Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 93 of 295
Found at i:27366285 original size:22 final size:22
Alignment explanation
Indices: 27366209--27366282 Score: 65
Period size: 17 Copynumber: 3.7 Consensus size: 22
27366199 ATAATCTTCA
27366209 ATATGCAATCTT---AGATATG
1 ATATGCAATCTTAGAAGATATG
27366228 ATA--CAATCTT---AGATATG
1 ATATGCAATCTTAGAAGATATG
27366245 ATATGCAATCTTAGAAGATATG
1 ATATGCAATCTTAGAAGATATG
* *
27366267 ATTTTGTAATCTTAGA
1 A-TATGCAATCTTAGA
27366283 GATTTAATTT
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
17 17 0.36
19 10 0.21
22 8 0.17
23 12 0.26
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.38
Consensus pattern (22 bp):
ATATGCAATCTTAGAAGATATG
Found at i:27366292 original size:22 final size:22
Alignment explanation
Indices: 27366251--27366296 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
27366241 TATGATATGC
*
27366251 AATCTTAGAAGATATGATTTTGT
1 AATCTTAGAAGATAT-AATTTGT
*
27366274 AATCTTAG-AGATTTAATTTGT
1 AATCTTAGAAGATATAATTTGT
27366295 AA
1 AA
27366297 ATACCTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 8 0.38
22 5 0.24
23 8 0.38
ACGTcount: A:0.37, C:0.04, G:0.15, T:0.43
Consensus pattern (22 bp):
AATCTTAGAAGATATAATTTGT
Found at i:27366295 original size:21 final size:23
Alignment explanation
Indices: 27366238--27366296 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 23
27366228 ATACAATCTT
* *
27366238 AGATATG-ATATGCAATCTTAGA
1 AGATATGAATTTGTAATCTTAGA
*
27366260 AGATATGATTTTGTAATCTTAG-
1 AGATATGAATTTGTAATCTTAGA
*
27366282 AGAT-TTAATTTGTAA
1 AGATATGAATTTGTAA
27366297 ATACCTTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 9 0.29
22 11 0.35
23 11 0.35
ACGTcount: A:0.37, C:0.05, G:0.17, T:0.41
Consensus pattern (23 bp):
AGATATGAATTTGTAATCTTAGA
Found at i:27373547 original size:18 final size:19
Alignment explanation
Indices: 27373524--27373559 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
27373514 GAGGGAGATG
27373524 AGAAGAAAG-AAAGAAAAT
1 AGAAGAAAGAAAAGAAAAT
27373542 AGAAGAAAGAAAAGAAAA
1 AGAAGAAAGAAAAGAAAA
27373560 GGTAATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.75, C:0.00, G:0.22, T:0.03
Consensus pattern (19 bp):
AGAAGAAAGAAAAGAAAAT
Found at i:27379914 original size:33 final size:33
Alignment explanation
Indices: 27379801--27379960 Score: 121
Period size: 33 Copynumber: 4.8 Consensus size: 33
27379791 AACTTGAGCT
** * * **
27379801 GGGAGGAGTGCCATACTGCGGCGGATACGACCC
1 GGGAGGAGTGCTGTACTGAGGTGGATACGGGCC
* * *
27379834 AGGAGGAGTAG-AGTACT-ACGGTGGATACAGGCC
1 GGGAGGAGT-GCTGTACTGA-GGTGGATACGGGCC
*
27379867 GGGGGGAGTGCTGTACTGAGGTGGATACGGGCC
1 GGGAGGAGTGCTGTACTGAGGTGGATACGGGCC
* * * *
27379900 GGGAGAAGTACTGTACT-AGGATGGATATGGGTC
1 GGGAGGAGTGCTGTACTGAGG-TGGATACGGGCC
*
27379933 GGGAGGAGTGCTATACTGCA-GTGGATAC
1 GGGAGGAGTGCTGTACTG-AGGTGGATAC
27379961 AACCCAAAGA
Statistics
Matches: 99, Mismatches: 21, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
32 4 0.04
33 91 0.92
34 3 0.03
35 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.42, T:0.18
Consensus pattern (33 bp):
GGGAGGAGTGCTGTACTGAGGTGGATACGGGCC
Found at i:27382068 original size:64 final size:63
Alignment explanation
Indices: 27381934--27382060 Score: 166
Period size: 64 Copynumber: 2.0 Consensus size: 63
27381924 TTTTGTAATG
*** *
27381934 TAAATTATGTTATATAAATTAAATACATTACAACCATAATGTAATTGGATAAAACTTTGTAATA
1 TAAATTATGTTATATAAATTAAATACATTACAACCATAATGT-ATTGGATAAAACTACATAAGA
* *
27381998 TAAATTATGTTATATAAATTAAATACATTACAACCATAATAGT-TTTGCTAAAGACTACATAAG
1 TAAATTATGTTATATAAATTAAATACATTACAACCATAAT-GTATTGGATAAA-ACTACATAAG
27382061 CTCAATTACT
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
63 7 0.13
64 46 0.84
65 2 0.04
ACGTcount: A:0.46, C:0.09, G:0.08, T:0.36
Consensus pattern (63 bp):
TAAATTATGTTATATAAATTAAATACATTACAACCATAATGTATTGGATAAAACTACATAAGA
Found at i:27383949 original size:648 final size:649
Alignment explanation
Indices: 27382706--27385304 Score: 4620
Period size: 648 Copynumber: 4.0 Consensus size: 649
27382696 GGATTGGGGT
* *
27382706 TATACGGTGCTACCGATCATATTACAGTTCAGACAAATATGCATTTCATTTTACGGATCGAAATT
1 TATACGGTGCTACCGATCATATTACAGTTCAGACAAATATGCATTTCATTTTACAGATCAAAATT
** * *
27382771 ACAACTTATGCATACGCAAAACATATGTCACATCATTAACTTCATTGACCAAATATTAGACCTAT
66 ACAACTTATGCATATACAAAACATATGTCACATCATTAACTTTATTGACCGAATATTAGACCTAT
* * **
27382836 ATAGATATATATTTATATATATAATTCATACGTATAGGCCAAATCATACATCAATTGGAATAAAT
131 ATAG----A-A--TATATATATAAGTCATACATATACACCAAATCATACATCAATTGGAATAAAT
27382901 TTTCATTACTAACCCTTTTATCCATGTATGTGGCATTAATGCGTTTGTCTATGTGAAATTCACAT
189 TTTCATTACTAACCCTTTTATCCATGTATGTGGCATTAATGCGTTTGTCTATGTGAAATTCACAT
*
27382966 GTTTGCATCATAACATAATTTAAAACATGCATTCGTTTATAAGTAATCCATTTATACATATTTTA
254 GTTTGCATCATAACATAATTTAAAACATGCATTCGGTTATAAGTAATCCATTTATACATATTTTA
27383031 TAACTTACAATTAACTAACAATCTATATAGCCATGCATATGCTTTGATTTCTATTCATCAACCAC
319 TAACTTACAATTAACTAACAATCTATATAGCCATGCATATGCTTTGATTTCTATTCATCAACCAC
*
27383096 GTGACCTACCTTAGTTCAATTAACATCCAAATAAACATATGGCTGAAACATACTAACAATGCTCA
384 GTGACCTACCTTAGTTCAATTAACATCCAAATAAACATATGGCTAAAACATACTAACAATGCTCA
*
27383161 TGTATATAATGCGCAACTTACTCCAAAATAAAGACTACACTTACCATTAATTACATATTAAAAAC
449 TGTATATAATGCGCAACTTACTCCAAAATAAAGACTACACTTACCATTAATTACATACTAAAAAC
27383226 AACCGACCAAAATGATCATGCAATACATGCAACACTTACCATTTAGCAACCGAATAATTTAAACT
514 AACCGACCAAAATGATCATGCAATACATGCAACACTTACCATTTAGCAACCGAATAATTTAAACT
27383291 AGCATACATTCATCCATCACTTTAATTATCACATTACACATTTTCCATCAAAAACTAACTAATAT
579 AGCATACATTCATCCATCACTTTAATTATCACATTACACATTTTCCATCAAAAACTAACTAATAT
27383356 ACCAAG
644 ACCAAG
*
27383362 TATACGGTGCTACCGATCATATTACAGTTCAGACAAATATGCATTTCATTTTACAGATCGAAATT
1 TATACGGTGCTACCGATCATATTACAGTTCAGACAAATATGCATTTCATTTTACAGATCAAAATT
27383427 ACAACTTATGCATATACAAAACATATGTCACATCATTAACTTTATTGACCGAATATTAGACCTAT
66 ACAACTTATGCATATACAAAACATATGTCACATCATTAACTTTATTGACCGAATATTAGACCTAT
27383492 ATAG-ATATATATATAAGTCATACATATACACCAAATCATACATCAATTGGAATAAATTTTCATT
131 ATAGAATATATATATAAGTCATACATATACACCAAATCATACATCAATTGGAATAAATTTTCATT
*
27383556 ACTAACCCTTTTATCCATGTACGTGGCATTAATGCGTTTGTCTATGTGAAATTCACATGTTTGCA
196 ACTAACCCTTTTATCCATGTATGTGGCATTAATGCGTTTGTCTATGTGAAATTCACATGTTTGCA
27383621 TCATAACATAATTTAAAACATGCATTCGGTTATAAGTAATCCATTTATACATATTTTATAACTTA
261 TCATAACATAATTTAAAACATGCATTCGGTTATAAGTAATCCATTTATACATATTTTATAACTTA
*
27383686 CAATTAACTAACAATCTATATAGCCATGCATATGCTTTGATTTCTATTCATCAATCACGTGACCT
326 CAATTAACTAACAATCTATATAGCCATGCATATGCTTTGATTTCTATTCATCAACCACGTGACCT
* *
27383751 ACCTTAGTTCAATTAACATCCATATAAACATATGGCTAAAATATACTAACAATGCTCATGTATAT
391 ACCTTAGTTCAATTAACATCCAAATAAACATATGGCTAAAACATACTAACAATGCTCATGTATAT
* * * *
27383816 AATGCGCAACTTACTCCAAAATAAAGACTATATTTAGCATTAATTACATACTAAAAACAATCGAC
456 AATGCGCAACTTACTCCAAAATAAAGACTACACTTACCATTAATTACATACTAAAAACAACCGAC
27383881 CAAAATGATCATGCAATACATGCAACACTTACCATTTAGCAACCGAATAATTTAAACTAGCATAC
521 CAAAATGATCATGCAATACATGCAACACTTACCATTTAGCAACCGAATAATTTAAACTAGCATAC
*
27383946 ATTCATCCATCACTTTAATTATCACATTACAAATTTTCCATCAAAAACTAACTAATATACCAAG
586 ATTCATCCATCACTTTAATTATCACATTACACATTTTCCATCAAAAACTAACTAATATACCAAG
* * *
27384010 TATACGGTGCTACCGATCATATTATAGTTCAAACAAATATGCATTTCATTTTACAGGTCAAAATT
1 TATACGGTGCTACCGATCATATTACAGTTCAGACAAATATGCATTTCATTTTACAGATCAAAATT
*
27384075 ACAACTTATGCATATACAAAACATATGTCACATCATTAACTTTATTGATCGAATATTAGACCTAT
66 ACAACTTATGCATATACAAAACATATGTCACATCATTAACTTTATTGACCGAATATTAGACCTAT
* *
27384140 ATAGATATATATATATAAGTCACACGTATACACCAAATCATACATCAATTGGAATAAATTTTCAT
131 ATAGA-ATATATATATAAGTCATACATATACACCAAATCATACATCAATTGGAATAAATTTTCAT
*
27384205 TACTAACCCTTTTATCCATGTATGTGGCATTAATGCATTTGTCTATGTGAAATTCACATGTTTGC
195 TACTAACCCTTTTATCCATGTATGTGGCATTAATGCGTTTGTCTATGTGAAATTCACATGTTTGC
*
27384270 ATCATAACATAATTCAAAACATGCATTCGGTTATAAGTAATCCATTTATACATATTTTATAACTT
260 ATCATAACATAATTTAAAACATGCATTCGGTTATAAGTAATCCATTTATACATATTTTATAACTT
* * *
27384335 ACGATTAACTAACAATCTATATAGCCATGCATATGCTTTGATTTATGTTCATCAACCACGTGACC
325 ACAATTAACTAACAATCTATATAGCCATGCATATGCTTTGATTTCTATTCATCAACCACGTGACC
27384400 TACCTTAGTTCAATTAACATCCAAATAAACATATGGCTAAAACATACTAACAATGCTCATGTATA
390 TACCTTAGTTCAATTAACATCCAAATAAACATATGGCTAAAACATACTAACAATGCTCATGTATA
* *
27384465 TAATGCGCAACTTACTCCAAAATAAAGACTACACTTACCATTAATTAAATATTAAAAACAACCGA
455 TAATGCGCAACTTACTCCAAAATAAAGACTACACTTACCATTAATTACATACTAAAAACAACCGA
27384530 CCAAAATGATCATGCAATACATGCAACACTTACCATTTAGCAACCGAATAATTTAAACTAGCATA
520 CCAAAATGATCATGCAATACATGCAACACTTACCATTTAGCAACCGAATAATTTAAACTAGCATA
27384595 CATTCATCCATCACTTTAATTATCACATTACACATTTTCCATCAAAAACTAACTAATATACCAAG
585 CATTCATCCATCACTTTAATTATCACATTACACATTTTCCATCAAAAACTAACTAATATACCAAG
*
27384660 TATACGGTGCTACCGATCATATTACAATTCAGACAAATATGCATTTCATTTTACAGATCAAAATT
1 TATACGGTGCTACCGATCATATTACAGTTCAGACAAATATGCATTTCATTTTACAGATCAAAATT
27384725 ACAACTTATGCATATACAAAACATATGTCACATCATTAACTTTATTGACCGAATATTAGACCTAT
66 ACAACTTATGCATATACAAAACATATGTCACATCATTAACTTTATTGACCGAATATTAGACCTAT
27384790 ATAG-ATATATATATAAGTCATACATATACACCAAATCATACATCAATTGGAATAAATTTTCATT
131 ATAGAATATATATATAAGTCATACATATACACCAAATCATACATCAATTGGAATAAATTTTCATT
* * * *
27384854 ACTAACCCTTTTATCCATGTATGCGGCATTAATGCGTTTGTCTGTATGAAATTCATATGTTTG--
196 ACTAACCCTTTTATCCATGTATGTGGCATTAATGCGTTTGTCTATGTGAAATTCACATGTTTGCA
*
27384917 -C--AACATAATTTAAAACAAT-CATTCGGTTATAAGTAACCCATTTATACATATTTTATAACTT
