Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 142 of 295
Found at i:43878560 original size:42 final size:43
Alignment explanation
Indices: 43878513--43878600 Score: 144
Period size: 42 Copynumber: 2.1 Consensus size: 43
43878503 TTTAAGTTCT
*
43878513 TGTGCGATACAATTATAGCTTC-GTCTAATT-ATTTGCACTAAG
1 TGTGCGATACAATTATAGCTTCGGT-TAATTAATTAGCACTAAG
43878555 TGTGCGATACAATTATAGCTTCGGTTAATTAATTAGCACTAAG
1 TGTGCGATACAATTATAGCTTCGGTTAATTAATTAGCACTAAG
43878598 TGT
1 TGT
43878601 ACGAGTTTAT
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
42 27 0.63
43 16 0.37
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.38
Consensus pattern (43 bp):
TGTGCGATACAATTATAGCTTCGGTTAATTAATTAGCACTAAG
Found at i:43884861 original size:43 final size:43
Alignment explanation
Indices: 43884813--43884913 Score: 166
Period size: 43 Copynumber: 2.3 Consensus size: 43
43884803 GATTTAATCT
* *
43884813 ATTGGCACTAAGTGTGTGATACAATTATAGCTTCGGCTAATTA
1 ATTGGCACTAAGTGTGTGATACAATTACAGCTTCAGCTAATTA
*
43884856 ATTGGCACTAAGTGTGTGATACAATTACAGCTTCAGTTAATTA
1 ATTGGCACTAAGTGTGTGATACAATTACAGCTTCAGCTAATTA
*
43884899 ATTAGCACTAAGTGT
1 ATTGGCACTAAGTGT
43884914 ACGAGTTTAT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.35
Consensus pattern (43 bp):
ATTGGCACTAAGTGTGTGATACAATTACAGCTTCAGCTAATTA
Found at i:43896484 original size:7 final size:7
Alignment explanation
Indices: 43896467--43896510 Score: 74
Period size: 7 Copynumber: 6.6 Consensus size: 7
43896457 ATGGGGGTAA
43896467 GATTT-T
1 GATTTCT
43896473 GATTTCT
1 GATTTCT
43896480 GATTTCT
1 GATTTCT
43896487 GATTTCT
1 GATTTCT
43896494 GATTTCT
1 GATTTCT
43896501 GATTT-T
1 GATTTCT
43896507 GATT
1 GATT
43896511 AACACATCTA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
6 10 0.27
7 27 0.73
ACGTcount: A:0.16, C:0.09, G:0.16, T:0.59
Consensus pattern (7 bp):
GATTTCT
Found at i:43902566 original size:16 final size:15
Alignment explanation
Indices: 43902545--43902575 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
43902535 AGACTGTTTA
43902545 TCTGTATTTGTATATT
1 TCTGTATTTG-ATATT
43902561 TCTGTATTTGATATT
1 TCTGTATTTGATATT
43902576 GGGGATGGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.19, C:0.06, G:0.13, T:0.61
Consensus pattern (15 bp):
TCTGTATTTGATATT
Found at i:43902792 original size:6 final size:7
Alignment explanation
Indices: 43902766--43902794 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
43902756 TGGGGTAGGA
43902766 TTCTGAT
1 TTCTGAT
43902773 TTCTGAT
1 TTCTGAT
43902780 TTCTGAT
1 TTCTGAT
43902787 TT-TGAT
1 TTCTGAT
43902793 TT
1 TT
43902795 GCACATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.14, C:0.10, G:0.14, T:0.62
Consensus pattern (7 bp):
TTCTGAT
Found at i:43908989 original size:10 final size:10
Alignment explanation
Indices: 43908974--43909005 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
43908964 TAAATACATT
43908974 TAATTAAAGA
1 TAATTAAAGA
43908984 TAATTAAAGA
1 TAATTAAAGA
43908994 TAATTAAA-A
1 TAATTAAAGA
43909003 TAA
1 TAA
43909006 AATCCTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:43915975 original size:44 final size:44
Alignment explanation
Indices: 43915908--43915996 Score: 142
Period size: 44 Copynumber: 2.0 Consensus size: 44
43915898 AGCATTAACC
43915908 AACTTAGCTCATTTAATTCGATCCTCTTAGGATGCAAGATACTT
1 AACTTAGCTCATTTAATTCGATCCTCTTAGGATGCAAGATACTT
* * * *
43915952 AACTTAGCTCATTTAGTTTGATCCTCTTAGGATGGAAGATCCTT
1 AACTTAGCTCATTTAATTCGATCCTCTTAGGATGCAAGATACTT
43915996 A
1 A
43915997 GTATCCCTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.37
Consensus pattern (44 bp):
AACTTAGCTCATTTAATTCGATCCTCTTAGGATGCAAGATACTT
Found at i:43922299 original size:237 final size:237
Alignment explanation
Indices: 43921884--43922594 Score: 1422
Period size: 237 Copynumber: 3.0 Consensus size: 237
43921874 CTCTGCTTCT
43921884 TTCACAATTCAACTTGCAAATCCTAGCATCCATTGACCATTTTGATCCCTAATAAATTCTCTGAA
1 TTCACAATTCAACTTGCAAATCCTAGCATCCATTGACCATTTTGATCCCTAATAAATTCTCTGAA
43921949 GTCATAAAAGCTTTATTTGTATTGACCTTAAACTATCTCATAGTTAGTAGAGGCTAGCTGACCAT
66 GTCATAAAAGCTTTATTTGTATTGACCTTAAACTATCTCATAGTTAGTAGAGGCTAGCTGACCAT
43922014 GCTTCAAAACTCTATCATCTTTACCTCAAAGAGCCTTGCAAACCTAGTACGAAAAAAGCAATATC
131 GCTTCAAAACTCTATCATCTTTACCTCAAAGAGCCTTGCAAACCTAGTACGAAAAAAGCAATATC
43922079 ACACCGAAGTTCTTAATTGGTCTTGAAGTACTTTCTAATACA
196 ACACCGAAGTTCTTAATTGGTCTTGAAGTACTTTCTAATACA
43922121 TTCACAATTCAACTTGCAAATCCTAGCATCCATTGACCATTTTGATCCCTAATAAATTCTCTGAA
1 TTCACAATTCAACTTGCAAATCCTAGCATCCATTGACCATTTTGATCCCTAATAAATTCTCTGAA
43922186 GTCATAAAAGCTTTATTTGTATTGACCTTAAACTATCTCATAGTTAGTAGAGGCTAGCTGACCAT
66 GTCATAAAAGCTTTATTTGTATTGACCTTAAACTATCTCATAGTTAGTAGAGGCTAGCTGACCAT
43922251 GCTTCAAAACTCTATCATCTTTACCTCAAAGAGCCTTGCAAACCTAGTACGAAAAAAGCAATATC
131 GCTTCAAAACTCTATCATCTTTACCTCAAAGAGCCTTGCAAACCTAGTACGAAAAAAGCAATATC
43922316 ACACCGAAGTTCTTAATTGGTCTTGAAGTACTTTCTAATACA
196 ACACCGAAGTTCTTAATTGGTCTTGAAGTACTTTCTAATACA
43922358 TTCACAATTCAACTTGCAAATCCTAGCATCCATTGACCATTTTGATCCCTAATAAATTCTCTGAA
1 TTCACAATTCAACTTGCAAATCCTAGCATCCATTGACCATTTTGATCCCTAATAAATTCTCTGAA
43922423 GTCATAAAAGCTTTATTTGTATTGACCTTAAACTATCTCATAGTTAGTAGAGGCTAGCTGACCAT
66 GTCATAAAAGCTTTATTTGTATTGACCTTAAACTATCTCATAGTTAGTAGAGGCTAGCTGACCAT
43922488 GCTTCAAAACTCTATCATCTTTACCTCAAAGAGCCTTGCAAACCTAGTACGAAAAAAGCAATATC
131 GCTTCAAAACTCTATCATCTTTACCTCAAAGAGCCTTGCAAACCTAGTACGAAAAAAGCAATATC
43922553 ACACCGAAGTTCTTAATTGGTCTTGAAGTACTTTCTAATACA
196 ACACCGAAGTTCTTAATTGGTCTTGAAGTACTTTCTAATACA
43922595 GAAAATGTAT
Statistics
Matches: 474, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
237 474 1.00
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.32
Consensus pattern (237 bp):
TTCACAATTCAACTTGCAAATCCTAGCATCCATTGACCATTTTGATCCCTAATAAATTCTCTGAA
GTCATAAAAGCTTTATTTGTATTGACCTTAAACTATCTCATAGTTAGTAGAGGCTAGCTGACCAT
GCTTCAAAACTCTATCATCTTTACCTCAAAGAGCCTTGCAAACCTAGTACGAAAAAAGCAATATC
ACACCGAAGTTCTTAATTGGTCTTGAAGTACTTTCTAATACA
Found at i:43926128 original size:55 final size:56
Alignment explanation
Indices: 43926063--43926167 Score: 133
Period size: 55 Copynumber: 1.9 Consensus size: 56
43926053 AGCATGGCTG
* * *
43926063 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGTGCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCAGTGCCA
* * *
43926119 CCAGA-ACAGATATACGTGGCAGGGCCACCAGAACAGATAATTTGTGGCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCA
43926168 TATCCACCAG
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
55 21 0.50
56 21 0.50
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCAGTGCCA
Found at i:43926145 original size:27 final size:28
Alignment explanation
Indices: 43926088--43926157 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
43926078 GTGACAGAGT
** *
43926088 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATATTACGTGGCAGGGC
43926117 CACCAGAACAGATA-TACGTGGCAGGGC
1 CACCAGAACAGATATTACGTGGCAGGGC
43926144 CACCAGAACAGATA
1 CACCAGAACAGATA
43926158 ATTTGTGGCA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 24 0.63
28 7 0.18
29 7 0.18
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.17
Consensus pattern (28 bp):
CACCAGAACAGATATTACGTGGCAGGGC
Found at i:43926174 original size:28 final size:27
Alignment explanation
Indices: 43926088--43926177 Score: 92
Period size: 27 Copynumber: 3.2 Consensus size: 27
43926078 GTGACAGAGT
*
43926088 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** *
43926117 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
*
43926144 CACCAGAACAGATAATTTGTGGCATATC
1 CACCAGAACAGATAATTTGTGGCAT-GC
43926172 CACCAG
1 CACCAG
43926178 GACGCTTCCC
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
27 23 0.45
28 21 0.41
29 7 0.14
ACGTcount: A:0.32, C:0.24, G:0.23, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:43933966 original size:28 final size:27
Alignment explanation
Indices: 43933880--43933969 Score: 92
Period size: 27 Copynumber: 3.2 Consensus size: 27
43933870 GTGACAGAGT
*
43933880 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** *
43933909 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
*
43933936 CACCAGAATAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
43933964 CACCAG
1 CACCAG
43933970 GACCCTTCCT
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
27 22 0.43
28 22 0.43
29 7 0.14
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:43948287 original size:50 final size:50
Alignment explanation
Indices: 43948220--43948320 Score: 175
Period size: 50 Copynumber: 2.0 Consensus size: 50
43948210 AGGAATAAGA
* *
43948220 AAATTTCATTGGTGAAAGTCTTATGGCATCGACATGGGGTTGAAGAAGCT
1 AAATTTCATTGGTGAAAGTCTTATGGCATCGACACGGGGTCGAAGAAGCT
*
43948270 AAATTTTATTGGTGAAAGTCTTATGGCATCGACACGGGGTCGAAGAAGCT
1 AAATTTCATTGGTGAAAGTCTTATGGCATCGACACGGGGTCGAAGAAGCT
43948320 A
1 A
43948321 CGTGGGAACC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.29
Consensus pattern (50 bp):
AAATTTCATTGGTGAAAGTCTTATGGCATCGACACGGGGTCGAAGAAGCT
Found at i:43949618 original size:43 final size:43
Alignment explanation
Indices: 43949540--43949641 Score: 104
Period size: 43 Copynumber: 2.4 Consensus size: 43
43949530 ATTGAGATGT
* * * *
43949540 GATTACATGTAAGACCCTGTGTGAGACAATGGCATTG-TATTAC
1 GATTACGTGTAAGACCATGTGTGAGACAATAGCATTGTTAAT-C
43949583 GATTACGTGTAAGACCATGTGTG-GA-ACATCAGCATTGTTAATC
1 GATTACGTGTAAGACCATGTGTGAGACA-AT-AGCATTGTTAATC
43949626 GACTT-CGTGTAAGACC
1 GA-TTACGTGTAAGACC
43949642 CTATATGGGA
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
41 1 0.02
42 4 0.08
43 41 0.80
44 5 0.10
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTGTGAGACAATAGCATTGTTAATC
Found at i:43959248 original size:13 final size:13
Alignment explanation
Indices: 43959232--43959271 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
43959222 AAAAAGAAAG
43959232 AGAAAGAAAGGGA
1 AGAAAGAAAGGGA
*
43959245 AGAAAG-GAGGGA
1 AGAAAGAAAGGGA
43959257 GAGAAAGAAAGGGA
1 -AGAAAGAAAGGGA
43959271 A
1 A
43959272 AGGGAGAGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 5 0.22
13 13 0.57
14 5 0.22
ACGTcount: A:0.57, C:0.00, G:0.42, T:0.00
Consensus pattern (13 bp):
AGAAAGAAAGGGA
Found at i:43959274 original size:6 final size:6
Alignment explanation
Indices: 43959266--43959300 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
43959256 AGAGAAAGAA
*
43959266 AGGGAA AGGGAG AGGGAG AGGGAG AGGGAG AGGGA
1 AGGGAG AGGGAG AGGGAG AGGGAG AGGGAG AGGGA
43959301 TAGGAGGAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.37, C:0.00, G:0.63, T:0.00
Consensus pattern (6 bp):
AGGGAG
Found at i:43965328 original size:29 final size:30
Alignment explanation
Indices: 43965286--43965373 Score: 81
Period size: 31 Copynumber: 2.9 Consensus size: 30
43965276 TTTGAATCAC
* * *
43965286 AATTAGAATTTCATGTTTATAATTGCACCA
1 AATTAGAAATTCATGTATACAATTGCACCA
*
43965316 AATTA-AAATTCATGTATACAATTGCACATTA
1 AATTAGAAATTCATGTATACAATTGCAC--CA
* * *
43965347 AATCA-AAGTTCATGTATACAATAGCAC
1 AATTAGAAATTCATGTATACAATTGCAC
43965374 ATTAAATTAA
