Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167826.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_1, 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: 36299135
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Warning! 357000 characters in sequence are not A, C, G, or T
File 27 of 402
Found at i:6030148 original size:13 final size:13
Alignment explanation
Indices: 6030126--6030168 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
6030116 ATTCACCTTT
6030126 TTTTTC-TTTTTA
1 TTTTTCTTTTTTA
6030138 TTTTTCTTTTTTA
1 TTTTTCTTTTTTA
* * *
6030151 ATTTACTTTTTTG
1 TTTTTCTTTTTTA
6030164 TTTTT
1 TTTTT
6030169 TACTTTTTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
12 6 0.24
13 19 0.76
ACGTcount: A:0.09, C:0.07, G:0.02, T:0.81
Consensus pattern (13 bp):
TTTTTCTTTTTTA
Found at i:6030771 original size:19 final size:19
Alignment explanation
Indices: 6030724--6030781 Score: 73
Period size: 19 Copynumber: 3.0 Consensus size: 19
6030714 TGTCTAGCAA
6030724 TTCAACTTTTTTTTTGCTTT
1 TTCAACTTTTTTTTT-CTTT
*
6030744 TT-ACCTTTTTTTTTCTTT
1 TTCAACTTTTTTTTTCTTT
*
6030762 TTCAAGTTTTTTCTTTCTTT
1 TTCAACTTTTTT-TTTCTTT
6030782 CTTTCCTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 6 0.18
19 18 0.55
20 9 0.27
ACGTcount: A:0.09, C:0.16, G:0.03, T:0.72
Consensus pattern (19 bp):
TTCAACTTTTTTTTTCTTT
Found at i:6030903 original size:27 final size:27
Alignment explanation
Indices: 6030861--6030927 Score: 75
Period size: 28 Copynumber: 2.5 Consensus size: 27
6030851 TTTTTTTATT
* *
6030861 TTTTAATTAATCAAATTATTA-TTTAATA
1 TTTTAATTAA-AAAATTAATATTTTAA-A
6030889 TTTTAATTAAAAAATTAATATTTTAAA
1 TTTTAATTAAAAAATTAATATTTTAAA
*
6030916 -TTCAATTAAAAA
1 TTTTAATTAAAAA
6030928 TTCTACATAG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 11 0.31
27 9 0.26
28 15 0.43
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (27 bp):
TTTTAATTAAAAAATTAATATTTTAAA
Found at i:6031950 original size:28 final size:30
Alignment explanation
Indices: 6031919--6031978 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
6031909 TTATTTATAA
*
6031919 TTTTCCTCT-TTTTT-TTTGTTTTTCACTT
1 TTTTCCTCTATTTTTATTTGTTTTTCAATT
* *
6031947 TTTTCCTTTATTTTTATTTTTTTTTCAATT
1 TTTTCCTCTATTTTTATTTGTTTTTCAATT
6031977 TT
1 TT
6031979 AGGGTTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 8 0.30
29 5 0.19
30 14 0.52
ACGTcount: A:0.08, C:0.13, G:0.02, T:0.77
Consensus pattern (30 bp):
TTTTCCTCTATTTTTATTTGTTTTTCAATT
Found at i:6034206 original size:22 final size:21
Alignment explanation
Indices: 6034181--6034226 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
6034171 TTTAGACTTT
*
6034181 TTTC-AATATAATTTTTTTATCA
1 TTTCAAATAT-ATTTGTTTA-CA
6034203 TTTCAAATATATTTGTTTACA
1 TTTCAAATATATTTGTTTACA
6034224 TTT
1 TTT
6034227 AGTGTGAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 5 0.23
22 12 0.55
23 5 0.23
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.59
Consensus pattern (21 bp):
TTTCAAATATATTTGTTTACA
Found at i:6038341 original size:2 final size:2
Alignment explanation
Indices: 6038334--6038374 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
6038324 TCCATTTACA
6038334 AT AT AT AT AT AT AT AT AT AT AT AT 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 AT AT AT AT AT A
6038375 AAACATTGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6038444 original size:23 final size:23
Alignment explanation
Indices: 6038414--6038461 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
6038404 TTAATGGAAA
6038414 GGGTATCCAGAAGAAAATTTTGG
1 GGGTATCCAGAAGAAAATTTTGG
6038437 GGGTATCCAGAAGAAAATTTTGG
1 GGGTATCCAGAAGAAAATTTTGG
6038460 GG
1 GG
6038462 TTGTCCGGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.33, C:0.08, G:0.33, T:0.25
Consensus pattern (23 bp):
GGGTATCCAGAAGAAAATTTTGG
Found at i:6040917 original size:32 final size:32
Alignment explanation
Indices: 6040853--6040931 Score: 79
Period size: 32 Copynumber: 2.5 Consensus size: 32
6040843 GACATAATTT
* ** *
6040853 TTCAAGTATTACATTGGTTAACAGACTAATAA
1 TTCAAGTATTATATTAATTAACAAACTAATAA
* *
6040885 TTCAAGTATTATATTAATTAACAAATTCATAA
1 TTCAAGTATTATATTAATTAACAAACTAATAA
* *
6040917 TTTAA-TATCATATTA
1 TTCAAGTATTATATTA
6040932 TATGTTTTTA
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
31 9 0.23
32 30 0.77
ACGTcount: A:0.43, C:0.10, G:0.06, T:0.41
Consensus pattern (32 bp):
TTCAAGTATTATATTAATTAACAAACTAATAA
Found at i:6046160 original size:32 final size:32
Alignment explanation
Indices: 6046124--6046189 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
6046114 ATAAATAAAT
* *
6046124 AATCACGCAAATAAATATATT-ACTAATCATAC
1 AATCACACAAATAAATAAATTGA-TAATCATAC
*
6046156 AATCATACAAATAAATAAATTGATAATCATAC
1 AATCACACAAATAAATAAATTGATAATCATAC
6046188 AA
1 AA
6046190 ATAAATATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
32 29 0.97
33 1 0.03
ACGTcount: A:0.55, C:0.15, G:0.03, T:0.27
Consensus pattern (32 bp):
AATCACACAAATAAATAAATTGATAATCATAC
Found at i:6046193 original size:20 final size:20
Alignment explanation
Indices: 6046156--6046236 Score: 81
Period size: 24 Copynumber: 3.7 Consensus size: 20
6046146 CTAATCATAC
6046156 AATCATACAAATAAATAAATTGAT
1 AATCATACAAATAAAT--A-T-AT
6046180 AATCATACAAATAAATATAT
1 AATCATACAAATAAATATAT
*
6046200 AATTATACAAATAAAAATATAT
1 AATCATACAAAT--AAATATAT
*
6046222 AGATCATGCAAATAA
1 A-ATCATACAAATAA
6046237 TCATGCAAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
20 13 0.25
21 3 0.06
22 10 0.20
23 9 0.18
24 16 0.31
ACGTcount: A:0.59, C:0.09, G:0.04, T:0.28
Consensus pattern (20 bp):
AATCATACAAATAAATATAT
Found at i:6046241 original size:12 final size:12
Alignment explanation
Indices: 6046224--6046281 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
6046214 AAATATATAG
6046224 ATCATGCAAATA
1 ATCATGCAAATA
6046236 ATCATGCAAATA
1 ATCATGCAAATA
** ** *
6046248 AAAATATATATA
1 ATCATGCAAATA
6046260 GATCATGCAAATA
1 -ATCATGCAAATA
*
6046273 AACATGCAA
1 ATCATGCAA
6046282 TTAACTTAAA
Statistics
Matches: 34, Mismatches: 11, Indels: 2
0.72 0.23 0.04
Matches are distributed among these distances:
12 27 0.79
13 7 0.21
ACGTcount: A:0.53, C:0.14, G:0.09, T:0.24
Consensus pattern (12 bp):
ATCATGCAAATA
Found at i:6046246 original size:35 final size:37
Alignment explanation
Indices: 6046198--6046281 Score: 127
Period size: 37 Copynumber: 2.3 Consensus size: 37
6046188 AAATAAATAT
* *
6046198 ATAATTATACAAATAAAAATA--TATAGATCATGCAA
1 ATAATCATGCAAATAAAAATATATATAGATCATGCAA
6046233 ATAATCATGCAAATAAAAATATATATAGATCATGCAA
1 ATAATCATGCAAATAAAAATATATATAGATCATGCAA
*
6046270 ATAAACATGCAA
1 ATAATCATGCAA
6046282 TTAACTTAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
35 19 0.43
37 25 0.57
ACGTcount: A:0.56, C:0.11, G:0.07, T:0.26
Consensus pattern (37 bp):
ATAATCATGCAAATAAAAATATATATAGATCATGCAA
Found at i:6046484 original size:17 final size:19
Alignment explanation
Indices: 6046448--6046486 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
6046438 CAGAAAAGTC
*
6046448 AAATCAAATCAAACCAAAA
1 AAATCAAATCAAAACAAAA
6046467 AAAT-AAAT-AAAACAAAA
1 AAATCAAATCAAAACAAAA
6046484 AAA
1 AAA
6046487 AATTGCAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 11 0.58
18 4 0.21
19 4 0.21
ACGTcount: A:0.77, C:0.13, G:0.00, T:0.10
Consensus pattern (19 bp):
AAATCAAATCAAAACAAAA
Found at i:6046487 original size:18 final size:19
Alignment explanation
Indices: 6046448--6046487 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
6046438 CAGAAAAGTC
* *
6046448 AAATCAAATCAAACCAAAA
1 AAATCAAATAAAACAAAAA
6046467 AAAT-AAATAAAACAAAAA
1 AAATCAAATAAAACAAAAA
6046485 AAA
1 AAA
6046488 ATTGCAATCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.78, C:0.12, G:0.00, T:0.10
Consensus pattern (19 bp):
AAATCAAATAAAACAAAAA
Found at i:6047422 original size:6 final size:6
Alignment explanation
Indices: 6047400--6047526 Score: 87
Period size: 6 Copynumber: 20.8 Consensus size: 6
6047390 TTTTTTTGAC
* * *
6047400 TAAAAT T-AAAT CTAAAAT TAAAAA CAAAAA TAAGAAT TAAAAT TAAAAAT
1 TAAAAT TAAAAT -TAAAAT TAAAAT TAAAAT TAA-AAT TAAAAT T-AAAAT
* * * * * * * *
6047450 TAAAAAT CAAAAT CAAAAC TAAAAT TAGAAG CAAAAT CAAAAT TAAAGT
1 T-AAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT
* *
6047499 AAAAAT CAAAAT TAAAAT T-AAAT TAAAA
1 TAAAAT TAAAAT TAAAAT TAAAAT TAAAA
6047527 ATTTTGGACT
Statistics
Matches: 97, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
5 9 0.09
6 67 0.69
7 21 0.22
ACGTcount: A:0.67, C:0.06, G:0.03, T:0.24
Consensus pattern (6 bp):
TAAAAT
Found at i:6047423 original size:7 final size:7
Alignment explanation
Indices: 6047413--6047461 Score: 50
Period size: 7 Copynumber: 7.4 Consensus size: 7
6047403 AATTAAATCT
6047413 AAAATTA
1 AAAATTA
*
6047420 AAAA-CA
1 AAAATTA
6047426 AAAA-TA
1 AAAATTA
*
6047432 AGAATT-
1 AAAATTA
6047438 AAAATTA
1 AAAATTA
6047445 AAAATTA
1 AAAATTA
*
6047452 AAAATCA
1 AAAATTA
6047459 AAA
1 AAA
6047462 TCAAAACTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
6 14 0.40
7 21 0.60
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.20
Consensus pattern (7 bp):
AAAATTA
Found at i:6047441 original size:13 final size:13
Alignment explanation
Indices: 6047407--6047473 Score: 55
Period size: 13 Copynumber: 5.2 Consensus size: 13
6047397 GACTAAAATT
*
6047407 AAATCTAAAATTAA
1 AAAT-TAAAAATAA
*
6047421 AAA-CAAAAATAA
1 AAATTAAAAATAA
* *
6047433 GAATTAAAATTAA
1 AAATTAAAAATAA
*
6047446 AAATTAAAAATCA
1 AAATTAAAAATAA
* *
6047459 AAATCAAAACTAA
1 AAATTAAAAATAA
6047472 AA
1 AA
6047474 TTAGAAGCAA
