Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 95 of 311
Found at i:31551213 original size:46 final size:46
Alignment explanation
Indices: 31551108--31551235 Score: 222
Period size: 46 Copynumber: 2.8 Consensus size: 46
31551098 TGTAACCCGC
* * *
31551108 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
31551153 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
31551199 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
31551236 TGCTCAACCA
Statistics
Matches: 79, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
45 34 0.43
46 45 0.57
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:31551254 original size:46 final size:45
Alignment explanation
Indices: 31551116--31551254 Score: 140
Period size: 46 Copynumber: 3.0 Consensus size: 45
31551106 GCCCATAAGC
* * * *
31551116 GAACTCGGACTCAACTCAACGAGCTCGG-CGTTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T-AGT
*** *
31551161 GAACTCGGACTCAACTCAACGAGTTCGGACATTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T-AGT
31551207 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-ACCATCCTAGT
31551253 GA
1 GA
31551255 CATGTCACTT
Statistics
Matches: 85, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
45 27 0.32
46 52 0.61
47 1 0.01
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCCTAGT
Found at i:31601279 original size:22 final size:22
Alignment explanation
Indices: 31601251--31601295 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
31601241 AGGACGGAAC
*
31601251 CATGAGGTTGTGCATCGACTAT
1 CATGAGGTTGTCCATCGACTAT
31601273 CATGAGGTTGTCCATCGACTAT
1 CATGAGGTTGTCCATCGACTAT
31601295 C
1 C
31601296 GTCAGCTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.31
Consensus pattern (22 bp):
CATGAGGTTGTCCATCGACTAT
Found at i:31606026 original size:40 final size:40
Alignment explanation
Indices: 31605885--31606108 Score: 249
Period size: 40 Copynumber: 5.6 Consensus size: 40
31605875 TATTCGGATG
* *
31605885 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
31605925 ATAT-CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAG-TGACT
*
31605967 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * * * * *
31606007 ATTTCCGGGATAAGACCCGAAGGCATGTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * * *
31606047 ATATCCAGGTTAAGTCCCGAAGGCATTTGTGCGAGTTG-CG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
31606087 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
31606109 TACTTGGTTT
Statistics
Matches: 158, Mismatches: 19, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
39 43 0.27
40 79 0.50
41 1 0.01
42 7 0.04
43 28 0.18
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:31612691 original size:40 final size:40
Alignment explanation
Indices: 31612636--31612860 Score: 299
Period size: 40 Copynumber: 5.6 Consensus size: 40
31612626 TATTCGGATG
31612636 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
31612676 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
31612719 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * *
31612759 ATTTCCGGGCTAAGACCCGAAGGCATGTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * *
31612799 ATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGCG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
31612839 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
31612861 TACTTGGTTT
Statistics
Matches: 163, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 14 0.09
40 111 0.68
41 1 0.01
43 37 0.23
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:31612779 original size:83 final size:80
Alignment explanation
Indices: 31612640--31612860 Score: 286
Period size: 83 Copynumber: 2.7 Consensus size: 80
31612630 CGGATGATAT
* * *
31612640 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATGTG
*
31612705 TGCGAGTAGTTGCTATAC
66 TGC--G-AGTTACTATAC
* *
31612723 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATTTCCGGGCTAAGACCCGAAGGCATGTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATGTG
*
31612788 TGCGAGTTACTATAT
66 TGCGAGTTACTATAC
* * *
31612803 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTG-CGATATCC-GGCTAA-ATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGA-CCCGAAGG
31612861 TACTTGGTTT
Statistics
Matches: 125, Mismatches: 11, Indels: 8
0.87 0.08 0.06
Matches are distributed among these distances:
78 1 0.01
79 14 0.11
80 44 0.35
81 3 0.02
83 63 0.50
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATGTG
TGCGAGTTACTATAC
Found at i:31615386 original size:27 final size:26
Alignment explanation
Indices: 31615349--31615405 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 26
31615339 TATATATATC
*
31615349 TCTGTTCTGGTGGCCTAGCCACAATA
1 TCTGTTCTGGTGACCTAGCCACAATA
* * *
31615375 TCTGTATCTGGTGACTTCGTCACAATA
1 TCTGT-TCTGGTGACCTAGCCACAATA
31615402 TCTG
1 TCTG
31615406 GTAGCCTCGC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 5 0.19
27 21 0.81
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGTTCTGGTGACCTAGCCACAATA
Found at i:31631271 original size:29 final size:29
Alignment explanation
Indices: 31631237--31631301 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
31631227 TAAATCAGGT
31631237 AAAGTGTAAAACTTGTGTTCTATTAGCTA
1 AAAGTGTAAAACTTGTGTTCTATTAGCTA
31631266 AAAGTGTAAAACTTGTGTTCTATTAGCTA
1 AAAGTGTAAAACTTGTGTTCTATTAGCTA
*
31631295 GAAGTGT
1 AAAGTGT
31631302 CAAATAGCTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.37
Consensus pattern (29 bp):
AAAGTGTAAAACTTGTGTTCTATTAGCTA
Found at i:31634153 original size:24 final size:23
Alignment explanation
Indices: 31634079--31634211 Score: 87
Period size: 23 Copynumber: 5.8 Consensus size: 23
31634069 TACCGATATA
* * *
31634079 TCAGCTCATATGAGCTTAC-TGT
1 TCAGCTCGTAAGAGCTTACTTTT
* * **
31634101 TCAGCTTG-ATAGAGTTTACCGTT
1 TCAGCTCGTA-AGAGCTTACTTTT
31634124 TCAGCTCGTAAGAGCTTACTATTT
1 TCAGCTCGTAAGAGCTTACT-TTT
* * **
31634148 TCAGCTCATTAGAGCTTACCGTT
1 TCAGCTCGTAAGAGCTTACTTTT
*
31634171 TCAGCTCGTATGAGCTTA-TTGTT
1 TCAGCTCGTAAGAGCTTACTT-TT
31634194 T-AGCTCG-ATAGAGCTTAC
1 TCAGCTCGTA-AGAGCTTAC
31634212 CGTTCAGCTC
Statistics
Matches: 84, Mismatches: 20, Indels: 13
0.72 0.17 0.11
Matches are distributed among these distances:
21 2 0.02
22 26 0.31
23 36 0.43
24 20 0.24
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.37
Consensus pattern (23 bp):
TCAGCTCGTAAGAGCTTACTTTT
Found at i:31634167 original size:47 final size:45
Alignment explanation
Indices: 31634079--31634261 Score: 160
Period size: 47 Copynumber: 4.0 Consensus size: 45
31634069 TACCGATATA
* * * * *
31634079 TCAGCTCATATGAGCTTAC-TGTTCAGCTTGATAGAGTTTACCGTT
1 TCAGCTCGTAAGAGCTTACTTTTTCAGC-TCATAGAGCTTACCGTT
31634124 TCAGCTCGTAAGAGCTTACTATTTTCAGCTCATTAGAGCTTACCGTT
1 TCAGCTCGTAAGAGCTTACT-TTTTCAGCTCA-TAGAGCTTACCGTT
*
31634171 TCAGCTCGTATGAGCTTA-TTGTTT-AGCTCGATAGAGCTTACCG-T
1 TCAGCTCGTAAGAGCTTACTT-TTTCAGCTC-ATAGAGCTTACCGTT
* * *
31634215 TCAGCTC-TATAAAGCTTACTGTTCATCAGCTCAGGAGGAGCTTACCG
1 TCAGCTCGTA-AGAGCTTACT-TT-TTCAGCTCA-TA-GAGCTTACCG
31634262 ATCATGGGTC
Statistics
Matches: 116, Mismatches: 10, Indels: 21
0.79 0.07 0.14
Matches are distributed among these distances:
43 2 0.02
44 14 0.12
45 37 0.32
46 10 0.09
47 43 0.37
48 10 0.09
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.34
Consensus pattern (45 bp):
TCAGCTCGTAAGAGCTTACTTTTTCAGCTCATAGAGCTTACCGTT
Found at i:31634199 original size:69 final size:69
Alignment explanation
Indices: 31634079--31634211 Score: 157
Period size: 69 Copynumber: 1.9 Consensus size: 69
31634069 TACCGATATA
* * *
31634079 TCAGCTCATATGAGCTTACTGTTCAGCTTGATAGAGTTTACCGTTTCAGCTCG-TAAGAGCTTAC
1 TCAGCTCATATGAGCTTACCGTTCAGCTCGATAGAGCTTACCGTTTCAGCTCGAT-AGAGCTTAC
31634143 TATTT
65 TATTT
**
31634148 TCAGCTCAT-TAGAGCTTACCGTTTCAGCTCG-TATGAGCTTATTGTTT-AGCTCGATAGAGCTT
1 TCAGCTCATAT-GAGCTTACCG-TTCAGCTCGATA-GAGCTTACCGTTTCAGCTCGATAGAGCTT
31634210 AC
63 AC
31634212 CGTTCAGCTC
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
68 1 0.02
69 35 0.64
70 19 0.35
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.37
Consensus pattern (69 bp):
TCAGCTCATATGAGCTTACCGTTCAGCTCGATAGAGCTTACCGTTTCAGCTCGATAGAGCTTACT
ATTT
Found at i:31634207 original size:22 final size:23
Alignment explanation
Indices: 31634079--31634246 Score: 143
Period size: 22 Copynumber: 7.3 Consensus size: 23
31634069 TACCGATATA
31634079 TCAGCTC-ATATGAGCTTACTG-T
1 TCAGCTCGATA-GAGCTTACTGTT
* * *
31634101 TCAGCTTGATAGAGTTTACCGTT
1 TCAGCTCGATAGAGCTTACTGTT
*
31634124 TCAGCTCG-TAAGAGCTTACTATTT
1 TCAGCTCGAT-AGAGCTTACT-GTT
*
31634148 TCAGCTC-ATTAGAGCTTACCGTT
1 TCAGCTCGA-TAGAGCTTACTGTT
*
31634171 TCAGCTCG-TATGAGCTTATTGTT
1 TCAGCTCGATA-GAGCTTACTGTT
*
31634194 T-AGCTCGATAGAGCTTACCG-T
1 TCAGCTCGATAGAGCTTACTGTT
* *
31634215 TCAGCTCTATAAAGCTTACTGTT
1 TCAGCTCGATAGAGCTTACTGTT
31634238 CATCAGCTC
1 --TCAGCTC
31634247 AGGAGGAGCT
Statistics
Matches: 117, Mismatches: 16, Indels: 23
0.75 0.10 0.15
Matches are distributed among these distances:
21 2 0.02
22 47 0.40
23 42 0.36
24 18 0.15
25 8 0.07
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (23 bp):
TCAGCTCGATAGAGCTTACTGTT
Found at i:31634214 original size:92 final size:93
Alignment explanation
Indices: 31634079--31634261 Score: 237
Period size: 92 Copynumber: 2.0 Consensus size: 93
31634069 TACCGATATA
* * *
31634079 TCAGCTCATATGAGCTTACTGTTCAGCTTGATAGAGTTTACCGTTTCAGCTCGTA-AGAGCTTAC
1 TCAGCTCATATGAGCTTACTGTTCAGCTCGATAGAGCTTACCG-TTCAGCTC-TATAAAGCTTAC
* **
31634143 TATT-TTCAGCTCATTA-GAGCTTACCGTT
64 TATTCATCAGCTCAGGAGGAGCTTACCGTT
* * * *
31634171 TCAGCTCGTATGAGCTTATTGTTTAGCTCGATAGAGCTTACCGTTCAGCTCTATAAAGCTTACTG
1 TCAGCTCATATGAGCTTACTGTTCAGCTCGATAGAGCTTACCGTTCAGCTCTATAAAGCTTACTA
31634236 TTCATCAGCTCAGGAGGAGCTTACCG
66 TTCATCAGCTCAGGAGGAGCTTACCG
31634262 ATCATGGGTC
Statistics
Matches: 78, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
90 2 0.03
91 19 0.24
92 47 0.60
93 10 0.13
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.34
Consensus pattern (93 bp):
TCAGCTCATATGAGCTTACTGTTCAGCTCGATAGAGCTTACCGTTCAGCTCTATAAAGCTTACTA
TTCATCAGCTCAGGAGGAGCTTACCGTT
Found at i:31638294 original size:22 final size:22
Alignment explanation
Indices: 31638269--31638340 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
31638259 ACATGCATAT
31638269 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * *
31638291 ATGTGATGAATG-TGAACAT-GCATA
1 ATGTGAT-AAGGCCG-A-ATGGC-CA
31638315 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
31638338 ATG
1 ATG
31638341 CGATGAATGT
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:31638473 original size:94 final size:94
Alignment explanation
Indices: 31638248--31638481 Score: 292
Period size: 94 Copynumber: 2.5 Consensus size: 94
31638238 GATTTTATGA
* * * * *
31638248 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
1 GATGAACGTGAACTTACATATGTGTGAGAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
*
31638313 TATATGTGATAAGGCCGAATGGCCAATGC
66 TATATGTGATAAGGCAGAATGGCCAATGC
* * * *
31638342 GATGAATGTGAACTTGCATATGTGTGATAAGGTCGAATGGCCAATGTGATGAATGTGAACATGCA
1 GATGAACGTGAACTTACATATGTGTGAGAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
* *
31638407 TATATGTGATAAGGTAGAATGGCCAATGT
66 TATATGTGATAAGGCAGAATGGCCAATGC
* * * *
31638436 GATGAACGTGGAAGTGTATATATGTG-GCGAA-GCCGAATGGCTAATG
1 GATGAACGT-GAACT-TACATATGTGTGAGAAGGCCGAATGGCCAATG
31638482 CGAAATGTGT
Statistics
Matches: 124, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
94 109 0.88
95 7 0.06
96 8 0.06
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (94 bp):
GATGAACGTGAACTTACATATGTGTGAGAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
TATATGTGATAAGGCAGAATGGCCAATGC
Found at i:31638476 original size:47 final size:47
Alignment explanation
Indices: 31638248--31638441 Score: 334
Period size: 47 Copynumber: 4.1 Consensus size: 47
31638238 GATTTTATGA
31638248 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
*
31638295 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGC
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* * *
31638342 GATGAATGTGAACTTGCATATGTGTGATAAGGTCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
**
31638389 GATGAATGTGAACATGCATATATGTGATAAGGTAGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
31638436 GATGAA
1 GATGAA
31638442 CGTGGAAGTG
Statistics
Matches: 139, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 139 1.00
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.26