261 TCATAACATAATTTAAAAC-ATGCATTCGGTTATAAGTAATCCATTTATACATATTTTATAACTT
*
27384978 ACAATTAACTAACAATCTATATAGCCATGCATACGCTTTGATTTCTATTCATCAACCACGTGACC
325 ACAATTAACTAACAATCTATATAGCCATGCATATGCTTTGATTTCTATTCATCAACCACGTGACC
* * *
27385043 TGCCTTAGTTCAATTAACATCCAAATAAACATATGGCTGAAACATACTAGCAATGCTCATGTATA
390 TACCTTAGTTCAATTAACATCCAAATAAACATATGGCTAAAACATACTAACAATGCTCATGTATA
* *
27385108 TAATACGCAACTTACTCCAAAATAAAGACTACACTTAGCATTAATTACATACTAAAAACAACCGA
455 TAATGCGCAACTTACTCCAAAATAAAGACTACACTTACCATTAATTACATACTAAAAACAACCGA
*
27385173 CCAAAATGATCATGCAATACATGCAACACTTACCATTTAGCAACAGAATAATTTAAACTAGCATA
520 CCAAAATGATCATGCAATACATGCAACACTTACCATTTAGCAACCGAATAATTTAAACTAGCATA
27385238 CATTCATCCATCACTTTAATTATCACATTACACATTTTCCATCAAAAACTAACTAATATACCAAG
585 CATTCATCCATCACTTTAATTATCACATTACACATTTTCCATCAAAAACTAACTAATATACCAAG
27385303 TA
1 TA
27385305 CATATATTAT
Statistics
Matches: 1870, Mismatches: 70, Indels: 19
0.95 0.04 0.01
Matches are distributed among these distances:
643 370 0.20
644 2 0.00
645 1 0.00
648 742 0.40
650 626 0.33
656 129 0.07
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.33
Consensus pattern (649 bp):
TATACGGTGCTACCGATCATATTACAGTTCAGACAAATATGCATTTCATTTTACAGATCAAAATT
ACAACTTATGCATATACAAAACATATGTCACATCATTAACTTTATTGACCGAATATTAGACCTAT
ATAGAATATATATATAAGTCATACATATACACCAAATCATACATCAATTGGAATAAATTTTCATT
ACTAACCCTTTTATCCATGTATGTGGCATTAATGCGTTTGTCTATGTGAAATTCACATGTTTGCA
TCATAACATAATTTAAAACATGCATTCGGTTATAAGTAATCCATTTATACATATTTTATAACTTA
CAATTAACTAACAATCTATATAGCCATGCATATGCTTTGATTTCTATTCATCAACCACGTGACCT
ACCTTAGTTCAATTAACATCCAAATAAACATATGGCTAAAACATACTAACAATGCTCATGTATAT
AATGCGCAACTTACTCCAAAATAAAGACTACACTTACCATTAATTACATACTAAAAACAACCGAC
CAAAATGATCATGCAATACATGCAACACTTACCATTTAGCAACCGAATAATTTAAACTAGCATAC
ATTCATCCATCACTTTAATTATCACATTACACATTTTCCATCAAAAACTAACTAATATACCAAG
Found at i:27393531 original size:5 final size:5
Alignment explanation
Indices: 27393521--27393552 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
27393511 TTCTGTGTTC
27393521 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
27393553 TCACAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:27393535 original size:9 final size:9
Alignment explanation
Indices: 27393521--27393551 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
27393511 TTCTGTGTTC
27393521 TTTATTTTA
1 TTTATTTTA
27393530 TTTATTTTA
1 TTTATTTTA
27393539 TTTTATTTTA
1 -TTTATTTTA
27393549 TTT
1 TTT
27393552 TTCACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:27397986 original size:5 final size:5
Alignment explanation
Indices: 27397976--27398007 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
27397966 TTCTGTGTTC
27397976 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
27398008 TCACAATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:27397990 original size:9 final size:9
Alignment explanation
Indices: 27397976--27398006 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
27397966 TTCTGTGTTC
27397976 TTTATTTTA
1 TTTATTTTA
27397985 TTTATTTTA
1 TTTATTTTA
27397994 TTTTATTTTA
1 -TTTATTTTA
27398004 TTT
1 TTT
27398007 TTCACAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:27399532 original size:56 final size:56
Alignment explanation
Indices: 27399472--27399608 Score: 186
Period size: 56 Copynumber: 2.4 Consensus size: 56
27399462 TCCCAGACAG
*
27399472 GGTCTTACTAAG-ACACATAAATTGAAATCACATATCAATGCCAACGTATTAAACGT
1 GGTCTTACT-AGCACACATAAATCGAAATCACATATCAATGCCAACGTATTAAACGT
* * * *
27399528 GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTAGCACACATAAATCGAAATCACATATCAATGCCAACGTATTAAACGT
* * *
27399584 GGACTTACTCGCACACATATATCGA
1 GGTCTTACTAGCACACATAAATCGA
27399609 TGCCATGGTC
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
55 1 0.01
56 72 0.99
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (56 bp):
GGTCTTACTAGCACACATAAATCGAAATCACATATCAATGCCAACGTATTAAACGT
Found at i:27400241 original size:15 final size:15
Alignment explanation
Indices: 27400218--27400247 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
27400208 TCAAAAATTC
27400218 TAATACAAAACATAT
1 TAATACAAAACATAT
*
27400233 TAATCCAAAACATAT
1 TAATACAAAACATAT
27400248 CTTTCATAAT
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:0.57, C:0.17, G:0.00, T:0.27
Consensus pattern (15 bp):
TAATACAAAACATAT
Found at i:27400779 original size:15 final size:14
Alignment explanation
Indices: 27400747--27400790 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
27400737 TCCAAATAGT
* *
27400747 AAAATTAAAACACGA
1 AAAATTAACACA-TA
27400762 AAAATTAACACATA
1 AAAATTAACACATA
*
27400776 AAAATTCACACATA
1 AAAATTAACACATA
27400790 A
1 A
27400791 TTAACACAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 15 0.58
15 11 0.42
ACGTcount: A:0.64, C:0.16, G:0.02, T:0.18
Consensus pattern (14 bp):
AAAATTAACACATA
Found at i:27409971 original size:26 final size:26
Alignment explanation
Indices: 27409935--27409985 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
27409925 ATAGTAGGCC
*
27409935 TTGAGCTGGTGTTTATTTAGCAGGTT
1 TTGAGCCGGTGTTTATTTAGCAGGTT
27409961 TTGAGCCGGTGTTTATTTAGCAGGT
1 TTGAGCCGGTGTTTATTTAGCAGGT
27409986 ACTATGTATC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.16, C:0.10, G:0.31, T:0.43
Consensus pattern (26 bp):
TTGAGCCGGTGTTTATTTAGCAGGTT
Found at i:27411888 original size:21 final size:21
Alignment explanation
Indices: 27411864--27411906 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
27411854 CAGCTATTTT
27411864 ACCTTTATAAGTTAAACTCGA
1 ACCTTTATAAGTTAAACTCGA
27411885 ACCTTTATAAGTTAAACTCGA
1 ACCTTTATAAGTTAAACTCGA
27411906 A
1 A
27411907 TTATGGCATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.33
Consensus pattern (21 bp):
ACCTTTATAAGTTAAACTCGA
Found at i:27412850 original size:3 final size:3
Alignment explanation
Indices: 27412842--27412866 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
27412832 GTCTAAGTGA
27412842 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
27412867 TTGAATCTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:27414717 original size:21 final size:20
Alignment explanation
Indices: 27414685--27414723 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
27414675 TTTGTCATGA
27414685 TTAGATTAAATTATTATATG
1 TTAGATTAAATTATTATATG
* *
27414705 TTAGCATTTAATTTTTATA
1 TTAG-ATTAAATTATTATA
27414724 ATTGTTTTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.36, C:0.03, G:0.08, T:0.54
Consensus pattern (20 bp):
TTAGATTAAATTATTATATG
Found at i:27415164 original size:25 final size:25
Alignment explanation
Indices: 27415134--27415217 Score: 73
Period size: 25 Copynumber: 3.2 Consensus size: 25
27415124 AAATATATGC
27415134 ACCATATATTAGCTATCAAAAGAAA
1 ACCATATATTAGCTATCAAAAGAAA
* * * *
27415159 ACCATACATATA--TACCGAAAATATATGC
1 ACCATATAT-TAGCTATC-AAAAGA-A--A
27415187 ACCATATATTAGCTATCAAAAGAAA
1 ACCATATATTAGCTATCAAAAGAAA
27415212 ACCATA
1 ACCATA
27415218 CATATATACC
Statistics
Matches: 44, Mismatches: 8, Indels: 14
0.67 0.12 0.21
Matches are distributed among these distances:
24 3 0.07
25 19 0.43
26 3 0.07
27 3 0.07
28 13 0.30
29 3 0.07
ACGTcount: A:0.50, C:0.19, G:0.07, T:0.24
Consensus pattern (25 bp):
ACCATATATTAGCTATCAAAAGAAA
Found at i:27415170 original size:29 final size:29
Alignment explanation
Indices: 27415136--27415224 Score: 82
Period size: 29 Copynumber: 3.2 Consensus size: 29
27415126 ATATATGCAC
27415136 CATATATTAGCTATCAAAAGAAAACCATA
1 CATATATTAGCTATCAAAAGAAAACCATA
* * ** *
27415165 CATATA-TA-C---CGAAAATATATGCA-C
1 CATATATTAGCTATC-AAAAGAAAACCATA
27415189 CATATATTAGCTATCAAAAGAAAACCATA
1 CATATATTAGCTATCAAAAGAAAACCATA
27415218 CATATAT
1 CATATAT
27415225 ACCAATTCAT
Statistics
Matches: 43, Mismatches: 10, Indels: 14
0.64 0.15 0.21
Matches are distributed among these distances:
24 7 0.16
25 10 0.23
26 1 0.02
27 1 0.02
28 10 0.23
29 14 0.33
ACGTcount: A:0.49, C:0.18, G:0.07, T:0.26
Consensus pattern (29 bp):
CATATATTAGCTATCAAAAGAAAACCATA
Found at i:27415186 original size:53 final size:53
Alignment explanation
Indices: 27415123--27415227 Score: 210
Period size: 53 Copynumber: 2.0 Consensus size: 53
27415113 TAACATTTTC
27415123 AAAATATATGCACCATATATTAGCTATCAAAAGAAAACCATACATATATACCG
1 AAAATATATGCACCATATATTAGCTATCAAAAGAAAACCATACATATATACCG
27415176 AAAATATATGCACCATATATTAGCTATCAAAAGAAAACCATACATATATACC
1 AAAATATATGCACCATATATTAGCTATCAAAAGAAAACCATACATATATACC
27415228 AATTCATAGC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.50, C:0.19, G:0.07, T:0.25
Consensus pattern (53 bp):
AAAATATATGCACCATATATTAGCTATCAAAAGAAAACCATACATATATACCG
Found at i:27424332 original size:20 final size:20
Alignment explanation
Indices: 27424307--27424345 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
27424297 CAGTCGCAAT
27424307 ATCAGTGTGGGCCTTAGCCA
1 ATCAGTGTGGGCCTTAGCCA
27424327 ATCAGTGTGGGCCTTAGCC
1 ATCAGTGTGGGCCTTAGCC
27424346 CACTTTAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.18, C:0.26, G:0.31, T:0.26
Consensus pattern (20 bp):
ATCAGTGTGGGCCTTAGCCA
Found at i:27428525 original size:8 final size:8
Alignment explanation
Indices: 27428512--27428540 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
27428502 GGATCCTCTC
27428512 TTTTTCTT
1 TTTTTCTT
27428520 TTTTTC-T
1 TTTTTCTT
27428527 TTTTTCTT
1 TTTTTCTT
