Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007859.1 Hibiscus syriacus cultivar Beakdansim tig00110221_pilon, 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: 3538007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 18
Found at i:206697 original size:27 final size:27
Alignment explanation
Indices: 206667--206724 Score: 100
Period size: 27 Copynumber: 2.1 Consensus size: 27
206657 AGTTTATATA
206667 TATAATATAG-AGTATATAAATATAAAC
1 TATAATAT-GTAGTATATAAATATAAAC
206694 TATAATATGTAGTATATAAATATAAAC
1 TATAATATGTAGTATATAAATATAAAC
206721 TATA
1 TATA
206725 GTTTATATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
26 1 0.03
27 29 0.97
ACGTcount: A:0.53, C:0.03, G:0.07, T:0.36
Consensus pattern (27 bp):
TATAATATGTAGTATATAAATATAAAC
Found at i:206743 original size:27 final size:27
Alignment explanation
Indices: 206667--206762 Score: 99
Period size: 27 Copynumber: 3.7 Consensus size: 27
206657 AGTTTATATA
*
206667 TATAATATAGAGTATATAAATATAAAC
1 TATAATATATAGTATATAAATATAAAC
*
206694 TATAATATGTAGTATATAAATATAAAC
1 TATAATATATAGTATATAAATATAAAC
* * * *
206721 TATAGTTTATA-TATAT-AGTATATAC
1 TATAATATATAGTATATAAATATAAAC
* *
206746 TAT-ATAAATAGTTTATA
1 TATAATATATAGTATATA
206763 TAGTTCACTA
Statistics
Matches: 56, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
24 4 0.07
25 14 0.25
26 5 0.09
27 33 0.59
ACGTcount: A:0.49, C:0.03, G:0.07, T:0.41
Consensus pattern (27 bp):
TATAATATATAGTATATAAATATAAAC
Found at i:206749 original size:18 final size:18
Alignment explanation
Indices: 206728--206762 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
206718 AACTATAGTT
*
206728 TATATATATAGTATATAC
1 TATATAAATAGTATATAC
*
206746 TATATAAATAGTTTATA
1 TATATAAATAGTATATA
206763 TAGTTCACTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.46
Consensus pattern (18 bp):
TATATAAATAGTATATAC
Found at i:206751 original size:20 final size:19
Alignment explanation
Indices: 206650--206764 Score: 65
Period size: 20 Copynumber: 5.9 Consensus size: 19
206640 TACTATAAAG
*
206650 TATATATAGTTTATATATA
1 TATATATAGTATATATATA
* *
206669 TAATATAGAGTATATAAATA
1 T-ATATATAGTATATATATA
* * *
206689 TAAACTATAATATGTAGTATA
1 TATA-TATAGTATATA-TATA
* * *
206710 TAAATATA-AACTATAGTTTA
1 TATATATAGTA-TATA-TATA
206730 TATATATAGTATATACTATA
1 TATATATAGTATATA-TATA
*
206750 TA-A-ATAGTTTATATA
1 TATATATAGTATATATA
206765 GTTCACTAAT
Statistics
Matches: 75, Mismatches: 16, Indels: 12
0.73 0.16 0.12
Matches are distributed among these distances:
17 2 0.03
18 9 0.12
19 5 0.07
20 51 0.68
21 8 0.11
ACGTcount: A:0.48, C:0.03, G:0.07, T:0.43
Consensus pattern (19 bp):
TATATATAGTATATATATA
Found at i:206795 original size:26 final size:26
Alignment explanation
Indices: 206759--206808 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
206749 ATAAATAGTT
206759 TATATAGTTCACTA-ATAAACTATATA
1 TATATAGTTCA-TATATAAACTATATA
*
206785 TATATAGTTCATATGTAAACTATA
1 TATATAGTTCATATATAAACTATA
206809 ATTCATATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 2 0.09
26 20 0.91
ACGTcount: A:0.44, C:0.10, G:0.06, T:0.40
Consensus pattern (26 bp):
TATATAGTTCATATATAAACTATATA
Found at i:206852 original size:18 final size:18
Alignment explanation
Indices: 206787--206868 Score: 67
Period size: 18 Copynumber: 4.2 Consensus size: 18
206777 ACTATATATA
206787 TATAGTTCATATGTAAAC
1 TATAGTTCATATGTAAAC
*
206805 TATAATTCATATGTAAATATC
1 TATAGTTCATATGT-AA-A-C
*
206826 AATTATAGTTTATATGTAAAC
1 ---TATAGTTCATATGTAAAC
*
206847 TATAGTT-AGTATATAAAC
1 TATAGTTCA-TATGTAAAC
206865 TATA
1 TATA
206869 TAGTTTAAGT
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
17 1 0.02
18 32 0.60
19 2 0.04
20 1 0.02
21 2 0.04
22 1 0.02
23 2 0.04
24 12 0.23
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.41
Consensus pattern (18 bp):
TATAGTTCATATGTAAAC
Found at i:206914 original size:65 final size:63
Alignment explanation
Indices: 206837--206956 Score: 197
Period size: 65 Copynumber: 1.9 Consensus size: 63
206827 ATTATAGTTT
206837 ATATGTAAACTATAGTT-AGTATATAAACTATATAGTTTAAGTATAGTTTATATATAATTCATAT
1 ATATGTAAACTATAGTTCA-TATATAAACTATATAGTTT-A-TATAGTTTATATATAATTCATAT
206901 C
63 C
*
206902 ATATGTAAACTATAGTTCATATATCAACTATATAGTTTATATAGTTTATATATAA
1 ATATGTAAACTATAGTTCATATATAAACTATATAGTTTATATAGTTTATATATAA
206957 ATATCAACTA
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
63 16 0.30
64 1 0.02
65 35 0.66
66 1 0.02
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.43
Consensus pattern (63 bp):
ATATGTAAACTATAGTTCATATATAAACTATATAGTTTATATAGTTTATATATAATTCATATC
Found at i:206973 original size:20 final size:20
Alignment explanation
Indices: 206950--206995 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
206940 ATATAGTTTA
*
206950 TATATAAATATCAACTATAG
1 TATATAAATATAAACTATAG
206970 TATATAAATATAAACTATAG
1 TATATAAATATAAACTATAG
*
206990 TTTATA
1 TATATA
206996 TATGTAGTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.50, C:0.07, G:0.04, T:0.39
Consensus pattern (20 bp):
TATATAAATATAAACTATAG
Found at i:207050 original size:24 final size:24
Alignment explanation
Indices: 207010--207072 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 24
207000 TAGTATATAC
* *
207010 TATATAAA-TAGTTTATATAGTTCA
1 TATATAAACTA-TATATATAATTCA
207034 CTA-ATAAACTATATATATAATTCA
1 -TATATAAACTATATATATAATTCA
*
207058 TATGTAAACTATATA
1 TATATAAACTATATA
207073 GTTTATATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
23 2 0.06
24 27 0.82
25 4 0.12
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (24 bp):
TATATAAACTATATATATAATTCA
Found at i:207085 original size:13 final size:13
Alignment explanation
Indices: 207067--207094 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
207057 ATATGTAAAC
207067 TATATAGTTTATA
1 TATATAGTTTATA
207080 TATATAGTTTATA
1 TATATAGTTTATA
207093 TA
1 TA
207095 GTTTTTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (13 bp):
TATATAGTTTATA
Found at i:207092 original size:22 final size:22
Alignment explanation
Indices: 207067--207115 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
207057 ATATGTAAAC
207067 TATATAGTTTATATATATAGTT
1 TATATAGTTTATATATATAGTT
*
207089 TATATAGTTTTTATATATAGTT
1 TATATAGTTTATATATATAGTT
*
207111 CATAT
1 TATAT
207116 GTAAATTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.55
Consensus pattern (22 bp):
TATATAGTTTATATATATAGTT
Found at i:207105 original size:13 final size:13
Alignment explanation
Indices: 207067--207110 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
207057 ATATGTAAAC
*
207067 TATATAGTTTATA
1 TATATAGTTTTTA
207080 TATATAG---TT-
1 TATATAGTTTTTA
207089 TATATAGTTTTTA
1 TATATAGTTTTTA
207102 TATATAGTT
1 TATATAGTT
207111 CATATGTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
9 7 0.27
10 1 0.04
12 2 0.08
13 16 0.62
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (13 bp):
TATATAGTTTTTA
Found at i:207187 original size:27 final size:27
Alignment explanation
Indices: 207148--207212 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
207138 TATTTATATA
*
207148 TATAATATATAGTACATAAATATCAAC
1 TATAATATATAGTACATAAATATAAAC
* * *
207175 TATAGTATGTAGTATATAAATATAAAC
1 TATAATATATAGTACATAAATATAAAC
*
207202 TATAATTTATA
1 TATAATATATA
207213 TATATAGTAT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.38
Consensus pattern (27 bp):
TATAATATATAGTACATAAATATAAAC
Found at i:207230 original size:18 final size:18
Alignment explanation
Indices: 207209--207243 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
207199 AACTATAATT
*
207209 TATATATATAGTATATAC
1 TATATAAATAGTATATAC
*
207227 TATATAAATAGTTTATA
1 TATATAAATAGTATATA
207244 TAATTCACTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.46