Consensus pattern (47 bp):
GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
Found at i:31638636 original size:46 final size:46
Alignment explanation
Indices: 31638465--31638619 Score: 292
Period size: 46 Copynumber: 3.4 Consensus size: 46
31638455 ATATGTGGCG
*
31638465 AAGCCGAATGGCTAATGCGAAATGTGTATGAGATGGATATGAGGTA
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
*
31638511 AAGTCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
31638557 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
31638603 AAGCCGAATGGCTAATG
1 AAGCCGAATGGCTAATG
31638620 TGAGATATGT
Statistics
Matches: 106, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 106 1.00
ACGTcount: A:0.35, C:0.10, G:0.32, T:0.23
Consensus pattern (46 bp):
AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
Found at i:31642160 original size:28 final size:29
Alignment explanation
Indices: 31642098--31642181 Score: 102
Period size: 28 Copynumber: 3.0 Consensus size: 29
31642088 CCTAACTAGC
31642098 CATATAAATG-TGATTTGGGCCTAATGGGA
1 CATATAAA-GATGATTTGGGCCTAATGGGA
* *
31642127 CATATACAGATGATTTGGGCC-AATGGGT
1 CATATAAAGATGATTTGGGCCTAATGGGA
* *
31642155 CATATAAATATGA-TTGGGCTTAATGGG
1 CATATAAAGATGATTTGGGCCTAATGGG
31642182 CTAGATACAG
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
27 6 0.12
28 24 0.50
29 18 0.38
ACGTcount: A:0.31, C:0.11, G:0.27, T:0.31
Consensus pattern (29 bp):
CATATAAAGATGATTTGGGCCTAATGGGA
Found at i:31645749 original size:9 final size:9
Alignment explanation
Indices: 31645735--31645759 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
31645725 CTAAATTGGA
31645735 AATTAAATT
1 AATTAAATT
31645744 AATTAAATT
1 AATTAAATT
31645753 AATTAAA
1 AATTAAA
31645760 AGATGATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
AATTAAATT
Found at i:31649671 original size:55 final size:54
Alignment explanation
Indices: 31649418--31649672 Score: 242
Period size: 55 Copynumber: 4.8 Consensus size: 54
31649408 TCACAAGTAC
* * *
31649418 CTTACC-ATTTCCATGACTTGTCATGGTCTTACATGGTATCC-T--TTTA-AAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCTTTAGAAA
* * * * *
31649467 CTTACC-ATTTCCATGTCTCGACATGGCCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCTTTA-GAAA
* * * * *
31649520 CTCACCAA-TGCCATGCCTTGGCATGGTCTTACATGGGA-CATTTGCCTTATAGTAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATC-CTTG-CTT-TAGAAA
* * *
31649575 CTTATCAA-TGCCATGTCTTGACATGGTCTTACATGGAATCCTTGCTTTAGAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCTTTAGAAA
*
31649628 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTT
31649673 AAACCCTAAT
Statistics
Matches: 168, Mismatches: 25, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
49 37 0.22
50 1 0.01
52 4 0.02
53 39 0.23
54 14 0.08
55 72 0.43
56 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (54 bp):
CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCTTTAGAAA
Found at i:31653982 original size:25 final size:25
Alignment explanation
Indices: 31653954--31654030 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 25
31653944 CTAATGGCCG
31653954 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* ***
31653979 ATGTGAT-AA-G-GCTAA-TG--GCG
1 ATGTGATGAATGTG-AAAGTGTATAT
31653999 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
31654024 ATGTGAT
1 ATGTGAT
31654031 AAGGCCTAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
20 7 0.19
21 2 0.05
22 6 0.16
23 6 0.16
24 2 0.05
25 14 0.38
ACGTcount: A:0.34, C:0.03, G:0.30, T:0.34
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:31654051 original size:47 final size:47
Alignment explanation
Indices: 31653938--31655398 Score: 2312
Period size: 47 Copynumber: 31.1 Consensus size: 47
31653928 GAAATGATAG
31653938 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
31653985 TAAGG-CTAATGG-CGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
31654030 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
31654075 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
31654122 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
31654169 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
31654216 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
31654263 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
31654310 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
31654357 TAA---ATTA-GGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
31654400 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
31654449 T-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG-
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
31654494 TGATAGGCCTAATGGCCGAATGTGATGAATGTGAAAGTGTATATATATGTGA
1 T-A-AGGCCTAATGGCCG-ATGTGATGAATGTGAAAGTG--TATATATGTGA
*
31654546 T-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG-A
*
31654593 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
31654640 TAAGGCCTAATGGCCGATGTGATGAATGTG-AAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
31654686 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
31654733 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA-ATAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT-ATGTGA
*
31654780 TAAGGCCTAATGGCCGATGTG-TGAATGTG-GAGTGTATATATTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA-TGTGA
31654826 TAAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAA-GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
31654874 TAAGGCCTAATGGCCGAGGCGTGATGAATTGTG-AAGTGTATATATTGTGA
1 TAAGGCCTAATGGCCGA--TGTGATGAA-TGTGAAAGTGTATATA-TGTGA
31654924 TAAGGCCTAATGGCCGAT-TGATGAATGTGAAAGTGTATATA-GTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
31654969 TAAAG---AATTGGCCGATGTGATGAATGTGAAAAGTG-ATATAATGTGA
1 TAAGGCCTAA-TGGCCGATGTGATGAATGTG-AAAGTGTATAT-ATGTGA
31655015 TAAGGCCTAATGG-CGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
31655061 TAAGGGCCTAAACGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAA
1 TAA-GGCCT-AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG-A
31655111 TAAGGGCCTAATGGCC-ATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAA-GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
31655160 TAAGG-CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
31655208 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT-TATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
31655254 TAAGGGCCTAATGGCCGATGTGATGAATGTTGAAAGTGTATATATGTGA
1 TAA-GGCCTAATGGCCGATGTGATGAATG-TGAAAGTGTATATATGTGA
31655303 TAAGGCCTAATGG-CGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * *
31655349 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGT-TAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
31655395 TAAG
1 TAAG
31655399 TCCCGAAGGG
Statistics
Matches: 1332, Mismatches: 30, Indels: 105
0.91 0.02 0.07
Matches are distributed among these distances:
42 2 0.00
43 47 0.04
44 17 0.01
45 106 0.08
46 178 0.13
47 553 0.42
48 211 0.16
49 161 0.12
50 46 0.03
51 10 0.01
52 1 0.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:31654052 original size:22 final size:22
Alignment explanation
Indices: 31654024--31654097 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
31654014 AAGTGTATAT
31654024 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
* * ***
31654046 ATGTGATGAATG--TGAAAGTGTAT
1 ATGTGAT-AAGGCCT-AATG-GCCG
31654069 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
31654091 ATGTGAT
1 ATGTGAT
31654098 GAATGTGAAA
Statistics
Matches: 37, Mismatches: 10, Indels: 10
0.65 0.18 0.18
Matches are distributed among these distances:
21 1 0.03
22 21 0.57
23 14 0.38
24 1 0.03
ACGTcount: A:0.30, C:0.11, G:0.31, T:0.28
Consensus pattern (22 bp):
ATGTGATAAGGCCTAATGGCCG
Found at i:31655572 original size:36 final size:37
Alignment explanation
Indices: 31655517--31655594 Score: 113
Period size: 36 Copynumber: 2.1 Consensus size: 37
31655507 CCGAGCTCTA
* *
31655517 AAGACCCGATGACTACGTGTGGGGATT-TGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
* *
31655553 AAGACCCGATAACTTCGTGTGGAGATTATGTTCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
31655590 AAGAC
1 AAGAC
31655595 TTCGTAATAG
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 24 0.65
37 13 0.35
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:31656869 original size:40 final size:39
Alignment explanation
Indices: 31656805--31657013 Score: 271
Period size: 40 Copynumber: 5.3 Consensus size: 39
31656795 TGAGAGTGAT
* *
31656805 GTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAA
1 GTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCT-AA
*
31656845 GTTCCGAAGAGCA-TCGTGCTAGTGATGTATCCGGGCTAA
1 G-TCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAA
31656884 GTCCGAA-AGCATTCGTGCTAGTGATATATCCGGGCTAA
1 GTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAA
*
31656922 GTCCGAAGAGCATTCGTGCTAGTGAATATATCCGTGCTAAA
1 GTCCGAAGAGCATTCGTGCTAGTG-ATATATCCGGGCT-AA
** * * *
31656963 CCCCGAA-AGCATTCGTGCTGGTGTTATATCCGGGCTAG
1 GTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAA
31657001 GTCCCGAAGAGCA
1 GT-CCGAAGAGCA
31657014 ATCATGCTGG
Statistics
Matches: 151, Mismatches: 11, Indels: 14
0.86 0.06 0.08
Matches are distributed among these distances:
37 4 0.03
38 39 0.26
39 35 0.23
40 55 0.36
41 18 0.12
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
GTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAA
Found at i:31660994 original size:47 final size:47
Alignment explanation
Indices: 31660928--31662112 Score: 2090
Period size: 47 Copynumber: 25.1 Consensus size: 47
31660918 GAAATGATAG
31660928 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
31660975 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG-
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
31661021 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
31661068 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG-
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
31661114 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
31661161 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
31661208 TAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
31661255 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
31661302 TAACGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
31661349 T-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
31661395 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
31661442 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
31661489 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
31661538 TAGGGCCTAATGG-CGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
31661584 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* *
31661633 TAGGGCCTAATGGTCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
31661680 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
31661727 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
31661776 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
31661823 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* * *
31661872 TAGGGCCTAGTGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
31661921 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
31661968 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
31662015 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * *
31662062 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
31662109 TAAG
1 TAAG
31662113 TCCCGAAGGG
Statistics
Matches: 1096, Mismatches: 30, Indels: 24
0.95 0.03 0.02
Matches are distributed among these distances:
46 160 0.15
47 709 0.65
48 22 0.02
49 205 0.19
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.30
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:31662287 original size:37 final size:37
Alignment explanation
Indices: 31662231--31662309 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
31662221 CCGAGCTCTA
* * *
31662231 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
31662268 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
31662305 AAGAC
1 AAGAC
31662310 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:31668981 original size:55 final size:54
Alignment explanation
Indices: 31668818--31669047 Score: 235
Period size: 55 Copynumber: 4.3 Consensus size: 54
31668808 ACTTTTTATA
* * * * *
31668818 GTCTTACATGGTATCCTT---TT-GA-AACTTACCATTGTCATGTCTCGACATG
1 GTCTTACATGGTATCCTTGCCTTATAGAACTTACCAATGCCATGCCTTGACATG
* * *
