Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, whole genome shotgun sequence
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: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 58 of 190
Found at i:9569632 original size:27 final size:27
Alignment explanation
Indices: 9569570--9569634 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 27
9569560 ACTATCCAAC
9569570 ACAACAAAAAAAAAAAAAGAAGGAAAAAA
1 ACAA-AAAAAAAAAAAAAGAA-GAAAAAA
* *
9569599 TCCAAAAAAAAAAAAAACGAA-AAAAAA
1 -ACAAAAAAAAAAAAAAAGAAGAAAAAA
*
9569626 AGAAAAAAA
1 ACAAAAAAA
9569635 TGTTCTTCTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
26 7 0.23
27 6 0.19
29 15 0.48
30 3 0.10
ACGTcount: A:0.83, C:0.08, G:0.08, T:0.02
Consensus pattern (27 bp):
ACAAAAAAAAAAAAAAAGAAGAAAAAA
Found at i:9569687 original size:19 final size:18
Alignment explanation
Indices: 9569660--9569695 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
9569650 TTTTATTGGC
*
9569660 AAAAAAAAAGTAAAAATG
1 AAAAAAAAAGAAAAAATG
9569678 AAAAATAAAAGAAAAAAT
1 AAAAA-AAAAGAAAAAAT
9569696 TTTGAATGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.81, C:0.00, G:0.08, T:0.11
Consensus pattern (18 bp):
AAAAAAAAAGAAAAAATG
Found at i:9569973 original size:37 final size:37
Alignment explanation
Indices: 9569856--9570045 Score: 149
Period size: 37 Copynumber: 5.2 Consensus size: 37
9569846 ATATGTACTA
* * * *
9569856 CATCTCATCCACATTTTAATAAGATAGTGCATACATTC
1 CATCTCATGCACATATTAAT-AGATAGTACATGCATTC
* * * *
9569894 CATTTCATGCACATTTTAATAAAATAATACATGCACTT-
1 CATCTCATGCACATATTAAT-AGATAGTACATGCA-TTC
* *
9569932 TATCTCATGCACATACTAATAGATAGTACATGCATTC
1 CATCTCATGCACATATTAATAGATAGTACATGCATTC
* *
9569969 TATCTCATG--C---TTAATAGATAGTACATGCACTC
1 CATCTCATGCACATATTAATAGATAGTACATGCATTC
* * * * * *
9570001 AATTTAATACACATATTAATATATAGTACATGCACTC
1 CATCTCATGCACATATTAATAGATAGTACATGCATTC
9570038 CATCTCAT
1 CATCTCAT
9570046 ACACTTTTAA
Statistics
Matches: 123, Mismatches: 22, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
32 25 0.20
34 1 0.01
35 1 0.01
36 2 0.02
37 47 0.38
38 45 0.37
39 2 0.02
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.35
Consensus pattern (37 bp):
CATCTCATGCACATATTAATAGATAGTACATGCATTC
Found at i:9574250 original size:144 final size:144
Alignment explanation
Indices: 9574004--9574557 Score: 541
Period size: 144 Copynumber: 3.8 Consensus size: 144
9573994 TCATTTTTAG
* * * * *
9574004 GATTTTAAA-GCACTAAAAATAATG-AATATTATGAAATTAAGATCTGAAAAA-TTTCATGAAAA
1 GATTTCAAATGCACCAAAAATCATGAAATATTATAAAATTAAGATCT-AAAAAGTTTCATGAAAT
* * * *
9574066 TCCGAGCTTGAGAAACCTAAATTACGAAAATACCCCTATAAGGGTATTTTGGTAATTTCACACTT
65 TCC-AACTCGAAAAAGCTAAATTACGAAAATACCCCTATAAGGGTATTTTGGTAATTTCACACTT
* *
9574131 TCTAGGGCACTGCTAT
129 TCTAGGGTACTGCTGT
9574147 GATTTCAAATGCACCAAAAATCATGAAATATTATAAAATTAAGATCTAAAAAGTTTCATGAAATT
1 GATTTCAAATGCACCAAAAATCATGAAATATTATAAAATTAAGATCTAAAAAGTTTCATGAAATT
** * * * **
9574212 CCAACTCGGGAAGGCTAAATTATGAAAATACCCTTATAAGGGTATTTTCATAATTTCACAC-TTC
66 CCAACTCGAAAAAGCTAAATTACGAAAATACCCCTATAAGGGTATTTTGGTAATTTCACACTTTC
9574276 TCAGGGTACTGCTGT
131 T-AGGGTACTGCTGT
** * * * * *
9574291 GATTTCAAATGCATAAAAAATCATTAAATATTATAAAATTAAAATTTGAAAAGTTTCACGAAAAT
1 GATTTCAAATGCACCAAAAATCATGAAATATTATAAAATTAAGATCTAAAAAGTTTCATG-AAAT
** * * * * * *
9574356 TTGATCT-AAAAAAGCTAAATTACAAAAATACCCCTAGAAGGGTATTTTAGTAATTTCATCATTT
65 TCCAACTCGAAAAAGCTAAATTACGAAAATACCCCTATAAGGGTATTTTGGTAATTTCA-CACTT
* **
9574420 TC-GGGGTACAACTGT
129 TCTAGGGTACTGCTGT
* ** * * **
9574435 GATTTTAAGGGCACCAAAAATCATGAAATATTATAAAATTAATATCTAAAAAATTTACACAAAAA
1 GATTTCAAATGCACCAAAAATCATGAAATATTATAAAATTAAGATCTAAAAAGTTT-CA-TGAAA
* * *
9574500 TT-CAAGCTCG-AAATGGTCAAATTATGAAAATA-CCCTAATAAGGGTATTTTGGTAATTT
64 TTCCAA-CTCGAAAAAGCT-AAATTACGAAAATACCCCT-ATAAGGGTATTTTGGTAATTT
9574558 TTCCCTTTCT
Statistics
Matches: 337, Mismatches: 61, Indels: 23
0.80 0.14 0.05
Matches are distributed among these distances:
143 12 0.04
144 230 0.68
145 61 0.18
146 34 0.10
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.31
Consensus pattern (144 bp):
GATTTCAAATGCACCAAAAATCATGAAATATTATAAAATTAAGATCTAAAAAGTTTCATGAAATT
CCAACTCGAAAAAGCTAAATTACGAAAATACCCCTATAAGGGTATTTTGGTAATTTCACACTTTC
TAGGGTACTGCTGT
Found at i:9575178 original size:35 final size:36
Alignment explanation
Indices: 9575132--9575208 Score: 129
Period size: 35 Copynumber: 2.2 Consensus size: 36
9575122 AAAAGTCAAA
9575132 AAATAAATAATGATCGAAACAACA-TGCAAGTTGAG
1 AAATAAATAATGATCGAAACAACACTGCAAGTTGAG
* *
9575167 AAATGAATAATGATCGAAACAACACTGTAAGTTGAG
1 AAATAAATAATGATCGAAACAACACTGCAAGTTGAG
9575203 AAATAA
1 AAATAA
9575209 CACAATAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
35 23 0.61
36 15 0.39
ACGTcount: A:0.52, C:0.10, G:0.17, T:0.21
Consensus pattern (36 bp):
AAATAAATAATGATCGAAACAACACTGCAAGTTGAG
Found at i:9575288 original size:36 final size:35
Alignment explanation
Indices: 9575238--9575320 Score: 96
Period size: 36 Copynumber: 2.3 Consensus size: 35
9575228 CCAAAAGTCA
*
9575238 AAAAATAAATAACGACCAAAATGACA-CTGCAAGTTG
1 AAAAAT-AACAACGACCAAAATGACATC-GCAAGTTG
* * *
9575274 AGAAATGAACAACGATCGAAATGACATCGCAAGTTG
1 AAAAAT-AACAACGACCAAAATGACATCGCAAGTTG
9575310 AAAAATAACAA
1 AAAAATAACAA
9575321 AATGATCAGA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
35 5 0.12
36 34 0.85
37 1 0.03
ACGTcount: A:0.53, C:0.16, G:0.16, T:0.16
Consensus pattern (35 bp):
AAAAATAACAACGACCAAAATGACATCGCAAGTTG
Found at i:9575308 original size:109 final size:108
Alignment explanation
Indices: 9575080--9575424 Score: 340
Period size: 109 Copynumber: 3.2 Consensus size: 108
9575070 AACTAAGAGT
* * * *
9575080 ACACTACAAGTCGAAAAATAACAAAATGATCA-AGATAACACCAAAAGTCAAAAAATAAATAATG
1 ACACTGCAAGTTGAAAAATAACAAAATAATCAGA-ACAACACCAAAAGTCAAAAAATAAATAATG
* * ** * *
9575144 ATCGAAACAACATGCAAGTTGAGAAATGAATAATGATCGAAACA
65 ACCAAAATGACATGCAAGTTGAGAAATGAACAACGATCGAAACA
* * * ** ** *
9575188 ACACTGTAAGTTGAGAAATAACACAATAATTGGAATGACACCAAAAGTCAAAAAATAAATAACGA
1 ACACTGCAAGTTGAAAAATAACAAAATAATCAGAACAACACCAAAAGTCAAAAAATAAATAATGA
**
9575253 CCAAAATGACACTGCAAGTTGAGAAATGAACAACGATCGAAATG
66 CCAAAATGACA-TGCAAGTTGAGAAATGAACAACGATCGAAACA
*
9575297 ACA-TCGCAAGTTGAAAAATAACAAAATGATCAGAACAACACCAAAAGTCAAAAAATAAATAATG
1 ACACT-GCAAGTTGAAAAATAACAAAATAATCAGAACAACACCAAAAGTCAAAAAATAAATAATG
* * * * * * **
9575361 ACTAGAATGACAT-CGAAGGTAAG-AATGAATAACGA-CCAGAATG
65 ACCAAAATGACATGC-AAGTTGAGAAATGAACAACGATCGA-AACA
*
9575404 ACACTGCAAGTTAAAAAATAA
1 ACACTGCAAGTTGAAAAATAA
9575425 ATATGACTGC
Statistics
Matches: 197, Mismatches: 34, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
106 2 0.01
107 34 0.17
108 69 0.35
109 92 0.47
ACGTcount: A:0.53, C:0.15, G:0.15, T:0.17
Consensus pattern (108 bp):
ACACTGCAAGTTGAAAAATAACAAAATAATCAGAACAACACCAAAAGTCAAAAAATAAATAATGA
CCAAAATGACATGCAAGTTGAGAAATGAACAACGATCGAAACA
Found at i:9575510 original size:22 final size:22
Alignment explanation
Indices: 9575470--9575581 Score: 104
Period size: 22 Copynumber: 5.2 Consensus size: 22
9575460 TCTTATGCTT
* *
9575470 ATGTGCCAGCTACTCTGGGCTC
1 ATGTGCCAGCTAATTTGGGCTC
*
9575492 ATATGCCAGCTAATTTGGG-T-
1 ATGTGCCAGCTAATTTGGGCTC
* * *
9575512 ATGTGTCAGTTAATTTGAGCTC
1 ATGTGCCAGCTAATTTGGGCTC
* *
9575534 -TCGTGCTAGCTAATCTGGGCTC
1 AT-GTGCCAGCTAATTTGGGCTC
* *
9575556 TTGTGCCAGCTAATTTGAGCTC
1 ATGTGCCAGCTAATTTGGGCTC
9575578 ATGT
1 ATGT
9575582 TTAATCTTGA
Statistics
Matches: 70, Mismatches: 16, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
20 15 0.21
21 3 0.04
22 51 0.73
23 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.25, T:0.35
Consensus pattern (22 bp):
ATGTGCCAGCTAATTTGGGCTC
Found at i:9575876 original size:21 final size:21
Alignment explanation
Indices: 9575847--9575892 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
9575837 CGATGCAAAT
*
9575847 GCAATAATGTGAATGCTTAAC
1 GCAAGAATGTGAATGCTTAAC
*
9575868 GCAAGAATGTGAATGCTTAAT
1 GCAAGAATGTGAATGCTTAAC
9575889 GCAA
1 GCAA
9575893 ATATAGGTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.13, G:0.22, T:0.26
Consensus pattern (21 bp):
GCAAGAATGTGAATGCTTAAC
Found at i:9576031 original size:41 final size:41
Alignment explanation
Indices: 9575986--9576072 Score: 93
Period size: 41 Copynumber: 2.1 Consensus size: 41
9575976 TGCCATGATG
* * * * * *
9575986 CAAATTCAAATTTCTTTTTTATGGTGCAAATGCAAGTAATA
1 CAAATACAAATGTCTCTCTTATGATGCAAATGCAAGAAATA
* * *
9576027 CAAATACGAATGTCTCTCTTATGATGCATATGCAAGAAATG
1 CAAATACAAATGTCTCTCTTATGATGCAAATGCAAGAAATA
9576068 CAAAT
1 CAAAT
9576073 GTAAATATCC
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (41 bp):
CAAATACAAATGTCTCTCTTATGATGCAAATGCAAGAAATA
Found at i:9576248 original size:33 final size:33
Alignment explanation
Indices: 9576140--9576348 Score: 147
Period size: 34 Copynumber: 6.3 Consensus size: 33
9576130 ATACAGATGC
*
9576140 ATTAGGCTTAATATTTCATTGGGGGGCCAGCT-A
1 ATTAGGCTTAATATTTCATT-GGAGGCCAGCTAA
* * * * **
9576173 TTCTAGGCTTAAATCTTTCTTTGAAGGCCAATTAA
1 AT-TAGGCTT-AATATTTCATTGGAGGCCAGCTAA
* *
9576208 ATTGGGCTTAATATTTCATTGGAGGCTAGCTAA
1 ATTAGGCTTAATATTTCATTGGAGGCCAGCTAA
* * * ** * *
9576241 TTTGGGCTTAAATCTTTTTTTGAAGGCTAGCTAA
1 ATTAGGCTT-AATATTTCATTGGAGGCCAGCTAA
* * * *
9576275 ACTAGGCTT-ACA-TTCATTAGAGGCTAGCT-A
1 ATTAGGCTTAATATTTCATTGGAGGCCAGCTAA
*
9576305 ATCTAGGCTTAATATTTCATTGGGGGCCAGCTAA
1 AT-TAGGCTTAATATTTCATTGGAGGCCAGCTAA
*
9576339 ATTGGGCTTA
1 ATTAGGCTTA
9576349 CATGCCCGAG
Statistics
Matches: 133, Mismatches: 35, Indels: 16
0.72 0.19 0.09
Matches are distributed among these distances:
30 2 0.02
31 20 0.15
32 3 0.02
33 48 0.36
34 49 0.37
35 11 0.08
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.36
Consensus pattern (33 bp):
ATTAGGCTTAATATTTCATTGGAGGCCAGCTAA
Found at i:9576302 original size:31 final size:31
Alignment explanation
Indices: 9576264--9576351 Score: 95
Period size: 33 Copynumber: 2.8 Consensus size: 31
9576254 CTTTTTTTGA
9576264 AGGCTAGCTAAACTAGGCTTACATTCATTAG
1 AGGCTAGCTAAACTAGGCTTACATTCATTAG
* * *
9576295 AGGCTAGCTAATCTAGGCTTAATATTTCATTGG
1 AGGCTAGCTAAACTAGGCTT-ACA-TTCATTAG
* * * *
9576328 GGGCCAGCTAAATTGGGCTTACAT
1 AGGCTAGCTAAACTAGGCTTACAT
9576352 GCCCGAGAAT
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
31 20 0.43
32 4 0.09
33 22 0.48
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (31 bp):
AGGCTAGCTAAACTAGGCTTACATTCATTAG
Found at i:9577255 original size:21 final size:20
Alignment explanation
Indices: 9577203--9577255 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
9577193 TCATTTCTTT
9577203 TTTTTTTCTTTCTTTTATTC
1 TTTTTTTCTTTCTTTTATTC
* *
9577223 TTCATTTCCTTTCATTTT-TTC
1 TT-TTTTTCTTTC-TTTTATTC
9577244 ATTTTTTTCTTT
1 -TTTTTTTCTTT
9577256 TTCTTTTGCA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
20 2 0.08
21 18 0.69
22 6 0.23
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.75
Consensus pattern (20 bp):
TTTTTTTCTTTCTTTTATTC
Found at i:9578560 original size:28 final size:28
Alignment explanation
Indices: 9578527--9578588 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
9578517 TTTCTCTTTG
*
9578527 TTTTTTTGGCTTTT-TGTTTTTTT-ATT
1 TTTTTTTGGCTTTTATCTTTTTTTAATT
*
9578553 TTTATTTTGTCTTTTATCTTTTTTTAATT
1 TTT-TTTTGGCTTTTATCTTTTTTTAATT
9578582 TTTTTTT
1 TTTTTTT
9578589 AAGAACCTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 3 0.10
27 10 0.32
28 12 0.39
29 6 0.19
ACGTcount: A:0.08, C:0.05, G:0.06, T:0.81
Consensus pattern (28 bp):
TTTTTTTGGCTTTTATCTTTTTTTAATT
Found at i:9580232 original size:16 final size:16
Alignment explanation
Indices: 9580211--9580246 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
9580201 ACATAATTGG
* *
9580211 ATGAATGGATGAATAA
1 ATGAATGAATGAAAAA
9580227 ATGAATGAATGAAAAA
1 ATGAATGAATGAAAAA
9580243 ATGA
1 ATGA
9580247 CAAAGCTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.22, T:0.22
Consensus pattern (16 bp):
ATGAATGAATGAAAAA
Found at i:9582680 original size:16 final size:16
Alignment explanation
Indices: 9582655--9582689 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
9582645 TTTAATCAAA
9582655 ATATCATAAATAAATC
1 ATATCATAAATAAATC
*
9582671 ATATCGTAAATAAATC
1 ATATCATAAATAAATC
9582687 ATA
1 ATA
9582690 AGCACAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.54, C:0.11, G:0.03, T:0.31
Consensus pattern (16 bp):
ATATCATAAATAAATC