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
29 19 0.39
30 5 0.10
31 25 0.51
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.34
Consensus pattern (30 bp):
AATTAGAAATTCATGTATACAATTGCACCA
Found at i:43965362 original size:31 final size:31
Alignment explanation
Indices: 43965315--43965395 Score: 126
Period size: 31 Copynumber: 2.6 Consensus size: 31
43965305 TAATTGCACC
* *
43965315 AAATTAAAATTCATGTATACAATTGCACATT
1 AAATTAAAGTTCATGTATACAATAGCACATT
*
43965346 AAATCAAAGTTCATGTATACAATAGCACATT
1 AAATTAAAGTTCATGTATACAATAGCACATT
*
43965377 AAATTAAAGTTCATATATA
1 AAATTAAAGTTCATGTATA
43965396 ATTTTGAAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.47, C:0.12, G:0.07, T:0.33
Consensus pattern (31 bp):
AAATTAAAGTTCATGTATACAATAGCACATT
Found at i:43965483 original size:50 final size:50
Alignment explanation
Indices: 43965422--43965524 Score: 188
Period size: 50 Copynumber: 2.1 Consensus size: 50
43965412 CTTAAAATTA
*
43965422 ATATAATATTTTTTAAAATTAATTTTCAAGTCAGACAATTTGCCCAATGG
1 ATATAATATTTTTTAAAATTAATTTTCAAGTCAGACAATTGGCCCAATGG
*
43965472 ATATGATATTTTTTAAAATTAATTTTCAAGTCAGACAATTGGCCCAATGG
1 ATATAATATTTTTTAAAATTAATTTTCAAGTCAGACAATTGGCCCAATGG
43965522 ATA
1 ATA
43965525 ATTGAACTTA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.39
Consensus pattern (50 bp):
ATATAATATTTTTTAAAATTAATTTTCAAGTCAGACAATTGGCCCAATGG
Found at i:43965927 original size:17 final size:16
Alignment explanation
Indices: 43965907--43965963 Score: 57
Period size: 17 Copynumber: 3.6 Consensus size: 16
43965897 ATTTTAATAG
43965907 ATTTAATATTTAGTTTA
1 ATTTAATATTTA-TTTA
*
43965924 ATTTAATACTTATCTTA
1 ATTTAATATTTAT-TTA
*
43965941 ATAT-AT-TTTA-TTA
1 ATTTAATATTTATTTA
43965954 ATTTAATATT
1 ATTTAATATT
43965964 AAAGTGATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
13 6 0.18
14 2 0.06
15 5 0.15
16 3 0.09
17 17 0.52
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.58
Consensus pattern (16 bp):
ATTTAATATTTATTTA
Found at i:43966042 original size:61 final size:57
Alignment explanation
Indices: 43965976--43966090 Score: 158
Period size: 61 Copynumber: 1.9 Consensus size: 57
43965966 AGTGATTACC
* *
43965976 TTAATATTAAATTTAATTTAATATTTATCTTATAGATAAATATTCTATTAATTTAATAAAT
1 TTAATATTAAATTTAATCTAATATTTATC-T-T-GATAAATATT-AATTAATTTAATAAAT
* *
43966037 TTAATATTAAATTTCATCTAATATTTATCTTGATAACTATTAATTAATTTAATA
1 TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTAATTAATTTAATA
43966091 TTAAAGTGAT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
57 12 0.24
58 9 0.18
59 1 0.02
60 1 0.02
61 27 0.54
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (57 bp):
TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTAATTAATTTAATAAAT
Found at i:43971378 original size:22 final size:23
Alignment explanation
Indices: 43971339--43971383 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
43971329 AATCATATCA
43971339 ATATTAAATTAAAA-TTTTATTT
1 ATATTAAATTAAAATTTTTATTT
* *
43971361 ATATTAAATTACACTTTTTATTT
1 ATATTAAATTAAAATTTTTATTT
43971384 TTGTCACATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (23 bp):
ATATTAAATTAAAATTTTTATTT
Found at i:43973044 original size:28 final size:28
Alignment explanation
Indices: 43973006--43973075 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
43972996 TGGTTATACA
*
43973006 TATATTATATATATGCATGACTTTATCT
1 TATATAATATATATGCATGACTTTATCT
* *
43973034 TATATAATATATATGCATGGCTTTATTT
1 TATATAATATATATGCATGACTTTATCT
* *
43973062 TACATAGTATATAT
1 TATATAATATATAT
43973076 TAATGGATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.34, C:0.09, G:0.09, T:0.49
Consensus pattern (28 bp):
TATATAATATATATGCATGACTTTATCT
Found at i:43973473 original size:36 final size:35
Alignment explanation
Indices: 43973386--43973496 Score: 100
Period size: 36 Copynumber: 3.1 Consensus size: 35
43973376 AGCCAATTAT
* **
43973386 ATTT-GTGTATTGTATTATATTGTGAACCATGTTA
1 ATTTGGTGAATTGTATTATATTGTGAACTGTGTTA
* *
43973420 ACTTGGTGAATTATATTATTATTGTGAACTGTGTTA
1 ATTTGGTGAATTGTATTA-TATTGTGAACTGTGTTA
* * **
43973456 ATTTGGT-ACTCTGTATTAATATGGTGAACTGCATTA
1 ATTTGGTGAAT-TGTATT-ATATTGTGAACTGTGTTA
43973492 ATTTG
1 ATTTG
43973497 TCAAATTGTG
Statistics
Matches: 62, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
34 3 0.05
35 13 0.21
36 45 0.73
37 1 0.02
ACGTcount: A:0.27, C:0.07, G:0.19, T:0.47
Consensus pattern (35 bp):
ATTTGGTGAATTGTATTATATTGTGAACTGTGTTA
Found at i:43974243 original size:12 final size:13
Alignment explanation
Indices: 43974207--43974244 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
43974197 AAATATTTGA
43974207 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
43974220 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
43974234 CTTG-TCTTAAT
1 CTTGTTCTTAAT
43974245 ATTCCAGGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:43974338 original size:23 final size:23
Alignment explanation
Indices: 43974312--43974357 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
43974302 CTAAGAGTAA
43974312 ATTTGTCATAATTAAGCGAAGTT
1 ATTTGTCATAATTAAGCGAAGTT
43974335 ATTTGTCATAATTAAGCGAAGTT
1 ATTTGTCATAATTAAGCGAAGTT
43974358 GATTGCACGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.39
Consensus pattern (23 bp):
ATTTGTCATAATTAAGCGAAGTT
Found at i:43979302 original size:12 final size:12
Alignment explanation
Indices: 43979287--43980920 Score: 2152
Period size: 12 Copynumber: 136.8 Consensus size: 12
43979277 AATAATAATA
43979287 ACATACATACAT
1 ACATACATACAT
43979299 ACATACATACAT
1 ACATACATACAT
43979311 ACATACATACAT
1 ACATACATACAT
43979323 ACATACATACAT
1 ACATACATACAT
*
43979335 ATA-AGCATACAT
1 ACATA-CATACAT
43979347 ACATACATACAT
1 ACATACATACAT
*
43979359 ACATACATGCAT
1 ACATACATACAT
* *
43979371 GCATACATGCAT
1 ACATACATACAT
*
43979383 ACATACATGCAT
1 ACATACATACAT
* *
43979395 GCATACATGCAT
1 ACATACATACAT
* *
43979407 GCATACATGCAT
1 ACATACATACAT
*
43979419 ACATACATGCAT
1 ACATACATACAT
43979431 ACATACATACAT
1 ACATACATACAT
*
43979443 ACATGCATACAT
1 ACATACATACAT
*
43979455 ACATGCATACAT
1 ACATACATACAT
*
43979467 ACATGCATACAT
1 ACATACATACAT
43979479 ACATGA-ATACAT
1 ACAT-ACATACAT
43979491 ACATACATACAT
1 ACATACATACAT
*
43979503 ACATACATACGT
1 ACATACATACAT
*
43979515 ACATGCATACAT
1 ACATACATACAT
43979527 ACATACATACAT
1 ACATACATACAT
*
43979539 GCATACATACAT
1 ACATACATACAT
*
43979551 ACATACATGCAT
1 ACATACATACAT
*
43979563 ACATGCATACAT
1 ACATACATACAT
*
43979575 ACATGCATACAT
1 ACATACATACAT
*
43979587 GCATACATACAT
1 ACATACATACAT
* *
43979599 GCCTACATACAT
1 ACATACATACAT
43979611 ACATACATACAT
1 ACATACATACAT
43979623 ACATACATACAT
1 ACATACATACAT
43979635 ACATACATACAT
1 ACATACATACAT
43979647 ACATACATACAT
1 ACATACATACAT
43979659 ACATACATA-A-
1 ACATACATACAT
*
43979669 AAATA-ATA-AT
1 ACATACATACAT
*
43979679 A-ATA-ATAACTT
1 ACATACAT-ACAT
43979690 ACATACATACAT
1 ACATACATACAT
43979702 ACATACATACAT
1 ACATACATACAT
43979714 ACATACATACAT
1 ACATACATACAT
*
43979726 ACATGCATACAT
1 ACATACATACAT
*
43979738 ACATACATGCAT
1 ACATACATACAT
*
43979750 ACATACATGCAT
1 ACATACATACAT
43979762 ACATACATACAT
1 ACATACATACAT
*
43979774 GCATACATACAT
1 ACATACATACAT
* *
43979786 CCATGCATACAT
1 ACATACATACAT
*
43979798 ACATCCATACAT
1 ACATACATACAT
43979810 ACATACATACAT
1 ACATACATACAT
*
43979822 ATATACATACAT
1 ACATACATACAT
*
43979834 CCATACATACAT
1 ACATACATACAT
43979846 ACATACATACAT
1 ACATACATACAT
43979858 ACATACATACAT
1 ACATACATACAT
*
43979870 ATATACATACAT
1 ACATACATACAT
43979882 ACATACATACAT
1 ACATACATACAT
*
43979894 ACATGCATACAT
1 ACATACATACAT
*
43979906 ACATCCATACAT
1 ACATACATACAT
43979918 ACATACATACAT
1 ACATACATACAT
*
43979930 CCATACATACAT
1 ACATACATACAT
* *
43979942 ACATCCATGCAT
1 ACATACATACAT
43979954 ACATACATACAT
1 ACATACATACAT
*
43979966 ACATGCATACAT
1 ACATACATACAT
* *
43979978 ACATCCATGCAT
1 ACATACATACAT
*
43979990 ACATACATCCAT
1 ACATACATACAT
*
43980002 GCATACATACAT
1 ACATACATACAT
* *
43980014 CCATCCATACAT
1 ACATACATACAT
*
43980026 ACATACATCCAT
1 ACATACATACAT
43980038 ACATACATACAT
1 ACATACATACAT
*
43980050 ATATACATACAT
1 ACATACATACAT
43980062 ACATACATACAT
1 ACATACATACAT
*
43980074 ACAAACATACAT
1 ACATACATACAT
43980086 ACATACATACAT
1 ACATACATACAT
43980098 ACATACATACAT
1 ACATACATACAT
* *
43980110 GCATGCATACAT
1 ACATACATACAT
* *
43980122 CCATACATGCAT
1 ACATACATACAT
*
43980134 GA-ATACATCCAT
1 -ACATACATACAT
* *
43980146 ACATGCATGCAT
1 ACATACATACAT
43980158 ACATACATACAT
1 ACATACATACAT
*
43980170 A-A-AAATA-AT
1 ACATACATACAT
43980179 A-ATA-ATAACAT
1 ACATACAT-ACAT
43980190 ACATACATACAT
1 ACATACATACAT
43980202 ACATACATACAT
1 ACATACATACAT
43980214 ACATACATACAT
1 ACATACATACAT
*
43980226 ACATACATGCAT
1 ACATACATACAT
*
43980238 ACATACATGCAT
1 ACATACATACAT
43980250 ACATACATACAT
1 ACATACATACAT
43980262 ACATACATACAT
1 ACATACATACAT
43980274 ACATACATACAT
1 ACATACATACAT
* *
43980286 ACATACATGCAC
1 ACATACATACAT
*
43980298 ACATACATCCAT
1 ACATACATACAT
*
43980310 GCATACATACAT
1 ACATACATACAT
43980322 ACATACATACAT
1 ACATACATACAT
43980334 ACATACATACAT
1 ACATACATACAT
*
43980346 ACATGCATACAT
1 ACATACATACAT
43980358 ACATACATACAT
1 ACATACATACAT
* *
43980370 CCATACATAAAT
1 ACATACATACAT
*
43980382 ACATGCATACAT
1 ACATACATACAT
*
43980394 ACAT-CTATGCAT
1 ACATAC-ATACAT
*
43980406 ACATACATCCAT
1 ACATACATACAT
43980418 ACATACATACAT
1 ACATACATACAT
43980430 ACATACATACAT
1 ACATACATACAT
* * *
43980442 ATATCCATCCAT
1 ACATACATACAT
43980454 ACATACATACAT
1 ACATACATACAT
43980466 -CTATACATACAT
1 AC-ATACATACAT
43980478 ACATACATACAT
1 ACATACATACAT
43980490 ACATACATACAT
1 ACATACATACAT
*
43980502 -CTCTACATACAT
1 AC-ATACATACAT
43980514 ACATACATACAT
1 ACATACATACAT
*
43980526 ACATCCATACAT
1 ACATACATACAT
43980538 ACATACATACAT
1 ACATACATACAT
43980550 ACATACATACAT
1 ACATACATACAT
* *
43980562 CCATGCATACAT
1 ACATACATACAT
* *
43980574 ACATCCATGCAT
1 ACATACATACAT
*
43980586 ACATACATCCAT
1 ACATACATACAT
*
43980598 GCATACATACAT
1 ACATACATACAT
* *
43980610 CCATGCATACAT
1 ACATACATACAT
*
43980622 ACATACATGCAT
1 ACATACATACAT
*
43980634 GCATACATACAT
1 ACATACATACAT
43980646 ACATACATACAT
1 ACATACATACAT
43980658 ACATACATACAT
1 ACATACATACAT
43980670 ACATACATACAT
1 ACATACATACAT
43980682 ACATACATACAT
1 ACATACATACAT
*
43980694 ATCCATCCATACAT
1 A--CATACATACAT
*
43980708 ACATGCATACAT
1 ACATACATACAT
43980720 ACATACATACAT
1 ACATACATACAT
*
43980732 ACACACATACAT
1 ACATACATACAT
43980744 ACATACATACAT
1 ACATACATACAT
* *
43980756 CCATGCATACAT
1 ACATACATACAT
43980768 ACATACAT-CTAT
1 ACATACATAC-AT
*
43980780 GCATACATACAT
1 ACATACATACAT
*
43980792 ACATCCATACAT
1 ACATACATACAT
*
43980804 ATATACATACAT
1 ACATACATACAT
* *
43980816 CCATACATCCAT
1 ACATACATACAT
43980828 ACATACATACAT
1 ACATACATACAT
* *
43980840 ACATCCATGCAT
1 ACATACATACAT
* *
43980852 ACAGACATCCAT
1 ACATACATACAT
*
43980864 GCATACATACAT
1 ACATACATACAT
43980876 ACATACATACAT
1 ACATACATACAT
43980888 ACATACATACAT
1 ACATACATACAT
43980900 ACATACATACAT
1 ACATACATACAT
43980912 ACATACATA
1 ACATACATA
43980921 ACAATTTTTG
Statistics
Matches: 1441, Mismatches: 155, Indels: 52
0.87 0.09 0.03
Matches are distributed among these distances:
