTTACCTATCACATTTATCACTTCATTG
Found at i:60799285 original size:28 final size:29
Alignment explanation
Indices: 60799245--60799316 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 29
60799235 AAATTTGTAC
* *
60799245 AGCACTAAGTGTGCGAGTTTG-AT-TATAT
1 AGCACTAAGTGTGAGAG-CTGAATATATAT
60799273 AGCACTAAGTGTGAGAGCTGAATATATATAT
1 AGCACTAAGTGTGAGAGCTG-A-ATATATAT
60799304 AGCACTAAGTGTG
1 AGCACTAAGTGTG
60799317 TGGACTCAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
27 2 0.05
28 16 0.42
30 2 0.05
31 18 0.47
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.31
Consensus pattern (29 bp):
AGCACTAAGTGTGAGAGCTGAATATATAT
Found at i:60799328 original size:31 final size:31
Alignment explanation
Indices: 60799268--60799330 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
60799258 CGAGTTTGAT
*
60799268 TATATAGCACTAAGTGTGAGAGCTGAATATA
1 TATATAGCACTAAGTGTGAGAGCTCAATATA
*
60799299 TATATAGCACTAAGTGTGTG-GACTCAATATA
1 TATATAGCACTAAGTGTGAGAG-CTCAATATA
60799330 T
1 T
60799331 GCTTTTGCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 1 0.03
31 28 0.97
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.32
Consensus pattern (31 bp):
TATATAGCACTAAGTGTGAGAGCTCAATATA
Found at i:60803581 original size:40 final size:40
Alignment explanation
Indices: 60803453--60803604 Score: 130
Period size: 40 Copynumber: 3.8 Consensus size: 40
60803443 ATAACCATGT
* * * *
60803453 GCACAAATGCCTTCGGGTCTTAGCCAGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
60803493 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
60803533 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* * *
60803573 GCATAATTGTCTTCAGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTC-GGGTCTTAGCCCGGATAT
60803605 CATTCAATTT
Statistics
Matches: 89, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
39 2 0.02
40 82 0.92
41 5 0.06
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:60808906 original size:31 final size:31
Alignment explanation
Indices: 60808823--60808908 Score: 101
Period size: 31 Copynumber: 2.9 Consensus size: 31
60808813 AAATTTGTAC
*
60808823 AGCACTAAGTGTGCGAG-T--TTGAT-TATAT
1 AGCACTAAGTGTGCGAGCTCAAT-ATATATAT
*
60808851 AGCACTAAGTGTGCGAGCTGAATATATATAT
1 AGCACTAAGTGTGCGAGCTCAATATATATAT
60808882 AGCACTAAGTGTGCG-GACTCAATATAT
1 AGCACTAAGTGTGCGAG-CTCAATATAT
60808909 GCTTTTGCAT
Statistics
Matches: 51, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
28 17 0.33
29 1 0.02
30 3 0.06
31 30 0.59
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (31 bp):
AGCACTAAGTGTGCGAGCTCAATATATATAT
Found at i:60808908 original size:29 final size:31
Alignment explanation
Indices: 60808823--60808896 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 31
60808813 AAATTTGTAC
*
60808823 AGCACTAAGTGTGCGAG-T--TTGAT-TATAT
1 AGCACTAAGTGTGCGAGCTGAAT-ATATATAT
60808851 AGCACTAAGTGTGCGAGCTGAATATATATAT
1 AGCACTAAGTGTGCGAGCTGAATATATATAT
60808882 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
60808897 GACTCAATAT
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
28 17 0.41
29 1 0.02
30 2 0.05
31 21 0.51
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.30
Consensus pattern (31 bp):
AGCACTAAGTGTGCGAGCTGAATATATATAT
Found at i:60812029 original size:27 final size:27
Alignment explanation
Indices: 60811999--60812051 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
60811989 CTCATATATG
*
60811999 TAGGCTAGTATTACTGAAATACCCCTT
1 TAGGCTAGAATTACTGAAATACCCCTT
* *
60812026 TAGGGTAGAATTACTGAAATGCCCCT
1 TAGGCTAGAATTACTGAAATACCCCT
60812052 AGTTTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (27 bp):
TAGGCTAGAATTACTGAAATACCCCTT
Found at i:60812064 original size:27 final size:27
Alignment explanation
Indices: 60812042--60812210 Score: 130
Period size: 27 Copynumber: 6.3 Consensus size: 27
60812032 AGAATTACTG
* *
60812042 AAATGCCCCTAGTTTGTAAAATTACCA
1 AAATACCCCTAATTTGTAAAATTACCA
* *
60812069 AAATACCCCTAATTTGTGAAATTACCG
1 AAATACCCCTAATTTGTAAAATTACCA
** * *
60812096 AAGCA-CCCTCGACTTGTAAAATTACCA
1 AAATACCCCT-AATTTGTAAAATTACCA
* ***
60812123 AAATA-CCCTCAATTTAT-AAATTATTG
1 AAATACCCCT-AATTTGTAAAATTACCA
* *
60812149 AAATA-CTCTCGATTTGTAAAATTACCA
1 AAATACCCCT-AATTTGTAAAATTACCA
** *
60812176 AAATACCCCTAATTTACAAAATTACAA
1 AAATACCCCTAATTTGTAAAATTACCA
60812203 AAATACCC
1 AAATACCC
60812211 TTGACTTTCA
Statistics
Matches: 110, Mismatches: 29, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
26 24 0.22
27 83 0.75
28 3 0.03
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.29
Consensus pattern (27 bp):
AAATACCCCTAATTTGTAAAATTACCA
Found at i:60812092 original size:54 final size:54
Alignment explanation
Indices: 60812034--60812200 Score: 191
Period size: 53 Copynumber: 3.1 Consensus size: 54
60812024 TTTAGGGTAG
* *
60812034 AATTACTGAAATGCCCCTAG-TTTGTAAAATTACCAAAATACCCCTAATTTGTGA
1 AATTACTGAAATGCCCCTCGATTTGTAAAATTACCAAAATACCCCTAATTTAT-A
* *
60812088 AATTACCG-AA-GCACCCTCGACTTGTAAAATTACCAAAATA-CCCTCAATTTATA
1 AATTACTGAAATGC-CCCTCGATTTGTAAAATTACCAAAATACCCCT-AATTTATA
* * * *
60812141 AATTATTGAAAT-ACTCTCGATTTGTAAAATTACCAAAATACCCCTAATTTACAA
1 AATTACTGAAATGCCCCTCGATTTGTAAAATTACCAAAATACCCCTAATTTA-TA
60812195 AATTAC
1 AATTAC
60812201 AAAAATACCC
Statistics