27428535 TTTTTC
1 TTTTTC
27428541 ATCTTCCTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (8 bp):
TTTTTCTT
Found at i:27428532 original size:15 final size:15
Alignment explanation
Indices: 27428512--27428540 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
27428502 GGATCCTCTC
27428512 TTTTTCTTTTTTTCT
1 TTTTTCTTTTTTTCT
27428527 TTTTTCTTTTTTTC
1 TTTTTCTTTTTTTC
27428541 ATCTTCCTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (15 bp):
TTTTTCTTTTTTTCT
Found at i:27431425 original size:26 final size:26
Alignment explanation
Indices: 27431394--27431501 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
27431384 TGAAATTCCC
*
27431394 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
27431420 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
27431446 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
27431472 GTCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
27431498 ATCA
1 ATCA
27431502 ATTTGTATCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:27435528 original size:38 final size:38
Alignment explanation
Indices: 27435477--27435553 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
27435467 GTTGAGAATT
27435477 GAATGATTTAGGTGTTAAATTGTTAGAAATTAAGCTTA
1 GAATGATTTAGGTGTTAAATTGTTAGAAATTAAGCTTA
27435515 GAATGATTTAGGTGTTAAATTGTTAGAAATTAAGCTTA
1 GAATGATTTAGGTGTTAAATTGTTAGAAATTAAGCTTA
27435553 G
1 G
27435554 TATATGAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.36, C:0.03, G:0.22, T:0.39
Consensus pattern (38 bp):
GAATGATTTAGGTGTTAAATTGTTAGAAATTAAGCTTA
Found at i:27435572 original size:38 final size:38
Alignment explanation
Indices: 27435492--27435575 Score: 98
Period size: 38 Copynumber: 2.2 Consensus size: 38
27435482 ATTTAGGTGT
** ** *
27435492 TAAATTGTTAGAAATTAAGCTTAGAATGATTTAGGTGT
1 TAAATTGTTAGAAATTAAGCTTAGAATGATGAAAATGC
*
27435530 TAAATTGTTAGAAATTAAGCTTAGTAT-ATGAAAATGAC
1 TAAATTGTTAGAAATTAAGCTTAGAATGATGAAAATG-C
27435568 TAAATTGT
1 TAAATTGT
27435576 AAGCTTAATT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
37 5 0.13
38 34 0.87
ACGTcount: A:0.40, C:0.04, G:0.18, T:0.38
Consensus pattern (38 bp):
TAAATTGTTAGAAATTAAGCTTAGAATGATGAAAATGC
Found at i:27440330 original size:40 final size:40
Alignment explanation
Indices: 27440275--27440400 Score: 159
Period size: 40 Copynumber: 3.2 Consensus size: 40
27440265 CGAACACAAC
* *
27440275 AACAGAAACTCATAAGAGCTGATCCAACTAAAATACGCCA
1 AACAGAAGCTCATAAGAGCTGATCCACCTAAAATACGCCA
* * *
27440315 AACAGAAGCTCATAAGAGCT-AGTCCACCCAAAACATGCC-
1 AACAGAAGCTCATAAGAGCTGA-TCCACCTAAAATACGCCA
*
27440354 AACAGAAGCTCATAAGAGCTGATCCACCT-GAATCACGCCA
1 AACAGAAGCTCATAAGAGCTGATCCACCTAAAAT-ACGCCA
27440394 AACAGAA
1 AACAGAA
27440401 AGTATAACGC
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
38 2 0.03
39 31 0.42
40 40 0.55
ACGTcount: A:0.44, C:0.28, G:0.15, T:0.13
Consensus pattern (40 bp):
AACAGAAGCTCATAAGAGCTGATCCACCTAAAATACGCCA
Found at i:27444064 original size:26 final size:26
Alignment explanation
Indices: 27444035--27444090 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
27444025 TGATACAAAT
27444035 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
27444061 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
27444087 TGAT
1 TGAT
27444091 GGGAATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:27445789 original size:54 final size:54
Alignment explanation
Indices: 27445707--27445845 Score: 226
Period size: 54 Copynumber: 2.6 Consensus size: 54
27445697 GGAGGAAGCA
*
27445707 TCCTGGTGGCTATGCCGCAATTATCTGATCTGGTGGCTCTGCCACATATATCTG
1 TCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTG
27445761 TCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTG
1 TCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTG
* * *
27445815 TTCTAGTGGCTTTGCCACAA-TATCTGTATCT
1 TCCTGGTGGCTATGCCACAATTATCTG-ATCT
27445846 AGTGACTTCG
Statistics
Matches: 80, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
53 6 0.08
54 74 0.93
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (54 bp):
TCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTG
Found at i:27445849 original size:27 final size:27
Alignment explanation
Indices: 27445709--27445845 Score: 156
Period size: 27 Copynumber: 5.1 Consensus size: 27
27445699 AGGAAGCATC
*
27445709 CTGGTGGCTATGCCGCAATTATCTG-AT
1 CTGGTGGCTATGCCACAA-TATCTGTAT
* *
27445736 CTGGTGGCTCTGCCACATATATCTGT-C
1 CTGGTGGCTATGCCACA-ATATCTGTAT
27445763 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTATGCCACAA-TATCTGTAT
*
27445790 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACA-ATATCTGTAT
* *
27445817 CTAGTGGCTTTGCCACAATATCTGTAT
1 CTGGTGGCTATGCCACAATATCTGTAT
27445844 CT
1 CT
27445846 AGTGACTTCG
Statistics
Matches: 95, Mismatches: 8, Indels: 14
0.81 0.07 0.12
Matches are distributed among these distances:
26 9 0.09
27 84 0.88
28 2 0.02
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTATGCCACAATATCTGTAT
Found at i:27445860 original size:27 final size:26
Alignment explanation
Indices: 27445747--27445867 Score: 84
Period size: 27 Copynumber: 4.5 Consensus size: 26
27445737 TGGTGGCTCT
* * *
27445747 GCCACATATATCTGTCCTGGTGGCTAT-
1 GCCACA-ATATCTGTTCTAGTGACT-TC
* * *
27445774 GCCACAATTATCTGATCTGGTGGC-TC
1 GCCACAA-TATCTGTTCTAGTGACTTC
* *
27445800 TGCCACATATATCTGTTCTAGTGGCTTT
1 -GCCACA-ATATCTGTTCTAGTGACTTC
27445828 GCCACAATATCTGTATCTAGTGACTTC
1 GCCACAATATCTGT-TCTAGTGACTTC
* *
27445855 GTCACAGTATCTG
1 GCCACAATATCTG
27445868 GCAGCCTCGC
Statistics
Matches: 79, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
25 1 0.01
26 9 0.11
27 67 0.85
28 2 0.03
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.35
Consensus pattern (26 bp):
GCCACAATATCTGTTCTAGTGACTTC
Found at i:27449470 original size:7 final size:8
Alignment explanation
Indices: 27449451--27449484 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
27449441 TTTTTACTTA
27449451 AAAAATTT
1 AAAAATTT
27449459 AAAAATTT
1 AAAAATTT
27449467 AAAAATTT
1 AAAAATTT
27449475 -AAAATTT
1 AAAAATTT
27449482 AAA
1 AAA
27449485 TCTATGTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 7 0.28
8 18 0.72
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (8 bp):
AAAAATTT
Found at i:27449472 original size:16 final size:15
Alignment explanation
Indices: 27449451--27449484 Score: 59
Period size: 15 Copynumber: 2.2 Consensus size: 15
27449441 TTTTTACTTA
27449451 AAAAATTTAAAAATTT
1 AAAAATTT-AAAATTT
27449467 AAAAATTTAAAATTT
1 AAAAATTTAAAATTT
27449482 AAA
1 AAA
27449485 TCTATGTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AAAAATTTAAAATTT
Found at i:27451160 original size:18 final size:18
Alignment explanation
Indices: 27451117--27451162 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
27451107 GTTTATTTTT
* *
27451117 TTATTTATATTATAATAT
1 TTATTTTTATTATAATAG
* *
27451135 TTAATTTTATTATAATCG
1 TTATTTTTATTATAATAG
27451153 TTATTTTTAT
1 TTATTTTTAT
27451163 ACTAATTATA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (18 bp):
TTATTTTTATTATAATAG
Found at i:27454026 original size:29 final size:29
Alignment explanation
Indices: 27453971--27454026 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
27453961 TTAGTTAATG
* *
27453971 TGTAATGTTATATATGAAATTTGATTTTA
1 TGTAATGTTATACATGAAATTTAATTTTA
*
27454000 TGTAATTTTATACAT-AAATTTTAATTT
1 TGTAATGTTATACATGAAA-TTTAATTT
27454027 AACTCAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 3 0.13
29 20 0.87
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.54
Consensus pattern (29 bp):
TGTAATGTTATACATGAAATTTAATTTTA
Found at i:27455755 original size:33 final size:33
Alignment explanation
Indices: 27455713--27455780 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
27455703 AAATTTATAA
*
27455713 ATATGAGGTAAATATATAATATATGTGGAAACT
1 ATATGAGGTAAATATATAATATATATGGAAACT
27455746 ATATGAGGTAAATATATAATATATATGGAAACT
1 ATATGAGGTAAATATATAATATATATGGAAACT
27455779 AT
1 AT
27455781 CTATTTAGAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.47, C:0.03, G:0.16, T:0.34
Consensus pattern (33 bp):
ATATGAGGTAAATATATAATATATATGGAAACT
Found at i:27456124 original size:41 final size:41
Alignment explanation
Indices: 27456079--27456162 Score: 141
Period size: 41 Copynumber: 2.0 Consensus size: 41
27456069 CTTACCACAT
* *
27456079 ATAAATTTTTTATTTTTTAAAAAAGATTAAAGTACCCTTAA
1 ATAAATTTTTTATTTTTTAAAAAAGACTAAAGTACCCTAAA
*
27456120 ATAAATTTTTTATTTTTTTAAAAAGACTAAAGTACCCTAAA
1 ATAAATTTTTTATTTTTTAAAAAAGACTAAAGTACCCTAAA
27456161 AT
1 AT
27456163 TTCAGCCACT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.43
Consensus pattern (41 bp):
ATAAATTTTTTATTTTTTAAAAAAGACTAAAGTACCCTAAA
Found at i:27457639 original size:21 final size:21
Alignment explanation
Indices: 27457615--27457654 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
27457605 AATAAAAATA
27457615 TTTTT-ATAATTTTTATACTC
1 TTTTTAATAATTTTTATACTC
27457635 TTTTTAATAATTTTTATACT
1 TTTTTAATAATTTTTATACT
27457655 TTTGAATCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTTAATAATTTTTATACTC
Found at i:27463253 original size:14 final size:13
Alignment explanation
Indices: 27463232--27463261 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
27463222 GTAAAATATT
27463232 TTTCGGAAAATGA
1 TTTCGGAAAATGA
27463245 TTTCTGGAAAATGA
1 TTTC-GGAAAATGA
27463259 TTT