Consensus pattern (18 bp):
TATATAAATAGTATATAC
Found at i:207232 original size:20 final size:19
Alignment explanation
Indices: 206965--207245 Score: 63
Period size: 20 Copynumber: 13.7 Consensus size: 19
206955 AAATATCAAC
* *
206965 TATAGTATATAAATATAAA
1 TATAGTATATATATATATA
* *
206984 CTATAGTTTATATATGTAGTA
1 -TATAGTATATATATATA-TA
* * *
207005 TATACTATATAAATAGTTTA
1 TATAGTATATATATA-TATA
*
207025 TATAGTTCACTAATAAACTATATA
1 TATAG-T-A-T-ATATA-TATATA
* * *
207049 TATAAT-TCATATGTAAACTA
1 TATAGTAT-ATATATATA-TA
*
207069 TATAGTTTATATATATAGTTTA
1 TATAG--TATATATATA-TATA
* *
207091 TATAGTTTTTATATATAGT-
1 TATAGTATATATATATA-TA
207110 TCATATGTAAATTATACTATATATA
1 T-ATA-GT--A-TATA-TATATATA
*
207135 CTATA-TTTATATATATAATA
1 -TATAGTATATATATAT-ATA
* *
207155 TATAGTACATAAATATCA-A
1 TATAGTATATATATAT-ATA
* *
207174 CTATAGTATGTAGTATATAAA
1 -TATAGTATATA-TATATATA
* *
207195 TATA-AACTATAATTTATATA
1 TATAGTA-TAT-ATATATATA
207215 TATAGTATATACTATATA-A
1 TATAGTATATA-TATATATA
*
207234 -ATAGTTTATATA
1 TATAGTATATATA
207246 ATTCACTAAT
Statistics
Matches: 191, Mismatches: 40, Indels: 63
0.65 0.14 0.21
Matches are distributed among these distances:
17 2 0.01
18 9 0.05
19 18 0.09
20 103 0.54
21 12 0.06
22 15 0.08
23 4 0.02
24 16 0.08
25 11 0.06
26 1 0.01
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.44
Consensus pattern (19 bp):
TATAGTATATATATATATA
Found at i:207332 original size:22 final size:22
Alignment explanation
Indices: 207287--207332 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
207277 TGTAAACTAC
*
207287 ATAGTTTACATAATTCATATAT
1 ATAGTTTACATAATTCATACAT
* * *
207309 ATAGTTTATATAGTTTATACAT
1 ATAGTTTACATAATTCATACAT
207331 AT
1 AT
207333 TCATATGTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.48
Consensus pattern (22 bp):
ATAGTTTACATAATTCATACAT
Found at i:207485 original size:17 final size:16
Alignment explanation
Indices: 207463--207519 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 16
207453 AATTATACAA
207463 TATATATTATTTATAAT
1 TATATATTA-TTATAAT
* *
207480 TATATATAATATATAAA
1 TATATATTAT-TATAAT
*
207497 TATAAATTA-TATAATT
1 TATATATTATTATAA-T
207513 TATATAT
1 TATATAT
207520 AATTCATATA
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
15 5 0.16
16 7 0.22
17 20 0.62
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TATATATTATTATAAT
Found at i:207494 original size:11 final size:11
Alignment explanation
Indices: 207462--207681 Score: 69
Period size: 11 Copynumber: 20.1 Consensus size: 11
207452 AAATTATACA
207462 ATATAT-AT-T
1 ATATATAATAT
*
207471 ATTTATAAT-T
1 ATATATAATAT
207481 ATATATAATAT
1 ATATATAATAT
207492 ATAAATATAA-AT
1 AT--ATATAATAT
*
207504 -TATATAATTT
1 ATATATAATAT
207514 ATATATAAT-T
1 ATATATAATAT
*
207524 CATATATAATTT
1 -ATATATAATAT
207536 ATAT-TAATA-
1 ATATATAATAT
* * *
207545 AGCTATGTAGTTT
1 A--TATATAATAT
*
207558 ATATATAGT-T
1 ATATATAATAT
207568 CA-ATAGT--TCAT
1 -ATATA-TAAT-AT
207579 ATAT-TAACTAT
1 ATATATAA-TAT
207590 ATAGTAT--TAT
1 ATA-TATAATAT
*
207600 AGTTTATACATGAT
1 A-TATATA-AT-AT
* *
207614 ATATATAGTTT
1 ATATATAATAT
*
207625 ATACATAATAT
1 ATATATAATAT
207636 ATATATAATAT
1 ATATATAATAT
*
207647 ATAGTTTATATAT
1 ATA-TATA-ATAT
207660 AGTATATAATA-
1 A-TATATAATAT
207671 ATATA-AATAT
1 ATATATAATAT
207681 A
1 A
207682 AACTATACAA
Statistics
Matches: 163, Mismatches: 17, Indels: 61
0.68 0.07 0.25
Matches are distributed among these distances:
9 18 0.11
10 34 0.21
11 69 0.42
12 15 0.09
13 22 0.13
14 5 0.03
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.46
Consensus pattern (11 bp):
ATATATAATAT
Found at i:207508 original size:9 final size:9
Alignment explanation
Indices: 207437--207538 Score: 53
Period size: 9 Copynumber: 11.9 Consensus size: 9
207427 TATAGTTTAT
207437 ATTA-ATAA
1 ATTATATAA
*
207445 ACTATATAA
1 ATTATATAA
*
207454 ATTATA-CA
1 ATTATATAA
207462 A-TATAT--
1 ATTATATAA
*
207468 ATTATTTATA
1 ATTATATA-A
207478 ATTATATATA
1 ATTATATA-A
207488 A-TATAT-A
1 ATTATATAA
207495 A--ATATAA
1 ATTATATAA
207502 ATTATATAA
1 ATTATATAA
*
207511 TTTATATATA
1 ATTATATA-A
207521 ATTCATATATA
1 ATT-ATATA-A
207532 ATT-TATA
1 ATTATATA
207539 TTAATAAGCT
Statistics
Matches: 76, Mismatches: 7, Indels: 21
0.73 0.07 0.20
Matches are distributed among these distances:
6 5 0.07
7 12 0.16
8 5 0.07
9 31 0.41
10 13 0.17
11 10 0.13
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (9 bp):
ATTATATAA
Found at i:207529 original size:22 final size:21
Alignment explanation
Indices: 207447--207543 Score: 83
Period size: 22 Copynumber: 4.5 Consensus size: 21
207437 ATTAATAAAC
*
207447 TATATA-AATTATACAATATATAT
1 TATATATAATTATA-TATA-AT-T
*
207470 TATTTATAATTATATATAATAT
1 TATATATAATTATATATAAT-T
* *
207492 ATAAATATAAAT-TATATAATT
1 -TATATATAATTATATATAATT
207513 TATATATAATTCATATATAATT
1 TATATATAATT-ATATATAATT
207535 TATAT-TAAT
1 TATATATAAT
207544 AAGCTATGTA
Statistics
Matches: 63, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
20 9 0.14
21 5 0.08
22 26 0.41
23 16 0.25
24 7 0.11
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
TATATATAATTATATATAATT
Found at i:207619 original size:2 final size:2
Alignment explanation
Indices: 207612--207724 Score: 58
Period size: 2 Copynumber: 56.5 Consensus size: 2
207602 TTTATACATG
* * *
207612 AT AT AT AT AGT TT AT AC AT A- AT AT AT AT AT A- AT AT AT AGT TT
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
* * * *
207654 AT AT AT AGT AT AT A- AT A- AT AT AA AT AT AA ACT AT AC AA ACT
1 AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT A-T
*
207695 AT AT AGT TT AT AT -T AT AT AT AT AT AT -T AT A
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT A
207725 GTTGTTTCAA
Statistics
Matches: 84, Mismatches: 15, Indels: 24
0.68 0.12 0.20
Matches are distributed among these distances:
1 6 0.07
2 71 0.85
3 7 0.08
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.44
Consensus pattern (2 bp):
AT
Found at i:207622 original size:20 final size:20
Alignment explanation
Indices: 207597--207640 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
207587 TATATAGTAT
*
207597 TATAGTTTATACATGATATA
1 TATAGTTTATACATAATATA
207617 TATAGTTTATACATAATATA
1 TATAGTTTATACATAATATA
207637 TATA
1 TATA
207641 TAATATATAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (20 bp):
TATAGTTTATACATAATATA
Found at i:207647 original size:29 final size:28
Alignment explanation
Indices: 207614--207675 Score: 97
Period size: 29 Copynumber: 2.2 Consensus size: 28
207604 TATACATGAT
207614 ATATATAGTTTATACATAATATATATATA
1 ATATATAGTTTATACATAATATATA-ATA
* *
207643 ATATATAGTTTATATATAGTATATAATA
1 ATATATAGTTTATACATAATATATAATA
207671 ATATA
1 ATATA
207676 AATATAAACT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 8 0.26
29 23 0.74
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (28 bp):
ATATATAGTTTATACATAATATATAATA
Found at i:207719 original size:20 final size:19
Alignment explanation
Indices: 207587--207724 Score: 68
Period size: 20 Copynumber: 7.0 Consensus size: 19
207577 ATATATTAAC
*
207587 TATATAGTAT-TATAGTTTA
1 TATATA-TATATATAGTATA
* *
207606 TACATGATATATATAGTTTA
1 TATAT-ATATATATAGTATA
*
207626 TACATAATATATATA-TAATA
1 TATAT-ATATATATAGT-ATA
*
207646 TATAGTTTATATATAGTATA
1 TATA-TATATATATAGTATA
* *
207666 TA-ATAATATAAATA-TAAA
1 TATAT-ATATATATAGTATA
* * *
207684 CTATACAAACTATATAGTTTA
1 -TATATATA-TATATAGTATA
*
207705 TATTATATATATATATTATA
1 TA-TATATATATATAGTATA
207725 GTTGTTTCAA
Statistics
Matches: 91, Mismatches: 17, Indels: 21
0.71 0.13 0.16
Matches are distributed among these distances:
18 4 0.04
19 20 0.22
20 59 0.65
21 8 0.09
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (19 bp):