Found at i:9584867 original size:126 final size:126
Alignment explanation
Indices: 9584699--9585079 Score: 654
Period size: 126 Copynumber: 3.0 Consensus size: 126
9584689 CTTGTCCTTT
* * *
9584699 TAAGCATTCAAATACCAACCTCTATGGTTCCAAAGCTTTCGAGCATAAGCTTGTTAAATGTAAAA
1 TAAGCATTCAAAGACCAGCCTCTATGGTTCCAAAGCTTTCGAGCATAAGCTTGTTAAATGAAAAA
9584764 AAGACACTTTCAAGATTTATAAGAAAAAAAACTCCCGAATCGTGACTACTTATGGTTTAGC
66 AAGACACTTTCAAGATTTATAAGAAAAAAAACTCCCGAATCGTGACTACTTATGGTTTAGC
9584825 TAAGCATTCAAAGACCAGCCTCTATGGTTCCAAAGCTTTCGAGCATAAGCTTGTTAAATGAAAAA
1 TAAGCATTCAAAGACCAGCCTCTATGGTTCCAAAGCTTTCGAGCATAAGCTTGTTAAATGAAAAA
*
9584890 AAGACACTTTCAAGATTTATAAGAAAAAAAACTCCTGAATCGTGACTACTTATGGTTTAGC
66 AAGACACTTTCAAGATTTATAAGAAAAAAAACTCCCGAATCGTGACTACTTATGGTTTAGC
* * *
9584951 TAAGCATTCAAAGACCAGCCTCTATGGTTCCAAAGCTTTCGACCATAAGCTTGTTACATAAAAAA
1 TAAGCATTCAAAGACCAGCCTCTATGGTTCCAAAGCTTTCGAGCATAAGCTTGTTAAATGAAAAA
* * * * *
9585016 AAGACACTTTCAAGATTTATGAGAAAAAAAACTCTCGAATTGTGACTACTTATTGTTTTGC
66 AAGACACTTTCAAGATTTATAAGAAAAAAAACTCCCGAATCGTGACTACTTATGGTTTAGC
9585077 TAA
1 TAA
9585080 CTAAATGCTA
Statistics
Matches: 242, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
126 242 1.00
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.29
Consensus pattern (126 bp):
TAAGCATTCAAAGACCAGCCTCTATGGTTCCAAAGCTTTCGAGCATAAGCTTGTTAAATGAAAAA
AAGACACTTTCAAGATTTATAAGAAAAAAAACTCCCGAATCGTGACTACTTATGGTTTAGC
Found at i:9594480 original size:2 final size:2
Alignment explanation
Indices: 9594473--9594503 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
9594463 ATAGCCTTAA
*
9594473 AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9594504 AACACTTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:9602278 original size:18 final size:18
Alignment explanation
Indices: 9602255--9602289 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
9602245 ACTAAGATTG
9602255 CAAAAG-CAAAAGTAAAAA
1 CAAAAGCCAAAAG-AAAAA
9602273 CAAAAGCCAAAAGAAAA
1 CAAAAGCCAAAAGAAAA
9602290 GATAACTCAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.71, C:0.14, G:0.11, T:0.03
Consensus pattern (18 bp):
CAAAAGCCAAAAGAAAAA
Found at i:9603006 original size:29 final size:28
Alignment explanation
Indices: 9602962--9603020 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 28
9602952 AAATTAAATA
** *
9602962 TTATATTTTGATTTTGTTATTTATTAAT
1 TTATATTTTGATTTTGAAATTTAATAAT
9602990 TTATAATTTT-ATATTTGAAATTTAATAAT
1 TTAT-ATTTTGAT-TTTGAAATTTAATAAT
9603019 TT
1 TT
9603021 TTTTGTTGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
28 6 0.23
29 20 0.77
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (28 bp):
TTATATTTTGATTTTGAAATTTAATAAT
Found at i:9605571 original size:14 final size:14
Alignment explanation
Indices: 9605554--9605593 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
9605544 AAAAAAATCA
* *
9605554 TTTTAGGAAAAGAT
1 TTTTGGGAAAAAAT
9605568 TTTTGGGAAAAAAT
1 TTTTGGGAAAAAAT
9605582 TTTTGGGAAAAA
1 TTTTGGGAAAAA
9605594 GCAAGCGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (14 bp):
TTTTGGGAAAAAAT
Found at i:9630501 original size:11 final size:11
Alignment explanation
Indices: 9630485--9630509 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
9630475 TAATTAATCT
9630485 TTTTTTATTAA
1 TTTTTTATTAA
9630496 TTTTTTATTAA
1 TTTTTTATTAA
9630507 TTT
1 TTT
9630510 GACATATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTTTATTAA
Found at i:9632382 original size:18 final size:17
Alignment explanation
Indices: 9632341--9632390 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
9632331 ATAAATTTTT
*
9632341 TAAAATTTAAATATATAA
1 TAAAATTTTAAT-TATAA
9632359 TAAAATTTTAATTATAA
1 TAAAATTTTAATTATAA
* *
9632376 TTCAAATATTAATTA
1 -TAAAATTTTAATTA
9632391 CATAATTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 5 0.18
18 23 0.82
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAAATTTTAATTATAA
Found at i:9636619 original size:17 final size:17
Alignment explanation
Indices: 9636599--9636641 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
9636589 TATCATGATA
* *
9636599 ATTTTATTATTGATATG
1 ATTTTATTATTAAAATG
*
9636616 ATTTTATTATTAAAATT
1 ATTTTATTATTAAAATG
9636633 ATTTTATTA
1 ATTTTATTA
9636642 CTTATGATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (17 bp):
ATTTTATTATTAAAATG
Found at i:9636811 original size:25 final size:26
Alignment explanation
Indices: 9636783--9636831 Score: 75
Period size: 25 Copynumber: 1.9 Consensus size: 26
9636773 TTGTATAGGT
9636783 TAATAATTT-TAATATTATT-TTAAAA
1 TAATAATTTGTAA-ATTATTGTTAAAA
9636808 TAATAATTTGTAAATTATTGTTAA
1 TAATAATTTGTAAATTATTGTTAA
9636832 TATTTTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (26 bp):
TAATAATTTGTAAATTATTGTTAAAA
Found at i:9641535 original size:11 final size:11
Alignment explanation
Indices: 9641508--9641615 Score: 53
Period size: 11 Copynumber: 9.2 Consensus size: 11
9641498 AAGGTTACTG
9641508 AATAAAA-AAA
1 AATAAAATAAA
* *
9641518 TAGTAAAGTAAA
1 -AATAAAATAAA
9641530 AATAAAATAAA
1 AATAAAATAAA
*
9641541 AAGTCAAAAATAAG
1 AA-T--AAAATAAA
9641555 AA-AAAATAAA
1 AATAAAATAAA
9641565 AACTTAAAATATGAA
1 AA--TAAAATA--AA
9641580 AAT-AAAT-AA
1 AATAAAATAAA
9641589 AATAAAAATTGAAA
1 AAT-AAAA-T-AAA
*
9641603 AATGAAATAAA
1 AATAAAATAAA
9641614 AA
1 AA
9641616 AGAAAAAAAA
Statistics
Matches: 76, Mismatches: 7, Indels: 28
0.68 0.06 0.25
Matches are distributed among these distances:
9 5 0.07
10 9 0.12
11 24 0.32
12 10 0.13
13 10 0.13
14 14 0.18
15 4 0.05
ACGTcount: A:0.73, C:0.02, G:0.06, T:0.19
Consensus pattern (11 bp):
AATAAAATAAA
Found at i:9641559 original size:18 final size:18
Alignment explanation
Indices: 9641522--9641615 Score: 72
Period size: 19 Copynumber: 5.2 Consensus size: 18
9641512 AAAAAATAGT
9641522 AAAGTAAAAATAAAATAA
1 AAAGTAAAAATAAAATAA
*
9641540 AAAGTCAAAAATAAGA-AA
1 AAAGT-AAAAATAAAATAA
9641558 AAA-TAAAAACTTAAAATATGA
1 AAAGTAAAAA--TAAAATA--A
9641579 AAA-T--AAATAAAATAA
1 AAAGTAAAAATAAAATAA
* *
9641594 AAATTGAAAAATGAAATAA
1 AAAGT-AAAAATAAAATAA
9641613 AAA
1 AAA
9641616 AGAAAAAAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 19
0.74 0.04 0.22
Matches are distributed among these distances:
15 4 0.06
16 6 0.10
17 8 0.13
18 14 0.22
19 26 0.41
21 5 0.08
ACGTcount: A:0.73, C:0.02, G:0.06, T:0.18
Consensus pattern (18 bp):
AAAGTAAAAATAAAATAA
Found at i:9641573 original size:24 final size:25
Alignment explanation
Indices: 9641528--9641615 Score: 69
Period size: 24 Copynumber: 3.6 Consensus size: 25
9641518 TAGTAAAGTA
*
9641528 AAAATAAAATAAAAAGTCAAAA-AT-
1 AAAA-AAAATAAAAACTCAAAATATG
*
9641552 AAGAAAAAATAAAAACTTAAAATATG
1 AA-AAAAAATAAAAACTCAAAATATG
* *
9641578 AAAATAAAT-AAAA-TAAAAAT-TG
1 AAAAAAAATAAAAACTCAAAATATG
9641600 AAAAATGAAATAAAAA
1 AAAAA--AAATAAAAA
9641616 AGAAAAAAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
22 6 0.11
23 6 0.11
24 25 0.47
25 14 0.26
26 2 0.04
ACGTcount: A:0.74, C:0.02, G:0.06, T:0.18
Consensus pattern (25 bp):
AAAAAAAATAAAAACTCAAAATATG
Found at i:9641596 original size:23 final size:24
Alignment explanation
Indices: 9641570--9641614 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
9641560 ATAAAAACTT
9641570 AAAATATG-AAAAT-AAATAAAATA
1 AAAAT-TGAAAAATGAAATAAAATA
9641593 AAAATTGAAAAATGAAATAAAA
1 AAAATTGAAAAATGAAATAAAA
9641615 AAGAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 2 0.10
23 10 0.50
24 8 0.40
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (24 bp):
AAAATTGAAAAATGAAATAAAATA
Found at i:9641605 original size:31 final size:31
Alignment explanation
Indices: 9641547--9641626 Score: 87
Period size: 30 Copynumber: 2.6 Consensus size: 31
9641537 TAAAAAGTCA
9641547 AAAATAAGAAAAAATAAAAACTTAAAATATG
1 AAAATAAGAAAAAATAAAAACTTAAAATATG
*
9641578 AAAATAA-ATAAAATAAAAA-TTGAAAA-ATG
1 AAAATAAGAAAAAATAAAAACTT-AAAATATG
* *
9641607 -AAATAAAAAAGAAAAAAAAA
1 AAAATAAGAAA-AAATAAAAA
9641627 ACCTACAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
28 6 0.14
29 7 0.16
30 23 0.53
31 7 0.16
ACGTcount: A:0.76, C:0.01, G:0.06, T:0.16
Consensus pattern (31 bp):
AAAATAAGAAAAAATAAAAACTTAAAATATG
Found at i:9641980 original size:20 final size:19
Alignment explanation
Indices: 9641940--9641980 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
9641930 GTCGAAATCC
**
9641940 CACCAAAAAATTCAACCTT
1 CACCAAAAAATTCAAAATT
9641959 CACCAAAAAATTCAAAAATT
1 CACCAAAAAATTC-AAAATT
9641979 CA
1 CA
9641981 TCCCCAAACC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.54, C:0.27, G:0.00, T:0.20
Consensus pattern (19 bp):
CACCAAAAAATTCAAAATT
Found at i:9642455 original size:3 final size:3
Alignment explanation
Indices: 9642447--9642544 Score: 103
Period size: 3 Copynumber: 33.3 Consensus size: 3
9642437 ATGAGAACAA
* *
9642447 AAT AAT AAT AAT AAT AAT AAT AAG AAT AAT AAT AAT AGT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
9642494 TAT AAT ACT AAT -AT AAT ATAG AAT AAT AAA AAT -AT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
*
9642538 ACT AAT A
1 AAT AAT A
9642545 GATTACAATA
Statistics
Matches: 77, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
2 6 0.08
3 69 0.90
4 2 0.03
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:9642493 original size:38 final size:39
Alignment explanation
Indices: 9642451--9642544 Score: 120
Period size: 38 Copynumber: 2.5 Consensus size: 39
9642441 GAACAAAATA
* * **
9642451 ATAATAATAATAATAATAAGAATA-ATAATAATAGTAAT
1 ATAATAATAATACTAATAAGAATATAGAATAATAAAAAT
* *
9642489 ATAATTATAATACTAAT-ATAATATAGAATAATAAAAAT
1 ATAATAATAATACTAATAAGAATATAGAATAATAAAAAT
9642527 ATAATAATAATACTAATA
1 ATAATAATAATACTAATA
9642545 GATTACAATA
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
37 5 0.11
38 42 0.89
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (39 bp):
ATAATAATAATACTAATAAGAATATAGAATAATAAAAAT
Found at i:9642607 original size:6 final size:5
Alignment explanation
Indices: 9642448--9642634 Score: 83
Period size: 6 Copynumber: 34.0 Consensus size: 5
9642438 TGAGAACAAA
*
9642448 ATAAT AATAAT AATAAT AATAAGA ATAAT AATAAT AGTAAT ATAATT ATAAT
1 ATAAT -ATAAT -ATAAT -ATAA-T ATAAT -ATAAT A-TAAT ATAA-T ATAAT
* * *
9642500 ACTAAT ATAAT ATAGA- ATAAT AAAAAT ATAAT AATAAT ACTAAT AGATT
1 A-TAAT ATAAT ATA-AT ATAAT -ATAAT ATAAT -ATAAT A-TAAT ATAAT
* * * *
9642549 ACAAT ATACGAT ATAAT ATATT ATACTAT ACAAT ATGAT AT-A- ATAAT
1 ATAAT ATA--AT ATAAT ATAAT ATA--AT ATAAT ATAAT ATAAT ATAAT
* *
9642596 ACTAAT AGTAAT AATAAT ATAAT ATTAT ACTACT ATAAT
1 A-TAAT A-TAAT -ATAAT ATAAT ATAAT A-TAAT ATAAT
9642635 GTCATACTAT
Statistics
Matches: 143, Mismatches: 19, Indels: 39
0.71 0.09 0.19
Matches are distributed among these distances:
3 2 0.01
4 3 0.02
5 58 0.41
6 71 0.50
7 9 0.06
ACGTcount: A:0.56, C:0.05, G:0.04, T:0.35
Consensus pattern (5 bp):
ATAAT
Found at i:9642633 original size:21 final size:21
Alignment explanation
Indices: 9642560--9642656 Score: 61
Period size: 21 Copynumber: 4.3 Consensus size: 21
9642550 CAATATACGA
*
9642560 TATAATATATTATACTATAC-AA
1 TATAATATA--ATACTATACTAC
* *
9642582 TATGATATAATAATACTAATAGTAA
1 TAT-A-AT-ATAATACT-ATACTAC
*
9642607 TAATAATATAATATTATACTAC
1 T-ATAATATAATACTATACTAC
* * *
9642629 TATAATGTCATACTATACTGC
1 TATAATATAATACTATACTAC
9642650 TATAATA
1 TATAATA
9642657 ATATATACAA
Statistics
Matches: 60, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
21 22 0.37
22 9 0.15
23 13 0.22
24 7 0.12
25 7 0.12
26 2 0.03
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.39
Consensus pattern (21 bp):
TATAATATAATACTATACTAC
Found at i:9654927 original size:15 final size:17
Alignment explanation
Indices: 9654897--9654928 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
9654887 AATAGAAACT
9654897 TAAAATATGAAAATAAA
1 TAAAATATGAAAATAAA
9654914 TAAAATA-G-AAATAAA
1 TAAAATATGAAAATAAA
9654929 AAAGGAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (17 bp):
TAAAATATGAAAATAAA
Found at i:9655802 original size:12 final size:11
Alignment explanation
Indices: 9655787--9655830 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 11
9655777 ACATAAGAAC
9655787 AAAAATAAAATT
1 AAAAATAAAA-T
9655799 AAAAATAAAAT
1 AAAAATAAAAT
9655810 AAATAATAATAAT
1 AAA-AATAA-AAT
*
9655823 AATAATAA
1 AAAAATAA
9655831 TGATGATGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
11 4 0.14
12 20 0.69
13 5 0.17
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:9655819 original size:3 final size:3
