Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold3683
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: 33907
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.31
Found at i:7094 original size:27 final size:27
Alignment explanation
Indices: 7064--7241 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
7054 ATATTGAGTC
* * * *
7064 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
7091 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
7118 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
7146 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
7173 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
7200 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
7227 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
7242 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:7203 original size:82 final size:81
Alignment explanation
Indices: 7085--7240 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
7075 TGCTATATAA
* *
7085 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
7150 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
7167 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
7231 CACTTAGTGC
65 CACTTAGTGC
7241 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:9547 original size:11 final size:11
Alignment explanation
Indices: 9533--9577 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
9523 AGATAAATAT
9533 TATTTTATTAA
1 TATTTTATTAA
*
9544 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
9557 TATTTTATTAT
1 TATTTTATTAA
9568 TATTTTATTA
1 TATTTTATTA
9578 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:11506 original size:91 final size:92
Alignment explanation
Indices: 11408--11744 Score: 482
Period size: 91 Copynumber: 3.7 Consensus size: 92
11398 ATGAAATATG
* ** *
11408 TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACTAT-GTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATAAGACCATGGTTGAAAGA
* * **
11472 TACCATGGCAACATGATATGAAATGCG
66 TACCATGGCAACGTGACATGAAATGAA
** *
11499 TAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAAACCATGGTTG-AAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATAAGACCATGGTTGAAAGA
* *
11563 TACCATGGTAGCGTGACATGAAATGAA
66 TACCATGGCAACGTGACATGAAATGAA
* *
11590 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATAAGACCATGGTTGAAAGA
*
11655 TACCATGGCAACGTGACATGAAAAGAA
66 TACCATGGCAACGTGACATGAAATGAA
* *
11682 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATG-AAATGAATAAGACCATGGTTGAAA
11745 AACACTATGG
Statistics
Matches: 218, Mismatches: 25, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
91 129 0.59
92 89 0.41
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.20
Consensus pattern (92 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATAAGACCATGGTTGAAAGA
TACCATGGCAACGTGACATGAAATGAA
Found at i:11608 original size:137 final size:137
Alignment explanation
Indices: 11412--11744 Score: 472
Period size: 137 Copynumber: 2.4 Consensus size: 137
11402 AATATGTAAG
* * *
11412 ACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACTATGTTGAAAGATACCA
1 ACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATGTTGAAAGATACCA
* * ** * *
11477 TGGCAACATGATATGAAATGCGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAAT
66 TGGCAACATGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAAA
11542 GAATAAA
131 GAATAAA
* * * *
11549 ACCATGGTTG-AAGATACCATGGTAGCGTGACATGAAATGAATAAGACCATGGTTGAAAGATACC
1 ACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCAT-GTTGAAAGATACC
* * *
11613 ATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA
65 ATGGCAACATGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAA
*
11678 AGAATAAG
130 AGAATAAA
11686 ACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAA
1 ACCATGGTTGAAAGATACCATGGCAACATGACATG-AAATGAGTAAGACCAT-GTTGAAA
11745 AACACTATGG
Statistics
Matches: 171, Mismatches: 22, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