1 TTT
27463262 ACTTTTCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (13 bp):
TTTCGGAAAATGA
Found at i:27474943 original size:46 final size:48
Alignment explanation
Indices: 27474797--27475058 Score: 264
Period size: 46 Copynumber: 5.6 Consensus size: 48
27474787 TCATTTGTGT
* *
27474797 GCTAGTGTAAGA-CATGTCTGGGACATGCATCGACCAC-ATTATG-AGA
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGACCTCGA-GATGTAGA
* * * *
27474843 GCCAGTGTAAGACCATGTTTGGGACATGGCATCAGTA--TTGAGACG-AGA
1 GCTAGTGTAAGACCATGTCTGGGACAT-GCATC-G-ACCTCGAGATGTAGA
27474891 GCTAGTGTAAGA-CATGTCTGGGACATGCATCGACCTCGAGATGTA-A
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGACCTCGAGATGTAGA
27474937 GCTAGTGTAAGA-CATGTCTGGGACATGCATCGA-CTACGAGATGT-G-
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGACCT-CGAGATGTAGA
* * *
27474982 TC-AGTGTAAGACCATTTCTGGGACATGGCATCGACAC-GGAGATGTGAGA
1 GCTAGTGTAAGACCATGTCTGGGACAT-GCATCGAC-CTCGAGATGT-AGA
*
27475031 GCCAGTGTAAGACCATGTCTGGGACATG
1 GCTAGTGTAAGACCATGTCTGGGACATG
27475059 GCGTTGGCCT
Statistics
Matches: 183, Mismatches: 15, Indels: 33
0.79 0.06 0.14
Matches are distributed among these distances:
44 10 0.05
45 17 0.09
46 78 0.43
47 27 0.15
48 23 0.13
49 4 0.02
50 24 0.13
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGCATCGACCTCGAGATGTAGA
Found at i:27480819 original size:47 final size:44
Alignment explanation
Indices: 27480748--27480917 Score: 150
Period size: 47 Copynumber: 3.7 Consensus size: 44
27480738 CATTTGTGCA
*
27480748 CTAGTGTAAGACATGTCTGGGACATGCAT-GGACCACATT-ATGAGAG
1 CTAGTGTAAGACATGTCTGGGACATGCATCGG----CATTGATGAAAG
*
27480794 CTAGTGTAAGACCATGTCTGAGACATGGCATCGGCATTGAGATGAAAG
1 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATT--GATGAAAG
* **
27480842 CTAGTGTAAGACATGTCTGGGACATGCATCGGC-TACGA-GATGTG
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCAT-TGATGA-AAG
*
27480886 TTAGTGTAAGACCATGTCTGGGACATGGCATC
1 CTAGTGTAAGA-CATGTCTGGGACAT-GCATC
27480918 AACACAAAGA
Statistics
Matches: 107, Mismatches: 7, Indels: 20
0.80 0.05 0.15
Matches are distributed among these distances:
43 2 0.02
44 13 0.12
45 19 0.18
46 24 0.22
47 26 0.24
48 21 0.20
49 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (44 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGATGAAAG
Found at i:27480883 original size:46 final size:46
Alignment explanation
Indices: 27480748--27480967 Score: 202
Period size: 46 Copynumber: 4.7 Consensus size: 46
27480738 CATTTGTGCA
*
27480748 CTAGTGTAAGA-CATGTCTGGGACAT-GCAT-GGACCAC-ATTATGAGAG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGG--CACGA-GATGA-AG
* *
27480794 CTAGTGTAAGACCATGTCTGAGACATGGCATCGGCATTGAGATGAAAG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-CGAGATG-AAG
*
27480842 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATG-TG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACGAGATGAAG
* ** *
27480886 TTAGTGTAAGACCATGTCTGGGACATGGCATCAACACAAAGATGTGAGAG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GAGA--TGA-AG
* *
27480936 CCAGTGTAAGACCATGTTTGGGACATGGCATC
1 CTAGTGTAAGACCATGTCTGGGACATGGCATC
27480968 AGCCTCGATT
Statistics
Matches: 146, Mismatches: 14, Indels: 24
0.79 0.08 0.13
Matches are distributed among these distances:
44 11 0.08
45 16 0.11
46 34 0.23
47 29 0.20
48 22 0.15
49 4 0.03
50 30 0.21
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.24
Consensus pattern (46 bp):
CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGAGATGAAG
Found at i:27480916 original size:92 final size:93
Alignment explanation
Indices: 27480748--27480917 Score: 247
Period size: 94 Copynumber: 1.8 Consensus size: 93
27480738 CATTTGTGCA
*
27480748 CTAGTGTAAGACATGTCTGGGACATGCATGGACCACATTATGAGAGCTAGTGTAAGACCATGTCT
1 CTAGTGTAAGACATGTCTGGGACATGCATGGACCACATGAT-AGAGCTAGTGTAAGACCATGTCT
27480813 GAGACATGGCATCGGCATTGAGATGAAAG
65 GAGACATGGCATCGGCATTGAGATGAAAG
* * *
27480842 CTAGTGTAAGACATGTCTGGGACATGCATCGG-CTACGA-GAT-GTGTTAGTGTAAGACCATGTC
1 CTAGTGTAAGACATGTCTGGGACATGCAT-GGACCAC-ATGATAGAGCTAGTGTAAGACCATGTC
*
27480904 TGGGACATGGCATC
64 TGAGACATGGCATC
27480918 AACACAAAGA
Statistics
Matches: 69, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
92 32 0.46
94 34 0.49
95 3 0.04
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (93 bp):
CTAGTGTAAGACATGTCTGGGACATGCATGGACCACATGATAGAGCTAGTGTAAGACCATGTCTG
AGACATGGCATCGGCATTGAGATGAAAG
Found at i:27480929 original size:92 final size:95
Alignment explanation
Indices: 27480748--27480967 Score: 243
Period size: 94 Copynumber: 2.3 Consensus size: 95
27480738 CATTTGTGCA
*
27480748 CTAGTGTAAGACATGTCTGGGACATGCAT-GGACCACATTATGAGAGCTAGTGTAAGACCATGTC
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGACCACATGAT-AGAGCTAGTGTAAGACCATGTC
** ***
27480812 TGAGACATGGCATCGGCATTGAGA-TGAAAG
65 TGAGACATGGCATCAACACAAAGAGTGAAAG
* * *
27480842 CTAGTGTAAGACATGTCTGGGACATGCATCGG-CTACGA-GAT-GTGTTAGTGTAAGACCATGTC
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGACCAC-ATGATAGAGCTAGTGTAAGACCATGTC
* *
27480904 TGGGACATGGCATCAACACAAAGATGTGAGAG
65 TGAGACATGGCATCAACACAAAGA-GTGAAAG
* *
27480936 CCAGTGTAAGACCATGTTTGGGACATGGCATC
1 CTAGTGTAAGA-CATGTCTGGGACAT-GCATC
27480968 AGCCTCGATT
Statistics
Matches: 107, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
92 37 0.35
94 49 0.46
95 16 0.15
96 5 0.05
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.24
Consensus pattern (95 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCGGACCACATGATAGAGCTAGTGTAAGACCATGTCT
GAGACATGGCATCAACACAAAGAGTGAAAG
Found at i:27486171 original size:41 final size:40
Alignment explanation
Indices: 27486063--27486174 Score: 99
Period size: 37 Copynumber: 2.8 Consensus size: 40
27486053 TCGGATAGTT
27486063 CGAAGTAACAA-GTTGACACCCAGTGTCTCATCG-GCTATGC
1 CGAAGTAA-AATG-TGACACCCAGTGTCTCATCGAGCTATGC
** ** **
27486103 CGAAGT-AAAT-TGGTACCCAGTACCTCATCGAATTTAT-C
1 CGAAGTAAAATGTGACACCCAGTGTCTCATCG-AGCTATGC
27486141 CGAAGTAATAATGTGACACCCAGTGTCTCATCGA
1 CGAAGTAA-AATGTGACACCCAGTGTCTCATCGA
27486175 CTCGAAGTCG
Statistics
Matches: 56, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
37 16 0.29
38 9 0.16
39 5 0.09
40 10 0.18
41 16 0.29
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (40 bp):
CGAAGTAAAATGTGACACCCAGTGTCTCATCGAGCTATGC
Found at i:27490459 original size:24 final size:24
Alignment explanation
Indices: 27490438--27490486 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
27490428 ATGTTCATTA
27490438 TAATCAACCTTTCACCTTTCATCT
1 TAATCAACCTTTCACCTTTCATCT
* * *
27490462 TATTCAGCTTTTCACCTTTCATCT
1 TAATCAACCTTTCACCTTTCATCT
27490486 T
1 T
27490487 TTTGTAACTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.20, C:0.31, G:0.02, T:0.47
Consensus pattern (24 bp):
TAATCAACCTTTCACCTTTCATCT
Found at i:27504290 original size:11 final size:11
Alignment explanation
Indices: 27504270--27504318 Score: 53
Period size: 11 Copynumber: 4.3 Consensus size: 11
27504260 ATTAGATAAA
*
27504270 TAATAATTTAT
1 TAATATTTTAT
27504281 TAATATTTTAAT
1 TAATATTTT-AT
* *
27504293 AAGATATTTTAA
1 TA-ATATTTTAT
27504305 TAATATTTTAT
1 TAATATTTTAT
27504316 TAA
1 TAA
27504319 AAATAGCTAG
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
11 19 0.61
12 5 0.16
13 7 0.23
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (11 bp):
TAATATTTTAT
Found at i:27504301 original size:13 final size:13
Alignment explanation
Indices: 27504283--27504307 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27504273 TAATTTATTA
27504283 ATATTTTAATAAG
1 ATATTTTAATAAG
27504296 ATATTTTAATAA
1 ATATTTTAATAA
27504308 TATTTTATTA
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:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (13 bp):
ATATTTTAATAAG
Found at i:27505383 original size:27 final size:27
Alignment explanation
Indices: 27505352--27505447 Score: 90
Period size: 27 Copynumber: 3.5 Consensus size: 27
27505342 GACTATGACT
*
27505352 TAAGTAGACAGCTTTGATATGAACACA
1 TAAGTAGATAGCTTTGATATGAACACA
*
27505379 TAAGTAAATAG-TGGAATT-ATATGAACA-A
1 TAAGTAGATAGCT----TTGATATGAACACA
*
27505407 TTAAGTAGATAGCTTTGATATGAATACA
1 -TAAGTAGATAGCTTTGATATGAACACA
*
27505435 TAAGTAAATAGCT
1 TAAGTAGATAGCT
27505448 AAAGATTCTA
Statistics
Matches: 56, Mismatches: 5, Indels: 16
0.73 0.06 0.21
Matches are distributed among these distances:
26 3 0.05
27 29 0.52
28 2 0.04
29 19 0.34
30 3 0.05
ACGTcount: A:0.44, C:0.08, G:0.18, T:0.30
Consensus pattern (27 bp):
TAAGTAGATAGCTTTGATATGAACACA
Found at i:27507503 original size:12 final size:12
Alignment explanation
Indices: 27507481--27507521 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
27507471 CAACTTAGCA
*
27507481 GAATAAAAATA-
1 GAATAACAATAT
27507492 GAAATAACAATAT
1 G-AATAACAATAT
27507505 GAATAACAATAT
1 GAATAACAATAT
27507517 -AATAA
1 GAATAA
27507522 AACAAATAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
11 6 0.22
12 20 0.74
13 1 0.04
ACGTcount: A:0.66, C:0.05, G:0.07, T:0.22
Consensus pattern (12 bp):
GAATAACAATAT
Found at i:27507929 original size:2 final size:2
Alignment explanation
Indices: 27507922--27507967 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
27507912 GACTGCGTGC
*
27507922 GT GT GT GT AT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
27507964 GT GT
1 GT GT