Alignment explanation
Indices: 9655802--9655975 Score: 67
Period size: 3 Copynumber: 58.3 Consensus size: 3
9655792 TAAAATTAAA
* * * * *
9655802 AAT AA- AAT AAAT AAT AAT AAT AAT AAT AAT GAT GAT GAT GAT AGT
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
** * * *
9655847 AAT -AT AAT TGT AAT AGT AAT -AT AAT ATAG AAT AAT AAA AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT
* * * * *
9655890 AAT AAT AAT ACT AAT AGAT TAC AAT -AT GCAAT -AT AAT ATAT TAT ATT
1 AAT AAT AAT AAT AAT A-AT AAT AAT AAT --AAT AAT AAT A-AT AAT AAT
* * *
9655937 ATAT AAT -AT GAT -AT AAT AAT ACT AAT AGT AAT AAT AAT A
1 A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
9655976 TTTTATTATA
Statistics
Matches: 128, Mismatches: 28, Indels: 30
0.69 0.15 0.16
Matches are distributed among these distances:
2 16 0.12
3 99 0.77
4 11 0.09
5 2 0.02
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:9655871 original size:5 final size:5
Alignment explanation
Indices: 9655846--9655976 Score: 61
Period size: 5 Copynumber: 24.2 Consensus size: 5
9655836 ATGATGATAG
* *
9655846 TAATA TAATTG TAATA GTAATA TAATA TAGA-A TAATAA AAATA TAATAA
1 TAATA TAA-TA TAATA -TAATA TAATA TA-ATA TAAT-A TAATA TAAT-A
* * * *
9655895 TAATA CTAATA GATTA CAATA TGCAATA TAATA TATTATA TTATA TAATA
1 TAATA -TAATA TAATA TAATA T--AATA TAATA TA--ATA TAATA TAATA
*
9655945 TGATA T-A-A TAATA CTAATA GTAATAA TAATA T
1 TAATA TAATA TAATA -TAATA -TAAT-A TAATA T
9655977 TTTATTATAT
Statistics
Matches: 98, Mismatches: 13, Indels: 30
0.70 0.09 0.21
Matches are distributed among these distances:
3 2 0.02
4 3 0.03
5 46 0.47
6 37 0.38
7 10 0.10
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.37
Consensus pattern (5 bp):
TAATA
Found at i:9663310 original size:22 final size:23
Alignment explanation
Indices: 9663276--9663318 Score: 63
Period size: 21 Copynumber: 1.9 Consensus size: 23
9663266 GTTATGTATA
9663276 TATATATATATATTAAAATTTACT
1 TATATATATATA-TAAAATTTACT
9663300 TATAT-TA-ATATAAAATTTA
1 TATATATATATATAAAATTTA
9663319 TATTTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.47
22 3 0.16
23 2 0.11
24 5 0.26
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (23 bp):
TATATATATATATAAAATTTACT
Found at i:9664368 original size:6 final size:6
Alignment explanation
Indices: 9664359--9664389 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
9664349 AATTTGATAT
9664359 TAAATA TAAATA TAAATA TAAATA TTAAATA
1 TAAATA TAAATA TAAATA TAAATA -TAAATA
9664390 CATATTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
TAAATA
Found at i:9664376 original size:12 final size:13
Alignment explanation
Indices: 9664355--9664389 Score: 63
Period size: 12 Copynumber: 2.8 Consensus size: 13
9664345 TTTGAATTTG
9664355 ATATTAAATATAA
1 ATATTAAATATAA
9664368 ATA-TAAATATAA
1 ATATTAAATATAA
9664380 ATATTAAATA
1 ATATTAAATA
9664390 CATATTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 12 0.57
13 9 0.43
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
ATATTAAATATAA
Found at i:9664552 original size:29 final size:29
Alignment explanation
Indices: 9664507--9664606 Score: 107
Period size: 29 Copynumber: 3.5 Consensus size: 29
9664497 ATTTATTATT
*
9664507 TTAATCGTA-TT-CTTGTATATATTCGTA
1 TTAATCGTATTTATTTGTATATATTCGTA
*
9664534 TTAATCGTATTTATTTGTATATA-TCTATA
1 TTAATCGTATTTATTTGTATATATTC-GTA
** *
9664563 TTAATAATATTTATTTATATATATTCGTA
1 TTAATCGTATTTATTTGTATATATTCGTA
* *
9664592 TTATTCGTACTTATT
1 TTAATCGTATTTATT
9664607 CATATTTCAT
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
27 9 0.15
28 4 0.07
29 44 0.75
30 2 0.03
ACGTcount: A:0.30, C:0.08, G:0.07, T:0.55
Consensus pattern (29 bp):
TTAATCGTATTTATTTGTATATATTCGTA
Found at i:9664742 original size:26 final size:25
Alignment explanation
Indices: 9664708--9664766 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
9664698 TTTAAATACG
*
9664708 TTTT-ATAATTCATATTATATTTATA
1 TTTTAATAATTCATATAAT-TTTATA
* *
9664733 TTTTAATAATTTATATAATTTTATG
1 TTTTAATAATTCATATAATTTTATA
9664758 TATTTAATA
1 T-TTTAATA
9664767 TAATATAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 10 0.34
26 19 0.66
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (25 bp):
TTTTAATAATTCATATAATTTTATA
Found at i:9665934 original size:15 final size:16
Alignment explanation
Indices: 9665914--9665956 Score: 70
Period size: 15 Copynumber: 2.8 Consensus size: 16
9665904 ATAATTTAAC
9665914 TCTAATAAGTTATTA-
1 TCTAATAAGTTATTAT
9665929 TCTAATAAGTTATTAT
1 TCTAATAAGTTATTAT
*
9665945 TCTAATGAGTTA
1 TCTAATAAGTTA
9665957 GAGTAGAGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 15 0.58
16 11 0.42
ACGTcount: A:0.37, C:0.07, G:0.09, T:0.47
Consensus pattern (16 bp):
TCTAATAAGTTATTAT
Found at i:9668980 original size:25 final size:25
Alignment explanation
Indices: 9668952--9669000 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
9668942 AATCATCAAA
*
9668952 GCCTAATCGAAAGAAAATTCCATAT
1 GCCTAATCAAAAGAAAATTCCATAT
*
9668977 GCCTAATCAAAAGAAATTTCCATA
1 GCCTAATCAAAAGAAAATTCCATA
9669001 CGCATGATGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.45, C:0.20, G:0.10, T:0.24
Consensus pattern (25 bp):
GCCTAATCAAAAGAAAATTCCATAT
Found at i:9679493 original size:13 final size:13
Alignment explanation
Indices: 9679475--9679499 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9679465 TGCATCTTAT
9679475 TTTAATTATGTTA
1 TTTAATTATGTTA
9679488 TTTAATTATGTT
1 TTTAATTATGTT
9679500 GTTTTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (13 bp):
TTTAATTATGTTA
Found at i:9685512 original size:24 final size:24
Alignment explanation
Indices: 9685443--9685516 Score: 66
Period size: 24 Copynumber: 3.2 Consensus size: 24
9685433 TCTCAAAAAC
*
9685443 TGAAACTCTAAAAC-TTTTCAAATG
1 TGAATCTCT-AAACTTTTTCAAATG
* ** *
9685467 TGAATAT-TTGA-TTTTT-AGATG
1 TGAATCTCTAAACTTTTTCAAATG
9685488 TGAATCTCTAAACTTTTTCAAATG
1 TGAATCTCTAAACTTTTTCAAATG
9685512 TGAAT
1 TGAAT
9685517 AGTTAATTTT
Statistics
Matches: 37, Mismatches: 9, Indels: 8
0.69 0.17 0.15
Matches are distributed among these distances:
21 10 0.27
22 7 0.19
23 6 0.16
24 14 0.38
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.42
Consensus pattern (24 bp):
TGAATCTCTAAACTTTTTCAAATG
Found at i:9685512 original size:45 final size:45
Alignment explanation
Indices: 9685443--9685541 Score: 137
Period size: 45 Copynumber: 2.2 Consensus size: 45
9685433 TCTCAAAAAC
* * * *
9685443 TGAAACTCTAAAACTTTTCAAATGTGAATATTTGATTTTTAGATG
1 TGAATCTCTAAAACTTTTCAAATGTGAATAGTTAATTTTTAGATA
*
9685488 TGAATCTCT-AAACTTTTTCAAATGTGAATAGTTAATTTTTATATA
1 TGAATCTCTAAAAC-TTTTCAAATGTGAATAGTTAATTTTTAGATA
9685533 TGAATCTCT
1 TGAATCTCT
9685542 GAAATTTGTT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 4 0.08
45 44 0.92
ACGTcount: A:0.34, C:0.10, G:0.11, T:0.44
Consensus pattern (45 bp):
TGAATCTCTAAAACTTTTCAAATGTGAATAGTTAATTTTTAGATA
Found at i:9686311 original size:14 final size:15
Alignment explanation
Indices: 9686292--9686325 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
9686282 GGAAATTTTT
9686292 TGAGATTT-TCAAGA
1 TGAGATTTATCAAGA
*
9686306 TGAGATTTATCAAGT
1 TGAGATTTATCAAGA
9686321 TGAGA
1 TGAGA
9686326 ATTCAAGCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.35
Consensus pattern (15 bp):
TGAGATTTATCAAGA
Found at i:9686457 original size:62 final size:62
Alignment explanation
Indices: 9686381--9686500 Score: 179
Period size: 62 Copynumber: 1.9 Consensus size: 62
9686371 GTTAGAGTTG
* *
9686381 TTAAGCCCAATCTAGCTAGCATAAAGTTTTAAGC-TAAATTAAGTTGGCATGAAATGAGTGTT
1 TTAAGCCCAATCTAGCTAGCACAAAGTTTTAAACGT-AATTAAGTTGGCATGAAATGAGTGTT
* * *
9686443 TTAAGCCCATTCTAGCTAGCACAAAGTTTTAAACGTAGTTAAGTTGGCATGAGATGAG
1 TTAAGCCCAATCTAGCTAGCACAAAGTTTTAAACGTAATTAAGTTGGCATGAAATGAG
9686501 AATTCTAAGC
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
62 51 0.98
63 1 0.02
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (62 bp):
TTAAGCCCAATCTAGCTAGCACAAAGTTTTAAACGTAATTAAGTTGGCATGAAATGAGTGTT
Found at i:9686692 original size:49 final size:49
Alignment explanation
Indices: 9686616--9686871 Score: 245
Period size: 49 Copynumber: 5.2 Consensus size: 49
9686606 AAGATAAAAA
* *
9686616 TTTTAAAGTTTCAATACCTTTGATTAGATGAGCTTTTTTCAAATGAGAT
1 TTTTAAAGTTTCAATGCCTCTGATTAGATGAGCTTTTTTCAAATGAGAT
* ** * ** * *
9686665 TTTTAAAATTTCAATGTGTTTTTTTAGAGGAG-TTTTTCTCAATTGAGAT
1 TTTTAAAGTTTCAATGCCTCTGATTAGATGAGCTTTTT-TCAAATGAGAT
* * * *
9686714 TTCTAAAGTTTTC-ATGCGTCTGATTAGATGAGC-ATTTTCTAGATGAGAT
1 TTTTAAAG-TTTCAATGCCTCTGATTAGATGAGCTTTTTTC-AAATGAGAT
* * *
9686763 TTTT-AAGTTTCAATACCTCTGATTAGAAT-ATCTTTTCTT-AGATGAGAT
1 TTTTAAAGTTTCAATGCCTCTGATTAG-ATGAGCTTTT-TTCAAATGAGAT
* * *
9686811 TTCTAAAGTTTCAATGCCTTTGATTAGATGAGCATTTTTCAAATGAGAT
1 TTTTAAAGTTTCAATGCCTCTGATTAGATGAGCTTTTTTCAAATGAGAT
9686860 TTTTAAAGTTTC
1 TTTTAAAGTTTC
9686872 TTAGCCTCTG
Statistics
Matches: 166, Mismatches: 30, Indels: 22
0.76 0.14 0.10
Matches are distributed among these distances:
47 4 0.02
48 40 0.24
49 116 0.70
50 6 0.04
ACGTcount: A:0.29, C:0.11, G:0.16, T:0.45
Consensus pattern (49 bp):
TTTTAAAGTTTCAATGCCTCTGATTAGATGAGCTTTTTTCAAATGAGAT
Found at i:9686887 original size:146 final size:146
Alignment explanation
Indices: 9686615--9686887 Score: 329
Period size: 146 Copynumber: 1.9 Consensus size: 146
9686605 TAAGATAAAA
* *
9686615 ATTTTAAAGTTTCAATACCTTTGATTAGATGAGCTTTTTTCAAATGAGATTTTTAAAATTTCAAT
1 ATTTTAAAGTTTCAATACCTCTGATTAGATGAGCTTTTTTCAAATGAGATTTCTAAAATTTCAAT
** ** * * *
9686680 GTGTTTTTTTAGAGGAGTTTTTCTCAATTGAGATTTCTAAAGTTTTCATGCGTCTGATTAGATGA
66 GCCTTTGATTAGAGGAGATTTTCTCAAATGAGATTTCTAAAGTTTTCATGCCTCTGATTAGATGA
9686745 GCATTTTCTAGATGAG
131 GCATTTTCTAGATGAG
* * * *
9686761 ATTTTTAAGTTTCAATACCTCTGATTAGAAT-ATCTTTTCTT-AGATGAGATTTCTAAAGTTTCA
1 ATTTTAAAGTTTCAATACCTCTGATTAG-ATGAGCTTTT-TTCAAATGAGATTTCTAAAATTTCA
* * * *
9686824 ATGCCTTTGATTAGATGAGCATTTT-TCAAATGAGATTTTTAAAG-TTTCTTAGCCTCTGTTTAG
64 ATGCCTTTGATTAGAGGAG-ATTTTCTCAAATGAGATTTCTAAAGTTTTCAT-GCCTCTGATTAG
9686887 A
127 A
9686888 GGAACATTCA
Statistics
Matches: 106, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
145 5 0.05
146 93 0.88
147 8 0.08
ACGTcount: A:0.28, C:0.11, G:0.16, T:0.45
Consensus pattern (146 bp):
ATTTTAAAGTTTCAATACCTCTGATTAGATGAGCTTTTTTCAAATGAGATTTCTAAAATTTCAAT
GCCTTTGATTAGAGGAGATTTTCTCAAATGAGATTTCTAAAGTTTTCATGCCTCTGATTAGATGA
GCATTTTCTAGATGAG
Found at i:9704595 original size:22 final size:22
Alignment explanation
Indices: 9704556--9704597 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
9704546 TTTGTCTTTT
*
9704556 TGGTTTTGATTTTGTTTTATGA
1 TGGTTTTGATTGTGTTTTATGA
9704578 TGGTTTTGA-TGTGATTTTAT
1 TGGTTTTGATTGTG-TTTTAT
9704598 AAGCTAGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.14, C:0.00, G:0.24, T:0.62
Consensus pattern (22 bp):
TGGTTTTGATTGTGTTTTATGA
Found at i:9708611 original size:429 final size:437
Alignment explanation
Indices: 9707807--9708618 Score: 1111
Period size: 429 Copynumber: 1.9 Consensus size: 437
9707797 TAGAGCAAAC
* * ** *
9707807 ATATATATATATATGCATTATAAATGAGGACATTAATTTGAAAAATGAAATGTATGCCAATGATG
1 ATATATATATACATGCATTATAAATGAGGACATTAATTGGAAAAATGAAACATATACCAATGATG
* * * **
9707872 ATCAAATACGAATTTAAGAATCAAGTTTACAAATATAAAGAGGCCACCTGGACTCTCCAACATCT
66 ATCAAATACAAATATAAGAATCAAGTTTACAAATATAAAGAGACCACCTCAACTCTCCAACATCT
* ** *
9707937 AGGCAGAGTTTGGGTGCGAATTTTTATATTTAAAATCTTGTTCTATTATCTTTTATTATTATTAT
131 AGGCAGAGTTTGGGTGCGAATTTTAATATTTAAAATCTCATCCTATTATCTTTTATTATTATTAT
* * *
9708002 TATCATGTATTTTTATAATCATGGTTTTACCGAAGAGAATTTATTTTGAGTTGTGAAAATGTATG
196 TATCA-GTA-TTTTATAATCATGGTTTTAACAAAGAGAATTTATTTTGAGTTATGAAAATGTATG
* * * * * *
9708067 AAAATTCTTAATGAAATAAAATTTCCTAAATACCCTAACATCTAGGTAGCTTTCGAGAATAGATT
259 AAAATTCTGAATGAAATAAAATTTCATAAATACCCCAACATCTAGGCAGCTTTCAAGAACAGATT
* * * ** *
9708132 ATTTCATAAAATGTTTTCATGCAAATCCTTAGAAATTTAAAATGAGTTTGAGGTTTTAGATAGGT
324 ATTTCATAAAAGGTTTTCATGCAAATCCTTAAAAAATTAAAACAAGTTTGAGATTTTAGATAGGT
9708197 TTGGGTTCAAATTTTAAAAATTTACGAATCTCTCTAAAAACATATATAT
389 TTGGGTTCAAATTTTAAAAATTTACGAATCTCTCTAAAAACATATATAT
* * *
9708246 ATATATATATACATGCATTATAAATGAGGACATTAATTGGGAAAATGAAACATCTACGAATGATG
1 ATATATATATACATGCATTATAAATGAGGACATTAATTGGAAAAATGAAACATATACCAATGATG
* * * * ** * *
9708311 ATTAAATACAAATATAAGAATCGAGTTTTCAAATAT-TAGAGACCATTTCAACTCTCTAACATTT