31668867 GTCTTACATGGTATCCTTACCTTAT-GAACTCACCAATGCCATGCCTTGGCATG
1 GTCTTACATGGTATCCTTGCCTTATAGAACTTACCAATGCCATGCCTTGACATG
* * *
31668920 GTCTTACATGGGA-CCTTTGCCTTATAGTAACTTATCAATGCCATGTCTTGACATG
1 GTCTTACATGGTATCC-TTGCCTTATAG-AACTTACCAATGCCATGCCTTGACATG
* *
31668975 GTCTTACATGGTATCCTTGCCTTAGA-AACCTTACCAATTTCCATGCCTTCG-CATG
1 GTCTTACATGGTATCCTTGCCTTATAGAA-CTTACCAA-TGCCATGCCTT-GACATG
31669030 GTCTTACATGGTATCCTT
1 GTCTTACATGGTATCCTT
31669048 AAACCCTAAT
Statistics
Matches: 151, Mismatches: 18, Indels: 18
0.81 0.10 0.10
Matches are distributed among these distances:
49 18 0.12
52 4 0.03
53 43 0.28
54 8 0.05
55 75 0.50
56 3 0.02
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
GTCTTACATGGTATCCTTGCCTTATAGAACTTACCAATGCCATGCCTTGACATG
Found at i:31674599 original size:24 final size:23
Alignment explanation
Indices: 31674572--31674619 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
31674562 AAAAAAAGCC
31674572 GAAATGCCAAAAAGCCAAAAAGTT
1 GAAATGCCAAAAAGCC-AAAAGTT
* *
31674596 GAAATGCCGAAAAGCCGAAAGTT
1 GAAATGCCAAAAAGCCAAAAGTT
31674619 G
1 G
31674620 GGCAACAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.48, C:0.17, G:0.23, T:0.12
Consensus pattern (23 bp):
GAAATGCCAAAAAGCCAAAAGTT
Found at i:31674880 original size:29 final size:27
Alignment explanation
Indices: 31674833--31674944 Score: 89
Period size: 29 Copynumber: 4.0 Consensus size: 27
31674823 TGAGTATAAT
*
31674833 ATGATTTGGGCCTAATGGGCCATATGA
1 ATGAATTGGGCCTAATGGGCCATATGA
* * *
31674860 AGGTGAATTGGGCCTAGTGGGACATAAGAA
1 A--TGAATTGGGCCTAATGGGCCATATG-A
* * *
31674890 TATGAACTGGGCCAAATGGGCCATTTGA
1 -ATGAATTGGGCCTAATGGGCCATATGA
* * *
31674918 ATAAGATTGGGCCTAGTGGGCTATATG
1 ATGA-ATTGGGCCTAATGGGCCATATG
31674945 CATGTATATA
Statistics
Matches: 64, Mismatches: 16, Indels: 9
0.72 0.18 0.10
Matches are distributed among these distances:
27 4 0.06
28 18 0.28
29 40 0.62
30 1 0.02
31 1 0.02
ACGTcount: A:0.29, C:0.13, G:0.32, T:0.26
Consensus pattern (27 bp):
ATGAATTGGGCCTAATGGGCCATATGA
Found at i:31677626 original size:79 final size:81
Alignment explanation
Indices: 31677492--31677674 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
31677482 TGAATGATGT
* *
31677492 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGAATTTG
*
31677556 TGCGAGATACTA-ATTC
66 TGCGAGATACTATA-AC
* * * **
31677572 CGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGAATTT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGAATTT
*
31677634 GTGCGAGTTACTATAAC
65 GTGCGAGATACTATAAC
*
31677651 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
31677675 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.64
80 31 0.35
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGAATTTG
TGCGAGATACTATAAC
Found at i:31677688 original size:40 final size:40
Alignment explanation
Indices: 31677492--31677674 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
31677482 TGAATGATGT
* * * *
31677492 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAAC
* * *
31677532 CGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATTC
1 CGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-AC
31677572 CGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-C
* *
31677611 CGGGTTAAGTCCCGAAGGAATTTGTGCGAGTTACTATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAC
*
31677651 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
31677675 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 78 0.63
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAC
Found at i:31677696 original size:79 final size:79
Alignment explanation
Indices: 31677543--31677707 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
31677533 GGACTAAGAT
* * **
31677543 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGAATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
31677608 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
31677622 CCGAAGGAATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGAATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
31677685 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
31677701 CCGAAGG
1 CCGAAGG
31677708 TATGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGAATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:31685673 original size:39 final size:40
Alignment explanation
Indices: 31685575--31685756 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 40
31685565 AATGATGTCT
* * *
31685575 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT-TCC
* *
31685615 GGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAATTCC
*
31685655 GGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
* * *
31685694 GGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACT-ATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
*
31685734 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
31685757 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 36 0.30
40 75 0.62
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
Found at i:31685711 original size:79 final size:81
Alignment explanation
Indices: 31685575--31685756 Score: 221
Period size: 79 Copynumber: 2.3 Consensus size: 81
31685565 AATGATGTCT
* *
31685575 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCAAAGGCATTTGT
*
31685639 GCGAGATACTA-ATTCC
66 GCGAGATACTATA-ACC
* * * **
31685655 GGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCAAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCAAAGGCATTTG
*
31685717 TGCGAGTTACTATAACC
65 TGCGAGATACTATAACC
*
31685734 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
31685757 AACGAGTAGC
Statistics
Matches: 88, Mismatches: 10, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
78 1 0.01
79 57 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCAAAGGCATTTGT
GCGAGATACTATAACC
Found at i:31685778 original size:79 final size:79
Alignment explanation
Indices: 31685628--31685779 Score: 202
Period size: 79 Copynumber: 1.9 Consensus size: 79
31685618 CTAAGATCCG
* **
31685628 AAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATC
1 AAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAATC
31685693 CGGGTTAAGTCCCA
66 CGGGTTAAGTCCCA
* * *
31685707 AAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTAC
1 AAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTAA
31685770 ATCC-GGTTAA
63 ATCCGGGTTAA
31685780 ATTCCGAAGG
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
78 2 0.03
79 37 0.58
80 25 0.39
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
AAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAATC
CGGGTTAAGTCCCA
Found at i:31687386 original size:37 final size:37
Alignment explanation
Indices: 31687333--31687435 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
31687323 CGAATAGTCC
*
31687333 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
* *
31687370 CCACACATAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
31687407 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
31687436 ATATATTTCC
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:31687634 original size:48 final size:48
Alignment explanation
Indices: 31687576--31687865 Score: 499
Period size: 48 Copynumber: 6.0 Consensus size: 48
31687566 ATATACACAC
* * *
31687576 ATCTCCTACATATTTCACATTAGCCATTCGGCTTTACCAAATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
31687624 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
31687672 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
31687720 ATCTCATACATATTCCATATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
31687768 ATCTCATAAATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
31687816 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
31687864 AT
1 AT
31687866 TTATCTTGTA
Statistics
Matches: 229, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 229 1.00
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:31690831 original size:25 final size:26
Alignment explanation
Indices: 31690802--31690850 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
31690792 AAATCGTAAT
* *
31690802 TAAGG-GAAAATTATCAAAATACCCC
1 TAAGGTGAAAATGACCAAAATACCCC
31690827 TAAGGTGAAAATGACCAAAATACC
1 TAAGGTGAAAATGACCAAAATACC
31690851 GCTAGTTGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.49, C:0.18, G:0.14, T:0.18
Consensus pattern (26 bp):
TAAGGTGAAAATGACCAAAATACCCC
Found at i:31695932 original size:24 final size:25
Alignment explanation
Indices: 31695900--31695952 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
31695890 TTTGAATTGG
* *
31695900 ATGTTGTATATGTG-AATTGTATAA
1 ATGTCGTATATATGAAATTGTATAA
* *
31695924 ATGTCGTATGTATGAAATTGTATAT
1 ATGTCGTATATATGAAATTGTATAA
31695949 ATGT
1 ATGT
31695953 TAATTGTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 11 0.46
25 13 0.54
ACGTcount: A:0.32, C:0.02, G:0.21, T:0.45
Consensus pattern (25 bp):
ATGTCGTATATATGAAATTGTATAA
Found at i:31695959 original size:15 final size:15
Alignment explanation
Indices: 31695939--31695968 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
31695929 GTATGTATGA
*
31695939 AATTGTATATATGTT
1 AATTGTATAAATGTT
31695954 AATTGTATAAATGTT
1 AATTGTATAAATGTT
31695969 GTATATGCGA
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:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (15 bp):
AATTGTATAAATGTT
Found at i:31696361 original size:25 final size:25
Alignment explanation
Indices: 31696256--31696345 Score: 117
Period size: 25 Copynumber: 3.6 Consensus size: 25
31696246 GGCTCTTCCT
* *
31696256 GAGCTTCCTGATTAAAGGCTCTTTG
1 GAGCTTCCTGATTAATGGCTCTCTG
* *
31696281 TGAACTTCCTGATTAATGGCTCTCTA
1 -GAGCTTCCTGATTAATGGCTCTCTG
* *
31696307 GAGCTTTCTGATTAATAGCTCTCTG
1 GAGCTTCCTGATTAATGGCTCTCTG
31696332 GAGCTTCCTGATTA
1 GAGCTTCCTGATTA
31696346 GTGGTTCTTC
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
25 34 0.62
26 21 0.38
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.38
Consensus pattern (25 bp):
GAGCTTCCTGATTAATGGCTCTCTG
Found at i:31696471 original size:25 final size:24
Alignment explanation
Indices: 31696443--31696515 Score: 74
Period size: 27 Copynumber: 2.8 Consensus size: 24
31696433 TTTTCGTTAC
31696443 ATGGCTCACATGAGCTTCCCATTAT
1 ATGGCTCACATGAGCTTCCCATT-T
* * *
31696468 ATGGCTCAAGAGAGAGCTTCCCGTTT
1 ATGGCTC-ACA-TGAGCTTCCCATTT
31696494 ATGTGCTCACATGAGCATTCCC
1 ATG-GCTCACATGAGC-TTCCC
31696516 GAATATGAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
25 11 0.28
26 13 0.33
27 15 0.38
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (24 bp):
ATGGCTCACATGAGCTTCCCATTT
Found at i:31697425 original size:13 final size:13
Alignment explanation
Indices: 31697407--31697438 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
31697397 CAGAGACACG
31697407 GGCGTGTGTCTCA
1 GGCGTGTGTCTCA
31697420 GGCGTGTGTCTCA
1 GGCGTGTGTCTCA
*
31697433 GCCGTG
1 GGCGTG
31697439 GTGACACACG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.06, C:0.25, G:0.41, T:0.28
Consensus pattern (13 bp):
GGCGTGTGTCTCA
Found at i:31701934 original size:21 final size:22
Alignment explanation
Indices: 31701893--31701934 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
31701883 GGGCTCACAC
*
31701893 GCCCGTGTGGTCCAAGGGACAT
1 GCCCGTGTGGACCAAGGGACAT
*
31701915 GCCCGTGT-GACCATGGGACA
1 GCCCGTGTGGACCAAGGGACA
31701935 CATACATGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.19, C:0.29, G:0.36, T:0.17
Consensus pattern (22 bp):
GCCCGTGTGGACCAAGGGACAT
Found at i:31702136 original size:42 final size:42
Alignment explanation
Indices: 31702058--31702139 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
31702048 GTAAAGGTTT
* * *
31702058 CACATGGCCAAGACACACGCCCGTGTTCTAGGCCGTGTGCCA
1 CACATGGCCAAGACACACGCCCATGTTCCAGCCCGTGTGCCA
* *
31702100 CACATGGCTAAGACACATGCCCATGTCTCCA-CCCGTGTGC
1 CACATGGCCAAGACACACGCCCATGT-TCCAGCCCGTGTGC
31702140 ATAATTCCGA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 31 0.91
43 3 0.09
ACGTcount: A:0.22, C:0.37, G:0.23, T:0.18
Consensus pattern (42 bp):
CACATGGCCAAGACACACGCCCATGTTCCAGCCCGTGTGCCA
Found at i:31711855 original size:29 final size:29
Alignment explanation
Indices: 31711817--31711911 Score: 127
Period size: 29 Copynumber: 3.3 Consensus size: 29
31711807 GCCTAATCTT
* *
31711817 ATTCACATGGCCCATTAGGCCCAAATCAT
1 ATTCATATGGCCCATTAGGCCCAAATCAC
**
31711846 ATTTGTATGGCCCATTAGGCCCAAATCAC
1 ATTCATATGGCCCATTAGGCCCAAATCAC
* *
31711875 ATTCATACGGCCTATTAGGCCCAAATCAC
1 ATTCATATGGCCCATTAGGCCCAAATCAC