TATATATATATATAGTATA
Found at i:208268 original size:212 final size:215
Alignment explanation
Indices: 207822--208322 Score: 805
Period size: 212 Copynumber: 2.3 Consensus size: 215
207812 TTGATCCCTT
*
207822 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTACAATTTAGTCCTTAAAA
1 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTTAAAA
* *
207887 TTA-GTTTGCATCTGAAATTGGCCCATACATATTACTTATTTATTTTTTTTTAATTGGCCCATAA
66 TTATATTTGCATCTGAAATTGGCCCATACATATTACTTATTTA--TTATTTTAATTGGCCCATAA
*
207951 CTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTAAACCTCACAATTTAAAATTATT
129 CTTTTTAAATGGGTATAATTTAGTACTTTTTTATATTAATTTAAACCTCACAATTTAAAATTATT
*
208016 TCGATTTGATTCCTCATCAATG
194 TCGATTTGATCCCTCATCAATG
*
208038 TGTGTTGTTTAATTTATTTAAATTTTTATTTTTAATTTCATATTTGTTCAATTTAGTCCTTAAAA
1 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTTAAAA
*
208103 TTATATTTGCATTTGAAATTGGCCCATA-ATTATTACTTATTTA-TATTTTAATTGGCCCATAAC
66 TTATATTTGCATCTGAAATTGGCCCATACA-TATTACTTATTTATTATTTTAATTGGCCCATAAC
*
208166 -TTTTAAATGGGTATAATTTAGTAC-TTTTTATATTAATTTAAACGTCACAATTTAAAATTATTT
130 TTTTTAAATGGGTATAATTTAGTACTTTTTTATATTAATTTAAACCTCACAATTTAAAATTATTT
*
208229 TGATTTGATCCCTCATCAATG
195 CGATTTGATCCCTCATCAATG
* ** * * *
208250 TGTGTTGTTTATTTTATTTTTATTTTTATTTGTAATTTCATATTTATTCAATTTAGTTCTTAAAT
1 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTTAAAA
208315 TTATATTT
66 TTATATTT
208323 TTAATAAAAT
Statistics
Matches: 267, Mismatches: 16, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
212 122 0.46
213 24 0.09
214 19 0.07
216 67 0.25
217 35 0.13
ACGTcount: A:0.29, C:0.10, G:0.09, T:0.52
Consensus pattern (215 bp):
TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTTAAAA
TTATATTTGCATCTGAAATTGGCCCATACATATTACTTATTTATTATTTTAATTGGCCCATAACT
TTTTAAATGGGTATAATTTAGTACTTTTTTATATTAATTTAAACCTCACAATTTAAAATTATTTC
GATTTGATCCCTCATCAATG
Found at i:214017 original size:23 final size:24
Alignment explanation
Indices: 213991--214043 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
213981 CTGCGGATAA
* *
213991 AGTTTCAAT-ATAAAAATGGGTGG
1 AGTTTCAATAAAAAAAATGGGTAG
*
214014 AGTTTCAGTAAAAAAAATGGGTAG
1 AGTTTCAATAAAAAAAATGGGTAG
214038 AGTTTC
1 AGTTTC
214044 GTACTACTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 8 0.31
24 18 0.69
ACGTcount: A:0.40, C:0.06, G:0.25, T:0.30
Consensus pattern (24 bp):
AGTTTCAATAAAAAAAATGGGTAG
Found at i:216070 original size:19 final size:19
Alignment explanation
Indices: 216046--216083 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
216036 TGACTGCGAA
216046 TGGCTCTGACTTAATTATC
1 TGGCTCTGACTTAATTATC
216065 TGGCTCTGACTTAATTATC
1 TGGCTCTGACTTAATTATC
216084 GATTGCTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.21, G:0.16, T:0.42
Consensus pattern (19 bp):
TGGCTCTGACTTAATTATC
Found at i:219967 original size:15 final size:15
Alignment explanation
Indices: 219947--219976 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
219937 GATTAATATA
219947 TTTCCTAACTTAGAG
1 TTTCCTAACTTAGAG
*
219962 TTTCCTAATTTAGAG
1 TTTCCTAACTTAGAG
219977 GTATTATTTG
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:0.27, C:0.17, G:0.13, T:0.43
Consensus pattern (15 bp):
TTTCCTAACTTAGAG
Found at i:224798 original size:14 final size:14
Alignment explanation
Indices: 224779--224805 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
224769 AACAGACTAT
224779 TCTGTTTTCTACAG
1 TCTGTTTTCTACAG
224793 TCTGTTTTCTACA
1 TCTGTTTTCTACA
224806 CATTGAACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.22, G:0.11, T:0.52
Consensus pattern (14 bp):
TCTGTTTTCTACAG
Found at i:230666 original size:20 final size:23
Alignment explanation
Indices: 230638--230696 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
230628 TGGTGCAGAA
*
230638 GGAATCGA-TCCCCCCTTG-A-G
1 GGAACCGATTCCCCCCTTGAAGG
*
230658 GGAACCGATTCCCCCTTTGAAGG
1 GGAACCGATTCCCCCCTTGAAGG
230681 GGAACCGATTCCCCCC
1 GGAACCGATTCCCCCC
230697 ACAGGGGAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 9 0.27
22 1 0.03
23 16 0.48
ACGTcount: A:0.20, C:0.37, G:0.24, T:0.19
Consensus pattern (23 bp):
GGAACCGATTCCCCCCTTGAAGG
Found at i:230704 original size:21 final size:21
Alignment explanation
Indices: 230678--230717 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
230668 CCCCCTTTGA
*
230678 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
230699 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
230718 TGGGGTTCTG
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:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:234059 original size:24 final size:24
Alignment explanation
Indices: 234027--234082 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
234017 CATGCTATTT
234027 TTCATTCAGTTCAAAAATTTTAAC
1 TTCATTCAGTTCAAAAATTTTAAC
*
234051 TTCATTCAGTTCAAAATTTTTAAC
1 TTCATTCAGTTCAAAAATTTTAAC
234075 TTCATTCA
1 TTCATTCA
234083 AATAGATGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.34, C:0.18, G:0.04, T:0.45
Consensus pattern (24 bp):
TTCATTCAGTTCAAAAATTTTAAC
Found at i:235514 original size:23 final size:24
Alignment explanation
Indices: 235480--235524 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
235470 TTCGATATTG
235480 AAAAATATTAAAAAATTATTTAAA
1 AAAAATATTAAAAAATTATTTAAA
**
235504 AAAAATA-TAAATTATTATTTA
1 AAAAATATTAAAAAATTATTTA
235525 TCAATATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
AAAAATATTAAAAAATTATTTAAA
Found at i:236981 original size:3 final size:3
Alignment explanation
Indices: 236973--237086 Score: 137
Period size: 3 Copynumber: 39.0 Consensus size: 3
236963 GTAATATTTA
*
236973 AAT AAT AAT AAT -AT AAT ATT AAT AAT AAT AAT AA- ATAT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
* * *
237016 AAT AAT TA- AAT AAT AAT AAT ACT AAT AAT AAT AAT ACT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
**
237063 AAT AAT AAT TTT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT
237087 TTTAAATGAA
Statistics
Matches: 94, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
2 6 0.06
3 87 0.93
4 1 0.01
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:237341 original size:76 final size:76
Alignment explanation
Indices: 237215--237624 Score: 795
Period size: 76 Copynumber: 5.4 Consensus size: 76
237205 GAAATGTTGA
*
237215 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTAAAAACATCAAAAAGCTCCCGA
237280 AGGCTTTTTGG
66 AGGCTTTTTGG
237291 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTAAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTAAAAACATCAAAAAGCTCCCGA
237356 AGGCTTTTTGG
66 AGGCTTTTTGG
237367 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTAAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTAAAAACATCAAAAAGCTCCCGA
237432 AGGCTTTTTGG
66 AGGCTTTTTGG
*
237443 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTAAAAACATCAAAAAGCTCCCGA
237508 AGGCTTTTTGG
66 AGGCTTTTTGG
237519 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTAAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTAAAAACATCAAAAAGCTCCCGA
237584 AGGC-TTTTGG
66 AGGCTTTTTGG
237594 AAACATCATGCACTGAAGGACTTACAGATGA
1 AAACATCATGCACTGAAGGACTTACAGATGA
237625 GGGAAATAGT
Statistics
Matches: 331, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
75 37 0.11
76 294 0.89
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.21
Consensus pattern (76 bp):
AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTAAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGG
Found at i:238505 original size:224 final size:223
Alignment explanation
Indices: 238031--238686 Score: 918
Period size: 224 Copynumber: 2.9 Consensus size: 223
238021 ATGCAAAAAG
* *