27507968 TAGAAGAGAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.02, C:0.00, G:0.48, T:0.50
Consensus pattern (2 bp):
GT
Found at i:27511069 original size:44 final size:42
Alignment explanation
Indices: 27511019--27511102 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
27511009 AACATTTTAC
*
27511019 GGCATTTATGTAAAAAAATGCCGCTAAAGAACATGACCTTTAGT
1 GGCATTT-T-TAAAAAAACGCCGCTAAAGAACATGACCTTTAGT
* * * *
27511063 GGCATTTTTGATAAAGCGCCGCTAAAGAACGTGACCTTTA
1 GGCATTTTTAAAAAAACGCCGCTAAAGAACATGACCTTTA
27511103 ACGGCGCCTT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 27 0.77
43 1 0.03
44 7 0.20
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (42 bp):
GGCATTTTTAAAAAAACGCCGCTAAAGAACATGACCTTTAGT
Found at i:27511134 original size:43 final size:43
Alignment explanation
Indices: 27511034--27511238 Score: 187
Period size: 43 Copynumber: 4.8 Consensus size: 43
27511024 TTATGTAAAA
* ** *** *
27511034 AAATGCCGCTAAAGAACATGACCTTTAGTGGCATTTTTGATA-
1 AAATGCCGCTAAAGAACGTGACCTTTAACGGCGCCTTTCATAC
** *
27511076 AAGCGCCGCTAAAGAACGTGACCTTTAACGGCGCCTTTCACAC
1 AAATGCCGCTAAAGAACGTGACCTTTAACGGCGCCTTTCATAC
* * *
27511119 AAATACCGCTAAAGAACGTGACCTTTAACGGCGCATTCCATAC
1 AAATGCCGCTAAAGAACGTGACCTTTAACGGCGCCTTTCATAC
* * * * * *
27511162 AAACGCCGTTAAGGGACGTGACCTTTAGCGGCGCCTCTCATAC
1 AAATGCCGCTAAAGAACGTGACCTTTAACGGCGCCTTTCATAC
* ** * *
27511205 AAATGCTGCTAAAGAATATGACTTTTAGCGGCGC
1 AAATGCCGCTAAAGAACGTGACCTTTAACGGCGC
27511239 TTTTACAAAA
Statistics
Matches: 129, Mismatches: 33, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
42 32 0.25
43 97 0.75
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.23
Consensus pattern (43 bp):
AAATGCCGCTAAAGAACGTGACCTTTAACGGCGCCTTTCATAC
Found at i:27512081 original size:13 final size:14
Alignment explanation
Indices: 27512055--27512083 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
27512045 ACTAACGACG
27512055 AATTAAACCATTAT
1 AATTAAACCATTAT
27512069 AATTAAA-CATTAT
1 AATTAAACCATTAT
27512082 AA
1 AA
27512084 ATATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:27517128 original size:27 final size:27
Alignment explanation
Indices: 27517099--27517323 Score: 132
Period size: 27 Copynumber: 7.9 Consensus size: 27
27517089 TATGATATTT
*
27517099 ATTTATGTCAGTTATGTAAATTATGATA
1 ATTTATGTAAGTTATGTAAATTATG-TA
* *
27517127 TTCATTTATGTCAGTTATGTAAATTGTGTA
1 ---ATTTATGTAAGTTATGTAAATTATGTA
* *
27517157 AGTTATGTAAATTATGTAAATTATGTA
1 ATTTATGTAAGTTATGTAAATTATGTA
* *
27517184 ACTTATGTAAGTTATGTAAGTTATG-A
1 ATTTATGTAAGTTATGTAAATTATGTA
* * *
27517210 CATTTATGGTATGATATATATTTATGCATTATGTA
1 -ATTTAT-GTA--A-GT-TATGTA--AATTATGTA
* * * *
27517245 AGTTATGTAAGTTATG-ATATGATATA
1 ATTTATGTAAGTTATGTAAATTATGTA
* *
27517271 TATTTATATAAGTTATGTAAGTTATGT-
1 -ATTTATGTAAGTTATGTAAATTATGTA
* * *
27517298 ATGTTATGTGAGGTATGTAAGTTATG
1 AT-TTATGTAAGTTATGTAAATTATG
27517324 ATATGATATA
Statistics
Matches: 154, Mismatches: 28, Indels: 28
0.73 0.13 0.13
Matches are distributed among these distances:
26 9 0.06
27 84 0.55
28 9 0.06
29 3 0.02
30 4 0.03
31 26 0.17
32 5 0.03
33 3 0.02
34 10 0.06
35 1 0.01
ACGTcount: A:0.33, C:0.03, G:0.18, T:0.46
Consensus pattern (27 bp):
ATTTATGTAAGTTATGTAAATTATGTA
Found at i:27517146 original size:9 final size:9
Alignment explanation
Indices: 27517132--27517362 Score: 159
Period size: 9 Copynumber: 25.9 Consensus size: 9
27517122 TGATATTCAT
*
27517132 TTATGTCAG
1 TTATGTAAG
*
27517141 TTATGTAAA
1 TTATGTAAG
*
27517150 TTGTGTAAG
1 TTATGTAAG
*
27517159 TTATGTAAA
1 TTATGTAAG
*
27517168 TTATGTAAA
1 TTATGTAAG
*
27517177 TTATGTAAC
1 TTATGTAAG
27517186 TTATGTAAG
1 TTATGTAAG
27517195 TTATGTAAG
1 TTATGTAAG
*
27517204 TTATG-ACAT
1 TTATGTA-AG
*
27517213 TTATGGTATG
1 TTAT-GTAAG
* * *
27517223 ATATAT-AT
1 TTATGTAAG
*
27517231 TTATG-CA-
1 TTATGTAAG
27517238 TTATGTAAG
1 TTATGTAAG
27517247 TTATGTAAG
1 TTATGTAAG
*
27517256 TTATGATATG
1 TTATG-TAAG
* * *
27517266 ATATAT-AT
1 TTATGTAAG
*
27517274 TTATATAAG
1 TTATGTAAG
27517283 TTATGTAAG
1 TTATGTAAG
*
27517292 TTATGTATG
1 TTATGTAAG
*
27517301 TTATGTGAG
1 TTATGTAAG
*
27517310 GTATGTAAG
1 TTATGTAAG
*
27517319 TTATGATATG
1 TTATG-TAAG
* * *
27517329 ATATAT-AT
1 TTATGTAAG
27517337 TTATGTAAG
1 TTATGTAAG
*
27517346 GTATGTAAG
1 TTATGTAAG
27517355 TTATGTAA
1 TTATGTAA
27517363 TTTTAAAGAA
Statistics
Matches: 170, Mismatches: 42, Indels: 20
0.73 0.18 0.09
Matches are distributed among these distances:
7 5 0.03
8 15 0.09
9 133 0.78
10 16 0.09
11 1 0.01
ACGTcount: A:0.34, C:0.02, G:0.19, T:0.45
Consensus pattern (9 bp):
TTATGTAAG
Found at i:27517321 original size:63 final size:63
Alignment explanation
Indices: 27517238--27517361 Score: 212
Period size: 63 Copynumber: 2.0 Consensus size: 63
27517228 TATTTATGCA
* *
27517238 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATATAAGTTATGTAAGTTATGTATG
1 TTATGTAAGGTATGTAAGTTATGATATGATATATATTTATATAAGGTATGTAAGTTATGTATG
* *
27517301 TTATGTGAGGTATGTAAGTTATGATATGATATATATTTATGTAAGGTATGTAAGTTATGTA
1 TTATGTAAGGTATGTAAGTTATGATATGATATATATTTATATAAGGTATGTAAGTTATGTA
27517362 ATTTTAAAGA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
63 57 1.00
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (63 bp):
TTATGTAAGGTATGTAAGTTATGATATGATATATATTTATATAAGGTATGTAAGTTATGTATG
Found at i:27520913 original size:7 final size:7
Alignment explanation
Indices: 27520901--27520974 Score: 55
Period size: 7 Copynumber: 11.0 Consensus size: 7
27520891 ATTTGATCTT
27520901 CCCTAAA
1 CCCTAAA
27520908 CCCTAAA
1 CCCTAAA
*
27520915 CCC-AAG
1 CCCTAAA
**
27520921 CTATAAA
1 CCCTAAA
*
27520928 CACTAAA
1 CCCTAAA
27520935 CCCTAAA
1 CCCTAAA
27520942 CCCTAAA
1 CCCTAAA
* *
27520949 -TCTTAA
1 CCCTAAA
*
27520955 CACT-AA
1 CCCTAAA
27520961 CCCTAAA
1 CCCTAAA
*
27520968 CCATAAA
1 CCCTAAA
27520975 ATTTGAACCT
Statistics
Matches: 52, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
6 12 0.23
7 40 0.77
ACGTcount: A:0.46, C:0.35, G:0.01, T:0.18
Consensus pattern (7 bp):
CCCTAAA
Found at i:27520941 original size:27 final size:26
Alignment explanation
Indices: 27520903--27520969 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 26
27520893 TTGATCTTCC
27520903 CTAAACCCTAAACCC-AAGCTATAAACA
1 CTAAACCCTAAACCCAAAGCT-T-AACA
*
27520930 CTAAACCCTAAACCCTAAATCTTAACA
1 CTAAACCCTAAACCC-AAAGCTTAACA
27520957 CT-AACCCTAAACC
1 CTAAACCCTAAACC
27520970 ATAAAATTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
26 11 0.30
27 21 0.57
28 1 0.03
29 4 0.11
ACGTcount: A:0.45, C:0.36, G:0.01, T:0.18
Consensus pattern (26 bp):
CTAAACCCTAAACCCAAAGCTTAACA
Found at i:27521012 original size:14 final size:15
Alignment explanation
Indices: 27520980--27521012 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
27520970 ATAAAATTTG
27520980 AACCTTAAATCTCAA
1 AACCTTAAATCTCAA
*
27520995 AACCTTAAA-CTTAA
1 AACCTTAAATCTCAA
27521009 AACC
1 AACC
27521013 CCTATCCCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.24
Consensus pattern (15 bp):
AACCTTAAATCTCAA
Found at i:27521624 original size:41 final size:41
Alignment explanation
Indices: 27521562--27521731 Score: 171
Period size: 41 Copynumber: 4.1 Consensus size: 41
27521552 ATAAAATGTT
* * * *
27521562 TTTTGCGGCGTTTTTAGCATAAACGCCACTAATTCTAAACC
1 TTTTGCTGCGTTTTTATCATAAACGCCGCTAATGCTAAACC
* ** **
27521603 TTTTGCTGCGTTTTTCTCATAAACGCCGCTAATTATGGACC
1 TTTTGCTGCGTTTTTATCATAAACGCCGCTAATGCTAAACC
* *** **
27521644 TTTTG-TGGCGTTTTTCTCATAAACATTGCTAATGCTGGACC
1 TTTTGCT-GCGTTTTTATCATAAACGCCGCTAATGCTAAACC
* *
27521685 TTTTGCAGCGTTTTTATCATAAACGCCGTTAATGCTAAACC
1 TTTTGCTGCGTTTTTATCATAAACGCCGCTAATGCTAAACC
27521726 TTTTGC
1 TTTTGC
27521732 GGCATTTTCC
Statistics
Matches: 107, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
40 1 0.01
41 106 0.99
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.39
Consensus pattern (41 bp):
TTTTGCTGCGTTTTTATCATAAACGCCGCTAATGCTAAACC
Found at i:27522234 original size:33 final size:33
Alignment explanation
Indices: 27522170--27522235 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 33
27522160 TACGTTTTCG
* *
27522170 AGTGACTAATTTGTCACTTTCGTAAATTTTAATT
1 AGTGACTAAATTGTAACTTTCG-AAATTTTAATT
27522204 AGTGACTAAATTGTAACCTTTC-AAATTTTAAT
1 AGTGACTAAATTGTAA-CTTTCGAAATTTTAAT
27522236 GAATGATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 10 0.34
34 14 0.48
35 5 0.17
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.44
Consensus pattern (33 bp):
AGTGACTAAATTGTAACTTTCGAAATTTTAATT
Found at i:27529471 original size:22 final size:23
Alignment explanation
Indices: 27529446--27529494 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
27529436 ATGTTTTTAC
27529446 TTTTATTCTAT-TTTAAGAC-TATT
1 TTTTATT-TATCTTTAAG-CTTATT
*
27529469 TTTTATTTTTCTTTAAGCTTATT
1 TTTTATTTATCTTTAAGCTTATT
27529492 TTT
1 TTT
27529495 ATTAGGTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 3 0.13
23 20 0.87
ACGTcount: A:0.20, C:0.08, G:0.04, T:0.67
Consensus pattern (23 bp):
TTTTATTTATCTTTAAGCTTATT
Found at i:27534002 original size:16 final size:17
Alignment explanation
Indices: 27533966--27534003 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
27533956 AAGGTAAAAT
27533966 AATTTTTTTACCTTTTC
1 AATTTTTTTACCTTTTC
*
27533983 -ATTTTTTTA-TTTTTC
1 AATTTTTTTACCTTTTC
27533998 AATTTT
1 AATTTT
27534004 AAATATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.18, C:0.11, G:0.00, T:0.71