Statistics
Matches: 41, Mismatches: 11, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
12 9 0.22
13 29 0.71
14 3 0.07
ACGTcount: A:0.70, C:0.07, G:0.01, T:0.21
Consensus pattern (13 bp):
AAATTAAAAATAA
Found at i:6047462 original size:32 final size:32
Alignment explanation
Indices: 6047413--6047476 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
6047403 AATTAAATCT
*
6047413 AAAATTAAAAACAAAAAT-AAGAATTAAAATTA
1 AAAATTAAAAACAAAAATCAA-AACTAAAATTA
6047445 AAAATTAAAAATC-AAAATCAAAACTAAAATTA
1 AAAATTAAAAA-CAAAAATCAAAACTAAAATTA
6047477 GAAGCAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 26 0.90
33 3 0.10
ACGTcount: A:0.70, C:0.06, G:0.02, T:0.22
Consensus pattern (32 bp):
AAAATTAAAAACAAAAATCAAAACTAAAATTA
Found at i:6047508 original size:24 final size:24
Alignment explanation
Indices: 6047407--6047528 Score: 111
Period size: 24 Copynumber: 4.9 Consensus size: 24
6047397 GACTAAAATT
*
6047407 AAATCTAAAATTAAAAACAAAAAT-A
1 AAATC-AAAATT-AAAATAAAAATCA
*
6047432 AGAATTAAAATTAAAAATTAAAAATCA
1 A-AATCAAAATT-AAAA-TAAAAATCA
* * * *
6047459 AAATCAAAACTAAAATTAGAAGCA
1 AAATCAAAATTAAAATAAAAATCA
*
6047483 AAATCAAAATTAAAGTAAAAATCA
1 AAATCAAAATTAAAATAAAAATCA
* *
6047507 AAATTAAAATTAAATTAAAAAT
1 AAATCAAAATTAAAATAAAAAT
6047529 TTTGGACTTT
Statistics
Matches: 80, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
24 45 0.56
25 16 0.20
26 17 0.21
27 2 0.03
ACGTcount: A:0.67, C:0.07, G:0.03, T:0.23
Consensus pattern (24 bp):
AAATCAAAATTAAAATAAAAATCA
Found at i:6051493 original size:60 final size:60
Alignment explanation
Indices: 6051353--6051514 Score: 218
Period size: 60 Copynumber: 2.7 Consensus size: 60
6051343 TATTATTTTT
* * * *
6051353 GGATTATTCAATGCATTTTTAGCCAAAAATACTTTGAATAATCTCTAAAAAAAATTGAAGG
1 GGATTATTCAAGGTATTTTT-GCCAAAAATACCTTGAATAATCTCTAAAAAAAATTAAAGG
* *
6051414 GGATTATTAAAGGTGTTTTTGTCCAAAAATACCTTGAATAATCTCT-AAAAAAATTAAAGG
1 GGATTATTCAAGGTATTTTTG-CCAAAAATACCTTGAATAATCTCTAAAAAAAATTAAAGG
* *
6051474 GGATTATTCAAGGTATTTTTGACAAGAAATGCCTTGAATAA
1 GGATTATTCAAGGTATTTTTGCCAA-AAATACCTTGAATAA
6051515 CCCCATTCAA
Statistics
Matches: 89, Mismatches: 10, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
59 3 0.03
60 47 0.53
61 39 0.44
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.33
Consensus pattern (60 bp):
GGATTATTCAAGGTATTTTTGCCAAAAATACCTTGAATAATCTCTAAAAAAAATTAAAGG
Found at i:6053131 original size:34 final size:34
Alignment explanation
Indices: 6053062--6053132 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 34
6053052 ATAACGGTAC
*
6053062 TTTTTACTATAAACGCTACTAAATTTAGTGACAT
1 TTTTTACTATAAACGCTACTAAATTTAGTCACAT
*
6053096 TTTTTACTATAAATGTCT-CTAAATTTAG-CATCAT
1 TTTTTACTATAAACG-CTACTAAATTTAGTCA-CAT
6053130 TTT
1 TTT
6053133 ATGATAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
33 1 0.03
34 30 0.91
35 2 0.06
ACGTcount: A:0.32, C:0.14, G:0.07, T:0.46
Consensus pattern (34 bp):
TTTTTACTATAAACGCTACTAAATTTAGTCACAT
Found at i:6055253 original size:38 final size:38
Alignment explanation
Indices: 6055202--6055285 Score: 125
Period size: 38 Copynumber: 2.2 Consensus size: 38
6055192 ACGACGGTCT
* * *
6055202 ACCGGTTCGGCGGT-GGATCGGCGTTTCGGGCTATTCTG
1 ACCGGTTCGGCGGTCGGATCGGCGGTCCGGGCGA-TCTG
6055240 ACCGGTTCGGCGGTCGGATCGGCGGTCCGGGCGATCTG
1 ACCGGTTCGGCGGTCGGATCGGCGGTCCGGGCGATCTG
6055278 ACCGGTTC
1 ACCGGTTC
6055286 AGTCCGGTCC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
38 26 0.62
39 16 0.38
ACGTcount: A:0.08, C:0.27, G:0.40, T:0.24
Consensus pattern (38 bp):
ACCGGTTCGGCGGTCGGATCGGCGGTCCGGGCGATCTG
Found at i:6056092 original size:9 final size:9
Alignment explanation
Indices: 6056080--6056122 Score: 70
Period size: 9 Copynumber: 4.8 Consensus size: 9
6056070 TTTCATTTTT
6056080 TTTTGTTTG
1 TTTTGTTTG
6056089 TTTTGTTTG
1 TTTTGTTTG
6056098 TTTTTGTTT-
1 -TTTTGTTTG
6056107 TTTTGTTTG
1 TTTTGTTTG
6056116 TTTTGTT
1 TTTTGTT
6056123 AAATATTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
8 8 0.25
9 16 0.50
10 8 0.25
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (9 bp):
TTTTGTTTG
Found at i:6056329 original size:47 final size:47
Alignment explanation
Indices: 6056249--6057340 Score: 1307
Period size: 47 Copynumber: 23.0 Consensus size: 47
6056239 TCCGAAAGTG
* * * *
6056249 AATTC-TCTTGGAAAAGCTCCTCTCAGCAGAGGCTCAACGACTTTAA
1 AATTCTTCTTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAA
* * * *
6056295 AATCTCATCTT-AAAAAGCTCATCTCAGCAGAGGCTCCATAACTTTAA
1 AAT-TCTTCTTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAA
* * * *
6056342 AATTC-TCATGAAAAAAGTTCCTCTCAGCAGAGGCTCAACAACTTTAA
1 AATTCTTCTTG-AAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAA
* * *
6056389 AATCTCATC-TGGAAAAGCTCCTCTTCAACTGAGGCTCCACAACTTTAA
1 AAT-TCTTCTTGAAAAAGCTCCTC-TCAACAGAGGCTCCACAACTTTAA
* *
6056437 AATTC-TCATCTGAAAAAGCTCCTCTGCTCTCAGCAGAGGCTCAACAACTTTAA
1 AATTCTTC-T-TGAAAAAG---CTC--CTCTCAACAGAGGCTCCACAACTTTAA
6056490 AATTCTTTCTTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAA
1 AATTC-TTCTTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAA
6056538 AATTTCATT-TTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAA
1 AA-TTC-TTCTTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAA
*
6056586 AATTCTTTCTTGAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAA
1 AATTC-TTCTTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAA
6056634 AATTCTTCTTGAAAAAGCTCCTCTCAACAGAGGCT-CACAACTTTAA
1 AATTCTTCTTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAA
6056680 AATTTCTTCTTGAAAAAGCTCCTCTCAACAGAGG--CCACAACTTTAA
1 AA-TTCTTCTTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAA
6056726 AATTC-TCTTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAA
1 AATTCTTCTTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAA
6056772 AA-TCTTTCTTG-AAAAGCTCCTCTCAACAGAGGCT-CACAACTTTAA
1 AATTC-TTCTTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAA
6056817 AATTC-TCATTG-AAAAGCTCCTCTCAACAGAGG--CCACAACTTTAA
1 AATTCTTC-TTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAA
6056861 AATTCTTCTTGAAAAAGCTCCTCTC-ACAGAGGCT-CACAACTTTAA
1 AATTCTTCTTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAA
6056906 AATTC-TCATTTGAAAAAGCTCCTCTCAACAGAGGCT-CACAACTTTAA
1 AATTCTTC--TTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAA
*
6056953 AATTCTTTCTTGAAAAAGCTCCTCTCAACAGAGGCTTCAACAACTTTAA
1 AATTC-TTCTTGAAAAAGCTCCTCTCAACAGAGGC-TCCACAACTTTAA
* *
6057002 ATTTCTT-TCTGAAAAAACTCCTCTCAACAGAGGGCCTCCA-ACAC-TTAA
1 AATTCTTCT-TGAAAAAGCTCCTCTCAACAGA-GG-CTCCACA-ACTTTAA
*
6057050 AGTTCTTTCTTGAAAAACGCTCCTCTCAACAGAGGCTCCACAACTTTAA
1 AATTC-TTCTTGAAAAA-GCTCCTCTCAACAGAGGCTCCACAACTTTAA
6057099 AATTCCATTC-TGAAAAAGCT-CTCTCAACAGAGGCTCCACAAC-TT-A
1 AATT-C-TTCTTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAA
* *
6057144 AATTCTT-TCTGAAAAAGCTCCTC-CAACAGGAGGCT-TACAACTATAA
1 AATTCTTCT-TGAAAAAGCTCCTCTCAACA-GAGGCTCCACAACTTTAA
*
6057190 AATTCCTCTTGAAAAAAGCTCCTCCTCAACAAGAGGCTCCAC-ACTTTAA
1 AATTCTTCTTG-AAAAAGCTCCT-CTCAAC-AGAGGCTCCACAACTTTAA
*
6057239 AATTCTTTCTTG-AAAAGCTTCCCTCTCAACAGGAGGCTCTACAACTTTAAA
1 AATTC-TTCTTGAAAAAGC-T-CCTCTCAACA-GAGGCTCCACAACTTT-AA
* *
6057290 AATTC-TCATTTCGGAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAA
1 AATTCTTC--TT-GAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAA
6057339 AA
1 AA
6057341 ATCTCATTTG
Statistics
Matches: 934, Mismatches: 41, Indels: 139
0.84 0.04 0.12
Matches are distributed among these distances:
43 2 0.00
44 78 0.08
45 91 0.10
46 99 0.11
47 240 0.26
48 194 0.21
49 106 0.11
50 54 0.06
51 19 0.02
52 5 0.01
53 40 0.04
54 4 0.00
55 2 0.00
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.27
Consensus pattern (47 bp):
AATTCTTCTTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAA
Found at i:6058135 original size:7 final size:7
Alignment explanation
Indices: 6058123--6058149 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
6058113 AAGTCATCAT
6058123 TTTTTTC
1 TTTTTTC
6058130 TTTTTTC
1 TTTTTTC
6058137 TTTTTTC
1 TTTTTTC
6058144 TTTTTT
1 TTTTTT
6058150 TTTAAGCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (7 bp):
TTTTTTC
Found at i:6069423 original size:139 final size:137
Alignment explanation
Indices: 6069110--6069390 Score: 400
Period size: 139 Copynumber: 2.0 Consensus size: 137
6069100 TGTAAAATGA
* * * * *
6069110 AATGCAATTTAAGAGTTGGATTCTTAAATATAATGAGATCACCCCGACTCTCCAACATCTAGGCA
1 AATGCAATTTAAGA-CTCGA-TCTAAAAGATAATGAGACCACCCCGACTCTCCAACATCTAGGCA
*
6069175 GAGCTTAGGTGCGACTGTTTATATTTAAGATCCCAATTTTATTATACTTTTTATTTATTAATCTT
64 GAGCTTAGGTGCGACTGTTTATATTTAAAATCCCAATTTTATTATACTTTTTATTTATTAATCTT
*
6069240 ATTTTTAAT
129 ATTATTAAT
* * * *
6069249 AAAATGCAATTTAAGAGTTGATCTTAAATATAATGAGACCACCCCGACTCTCCAACATCTAGGCA
1 --AATGCAATTTAAGACTCGATCTAAAAGATAATGAGACCACCCCGACTCTCCAACATCTAGGCA
*
6069314 GAGCTTAGGTGCGACTGTTTATATTTAAAATCCCAATTTTATTATATTTTTTTTATTTATTAATC
64 GAGCTTAGGTGCGACTGTTTATATTTAAAATCCCAATTTTATTATA--CTTTTTATTTATTAATC
6069379 TTATTATTAAT
127 TTATTATTAAT
6069390 A
1 A
6069391 TGAATTATGA
Statistics
Matches: 132, Mismatches: 6, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
139 89 0.67
140 3 0.02
141 40 0.30
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (137 bp):
AATGCAATTTAAGACTCGATCTAAAAGATAATGAGACCACCCCGACTCTCCAACATCTAGGCAGA
GCTTAGGTGCGACTGTTTATATTTAAAATCCCAATTTTATTATACTTTTTATTTATTAATCTTAT
TATTAAT
Found at i:6069540 original size:16 final size:15
Alignment explanation
Indices: 6069519--6069575 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 15
