Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 140 of 284
Found at i:46938040 original size:48 final size:48
Alignment explanation
Indices: 46937969--46938202 Score: 251
Period size: 48 Copynumber: 4.9 Consensus size: 48
46937959 TAAAATGGCA
* * * **
46937969 ATGCCATGGCCCAGACATGGTTTTACACTAGCTTACATGTTGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTTACATATCAAGGCCG
* * * *
46938017 ATGCCATGTCCCAGACATGGTTTTACACTAGCTCT-CGTGTCAATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCT-TACATATCAAGGCCG
* * **
46938065 ATGCCATG-CCCTAGACATGGTCTTACACTAGCATACATATCAACGCTA
1 ATGCCATGTCCC-AGACATGGTCTTACACTAGCTTACATATCAAGGCCG
* * *
46938113 ATGCCATGTCCCAGACATGGTCTTACACTGGCTTTCATAAT-ATGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTTACAT-ATCAAGGCCG
*
46938161 ATGCCATGTCCC-GAACATGGTCTTACACTAGCATACATATCA
1 ATGCCATGTCCCAG-ACATGGTCTTACACTAGCTTACATATCA
46938203 CCCAAATGTC
Statistics
Matches: 157, Mismatches: 22, Indels: 14
0.81 0.11 0.07
Matches are distributed among these distances:
47 7 0.04
48 144 0.92
49 6 0.04
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTTACATATCAAGGCCG
Found at i:46939794 original size:29 final size:29
Alignment explanation
Indices: 46939761--46939817 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
46939751 CCAAAGCACT
**
46939761 GATA-TCATGGCCTGAAGCCAAAATCAGTC
1 GATATTCATGGCCCAAAGCC-AAATCAGTC
*
46939790 GATATTTATGGCCCAAAGCCAAATCAGT
1 GATATTCATGGCCCAAAGCCAAATCAGT
46939818 GTATATCGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 12 0.50
30 12 0.50
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (29 bp):
GATATTCATGGCCCAAAGCCAAATCAGTC
Found at i:46940755 original size:13 final size:14
Alignment explanation
Indices: 46940731--46940759 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
46940721 ATTTATCTAA
46940731 TTACTAAATTAACC
1 TTACTAAATTAACC
46940745 TTACT-AATTAACC
1 TTACTAAATTAACC
46940758 TT
1 TT
46940760 TAAAAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.41
Consensus pattern (14 bp):
TTACTAAATTAACC
Found at i:46945544 original size:14 final size:14
Alignment explanation
Indices: 46945518--46945556 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
46945508 TTGTTTCATT
*
46945518 GAAAATGACTTCCA
1 GAAAATGATTTCCA
* *
46945532 GAAATTGATTTCCG
1 GAAAATGATTTCCA
46945546 GAAAATGATTT
1 GAAAATGATTT
46945557 ATTTTTCTGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (14 bp):
GAAAATGATTTCCA
Found at i:46946038 original size:206 final size:205
Alignment explanation
Indices: 46945684--46946097 Score: 810
Period size: 206 Copynumber: 2.0 Consensus size: 205
46945674 ATCATTTGAG
46945684 ATTTTCTTATCTTTTTCATTGTTTAATTGAATATATTTTTATTATAATTTTATATTTTCATTGTT
1 ATTTTCTTATCTTTTTCATTGTTTAATTGAATATATTTTTATTATAATTTTATATTTTCATTGTT
*
46945749 TTTGCATATATTAAAAATATTATGTTAAATTCAAATTCATTACAGCGTCATTTTTTAATTACATG
66 TTTGCATATATTAAAAACATTATGTTAAATTCAAATTCATTACAGCGTCATTTTTTAATTACATG
46945814 ACAATTAAGTGAGTATTTTTTTATTTAAAAATATGACATCAACAAAAATGACCAAAAAAAATTAA
131 ACAATTAAGTGAGTATTTTTTTATTTAAAAATATGACATCAACAAAAATGACC-AAAAAAATTAA
46945879 CGATGTCAACA
195 CGATGTCAACA
46945890 ATTTTCTTATCTTTTTCATTGTTTAATTGAATATATTTTTATTATAATTTTATATTTTCATTGTT
1 ATTTTCTTATCTTTTTCATTGTTTAATTGAATATATTTTTATTATAATTTTATATTTTCATTGTT
46945955 TTTGCATATATTAAAAACATTATGTTAAATTCAAATTCATTACAGCGTCATTTTTTAATTACATG
66 TTTGCATATATTAAAAACATTATGTTAAATTCAAATTCATTACAGCGTCATTTTTTAATTACATG
46946020 ACAATTAAGTGAGTATTTTTTTATTTAAAAATATGACATCAACAAAAATGACCAAAAAAATTAAC
131 ACAATTAAGTGAGTATTTTTTTATTTAAAAATATGACATCAACAAAAATGACCAAAAAAATTAAC
46946085 GATGTCAACA
196 GATGTCAACA
46946095 ATT
1 ATT
46946098 GGACTTGATT
Statistics
Matches: 207, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
205 25 0.12
206 182 0.88
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (205 bp):
ATTTTCTTATCTTTTTCATTGTTTAATTGAATATATTTTTATTATAATTTTATATTTTCATTGTT
TTTGCATATATTAAAAACATTATGTTAAATTCAAATTCATTACAGCGTCATTTTTTAATTACATG
ACAATTAAGTGAGTATTTTTTTATTTAAAAATATGACATCAACAAAAATGACCAAAAAAATTAAC
GATGTCAACA
Found at i:46946245 original size:15 final size:15
Alignment explanation
Indices: 46946225--46946276 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
46946215 ACTACAAAAC
46946225 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
46946240 ATTTATAATTATAATAAAT
1 ATTTATTA-T-TAAT--AT
*
46946259 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
46946274 ATT
1 ATT
46946277 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:46946262 original size:19 final size:19
Alignment explanation
Indices: 46946238--46946274 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
46946228 TATTATTAAT
*
46946238 ATATTTATAATTATAATAA
1 ATATTTATAATTAAAATAA
*
46946257 ATATTTATTATTAAAATA
1 ATATTTATAATTAAAATA
46946275 TTAATATTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATATTTATAATTAAAATAA
Found at i:46946397 original size:22 final size:22
Alignment explanation
Indices: 46946357--46946412 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
46946347 AATAAAATTG
*
46946357 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
46946377 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
46946399 TATTAATAATTTAT
1 AAATAATAAATTAT
46946413 TATATGACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 9 0.30
21 2 0.07
22 19 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:46954088 original size:43 final size:42
Alignment explanation
Indices: 46954041--46954122 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 42
46954031 CTTACATGGG
** *
46954041 ATCTCATATCGATGCCAATAGCCCAGCTATGGTCTTACACTAA
1 ATCTCATAAAGATGCC-ATAGCCCAGATATGGTCTTACACTAA
* *
46954084 ATCTCATAAAGATGTCATATCCCAGATATGGTCTTACAC
1 ATCTCATAAAGATGCCATAGCCCAGATATGGTCTTACAC
46954123 GTAATCTTAG
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
42 21 0.62
43 13 0.38
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (42 bp):
ATCTCATAAAGATGCCATAGCCCAGATATGGTCTTACACTAA
Found at i:46959308 original size:43 final size:41
Alignment explanation
Indices: 46959228--46959371 Score: 114
Period size: 42 Copynumber: 3.4 Consensus size: 41
46959218 AGATATCGTC
* * *
46959228 TAAGACCGTGTCTGGGACACAGGCCTCGATTGAAATTTACGTA
1 TAAGACCATGTCTGGGACACAGGCATCGATT-AAATTT-CATA
*
46959271 TAAGACCATGTCTGGGACATCA-GCATCGTATCT-AATTTCATG
1 TAAGACCATGTCTGGGACA-CAGGCATCG-AT-TAAATTTCATA
* * * * *
46959313 TAAGACCCTATCTGGGACAGAGGCAT-GATATTAAATTACATG
1 TAAGACCATGTCTGGGACACAGGCATCG--ATTAAATTTCATA
*
46959355 TAAGACCACGTCTGGGA
1 TAAGACCATGTCTGGGA
46959372 TGTCGGCATT
Statistics
Matches: 84, Mismatches: 11, Indels: 13
0.78 0.10 0.12
Matches are distributed among these distances:
41 3 0.04
42 48 0.57
43 28 0.33
44 4 0.05
45 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (41 bp):
TAAGACCATGTCTGGGACACAGGCATCGATTAAATTTCATA
Found at i:46963679 original size:372 final size:372
Alignment explanation
Indices: 46962994--46963736 Score: 1459
Period size: 372 Copynumber: 2.0 Consensus size: 372
46962984 TCCAAAGTTT
*
46962994 GAGTTAAGGACTGTTTTGAATAGTACATTAATTAAATATATAAAATATTATATTTTAGATCCCGA
1 GAGTTAAGAACTGTTTTGAATAGTACATTAATTAAATATATAAAATATTATATTTTAGATCCCGA
46963059 AAAACGAGATTTGAACCTAGAATGAGAGAAAAATTGAAAATTGGAAAAGTTGGTTAAATGGCCGT
66 AAAACGAGATTTGAACCTAGAATGAGAGAAAAATTGAAAATTGGAAAAGTTGGTTAAATGGCCGT
46963124 TCTAGTATCGAGGTAAGCTCATATGTATAATAAGCATTAATTTATGCATGTTTCAATGTAAAATT
131 TCTAGTATCGAGGTAAGCTCATATGTATAATAAGCATTAATTTATGCATGTTTCAATGTAAAATT
46963189 GATATATTTACTATGGAGGTAATGAAAGTATGTAAGTTGGTATGATAATAATACAACAATAATGC
196 GATATATTTACTATGGAGGTAATGAAAGTATGTAAGTTGGTATGATAATAATACAACAATAATGC
46963254 TGTAATTTATATTTGAAAGTTCAATTTAGTGAATTAATTGAATTATGTTAAATTAAATGATTATG
261 TGTAATTTATATTTGAAAGTTCAATTTAGTGAATTAATTGAATTATGTTAAATTAAATGATTATG
46963319 GTGCCAAGTTTATGAATTAATTTAAAAATATGTCTATGGTACATGAC
326 GTGCCAAGTTTATGAATTAATTTAAAAATATGTCTATGGTACATGAC
*
46963366 GAGTTAAGAACTTTTTTGAATAGTACATTAATTAAATATATAAAATATTATATTTTAGATCCCGA
1 GAGTTAAGAACTGTTTTGAATAGTACATTAATTAAATATATAAAATATTATATTTTAGATCCCGA
46963431 AAAACGAGATTTGAACCTAGAATGAGAGAAAAATTGAAAATTGGAAAAGTTGGTTAAATGGCCGT
66 AAAACGAGATTTGAACCTAGAATGAGAGAAAAATTGAAAATTGGAAAAGTTGGTTAAATGGCCGT
*
46963496 TCTAGTATCGAGGTAAGTTCATATGTATAATAAGCATTAATTTATGCATGTTTCAATGTAAAATT
131 TCTAGTATCGAGGTAAGCTCATATGTATAATAAGCATTAATTTATGCATGTTTCAATGTAAAATT
46963561 GATATATTTACTATGGAGGTAATGAAAGTATGTAAGTTGGTATGATAATAATACAACAATAATGC
196 GATATATTTACTATGGAGGTAATGAAAGTATGTAAGTTGGTATGATAATAATACAACAATAATGC
46963626 TGTAATTTATATTTGAAAGTTCAATTTAGTGAATTAATTGAATTATGTTAAATTAAATGATTATG
261 TGTAATTTATATTTGAAAGTTCAATTTAGTGAATTAATTGAATTATGTTAAATTAAATGATTATG
46963691 GTGCCAAGTTTATGAATTAATTTAAAAATATGTCTATGGTACATGA
326 GTGCCAAGTTTATGAATTAATTTAAAAATATGTCTATGGTACATGA
46963737 AGTGCATTGA
Statistics
Matches: 368, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
372 368 1.00
ACGTcount: A:0.40, C:0.07, G:0.17, T:0.36
Consensus pattern (372 bp):
GAGTTAAGAACTGTTTTGAATAGTACATTAATTAAATATATAAAATATTATATTTTAGATCCCGA
AAAACGAGATTTGAACCTAGAATGAGAGAAAAATTGAAAATTGGAAAAGTTGGTTAAATGGCCGT
TCTAGTATCGAGGTAAGCTCATATGTATAATAAGCATTAATTTATGCATGTTTCAATGTAAAATT
GATATATTTACTATGGAGGTAATGAAAGTATGTAAGTTGGTATGATAATAATACAACAATAATGC
TGTAATTTATATTTGAAAGTTCAATTTAGTGAATTAATTGAATTATGTTAAATTAAATGATTATG
GTGCCAAGTTTATGAATTAATTTAAAAATATGTCTATGGTACATGAC
Found at i:46964234 original size:51 final size:49
Alignment explanation
Indices: 46964172--46964307 Score: 164
Period size: 51 Copynumber: 2.7 Consensus size: 49
46964162 AGCTAGGTCG
*
46964172 CATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCAATAACTTCGATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCAATAA-TT-GATCA
* * * ** * *
46964223 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCAATAATTGATCA
* *
46964272 TATGTGTAGTACTAAGTGTAGGCTACTATGCGTACC
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
46964308 AGATAGTTTG
Statistics
Matches: 72, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
49 34 0.47
50 2 0.03
51 36 0.50
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.29
Consensus pattern (49 bp):
CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCAATAATTGATCA
Found at i:46964307 original size:49 final size:51
Alignment explanation
Indices: 46964167--46964312 Score: 181
Period size: 49 Copynumber: 2.9 Consensus size: 51
46964157 TATGTAGCTA
*
46964167 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCA-ATAACTTC
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTA-CCAGATAACTTC
* * * * * *
46964218 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT-
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTTC
* *
46964267 GGTCGTATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGATA
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
46964313 GTTTGGCTAC
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
49 38 0.48
50 4 0.05
51 37 0.47
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (51 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTTC
Found at i:46973739 original size:51 final size:51
Alignment explanation
Indices: 46973663--46973846 Score: 176
Period size: 51 Copynumber: 3.6 Consensus size: 51
46973653 TGGTTTTAGG
* * * * ***
46973663 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGATAGCTTTGA
1 TCACATGTGTGGTACTAAGTACAGGCCACTATGTGTAAAAGATAGCTTTGA
*
46973714 TCACATGTGTGGTACTAAGTACAGGCCACTATGTGTAAAAGATAGCTTTGG
1 TCACATGTGTGGTACTAAGTACAGGCCACTATGTGTAAAAGATAGCTTTGA
* * * *
46973765 TCACAAGTGTGGTACTATGTGA-AGGCCACTTTGTG-AAGAAGGTAGCTTTGA
1 TCACATGTGTGGTACTAAGT-ACAGGCCACTATGTGTAA-AAGATAGCTTTGA
* * * *
46973816 -CTACAAGGGTGGTACTATGTGCAGGCCACTA
1 TC-ACATGTGTGGTACTAAGTACAGGCCACTA
46973847 GGCATCCGAT
Statistics
Matches: 113, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
50 3 0.03
51 109 0.96
52 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (51 bp):
TCACATGTGTGGTACTAAGTACAGGCCACTATGTGTAAAAGATAGCTTTGA
Found at i:46978296 original size:12 final size:12
Alignment explanation
Indices: 46978276--46978307 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
46978266 ATATGCATAT
46978276 ATACTTAAACCA
1 ATACTTAAACCA
*
46978288 ATTCTTAAACCA
1 ATACTTAAACCA
46978300 ATACTTAA
1 ATACTTAA
46978308 GCCATTTTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.31
Consensus pattern (12 bp):
ATACTTAAACCA
Found at i:46978883 original size:42 final size:42
Alignment explanation
Indices: 46978775--46978883 Score: 103
Period size: 43 Copynumber: 2.6 Consensus size: 42
46978765 ATACCAATGC
* * ** * *
46978775 CATATCCCGGATATGGTCTTACATGGGATCTCATATTGATGC
1 CATATCCCAGATATGGTCTTACACGAAATCTCATATAGATGA
* * * *
46978817 CAACAGCCTA-ACTATGGGCTTACACGAAATCTCATATAGATGA
1 C-ATATCCCAGA-TATGGTCTTACACGAAATCTCATATAGATGA
46978860 CATATCCCAGATATGGTCTTACAC
1 CATATCCCAGATATGGTCTTACAC
46978884 ATAATTTTAG
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
42 19 0.38
43 31 0.62
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.28
Consensus pattern (42 bp):
CATATCCCAGATATGGTCTTACACGAAATCTCATATAGATGA
Found at i:46986383 original size:40 final size:40
Alignment explanation
Indices: 46986348--46986590 Score: 330
Period size: 40 Copynumber: 6.1 Consensus size: 40
46986338 ACTAAGATCT
* * * *
46986348 GAAGGGATTTGTGCGAGATACTAATTCCGGGCTAAG-CCC
1 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
* *
46986387 GAAGGCATTGGTGCGAGTTATTAAATCCGGGTTAAGTCCC
1 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
46986427 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
1 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
46986467 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
1 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
* *
46986507 GAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCC
1 GAAGGCATTTGTGCGAGTTACTA-AATCCGGGTTAAGTCCC
** * * * *
46986547 GAAGGCATTTGAACGAGTTGCTATATCC-GGTTAAATTCC
1 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
46986586 GAAGG
1 GAAGG
46986591 TACGTGATTT
Statistics
Matches: 183, Mismatches: 18, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
39 43 0.23
40 138 0.75
41 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (40 bp):
GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
Found at i:46992935 original size:13 final size:13
Alignment explanation
Indices: 46992917--46992941 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46992907 AAAGCACGAC
46992917 TCACACAGGCGTG
1 TCACACAGGCGTG
46992930 TCACACAGGCGT
1 TCACACAGGCGT
46992942 ATCCCTGCCG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.32, G:0.28, T:0.16
Consensus pattern (13 bp):
TCACACAGGCGTG
Found at i:46994528 original size:27 final size:26
Alignment explanation
Indices: 46994417--46994645 Score: 223
Period size: 27 Copynumber: 8.6 Consensus size: 26
46994407 TTAGTTTACC
46994417 AAATTACTGAAATACTCC-CAG-TTGTA
1 AAATTACTGAAATAC-CCTC-GTTTGTA
* * *
46994443 AAATTAC-CAAAGTACTGCC-GGTTTATA
1 AAATTACTGAAA-TAC--CCTCGTTTGTA
* * *
46994470 AAATTACCGAAATACCGTCGATTGTA
1 AAATTACTGAAATACCCTCGTTTGTA
46994496 AAATTACTGAAATACCCTCGTTTTGTA
1 AAATTACTGAAATACCCTCG-TTTGTA
** *
46994523 AAATTACCAAAATACCCTCAGTTTGCA
1 AAATTACTGAAATACCCTC-GTTTGTA
*
46994550 AAATTACTGAGATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCG-TTTGTA
* * *
46994577 AAATTACCGAAATACTCTCAGTTTGCA
1 AAATTACTGAAATACCCTC-GTTTGTA
46994604 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCG-TTTGTA
46994631 AAATTACTGAAATAC
1 AAATTACTGAAATAC
46994646 TCCTGTAAGA
Statistics
Matches: 167, Mismatches: 26, Indels: 19
0.79 0.12 0.09
Matches are distributed among these distances:
25 4 0.02
26 36 0.22
27 122 0.73
28 5 0.03
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.31
Consensus pattern (26 bp):
AAATTACTGAAATACCCTCGTTTGTA
Found at i:46994566 original size:54 final size:54
Alignment explanation
Indices: 46994468--46994645 Score: 277
Period size: 54 Copynumber: 3.3 Consensus size: 54
46994458 TGCCGGTTTA
* * * *
46994468 TAAAATTACCGAAATACCGTC-GATTGTAAAATTACTGAAATACCCTCGTTTTG
1 TAAAATTACCGAAATACCCTCAGTTTGCAAAATTACTGAAATACCCTCGATTTG
* *
46994521 TAAAATTACCAAAATACCCTCAGTTTGCAAAATTACTGAGATACCCTCGATTTG
1 TAAAATTACCGAAATACCCTCAGTTTGCAAAATTACTGAAATACCCTCGATTTG
*
46994575 TAAAATTACCGAAATACTCTCAGTTTGCAAAATTACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACCCTCAGTTTGCAAAATTACTGAAATACCCTCGATTTG
*
46994629 TAAAATTACTGAAATAC
1 TAAAATTACCGAAATAC
46994646 TCCTGTAAGA
Statistics
Matches: 114, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
53 19 0.17
54 95 0.83
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (54 bp):
TAAAATTACCGAAATACCCTCAGTTTGCAAAATTACTGAAATACCCTCGATTTG
Found at i:46994646 original size:54 final size:54
Alignment explanation
Indices: 46994417--46994647 Score: 274
Period size: 54 Copynumber: 4.3 Consensus size: 54
46994407 TTAGTTTACC
* * * * * * *
46994417 AAATTACTGAAATACTCCCAG-TTGTAAAATTAC-CAAAGTACTGC-CGGTTTATA
1 AAATTACCGAAATACTCTCAGTTTGCAAAATTACTGAAA-TAC-CCTCGATTTGTA
* * *
46994470 AAATTACCGAAATAC-CGTC-GATTGTAAAATTACTGAAATACCCTCGTTTTGTA
1 AAATTACCGAAATACTC-TCAGTTTGCAAAATTACTGAAATACCCTCGATTTGTA
* * *
46994523 AAATTACCAAAATACCCTCAGTTTGCAAAATTACTGAGATACCCTCGATTTGTA
1 AAATTACCGAAATACTCTCAGTTTGCAAAATTACTGAAATACCCTCGATTTGTA
46994577 AAATTACCGAAATACTCTCAGTTTGCAAAATTACTGAAATACCCTCGATTTGTA
1 AAATTACCGAAATACTCTCAGTTTGCAAAATTACTGAAATACCCTCGATTTGTA
*
46994631 AAATTACTGAAATACTC
1 AAATTACCGAAATACTC
46994648 CTGTAAGATA
Statistics
Matches: 157, Mismatches: 15, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
52 3 0.02
53 53 0.34
54 101 0.64
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.31
Consensus pattern (54 bp):
AAATTACCGAAATACTCTCAGTTTGCAAAATTACTGAAATACCCTCGATTTGTA
Found at i:46994689 original size:27 final size:27
Alignment explanation
Indices: 46994659--46994826 Score: 219
Period size: 27 Copynumber: 6.2 Consensus size: 27
46994649 TGTAAGATAG
*
46994659 AATTACCATTTTACCCTTGATTTACAA
1 AATTACCATTTTACCCTCGATTTACAA
** * * *
46994686 AATTTTCGTTTTACCCTCGATTTATAG
1 AATTACCATTTTACCCTCGATTTACAA
* *
46994713 AATTACCATTTTACCCTCGATTTATAG
1 AATTACCATTTTACCCTCGATTTACAA
***
46994740 AATTAATGTTTTACCCTCGATTTACAA
1 AATTACCATTTTACCCTCGATTTACAA
* *
46994767 AATTACCATTTTACCCTAGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAA
46994794 AATTACCATTTTACCCTCGATTTACAA
1 AATTACCATTTTACCCTCGATTTACAA
46994821 AATTAC
1 AATTAC
46994827 TAAAATACCT
Statistics
Matches: 120, Mismatches: 21, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 120 1.00
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.40
Consensus pattern (27 bp):
AATTACCATTTTACCCTCGATTTACAA
Found at i:46994740 original size:81 final size:81
Alignment explanation
Indices: 46994655--46994826 Score: 245
Period size: 81 Copynumber: 2.1 Consensus size: 81
46994645 CTCCTGTAAG
* ** * * *
46994655 ATAGAATTACCATTTTACCCTTGATTTACAAAATTTTCGTTTTACCCTCGATTTATAGAATTACC
1 ATAGAATTACCATTTTACCCTCGATTTACAAAATTACCATTTTACCCTAGATTTACAGAATTACC
46994720 ATTTTACCCTCGATTT
66 ATTTTACCCTCGATTT
***
46994736 ATAGAATTAATGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTAGATTTACAGAATTACC
1 ATAGAATTACCATTTTACCCTCGATTTACAAAATTACCATTTTACCCTAGATTTACAGAATTACC
46994801 ATTTTACCCTCGATTT
66 ATTTTACCCTCGATTT
* *
46994817 ACAAAATTAC
1 ATAGAATTAC
46994827 TAAAATACCT
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 79 1.00
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.40
Consensus pattern (81 bp):
ATAGAATTACCATTTTACCCTCGATTTACAAAATTACCATTTTACCCTAGATTTACAGAATTACC
ATTTTACCCTCGATTT
Found at i:46994835 original size:27 final size:27
Alignment explanation
Indices: 46994441--46994918 Score: 205
Period size: 27 Copynumber: 17.7 Consensus size: 27
46994431 CTCCCAGTTG
* * *
46994441 TAAAATTACCAAAGTACTGC-CGGTTTA
1 TAAAATTACCAAAATAC-CCTCGATTTA
* * *
46994468 TAAAATTACCGAAATACCGTCGA-TTG
1 TAAAATTACCAAAATACCCTCGATTTA
** * *
46994494 TAAAATTACTGAAATACCCTCGTTTTG
1 TAAAATTACCAAAATACCCTCGATTTA
*
46994521 TAAAATTACCAAAATACCCTC-AGTTTG
1 TAAAATTACCAAAATACCCTCGA-TTTA
* ** * *
46994548 CAAAATTACTGAGATACCCTCGATTTG
1 TAAAATTACCAAAATACCCTCGATTTA
* * *
46994575 TAAAATTACCGAAATACTCTC-AGTTTG
1 TAAAATTACCAAAATACCCTCGA-TTTA
* ** *
46994602 CAAAATTACTGAAATACCCTCGATTTG
1 TAAAATTACCAAAATACCCTCGATTTA
** **
46994629 TAAAATTACTGAAATACTCCT-G-TAAGA
1 TAAAATTACCAAAATAC-CCTCGAT-TTA
* *** *
46994656 TAGAATTACCATTTTACCCTTGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* ** ****
46994683 CAAAATTTTCGTTTTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* ***
46994710 TAGAATTACCATTTTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* ******
46994737 TAGAATTAATGTTTTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* *** *
46994764 CAAAATTACCATTTTACCCTAGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* * ***
46994791 CAGAATTACCATTTTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* * * * *
46994818 CAAAATTACTAAAATACCTTTGGTTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* **
46994845 AAAAATTACCAAAATACCCTCGATCAA
1 TAAAATTACCAAAATACCCTCGATTTA
* *
46994872 TAAAATTACCAAAATACCC-CTAATTTG
1 TAAAATTACCAAAATACCCTC-GATTTA
* *
46994899 TGAAATTACCGAAATACCCT
1 TAAAATTACCAAAATACCCT
46994919 TGTAGGGTAG
Statistics
Matches: 360, Mismatches: 79, Indels: 23
0.78 0.17 0.05
Matches are distributed among these distances:
26 28 0.08
27 326 0.91
28 6 0.02