66 ATCAAATACAAATATAAGAATCAAGTTTACAAATATAAAGAGACCACCTCAACTCTCCAACATCT
*
9708375 AGGTAGAGTTTGGGTGCGAATTTTAATATTTAAAATCTCATCCTATTAT-TTTTATTA-TA-TA-
131 AGGCAGAGTTTGGGTGCGAATTTTAATATTTAAAATCTCATCCTATTATCTTTTATTATTATTAT
* *
9708436 TAT-A-TA-TTTATAATCATGGTTTTAACAAAGTGAATTTATTTTGAGTTATGGAAATGTATGAA
196 TATCAGTATTTTATAATCATGGTTTTAACAAAGAGAATTTATTTTGAGTTATGAAAATGTATGAA
* *
9708498 AATTCTGAATGAAATAAAATTTCATAAATACCCCAACATCTATGCCG-TATTCAAGAACAGATTA
261 AATTCTGAATGAAATAAAATTTCATAAATACCCCAACATCTAGGCAGCT-TTCAAGAACAGATTA
* *
9708562 TTTCATAAAAGGTTTTTATGTAAATCCTTAAAAAATTAAAACAAGTTTGAGATTTTA
325 TTTCATAAAAGGTTTTCATGCAAATCCTTAAAAAATTAAAACAAGTTTGAGATTTTA
9708619 TGAAATTATG
Statistics
Matches: 325, Mismatches: 47, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
428 1 0.00
429 154 0.47
431 2 0.01
433 1 0.00
434 3 0.01
435 2 0.01
436 2 0.01
437 8 0.02
438 64 0.20
439 88 0.27
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (437 bp):
ATATATATATACATGCATTATAAATGAGGACATTAATTGGAAAAATGAAACATATACCAATGATG
ATCAAATACAAATATAAGAATCAAGTTTACAAATATAAAGAGACCACCTCAACTCTCCAACATCT
AGGCAGAGTTTGGGTGCGAATTTTAATATTTAAAATCTCATCCTATTATCTTTTATTATTATTAT
TATCAGTATTTTATAATCATGGTTTTAACAAAGAGAATTTATTTTGAGTTATGAAAATGTATGAA
AATTCTGAATGAAATAAAATTTCATAAATACCCCAACATCTAGGCAGCTTTCAAGAACAGATTAT
TTCATAAAAGGTTTTCATGCAAATCCTTAAAAAATTAAAACAAGTTTGAGATTTTAGATAGGTTT
GGGTTCAAATTTTAAAAATTTACGAATCTCTCTAAAAACATATATAT
Found at i:9711273 original size:14 final size:14
Alignment explanation
Indices: 9711256--9711286 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
9711246 TAGACACCAT
9711256 TTTATTTATTATTA
1 TTTATTTATTATTA
9711270 TTTATTTATTATTA
1 TTTATTTATTATTA
9711284 TTT
1 TTT
9711287 TCTTTCTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTATTTATTATTA
Found at i:9712425 original size:13 final size:14
Alignment explanation
Indices: 9712407--9712435 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9712397 ATTGATGAAA
9712407 AATAATT-AATAAT
1 AATAATTAAATAAT
9712420 AATAATTAAATAAT
1 AATAATTAAATAAT
9712434 AA
1 AA
9712436 AAAATGTAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
AATAATTAAATAAT
Found at i:9724678 original size:29 final size:28
Alignment explanation
Indices: 9724640--9724805 Score: 116
Period size: 29 Copynumber: 5.5 Consensus size: 28
9724630 GTTTTAAGGG
9724640 TTTTAGGGTTTCAAAGGTTTAGGGTTTAA
1 TTTTAGGGTTT-AAAGGTTTAGGGTTTAA
** *
9724669 TTTTAGGGTTTGGAGGTTTAGGGTTTCA
1 TTTTAGGGTTTAAAGGTTTAGGGTTTAA
* ** * *
9724697 TTTTCGGGTTTGGAGAATTTAGGGTTTAG
1 TTTTAGGGTTTAAAG-GTTTAGGGTTTAA
* *
9724726 TTTTAGGGTTTAAAGGGTTGGGGCTTTGATTTTGA
1 TTTTAGGGTTTAAAGGTTTAGGG-TTT-A-----A
* * *
9724761 TTTTAGGGTTTTCAAGGTTTGGGGATTTGA
1 TTTTAGGG-TTTAAAGGTTTAGGG-TTTAA
9724791 TTTTAGGGTTTAAAG
1 TTTTAGGGTTTAAAG
9724806 AGAATGCGAA
Statistics
Matches: 109, Mismatches: 19, Indels: 18
0.75 0.13 0.12
Matches are distributed among these distances:
28 33 0.30
29 42 0.39
30 10 0.09
35 8 0.07
36 16 0.15
ACGTcount: A:0.19, C:0.03, G:0.33, T:0.46
Consensus pattern (28 bp):
TTTTAGGGTTTAAAGGTTTAGGGTTTAA
Found at i:9724692 original size:28 final size:28
Alignment explanation
Indices: 9724640--9724736 Score: 122
Period size: 29 Copynumber: 3.4 Consensus size: 28
9724630 GTTTTAAGGG
**
9724640 TTTTAGGGTTTCAAAGGTTTAGGGTTTAA
1 TTTTAGGGTTT-GGAGGTTTAGGGTTTAA
*
9724669 TTTTAGGGTTTGGAGGTTTAGGGTTTCA
1 TTTTAGGGTTTGGAGGTTTAGGGTTTAA
* * *
9724697 TTTTCGGGTTTGGAGAATTTAGGGTTTAG
1 TTTTAGGGTTTGGAG-GTTTAGGGTTTAA
9724726 TTTTAGGGTTT
1 TTTTAGGGTTT
9724737 AAAGGGTTGG
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
28 28 0.47
29 31 0.53
ACGTcount: A:0.18, C:0.03, G:0.32, T:0.47
Consensus pattern (28 bp):
TTTTAGGGTTTGGAGGTTTAGGGTTTAA
Found at i:9724765 original size:35 final size:36
Alignment explanation
Indices: 9724726--9724794 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
9724716 TAGGGTTTAG
*
9724726 TTTTAGGG-TTTAAAGGGTTGGGGCTTTGATTTTGA
1 TTTTAGGGTTTTAAAGGGTTGGGGATTTGATTTTGA
* *
9724761 TTTTAGGGTTTTCAAGGTTTGGGGATTTGATTTT
1 TTTTAGGGTTTTAAAGGGTTGGGGATTTGATTTT
9724795 AGGGTTTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 8 0.27
36 22 0.73
ACGTcount: A:0.16, C:0.03, G:0.32, T:0.49
Consensus pattern (36 bp):
TTTTAGGGTTTTAAAGGGTTGGGGATTTGATTTTGA
Found at i:9724930 original size:3 final size:3
Alignment explanation
Indices: 9724924--9724974 Score: 75
Period size: 3 Copynumber: 16.3 Consensus size: 3
9724914 ATGAAAATTC
*
9724924 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATTT ATT AGTT ATT ATT ATA
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT A-TT ATT ATT ATT
9724971 ATT A
1 ATT A
9724975 ATTAATAATT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
3 38 0.86
4 6 0.14
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:9725259 original size:36 final size:36
Alignment explanation
Indices: 9725192--9725299 Score: 126
Period size: 36 Copynumber: 3.0 Consensus size: 36
9725182 CCGTGAATCA
* * *
9725192 AAAAATAACGAATTGACCAAGACAACACCACAAGTC
1 AAAAGTAAAGAATCGACCAAGACAACACCACAAGTC
* * *
9725228 AAAAGTAAAGAATCGACCGAGACAACGCCACAAGTT
1 AAAAGTAAAGAATCGACCAAGACAACACCACAAGTC
* * * *
9725264 AGAAGTAAAGAATCGACTAGGACAACACCGCAAGTC
1 AAAAGTAAAGAATCGACCAAGACAACACCACAAGTC
9725300 GAGAAATGAA
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 59 1.00
ACGTcount: A:0.48, C:0.23, G:0.18, T:0.11
Consensus pattern (36 bp):
AAAAGTAAAGAATCGACCAAGACAACACCACAAGTC
Found at i:9725489 original size:38 final size:38
Alignment explanation
Indices: 9725442--9725610 Score: 119
Period size: 38 Copynumber: 4.5 Consensus size: 38
9725432 TAACTTCATA
* * *
9725442 AGTCGAAAAGTCAAGAAAACAACCACGACAGCACCATG
1 AGTCAAAAAGTCAAGAAAACAACCACGACAACACCACG
* ** * *
9725480 AGTCAAAAAGTAAAGAAAATGATCAGGACAACACCACG
1 AGTCAAAAAGTCAAGAAAACAACCACGACAACACCACG
** * ** *
9725518 AGTCAAAAA-TCAAGAAAATGATCGGGACAACACCGCG
1 AGTCAAAAAGTCAAGAAAACAACCACGACAACACCACG
** * ** *
9725555 AGTCAAAAAGT-AATGAAAATGATCGGGATAACACCACG
1 AGTCAAAAAGTCAA-GAAAACAACCACGACAACACCACG
*
9725593 AGTCGAAAAGT-AAGAAAA
1 AGTCAAAAAGTCAAGAAAA
9725611 TGACATAAAC
Statistics
Matches: 115, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
37 41 0.36
38 74 0.64
ACGTcount: A:0.50, C:0.19, G:0.20, T:0.11
Consensus pattern (38 bp):
AGTCAAAAAGTCAAGAAAACAACCACGACAACACCACG
Found at i:9725531 original size:75 final size:76
Alignment explanation
Indices: 9725442--9725738 Score: 232
Period size: 75 Copynumber: 4.0 Consensus size: 76
9725432 TAACTTCATA
* *
9725442 AGTCGAAAAGTCAAGAAAACAACCACGACAGCACCATGAGTCAAAAAGTAAAGAAAATGATCAGG
1 AGTCGAAAAGTCAAGAAAACAACCACGACAACACCACGAGTCAAAAAGTAAAGAAAATGATCAGG
9725507 ACAACACCACG
66 ACAACACCACG
* ** * ** * * *
9725518 AGTC-AAAAATCAAGAAAATGATCGGGACAACACCGCGAGTCAAAAAGTAATGAAAATGATCGGG
1 AGTCGAAAAGTCAAGAAAACAACCACGACAACACCACGAGTCAAAAAGTAAAGAAAATGATCAGG
*
9725582 ATAACACCACG
66 ACAACACCACG
** ** ** * * * *
9725593 AGTCGAAAAGT-AAGAAAATGA-CATAAACAACACTGCTAGTCGAGAAGTAAAG-AATTGA-CTA
1 AGTCGAAAAGTCAAGAAAACAACCA-CGACAACACCACGAGTCAAAAAGTAAAGAAAATGATC-A
9725654 GGACAACACCACG
64 GGACAACACCACG
* ** * * * * *
9725667 AGTCAAAAAGT-AAGAAAATGACCAGGGCAATACCACGAGTTGAATAA-TAAAGAAAATGATC-G
1 AGTCGAAAAGTCAAGAAAACAACCACGACAACACCACGAG-TCAAAAAGTAAAGAAAATGATCAG
9725729 AGACAACACC
65 -GACAACACC
9725739 GCAAGTCAAA
Statistics
Matches: 177, Mismatches: 36, Indels: 17
0.77 0.16 0.07
Matches are distributed among these distances:
73 1 0.01
74 52 0.29
75 114 0.64
76 10 0.06
ACGTcount: A:0.48, C:0.19, G:0.20, T:0.13
Consensus pattern (76 bp):
AGTCGAAAAGTCAAGAAAACAACCACGACAACACCACGAGTCAAAAAGTAAAGAAAATGATCAGG
ACAACACCACG
Found at i:9725546 original size:37 final size:37
Alignment explanation
Indices: 9725468--9725756 Score: 230
Period size: 37 Copynumber: 7.7 Consensus size: 37
9725458 AAACAACCAC
* * *
9725468 GACAGCACCATGAGTCAAAAAGTAAAGAAAATGATCAG
1 GACAACACCACGAGTCAAAAA-TAAAGAAAATGATCGG
*
9725506 GACAACACCACGAGTCAAAAATCAAGAAAATGATCGG
1 GACAACACCACGAGTCAAAAATAAAGAAAATGATCGG
* *
9725543 GACAACACCGCGAGTCAAAAAGTAATGAAAATGATCGG
1 GACAACACCACGAGTCAAAAA-TAAAGAAAATGATCGG
* * **
9725581 GATAACACCACGAGTCGAAAAGT-AAGAAAATGA-CATA
1 GACAACACCACGAGTC-AAAAATAAAGAAAATGATC-GG
* ** * * * * *
9725618 AACAACACTGCTAGTCGAGAAGTAAAG-AATTGA-CTAG
1 GACAACACCACGAGTC-AAAAATAAAGAAAATGATC-GG
*
9725655 GACAACACCACGAGTCAAAAAGT-AAGAAAATGACCAGG
1 GACAACACCACGAGTCAAAAA-TAAAGAAAATGATC-GG
* * * *
9725693 G-CAATACCACGAGTTGAATAATAAAGAAAATGATCGA
1 GACAACACCACGAG-TCAAAAATAAAGAAAATGATCGG
* *
9725730 GACAACACCGCAAGTCAAAAATAAAGA
1 GACAACACCACGAGTCAAAAATAAAGA
9725757 CTCAACTGGG
Statistics
Matches: 199, Mismatches: 42, Indels: 21
0.76 0.16 0.08
Matches are distributed among these distances:
36 7 0.04
37 109 0.55
38 79 0.40
39 4 0.02
ACGTcount: A:0.49, C:0.18, G:0.20, T:0.13
Consensus pattern (37 bp):
GACAACACCACGAGTCAAAAATAAAGAAAATGATCGG
Found at i:9725813 original size:22 final size:22
Alignment explanation
Indices: 9725788--9725835 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
9725778 AGTCAAAACC
*
9725788 ATGCATGGAGGTCTTAAAAATT
1 ATGCATGAAGGTCTTAAAAATT
* * *
9725810 ATGCTTGAAGGTCTTAGAGATT
1 ATGCATGAAGGTCTTAAAAATT
9725832 ATGC
1 ATGC
9725836 CTAGAGGACT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.31, C:0.10, G:0.25, T:0.33
Consensus pattern (22 bp):
ATGCATGAAGGTCTTAAAAATT
Found at i:9726064 original size:127 final size:126
Alignment explanation
Indices: 9725833--9726365 Score: 663
Period size: 127 Copynumber: 4.2 Consensus size: 126
9725823 TTAGAGATTA
* * * * *
9725833 TGCCTAGAGGACTTGAAAGTTGTGCCTAAAGGTTTTAGAGATTATACCCAAAGGTTTTATAAATC
1 TGCCCAGAGGTCTTGAAAATTATGCCTAAAGGTTTTAGAGATTATGCCCAAAGGTTTTATAAATC
*
9725898 TCAAAATCTTTGAATGCTCTTCCTAATCAGAGGCAATGAAACTTTAAAATTTAAAAAT-TCTT
66 TCAAAATC-TTGAATGCTCCTCCTAATCAGAGGCAATGAAACTTTAAAATTTAAAAATAT-TT
* * * **
9725960 TGTCCAGAGGTCTTGAAAATTACGCCTAAAGGTATTAGAGATTATGCCCGGAGGTTTTATAAATC
1 TGCCCAGAGGTCTTGAAAATTATGCCTAAAGGTTTTAGAGATTATGCCCAAAGGTTTTATAAATC
* *
9726025 TCAAAATCTGTGAATGCTCCTCCTAATCAGAGGCAATGAAACTTCAAAATTTAAAAATCTTT
66 TCAAAATCT-TGAATGCTCCTCCTAATCAGAGGCAATGAAACTTTAAAATTTAAAAATATTT
* * * * * * * *
9726087 TGCCCAAAAGTCTTGAAAATTATGCCCAAAGATTTTAAAGATTATGCTCAGAGGTCTTATAAATC
1 TGCCCAGAGGTCTTGAAAATTATGCCTAAAGGTTTTAGAGATTATGCCCAAAGGTTTTATAAATC
* *
9726152 TCAAAATCTATGAATGCTCTTCATAATCAGAGGCAATGAAACTTTAAAATTTAAAAATATTT
66 TCAAAATCT-TGAATGCTCCTCCTAATCAGAGGCAATGAAACTTTAAAATTTAAAAATATTT
* ** * * * * * *
9726214 TACCTGGAAGTCTTGAAAGTTATGCCTAGAGGTCTTAGAGATTATGGCCAAAGGTTTTACAAATC
1 TGCCCAGAGGTCTTGAAAATTATGCCTAAAGGTTTTAGAGATTATGCCCAAAGGTTTTATAAATC
* * * *
9726279 TTAAAATCTTTAATGCTCCTCCCTAATAAAAGGCAATGAAACTTTAAAATTTAAAAATATTT
66 TCAAAATCTTGAATGCTCCT-CCTAATCAGAGGCAATGAAACTTTAAAATTTAAAAATATTT
* * *
9726341 TACCCAGAGGTTTTGAAAGTTATGC
1 TGCCCAGAGGTCTTGAAAATTATGC
9726366 TCAGAGGTCT
Statistics
Matches: 350, Mismatches: 53, Indels: 6
0.86 0.13 0.01
Matches are distributed among these distances:
126 10 0.03
127 339 0.97
128 1 0.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (126 bp):
TGCCCAGAGGTCTTGAAAATTATGCCTAAAGGTTTTAGAGATTATGCCCAAAGGTTTTATAAATC
TCAAAATCTTGAATGCTCCTCCTAATCAGAGGCAATGAAACTTTAAAATTTAAAAATATTT
Found at i:9726409 original size:105 final size:103
Alignment explanation
Indices: 9726241--9726576 Score: 383
Period size: 105 Copynumber: 3.2 Consensus size: 103
9726231 AGTTATGCCT
* * * * *
9726241 AGAGGTCTT-AGAGATTATGGCCAA-AGGTTTTACAAATCTTAAAATCTTTAATGCTCCTCCCTA
1 AGAGGTCTTGA-AAATTAT-GCCAAGAGGTCTTACAAATCTCAAAATCTTAAATGCTTCT-CCTA
*
9726304 ATAAAAGGCAATGAAACTTTAAAATTTAAAAATATTTTACCC
63 ATAAGAGGCAATGAAACTTTAAAATTTAAAAATATTTTA-CC
* * * *
9726346 AGAGGTTTTGAAAGTTATGCTC-AGAGGTCTTACAATTCTCAAAATCGTTGAATGCTTCTCCTAA
1 AGAGGTCTTGAAAATTATGC-CAAGAGGTCTTACAAATCTCAAAATC-TTAAATGCTTCTCCTAA
* * *
9726410 TAAGAGGCAATGAAACTTTAAAATTTTAAAATCTTTTTCC
64 TAAGAGGCAATGAAACTTTAAAATTTAAAAATATTTTACC
* * *
9726450 TGAAGGTCTTGAAATTTATGCCAAGAGGTCTTACAAATCTCAAAATCTTTAAATGC-TCTTCCCA
1 AG-AGGTCTTGAAAATTATGCCAAGAGGTCTTACAAATCTCAAAATC-TTAAATGCTTC-TCCTA
* * *
9726514 ATCAGAGGCTATAAAACTTTAAAATTTAAAAATATTTTGACC
63 ATAAGAGGCAATGAAACTTTAAAATTTAAAAATATTTT-ACC
9726556 AGAGGTCTTGAAAATTATGCC
1 AGAGGTCTTGAAAATTATGCC
9726577 TGAAGGTTTT
Statistics
Matches: 196, Mismatches: 27, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
104 9 0.05
105 173 0.88