Matches: 95, Mismatches: 11, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
52 2 0.02
53 49 0.52
54 44 0.46
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.31
Consensus pattern (54 bp):
AATTACTGAAATGCCCCTCGATTTGTAAAATTACCAAAATACCCCTAATTTATA
Found at i:60812222 original size:27 final size:28
Alignment explanation
Indices: 60812166--60812267 Score: 111
Period size: 27 Copynumber: 3.8 Consensus size: 28
60812156 CTCGATTTGT
* *
60812166 AAAATTACCAAAATACCCCT-AATTTAC
1 AAAATTACAAAAATACCCTTGAATTTAC
*
60812193 AAAATTACAAAAATACCCTTGACTTT-C
1 AAAATTACAAAAATACCCTTGAATTTAC
* * * *
60812220 AAAATTACAGAAATACCATTG-GTTTGC
1 AAAATTACAAAAATACCCTTGAATTTAC
*
60812247 AAAATTACTAAAATACCCTTG
1 AAAATTACAAAAATACCCTTG
60812268 GTTTGTAGAT
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
26 3 0.05
27 57 0.89
28 4 0.06
ACGTcount: A:0.45, C:0.21, G:0.06, T:0.28
Consensus pattern (28 bp):
AAAATTACAAAAATACCCTTGAATTTAC
Found at i:60812224 original size:54 final size:53
Alignment explanation
Indices: 60812058--60812265 Score: 179
Period size: 54 Copynumber: 3.9 Consensus size: 53
60812048 CCCTAGTTTG
*** ** **
60812058 TAAAATTACCAAAATACCCCTAATTTGTGAAATTACCGAAGCACCCTCGACTT
1 TAAAATTACCAAAATACCCCTAATTTACAAAATTACTAAAATACCCTCGACTT
* * * * *
60812111 GTAAAATTACCAAAATA-CCCTCAATTTA-TAAATTATTGAAATACTCTCGATTT
1 -TAAAATTACCAAAATACCCCT-AATTTACAAAATTACTAAAATACCCTCGACTT
* *
60812164 GTAAAATTACCAAAATACCCCTAATTTACAAAATTACAAAAATACCCTTGACTT
1 -TAAAATTACCAAAATACCCCTAATTTACAAAATTACTAAAATACCCTCGACTT
** ** *
60812218 TCAAAATTA-CAGAAATACCATTGGTTTGCAAAATTACTAAAATACCCT
1 T-AAAATTACCA-AAATACCCCTAATTTACAAAATTACTAAAATACCCT
60812266 TGGTTTGTAG
Statistics
Matches: 128, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
53 48 0.38
54 80 0.62
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.30
Consensus pattern (53 bp):
TAAAATTACCAAAATACCCCTAATTTACAAAATTACTAAAATACCCTCGACTT
Found at i:60812578 original size:41 final size:41
Alignment explanation
Indices: 60812531--60812608 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
60812521 GGAGGAAGAA
*
60812531 ATTGAGGATCACATGGTTGCTTGACGATCGTGGATCCGCCG
1 ATTGAGGATCACATGGTTGCTTGACGACCGTGGATCCGCCG
* * *
60812572 ATTGAGGATCGCATGGTTGTTTGGCGACCGTGGATCC
1 ATTGAGGATCACATGGTTGCTTGACGACCGTGGATCC
60812609 ACCAGTGGCT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.18, C:0.21, G:0.33, T:0.28
Consensus pattern (41 bp):
ATTGAGGATCACATGGTTGCTTGACGACCGTGGATCCGCCG
Found at i:60814497 original size:8 final size:8
Alignment explanation
Indices: 60814484--60814516 Score: 66
Period size: 8 Copynumber: 4.1 Consensus size: 8
60814474 ATTAGGGACT
60814484 AAAATGTG
1 AAAATGTG
60814492 AAAATGTG
1 AAAATGTG
60814500 AAAATGTG
1 AAAATGTG
60814508 AAAATGTG
1 AAAATGTG
60814516 A
1 A
60814517 GGGCTAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (8 bp):
AAAATGTG
Found at i:60814997 original size:42 final size:43
Alignment explanation
Indices: 60814936--60815018 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 43
60814926 TATGATTTAC
60814936 GTGTAAAACCATGTCTAGGACA-TCGGCATC-ATATTTGATTTT
1 GTGTAAAACCATGTCTAGGACAGT-GGCATCGATATTTGATTTT
* * *
60814978 GTGTAAGACCTTGTTTAGGACAGTGGCATCGATATTTGATT
1 GTGTAAAACCATGTCTAGGACAGTGGCATCGATATTTGATT
60815019 ACATGTAAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
42 25 0.69
43 11 0.31
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (43 bp):
GTGTAAAACCATGTCTAGGACAGTGGCATCGATATTTGATTTT
Found at i:60815048 original size:43 final size:43
Alignment explanation
Indices: 60814877--60815049 Score: 145
Period size: 43 Copynumber: 4.0 Consensus size: 43
60814867 GACATAGGAT
* * * *
60814877 TCGATATGTG-TTATCGTGTAAGACCACGTTTGGGACGTTGGCA
1 TCGATATTTGATTA-CGTGTAAGACCACGTCTAGGACATTGGCA
* * * *
60814920 TCGACT-TATGATTTACGTGTAAAACCATGTCTAGGACATCGGCA
1 TCGA-TATTTGA-TTACGTGTAAGACCACGTCTAGGACATTGGCA
** ** * *
60814964 TC-ATATTTGATTTTGTGTAAGACCTTGTTTAGGACAGTGGCA
1 TCGATATTTGATTACGTGTAAGACCACGTCTAGGACATTGGCA
* * *
60815006 TCGATATTTGATTACATGTAAGACCACGTCTGGGACTTTGGCA
1 TCGATATTTGATTACGTGTAAGACCACGTCTAGGACATTGGCA
60815049 T
1 T
60815050 TGTACGAGCT
Statistics
Matches: 101, Mismatches: 24, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
42 28 0.28
43 44 0.44
44 26 0.26
45 3 0.03
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (43 bp):
TCGATATTTGATTACGTGTAAGACCACGTCTAGGACATTGGCA
Found at i:60831084 original size:22 final size:22
Alignment explanation
Indices: 60831059--60831126 Score: 61
Period size: 22 Copynumber: 3.2 Consensus size: 22
60831049 AGCTACAAAA
60831059 ACCAAACTAAGCATATTTGTAC
1 ACCAAACTAAGCATATTTGTAC
** * ***
60831081 ACCAATTTCAGC-TA--CAAAC
1 ACCAAACTAAGCATATTTGTAC
60831100 ACCAAACTAAGCATATTTGTAC
1 ACCAAACTAAGCATATTTGTAC
60831122 ACCAA
1 ACCAA
60831127 TTTCAGCTAG
Statistics
Matches: 31, Mismatches: 12, Indels: 6
0.63 0.24 0.12
Matches are distributed among these distances:
19 11 0.35
20 2 0.06
21 2 0.06
22 16 0.52
ACGTcount: A:0.43, C:0.26, G:0.07, T:0.24
Consensus pattern (22 bp):
ACCAAACTAAGCATATTTGTAC
Found at i:60831094 original size:41 final size:41
Alignment explanation
Indices: 60831049--60831135 Score: 165
Period size: 41 Copynumber: 2.1 Consensus size: 41