6069509 TTTTTCGGAC
6069519 TTTGGACTTCAAGGAT
1 TTTGGA-TTCAAGGAT
* *
6069535 TTTGGATTTCGAGCGGT
1 TTTGGA-TTCAAG-GAT
*
6069552 TTTGGATTTAATGGAT
1 TTTGGATTCAA-GGAT
6069568 TTTGGATT
1 TTTGGATT
6069576 TTTAAGGGTT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
16 24 0.73
17 9 0.27
ACGTcount: A:0.19, C:0.07, G:0.28, T:0.46
Consensus pattern (15 bp):
TTTGGATTCAAGGAT
Found at i:6069974 original size:9 final size:9
Alignment explanation
Indices: 6069940--6069990 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
6069930 TTTATCATGC
6069940 AAAAAT-AT
1 AAAAATAAT
6069948 AAAAATATATT
1 AAAAATA-A-T
* *
6069959 TAAAATAAC
1 AAAAATAAT
6069968 AAAAATAAT
1 AAAAATAAT
*
6069977 AATAATAAT
1 AAAAATAAT
6069986 AAAAA
1 AAAAA
6069991 AATTAGAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
8 6 0.18
9 19 0.56
10 2 0.06
11 7 0.21
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (9 bp):
AAAAATAAT
Found at i:6070104 original size:38 final size:38
Alignment explanation
Indices: 6070051--6070149 Score: 135
Period size: 38 Copynumber: 2.6 Consensus size: 38
6070041 GGTCAACGCT
* ** *
6070051 GGTCCGGGCGGTCTGACCGGTTCGACGGTTGGATCGGC
1 GGTCCGGGCGATCTGACCGGTTCGACAATCGGATCGGC
* * *
6070089 GGTTCGGGCTATCTGACCGGTTCGGCAATCGGATCGGC
1 GGTCCGGGCGATCTGACCGGTTCGACAATCGGATCGGC
6070127 GGTCCGGGCGATCTGACCGGTTC
1 GGTCCGGGCGATCTGACCGGTTC
6070150 AGTCCGGTCC
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 52 1.00
ACGTcount: A:0.10, C:0.27, G:0.40, T:0.22
Consensus pattern (38 bp):
GGTCCGGGCGATCTGACCGGTTCGACAATCGGATCGGC
Found at i:6070111 original size:18 final size:18
Alignment explanation
Indices: 6070088--6070149 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
6070078 GTTGGATCGG
*
6070088 CGGTTCGGGCTATCTGAC
1 CGGTTCGGGCAATCTGAC
*
6070106 CGGTTC-GGCAATCGGATC
1 CGGTTCGGGCAATCTGA-C
* *
6070124 GGCGGTCCGGGCGATCTGAC
1 --CGGTTCGGGCAATCTGAC
6070144 CGGTTC
1 CGGTTC
6070150 AGTCCGGTCC
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
17 8 0.24
18 12 0.35
20 6 0.18
21 8 0.24
ACGTcount: A:0.11, C:0.29, G:0.37, T:0.23
Consensus pattern (18 bp):
CGGTTCGGGCAATCTGAC
Found at i:6070963 original size:9 final size:9
Alignment explanation
Indices: 6070951--6070984 Score: 52
Period size: 8 Copynumber: 3.8 Consensus size: 9
6070941 TTTCATTTTT
6070951 TTTTGTTTG
1 TTTTGTTTG
6070960 TTTTTGTTT-
1 -TTTTGTTTG
6070969 TTTTGTTTG
1 TTTTGTTTG
6070978 TTTTGTT
1 TTTTGTT
6070985 AAATATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.35
9 7 0.30
10 8 0.35
ACGTcount: A:0.00, C:0.00, G:0.18, T:0.82
Consensus pattern (9 bp):
TTTTGTTTG
Found at i:6070963 original size:10 final size:10
Alignment explanation
Indices: 6070950--6070981 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
6070940 TTTTCATTTT
6070950 TTTTTGTTTG
1 TTTTTGTTTG
6070960 TTTTTG-TT-
1 TTTTTGTTTG
6070968 TTTTTGTTTG
1 TTTTTGTTTG
6070978 TTTT
1 TTTT
6070982 GTTAAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
8 6 0.30
9 4 0.20
10 10 0.50
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (10 bp):
TTTTTGTTTG
Found at i:6073861 original size:30 final size:30
Alignment explanation
Indices: 6073765--6073865 Score: 116
Period size: 30 Copynumber: 3.4 Consensus size: 30
6073755 CTTTAGTTAC
* *
6073765 ATAAATCTTTATATTTTT-A-TTATATGCAA
1 ATAAATCCTTA-ATTTTTAATTTATATGTAA
** * *
6073794 ATAAATTTTTATTTTTTAATTTGTATGTAA
1 ATAAATCCTTAATTTTTAATTTATATGTAA
*
6073824 ATAAATCCTTAATTTTTAATTTATATTTAA
1 ATAAATCCTTAATTTTTAATTTATATGTAA
6073854 ATAAATCCTTAA
1 ATAAATCCTTAA
6073866 CATAAATCAA
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
28 5 0.08
29 11 0.18
30 45 0.74
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (30 bp):
ATAAATCCTTAATTTTTAATTTATATGTAA
Found at i:6081798 original size:4 final size:4
Alignment explanation
Indices: 6081789--6081837 Score: 62
Period size: 4 Copynumber: 12.2 Consensus size: 4
6081779 ACGAGGTTAG
* * * *
6081789 ATAT ATAT ATAT ATAT ATAT ATGT ATAT GTAT GTAT ATAT ATGT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
6081837 A
1 A
6081838 ATGTATACAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (4 bp):
ATAT
Found at i:6081798 original size:6 final size:6
Alignment explanation
Indices: 6081789--6081837 Score: 62
Period size: 6 Copynumber: 8.2 Consensus size: 6
6081779 ACGAGGTTAG
* * * *
6081789 ATATAT ATATAT ATATAT ATATGT ATATGT ATGTAT ATATAT GTATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
6081837 A
1 A
6081838 ATGTATACAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (6 bp):
ATATAT
Found at i:6081804 original size:10 final size:10
Alignment explanation
Indices: 6081792--6081844 Score: 81
Period size: 10 Copynumber: 5.4 Consensus size: 10
6081782 AGGTTAGATA
*
6081792 TATATATATA
1 TATATATATG
6081802 TATATATATG
1 TATATATATG
*
6081812 TATATGTATG
1 TATATATATG
6081822 TATATATATG
1 TATATATATG
6081832 TATATA-ATG
1 TATATATATG
6081841 TATA
1 TATA
6081845 CAATATTAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
9 7 0.17
10 33 0.82
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (10 bp):
TATATATATG
Found at i:6082412 original size:2 final size:2
Alignment explanation
Indices: 6082407--6082432 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6082397 ACACACACAC
6082407 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
6082433 GAGCATCATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6083701 original size:19 final size:19
Alignment explanation
Indices: 6083654--6083694 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
6083644 GTGCTACCAA
*
6083654 CACCCCTCATCTAAAAAAC
1 CACCCATCATCTAAAAAAC
*
6083673 CACCCATCATTTAAAAAAC
1 CACCCATCATCTAAAAAAC
6083692 CAC
1 CAC
6083695 TTATCATCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.39, G:0.00, T:0.17
Consensus pattern (19 bp):
CACCCATCATCTAAAAAAC
Found at i:6085434 original size:12 final size:12
Alignment explanation
Indices: 6085417--6085441 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6085407 AATTTAACTA
6085417 AAAAATAATAAT
1 AAAAATAATAAT
6085429 AAAAATAATAAT
1 AAAAATAATAAT
6085441 A
1 A
6085442 TTAAACAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAAATAATAAT
Found at i:6085880 original size:12 final size:13
Alignment explanation
Indices: 6085778--6085882 Score: 61
Period size: 13 Copynumber: 8.2 Consensus size: 13
6085768 TTCTAAATTA
* *
6085778 AAACCCTAAAATT
1 AAACCTTAAAATG
*
6085791 AAGCCTTAAAATG
1 AAACCTTAAAATG
* *
6085804 AAACCTTAAGACG
1 AAACCTTAAAATG
* * *
6085817 GAGCCCT-AAATG
1 AAACCTTAAAATG
* *
6085829 AGACCCTAAAATG
1 AAACCTTAAAATG
* * *
6085842 AAACCCTAAACTA
1 AAACCTTAAAATG
* *
6085855 AAATCTTGAAATG
1 AAACCTTAAAATG
6085868 AAA-CTTAAAATG
1 AAACCTTAAAATG
6085880 AAA
1 AAA
6085883 TCCTAGGTAA
Statistics
Matches: 68, Mismatches: 23, Indels: 3
0.72 0.24 0.03
Matches are distributed among these distances:
12 18 0.26
13 50 0.74
ACGTcount: A:0.50, C:0.19, G:0.11, T:0.20
Consensus pattern (13 bp):
AAACCTTAAAATG
Found at i:6085913 original size:19 final size:19
Alignment explanation
Indices: 6085889--6085928 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
6085879 GAAATCCTAG
6085889 GTAAAAT-TCAAAACCTTAA
1 GTAAAATCT-AAAACCTTAA
*
6085908 GTAAAATCTGAAACCTTAA
1 GTAAAATCTAAAACCTTAA
6085927 GT
1 GT
6085929 GAAACCCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.95
20 1 0.05
ACGTcount: A:0.47, C:0.15, G:0.10, T:0.28
Consensus pattern (19 bp):
GTAAAATCTAAAACCTTAA
Found at i:6088617 original size:21 final size:20
Alignment explanation
Indices: 6088591--6088682 Score: 71
Period size: 21 Copynumber: 4.3 Consensus size: 20
6088581 TTAGAGTTGG
6088591 AGATTTTAGGGTTTTGGTTTT
1 AGATTTT-GGGTTTTGGTTTT
*
6088612 AAATTTTGAGGTTTTGGGTTTT
1 AGATTTTG-GGTTTT-GGTTTT
*
6088634 -GATTTAAGGG-TTTGGATTTT
1 AGATTT-TGGGTTTTGG-TTTT
*
6088654 AGGGATTTTGGGTTTTGGGGTTT
1 A--GATTTTGGGTTTT-GGTTTT
6088677 AGATTT
1 AGATTT
6088683 AAAGGTTATG
Statistics
Matches: 57, Mismatches: 5, Indels: 18
0.71 0.06 0.22
Matches are distributed among these distances:
19 2 0.04
20 8 0.14
21 23 0.40
22 10 0.18
23 12 0.21
24 2 0.04
ACGTcount: A:0.16, C:0.00, G:0.32, T:0.52
Consensus pattern (20 bp):
AGATTTTGGGTTTTGGTTTT
Found at i:6088646 original size:14 final size:14
Alignment explanation
Indices: 6088592--6088709 Score: 69
Period size: 14 Copynumber: 8.1 Consensus size: 14
6088582 TAGAGTTGGA
6088592 GATTTTAGGGTTTT
1 GATTTTAGGGTTTT
* **
6088606 GGTTTTA-AATTTT
1 GATTTTAGGGTTTT
6088619 GAGGTTTT-GGGTTTT
1 GA--TTTTAGGGTTTT
* *
6088634 GATTTAAGGGTTTG
1 GATTTTAGGGTTTT
6088648 GATTTTAGGGATTTT
1 GATTTTAGGG-TTTT
* * *
6088663 GGGTTTTGGGGTTTA
1 -GATTTTAGGGTTTT
* * *
6088678 GATTTAAAGGTTAT
1 GATTTTAGGGTTTT
6088692 GAGGTTTTAGGGTTTT
1 GA--TTTTAGGGTTTT
6088708 GA
1 GA
6088710 AATTTAAGAA
Statistics
Matches: 74, Mismatches: 22, Indels: 14
0.67 0.20 0.13
Matches are distributed among these distances:
13 8 0.11
14 31 0.42
15 16 0.22
16 19 0.26
ACGTcount: A:0.18, C:0.00, G:0.32, T:0.50
Consensus pattern (14 bp):
GATTTTAGGGTTTT
Found at i:6088682 original size:44 final size:46
Alignment explanation
Indices: 6088614--6088709 Score: 128
Period size: 44 Copynumber: 2.2 Consensus size: 46
6088604 TTGGTTTTAA
* *
6088614 ATTTTGAGGTTTTGGGTTTTGATTTAAGGGTT-TG-GATTTTAGGG
1 ATTTTGAGGTTTTGGGTTTAGATTTAAAGGTTATGAGATTTTAGGG
*
6088658 ATTTTG-GGTTTTGGGGTTTAGATTTAAAGGTTATGAGGTTTTAGGG
1 ATTTTGAGGTTTT-GGGTTTAGATTTAAAGGTTATGAGATTTTAGGG
6088704 -TTTTGA
1 ATTTTGA
6088710 AATTTAAGAA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