106 14 0.07
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (103 bp):
AGAGGTCTTGAAAATTATGCCAAGAGGTCTTACAAATCTCAAAATCTTAAATGCTTCTCCTAATA
AGAGGCAATGAAACTTTAAAATTTAAAAATATTTTACC
Found at i:9726981 original size:33 final size:33
Alignment explanation
Indices: 9726914--9727216 Score: 120
Period size: 33 Copynumber: 9.4 Consensus size: 33
9726904 AGGTCATATG
* *
9726914 AATTGGGC-TCAAATTTCAATGAGGGCCAACTA
1 AATTGGGCTTAAAATTTCAATGAGGGCCAAATA
**
9726946 AATTGGGCTTAAAATTTCTTTG-GGGACCAAATA
1 AATTGGGCTTAAAATTTCAATGAGGG-CCAAATA
* * *
9726979 AATTGGGTTTAAGA-TT--A-GA-GGCCAGATA
1 AATTGGGCTTAAAATTTCAATGAGGGCCAAATA
* ** * **
9727007 AACTAAGCTTAAAATTTCCTATG-GGGCCAGCTA
1 AATTGGGCTTAAAATTT-CAATGAGGGCCAAATA
* * * ** * *
9727040 AACTGAGCTTAAGATTTCTTTGGGGGCCAGATA
1 AATTGGGCTTAAAATTTCAATGAGGGCCAAATA
* * *** * * *
9727073 AACT-GGCTTAAGATTTTTTTAAGGGCTAGATA
1 AATTGGGCTTAAAATTTCAATGAGGGCCAAATA
* * * * * *
9727105 AACTGGGCTTAAAACTTCATTAATGGCCAGATA
1 AATTGGGCTTAAAATTTCAATGAGGGCCAAATA
* * ** * *
9727138 AACTAGGCTTAAAATTTCCTTGAGGGCTAACTA
1 AATTGGGCTTAAAATTTCAATGAGGGCCAAATA
* * * * *
9727171 AACTGGGCTTAAAACTTCATTGATGGCCAGATA
1 AATTGGGCTTAAAATTTCAATGAGGGCCAAATA
9727204 AATTGGGCTTAAA
1 AATTGGGCTTAAA
9727217 TCTTTTTTGA
Statistics
Matches: 215, Mismatches: 45, Indels: 21
0.77 0.16 0.07
Matches are distributed among these distances:
28 15 0.07
29 5 0.02
32 45 0.21
33 150 0.70
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (33 bp):
AATTGGGCTTAAAATTTCAATGAGGGCCAAATA
Found at i:9727172 original size:131 final size:131
Alignment explanation
Indices: 9726998--9727284 Score: 357
Period size: 131 Copynumber: 2.2 Consensus size: 131
9726988 TAAGATTAGA
* * * * * *
9726998 GGCCAGATAAACTAAGCTTAAAATTTCCTATGGGGCCAGCTAAACTGAGCTTAAGATTTCTTTGG
1 GGCCAGATAAACTAGGCTTAAAATTTCCTATGGGGCCAACTAAACTGAGCTTAAAACTTCATTGA
9727063 GGGCCAGATAAACT-GGCTTAAGAT-TTTTTT-AAGGGCTAGATAAACTGGGCTTAAAACTTCAT
66 GGGCCAGATAAACTGGGCTTAA-ATCTTTTTTGAA-GGCTAGATAAACTGGGCTT-AAACTTCAT
*
9727125 TAAT
128 TAAG
* *
9727129 GGCCAGATAAACTAGGCTTAAAATTTCCT-TGAGGGCTAACTAAACTGGGCTTAAAACTTCATTG
1 GGCCAGATAAACTAGGCTTAAAATTTCCTATG-GGGCCAACTAAACTGAGCTTAAAACTTCATTG
* * * * *
9727193 ATGGCCAGATAAATTGGGCTTAAATCTTTTTTGAAGGCTAGGTAAACTGGGCTTAAATTTCATTG
65 AGGGCCAGATAAACTGGGCTTAAATCTTTTTTGAAGGCTAGATAAACTGGGCTTAAACTTCATTA
9727258 AG
130 AG
* * *
9727260 GGCTAGCTAAACTAGGGTTAAAATT
1 GGCCAGATAAACTAGGCTTAAAATT
9727285 GGAGGCCAGC
Statistics
Matches: 135, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
130 2 0.01
131 100 0.74
132 31 0.23
133 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (131 bp):
GGCCAGATAAACTAGGCTTAAAATTTCCTATGGGGCCAACTAAACTGAGCTTAAAACTTCATTGA
GGGCCAGATAAACTGGGCTTAAATCTTTTTTGAAGGCTAGATAAACTGGGCTTAAACTTCATTAA
G
Found at i:9727174 original size:66 final size:66
Alignment explanation
Indices: 9726998--9727284 Score: 278
Period size: 66 Copynumber: 4.4 Consensus size: 66
9726988 TAAGATTAGA
* * * * * * *
9726998 GGCCAGATAAACTAAGCTTAAAATTTCCTATG-GGGCCAGCTAAACTGAGCTTAAGATTTCTTTG
1 GGCCAGATAAACTAGGCTTAAAATTTCCT-TGAGGGCTAACTAAACTGGGCTTAAAACTTCATTG
*
9727062 GG
65 AG
* ** * *
9727064 GGCCAGATAAACT-GGCTTAAGATTTTTTTAAGGGCTAGA-TAAACTGGGCTTAAAACTTCATTA
1 GGCCAGATAAACTAGGCTTAAAATTTCCTTGAGGGCTA-ACTAAACTGGGCTTAAAACTTCATTG
*
9727127 AT
65 AG
9727129 GGCCAGATAAACTAGGCTTAAAATTTCCTTGAGGGCTAACTAAACTGGGCTTAAAACTTCATTGA
1 GGCCAGATAAACTAGGCTTAAAATTTCCTTGAGGGCTAACTAAACTGGGCTTAAAACTTCATTGA
*
9727194 T
66 G
* * ** * ** *
9727195 GGCCAGATAAATTGGGCTT-AAATCTTTTTTGAAGGCTAGGTAAACTGGGCTT-AAATTTCATTG
1 GGCCAGATAAACTAGGCTTAAAAT-TTCCTTGAGGGCTAACTAAACTGGGCTTAAAACTTCATTG
9727258 AG
65 AG
* * *
9727260 GGCTAGCTAAACTAGGGTTAAAATT
1 GGCCAGATAAACTAGGCTTAAAATT
9727285 GGAGGCCAGC
Statistics
Matches: 182, Mismatches: 33, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
64 1 0.01
65 79 0.43
66 102 0.56
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (66 bp):
GGCCAGATAAACTAGGCTTAAAATTTCCTTGAGGGCTAACTAAACTGGGCTTAAAACTTCATTGA
G
Found at i:9727239 original size:99 final size:98
Alignment explanation
Indices: 9727100--9727282 Score: 244
Period size: 99 Copynumber: 1.9 Consensus size: 98
9727090 TTTAAGGGCT
*
9727100 AGATAAACTGGGCTTAAAACTTCATTAATGGCCAGATAAACTAGGCTTAAAATTTCCTTGAGGGC
1 AGATAAACTGGGCTTAAAACTTCATTAATGGCCAGATAAACTAGGCTT-AAATTTCATTGAGGGC
9727165 TAACTAAACT-GGGCTTAAAACTTCATTGATGGCC
65 TAACTAAACTAGGG-TTAAAACTTCATTGATGGCC
* * ** * * *
9727199 AGATAAATTGGGCTTAAATCTTTTTTGAA-GGCTAGGTAAACTGGGCTTAAATTTCATTGAGGGC
1 AGATAAACTGGGCTTAAAACTTCATT-AATGGCCAGATAAACTAGGCTTAAATTTCATTGAGGGC
*
9727263 TAGCTAAACTAGGGTTAAAA
65 TAACTAAACTAGGGTTAAAA
9727283 TTGGAGGCCA
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
98 30 0.41
99 41 0.56
100 2 0.03
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (98 bp):
AGATAAACTGGGCTTAAAACTTCATTAATGGCCAGATAAACTAGGCTTAAATTTCATTGAGGGCT
AACTAAACTAGGGTTAAAACTTCATTGATGGCC
Found at i:9727244 original size:33 final size:32
Alignment explanation
Indices: 9727038--9727281 Score: 174
Period size: 33 Copynumber: 7.5 Consensus size: 32
9727028 TGGGGCCAGC
* * ** *
9727038 TAAACTGAGCTTAAGATTTCTTTGGGGGCCAGA
1 TAAACTGGGCTTAA-ATTTCATTGAAGGCTAGA
* *
9727071 TAAACT-GGCTTAAGATTT-TTTTAAGGGCTAGA
1 TAAACTGGGCTTAA-ATTTCATTGAA-GGCTAGA
* *
9727103 TAAACTGGGCTTAAAACTTCATT-AATGGCCAGA
1 TAAACTGGGCTT-AAATTTCATTGAA-GGCTAGA
* * *
9727136 TAAACTAGGCTTAAAATTTCCTTGAGGGCTA-A
1 TAAACTGGGCTT-AAATTTCATTGAAGGCTAGA
* * *
9727168 CTAAACTGGGCTTAAAACTTCATTGATGGCCAGA
1 -TAAACTGGGCTT-AAATTTCATTGAAGGCTAGA
* ** *
9727202 TAAATTGGGCTTAAATCTTTTTTGAAGGCTAGG
1 TAAACTGGGCTTAAAT-TTCATTGAAGGCTAGA
* *
9727235 TAAACTGGGCTTAAATTTCATTGAGGGCTAGC
1 TAAACTGGGCTTAAATTTCATTGAAGGCTAGA
9727267 TAAACTAGGG-TTAAA
1 TAAACT-GGGCTTAAA
9727282 ATTGGAGGCC
Statistics
Matches: 171, Mismatches: 31, Indels: 19
0.77 0.14 0.09
Matches are distributed among these distances:
31 3 0.02
32 50 0.29
33 112 0.65
34 6 0.04
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (32 bp):
TAAACTGGGCTTAAATTTCATTGAAGGCTAGA
Found at i:9727464 original size:3 final size:3
Alignment explanation
Indices: 9727456--9727550 Score: 61
Period size: 3 Copynumber: 32.3 Consensus size: 3
9727446 ATGAAAATTC
* *
9727456 ATT ATT ATT ATT -TT -TT ATT ATT ATT GTT GTT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * * * *
9727502 GTT GTT GTT GTT GTT GTT GTT ATT GTT -TT ATT ATTT ATT ATT ATA
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT
9727547 ATT A
1 ATT A
9727551 ATTAATAATT
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
2 6 0.07
3 73 0.89
4 3 0.04
ACGTcount: A:0.22, C:0.00, G:0.11, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:9728578 original size:49 final size:48
Alignment explanation
Indices: 9728497--9728679 Score: 188
Period size: 49 Copynumber: 3.8 Consensus size: 48
9728487 GTTTCAAAAG
* * * * * *
9728497 GATAAGATTTTTAAAGTTATGGAGCCTCTACTTAAAAGAGTTTTTTCTAA
1 GATAAAATTTTTAAAGTTGTTGAGCCTTTACTTAGAGGAG--TTTTCTAA
* * *
9728547 AAT-TAATTTTTAAAGTTGTTGAGCCTTTACTTAGAGGAGCTTTTCCAA
1 GATAAAATTTTTAAAGTTGTTGAGCCTTTACTTAGAGGAG-TTTTCTAA
* * **
9728595 GATAAAATTTTTAAAGTTGTTAAGCCTTTGCTTAGAGGAGCCTTCTAA
1 GATAAAATTTTTAAAGTTGTTGAGCCTTTACTTAGAGGAGTTTTCTAA
* *
9728643 GATGAGAATTTTTAAAGTTGTTGAGCCTATACTTAGA
1 GAT-AAAATTTTTAAAGTTGTTGAGCCTTTACTTAGA
9728680 TGAGCATTCA
Statistics
Matches: 110, Mismatches: 21, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
48 17 0.15
49 91 0.83
50 2 0.02
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (48 bp):
GATAAAATTTTTAAAGTTGTTGAGCCTTTACTTAGAGGAGTTTTCTAA
Found at i:9731275 original size:146 final size:144
Alignment explanation
Indices: 9730881--9731277 Score: 469
Period size: 145 Copynumber: 2.7 Consensus size: 144
9730871 CATTACAACA
* * *
9730881 ATTTCAAATGCACCAAAAATCATGAAATATTATAAAAGTGAAATCTGAAAAGTTTCACGAAAATT
1 ATTTCAAATGCACCAAAAATCATGAAATATTATGAAAGTGAGATCTGAAAAGTTTCATGAAAATT
* * * * *
9730946 CAAGCTTAGG-AAAGCCAAATTATAAAAATACACCTAAAGGGGTATTTTGGTAATTTCACACCTC
66 CAAG-TTTGGAAAAGCTAAATTATGAAAATAC-CCTAAAGGGATATTTTGATAATTTCACACCTC
*
9731010 TCAGGGTACTGCTATG
129 TCAGGGTACTACTATG
* * *
9731026 ATTTTAAATGCACCAAAAATGATGAAATATTATGAAAGTGAGATCTGAAAAGTTTCAT-AAAAAT
1 ATTTCAAATGCACCAAAAATCATGAAATATTATGAAAGTGAGATCTGAAAAGTTTCATGAAAATT
* * **
9731090 CTGAG-CTCAAAAATGCTAAATTATGAAAATACCCCTAAAGGGATATTTTGATAATTTCACACCT
66 C-AAGTTTGGAAAA-GCTAAATTATGAAAATA-CCCTAAAGGGATATTTTGATAATTTCACACCT
*
9731154 C-CAGAGGTACTACTGTG
128 CTCAG-GGTACTACTATG
* ** * * * *
9731171 ATTTCAAATACATTAAAAATCATGAAAATATTATGAAATTCAGATCTAAAAAGTTTTATGAAAAT
1 ATTTCAAATGCACCAAAAATCATG-AAATATTATGAAAGTGAGATCTGAAAAGTTTCATGAAAAT
*
9731236 TCAAGTTTGGAAAAGATAAATTATGAAAATACCCTTAAAGGG
65 TCAAGTTTGGAAAAGCTAAATTATGAAAATACCC-TAAAGGG
9731278 CATTTTAGAA
Statistics
Matches: 211, Mismatches: 32, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
144 12 0.06
145 132 0.63
146 56 0.27
147 11 0.05
ACGTcount: A:0.43, C:0.13, G:0.14, T:0.29
Consensus pattern (144 bp):
ATTTCAAATGCACCAAAAATCATGAAATATTATGAAAGTGAGATCTGAAAAGTTTCATGAAAATT
CAAGTTTGGAAAAGCTAAATTATGAAAATACCCTAAAGGGATATTTTGATAATTTCACACCTCTC
AGGGTACTACTATG
Found at i:9731970 original size:35 final size:35
Alignment explanation
Indices: 9731857--9732084 Score: 135
Period size: 36 Copynumber: 6.4 Consensus size: 35
9731847 TTACATGTTG
* * * *
9731857 AAAAAATAAAAATGATCGAGACAACATCGTAAGTT
1 AAAAAATAAATATGATCGAAACAACATCGCAAGTC
* ** * *
9731892 AAAAACA-AAA-ATGAT-GAAGATAGGATTGCATGTC
1 AAAAA-ATAAATATGATCGAA-ACAACATCGCAAGTC
* *
9731926 AAAAAAATAAATATAATTGAAACAACATCGCAAGTC
1 -AAAAAATAAATATGATCGAAACAACATCGCAAGTC
* * * *
9731962 AAAAAATAAAAAATGATCGAGATAACA-C-CATAGGTTG
1 AAAAAAT-AAATATGATCGAAACAACATCGCA-A-G-TC
* * * *
9731999 AAAAAATAAATATGATCGAGACAACACCACAGGTC
1 AAAAAATAAATATGATCGAAACAACATCGCAAGTC
* * *
9732034 AAAAAATAAAGATGAT-TAAGACAACATCGTAAGTC
1 AAAAAATAAATATGATCGAA-ACAACATCGCAAGTC
9732069 AAAAAAATAAATATGA
1 -AAAAAATAAATATGA
9732085 CCAGGGCAAT
Statistics
Matches: 147, Mismatches: 32, Indels: 27
0.71 0.16 0.13
Matches are distributed among these distances:
33 2 0.01
34 17 0.12
35 52 0.35
36 62 0.42
37 12 0.08
38 2 0.01
ACGTcount: A:0.55, C:0.12, G:0.14, T:0.19
Consensus pattern (35 bp):
AAAAAATAAATATGATCGAAACAACATCGCAAGTC
Found at i:9732141 original size:72 final size:72
Alignment explanation
Indices: 9732029--9732203 Score: 158
Period size: 72 Copynumber: 2.5 Consensus size: 72
9732019 ACAACACCAC
* ** * * ***
9732029 AGGTCAAAAAAT-AAAGATGATTAAGACAACATCGTAAGTCAAAAAAATAAATATGACCAGGGCA
1 AGGTCAAAAAATAAAAAATGATTAAGACAACATCCAAAGTCAAAAAAACAAATAGGACCAAAACA
* *
9732093 ATATTGT
66 ACACTGT
** **
9732100 AGGTCAAAAAATAAAAAATGATTAAGATGACA-CCAACAGTCAGGAAAACAAATAGGACCAAAAC
1 AGGTCAAAAAATAAAAAATGATTAAGACAACATCCAA-AGTCAAAAAAACAAATAGGACCAAAAC
9732164 AACACTGT
65 AACACTGT
* * * *
9732172 AAGTCAAAAAAT-AAAGATGAATAGGACAACAT
1 AGGTCAAAAAATAAAAAATGATTAAGACAACAT
9732204 TACAGGTCAA
Statistics
Matches: 81, Mismatches: 20, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
71 28 0.35
72 53 0.65
ACGTcount: A:0.54, C:0.13, G:0.16, T:0.17
Consensus pattern (72 bp):
AGGTCAAAAAATAAAAAATGATTAAGACAACATCCAAAGTCAAAAAAACAAATAGGACCAAAACA
ACACTGT
Found at i:9732184 original size:107 final size:107
Alignment explanation
Indices: 9732054--9732374 Score: 299
Period size: 107 Copynumber: 3.0 Consensus size: 107
9732044 GATGATTAAG
* * * **
9732054 ACAACA-TCGTAAGTCAAAAAAATAAATATGACCAGGGCAATATTGTAGGTC-AAAAAATAAAAA
1 ACAACACT-GTAAGTC-AAAAAATAAAGATGACCAGGACAACATTACAGGTCAAAAAAAT-AAAA
* * * *
9732117 ATGATTAAGATGACACCAACAGTC-AGGAAAACAAATAGGACCAAA
63 ATGATCAAGATAACACAAACAATCGA-GAAAACAAATAGGACCAAA
** *
9732162 ACAACACTGTAAGTCAAAAAATAAAGATGAATAGGACAACATTACAGGTCAAAAAAATAAAGATG
1 ACAACACTGTAAGTCAAAAAATAAAGATGACCAGGACAACATTACAGGTCAAAAAAATAAAAATG
** * *
9732227 ATCGGGATAACACAAACAATCGAGAAAACAAGTATGACCAAA
66 ATCAAGATAACACAAACAATCGAGAAAACAAATAGGACCAAA
* * * * * * *
9732269 ACAACACCGTAAGTCAAAAAATAAAGATGACTAAGATAACATCT-CAAGTAAAAAAAATAAAGAT
1 ACAACACTGTAAGTCAAAAAATAAAGATGACCAGGACAACAT-TACAGGTCAAAAAAATAAAAAT
* * *** * *
9732333 GACCAAGATAACACCAATGGTCGGGAAAACAAATATGACCAA
65 GATCAAGATAACACAAACAATCGAGAAAACAAATAGGACCAA
9732375 GGCAGCACCA
Statistics
Matches: 178, Mismatches: 31, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
107 155 0.87
108 22 0.12