9 15 0.01
10 12 0.01
11 14 0.01
12 1380 0.96
13 9 0.01
14 11 0.01
ACGTcount: A:0.45, C:0.26, G:0.03, T:0.25
Consensus pattern (12 bp):
ACATACATACAT
Found at i:43979308 original size:16 final size:16
Alignment explanation
Indices: 43979287--43980920 Score: 2152
Period size: 16 Copynumber: 102.6 Consensus size: 16
43979277 AATAATAATA
43979287 ACATACATACATACAT
1 ACATACATACATACAT
43979303 ACATACATACATACAT
1 ACATACATACATACAT
43979319 ACATACATACATACAT
1 ACATACATACATACAT
*
43979335 ATA-AGCATACATACAT
1 ACATA-CATACATACAT
43979351 ACATACATACATACAT
1 ACATACATACATACAT
* * *
43979367 GCATGCATACATGCAT
1 ACATACATACATACAT
* *
43979383 ACATACATGCATGCAT
1 ACATACATACATACAT
* *
43979399 ACATGCATGCATACAT
1 ACATACATACATACAT
* *
43979415 GCATACATACATGCAT
1 ACATACATACATACAT
43979431 ACATACATACATACAT
1 ACATACATACATACAT
* *
43979447 GCATACATACATGCAT
1 ACATACATACATACAT
*
43979463 ACATACATGCATACAT
1 ACATACATACATACAT
43979479 ACATGA-ATACATACAT
1 ACAT-ACATACATACAT
43979495 ACATACATACATACAT
1 ACATACATACATACAT
* *
43979511 ACGTACATGCATACAT
1 ACATACATACATACAT
*
43979527 ACATACATACATGCAT
1 ACATACATACATACAT
43979543 ACATACATACATACAT
1 ACATACATACATACAT
* *
43979559 GCATACATGCATACAT
1 ACATACATACATACAT
* *
43979575 ACATGCATACATGCAT
1 ACATACATACATACAT
* *
43979591 ACATACATGCCTACAT
1 ACATACATACATACAT
43979607 ACATACATACATACAT
1 ACATACATACATACAT
43979623 ACATACATACATACAT
1 ACATACATACATACAT
43979639 ACATACATACATACAT
1 ACATACATACATACAT
43979655 ACATACATACATA-A-
1 ACATACATACATACAT
*
43979669 AAATA-ATA-ATA-AT
1 ACATACATACATACAT
*
43979682 A-ATAACTTACATACAT
1 ACAT-ACATACATACAT
43979698 ACATACATACATACAT
1 ACATACATACATACAT
43979714 ACATACATACATACAT
1 ACATACATACATACAT
*
43979730 GCATACATACATACAT
1 ACATACATACATACAT
* *
43979746 GCATACATACATGCAT
1 ACATACATACATACAT
*
43979762 ACATACATACATGCAT
1 ACATACATACATACAT
* *
43979778 ACATACATCCATGCAT
1 ACATACATACATACAT
*
43979794 ACATACATCCATACAT
1 ACATACATACATACAT
*
43979810 ACATACATACATATAT
1 ACATACATACATACAT
*
43979826 ACATACATCCATACAT
1 ACATACATACATACAT
43979842 ACATACATACATACAT
1 ACATACATACATACAT
*
43979858 ACATACATACATATAT
1 ACATACATACATACAT
43979874 ACATACATACATACAT
1 ACATACATACATACAT
*
43979890 ACATACATGCATACAT
1 ACATACATACATACAT
*
43979906 ACATCCATACATACAT
1 ACATACATACATACAT
*
43979922 ACATACATCCATACAT
1 ACATACATACATACAT
* *
43979938 ACATACATCCATGCAT
1 ACATACATACATACAT
43979954 ACATACATACATACAT
1 ACATACATACATACAT
* *
43979970 GCATACATACATCCAT
1 ACATACATACATACAT
* *
43979986 GCATACATACATCCAT
1 ACATACATACATACAT
* *
43980002 GCATACATACATCCAT
1 ACATACATACATACAT
*
43980018 CCATACATACATACAT
1 ACATACATACATACAT
*
43980034 CCATACATACATACAT
1 ACATACATACATACAT
*
43980050 ATATACATACATACAT
1 ACATACATACATACAT
*
43980066 ACATACATACAAACAT
1 ACATACATACATACAT
43980082 ACATACATACATACAT
1 ACATACATACATACAT
*
43980098 ACATACATACATGCAT
1 ACATACATACATACAT
* *
43980114 GCATACATCCATACAT
1 ACATACATACATACAT
* *
43980130 GCATGA-ATACATCCAT
1 ACAT-ACATACATACAT
* *
43980146 ACATGCATGCATACAT
1 ACATACATACATACAT
*
43980162 ACATACATA-A-AAAT
1 ACATACATACATACAT
43980176 A-ATA-ATA-ATAACAT
1 ACATACATACAT-ACAT
43980190 ACATACATACATACAT
1 ACATACATACATACAT
43980206 ACATACATACATACAT
1 ACATACATACATACAT
*
43980222 ACATACATACATGCAT
1 ACATACATACATACAT
*
43980238 ACATACATGCATACAT
1 ACATACATACATACAT
43980254 ACATACATACATACAT
1 ACATACATACATACAT
43980270 ACATACATACATACAT
1 ACATACATACATACAT
* *
43980286 ACATACATGCACACAT
1 ACATACATACATACAT
* *
43980302 ACATCCATGCATACAT
1 ACATACATACATACAT
43980318 ACATACATACATACAT
1 ACATACATACATACAT
43980334 ACATACATACATACAT
1 ACATACATACATACAT
*
43980350 GCATACATACATACAT
1 ACATACATACATACAT
* *
43980366 ACATCCATACATAAAT
1 ACATACATACATACAT
*
43980382 ACATGCATACATACAT
1 ACATACATACATACAT
*
43980398 -CTATGCATACATACAT
1 AC-ATACATACATACAT
*
43980414 CCATACATACATACAT
1 ACATACATACATACAT
*
43980430 ACATACATACATATAT
1 ACATACATACATACAT
* *
43980446 CCATCCATACATACAT
1 ACATACATACATACAT
43980462 ACAT-CTATACATACAT
1 ACATAC-ATACATACAT
43980478 ACATACATACATACAT
1 ACATACATACATACAT
*
43980494 ACATACAT-CTCTACAT
1 ACATACATAC-ATACAT
43980510 ACATACATACATACAT
1 ACATACATACATACAT
*
43980526 ACATCCATACATACAT
1 ACATACATACATACAT
43980542 ACATACATACATACAT
1 ACATACATACATACAT
* *
43980558 ACATCCATGCATACAT
1 ACATACATACATACAT
* *
43980574 ACATCCATGCATACAT
1 ACATACATACATACAT
* *
43980590 ACATCCATGCATACAT
1 ACATACATACATACAT
* *
43980606 ACATCCATGCATACAT
1 ACATACATACATACAT
* *
43980622 ACATACATGCATGCAT
1 ACATACATACATACAT
43980638 ACATACATACATACAT
1 ACATACATACATACAT
43980654 ACATACATACATACAT
1 ACATACATACATACAT
43980670 ACATACATACATACAT
1 ACATACATACATACAT
*
43980686 ACATACATATCCATCCAT
1 ACATACATA--CATACAT
*
43980704 ACATACATGCATACAT
1 ACATACATACATACAT
*
43980720 ACATACATACATACAC
1 ACATACATACATACAT
43980736 ACATACATACATACAT
1 ACATACATACATACAT
* *
43980752 ACATCCATGCATACAT
1 ACATACATACATACAT
*
43980768 ACATACAT-CTATGCAT
1 ACATACATAC-ATACAT
*
43980784 ACATACATACATCCAT
1 ACATACATACATACAT
*
43980800 ACATATATACATACAT
1 ACATACATACATACAT
* *
43980816 CCATACATCCATACAT
1 ACATACATACATACAT
*
43980832 ACATACATACATCCAT
1 ACATACATACATACAT
* * *
43980848 GCATACAGACATCCAT
1 ACATACATACATACAT
*
43980864 GCATACATACATACAT
1 ACATACATACATACAT
43980880 ACATACATACATACAT
1 ACATACATACATACAT
43980896 ACATACATACATACAT
1 ACATACATACATACAT
43980912 ACATACATA
1 ACATACATA
43980921 ACAATTTTTG
Statistics
Matches: 1448, Mismatches: 143, Indels: 54
0.88 0.09 0.03
Matches are distributed among these distances:
12 10 0.01
13 8 0.01
14 14 0.01
15 14 0.01
16 1377 0.95
17 11 0.01
18 14 0.01
ACGTcount: A:0.45, C:0.26, G:0.03, T:0.25
Consensus pattern (16 bp):
ACATACATACATACAT
Found at i:43979312 original size:20 final size:20
Alignment explanation
Indices: 43979287--43980920 Score: 2152
Period size: 20 Copynumber: 82.0 Consensus size: 20
43979277 AATAATAATA
43979287 ACATACATACATACATACAT
1 ACATACATACATACATACAT
43979307 ACATACATACATACATACAT
1 ACATACATACATACATACAT
*
43979327 ACATACATATA-AGCATACAT
1 ACATACATACATA-CATACAT
43979347 ACATACATACATACATACAT
1 ACATACATACATACATACAT
* * *
43979367 GCATGCATACATGCATACAT
1 ACATACATACATACATACAT
* * *
43979387 ACATGCATGCATACATGCAT
1 ACATACATACATACATACAT
* *
43979407 GCATACATGCATACATACAT
1 ACATACATACATACATACAT
*
43979427 GCATACATACATACATACAT
1 ACATACATACATACATACAT
* *
43979447 GCATACATACATGCATACAT
1 ACATACATACATACATACAT
*
43979467 ACATGCATACATACATGA-AT
1 ACATACATACATACAT-ACAT
43979487 ACATACATACATACATACAT
1 ACATACATACATACATACAT
* *
43979507 ACATACGTACATGCATACAT
1 ACATACATACATACATACAT
*
43979527 ACATACATACATGCATACAT
1 ACATACATACATACATACAT
*
43979547 ACATACATACATGCATACAT
1 ACATACATACATACATACAT
* *
43979567 GCATACATACATGCATACAT
1 ACATACATACATACATACAT
* * *
43979587 GCATACATACATGCCTACAT
1 ACATACATACATACATACAT
43979607 ACATACATACATACATACAT
1 ACATACATACATACATACAT
43979627 ACATACATACATACATACAT
1 ACATACATACATACATACAT
43979647 ACATACATACATACATACAT
1 ACATACATACATACATACAT
*
43979667 A-A-AAATA-ATA-ATA-AT
1 ACATACATACATACATACAT
*
43979682 A-ATAACTTACATACATACAT
1 ACAT-ACATACATACATACAT
43979702 ACATACATACATACATACAT
1 ACATACATACATACATACAT
*
43979722 ACATACATGCATACATACAT
1 ACATACATACATACATACAT
* *
43979742 ACATGCATACATACATGCAT
1 ACATACATACATACATACAT
*
43979762 ACATACATACATGCATACAT
1 ACATACATACATACATACAT
* *
43979782 ACATCCATGCATACATACAT
1 ACATACATACATACATACAT
*
43979802 CCATACATACATACATACAT
1 ACATACATACATACATACAT
* *
43979822 ATATACATACATCCATACAT
1 ACATACATACATACATACAT
43979842 ACATACATACATACATACAT
1 ACATACATACATACATACAT
*
43979862 ACATACATATATACATACAT
1 ACATACATACATACATACAT
*
43979882 ACATACATACATACATGCAT
1 ACATACATACATACATACAT
*
43979902 ACATACATCCATACATACAT
1 ACATACATACATACATACAT
*
43979922 ACATACATCCATACATACAT
1 ACATACATACATACATACAT
* *
43979942 ACATCCATGCATACATACAT
1 ACATACATACATACATACAT
*
43979962 ACATACATGCATACATACAT
1 ACATACATACATACATACAT
* * *
43979982 CCATGCATACATACATCCAT
1 ACATACATACATACATACAT
* * *
43980002 GCATACATACATCCATCCAT
1 ACATACATACATACATACAT
*
43980022 ACATACATACATCCATACAT
1 ACATACATACATACATACAT
*
43980042 ACATACATATATACATACAT
1 ACATACATACATACATACAT
*
43980062 ACATACATACATACAAACAT
1 ACATACATACATACATACAT
43980082 ACATACATACATACATACAT
1 ACATACATACATACATACAT
* *
43980102 ACATACATGCATGCATACAT
1 ACATACATACATACATACAT
* *
43980122 CCATACATGCATGA-ATACAT
1 ACATACATACAT-ACATACAT
* * *
43980142 CCATACATGCATGCATACAT
1 ACATACATACATACATACAT
*
43980162 ACATACATA-A-AAATA-AT
1 ACATACATACATACATACAT
43980179 A-ATA-ATAACATACATACAT
1 ACATACAT-ACATACATACAT
43980198 ACATACATACATACATACAT
1 ACATACATACATACATACAT
*
43980218 ACATACATACATACATGCAT
1 ACATACATACATACATACAT
*
43980238 ACATACATGCATACATACAT
1 ACATACATACATACATACAT
43980258 ACATACATACATACATACAT
1 ACATACATACATACATACAT
* *
43980278 ACATACATACATACATGCAC
1 ACATACATACATACATACAT
* *
43980298 ACATACATCCATGCATACAT
1 ACATACATACATACATACAT
43980318 ACATACATACATACATACAT
1 ACATACATACATACATACAT
*
43980338 ACATACATACATGCATACAT
1 ACATACATACATACATACAT
*
43980358 ACATACATACATCCATACAT
1 ACATACATACATACATACAT
* *
43980378 AAATACATGCATACATACAT
1 ACATACATACATACATACAT
* *
43980398 -CTATGCATACATACATCCAT
1 AC-ATACATACATACATACAT
43980418 ACATACATACATACATACAT
1 ACATACATACATACATACAT
* * *
43980438 ACATATATCCATCCATACAT
1 ACATACATACATACATACAT
43980458 ACATACAT-CTATACATACAT
1 ACATACATAC-ATACATACAT
43980478 ACATACATACATACATACAT
1 ACATACATACATACATACAT
*
43980498 ACAT-CTCTACATACATACAT
1 ACATAC-ATACATACATACAT
*
43980518 ACATACATACATCCATACAT
1 ACATACATACATACATACAT
43980538 ACATACATACATACATACAT
1 ACATACATACATACATACAT
* *
43980558 ACATCCATGCATACATACAT
1 ACATACATACATACATACAT
* * *
43980578 CCATGCATACATACATCCAT
1 ACATACATACATACATACAT
* * *
43980598 GCATACATACATCCATGCAT
1 ACATACATACATACATACAT
* *
43980618 ACATACATACATGCATGCAT
1 ACATACATACATACATACAT
43980638 ACATACATACATACATACAT
1 ACATACATACATACATACAT
43980658 ACATACATACATACATACAT
1 ACATACATACATACATACAT
43980678 ACATACATACATACATATCCAT
1 ACATACATACATACATA--CAT
* *
43980700 CCATACATACATGCATACAT
1 ACATACATACATACATACAT
*
43980720 ACATACATACATACACACAT
1 ACATACATACATACATACAT
*
43980740 ACATACATACATACATCCAT
1 ACATACATACATACATACAT
*
43980760 GCATACATACATACAT-CTAT
1 ACATACATACATACATAC-AT
* *
43980780 GCATACATACATACATCCAT
1 ACATACATACATACATACAT
* *
43980800 ACATATATACATACATCCAT
1 ACATACATACATACATACAT
*
43980820 ACATCCATACATACATACAT
1 ACATACATACATACATACAT
* * *
43980840 ACATCCATGCATACAGACAT
1 ACATACATACATACATACAT
* *
43980860 CCATGCATACATACATACAT
1 ACATACATACATACATACAT
43980880 ACATACATACATACATACAT
1 ACATACATACATACATACAT
43980900 ACATACATACATACATACAT
1 ACATACATACATACATACAT
43980920 A
1 A
43980921 ACAATTTTTG
Statistics
Matches: 1439, Mismatches: 147, Indels: 56
0.88 0.09 0.03
Matches are distributed among these distances:
15 6 0.00
16 7 0.00
17 10 0.01
18 14 0.01
19 13 0.01
20 1361 0.95
21 10 0.01
22 18 0.01
ACGTcount: A:0.45, C:0.26, G:0.03, T:0.25
Consensus pattern (20 bp):
ACATACATACATACATACAT
Found at i:43987475 original size:17 final size:19
Alignment explanation