Consensus pattern (17 bp):
AATTTTTTTACCTTTTC
Found at i:27534392 original size:43 final size:43
Alignment explanation
Indices: 27534336--27534519 Score: 178
Period size: 43 Copynumber: 4.3 Consensus size: 43
27534326 TTTTTTAGAA
*
27534336 AAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCTC
1 AAAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTC
* * * *
27534379 AAAAATGCAGCTAAAGACCATGACCTTTAGCGGCACTTTTCTT
1 AAAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTC
* * ** *
27534422 GAAAACGCCGCTAAAGACCATGACATTTAATGGCGCTTTTTTC
1 AAAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTC
** * * * * *
27534465 -AGGACGCCACTATATGA-CA-GACCTTTAGCGACG-TTTTTTT
1 AAAAACGCCGCTA-AAGACCATGACCTTTAGCGGCGCTTTTCTC
27534505 AAAAACGCCGCTAAA
1 AAAAACGCCGCTAAA
27534520 AAATATAAAC
Statistics
Matches: 112, Mismatches: 27, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
40 7 0.06
41 19 0.17
42 11 0.10
43 75 0.67
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTC
Found at i:27538582 original size:7 final size:7
Alignment explanation
Indices: 27538572--27538596 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
27538562 ATATGAACTA
27538572 AAATATT
1 AAATATT
27538579 AAATATT
1 AAATATT
27538586 AAATATT
1 AAATATT
27538593 AAAT
1 AAAT
27538597 TTTTAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
AAATATT
Found at i:27538604 original size:7 final size:7
Alignment explanation
Indices: 27538594--27538642 Score: 89
Period size: 7 Copynumber: 7.0 Consensus size: 7
27538584 TTAAATATTA
27538594 AATTTTT
1 AATTTTT
27538601 AATTTTT
1 AATTTTT
*
27538608 AATTCTT
1 AATTTTT
27538615 AATTTTT
1 AATTTTT
27538622 AATTTTT
1 AATTTTT
27538629 AATTTTT
1 AATTTTT
27538636 AATTTTT
1 AATTTTT
27538643 TTAAAGATCT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (7 bp):
AATTTTT
Found at i:27538835 original size:14 final size:14
Alignment explanation
Indices: 27538818--27538863 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
27538808 ATTTTTATAT
27538818 TTTAGGGTTTATGA
1 TTTAGGGTTTATGA
27538832 TTTATGGG-TTAT-A
1 TTTA-GGGTTTATGA
*
27538845 GTTTAGGGTTTGTGA
1 -TTTAGGGTTTATGA
27538860 TTTA
1 TTTA
27538864 TGATCTATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
13 4 0.15
14 19 0.70
15 4 0.15
ACGTcount: A:0.20, C:0.00, G:0.28, T:0.52
Consensus pattern (14 bp):
TTTAGGGTTTATGA
Found at i:27538843 original size:28 final size:27
Alignment explanation
Indices: 27538812--27538885 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 27
27538802 AATTTTATTT
*
27538812 TTATATTTTAGGGTTTATGATTTATGGG
1 TTATATTTTAGGGTTTATGATTTAT-GA
* *
27538840 TTATAGTTTAGGGTTTGTGATTTATGA
1 TTATATTTTAGGGTTTATGATTTATGA
27538867 TCTATATTTTATGGGTTTA
1 T-TATATTTTA-GGGTTTA
27538886 AAAGTTAGTC
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
27 2 0.05
28 31 0.79
29 6 0.15
ACGTcount: A:0.22, C:0.01, G:0.23, T:0.54
Consensus pattern (27 bp):
TTATATTTTAGGGTTTATGATTTATGA
Found at i:27538959 original size:23 final size:22
Alignment explanation
Indices: 27538931--27538988 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
27538921 GGTTTGGGCG
*
27538931 TTAGGGTTTATAGGTTGGAGTT
1 TTAGGGTTTATAGGTTGGAGAT
* *
27538953 TTAAGGGTTTAT-GATTTGAGAT
1 TT-AGGGTTTATAGGTTGGAGAT
27538975 TTAGGGTTTA-AGGT
1 TTAGGGTTTATAGGT
27538989 GTTGGGATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
21 10 0.33
22 11 0.37
23 9 0.30
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.45
Consensus pattern (22 bp):
TTAGGGTTTATAGGTTGGAGAT
Found at i:27539507 original size:14 final size:14
Alignment explanation
Indices: 27539488--27539538 Score: 66
Period size: 14 Copynumber: 3.5 Consensus size: 14
27539478 TGTTATAATT
27539488 TTAAAATATTAAAA
1 TTAAAATATTAAAA
**
27539502 TTAAAATTATATAATT
1 TTAAAA-TAT-TAAAA
27539518 TTAAAATATTAAAA
1 TTAAAATATTAAAA
27539532 TTAAAAT
1 TTAAAAT
27539539 TATCTCTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
14 16 0.52
15 6 0.19
16 9 0.29
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TTAAAATATTAAAA
Found at i:27539517 original size:30 final size:30
Alignment explanation
Indices: 27539481--27539541 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
27539471 AATAATTTGT
27539481 TATAATTTTAAAATATTAAAATTAAAATTA
1 TATAATTTTAAAATATTAAAATTAAAATTA
27539511 TATAATTTTAAAATATTAAAATTAAAATTA
1 TATAATTTTAAAATATTAAAATTAAAATTA
27539541 T
1 T
27539542 CTCTTTTATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (30 bp):
TATAATTTTAAAATATTAAAATTAAAATTA
Found at i:27542695 original size:3 final size:3
Alignment explanation
Indices: 27542687--27542711 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
27542677 GCTTTGCGTG
27542687 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
27542712 AAGTACAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:27543495 original size:3 final size:3
Alignment explanation
Indices: 27543489--27543513 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
27543479 GTTGCCCTCT
27543489 TGA TGA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA T
27543514 CATGTGATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (3 bp):
TGA
Found at i:27545080 original size:3 final size:3
Alignment explanation
Indices: 27545072--27545098 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
27545062 GAAAGAGCAC
27545072 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
27545099 GCAAATTTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:27546969 original size:30 final size:31
Alignment explanation
Indices: 27546933--27546990 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
27546923 AAAAATCAAG
* *
27546933 AAAATTAACATCAGAAAC-AAAATCCATTAA
1 AAAATTAACATAACAAACAAAAATCCATTAA
27546963 AAAATTAACATAACAAACAAAAATCCAT
1 AAAATTAACATAACAAACAAAAATCCAT
27546991 CAATCTATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 16 0.64
31 9 0.36
ACGTcount: A:0.62, C:0.17, G:0.02, T:0.19
Consensus pattern (31 bp):
AAAATTAACATAACAAACAAAAATCCATTAA
Found at i:27547557 original size:17 final size:18
Alignment explanation
Indices: 27547517--27547561 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
27547507 TAGGGTTTGG
*
27547517 AAAGAGAATAGAAGAATA
1 AAAGAAAATAGAAGAATA
*
27547535 AGAAGAAAATA-AATAATA
1 A-AAGAAAATAGAAGAATA
27547553 AAAGAAAAT
1 AAAGAAAAT
27547562 GGAAACTGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 8 0.33
18 8 0.33
19 8 0.33
ACGTcount: A:0.71, C:0.00, G:0.16, T:0.13
Consensus pattern (18 bp):
AAAGAAAATAGAAGAATA
Found at i:27547617 original size:19 final size:17
Alignment explanation
Indices: 27547582--27547639 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 17
27547572 ACAGGAAATG
27547582 AAAGGG-AAAGAATAAAA
1 AAAGGGAAAAGAA-AAAA
27547599 GAAGAGGGAAAAGAAAAAA
1 -AA-AGGGAAAAGAAAAAA
* *
27547618 AAAGTGAAATAGAAAAAT
1 AAAGGGAAA-AGAAAAAA
27547636 AAAG
1 AAAG
27547640 TCATCATGCC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
17 6 0.17
18 15 0.43
19 8 0.23
20 6 0.17
ACGTcount: A:0.69, C:0.00, G:0.24, T:0.07
Consensus pattern (17 bp):
AAAGGGAAAAGAAAAAA
Found at i:27550942 original size:14 final size:14
Alignment explanation
Indices: 27550923--27550950 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
27550913 TAAAATTAAA
27550923 CATAATTTATACAT
1 CATAATTTATACAT
27550937 CATAATTTATACAT
1 CATAATTTATACAT
27550951 AACATAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (14 bp):
CATAATTTATACAT
Found at i:27582107 original size:13 final size:13
Alignment explanation
Indices: 27582089--27582113 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27582079 ACAACAATTT
27582089 TTGTTGCTAGCAA
1 TTGTTGCTAGCAA
27582102 TTGTTGCTAGCA
1 TTGTTGCTAGCA
27582114 GAGTTTGTTT
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:0.20, C:0.16, G:0.24, T:0.40
Consensus pattern (13 bp):
TTGTTGCTAGCAA
Found at i:27605794 original size:34 final size:34
Alignment explanation
Indices: 27605751--27605818 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
27605741 GCATTTTTGA
* *
27605751 CACTGTACTGAGATGGGCTAAGGCCCAA-ACTAT
1 CACTGTACTGAAAAGGGCTAAGGCCCAAGACTAT
*
27605784 CACTGATACTGAAAAGGGCTTAGGCCCAAGACTAT
1 CACTG-TACTGAAAAGGGCTAAGGCCCAAGACTAT
27605819 TCAATTGTGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 5 0.17
34 20 0.67
35 5 0.17
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.21
Consensus pattern (34 bp):
CACTGTACTGAAAAGGGCTAAGGCCCAAGACTAT
Found at i:27620732 original size:25 final size:25
Alignment explanation
Indices: 27620704--27620751 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
27620694 GGGTTTGTTT
27620704 GTGAAATTATTAAGGACTTTAATCA
1 GTGAAATTATTAAGGACTTTAATCA
*
27620729 GTGAAATTATTAGGGACTTTAAT
1 GTGAAATTATTAAGGACTTTAAT
27620752 AAGGACTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.38, C:0.06, G:0.19, T:0.38
Consensus pattern (25 bp):
GTGAAATTATTAAGGACTTTAATCA
Found at i:27621164 original size:9 final size:8
Alignment explanation
Indices: 27621134--27621168 Score: 61
Period size: 8 Copynumber: 4.2 Consensus size: 8
27621124 CACTCCATGA
27621134 TTTCTATT
1 TTTCTATT
27621142 TTTCTATT
1 TTTCTATT
27621150 TTTCTATT
1 TTTCTATT
27621158 TTCTCTATT
1 TT-TCTATT
27621167 TT
1 TT
27621169 AATAATCATA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 18 0.69