109 1 0.01
ACGTcount: A:0.54, C:0.16, G:0.15, T:0.16
Consensus pattern (107 bp):
ACAACACTGTAAGTCAAAAAATAAAGATGACCAGGACAACATTACAGGTCAAAAAAATAAAAATG
ATCAAGATAACACAAACAATCGAGAAAACAAATAGGACCAAA
Found at i:9732393 original size:107 final size:107
Alignment explanation
Indices: 9732143--9732404 Score: 285
Period size: 107 Copynumber: 2.5 Consensus size: 107
9732133 CAACAGTCAG
* *** *
9732143 GAAAACAAATAGGACCAAAACAACACTGTAAGTCAAAAAATAAAGATGAATAGGACAACATTACA
1 GAAAACAAATATGACCAAAACAACACCACAAGTCAAAAAATAAAGATGAATAAGACAACATTACA
* * * **
9732208 GGTCAAAAAAATAAAGATGATCGGGATAACACAAACAATCGA
66 AGTAAAAAAAATAAAGATGACCAAGATAACACAAACAATCGA
* ** * *
9732250 GAAAACAAGTATGACCAAAACAACACCGTAAGTCAAAAAATAAAGATGACTAAGATAACATCT-C
1 GAAAACAAATATGACCAAAACAACACCACAAGTCAAAAAATAAAGATGAATAAGACAACAT-TAC
* *** *
9732314 AAGTAAAAAAAATAAAGATGACCAAGATAACACCAATGGTCGG
65 AAGTAAAAAAAATAAAGATGACCAAGATAACACAAACAATCGA
** * *
9732357 GAAAACAAATATGACCAAGGCAGCACCACAATTC-AAAAATAAAGATGA
1 GAAAACAAATATGACCAAAACAACACCACAAGTCAAAAAATAAAGATGA
9732405 TCGAGACAAT
Statistics
Matches: 131, Mismatches: 23, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
106 14 0.11
107 116 0.89
108 1 0.01
ACGTcount: A:0.54, C:0.16, G:0.15, T:0.14
Consensus pattern (107 bp):
GAAAACAAATATGACCAAAACAACACCACAAGTCAAAAAATAAAGATGAATAAGACAACATTACA
AGTAAAAAAAATAAAGATGACCAAGATAACACAAACAATCGA
Found at i:9732439 original size:36 final size:35
Alignment explanation
Indices: 9732391--9732542 Score: 139
Period size: 36 Copynumber: 4.3 Consensus size: 35
9732381 ACCACAATTC
**
9732391 AAAAATAAAGATGATCGAGACAATACCATAAGTCA
1 AAAAATAAAGATGATCGAGACAATACCGCAAGTCA
* * *
9732426 ATAAAATAAAGATGATAGGGACAACACCGCAAGTCA
1 A-AAAATAAAGATGATCGAGACAATACCGCAAGTCA
* * *
9732462 AAGAATAAATATGA-CTGA-ACAATATCGCAAGTCA
1 AAAAATAAAGATGATC-GAGACAATACCGCAAGTCA
* * * *
9732496 AAAAATAAAGGTGA-CTGCGACAACACCGCAGGTCGA
1 AAAAATAAAGATGATC-GAGACAATACCGCAAGTC-A
9732532 AAAAATAAAGA
1 AAAAATAAAGA
9732543 ATAAAGTTTT
Statistics
Matches: 94, Mismatches: 19, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
34 28 0.30
35 25 0.27
36 41 0.44
ACGTcount: A:0.51, C:0.16, G:0.18, T:0.15
Consensus pattern (35 bp):
AAAAATAAAGATGATCGAGACAATACCGCAAGTCA
Found at i:9732511 original size:34 final size:35
Alignment explanation
Indices: 9732420--9732542 Score: 124
Period size: 34 Copynumber: 3.5 Consensus size: 35
9732410 ACAATACCAT
**
9732420 AAGTCAATAAAATAAAGATGA-TAGGGACAACACCGC
1 AAGTCAA-AAAATAAAGATGACT-GCAACAACACCGC
* * * *
9732456 AAGTCAAAGAATAAATATGACTG-AACAATATCGC
1 AAGTCAAAAAATAAAGATGACTGCAACAACACCGC
* *
9732490 AAGTCAAAAAATAAAGGTGACTGCGACAACACCGC
1 AAGTCAAAAAATAAAGATGACTGCAACAACACCGC
*
9732525 AGGTCGAAAAAATAAAGA
1 AAGTC-AAAAAATAAAGA
9732543 ATAAAGTTTT
Statistics
Matches: 71, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
34 28 0.39
35 24 0.34
36 19 0.27
ACGTcount: A:0.50, C:0.16, G:0.19, T:0.15
Consensus pattern (35 bp):
AAGTCAAAAAATAAAGATGACTGCAACAACACCGC
Found at i:9733584 original size:41 final size:41
Alignment explanation
Indices: 9733539--9733667 Score: 149
Period size: 41 Copynumber: 3.2 Consensus size: 41
9733529 CACCCTTTCC
9733539 GGGTTTTCAGTCTAAATCTTTTTTTAGACCACCTTTTTTTT
1 GGGTTTTCAGTCTAAATCTTTTTTTAGACCACCTTTTTTTT
* * * *
9733580 GGGTTTTTAGTCTAAATCTTTTTTTTAGATCA-CTCTTTTCT
1 GGGTTTTCAGTCTAAATC-TTTTTTTAGACCACCTTTTTTTT
* * * *
9733621 AGGTTTTCAATCTATAT-TTTTTTTGGACCACC-TTTTTTT
1 GGGTTTTCAGTCTAAATCTTTTTTTAGACCACCTTTTTTTT
9733660 -GGTTTTCA
1 GGGTTTTCA
9733668 ACTTAAATTA
Statistics
Matches: 74, Mismatches: 12, Indels: 7
0.80 0.13 0.08
Matches are distributed among these distances:
38 8 0.11
39 16 0.22
40 1 0.01
41 37 0.50
42 12 0.16
ACGTcount: A:0.17, C:0.16, G:0.12, T:0.55
Consensus pattern (41 bp):
GGGTTTTCAGTCTAAATCTTTTTTTAGACCACCTTTTTTTT
Found at i:9742705 original size:58 final size:59
Alignment explanation
Indices: 9742528--9743156 Score: 769
Period size: 58 Copynumber: 10.7 Consensus size: 59
9742518 TTGTGCAGGA
* * * * ** *
9742528 AAAATTGATACTTTCAACTTTT-CTC-CAAAATATTTTTTAGAAACTTTAATTTCGAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTTGAAAATTTATTTTTAAGG
*
9742585 AAAATTGATACTTTCAACTTTTCCTCAAAAAA-ACTTTTTTTGAAAATTTATTTTTAAAG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAATA-TTTTTTTGAAAATTTATTTTTAAGG
* * * * * **
9742644 AAAATTAACACTTTCAACTTTT-CTCAAAAAATATTTTTTGGAGAATTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTTGAAAATTTATTTTTAAGG
* *
9742702 AAAATTGATACTTTCAACTTTTTCACAAAAAA-ACTTTTTTTTGAAAATTTATTTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAATA--TTTTTTTGAAAATTTA-TTTTTAAGG
*
9742763 AAAATTGATACTTTCAACTTTTCCTCAAAAAA-CTTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTTGAAAATTTATTTTTAAGG
* *
9742821 AAAACTGATACTTTCAACTTTTCCTCAAAAAACTA--TTTTTGAAAATTTATTTTTAAAG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAA-TATTTTTTTGAAAATTTATTTTTAAGG
* * * * * * *
9742879 AAAATTGATACTTTAAACTTTTCCCCAAAAATTTTTTTTTTGAAAACATTAATTTTGAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTTGAAAA-TTTATTTTTAAGG
9742939 AAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAATA-TTTTTTTGAAAATTTATTTTTAAGG
* * * * *
9742998 AAAATTGATACTTTCAACTTTTCCCCAAAAATTTTTTTTTTTGAAAACTTTAATTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA-ATATTTTTTTGAAAA-TTTATTTTTAAGG
* **
9743059 AAAATTGATATTTTCAACTTTTCCTC-AAAAATATTTTTTAAAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTTGAAAATTTATTTTTAAGG
9743117 AAAATTGATACTTTCAAC-TTTCCTC-AAAAATATTCTTTTT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAATATT-TTTTT
9743157 TACAGTTCCT
Statistics
Matches: 493, Mismatches: 61, Indels: 35
0.84 0.10 0.06
Matches are distributed among these distances:
57 39 0.08
58 175 0.35
59 128 0.26
60 79 0.16
61 72 0.15
ACGTcount: A:0.37, C:0.12, G:0.06, T:0.44
Consensus pattern (59 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTTGAAAATTTATTTTTAAGG
Found at i:9742801 original size:119 final size:118
Alignment explanation
Indices: 9742528--9743157 Score: 828
Period size: 119 Copynumber: 5.3 Consensus size: 118
9742518 TTGTGCAGGA
* * * *
9742528 AAAATTGATACTTTCAACTTTT-CTC-CAAAATATTTTTT-AGAAACTTTAATTTCGAGAAAAAT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAATTTTTTTTGA-AAACTTTAATTTTGAGGAAAAT
*
9742590 TGATACTTTCAACTTTTCCTCAAAAAAACTTTTTTTGAAAATTTATTTTTAAAG
65 TGATACTTTCAACTTTTCCTCAAAAAAACTTTTTTTGAAAATTTATTTTTAAGG
* * * * *
9742644 AAAATTAACACTTTCAACTTTT-CTCAAAAAATATTTTTTGGAGAA-TTTAATTTCGAGGAAAAT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAAT-TTTTTTTGAAAACTTTAATTTTGAGGAAAAT
* *
9742707 TGATACTTTCAACTTTTTCACAAAAAAACTTTTTTTTGAAAATTTATTTTTTAAGG
65 TGATACTTTCAACTTTTCCTCAAAAAAAC-TTTTTTTGAAAATTTA-TTTTTAAGG
* * * *
9742763 AAAATTGATACTTTCAACTTTTCCTCAAAAAACTTTTTTTGAAAA-TTTATTTTTAAGGAAAACT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAATTTTTTTTGAAAACTTTAATTTTGAGGAAAATT
* *
9742827 GATACTTTCAACTTTTCCTC-AAAAAACTATTTTTGAAAATTTATTTTTAAAG
66 GATACTTTCAACTTTTCCTCAAAAAAACTTTTTTTGAAAATTTATTTTTAAGG
* * * *
9742879 AAAATTGATACTTTAAACTTTTCCCCAAAAATTTTTTTTTTGAAAACATTAATTTTGAGGAAAAT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA-ATTTTTTTTGAAAACTTTAATTTTGAGGAAAAT
* *
9742944 TGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAATTTATTTTTAAGG
65 TGATACTTTCAACTTTTCCTCAAAAAAACTTTTTTTGAAAATTTATTTTTAAGG
* * * *
9742998 AAAATTGATACTTTCAACTTTTCCCCAAAAATTTTTTTTTTTGAAAACTTTAATTTTAAGAAAAA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA--ATTTTTTTTGAAAACTTTAATTTTGAGGAAAA
* * **
9743063 TTGATATTTTCAACTTTTCCTCAAAAATA-TTTTTTAAAAAATTTATTTTTAAGG
64 TTGATACTTTCAACTTTTCCTCAAAAAAACTTTTTTTGAAAATTTATTTTTAAGG
9743117 AAAATTGATACTTTCAAC-TTTCCTCAAAAATATTCTTTTTT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA-ATT-TTTTTT
9743158 ACAGTTCCTA
Statistics
Matches: 459, Mismatches: 44, Indels: 20
0.88 0.08 0.04
Matches are distributed among these distances:
116 60 0.13
117 79 0.17
118 82 0.18
119 171 0.37
120 67 0.15
ACGTcount: A:0.37, C:0.12, G:0.06, T:0.44
Consensus pattern (118 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAAATTTTTTTTGAAAACTTTAATTTTGAGGAAAATT
GATACTTTCAACTTTTCCTCAAAAAAACTTTTTTTGAAAATTTATTTTTAAGG
Found at i:9743147 original size:177 final size:175
Alignment explanation
Indices: 9742526--9743157 Score: 783
Period size: 177 Copynumber: 3.6 Consensus size: 175
9742516 TTTTGTGCAG
* * * ** *
9742526 GAAAAATTGATACTTTCAACTTTT-CTCCAAAATATTTTTTAGAAACTTTAATTTCGAGAAAAAT
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAAAAAATTTAATTTTAAGGAAAAT
* * * *
9742590 TGATACTTTCAACTTTTCCTCAAAAAAACTTTTTTTGAAAATTTATTTTTAAAGAAAATTAACAC
66 TGATACTTTCAACTTTTCCTCAAAAATACTTTTTTTGAAAATTTATTTTTAAGGAAAATTGATAC
* * **
9742655 TTTCAACTTTT-CTCAAAAAATATTTTTTGGAGAATTTAATTTCGA
131 TTTCAACTTTTCCTC-AAAAATATTTTTTTGAAAATTTAATTTTAA
* * * * ** *
9742700 GGAAAATTGATACTTTCAACTTTTTCACAAAAAAACTTTTTTTTGAAAATTTATTTTTTAAGGAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATA--TTTTTTAAAAAATTTA-ATTTTAAGGAA
*
9742765 AATTGATACTTTCAACTTTTCCTCAAAAA-ACTTTTTTTGAAAATTTATTTTTAAGGAAAACTGA
63 AATTGATACTTTCAACTTTTCCTCAAAAATACTTTTTTTGAAAATTTATTTTTAAGGAAAATTGA
* *
9742829 TACTTTCAACTTTTCCTCAAAAA-ACTATTTTTGAAAATTTATTTTTAA
128 TACTTTCAACTTTTCCTCAAAAATA-TTTTTTTGAAAATTTAATTTTAA
* * * * *
9742877 -AGAAAATTGATACTTTAAACTTTTCCCCAAAAATTTTTTTTTTGAAAACA-TTAATTTTGAGGA
1 GA-AAAATTGATACTTTCAACTTTTCCTCAAAAA--TATTTTTT-AAAAAATTTAATTTTAAGGA
*
9742940 AAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAATTTATTTTTAAGGAAAATTG
62 AAATTGATACTTTCAACTTTTCCTCAAAAATACTTTTTTTGAAAATTTATTTTTAAGGAAAATTG
* *
9743005 ATACTTTCAACTTTTCCCCAAAAATTTTTTTTTTTGAAAACTTTAATTTTAA
127 ATACTTTCAACTTTTCCTCAAAAA--TATTTTTTTGAAAA-TTTAATTTTAA
* *
9743057 GAAAAATTGATATTTTCAACTTTTCCTCAAAAATATTTTTTAAAAAATTTATTTTTAAGGAAAAT
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAAAAAATTTAATTTTAAGGAAAAT
*
9743122 TGATACTTTCAAC-TTTCCTCAAAAATATTCTTTTTT
66 TGATACTTTCAACTTTTCCTCAAAAATACT-TTTTTT
9743158 ACAGTTCCTA
Statistics
Matches: 396, Mismatches: 44, Indels: 32
0.84 0.09 0.07
Matches are distributed among these distances:
174 23 0.06
175 7 0.02
176 39 0.10
177 194 0.49
178 83 0.21
179 11 0.03
180 38 0.10
181 1 0.00
ACGTcount: A:0.37, C:0.12, G:0.06, T:0.44
Consensus pattern (175 bp):
GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAAAAAATTTAATTTTAAGGAAAAT
TGATACTTTCAACTTTTCCTCAAAAATACTTTTTTTGAAAATTTATTTTTAAGGAAAATTGATAC
TTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTAATTTTAA
Found at i:9744611 original size:80 final size:79
Alignment explanation
Indices: 9744493--9744652 Score: 230
Period size: 80 Copynumber: 2.0 Consensus size: 79
9744483 GCGGTACCAG
* * * *
9744493 GGCTGGGAGAAAATAAAAATATTGGGCAGACCCAAAGTCTCTATTATTTCTGAGATGACGTGCCT
1 GGCTAGGAGAAAATAAAAATATTGGGCAAACCCAAAGTCTCTATTATTTCTAAGATGACGTACCT
9744558 GAACTTAGTGCCAA
66 GAACTTAGTGCCAA
* * * *
9744572 GGCTAGGAGAAAATCAGAAATATTGGGTAAACCCTAAGTCTCTATTATTTTTAAGATGACGTACC
1 GGCTAGGAGAAAAT-AAAAATATTGGGCAAACCCAAAGTCTCTATTATTTCTAAGATGACGTACC
*
9744637 TGAACTTGGTGCCAA
65 TGAACTTAGTGCCAA
9744652 G
1 G
9744653 ACTGGCCCTG
Statistics
Matches: 71, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
79 13 0.18
80 58 0.82
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (79 bp):
GGCTAGGAGAAAATAAAAATATTGGGCAAACCCAAAGTCTCTATTATTTCTAAGATGACGTACCT
GAACTTAGTGCCAA
Found at i:9745354 original size:16 final size:16
Alignment explanation
Indices: 9745333--9745371 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
9745323 ATCATTAAAA
*
9745333 ATCATCGCAAATCATC
1 ATCATCACAAATCATC
*
9745349 ATCATCATAAATCATC
1 ATCATCACAAATCATC
*
9745365 ATTATCA
1 ATCATCA
9745372 TTGCTTTATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.41, C:0.26, G:0.03, T:0.31
Consensus pattern (16 bp):
ATCATCACAAATCATC
Found at i:9745372 original size:16 final size:16
Alignment explanation
Indices: 9745341--9745372 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9745331 AAATCATCGC
9745341 AAATCATCATCATCAT
1 AAATCATCATCATCAT
*
9745357 AAATCATCATTATCAT
1 AAATCATCATCATCAT
9745373 TGCTTTATCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.34
Consensus pattern (16 bp):
AAATCATCATCATCAT
Found at i:9748590 original size:28 final size:29
Alignment explanation
Indices: 9748512--9748592 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 29