60831039 ATTAGGTCAA
60831049 AGCTACAAAAACCAAACTAAGCATATTTGTACACCAATTTC
1 AGCTACAAAAACCAAACTAAGCATATTTGTACACCAATTTC
*
60831090 AGCTACAAACACCAAACTAAGCATATTTGTACACCAATTTC
1 AGCTACAAAAACCAAACTAAGCATATTTGTACACCAATTTC
60831131 AGCTA
1 AGCTA
60831136 GTCTCTATAC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.43, C:0.25, G:0.08, T:0.24
Consensus pattern (41 bp):
AGCTACAAAAACCAAACTAAGCATATTTGTACACCAATTTC
Found at i:60832034 original size:40 final size:41
Alignment explanation
Indices: 60831955--60832054 Score: 98
Period size: 41 Copynumber: 2.4 Consensus size: 41
60831945 GAAGCTACCT
*
60831955 CATTATCGCACACTTAGTGCCTAATATAGCCAAAGCTA-TTC
1 CATT-TCGCACACTTAGTGCCTAATATAACCAAAGCTATTTC
* *
60831996 CATTTCGCACACTTAGTG-CTATTTATAACCGCAA-CTATTTC
1 CATTTCGCACACTTAGTGCCTA-ATATAACC-AAAGCTATTTC
** *
60832037 CAAATCGCACACCTAGTG
1 CATTTCGCACACTTAGTG
60832055 TCGAATACCT
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
39 3 0.06
40 23 0.46
41 24 0.48
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.30
Consensus pattern (41 bp):
CATTTCGCACACTTAGTGCCTAATATAACCAAAGCTATTTC
Found at i:60837400 original size:29 final size:29
Alignment explanation
Indices: 60837368--60837502 Score: 234
Period size: 29 Copynumber: 4.7 Consensus size: 29
60837358 GCTTGGAAGG
60837368 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
60837397 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
60837426 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
* **
60837455 TATGGCACTAAGTGTGCAAACTTAAATCG
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
60837484 CATGGCACTAAGTGTGCGA
1 TATGGCACTAAGTGTGCGA
60837503 GATCGTTTAT
Statistics
Matches: 101, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 101 1.00
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (29 bp):
TATGGCACTAAGTGTGCGAACTTAAATTA
Found at i:60845517 original size:29 final size:29
Alignment explanation
Indices: 60845485--60845619 Score: 225
Period size: 29 Copynumber: 4.7 Consensus size: 29
60845475 GCTTGGAAGG
60845485 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
60845514 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
60845543 TATGGCACTAAGTGTGCAAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
* **
60845572 TATGGCACTAAGTGTGCAAACTTAAATCG
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
60845601 CATGGCACTAAGTGTGCGA
1 TATGGCACTAAGTGTGCGA
60845620 GATCGTTTAT
Statistics
Matches: 101, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 101 1.00
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (29 bp):
TATGGCACTAAGTGTGCGAACTTAAATTA
Found at i:60855099 original size:29 final size:28
Alignment explanation
Indices: 60854997--60855099 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 28
60854987 GTGACAAGAT
*
60854997 TGGCACTAAGTGTGCAAGCTTGAAA-AGTA
1 TGGCACTAAGTGTGCGAGCTT-AAATA-TA
**
60855026 TGGCACTAAGTGTGCGAATTTAAATTATA
1 TGGCACTAAGTGTGCGAGCTTAAA-TATA
* *
60855055 TGGCACTATGTGTGCGAGCTTAAATCACA
1 TGGCACTAAGTGTGCGAGCTTAAAT-ATA
60855084 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
60855100 TGATCGATTA
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
28 4 0.06
29 58 0.92
30 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTAAATATA
Found at i:60863860 original size:40 final size:39
Alignment explanation
Indices: 60863815--60864022 Score: 227
Period size: 40 Copynumber: 5.2 Consensus size: 39
60863805 CGGAATACAA
*
60863815 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
60863855 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
60863895 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
60863935 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
60863975 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
60864015 CCGGATAT
1 CCGGATAT
60864023 CATTCAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:60863955 original size:80 final size:80
Alignment explanation
Indices: 60863815--60864021 Score: 254
Period size: 80 Copynumber: 2.6 Consensus size: 80
60863805 CGGAATACAA
* * * *
60863815 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTAGCACAAATG
*
60863880 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
* * *
60863895 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTAGCCACTAGCACAATT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAG-AACCACTAGCACAAAT
*
60863959 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
60863975 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
60864022 TCATTCAATT
Statistics
Matches: 108, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
79 1 0.01
80 107 0.99
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:60871804 original size:40 final size:40
Alignment explanation
Indices: 60871759--60871966 Score: 220
Period size: 40 Copynumber: 5.2 Consensus size: 40
60871749 CGGAATACAA
*
60871759 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* * * *
60871799 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* *
60871839 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* * * * *
60871879 CCGGATGTAGCCACTAGCAC-AATTACCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACGAA-TGCCTTCGGGTCTTAGC