43 6 0.13
44 23 0.51
45 7 0.16
46 9 0.20
ACGTcount: A:0.18, C:0.00, G:0.33, T:0.49
Consensus pattern (46 bp):
ATTTTGAGGTTTTGGGTTTAGATTTAAAGGTTATGAGATTTTAGGG
Found at i:6089418 original size:20 final size:20
Alignment explanation
Indices: 6089393--6089451 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
6089383 CAGGTCCGGG
6089393 CCCGGATCAATTGGGCCTGA
1 CCCGGATCAATTGGGCCTGA
6089413 CCCGGATCAATTGGGCCTGA
1 CCCGGATCAATTGGGCCTGA
* *
6089433 CCCAGATCATTTGGGCCTG
1 CCCGGATCAATTGGGCCTG
6089452 CCCCAAATGG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.19, C:0.31, G:0.29, T:0.22
Consensus pattern (20 bp):
CCCGGATCAATTGGGCCTGA
Found at i:6089513 original size:16 final size:15
Alignment explanation
Indices: 6089492--6089521 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
6089482 TACTCGTATT
6089492 TTTTATTTTTATTTTA
1 TTTTATTTTT-TTTTA
6089508 TTTTATTTTTTTTT
1 TTTTATTTTTTTTT
6089522 CTCTATTGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (15 bp):
TTTTATTTTTTTTTA
Found at i:6089555 original size:22 final size:21
Alignment explanation
Indices: 6089492--6089557 Score: 64
Period size: 22 Copynumber: 3.1 Consensus size: 21
6089482 TACTCGTATT
*
6089492 TTTTATTTTTATT-TTATTTTA
1 TTTTATTTTTATTATTA-TGTA
* *
6089513 TTTT-TTTTTCTCTATTGTGTA
1 TTTTATTTTTAT-TATTATGTA
6089534 TTTTATTATTTATTATTATGTA
1 TTTTATT-TTTATTATTATGTA
6089556 TT
1 TT
6089558 AATATATGTA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
20 6 0.17
21 12 0.33
22 14 0.39
23 4 0.11
ACGTcount: A:0.18, C:0.03, G:0.05, T:0.74
Consensus pattern (21 bp):
TTTTATTTTTATTATTATGTA
Found at i:6089763 original size:11 final size:12
Alignment explanation
Indices: 6089742--6089775 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
6089732 AATTATCTAG
*
6089742 ATTTTTTTTTTA
1 ATTTTTATTTTA
6089754 A-TTTTATTTTA
1 ATTTTTATTTTA
6089765 ATTTTTATTTT
1 ATTTTTATTTT
6089776 GGAGGGCTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (12 bp):
ATTTTTATTTTA
Found at i:6090148 original size:31 final size:31
Alignment explanation
Indices: 6090077--6090149 Score: 112
Period size: 31 Copynumber: 2.4 Consensus size: 31
6090067 AATTTCCAGA
* *
6090077 TTCCGGCGAAAATTCCGGCGACTTTTGAATT
1 TTCCGGCGACAATTCCGGCGACTTTTGAAGT
6090108 TTCCGGCGACAATTCCGGCGAAC-TTTGAAGT
1 TTCCGGCGACAATTCCGGCG-ACTTTTGAAGT
6090139 TTCCGGCGACA
1 TTCCGGCGACA
6090150 GACCCAGTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
31 37 0.95
32 2 0.05
ACGTcount: A:0.22, C:0.26, G:0.25, T:0.27
Consensus pattern (31 bp):
TTCCGGCGACAATTCCGGCGACTTTTGAAGT
Found at i:6090235 original size:19 final size:19
Alignment explanation
Indices: 6090211--6090255 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
6090201 TCCGGCCAAT
6090211 TTCCGGCGAAATTCCCAGA
1 TTCCGGCGAAATTCCCAGA
* *
6090230 TTCCGGCGAATTTTCCAGA
1 TTCCGGCGAAATTCCCAGA
*
6090249 ATCCGGC
1 TTCCGGC
6090256 ACCGGCGTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.24
Consensus pattern (19 bp):
TTCCGGCGAAATTCCCAGA
Found at i:6090485 original size:5 final size:5
Alignment explanation
Indices: 6090475--6090502 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
6090465 TTCAGCCCCT
6090475 CCGAG CCGAG CCGAG CCGAG CCGAG CCG
1 CCGAG CCGAG CCGAG CCGAG CCGAG CCG
6090503 CGATCCGAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.43, G:0.39, T:0.00
Consensus pattern (5 bp):
CCGAG
Found at i:6090541 original size:11 final size:11
Alignment explanation
Indices: 6090525--6090561 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
6090515 CTCCAGGTTT
6090525 TTTTTTTTGAA
1 TTTTTTTTGAA
6090536 TTTTTTTT---
1 TTTTTTTTGAA
6090544 TTTTTTTTGAA
1 TTTTTTTTGAA
6090555 TTTTTTT
1 TTTTTTT
6090562 ATTTTGACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
8 8 0.35
11 15 0.65
ACGTcount: A:0.11, C:0.00, G:0.05, T:0.84
Consensus pattern (11 bp):
TTTTTTTTGAA
Found at i:6090546 original size:19 final size:19
Alignment explanation
Indices: 6090522--6090566 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
6090512 CCGCTCCAGG
6090522 TTTTTTTTTTTGAATTTTT
1 TTTTTTTTTTTGAATTTTT
6090541 TTTTTTTTTTTGAATTTTT
1 TTTTTTTTTTTGAATTTTT
*
6090560 TTATTTT
1 TTTTTTT
6090567 GACTTTGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.11, C:0.00, G:0.04, T:0.84
Consensus pattern (19 bp):
TTTTTTTTTTTGAATTTTT
Found at i:6091055 original size:156 final size:156
Alignment explanation
Indices: 6090597--6091037 Score: 846
Period size: 156 Copynumber: 2.8 Consensus size: 156
6090587 TTTTTTTTCT
6090597 TTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTC
1 TTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTC
*
6090662 TTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCCG
66 TTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCG
6090727 ATAATTAATTAATTGGTTGATCTTGA
131 ATAATTAATTAATTGGTTGATCTTGA
6090753 TTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTC
1 TTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTC
* *
6090818 CTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGGGAATAATTTTCG
66 TTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCG
6090883 ATAATTAATTAATTGGTTGATCTTGA
131 ATAATTAATTAATTGGTTGATCTTGA
*
6090909 TTTTTCTTTAAATAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTC
1 TTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTC
6090974 TTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTC
66 TTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTC
6091038 AACAACTAAC
Statistics
Matches: 279, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
156 279 1.00
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.38
Consensus pattern (156 bp):
TTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTC
TTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCG
ATAATTAATTAATTGGTTGATCTTGA
Found at i:6095327 original size:21 final size:21
Alignment explanation
Indices: 6095303--6095348 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
6095293 AGGAAAAGGC
6095303 AAAAGAAA-AAAAAACAAAGCA
1 AAAAGAAACAAAAAA-AAAGCA
*
6095324 AAAATAAACAAAAAAAAAGCA
1 AAAAGAAACAAAAAAAAAGCA
6095345 AAAA
1 AAAA
6095349 ATGATGATGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.83, C:0.09, G:0.07, T:0.02
Consensus pattern (21 bp):
AAAAGAAACAAAAAAAAAGCA
Found at i:6095335 original size:10 final size:11
Alignment explanation
Indices: 6095311--6095349 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
6095301 GCAAAAGAAA
6095311 AAAAAACAAAGC
1 AAAAAA-AAAGC
*
6095323 AAAAATAAA-C
1 AAAAAAAAAGC
6095333 AAAAAAAAAGC
1 AAAAAAAAAGC
6095344 AAAAAA
1 AAAAAA
6095350 TGATGATGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 9 0.38
11 10 0.42
12 5 0.21
ACGTcount: A:0.82, C:0.10, G:0.05, T:0.03
Consensus pattern (11 bp):
AAAAAAAAAGC
Found at i:6096978 original size:20 final size:21
Alignment explanation
Indices: 6096949--6096992 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
6096939 GCAGAAACAA
6096949 AAATGAAAAA-AAAAAGGCAG
1 AAATGAAAAAGAAAAAGGCAG
* *
6096969 AAATGGAAAAGAAAAAGGTAG
1 AAATGAAAAAGAAAAAGGCAG
6096990 AAA
1 AAA
6096993 CTATAAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.68, C:0.02, G:0.23, T:0.07
Consensus pattern (21 bp):
AAATGAAAAAGAAAAAGGCAG
Found at i:6097807 original size:3 final size:3
Alignment explanation
Indices: 6097799--6097864 Score: 114
Period size: 3 Copynumber: 21.3 Consensus size: 3
6097789 GAGGAATTAT
6097799 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6097847 ATTA ATAA ATA ATA ATA A
1 A-TA AT-A ATA ATA ATA A
6097865 ATTTCAAAGG
Statistics
Matches: 61, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
3 55 0.90
4 6 0.10
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:6098435 original size:17 final size:18
Alignment explanation
Indices: 6098403--6098440 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
6098393 TCCGTTTAAC
6098403 ATAAAAAATATAAAAATA
1 ATAAAAAATATAAAAATA
*
6098421 ATAAATAAT-TAAAAATA
1 ATAAAAAATATAAAAATA
6098438 ATA
1 ATA
6098441 TGATATGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
ATAAAAAATATAAAAATA
Found at i:6100419 original size:22 final size:21
Alignment explanation
Indices: 6100394--6100439 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
6100384 AATGTTTCTA
*
6100394 TTTATCATATTAAAATCTTTAC
1 TTTATCATATTAAAAT-TTAAC
* *
6100416 TTTATTATTTTAAAATTTAAC
1 TTTATCATATTAAAATTTAAC
6100437 TTT
1 TTT
6100440 TTATTTAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTATCATATTAAAATTTAAC
Found at i:6100434 original size:20 final size:19
Alignment explanation
Indices: 6100403--6100449 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 19
6100393 ATTTATCATA
*
6100403 TTAAAATCTTTACTTTATTATT
1 TTAAAAT-TTAACTTT-TTA-T
6100425 TTAAAATTTAACTTTTTAT
1 TTAAAATTTAACTTTTTAT
6100444 TTAAAA
1 TTAAAA
6100450 AATATATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 7 0.29
20 3 0.12
21 7 0.29
22 7 0.29
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.55
Consensus pattern (19 bp):
TTAAAATTTAACTTTTTAT
Found at i:6100452 original size:21 final size:22
Alignment explanation
Indices: 6100405--6100450 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 22
6100395 TTATCATATT
* *
6100405 AAAATCTTTACTTTATTATTTT
1 AAAATCTTAACTTTATTATTTA
6100427 AAAAT-TTAACTTT-TTATTTA
1 AAAATCTTAACTTTATTATTTA
6100447 AAAA
1 AAAA
6100451 ATATATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 10 0.45
21 7 0.32
22 5 0.23
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (22 bp):
AAAATCTTAACTTTATTATTTA