9 8 0.31
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.74
Consensus pattern (8 bp):
TTTCTATT
Found at i:27622724 original size:29 final size:30
Alignment explanation
Indices: 27622660--27622726 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
27622650 TTGATGCAAT
*
27622660 TATATATATAAAACTTTTATTGTGCTTAAA
1 TATATATATAAAACTTTTATTGTGATTAAA
* *
27622690 TATATA-ATAAAACTTTTTATTTTGATTTAA
1 TATATATATAAAAC-TTTTATTGTGATTAAA
27622720 T-TATATA
1 TATATATA
27622727 CATTTAAAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 11 0.34
30 21 0.66
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.51
Consensus pattern (30 bp):
TATATATATAAAACTTTTATTGTGATTAAA
Found at i:27623600 original size:18 final size:19
Alignment explanation
Indices: 27623556--27623600 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
27623546 CTCATTTTTT
*
27623556 AAAAAAATTTGATTAAATGA
1 AAAAAAATTT-ATTAAAAGA
*
27623576 AATAAAATTT-TTAAAAGA
1 AAAAAAATTTATTAAAAGA
27623594 AAAAAAA
1 AAAAAAA
27623601 CAATGATGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 13 0.59
20 9 0.41
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (19 bp):
AAAAAAATTTATTAAAAGA
Found at i:27624511 original size:19 final size:19
Alignment explanation
Indices: 27624483--27624524 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
27624473 AATGCAAGGA
*
27624483 ATAATATATAGTAAAATAT
1 ATAATATATAATAAAATAT
* *
27624502 ATAATGTATAATAAAATTT
1 ATAATATATAATAAAATAT
27624521 ATAA
1 ATAA
27624525 ATAAAATGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (19 bp):
ATAATATATAATAAAATAT
Found at i:27624523 original size:12 final size:12
Alignment explanation
Indices: 27624504--27624540 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
27624494 TAAAATATAT
27624504 AATGTATAATAA
1 AATGTATAATAA
*
27624516 AATTTATAAATAA
1 AATGTAT-AATAA
27624529 AATGTATAATAA
1 AATGTATAATAA
27624541 TAAAAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (12 bp):
AATGTATAATAA
Found at i:27624529 original size:13 final size:13
Alignment explanation
Indices: 27624504--27624537 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
27624494 TAAAATATAT
27624504 AATGTAT-AATAA
1 AATGTATAAATAA
*
27624516 AATTTATAAATAA
1 AATGTATAAATAA
27624529 AATGTATAA
1 AATGTATAA
27624538 TAATAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (13 bp):
AATGTATAAATAA
Found at i:27630445 original size:32 final size:32
Alignment explanation
Indices: 27630401--27630461 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
27630391 TACAACTTAA
** *
27630401 TTTTTATATTTTTATTTTTAAGAATTTAAATT
1 TTTTTATATTTTTAAATTTAACAATTTAAATT
27630433 TTTTTA-ATTTTTTAAATTTAACAATTTAA
1 TTTTTATA-TTTTTAAATTTAACAATTTAA
27630462 TATTAATATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 1 0.04
32 24 0.96
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (32 bp):
TTTTTATATTTTTAAATTTAACAATTTAAATT
Found at i:27636417 original size:19 final size:20
Alignment explanation
Indices: 27636395--27636432 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
27636385 ATTCATATCT
*
27636395 TTATTATTGAAAT-TAAAAC
1 TTATTATTAAAATATAAAAC
*
27636414 TTATTGTTAAAATATAAAA
1 TTATTATTAAAATATAAAA
27636433 TTGAAATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (20 bp):
TTATTATTAAAATATAAAAC
Found at i:27644752 original size:26 final size:26
Alignment explanation
Indices: 27644723--27644846 Score: 76
Period size: 26 Copynumber: 4.8 Consensus size: 26
27644713 AAATGGAGCA
*
27644723 AAATAATATGTAAAACAATTTGAAGT
1 AAATAATATGTAAAACAATTTGAAAT
** *
27644749 AAATAGCA--TAAAACAATTTACAAAT
1 AAATAATATGTAAAACAATTT-GAAAT
* * * *
27644774 AAGTAGTATGTAAAATAATTT-AGAAC
1 AAATAATATGTAAAACAATTTGA-AAT
** *
27644800 AAATAATATACAAAGCAATTT-ATAAT
1 AAATAATATGTAAAACAATTTGA-AAT
* *
27644826 AAATAATTTGTAAGACAATTT
1 AAATAATATGTAAAACAATTT
27644847 AAAGTAACAT
Statistics
Matches: 73, Mismatches: 21, Indels: 8
0.72 0.21 0.08
Matches are distributed among these distances:
24 11 0.15
25 10 0.14
26 42 0.58
27 10 0.14
ACGTcount: A:0.54, C:0.06, G:0.09, T:0.31
Consensus pattern (26 bp):
AAATAATATGTAAAACAATTTGAAAT
Found at i:27645108 original size:26 final size:26
Alignment explanation
Indices: 27645068--27645153 Score: 77
Period size: 26 Copynumber: 3.4 Consensus size: 26
27645058 CAGTTTAATC
27645068 AAATAATATAGAAAACAATTTAAAAT
1 AAATAATATAGAAAACAATTTAAAAT
** * *
27645094 AAATAATATCTAAAATAATTTGAAAT
1 AAATAATATAGAAAACAATTTAAAAT
* * * **
27645120 AAA-AA-ATAAAAAATAGTTTACTAT
1 AAATAATATAGAAAACAATTTAAAAT
27645144 AAATAATATA
1 AAATAATATA
27645154 AATAAAATAA
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
24 16 0.33
25 4 0.08
26 28 0.58
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.30
Consensus pattern (26 bp):
AAATAATATAGAAAACAATTTAAAAT
Found at i:27645252 original size:15 final size:15
Alignment explanation
Indices: 27645226--27645262 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
27645216 ATGCAAGGAC
27645226 AAATAA-ATAAAATA
1 AAATAATATAAAATA
27645240 AAATAATATAAAATA
1 AAATAATATAAAATA
27645255 AAATAATA
1 AAATAATA
27645263 CGCATATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 6 0.27
15 16 0.73
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AAATAATATAAAATA
Found at i:27645277 original size:5 final size:5
Alignment explanation
Indices: 27645226--27645260 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
27645216 ATGCAAGGAC
*
27645226 AAAT- AAATA AAATA AAATA ATATA AAATA AAATA A
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA A
27645261 TACGCATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
4 4 0.14
5 24 0.86
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
AAATA
Found at i:27645384 original size:18 final size:18
Alignment explanation
Indices: 27645356--27645413 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
27645346 ATATAATCAC
**
27645356 AATAA-AATAATAGCCAT
1 AATAATAATAATAGAAAT
27645373 AATAATAATAATAGAAAT
1 AATAATAATAATAGAAAT
*
27645391 AATAGTAATAATA-AAAT
1 AATAATAATAATAGAAAT
27645408 AATAAT
1 AATAAT
27645414 GGTATTAGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.39
18 22 0.61
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (18 bp):
AATAATAATAATAGAAAT
Found at i:27645429 original size:3 final size:3
Alignment explanation
Indices: 27645371--27645413 Score: 54
Period size: 3 Copynumber: 14.7 Consensus size: 3
27645361 AATAATAGCC
*
27645371 ATA ATA ATA ATA ATA GA-A ATA ATA GTA ATA ATA A-A ATA ATA AT
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
27645414 GGTATTAGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 3 0.09
3 31 0.89
4 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:27670021 original size:16 final size:16
Alignment explanation
Indices: 27669984--27670026 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
27669974 TAACCCAAAT
27669984 TAAATTAGATTAAAACTA
1 TAAATTA-A-TAAAACTA
*
27670002 -AAATTAATAATACTA
1 TAAATTAATAAAACTA
27670017 TAAATTAATA
1 TAAATTAATA
27670027 TTCATAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 7 0.30
16 10 0.43
17 6 0.26
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (16 bp):
TAAATTAATAAAACTA
Found at i:27670600 original size:6 final size:6
Alignment explanation
Indices: 27670577--27670652 Score: 59
Period size: 6 Copynumber: 12.7 Consensus size: 6
27670567 CTTTATCCAA
* * * *
27670577 TTTTAT GTTTTA- -TTTAT TTTTAT TTTTAT TTCTAG TTGTAC TTTTAT
1 TTTTAT -TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
*
27670624 TTTTAT TGTTAT TATTT-T ATTTTAT TTTT
1 TTTTAT TTTTAT T-TTTAT -TTTTAT TTTT
27670653 CATACTTATA
Statistics
Matches: 56, Mismatches: 8, Indels: 11
0.75 0.11 0.15
Matches are distributed among these distances:
4 4 0.07
6 43 0.77
7 9 0.16
ACGTcount: A:0.17, C:0.03, G:0.05, T:0.75
Consensus pattern (6 bp):
TTTTAT
Found at i:27675410 original size:13 final size:13
Alignment explanation
Indices: 27675392--27675416 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27675382 TTTGGACCAT
27675392 TTTGGATTTTTAC
1 TTTGGATTTTTAC
27675405 TTTGGATTTTTA
1 TTTGGATTTTTA
27675417 ACTGCTTTAT
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:0.16, C:0.04, G:0.16, T:0.64
Consensus pattern (13 bp):
TTTGGATTTTTAC
Found at i:27678890 original size:2 final size:2
Alignment explanation
Indices: 27678885--27678913 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
27678875 GACAAATATA
27678885 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
27678914 TTGTATGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:27680417 original size:47 final size:47
Alignment explanation
Indices: 27680308--27680418 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
27680298 CCGGGATAAG
* *
27680308 CACATAGTGCTTCATCGGAATAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
27680355 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
27680402 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
27680419 ACTCAATGTC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.02
47 52 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:27681183 original size:4 final size:4
Alignment explanation
Indices: 27681174--27681206 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
27681164 CCCTTTTCTA