** * ** * * *
60871919 CCGGATATAATTACTAGCATAAATGTCTTTGGGACTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
60871959 CCGGATAT
1 CCGGATAT
60871967 CATTCAATTG
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
39 2 0.01
40 136 0.97
41 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:60892767 original size:43 final size:42
Alignment explanation
Indices: 60892646--60892783 Score: 129
Period size: 43 Copynumber: 3.2 Consensus size: 42
60892636 TGTGTTATCG
*
60892646 TGTAAGACCAC-ATCTGGGACATTGGCATCGACT-TATGATTTACA
1 TGTAAGACC-CTATCTGGGACA-TGGCATCGA-TATTTGATTT-CA
* * * * * *
60892690 TGCAAAACCATGTCTGAGACATCAGCATCG-TATTTGATTTCA
1 TGTAAGACCCTATCTGGGACAT-GGCATCGATATTTGATTTCA
*
60892732 TGTAAGACCCTATCTGGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCCTATCTGGGACA-TGGCATCGATATTTGATTTCA
60892775 TGTAAGACC
1 TGTAAGACC
60892784 ACGTCTAGGA
Statistics
Matches: 75, Mismatches: 14, Indels: 11
0.75 0.14 0.11
Matches are distributed among these distances:
42 25 0.33
43 29 0.39
44 21 0.28
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (42 bp):
TGTAAGACCCTATCTGGGACATGGCATCGATATTTGATTTCA
Found at i:60893423 original size:2 final size:2
Alignment explanation
Indices: 60893416--60893449 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
60893406 GGTAAATTTG
60893416 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
60893450 GACCTAGTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:60895900 original size:48 final size:47
Alignment explanation
Indices: 60895782--60896060 Score: 178
Period size: 48 Copynumber: 5.9 Consensus size: 47
60895772 CACATGAAAA
* * *
60895782 GATGCCAATGCCATGTCCCAGACGTGGTCTTACATGGGATCTCGCAT-C
1 GATGCCGATGCCATGTCCCAGACATGGTCTTACACGGGATCT--CATAC
* * * *
60895830 AATGCC-A--ACA--ACCCAG-CTATGGTCTTACAC-GAAGTCTCATAAC
1 GATGCCGATGCCATGTCCCAGAC-ATGGTCTTACACGGGA-TCTCAT-AC
* * * *
60895873 GGTGCCGATGCCATGTCCCAGACATGGTCTTATACGGGACCTCATGTC
1 GATGCCGATGCCATGTCCCAGACATGGTCTTACACGGGATCTCAT-AC
* * * *
60895921 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCTCATAC
1 GATGCCGATGCCATGTCCCAGACATGGTCTTACACGGGATCTCATAC
* * ** * * *
60895968 TGATACCGATGCCATGTCCCAGACGTCATCTTATATGGGATCTCTTATC
1 -GATGCCGATGCCATGTCCCAGACATGGTCTTACACGGGATCTCATA-C
* * * * **
60896017 AATGCCGATGCCATATCCTAGATATGGTCTTACACTAGATCTCA
1 GATGCCGATGCCATGTCCCAGACATGGTCTTACACGGGATCTCA
60896061 ATACTCACAT
Statistics
Matches: 173, Mismatches: 45, Indels: 26
0.71 0.18 0.11
Matches are distributed among these distances:
41 3 0.02
42 3 0.02
43 23 0.13
44 1 0.01
45 2 0.01
46 2 0.01
47 2 0.01
48 133 0.77
49 4 0.02
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (47 bp):
GATGCCGATGCCATGTCCCAGACATGGTCTTACACGGGATCTCATAC
Found at i:60896058 original size:96 final size:95
Alignment explanation
Indices: 60895789--60896065 Score: 289
Period size: 96 Copynumber: 2.9 Consensus size: 95
60895779 AAAGATGCCA
* ** * *
60895789 ATGCCATGTCCCAGACGTGGTCTTACATGGGATCTCGCATCAATGCCA--ACA-A-CCCAGCTAT
1 ATGCCATGTCCCAGACGTGGTCTTATATGGGATCTCATATCAATGCCATGCCATATCCCAGATAT
* * *
60895850 GGTCTTACACGA-AGTCTCATAAC-GGTGCCG
66 GGTCTTACACTAGA-TCTCAT-ACTGATACCG
* * * * *
60895880 ATGCCATGTCCCAGACATGGTCTTATACGGGACCTCATGTCGATGCCAATGCCATATCCCAGATA
1 ATGCCATGTCCCAGACGTGGTCTTATATGGGATCTCATATCAATGCC-ATGCCATATCCCAGATA
*
60895945 TGGTCTTACA-TGGGATCTCATACTGATACCG
65 TGGTCTTACACT-AGATCTCATACTGATACCG
** * *
60895976 ATGCCATGTCCCAGACGTCATCTTATATGGGATCTCTTATCAATGCCGATGCCATATCCTAGATA
1 ATGCCATGTCCCAGACGTGGTCTTATATGGGATCTCATATCAATGCC-ATGCCATATCCCAGATA
60896041 TGGTCTTACACTAGATCTCAATACT
65 TGGTCTTACACTAGATCTC-ATACT
60896066 CACATGTCAT
Statistics
Matches: 151, Mismatches: 25, Indels: 14
0.79 0.13 0.07
Matches are distributed among these distances:
91 39 0.26
92 1 0.01
94 2 0.01
95 3 0.02
96 99 0.66
97 7 0.05
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.27
Consensus pattern (95 bp):
ATGCCATGTCCCAGACGTGGTCTTATATGGGATCTCATATCAATGCCATGCCATATCCCAGATAT
GGTCTTACACTAGATCTCATACTGATACCG
Found at i:60896232 original size:3 final size:3
Alignment explanation
Indices: 60896224--60896263 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
60896214 CATTAAACAT
60896224 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
60896264 CATGTTGAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:60897955 original size:28 final size:28
Alignment explanation
Indices: 60897909--60897977 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
60897899 TTTAAAACCC
*
60897909 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
60897936 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
60897964 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
60897978 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:60902935 original size:48 final size:48
Alignment explanation
Indices: 60902796--60902936 Score: 126
Period size: 48 Copynumber: 2.9 Consensus size: 48
60902786 AGACCTCATG
* *
60902796 TCGATGCCAATGCCATATCCCAAATATGGTCTTGCATGGGA--TCTTA
1 TCGATGCCGATGCCATATCCCAAATATGGTCTTACATGGGATCTCTTA
** ** * * * *
60902842 TACTGATATCGATGCCACGTCCTAAACGA-GGTTTTATATGGGATCTCTTA
1 T-C-GATGCCGATGCCATATCCCAAA-TATGGTCTTACATGGGATCTCTTA
* *
60902892 TCGAGGCCGATGCCATATCCCAAATATGGTCTTACATGAGATCTC
1 TCGATGCCGATGCCATATCCCAAATATGGTCTTACATGGGATCTC