238031 TGAACAAATTCTTCT--TTATTAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC
1 TGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC
* * * *
238094 TTCTCTGGAAAAGCTGCTCCATCAAGTGATGGATTTGAGCAAAAGGTTGAAC-AATTCTTCTTAT
66 TTCTCTGGAAATG-TGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCAT
* *
238158 TATGAACTTCTCCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAAA--ATA
130 TATGAACTTCT-CTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG-AAATGATG
* *
238221 AT-CATCAAGTGATGAATTCAGACAAAAGGT
193 ATCCATCAAATGATGGATTCAGACAAAAGGT
*
238251 TGAATAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC
1 TGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC
* * ** *
238316 TTTCTCTGGAAATGATGATCCATCAAATAATAGATTCAAGTAAAAGGTTGAACAAATTCTTCTCA
66 -TTCTCTGGAAATG-TGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCA
*
238381 TTATGAACTTCTCTTCCTTCTTCAGATAAGTTC-TCTCATTATGAACTTTCTCTGGAAATGATGA
129 TTATGAACTTCTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAATGATGA
*
238445 TCCATCAAATGATGGATTCA-AGTAAAAGGT
194 TCCATCAAATGATGGATTCAGA-CAAAAGGT
*
238475 TGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCATATGAGTTCTTCTCATTATGAAC
1 TGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC
* * *
238540 TTCTCTGGCAATGTCAATCCATCGAATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCAT
66 TTCTCTGGAAATGT-GATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCAT
* ** *
238605 TATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAC-CTGG-AATGTTG
130 TATGAACTTC-TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT-TTCTCTGGAAATGATG
*
238668 ATCCATTAAATGATGGATT
193 ATCCATCAAATGATGGATT
238687 TGAACTTTGC
Statistics
Matches: 389, Mismatches: 35, Indels: 20
0.88 0.08 0.05
Matches are distributed among these distances:
220 14 0.04
221 3 0.01
222 68 0.17
223 132 0.34
224 153 0.39
225 18 0.05
226 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (223 bp):
TGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC
TTCTCTGGAAATGTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATT
ATGAACTTCTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAATGATGATC
CATCAAATGATGGATTCAGACAAAAGGT
Found at i:238520 original size:24 final size:23
Alignment explanation
Indices: 238485--238529 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
238475 TGAACAAATT
238485 CTTCTCATTATGAACTTCTTCTTC
1 CTTCTCATTATG-ACTTCTTCTTC
*
238509 CTTCTTCA-TATGAGTTCTTCT
1 CTTC-TCATTATGACTTCTTCT
238530 CATTATGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 8 0.42
24 8 0.42
25 3 0.16
ACGTcount: A:0.16, C:0.27, G:0.07, T:0.51
Consensus pattern (23 bp):
CTTCTCATTATGACTTCTTCTTC
Found at i:238665 original size:112 final size:114
Alignment explanation
Indices: 238023--238689 Score: 879
Period size: 111 Copynumber: 6.0 Consensus size: 114
238013 ATAGAATTAT
* * *
238023 GCAAAAAG-TGAACAAATTCTTCT--TTATTAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * * *
238085 ATTATGAA--CTTCTCTGGAAAAGCTGCTCCATCAAGTGATGGATTTGA
66 ATTATGAACTCTTCTCTGGAAATGATGATCCATCAAATGATGGATTTGA
* *
238132 GCAAAAGGTTGAAC-AATTCTTCTTATTATGAACTTCTCCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * * *
238196 ATTATGAAC-CTTCTCTGGCAAA--ATAAT-CATCAAGTGAT-GAATTCA
66 ATTATGAACTCTTCTCTGG-AAATGATGATCCATCAAATGATGGATTTGA
*
238241 GACAAAAGGTTGAATAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
1 G-CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
* * **
238306 CATTATGAACT-TTCTCTGGAAATGATGATCCATCAAATAATAGATTCAA
65 CATTATGAACTCTTCTCTGGAAATGATGATCCATCAAATGATGGATTTGA
* *
238355 GTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTC-TCTTCCTTCTTCAGATAAGTTC-TCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
**
238418 ATTATGAACT-TTCTCTGGAAATGATGATCCATCAAATGATGGATTCAA
66 ATTATGAACTCTTCTCTGGAAATGATGATCCATCAAATGATGGATTTGA
* *
238466 GTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCATATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * *
238531 ATTATGAA--CTTCTCTGGCAATG-TCAATCCATCGAATGATGGATTTGA
66 ATTATGAACTCTTCTCTGGAAATGAT-GATCCATCAAATGATGGATTTGA
*
238578 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
** * *
238643 ATTATGAACTCGAC-CTGG-AATGTTGATCCATTAAATGATGGATTTGA
66 ATTATGAACTCTTCTCTGGAAATGATGATCCATCAAATGATGGATTTGA
238690 ACTTTGCTAA
Statistics
Matches: 501, Mismatches: 38, Indels: 35
0.87 0.07 0.06
Matches are distributed among these distances:
109 22 0.04
110 31 0.06
111 199 0.40
112 179 0.36
113 63 0.13
114 7 0.01
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (114 bp):
GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTCTTCTCTGGAAATGATGATCCATCAAATGATGGATTTGA
Found at i:239114 original size:22 final size:22
Alignment explanation
Indices: 239089--239143 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
239079 CATAAAGCTT
239089 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
239111 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
239133 TCATCTTTGAA
1 TCATCTTTGAA
239144 GAATGTAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:240756 original size:84 final size:84
Alignment explanation
Indices: 240664--240881 Score: 436
Period size: 84 Copynumber: 2.6 Consensus size: 84
240654 CCTACCGAAT
240664 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCTTCCAAATTCA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCTTCCAAATTCA
240729 ATGATTGGTTCTGTCTAAC
66 ATGATTGGTTCTGTCTAAC
240748 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCTTCCAAATTCA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCTTCCAAATTCA
240813 ATGATTGGTTCTGTCTAAC
66 ATGATTGGTTCTGTCTAAC
240832 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATT
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATT
240882 ATTCTTGTTC
Statistics
Matches: 134, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 134 1.00
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (84 bp):
CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCTTCCAAATTCA
ATGATTGGTTCTGTCTAAC
Found at i:242817 original size:13 final size:13
Alignment explanation
Indices: 242796--242845 Score: 64
Period size: 14 Copynumber: 3.7 Consensus size: 13
242786 CTTGATTCAA
*
242796 TTTTCCTTTTTTT
1 TTTTTCTTTTTTT
242809 TTTTTCTTTTTTTT
1 TTTTTC-TTTTTTT
242823 TTCTTTCTTTTTTT
1 TT-TTTCTTTTTTT
*
242837 TCTTTCTTT
1 TTTTTCTTT
242846 GCTGGATGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.36
14 17 0.52
15 4 0.12
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTTTCTTTTTTT
Found at i:242819 original size:14 final size:14
Alignment explanation
Indices: 242796--242837 Score: 66
Period size: 14 Copynumber: 2.9 Consensus size: 14
242786 CTTGATTCAA
*
242796 TTTTCCTTTTTTTT
1 TTTTCTTTTTTTTT
242810 TTTTCTTTTTTTTT
1 TTTTCTTTTTTTTT
242824 TCTTTCTTTTTTTT
1 T-TTTCTTTTTTTT
242838 CTTTCTTTGC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 14 0.54
15 12 0.46
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (14 bp):
TTTTCTTTTTTTTT
Found at i:242822 original size:15 final size:15
Alignment explanation
Indices: 242797--242845 Score: 68
Period size: 13 Copynumber: 3.5 Consensus size: 15
242787 TTGATTCAAT
*
242797 TTTCCTTTTTTTTT-
1 TTTCTTTTTTTTTTC
242811 TTTCTTTTTTTTTTC
1 TTTCTTTTTTTTTTC
242826 TTTC--TTTTTTTTC
1 TTTCTTTTTTTTTTC
242839 TTTCTTT
1 TTTCTTT
242846 GCTGGATGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
13 13 0.42
14 13 0.42
15 5 0.16
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (15 bp):
TTTCTTTTTTTTTTC
Found at i:242828 original size:24 final size:24
Alignment explanation
Indices: 242796--242841 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
242786 CTTGATTCAA