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.34
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCTCGATTTA
Found at i:46994932 original size:27 final size:27
Alignment explanation
Indices: 46994902--46995112 Score: 323
Period size: 27 Copynumber: 7.8 Consensus size: 27
46994892 TAATTTGTGA
*
46994902 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
46994929 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
46994956 AATTATCGAAATACCCCTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
46994983 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
46995010 AATTATCGTAATACCCATGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
46995037 AATTACCGAAATACCCCTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
46995064 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
46995091 AATTATCGCAATACCCCTGTAG
1 AATTACCGAAATACCCCTGTAG
46995113 ACCAAAATAC
Statistics
Matches: 168, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 168 1.00
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:46995853 original size:26 final size:27
Alignment explanation
Indices: 46995817--46995890 Score: 105
Period size: 27 Copynumber: 2.8 Consensus size: 27
46995807 ATTCTGTTAA
* *
46995817 GTGGCTTTGCCACATTATCTGT-TCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
46995843 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
* *
46995870 GTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
46995891 ATAACTGAGC
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
26 20 0.47
27 23 0.53
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTATCTG
Found at i:46996069 original size:31 final size:31
Alignment explanation
Indices: 46996031--46996137 Score: 133
Period size: 31 Copynumber: 3.5 Consensus size: 31
46996021 ATTCACATTC
*
46996031 TGATTTTGATTATGTTACCTGATACTGATTA
1 TGATTTTGATTCTGTTACCTGATACTGATTA
* *
46996062 TGATTTTGATTCGGTTACCTGATACTGATTC
1 TGATTTTGATTCTGTTACCTGATACTGATTA
* * * * *
46996093 TGATTTTGATTCTGTCACCTAATTCTAATTC
1 TGATTTTGATTCTGTTACCTGATACTGATTA
*
46996124 TGATTCTGATTCTG
1 TGATTTTGATTCTG
46996138 GTTTTGATTC
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 67 1.00
ACGTcount: A:0.21, C:0.15, G:0.16, T:0.48
Consensus pattern (31 bp):
TGATTTTGATTCTGTTACCTGATACTGATTA
Found at i:46996097 original size:6 final size:6
Alignment explanation
Indices: 46996027--46996169 Score: 78
Period size: 6 Copynumber: 23.3 Consensus size: 6
46996017 TTGCATTCAC
* * * * *
46996027 ATTCTG ATTTTG ATTATG -TTACCTG ATACTG ATTATG ATTTTG ATTC-G
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * * *
46996075 GTTACCTG ATACTG ATTCTG ATTTTG ATTCTG -TCACCTA ATTCTA ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* *
46996126 ATTCTG ATTCTG GTTTTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
46996170 AATGTTCTTA
Statistics
Matches: 104, Mismatches: 22, Indels: 22
0.70 0.15 0.15
Matches are distributed among these distances:
5 7 0.07
6 87 0.84
7 6 0.06
8 4 0.04
ACGTcount: A:0.20, C:0.15, G:0.16, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:46998306 original size:50 final size:49
Alignment explanation
Indices: 46998245--46998472 Score: 255
Period size: 50 Copynumber: 4.6 Consensus size: 49
46998235 TGAGTACACG
* *
46998245 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCATATTGTTA-AGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA-TGTTAGA-TCACA
* * *
46998295 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCA-ATGACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTAC-CAGATG--TTAGATCACA
* * * *
46998346 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGAGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGAT-GTTAGATCACA
* * *
46998396 TGTGTAGTACTAAGTGTAGGCTACTATGTGTACCAGATTGTT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA-TGTTAGATCACA
*
46998445 TGTGTAGTACTAAGTACAGGCTACTATG
1 TGTGTAGTACTAAGTGCAGGCTACTATG
46998473 CATATCAGAT
Statistics
Matches: 153, Mismatches: 18, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
49 32 0.21
50 79 0.52
51 40 0.26
52 2 0.01
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGTTAGATCACA
Found at i:46998417 original size:101 final size:99
Alignment explanation
Indices: 46998241--46998470 Score: 277
Period size: 101 Copynumber: 2.3 Consensus size: 99
46998231 ATTGTGAGTA
* * * * *
46998241 CACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCATATTGTTAAGTCGCATGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTGAAGTCACATGTGTAGTACT
46998306 AAGTGCAGGCTACTATGCGTACTCA-A-TGACTTCGAT
66 AAGTGCAGGCTACTATGCGTAC-CAGATTG--TT-GAT
* *
46998342 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTG-AGATCACGTGTGTAGTAC
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTGAAG-TCACATGTGTAGTAC
* * *
46998406 TAAGTGTAGGCTACTATGTGTACCAGATTGTTGGT
65 TAAGTGCAGGCTACTATGCGTACCAGATTGTTGAT
* * *
46998441 CGCATGTGTAGTACTAAGTACAGGCTACTA
1 CACGTGTGTAGTACTAAGTGCAGGCTACTA
46998471 TGCATATCAG
Statistics
Matches: 113, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
99 29 0.26
100 6 0.05
101 76 0.67
102 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (99 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTGAAGTCACATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCAGATTGTTGAT
Found at i:47005777 original size:50 final size:50
Alignment explanation
Indices: 47005702--47005927 Score: 253
Period size: 50 Copynumber: 4.5 Consensus size: 50
47005692 TGAATACACG
* *
47005702 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCACA
* * ** *
47005752 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACT-TCGA-TCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-C-A-GACTGTTAAGTCACA
* * * * *
47005803 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GTTAAGTCACA
* * *
47005853 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCACA
47005902 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
47005928 TGCGTATCAG
Statistics
Matches: 152, Mismatches: 17, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
47 1 0.01
48 2 0.01
49 33 0.22
50 74 0.49
51 36 0.24
52 3 0.02
53 3 0.02
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCACA
Found at i:47005833 original size:26 final size:26
Alignment explanation
Indices: 47005803--47005884 Score: 68
Period size: 26 Copynumber: 3.2 Consensus size: 26
47005793 TTCGATCACG
47005803 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
*
47005829 TGTGTA-T-C-AGATGGTG-AGG-TCAC-G
1 TGTGTAGTACTA-A--GTGCAGGCT-ACTA
47005853 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
*
47005879 CGTGTA
1 TGTGTA
47005885 CCAGATTGTT
Statistics
Matches: 43, Mismatches: 3, Indels: 20
0.65 0.05 0.30
Matches are distributed among these distances:
23 1 0.02
24 12 0.28
25 12 0.28
26 17 0.40
27 1 0.02
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.30
Consensus pattern (26 bp):
TGTGTAGTACTAAGTGCAGGCTACTA
Found at i:47005873 original size:101 final size:98
Alignment explanation
Indices: 47005698--47005939 Score: 299
Period size: 101 Copynumber: 2.4 Consensus size: 98
47005688 ATTGTGAATA
* * * * *
47005698 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTCGCATGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGA-TGTGAAGTCACATGTGTAGTACT
*
47005763 AAGTGCAGGCTACTATGCGTACTCA-A-TGACTTCGAT
65 AAGTGCAGGCTACTACGCGTAC-CAGATTG--TT-GAT
* *
47005799 CACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTGAGGTCACGTGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGAT-GTGAAGTCACATGTGTAGTACT
* *
47005864 AAGTGCAGGCTACTACGTGTACCAGATTGTTGGT
65 AAGTGCAGGCTACTACGCGTACCAGATTGTTGAT
* * *
47005898 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGAT
47005940 AGCTTCGGCT
Statistics
Matches: 125, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
99 41 0.33
100 5 0.04
101 77 0.62
102 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.30
Consensus pattern (98 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGTGAAGTCACATGTGTAGTACTA
AGTGCAGGCTACTACGCGTACCAGATTGTTGAT
Found at i:47009641 original size:93 final size:93
Alignment explanation
Indices: 47009529--47009699 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
47009519 GCCCATAAGT
* *
47009529 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
47009594 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
47009622 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
47009687 CGAGTTCGGATGC
66 CGAGCTCGGATGC
47009700 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:47009696 original size:46 final size:46
Alignment explanation
Indices: 47009521--47009696 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
47009511 TGTAACCCGC
* *
47009521 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
47009567 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
47009613 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
47009660 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
47009697 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:47012132 original size:30 final size:30
Alignment explanation
Indices: 47012088--47012176 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
47012078 CAAAGATAAC
*
47012088 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
*
47012117 GAGAAACCCGGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGGAATAAAGAAATCCAAG-ATA
* * *
47012147 AAGAGATCCAGG-ATAAAGAAACCCAAGATA
1 AAGA-AACCCGGAATAAAGAAATCCAAGATA
47012177 CGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 9 0.18
30 34 0.68
31 7 0.14
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATCCAAGATA
Found at i:47012136 original size:15 final size:14
Alignment explanation
Indices: 47012088--47012170 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
47012078 CAAAGATAAC
*
47012088 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
47012102 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
47012117 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
*
47012132 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
* * *
47012147 AAGAGATCCAGGATA
1 AAGA-AACCCGAATA
47012162 AAGAAACCC
1 AAGAAACCC
47012171 AAGATACGAT
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
14 12 0.22
15 38 0.70
16 4 0.07
ACGTcount: A:0.55, C:0.17, G:0.18, T:0.10
Consensus pattern (14 bp):
AAGAAACCCGAATA
Found at i:47012176 original size:15 final size:15
Alignment explanation
Indices: 47012099--47012176 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
47012089 AGAAAACCGA
47012099 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
47012114 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