Indices: 43987441--43987479 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
43987431 AATACTTATT
43987441 TAATATTTTACCTAAAATAA
1 TAATATTTTA-CTAAAATAA
43987461 TAATATTTTA-T-AAATAA
1 TAATATTTTACTAAAATAA
43987478 TA
1 TA
43987480 TTATAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.42
18 1 0.05
20 10 0.53
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (19 bp):
TAATATTTTACTAAAATAA
Found at i:43988527 original size:18 final size:17
Alignment explanation
Indices: 43988500--43988533 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
43988490 TTTTTCAAAA
43988500 ATTTATTTTAATTTTTC
1 ATTTATTTTAATTTTTC
43988517 ATTTCATTTTAATTTTT
1 ATTT-ATTTTAATTTTT
43988534 TTAACCCTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.71
Consensus pattern (17 bp):
ATTTATTTTAATTTTTC
Found at i:43990482 original size:17 final size:18
Alignment explanation
Indices: 43990447--43990485 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
43990437 AATTTATAAA
*
43990447 TAAAAATTATATATTTAT
1 TAAAAATTATATATATAT
*
43990465 TAAAAATTGTAT-TATAT
1 TAAAAATTATATATATAT
43990482 TAAA
1 TAAA
43990486 TAATGACATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (18 bp):
TAAAAATTATATATATAT
Found at i:43999253 original size:18 final size:18
Alignment explanation
Indices: 43999232--43999278 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
43999222 TATATTAGAT
*
43999232 ATAAAAATGTGATTTTTA
1 ATAAAAATGTGATTTTAA
43999250 ATAAAAAT-T-ATTTTAA
1 ATAAAAATGTGATTTTAA
*
43999266 AAATAAAATGTGA
1 ATA-AAAATGTGA
43999279 AACCGATACT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
16 8 0.33
17 6 0.25
18 9 0.38
19 1 0.04
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (18 bp):
ATAAAAATGTGATTTTAA
Found at i:44001053 original size:20 final size:20
Alignment explanation
Indices: 44001028--44001071 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
44001018 TTCTCATCAG
44001028 GTTAGTAAATATATTTGGTA
1 GTTAGTAAATATATTTGGTA
44001048 GTTAGTAAATATATTTGGTA
1 GTTAGTAAATATATTTGGTA
44001068 GTTA
1 GTTA
44001072 ACATGGAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.45
Consensus pattern (20 bp):
GTTAGTAAATATATTTGGTA
Found at i:44004637 original size:25 final size:26
Alignment explanation
Indices: 44004601--44004649 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
44004591 AATACTTATC
44004601 TTAATAGTATTATATTAAT-TTAATA
1 TTAATAGTATTATATTAATATTAATA
*
44004626 TTAA-AGTGATTATCTTAATATTAA
1 TTAATAGT-ATTATATTAATATTAA
44004650 ATTTAATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 3 0.14
25 14 0.67
26 4 0.19
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (26 bp):
TTAATAGTATTATATTAATATTAATA
Found at i:44004662 original size:68 final size:66
Alignment explanation
Indices: 44004570--44004768 Score: 223
Period size: 62 Copynumber: 3.0 Consensus size: 66
44004560 ATTTTAATAG
* *
44004570 ATTTAATATTTAATTTAATTTAATACTTATCTTAATAGTATTATATTAATTTAATATTAAAGTGA
1 ATTTAATATTAAATTTAATTTAATATTTATCTT-ATAGTATTATATTAATTTAATATTAAAGTGA
44004635 TT
65 TT
* * *
44004637 ATCTTAATATTAAATTTAATTTAATATTTATCTTGTAG-ATAAATATT-CTATTAAT-TTAACA-
1 AT-TTAATATTAAATTTAATTTAATATTTATCTTATAGTAT-TATATTAAT-TTAATATTAA-AG
*
44004698 --A-A
62 TGATT
*
44004700 ATTTAATATTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATATTAAAGTG
1 ATTTAATATTAAATTTAATTTAATATTTATCTT-AT-AGTATTATATTAATTTAATATTAAAGTG
44004765 ATT
64 ATT
44004768 A
1 A
44004769 AGTTTAGTCA
Statistics
Matches: 108, Mismatches: 11, Indels: 25
0.75 0.08 0.17
Matches are distributed among these distances:
62 30 0.28
63 3 0.03
64 14 0.13
65 7 0.06
66 7 0.06
67 17 0.16
68 30 0.28
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.50
Consensus pattern (66 bp):
ATTTAATATTAAATTTAATTTAATATTTATCTTATAGTATTATATTAATTTAATATTAAAGTGAT
T
Found at i:44006104 original size:40 final size:40
Alignment explanation
Indices: 44006060--44006284 Score: 333
Period size: 40 Copynumber: 5.6 Consensus size: 40
44006050 AACCCAATTA
* * ** *
44006060 CCTTCGGGATTTAGCCCGGATGTAACAACCAGCACAAATG
1 CCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
* *
44006100 CCTTCGGGACTTAACCCGGAAATAGCGACCAGCACGAATG
1 CCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
* *
44006140 CCTTTGGGGCTTAACCCGGAAATAACAACCAGCACGAATG
1 CCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
*
44006180 CCTTCGGGACTTAACCCGGAAAAAACAACCAGCACGAATG
1 CCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
* *
44006220 CCTTCGGGACTTAACCTGGAAATAGCAACCAGCACGAATG
1 CCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
*
44006260 CCTTCGGGACTTAACCCGGATATAA
1 CCTTCGGGACTTAACCCGGAAATAA
44006285 TCCTCAATTG
Statistics
Matches: 165, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 165 1.00
ACGTcount: A:0.32, C:0.28, G:0.22, T:0.17
Consensus pattern (40 bp):
CCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
Found at i:44013549 original size:36 final size:36
Alignment explanation
Indices: 44013509--44013581 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
44013499 GGCTATACAT
44013509 ATATACATCACCAAAAAGATACGTAATTAACATCAA
1 ATATACATCACCAAAAAGATACGTAATTAACATCAA
44013545 ATATACATCACCAAAAAGATACGTAATTAACATCAA
1 ATATACATCACCAAAAAGATACGTAATTAACATCAA
44013581 A
1 A
44013582 AGTCAATCCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.53, C:0.19, G:0.05, T:0.22
Consensus pattern (36 bp):
ATATACATCACCAAAAAGATACGTAATTAACATCAA
Found at i:44014194 original size:40 final size:40
Alignment explanation
Indices: 44014150--44014374 Score: 324
Period size: 40 Copynumber: 5.6 Consensus size: 40
44014140 AACCCAATTA
* * ** *
44014150 CCTTCGGGATTTAGCCCGGATGTAACAACCAGCACAAATG
1 CCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
* *
44014190 CCTTCGGGACTTAACCCGGAAATAGCGACCAGCACGAATG
1 CCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
* *
44014230 CCTTTGGGGCTTAACCCGGAAATAACAACCAGCACGAATG
1 CCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
* *
44014270 CCTTCGGGACTTAACCCGAAAAAAACAACCAGCACGAATG
1 CCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
* *
44014310 CCTTCGGGACTTAACCTGGAAATAGCAACCAGCACGAATG
1 CCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
*
44014350 CCTTCGGGACTTAACCCGGATATAA
1 CCTTCGGGACTTAACCCGGAAATAA
44014375 TCCTCAATTG
Statistics
Matches: 163, Mismatches: 22, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 163 1.00
ACGTcount: A:0.32, C:0.28, G:0.22, T:0.17
Consensus pattern (40 bp):
CCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
Found at i:44018918 original size:25 final size:26
Alignment explanation
Indices: 44018882--44018930 Score: 75
Period size: 25 Copynumber: 1.9 Consensus size: 26
44018872 CGCTCAAATT
44018882 ATTTCTAGTATTTATTTT-TATTTTA
1 ATTTCTAGTATTTATTTTATATTTTA
44018907 ATTT-TAGCTATTTATTTTATATTT
1 ATTTCTAG-TATTTATTTTATATTT
44018931 AGATTTAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 3 0.14
25 14 0.64
26 5 0.23
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.67
Consensus pattern (26 bp):
ATTTCTAGTATTTATTTTATATTTTA
Found at i:44018931 original size:25 final size:26
Alignment explanation
Indices: 44018882--44018936 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
44018872 CGCTCAAATT
44018882 ATTTCTAGTATTTATTTTTATTTTA-
1 ATTTCTAGTATTTATTTTTATTTTAG
44018907 ATTT-TAGCTATTTA-TTTTATATTTAG
1 ATTTCTAG-TATTTATTTTTAT-TTTAG
44018933 ATTT
1 ATTT
44018937 AATCTCCCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
24 9 0.33
25 14 0.52
26 4 0.15
ACGTcount: A:0.25, C:0.04, G:0.05, T:0.65
Consensus pattern (26 bp):
ATTTCTAGTATTTATTTTTATTTTAG
Found at i:44029646 original size:47 final size:47
Alignment explanation
Indices: 44029592--44029767 Score: 218
Period size: 47 Copynumber: 3.8 Consensus size: 47
44029582 GGTAGAATGC
*
44029592 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATTTCAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGT
* ** * *
44029639 CGATGCCATGTCCCAAACATGGTCTTACACT--AACACATCTCATAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCA-AGT
* *
44029685 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTC-TCGTCTCAATGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-ATCTCAA-GT
44029731 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCA
44029768 CAATAACCTA
Statistics
Matches: 108, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
44 10 0.09
45 21 0.19
46 19 0.18
47 44 0.41
48 14 0.13
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGT
Found at i:44029755 original size:92 final size:93
Alignment explanation
Indices: 44029590--44029761 Score: 269
Period size: 92 Copynumber: 1.9 Consensus size: 93
44029580 GGGGTAGAAT
* *
44029590 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATTTCAAGTCGATGCCATGTCCCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAGTCGATGCCATGTCCCAA
44029655 ACATGGTCTTACACTAACACATCTCATA
66 ACATGGTCTTACACTAACACATCTCATA
*
44029683 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTC-TCGTCTCAATGTCGATGCCATGTCCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCAT-ATCTCAA-GTCGATGCCATGTCCC
*
44029745 AGACATGGTCTTACACT
64 AAACATGGTCTTACACT
44029762 GGCTCACAAT
Statistics
Matches: 73, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
90 1 0.01
91 19 0.26
92 46 0.63
93 7 0.10
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.27
Consensus pattern (93 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAGTCGATGCCATGTCCCAA
ACATGGTCTTACACTAACACATCTCATA
Found at i:44032043 original size:33 final size:32
Alignment explanation
Indices: 44032006--44032103 Score: 106
Period size: 33 Copynumber: 3.0 Consensus size: 32
44031996 TACCCAAATG
*
44032006 GTACAATTTGAAAAGGTTATGTATACTTTGTGT
1 GTAC-ATTTGAAAAGGTTAGGTATACTTTGTGT
* **
44032039 GTACACTTGAAAATATTAGGTATACTTTGTGT
1 GTACATTTGAAAAGGTTAGGTATACTTTGTGT
* * **
44032071 ATACCATATGAAAAGGAAAGGTATACTTTGTGT
1 GTA-CATTTGAAAAGGTTAGGTATACTTTGTGT
44032104 ATACCACTCA
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
32 26 0.49
33 27 0.51
ACGTcount: A:0.34, C:0.08, G:0.20, T:0.38
Consensus pattern (32 bp):
GTACATTTGAAAAGGTTAGGTATACTTTGTGT
Found at i:44034367 original size:27 final size:27
Alignment explanation
Indices: 44034336--44034513 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
44034326 TAAATTGTAC
44034336 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
44034363 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
44034389 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
44034417 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
44034445 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
44034472 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
44034499 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
44034514 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:44034450 original size:82 final size:81
Alignment explanation
Indices: 44034337--44034492 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
44034327 AAATTGTACA
* *
44034337 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