27681174 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
27681207 CACGTTTGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:27684671 original size:4 final size:4
Alignment explanation
Indices: 27684662--27684698 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
27684652 CCCTTTTCTA
27684662 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
27684699 CACGTTTGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:27688056 original size:40 final size:40
Alignment explanation
Indices: 27688001--27688210 Score: 285
Period size: 40 Copynumber: 5.0 Consensus size: 40
27687991 GAAAAAAAAA
27688001 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
*
27688041 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGTGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
27688081 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTATAACCGGGT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGG----T-T-A-----T
27688132 TAATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 T-ATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
* *
27688173 TATAACCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTT
27688211 GTTACATCCG
Statistics
Matches: 154, Mismatches: 4, Indels: 24
0.85 0.02 0.13
Matches are distributed among these distances:
40 109 0.71
41 2 0.01
44 1 0.01
45 1 0.01
46 2 0.01
47 1 0.01
48 1 0.01
51 2 0.01
52 35 0.23
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.29
Consensus pattern (40 bp):
TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
Found at i:27688139 original size:12 final size:12
Alignment explanation
Indices: 27688122--27688146 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27688112 GCGGGTTATT
27688122 ATAACCGGGTTA
1 ATAACCGGGTTA
27688134 ATAACCGGGTTA
1 ATAACCGGGTTA
27688146 A
1 A
27688147 GTCCCGAAGG
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:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (12 bp):
ATAACCGGGTTA
Found at i:27688146 original size:52 final size:52
Alignment explanation
Indices: 27688082--27688186 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
27688072 GTGGGTTATT
27688082 ATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTA
1 ATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTA
27688134 ATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTA
1 ATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTA
27688186 A
1 A
27688187 GTCCCGAAGG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.27
Consensus pattern (52 bp):
ATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTA
Found at i:27688199 original size:92 final size:93
Alignment explanation
Indices: 27688033--27688210 Score: 313
Period size: 92 Copynumber: 1.9 Consensus size: 93
27688023 GGCATTCGTG
*
27688033 CGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGTGGGTTATTATAACCGGGTTAAGTC
1 CGGGTTA-TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTC
27688098 CCGAAGGCATTCGTGCGGGTTATTATAAC
65 CCGAAGGCATTCGTGCGGGTTATTATAAC
27688127 CGGGTTA-ATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCC
1 CGGGTTATATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCC
* *
27688191 CGAAGGCATTTGTGCTGGTT
66 CGAAGGCATTCGTGCGGGTT
27688211 GTTACATCCG
Statistics
Matches: 81, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
92 74 0.91
94 7 0.09
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (93 bp):
CGGGTTATATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCC
CGAAGGCATTCGTGCGGGTTATTATAAC
Found at i:27697598 original size:5 final size:5
Alignment explanation
Indices: 27697588--27697617 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
27697578 AGGAAAGAGG
27697588 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA
27697618 GAAGGGAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:27701657 original size:23 final size:23
Alignment explanation
Indices: 27701625--27701678 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
27701615 CCTGCTAAGG
*
27701625 ACAAAACCCGAATAATCACCAGC
1 ACAAAGCCCGAATAATCACCAGC
27701648 ACAAAGCCCGAATAATCACCAGC
1 ACAAAGCCCGAATAATCACCAGC
27701671 ACAAAGCC
1 ACAAAGCC
27701679 TGCTAGGCAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.46, C:0.35, G:0.11, T:0.07
Consensus pattern (23 bp):
ACAAAGCCCGAATAATCACCAGC
Found at i:27701711 original size:39 final size:39
Alignment explanation
Indices: 27701646--27701780 Score: 148
Period size: 39 Copynumber: 3.5 Consensus size: 39
27701636 ATAATCACCA
27701646 GCACA-AAGCCCGAATAATCACCAGCACAAAGCCTGCTAG
1 GCACATAA-CCCGAATAATCACCAGCACAAAGCCTGCTAG
* * *
27701685 GCACTTAACCTGAATAATCACCAGCACAAAGTCTGCTAG
1 GCACATAACCCGAATAATCACCAGCACAAAGCCTGCTAG
* * * * *
27701724 GCACATAACCCGAACAATCAAC-GACACAAAGCTTGTTAT
1 GCACATAACCCGAATAATCACCAG-CACAAAGCCTGCTAG
**
27701763 GCACATGGCCCGAATAAT
1 GCACATAACCCGAATAAT
27701781 TACCGTATTT
Statistics
Matches: 80, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
38 1 0.01
39 77 0.96
40 2 0.03
ACGTcount: A:0.38, C:0.30, G:0.16, T:0.16
Consensus pattern (39 bp):
GCACATAACCCGAATAATCACCAGCACAAAGCCTGCTAG
Found at i:27705866 original size:5 final size:5
Alignment explanation
Indices: 27705856--27705883 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
27705846 TAAACTGTGA
27705856 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
27705884 GAACACACAA
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:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:27711671 original size:12 final size:13
Alignment explanation
Indices: 27711656--27711684 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
27711646 AATATTTAAA
27711656 ATTAATA-AAAAT
1 ATTAATATAAAAT
27711668 ATTAATATAAAAT
1 ATTAATATAAAAT
27711681 ATTA
1 ATTA
27711685 TAATTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
ATTAATATAAAAT
Found at i:27711755 original size:16 final size:16
Alignment explanation
Indices: 27711734--27711783 Score: 61
Period size: 13 Copynumber: 3.2 Consensus size: 16
27711724 ATATCTAATC
27711734 ATATAATAAATTATTA
1 ATATAATAAATTATTA
27711750 ATATAAT--A-TATTA
1 ATATAATAAATTATTA
*
27711763 ATTTAATAAATTATTTA
1 ATATAATAAATTA-TTA
27711780 ATAT
1 ATAT
27711784 TTCAATTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
13 11 0.39
14 1 0.04
15 1 0.04
16 9 0.32
17 6 0.21
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATAATAAATTATTA
Found at i:27711812 original size:19 final size:18
Alignment explanation
Indices: 27711790--27711845 Score: 55
Period size: 19 Copynumber: 3.2 Consensus size: 18
27711780 ATATTTCAAT
27711790 TTTATTTTAATAATAAATA
1 TTTA-TTTAATAATAAATA
* *
27711809 TTTATGATAATTATAAATA
1 TTTAT-TTAATAATAAATA
27711828 --TA-TTAATAATAAATA
1 TTTATTTAATAATAAATA
27711843 TTT
1 TTT
27711846 TATAGTATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
15 11 0.37
17 3 0.10
18 1 0.03
19 15 0.50
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (18 bp):
TTTATTTAATAATAAATA
Found at i:27711855 original size:31 final size:34
Alignment explanation
Indices: 27711796--27711859 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
27711786 CAATTTTATT
*
27711796 TTAATAATAAATATTTATGATAATTATAAATATA
1 TTAATAATAAATATTTATGATAAGTATAAATATA
27711830 TTAATAATAAATATTT-T-AT-AGTATAAATAT
1 TTAATAATAAATATTTATGATAAGTATAAATAT
27711860 TAAAATATGT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 10 0.34
32 2 0.07
33 1 0.03
34 16 0.55
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (34 bp):
TTAATAATAAATATTTATGATAAGTATAAATATA
Found at i:27712270 original size:22 final size:23
Alignment explanation
Indices: 27712224--27712270 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
27712214 CCTAGTATAA
*
27712224 AAATATGAGTATTTTAATTATAT
1 AAATATGAGTATTTTAATTAAAT
*
27712247 AAATATGAGTA-TTTATTTAAAT
1 AAATATGAGTATTTTAATTAAAT
27712269 AA
1 AA
27712271 TGCTTAGCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.45
Consensus pattern (23 bp):
AAATATGAGTATTTTAATTAAAT
Found at i:27713673 original size:21 final size:22
Alignment explanation
Indices: 27713630--27713678 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
27713620 AACACTAGTT
**
27713630 AATTTTTTTTGTATTGAGTTTG
1 AATTTTTTTTGTATTGAAATTG
*
27713652 AATTTTTTTT-TATTTAAATTG
1 AATTTTTTTTGTATTGAAATTG
*
27713673 AGTTTT
1 AATTTT
27713679 GAATTTGATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.22, C:0.00, G:0.12, T:0.65
Consensus pattern (22 bp):
AATTTTTTTTGTATTGAAATTG
Found at i:27718929 original size:18 final size:18
Alignment explanation
Indices: 27718901--27718944 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
27718891 ACTGAAATTT
27718901 ATATGAAAATCCCAGAAGG
1 ATAT-AAAATCCCAGAAGG
* *
27718920 ATTTAAAATCCCTGAAGG
1 ATATAAAATCCCAGAAGG
27718938 ATATAAA
1 ATATAAA
27718945 GTTTCCTTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 19 0.86
19 3 0.14
ACGTcount: A:0.48, C:0.14, G:0.16, T:0.23
Consensus pattern (18 bp):
ATATAAAATCCCAGAAGG
Found at i:27724585 original size:14 final size:15
Alignment explanation
Indices: 27724568--27724597 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
27724558 ATGAATATAG
27724568 TAAATA-TTAAAAAA
1 TAAATATTTAAAAAA
27724582 TAAATATTTAAAAAA
1 TAAATATTTAAAAAA
27724597 T
1 T
27724598 TACTAATAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
TAAATATTTAAAAAA
Done.