60902937 AATATTCACA
Statistics
Matches: 69, Mismatches: 20, Indels: 10
0.70 0.20 0.10
Matches are distributed among these distances:
46 1 0.01
47 2 0.03
48 58 0.84
49 2 0.03
50 6 0.09
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.30
Consensus pattern (48 bp):
TCGATGCCGATGCCATATCCCAAATATGGTCTTACATGGGATCTCTTA
Found at i:60904037 original size:13 final size:13
Alignment explanation
Indices: 60904019--60904044 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
60904009 GCCCAAACGT
60904019 CAAAATTTTCAAA
1 CAAAATTTTCAAA
60904032 CAAAATTTTCAAA
1 CAAAATTTTCAAA
60904045 AAATCATTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (13 bp):
CAAAATTTTCAAA
Found at i:60905203 original size:18 final size:18
Alignment explanation
Indices: 60905161--60905207 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
60905151 TGGACCATTA
*
60905161 CAATAACAATAATTAGTG
1 CAATAACAATAATCAGTG
* * *
60905179 TAGTAACAGTAATCAGTG
1 CAATAACAATAATCAGTG
60905197 CAATAACAATA
1 CAATAACAATA
60905208 CACAAGTCCT
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.49, C:0.13, G:0.13, T:0.26
Consensus pattern (18 bp):
CAATAACAATAATCAGTG
Found at i:60905567 original size:27 final size:27
Alignment explanation
Indices: 60905524--60905840 Score: 415
Period size: 27 Copynumber: 11.8 Consensus size: 27
60905514 GTATACATCG
* * *
60905524 CATAA-GGAAAAACAGTCATCTTACCA
1 CATAAGGGCAAAATAGTCATTTTACCA
*
60905550 TATAAGGGCAAAATAGTCATTTTACCA
1 CATAAGGGCAAAATAGTCATTTTACCA
*
60905577 CATAAGGGCAAAATAGTCATTTTACTA
1 CATAAGGGCAAAATAGTCATTTTACCA
* *
60905604 CATAAGGGTAAAAAAGTCATTTTACCA
1 CATAAGGGCAAAATAGTCATTTTACCA
*
60905631 CATAAGGGCAAAACAGTCATTTTACCA
1 CATAAGGGCAAAATAGTCATTTTACCA
* *
60905658 CATTAA-GGCAAAATAGTCACTATACCA
1 CA-TAAGGGCAAAATAGTCATTTTACCA
** * *
60905685 CATAAAAGCAAAGTAGTCATTTTACCG
1 CATAAGGGCAAAATAGTCATTTTACCA
*
60905712 CATATGGGCAAAATAGTCATTTTACCA
1 CATAAGGGCAAAATAGTCATTTTACCA
*
60905739 CA-AAGGGCAAAATAATCATTTTACCA
1 CATAAGGGCAAAATAGTCATTTTACCA
* *
60905765 TACAAGGGCAAAATAGTCATTTTACCA
1 CATAAGGGCAAAATAGTCATTTTACCA
* *
60905792 CATAAGGGCAAAACAATCATTTTACCA
1 CATAAGGGCAAAATAGTCATTTTACCA
*
60905819 TATAAGGGCAAAATAGTCATTT
1 CATAAGGGCAAAATAGTCATTT
60905841 ATCAATTTGG
Statistics
Matches: 252, Mismatches: 35, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
26 30 0.12
27 219 0.87
28 3 0.01
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (27 bp):
CATAAGGGCAAAATAGTCATTTTACCA
Found at i:60911866 original size:27 final size:27
Alignment explanation
Indices: 60911833--60911899 Score: 98
Period size: 27 Copynumber: 2.5 Consensus size: 27
60911823 AGCTGCTAGA
60911833 AACAGTAAATGTGGCAAAGCCACCAGT
1 AACAGTAAATGTGGCAAAGCCACCAGT
* * *
60911860 AATAGTAATTGTGGCATAGCCACCAGT
1 AACAGTAAATGTGGCAAAGCCACCAGT
*
60911887 AACAGTGAATGTG
1 AACAGTAAATGTG
60911900 ACATAGTCAC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (27 bp):
AACAGTAAATGTGGCAAAGCCACCAGT
Found at i:60911904 original size:27 final size:26
Alignment explanation
Indices: 60911833--60911911 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 26
60911823 AGCTGCTAGA
*
60911833 AACAGTAAATGTGGCAAAGCCACCAGT
1 AACAGT-AATGTGGCATAGCCACCAGT
*
60911860 AATAGTAATTGTGGCATAGCCACCAGT
1 AACAGTAA-TGTGGCATAGCCACCAGT
* *
60911887 AACAGTGAATGTGACATAGTCACCA
1 AACAGT-AATGTGGCATAGCCACCA
60911912 ATACATTACT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
26 2 0.04
27 41 0.91
28 2 0.04
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (26 bp):
AACAGTAATGTGGCATAGCCACCAGT
Found at i:60912435 original size:27 final size:27
Alignment explanation
Indices: 60912056--60912429 Score: 426
Period size: 27 Copynumber: 13.9 Consensus size: 27
60912046 GGCATAATCA
* * * *
60912056 TCATTTTACCATATAGGTGTATTACGG
1 TCATTTTACCCTACAGGGGCATTACGG
* *
60912083 TCGTTTTACCCTACAGGGGAATTACGG
1 TCATTTTACCCTACAGGGGCATTACGG
* ** *
60912110 TCATTTTATCCTTTAGGGGCATTACGT
1 TCATTTTACCCTACAGGGGCATTACGG
* *
60912137 TCATTTTACCCTACAAGGGAATTACGG
1 TCATTTTACCCTACAGGGGCATTACGG
*
60912164 TCATTTTACCCTACAAGGGCATTACGG
1 TCATTTTACCCTACAGGGGCATTACGG
*
60912191 TCATTTTACCCTATAGGGGCATTACGG
1 TCATTTTACCCTACAGGGGCATTACGG
* * *
60912218 TCATTTTACCTTACAGGGGGATTACAG
1 TCATTTTACCCTACAGGGGCATTACGG
* *
60912245 TCATTTTACCTTACAAGGGCATTACGG
1 TCATTTTACCCTACAGGGGCATTACGG
* * ** *
60912272 TCATTTTATCCTACAGAGTTATTACAG
1 TCATTTTACCCTACAGGGGCATTACGG
*
60912299 TCATTTTTCCCTACAGGGGCATTACGG
1 TCATTTTACCCTACAGGGGCATTACGG
*
60912326 TCA-TTTACCCTATAGGGGCATTACGG
1 TCATTTTACCCTACAGGGGCATTACGG
* * **
60912352 TCATTTTACCCTACAAGGGTATTACAA
1 TCATTTTACCCTACAGGGGCATTACGG
* *
60912379 TCATTTTACCCTACAAGGGTATTACGG
1 TCATTTTACCCTACAGGGGCATTACGG
* * *
60912406 TTATTTTACCCTATAGGGGTATTA
1 TCATTTTACCCTACAGGGGCATTA
60912430 TGGTTAAATA
Statistics
Matches: 294, Mismatches: 52, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
26 24 0.08
27 270 0.92
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
TCATTTTACCCTACAGGGGCATTACGG
Found at i:60914526 original size:272 final size:272
Alignment explanation
Indices: 60914040--60914577 Score: 950
Period size: 272 Copynumber: 2.0 Consensus size: 272
60914030 GACAAGAGAA
* **
60914040 CAAAATAAATACTCTTCTTACCTTGCCACGACTTGAACCTTAGACCTCAAGAAAACTACACACGC