Found at i:6105726 original size:200 final size:201
Alignment explanation
Indices: 6105308--6105869 Score: 501
Period size: 200 Copynumber: 2.8 Consensus size: 201
6105298 GTTAAGCATC
* * * *** * **
6105308 CACTTACTGTCAATTAATTTTAGGTTGGATGCTTAAGATGGTATCAGAGTTAGGATTTCCTTCTG
1 CACTTACTGTCAATTGATTTTAGGTTGGATGCTTAACATGGTATCAAAAACAAGATTTCCTTCCA
* * * * **
6105373 TTGCCTTTTCTAAATCTGTCACATAATAAGCTTCTTCTATTTTTGCCTACACATGATGGAGGCCT
66 TTGCCTTTCCTAAATCTATCACATAATAAGCTTATTCCATTTTCACCTACACATGATGGAGGCCT
* * ** * * *
6105438 GTTAAAATGTGTTATCTCACATCTAATAAATTTTTAATATCTTGTAGTCTTATATTGAAGTTGAA
131 GTTAAAATGGGTTATCTCACATCTAATAAATATCGAATATCTTATAGTCGTATATTGAAGTTAAA
6105503 CATTTT
196 CATTTT
* * * *
6105509 TACTTATTGTCAATTGATTTTAGGTTGGATGCTTAACATGATATCAAAAACAAGATTTCTTTCCA
1 CACTTACTGTCAATTGATTTTAGGTTGGATGCTTAACATGGTATCAAAAACAAGATTTCCTTCCA
* * * *
6105574 TTGCCCTTTCCT-AATCTATCACGTAGTAAGTTTATTCCATTTTCACCTACACATG-TGGGGGCC
66 TTG-CCTTTCCTAAATCTATCACATAATAAGCTTATTCCATTTTCACCTACACATGATGGAGGCC
* * * *
6105637 TGTTAAAATGGGTTATC-CTACATTTAATAAATATCGATTTTCTTATAGTCGTATATTTAAGTTA
130 TGTTAAAATGGGTTATCTC-ACATCTAATAAATATCGAATATCTTATAGTCGTATATTGAAGTTA
6105701 AAC-TTCTT
194 AACATT-TT
** * * * ** * *
6105709 CACTTACTACCAATTGATTTTAAGTT-AATTGCTTAATATGGTATCAAAGCCATA-ATTTCTTTT
1 CACTTACTGTCAATTGATTTTAGGTTGGA-TGCTTAACATGGTATCAAAAACA-AGATTTCCTTC
* * * ** * * * *
6105772 TATTGCCTTTTCTAAATTTATCACATAGCAAGCTTCTTTCATCTCCACCTACATC-TGAT-GAGG
64 CATTGCCTTTCCTAAATCTATCACATAATAAGCTTATTCCATTTTCACCTACA-CATGATGGA-G
* * * *
6105835 GCCTATTAATATGGGTTATCCCATATCTAATAAAT
127 GCCTGTTAAAATGGGTTATCTCACATCTAATAAAT
6105870 TTTTAATTTT
Statistics
Matches: 291, Mismatches: 60, Indels: 20
0.78 0.16 0.05
Matches are distributed among these distances:
199 11 0.04
200 149 0.51
201 123 0.42
202 8 0.03
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.41
Consensus pattern (201 bp):
CACTTACTGTCAATTGATTTTAGGTTGGATGCTTAACATGGTATCAAAAACAAGATTTCCTTCCA
TTGCCTTTCCTAAATCTATCACATAATAAGCTTATTCCATTTTCACCTACACATGATGGAGGCCT
GTTAAAATGGGTTATCTCACATCTAATAAATATCGAATATCTTATAGTCGTATATTGAAGTTAAA
CATTTT
Found at i:6111746 original size:26 final size:26
Alignment explanation
Indices: 6111717--6111774 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
6111707 TTAGGTTTTT
* *
6111717 GTTTTAAGATTTTATTTTAAGGTTTC
1 GTTTTAAGATTCTACTTTAAGGTTTC
* * *
6111743 GTTTTAAGGTTCTGCTTTAGGGTTTC
1 GTTTTAAGATTCTACTTTAAGGTTTC
6111769 GTTTTA
1 GTTTTA
6111775 GGGTTTTACA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.17, C:0.07, G:0.21, T:0.55
Consensus pattern (26 bp):
GTTTTAAGATTCTACTTTAAGGTTTC
Found at i:6111751 original size:13 final size:13
Alignment explanation
Indices: 6111717--6111780 Score: 58
Period size: 13 Copynumber: 4.9 Consensus size: 13
6111707 TTAGGTTTTT
* *
6111717 GTTTTAAGATTTT
1 GTTTTAAGGTTTC
*
6111730 ATTTTAAGGTTTC
1 GTTTTAAGGTTTC
6111743 GTTTTAAGG-TTC
1 GTTTTAAGGTTTC
* *
6111755 TGCTTTAGGGTTTC
1 -GTTTTAAGGTTTC
*
6111769 GTTTTAGGGTTT
1 GTTTTAAGGTTT
6111781 TACAAATTTA
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
12 3 0.07
13 36 0.86
14 3 0.07
ACGTcount: A:0.16, C:0.06, G:0.23, T:0.55
Consensus pattern (13 bp):
GTTTTAAGGTTTC
Found at i:6112071 original size:24 final size:25
Alignment explanation
Indices: 6112015--6112072 Score: 64
Period size: 27 Copynumber: 2.3 Consensus size: 25
6112005 CAATGAAAAA
*
6112015 TTTTTTATTATTAGATATTATATAT
1 TTTTTTATTATTAGATATTATAAAT
* *
6112040 TTACTTTTATTATTA-TTTTTATAAAT
1 TT--TTTTATTATTAGATATTATAAAT
6112066 TTTTTTA
1 TTTTTTA
6112073 AAAAATATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
24 5 0.18
25 2 0.07
26 10 0.36
27 11 0.39
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (25 bp):
TTTTTTATTATTAGATATTATAAAT
Found at i:6114025 original size:7 final size:7
Alignment explanation
Indices: 6114014--6114045 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
6114004 AAAAATAAGA
6114014 AAAAGGT
1 AAAAGGT
*
6114021 GAAAGGT
1 AAAAGGT
6114028 AAAAGGT
1 AAAAGGT
6114035 AAAAGGT
1 AAAAGGT
6114042 AAAA
1 AAAA
6114046 AAAAAAAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.59, C:0.00, G:0.28, T:0.12
Consensus pattern (7 bp):
AAAAGGT
Found at i:6114295 original size:15 final size:15
Alignment explanation
Indices: 6114275--6114304 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6114265 TTTATGAAAT
6114275 ATAAAAAAAAATAAA
1 ATAAAAAAAAATAAA
*
6114290 ATAAAAAACAATAAA
1 ATAAAAAAAAATAAA
6114305 GCAAAAAAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.13
Consensus pattern (15 bp):
ATAAAAAAAAATAAA
Found at i:6114894 original size:43 final size:44
Alignment explanation
Indices: 6114823--6114907 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 44
6114813 TAGCAGTCCA
*
6114823 CCAAGCCAACTTTTCTGCCTTTCTTCCCTCTT-CACCATAACCAG
1 CCAAGCCAACTTTTCTGCCTTTCTTCCCT-TTCCACCACAACCAG
*
6114867 CCAAGCCAA-TTCTTCTTCC-TTCTTCCCTTTCCACCACAACC
1 CCAAGCCAACTT-TTCTGCCTTTCTTCCCTTTCCACCACAACC
6114908 CACATAAAGC
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
42 2 0.05
43 20 0.54
44 15 0.41
ACGTcount: A:0.20, C:0.44, G:0.05, T:0.32
Consensus pattern (44 bp):
CCAAGCCAACTTTTCTGCCTTTCTTCCCTTTCCACCACAACCAG
Found at i:6116835 original size:17 final size:17
Alignment explanation
Indices: 6116810--6116843 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6116800 TTAAAATAAA
*
6116810 AAATGAATAAATAAAAC
1 AAATAAATAAATAAAAC
*
6116827 AAATAAATAATTAAAAC
1 AAATAAATAAATAAAAC
6116844 TAAAAGTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.71, C:0.06, G:0.03, T:0.21
Consensus pattern (17 bp):
AAATAAATAAATAAAAC
Found at i:6121456 original size:20 final size:22
Alignment explanation
Indices: 6121418--6121459 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
6121408 TTAATTCATA
6121418 TATATATAATAAAAATAAAAAT
1 TATATATAATAAAAATAAAAAT
*
6121440 TATATAT-AT-AAATTAAAAAT
1 TATATATAATAAAAATAAAAAT
6121460 ATAAACTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 2 0.11
22 7 0.37
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
TATATATAATAAAAATAAAAAT
Found at i:6121456 original size:26 final size:26
Alignment explanation
Indices: 6121410--6121471 Score: 81
Period size: 26 Copynumber: 2.3 Consensus size: 26
6121400 GATTATATTT
6121410 AATTCATATATATATAATAAAAATAAA
1 AATT-ATATATATATAATAAAAATAAA
*
6121437 AATTATATATATA-AATTAAAAATATA
1 AATTATATATATATAA-TAAAAATAAA
*
6121463 AACTATATA
1 AATTATATA
6121472 GAAGTAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
25 2 0.06
26 26 0.81
27 4 0.12
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.35
Consensus pattern (26 bp):
AATTATATATATATAATAAAAATAAA
Found at i:6121471 original size:28 final size:25
Alignment explanation
Indices: 6121415--6121471 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 25
6121405 TATTTAATTC
6121415 ATATATATATAATAAAAATAAAAAT
1 ATATATATATAATAAAAATAAAAAT
*
6121440 -TATATATATAAATTAAAAATATAAACT
1 ATATATATAT-AA-TAAAAATA-AAAAT
6121467 ATATA
1 ATATA
6121472 GAAGTAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
24 9 0.33
25 2 0.07
26 8 0.30
27 4 0.15
28 4 0.15
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (25 bp):
ATATATATATAATAAAAATAAAAAT
Found at i:6122993 original size:5 final size:5
Alignment explanation
Indices: 6122983--6123010 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
6122973 ACTTGTAATT
6122983 ATTTA ATTTA ATTTA ATTTA ATTTA ATT
1 ATTTA ATTTA ATTTA ATTTA ATTTA ATT
6123011 CATACAATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
ATTTA
Found at i:6124520 original size:132 final size:129
Alignment explanation
Indices: 6124145--6124696 Score: 444
Period size: 132 Copynumber: 4.2 Consensus size: 129
6124135 CTCTCATATG
* * * * * * *
6124145 ATAATTATAAAAATA-TTCTCTCTTATAATTATATACTA-AATA-ATT--TTAAAAAATTACTAA
1 ATAATTATAAAAATACTTTTTTCTTATAATTATTTACTATAATACCTTCCCTAAGAAATTACCAA
* * * * * * * * *
6124205 AATACTTTTTACATTATATGATAA-AAATTTTATACGTGACTAACTAAACTATTAT--GTTATCA
66 AATTCATTTT-CATTATTTGATAAGAAA-TTGACATGTGACTAAATTAACTATTATCCCTTAT-A
6124267 TAC
128 -AC
* * * *** **
6124270 TATAATTACAAAAATACCTTTTTTCTTATAATTATTTAATA-AATA-ATTTTTTTTGAAATTACC
1 -ATAATTATAAAAATA-CTTTTTTCTTATAATTATTTACTATAATACCTTCCCTAAGAAATTACC
* * *
6124333 AAAATATCATTTCCATTATATGATAAGAAATTGACATGTGA-TCAAATTAATTATTATACCCTTA
64 AAAAT-TCATTTTCATTATTTGATAAGAAATTGACATGTGACT-AAATTAACTATTAT-CCCTTA
*
6124397 TACC
126 TAAC
*
6124401 ATAATTATAAAAATACTCTTTTTCTTATAATTATTTACTGTAATA-CTTCCCTCAAGAAATTACC
1 ATAATTATAAAAATACT-TTTTTCTTATAATTATTTACTATAATACCTTCCCT-AAGAAATTACC
* * * * *
6124465 AAAATGTCATTTTCATCATTTGACAAAAAATTGACATGTGACTAAATTGACTATTATGCCTTCAT
64 AAAAT-TCATTTTCATTATTTGATAAGAAATTGACATGTGACTAAATTAACTATTATCCCTT-AT
6124530 AAC
127 AAC
* * *
6124533 ATAATTACAAAAATATTTTTTCTCTTATAATTATTTACTATAATACCTTCCCTAACAAATTACCA
1 ATAATTATAAAAATACTTTTT-TCTTATAATTATTTACTATAATACCTTCCCTAAGAAATTACCA
* * * * * **
6124598 AAATACATTTTTCATTATTTAATAAGAAATTGACACGTAACCAAATTAACTATTATGCATTTATA
65 AAATTCA-TTTTCATTATTTGATAAGAAATTGACATGTGACTAAATTAACTATTAT-CCCTTATA
*
6124663 TC
128 AC
* *
6124665 ATAATTATGAAAATACTTATTCTCTTATAATT
1 ATAATTATAAAAATACTT-TTTTCTTATAATT
6124697 TATCTTAATA
Statistics
Matches: 346, Mismatches: 60, Indels: 34
0.79 0.14 0.08
Matches are distributed among these distances:
126 14 0.04
128 26 0.08
129 3 0.01
130 80 0.23
131 25 0.07
132 182 0.53
133 16 0.05
ACGTcount: A:0.41, C:0.14, G:0.04, T:0.41
Consensus pattern (129 bp):
ATAATTATAAAAATACTTTTTTCTTATAATTATTTACTATAATACCTTCCCTAAGAAATTACCAA