136 33 0.19
137 97 0.57
138 41 0.24
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.20
Consensus pattern (137 bp):
ACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATGTTGAAAGATACCA
TGGCAACATGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAAA
GAATAAA
Found at i:11756 original size:46 final size:46
Alignment explanation
Indices: 11408--11744 Score: 473
Period size: 46 Copynumber: 7.4 Consensus size: 46
11398 ATGAAATATG
* **
11408 TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAA
* * **
11454 TAAGACTAT-GTTGAAAGATACCATGGCAACATGATATGAAATGCG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAA
**
11499 TAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAA
* * * *
11545 TAAAACCATGGTTG-AAGATACCATGGTAGCGTGACATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAA
* *
11590 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAA
* *
11636 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAA
*
11682 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATG-AAATGAA
*
11728 TAAGACCATAGTTGAAA
1 TAAGACCATGGTTGAAA
11745 AACACTATGG
Statistics
Matches: 266, Mismatches: 22, Indels: 6
0.90 0.07 0.02
Matches are distributed among these distances:
45 83 0.31
46 183 0.69
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.20
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAA
Found at i:11775 original size:137 final size:136
Alignment explanation
Indices: 11408--11779 Score: 448
Period size: 137 Copynumber: 2.7 Consensus size: 136
11398 ATGAAATATG
* * *
11408 TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACTATGTTGAAAGAT
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATGTTGAAAGAT
*** *
11473 ACCATGGCAACATGAT-ATGAAATGCGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGG
66 ACCATGGCAACATG-TCA-GAAATAAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAG
*
11537 GAAATGAA
129 GAAAAGAA
* * * * *
11545 TAAAACCATGGTTG-AAGATACCATGGTAGCGTGACATGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCAT-GTTGAAAGA
* * *
11609 TACCATGGCAACGTGACATGAAA-AGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACA
65 TACCATGGCAACATGTCA-GAAATA-AATAAGACCATGGTTGAAAGATACCATGGCAACATGACA
*
11673 TGAAAAGAA
128 GGAAAAGAA
*
11682 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATG-AAATGAGTAAGACCAT-GTTGAAAG
* * *
11746 ACACTATGGCATCATGTCA-AAGATAAATAAGACC
64 ATACCATGGCAACATGTCAGAA-ATAAATAAGACC
11780 CTGGATGGGA
Statistics
Matches: 199, Mismatches: 29, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
136 35 0.18
137 108 0.54
138 56 0.28
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (136 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATGTTGAAAGAT
ACCATGGCAACATGTCAGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGA
AAAGAA
Found at i:12063 original size:16 final size:17
Alignment explanation
Indices: 12042--12074 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
12032 ATGACGGAGC
12042 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
12058 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
12075 TACTTATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:14586 original size:30 final size:31
Alignment explanation
Indices: 14552--14610 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
14542 ATAAATACTC
* **
14552 AAAATTTCAAGGATTAA-AGTGTAAATATGG
1 AAAATTTAAAGGACCAATAGTGTAAATATGG
14582 AAAATTTAAAGGACCAATAGTGTAAATAT
1 AAAATTTAAAGGACCAATAGTGTAAATAT
14611 TTTAAGGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.49, C:0.05, G:0.17, T:0.29
Consensus pattern (31 bp):
AAAATTTAAAGGACCAATAGTGTAAATATGG
Found at i:14862 original size:11 final size:11
Alignment explanation
Indices: 14848--14903 Score: 67
Period size: 11 Copynumber: 4.9 Consensus size: 11
14838 AGATAAATAT
14848 TATTTTATTAA
1 TATTTTATTAA
*
14859 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
14872 TATTTTATTAT
1 TATTTTATTAA
*
14883 TATTTTATTAT
1 TATTTTATTAA