*
242796 TTTTCCTTTTTTTTTTTTCTTTTT
1 TTTTCCTTTCTTTTTTTTCTTTTT
*
242820 TTTTTCTTTCTTTTTTTTCTTT
1 TTTTCCTTTCTTTTTTTTCTTT
242842 CTTTGCTGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (24 bp):
TTTTCCTTTCTTTTTTTTCTTTTT
Found at i:247533 original size:18 final size:17
Alignment explanation
Indices: 247485--247535 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
247475 AAATACTTGC
*
247485 AAATAAAATAAAACATAT
1 AAAT-AAATAAAAAATAT
*
247503 AAAT-ATTATAAAAATAAT
1 AAATAAATA-AAAAAT-AT
247521 AAATAAATAAAAAAT
1 AAATAAATAAAAAAT
247536 TTGAAAGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
16 3 0.11
17 5 0.19
18 16 0.59
19 3 0.11
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (17 bp):
AAATAAATAAAAAATAT
Found at i:248107 original size:15 final size:16
Alignment explanation
Indices: 248083--248115 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
248073 GCTCTTTTCT
248083 TTGATATT-AATAAAA
1 TTGATATTAAATAAAA
*
248098 TTGATTTTAAATAAAA
1 TTGATATTAAATAAAA
248114 TT
1 TT
248116 AAATAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (16 bp):
TTGATATTAAATAAAA
Found at i:249701 original size:3 final size:3
Alignment explanation
Indices: 249693--249816 Score: 160
Period size: 3 Copynumber: 41.0 Consensus size: 3
249683 GTAATATTTA
*
249693 AAT AAT AAT AAT ATAT AAT ATT AAT AAT AAT AAT AAAT AAT AAT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
* * * *
249740 AAT TAT AAT AAT AAT AAT -AT ACT AAT ACT AAT AAT AAT ACT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
**
249787 AAT AAT AAT AAT AAT TTT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
249817 TTTAAATGAA
Statistics
Matches: 104, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
2 2 0.02
3 96 0.92
4 6 0.06
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:250327 original size:15 final size:15
Alignment explanation
Indices: 250307--250338 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
250297 GTTCAGCAAC
250307 TAAGCCCTTTTCAAG
1 TAAGCCCTTTTCAAG
250322 TAAGCCCTTTTCAAG
1 TAAGCCCTTTTCAAG
250337 TA
1 TA
250339 GAAGGTACAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.34
Consensus pattern (15 bp):
TAAGCCCTTTTCAAG
Found at i:268027 original size:17 final size:17
Alignment explanation
Indices: 267993--268034 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
267983 TCATTCCCTT
* *
267993 TCTTT-GAGAGAAATTC
1 TCTTTCGAGAAAAACTC
268009 TCTTTCGAGAAAAACTC
1 TCTTTCGAGAAAAACTC
*
268026 TCGTTCGAG
1 TCTTTCGAG
268035 CAACAAACAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (17 bp):
TCTTTCGAGAAAAACTC
Found at i:271864 original size:26 final size:27
Alignment explanation
Indices: 271834--271889 Score: 64
Period size: 26 Copynumber: 2.1 Consensus size: 27
271824 ACATATTAGG
*
271834 TATTTTA-TTATTTCAAATT-AATTAAA
1 TATTTTATTTAATT-AAATTAAATTAAA
*
271860 TA-TTTATTTAATTAATTTAAATTAAA
1 TATTTTATTTAATTAAATTAAATTAAA
271886 TATT
1 TATT
271890 CAGGATAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
25 8 0.32
26 16 0.64
27 1 0.04
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (27 bp):
TATTTTATTTAATTAAATTAAATTAAA
Found at i:274756 original size:30 final size:31
Alignment explanation
Indices: 274699--274757 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
274689 CAATAATTCA
* * *
274699 CAACTTTTCCAAAATTACTGATTTGATCCTT
1 CAACTTTTCAAAAATTACAGATATGATCCTT
274730 CAACTTTTCAAAAATTACAGA-ATGATCC
1 CAACTTTTCAAAAATTACAGATATGATCC
274758 CCAAATTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 6 0.24
31 19 0.76
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.36
Consensus pattern (31 bp):
CAACTTTTCAAAAATTACAGATATGATCCTT
Found at i:275969 original size:19 final size:19
Alignment explanation
Indices: 275947--275990 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
275937 GTATTACACT
*
275947 AAATACTCCAAAGGATTAG
1 AAATACTCCAAAGGAATAG
*
275966 AAATACTCTAAAGGAATAG
1 AAATACTCCAAAGGAATAG
275985 AAATAC
1 AAATAC
275991 ACTACATTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.52, C:0.14, G:0.14, T:0.20
Consensus pattern (19 bp):
AAATACTCCAAAGGAATAG
Found at i:277114 original size:25 final size:25
Alignment explanation
Indices: 277080--277127 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
277070 ATTATACGCT
277080 GGCGGATTTTGAGATTCAATTTTGA
1 GGCGGATTTTGAGATTCAATTTTGA
277105 GGCGGATTTTGAGATTCAATTTT
1 GGCGGATTTTGAGATTCAATTTT
277128 AATTTTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.23, C:0.08, G:0.27, T:0.42
Consensus pattern (25 bp):
GGCGGATTTTGAGATTCAATTTTGA
Found at i:277790 original size:28 final size:28
Alignment explanation
Indices: 277753--277818 Score: 114
Period size: 28 Copynumber: 2.4 Consensus size: 28
277743 AGAAAACTGA
277753 TGTTGCACATTAATACTGACATGGGAAC
1 TGTTGCACATTAATACTGACATGGGAAC
*
277781 TGTTGCACATTAATACTGACCTGGGAAC
1 TGTTGCACATTAATACTGACATGGGAAC
*
277809 TATTGCACAT
1 TGTTGCACAT
277819 CAATTGATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (28 bp):
TGTTGCACATTAATACTGACATGGGAAC
Found at i:280801 original size:60 final size:60
Alignment explanation
Indices: 280676--280789 Score: 140
Period size: 60 Copynumber: 1.9 Consensus size: 60
280666 ATAATCAGGT
* * *
280676 GACCATCTTGTAAATTTTAATAGTCGAGGGACTCAACAATGCAACACTCTATAGCCAAAG
1 GACCATCTTGTAAATTTTAATAATCGAGGGACTCAACAAAGCAACACCCTATAGCCAAAG
* * * **
280736 GACCAT-TTCGTAACTTTTAATAATCGAGGGACTTAATAAAGCAGTACCCTATAG
1 GACCATCTT-GTAAATTTTAATAATCGAGGGACTCAACAAAGCAACACCCTATAG
280790 TCGGAGGACC
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
59 2 0.04
60 43 0.96
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (60 bp):
GACCATCTTGTAAATTTTAATAATCGAGGGACTCAACAAAGCAACACCCTATAGCCAAAG
Found at i:281168 original size:30 final size:30
Alignment explanation
Indices: 281132--281327 Score: 311
Period size: 30 Copynumber: 6.5 Consensus size: 30
281122 GAGGCTTTTT
*
281132 TGGGGGATTAGGAATTTTCTTTTTAATAGG
1 TGGGGGATTAGGAATTTTCTTTTTAAGAGG
*
281162 TGGGGGATTAGGGATTTTCTTTTTAAGAGG
1 TGGGGGATTAGGAATTTTCTTTTTAAGAGG
281192 TGGGGGATTAGGAATTTTCTTTTTAAGAGG
1 TGGGGGATTAGGAATTTTCTTTTTAAGAGG
*
281222 TGGGGGATTAGGAATTTTCCTTTTAAGAGG
1 TGGGGGATTAGGAATTTTCTTTTTAAGAGG
* *
281252 TGGGGGATTAGGAATTTTCTTTTGAATAGG
1 TGGGGGATTAGGAATTTTCTTTTTAAGAGG
* * * *
281282 AGGGGGATTAGGAATTTTGTTTTGAATAGG
1 TGGGGGATTAGGAATTTTCTTTTTAAGAGG
281312 TGGGGGATTAGGAATT
1 TGGGGGATTAGGAATT
281328 GATTTAGAAG
Statistics
Matches: 156, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 156 1.00
ACGTcount: A:0.23, C:0.03, G:0.35, T:0.39
Consensus pattern (30 bp):
TGGGGGATTAGGAATTTTCTTTTTAAGAGG
Found at i:281671 original size:90 final size:90
Alignment explanation
Indices: 281518--281697 Score: 360
Period size: 90 Copynumber: 2.0 Consensus size: 90
281508 GACCAACAGG
281518 CCAAATATGTCATACTCTTATTATTTGGCTTAGGATTTCTGTTTCATTTTTAGGGAGGAGAAATC
1 CCAAATATGTCATACTCTTATTATTTGGCTTAGGATTTCTGTTTCATTTTTAGGGAGGAGAAATC
281583 AGCTTATTCCTTTCTTTGTGGAAAA
66 AGCTTATTCCTTTCTTTGTGGAAAA
281608 CCAAATATGTCATACTCTTATTATTTGGCTTAGGATTTCTGTTTCATTTTTAGGGAGGAGAAATC
1 CCAAATATGTCATACTCTTATTATTTGGCTTAGGATTTCTGTTTCATTTTTAGGGAGGAGAAATC
281673 AGCTTATTCCTTTCTTTGTGGAAAA
66 AGCTTATTCCTTTCTTTGTGGAAAA
281698 TTTAATTAAT
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 90 1.00
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.42
Consensus pattern (90 bp):
CCAAATATGTCATACTCTTATTATTTGGCTTAGGATTTCTGTTTCATTTTTAGGGAGGAGAAATC
AGCTTATTCCTTTCTTTGTGGAAAA
Found at i:281799 original size:66 final size:65
Alignment explanation
Indices: 281693--281824 Score: 228
Period size: 66 Copynumber: 2.0 Consensus size: 65
281683 TTTCTTTGTG
* * *