44034401 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
44034418 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
44034483 TGCGAGTTGA
65 TGCGAATTGA
44034493 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:44034504 original size:82 final size:81
Alignment explanation
Indices: 44034333--44034513 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
44034323 GATTAAATTG
* *
44034333 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
44034398 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
44034414 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
44034478 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
44034496 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
44034514 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:44042407 original size:27 final size:27
Alignment explanation
Indices: 44042376--44042553 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
44042366 TAAATTGTAC
44042376 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
44042403 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
44042429 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
44042457 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
44042485 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
44042512 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
44042539 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
44042554 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:44042490 original size:82 final size:81
Alignment explanation
Indices: 44042377--44042532 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
44042367 AAATTGTACA
* *
44042377 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
44042441 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
44042458 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
44042523 TGCGAGTTGA
65 TGCGAATTGA
44042533 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:44042544 original size:82 final size:81
Alignment explanation
Indices: 44042373--44042553 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
44042363 GATTAAATTG
* *
44042373 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
44042438 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
44042454 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
44042518 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
44042536 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
44042554 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:44049505 original size:26 final size:26
Alignment explanation
Indices: 44049470--44049534 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 26
44049460 TTATAGAACC
44049470 TAAAATTAAAATAATA-TTAAAGGAAAA
1 TAAAA-TAAAATAATACTTAAA-GAAAA
*
44049497 TAAAATAAAA-AGTACTTAAAGAAAA
1 TAAAATAAAATAATACTTAAAGAAAA
44049522 T-AAATAAAGATAA
1 TAAAATAAA-ATAA
44049535 AAGTGAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
24 7 0.21
25 10 0.30
26 11 0.33
27 5 0.15
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.23
Consensus pattern (26 bp):
TAAAATAAAATAATACTTAAAGAAAA
Found at i:44054456 original size:32 final size:32
Alignment explanation
Indices: 44054417--44054492 Score: 134
Period size: 32 Copynumber: 2.4 Consensus size: 32
44054407 ATGGTACAAT
*
44054417 TTGAAAAGGTTATGTACACTTTGTGTGTATAC
1 TTGAAAAGGTTATGTACACTTTGTGTGTACAC
44054449 TTGAAAAGGTTATGTACACTTTGTGTGTACAC
1 TTGAAAAGGTTATGTACACTTTGTGTGTACAC
*
44054481 TTGGAAAGGTTA
1 TTGAAAAGGTTA
44054493 GGTATTTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (32 bp):
TTGAAAAGGTTATGTACACTTTGTGTGTACAC
Found at i:44061284 original size:22 final size:21
Alignment explanation
Indices: 44061244--44061284 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
44061234 CACTAGACAC
*
44061244 AGGGGCACACGCTCATGTGGG
1 AGGGGCACACGCCCATGTGGG
*
44061265 AGGGGCAACACGCCCGTGTG
1 AGGGGC-ACACGCCCATGTG
44061285 ACCAATTCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.20, C:0.27, G:0.41, T:0.12
Consensus pattern (21 bp):
AGGGGCACACGCCCATGTGGG
Found at i:44077570 original size:23 final size:25
Alignment explanation
Indices: 44077520--44077572 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
44077510 ATGTCATAAA
*
44077520 CATAACTTCATCATATAACTTATAC
1 CATAACTTCATCATATAACCTATAC
44077545 CATAAC-TCATTCATA-AACCTAT-C
1 CATAACTTCA-TCATATAACCTATAC
44077568 CATAA
1 CATAA
44077573 TCAAGCCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 6 0.23
24 9 0.35
25 11 0.42
ACGTcount: A:0.42, C:0.26, G:0.00, T:0.32
Consensus pattern (25 bp):
CATAACTTCATCATATAACCTATAC
Found at i:44080216 original size:40 final size:40
Alignment explanation
Indices: 44080067--44080490 Score: 730
Period size: 40 Copynumber: 10.7 Consensus size: 40
44080057 GAGCATTGGA
44080067 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
44080107 --ATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
44080145 ATATATCC-GGCTAAGA-CCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
44080183 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
44080223 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
44080263 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
44080303 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
44080343 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
44080383 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
44080423 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
44080463 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
44080491 AGGTGTTTGC
Statistics
Matches: 363, Mismatches: 17, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
38 66 0.18
39 16 0.04
40 281 0.77
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:44085787 original size:46 final size:46
Alignment explanation
Indices: 44085737--44085912 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
44085727 TGGTTGAGCA
44085737 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
44085783 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
44085828 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
44085876 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
44085913 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:44085893 original size:93 final size:93
Alignment explanation
Indices: 44085734--44085905 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
44085724 GGATGGTTGA
* *
44085734 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
44085799 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
44085827 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
44085892 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
44085906 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:44087743 original size:26 final size:26
Alignment explanation
Indices: 44087712--44087793 Score: 121
Period size: 26 Copynumber: 3.2 Consensus size: 26
44087702 TGAAATGCCC
44087712 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
44087738 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
44087764 ATCGTGGAACATTTACCT-AACTCATT
1 ATCATGGAACATTTACCTAAAC-CATT
44087790 ATCA
1 ATCA
44087794 ATTTGTACCA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
25 2 0.04
26 47 0.96
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:44098691 original size:30 final size:30
Alignment explanation
Indices: 44098644--44098702 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
44098634 TTTACAAGCC
*
44098644 TAGGGGCTAAATCGTAAATATGTGAAAGTT
1 TAGGGGCTAAATCGTAAATATGTAAAAGTT
* *
44098674 TAGGGGTTAAAAT-GTAAATTTGTAAAAGT
1 TAGGGGCT-AAATCGTAAATATGTAAAAGT
44098703 ATGATTTATG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.39, C:0.03, G:0.25, T:0.32
Consensus pattern (30 bp):
TAGGGGCTAAATCGTAAATATGTAAAAGTT
Found at i:44099101 original size:43 final size:44
Alignment explanation
Indices: 44099037--44099169 Score: 133
Period size: 43 Copynumber: 2.9 Consensus size: 44
44099027 AGATATGTGG
* * *
44099037 CATCCGAACTCGTTGAAAGGTCTGAGTTCATTATGGATGCA-AC
1 CATCCGAGCTCGTTGAGAGGTCTGAGTTCATTATGGATGCATAA
*
44099080 CATCCGAGCTCGTTGAGAGGTCTGAGTTCATGGTGGATGCGATTCATGTAA
1 CATCCGAGCTCGTTGAGAGGTCTGAGTTCAT--T--ATG-GATGCA--TAA
* * *
44099131 CATCCGAGCTTGTTAAGAGGTCCGAGTTCATTATGGATG
1 CATCCGAGCTCGTTGAGAGGTCTGAGTTCATTATGGATG
44099170 TGTTATATGT
Statistics
Matches: 74, Mismatches: 8, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
43 29 0.39
45 1 0.01
46 3 0.04
47 6 0.08
48 5 0.07
49 1 0.01
51 29 0.39
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (44 bp):
CATCCGAGCTCGTTGAGAGGTCTGAGTTCATTATGGATGCATAA
Found at i:44110987 original size:38 final size:38
Alignment explanation
Indices: 44110938--44111019 Score: 110
Period size: 38 Copynumber: 2.2 Consensus size: 38
44110928 GGCTTAAAGA
* * * *
44110938 CCCGCAGGCTTCGTGTTGGTAAAATATCCGGGTTAAAT
1 CCCGCAAGCTTCGTGCTGGTAAAATAGCCGGGATAAAT
**
44110976 CCCGCAAGCTTCGTGCTGGTATTATAGCCGGGATAAAT
1 CCCGCAAGCTTCGTGCTGGTAAAATAGCCGGGATAAAT
44111014 CCCGCA
1 CCCGCA
44111020 GACCTAGTGC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.26
Consensus pattern (38 bp):
CCCGCAAGCTTCGTGCTGGTAAAATAGCCGGGATAAAT
Found at i:44111030 original size:38 final size:38
Alignment explanation
Indices: 44110965--44111039 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
44110955 GGTAAAATAT
* * *
44110965 CCGGGTTAAATCCCGCAAGCTTCGTGCTGGTATTATAG
1 CCGGGATAAATCCCGCAAGCCTAGTGCTGGTATTATAG
44111003 CCGGGATAAATCCCGC-AGACCTAGTGCTGGTATTATA
1 CCGGGATAAATCCCGCAAG-CCTAGTGCTGGTATTATA
44111040 TTCGGGCCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 2 0.06
38 31 0.94
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.27
Consensus pattern (38 bp):
CCGGGATAAATCCCGCAAGCCTAGTGCTGGTATTATAG
Found at i:44111099 original size:43 final size:43
Alignment explanation
Indices: 44111038--44111162 Score: 205
Period size: 43 Copynumber: 2.9 Consensus size: 43
44111028 GCTGGTATTA
*
44111038 TATTCGGGCCTTCGTGCCTAGCAAGCTTCATGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTG
*
44111081 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTG
* * *
44111124 TATTCGAGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGA
44111163 AATGATATGT
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 76 1.00
ACGTcount: A:0.14, C:0.26, G:0.32, T:0.29
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTG
Found at i:44114562 original size:18 final size:18
Alignment explanation
Indices: 44114539--44114580 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
44114529 ATATGTGGCA
44114539 TCCGAGCTCGTTGAGAGG
1 TCCGAGCTCGTTGAGAGG
44114557 TCCGAGCTCGTTGAGAGG
1 TCCGAGCTCGTTGAGAGG
44114575 TCCGAG
1 TCCGAG
44114581 TTCATGGTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.17, C:0.24, G:0.38, T:0.21
Consensus pattern (18 bp):
TCCGAGCTCGTTGAGAGG
Found at i:44123983 original size:46 final size:44
Alignment explanation
Indices: 44123882--44124102 Score: 171
Period size: 46 Copynumber: 4.8 Consensus size: 44