1 CAAAATAAATACTCTTCTTACCTTGCCACAACTTGAACCTTAGACCTCAAGAAAACTACACACAA
*
60914105 CACGTACCACTGCACCATAAGCTCTTTTCATGACACATTTTACCCACAAATATTTATAAGGCCTA
66 CACCTACCACTGCACCATAAGCTCTTTTCATGACACATTTTACCCACAAATATTTATAAGGCCTA
60914170 CAAGCTAAAGCCAAGGTTCACTTAAGGGGAAAAACTAAAATTTTTGCAAAAGCCCAGACTTGAAC
131 CAAGCTAAAGCCAAGGTTCACTTAAGGGGAAAAACTAAAATTTTTGCAAAAGCCCAGACTTGAAC
* *
60914235 CCAGGCTTCTCAAACACTCCCAACCACATCCAAATCACTTAGCCAATAAAGCAAACATGAATTTT
196 CCAGGCTTCTCAAACACTCCCAACCACACCCAAATCACTTAGCCAATAAAGCAAACATGAAATTT
60914300 GTGCCAAAAGAG
261 GTGCCAAAAGAG
* *
60914312 CAAAATAAATACTCTTCTTACCTTGCCACAACTTGAACCTTAGACCTCAAGAGAACTCCACACAA
1 CAAAATAAATACTCTTCTTACCTTGCCACAACTTGAACCTTAGACCTCAAGAAAACTACACACAA
**
60914377 CACCTACCACTGCACCATAAGCTCTTTTTGTGACACATTTTACCCACAAATATTTATAAGGCCTA
66 CACCTACCACTGCACCATAAGCTCTTTTCATGACACATTTTACCCACAAATATTTATAAGGCCTA
* *
60914442 CAAGCTAAAGCCAAGGTTCACTTAAGGGGAGAAAGTAAAATTTTTGCAAAAGCCCAGACTTGAAC
131 CAAGCTAAAGCCAAGGTTCACTTAAGGGGAAAAACTAAAATTTTTGCAAAAGCCCAGACTTGAAC
* *
60914507 CCAGGCTTCTCAAACACTCCCAACCTCACCCAAATCACTTAGCTAATAAAGCAAACATGAAATTT
196 CCAGGCTTCTCAAACACTCCCAACCACACCCAAATCACTTAGCCAATAAAGCAAACATGAAATTT
60914572 GTGCCA
261 GTGCCA
60914578 CTTTCTTGCT
Statistics
Matches: 252, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
272 252 1.00
ACGTcount: A:0.37, C:0.28, G:0.12, T:0.23
Consensus pattern (272 bp):
CAAAATAAATACTCTTCTTACCTTGCCACAACTTGAACCTTAGACCTCAAGAAAACTACACACAA
CACCTACCACTGCACCATAAGCTCTTTTCATGACACATTTTACCCACAAATATTTATAAGGCCTA
CAAGCTAAAGCCAAGGTTCACTTAAGGGGAAAAACTAAAATTTTTGCAAAAGCCCAGACTTGAAC
CCAGGCTTCTCAAACACTCCCAACCACACCCAAATCACTTAGCCAATAAAGCAAACATGAAATTT
GTGCCAAAAGAG
Found at i:60923908 original size:30 final size:30
Alignment explanation
Indices: 60923851--60923909 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
60923841 ATTCCTTAAA
* *
60923851 AATATTTACAAAAAGAGGCATTTAATTTTT
1 AATATTTACAAAAAGAGGCACTGAATTTTT
*
60923881 AATATTTACAGAAAGA-GCAACTGAATTTT
1 AATATTTACAAAAAGAGGC-ACTGAATTTT
60923910 GAAAATAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.36
Consensus pattern (30 bp):
AATATTTACAAAAAGAGGCACTGAATTTTT
Found at i:60932816 original size:40 final size:40
Alignment explanation
Indices: 60932761--60932935 Score: 212
Period size: 40 Copynumber: 4.4 Consensus size: 40
60932751 GATGATATCC
* * *
60932761 GGGCTAAGTCCCGAAGGCATCTGTGCAAGTTACTATACCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATACCT
* *
60932801 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTATATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATACCT
* * * *
60932841 GGGCTAAATCCCAAAGGCATTTATGCTAGTGACTATATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATACCT
* *
60932881 GGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTATA-CCT
60932921 -GGCTAAGTCCCGAAG
1 GGGCTAAGTCCCGAAG
60932936 ATACTTAGGT
Statistics
Matches: 117, Mismatches: 16, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
39 14 0.12
40 100 0.85
41 3 0.03
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATACCT
Found at i:60938111 original size:78 final size:80
Alignment explanation
Indices: 60937928--60938144 Score: 300
Period size: 78 Copynumber: 2.7 Consensus size: 80
60937918 GCTACTCGTT
*
60937928 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCA
60937992 GATTTAGTAACTCGCA
65 GATTTAGTAACTCGCA
* **
60938008 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTC-GGACTTAA-CTTG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAG
60938071 ATTTAGTAACTCGCA
66 ATTTAGTAACTCGCA
* * * *
60938086 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTA
60938145 GCCCGGACAT
Statistics
Matches: 124, Mismatches: 9, Indels: 9
0.87 0.06 0.06
Matches are distributed among these distances:
77 3 0.02
78 50 0.40
79 23 0.19
80 46 0.37
81 2 0.02
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAG
ATTTAGTAACTCGCA
Found at i:60938151 original size:40 final size:40
Alignment explanation
Indices: 60937928--60938151 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
60937918 GCTACTCGTT
*
60937928 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
60937968 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
60938008 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* **
60938048 CAAATGCCTTC-GGACTTA-ACTTGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
60938086 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
60938127 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
60938152 CATCATTCGA
Statistics
Matches: 165, Mismatches: 14, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
38 31 0.19
39 11 0.07
40 110 0.67
41 13 0.08
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:60946081 original size:40 final size:40
Alignment explanation
Indices: 60946044--60946229 Score: 261
Period size: 40 Copynumber: 4.7 Consensus size: 40
60946034 GCTACTCGTT
*
60946044 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
60946084 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
60946124 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
60946164 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
60946205 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
60946230 CATCATTCGA