281693 GAAAATTTAATTAATAGAAGCAAGAGGAGTGGCCAGCATTTCATATATTGCATTATCATTTGTGT
1 GAAAATTTAATTAATAGAAGCAAAAAGAGTGGCCAGCATTTCATATA-TGCACTATCATTTGTGT
281758 T
65 T
281759 GAAAATTTAATTAATAGAAGCAAAAAGAGTGGCCAGCATTTCATATATGCACTATCATTTGTGTT
1 GAAAATTTAATTAATAGAAGCAAAAAGAGTGGCCAGCATTTCATATATGCACTATCATTTGTGTT
281824 G
1 G
281825 GGGCCATATT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
65 18 0.29
66 45 0.71
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.33
Consensus pattern (65 bp):
GAAAATTTAATTAATAGAAGCAAAAAGAGTGGCCAGCATTTCATATATGCACTATCATTTGTGTT
Found at i:282501 original size:29 final size:31
Alignment explanation
Indices: 282468--282526 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 31
282458 TCTCTCCTAT
* * *
282468 TTTACTTATTGTACTT-TTAATT-TTTCTAA
1 TTTACTCATTGAACTTATGAATTATTTCTAA
282497 TTTACTCATTGAACTTATGAATTATTTCTA
1 TTTACTCATTGAACTTATGAATTATTTCTA
282527 TTTTGTTCAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 14 0.56
30 5 0.20
31 6 0.24
ACGTcount: A:0.27, C:0.12, G:0.05, T:0.56
Consensus pattern (31 bp):
TTTACTCATTGAACTTATGAATTATTTCTAA
Found at i:282604 original size:16 final size:17
Alignment explanation
Indices: 282583--282616 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
282573 ATTTTTTATT
*
282583 ATTTAATATA-AAAATA
1 ATTTAAAATATAAAATA
282599 ATTTAAAATATAAAATA
1 ATTTAAAATATAAAATA
282616 A
1 A
282617 AAATATAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
ATTTAAAATATAAAATA
Found at i:283001 original size:3 final size:3
Alignment explanation
Indices: 282990--283080 Score: 148
Period size: 3 Copynumber: 30.3 Consensus size: 3
282980 GATGATGATG
* *
282990 ATA ATTA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATG ATG
1 ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
283036 ATA ATA ATA ATA ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
283081 AATGTCTTGC
Statistics
Matches: 84, Mismatches: 2, Indels: 4
0.93 0.02 0.04
Matches are distributed among these distances:
2 2 0.02
3 79 0.94
4 3 0.04
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:285784 original size:200 final size:204
Alignment explanation
Indices: 285395--285798 Score: 771
Period size: 200 Copynumber: 2.0 Consensus size: 204
285385 TGACCGACCA
285395 AATATTTTTTTTTAATTTTTTTTCAGGCAAAACAAAAGTTCTGATCACGTCTTCTTCACTGTAAC
1 AATATTTTTTTTTAATTTTTTTTCAGGCAAAACAAAAGTTCTGATCACGTCTTCTTCACTGTAAC
285460 TCACAGTTGTTCTGATAAGTGCTGCTTTCATTTTGGCCCAGCAGATCATATTTCTTTCCTAATCC
66 TCACAGTTGTTCTGATAAGTGCTGCTTTCATTTTGGCCCA-CAGATCATATTTCTTTCCTAATCC
285525 TTCCTCTATGGTTTCAACACCACAGGGAAGGAAATGAAAGGAAATCCATGCACTGCTCCCTCTTA
130 TTCCTCTATGGTTTCAACACCACAGGGAAGGAAATGAAAGGAAATCCATGCACTGCTCCCTCTTA
285590 AAAACTATGC
195 AAAACTATGC
285600 AATATTTTTTTTTAA-TTTTTTTCAGGCAAAACAAAAGTTCTGATCACGTCTTCTTCACTGTAAC
1 AATATTTTTTTTTAATTTTTTTTCAGGCAAAACAAAAGTTCTGATCACGTCTTCTTCACTGTAAC
285664 TCACAGTTGTTCTGATAAGTGCTGC-TTCATTTTGG-CC-CAGATCATATTTCTTTCCTAATCCT
66 TCACAGTTGTTCTGATAAGTGCTGCTTTCATTTTGGCCCACAGATCATATTTCTTTCCTAATCCT
285726 TCCTCTATGGTTTCAACACCACAGGGAAGGAAATGAAAGGAAATCCATGCACTGCTCCCTCTTAA
131 TCCTCTATGGTTTCAACACCACAGGGAAGGAAATGAAAGGAAATCCATGCACTGCTCCCTCTTAA
285791 AAACTATG
196 AAACTATG
285799 TTAATATGAT
Statistics
Matches: 199, Mismatches: 0, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
200 98 0.49
202 2 0.01
203 10 0.05
204 74 0.37
205 15 0.08
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (204 bp):
AATATTTTTTTTTAATTTTTTTTCAGGCAAAACAAAAGTTCTGATCACGTCTTCTTCACTGTAAC
TCACAGTTGTTCTGATAAGTGCTGCTTTCATTTTGGCCCACAGATCATATTTCTTTCCTAATCCT
TCCTCTATGGTTTCAACACCACAGGGAAGGAAATGAAAGGAAATCCATGCACTGCTCCCTCTTAA
AAACTATGC
Found at i:287350 original size:3 final size:3
Alignment explanation
Indices: 287342--287407 Score: 125
Period size: 3 Copynumber: 22.3 Consensus size: 3
287332 GGGTGATGAC
287342 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -TT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
287389 ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT A
287408 AATCATATTA
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 60 0.97
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:288908 original size:14 final size:14
Alignment explanation
Indices: 288889--288915 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
288879 ATCTTAAAAA
288889 ATAAAGTTGAATTG
1 ATAAAGTTGAATTG
288903 ATAAAGTTGAATT
1 ATAAAGTTGAATT
288916 TTTAGTTTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.19, T:0.37
Consensus pattern (14 bp):
ATAAAGTTGAATTG
Found at i:297577 original size:18 final size:18
Alignment explanation
Indices: 297554--297590 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
297544 TTCCTTAGAT
297554 CCATAAAGGTAAGAGAGG
1 CCATAAAGGTAAGAGAGG
297572 CCATAAAGGTAAGAGAGG
1 CCATAAAGGTAAGAGAGG
297590 C
1 C
297591 ATTAGTTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.43, C:0.14, G:0.32, T:0.11
Consensus pattern (18 bp):
CCATAAAGGTAAGAGAGG
Found at i:299075 original size:39 final size:39
Alignment explanation
Indices: 299032--299655 Score: 348
Period size: 39 Copynumber: 16.1 Consensus size: 39
299022 AAAAGAAAAG
* * *
299032 AAATAGGTGTTTCAATGAAAACATGTCTCAAGGGTGACC
1 AAATATGTGTTTCAATGAAAACATGTCTCAAGGGAGACA
* * * * *
299071 AAATATTTGTTTCAAGGGAAACATATCTCAAGGGAAACA
1 AAATATGTGTTTCAATGAAAACATGTCTCAAGGGAGACA
* * * *
299110 AAATCTATGTTTCAAGTG-AAACAAGTCTCAAGGGAGATA
1 AAATATGTGTTTCAA-TGAAAACATGTCTCAAGGGAGACA
* * * * * *
299149 AAATTTGTGTTTTAATGAAAACATGTCTTATGGAAGATA
1 AAATATGTGTTTCAATGAAAACATGTCTCAAGGGAGACA
* * *
299188 AAATATGTTTTTTAAATG-AAACAAGTCTCAAGGGAGACA
1 AAATATG-TGTTTCAATGAAAACATGTCTCAAGGGAGACA
* * * * * * *
299227 AAATATTTGCTTT-AAGGGAAACAAGCCTCAAGAGAGATA
1 AAATATGTG-TTTCAATGAAAACATGTCTCAAGGGAGACA
* * * * * *
299266 AACTTTATGTTTCAAGGGAAACAAGTCTTC-AGGGAGACA
1 AAATATGTGTTTCAATGAAAACATGTC-TCAAGGGAGACA
** * * *
299305 AAATCCGTGTTTCAAGGGAAACATGTCTCAAGGGAGATA
1 AAATATGTGTTTCAATGAAAACATGTCTCAAGGGAGACA
* * * * *
299344 AAATATGTGTTTTAAAGGAAATAGGTCTCAAGGGAGACA
1 AAATATGTGTTTCAATGAAAACATGTCTCAAGGGAGACA
* * * * * * * *
299383 AAATTTGTGTTTTAAGGGAAACAAGTCTTAATGGAGACC
1 AAATATGTGTTTCAATGAAAACATGTCTCAAGGGAGACA
* * * *
299422 AAATCTGTATTTCAAGGAAAATA-GTCTCAAGGGAGACA
1 AAATATGTGTTTCAATGAAAACATGTCTCAAGGGAGACA
** * * * *
299460 AAATCGGTGTTTCAAGGGAAACATGTCTTAAGGGATACA
1 AAATATGTGTTTCAATGAAAACATGTCTCAAGGGAGACA
* ** * *
299499 AAATCTGTGTTTCAA-GGGAATATGTCT-TAGGGAGACA
1 AAATATGTGTTTCAATGAAAACATGTCTCAAGGGAGACA
* * * * * * *
299536 AAATCA-ATGTTTCAAGGGAAATAAGTCTCGAGGGAGATA
1 AAAT-ATGTGTTTCAATGAAAACATGTCTCAAGGGAGACA
* * * * ** * * * *
299575 AAATATATATTTTAAGGGTAACATATCTCAAAGAATACA
1 AAATATGTGTTTCAATGAAAACATGTCTCAAGGGAGACA
* * * *
299614 AAATCT-TATTTCAAGGGAAACATGTCTCAAGGGAGACA
1 AAATATGTGTTTCAATGAAAACATGTCTCAAGGGAGACA
299652 AAAT
1 AAAT
299656 CAATGTTTCA
Statistics
Matches: 467, Mismatches: 105, Indels: 27
0.78 0.18 0.05
Matches are distributed among these distances:
37 20 0.04
38 93 0.20
39 343 0.73
40 11 0.02
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.27
Consensus pattern (39 bp):
AAATATGTGTTTCAATGAAAACATGTCTCAAGGGAGACA
Found at i:299138 original size:78 final size:77
Alignment explanation
Indices: 299039--299668 Score: 438
Period size: 78 Copynumber: 8.1 Consensus size: 77
299029 AAGAAATAGG
* * * *
299039 TGTTTCAATGAAAACATGTCTCAAGGGTGACCAAATATTTGTTTCAAGGGAAACATATCTCAAGG
1 TGTTTCAA-GGAAACAAGTCTCAAGGGAGACAAAATATTTGTTTCAAGGGAAACATATCTCAAGG
*
299104 GAAACAAAATCTA
65 GAGACAAAATCTA
* * * * * * *
299117 TGTTTCAAGTGAAACAAGTCTCAAGGGAGATAAAAT-TTGTGTTTTAATGAAAACATGTCTTATG
1 TGTTTCAAG-GAAACAAGTCTCAAGGGAGACAAAATATT-TGTTTCAAGGGAAACATATCTCAAG
* * * *