47012128 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
47012143 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
47012159 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
47012174 ATA
1 ATA
47012177 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:47016063 original size:46 final size:44
Alignment explanation
Indices: 47015989--47016155 Score: 153
Period size: 46 Copynumber: 3.6 Consensus size: 44
47015979 GCCCATAAGC
* *
47015989 GAACTCGGACTCAACTCAACAAGCTCGGACGTTCGCATCCATAGTT
1 GAACTCGGACTCAACTCAACGAGTTCGGAC-TTC-CATCCATAGTT
* * *
47016035 GAACTCGGACTCAACTCAATGAGTTCGGA-TACCTAGTTACAT--TT
1 GAACTCGGACTCAACTCAACGAGTTCGGACTTCC-A--TCCATAGTT
*
47016079 CACGAACTCGGACTCAACTCAACGAGTTCAGACATTCTCATCCATAAG-T
1 ---GAACTCGGACTCAACTCAACGAGTTCGGAC-TTC-CATCCAT-AGTT
47016128 GAACTCGGACTCAACTCAACGAGTTCGG
1 GAACTCGGACTCAACTCAACGAGTTCGG
47016156 CTAAATGACC
Statistics
Matches: 99, Mismatches: 10, Indels: 24
0.74 0.08 0.18
Matches are distributed among these distances:
43 1 0.01
44 5 0.05
46 57 0.58
47 31 0.31
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (44 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACTTCCATCCATAGTT
Found at i:47038269 original size:228 final size:228
Alignment explanation
Indices: 47037872--47038328 Score: 914
Period size: 228 Copynumber: 2.0 Consensus size: 228
47037862 ATGTTATAAT
47037872 ATATTGTTATCATATGAGATGTGGTTGCATATTGAGTGATCACTTGATGTAAATTATGAATTGAA
1 ATATTGTTATCATATGAGATGTGGTTGCATATTGAGTGATCACTTGATGTAAATTATGAATTGAA
47037937 ATTGATTATGGATGAATTGGTAAAATGTTGAAAAGTAAGGAATTTCCCGGTTAGACCTTCGGAAT
66 ATTGATTATGGATGAATTGGTAAAATGTTGAAAAGTAAGGAATTTCCCGGTTAGACCTTCGGAAT
47038002 AGAAAAAATACAAATGATCCGTTGTGAGAACACATGTGTAATACAATGTACAGGCTACTATGTGT
131 AGAAAAAATACAAATGATCCGTTGTGAGAACACATGTGTAATACAATGTACAGGCTACTATGTGT
47038067 TTAAAATGGTTTTAGGTCACGTGTGTAGTACTA
196 TTAAAATGGTTTTAGGTCACGTGTGTAGTACTA
47038100 ATATTGTTATCATATGAGATGTGGTTGCATATTGAGTGATCACTTGATGTAAATTATGAATTGAA
1 ATATTGTTATCATATGAGATGTGGTTGCATATTGAGTGATCACTTGATGTAAATTATGAATTGAA
47038165 ATTGATTATGGATGAATTGGTAAAATGTTGAAAAGTAAGGAATTTCCCGGTTAGACCTTCGGAAT
66 ATTGATTATGGATGAATTGGTAAAATGTTGAAAAGTAAGGAATTTCCCGGTTAGACCTTCGGAAT
47038230 AGAAAAAATACAAATGATCCGTTGTGAGAACACATGTGTAATACAATGTACAGGCTACTATGTGT
131 AGAAAAAATACAAATGATCCGTTGTGAGAACACATGTGTAATACAATGTACAGGCTACTATGTGT
47038295 TTAAAATGGTTTTAGGTCACGTGTGTAGTACTA
196 TTAAAATGGTTTTAGGTCACGTGTGTAGTACTA
47038328 A
1 A
47038329 GTGCAGGCTA
Statistics
Matches: 229, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
228 229 1.00
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.34
Consensus pattern (228 bp):
ATATTGTTATCATATGAGATGTGGTTGCATATTGAGTGATCACTTGATGTAAATTATGAATTGAA
ATTGATTATGGATGAATTGGTAAAATGTTGAAAAGTAAGGAATTTCCCGGTTAGACCTTCGGAAT
AGAAAAAATACAAATGATCCGTTGTGAGAACACATGTGTAATACAATGTACAGGCTACTATGTGT
TTAAAATGGTTTTAGGTCACGTGTGTAGTACTA
Found at i:47038373 original size:50 final size:51
Alignment explanation
Indices: 47038306--47038448 Score: 189
Period size: 50 Copynumber: 2.8 Consensus size: 51
47038296 TAAAATGGTT
* * *
47038306 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGAT-GA
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGATAGA
* *
47038356 TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGATAGC
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGATAGA
* * * * *
47038407 TTTGATCACATGTGTGGTACTAAGTACAGGCCACTATGTGTA
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTA
47038449 AAAGATAGCT
Statistics
Matches: 81, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 44 0.54
51 37 0.46
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.30
Consensus pattern (51 bp):
TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGATAGA
Found at i:47038443 original size:51 final size:51
Alignment explanation
Indices: 47038260--47038497 Score: 192
Period size: 51 Copynumber: 4.7 Consensus size: 51
47038250 GTTGTGAGAA
* * *** * * *
47038260 CACATGTGTAATAC-AATGTACAGGCTACTATGTGTTTAAAATGGTTTTAGGT
1 CACATGTGTAGTACTAA-GTACAGGCCACTATGTGTACCAGATAGCTTT-GGT
* * * * * * *
47038312 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGAT-GATTAGGT
1 CACATGTGTAGTACTAAGTACAGGCCACTATGTGTACCAGATAGCTTTGGT
* * * * *
47038362 CGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGATAGCTTTGAT
1 CACATGTGTAGTACTAAGTACAGGCCACTATGTGTACCAGATAGCTTTGGT
* **
47038413 CACATGTGTGGTACTAAGTACAGGCCACTATGTGTAAAAGATAGCTTTGGT
1 CACATGTGTAGTACTAAGTACAGGCCACTATGTGTACCAGATAGCTTTGGT
* * * * *
47038464 CACAAGTGTGGTACTATGTAAAGGCCACTTTGTG
1 CACATGTGTAGTACTAAGTACAGGCCACTATGTG
47038498 AAGAAGGTAG
Statistics
Matches: 154, Mismatches: 30, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
50 41 0.27
51 81 0.53
52 30 0.19
53 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (51 bp):
CACATGTGTAGTACTAAGTACAGGCCACTATGTGTACCAGATAGCTTTGGT
Found at i:47038520 original size:51 final size:51
Alignment explanation
Indices: 47038367--47038542 Score: 167
Period size: 51 Copynumber: 3.5 Consensus size: 51
47038357 TAGGTCGCAT
* * * * *** * *
47038367 GTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGATAGCTTTGATCACAT
1 GTGTGGTACTATGTACAGGCCACTATGTGTAAAAGATAGCTTTGCTCACAA
* *
47038418 GTGTGGTACTAAGTACAGGCCACTATGTGTAAAAGATAGCTTTGGTCACAA
1 GTGTGGTACTATGTACAGGCCACTATGTGTAAAAGATAGCTTTGCTCACAA
* * * *
47038469 GTGTGGTACTATGTAAAGGCCACTTTGTG-AAGAAGGTAGTTTTGACT-ACAA
1 GTGTGGTACTATGTACAGGCCACTATGTGTAA-AAGATAGCTTTG-CTCACAA
* *
47038520 GGGTGGTACTATGTGCAGGCCAC
1 GTGTGGTACTATGTACAGGCCAC
47038543 CGGGCATCCG
Statistics
Matches: 106, Mismatches: 17, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
50 2 0.02
51 103 0.97
52 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.29
Consensus pattern (51 bp):
GTGTGGTACTATGTACAGGCCACTATGTGTAAAAGATAGCTTTGCTCACAA
Found at i:47039774 original size:21 final size:17
Alignment explanation
Indices: 47039733--47039767 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
47039723 AGTTGGTTGA
47039733 ATGAGTGTGTAATGACT
1 ATGAGTGTGTAATGACT
47039750 ATGAGTGTGTAATGACT
1 ATGAGTGTGTAATGACT
47039767 A
1 A
47039768 AGTATGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.06, G:0.29, T:0.34
Consensus pattern (17 bp):
ATGAGTGTGTAATGACT
Found at i:47074859 original size:25 final size:23
Alignment explanation
Indices: 47074824--47074869 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
47074814 GTTAAATGAC
47074824 TTTTTTCATTATTATAATTTTTAGT
1 TTTTTTCATTA-TA-AATTTTTAGT
*
47074849 TTTTTTTATTATAAATTTTTA
1 TTTTTTCATTATAAATTTTTA
47074870 TATTTATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (23 bp):
TTTTTTCATTATAAATTTTTAGT
Found at i:47074879 original size:23 final size:22
Alignment explanation
Indices: 47074832--47074880 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
47074822 ACTTTTTTCA
*
47074832 TTATTATAATTTTTAGTTTTTT
1 TTATTATAATTTTTAGTTTTAT
47074854 TTATTATAAATTTTTA-TATTTAT
1 TTATTAT-AATTTTTAGT-TTTAT
47074877 TTAT
1 TTAT
47074881 AAGTTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 8 0.33
23 16 0.67
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (22 bp):
TTATTATAATTTTTAGTTTTAT
Found at i:47074900 original size:33 final size:34
Alignment explanation
Indices: 47074849--47074920 Score: 96
Period size: 33 Copynumber: 2.1 Consensus size: 34
47074839 AATTTTTAGT
47074849 TTTTTTTATTATAAATTTTTAT-ATTTATTTATAA
1 TTTTTTTATTATAAATTTTTATGA-TTATTTATAA
*
47074883 GTTTTTTT-TTAT-GATTTTTATGATTATTTATAA
1 -TTTTTTTATTATAAATTTTTATGATTATTTATAA
47074916 TTTTT
1 TTTTT
47074921 AATAAGTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
32 5 0.14
33 18 0.51
34 5 0.14
35 7 0.20
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.69
Consensus pattern (34 bp):
TTTTTTTATTATAAATTTTTATGATTATTTATAA
Found at i:47074902 original size:9 final size:9
Alignment explanation
Indices: 47074888--47074974 Score: 54
Period size: 9 Copynumber: 9.6 Consensus size: 9
47074878 TATAAGTTTT
47074888 TTTTTATGA
1 TTTTTATGA
47074897 TTTTTATGA
1 TTTTTATGA
*
47074906 TTATTTATAA
1 TT-TTTATGA
*
47074916 TTTTTAATAA
1 TTTTT-ATGA
*
47074926 GTTTATATGA
1 -TTTTTATGA
*
47074936 -ATTT-TGA
1 TTTTTATGA
* *
47074943 GTTTTAATAA
1 -TTTTTATGA
47074953 TTTTTAT-A
1 TTTTTATGA
*
47074961 TATTTATGA
1 TTTTTATGA
47074970 TTTTT
1 TTTTT
47074975 TGTAATTTTT
Statistics
Matches: 60, Mismatches: 11, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
7 3 0.05
8 9 0.15
9 27 0.45
10 17 0.28
11 4 0.07
ACGTcount: A:0.30, C:0.00, G:0.08, T:0.62
Consensus pattern (9 bp):
TTTTTATGA
Found at i:47078315 original size:16 final size:16
Alignment explanation
Indices: 47078294--47078329 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
47078284 TAACTCAGGA
47078294 GCTGCAGGAGTACATG
1 GCTGCAGGAGTACATG
47078310 GCTGCAGGAGTACATG
1 GCTGCAGGAGTACATG
47078326 GCTG
1 GCTG
47078330 TGATTTCTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.22, C:0.19, G:0.39, T:0.19
Consensus pattern (16 bp):
GCTGCAGGAGTACATG
Found at i:47079172 original size:120 final size:120
Alignment explanation
Indices: 47079046--47079335 Score: 485
Period size: 120 Copynumber: 2.4 Consensus size: 120
47079036 AATTATTTTA
* *
47079046 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTT-TCTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTTATATTT
* *
47079110 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGACTATTAATTATTAAG
65 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
47079166 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATT-ATTATTTTAATTTATATTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAAT-ATTAATTATTTAAATTTATATTT
47079230 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
47079286 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTAT
47079336 GTTTAAATAT
Statistics
Matches: 159, Mismatches: 8, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
119 7 0.04
120 149 0.94
121 3 0.02
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:47079228 original size:15 final size:14
Alignment explanation
Indices: 47079176--47079231 Score: 55
Period size: 15 Copynumber: 4.1 Consensus size: 14
47079166 AATTTTATTA
47079176 AATTATA-TATTTT
1 AATTATATTATTTT
*
47079189 AATTATAATATATTT
1 AATTATATTAT-TTT
*
47079204 AATAATTATTATTTT
1 AATTA-TATTATTTT
47079219 AATT-TA-TATTTT
1 AATTATATTATTTT
47079231 A
1 A
47079232 CAGTATCATA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
12 7 0.19
13 9 0.24
14 3 0.08
15 13 0.35
16 5 0.14
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
AATTATATTATTTT
Found at i:47079292 original size:61 final size:61
Alignment explanation
Indices: 47079107--47079293 Score: 183
Period size: 61 Copynumber: 3.1 Consensus size: 61