9748502 ACAAAATCAT
* * *
9748512 CACTTGTAAGATTTTAACCAATCTTTTGG
1 CACTTGTAAGATTTCAAACAATCATTTGG
* *
9748541 C-CTTGTAA-AATTCAAATAATCATTT-G
1 CACTTGTAAGATTTCAAACAATCATTTGG
9748567 CACTTGTAAGATTTCAAACAATCATT
1 CACTTGTAAGATTTCAAACAATCATT
9748593 CTTAACCAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
26 2 0.05
27 19 0.44
28 21 0.49
29 1 0.02
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (29 bp):
CACTTGTAAGATTTCAAACAATCATTTGG
Found at i:9750526 original size:104 final size:105
Alignment explanation
Indices: 9750376--9750577 Score: 352
Period size: 104 Copynumber: 1.9 Consensus size: 105
9750366 TTTTTAAATT
**
9750376 TTGATCAAACCTCCTCTAAGCAGAGGCTCAATGACTTTGAGAAACATAAACAAAGCTCCTCTAAA
1 TTGATCAAACCTCCTCTAAGCAGAGGCTCAACAACTTTGAGAAACATAAACAAAGCTCCTCTAAA
*
9750441 TAGAGGTAA-TTTTTTTGTTTTTTTATTTTTTTAAAAAAC
66 CAGAGGTAATTTTTTTTGTTTTTTTATTTTTTTAAAAAAC
* *
9750480 TTGATCAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTGAGAAACATAAACAAAGCTCTTCTAAA
1 TTGATCAAACCTCCTCTAAGCAGAGGCTCAACAACTTTGAGAAACATAAACAAAGCTCCTCTAAA
9750545 CAGAGGTAATTTTTTTTGTTTTTTTATTTTTTT
66 CAGAGGTAATTTTTTTTGTTTTTTTATTTTTTT
9750578 GTTTTTTAAT
Statistics
Matches: 92, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
104 69 0.75
105 23 0.25
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (105 bp):
TTGATCAAACCTCCTCTAAGCAGAGGCTCAACAACTTTGAGAAACATAAACAAAGCTCCTCTAAA
CAGAGGTAATTTTTTTTGTTTTTTTATTTTTTTAAAAAAC
Found at i:9750568 original size:8 final size:8
Alignment explanation
Indices: 9750555--9750584 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
9750545 CAGAGGTAAT
9750555 TTTTTTTG
1 TTTTTTTG
*
9750563 TTTTTTTA
1 TTTTTTTG
9750571 TTTTTTTG
1 TTTTTTTG
9750579 TTTTTT
1 TTTTTT
9750585 AATTTTGATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.03, C:0.00, G:0.07, T:0.90
Consensus pattern (8 bp):
TTTTTTTG
Found at i:9750576 original size:16 final size:16
Alignment explanation
Indices: 9750555--9750590 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
9750545 CAGAGGTAAT
*
9750555 TTTTTTTGTTTTTTTA
1 TTTTTTTGTTTTTTAA
9750571 TTTTTTTGTTTTTTAA
1 TTTTTTTGTTTTTTAA
9750587 TTTT
1 TTTT
9750591 GATCAAAGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.08, C:0.00, G:0.06, T:0.86
Consensus pattern (16 bp):
TTTTTTTGTTTTTTAA
Found at i:9750674 original size:41 final size:41
Alignment explanation
Indices: 9750602--9751089 Score: 545
Period size: 41 Copynumber: 11.7 Consensus size: 41
9750592 ATCAAAGCTC
*
9750602 CTCAACGACTTTTGAAAAATAAATGGCTCCTCTAATCAAAGG
1 CTCAACGAC-TTTGAAAAATAAATGGCTCCTCTAATCAGAGG
* * *
9750644 CTCAACGACTTTGAAAAAAAAATGGGTCCTCTAATTAGAGG
1 CTCAACGACTTTGAAAAATAAATGGCTCCTCTAATCAGAGG
* *
9750685 CTTAACGACTTTGAAAAAAAAATGGCTCCTCTAATCAGAGG
1 CTCAACGACTTTGAAAAATAAATGGCTCCTCTAATCAGAGG
* * *
9750726 CTCAACCACTTTGAAAAATAAATTGCTCCTCTAATTAGAGG
1 CTCAACGACTTTGAAAAATAAATGGCTCCTCTAATCAGAGG
9750767 CTCAACGACTTTGAAAAATAAATTGCTAATGGCTCCTCTAATCAGAGG
1 CTCAACGACTTTGAAAAAT--A-----AATGGCTCCTCTAATCAGAGG
* * *
9750815 CTCAATGAATTTGAAAAATAAATTGCTCCTCTAATCAGAGG
1 CTCAACGACTTTGAAAAATAAATGGCTCCTCTAATCAGAGG
* * *
9750856 CTCGACAACTTTGAAAAATAAATTGCTCCTCTAATCAGAGG
1 CTCAACGACTTTGAAAAATAAATGGCTCCTCTAATCAGAGG
* ** * * *
9750897 CTCAACAACTTTGAAAAGCAAATTGCTCCTTTAAACAGAGG
1 CTCAACGACTTTGAAAAATAAATGGCTCCTCTAATCAGAGG
* *
9750938 --CAACGAAACTTTAAAAAATAAGTGGCTCCTCTAATCAGAGG
1 CTCAACG--ACTTTGAAAAATAAATGGCTCCTCTAATCAGAGG
* *
9750979 CTCAACCACTTTGAAAAATAAATTGCTCCTCTAATCAGAGG
1 CTCAACGACTTTGAAAAATAAATGGCTCCTCTAATCAGAGG
* ** * *
9751020 CTCAACAACTTTGAAAAGCAAATTGCTCCTTTAAAT-AGAGG
1 CTCAACGACTTTGAAAAATAAATGGCTCCTCT-AATCAGAGG
9751061 --CAACGAAACTTTGGAAAAATAAATGGCTC
1 CTCAACG--ACTTT-GAAAAATAAATGGCTC
9751090 ATTGACAATC
Statistics
Matches: 384, Mismatches: 47, Indels: 30
0.83 0.10 0.07
Matches are distributed among these distances:
39 8 0.02
41 309 0.80
42 25 0.07
43 5 0.01
46 1 0.00
48 36 0.09
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (41 bp):
CTCAACGACTTTGAAAAATAAATGGCTCCTCTAATCAGAGG
Found at i:9750828 original size:48 final size:48
Alignment explanation
Indices: 9750750--9750882 Score: 165
Period size: 48 Copynumber: 2.9 Consensus size: 48
9750740 AAAATAAATT
* *
9750750 GCTCCTCTAATTAGAGGCTCAACGACTTTGAAAAATAAATTGCTAATG
1 GCTCCTCTAATCAGAGGCTCAACGAATTTGAAAAATAAATTGCTAATG
*
9750798 GCTCCTCTAATCAGAGGCTCAATGAATTTGAAAAATAAA----T--T-
1 GCTCCTCTAATCAGAGGCTCAACGAATTTGAAAAATAAATTGCTAATG
*
9750839 GCTCCTCTAATCAGAGGCTCGAC-AACTTTGAAAAATAAATTGCT
1 GCTCCTCTAATCAGAGGCTCAACGAA-TTTGAAAAATAAATTGCT
9750883 CCTCTAATCA
Statistics
Matches: 75, Mismatches: 5, Indels: 13
0.81 0.05 0.14
Matches are distributed among these distances:
40 2 0.03
41 34 0.45
42 1 0.01
44 1 0.01
45 1 0.01
48 36 0.48
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.29
Consensus pattern (48 bp):
GCTCCTCTAATCAGAGGCTCAACGAATTTGAAAAATAAATTGCTAATG
Found at i:9751477 original size:42 final size:43
Alignment explanation
Indices: 9751431--9751514 Score: 100
Period size: 43 Copynumber: 2.0 Consensus size: 43
9751421 ATTTTGGAGA
* * *
9751431 TCACATCCAA-AAA-TTCAAAGCTTCTCATTTGAGTTCAAAGGC
1 TCACATCCAATAAACTT-AAAGCTTCACATCTAAGTTCAAAGGC
* *
9751473 TCACATGCAATAAACTTAAAGTTTCACATCTAAGTTCAAAGG
1 TCACATCCAATAAACTTAAAGCTTCACATCTAAGTTCAAAGG
9751515 TTCTCATTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
42 9 0.26
43 24 0.69
44 2 0.06
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.29
Consensus pattern (43 bp):
TCACATCCAATAAACTTAAAGCTTCACATCTAAGTTCAAAGGC
Found at i:9751693 original size:22 final size:21
Alignment explanation
Indices: 9751646--9751704 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
9751636 GGTTTCACTC
9751646 CTCAAAGATTCTCATTTTGAAA
1 CTCAAAGATTCTCA-TTTGAAA
* **
9751668 CTCAAAGATTTTCATTTGAGTT
1 CTCAAAGATTCTCATTTGA-AA
*
9751690 CTCAAAAATTCTCAT
1 CTCAAAGATTCTCAT
9751705 CAAAATATTC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 5 0.16
22 26 0.84
ACGTcount: A:0.34, C:0.19, G:0.08, T:0.39
Consensus pattern (21 bp):
CTCAAAGATTCTCATTTGAAA
Found at i:9752922 original size:15 final size:15
Alignment explanation
Indices: 9752875--9752924 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
9752865 TCTTTTTTCA
*
9752875 TTTTTTCTTCTTTCTT
1 TTTTTTC-TCTATCTT
9752891 TCTTTTTCTCTAT-TT
1 T-TTTTTCTCTATCTT
9752906 TTTTTTCATC-ATCTT
1 TTTTTTC-TCTATCTT
9752921 TTTT
1 TTTT
9752925 CCTTTTTCTC
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
14 8 0.27
15 11 0.37
16 5 0.17
17 6 0.20
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTTCTCTATCTT
Found at i:9753849 original size:270 final size:270
Alignment explanation
Indices: 9753368--9753889 Score: 929
Period size: 270 Copynumber: 1.9 Consensus size: 270
9753358 ATCCTTGGTT
*
9753368 GGGGTTTTTCAGAAAAAGAAATCATAATAGGCTCAAAGGGGTAACAATAAATGGTTTTTCATATA
1 GGGGTTTTTCAGAAAAAAAAATCATAATAGGCTCAAAGGGGTAACAATAAATGGTTTTTCATATA
9753433 GTAAAAGAAAGATAGCCATTTTTCATCTCAATTGTGAATACCTTTCTTAAACATCATCTATTGAA
66 GTAAAAGAAAGATAGCCATTTTTCATCTCAATTGTGAATACCTTTCTTAAACATCATCTATTGAA
* * * *
9753498 CAAAGTTTATGAATCTGTATAAAAGATTGCACATCTTCAAGACATATCTAATTCACCTCTGGTAA
131 CAAAGCTCATGAATCTATATAAAAGATTGCACATCTTCAAGACATATCTAATTCACCTCTAGTAA
* *
9753563 CAACTCATTTTTTTGCTTAAATCATCTTCTCATATTAATGTGGATGAGTTCTCAAAAAAAAAAAA
196 CAACTCATTTTTTTGCTCAAATCATCTCCTCATATTAATGTGGATGAGTTCTCAAAAAAAAAAAA
9753628 GATGGCCAAA
261 GATGGCCAAA
9753638 GGGGTTTTTCAGAAAAAAAAATCATAATAGGCTCAAAGGGGTAACAATAAATGGTTTTTCGA-AT
1 GGGGTTTTTCAGAAAAAAAAATCATAATAGGCTCAAAGGGGTAACAATAAATGGTTTTTC-ATAT
* * * *
9753702 AGTAAAAGAAAGATGGCCTTTTTTCATCTCAATTGTGAATACTTTTCTTGAACATCATCTATTGA
65 AGTAAAAGAAAGATAGCCATTTTTCATCTCAATTGTGAATACCTTTCTTAAACATCATCTATTGA
9753767 ACAAAGCTCATGAATCTATATAAAAGATTGCACATCTTCAAGACATATCTAATTCACCTCTAGTA
130 ACAAAGCTCATGAATCTATATAAAAGATTGCACATCTTCAAGACATATCTAATTCACCTCTAGTA
9753832 ACAACTCATTTTTTTGCTCAAATCATCTCCTCATATTAATGTGGATGAGTTCTCAAAA
195 ACAACTCATTTTTTTGCTCAAATCATCTCCTCATATTAATGTGGATGAGTTCTCAAAA
9753890 TTAAATCCTA
Statistics
Matches: 240, Mismatches: 11, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
270 239 1.00
271 1 0.00
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (270 bp):
GGGGTTTTTCAGAAAAAAAAATCATAATAGGCTCAAAGGGGTAACAATAAATGGTTTTTCATATA
GTAAAAGAAAGATAGCCATTTTTCATCTCAATTGTGAATACCTTTCTTAAACATCATCTATTGAA
CAAAGCTCATGAATCTATATAAAAGATTGCACATCTTCAAGACATATCTAATTCACCTCTAGTAA
CAACTCATTTTTTTGCTCAAATCATCTCCTCATATTAATGTGGATGAGTTCTCAAAAAAAAAAAA
GATGGCCAAA
Found at i:9757314 original size:118 final size:116
Alignment explanation
Indices: 9757134--9757402 Score: 371
Period size: 117 Copynumber: 2.3 Consensus size: 116
9757124 TTGTGCAGGA
* * *
9757134 AAAATTGATACTTTCAACTTTTCTCC-AAAATATTTTTTAGAAACTTTAATTTCGAGGAAAATTG
1 AAAATTGATACTTTCAA-TTTTCTCCAAAAATATTTTTTAGAAAATTTAATTTCGAGAAAAATTA
9757198 ATACTTTCAACTTTTCCTTAAAAAAAACCCTTTTTGAAAATTTATTTTTAAAG
65 ATACTTTCAACTTTTCC-TAAAAAAAACCCTTTTTGAAAATTTATTTTTAAAG
* * *
9757251 ATAATTGACACTTTCAATTTTCCCCCAAAAATATTTTTT-GAAAAATTTAATTTCGAGAAAAATT
1 AAAATTGATACTTTCAATTTT-CTCCAAAAATATTTTTTAG-AAAATTTAATTTCGAGAAAAATT
* ** **
9757315 AATACTTTCAACTTTTCCTCAAAAAAACTTTTTTTGAAAATTTATTTTTAGGG
64 AATACTTTCAACTTTTCCTAAAAAAAACCCTTTTTGAAAATTTATTTTTAAAG
*
9757368 AAAATTGATACTTTCAATTTTTCTCTAAAAATATT
1 AAAATTGATACTTTCAA-TTTTCTCCAAAAATATT
9757403 GAAAGGAAAA
Statistics
Matches: 133, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
116 4 0.03
117 75 0.56
118 54 0.41
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.42
Consensus pattern (116 bp):
AAAATTGATACTTTCAATTTTCTCCAAAAATATTTTTTAGAAAATTTAATTTCGAGAAAAATTAA
TACTTTCAACTTTTCCTAAAAAAAACCCTTTTTGAAAATTTATTTTTAAAG
Found at i:9757411 original size:41 final size:41
Alignment explanation
Indices: 9757366--9757443 Score: 129
Period size: 41 Copynumber: 1.9 Consensus size: 41
9757356 TTATTTTTAG
* * *
9757366 GGAAAATTGATACTTTCAATTTTTCTCTAAAAATATTGAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTGAAA
9757407 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATT
9757444 TTTTTTTACA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.37
Consensus pattern (41 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTGAAA
Found at i:9763003 original size:17 final size:18
Alignment explanation
Indices: 9762971--9763005 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
9762961 TCTTGTTTTT
9762971 TAAAAATCTAACCAAACA
1 TAAAAATCTAACCAAACA
*
9762989 TAAAAATC-AAGCAAACA
1 TAAAAATCTAACCAAACA
9763006 ACTCATTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.63, C:0.20, G:0.03, T:0.14
Consensus pattern (18 bp):
TAAAAATCTAACCAAACA
Found at i:9764478 original size:20 final size:19
Alignment explanation
Indices: 9764455--9764503 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
9764445 AAGTTTTGTA
9764455 TAATTTTGACTTTATTTGAC
1 TAATTTTGACTTTA-TTGAC
*
9764475 TAATTTTAACTTTATTGAC
1 TAATTTTGACTTTATTGAC
* *
9764494 CAAGTTTGAC
1 TAATTTTGAC
9764504 CCAAGTTGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.29, C:0.12, G:0.10, T:0.49
Consensus pattern (19 bp):
TAATTTTGACTTTATTGAC
Found at i:9765494 original size:4 final size:4
Alignment explanation
Indices: 9765485--9765511 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
9765475 ATATTTTTCT
9765485 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
9765512 TACTTTTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:9767666 original size:23 final size:22
Alignment explanation
Indices: 9767640--9767682 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
9767630 AAAAAAGGTC
9767640 TATTAAGAAAAAACAAAAAAAAA
1 TATTAAGAAAAAA-AAAAAAAAA
* *
9767663 TATTAATAAAAGAAAAAAAA
1 TATTAAGAAAAAAAAAAAAA
9767683 GAGTCAGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.16
Consensus pattern (22 bp):
TATTAAGAAAAAAAAAAAAAAA
Found at i:9768211 original size:69 final size:70
Alignment explanation
Indices: 9767848--9768255 Score: 301
Period size: 69 Copynumber: 5.8 Consensus size: 70
9767838 TAGCTAGCAC
* * * * * *
9767848 TTAGA-TTTTAAACCCAATTAAGTTGGTAATATATGAGATTTTTTTTTAAGTCCAATCTATCTGG
1 TTAGATTTTTAAGCCCAATTAAGTTGGCATTAGATGAGA---TTTTTTAAGCCCAATCTATTTGG
* * *
9767912 TATCAATA
63 CACCAAGA
* * * * * * * * * *
9767920 TTAGATTTTAAAACTCAGTTAAGTTAGCATTGGATGGGACGTTTTCAAGCCCAATCTAGTTGGCA
1 TTAGATTTTTAAGCCCAATTAAGTTGGCATTAGATGAGA-TTTTTTAAGCCCAATCTATTTGGCA