AATTCATTTTCATTATTTGATAAGAAATTGACATGTGACTAAATTAACTATTATCCCTTATAAC
Found at i:6127767 original size:20 final size:21
Alignment explanation
Indices: 6127730--6127771 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
6127720 TGAAGTCTAT
*
6127730 AAAAAAATTCAACCAAAACCCA
1 AAAAAAATCCAA-CAAAACCCA
6127752 AAAAAAATCCAA-AAAACCCA
1 AAAAAAATCCAACAAAACCCA
6127772 GAAATTCAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
22 11 0.58
ACGTcount: A:0.67, C:0.26, G:0.00, T:0.07
Consensus pattern (21 bp):
AAAAAAATCCAACAAAACCCA
Found at i:6128523 original size:14 final size:14
Alignment explanation
Indices: 6128482--6128525 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
6128472 TTAAATTATT
6128482 GTATTTGAATATAA
1 GTATTTGAATATAA
* * *
6128496 GTTTTTTAAAATAA
1 GTATTTGAATATAA
*
6128510 GTATTTGATTATAA
1 GTATTTGAATATAA
6128524 GT
1 GT
6128526 TATATCTACA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.14, T:0.48
Consensus pattern (14 bp):
GTATTTGAATATAA
Found at i:6129919 original size:14 final size:14
Alignment explanation
Indices: 6129894--6129936 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
6129884 TTTATATTCG
6129894 TTTAAGATTTGTTTA
1 TTTAA-ATTTGTTTA
6129909 TTTAAATTTGTTTA
1 TTTAAATTTGTTTA
* *
6129923 ATTATGATTTGTTT
1 TTTA-AATTTGTTT
6129937 GTTGTTCATG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 12 0.48
15 13 0.52
ACGTcount: A:0.26, C:0.00, G:0.12, T:0.63
Consensus pattern (14 bp):
TTTAAATTTGTTTA
Found at i:6129932 original size:15 final size:14
Alignment explanation
Indices: 6129898--6129936 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
6129888 TATTCGTTTA
*
6129898 AGATTTGTTTATTT
1 AGATTTGTTTAATT
*
6129912 AAATTTGTTTAATT
1 AGATTTGTTTAATT
6129926 ATGATTTGTTT
1 A-GATTTGTTT
6129937 GTTGTTCATG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.26, C:0.00, G:0.13, T:0.62
Consensus pattern (14 bp):
AGATTTGTTTAATT
Found at i:6137418 original size:13 final size:13
Alignment explanation
Indices: 6137400--6137429 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
6137390 CATCAATTAA
6137400 TTTTTTTAACAAT
1 TTTTTTTAACAAT
*
6137413 TTTTTTTATCAAT
1 TTTTTTTAACAAT
6137426 TTTT
1 TTTT
6137430 GTTATTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTTTTAACAAT
Found at i:6137871 original size:2 final size:2
Alignment explanation
Indices: 6137864--6137893 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6137854 CCCAGCTTGC
6137864 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6137894 GCAGCTAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6142013 original size:32 final size:32
Alignment explanation
Indices: 6141971--6142044 Score: 96
Period size: 32 Copynumber: 2.3 Consensus size: 32
6141961 CCTGAAACTA
* *
6141971 AAAATAATCCAAACTCAAAT-CAATTCAAAATT
1 AAAATAATCCAAA-TCAAATAAAATCCAAAATT
* *
6142003 AAAATGATCCAAATCTAATAAAATCCAAAATT
1 AAAATAATCCAAATCAAATAAAATCCAAAATT
6142035 AAAATAATCC
1 AAAATAATCC
6142045 CGAAAAATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
31 5 0.14
32 31 0.86
ACGTcount: A:0.57, C:0.18, G:0.01, T:0.24
Consensus pattern (32 bp):
AAAATAATCCAAATCAAATAAAATCCAAAATT
Found at i:6142015 original size:16 final size:16
Alignment explanation
Indices: 6141971--6142044 Score: 64
Period size: 16 Copynumber: 4.6 Consensus size: 16
6141961 CCTGAAACTA
*
6141971 AAAATAATCC-AAACT
1 AAAATAATCCAAAATT
* *
6141986 CAAATCAATTCAAAATT
1 AAAAT-AATCCAAAATT
*
6142003 AAAATGATCC-AAATCT
1 AAAATAATCCAAAAT-T
6142019 AATAA-AATCCAAAATT
1 AA-AATAATCCAAAATT
6142035 AAAATAATCC
1 AAAATAATCC
6142045 CGAAAAATTA
Statistics
Matches: 46, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
15 10 0.22
16 22 0.48
17 14 0.30
ACGTcount: A:0.57, C:0.18, G:0.01, T:0.24
Consensus pattern (16 bp):
AAAATAATCCAAAATT
Found at i:6142172 original size:34 final size:34
Alignment explanation
Indices: 6142134--6142207 Score: 139
Period size: 34 Copynumber: 2.2 Consensus size: 34
6142124 TATGTTACTT
*
6142134 ATAAAATTTCTTATAATTTATAATATGATTTAAA
1 ATAAAATTTCTTATAATTTATAAGATGATTTAAA
6142168 ATAAAATTTCTTATAATTTATAAGATGATTTAAA
1 ATAAAATTTCTTATAATTTATAAGATGATTTAAA
6142202 ATAAAA
1 ATAAAA
6142208 CTTTTTTAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.43
Consensus pattern (34 bp):
ATAAAATTTCTTATAATTTATAAGATGATTTAAA
Found at i:6142946 original size:25 final size:24
Alignment explanation
Indices: 6142918--6142964 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
6142908 TTAAAGCATA
*
6142918 TAAATTATAATTTTATATTTATTTT
1 TAAAATATAATTTTAT-TTTATTTT
**
6142943 TAAAATATTTTTTTATTTTATT
1 TAAAATATAATTTTATTTTATT
6142965 ATCTTTTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 6 0.32
25 13 0.68
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (24 bp):
TAAAATATAATTTTATTTTATTTT
Found at i:6143171 original size:16 final size:16
Alignment explanation
Indices: 6143134--6143174 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
6143124 TTAATTTGAC
* *
6143134 TCAAAATAATTCTAAC
1 TCAAAATAATTCAAAA
6143150 TCAAAATAATTCAAAA
1 TCAAAATAATTCAAAA
*
6143166 TTAAAATAA
1 TCAAAATAA
6143175 CCAAATTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (16 bp):
TCAAAATAATTCAAAA
Found at i:6144262 original size:10 final size:10
Alignment explanation
Indices: 6144247--6144285 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
6144237 AATTATTTTA
6144247 TATTTAAATT
1 TATTTAAATT
*
6144257 TATTTAAATA
1 TATTTAAATT
*
6144267 TATTTAAAAT
1 TATTTAAATT
6144277 TATATTAAA
1 TAT-TTAAA
6144286 ATAGTATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
10 20 0.80
11 5 0.20
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (10 bp):
TATTTAAATT
Found at i:6144270 original size:20 final size:21
Alignment explanation
Indices: 6144245--6144285 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
6144235 ATAATTATTT
*
6144245 TATATTTAAATTTAT-TTAAA
1 TATATTTAAAATTATATTAAA
6144265 TATATTTAAAATTATATTAAA
1 TATATTTAAAATTATATTAAA
6144286 ATAGTATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TATATTTAAAATTATATTAAA
Found at i:6144954 original size:22 final size:21
Alignment explanation
Indices: 6144920--6144960 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
6144910 ATAAAATTCA
6144920 AAAAAATTAAAAAAAATTTTTT
1 AAAAAATT-AAAAAAATTTTTT
* *
6144942 AAAACATTTAAAAAATTTT
1 AAAAAATTAAAAAAATTTT
6144961 CAATATTTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (21 bp):
AAAAAATTAAAAAAATTTTTT
Found at i:6144955 original size:10 final size:9
Alignment explanation
Indices: 6144888--6145141 Score: 75
Period size: 10 Copynumber: 26.1 Consensus size: 9
6144878 AAAAAGAAAT
6144888 ATTTAAAAA
1 ATTTAAAAA
*
6144897 A-TTCAAAA
1 ATTTAAAAA
*
6144905 ATTAAATAAA
1 ATTTAA-AAA
*
6144915 ATTCAAAAAA
1 ATT-TAAAAA
*
6144925 ATTAAAAAAA
1 ATT-TAAAAA
*
6144935 ATTTTTTAAAAC
1 A---TTTAAAAA
6144947 ATTTAAAAA
1 ATTTAAAAA
* *
6144956 ATTTTCAATA
1 A-TTTAAAAA
*
6144966 TTTCTAAAAAA
1 ATT-T-AAAAA
6144977 ATTCT-AAAA
1 ATT-TAAAAA
*
6144986 ATTGAAAATA
1 ATTTAAAA-A
6144996 ATTCTAAAAA
1 ATT-TAAAAA
6145006 ATTTCAAAAA
1 ATTT-AAAAA
* *
6145016 ATATACAAA
1 ATTTAAAAA
* *
6145025 ATACTAAACA
1 AT-TTAAAAA
6145035 ATTCTAAAAA
1 ATT-TAAAAA
6145045 ATTTTGAAAAA
1 A-TTT-AAAAA
* * *
6145056 GTTTTAGAA
1 ATTTAAAAA
*
6145065 TTTATAAAAA
1 ATT-TAAAAA
6145075 ATTTAAAAA
1 ATTTAAAAA
*
6145084 TATGATTTAAAA
1 -AT--TTAAAAA
6145096 A-TTAAAAA
1 ATTTAAAAA
* *
6145104 A-TTACGATA
1 ATTTA-AAAA
*
6145113 ATTTTAAAA
1 ATTTAAAAA
*
6145122 ATTTCAAAA
1 ATTTAAAAA
6145131 ATTCTAAAAA
1 ATT-TAAAAA
6145141 A
1 A
6145142 AATTAATAAA
Statistics
Matches: 183, Mismatches: 38, Indels: 47
0.68 0.14 0.18
Matches are distributed among these distances:
8 17 0.09
9 57 0.31
10 74 0.40
11 22 0.12
12 11 0.06
13 2 0.01
ACGTcount: A:0.59, C:0.06, G:0.02, T:0.33
Consensus pattern (9 bp):
ATTTAAAAA
Found at i:6144988 original size:30 final size:30
Alignment explanation
Indices: 6144907--6145017 Score: 87
Period size: 30 Copynumber: 3.6 Consensus size: 30
6144897 ATTCAAAAAT
* * *
6144907 TAAATAAAATTCAAAAAAATTAAAAAAAATTTT
1 TAAA-AAAATTC-AAAAAATTGAAAATAA-TTC
* * * *** *
6144940 TTAAAACATTTAAAAAATTTTCAATATTTC
1 TAAAAAAATTCAAAAAATTGAAAATAATTC
*
6144970 TAAAAAAATTCTAAAAATTGAAAATAATTC
1 TAAAAAAATTCAAAAAATTGAAAATAATTC
*
6145000 TAAAAAATTTCAAAAAAT
1 TAAAAAAATTCAAAAAAT
6145018 ATACAAAATA
Statistics
Matches: 59, Mismatches: 19, Indels: 3
0.73 0.23 0.04
Matches are distributed among these distances:
30 40 0.68
31 11 0.19
32 5 0.08
33 3 0.05
ACGTcount: A:0.59, C:0.06, G:0.01, T:0.33
Consensus pattern (30 bp):
TAAAAAAATTCAAAAAATTGAAAATAATTC
Found at i:6145332 original size:20 final size:19
Alignment explanation
Indices: 6145309--6145369 Score: 65
Period size: 18 Copynumber: 3.2 Consensus size: 19
6145299 AATAAATCTG
6145309 AAAATTTTTAAAAAGATTAT
1 AAAATTTTTAAAAA-ATTAT
*
6145329 AAAAATTTTTGAAAAATTA-
1 -AAAATTTTTAAAAAATTAT
6145348 AATAA-TTTTAAAAAA-TAT
1 AA-AATTTTTAAAAAATTAT
6145366 AAAA
1 AAAA
6145370 CATTTTGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
17 4 0.11
18 13 0.36
19 2 0.06
20 4 0.11
21 13 0.36
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (19 bp):
AAAATTTTTAAAAAATTAT
Found at i:6145352 original size:22 final size:21
Alignment explanation
Indices: 6145309--6145375 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
6145299 AATAAATCTG
6145309 AAAATTTTTAAAAAGATTATA
1 AAAATTTTTAAAAAGATTATA
*
6145330 AAAATTTTTGAAAA-ATTA-A
1 AAAATTTTTAAAAAGATTATA
*
6145349 ATAA-TTTTAAAAA-A-TATA
1 AAAATTTTTAAAAAGATTATA
6145367 AAACATTTT
1 AAA-ATTTT