299181 GAAGATAAAATATGT
64 GGAGACAAAATCT-A
* * * *
299196 TTTTTAAATGAAACAAGTCTCAAGGGAGACAAAATATTTGCTTT-AAGGGAAACA-AGCCTCAAG
1 TGTTTCAAGGAAACAAGTCTCAAGGGAGACAAAATATTTG-TTTCAAGGGAAACATA-TCTCAAG
* * * *
299259 AGAGATAAACTTTA
64 GGAGACAAAATCTA
*** *
299273 TGTTTCAAGGGAAACAAGTCTTC-AGGGAGACAAAATCCGTGTTTCAAGGGAAACATGTCTCAAG
1 TGTTTCAA-GGAAACAAGTC-TCAAGGGAGACAAAATATTTGTTTCAAGGGAAACATATCTCAAG
* * *
299337 GGAGATAAAATATG
64 GGAGACAAAATCTA
* * * * *
299351 TGTTTTAAAGGAAATAGGTCTCAAGGGAGACAAAAT-TTGTGTTTTAAGGGAAACA-AGTCTTAA
1 TG-TTTCAAGGAAACAAGTCTCAAGGGAGACAAAATATT-TGTTTCAAGGGAAACATA-TCTCAA
* * *
299414 TGGAGACCAAATCTG
63 GGGAGACAAAATCTA
* *** * *
299429 TATTTCAAGGAAA-ATAGTCTCAAGGGAGACAAAATCGGTGTTTCAAGGGAAACATGTCTTAAGG
1 TGTTTCAAGGAAACA-AGTCTCAAGGGAGACAAAATATTTGTTTCAAGGGAAACATATCTCAAGG
* *
299493 GATACAAAATCTG
65 GAGACAAAATCTA
* * * * * * *
299506 TGTTTCAAGGGAATATGTCT-TAGGGAGACAAAATCA-ATGTTTCAAGGGAAATA-AGTCTCGAG
1 TGTTTCAAGGAAACAAGTCTCAAGGGAGACAAAAT-ATTTGTTTCAAGGGAAACATA-TCTCAAG
* *
299568 GGAGATAAAATATA
64 GGAGACAAAATCTA
* * * * * * * * *
299582 TATTTTAAGGGTAACATA-TCTCAAAGAATACAAAAT-CTTATTTCAAGGGAAACATGTCTCAAG
1 TGTTTCAA-GGAAACA-AGTCTCAAGGGAGACAAAATATTTGTTTCAAGGGAAACATATCTCAAG
*
299645 GGAGACAAAATCAA
64 GGAGACAAAATCTA
299659 TGTTTCAAGG
1 TGTTTCAAGG
299669 GAGACAAAAT
Statistics
Matches: 429, Mismatches: 98, Indels: 52
0.74 0.17 0.09
Matches are distributed among these distances:
76 52 0.12
77 136 0.32
78 223 0.52
79 18 0.04
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.27
Consensus pattern (77 bp):
TGTTTCAAGGAAACAAGTCTCAAGGGAGACAAAATATTTGTTTCAAGGGAAACATATCTCAAGGG
AGACAAAATCTA
Found at i:299166 original size:117 final size:119
Alignment explanation
Indices: 299038--299670 Score: 492
Period size: 117 Copynumber: 5.4 Consensus size: 119
299028 AAAGAAATAG
* * * * *
299038 GTGTTTCAATGAAAACATGTCTCAAGGGTGACCAAATATTTGTTTCAAGGGAAACATA-TCTCAA
1 GTGTTTCAAGGAAAACAAGTCTCAAGGGAGACAAAATATGTGTTTCAAGGGAAACATAGTCTCAA
* * * * *
299102 GGGAAACAAAATCTATG-TTTCAAGTGAAACAAGTCTCAAGGGAGATAAAATTT
66 GGGAGACAAAATATGTGCTTTCAAGGGAAACAAGTCTCAAGGGAGACAAAATTT
* * * * * * * * * **
299155 GTGTTTTAATGAAAACATGTCTTATGGAAGATAAAATATGTTTTTTAAATGAAACA-AGTCTCAA
1 GTGTTTCAAGGAAAACAAGTCTCAAGGGAGACAAAATATGTGTTTCAAGGGAAACATAGTCTCAA
* * * * *
299219 GGGAGACAAAATATTTGCTTT-AAGGGAAACAAGCCTCAAGAGAGATAAACTTT
66 GGGAGACAAAATATGTGCTTTCAAGGGAAACAAGTCTCAAGGGAGACAAAATTT
* * **
299272 ATGTTTCAAGGGAAACAAGTCTTC-AGGGAGACAAAATCCGTGTTTCAAGGGAAACAT-GTCTCA
1 GTGTTTCAAGGAAAACAAGTC-TCAAGGGAGACAAAATATGTGTTTCAAGGGAAACATAGTCTCA
* * * * *
299335 AGGGAGATAAAATATGTG-TTTTAAAGGAAATAGGTCTCAAGGGAGACAAAATTT
65 AGGGAGACAAAATATGTGCTTTCAAGGGAAACAAGTCTCAAGGGAGACAAAATTT
* * * * * * *
299389 GTGTTTTAAGGGAAACAAGTCTTAATGGAGACCAAATCTGTATTTCAA-GGAAA-ATAGTCTCAA
1 GTGTTTCAAGGAAAACAAGTCTCAAGGGAGACAAAATATGTGTTTCAAGGGAAACATAGTCTCAA
** * * * *
299452 GGGAGACAAAATCGGTG-TTTCAAGGGAAACATGTCTTAAGGGATACAAAATCT
66 GGGAGACAAAATATGTGCTTTCAAGGGAAACAAGTCTCAAGGGAGACAAAATTT
* * * * * * *
299505 GTGTTTCAAGG-GAATATGTCT-TAGGGAGACAAAATCA-ATGTTTCAAGGGAAATA-AGTCTCG
1 GTGTTTCAAGGAAAACAAGTCTCAAGGGAGACAAAAT-ATGTGTTTCAAGGGAAACATAGTCTCA
* * * * * * * * *
299566 AGGGAGATAAAATATAT-ATTTTAAGGGTAACATA-TCTCAAAGAATACAAAATCT
65 AGGGAGACAAAATATGTGCTTTCAAGGGAAACA-AGTCTCAAGGGAGACAAAATTT
* * * *
299620 -TATTTCAAGGGAAACATGTCTCAAGGGAGACAAAATCA-ATGTTTCAAGGGA
1 GTGTTTCAAGGAAAACAAGTCTCAAGGGAGACAAAAT-ATGTGTTTCAAGGGA
299671 GACAAAATCT
Statistics
Matches: 417, Mismatches: 85, Indels: 29
0.79 0.16 0.05
Matches are distributed among these distances:
114 27 0.06
115 70 0.17
116 99 0.24
117 217 0.52
118 4 0.01
ACGTcount: A:0.39, C:0.12, G:0.22, T:0.27
Consensus pattern (119 bp):
GTGTTTCAAGGAAAACAAGTCTCAAGGGAGACAAAATATGTGTTTCAAGGGAAACATAGTCTCAA
GGGAGACAAAATATGTGCTTTCAAGGGAAACAAGTCTCAAGGGAGACAAAATTT
Found at i:299666 original size:23 final size:23
Alignment explanation
Indices: 299635--299693 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
299625 CAAGGGAAAC
*
299635 ATGTCTCAAGGGAGACAAAATCA
1 ATGTTTCAAGGGAGACAAAATCA
*
299658 ATGTTTCAAGGGAGACAAAATCT
1 ATGTTTCAAGGGAGACAAAATCA
* *
299681 TTGTTTAAAGGGA
1 ATGTTTCAAGGGA
299694 AACGAGTCTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.25
Consensus pattern (23 bp):
ATGTTTCAAGGGAGACAAAATCA
Found at i:299716 original size:61 final size:60
Alignment explanation
Indices: 299611--299730 Score: 145
Period size: 62 Copynumber: 2.0 Consensus size: 60
299601 CTCAAAGAAT
* *
299611 ACAAAATCTTATTTCAAGGGAAACATGTCTCAAGGGAGACAAAATCAATGTTTCAAGGGAG
1 ACAAAATCTTATTTAAAGGGAAACATGTCTCAACGGAGACAAAATCAATGTTTC-AGGGAG
* * **
299672 ACAAAATCTTTGTTTAAAGGGAAACGA-GTCTTAACGGAGA-AAAATGTATGTTTCAGGGA
1 ACAAAATC-TTATTTAAAGGGAAAC-ATGTCTCAACGGAGACAAAATCAATGTTTCAGGGA
299731 AACGAGTCTT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
60 5 0.10
61 20 0.39
62 25 0.49
63 1 0.02
ACGTcount: A:0.40, C:0.12, G:0.23, T:0.25
Consensus pattern (60 bp):
ACAAAATCTTATTTAAAGGGAAACATGTCTCAACGGAGACAAAATCAATGTTTCAGGGAG
Found at i:299724 original size:38 final size:38
Alignment explanation
Indices: 299668--299769 Score: 120
Period size: 37 Copynumber: 2.7 Consensus size: 38
299658 ATGTTTCAAG
*
299668 GGAGACAAAATCTTTGTTTAAAGGGAAACGAGTCTTAAC
1 GGAGACAAAATCTATGTTT-AAGGGAAACGAGTCTTAAC
* *
299707 GGAGA-AAAATGTATGTTTCAGGGAAACGAGTCTTAA-
1 GGAGACAAAATCTATGTTTAAGGGAAACGAGTCTTAAC
299743 GGAAGACAAAATCT-TGGTTTCAAGGGA
1 GG-AGACAAAATCTAT-GTTT-AAGGGA
299770 GACAAAATAT
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
36 2 0.04
37 21 0.39
38 21 0.39
39 10 0.19
ACGTcount: A:0.38, C:0.11, G:0.26, T:0.25
Consensus pattern (38 bp):
GGAGACAAAATCTATGTTTAAGGGAAACGAGTCTTAAC
Found at i:299750 original size:99 final size:100
Alignment explanation
Indices: 299622--299875 Score: 275
Period size: 99 Copynumber: 2.5 Consensus size: 100
299612 CAAAATCTTA
* * * *
299622 TTTCAAGGGAAACATGTCTCAAGGGAGACAAAATCAAT-GTTTCAAGGGAGACAAAATCTTTGTT
1 TTTCAAGGGAAACATGTCTCAAGGAAGACAAAATC-ATGGTTTCAAGGGAGACAAAATATGTATT
299686 TAAAGGGAAACGAGTCTTAACGGAGAAAAATGTATG
65 TAAAGGGAAACGAGTCTTAACGGAGAAAAATGTATG
* *
299722 TTTC-AGGGAAACGA-GTCTTAAGGAAGACAAAATCTTGGTTTCAAGGGAGACAAAATATGTATT
1 TTTCAAGGGAAAC-ATGTCTCAAGGAAGACAAAATCATGGTTTCAAGGGAGACAAAATATGTATT
* * * * * * *
299785 TCAAGGGAAATGAGTCTTAAAGAAGACAAAATCTTTA
65 TAAAGGGAAACGAGTCTTAACGGAGA-AAAATGTATG
* * * *
299822 TTTGAAGGG-AACAAGTCTCAAGGGAGACTAAAAT-ATGTGTTTCAAGGGAAACAA
1 TTTCAAGGGAAACATGTCTCAAGGAAGAC-AAAATCATG-GTTTCAAGGGAGACAA
299876 GCCTTAAAGG
Statistics
Matches: 129, Mismatches: 18, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
98 1 0.01
99 72 0.56
100 32 0.25
101 24 0.19
ACGTcount: A:0.41, C:0.11, G:0.24, T:0.24
Consensus pattern (100 bp):
TTTCAAGGGAAACATGTCTCAAGGAAGACAAAATCATGGTTTCAAGGGAGACAAAATATGTATTT
AAAGGGAAACGAGTCTTAACGGAGAAAAATGTATG
Found at i:299855 original size:39 final size:38
Alignment explanation
Indices: 299762--299872 Score: 125
Period size: 39 Copynumber: 2.9 Consensus size: 38
299752 AATCTTGGTT
299762 TCAAGGGAGACAAAATATGTATTTCAAGGGAAATGAGTC
1 TCAAGGGAGACAAAATATGTATTTCAAGGGAAA-GAGTC
* * * * * *
299801 TTAAAGAAGACAAAATCTTTATTTGAAGGGAACA-AGTC
1 TCAAGGGAGACAAAATATGTATTTCAAGGGAA-AGAGTC
*
299839 TCAAGGGAGACTAAAATATGTGTTTCAAGGGAAA
1 TCAAGGGAGAC-AAAATATGTATTTCAAGGGAAA
299873 CAAGCCTTAA
Statistics
Matches: 57, Mismatches: 13, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
38 13 0.23
39 43 0.75
40 1 0.02
ACGTcount: A:0.42, C:0.10, G:0.23, T:0.24
Consensus pattern (38 bp):
TCAAGGGAGACAAAATATGTATTTCAAGGGAAAGAGTC
Found at i:301417 original size:13 final size:13
Alignment explanation