44123872 ATATCTGTGT
44123882 CGATGCCATGTCCCAGACATGGTCTTACACTAACACATCTCGTAGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAACACATCTCGTAGC
* * * *
44123928 AGATGCATGTCCCAAACATGTCTTACACTGACTTACGTCTCG-AGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAAC--ACATCTCGTA-GC
* *
44123974 CGATGCATGTCCCAGACATGTCTTACACTAGCAC-TCGTC-TCAATGT
1 CGATGCATGTCCCAGACATGTCTTACACTAACACATC-TCGT--A-GC
* * * * * *
44124020 TGATGCCATGTACTAGACATGGTCTTACACTAACTC-TCATAATGTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAACACATC-T--CGTAGC
*
44124068 CGATGCATGTCCCAGACATGTCTTACACTAGCACA
1 CGATGCATGTCCCAGACATGTCTTACACTAACACA
44124103 CAATAACCCA
Statistics
Matches: 138, Mismatches: 24, Indels: 25
0.74 0.13 0.13
Matches are distributed among these distances:
43 2 0.01
44 16 0.12
45 14 0.10
46 60 0.43
47 24 0.17
48 21 0.15
51 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (44 bp):
CGATGCATGTCCCAGACATGTCTTACACTAACACATCTCGTAGC
Found at i:44125008 original size:31 final size:31
Alignment explanation
Indices: 44124970--44125032 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
44124960 ATCATTATAG
*
44124970 TACACCTTATGTTATCAACATTACCTAATGT
1 TACACCTTATGTCATCAACATTACCTAATGT
44125001 TACACCTTATGTCATCAACATTACCTAATGT
1 TACACCTTATGTCATCAACATTACCTAATGT
44125032 T
1 T
44125033 GACTTTACCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.24, G:0.06, T:0.38
Consensus pattern (31 bp):
TACACCTTATGTCATCAACATTACCTAATGT
Found at i:44129869 original size:25 final size:25
Alignment explanation
Indices: 44129821--44129869 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
44129811 ATATCCAATT
* * *
44129821 AATTGGAAATGGAATGTTAATTGTG
1 AATTGAAAATGAAATGGTAATTGTG
*
44129846 AATTGAAAATGAAATGGTAGTTGT
1 AATTGAAAATGAAATGGTAATTGT
44129870 TGGTGCTTGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.27, T:0.35
Consensus pattern (25 bp):
AATTGAAAATGAAATGGTAATTGTG
Found at i:44131797 original size:47 final size:47
Alignment explanation
Indices: 44131693--44131787 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
44131683 ACACGTGAAG
44131693 GGAATAATGAGAGTGATAGCTTTATGCTTCACTTTTAGGAAATCTTT
1 GGAATAATGAGAGTGATAGCTTTATGCTTCACTTTTAGGAAATCTTT
*
44131740 GGAATAATGAGAGTGATAGCTTTATGCTTCACTTTTGGGAAATCTTT
1 GGAATAATGAGAGTGATAGCTTTATGCTTCACTTTTAGGAAATCTTT
44131787 G
1 G
44131788 ACTCTATGAG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.28, C:0.11, G:0.23, T:0.38
Consensus pattern (47 bp):
GGAATAATGAGAGTGATAGCTTTATGCTTCACTTTTAGGAAATCTTT
Found at i:44131962 original size:39 final size:39
Alignment explanation
Indices: 44131905--44132015 Score: 141
Period size: 39 Copynumber: 2.8 Consensus size: 39
44131895 TTTTGACTGT
* * *
44131905 TGTGATATATACGAGTATTGTCATATATGCTTAAACGTTA
1 TGTGATA-ATATGAGTATTGTGATATATGCTTAAACATTA
* *
44131945 TGTGATAATATGAGTATTGTGATATAAGCTTAAATATTA
1 TGTGATAATATGAGTATTGTGATATATGCTTAAACATTA
* * *
44131984 TGTGATTATATGTGTAATGTGATATATGCTTA
1 TGTGATAATATGAGTATTGTGATATATGCTTA
44132016 CAAGTGAATA
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
39 55 0.89
40 7 0.11
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.42
Consensus pattern (39 bp):
TGTGATAATATGAGTATTGTGATATATGCTTAAACATTA
Found at i:44137723 original size:27 final size:27
Alignment explanation
Indices: 44137693--44137870 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
44137683 ATATTGAGTC
* * * *
44137693 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
44137720 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
44137747 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
44137775 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
44137802 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
44137829 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
44137856 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44137871 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:44137832 original size:82 final size:81
Alignment explanation
Indices: 44137714--44137869 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
44137704 TGCTATATAA
* *
44137714 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
44137779 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
44137796 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
44137860 CACTTAGTGC
65 CACTTAGTGC
44137870 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:44155555 original size:21 final size:20
Alignment explanation
Indices: 44155526--44155571 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
44155516 CGAAATGCAA
44155526 TCAACCTAACA-TGAATTAAAT
1 TCAACCTAA-ATTG-ATTAAAT
*
44155547 TCAAGCTAAATTGATTAAAT
1 TCAACCTAAATTGATTAAAT
44155567 T-AACC
1 TCAACC
44155572 ATTCCAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.30
Consensus pattern (20 bp):
TCAACCTAAATTGATTAAAT
Found at i:44158369 original size:34 final size:34
Alignment explanation
Indices: 44158303--44158369 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
44158293 TGTTACCGCC
* *
44158303 ACTGAAATGGGCTAAGGCCCACATTGATACTGAT
1 ACTGAAATGGGCTAAGGCCCACACTGAAACTGAT
*
44158337 ACTGTAATGGGCTAAGGCCCTA-ACTGAAACTGA
1 ACTGAAATGGGCTAAGGCCC-ACACTGAAACTGA
44158370 ATCGTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 28 0.97
35 1 0.03
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.22
Consensus pattern (34 bp):
ACTGAAATGGGCTAAGGCCCACACTGAAACTGAT
Found at i:44159759 original size:39 final size:39
Alignment explanation
Indices: 44159715--44159795 Score: 153
Period size: 39 Copynumber: 2.1 Consensus size: 39
44159705 AGTTTAACTT
*
44159715 ATGCCTTCATATGTTGCACGGAACAATCTCTCTCCACTA
1 ATGCCTTCATATGTTGCACGCAACAATCTCTCTCCACTA
44159754 ATGCCTTCATATGTTGCACGCAACAATCTCTCTCCACTA
1 ATGCCTTCATATGTTGCACGCAACAATCTCTCTCCACTA
44159793 ATG
1 ATG
44159796 TAGGTAGCAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.26, C:0.31, G:0.12, T:0.31
Consensus pattern (39 bp):
ATGCCTTCATATGTTGCACGCAACAATCTCTCTCCACTA
Found at i:44164110 original size:39 final size:40
Alignment explanation
Indices: 44164065--44164196 Score: 176
Period size: 40 Copynumber: 3.3 Consensus size: 40
44164055 GCTCCTCGTT
* * *
44164065 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* *
44164105 C-AATGCCTTCGGGACATAACCCGAATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
44164144 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
44164184 CAAAGGCCTTCGG
1 CAAATGCCTTCGG
44164197 ATCTTAGTCC
Statistics
Matches: 80, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
39 34 0.43
40 46 0.57
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:44164209 original size:40 final size:40
Alignment explanation
Indices: 44164065--44164249 Score: 151
Period size: 40 Copynumber: 4.7 Consensus size: 40
44164055 GCTCCTCGTT
* * * * * *
44164065 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* * *
44164105 C-AATGCCTTCGGGACATAACCCGAATTTAATAACTCGCA
1 CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* * * *
44164144 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
** * * * *
44164184 CAAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAAGGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCA
*
44164225 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAAGGCCTTCGGGACTTAACCCGGA
44164250 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 37 0.30
40 74 0.61
41 11 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
Found at i:44164258 original size:41 final size:41
Alignment explanation
Indices: 44164181--44164258 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
44164171 TTAGTATCTC
* * *
44164181 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
44164222 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
44164259 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:44172066 original size:40 final size:39
Alignment explanation
Indices: 44171968--44172150 Score: 188
Period size: 40 Copynumber: 4.6 Consensus size: 39
44171958 TCCTCGTTCA
* * *
44171968 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* * *
44172007 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* *
44172046 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* * * * * *
44172086 AAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCAC
*
44172127 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
44172151 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
39 38 0.31
40 76 0.62
41 8 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
Found at i:44172159 original size:41 final size:41
Alignment explanation
Indices: 44172082--44172159 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
44172072 TTAGTATCTC
* * *
44172082 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
44172123 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
44172160 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:44174131 original size:29 final size:30
Alignment explanation
Indices: 44174072--44174132 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
44174062 GCCTTTTGAA
* * *
44174072 AATATTTACAAAAATAGACATCTAATTTTT
1 AATATTTACAAAAAGAGACATCAAAATTTT
44174102 AATATTTACAAAAAGAGTA-A-CAAAATTTT
1 AATATTTACAAAAAGAG-ACATCAAAATTTT
44174131 AA
1 AA
44174133 AAATAGTTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 9 0.33
30 17 0.63
31 1 0.04
ACGTcount: A:0.52, C:0.08, G:0.05, T:0.34
Consensus pattern (30 bp):
AATATTTACAAAAAGAGACATCAAAATTTT
Found at i:44193972 original size:5 final size:5
Alignment explanation
Indices: 44193962--44193995 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
44193952 TGGCCAAAAG
44193962 AATAA AATAA AATAA AATAA AATAA AATAA AATA
1 AATAA AATAA AATAA AATAA AATAA AATAA AATA
44193996 GTTTAATATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:44195443 original size:46 final size:46
Alignment explanation
Indices: 44195390--44195479 Score: 171
Period size: 46 Copynumber: 2.0 Consensus size: 46
44195380 TACTCTGTAA
*
44195390 ATAATCTGTAACTAGGATCCGATACCCACTTCTTACAGAGTATTAG
1 ATAATCTGTAACTAGGACCCGATACCCACTTCTTACAGAGTATTAG
44195436 ATAATCTGTAACTAGGACCCGATACCCACTTCTTACAGAGTATT
1 ATAATCTGTAACTAGGACCCGATACCCACTTCTTACAGAGTATT
44195480 CCCCAGAACC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.30
Consensus pattern (46 bp):
ATAATCTGTAACTAGGACCCGATACCCACTTCTTACAGAGTATTAG
Found at i:44200048 original size:38 final size:38
Alignment explanation
Indices: 44199997--44200071 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
44199987 TGGCCATTCC
44199997 AATGGCTAATCATTTACAAACCCTTTTCTTACCAAACG
1 AATGGCTAATCATTTACAAACCCTTTTCTTACCAAACG
44200035 AATGGCTAATCATTTACAAACCCTTTTCTTACCAAAC
1 AATGGCTAATCATTTACAAACCCTTTTCTTACCAAAC
44200072 CATAGTCATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.35, C:0.27, G:0.07, T:0.32
Consensus pattern (38 bp):
AATGGCTAATCATTTACAAACCCTTTTCTTACCAAACG
Found at i:44201235 original size:30 final size:30
Alignment explanation
Indices: 44201177--44201236 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