14894 TATTTTATTA
1 TATTTTATTA
14904 GTATATAAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
11 27 0.68
12 6 0.15
13 7 0.17
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:16257 original size:91 final size:92
Alignment explanation
Indices: 16102--16448 Score: 455
Period size: 91 Copynumber: 3.8 Consensus size: 92
16092 GCTTTCTGAA
** * * * * **
16102 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATAGCAACATGATATGAAATGTGTAAGACCAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAGACCAT
* *
16167 -GTTGAAAGATACCATGGCAACATGAT
66 GGTTGAAAGATACCATGGCAACGTGAC
** * *
16193 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAAACCAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAGACCAT
* *
16258 GGTTG-AAGATATCATGGTAACGTGAC
66 GGTTGAAAGATACCATGGCAACGTGAC
* * *
16284 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAGACCAT
16349 GGTTGAAAGATACCATGGCAACGTGAC
66 GGTTGAAAGATACCATGGCAACGTGAC
* * * * *
16376 ATGAAAAGAATTAGACCATGGTTGAAAGATACCATGGCAACATGAAAGAAAATGAGTAAGACCAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAGACCAT
*
16441 AGTTGAAA
66 GGTTGAAA
16449 AACACTATGG
Statistics
Matches: 224, Mismatches: 30, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
91 137 0.61
92 87 0.39
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (92 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAGACCAT
GGTTGAAAGATACCATGGCAACGTGAC
Found at i:16350 original size:137 final size:136
Alignment explanation
Indices: 16116--16448 Score: 443
Period size: 137 Copynumber: 2.4 Consensus size: 136
16106 AATGTGTAAG
* * *
16116 ACCATGGTTGAAAGACACCATAGCAACATGATATGAAATGTGTAAGACCATGTTGAAAGATACCA
1 ACCATGGTTGAAAGATACCATGGCAACATGA-ATGAAATGAGTAAGACCATGTTGAAAGATACCA
* * ** * *
16181 TGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAAT
65 TGGCAACATGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAAA
16246 GAATAAA
130 GAATAAA
* * * *
16253 ACCATGGTTG-AAGATATCATGGTAACGTGACATGAAATGAATAAGACCATGGTTGAAAGATACC
1 ACCATGGTTGAAAGATACCATGGCAACATGA-ATGAAATGAGTAAGACCAT-GTTGAAAGATACC
* * *
16317 ATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA
64 ATGGCAACATGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAA
* *
16382 AGAATTAG
129 AGAATAAA
*
16390 ACCATGGTTGAAAGATACCATGGCAACATGAAAGAAAATGAGTAAGACCATAGTTGAAA
1 ACCATGGTTGAAAGATACCATGGCAACATGAATG-AAATGAGTAAGACCAT-GTTGAAA
16449 AACACTATGG
Statistics
Matches: 168, Mismatches: 25, Indels: 5
0.85 0.13 0.03
Matches are distributed among these distances:
136 32 0.19
137 97 0.58
138 39 0.23
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.20
Consensus pattern (136 bp):
ACCATGGTTGAAAGATACCATGGCAACATGAATGAAATGAGTAAGACCATGTTGAAAGATACCAT
GGCAACATGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAAAG
AATAAA
Found at i:16460 original size:46 final size:46
Alignment explanation
Indices: 16102--16448 Score: 448
Period size: 46 Copynumber: 7.6 Consensus size: 46
16092 GCTTTCTGAA
** * * *
16102 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATAGCAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** *
16148 ATGAAATGTGTAAGACCAT-GTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
**
16193 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * * * *
16239 GGGAAATGAATAAAACCATGGTTG-AAGATATCATGGTAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
16284 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
16330 ATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
16376 ATGAAAAGAATTAGACCATGGTTGAAAGATACCATGGCAACATGA-
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
16421 AAGAAAATGAGTAAGACCATAGTTGAAA
1 ATG-AAATGAATAAGACCATGGTTGAAA
16449 AACACTATGG
Statistics
Matches: 274, Mismatches: 24, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
45 84 0.31
46 190 0.69
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:16479 original size:137 final size:136
Alignment explanation
Indices: 16112--16483 Score: 421