47079097 TCAAATTTTC
*
47079107 TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGACTATTAATTATTAAGAA
1 TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAA
* * * * * * *
47079168 TTTTATTA-AATTATATATT-TTAATT-A-T-AATAT-ATTTAATAATTATT-ATT-TTAATTTA
1 TTTTA-TAGTATCATATATTATGATTTGAGTAAAT-TCATATAAGAA-TATTAATTATTAA--GA
47079225 TA
61 -A
*
47079227 TTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAA
1 TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAA
47079288 TTTTAT
1 TTTTAT
47079294 TAAATTATAT
Statistics
Matches: 95, Mismatches: 17, Indels: 28
0.68 0.12 0.20
Matches are distributed among these distances:
56 4 0.04
57 12 0.13
58 8 0.08
59 16 0.17
60 8 0.08
61 21 0.22
62 9 0.09
63 13 0.14
64 4 0.04
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (61 bp):
TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAA
Found at i:47079315 original size:18 final size:17
Alignment explanation
Indices: 47079287--47079321 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
47079277 ATTATTAAGA
*
47079287 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
47079304 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
47079322 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:47079435 original size:147 final size:149
Alignment explanation
Indices: 47079275--47079549 Score: 509
Period size: 147 Copynumber: 1.9 Consensus size: 149
47079265 ATAAGAATAT
*
47079275 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
47079340 AAATATGATTAAATTATTTATTATTGAT-ATTAATAATCTTATTAAAATTTAAATAA-AATAATT
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
47079403 TACCAAAACAAATTTCTGC
131 TACCAAAACAAATTTCTGC
47079422 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
47079487 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
47079550 CAATAATCAT
Statistics
Matches: 123, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
147 91 0.74
148 27 0.22
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (149 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
TACCAAAACAAATTTCTGC
Found at i:47079462 original size:18 final size:17
Alignment explanation
Indices: 47079434--47079468 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
47079424 ATTATTAAGA
*
47079434 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
47079451 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
47079469 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:47079719 original size:45 final size:44
Alignment explanation
Indices: 47079630--47079724 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 44
47079620 TTACACCTCT
*
47079630 ATTACATTCAACCAAACACAATTTTACTATTACACCTCTATTCC
1 ATTACATTCAACCAAACACAATTTTACTATTACACATCTATTCC
* *
47079674 ATTACATTCAACCAAACAGTTAA-TTTGCTATTACACATCTATTCC
1 ATTACATTCAACCAAACA--CAATTTTACTATTACACATCTATTCC
47079719 ATTACA
1 ATTACA
47079725 CCTCTAATCC
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
44 18 0.39
45 26 0.57
46 2 0.04
ACGTcount: A:0.37, C:0.26, G:0.02, T:0.35
Consensus pattern (44 bp):
ATTACATTCAACCAAACACAATTTTACTATTACACATCTATTCC
Found at i:47082954 original size:39 final size:39
Alignment explanation
Indices: 47082900--47082978 Score: 133
Period size: 39 Copynumber: 2.0 Consensus size: 39
47082890 TGTTCCAATG
*
47082900 ATTGATAGTTAAATTTTGTAT-CTTAGATTAAAGGAATAA
1 ATTGATAGTTAAATTTTGT-TCCTTAGATGAAAGGAATAA
47082939 ATTGATAGTTAAATTTTGTTCCTTAGATGAAAGGAATAA
1 ATTGATAGTTAAATTTTGTTCCTTAGATGAAAGGAATAA
47082978 A
1 A
47082979 CCATGTCTTG
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
38 1 0.03
39 37 0.97
ACGTcount: A:0.41, C:0.04, G:0.16, T:0.39
Consensus pattern (39 bp):
ATTGATAGTTAAATTTTGTTCCTTAGATGAAAGGAATAA
Found at i:47083448 original size:23 final size:23
Alignment explanation
Indices: 47083403--47083448 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
47083393 AATATATAAT
* *
47083403 ATTATATATTTGAATTTGTAATA
1 ATTATATATTTAAATTTGAAATA
47083426 ATTATAT-TTTAAATATTGAAATA
1 ATTATATATTTAAAT-TTGAAATA
47083449 TACCCTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (23 bp):
ATTATATATTTAAATTTGAAATA
Found at i:47085555 original size:23 final size:23
Alignment explanation
Indices: 47085529--47085578 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
47085519 CATATAACGT
* * *
47085529 TGAATGTAACACACATAAGGCGC
1 TGAATATAACACACAGAAAGCGC
*
47085552 TGAATATAACACGCAGAAAGCGC
1 TGAATATAACACACAGAAAGCGC
47085575 TGAA
1 TGAA
47085579 ACTCCCACCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.42, C:0.20, G:0.22, T:0.16
Consensus pattern (23 bp):
TGAATATAACACACAGAAAGCGC
Found at i:47092402 original size:22 final size:23
Alignment explanation
Indices: 47092356--47092402 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
47092346 ATCATGTGAT
*
47092356 TTTAAAAAAAATATTACTTATAAA
1 TTTAAAAAAAATAATAC-TATAAA
*
47092380 TTTAAATAAAATAATA-TATAAA
1 TTTAAAAAAAATAATACTATAAA
47092402 T
1 T
47092403 AACACAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 7 0.33
24 14 0.67
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (23 bp):
TTTAAAAAAAATAATACTATAAA
Found at i:47096346 original size:21 final size:21
Alignment explanation
Indices: 47096320--47096360 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
47096310 ATCTGCTCAA
* *
47096320 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
47096341 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
47096361 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:47102307 original size:21 final size:22
Alignment explanation
Indices: 47102283--47102328 Score: 85
Period size: 21 Copynumber: 2.1 Consensus size: 22
47102273 TTTACGGGGT
47102283 TTGCCAAAACTTTTGACAAA-C
1 TTGCCAAAACTTTTGACAAATC
47102304 TTGCCAAAACTTTTGACAAATC
1 TTGCCAAAACTTTTGACAAATC
47102326 TTG
1 TTG
47102329 AAATTAATCG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.33
Consensus pattern (22 bp):
TTGCCAAAACTTTTGACAAATC
Found at i:47104980 original size:16 final size:16
Alignment explanation
Indices: 47104951--47104992 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
47104941 AATTGAGTTG
* *
47104951 AGAAACTTATTTAATT
1 AGAAAATTAATTAATT
47104967 AGAAAATTAATTAATT
1 AGAAAATTAATTAATT
47104983 --AAAATTAATT
1 AGAAAATTAATT
47104993 TGGTAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 10 0.42
16 14 0.58
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.40
Consensus pattern (16 bp):
AGAAAATTAATTAATT
Found at i:47106895 original size:16 final size:16
Alignment explanation
Indices: 47106863--47106898 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
47106853 GGTTAATTTG
**
47106863 AAAACAAAAAATGAAA
1 AAAACAAAAAACAAAA
47106879 AAAACAAAAAACAAAA
1 AAAACAAAAAACAAAA
47106895 AAAA
1 AAAA
47106899 GAAGAGAGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.86, C:0.08, G:0.03, T:0.03
Consensus pattern (16 bp):
AAAACAAAAAACAAAA
Found at i:47110839 original size:13 final size:14
Alignment explanation
Indices: 47110823--47110858 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
47110813 CAATCTCATA
47110823 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
47110836 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
47110849 TCTC-ATTTCA
1 TCTCAATTTCA
47110859 TTCCAATAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:47110848 original size:18 final size:19
Alignment explanation
Indices: 47110810--47110850 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
47110800 TGGTTCATGT
47110810 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
47110829 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
47110847 TTTC
1 TTTC
47110851 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:47111740 original size:13 final size:13
Alignment explanation
Indices: 47111722--47111748 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
47111712 CCTCTTTTTA
47111722 TTCTTTTGTTTCT
1 TTCTTTTGTTTCT
47111735 TTCTTTTGTTTCT
1 TTCTTTTGTTTCT
47111748 T
1 T
47111749 ATATATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.00, C:0.15, G:0.07, T:0.78
Consensus pattern (13 bp):
TTCTTTTGTTTCT
Found at i:47113027 original size:12 final size:12
Alignment explanation
Indices: 47113010--47113039 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
47113000 TTTCCTTATA
47113010 TATATATATATT
1 TATATATATATT
47113022 TATATATATATT
1 TATATATATATT
47113034 TCATAT
1 T-ATAT
47113040 TTATCCCGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (12 bp):
TATATATATATT
Found at i:47131011 original size:13 final size:13
Alignment explanation
Indices: 47130993--47131018 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47130983 AATTTGAAAC
47130993 GATGATGTTTCTT
1 GATGATGTTTCTT
47131006 GATGATGTTTCTT
1 GATGATGTTTCTT
47131019 TTAAGAGTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.08, G:0.23, T:0.54
Consensus pattern (13 bp):
GATGATGTTTCTT
Found at i:47152114 original size:32 final size:32
Alignment explanation
Indices: 47152078--47152140 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
47152068 TTTGTTAAGT
* * *
47152078 ATACCTGATTATTACTGGTCTGATATTTATCC
1 ATACCAGATTATTACAGCTCTGATATTTATCC
* *
47152110 ATACCAGATTGTTCCAGCTCTGATATTTATC
1 ATACCAGATTATTACAGCTCTGATATTTATC
47152141 GAACTGTGTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.25, C:0.21, G:0.13, T:0.41
Consensus pattern (32 bp):
ATACCAGATTATTACAGCTCTGATATTTATCC
Found at i:47156371 original size:7 final size:7
Alignment explanation
Indices: 47156359--47156388 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
47156349 CGGACCCTTT
47156359 TCCCAAA
1 TCCCAAA
47156366 TCCCAAA
1 TCCCAAA
*
47156373 TTCCAAA
1 TCCCAAA
47156380 TCCCAAA
1 TCCCAAA
47156387 TC
1 TC
47156389 AGTTCTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.20
Consensus pattern (7 bp):
TCCCAAA
Found at i:47164533 original size:6 final size:6
Alignment explanation
Indices: 47164522--47164555 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
47164512 ATAAGATGGG
47164522 GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA GGGA
1 GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA GGGA
47164556 AAATTTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (6 bp):
GGGAGA
Found at i:47165609 original size:40 final size:40
Alignment explanation
Indices: 47165531--47165609 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 40
47165521 AATATACTAC
* * **
47165531 TAAGGCACATTACACTTTTAAGAGAGAATACAGGTTCAAA
1 TAAGGCACACTACACTCTTAAGAGAGAATACAAATTCAAA
* *
47165571 TAAGGCACACTGCACTCTTAATAGAGAATACAAATTCAA
1 TAAGGCACACTACACTCTTAAGAGAGAATACAAATTCAA
47165610 TCTTAAAGAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.43, C:0.18, G:0.15, T:0.24