Statistics
Matches: 134, Mismatches: 8, Indels: 8
0.89 0.05 0.05
Matches are distributed among these distances:
39 3 0.02
40 118 0.88
41 13 0.10
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:60952411 original size:40 final size:40
Alignment explanation
Indices: 60952352--60952532 Score: 249
Period size: 40 Copynumber: 4.5 Consensus size: 40
60952342 TATTCGGATG
* * *
60952352 ATATCCGGGCTAAGTCCCGAAGGCATCTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
60952392 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
60952432 ATATCCGGGCTAAATCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
60952472 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
60952512 ATATCC-GGCTAAGTCCTGAAG
1 ATATCCGGGCTAAGTCCCGAAG
60952533 ATACTTGGGT
Statistics
Matches: 125, Mismatches: 15, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
39 13 0.10
40 110 0.88
41 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:60956049 original size:29 final size:27
Alignment explanation
Indices: 60956015--60956117 Score: 89
Period size: 29 Copynumber: 3.6 Consensus size: 27
60956005 TACTCGATCA
*
60956015 CGCACACTTAGTGCCATGTGATTTAAGCC
1 CGCACACTTAGTGCCAT-T-ATTTAAGCT
* ** *
60956044 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTTAAGCT
*
60956073 CGCACACTTAGTGCCATACATTTCAAGCT
1 CGCACACTTAGTGCCAT-TATTT-AAGCT
*
60956102 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
60956118 ATCTCGTCAT
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
28 2 0.03
29 58 0.97
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.23
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTTAAGCT
Found at i:60967819 original size:40 final size:40
Alignment explanation
Indices: 60967713--60967896 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 40
60967703 TGCTGGAAAT
* * * * * **
60967713 TATAACCGGGTTAAGACCCGAAGGCAATGGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
*
60967753 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * *
60967793 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATC-G
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * * * * *
60967831 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCGGGTTAC
1 T-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * *
60967872 CATATCCGGGCTATGTCCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGC
60967897 GTTTGAACGA
Statistics
Matches: 115, Mismatches: 26, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
38 1 0.01
39 29 0.25
40 85 0.74
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.23
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
Found at i:60970520 original size:15 final size:16
Alignment explanation
Indices: 60970500--60970540 Score: 68
Period size: 15 Copynumber: 2.7 Consensus size: 16
60970490 AACCAAGATC
60970500 TCCAAGATAGA-GAAA
1 TCCAAGATAGAGGAAA
60970515 TCCAAGATA-AGGAAA
1 TCCAAGATAGAGGAAA
60970530 TCCAAGATAGA
1 TCCAAGATAGA
60970541 ATATCATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 1 0.04
15 22 0.92
16 1 0.04
ACGTcount: A:0.51, C:0.15, G:0.20, T:0.15
Consensus pattern (16 bp):
TCCAAGATAGAGGAAA
Found at i:60974087 original size:50 final size:50
Alignment explanation
Indices: 60974028--60974218 Score: 213
Period size: 50 Copynumber: 3.8 Consensus size: 50
60974018 CGAAGCTCTT
* * *
60974028 TGGTACACATAGTAACCTGTACTTAGTAC-ATCACATGCGACCTATCAATC
1 TGGTACACATAGTAGCCTGCACTTAGTACTA-CACATGTGACCTATCAATC
* * * * * *
60974078 TGGTACACATAGTAGCTTGCATTTAGTACTACACACGTGACTTAACCATC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATC
* * * **
60974128 TGATAGACGTAGTAGCCTAAACTTAGTACTACACATGTGACCTATCAATC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATC
* * *
60974178 TGGTACACGTAGTAGCTTGCACTTAGTACTACACACGTGAC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGAC
60974219 TCACAACGGA
Statistics
Matches: 114, Mismatches: 26, Indels: 2
0.80 0.18 0.01
Matches are distributed among these distances:
50 113 0.99
51 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (50 bp):
TGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATC
Found at i:60977197 original size:20 final size:20
Alignment explanation
Indices: 60977172--60977211 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
60977162 TGCAATTTTG
* *
60977172 AAAATTTTATAAGTTTCTGA
1 AAAATTCTATAAATTTCTGA
*
60977192 AAAATTCTCTAAATTTCTGA
1 AAAATTCTATAAATTTCTGA
60977212 TTTAGTCCCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.42
Consensus pattern (20 bp):
AAAATTCTATAAATTTCTGA
Found at i:60980488 original size:40 final size:40
Alignment explanation
Indices: 60980433--60980520 Score: 149
Period size: 40 Copynumber: 2.2 Consensus size: 40
60980423 TATTCGGATG
*
60980433 ATATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACT
1 ATATCCGGACTAAGATCCGAAGGCAATTGTGCTAGTTACT
*
60980473 ATATCCGGACTAAGATCCGAAGGCAATTGTGCTAGTTATT
1 ATATCCGGACTAAGATCCGAAGGCAATTGTGCTAGTTACT
*
60980513 ATAACCGG
1 ATATCCGG
60980521 GTTAAGTCCC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (40 bp):
ATATCCGGACTAAGATCCGAAGGCAATTGTGCTAGTTACT
Found at i:60980595 original size:40 final size:40
Alignment explanation
Indices: 60980449--60980595 Score: 145
Period size: 40 Copynumber: 3.7 Consensus size: 40