Period size: 137 Copynumber: 2.7 Consensus size: 136
16102 ATGAAATGTG
* * * *
16112 TAAGACCATGGTTGAAAGACACCATAGCAACATGATATGAAATGTGTAAGACCATGTTGAAAGAT
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATGTTGAAAGAT
*** *
16177 ACCATGGCAACATGAT-ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGG
66 ACCATGGCAACATG-TCA-GAAATAAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAG
*
16241 GAAATGAA
129 GAAAAGAA
* * * * *
16249 TAAAACCATGGTTG-AAGATATCATGGTAACGTGACATGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCAT-GTTGAAAGA
* * *
16313 TACCATGGCAACGTGACATGAAA-AGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACA
65 TACCATGGCAACATGTCA-GAAATA-AATAAGACCATGGTTGAAAGATACCATGGCAACATGACA
*
16377 TGAAAAGAA
128 GGAAAAGAA
* * *
16386 TTAGACCATGGTTGAAAGATACCATGGCAACATGA-AAGAAAATGAGTAAGACCATAGTTGAAAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATG-AAATGAGTAAGACCAT-GTTGAAAG
* * *
16450 ACACTATGGCATCATGTCA-AAGATAAATAAGACC
64 ATACCATGGCAACATGTCAGAA-ATAAATAAGACC
16484 CTGGATGGGA
Statistics
Matches: 196, Mismatches: 32, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
136 34 0.17
137 108 0.55
138 54 0.28
ACGTcount: A:0.43, C:0.15, G:0.22, T:0.20
Consensus pattern (136 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATGTTGAAAGAT
ACCATGGCAACATGTCAGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGA
AAAGAA
Found at i:16767 original size:16 final size:17
Alignment explanation
Indices: 16746--16778 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
16736 ATGATGGAGC
*
16746 ATGAAAT-ATTGATATA
1 ATGAAATGACTGATATA
16762 ATGAAATGACTGATATA
1 ATGAAATGACTGATATA
16779 TAGTTATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.48, C:0.03, G:0.15, T:0.33
Consensus pattern (17 bp):
ATGAAATGACTGATATA
Found at i:17966 original size:27 final size:27
Alignment explanation
Indices: 17936--18232 Score: 321
Period size: 27 Copynumber: 11.0 Consensus size: 27
17926 AATGGTAGTT
* *
17936 TACCCCAAAAGGGT-TTCTCGGTAATTC
1 TACCCTAAAAGGGTATT-TCAGTAATTC
* * *
17963 TACCTTATAAGGGTATTTTAGTAATTC
1 TACCCTAAAAGGGTATTTCAGTAATTC
* *
17990 TACCCTACAGGGGTATTTCAGTAATTC
1 TACCCTAAAAGGGTATTTCAGTAATTC
* *
18017 TACCCTACAGGGGTATTTCAGTAATTC
1 TACCCTAAAAGGGTATTTCAGTAATTC
* *
18044 TACCCTATAGGGGTATTTCAGTAATTC
1 TACCCTAAAAGGGTATTTCAGTAATTC
* * *
18071 TACCCTACAATGGGTATTTCGGTATTTC
1 TACCCTA-AAAGGGTATTTCAGTAATTC
*
18099 TACCCTACAAA-GGTATTTCGGTAATTC
1 TACCCTA-AAAGGGTATTTCAGTAATTC
* * *
18126 TACCCTACAGGGGTATTTCAATAATTC
1 TACCCTAAAAGGGTATTTCAGTAATTC
* *
18153 TACCCTATAAGGGTATTTCAATAATTC
1 TACCCTAAAAGGGTATTTCAGTAATTC
* *
18180 TACCCTACAAGGGTATTTTAGTAATTC
1 TACCCTAAAAGGGTATTTCAGTAATTC
* *
18207 TACCCT-ACAGGAGTATTTCAATAATT
1 TACCCTAAAAGG-GTATTTCAGTAATT
18233 TTGTCAATTG
Statistics
Matches: 237, Mismatches: 29, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
26 4 0.02
27 205 0.86
28 28 0.12
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (27 bp):
TACCCTAAAAGGGTATTTCAGTAATTC
Found at i:18020 original size:54 final size:54
Alignment explanation
Indices: 17956--18232 Score: 383
Period size: 54 Copynumber: 5.1 Consensus size: 54
17946 GGGTTTCTCG
* * *
17956 GTAATTCTACCTTATAAGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCA
* *
18010 GTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCA
* * ** *
18064 GTAATTCTACCCTACAATGGGTATTTCGGTATTTCTACCCTACAAAGGTATTTCG
1 GTAATTCTACCCTACAA-GGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCA
* * * *
18119 GTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTATAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCA
* * *
18173 ATAATTCTACCCTACAAGGGTATTTTAGTAATTCTACCCTACAGGAGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCA
*
18227 ATAATT
1 GTAATT
18233 TTGTCAATTG
Statistics
Matches: 196, Mismatches: 26, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
54 149 0.76
55 47 0.24
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (54 bp):
GTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCA
Found at i:18197 original size:136 final size:136
Alignment explanation
Indices: 17953--18215 Score: 409
Period size: 136 Copynumber: 1.9 Consensus size: 136
17943 AAAGGGTTTC
* * * * *
17953 TCGGTAATTCTACCTTATAAGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCT
1 TCGGTAATTCTACCCTACAAAGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAATAATTCT
* * * *
18018 ACCCTACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACCCTACAATG
66 ACCCTACAAGGGTATTTCAATAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAATG
18083 GGTATT
131 GGTATT
* *
18089 TCGGTATTTCTACCCTACAAAGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCT
1 TCGGTAATTCTACCCTACAAAGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAATAATTCT
* *
18154 ACCCTATAAGGGTATTTCAATAATTCTACCCTACAAGGGTATTTTAGTAATTCTACCCTACA
66 ACCCTACAAGGGTATTTCAATAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACA
18216 GGAGTATTTC
Statistics
Matches: 114, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
136 114 1.00
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.36
Consensus pattern (136 bp):
TCGGTAATTCTACCCTACAAAGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAATAATTCT
ACCCTACAAGGGTATTTCAATAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAATG
GGTATT
Found at i:18283 original size:27 final size:27
Alignment explanation
Indices: 18253--18536 Score: 264
Period size: 27 Copynumber: 10.6 Consensus size: 27
18243 AGGATAAAAC
* ** *
18253 GGTAATTTTGTAAATCGGGGGTACTTT
1 GGTAATTTTGTAAACCAAGGGTATTTT
** * * *
18280 GGTAATTTTACAAATCGAGGGTATTTC
1 GGTAATTTTGTAAACCAAGGGTATTTT
* * ***
18307 AGTAACTTTGTAAAGTGAGGGTATTTT
1 GGTAATTTTGTAAACCAAGGGTATTTT
* ** *
18334 GATAATTTTACAAACCACGGGTATTTT
1 GGTAATTTTGTAAACCAAGGGTATTTT
18361 GGTAATTTTGTAAACCAAGGGTA-TTT
1 GGTAATTTTGTAAACCAAGGGTATTTT
** * *
18387 GGTAATTTTACAAATCAGGGGTATTTT
1 GGTAATTTTGTAAACCAAGGGTATTTT
18414 GGTAATTTTGTAAACCAAGGGTATTTT
1 GGTAATTTTGTAAACCAAGGGTATTTT
** ***
18441 GGTAATTTTACAAACTGGGGGTATTTT
1 GGTAATTTTGTAAACCAAGGGTATTTT
18468 GGTAATTTTGTAAACCAAGGGTATTTT
1 GGTAATTTTGTAAACCAAGGGTATTTT
* ** *
18495 GGTACTTTTACAAACCAGGGGTATTTT
1 GGTAATTTTGTAAACCAAGGGTATTTT
* *
18522 GGTGATTTGGTAAAC
1 GGTAATTTTGTAAAC
18537 TAAAGTATTC
Statistics
Matches: 204, Mismatches: 52, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
26 22 0.11
27 182 0.89
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.39
Consensus pattern (27 bp):
GGTAATTTTGTAAACCAAGGGTATTTT
Found at i:18329 original size:54 final size:54
Alignment explanation
Indices: 18253--18536 Score: 342
Period size: 54 Copynumber: 5.3 Consensus size: 54
18243 AGGATAAAAC
* ** * *
18253 GGTAATTTTGTAAATCGGGGGTACTTTGGTAATTTTACAAATCGA-GGGTATTTC
1 GGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAA-CGACGGGTATTTT
* * *** * *
18307 AGTAACTTTGTAAAGTGAGGGTATTTTGATAATTTTACAAACCACGGGTATTTT
1 GGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACGACGGGTATTTT
*
18361 GGTAATTTTGTAAACCAAGGGTA-TTTGGTAATTTTACAAATC-AGGGGTATTTT
1 GGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAA-CGACGGGTATTTT
*
18414 GGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACTG-GGGGTATTTT
1 GGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAAC-GACGGGTATTTT
* * *
18468 GGTAATTTTGTAAACCAAGGGTATTTTGGTACTTTTACAAACCAGGGGTATTTT
1 GGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACGACGGGTATTTT
* *
18522 GGTGATTTGGTAAAC
1 GGTAATTTTGTAAAC
18537 TAAAGTATTC
Statistics
Matches: 204, Mismatches: 20, Indels: 12
0.86 0.08 0.05
Matches are distributed among these distances:
53 52 0.25
54 152 0.75
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.39
Consensus pattern (54 bp):
GGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACGACGGGTATTTT
Found at i:18425 original size:107 final size:108
Alignment explanation
Indices: 18253--18536 Score: 383
Period size: 107 Copynumber: 2.6 Consensus size: 108