44201167 ATCTAATACG
* **
44201177 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTCACCCCTA
* *
44201207 AACTTTTGCATAATTACACTTTCACCCCTA
1 AACTTTGGCAAAATTACACTTTCACCCCTA
44201237 GGCTCGGGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.37
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTCACCCCTA
Found at i:44203879 original size:39 final size:39
Alignment explanation
Indices: 44203834--44203954 Score: 163
Period size: 39 Copynumber: 3.1 Consensus size: 39
44203824 AAGCAAGACA
*
44203834 CTGGAAATGTATCCGGGCTAAAGACCTACAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGACCCACAGGCTTCGTG
* * * *
44203873 CTGGAAATGTATTCGGGCTAAAGTCCCGCAGGTTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGACCCACAGGCTTCGTG
* *
44203912 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCCTT-GTG
1 CTGGAAATGTATCCGGGCTAAAGACCCACAGG-CTTCGTG
44203951 CTGG
1 CTGG
44203955 TAACATAATT
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
39 72 0.97
40 2 0.03
ACGTcount: A:0.21, C:0.23, G:0.31, T:0.25
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGACCCACAGGCTTCGTG
Found at i:44209852 original size:79 final size:81
Alignment explanation
Indices: 44209716--44209900 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
44209706 TTGAATGATG
* *
44209716 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
44209780 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
44209795 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
* *
44209857 ATTGTGTGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
44209875 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
44209901 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 33 0.37
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:44209914 original size:40 final size:40
Alignment explanation
Indices: 44209717--44209900 Score: 198
Period size: 40 Copynumber: 4.6 Consensus size: 40
44209707 TGAATGATGT
* * * *
44209717 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
44209757 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
44209797 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* * *
44209835 TCCGGGTTAAGTCCCGAAGGCAATTGTGTGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
44209876 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
44209901 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 14, Indels: 14
0.81 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 78 0.63
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:44209922 original size:79 final size:79
Alignment explanation
Indices: 44209769--44209923 Score: 190
Period size: 79 Copynumber: 2.0 Consensus size: 79
44209759 GGACTAAGAT
* * **
44209769 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
44209834 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* * *
44209848 CCGAAGGCAATTGTGTGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
*
44209911 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
44209924 ATTCCCAAGG
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
78 2 0.03
79 38 0.58
80 25 0.38
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:44217581 original size:79 final size:81
Alignment explanation
Indices: 44217441--44217625 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 81
44217431 TTGAATGATG
* *
44217441 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
44217505 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * *
44217520 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCAGG-TTAAG-TCCCGAAGGC
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCC-GGACTAAGAT-CCGAAGGC
*
44217581 AATTGTGCGAGTTACTATA
63 AATTGTGCGAGATACTATA
* *
44217600 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
44217626 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
78 1 0.01
79 55 0.60
80 35 0.38
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:44217639 original size:40 final size:40
Alignment explanation
Indices: 44217442--44217625 Score: 198
Period size: 40 Copynumber: 4.6 Consensus size: 40
44217432 TGAATGATGT
* * * *
44217442 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
44217482 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
44217522 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* * *
44217560 TCCAGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
44217601 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
44217626 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
39 34 0.28
40 78 0.64
41 10 0.08
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:44217647 original size:79 final size:79
Alignment explanation
Indices: 44217494--44217658 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
44217484 GGACTAAGAT
* * **
44217494 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
44217559 ATCCAGGTTAAGTC
66 ATCCAGGTTAAATC
* *
44217573 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
44217636 TATATCC-GGTTAAATT
63 TAAATCCAGGTTAAATC
44217652 CCGAAGG
1 CCGAAGG
44217659 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCAGGTTAAATC
Found at i:44221455 original size:39 final size:39
Alignment explanation
Indices: 44221410--44221530 Score: 199
Period size: 39 Copynumber: 3.1 Consensus size: 39
44221400 AAGCAAGACA
* *
44221410 CTGGAAATGTATCCGGGCTAAAGACCCACAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
44221449 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCATG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
44221488 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCCTT-GTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGG-CTTCGTG
44221527 CTGG
1 CTGG
44221531 TAACATAATT
Statistics
Matches: 77, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
39 74 0.96
40 3 0.04
ACGTcount: A:0.22, C:0.26, G:0.30, T:0.22
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:44240937 original size:40 final size:40
Alignment explanation
Indices: 44240885--44240981 Score: 142
Period size: 40 Copynumber: 2.4 Consensus size: 40
44240875 TATTTTGATA
* *
44240885 AAAAAACGCCACTATAGA-ACGAGCATTAGCGGCGCTTTTT
1 AAAAAACGCCACTATAGACA-GAACATTAGCGGCACTTTTT
*
44240925 TAAAAACGCCACTATAGACAGAACATTAGCGGCACTTTTT
1 AAAAAACGCCACTATAGACAGAACATTAGCGGCACTTTTT
*
44240965 AAAAAACGCCGCTATAG
1 AAAAAACGCCACTATAG
44240982 GTCGATTATT
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
40 50 0.98
41 1 0.02
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.22
Consensus pattern (40 bp):
AAAAAACGCCACTATAGACAGAACATTAGCGGCACTTTTT
Found at i:44241220 original size:41 final size:41
Alignment explanation
Indices: 44241163--44241252 Score: 117
Period size: 41 Copynumber: 2.2 Consensus size: 41
44241153 TTTAGTGGCT
* * * * *
44241163 TTAGCAGCGCTTTTTTGAAAATCGCCGCTATATATCGAGCA
1 TTAGCGGCGCTTTTTTGAAAAACACCGCAATAGATCGAGCA
* *
44241204 TTAGCGGCGCTTTTTTGAAAAACACGGCAATAGGTCGAGCA
1 TTAGCGGCGCTTTTTTGAAAAACACCGCAATAGATCGAGCA
44241245 TTAGCGGC
1 TTAGCGGC
44241253 ATTTTTCAGA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (41 bp):
TTAGCGGCGCTTTTTTGAAAAACACCGCAATAGATCGAGCA
Found at i:44241541 original size:7 final size:7
Alignment explanation
Indices: 44241520--44241557 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
44241510 TTAATTATCA
*
44241520 TTATAGT
1 TTATGGT
*
44241527 TTAGGGT
1 TTATGGT
44241534 TTATGGT
1 TTATGGT
44241541 TTATGGT
1 TTATGGT
44241548 TTATGGT
1 TTATGGT
44241555 TTA
1 TTA
44241558 ACAATTGGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.18, C:0.00, G:0.26, T:0.55
Consensus pattern (7 bp):
TTATGGT
Found at i:44241590 original size:7 final size:7
Alignment explanation
Indices: 44241580--44241647 Score: 64
Period size: 7 Copynumber: 9.7 Consensus size: 7
44241570 TAAGATTTAA
44241580 GGGTTAG
1 GGGTTAG
44241587 GGGTTAG
1 GGGTTAG
* *
44241594 GGGCTAA
1 GGGTTAG
*
44241601 GGGTTAA
1 GGGTTAG
44241608 GGGTTAG
1 GGGTTAG
44241615 GGGTTAG
1 GGGTTAG
* * *
44241622 AGATTAA
1 GGGTTAG
*
44241629 GGGTTAA
1 GGGTTAG
44241636 GGGTTAG
1 GGGTTAG
*
44241643 AGGTT
1 GGGTT
44241648 TATAGTTTAG
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 50 1.00
ACGTcount: A:0.24, C:0.01, G:0.47, T:0.28
Consensus pattern (7 bp):
GGGTTAG
Found at i:44241603 original size:21 final size:21
Alignment explanation
Indices: 44241577--44241634 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
44241567 GTTTAAGATT
*
44241577 TAAGGGTTAGGGGTTAGGGGC
1 TAAGGGTTAAGGGTTAGGGGC
44241598 TAAGGGTTAAGGGTTAGGGG-
1 TAAGGGTTAAGGGTTAGGGGC
* *
44241618 TTAGAGATTAAGGGTTA
1 TAAG-GGTTAAGGGTTA
44241635 AGGGTTAGAG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 3 0.09
21 30 0.91
ACGTcount: A:0.26, C:0.02, G:0.45, T:0.28
Consensus pattern (21 bp):
TAAGGGTTAAGGGTTAGGGGC
Found at i:44241629 original size:28 final size:28
Alignment explanation
Indices: 44241576--44241647 Score: 108
Period size: 28 Copynumber: 2.6 Consensus size: 28
44241566 GGTTTAAGAT
* *
44241576 TTAAGGGTTAGGGGTTAGGGGCTAAGGG
1 TTAAGGGTTAGGGGTTAGAGACTAAGGG
*
44241604 TTAAGGGTTAGGGGTTAGAGATTAAGGG
1 TTAAGGGTTAGGGGTTAGAGACTAAGGG
*
44241632 TTAAGGGTTAGAGGTT
1 TTAAGGGTTAGGGGTT
44241648 TATAGTTTAG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.25, C:0.01, G:0.44, T:0.29
Consensus pattern (28 bp):
TTAAGGGTTAGGGGTTAGAGACTAAGGG
Found at i:44241639 original size:21 final size:21
Alignment explanation
Indices: 44241604--44241644 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
44241594 GGGCTAAGGG
*
44241604 TTAAGGGTTAGGGGTTAGAGA
1 TTAAGGGTTAAGGGTTAGAGA
44241625 TTAAGGGTTAAGGGTTAGAG
1 TTAAGGGTTAAGGGTTAGAG
44241645 GTTTATAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.00, G:0.41, T:0.29
Consensus pattern (21 bp):
TTAAGGGTTAAGGGTTAGAGA
Found at i:44241711 original size:29 final size:28
Alignment explanation
Indices: 44241679--44241764 Score: 82
Period size: 29 Copynumber: 3.0 Consensus size: 28
44241669 TATGTTTTGT
*
44241679 GATTTAGGGCTTAAGGGTTTATGGTTTAG
1 GATTTAGGGCTTAA-GGTTTAGGGTTTAG
* * *
44241708 GATTCAGGGTTTAAAGTTTAGGGTTTAG
1 GATTTAGGGCTTAAGGTTTAGGGTTTAG
*** *
44241736 GGGATAGGGGTTAAAGGTTTAGGGTTTAG
1 GATTTAGGGCTT-AAGGTTTAGGGTTTAG
44241765 ATTAATTAGT
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
28 19 0.41
29 27 0.59
ACGTcount: A:0.23, C:0.02, G:0.37, T:0.37
Consensus pattern (28 bp):
GATTTAGGGCTTAAGGTTTAGGGTTTAG
Found at i:44241733 original size:7 final size:7
Alignment explanation
Indices: 44241681--44241764 Score: 60
Period size: 7 Copynumber: 11.7 Consensus size: 7
44241671 TGTTTTGTGA
44241681 TTTAGGG
1 TTTAGGG
*
44241688 CTTAAGGG
1 -TTTAGGG
*
44241696 TTTATGG
1 TTTAGGG
*
44241703 TTTAGGA
1 TTTAGGG
*
44241710 TTCAGGG
1 TTTAGGG
**
44241717 TTTAAAG
1 TTTAGGG
44241724 TTTAGGG
1 TTTAGGG
44241731 TTTAGGG
1 TTTAGGG
**
44241738 GATAGGGG
1 TTTA-GGG
* *
44241746 TTAAAGG
1 TTTAGGG
44241753 TTTAGGG
1 TTTAGGG
44241760 TTTAG
1 TTTAG
44241765 ATTAATTAGT
Statistics
Matches: 55, Mismatches: 20, Indels: 3
0.71 0.26 0.04
Matches are distributed among these distances:
7 45 0.82
8 10 0.18
ACGTcount: A:0.23, C:0.02, G:0.37, T:0.38
Consensus pattern (7 bp):
TTTAGGG
Found at i:44241735 original size:28 final size:27
Alignment explanation
Indices: 44241683--44241764 Score: 85
Period size: 28 Copynumber: 2.9 Consensus size: 27
44241673 TTTTGTGATT
* * *
44241683 TAGGGCTTAAGGGTTTATGGTTTAGGA
1 TAGGGGTTAAAGGTTTAGGGTTTAGGA
*
44241710 TTCAGGGTTTAAA-GTTTAGGGTTTAGGGGA
1 -T-AGGGGTTAAAGGTTTAGGGTTTA--GGA
44241740 TAGGGGTTAAAGGTTTAGGGTTTAG
1 TAGGGGTTAAAGGTTTAGGGTTTAG
44241765 ATTAATTAGT
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
27 1 0.02
28 21 0.46
29 21 0.46
30 3 0.07
ACGTcount: A:0.23, C:0.02, G:0.38, T:0.37
Consensus pattern (27 bp):
TAGGGGTTAAAGGTTTAGGGTTTAGGA
Found at i:44241935 original size:15 final size:15
Alignment explanation
Indices: 44241915--44241973 Score: 59
Period size: 15 Copynumber: 3.8 Consensus size: 15
44241905 ATGGTTTATG
44241915 ATTTAATCTAAAAAT
1 ATTTAATCTAAAAAT
*
44241930 ATTTAATCTAAACCAT
1 ATTTAATCTAAA-AAT
44241946 -TTGATATAT-TAAAAAT
1 ATT--TA-ATCTAAAAAT
44241962 ATTTAATCTAAA
1 ATTTAATCTAAA
44241974 CCATTCGATA
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
14 2 0.06
15 20 0.56
16 4 0.11
17 8 0.22
18 2 0.06
ACGTcount: A:0.49, C:0.08, G:0.02, T:0.41
Consensus pattern (15 bp):
ATTTAATCTAAAAAT
Found at i:44241959 original size:32 final size:32
Alignment explanation
Indices: 44241923--44241995 Score: 121
Period size: 32 Copynumber: 2.3 Consensus size: 32
44241913 TGATTTAATC
*
44241923 TAAAAATATTTAATCTAAACCATTTGATATAT
1 TAAAAATATTTAATCTAAACCATTCGATATAT
44241955 TAAAAATATTTAATCTAAACCATTCGATATAT
1 TAAAAATATTTAATCTAAACCATTCGATATAT
*
44241987 T-TAAATATT
1 TAAAAATATT
44241996 GGGATTAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
31 7 0.18
32 32 0.82
ACGTcount: A:0.47, C:0.10, G:0.03, T:0.41
Consensus pattern (32 bp):
TAAAAATATTTAATCTAAACCATTCGATATAT
Found at i:44243591 original size:15 final size:16
Alignment explanation
Indices: 44243567--44243607 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
44243557 ATTAAATTTT
44243567 AATA-AAAAATT--AA
1 AATATAAAAATTAGAA
44243580 AATATTAAAAATTAGAA
1 AATA-TAAAAATTAGAA
44243597 AATATAAAAAT
1 AATATAAAAAT
44243608 CGTAAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 4 0.17
15 7 0.29
16 7 0.29
17 6 0.25
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (16 bp):
AATATAAAAATTAGAA
Found at i:44243598 original size:17 final size:17
Alignment explanation
Indices: 44243578--44243625 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
44243568 ATAAAAAATT
44243578 AAAATATTAAAAAT-TA
1 AAAATATTAAAAATCTA
44243594 GAAAATA-TAAAAATCGTA
1 -AAAATATTAAAAATC-TA
44243612 AAAATATATAAAAA
1 AAAATAT-TAAAAA
44243626 ATTGTAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
16 7 0.26
17 12 0.44
18 2 0.07
19 6 0.22
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (17 bp):
AAAATATTAAAAATCTA
Found at i:44243624 original size:9 final size:9
Alignment explanation
Indices: 44243568--44243699 Score: 71
Period size: 9 Copynumber: 14.8 Consensus size: 9
44243558 TTAAATTTTA
*
44243568 ATAAAAAAT
1 ATAAAATAT
44243577 -TAAAATAT
1 ATAAAATAT
44243585 -TAAAA-ATT
1 ATAAAATA-T
*
44243593 AGAAAATAT
1 ATAAAATAT
*
44243602 A-AAAATCGT
1 ATAAAAT-AT
44243611 A-AAAATAT
1 ATAAAATAT
*
44243619 ATAAAAAATT
1 ATAAAATA-T
*
44243629 GTAAAAT-T
1 ATAAAATAT
*
44243637 ATAAAATAA
1 ATAAAATAT
*
44243646 ATAAAATAC
1 ATAAAATAT
44243655 ATAAAATAT
1 ATAAAATAT
*
44243664 ATAGAAATAC
1 ATA-AAATAT
*
44243674 A-AAAAAATT
1 ATAAAATA-T
*
44243683 ATAAAATTTT
1 ATAAAA-TAT
44243693 ATAAAAT
1 ATAAAAT
44243700 CATAAGAAAA
Statistics
Matches: 96, Mismatches: 16, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
7 1 0.01
8 31 0.32
9 40 0.42
10 24 0.25
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (9 bp):
ATAAAATAT
Found at i:44243627 original size:20 final size:19
Alignment explanation
Indices: 44243568--44243642 Score: 60
Period size: 16 Copynumber: 4.3 Consensus size: 19
44243558 TTAAATTTTA
44243568 ATAAAAAAT--TAAAATAT
1 ATAAAAAATCGTAAAATAT
44243585 -T-AAAAAT--TAGAAA-AT
1 ATAAAAAATCGTA-AAATAT
44243600 AT-AAAAATCGTAAAAATAT
1 ATAAAAAATCGT-AAAATAT
*
44243619 ATAAAAAATTGTAAAAT-T
1 ATAAAAAATCGTAAAATAT
44243637 ATAAAA
1 ATAAAA
44243643 TAAATAAAAT
Statistics
Matches: 50, Mismatches: 1, Indels: 13
0.78 0.02 0.20
Matches are distributed among these distances:
15 10 0.20
16 11 0.22
18 11 0.22
19 10 0.20
20 8 0.16
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.28
Consensus pattern (19 bp):
ATAAAAAATCGTAAAATAT
Found at i:44243647 original size:20 final size:20
Alignment explanation
Indices: 44243598--44243642 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
44243588 AAATTAGAAA
44243598 ATAT-AAAAATCGTAAAAAT
1 ATATAAAAAATCGTAAAAAT
*
44243617 ATATAAAAAATTGT-AAAAT
1 ATATAAAAAATCGTAAAAAT
44243636 -TATAAAA
1 ATATAAAA
44243643 TAAATAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 7 0.29
19 9 0.38
20 8 0.33
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.29
Consensus pattern (20 bp):
ATATAAAAAATCGTAAAAAT
Found at i:44243679 original size:19 final size:18
Alignment explanation
Indices: 44243639--44243679 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
44243629 GTAAAATTAT
*
44243639 AAAATAAATAAAATACAT
1 AAAATAAATAAAATACAA
*
44243657 AAAATATATAGAAATACAA
1 AAAATAAATA-AAATACAA
44243676 AAAA
1 AAAA
44243680 ATTATAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.73, C:0.05, G:0.02, T:0.20
Consensus pattern (18 bp):
AAAATAAATAAAATACAA
Found at i:44244723 original size:12 final size:11
Alignment explanation
Indices: 44244705--44244734 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
44244695 ATACTAAATT
*
44244705 ATTTTTTTCTA
1 ATTTTTTTTTA
44244716 ATTTTTTTTTA
1 ATTTTTTTTTA
44244727 ATTTTTTT
1 ATTTTTTT
44244735 AAATATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (11 bp):
ATTTTTTTTTA
Found at i:44250023 original size:34 final size:34
Alignment explanation
Indices: 44249985--44250055 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
44249975 AAGCAAAATT
*
44249985 AGTACTCATGATAATCCTGTAGATATGATGACTA
1 AGTACTCATGATAATCCTGCAGATATGATGACTA
44250019 AGTACTCATGATAATCCTGCAGATATGATGACTA
1 AGTACTCATGATAATCCTGCAGATATGATGACTA
44250053 AGT
1 AGT
44250056 CACTTCCTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.31
Consensus pattern (34 bp):
AGTACTCATGATAATCCTGCAGATATGATGACTA
Found at i:44250275 original size:38 final size:38
Alignment explanation
Indices: 44250220--44250299 Score: 151
Period size: 38 Copynumber: 2.1 Consensus size: 38
44250210 AGATTGTTAG
*
44250220 AAGTTGTGTGACTCAAATTCCTATTAAACATAAAATAC
1 AAGTTGTGTGACCCAAATTCCTATTAAACATAAAATAC
44250258 AAGTTGTGTGACCCAAATTCCTATTAAACATAAAATAC
1 AAGTTGTGTGACCCAAATTCCTATTAAACATAAAATAC
44250296 AAGT
1 AAGT
44250300 CAAGCTGCAC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.30
Consensus pattern (38 bp):
AAGTTGTGTGACCCAAATTCCTATTAAACATAAAATAC
Found at i:44250739 original size:9 final size:9
Alignment explanation
Indices: 44250727--44250784 Score: 75
Period size: 9 Copynumber: 6.6 Consensus size: 9
44250717 GACTTTTAGC
44250727 ATTTTTATA
1 ATTTTTATA
44250736 ATTTTTATA
1 ATTTTTATA
44250745 ATTTTTA-A
1 ATTTTTATA
**
44250753 AAATTT-TA
1 ATTTTTATA
44250761 ATTTTTAATA
1 ATTTTT-ATA
44250771 ATTTTTATA
1 ATTTTTATA
44250780 ATTTT
1 ATTTT
44250785 AAAAATTCTA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
8 10 0.24
9 24 0.57
10 8 0.19
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
ATTTTTATA
Found at i:44250741 original size:18 final size:16
Alignment explanation
Indices: 44250727--44250777 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 16
44250717 GACTTTTAGC
44250727 ATTTTTATAATTTTTATA
1 ATTTTTATAA-TTTT-TA
* *
44250745 ATTTTTAAAAATTTTA
1 ATTTTTATAATTTTTA
44250761 ATTTTTAATAATTTTTA
1 ATTTTT-ATAATTTTTA
44250778 TAATTTTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
16 8 0.29
17 11 0.39
18 9 0.32
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
ATTTTTATAATTTTTA
Found at i:44250750 original size:27 final size:25
Alignment explanation
Indices: 44250698--44250777 Score: 70
Period size: 26 Copynumber: 3.0 Consensus size: 25
44250688 AATTGTATGC
* *
44250698 CATTTTTTAATTTTCTTATGACTTTTA
1 CATTTTTTAA-TTT-TTATAATTTTTA
44250725 GCATTTTTATAATTTTTATAATTTTTA
1 -CATTTTT-TAATTTTTATAATTTTTA
* **
44250752 AAAATTTTAATTTTTAATAATTTTTA
1 CATTTTTTAATTTTT-ATAATTTTTA
44250778 TAATTTTAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
25 8 0.18
26 14 0.31
27 10 0.22
28 10 0.22
29 3 0.07
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (25 bp):
CATTTTTTAATTTTTATAATTTTTA
Found at i:44250764 original size:16 final size:16
Alignment explanation
Indices: 44250743--44250804 Score: 72
Period size: 17 Copynumber: 3.8 Consensus size: 16
44250733 ATAATTTTTA
44250743 TAATTTTTAAAAATTT
1 TAATTTTTAAAAATTT
*
44250759 TAATTTTTAATAATTTT
1 TAATTTTTAA-AAATTT
* *
44250776 TATAATTTTAAAAATTC
1 TA-ATTTTTAAAAATTT
44250793 T-ATTTTTAAAAA
1 TAATTTTTAAAAA
44250805 ATATTTTACA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
15 10 0.26
16 10 0.26
17 12 0.31
18 7 0.18
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (16 bp):
TAATTTTTAAAAATTT
Found at i:44250775 original size:25 final size:25
Alignment explanation
Indices: 44250734--44250786 Score: 81
Period size: 25 Copynumber: 2.1 Consensus size: 25
44250724 AGCATTTTTA
44250734 TAATTTTTATAATTTTTAAAAATTT
1 TAATTTTTATAATTTTTAAAAATTT
*
44250759 TAATTTTTAATAATTTTT-ATAATTT
1 TAATTTTT-ATAATTTTTAAAAATTT
44250784 TAA
1 TAA
44250787 AAATTCTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 17 0.65
26 9 0.35
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (25 bp):
TAATTTTTATAATTTTTAAAAATTT
Found at i:44250785 original size:34 final size:34
Alignment explanation
Indices: 44250727--44250801 Score: 118
Period size: 34 Copynumber: 2.2 Consensus size: 34
44250717 GACTTTTAGC
*
44250727 ATTTTT-ATAATTTTTATAATTTTTAAAAATTTT
1 ATTTTTAATAATTTTTATAATTTTTAAAAATTCT
44250760 AATTTTTAATAATTTTTATAA-TTTTAAAAATTCT
1 -ATTTTTAATAATTTTTATAATTTTTAAAAATTCT
44250794 ATTTTTAA
1 ATTTTTAA
44250802 AAAATATTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
33 8 0.21
34 18 0.46
35 13 0.33
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (34 bp):
ATTTTTAATAATTTTTATAATTTTTAAAAATTCT
Found at i:44250786 original size:18 final size:18
Alignment explanation
Indices: 44250727--44250791 Score: 71
Period size: 18 Copynumber: 3.7 Consensus size: 18
44250717 GACTTTTAGC
*
44250727 ATTTTTATAATTTTTATA
1 ATTTTAATAATTTTTATA
*
44250745 ATTTTTAA-AAATTTTA-A
1 A-TTTTAATAATTTTTATA
*
44250762 TTTTTAATAATTTTTATA
1 ATTTTAATAATTTTTATA
*
44250780 ATTTTAAAAATT
1 ATTTTAATAATT
44250792 CTATTTTTAA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
16 6 0.16
17 8 0.21
18 19 0.50
19 5 0.13
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
ATTTTAATAATTTTTATA
Done.