60980439 GGACTAAGAT
* * * * * **
60980449 CCGAAGGCATTTGTGCTAGTTACTATATCCGGACTAAGAT-
1 CCGAAGGCATTCGTGCTGGTTATTACAACCGGGTTAAG-TC
* *
60980489 CCGAAGGCAATT-GTGCTAGTTATTATAACCGGGTTAAGTC
1 CCGAAGGC-ATTCGTGCTGGTTATTACAACCGGGTTAAGTC
* * *
60980529 CCGAAGGTATTCGTGCAGGTTATTACAACCGGGTTATGTC
1 CCGAAGGCATTCGTGCTGGTTATTACAACCGGGTTAAGTC
*
60980569 CCGAAGGCATTCGTGCTGGTTGTTACA
1 CCGAAGGCATTCGTGCTGGTTATTACA
60980596 TCCGAGCCAA
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
39 4 0.04
40 85 0.92
41 3 0.03
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCTGGTTATTACAACCGGGTTAAGTC
Found at i:60982976 original size:17 final size:18
Alignment explanation
Indices: 60982934--60982979 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 18
60982924 TATCATTTAC
**
60982934 CATTTATCAAGCATTATT
1 CATTTATCGGGCATTATT
*
60982952 -ATTGATCGGGCATT-TT
1 CATTTATCGGGCATTATT
60982968 CATTTATCGGGC
1 CATTTATCGGGC
60982980 TATACAATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 2 0.09
17 21 0.91
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.41
Consensus pattern (18 bp):
CATTTATCGGGCATTATT
Found at i:60991466 original size:13 final size:13
Alignment explanation
Indices: 60991448--60991472 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60991438 TTCAATTCAG
60991448 ATTTTTACAACTC
1 ATTTTTACAACTC
60991461 ATTTTTACAACT
1 ATTTTTACAACT
60991473 TTTACAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTTTACAACTC
Found at i:60993271 original size:54 final size:54
Alignment explanation
Indices: 60993212--60993446 Score: 213
Period size: 54 Copynumber: 4.1 Consensus size: 54
60993202 AGCATGGCTG
*
60993212 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * * *
60993266 CCAGAATAGATATATGTGGCAGAGCCACGAGATCAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
*
60993320 CCAGATCAGCCACCAGATCAGATATATGTGGCAGAGCCACCAGATCAGATATAT-GTGGCAGAGC
1 -C----CAG-----A-A-CAGATATATGTGACAGAGCCACCAGATCAGATA-ATCGTGGCAGAGC
60993384 CA
53 CA
* * * * * *
60993386 CCAGATCAGATATTTGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
60993440 CCAGAAC
1 CCAGAAC
60993447 GCTTCCTCCA
Statistics
Matches: 152, Mismatches: 14, Indels: 30
0.78 0.07 0.15
Matches are distributed among these distances:
53 1 0.01
54 79 0.52
55 18 0.12
56 1 0.01
59 3 0.02
61 3 0.02
64 1 0.01
65 2 0.01
66 43 0.28
67 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.18
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:60993326 original size:27 final size:27
Alignment explanation
Indices: 60993212--60993328 Score: 141
Period size: 27 Copynumber: 4.3 Consensus size: 27
60993202 AGCATGGCTG
* * *
60993212 CCAGAACAGATA-ATGTGACAGAGTCA
1 CCAGATCAGATATATGTGGCAGAGCCA
60993238 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGAT-CAGATATAT-GTGGCAGAGCCA
60993266 CCAGAAT-AGATATATGTGGCAGAGCCA
1 CCAG-ATCAGATATATGTGGCAGAGCCA
* *
60993293 CGAGATCAGATATTTGTGGCAGAGCCA
1 CCAGATCAGATATATGTGGCAGAGCCA
60993320 CCAGATCAG
1 CCAGATCAG
60993329 CCACCAGATC
Statistics
Matches: 80, Mismatches: 6, Indels: 9
0.84 0.06 0.09
Matches are distributed among these distances:
26 7 0.09
27 55 0.69
28 16 0.20
29 2 0.03
ACGTcount: A:0.36, C:0.21, G:0.26, T:0.17
Consensus pattern (27 bp):
CCAGATCAGATATATGTGGCAGAGCCA
Found at i:60993332 original size:12 final size:12
Alignment explanation
Indices: 60993315--60993340 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
60993305 TTTGTGGCAG
60993315 AGCCACCAGATC
1 AGCCACCAGATC
60993327 AGCCACCAGATC
1 AGCCACCAGATC
60993339 AG
1 AG
60993341 ATATATGTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.38, G:0.19, T:0.08
Consensus pattern (12 bp):
AGCCACCAGATC
Found at i:60993342 original size:39 final size:39
Alignment explanation
Indices: 60993288--60993367 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
60993278 TATGTGGCAG
* *
60993288 AGCCACGAGATCAGATATTTGTGGCAGAGCCACCAGATC
1 AGCCACCAGATCAGATATATGTGGCAGAGCCACCAGATC
60993327 AGCCACCAGATCAGATATATGTGGCAGAGCCACCAGATC
1 AGCCACCAGATCAGATATATGTGGCAGAGCCACCAGATC
60993366 AG
1 AG
60993368 ATATATGTGG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.33, C:0.26, G:0.25, T:0.16
Consensus pattern (39 bp):
AGCCACCAGATCAGATATATGTGGCAGAGCCACCAGATC
Found at i:60993356 original size:93 final size:94
Alignment explanation
Indices: 60993236--60993421 Score: 324
Period size: 93 Copynumber: 2.0 Consensus size: 94
60993226 GTGACAGAGT
*
60993236 CACCAGATACAGATAATCGTGGCAGAGCCACCAGAAT-AGATATATGTGGCAGAGCCACGAGATC
1 CACCAGATACAGATAATCGTGGCAGAGCCACCAG-ATCAGATATATGTGGCAGAGCCACCAGATC
60993300 AGATATTTGTGGCAGAGCCACCAGATCAGC
65 AGATATTTGTGGCAGAGCCACCAGATCAGC
60993330 CACCAGAT-CAGATATAT-GTGGCAGAGCCACCAGATCAGATATATGTGGCAGAGCCACCAGATC
1 CACCAGATACAGATA-ATCGTGGCAGAGCCACCAGATCAGATATATGTGGCAGAGCCACCAGATC
60993393 AGATATTTGTGGCAGAGCCACCAGATCAG
65 AGATATTTGTGGCAGAGCCACCAGATCAG
60993422 ATATTTGTGG
Statistics
Matches: 89, Mismatches: 1, Indels: 5
0.94 0.01 0.05
Matches are distributed among these distances:
92 2 0.02
93 77 0.87
94 10 0.11
ACGTcount: A:0.33, C:0.24, G:0.25, T:0.18
Consensus pattern (94 bp):
CACCAGATACAGATAATCGTGGCAGAGCCACCAGATCAGATATATGTGGCAGAGCCACCAGATCA
GATATTTGTGGCAGAGCCACCAGATCAGC
Done.