18243 AGGATAAAAC
* ** ** *
18253 GGTAATTTTGTAAATCGGGGGTACTTTGGTAATTTTACAAATC-GAGGGTATTTCAGTAACTTTG
1 GGTAATTTTGTAAACCAAGGGTACTTTGGTAATTTTACAAATCAG-GGGTATTTTGGTAATTTTG
***
18317 TAAAGTGAGGGTATTTTGATAATTTTACAAACCACGGGTATTTT
65 TAAACCAAGGGTATTTTGATAATTTTACAAACCACGGGTATTTT
18361 GGTAATTTTGTAAACCAAGGGTA-TTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTGT
1 GGTAATTTTGTAAACCAAGGGTACTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTGT
* ***
18425 AAACCAAGGGTATTTTGGTAATTTTACAAACTGGGGGTATTTT
66 AAACCAAGGGTATTTTGATAATTTTACAAACCACGGGTATTTT
* * * * *
18468 GGTAATTTTGTAAACCAAGGGTATTTTGGTACTTTTACAAACCAGGGGTATTTTGGTGATTTGGT
1 GGTAATTTTGTAAACCAAGGGTACTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTGT
18533 AAAC
66 AAAC
18537 TAAAGTATTC
Statistics
Matches: 157, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
107 95 0.61
108 62 0.39
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.39
Consensus pattern (108 bp):
GGTAATTTTGTAAACCAAGGGTACTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTGT
AAACCAAGGGTATTTTGATAATTTTACAAACCACGGGTATTTT
Found at i:20760 original size:25 final size:25
Alignment explanation
Indices: 20732--20801 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
20722 CTCTTTTAAT
*
20732 AACTGGGGCAGAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
20757 AACTGGGGCAAAACCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
20782 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
20802 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:21062 original size:27 final size:27
Alignment explanation
Indices: 21043--21307 Score: 241
Period size: 27 Copynumber: 9.8 Consensus size: 27
21033 AATTTTATCT
* *
21043 TACAAGGGTATTTTAGTAATTCTATCC
1 TACAAGGGTATTTCAGTAATTCTACCC
*
21070 TACATGGGTATTTCAGTAATTCTACCC
1 TACAAGGGTATTTCAGTAATTCTACCC
*
21097 TAC-AGGAGTATTTCAATAATTCTACCC
1 TACAAGG-GTATTTCAGTAATTCTACCC
* * * *
21124 TATAGGGGTATTTTAGTAATTCTACAC
1 TACAAGGGTATTTCAGTAATTCTACCC
* *
21151 TACAATGGGTATTTC-GATATTTCTACCT
1 TACAA-GGGTATTTCAG-TAATTCTACCC
* *
21179 TACAAGGGTATTCCGGTAATTCTACCC
1 TACAAGGGTATTTCAGTAATTCTACCC
* * * * *
21206 TATAGGGGTATTTTAATAATACTACCC
1 TACAAGGGTATTTCAGTAATTCTACCC
* * *
21233 TACAGGGGTATTTCGGTAATTCTATCC
1 TACAAGGGTATTTCAGTAATTCTACCC
* *
21260 TACAGGGGTATTT-TGATAATTCTACCC
1 TACAAGGGTATTTCAG-TAATTCTACCC
* *
21287 TAC-AGAAGTATTTCAATAATT
1 TACAAG-GGTATTTCAGTAATT
21308 TTGTCAGTTG
Statistics
Matches: 192, Mismatches: 38, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
26 4 0.02
27 164 0.85
28 24 0.12
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (27 bp):
TACAAGGGTATTTCAGTAATTCTACCC
Found at i:21108 original size:54 final size:54
Alignment explanation
Indices: 21043--21307 Score: 273
Period size: 54 Copynumber: 4.9 Consensus size: 54
21033 AATTTTATCT
* * *
21043 TACAAGGGTATTTTAGTAATTCTATCCTACATGGGTATTTCAGTAATTCTACCC
1 TACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCC
* * * * * *
21097 TACAGGAGTATTTCAATAATTCTACCCTATAGGGGTATTTTAGTAATTCTACAC
1 TACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCC
* * * * * * *
21151 TACAATGGGTA-TTTCGATATTTCTACCTTACAAGGGTATTCCGGTAATTCTACCC
1 TAC-AGGGGTATTTTAG-TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCC
* * * * *
21206 TATAGGGGTATTTTAATAATACTACCCTACAGGGGTATTTCGGTAATTCTATCC
1 TACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCC
** *
21260 TACAGGGGTATTTT-GATAATTCTACCCTACAGAAGTATTTCAATAATT
1 TACAGGGGTATTTTAG-TAATTCTACCCTACAGGGGTATTTCAGTAATT
21308 TTGTCAGTTG
Statistics
Matches: 168, Mismatches: 39, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
54 128 0.76
55 40 0.24
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (54 bp):
TACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCC
Found at i:21201 original size:109 final size:107
Alignment explanation
Indices: 21032--21290 Score: 297
Period size: 109 Copynumber: 2.4 Consensus size: 107
21022 GGTATCTCGA
* * * * * *