Consensus pattern (40 bp):
TAAGGCACACTACACTCTTAAGAGAGAATACAAATTCAAA
Found at i:47166124 original size:23 final size:23
Alignment explanation
Indices: 47166090--47166136 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
47166080 ATTCCCATCC
*
47166090 CTTTTTGAAGTGTGGCGGTCAAT
1 CTTTTTGAAGTGTCGCGGTCAAT
*
47166113 CTTTTTGGAGTGTCGCGGTCAAT
1 CTTTTTGAAGTGTCGCGGTCAAT
47166136 C
1 C
47166137 ATACCGTAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.15, C:0.17, G:0.30, T:0.38
Consensus pattern (23 bp):
CTTTTTGAAGTGTCGCGGTCAAT
Found at i:47166486 original size:15 final size:16
Alignment explanation
Indices: 47166468--47166505 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
47166458 TTTTGGTATT
47166468 AAAAAAATTTCGT-GA
1 AAAAAAATTTCGTGGA
*
47166483 AAAAAATTTTCGTGGA
1 AAAAAAATTTCGTGGA
47166499 AAAAAAA
1 AAAAAAA
47166506 GAGAAGAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.58, C:0.05, G:0.13, T:0.24
Consensus pattern (16 bp):
AAAAAAATTTCGTGGA
Found at i:47166487 original size:14 final size:16
Alignment explanation
Indices: 47166468--47166504 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
47166458 TTTTGGTATT
47166468 AAAAAAA-TTTCGT-G
1 AAAAAAATTTTCGTGG
47166482 AAAAAAATTTTCGTGG
1 AAAAAAATTTTCGTGG
47166498 AAAAAAA
1 AAAAAAA
47166505 AGAGAAGAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 7 0.33
15 6 0.29
16 8 0.38
ACGTcount: A:0.57, C:0.05, G:0.14, T:0.24
Consensus pattern (16 bp):
AAAAAAATTTTCGTGG
Found at i:47168607 original size:35 final size:35
Alignment explanation
Indices: 47168554--47168813 Score: 304
Period size: 35 Copynumber: 7.4 Consensus size: 35
47168544 ATTTTTTGAT
* * *
47168554 ATTCTTATTCGCAGGTTAAGCATGCCATTATACTG
1 ATTCTGATTCGCATGTTAAGCATGTCATTATACTG
* * *
47168589 ATTCTAATTCACATGTTAAGCATGTCATTATTCTG
1 ATTCTGATTCGCATGTTAAGCATGTCATTATACTG
* * * * *
47168624 ATTTTGTTTCACATGTAAAGCATGTCATTATACCG
1 ATTCTGATTCGCATGTTAAGCATGTCATTATACTG
* *
47168659 ATTATGATTCGCATGTTAAGCATGTCATTATATTG
1 ATTCTGATTCGCATGTTAAGCATGTCATTATACTG
* *
47168694 ATTCTGATTCGCATGTTAAACATGTCATTATTCTG
1 ATTCTGATTCGCATGTTAAGCATGTCATTATACTG
* *
47168729 ATTCTGATTCACATGTTAAGCATGCCATTATACTG
1 ATTCTGATTCGCATGTTAAGCATGTCATTATACTG
* * ***
47168764 ATTCTGATTTGCATGTTAAGCGTGTTGCTATACTG
1 ATTCTGATTCGCATGTTAAGCATGTCATTATACTG
* *
47168799 ATTTTGATTAGCATG
1 ATTCTGATTCGCATG
47168814 CCTACTGAAA
Statistics
Matches: 191, Mismatches: 34, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 191 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (35 bp):
ATTCTGATTCGCATGTTAAGCATGTCATTATACTG
Found at i:47179520 original size:9 final size:9
Alignment explanation
Indices: 47179478--47179544 Score: 53
Period size: 9 Copynumber: 7.0 Consensus size: 9
47179468 TATTCTAAAG
*
47179478 TTATTAAAA
1 TTATAAAAA
*
47179487 TTATAAAAT
1 TTATAAAAA
*
47179496 TTAATTAAAA
1 TT-ATAAAAA
*
47179506 TCATAAAAA
1 TTATAAAAA
47179515 TTATAAAGGAA
1 TTATAAA--AA
*
47179526 TATATAAACA
1 T-TATAAAAA
47179536 TTATAAAAA
1 TTATAAAAA
47179545 CCATAAATTG
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
9 28 0.62
10 8 0.18
11 3 0.07
12 6 0.13
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (9 bp):
TTATAAAAA
Found at i:47180694 original size:6 final size:6
Alignment explanation
Indices: 47180683--47180724 Score: 66
Period size: 6 Copynumber: 7.0 Consensus size: 6
47180673 GTGAACCAAG
* *
47180683 GCCGTC GCCGTC GCCGTC GCCATC GCCGTC GCCGCC GCCGTC
1 GCCGTC GCCGTC GCCGTC GCCGTC GCCGTC GCCGTC GCCGTC
47180725 TCAGTCTGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.02, C:0.52, G:0.31, T:0.14
Consensus pattern (6 bp):
GCCGTC
Found at i:47193099 original size:131 final size:129
Alignment explanation
Indices: 47192918--47193161 Score: 373
Period size: 131 Copynumber: 1.9 Consensus size: 129
47192908 GTATTTACAC
* * * *
47192918 TGAAGCAGATCCAAGATGATTTGGCGTCTCTGTATTGTTAGGGAGCAGATCGAAGAT-GATAGAT
1 TGAAGCAAATCCAAGATGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG-CAGAT
*
47192982 TTGACATCTCTATATTGGCAAAGAGCAGATCGAAGACATAACTGATTTGGCTTTCACATGTTTAC
65 TTGACATCTCTATATTGGCAAAGAGCAGATCGAAG--ATAACAGATTTGGCTTTCACATGTTTAC
47193047 GT
128 GT
*
47193049 TGAAGCAAATCCAAGATGATTTGGCGTCTCTGTATTGTCAGAGAGTAGATCGAAGATAGCAGATT
1 TGAAGCAAATCCAAGATGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGATT
* * *
47193114 TGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGC
66 TGACATCTCTATATTGGCAAAGAGCAGATCGAAGATAACAGATTTGGC
47193162 ATCTCTGTAT
Statistics
Matches: 103, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
129 13 0.13
131 89 0.86
132 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (129 bp):
TGAAGCAAATCCAAGATGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGATT
TGACATCTCTATATTGGCAAAGAGCAGATCGAAGATAACAGATTTGGCTTTCACATGTTTACGT
Found at i:47193123 original size:44 final size:44
Alignment explanation
Indices: 47192935--47193368 Score: 280
Period size: 44 Copynumber: 9.9 Consensus size: 44
47192925 GATCCAAGAT
* ** * * *
47192935 GATTTGGCGTCTCTGTATTGTTAGGGAGCAGATCGAAGATGATA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
* * * *
47192979 GATTTGACATCTCTATATTGGCAAAGAGCAGATCGAAGACATAACT
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAG--ATAACA
* * * ** * *
47193025 GATTTGGCTTTCACATGT-TTACGTTGA-AGCAAATCCAAGAT----
1 GATTTGGC-ATCTC-TGTATT-GGCAGAGAGCAGATCGAAGATAACA
* * * *
47193066 GATTTGGCGTCTCTGTATTGTCAGAGAGTAGATCGAAGATAGCA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
47193110 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
* *
47193154 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAAACAACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
* * * * * *
47193198 GATTTGGCGTCTCTGTATTGGTAGGGAGCAGATCGAGGACATAGCT
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGA--AGATAACA
* * * ** * *
47193244 GATTTGGCTTTCACGTGT-TTACGTTGA-AGCAAATCTAAGAT----
1 GATTTGGC-ATCTC-TGTATT-GGCAGAGAGCAGATCGAAGATAACA
* * * *
47193285 GATTTGGCGTCTCTATATTGGCAGGGAGCAGATCAAAGATAACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
* * * * *
47193329 GATTTAGCATCTCTATATTCGACGGAGAGCAGATTGAAGA
1 GATTTGGCATCTCTGTATT-GGCAGAGAGCAGATCGAAGA
47193369 CATAGCAGAT
Statistics
Matches: 301, Mismatches: 66, Indels: 45
0.73 0.16 0.11
Matches are distributed among these distances:
39 9 0.03
40 33 0.11
41 16 0.05
44 163 0.54
45 20 0.07
46 22 0.07
47 28 0.09
48 10 0.03
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (44 bp):
GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
Found at i:47193333 original size:219 final size:220
Alignment explanation
Indices: 47192935--47193588 Score: 620
Period size: 219 Copynumber: 3.0 Consensus size: 220
47192925 GATCCAAGAT
* ** * * ** *
47192935 GATTTGGCGTCTCTGTATTGTTAGGGAGCAGATCGAAGATGATAGATTTGACATCTCTATATTGG
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAAACAACAGATTTGACATCTCTATATTGG
47193000 CAAAGAGCAGATCGAAGACATAACTGATTTGGCTTTCACATGTTTACGTTGAAGCAAATCCAAGA
66 CAAAGAGCAGATCGAAGACATAACTGATTTGGCTTTCACATGTTTACGTTGAAGCAAATCCAAGA
* * * * * * *
47193065 TGATTTGGCGTCTCTGTATTGTCAGAGAGTAGATCGAAGATAGCAGATTTGGCATCTCTGTATT-
131 TGATTTGGCGTCTCTATATTGGCAGAGAGCAGATCAAAGATAACAGATTTAGCATCTCTATATTC
*
47193129 GGCAGAGAGCAGATCGAAGATAACA
196 GACAGAGAGCAGATCGAAGATAACA
* * *
47193154 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAAACAACAGATTTGGCGTCTCTGTATTGG
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAAACAACAGATTTGACATCTCTATATTGG
* ** * * * *
47193219 TAGGGAGCAGATCGAGGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGA
66 CAAAGAGCAGATCGAAGACATAACTGATTTGGCTTTCACATGTTTACGTTGAAGCAAATCCAAGA
*
47193284 TGATTTGGCGTCTCTATATTGGCAGGGAGCAGATCAAAGATAACAGATTTAGCATCTCTATATTC
131 TGATTTGGCGTCTCTATATTGGCAGAGAGCAGATCAAAGATAACAGATTTAGCATCTCTATATTC
* * *
47193349 GACGGAGAGCAGATTGAAGACATAGCA
196 GACAGAGAGCAGATCGAAG--ATAACA
* ** * * ** * ** * * ** * * *
47193376 GATCTAACCT-TCGGATATTTTCACATCGAAG-TAG-ATCCAATATGATTTGGCATC-CT-TGCG
1 GATTTGGCATCTCTG-TATTGGCAGAGAGCAGATCGAAAACAACA-GATTTGACATCTCTAT--A
** * * * * * * *
47193436 TTTACAAGGAGCAGATCGAAGACATAACAGATTTAGCTTTCACGTGTTTACGCTGAAGCAGATCT
62 TTGGCAAAGAGCAGATCGAAGACATAACTGATTTGGCTTTCACATGTTTACGTTGAAGCAAATCC
* * * * * * * * *
47193501 AAGATGATTTGGCATCTCTGTACTGTCAGAGAACAAATCGAAGA-AACAGATTTGGCATCTCCAT
127 AAGATGATTTGGCGTCTCTATATTGGCAGAGAGCAGATCAAAGATAACAGATTTAGCATCTCTAT
47193565 ATTCGACAGAGAGCAGATCGAAGA
192 ATTCGACAGAGAGCAGATCGAAGA
47193589 CATAGCGGAT
Statistics
Matches: 359, Mismatches: 69, Indels: 15
0.81 0.16 0.03
Matches are distributed among these distances:
218 1 0.00
219 169 0.47
220 62 0.17
221 106 0.30
222 21 0.06
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (220 bp):
GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAAACAACAGATTTGACATCTCTATATTGG
CAAAGAGCAGATCGAAGACATAACTGATTTGGCTTTCACATGTTTACGTTGAAGCAAATCCAAGA
TGATTTGGCGTCTCTATATTGGCAGAGAGCAGATCAAAGATAACAGATTTAGCATCTCTATATTC
GACAGAGAGCAGATCGAAGATAACA
Found at i:47193659 original size:78 final size:78
Alignment explanation
Indices: 47193549--47193843 Score: 439
Period size: 78 Copynumber: 3.8 Consensus size: 78
47193539 CGAAGAAACA
** * * * *
47193549 GATTTGGCATCTCCATATTCGACAGAGAGCAGATCGAAGACATAGCGGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGACATAACAGATCTGACCTTCATTGAA
*
47193614 GTAGATCCAAGAT
66 GCAGATCCAAGAT
* * * *
47193627 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATCTGACCTTCATTAAA
1 GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGACATAACAGATCTGACCTTCATTGAA
47193692 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* *
47193705 GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCAAAGACATAATAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGACATAACAGATCT-GACCTTCATTGA
47193769 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
* *
47193783 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGATCTTCAT
1 GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGACATAACAGATCTGACCTTCAT
47193844 GTGTTTACAT
Statistics
Matches: 196, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
77 1 0.01
78 194 0.99
79 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGACATAACAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:47193993 original size:89 final size:89
Alignment explanation
Indices: 47193873--47194042 Score: 277
Period size: 89 Copynumber: 1.9 Consensus size: 89
47193863 TCCAAGATGA
* ** *
47193873 CAGATTTGGCATCTCTGTATTAGACGAGGAGCAAATCGGAGCTAACAGATTTGGCATCTCTGTAT
1 CAGATTTGGCATCTCTATATTAGACGAGGAGCAAATCAAAGATAACAGATTTGGCATCTCTGTAT
47193938 TAGACGGGGAGCAGATTGAAGAAG
66 TAGACGGGGAGCAGATTGAAGAAG
* * *