*
31711904 AGTCATAT
1 ATTCATAT
31711912 ACATGCTTTC
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 56 1.00
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (29 bp):
ATTCATATGGCCCATTAGGCCCAAATCAC
Found at i:31718925 original size:42 final size:43
Alignment explanation
Indices: 31718866--31718969 Score: 104
Period size: 42 Copynumber: 2.4 Consensus size: 43
31718856 GTAATCAACT
* * * * *
31718866 ATCGATGCCATTATCCCAAATAGGGCCTTACACG-AAA-TGAA
1 ATCGATGCCAATGTCCCAAACAGGGCCTTAAACGTAAACTCAA
* * *
31718907 ATACGATGCCAATGTCCCAGACATGGTCTTAAACGTAAATCTCAA
1 AT-CGATGCCAATGTCCCAAACAGGGCCTTAAACGTAAA-CTCAA
31718952 ATCGATGCCAATGTCCCA
1 ATCGATGCCAATGTCCCA
31718970 GACGTGGTCT
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
41 2 0.04
42 25 0.49
43 3 0.06
44 16 0.31
45 5 0.10
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (43 bp):
ATCGATGCCAATGTCCCAAACAGGGCCTTAAACGTAAACTCAA
Found at i:31719010 original size:44 final size:44
Alignment explanation
Indices: 31718905--31718998 Score: 127
Period size: 44 Copynumber: 2.1 Consensus size: 44
31718895 ACACGAAATG
* *
31718905 AAATACGATGCCAATGTCCCAGACATGGTCTTAAACGTAAATCTC
1 AAAT-CGATGCCAATGTCCCAGACATGGTCTTAAACGAAAATCAC
* *
31718950 AAATCGATGCCAATGTCCCAGACGTGGTCTTATA-GAAAATCAC
1 AAATCGATGCCAATGTCCCAGACATGGTCTTAAACGAAAATCAC
*
31718993 ATATCG
1 AAATCG
31718999 GAGTCCTATG
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
43 12 0.27
44 28 0.64
45 4 0.09
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.24
Consensus pattern (44 bp):
AAATCGATGCCAATGTCCCAGACATGGTCTTAAACGAAAATCAC
Found at i:31721167 original size:19 final size:20
Alignment explanation
Indices: 31721145--31721182 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
31721135 TCATATCATC
*
31721145 TCAAGATTTTCATG-CCATG
1 TCAAGAGTTTCATGTCCATG
31721164 TCAAGAGTTTCATGTCCAT
1 TCAAGAGTTTCATGTCCAT
31721183 TGAATCATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (20 bp):
TCAAGAGTTTCATGTCCATG
Found at i:31723038 original size:99 final size:94
Alignment explanation
Indices: 31722872--31723051 Score: 218
Period size: 99 Copynumber: 1.9 Consensus size: 94
31722862 GCCTTGAGAC
* * * *
31722872 GAGAGCTAGTGTAAGACATGTCTGGGACATGTGTCGGCTACGAGATGTATCAGTGTAAGACCGTG
1 GAGAGCTAGTGCAAGACATGTCTGGGACATGCGTCGCCTACGAGATGTATCAGTGTAAGACCATG
31722937 TCTGGGACATGGCATCAGTAAGGATATGT
66 TCTGGGACATGGCATCAGTAAGGATATGT
** *
31722966 GAGAGCTAGTGCAAGACCATGTCTGGGACATGGCGTCAGCCT-CGATTTCGATAGTCAGTGTAAT
1 GAGAGCTAGTGCAAGA-CATGTCTGGGACAT-GCGTC-GCCTACGAGAT-G-TA-TCAGTGTAAG
* *
31723030 ACCATGTCTGGTACATGTCATC
60 ACCATGTCTGGGACATGGCATC
31723052 GACTTGATGG
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
94 15 0.21
95 14 0.20
96 8 0.11
97 4 0.06
98 2 0.03
99 28 0.39
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (94 bp):
GAGAGCTAGTGCAAGACATGTCTGGGACATGCGTCGCCTACGAGATGTATCAGTGTAAGACCATG
TCTGGGACATGGCATCAGTAAGGATATGT
Found at i:31738791 original size:47 final size:47
Alignment explanation
Indices: 31738731--31738899 Score: 293
Period size: 47 Copynumber: 3.6 Consensus size: 47
31738721 GCATTGGCAC
* *
31738731 TAAGATAAGGATACCATGTAAGACCATGTTTGGAACATGGCGTTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
31738778 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
*
31738825 TAAAACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* *
31738872 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
31738900 CCAAGGAATG
Statistics
Matches: 116, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 116 1.00
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.26
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:31738951 original size:55 final size:53
Alignment explanation
Indices: 31738878--31739007 Score: 172
Period size: 55 Copynumber: 2.4 Consensus size: 53
31738868 TTGGTAAGAT
*
31738878 AAGGATATCATGTAAGACCATGCCAAGGAATGGCATTGATGAGTTACTATAAGGAA
1 AAGGATACCATGTAAGACCATGCCAAGGAATGGCATTGATGAGTT-C-ATAAGG-A
* * * *
31738934 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGAATGGCATTGATGAGTTCATAAGGA
*
31738986 AAGGATACCACGTAAGACCATG
1 AAGGATACCATGTAAGACCATG
31739008 TTAAGACATG
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
52 4 0.06
53 21 0.32
54 1 0.02
55 36 0.55
56 4 0.06
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGGAATGGCATTGATGAGTTCATAAGGA
Found at i:31739006 original size:53 final size:54
Alignment explanation
Indices: 31738878--31739044 Score: 185
Period size: 53 Copynumber: 3.1 Consensus size: 54
31738868 TTGGTAAGAT
* * *
31738878 AAGGATATCATGTAAGACCATGCCAAGGAATGGCATTGATGAGTTACTATAAGGAA
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTT-C-ATAAGGAA
* *
31738934 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGG-C
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGAA
* ** * * * *
31738986 AAGGATACCACGTAAGACCATGTTAAGACATGGCAATGGTAAGTTCAAAAAGGAA
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGAA
31739041 AAGG
1 AAGG
31739045 TTCCCGAGTA
Statistics
Matches: 94, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
52 4 0.04
53 40 0.43
54 6 0.06
55 40 0.43
56 4 0.04
ACGTcount: A:0.38, C:0.16, G:0.26, T:0.20
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGAA
Found at i:31741570 original size:13 final size:13
Alignment explanation
Indices: 31741552--31741581 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
31741542 GGCATGGGCA
*
31741552 TGTGCCCTGGCCG
1 TGTGCCCTGACCG
31741565 TGTGCCCTGACCG
1 TGTGCCCTGACCG
31741578 TGTG
1 TGTG
31741582 AATTCTGTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.03, C:0.33, G:0.37, T:0.27
Consensus pattern (13 bp):
TGTGCCCTGACCG
Found at i:31744838 original size:17 final size:18
Alignment explanation
Indices: 31744816--31744849 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
31744806 CACATTGAAG
31744816 TGTTTT-AGTGAAAACCT
1 TGTTTTCAGTGAAAACCT
*
31744833 TGTTTTCATTGAAAACC
1 TGTTTTCAGTGAAAACC
31744850 CTTCCTTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (18 bp):
TGTTTTCAGTGAAAACCT
Found at i:31746021 original size:29 final size:28
Alignment explanation
Indices: 31745958--31746021 Score: 65
Period size: 28 Copynumber: 2.2 Consensus size: 28
31745948 CATATACTTG
*
31745958 TATATGGCCCACTAGACCCAATTATATT
1 TATATGGCCCACTAGACCCAATTACATT
* * * * *
31745986 CACATGGCCCATTTGGCCCAAATTACATT
1 TATATGGCCCACTAGACCC-AATTACATT
31746015 TATATGG
1 TATATGG
31746022 TCTCTTTATG
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
28 14 0.52
29 13 0.48
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (28 bp):
TATATGGCCCACTAGACCCAATTACATT
Found at i:31747080 original size:27 final size:26
Alignment explanation
Indices: 31746975--31747098 Score: 171
Period size: 26 Copynumber: 4.8 Consensus size: 26
31746965 CCTTATTAAT
**
31746975 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
31747000 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
* * * *
31747025 AATTAGGCCATAAACCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
31747051 AACTGGGGCATAAGCCCTTTTTCAATA
1 AACTGGGGCATAAGCCC-TTTTCAATA
31747078 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
31747099 GCACTTCCTC
Statistics
Matches: 87, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
25 30 0.34
26 31 0.36
27 26 0.30
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:31747167 original size:18 final size:19
Alignment explanation
Indices: 31747144--31747212 Score: 81
Period size: 18 Copynumber: 3.6 Consensus size: 19
31747134 GCATTTATGA
31747144 ATAC-ATCATGTGCATATC
1 ATACAATCATGTGCATATC
*
31747162 ATACATATCA--TACATATC
1 ATACA-ATCATGTGCATATC
31747180 ATACATATCATGTGCATATC
1 ATACA-ATCATGTGCATATC
31747200 ATATCAATCATGT
1 ATA-CAATCATGT
31747213 ATATCAAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
18 21 0.48
20 21 0.48
21 2 0.05
ACGTcount: A:0.38, C:0.20, G:0.07, T:0.35
Consensus pattern (19 bp):
ATACAATCATGTGCATATC
Found at i:31747199 original size:20 final size:20
Alignment explanation
Indices: 31747148--31747212 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 20
31747138 TTATGAATAC
31747148 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
31747168 ATCA--TACATATCATACAT
1 ATCATGTGCATATCATACAT
31747186 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
31747206 ATCATGT
1 ATCATGT
31747213 ATATCAAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
18 17 0.43
20 21 0.52
21 2 0.05
ACGTcount: A:0.37, C:0.20, G:0.08, T:0.35
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:31747209 original size:9 final size:9
Alignment explanation
Indices: 31747156--31747190 Score: 70
Period size: 9 Copynumber: 3.9 Consensus size: 9
31747146 ACATCATGTG
31747156 CATATCATA
1 CATATCATA
31747165 CATATCATA
1 CATATCATA
31747174 CATATCATA
1 CATATCATA
31747183 CATATCAT
1 CATATCAT
31747191 GTGCATATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.43, C:0.23, G:0.00, T:0.34
Consensus pattern (9 bp):
CATATCATA
Found at i:31748916 original size:37 final size:37
Alignment explanation
Indices: 31748866--31748944 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
31748856 TTATTACGAA
* * *
31748866 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
31748903 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
31748940 GTCTT
1 GTCTT
31748945 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:31749137 original size:49 final size:49
Alignment explanation
Indices: 31749063--31749356 Score: 461
Period size: 49 Copynumber: 6.1 Consensus size: 49
31749053 CCCTTCGGGA
* * * * *
31749063 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
31749110 CCTGTCACATATATATACACTTCCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31749159 CTTATCACATATATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31749208 CTTATCAC--GTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31749255 CTTATCACATATATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31749304 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31749353 CTTA
1 CTTA
31749357 CTATCATTTC
Statistics
Matches: 226, Mismatches: 17, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
47 53 0.23
48 1 0.00
49 172 0.76
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:31749234 original size:96 final size:97
Alignment explanation
Indices: 31749063--31749356 Score: 459
Period size: 96 Copynumber: 3.0 Consensus size: 97
31749053 CCCTTCGGGA
* * * * * * * *
31749063 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAT
1 CTTATCACATATATATATACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATAT
*
31749126 ACACTTCCACATTCATCACATCGGCCATTAGGC
65 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
31749159 CTTATCACATATATATATACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-GTATATA
1 CTTATCACATATATATATACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATA
31749223 CACTTTCACATTCATCACATCGGCCATTAGGC
66 CACTTTCACATTCATCACATCGGCCATTAGGC
31749255 CTTATCACATATATATATACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATATACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATAT
31749320 ACACTTTCACATTCATCACATCGGCCATTAGGC
65 ACACTTTCACATTCATCACATCGGCCATTAGGC
31749353 CTTA
1 CTTA
31749357 CTATCATTTC
Statistics
Matches: 183, Mismatches: 11, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
96 104 0.57
97 1 0.01
98 78 0.43
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (97 bp):
CTTATCACATATATATATACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATA
CACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:31749326 original size:145 final size:145
Alignment explanation
Indices: 31749063--31749356 Score: 480
Period size: 145 Copynumber: 2.0 Consensus size: 145
31749053 CCCTTCGGGA
* * * * *
31749063 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATATAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATATAC
*
31749128 ACTTCCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATATACTTTCACATTCATCA
66 ACTTCCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
31749193 CATCGGCCATTAGGC
131 CATCGGCCATTAGGC
* * * * *
31749208 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAT
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATATAC
*
31749273 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTCCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
31749338 CATCGGCCATTAGGC
131 CATCGGCCATTAGGC
31749353 CTTA
1 CTTA
31749357 CTATCATTTC
Statistics