21032 TAATTTTATCTTACAAGGGTATTT-TAGTAATTCTATCCTACATGGGTATTTCAGTAATTCTACC
1 TAATTCTATCCTACAGGGGTATTTCGA-TAATTCTA-CCTACAAGGGTATTCCAGTAATTCTACC
* * *
21096 CTACAGGAGTATTTCAATAATTCTACCCTATAGGGGTATTTTAG
64 CTACAGGAGTATTTCAATAATACTACCCTACAGGGGTATTTCAG
* * *
21140 TAATTCTA-CACTACAATGGGTATTTCGATATTTCTACCTTACAAGGGTATTCCGGTAATTCTAC
1 TAATTCTATC-CTAC-AGGGGTATTTCGATAATTCTACC-TACAAGGGTATTCCAGTAATTCTAC
* * * *
21204 CCTATAGGGGTATTTTAATAATACTACCCTACAGGGGTATTTCGG
63 CCTACAGGAGTATTTCAATAATACTACCCTACAGGGGTATTTCAG
*
21249 TAATTCTATCCTACAGGGGTATTTTGATAATTCTACCCTACA
1 TAATTCTATCCTACAGGGGTATTTCGATAATTCTA-CCTACA
21291 GAAGTATTTC
Statistics
Matches: 127, Mismatches: 18, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
107 1 0.01
108 34 0.27
109 90 0.71
110 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.38
Consensus pattern (107 bp):
TAATTCTATCCTACAGGGGTATTTCGATAATTCTACCTACAAGGGTATTCCAGTAATTCTACCCT
ACAGGAGTATTTCAATAATACTACCCTACAGGGGTATTTCAG
Found at i:21267 original size:136 final size:136
Alignment explanation
Indices: 21021--21290 Score: 355
Period size: 136 Copynumber: 2.0 Consensus size: 136
21011 TACCCCAAAA
* ** * * *
21021 GGGTATCTCGATAATTTTATCTTACAAGGGTATTTTAGTAATTCTATCCTACATGGGTATTTCAG
1 GGGTATCTCGATAATTTTACCTTACAAGGGTATTCCAGTAATTCTACCCTACAGGGGTATTTCAA
* *
21086 TAATTCTACCCTACAGGAGTATTTCAATAATTCTACCCTATAGGGGTATTTT-AGTAATTCTACA
66 TAATACTACCCTACAGGAGTATTTCAATAATTCTACCCTACAGGGGTATTTTGA-TAATTCTACA
21150 CTACAAT
130 CTACAAT
* * * *
21157 GGGTATTTCGAT-ATTTCTACCTTACAAGGGTATTCCGGTAATTCTACCCTATAGGGGTATTTTA
1 GGGTATCTCGATAATTT-TACCTTACAAGGGTATTCCAGTAATTCTACCCTACAGGGGTATTTCA
* ** * *
21221 ATAATACTACCCTACAGGGGTATTTCGGTAATTCTATCCTACAGGGGTATTTTGATAATTCTACC
65 ATAATACTACCCTACAGGAGTATTTCAATAATTCTACCCTACAGGGGTATTTTGATAATTCTACA
21286 CTACA
130 CTACA
21291 GAAGTATTTC
Statistics
Matches: 115, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
135 4 0.03
136 110 0.96
137 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (136 bp):
GGGTATCTCGATAATTTTACCTTACAAGGGTATTCCAGTAATTCTACCCTACAGGGGTATTTCAA
TAATACTACCCTACAGGAGTATTTCAATAATTCTACCCTACAGGGGTATTTTGATAATTCTACAC
TACAAT
Found at i:21349 original size:27 final size:27
Alignment explanation
Indices: 21317--21377 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
21307 TTTGTCAGTT
*
21317 GAGGGTAAAATGGTAATTCTATAAATC
1 GAGGGTAAAATGGTAATTCTACAAATC
* *** *
21344 GGGGGTACTTTGGTAATTTTACAAATC
1 GAGGGTAAAATGGTAATTCTACAAATC
21371 GAGGGTA
1 GAGGGTA
21378 TTTTAGTAAT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.31
Consensus pattern (27 bp):
GAGGGTAAAATGGTAATTCTACAAATC
Found at i:21387 original size:54 final size:54
Alignment explanation
Indices: 21327--21611 Score: 326
Period size: 54 Copynumber: 5.3 Consensus size: 54
21317 GAGGGTAAAA
* * ** * *
21327 TGGTAATTCTATAAATCGGGGGTACTTTGGTAATTTTACAAATCGA-GGGTATTT
1 TGGTAATTTTGTAAATCAAGGGTATTTTGGTAATTTTACAAA-CCACGGGTATTT
* * ** **
21381 TAGTAATTTTGCAAATTGAGGGTATTTCAGTAATTTTACAAACCACGGGTATTT
1 TGGTAATTTTGTAAATCAAGGGTATTTTGGTAATTTTACAAACCACGGGTATTT
*
21435 TGGTAATTTTGTAAA-CTAATGGTATTTTGGTAATTTTACAAACCA-GTGGTATTT
1 TGGTAATTTTGTAAATC-AAGGGTATTTTGGTAATTTTACAAACCACG-GGTATTT
* * *
21489 TGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTT
1 TGGTAATTTTGTAAATCAAGGGTATTTTGGTAATTTTACAAACCACGGGTATTT
* *
21543 TGGTAATTTTGT-AATCCAAAGGTATTTTGGTAATTTTACAAACCAGGGGTATTT
1 TGGTAATTTTGTAAAT-CAAGGGTATTTTGGTAATTTTACAAACCACGGGTATTT
* *
21597 TGGTGATTTGGTAAA
1 TGGTAATTTTGTAAA
21612 CTAAAGTATT
Statistics
Matches: 200, Mismatches: 24, Indels: 13
0.84 0.10 0.05
Matches are distributed among these distances:
53 5 0.03
54 191 0.95
55 4 0.02
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.41
Consensus pattern (54 bp):
TGGTAATTTTGTAAATCAAGGGTATTTTGGTAATTTTACAAACCACGGGTATTT
Found at i:21612 original size:27 final size:27
Alignment explanation
Indices: 21346--21612 Score: 248
Period size: 27 Copynumber: 9.9 Consensus size: 27