47193962 CAGATTTGGCGTCTCTATATTAGACGGGGAGCAAATCAAAGATAACAGATTTGGCGTCTCTGTAT
1 CAGATTTGGCATCTCTATATTAGACGAGGAGCAAATCAAAGATAACAGATTTGGCATCTCTGTAT
47194027 TAGACGGGGAGCAGAT
66 TAGACGGGGAGCAGAT
47194043 CAAAGATAGC
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
89 74 1.00
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (89 bp):
CAGATTTGGCATCTCTATATTAGACGAGGAGCAAATCAAAGATAACAGATTTGGCATCTCTGTAT
TAGACGGGGAGCAGATTGAAGAAG
Found at i:47194045 original size:45 final size:45
Alignment explanation
Indices: 47193783--47194050 Score: 276
Period size: 45 Copynumber: 5.9 Consensus size: 45
47193773 GATCCAAGAT
*
47193783 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATC-AA-AGATAACA
* * * * * *
47193830 GATCT-G-ATCTTCATGTGTTTACATC--GAAGCAGATCCAAGATGACA
1 GATTTGGCATC-TC-TGT-ATTAGA-CGGGGAGCAGATCAAAGATAACA
* * ** *
47193875 GATTTGGCATCTCTGTATTAGACGAGGAGCAAATCGGAGCTAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGATAACA
** *
47193920 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGA-AGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGATAACA
* * *
47193964 GATTTGGCGTCTCTATATTAGACGGGGAGCAAATCAAAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGATAACA
*
47194009 GATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGATA
47194051 GCCGATATTG
Statistics
Matches: 182, Mismatches: 30, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
43 1 0.01
44 42 0.23
45 108 0.59
46 7 0.04
47 19 0.10
48 4 0.02
49 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.25
Consensus pattern (45 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGATAACA
Found at i:47194460 original size:18 final size:18
Alignment explanation
Indices: 47194418--47194483 Score: 107
Period size: 18 Copynumber: 3.7 Consensus size: 18
47194408 TTCAATTATA
47194418 TGCAATCTTAGATATGA-
1 TGCAATCTTAGATATGAT
*
47194435 TACAATCTTAGATATGAT
1 TGCAATCTTAGATATGAT
47194453 TGCAATCTTAGATATGAT
1 TGCAATCTTAGATATGAT
47194471 ATGCAATCTTAGA
1 -TGCAATCTTAGA
47194484 AGATATGATT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
17 16 0.36
18 17 0.38
19 12 0.27
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.36
Consensus pattern (18 bp):
TGCAATCTTAGATATGAT
Found at i:47194490 original size:17 final size:19
Alignment explanation
Indices: 47194415--47194483 Score: 117
Period size: 17 Copynumber: 3.8 Consensus size: 19
47194405 ATCTTCAATT
47194415 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
47194434 ATA--CAATCTTAGATATG
1 ATATGCAATCTTAGATATG
47194451 AT-TGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
47194469 ATATGCAATCTTAGA
1 ATATGCAATCTTAGA
47194484 AGATATGATT
Statistics
Matches: 47, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.34
18 16 0.34
19 15 0.32
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (19 bp):
ATATGCAATCTTAGATATG
Found at i:47194509 original size:22 final size:22
Alignment explanation
Indices: 47194462--47194506 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
47194452 TTGCAATCTT
*
47194462 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATATTAGA
* *
47194484 AGATATGATTTTGTAATATTAGA
1 AGATATGA-TATGCAATATTAGA
47194507 GATTTAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.40, C:0.04, G:0.18, T:0.38
Consensus pattern (22 bp):
AGATATGATATGCAATATTAGA
Found at i:47198167 original size:45 final size:45
Alignment explanation
Indices: 47198047--47198167 Score: 145
Period size: 45 Copynumber: 2.7 Consensus size: 45
47198037 TGCCTAAACC
*
47198047 GAGTAAGACCATAGCTGAAAGATGTTATGACATCATGACAAAAAT
1 GAGTAAGACCATAGCTGAAAGATGTTATGGCATCATGACAAAAAT
* * ** *
47198092 GAGTAAGACCATAGCTGAAAGACGTCATGGCATCATGGTAAACGA-
1 GAGTAAGACCATAGCTGAAAGATGTTATGGCATCATGACAAA-AAT
* * *
47198137 GATTAAGACCATATCTAAAAGATGTTATGGC
1 GAGTAAGACCATAGCTGAAAGATGTTATGGC
47198168 TTTTTGGTAG
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
45 63 0.98
46 1 0.02
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.22
Consensus pattern (45 bp):
GAGTAAGACCATAGCTGAAAGATGTTATGGCATCATGACAAAAAT
Found at i:47198658 original size:18 final size:17
Alignment explanation
Indices: 47198635--47198668 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
47198625 TCACTTTAAC
47198635 ATTAAATTTAAATATTAG
1 ATTAAATTT-AATATTAG
47198653 ATTAAATTTAATATTA
1 ATTAAATTTAATATTA
47198669 AATATTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
ATTAAATTTAATATTAG
Found at i:47198742 original size:29 final size:29
Alignment explanation
Indices: 47198700--47198760 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
47198690 TATTTATCTA
47198700 TAAGATAGACATTAAATTAAATAAAATAT
1 TAAGATAGACATTAAATTAAATAAAATAT
** * **
47198729 TAAGATAGGTATTAAGTTAAATTTAATAT
1 TAAGATAGACATTAAATTAAATAAAATAT
47198758 TAA
1 TAA
47198761 ACTATTAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.52, C:0.02, G:0.10, T:0.36
Consensus pattern (29 bp):
TAAGATAGACATTAAATTAAATAAAATAT
Found at i:47200269 original size:5 final size:5
Alignment explanation
Indices: 47200259--47200298 Score: 71
Period size: 5 Copynumber: 8.0 Consensus size: 5
47200249 CCTTCTGTTT
*
47200259 ATATC ATATC ATGTC ATATC ATATC ATATC ATATC ATATC
1 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC
47200299 CAAGACTTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.38, C:0.20, G:0.03, T:0.40
Consensus pattern (5 bp):
ATATC
Found at i:47200654 original size:30 final size:30
Alignment explanation
Indices: 47200592--47200658 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
47200582 GATAGAGAAG
* * *
47200592 AAGTATAAACATATTAGGCTATTTATGCAAA
1 AAGTA-AAAAATATTAGGCCATTTATGAAAA
* *
47200623 AAGTAAAAAATATTGGGCCATTTATTAAAA
1 AAGTAAAAAATATTAGGCCATTTATGAAAA
47200653 AA-TAAA
1 AAGTAAA
47200659 GACGAAAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 4 0.13
30 22 0.71
31 5 0.16
ACGTcount: A:0.51, C:0.07, G:0.12, T:0.30
Consensus pattern (30 bp):
AAGTAAAAAATATTAGGCCATTTATGAAAA
Found at i:47200791 original size:31 final size:31
Alignment explanation
Indices: 47200753--47200828 Score: 152
Period size: 31 Copynumber: 2.5 Consensus size: 31
47200743 AATGTTAATG
47200753 AGTGATTGATTTGTCACTTTTTAATAACGTT
1 AGTGATTGATTTGTCACTTTTTAATAACGTT
47200784 AGTGATTGATTTGTCACTTTTTAATAACGTT
1 AGTGATTGATTTGTCACTTTTTAATAACGTT
47200815 AGTGATTGATTTGT
1 AGTGATTGATTTGT
47200829 TATTTTTCAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.25, C:0.08, G:0.18, T:0.49
Consensus pattern (31 bp):
AGTGATTGATTTGTCACTTTTTAATAACGTT
Found at i:47209197 original size:33 final size:33
Alignment explanation
Indices: 47209155--47209221 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
47209145 GGTATTTAAA
*
47209155 ACTTTTTTTTGTCCAGTTTAGTATCTAAACTTG
1 ACTTTTTTTTGTCCAATTTAGTATCTAAACTTG
* * *
47209188 ACTTTTTTTTTTCTAATTTAGTATCTAAATTTG
1 ACTTTTTTTTGTCCAATTTAGTATCTAAACTTG
47209221 A
1 A
47209222 TACTCTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.24, C:0.12, G:0.09, T:0.55
Consensus pattern (33 bp):
ACTTTTTTTTGTCCAATTTAGTATCTAAACTTG
Found at i:47209781 original size:31 final size:31
Alignment explanation
Indices: 47209713--47209781 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 31
47209703 AAATTTATAC
*
47209713 ACCAAATTAGAAAAAAATGCCAAGCTTAGGT
1 ACCAAATTAGAAAAAAATGCCAAGCTTAGAT
* *
47209744 ATCAAATTA-AAAAAAAGTGTCAAG-TTCAGAT
1 ACCAAATTAGAAAAAAA-TGCCAAGCTT-AGAT
47209775 ACCAAAT
1 ACCAAAT
47209782 GTTATATTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
30 9 0.28
31 23 0.72
ACGTcount: A:0.51, C:0.14, G:0.13, T:0.22
Consensus pattern (31 bp):
ACCAAATTAGAAAAAAATGCCAAGCTTAGAT
Found at i:47212536 original size:18 final size:18
Alignment explanation
Indices: 47212498--47212536 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
47212488 AAATTAAAAT
*
47212498 ATTAATTAAACTAATTAA
1 ATTAATTAAACTAATGAA
* *
47212516 ATTAATTAACCTAATGGA
1 ATTAATTAAACTAATGAA
47212534 ATT
1 ATT
47212537 TCCTATTCCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.38
Consensus pattern (18 bp):
ATTAATTAAACTAATGAA
Found at i:47227205 original size:46 final size:44
Alignment explanation
Indices: 47227152--47227372 Score: 171
Period size: 46 Copynumber: 4.9 Consensus size: 44
47227142 GGCAAGGGCT
* *
47227152 AGTGTAAGACATGTTTGGGACATGCATCAGCCACAGTATGAGATCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAG-ATGTGA-CC
* * *
47227198 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTTAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-AGATGTGA-CC
* * ** * * *
47227244 AATGTCAGACATGTCTGGGACATGCATTGGCTACGGGATGTG-CT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-AGATGTGACC
* * *
47227288 AGTGTAAGACATGTCTGGGACATGCGTCAG-CACGGTTACATGTG-TC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC----AGATGTGACC
* *
47227334 AGTGTAAGACCTGTCTGGGACATGGCATC-GGCACAGATG
1 AGTGTAAGACATGTCTGGGACAT-GCATCAGCCACAGATG
47227373 GATGAGAGCT
Statistics
Matches: 141, Mismatches: 28, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
43 6 0.04
44 26 0.18
46 100 0.71
47 9 0.06
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGATGTGACC
Found at i:47238798 original size:25 final size:25
Alignment explanation
Indices: 47238770--47238822 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
47238760 GCACAAAAAA
*
47238770 AATCATTTATATAGCTTGTTCTATT
1 AATCATTGATATAGCTTGTTCTATT
47238795 AATCATTGATATAGCTTGTTCTATT
1 AATCATTGATATAGCTTGTTCTATT
47238820 AAT
1 AAT
47238823 ATTCTTGCCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.49
Consensus pattern (25 bp):
AATCATTGATATAGCTTGTTCTATT
Found at i:47244973 original size:66 final size:66
Alignment explanation
Indices: 47244886--47245026 Score: 264
Period size: 66 Copynumber: 2.1 Consensus size: 66
47244876 CCTCATCTTC
*
47244886 ATGGCGTTCACCTTCTCAAGTCATGACAGGGTTCGATGGTACTCAGACCATGGACTACATGAGCG
1 ATGG-GTTCACCTTCTCAAGTCATGACAGGGTTCAATGGTACTCAGACCATGGACTACATGAGCG
47244951 GA
65 GA
47244953 ATGGGTTCACCTTCTCAAGTCATGACAGGGTTCAATGGTACTCAGACCATGGACTACATGAGCGG
1 ATGGGTTCACCTTCTCAAGTCATGACAGGGTTCAATGGTACTCAGACCATGGACTACATGAGCGG
47245018 A
66 A
47245019 ATGGGTTC
1 ATGGGTTC
47245027 TCATTATGCT
Statistics
Matches: 73, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
66 69 0.95
67 4 0.05
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (66 bp):
ATGGGTTCACCTTCTCAAGTCATGACAGGGTTCAATGGTACTCAGACCATGGACTACATGAGCGG
A
Found at i:47245690 original size:29 final size:29
Alignment explanation
Indices: 47245651--47245707 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
47245641 CACCATACTC
47245651 TTTTAACTTTGGTAATATCTTATTAGTTT
1 TTTTAACTTTGGTAATATCTTATTAGTTT
47245680 TTTTAACTTTGGTAATATCTTATTAGTT
1 TTTTAACTTTGGTAATATCTTATTAGTT