Matches: 137, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
145 137 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (145 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATATAC
ACTTCCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
CATCGGCCATTAGGC
Found at i:31761334 original size:26 final size:26
Alignment explanation
Indices: 31761289--31761360 Score: 128
Period size: 26 Copynumber: 2.8 Consensus size: 26
31761279 CCTCTTTAAT
31761289 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
31761314 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
31761340 AACTAGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
31761361 GCACTTCCTC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
25 10 0.22
26 35 0.78
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:31761429 original size:18 final size:19
Alignment explanation
Indices: 31761406--31761474 Score: 81
Period size: 18 Copynumber: 3.6 Consensus size: 19
31761396 GTATTTATGA
31761406 ATAC-ATCATGTGCATATC
1 ATACAATCATGTGCATATC
*
31761424 ATACATATCA--TACATATC
1 ATACA-ATCATGTGCATATC
31761442 ATACATATCATGTGCATATC
1 ATACA-ATCATGTGCATATC
31761462 ATATCAATCATGT
1 ATA-CAATCATGT
31761475 ATATCAAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
18 21 0.48
20 21 0.48
21 2 0.05
ACGTcount: A:0.38, C:0.20, G:0.07, T:0.35
Consensus pattern (19 bp):
ATACAATCATGTGCATATC
Found at i:31761461 original size:20 final size:20
Alignment explanation
Indices: 31761410--31761474 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 20
31761400 TTATGAATAC
31761410 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
31761430 ATCA--TACATATCATACAT
1 ATCATGTGCATATCATACAT
31761448 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
31761468 ATCATGT
1 ATCATGT
31761475 ATATCAAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
18 17 0.43
20 21 0.52
21 2 0.05
ACGTcount: A:0.37, C:0.20, G:0.08, T:0.35
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:31761471 original size:9 final size:9
Alignment explanation
Indices: 31761418--31761452 Score: 70
Period size: 9 Copynumber: 3.9 Consensus size: 9
31761408 ACATCATGTG
31761418 CATATCATA
1 CATATCATA
31761427 CATATCATA
1 CATATCATA
31761436 CATATCATA
1 CATATCATA
31761445 CATATCAT
1 CATATCAT
31761453 GTGCATATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.43, C:0.23, G:0.00, T:0.34
Consensus pattern (9 bp):
CATATCATA
Found at i:31761538 original size:25 final size:25
Alignment explanation
Indices: 31761510--31761557 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
31761500 ATAAGTAAAC
* * *
31761510 CCTAGGGGTATAACGGTCATTTTTA
1 CCTAGGGGCAAAACAGTCATTTTTA
31761535 CCTAGGGGCAAAACAGTCATTTT
1 CCTAGGGGCAAAACAGTCATTTT
31761558 CATAATATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (25 bp):
CCTAGGGGCAAAACAGTCATTTTTA
Found at i:31768781 original size:44 final size:43
Alignment explanation
Indices: 31768679--31768793 Score: 128
Period size: 44 Copynumber: 2.7 Consensus size: 43
31768669 AACATATACA
*
31768679 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAACATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAACATCG
* * * *
31768722 ATACC-ACTGTCCCAGACATGGTTTTACATGTAAAAT-AGAA-GTCG
1 ATGCCAAC-GTCCCAGACGTGGTCTTACATGT--AATCA-AACATCG
31768766 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
31768794 CGAAATCCTA
Statistics
Matches: 59, Mismatches: 8, Indels: 9
0.78 0.11 0.12
Matches are distributed among these distances:
42 1 0.02
43 25 0.42
44 26 0.44
45 7 0.12
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAACATCG
Found at i:31771240 original size:760 final size:760
Alignment explanation
Indices: 31769781--31771307 Score: 3045
Period size: 760 Copynumber: 2.0 Consensus size: 760
31769771 ACCCTCACTT
31769781 AAATAAGCCATATCAATTTAGCACATTAACAAAAAGAAAGCTACTTTTACATTTTACGCGATTAG
1 AAATAAGCCATATCAATTTAGCACATTAACAAAAAGAAAGCTACTTTTACATTTTACGCGATTAG
31769846 GTCATTTTTATCAAATTGAGCACACAAACAATCAAATTTTCAGACGAAACTTTCACATATGCTAA
66 GTCATTTTTATCAAATTGAGCACACAAACAATCAAATTTTCAGACGAAACTTTCACATATGCTAA
31769911 TTCACACATCATAATCACGAAAAATAATATTTAAGTATTTTTCAAACTTGGATATGTGGTCCCGA
131 TTCACACATCATAATCACGAAAAATAATATTTAAGTATTTTTCAAACTTGGATATGTGGTCCCGA
31769976 AACCACTATTTTGACTAAGGTCAAAATCAGACTGTTATACTCTTGGTTGGGATCCATTTACTAGA
196 AACCACTATTTTGACTAAGGTCAAAATCAGACTGTTATACTCTTGGTTGGGATCCATTTACTAGA
31770041 TGAAAACACAATTAAATTATCAAGAGTTGTCGCACTACCACAAATTAAATATGGCATGCATAGCT
261 TGAAAACACAATTAAATTATCAAGAGTTGTCGCACTACCACAAATTAAATATGGCATGCATAGCT
31770106 AGACTCTCATACACACTACATTAGTCTGAAAATCGACTAAACCATAGCTCTGATACCACTAAATG
326 AGACTCTCATACACACTACATTAGTCTGAAAATCGACTAAACCATAGCTCTGATACCACTAAATG
31770171 TAAGACCTCTTATCCGTATTCGACACTACAATTTTGAGTCATAAATTTTCATCCAAATTTTATAA
391 TAAGACCTCTTATCCGTATTCGACACTACAATTTTGAGTCATAAATTTTCATCCAAATTTTATAA
31770236 CCATTTGCATTCAAACATAAAGTCCCTAATACGACCCTACGAGGCCCAAATCATGCTTCAGAAGT
456 CCATTTGCATTCAAACATAAAGTCCCTAATACGACCCTACGAGGCCCAAATCATGCTTCAGAAGT
31770301 GGTTCGGGACTAAACTGACAACTCGGGAAATTTTTACAAAACTTAGAAAAATTTTGCTATGAACA
521 GGTTCGGGACTAAACTGACAACTCGGGAAATTTTTACAAAACTTAGAAAAATTTTGCTATGAACA
31770366 GGGGTCACACGCCCATGTGGTTTGGGACACACCCGTGTAGGCAGGCCGTGTGGTCACACACGACC
586 GGGGTCACACGCCCATGTGGTTTGGGACACACCCGTGTAGGCAGGCCGTGTGGTCACACACGACC
31770431 ATGTCCCTAACCCGTGTAACTCTCTATTTTACAATGCATAAACAAATTGAGATCACACGGTCATG
651 ATGTCCCTAACCCGTGTAACTCTCTATTTTACAATGCATAAACAAATTGAGATCACACGGTCATG
31770496 TCACACGCTCATGTACTAGGATGTGTGGTTAATTTAATTTTCATA
716 TCACACGCTCATGTACTAGGATGTGTGGTTAATTTAATTTTCATA
31770541 AAATAAGCCATATCAATTTAGCACATTAACAAAAAGAAAGCTACTTTTACATTTTACGCGATTAG
1 AAATAAGCCATATCAATTTAGCACATTAACAAAAAGAAAGCTACTTTTACATTTTACGCGATTAG
*
31770606 GTCATTTTTATCAAATTGAGCACACAAACAATCGAATTTTCAGACGAAACTTTCACATATGCTAA
66 GTCATTTTTATCAAATTGAGCACACAAACAATCAAATTTTCAGACGAAACTTTCACATATGCTAA
31770671 TTCACACATCATAATCACGAAAAATAATATTTAAGTATTTTTCAAACTTGGATATGTGGTCCCGA
131 TTCACACATCATAATCACGAAAAATAATATTTAAGTATTTTTCAAACTTGGATATGTGGTCCCGA
31770736 AACCACTATTTTGACTAAGGTCAAAATCAGACTGTTATACTCTTGGTTGGGATCCATTTACTAGA
196 AACCACTATTTTGACTAAGGTCAAAATCAGACTGTTATACTCTTGGTTGGGATCCATTTACTAGA
31770801 TGAAAACACAATTAAATTATCAAGAGTTGTCGCACTACCACAAATTAAATATGGCATGCATAGCT
261 TGAAAACACAATTAAATTATCAAGAGTTGTCGCACTACCACAAATTAAATATGGCATGCATAGCT
31770866 AGACTCTCATACACACTACATTAGTCTGAAAATCGACTAAACCATAGCTCTGATACCACTAAATG
326 AGACTCTCATACACACTACATTAGTCTGAAAATCGACTAAACCATAGCTCTGATACCACTAAATG
31770931 TAAGACCTCTTATCCGTATTCGACACTACAATTTTGAGTCATAAATTTTCATCCAAATTTTATAA
391 TAAGACCTCTTATCCGTATTCGACACTACAATTTTGAGTCATAAATTTTCATCCAAATTTTATAA
31770996 CCATTTGCATTCAAACATAAAGTCCCTAATACGACCCTACGAGGCCCAAATCATGCTTCAGAAGT
456 CCATTTGCATTCAAACATAAAGTCCCTAATACGACCCTACGAGGCCCAAATCATGCTTCAGAAGT
31771061 GGTTCGGGACTAAACTGACAACTCGGGAAATTTTTACAAAACTTAGAAAAATTTTGCTATGAACA
521 GGTTCGGGACTAAACTGACAACTCGGGAAATTTTTACAAAACTTAGAAAAATTTTGCTATGAACA
31771126 GGGGTCACACGCCCATGTGGTTTGGGACACACCCGTGTAGGCAGGCCGTGTGGTCACACACGACC
586 GGGGTCACACGCCCATGTGGTTTGGGACACACCCGTGTAGGCAGGCCGTGTGGTCACACACGACC
31771191 ATGTCCCTAACCCGTGTAACTCTCTATTTTACAATGCATAAACAAATTGAGATCACACGGTCATG
651 ATGTCCCTAACCCGTGTAACTCTCTATTTTACAATGCATAAACAAATTGAGATCACACGGTCATG
31771256 TCACACGCTCATGTACTAGGATGTGTGGTTAATTTAATTTTCATA
716 TCACACGCTCATGTACTAGGATGTGTGGTTAATTTAATTTTCATA
31771301 AAATAAG
1 AAATAAG
31771308 TGTAGACTTT
Statistics
Matches: 766, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
760 766 1.00
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (760 bp):
AAATAAGCCATATCAATTTAGCACATTAACAAAAAGAAAGCTACTTTTACATTTTACGCGATTAG
GTCATTTTTATCAAATTGAGCACACAAACAATCAAATTTTCAGACGAAACTTTCACATATGCTAA
TTCACACATCATAATCACGAAAAATAATATTTAAGTATTTTTCAAACTTGGATATGTGGTCCCGA
AACCACTATTTTGACTAAGGTCAAAATCAGACTGTTATACTCTTGGTTGGGATCCATTTACTAGA
TGAAAACACAATTAAATTATCAAGAGTTGTCGCACTACCACAAATTAAATATGGCATGCATAGCT
AGACTCTCATACACACTACATTAGTCTGAAAATCGACTAAACCATAGCTCTGATACCACTAAATG
TAAGACCTCTTATCCGTATTCGACACTACAATTTTGAGTCATAAATTTTCATCCAAATTTTATAA
CCATTTGCATTCAAACATAAAGTCCCTAATACGACCCTACGAGGCCCAAATCATGCTTCAGAAGT
GGTTCGGGACTAAACTGACAACTCGGGAAATTTTTACAAAACTTAGAAAAATTTTGCTATGAACA
GGGGTCACACGCCCATGTGGTTTGGGACACACCCGTGTAGGCAGGCCGTGTGGTCACACACGACC
ATGTCCCTAACCCGTGTAACTCTCTATTTTACAATGCATAAACAAATTGAGATCACACGGTCATG
TCACACGCTCATGTACTAGGATGTGTGGTTAATTTAATTTTCATA
Found at i:31773571 original size:27 final size:26
Alignment explanation
Indices: 31773527--31773577 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
31773517 CTCGCTGCAA
*
31773527 TCTGGTGGCCTCGCCACATATATCTAT
1 TCTGGTGACCTCGCCACA-ATATCTAT
* *
31773554 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
31773578 GGCAGCCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTAT
Found at i:31781121 original size:27 final size:25
Alignment explanation
Indices: 31781084--31781142 Score: 64
Period size: 27 Copynumber: 2.3 Consensus size: 25
31781074 ACATATATAT
*
31781084 ATATCTGTTTGGTGGCCTAGCCACA
1 ATATCTGTTTGGTGACCTAGCCACA
* * *
31781109 ATATCTGTATTTGGTGACTTCGTCACA
1 ATATCTG--TTTGGTGACCTAGCCACA
31781136 ATATCTG
1 ATATCTG
31781143 GCAGCCTTGC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 7 0.25
27 21 0.75
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.37
Consensus pattern (25 bp):
ATATCTGTTTGGTGACCTAGCCACA
Found at i:31783891 original size:27 final size:27
Alignment explanation
Indices: 31783875--31784123 Score: 309
Period size: 27 Copynumber: 9.2 Consensus size: 27
31783865 CAATTTGTAA
* *
31783875 AATTATCGTTTTACCCTCAATTTACAG
1 AATTACCGTTTTACCCTCGATTTACAG
* *
31783902 AATTACCGTTTTACCCTCTATTTATAG
1 AATTACCGTTTTACCCTCGATTTACAG
* * *
31783929 AATTACCATTTTACCCTCAATTTATAG
1 AATTACCGTTTTACCCTCGATTTACAG
* * *
31783956 AATTACCATTTTACCCTCGATTTATAA
1 AATTACCGTTTTACCCTCGATTTACAG
**
31783983 AATTACTATTTTACCCTCGATTTACAG
1 AATTACCGTTTTACCCTCGATTTACAG
* *
31784010 AATTACCATTTTACCCTCGATTTATAG
1 AATTACCGTTTTACCCTCGATTTACAG
** * *
31784037 AATTATAGTTTTACCCTTGATTTACAA
1 AATTACCGTTTTACCCTCGATTTACAG
*
31784064 AATTACTGTTTTACCCTCGATTTACAG
1 AATTACCGTTTTACCCTCGATTTACAG
* *
31784091 AATTACCGTTTTACCCTCAATTTACAA
1 AATTACCGTTTTACCCTCGATTTACAG
31784118 AATTAC
1 AATTAC
31784124 TAAAATACCC
Statistics
Matches: 197, Mismatches: 25, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 197 1.00
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.41
Consensus pattern (27 bp):
AATTACCGTTTTACCCTCGATTTACAG
Found at i:31783987 original size:81 final size:81
Alignment explanation
Indices: 31783861--31784150 Score: 357
Period size: 81 Copynumber: 3.6 Consensus size: 81
31783851 TACTGAAATG
* * * * * * *
31783861 CCCTCAATTTGTAAAATTATCGTTTTACCCTCAATTTACAGAATTACCGTTTTACCCTCTATTTA
1 CCCTCAATTTATAAAATTACCATTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTA
*
31783926 TAGAATTACCATTTTA
66 CAGAATTACCATTTTA
* * *
31783942 CCCTCAATTTATAGAATTACCATTTTACCCTCGATTTATAAAATTACTATTTTACCCTCGATTTA
1 CCCTCAATTTATAAAATTACCATTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTA
31784007 CAGAATTACCATTTTA
66 CAGAATTACCATTTTA
* * * *
31784023 CCCTCGATTTATAGAATTA-TAGTTTTACCCTTGATTTACAAAATTACTGTTTTACCCTCGATTT
1 CCCTCAATTTATAAAATTACCA-TTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTT
*
31784087 ACAGAATTACCGTTTTA
65 ACAGAATTACCATTTTA
* * *** * *
31784104 CCCTCAATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTAC
1 CCCTCAATTTATAAAATTACCATTTTACCCTCGATTTACAAAATTAC
31784151 CAAAATACCC
Statistics
Matches: 183, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
80 1 0.01
81 180 0.98
82 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.07, T:0.40
Consensus pattern (81 bp):
CCCTCAATTTATAAAATTACCATTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTA
CAGAATTACCATTTTA
Found at i:31784132 original size:27 final size:27
Alignment explanation
Indices: 31784102--31784309 Score: 165
Period size: 27 Copynumber: 7.7 Consensus size: 27
31784092 ATTACCGTTT
** * *
31784102 TACCCTCAATTTACAAAATTACTAAAA
1 TACCCTCGGTTTATAAAATTACCAAAA
* *
31784129 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGGTTTATAAAATTACCAAAA
* *
31784156 TACCCTC-GATCAGTAAAATTACCAAAA
1 TACCCTCGGTTTA-TAAAATTACCAAAA
* *
31784183 TACCC-CTGGTTTGTAAAATTACTAAAA
1 TACCCTC-GGTTTATAAAATTACCAAAA
31784210 TATCCCT-GGTTTATAAAATTACCAAAA
1 TA-CCCTCGGTTTATAAAATTACCAAAA
* *
31784237 TACCC-CTGGCTTGTAAAATTACCAAAA
1 TACCCTC-GGTTTATAAAATTACCAAAA
* * * *
31784264 TACCC-CTGATTTGTGAAATTATCAAAA
1 TACCCTC-GGTTTATAAAATTACCAAAA