9767985 CC----
65 CCAAGA
* * * * *
9767987 -TAGA-TTTTAAGCCCAGTTAAGTTGGCATTAGATGTGTTTTTTTTTTTAAACCCAATTTATTTG
1 TTAGATTTTTAAGCCCAATTAAGTTGGCATTAGATGAG----ATTTTTTAAGCCCAATCTATTTG
* *
9768050 GCACCATGT
62 GCACCAAGA
* ** * * * *
9768059 TTAGATTTTTAAGTCCAATTAAGTTGGCATTAGAAAAGATTTTTTAAGTCCAATCTATCTAGTAC
1 TTAGATTTTTAAGCCCAATTAAGTTGGCATTAGATGAGATTTTTTAAGCCCAATCTATTTGGCAC
*
9768124 CAATA
66 CAAGA
* * * * *
9768129 TTAGATTTTTAAGCCCAATTAATTTAGCATTTGATGAGA-CTTTTAAGCCCTATCTATTTGGCAC
1 TTAGATTTTTAAGCCCAATTAAGTTGGCATTAGATGAGATTTTTTAAGCCCAATCTATTTGGCAC
9768193 CAAGA
66 CAAGA
* * *
9768198 TTATATTATTAAGCCCAATTAAGTTGGCATTGGATGAGATTTATTTAAGCCCAATCTA
1 TTAGATTTTTAAGCCCAATTAAGTTGGCATTAGATGAGATTT-TTTAAGCCCAATCTA
9768256 GCTAGTACCT
Statistics
Matches: 259, Mismatches: 64, Indels: 27
0.74 0.18 0.08
Matches are distributed among these distances:
65 26 0.10
66 4 0.02
68 22 0.08
69 57 0.22
70 56 0.22
71 34 0.13
72 5 0.02
73 28 0.11
74 27 0.10
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.39
Consensus pattern (70 bp):
TTAGATTTTTAAGCCCAATTAAGTTGGCATTAGATGAGATTTTTTAAGCCCAATCTATTTGGCAC
CAAGA
Found at i:9768335 original size:63 final size:65
Alignment explanation
Indices: 9768206--9768354 Score: 142
Period size: 64 Copynumber: 2.3 Consensus size: 65
9768196 GATTATATTA
* * * * * * * *
9768206 TTAAGCCCAATTAAGTTGGCATTGGA-TGAGATTTATTTAAGCCCAATCTAGCTAGTACCTAGAT
1 TTAAGCCTAATGAAATTGGCATT-AATTGAGATTCATTTAAGCCCAATCTAGCTAGCACCAAAAT
9768270 T
65 T
* * * * *
9768271 TTAAG-CTAGTTAAATTGGCATTAATTGAGATTCA-TTAAGCCTAATCTAGCTGGCATCAAAATT
1 TTAAGCCTAATGAAATTGGCATTAATTGAGATTCATTTAAGCCCAATCTAGCTAGCACCAAAATT
*
9768334 TTATGCCTAATGAAATTGGCA
1 TTAAGCCTAATGAAATTGGCA
9768355 CAGTTTGAGA
Statistics
Matches: 68, Mismatches: 14, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
63 28 0.41
64 35 0.51
65 5 0.07
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.34
Consensus pattern (65 bp):
TTAAGCCTAATGAAATTGGCATTAATTGAGATTCATTTAAGCCCAATCTAGCTAGCACCAAAATT
Found at i:9768778 original size:33 final size:35
Alignment explanation
Indices: 9768707--9768779 Score: 114
Period size: 35 Copynumber: 2.1 Consensus size: 35
9768697 TTACAAGATA
*
9768707 ATATCTAAAGACACTTGCATTTCTCTTCAGTGGTG
1 ATATCCAAAGACACTTGCATTTCTCTTCAGTGGTG
*
9768742 ATATCCAAAGACACTTGCATTTCT-TT-GGTGGTG
1 ATATCCAAAGACACTTGCATTTCTCTTCAGTGGTG
9768775 ATATC
1 ATATC
9768780 TGAAGTTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
33 11 0.31
34 2 0.06
35 23 0.64
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (35 bp):
ATATCCAAAGACACTTGCATTTCTCTTCAGTGGTG
Found at i:9773574 original size:34 final size:34
Alignment explanation
Indices: 9773527--9773594 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 34
9773517 ATTAAAATAC
9773527 TTATAAATTTGGTTT-AAAAAATAAAATATAAAA
1 TTATAAATTTGGTTTGAAAAAATAAAATATAAAA
*
9773560 TTATAAACTTTGGTTTGAAAAAATTAAATATAAAA
1 TTATAAA-TTTGGTTTGAAAAAATAAAATATAAAA
9773595 GACATAAGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 7 0.22
34 8 0.25
35 17 0.53
ACGTcount: A:0.54, C:0.01, G:0.07, T:0.37
Consensus pattern (34 bp):
TTATAAATTTGGTTTGAAAAAATAAAATATAAAA
Found at i:9775469 original size:22 final size:22
Alignment explanation
Indices: 9775429--9775470 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
9775419 TCGGTGAAAA
**
9775429 TTTTTTTTTTGTAGTCTGACCT
1 TTTTTTTTTTGTAAACTGACCT
*
9775451 TTTTTTTTTTTTAAACTGAC
1 TTTTTTTTTTGTAAACTGAC
9775471 TCCCTTTTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.14, C:0.12, G:0.10, T:0.64
Consensus pattern (22 bp):
TTTTTTTTTTGTAAACTGACCT
Found at i:9775845 original size:16 final size:16
Alignment explanation
Indices: 9775826--9775857 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9775816 TTTTTATTCA
9775826 TTTTTATTTTAGATTT
1 TTTTTATTTTAGATTT
*
9775842 TTTTTATTTTATATTT
1 TTTTTATTTTAGATTT
9775858 ATCATTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (16 bp):
TTTTTATTTTAGATTT
Found at i:9775850 original size:22 final size:24
Alignment explanation
Indices: 9775814--9775872 Score: 70
Period size: 23 Copynumber: 2.5 Consensus size: 24
9775804 CAGTTGTAGG
*
9775814 GATTTTTATTCATTTTTAT-TTTA-
1 GATTTTT-TTTATTTTTATATTTAT
9775837 GATTTTTTTTA-TTTTATATTTAT
1 GATTTTTTTTATTTTTATATTTAT
*
9775860 CATTTTTTTTATT
1 GATTTTTTTTATT
9775873 ATCTGATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 6 0.19
22 7 0.23
23 17 0.55
24 1 0.03
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.73
Consensus pattern (24 bp):
GATTTTTTTTATTTTTATATTTAT
Found at i:9776123 original size:18 final size:18
Alignment explanation
Indices: 9776096--9776134 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
9776086 AAAAAAGATA
* *
9776096 GAGGAGGAATCTGAATAG
1 GAGGAAGAATCCGAATAG
9776114 GAGGAAGAATCCGAATAG
1 GAGGAAGAATCCGAATAG
9776132 GAG
1 GAG
9776135 AAAAAAAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.08, G:0.38, T:0.13
Consensus pattern (18 bp):
GAGGAAGAATCCGAATAG
Found at i:9777976 original size:59 final size:57
Alignment explanation
Indices: 9777883--9778456 Score: 607
Period size: 59 Copynumber: 9.6 Consensus size: 57
9777873 TGGCTTTCTT
* * * *
9777883 AAATATTTTTGAGAAAAAATTGAAAGTATTAATTTTTCTTGAAAATCAAAGTTTTCAAA
1 AAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAA-TTTTCAAA
* * * *
9777942 GAATATTTTT-AGGGAAAAGTTGAATGTATCAATTTTCCTTAAAAATAAATTTTTAAAA
1 AAATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAA-TTTTCAAA
* *
9778000 AAAGGATTTTTGAGGAAAAGTTGAAAGTATCAA-TTTTCTTCGAAAATCAAAGTTTTCAAAAA
1 AAA-TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTT-AAAAAT-AAA-TTTTC--AAA
* * *
9778062 AAATATTTTTGAGAAAAAATTGAAAGTATTAATTTTTCTTAAAAATAAATTTTCAAA
1 AAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAA
* *
9778119 AAAAAGTTTTTTGAGGAAAAAGTTGAAAGTATCAA-TTTTCTTCGAAAATCAAAGTTTTCAAAAA
1 AAATA--TTTTTGAGG-AAAAGTTGAAAGTATCAATTTTTCTT-AAAAAT-AAA-TTTTC--AAA
* * *
9778183 AAATATTTTTGAGAAAAAATTGAAAGTATTAATTTTTCTTAAAAATAAATTTTCAAA
1 AAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAA
* * *
9778240 AAAAAGTTTTTTGAGGAAAAGTTGAAAGTATCAA-TTTTCTTCGAAAATCAAAGTTTTAAAAA
1 AAATA--TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTT-AAAAAT-AAA-TTTT-CAAA
* * *
9778302 AATATATTTTTGAGGAAAAGGTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAA
1 AA-ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAA
* * *
9778360 AAAGGATTTTTGAGGATAAGTTGAAAGTATCAATTTTCCTTTAAAAATAAATTTTCAAA
1 AAA-TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTC-TTAAAAATAAATTTTCAAA
*
9778419 AAATCAATTTTTAAGGAAAAGTTGAAAGTATCAATTTT
1 AAAT--ATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
9778457 CTCTGCACAA
Statistics
Matches: 436, Mismatches: 50, Indels: 57
0.80 0.09 0.10
Matches are distributed among these distances:
57 15 0.03
58 63 0.14
59 145 0.33
60 71 0.16
61 89 0.20
62 44 0.10
63 2 0.00
64 7 0.02
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.37
Consensus pattern (57 bp):
AAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAA
Found at i:9778178 original size:121 final size:120
Alignment explanation
Indices: 9777887--9778457 Score: 800
Period size: 120 Copynumber: 4.8 Consensus size: 120
9777877 TTTCTTAAAT
* * * *
9777887 ATTTTTGAGAAAAAATTGAAAGTATTAATTTTTCTT-GAAAATCAAAGTTTTC--AAAGAATATT
1 ATTTTTGAGGAAAAGTTGAAAGTATCAA-TTTTCTTCGAAAATCAAAGTTTTCAAAAAAAATATT
* * *
9777949 TTT-AGGGAAAAGTTGAATGTATCAATTTTCCTTAAAAATAAATTTTTAAAAAAAGG
65 TTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAAG
9778005 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTCGAAAATCAAAGTTTTCAAAAAAAATATTT
1 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTCGAAAATCAAAGTTTTCAAAAAAAATATTT
* * * *
9778070 TTGAGAAAAAATTGAAAGTATTAATTTTTCTTAAAAATAAATTTTCAAAAAAAAG
66 TTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAAG
*
9778125 TTTTTTGAGGAAAAAGTTGAAAGTATCAATTTTCTTCGAAAATCAAAGTTTTCAAAAAAAATATT
1 ATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCTTCGAAAATCAAAGTTTTCAAAAAAAATATT
* * * *
9778190 TTTGAGAAAAAATTGAAAGTATTAATTTTTCTTAAAAATAAATTTTCAAAAAAAAG
65 TTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAAG
*
9778246 TTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTCGAAAATCAAAGTTTT-AAAAAAATATATT
1 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTCGAAAATCAAAGTTTTCAAAAAAA-ATATT
* * *
9778310 TTTGAGGAAAAGGTGAAAGTATCAATTTTCCTTAAAAATAAAATTTC-AAAAAAGG
65 TTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAAG
* ** *
9778365 ATTTTTGAGGATAAGTTGAAAGTATCAATTTTCCTTTAAAAAT-AAA-TTTTCAAAAAATCA-AT
1 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTT-CTTCGAAAATCAAAGTTTTCAAAAAA-AATAT
*
9778427 TTTTAAGGAAAAGTTGAAAGTATCAATTTTC
64 TTTTGAGGAAAAGTTGAAAGTATCAATTTTC
9778458 TCTGCACAAG
Statistics
Matches: 418, Mismatches: 26, Indels: 18
0.90 0.06 0.04
Matches are distributed among these distances:
117 7 0.02
118 76 0.18
119 54 0.13
120 160 0.38
121 121 0.29
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.37
Consensus pattern (120 bp):
ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTCGAAAATCAAAGTTTTCAAAAAAAATATTT
TTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAAG
Found at i:9782391 original size:17 final size:16
Alignment explanation
Indices: 9782345--9782384 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 16
9782335 ATGAAAAATG
9782345 AGAAAAAAAAAAAAGA
1 AGAAAAAAAAAAAAGA
9782361 AGAAAAGAAAAAAAAGA
1 AGAAAA-AAAAAAAAGA
9782378 AGAAAAA
1 AGAAAAA
9782385 TGAAAAATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 7 0.30
17 16 0.70
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (16 bp):
AGAAAAAAAAAAAAGA
Found at i:9783742 original size:42 final size:41
Alignment explanation
Indices: 9783628--9783798 Score: 252
Period size: 41 Copynumber: 4.1 Consensus size: 41
9783618 ATGAGTGTCA
9783628 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
* *
9783669 AGGAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
* *
9783710 AGGAGCAATTTACTGTTTCAAAGTCGTGGTGCCTCTTTTTAG
1 AGGAGCAATTTACT-TTCCAAAGTCGTGGTGCCTCTGTTTAG
* * * * *
9783752 ATGAGCAAGTTACTTTCCAAAGTCGTTGAGCCTATGTTTAG
1 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
9783793 AGGAGC
1 AGGAGC
9783799 TTTGAAAAAA
Statistics
Matches: 117, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
41 80 0.68
42 37 0.32
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (41 bp):
AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:9783751 original size:83 final size:82
Alignment explanation
Indices: 9783628--9783798 Score: 252
Period size: 83 Copynumber: 2.1 Consensus size: 82
9783618 ATGAGTGTCA
* * *
9783628 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTT
1 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAAGTTACTTTCCAAAGTC
* *
9783693 GTGGTGCCTCTGTTTAG
66 GTGGAGCCTATGTTTAG
* * *
9783710 AGGAGCAATTTACTGTTTCAAAGTCGTGGTGCCTCTTTTTAGATGAGCAAGTTACTTTCCAAAGT
1 AGGAGCAATTTACT-TTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAAGTTACTTTCCAAAGT
*
9783775 CGTTGAGCCTATGTTTAG
65 CGTGGAGCCTATGTTTAG
9783793 AGGAGC
1 AGGAGC
9783799 TTTGAAAAAA
Statistics
Matches: 79, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
82 14 0.18
83 65 0.82
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (82 bp):
AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAAGTTACTTTCCAAAGTC
GTGGAGCCTATGTTTAG
Found at i:9783819 original size:8 final size:8
Alignment explanation
Indices: 9783806--9783836 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
9783796 AGCTTTGAAA
*
9783806 AAAAAAAT
1 AAAAAAAC
9783814 AAAAAAAC
1 AAAAAAAC
9783822 AAAAAAAC
1 AAAAAAAC
9783830 AAAAAAA
1 AAAAAAA
9783837 AGTTGCCTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.90, C:0.06, G:0.00, T:0.03
Consensus pattern (8 bp):
AAAAAAAC
Found at i:9783935 original size:15 final size:17
Alignment explanation
Indices: 9783915--9783957 Score: 63
Period size: 15 Copynumber: 2.6 Consensus size: 17
9783905 TTGATCATTT
9783915 AAAAAAAAAA-G-CAAA
1 AAAAAAAAAAGGACAAA
9783930 AAAAAAAAAAGGACAAA
1 AAAAAAAAAAGGACAAA
9783947 AAAAAACAAAA
1 AAAAAA-AAAA
9783958 AAAATGTTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 10 0.40
16 1 0.04
17 10 0.40
18 4 0.16
ACGTcount: A:0.86, C:0.07, G:0.07, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAGGACAAA
Done.