47245708 CTATCTTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.25, C:0.07, G:0.11, T:0.58
Consensus pattern (29 bp):
TTTTAACTTTGGTAATATCTTATTAGTTT
Found at i:47247648 original size:5 final size:5
Alignment explanation
Indices: 47247638--47247664 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
47247628 TAACACGGCT
47247638 TGTAA TGTAA TGTAA TGTAA TGTAA TG
1 TGTAA TGTAA TGTAA TGTAA TGTAA TG
47247665 CAATTTTAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.22, T:0.41
Consensus pattern (5 bp):
TGTAA
Found at i:47250654 original size:14 final size:14
Alignment explanation
Indices: 47250637--47250664 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
47250627 ATGCATACAT
47250637 AGTCTGTCATCCAC
1 AGTCTGTCATCCAC
47250651 AGTCTGTCATCCAC
1 AGTCTGTCATCCAC
47250665 TTAGGATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.36, G:0.14, T:0.29
Consensus pattern (14 bp):
AGTCTGTCATCCAC
Found at i:47256214 original size:2 final size:2
Alignment explanation
Indices: 47256209--47256234 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
47256199 GAATTAATGC
47256209 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
47256235 CGGTATATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:47257244 original size:5 final size:5
Alignment explanation
Indices: 47257234--47257260 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
47257224 CTGTAACCCC
47257234 CCTAT CCTAT CCTAT CCTAT CCTAT CC
1 CCTAT CCTAT CCTAT CCTAT CCTAT CC
47257261 CCTCCTCTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.44, G:0.00, T:0.37
Consensus pattern (5 bp):
CCTAT
Found at i:47259102 original size:38 final size:38
Alignment explanation
Indices: 47259051--47259125 Score: 123
Period size: 38 Copynumber: 2.0 Consensus size: 38
47259041 AAATTTAGCA
* * *
47259051 TAAAGAGTAATGTTATGACTAAGTCAATTGCTTAGAGT
1 TAAAGAATAATGTTATGAATAAATCAATTGCTTAGAGT
47259089 TAAAGAATAATGTTATGAATAAATCAATTGCTTAGAG
1 TAAAGAATAATGTTATGAATAAATCAATTGCTTAGAG
47259126 GCAAACGAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.41, C:0.07, G:0.19, T:0.33
Consensus pattern (38 bp):
TAAAGAATAATGTTATGAATAAATCAATTGCTTAGAGT
Found at i:47263213 original size:31 final size:31
Alignment explanation
Indices: 47263178--47263238 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
47263168 TATAATTTGG
*
47263178 TCACTAAACTATTCGAAAGTTTTCATTTAAA
1 TCACTAAACTATTCAAAAGTTTTCATTTAAA
* *
47263209 TCACTGAACTATTCAAAAGTTTTTATTTAA
1 TCACTAAACTATTCAAAAGTTTTCATTTAA
47263239 GTCATTAGGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.38, C:0.15, G:0.07, T:0.41
Consensus pattern (31 bp):
TCACTAAACTATTCAAAAGTTTTCATTTAAA
Found at i:47266894 original size:6 final size:6
Alignment explanation
Indices: 47266841--47266878 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
47266831 AACTGAATCT
*
47266841 GGCAAT GGCAAA GGCAAA GGCAAA GGCAAA GGCAAA GG
1 GGCAAA GGCAAA GGCAAA GGCAAA GGCAAA GGCAAA GG
47266879 TAAATTGGCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.45, C:0.16, G:0.37, T:0.03
Consensus pattern (6 bp):
GGCAAA
Found at i:47272967 original size:21 final size:22
Alignment explanation
Indices: 47272941--47272987 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
47272931 CTCTGCTCAA
*
47272941 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
47272962 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
47272984 ACTC
1 ACTC
47272988 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:47276960 original size:29 final size:29
Alignment explanation
Indices: 47276921--47276978 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
47276911 AGTAAGTACA
47276921 ATAATTTTTGTGGTTGTGCATGATTAAAT
1 ATAATTTTTGTGGTTGTGCATGATTAAAT
47276950 ATAATTTTTGTGGTTGTGCATGATTAAAT
1 ATAATTTTTGTGGTTGTGCATGATTAAAT
47276979 GTGAAAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.03, G:0.21, T:0.48
Consensus pattern (29 bp):
ATAATTTTTGTGGTTGTGCATGATTAAAT
Found at i:47283627 original size:5 final size:5
Alignment explanation
Indices: 47283619--47283644 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
47283609 ATAATATATA
47283619 AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT A
47283645 TTATAATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:47286086 original size:21 final size:21
Alignment explanation
Indices: 47286051--47286097 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 21
47286041 TTAATTTTAA
47286051 TTTTTATGATATAAAAATAAAG
1 TTTTTATGATAT-AAAATAAAG
*
47286073 TTTTTAT-ATTTAAAATAAAG
1 TTTTTATGATATAAAATAAAG
47286093 TTTTT
1 TTTTT
47286098 TAGAAATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 14 0.58
21 3 0.12
22 7 0.29
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (21 bp):
TTTTTATGATATAAAATAAAG
Found at i:47287303 original size:28 final size:28
Alignment explanation
Indices: 47287271--47287329 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
47287261 ATAAATGGTT
47287271 TTAACGTATTAGTCTTTTGGGATGGTCA
1 TTAACGTATTAGTCTTTTGGGATGGTCA
47287299 TTAACGTATTAGTCTTTTGGGATGGTCA
1 TTAACGTATTAGTCTTTTGGGATGGTCA
47287327 TTA
1 TTA
47287330 GCGGGTACAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.22, C:0.10, G:0.24, T:0.44
Consensus pattern (28 bp):
TTAACGTATTAGTCTTTTGGGATGGTCA
Found at i:47288604 original size:21 final size:22
Alignment explanation
Indices: 47288578--47288624 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
47288568 CTCTGCTCAA
*
47288578 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
47288599 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
47288621 ACTC
1 ACTC
47288625 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:47293412 original size:217 final size:217
Alignment explanation
Indices: 47293031--47293460 Score: 648
Period size: 217 Copynumber: 2.0 Consensus size: 217
47293021 GATAGCTTTG
* * *
47293031 TTGAAGATGTTTAAAGCTATAAAAGAGTGGTAGGTACCCCTCAATACATTTGTCATACATGACCT
1 TTGAAGAGGTTTAAAGCTATAAAAGAGTGGGAGGTACCCCTCAATACACTTGTCATACATGACCT
* ** *
47293096 TGTTGGGAAAATAAGTAAGAAGGCAATCTATTTTTCTTTAGCGTTGAAAAATCCGATTCTTGGGC
66 TGTTGGGAAAATAAGTAAGAAGGCAATCTATTTTTCGTTAGCGTTGAAAAATCCGATTCTCAGAC
* * *
47293161 CAAATTTAATCGAGAGGTTTCTAAAATGAGAACGAGCAAAGGGATGTAAATACTTAACTTATT-A
131 CAAATTTAATCGAGAGGTTTCCAAAATAAGAACGAGCAAAGGGAGGTAAATACTTAACTTATTGA
47293225 GAGAAGTTAATAATTATTATTTC
196 -AGAAGTTAATAATTATTATTTC
* *
47293248 TTGAAGAGGTTTAAAGCTATAAAAGTGTGGGAGGT-GCCCTCAATACACTTGTCATACATGACCT
1 TTGAAGAGGTTTAAAGCTATAAAAGAGTGGGAGGTACCCCTCAATACACTTGTCATACATGACCT
* * * **
47293312 TGTTGGGAAAAATAGGTACGAAGGCGATCTATTTTTCGTTAGCGTTGAAAAATTTGATTCTCAGA
66 TGTTGGG-AAAATAAGTAAGAAGGCAATCTATTTTTCGTTAGCGTTGAAAAATCCGATTCTCAGA
* * *
47293377 CTAAATTTAATCGAGAGGTTTCCGAAATAAGAACGAGTAAAGGGAGGTAAATACTTAACTTATTG
130 CCAAATTTAATCGAGAGGTTTCCAAAATAAGAACGAGCAAAGGGAGGTAAATACTTAACTTATTG
47293442 AAGAAGTTAATAATTATTA
195 AAGAAGTTAATAATTATTA
47293461 CGTAAGGTCT
Statistics
Matches: 191, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
216 34 0.18
217 156 0.82
218 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (217 bp):
TTGAAGAGGTTTAAAGCTATAAAAGAGTGGGAGGTACCCCTCAATACACTTGTCATACATGACCT
TGTTGGGAAAATAAGTAAGAAGGCAATCTATTTTTCGTTAGCGTTGAAAAATCCGATTCTCAGAC
CAAATTTAATCGAGAGGTTTCCAAAATAAGAACGAGCAAAGGGAGGTAAATACTTAACTTATTGA
AGAAGTTAATAATTATTATTTC
Found at i:47294885 original size:19 final size:19
Alignment explanation
Indices: 47294852--47294890 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
47294842 ATAATTTTTT
** *
47294852 TAAACAATATTAATATTAA
1 TAAACAATAACAATAATAA
47294871 TAAACAATAACAATAATAA
1 TAAACAATAACAATAATAA
47294890 T
1 T
47294891 TATAATAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (19 bp):
TAAACAATAACAATAATAA
Found at i:47296843 original size:39 final size:39
Alignment explanation
Indices: 47296795--47296873 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
47296785 GCACCTCTGT
47296795 CTTGCAAGCTGCTGACAACTTATCTATTGAAGGGCACCA
1 CTTGCAAGCTGCTGACAACTTATCTATTGAAGGGCACCA
47296834 CTTGCAAGCTGCTGACAACTTATCTATTGAAGGGCACCA
1 CTTGCAAGCTGCTGACAACTTATCTATTGAAGGGCACCA
47296873 C
1 C
47296874 AAGAAGGATC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (39 bp):
CTTGCAAGCTGCTGACAACTTATCTATTGAAGGGCACCA
Found at i:47301483 original size:51 final size:51
Alignment explanation
Indices: 47301414--47301618 Score: 288
Period size: 51 Copynumber: 4.0 Consensus size: 51
47301404 CTGATCACAT
* *
47301414 TTATCACTTGTCACTGATCAGATAAGTATAGCTAAAACTATCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTATAGCTAAAGCTACCACTTATCAC
* * *
47301465 TTATCACTTGTCATTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAT
1 TTATCACTTGTCACTGATCAGATAAGTATAGCTAAAGCTACCACTTATCAC
*
47301516 TTATCACTTGTCACTGATCAGATAAG-AGTAGCT-AAGCTACCACTTATCAT
1 TTATCACTTGTCACTGATCAGATAAGTA-TAGCTAAAGCTACCACTTATCAC
* * * * *
47301566 TTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTATAGCTAAAGCTACCACTTATCAC
47301617 TT
1 TT
47301619 NNNNNNNNNN
Statistics
Matches: 139, Mismatches: 12, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
50 46 0.33
51 93 0.67
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTATAGCTAAAGCTACCACTTATCAC
Found at i:47301606 original size:101 final size:102
Alignment explanation
Indices: 47301411--47301615 Score: 315
Period size: 101 Copynumber: 2.0 Consensus size: 102
47301401 ACACTGATCA
* *
47301411 CATTTATCACTTGTCACTGATCAGATAAGTATAGCTAAAACTATCACTTATCACTTATCACTTGT
1 CATTTATCACTTGTCACTGATCAGATAAGTATAGCTAAAACTACCACTTATCACTTATCACTTAT
*
47301476 CATTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
66 CACTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
* * *
47301513 CATTTATCACTTGTCACTGATCAGATAAG-AGTAGCT-AAGCTACCACTTATCATTTGTCACTTA
1 CATTTATCACTTGTCACTGATCAGATAAGTA-TAGCTAAAACTACCACTTATCACTTATCACTTA
* *
47301576 TCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTAT
65 TCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
47301614 CA
1 CA
47301616 CTTNNNNNNN
Statistics
Matches: 94, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
101 60 0.64
102 34 0.36
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.33
Consensus pattern (102 bp):
CATTTATCACTTGTCACTGATCAGATAAGTATAGCTAAAACTACCACTTATCACTTATCACTTAT
CACTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
Found at i:47310254 original size:11 final size:11
Alignment explanation
Indices: 47310238--47310262 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
47310228 CTCCAGAATT
47310238 ATTATTTTAAA
1 ATTATTTTAAA
47310249 ATTATTTTAAA
1 ATTATTTTAAA
47310260 ATT
1 ATT
47310263 TTAACTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
ATTATTTTAAA
Done.