* * *
31784291 TACTCTCGATTTGTAAAAT
1 TACCCTCGGTTTATAAAAT
31784310 ATCGAAATAC
Statistics
Matches: 151, Mismatches: 22, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
26 7 0.05
27 138 0.91
28 6 0.04
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
TACCCTCGGTTTATAAAATTACCAAAA
Found at i:31784277 original size:81 final size:81
Alignment explanation
Indices: 31784116--31784293 Score: 254
Period size: 81 Copynumber: 2.2 Consensus size: 81
31784106 CTCAATTTAC
31784116 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
1 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
*
31784181 AATACCCCTGGTTTGT
66 AATACCCCTGATTTGT
* * * *
31784197 AAAATTACTAAAATATCCC-TGGTTTATAAAATTACCAAAATACCCCTGGCT-TGTAAAATTACC
1 AAAATTACTAAAATA-CCCTTGGTTTACAAAATTACCAAAATA-CCCTCGATCAGTAAAATTACC
31784260 AAAATACCCCTGATTTGT
64 AAAATACCCCTGATTTGT
*
31784278 GAAATTA-TCAAAATAC
1 AAAATTACT-AAAATAC
31784294 TCTCGATTTG
Statistics
Matches: 88, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
80 2 0.02
81 77 0.88
82 9 0.10
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (81 bp):
AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
AATACCCCTGATTTGT
Found at i:31784309 original size:54 final size:53
Alignment explanation
Indices: 31784116--31784293 Score: 221
Period size: 54 Copynumber: 3.3 Consensus size: 53
31784106 CTCAATTTAC
* * ** **
31784116 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAGT
1 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCT-GATTTGT
* * *
31784170 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATATCCCTGGTTTAT
1 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATA-CCCTGATTTGT
*
31784224 AAAATTACCAAAATACCCCTGGCTTGTAAAATTACCAAAATACCCCTGATTTGT
1 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATA-CCCTGATTTGT
* *
31784278 GAAATTATCAAAATAC
1 AAAATTACCAAAATAC
31784294 TCTCGATTTG
Statistics
Matches: 107, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
54 103 0.96
55 4 0.04
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (53 bp):
AAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTGATTTGT
Found at i:31784344 original size:27 final size:27
Alignment explanation
Indices: 31784312--31784555 Score: 308
Period size: 27 Copynumber: 9.0 Consensus size: 27
31784302 TGTAAAATAT
* * *
31784312 CGAAATACCCGTATACGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
31784339 CGAAATACCTCTGTAGGATAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
31784366 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * *
31784393 TGAAATAACCCTGTAGGGTAGAATTAT
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
31784420 CAAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
31784447 TGAAATACCCTTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
31784474 CGAAATACCCTTGTAGGGTAGAAATAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
31784501 CGAAATACCCCTATAGGGTAGAATTAT
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * * * *
31784528 CGAGATACCCTTTTGGGGTAAAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
31784555 C
1 C
31784556 ATTTTGCCCC
Statistics
Matches: 188, Mismatches: 29, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 188 1.00
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.25
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAATTAC
Found at i:31784796 original size:25 final size:25
Alignment explanation
Indices: 31784758--31784852 Score: 109
Period size: 25 Copynumber: 3.8 Consensus size: 25
31784748 AGGAAGTGCT
* * *
31784758 AAAAGGGCTATGCCTCGGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
31784783 AAAAGGGCTTTGCCCCAATTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
** * *
31784808 AAAATTGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
31784833 AAAAGGGCTTTGCCCTAGTT
1 AAAAGGGCTTTGCCCCAGTT
31784853 ATTAAAAGAG
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 58 1.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.28
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:31789671 original size:25 final size:25
Alignment explanation
Indices: 31789603--31789671 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 25
31789593 TCTATTTGTC
* *
31789603 AGCTTCCTGATTAATGGCTCTCTAG
1 AGCTTCCTGATTAATGGCTATCCAG
* *
31789628 AGCTT-TTCGA-TATACGGCTATCCAG
1 AGCTTCCT-GATTA-ATGGCTATCCAG
31789653 AGCTTCCTGATTAATGGCT
1 AGCTTCCTGATTAATGGCT
31789672 CTTACGAGCT
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
24 3 0.09
25 28 0.82
26 3 0.09
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (25 bp):
AGCTTCCTGATTAATGGCTATCCAG
Found at i:31789704 original size:24 final size:24
Alignment explanation
Indices: 31789652--31789738 Score: 79
Period size: 24 Copynumber: 3.6 Consensus size: 24
31789642 CGGCTATCCA
* * * *
31789652 GAGCTTCCTGATTAATGGCTCTTAC
1 GAGCTTCCCG-TTATTGGCTCTAAT
*
31789677 GAGCTACCCGTTATTGGCTC-ACAT
1 GAGCTTCCCGTTATTGGCTCTA-AT
*
31789701 GAGCTTCCTGATTA-TGGCTCTAAT
1 GAGCTTCCCG-TTATTGGCTCTAAT
31789725 GAGCTTCCCGTTAT
1 GAGCTTCCCGTTAT
31789739 ATAGCCCAGA
Statistics
Matches: 50, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
23 3 0.06
24 35 0.70
25 12 0.24
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.34
Consensus pattern (24 bp):
GAGCTTCCCGTTATTGGCTCTAAT
Found at i:31789755 original size:49 final size:49
Alignment explanation
Indices: 31789653--31789757 Score: 131
Period size: 49 Copynumber: 2.1 Consensus size: 49
31789643 GGCTATCCAG
* * * *
31789653 AGCTTCCTGATTAATGGCTCTTACGAGCTACCCGTTATTGGCTCACATG
1 AGCTTCCTGATTAATGGCTCTAACGAGCTACCCGTTATTAGCCCACATA
* * *
31789702 AGCTTCCTGATT-ATGGCTCTAATGAGCTTCCCGTTATATAGCCCAGATA
1 AGCTTCCTGATTAATGGCTCTAACGAGCTACCCGTTAT-TAGCCCACATA
31789751 AGCTTCC
1 AGCTTCC
31789758 CGTTATATAG
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
48 22 0.46
49 26 0.54
ACGTcount: A:0.22, C:0.27, G:0.19, T:0.32
Consensus pattern (49 bp):
AGCTTCCTGATTAATGGCTCTAACGAGCTACCCGTTATTAGCCCACATA
Found at i:31789783 original size:27 final size:25
Alignment explanation
Indices: 31789726--31789814 Score: 108
Period size: 25 Copynumber: 3.6 Consensus size: 25
31789716 GGCTCTAATG
31789726 AGCTTCCCGTTATATAGCCCAGATA
1 AGCTTCCCGTTATATAGCCCAGATA
31789751 AGCTTCCCGTTATATAGCCCAGATA
1 AGCTTCCCGTTATATAGCCCAGATA
* * * * *
31789776 AGC-TCTTCGTTACATAGCTCACATG
1 AGCTTC-CCGTTATATAGCCCAGATA
*
31789801 AGCTTCCTGTTATA
1 AGCTTCCCGTTATA
31789815 CTGTTCGAGA
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
24 2 0.04
25 50 0.93
26 2 0.04
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.31
Consensus pattern (25 bp):
AGCTTCCCGTTATATAGCCCAGATA
Found at i:31794435 original size:9 final size:9
Alignment explanation
Indices: 31794421--31794501 Score: 51
Period size: 9 Copynumber: 8.9 Consensus size: 9
31794411 ACGTACTCCT
31794421 TTAAAAATA
1 TTAAAAATA
31794430 TTAAAAA-A
1 TTAAAAATA
31794438 TTGAAAAA-A
1 TT-AAAAATA
* *
31794447 CTAAAAAAA
1 TTAAAAATA
31794456 TGTAAAAATA
1 T-TAAAAATA
* *
31794466 CT-AAAACA
1 TTAAAAATA
*
31794474 TTAATAATA
1 TTAAAAATA
*
31794483 TGTAAAAAAA
1 T-TAAAAATA
31794493 TATAAAAAT
1 T-TAAAAAT
31794502 TGTAATTTTT
Statistics
Matches: 55, Mismatches: 12, Indels: 9
0.72 0.16 0.12
Matches are distributed among these distances:
8 14 0.25
9 21 0.38
10 20 0.36
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.26
Consensus pattern (9 bp):
TTAAAAATA
Found at i:31794451 original size:17 final size:19
Alignment explanation
Indices: 31794422--31794501 Score: 69
Period size: 17 Copynumber: 4.4 Consensus size: 19
31794412 CGTACTCCTT
* *
31794422 TAAAAATATTAAAAAATTG
1 TAAAAATACTAAAAAAATG
31794441 -AAAAA-ACTAAAAAAATG
1 TAAAAATACTAAAAAAATG
*
31794458 TAAAAATACT-AAAACAT-
1 TAAAAATACTAAAAAAATG
* * *
31794475 TAATAATATGTAAAAAAATA
1 TAAAAATA-CTAAAAAAATG
31794495 TAAAAAT
1 TAAAAAT
31794502 TGTAATTTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
17 17 0.35
18 17 0.35
19 9 0.18
20 6 0.12
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.25
Consensus pattern (19 bp):
TAAAAATACTAAAAAAATG
Found at i:31795282 original size:5 final size:5
Alignment explanation
Indices: 31795272--31795296 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
31795262 ATTAATGAAT
31795272 CAAAA CAAAA CAAAA CAAAA CAAAA
1 CAAAA CAAAA CAAAA CAAAA CAAAA
31795297 AAAGCATATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.20, G:0.00, T:0.00
Consensus pattern (5 bp):
CAAAA
Found at i:31797011 original size:888 final size:883
Alignment explanation
Indices: 31795052--31797968 Score: 4117
Period size: 888 Copynumber: 3.3 Consensus size: 883
31795042 AGTAATTAAT
* * *
31795052 ATTTTGATGTTTGGTTGCTTAATTAAGTAAAAAGAACTAAATCGTAAAAGTTGCAAAAGTTAAGC
1 ATTTTGATGTTTGGTTACTTAATTAAGTAAAAAGGACTAAATCGTAAAAGCTGCAAAAGTTAAGC
*
31795117 ACTAT-AGATTTATTTGTATTAAATAGATATAAAATCATGAATTAAGGGATTTATA-AGTAATTA
66 ACTATAAG-TTTATTTGTATTAAATAGATATAAAATCATGAATTAAGAGATTTATATAGTAATTA
* * * *
31795180 GAACTATTTAGATTATGGTGGATGGTTAGTGGCTTTTAATTATGAAATTTTAATTGTTTTTAAAG
130 GACCTATTTAGATTATGGTGGA-CGTTAGTGGGTTTTAATTATGAAATTTTAGTTGTTTTTAAAG
* * * *
31795245 GTTAAAATAGTAAATTAATTAATGAATCAAAACAAAACAAAACAAAACAAAAAAAGCATATGGTC
194 GTTAAAATAGTAAATTAA-T--T-AAT-AAATCAAAAGAAAACAAAA-AAGAAAAGCATGTGGTC
* ** * *
31795310 ATCGGCTGTGCAAGAATACTATTTTCAAATTGAATATTTTTCCAATAATTGGTATCAA-AAGTCA
253 ATCTGCTGTGCAAGAATACTATTTTCAAACCGGATATTTTTCCAACAATTGGTATCAAGAA-TCA
* *
31795374 GGTTGTGCTATGTTTATGGTGTAAAACGAGACTGAATCTTTCTCTTCATCTTGTTTGATTAATAT
317 GGTTGTGCTATGTTTATGGTGTAAAACGAGACTGAATCTCTCTCTTCATCTTATTTGATTAATAT
* * *
31795439 TTGACAAGATGTGACATTTTTGTAGTTATTTGCATGCTTAAGGGAATGTATGTGAATGAATGCAA
382 TTGATAAGATGTGACATTCTTGTAGTTA-TTGCATGTTTAAGGGAATGTATGTGAATGAATGCAA
* ** * *
31795504 TATTATATATTTGTTATATAATAATTAATT-TTTTGCCAAGGTTGTGGTTCTTAGGAAATAAACC
446 TATTATATATTTGTTATATAAT-TTTTTTTCTTTTTCCAAGGTTGTGGTTCTTAGGAAATAGACC
* *
31795568 GTATACTATCATCTCCACATAGAATTATTTTTTATTTTTGGAATTCTTGTGAGCTAGAAACGGAC
510 GTATACTATCATCTCCACATAGAATTATTTTTTATTTTTTGAATTCTTGTGAGCTAGAAACAGAC
* *
31795633 GTAGGACATAAATGTAATTTTTCCAAAAGGGAGCCCATAATGAGGAAAAGATGGAGCGATGACAG
575 GTAGGACATAAATGTAATTTTTCCAAAA-GGAGTCCATAATGAGGAGAAGATGGAGCGATGACAG
* * * * *
31795698 TCGAAGACACAAGGAATGCCTTATGATGAAAAACTATGTAATTTTTTATTTTTCATTTATTTTCT
639 TCAAAGATACAAGGAATGCCTTGTGATGAAAAACTGTGTAA-TTTTT-TTTTTCATTTATTTTAT
* * * * *
31795763 AAAAATAGAACGATAGAGACATTGGCTGACAATTTTATTTAGTTACCCATTTGTAACAACCCGTT
702 AAAAATAGAA-GA-ATAGACATTGGTTGACAATTTTATTTTGTTACCCATCTGTAACAACCCTTT
* * * * * * **
31795828 TTCAGTGGTATCAAAAATAGTGATTTTGGGACCATGATTTCGATCAATGAGTCAGTACTATGCTA
765 TTCAGTGGTATCAAAAATAATGGTTTTGGGACCACGATTTCGATCAGTGAGTTAGTATTATATTA
* * *
31795893 TTTATTTAATATTTATGAGTCTATTATAGTGTCGTAAAAAACTTTGGTTTAAAA
830 TTTATTTAATATTTATGAGTCTATTAAAGTGTCGTAATAAAGTTTGGTTTAAAA
* * *
31795947 ATTTTGATGTTTGGTTGCTTAATTAAGT-AAAAGGTCTAAATCATAAAAGCTGCAAAAGTTAAGC
1 ATTTTGATGTTTGGTTACTTAATTAAGTAAAAAGGACTAAATCGTAAAAGCTGCAAAAGTTAAGC
* *
31796011 ACTATAGGTTTATTTGTATTAAATAGATATAAAATCATGAATTAAGGGATTTATATAGTAATTAG
66 ACTATAAGTTTATTTGTATTAAATAGATATAAAATCATGAATTAAGAGATTTATATAGTAATTAG
*
31796076 ACCTATTTAGATTATGGTGGATTGTTAGTGGGTTTTAATTATGAAATTTTAGTTGTTTTTAAAGG
131 ACCTATTTAGATTATGGTGGA-CGTTAGTGGGTTTTAATTATGAAATTTTAGTTGTTTTTAAAGG
*
31796141 TT-AAAGAGTAAATTAATTAATAAATCAAAAGAAAACAAAAAAGAAAAGCATGTGGTCATCTGCT
195 TTAAAATAGTAAATTAATTAATAAATCAAAAGAAAACAAAAAAGAAAAGCATGTGGTCATCTGCT
*
31796205 ATGCAAGAATACTATTTTCAAACCGGATATTTTTCCAACAATTGGTATCAAGAATCAGGTTGTGC
260 GTGCAAGAATACTATTTTCAAACCGGATATTTTTCCAACAATTGGTATCAAGAATCAGGTTGTGC
* * * * *
31796270 TATATTTATGGTGTAAAATGAGACTGGACCTCTCTCTTCATTTTATTTGATTAATATTTGATAAG
325 TATGTTTATGGTGTAAAACGAGACTGAATCTCTCTCTTCATCTTATTTGATTAATATTTGATAAG
* * *
31796335 ATGTGATATTCTTGTAGTTATTGCATGTTTAAAGGAATGTATGTGAATGAATGCAATATTATATG
390 ATGTGACATTCTTGTAGTTATTGCATGTTTAAGGGAATGTATGTGAATGAATGCAATATTATATA
* * *
31796400 TTTGTTATATAATTTTTTTTTCTTTTTCCAAGTTTGTGTTTCTTAGGAAATAGACCATATACTAT
455 TTTGTTATATAA-TTTTTTTTCTTTTTCCAAGGTTGTGGTTCTTAGGAAATAGACCGTATACTAT
** *
31796465 CATCTCCGTATAGGATTATTTTTTATTTTTTGAATTCTTGTGAGCTAGAAACAGACGTAGGACAT
519 CATCTCCACATAGAATTATTTTTTATTTTTTGAATTCTTGTGAGCTAGAAACAGACGTAGGACAT
*
31796530 AAATGTAATTTTTCCAAATAGGAGTCCATAATGAGGAGAAGATGGAGCAATGACAGTCAAAGATA
584 AAATGTAATTTTTCCAAA-AGGAGTCCATAATGAGGAGAAGATGGAGCGATGACAGTCAAAGATA
* *
31796595 CAAGGAATGCCTTGTGATGAAAAACTGCGTAATTTTTGTTTTTCATTTATTTTATAAAAAGAGAA