6145376 GAAATTTAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
17 2 0.05
18 12 0.31
19 5 0.13
20 7 0.18
21 13 0.33
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (21 bp):
AAAATTTTTAAAAAGATTATA
Found at i:6145368 original size:19 final size:19
Alignment explanation
Indices: 6145276--6145375 Score: 87
Period size: 20 Copynumber: 5.1 Consensus size: 19
6145266 TGTTTCAAAA
* *
6145276 TTTAAATAATATAAAATTT
1 TTTAAAAAATATAAAAATT
* * *
6145295 TTTCAATAAATCTGAAAATT
1 TTT-AAAAAATATAAAAATT
6145315 TTTAAAAAGATTATAAAAATT
1 TTTAAAAA-A-TATAAAAATT
*
6145336 TTTGAAAAAT-TAAATAA-T
1 TTTAAAAAATATAAA-AATT
6145354 TTTAAAAAATATAAAACATT
1 TTTAAAAAATATAAAA-ATT
6145374 TT
1 TT
6145376 GAAATTTAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
18 15 0.23
19 15 0.23
20 19 0.30
21 15 0.23
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (19 bp):
TTTAAAAAATATAAAAATT
Found at i:6145393 original size:38 final size:37
Alignment explanation
Indices: 6145240--6145410 Score: 109
Period size: 39 Copynumber: 4.4 Consensus size: 37
6145230 TTGAAAATTA
* *
6145240 AAAAAATATATAAAATTATTTGAAAATGTTTCAA-AA-TTT
1 AAAAAATATA-AAAATT-TTTGAAAA--ATTAAATAATTTT
* * * *
6145279 AAATAATATAAAATTTTTTCAATAAATCTGAAA-ATTTTT
1 AAAAAATATAAAAATTTTTGAA-AAAT-T-AAATAATTTT
6145318 AAAAAGATTATAAAAATTTTTGAAAAATTAAATAATTTT
1 AAAAA-A-TATAAAAATTTTTGAAAAATTAAATAATTTT
*
6145357 AAAAAATATAAAACA-TTTTG-AAATTTAAAATGAATTTT
1 AAAAAATATAAAA-ATTTTTGAAAAATT-AAAT-AATTTT
*
6145395 GGAAAAAAGATAAAAA
1 --AAAAAATATAAAAA
6145411 AATTAATAAA
Statistics
Matches: 108, Mismatches: 12, Indels: 24
0.75 0.08 0.17
Matches are distributed among these distances:
36 6 0.06
37 22 0.20
38 21 0.19
39 28 0.26
40 17 0.16
41 14 0.13
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.36
Consensus pattern (37 bp):
AAAAAATATAAAAATTTTTGAAAAATTAAATAATTTT
Found at i:6145458 original size:18 final size:18
Alignment explanation
Indices: 6145437--6145476 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
6145427 AAAAAATTCA
* *
6145437 AAAAAAAAATTAAAATTT
1 AAAAAAAAATAAAAATAT
*
6145455 AAAAAAATATAAAAATAT
1 AAAAAAAAATAAAAATAT
6145473 AAAA
1 AAAA
6145477 TTTTAAGTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (18 bp):
AAAAAAAAATAAAAATAT
Found at i:6145730 original size:32 final size:31
Alignment explanation
Indices: 6145665--6145740 Score: 100
Period size: 32 Copynumber: 2.4 Consensus size: 31
6145655 TTTAAATTTC
*
6145665 TTTTAGATTTTTTTAAAACTTTGAAGGAATT
1 TTTTAGATTTTTTTAAAACTTTGAAGAAATT
* *
6145696 TTTTTGAATTTTTTTAAAACTTT-TAGAAACTT
1 TTTTAG-ATTTTTTTAAAACTTTGAAGAAA-TT
6145728 TTTTAGATTTTTT
1 TTTTAGATTTTTT
6145741 ATAATTTCCT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
31 16 0.41
32 23 0.59
ACGTcount: A:0.29, C:0.04, G:0.09, T:0.58
Consensus pattern (31 bp):
TTTTAGATTTTTTTAAAACTTTGAAGAAATT
Found at i:6145794 original size:21 final size:20
Alignment explanation
Indices: 6145770--6145860 Score: 92
Period size: 21 Copynumber: 4.4 Consensus size: 20
6145760 AATATTTATG
*
6145770 ATTTTTTAAAAATGTTCTAGA
1 ATTTTTTAAAAAT-TTTTAGA
* * *
6145791 ATTTATAAAAAAATTTTAGA
1 ATTTTTTAAAAATTTTTAGA
* *
6145811 GTTTTTTATAAATTTTTTAGA
1 ATTTTTTA-AAAATTTTTAGA
*
6145832 ATTTTTTTAAGAATTTTTAGA
1 A-TTTTTTAAAAATTTTTAGA
6145853 ATTTTTTA
1 ATTTTTTA
6145861 TAACGCTAAT
Statistics
Matches: 56, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
20 18 0.32
21 31 0.55
22 7 0.12
ACGTcount: A:0.37, C:0.01, G:0.08, T:0.54
Consensus pattern (20 bp):
ATTTTTTAAAAATTTTTAGA
Found at i:6145847 original size:41 final size:40
Alignment explanation
Indices: 6145758--6145863 Score: 104
Period size: 41 Copynumber: 2.5 Consensus size: 40
6145748 CCTAAAATTT
*
6145758 AGAATATTTATGATTTTTTAAAAATGTTCTAGAATTTATAAA
1 AGAAT-TTTA-GATTTTTTATAAATGTTCTAGAATTTATAAA
* * * * **
6145800 AAAATTTTAGAGTTTTTTATAAATTTTTTAGAATTTTTTTA
1 AGAATTTTAGA-TTTTTTATAAATGTTCTAGAATTTATAAA
6145841 AGAATTTTTAGAATTTTTTATAA
1 AGAA-TTTTAG-ATTTTTTATAA
6145864 CGCTAATGTG
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
40 2 0.04
41 30 0.57
42 20 0.38
43 1 0.02
ACGTcount: A:0.39, C:0.01, G:0.08, T:0.52
Consensus pattern (40 bp):
AGAATTTTAGATTTTTTATAAATGTTCTAGAATTTATAAA
Found at i:6146657 original size:21 final size:21
Alignment explanation
Indices: 6146632--6146671 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6146622 ATAAACACAT
* *
6146632 TTAAACCTACTCTTGAATACA
1 TTAAACATACTATTGAATACA
6146653 TTAAACATACTATTGAATA
1 TTAAACATACTATTGAATA
6146672 AATAAACTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.17, G:0.05, T:0.35
Consensus pattern (21 bp):
TTAAACATACTATTGAATACA
Found at i:6147274 original size:84 final size:84
Alignment explanation
Indices: 6147098--6147328 Score: 218
Period size: 84 Copynumber: 2.8 Consensus size: 84
6147088 AGAGATTCAG
* * * * * *
6147098 CTTGAAAGACTTACGGATCTTGCCTA-AAAGATTTAGAGACTATACTCAAAGGTCTTACAAATCT
1 CTTGAAAAACTTACGAATCTTGCTTAGAAA-ACTTAGAGACTATATTCAGAGGTCTTACAAATCT
* *
6147162 TGACATAAAAATAAATTCAAT
65 GGACACAAAAATAAATT-AAT
** * *
6147183 -TAAAAAAACTTACGAATCTTGCTTAGAAAACTTAGAGATTATATTCAGAGGTCTTATAAATCTG
1 CTTGAAAAACTTACGAATCTTGCTTAGAAAACTTAGAGACTATATTCAGAGGTCTTACAAATCTG
*
6147247 GACACAAAAATAGACTT-AT
66 GACACAAAAATA-AATTAAT
* ** * * * **
6147266 CTTGAAAAACTTACAAAT-TTTATCAGAGAACTTAGAGACTATGTTTGGAGGTCTTACAAATCT
1 CTTGAAAAACTTACGAATCTTGCTTAGAAAACTTAGAGACTATATTCAGAGGTCTTACAAATCT
6147329 CAACATCTAT
Statistics
Matches: 118, Mismatches: 25, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
83 38 0.32
84 74 0.63
85 6 0.05
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.31
Consensus pattern (84 bp):
CTTGAAAAACTTACGAATCTTGCTTAGAAAACTTAGAGACTATATTCAGAGGTCTTACAAATCTG
GACACAAAAATAAATTAAT
Found at i:6147590 original size:3 final size:3
Alignment explanation
Indices: 6147582--6147625 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
6147572 TTGTTATAGT
6147582 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
6147626 TCTTTCTTTC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:6148614 original size:12 final size:12
Alignment explanation
Indices: 6148593--6148634 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
6148583 TTTGATATTT
6148593 TTTA-TTTTTTA
1 TTTATTTTTTTA
6148604 TTTATTTTTTTAA
1 TTTATTTTTTT-A
*
6148617 TTTATGTTTTTA
1 TTTATTTTTTTA
*
6148629 TATATT
1 TTTATT
6148635 ATTTAAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
11 4 0.15
12 11 0.42
13 11 0.42
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.76
Consensus pattern (12 bp):
TTTATTTTTTTA
Found at i:6148619 original size:13 final size:13
Alignment explanation
Indices: 6148593--6148638 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
6148583 TTTGATATTT
6148593 TTTA-TTTTTT-A
1 TTTATTTTTTTAA
6148604 TTTATTTTTTTAA
1 TTTATTTTTTTAA
*
6148617 TTTATGTTTTTATA
1 TTTATTTTTTTA-A
6148631 TATTATTT
1 T-TTATTT
6148639 AAATAATATG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 4 0.14
12 6 0.21
13 12 0.41
14 2 0.07
15 5 0.17
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (13 bp):
TTTATTTTTTTAA
Found at i:6155912 original size:83 final size:83
Alignment explanation
Indices: 6155816--6156090 Score: 204
Period size: 83 Copynumber: 3.3 Consensus size: 83
6155806 TTGGGTAGCT
*
6155816 TTTTTAAATTTTCAAAAGTCATT-AAACTTCTGTTTAGAGAAG-TCTTTCAAATTTTCA-AAGTC
1 TTTTT-AATTTTC-AAAGTCATTGAAACTT-TGCTTAGAGAAGCT-TTTCAAATTTTCATAAGTC
6155878 -GTTAAGCCTCTACTTAAAGGAG
62 AGTTAA-CCTCTACTTAAAGGAG
** ** * *
6155900 TTTTTAATTTTCAAAGTTGTTGAGCCTTTGCTTAGAGGAGCTTTTCAAATTTTCATAAGTCATTT
1 TTTTTAATTTTCAAAGTCATTGAAACTTTGCTTAGAGAAGCTTTTCAAATTTTCATAAGTCAGTT
* * *
6155965 AACCTCTGCTTAGAGTAG
66 AACCTCTACTTAAAGGAG
** ** * * * *
6155983 TTTTTAATTTTTC-AAGTTGTTGAGCCTCTACTTAGAGGAGCTTTTCAAATTTTCA-AGAGTTA-
1 TTTTTAA-TTTTCAAAGTCATTGAAACTTTGCTTAGAGAAGCTTTTCAAATTTTCATA-AGTCAG
* * *
6156045 TTAAGCTTTTGCTTAAAGGAGG
64 TTAA-CCTCTACTTAAAGGA-G
* *
6156067 TTTTTAAAATTTCAAAGTCGTTGA
1 TTTTT-AATTTTCAAAGTCATTGA
6156091 GCCTCTACTT
Statistics
Matches: 162, Mismatches: 19, Indels: 19
0.81 0.09 0.09
Matches are distributed among these distances:
82 35 0.22
83 92 0.57
84 24 0.15
85 11 0.07
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (83 bp):
TTTTTAATTTTCAAAGTCATTGAAACTTTGCTTAGAGAAGCTTTTCAAATTTTCATAAGTCAGTT
AACCTCTACTTAAAGGAG
Found at i:6155915 original size:40 final size:40
Alignment explanation
Indices: 6155865--6156123 Score: 209
Period size: 40 Copynumber: 6.3 Consensus size: 40
6155855 AAGTCTTTCA
6155865 AATTTTCAAAGTCGTTAAGCCTCTACTTAAAGGAGTTTTT
1 AATTTTCAAAGTCGTTAAGCCTCTACTTAAAGGAGTTTTT
* * * * * *
6155905 AATTTTCAAAGTTGTTGAGCCTTTGCTTAGAGGAGCTTTTCA
1 AATTTTCAAAGTCGTTAAGCCTCTACTTAAAGGAG-TTTT-T
* * * *
6155947 AATTTTCATAAGTCATTTAA-CCTCTGCTTAGAGTAGTTTTT
1 AATTTTCA-AAGTC-GTTAAGCCTCTACTTAAAGGAGTTTTT
* * * *
6155988 AATTTTTC-AAGTTGTTGAGCCTCTACTTAGAGGAGCTTTTCA
1 AA-TTTTCAAAGTCGTTAAGCCTCTACTTAAAGGAG-TTTT-T
** * * *
6156030 AATTTTCAAGAGTTATTAAGCTTTTGCTTAAAGGAGGTTTTT
1 AATTTTCAA-AGTCGTTAAGCCTCTACTTAAAGGA-GTTTTT
* * *
6156072 AAAATTTCAAAGTCGTTGAGCCTCTACTT-AGGGAGTTTTT
1 -AATTTTCAAAGTCGTTAAGCCTCTACTTAAAGGAGTTTTT
6156112 AATTTTCAAAGT
1 AATTTTCAAAGT
6156124 TATCGAGCCT
Statistics
Matches: 173, Mismatches: 34, Indels: 25
0.75 0.15 0.11
Matches are distributed among these distances:
39 14 0.08
40 54 0.31
41 19 0.11
42 33 0.19
43 49 0.28
44 4 0.02
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.42
Consensus pattern (40 bp):
AATTTTCAAAGTCGTTAAGCCTCTACTTAAAGGAGTTTTT
Found at i:6156133 original size:124 final size:122