21336 TATAAATCGG
* ** * *
21346 GGGTACTTTGGTAATTTTACAAATCGA
1 GGGTATTTTGGTAATTTTGTAAACCAA
* * ***
21373 GGGTATTTTAGTAATTTTGCAAATTGA
1 GGGTATTTTGGTAATTTTGTAAACCAA
** ** *
21400 GGGTATTTCAGTAATTTTACAAACCAC
1 GGGTATTTTGGTAATTTTGTAAACCAA
*
21427 GGGTATTTTGGTAATTTTGTAAACTAA
1 GGGTATTTTGGTAATTTTGTAAACCAA
* **
21454 TGGTATTTTGGTAATTTTACAAACC-A
1 GGGTATTTTGGTAATTTTGTAAACCAA
21480 GTGGTATTTTGGTAATTTTGTAAACCAA
1 G-GGTATTTTGGTAATTTTGTAAACCAA
** * *
21508 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTGTAAACCAA
*
21535 GGGTATTTTGGTAATTTTGTAATCCAA
1 GGGTATTTTGGTAATTTTGTAAACCAA
* ** *
21562 AGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTGTAAACCAA
* *
21589 GGGTATTTTGGTGATTTGGTAAAC
1 GGGTATTTTGGTAATTTTGTAAAC
21613 TAAAGTATTC
Statistics
Matches: 196, Mismatches: 42, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
26 1 0.01
27 193 0.98
28 2 0.01
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTGTAAACCAA
Found at i:21613 original size:81 final size:81
Alignment explanation
Indices: 21346--21615 Score: 281
Period size: 81 Copynumber: 3.3 Consensus size: 81
21336 TATAAATCGG
* ** * * * *** * **
21346 GGGTACTTTGGTAATTTTACAAA-TCGAGGGTATTTTAGTAATTTTGCAAATTGAGGGTATTTCA
1 GGGTATTTTGGTAATTTTGTAAACT-AAGGGTATTTTGGTAATTTTACAAACCAAAGGTATTTTG
*
21410 GTAATTTTACAAACCAC
65 GTAATTTTACAAACCAA
* **
21427 GGGTATTTTGGTAATTTTGTAAACTAATGGTATTTTGGTAATTTTACAAACCAGTGGTATTTTGG
1 GGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTGGTAATTTTACAAACCAAAGGTATTTTGG
**
21492 TAATTTTGTAAACCAA
66 TAATTTTACAAACCAA
** * ** *
21508 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAATCCAAAGGTATTTTGG
1 GGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTGGTAATTTTACAAACCAAAGGTATTTTGG
*
21573 TAATTTTACAAACCAG
66 TAATTTTACAAACCAA
* *
21589 GGGTATTTTGGTGATTTGGTAAACTAA
1 GGGTATTTTGGTAATTTTGTAAACTAA
21616 AGTATTCTAA
Statistics
Matches: 154, Mismatches: 34, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
81 153 0.99
82 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.41
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTGGTAATTTTACAAACCAAAGGTATTTTGG
TAATTTTACAAACCAA
Found at i:26142 original size:68 final size:66
Alignment explanation
Indices: 26070--26241 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
26060 CATCATGTGT
* * * *
26070 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
26133 TGTAG
62 TGTAG
** * *
26138 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
26203 AG
65 AG
* * * *
26205 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
26242 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:26175 original size:64 final size:64
Alignment explanation
Indices: 26094--26277 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
26084 AGACATTATG
* * *
26094 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
26158 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
26223 AA
63 AA
* * *
26225 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
26278 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:30569 original size:68 final size:66
Alignment explanation
Indices: 30497--30668 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
30487 CATCATGTGT
* * * *
30497 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
30560 TGTAG
62 TGTAG
** * *
30565 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
30630 AG
65 AG
* * * *
30632 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
30669 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:30602 original size:64 final size:64
Alignment explanation
Indices: 30521--30704 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
30511 AGACATTATG
* * *
30521 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
30585 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
30650 AA
63 AA
* * *
30652 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
30705 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Done.