648 CAAGGAATGCCTTGTGATGAAAAACTGTGTAATTTTT-TTTTTCATTTATTTTATAAAAATAGAA
* *
31796660 GAATAGACATTGGTTGACAATTTTATTTTGTTACCCATCTATAACAACCCTTTTTCACTGGTATC
712 GAATAGACATTGGTTGACAATTTTATTTTGTTACCCATCTGTAACAACCCTTTTTCAGTGGTATC
*
31796725 AAAAACAATGGTTTTGGGGACCACGATTTCGATCAGTGAGTTAGTATTATATTATTTATTTAATA
777 AAAAATAATGGTTTT-GGGACCACGATTTCGATCAGTGAGTTAGTATTATATTATTTATTTAATA
* * *
31796790 TTTATGAGTATACTAAAGTGTCTTAATAAAGTTTGGTTTAAAAA
841 TTTATGAGTCTATTAAAGTGTCGTAATAAAGTTTGGTTT-AAAA
* *
31796834 ATTTTGATTTTTGGTTATTTAATTAAGTAAAAAGGA-TGAAATCGTAAAAGCTGCAAAAGTTAAG
1 ATTTTGATGTTTGGTTACTTAATTAAGTAAAAAGGACT-AAATCGTAAAAGCTGCAAAAGTTAAG
* * *
31796898 TACTACAAGTTTATTTGTATTAAATAGATATAAAATCATGAATTAAGAGATTTATATAGTAATTG
65 CACTATAAGTTTATTTGTATTAAATAGATATAAAATCATGAATTAAGAGATTTATATAGTAATTA
*
31796963 GACCTATTTAGATTATGGTGGACGATTAGTGGGTTTTAATTATGAAATTTTAGTTGTTTTTAAAT
130 GACCTATTTAGATTATGGTGGACG-TTAGTGGGTTTTAATTATGAAATTTTAGTTGTTTTTAAAG
* * * * *
31797028 GTTTAAATAGTAAATTAATTAATAAATCAAAAGAAAA-AAAATAGAAAAGTATGTGGTCTTCTAC
194 GTTAAAATAGTAAATTAATTAATAAATCAAAAGAAAACAAAAAAGAAAAGCATGTGGTCATCTGC
* * * *
31797092 TGTGCCAGAATA-TCGTTTTCGAACCGGATATTTTTCCAACAATTGGTATCAAGAGTCAGGTTGT
259 TGTGCAAGAATACT-ATTTTCAAACCGGATATTTTTCCAACAATTGGTATCAAGAATCAGGTTGT
*
31797156 GCTATGTTTATGGTGTAAAACGAGA-TCGAATCTCTCTTTTCATCTTATTTGATTAATATTTGAT
323 GCTATGTTTATGGTGTAAAACGAGACT-GAATCTCTCTCTTCATCTTATTTGATTAATATTTGAT
* * *
31797220 AATATGTTACATTCTTGTAGTTATTCGCATGTTTAAGGGAATGTATGTGAATGAATGTAATATTA
387 AAGATGTGACATTCTTGTAGTTATT-GCATGTTTAAGGGAATGTATGTGAATGAATGCAATATTA
* * * * * * *
31797285 TATCTTTTTTATATAA-TTATTATCTTTTTATCAAGGTTGTGGTTCGTAGGAAATGGACCGTATA
451 TATATTTGTTATATAATTTTTTTTCTTTTT-CCAAGGTTGTGGTTCTTAGGAAATAGACCGTATA
* *
31797349 CTATAATCTCCACATAGTATTATTTTTTATTTTTTGAATTCTTGTGAGCTAGAAACAGACGTAGG
515 CTATCATCTCCACATAGAATTATTTTTTATTTTTTGAATTCTTGTGAGCTAGAAACAGACGTAGG
* * * * *
31797414 ACAGAAATGTAATTTTTCCAAAAAGAAGTTCATGATGAGGAGAAGATGGAGCGATGACGGTCAAA
580 ACATAAATGTAATTTTTCC-AAAAGGAGTCCATAATGAGGAGAAGATGGAGCGATGACAGTCAAA
* * * *
31797479 GATATAAGCAATGCCTTGTGATGAAGAAA-TGTTTAA---TTTTTTT-ATTTATTTTATGAAAAT
644 GATACAAGGAATGCCTTGTGATGAA-AAACTGTGTAATTTTTTTTTTCATTTATTTTATAAAAAT
* * *
31797539 AGAAAAATAGAAACATT-ATCTGACAATTTTATTTTGTTACCAATCTGTAACAACCCGTTTTTCA
708 AGAAGAATAG--ACATTGGT-TGACAATTTTATTTTGTTACCCATCTGTAACAACCC-TTTTTCA
* * * * *
31797603 GTGGTATAAAAAATAATGGTTTCGAGATCACAATTTCGATCAGTGAGTTAGTATTATATTATTTA
769 GTGGTATCAAAAATAATGGTTTTGGGACCACGATTTCGATCAGTGAGTTAGTATTATATTATTTA
* * *
31797668 TTTAATATTTATGAGTCTATTAATGTGTCGTAATAAAGTTTGATTGAAAA
834 TTTAATATTTATGAGTCTATTAAAGTGTCGTAATAAAGTTTGGTTTAAAA
* * * * *
31797718 GTTTTGA-GTTTTTGTTACTTAATAAAGTAAAAAAAAGACTAAATCGTAAAAGCTACAAAAGTTA
1 ATTTTGATG-TTTGGTTACTTAATTAAGT--AAAAAGGACTAAATCGTAAAAGCTGCAAAAGTTA
*
31797782 AGCACTATAGGTTTATTTGTATTAAATAGATATAAAATCATGAATTAAGAGATTTATATAGTAAT
63 AGCACTATAAGTTTATTTGTATTAAATAGATATAAAATCATGAATTAAGAGATTTATATAGTAAT
*
31797847 TAGACCTATTTAGATTATGGTGGACTGTTAGTGGGTTTTAATTATGAACTTTTAGTT-TTTTTAA
128 TAGACCTATTTAGATTATGGTGGAC-GTTAGTGGGTTTTAATTATGAAATTTTAGTTGTTTTTAA
31797911 AGGTTAAAATAGTAAATTAATTAATAAATCAAAAGAAAACAAAAAAGAAAAGCATGTG
192 AGGTTAAAATAGTAAATTAATTAATAAATCAAAAGAAAACAAAAAAGAAAAGCATGTG
31797969 ATCTTTCATT
Statistics
Matches: 1823, Mismatches: 171, Indels: 65
0.89 0.08 0.03
Matches are distributed among these distances:
883 24 0.01
884 32 0.02
885 232 0.13
886 265 0.15
887 134 0.07
888 824 0.45
889 109 0.06
890 3 0.00
891 1 0.00
893 1 0.00
894 97 0.05
895 101 0.06
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (883 bp):
ATTTTGATGTTTGGTTACTTAATTAAGTAAAAAGGACTAAATCGTAAAAGCTGCAAAAGTTAAGC
ACTATAAGTTTATTTGTATTAAATAGATATAAAATCATGAATTAAGAGATTTATATAGTAATTAG
ACCTATTTAGATTATGGTGGACGTTAGTGGGTTTTAATTATGAAATTTTAGTTGTTTTTAAAGGT
TAAAATAGTAAATTAATTAATAAATCAAAAGAAAACAAAAAAGAAAAGCATGTGGTCATCTGCTG
TGCAAGAATACTATTTTCAAACCGGATATTTTTCCAACAATTGGTATCAAGAATCAGGTTGTGCT
ATGTTTATGGTGTAAAACGAGACTGAATCTCTCTCTTCATCTTATTTGATTAATATTTGATAAGA
TGTGACATTCTTGTAGTTATTGCATGTTTAAGGGAATGTATGTGAATGAATGCAATATTATATAT
TTGTTATATAATTTTTTTTCTTTTTCCAAGGTTGTGGTTCTTAGGAAATAGACCGTATACTATCA
TCTCCACATAGAATTATTTTTTATTTTTTGAATTCTTGTGAGCTAGAAACAGACGTAGGACATAA
ATGTAATTTTTCCAAAAGGAGTCCATAATGAGGAGAAGATGGAGCGATGACAGTCAAAGATACAA
GGAATGCCTTGTGATGAAAAACTGTGTAATTTTTTTTTTCATTTATTTTATAAAAATAGAAGAAT
AGACATTGGTTGACAATTTTATTTTGTTACCCATCTGTAACAACCCTTTTTCAGTGGTATCAAAA
ATAATGGTTTTGGGACCACGATTTCGATCAGTGAGTTAGTATTATATTATTTATTTAATATTTAT
GAGTCTATTAAAGTGTCGTAATAAAGTTTGGTTTAAAA
Found at i:31806131 original size:12 final size:12
Alignment explanation
Indices: 31806114--31806140 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
31806104 ATTCCGAAGT
31806114 ATATATATATAC
1 ATATATATATAC
31806126 ATATATATATAC
1 ATATATATATAC
31806138 ATA
1 ATA
31806141 AGTATGCCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:31806661 original size:28 final size:28
Alignment explanation
Indices: 31806593--31806746 Score: 229
Period size: 28 Copynumber: 5.5 Consensus size: 28
31806583 CATGAGATTG
* * * *
31806593 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
31806622 GCACTAAGTGTGTGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
31806650 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
31806678 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
31806706 GCACTAAGTGTACGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
31806733 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
31806747 GACTTATATA
Statistics
Matches: 116, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.20
28 76 0.66
29 17 0.15
ACGTcount: A:0.28, C:0.12, G:0.27, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:31814240 original size:12 final size:12
Alignment explanation
Indices: 31814223--31814248 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
31814213 CATTCCGAAG
31814223 TATATATATACA
1 TATATATATACA
31814235 TATATATATACA
1 TATATATATACA
31814247 TA
1 TA
31814249 AGTATGCCCA
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:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:31814763 original size:28 final size:28
Alignment explanation
Indices: 31814695--31814848 Score: 238
Period size: 28 Copynumber: 5.5 Consensus size: 28
31814685 CATGAGATTG
* * * *
31814695 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
31814724 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
31814752 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
31814780 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
31814808 GCACTAAGTGTACGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
31814835 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
31814849 GACTTATATA
Statistics
Matches: 118, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
27 23 0.19
28 77 0.65
29 18 0.15
ACGTcount: A:0.28, C:0.12, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:31819587 original size:55 final size:54
Alignment explanation
Indices: 31819500--31819715 Score: 242
Period size: 55 Copynumber: 4.0 Consensus size: 54
31819490 ATTAGGGTTT
31819500 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGC-ATTGGTAA-GTTTCATAAGGC
* ** *
31819555 AAGGATATCATGTAAGACCATTTC-AGGACATGGCATTGATAAGTTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGG-CATGGCATTGGTAAGTTTC-ATAAGGC
* * * *
31819610 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTAGTGAG-TTCGTAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTCATAAGGC
* * * * *
31819663 AAGGATACCATGTAAGACCATGTCGAGACATGGCAATGGTAAGTTTCAAAAGG
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTCATAAGG
31819716 ATACTACGTA
Statistics
Matches: 133, Mismatches: 21, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
52 4 0.03
53 42 0.32
54 20 0.15
55 60 0.45
56 7 0.05
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTCATAAGGC
Found at i:31819706 original size:108 final size:110
Alignment explanation
Indices: 31819507--31819709 Score: 306
Period size: 108 Copynumber: 1.9 Consensus size: 110
31819497 TTTAAGGATA
* *
31819507 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTAGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
* *
31819572 CCATTTCAGGACATGGCATTGATAAGTTTCTATAAGGCAAAGGTC
66 CCATGTCAGGACATGGCAATGATAAGTTTCTATAAGGCAAAGGTC
*
31819617 CCATGTAAGACCATGCCAAGGCATGGC-ATTAGTGA-G-TTCGTAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTAGTAAGGTTTC-TAAGGCAAGGATACCATGTAAG
*
31819679 ACCATGTC-GAGACATGGCAATGGTAAGTTTC
65 ACCATGTCAG-GACATGGCAATGATAAGTTTC
31819710 AAAAGGATAC
Statistics
Matches: 85, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
107 4 0.05
108 48 0.56
109 6 0.07
110 27 0.32
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTAGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
CCATGTCAGGACATGGCAATGATAAGTTTCTATAAGGCAAAGGTC
Found at i:31822046 original size:22 final size:22
Alignment explanation
Indices: 31822020--31822062 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
31822010 ATAGGGACAT
31822020 TTGTAAAGTGTTGAA-AAATGTG
1 TTGTAAAGTG-TGAATAAATGTG
31822042 TTGTAAAGTGTGAATAAATGT
1 TTGTAAAGTGTGAATAAATGT
31822063 AAAATGTGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.37, C:0.00, G:0.26, T:0.37
Consensus pattern (22 bp):
TTGTAAAGTGTGAATAAATGTG
Found at i:31829441 original size:27 final size:28
Alignment explanation
Indices: 31829402--31829487 Score: 129
Period size: 27 Copynumber: 3.0 Consensus size: 28
31829392 TATATATATG
31829402 TGATAGGGCCTAATGGCCGATGTGATGA
1 TGATAGGGCCTAATGGCCGATGTGATGA
*
31829430 -GATAAGGCCTAATGGCCGATGTGATGAA
1 TGATAGGGCCTAATGGCCGATGTGATG-A
31829458 TGTGATAGGGCCTAATGGCCGATGTGATGA
1 --TGATAGGGCCTAATGGCCGATGTGATGA
31829488 ATGTGAAAGT
Statistics
Matches: 52, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
27 25 0.48
28 1 0.02
30 1 0.02
31 25 0.48
ACGTcount: A:0.27, C:0.14, G:0.35, T:0.24
Consensus pattern (28 bp):
TGATAGGGCCTAATGGCCGATGTGATGA
Found at i:31829473 original size:31 final size:31
Alignment explanation
Indices: 31829399--31829493 Score: 153
Period size: 31 Copynumber: 3.2 Consensus size: 31
31829389 GTGTATATAT
31829399 ATGTGATAGGGCCTAATGGCCGATGTGATG-
1 ATGTGATAGGGCCTAATGGCCGATGTGATGA
*
31829429 A---GATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGATAGGGCCTAATGGCCGATGTGATGA
31829457 ATGTGATAGGGCCTAATGGCCGATGTGATGA
1 ATGTGATAGGGCCTAATGGCCGATGTGATGA
31829488 ATGTGA
1 ATGTGA
31829494 AAGTGTATAT
Statistics
Matches: 59, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
27 25 0.42
28 1 0.02
30 1 0.02
31 32 0.54
ACGTcount: A:0.27, C:0.13, G:0.35, T:0.25
Consensus pattern (31 bp):
ATGTGATAGGGCCTAATGGCCGATGTGATGA
Found at i:31829529 original size:49 final size:49
Alignment explanation
Indices: 31829457--31829703 Score: 339
Period size: 47 Copynumber: 5.2 Consensus size: 49
31829447 GATGTGATGA
*
31829457 ATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* *
31829506 ATGTGATAAGGCCAAACGGCCGATGTGATGAATGTGAAAGTG--TATAT
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
31829553 ACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
31829600 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAGTGTATATAT
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * * * * * *
31829648 ATGTGA-CAGGCCGAGTGGCCAACGTGACGGATGTGAAAGTGTATA-A-
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
31829694 ATGTGATAAG
1 ATGTGATAAG
31829704 TCCCGAAGGG
Statistics
Matches: 179, Mismatches: 15, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
46 11 0.06
47 109 0.61
48 20 0.11
49 39 0.22
ACGTcount: A:0.32, C:0.10, G:0.31, T:0.27
Consensus pattern (49 bp):
ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
Found at i:31829878 original size:37 final size:37
Alignment explanation
Indices: 31829822--31829900 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
31829812 CCTAGCTCTA
* *
31829822 AAGACCCGATGACTACGTGT-GAGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGA-GATTATGTCCGGGT
*
31829859 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
31829896 AAGAC
1 AAGAC
31829901 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:31831807 original size:43 final size:43
Alignment explanation
Indices: 31831759--31831904 Score: 283
Period size: 43 Copynumber: 3.4 Consensus size: 43
31831749 TTGGTTTTCA
31831759 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
*
31831802 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTCTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