Alignment explanation
Indices: 6155882--6156239 Score: 395
Period size: 124 Copynumber: 2.9 Consensus size: 122
6155872 AAAGTCGTTA
* * * * * *
6155882 AGCCTCTACTTAAAGGAGTTTT-TAATTTTCAAAGTTGTTGAGCCTTTGCTTAGAGGAGCTTTTC
1 AGCCTCTACTTAGAGGAGTTTTCAAATTTTCAAAGTTATTGAGCTTTTGCTTAGAGGAGGTTTTT
* * * * * * *
6155946 AAATTTTCATAAGTCATTTAACCTCTGCTTAGAGTAGTTTTTAATTTTTCAAGTTGTTG
66 AAATTTTCA-AAGTCGTTGAGCCTCTACTTAGAGGAGTTTTTAA-TTTTCAAGTTATCG
* *
6156005 AGCCTCTACTTAGAGGAGCTTTTCAAATTTTCAAGAGTTATTAAGCTTTTGCTTAAAGGAGGTTT
1 AGCCTCTACTTAGAGGAG-TTTTCAAATTTTCAA-AGTTATTGAGCTTTTGCTTAGAGGAGGTTT
*
6156070 TTAAAATTTCAAAGTCGTTGAGCCTCTACTTAG-GGAGTTTTTAATTTTCAAAGTTATCG
64 TTAAATTTTCAAAGTCGTTGAGCCTCTACTTAGAGGAGTTTTTAATTTTC-AAGTTATCG
* *
6156129 AGCCTCTA-TATAGAGGAGTCTTTCAAATTTTCAAAAGTTATCGAGCTTTTGCTTAGAGGA-GCT
1 AGCCTCTACT-TAGAGGAGT-TTTCAAATTTTC-AAAGTTATTGAGCTTTTGCTTAGAGGAGGTT
* * * * *
6156192 TTT-AATTTTTAAAGTTGTTGAGCATCTAATTAGAGGAGATTTT-ATTTT
63 TTTAAATTTTCAAAGTCGTTGAGCCTCTACTTAGAGGAGTTTTTAATTTT
6156240 GTAAAGCTGT
Statistics
Matches: 201, Mismatches: 26, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
122 30 0.15
123 37 0.18
124 71 0.35
125 29 0.14
126 34 0.17
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (122 bp):
AGCCTCTACTTAGAGGAGTTTTCAAATTTTCAAAGTTATTGAGCTTTTGCTTAGAGGAGGTTTTT
AAATTTTCAAAGTCGTTGAGCCTCTACTTAGAGGAGTTTTTAATTTTCAAGTTATCG
Found at i:6156170 original size:43 final size:39
Alignment explanation
Indices: 6155864--6156235 Score: 174
Period size: 40 Copynumber: 9.0 Consensus size: 39
6155854 GAAGTCTTTC
** ** *
6155864 AAATTTTCAAAGTCGTTAAGCCTCTACTTAAAGGAGTTTT
1 AAATTTTCAAAGTTATCGAGCCTCTACTT-AGGGAGTTTT
* * * * *
6155904 TAATTTTCAAAGTTGTTGAGCCTTTGCTTAGAGGAGCTTTT
1 AAATTTTCAAAGTTATCGAGCCTCTACTTAG-GGAG-TTTT
* ** * * *
6155945 CAAATTTTCATAAGTCATTTAACCTCTGCTTAGAGTAGTTTTT
1 -AAATTTTCA-AAGTTATCGAGCCTCTACTTAG-GGAG-TTTT
* * *
6155988 AATTTTTC-AAGTTGTTGAGCCTCTACTTAGAGGAGCTTTT
1 AAATTTTCAAAGTTATCGAGCCTCTACTTAG-GGAG-TTTT
** * * * *
6156028 CAAATTTTCAAGAGTTATTAAGCTTTTGCTTAAAGGAGGTTTTT
1 -AAATTTTCAA-AGTTATCGAGCCTCTACTT-AGGGA-G-TTTT
* ** *
6156072 AAAATTTCAAAGTCGTTGAGCCTCTACTTAGGGAGTTTT
1 AAATTTTCAAAGTTATCGAGCCTCTACTTAGGGAGTTTT
*
6156111 TAATTTTCAAAGTTATCGAGCCTCTA-TATAGAGGAGTCTTT
1 AAATTTTCAAAGTTATCGAGCCTCTACT-TAG-GGAGT-TTT
* * *
6156152 CAAATTTTCAAAAGTTATCGAGCTTTTGCTTAGAGGAGCTTTT
1 -AAATTTTC-AAAGTTATCGAGCCTCTACTTAG-GGAG-TTTT
* * * * *
6156195 -AATTTTTAAAGTTGTTGAGCATCTAATTAGAGGAGATTTT
1 AAATTTTCAAAGTTATCGAGCCTCTACTTAG-GGAG-TTTT
6156235 A
1 A
6156236 TTTTGTAAAG
Statistics
Matches: 260, Mismatches: 55, Indels: 33
0.75 0.16 0.09
Matches are distributed among these distances:
38 1 0.00
39 29 0.11
40 85 0.33
41 24 0.09
42 36 0.14
43 77 0.30
44 8 0.03
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.41
Consensus pattern (39 bp):
AAATTTTCAAAGTTATCGAGCCTCTACTTAGGGAGTTTT
Found at i:6156476 original size:3 final size:3
Alignment explanation
Indices: 6156468--6156505 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
6156458 TTGTTATAGT
6156468 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
6156506 CTTTCTTTCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:6157499 original size:18 final size:18
Alignment explanation
Indices: 6157476--6157512 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
6157466 ACATTTTTGG
6157476 TATTTAT-TTATTAATTTA
1 TATTTATATT-TTAATTTA
6157494 TATTTATATTTTAATTTA
1 TATTTATATTTTAATTTA
6157512 T
1 T
6157513 GTTTTTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 16 0.89
19 2 0.11
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTTATATTTTAATTTA
Found at i:6157839 original size:17 final size:19
Alignment explanation
Indices: 6157817--6157857 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
6157807 ATAGTTATTT
6157817 TAAAACAAA-AT-AAAAAA
1 TAAAACAAAGATAAAAAAA
6157834 TAAAACAAATGATAAAAAAA
1 TAAAACAAA-GATAAAAAAA
6157854 TAAA
1 TAAA
6157858 TAAACATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.43
19 2 0.10
20 10 0.48
ACGTcount: A:0.78, C:0.05, G:0.02, T:0.15
Consensus pattern (19 bp):
TAAAACAAAGATAAAAAAA
Found at i:6159721 original size:23 final size:23
Alignment explanation
Indices: 6159654--6159721 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 23
6159644 TTTTTATCGA
*
6159654 TGTCAGTTAAACTAGGCTTAAAG
1 TGTCAGCTAAACTAGGCTTAAAG
* * * *
6159677 TG-CGAACTAATCTAAGCCTAAAG
1 TGTC-AGCTAAACTAGGCTTAAAG
*
6159700 TGTCAGCTAAACTAGGTTTAAA
1 TGTCAGCTAAACTAGGCTTAAA
6159722 ATTTTATCAA
Statistics
Matches: 33, Mismatches: 10, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
22 1 0.03
23 31 0.94
24 1 0.03
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.28
Consensus pattern (23 bp):
TGTCAGCTAAACTAGGCTTAAAG
Found at i:6159765 original size:78 final size:78
Alignment explanation
Indices: 6159626--6159854 Score: 232
Period size: 78 Copynumber: 3.0 Consensus size: 78
6159616 TATTGCTGCT
* * * * *
6159626 AGCTAAATTGGGTTTAAATTTTTATCGATGTCAGTTAAACTAGGCTTAAAGTGCGAACTAATCTA
1 AGCTAAACTAGGTTTAAAATTTTATCAATGTCAGTTAAACTAGGCTTAAAATGCGAACTAATCTA
6159691 AGCCTAAAGTGTC
66 AGCCTAAAGTGTC
* *
6159704 AGCTAAACTAGGTTTAAAATTTTATCAATGCCAGTTAAACTAGGCTTAAAATGTC-AGCTAATCT
1 AGCTAAACTAGGTTTAAAATTTTATCAATGTCAGTTAAACTAGGCTTAAAATG-CGAACTAATCT
* * * *
6159768 AAGCTTAAATTTTT
65 AAGCCTAAAGTGTC
* * * * * * * *
6159782 AGCTAAGCTAGGCTT-AAA-TTTATCAGTGTCAGGTAATCTAGGCTT-AGATGCCAACTAATATA
1 AGCTAAACTAGGTTTAAAATTTTATCAATGTCAGTTAAACTAGGCTTAAAATGCGAACTAATCTA
* *
6159844 GGCTTAAAGTG
66 AGCCTAAAGTG
6159855 CCAACTGATC
Statistics
Matches: 126, Mismatches: 23, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
74 1 0.01
75 20 0.16
76 23 0.18
77 3 0.02
78 78 0.62
79 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.33
Consensus pattern (78 bp):
AGCTAAACTAGGTTTAAAATTTTATCAATGTCAGTTAAACTAGGCTTAAAATGCGAACTAATCTA
AGCCTAAAGTGTC
Found at i:6159800 original size:23 final size:23
Alignment explanation
Indices: 6159743--6159807 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
6159733 GCCAGTTAAA
* * *
6159743 CTAGGCTTAAAATGTCAGCTAAT
1 CTAGGCTTAAATTTTCAGCTAAG
* *
6159766 CTAAGCTTAAATTTTTAGCTAAG
1 CTAGGCTTAAATTTTCAGCTAAG
6159789 CTAGGCTTAAATTTATCAG
1 CTAGGCTTAAATTT-TCAG
6159808 TGTCAGGTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
23 31 0.91
24 3 0.09
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.35
Consensus pattern (23 bp):
CTAGGCTTAAATTTTCAGCTAAG
Found at i:6159845 original size:22 final size:23
Alignment explanation
Indices: 6159815--6159860 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
6159805 CAGTGTCAGG
* *
6159815 TAATCTAGGCTTAGA-TGCCAAC
1 TAATATAGGCTTAAAGTGCCAAC
6159837 TAATATAGGCTTAAAGTGCCAAC
1 TAATATAGGCTTAAAGTGCCAAC
6159860 T
1 T
6159861 GATCTGGGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (23 bp):
TAATATAGGCTTAAAGTGCCAAC
Found at i:6159912 original size:23 final size:23
Alignment explanation
Indices: 6159874--6159919 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
6159864 CTGGGTTTAG
*
6159874 GTGCTAGCTAAACTAGGCTTAAA
1 GTGCTAGCTAAACTAGACTTAAA
* *
6159897 GTGCTAGTTAATCTAGACTTAAA
1 GTGCTAGCTAAACTAGACTTAAA
6159920 TCTTATCGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (23 bp):
GTGCTAGCTAAACTAGACTTAAA
Found at i:6164885 original size:34 final size:34
Alignment explanation
Indices: 6164818--6164886 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
6164808 GTGGATTCCA
* ** *
6164818 TAAATTTACTTGAAAAGATTCTTTTCTTTTTTTT
1 TAAACTTACTTGAAAAGATTCTTTTAATATTTTT
* *
6164852 TAAACTTATTTGAAAAGATTTTTTTAATATTTTT
1 TAAACTTACTTGAAAAGATTCTTTTAATATTTTT
6164886 T
1 T
6164887 CCACTTTTAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (34 bp):
TAAACTTACTTGAAAAGATTCTTTTAATATTTTT
Found at i:6164963 original size:10 final size:10
Alignment explanation
Indices: 6164924--6164991 Score: 55
Period size: 10 Copynumber: 6.2 Consensus size: 10
6164914 GAAAATATTC
6164924 AATAAAAATA
1 AATAAAAATA
*
6164934 AATAATTAAGAAA
1 AATAA--AA-ATA
6164947 AATTAAAAATA
1 AA-TAAAAATA
*
6164958 AATAAAATTA
1 AATAAAAATA
6164968 AATTATAAAATA
1 AA-TA-AAAATA
*
6164980 AATAAAATTA
1 AATAAAAATA
6164990 AA
1 AA
6164992 AAATTAAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
10 21 0.45
11 8 0.17
12 11 0.23
13 4 0.09
14 3 0.06
ACGTcount: A:0.72, C:0.00, G:0.01, T:0.26
Consensus pattern (10 bp):
AATAAAAATA
Found at i:6164964 original size:17 final size:17
Alignment explanation
Indices: 6164924--6164993 Score: 54
Period size: 17 Copynumber: 3.9 Consensus size: 17
6164914 GAAAATATTC
*
6164924 AATAAAAA-TAAATAATT
1 AATAAAAATTAAA-AATA
*
6164941 AAGAAAAATTAAAAATA
1 AATAAAAATTAAAAATA
6164958 AATAAAATTAAATTATAAAATA
1 AAT--AA--AAATTA-AAAATA
6164980 AAT-AAAATTAAAAA
1 AATAAAAATTAAAAA
6164994 ATTAAAAAAG
Statistics
Matches: 44, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
16 4 0.09
17 18 0.41
18 4 0.09
19 3 0.07
21 6 0.14
22 9 0.20
ACGTcount: A:0.73, C:0.00, G:0.01, T:0.26
Consensus pattern (17 bp):
AATAAAAATTAAAAATA
Found at i:6164980 original size:22 final size:21
Alignment explanation
Indices: 6164946--6164991 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 21
6164936 TAATTAAGAA
6164946 AAATTAAAAATAAATAAAATT
1 AAATTAAAAATAAATAAAATT
6164967 AAATTATAAAATAAATAAAATT
1 AAATTA-AAAATAAATAAAATT
6164989 AAA
1 AAA
6164992 AAATTAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 6 0.25
22 18 0.75
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (21 bp):
AAATTAAAAATAAATAAAATT
Done.