31831845 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
31831888 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
31831905 TTGAAATGCA
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 101 1.00
ACGTcount: A:0.23, C:0.16, G:0.35, T:0.27
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:31831921 original size:29 final size:29
Alignment explanation
Indices: 31831886--31831959 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
31831876 GTTGTGAGAT
* *
31831886 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
* *
31831915 TGGCACTAATTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
31831944 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
31831960 TGGTTGATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 5 0.13
29 34 0.87
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:31832316 original size:40 final size:40
Alignment explanation
Indices: 31832268--31832502 Score: 328
Period size: 40 Copynumber: 5.9 Consensus size: 40
31832258 TCGAATGATG
31832268 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
*
31832308 TCCGGGCTAAGTCCCGAAAAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
*
31832348 TCCGGGCTAAGTCCCAAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
* * *
31832388 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
* * * * * * *
31832428 TCCGTGCTAA-ACCCGAAGAGCATTCGTGCTGGTGTTATG
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
* * *
31832467 TCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
31832503 CGTGTATTCG
Statistics
Matches: 175, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
39 32 0.18
40 143 0.82
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
Found at i:31833658 original size:49 final size:49
Alignment explanation
Indices: 31833599--31833697 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
31833589 TGTGAATTAA
31833599 ATTAAGTGATTATTACTTATGAAATCAAGAAAATGAGATATATGTGCAT
1 ATTAAGTGATTATTACTTATGAAATCAAGAAAATGAGATATATGTGCAT
31833648 ATTAAGTGATTATTACTTATGAAATCAAGAAAATGAGATATATGTGCAT
1 ATTAAGTGATTATTACTTATGAAATCAAGAAAATGAGATATATGTGCAT
31833697 A
1 A
31833698 CTTGTAGAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.43, C:0.06, G:0.16, T:0.34
Consensus pattern (49 bp):
ATTAAGTGATTATTACTTATGAAATCAAGAAAATGAGATATATGTGCAT
Found at i:31834842 original size:27 final size:27
Alignment explanation
Indices: 31834804--31834857 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
31834794 ATATATATGT
*
31834804 GATAGGGCCTAATGGCCGATGTGATGA
1 GATAAGGCCTAATGGCCGATGTGATGA
31834831 GATAAGGCCTAATGGCCGATGTGATGA
1 GATAAGGCCTAATGGCCGATGTGATGA
31834858 ATGTGAAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.28, C:0.15, G:0.35, T:0.22
Consensus pattern (27 bp):
GATAAGGCCTAATGGCCGATGTGATGA
Found at i:31834883 original size:76 final size:76
Alignment explanation
Indices: 31834757--31834906 Score: 300
Period size: 76 Copynumber: 2.0 Consensus size: 76
31834747 GAAATGATAG
31834757 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
31834822 ATGTGATGAGA
66 ATGTGATGAGA
31834833 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
31834898 ATGTGATGA
66 ATGTGATGA
31834907 ATGTGAAAGT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 74 1.00
ACGTcount: A:0.30, C:0.11, G:0.31, T:0.28
Consensus pattern (76 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
ATGTGATGAGA
Found at i:31834889 original size:49 final size:49
Alignment explanation
Indices: 31834831--31835124 Score: 429
Period size: 49 Copynumber: 6.1 Consensus size: 49
31834821 GATGTGATGA
31834831 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGT
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGT
*
31834880 GATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGT
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGT
* * *
31834929 GATAAGGCCAAACGGCCGATGTGATGAATGTGAAAGTG--TATATACGT
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGT
31834976 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGT
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGT
*
31835023 GATAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGT
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGT
* * * * * * * *
31835072 GACAGGGCCGAGTGGCCAACGTGACGGATGTGAAAGTGTATA-A-ATGT
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGT
31835119 GATAAG
1 GATAAG
31835125 TCCCGAAGGG
Statistics
Matches: 223, Mismatches: 20, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
47 97 0.43
48 1 0.00
49 125 0.56
ACGTcount: A:0.32, C:0.10, G:0.31, T:0.27
Consensus pattern (49 bp):
GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGT
Found at i:31835008 original size:96 final size:97
Alignment explanation
Indices: 31834831--31835124 Score: 427
Period size: 96 Copynumber: 3.1 Consensus size: 97
31834821 GATGTGATGA
31834831 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGC
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAGGGCCTAATGGC
31834896 CGATGTGATGAATGTGAAAGTGTATATATATGT
65 CGATGTGATGAATGTGAAAGTGTATATATATGT
* * * *
31834929 GATAAGGCCAAACGGCCGATGTGATGAATGTGAAAGTG-TATATACGTGATAAGGCCTAATGGCC
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAGGGCCTAATGGCC
31834993 GATGTGATGAATGTGAAAGTG--TATATATGT
66 GATGTGATGAATGTGAAAGTGTATATATATGT
* * * *
31835023 GATAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGACAGGGCCGAGTGGC
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAGGGCCTAATGGC
* * * *
31835088 CAACGTGACGGATGTGAAAGTGTATA-A-ATGT
65 CGATGTGATGAATGTGAAAGTGTATATATATGT
31835119 GATAAG
1 GATAAG
31835125 TCCCGAAGGG
Statistics
Matches: 176, Mismatches: 16, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
94 44 0.25
96 93 0.53
97 1 0.01
98 38 0.22
ACGTcount: A:0.32, C:0.10, G:0.31, T:0.27
Consensus pattern (97 bp):
GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAGGGCCTAATGGCC
GATGTGATGAATGTGAAAGTGTATATATATGT
Found at i:31835298 original size:36 final size:37
Alignment explanation
Indices: 31835247--31835320 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
31835237 GCTCTAAAGT
* *
31835247 CCCGATGACTACGTGTGG-GATTTTGTCCGGGTAAGA
1 CCCGATAACTACGTGTGGAGATTATGTCCGGGTAAGA
*
31835283 CCCGATAACTTCGTGTGGAGATTATGTCCGGGTAAGA
1 CCCGATAACTACGTGTGGAGATTATGTCCGGGTAAGA
31835320 C
1 C
31835321 TTCGTAATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
36 16 0.47
37 18 0.53
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.27
Consensus pattern (37 bp):
CCCGATAACTACGTGTGGAGATTATGTCCGGGTAAGA
Found at i:31841678 original size:14 final size:14
Alignment explanation
Indices: 31841661--31841689 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
31841651 TTAACTTGAC
31841661 ATCTAAATTTAAAT
1 ATCTAAATTTAAAT
31841675 ATCTAAATTTAAAT
1 ATCTAAATTTAAAT
31841689 A
1 A
31841690 GCTTACTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (14 bp):
ATCTAAATTTAAAT
Found at i:31841917 original size:22 final size:22
Alignment explanation
Indices: 31841891--31841934 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
31841881 GTTTGCTACT
31841891 AGTAATTAATGGTTGTTTGATA
1 AGTAATTAATGGTTGTTTGATA
31841913 AGTAATTAATGGTTGTTTGATA
1 AGTAATTAATGGTTGTTTGATA
31841935 CTTAAAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.23, T:0.45
Consensus pattern (22 bp):
AGTAATTAATGGTTGTTTGATA
Found at i:31851664 original size:58 final size:59
Alignment explanation
Indices: 31851602--31851718 Score: 200
Period size: 58 Copynumber: 2.0 Consensus size: 59
31851592 TCCACTGCTT
31851602 CTTTTTCTATTTCAAGTGATATTGAATCAGGGGTTAAAGA-AACATGCAATATGAAAAC
1 CTTTTTCTATTTCAAGTGATATTGAATCAGGGGTTAAAGAGAACATGCAATATGAAAAC
* * *
31851660 CTTTTTCTGTTTCAGGTGATATTGAATCAGGGGTTAAAGAGAACATGCAATATGGAAAC
1 CTTTTTCTATTTCAAGTGATATTGAATCAGGGGTTAAAGAGAACATGCAATATGAAAAC
31851719 TTCGATGGAG
Statistics
Matches: 55, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
58 38 0.69
59 17 0.31
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (59 bp):
CTTTTTCTATTTCAAGTGATATTGAATCAGGGGTTAAAGAGAACATGCAATATGAAAAC
Found at i:31856523 original size:7 final size:7
Alignment explanation
Indices: 31856511--31856536 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
31856501 TTATATTATA
31856511 TTAAAAT
1 TTAAAAT
31856518 TTAAAAT
1 TTAAAAT
31856525 TTAAAAT
1 TTAAAAT
31856532 TTAAA
1 TTAAA
31856537 GTTTTAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
TTAAAAT
Found at i:31858099 original size:8 final size:8
Alignment explanation
Indices: 31858086--31858140 Score: 65
Period size: 8 Copynumber: 6.5 Consensus size: 8
31858076 AATTTTCAAT
31858086 TATTTTTA
1 TATTTTTA
31858094 TATTTTTA
1 TATTTTTA
**
31858102 TACTTTCCAA
1 TA-TTT-TTA
31858112 TTATTTTTA
1 -TATTTTTA
31858121 TATTTTTA
1 TATTTTTA
31858129 TATTTTTA
1 TATTTTTA
31858137 TATT
1 TATT
31858141 CTAAATTAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
8 30 0.75
9 4 0.10
10 4 0.10
11 2 0.05
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.69
Consensus pattern (8 bp):
TATTTTTA
Found at i:31858112 original size:27 final size:27
Alignment explanation
Indices: 31858065--31858130 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
31858055 ACTAGTAAAC
*
31858065 ATATTTGTTATAATTTTCAATTATTTTT
1 ATATTT-TTATAATTTCCAATTATTTTT
*
31858093 ATATTTTTATACTTTCCAATTATTTTT
1 ATATTTTTATAATTTCCAATTATTTTT
31858120 ATATTTTTATA
1 ATATTTTTATA
31858131 TTTTTATATT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 30 0.83
28 6 0.17
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.64
Consensus pattern (27 bp):
ATATTTTTATAATTTCCAATTATTTTT
Found at i:31859228 original size:29 final size:31
Alignment explanation
Indices: 31859195--31859263 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 31
31859185 TTTTTTTTAG
*
31859195 CTTTTAAGGGTCC-AAAATTTTTTT-ACCAA
1 CTTTTAAGGGACCAAAAATTTTTTTCACCAA
* *
31859224 TTTTTAAGGGACCTAAAAATTTTTTTCTCCAA
1 CTTTTAAGGGACC-AAAAATTTTTTTCACCAA
31859256 CTTTTAAG
1 CTTTTAAG
31859264 AACCTTAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 11 0.33
31 11 0.33
32 11 0.33
ACGTcount: A:0.30, C:0.16, G:0.10, T:0.43
Consensus pattern (31 bp):
CTTTTAAGGGACCAAAAATTTTTTTCACCAA
Found at i:31859273 original size:32 final size:31
Alignment explanation
Indices: 31859208--31859273 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
31859198 TTAAGGGTCC
* *
31859208 AAAATTTTTTTACCAATTTTTAAGGGACCTA
1 AAAATTTTTTTACCAACTTTTAAGGAACCTA
* *
31859239 AAAATTTTTTTCTCCAACTTTTAA-GAACCTT
1 AAAATTTTTTT-ACCAACTTTTAAGGAACCTA
31859270 AAAA
1 AAAA
31859274 CCTTATTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 20 0.67
32 10 0.33
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.41
Consensus pattern (31 bp):
AAAATTTTTTTACCAACTTTTAAGGAACCTA
Found at i:31859521 original size:22 final size:23
Alignment explanation
Indices: 31859470--31859521 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
31859460 TATTTAAAAG
31859470 TAATTACATATCATATATAATTT
1 TAATTACATATCATATATAATTT
*
31859493 TATATTA-ATATTA-ATATAATTT
1 TA-ATTACATATCATATATAATTT
31859515 ATAATTA
1 -TAATTA
31859522 GTTTTTAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 13 0.50
23 9 0.35
24 4 0.15
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (23 bp):
TAATTACATATCATATATAATTT
Found at i:31860570 original size:20 final size:20
Alignment explanation
Indices: 31860545--31860614 Score: 104
Period size: 20 Copynumber: 3.5 Consensus size: 20
31860535 AACTTTTGAG
31860545 ACTTCTACCCATATAGGTCC
1 ACTTCTACCCATATAGGTCC
* * *
31860565 ACTTCTATCCATACAAGTCC
1 ACTTCTACCCATATAGGTCC
*
31860585 ACTTTTACCCATATAGGTCC
1 ACTTCTACCCATATAGGTCC
31860605 ACTTCTACCC
1 ACTTCTACCC
31860615 TACATCTTGT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.26, C:0.36, G:0.07, T:0.31
Consensus pattern (20 bp):
ACTTCTACCCATATAGGTCC
Found at i:31866594 original size:25 final size:24
Alignment explanation
Indices: 31866566--31866624 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
31866556 AATTTTTCTC
31866566 CTAAATTTTAATTTTATTCAATTAT
1 CTAAATTTTAA-TTTATTCAATTAT
* *
31866591 CTAATTTCTTAATTTATTGAATTAT
1 CTAAATT-TTAATTTATTCAATTAT
31866616 -TAATATTTT
1 CTAA-ATTTT
31866625 TTATTAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
24 5 0.17
25 20 0.69
26 4 0.14
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.58
Consensus pattern (24 bp):
CTAAATTTTAATTTATTCAATTAT
Done.