Indices: 301396--301435 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
301386 CATGTTCTTT
*
301396 TCATGTTTCCTTA
1 TCATTTTTCCTTA
*
301409 TCATTTTTCCTTC
1 TCATTTTTCCTTA
*
301422 TCATTTTTCTTTA
1 TCATTTTTCCTTA
301435 T
1 T
301436 TTTCTTTTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.12, C:0.23, G:0.03, T:0.62
Consensus pattern (13 bp):
TCATTTTTCCTTA
Found at i:303914 original size:46 final size:47
Alignment explanation
Indices: 303836--303927 Score: 127
Period size: 46 Copynumber: 2.0 Consensus size: 47
303826 ATAATAAACA
303836 TTTCATATTCTTTTCATTCGTACAAATTTCATAACTTTCAT-TTTAT
1 TTTCATATTCTTTTCATTCGTACAAATTTCATAACTTTCATATTTAT
* *
303882 TTTCATATTCTTTTC-TT-TTAGATAATTGTCATAACTTTCATATTTA
1 TTTCATATTCTTTTCATTCGTACA-AATT-TCATAACTTTCATATTTA
303928 CTTCCATAGC
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
44 3 0.07
45 6 0.15
46 28 0.68
47 4 0.10
ACGTcount: A:0.26, C:0.15, G:0.03, T:0.55
Consensus pattern (47 bp):
TTTCATATTCTTTTCATTCGTACAAATTTCATAACTTTCATATTTAT
Found at i:304938 original size:23 final size:23
Alignment explanation
Indices: 304903--304957 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
304893 TTCTTCTTAG
*
304903 AATTCATATCAACCTTTCCATTT
1 AATTCATAACAACCTTTCCATTT
* *
304926 AATTGATAACAACCTTTCCGTTT
1 AATTCATAACAACCTTTCCATTT
304949 AATTCATAA
1 AATTCATAA
304958 TGATCCTTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.35, C:0.22, G:0.04, T:0.40
Consensus pattern (23 bp):
AATTCATAACAACCTTTCCATTT
Found at i:307475 original size:2 final size:2
Alignment explanation
Indices: 307468--307493 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
307458 TCAATCTTTG
307468 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
307494 CAACATTCTT
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:310779 original size:18 final size:17
Alignment explanation
Indices: 310743--310785 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
310733 TGCAATAATA
310743 ATAAA-TCACACCAAAC
1 ATAAATTCACACCAAAC
**
310759 ATAAAGTTCACACCATCC
1 ATAAA-TTCACACCAAAC
310777 ATAAATTCA
1 ATAAATTCA
310786 AACATTCCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 5 0.22
17 4 0.17
18 14 0.61
ACGTcount: A:0.49, C:0.28, G:0.02, T:0.21
Consensus pattern (17 bp):
ATAAATTCACACCAAAC
Found at i:313656 original size:246 final size:246
Alignment explanation
Indices: 313224--313716 Score: 954
Period size: 246 Copynumber: 2.0 Consensus size: 246
313214 AGTTCTAGAG
313224 TTTGGATGGGATTTTTAGTGAGACAAATACACTAGTATGTCACACTTGATAGGATGATACCTACT
1 TTTGGATGGGATTTTTAGTGAGACAAATACACTAGTATGTCACACTTGATAGGATGATACCTACT
313289 TCAATTCCATAATCAAAAAGTTGTTGTTTCATCCATAAAACTTGTGCACAACAACTACCGGCTGA
66 TCAATTCCATAATCAAAAAGTTGTTGTTTCATCCATAAAACTTGTGCACAACAACTACCGGCTGA
313354 AATGTATTCCGCTTCAGTGGTAGATAATACAACACAATTTTGCTTCTTTGAAAACC-AGAAATCA
131 AATGTATTCCGCTTCAGTGGTAGATAATACAACACAATTTTGCTTCTTTGAAAACCAAGAAATCA
313418 GCATATTTCCAAGGAATTGACAAGTACCGGAGGTGCTTTT-CTATCTAATT
196 GCATATTTCCAAGGAATTGACAAGTACCGGAGGTGCTTTTCCTATCTAATT
313468 TTTGGATGGGATTTTTAGTGAGACAAATACACTAGTATTGTCACACTTGATAGGAATGATACCTA
1 TTTGGATGGGATTTTTAGTGAGACAAATACACTAGTA-TGTCACACTTGATAGG-ATGATACCTA
313533 CTTCAATTCCATAATCAAAAAGTTGTTGTTTCATCCATAAAACTTGTGCACAACAACTACCGGCT
64 CTTCAATTCCATAATCAAAAAGTTGTTGTTTCATCCATAAAACTTGTGCACAACAACTACCGGCT
313598 GAAATGTATTCCGCTTCAGTGGTAGATAATACAACACAATTTTGCTTCTTTGAAAACCAAGAAAT
129 GAAATGTATTCCGCTTCAGTGGTAGATAATACAACACAATTTTGCTTCTTTGAAAACCAAGAAAT
313663 CAGCATATTTCCAAGGAATTGACAAGTACCGGAGGTGCTTTTCCTATCTAATT
194 CAGCATATTTCCAAGGAATTGACAAGTACCGGAGGTGCTTTTCCTATCTAATT
313716 T
1 T
313717 GCATCCTCCA
Statistics
Matches: 245, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
244 37 0.15
245 16 0.07
246 133 0.54
247 48 0.20
248 11 0.04
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (246 bp):
TTTGGATGGGATTTTTAGTGAGACAAATACACTAGTATGTCACACTTGATAGGATGATACCTACT
TCAATTCCATAATCAAAAAGTTGTTGTTTCATCCATAAAACTTGTGCACAACAACTACCGGCTGA
AATGTATTCCGCTTCAGTGGTAGATAATACAACACAATTTTGCTTCTTTGAAAACCAAGAAATCA
GCATATTTCCAAGGAATTGACAAGTACCGGAGGTGCTTTTCCTATCTAATT
Found at i:321099 original size:10 final size:10
Alignment explanation
Indices: 321084--321108 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
321074 AATATACCAT
321084 AACTTTACTC
1 AACTTTACTC
321094 AACTTTACTC
1 AACTTTACTC
321104 AACTT
1 AACTT
321109 CCTGGAATGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.28, G:0.00, T:0.40
Consensus pattern (10 bp):
AACTTTACTC
Found at i:324365 original size:20 final size:20
Alignment explanation
Indices: 324329--324370 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
324319 ACTTGGGGAG
* *
324329 GAAAGATGAAGAAGAAATAA
1 GAAAGAAGAAGAAGAAAGAA
324349 GAAAGAAGAA-AATGAAAGAA
1 GAAAGAAGAAGAA-GAAAGAA
324369 GA
1 GA
324371 TAAAAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.67, C:0.00, G:0.26, T:0.07
Consensus pattern (20 bp):
GAAAGAAGAAGAAGAAAGAA
Found at i:324367 original size:13 final size:14
Alignment explanation
Indices: 324337--324370 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
324327 AGGAAAGATG
324337 AAGAAGAAATAAGA
1 AAGAAGAAATAAGA
*
324351 AAGAAGAAA-ATGA
1 AAGAAGAAATAAGA
324364 AAGAAGA
1 AAGAAGA
324371 TAAAAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.71, C:0.00, G:0.24, T:0.06
Consensus pattern (14 bp):
AAGAAGAAATAAGA
Found at i:327103 original size:17 final size:17
Alignment explanation
Indices: 327081--327120 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
327071 TTCTTCATCT
327081 TCTCCACCATTTTATTC
1 TCTCCACCATTTTATTC
327098 TCTCCACCATTTTATTC
1 TCTCCACCATTTTATTC
327115 TCTCCA
1 TCTCCA
327121 TTCTCTTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.17, C:0.38, G:0.00, T:0.45
Consensus pattern (17 bp):
TCTCCACCATTTTATTC
Found at i:340296 original size:22 final size:22
Alignment explanation
Indices: 340266--340320 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
340256 TCAGGAGTTA
* *
340266 CAGGAGTTATTTGATTTAATTC
1 CAGGAGTTATATGATATAATTC
* * *
340288 CAGGGGTTACATGATATAATTT
1 CAGGAGTTATATGATATAATTC
340310 CAGGAGTTATA
1 CAGGAGTTATA
340321 ACAGCTAAAT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.38
Consensus pattern (22 bp):
CAGGAGTTATATGATATAATTC
Found at i:345854 original size:6 final size:6
Alignment explanation
Indices: 345841--345886 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
345831 TCGGCACGGC
* * *
345841 TCGTGG TTGTGG TTGTGG TCGTGG TCGTGG TCGTGG TCATGG TCGT
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGT
345887 TCTCGTGGTA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.02, C:0.13, G:0.46, T:0.39
Consensus pattern (6 bp):
TCGTGG
Found at i:345892 original size:18 final size:18
Alignment explanation
Indices: 345855--345895 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
345845 GGTTGTGGTT
* *
345855 GTGGTCGTGGTCGTGGTC
1 GTGGTCATGGTCGTGCTC
*
345873 GTGGTCATGGTCGTTCTC
1 GTGGTCATGGTCGTGCTC
345891 GTGGT
1 GTGGT
345896 AATACGTGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.02, C:0.17, G:0.44, T:0.37
Consensus pattern (18 bp):
GTGGTCATGGTCGTGCTC
Found at i:346206 original size:22 final size:22
Alignment explanation
Indices: 346181--346222 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
346171 AAGAGTTATT
* *
346181 TGATTTAATTCCAGGGGTTACA
1 TGATATAATTCCAGGAGTTACA
*
346203 TGATATAATTTCAGGAGTTA
1 TGATATAATTCCAGGAGTTA
346223 TAACAATTGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (22 bp):
TGATATAATTCCAGGAGTTACA
Found at i:348283 original size:163 final size:163
Alignment explanation
Indices: 348013--348338 Score: 652
Period size: 163 Copynumber: 2.0 Consensus size: 163
348003 ACTCTATAGA
348013 TCAAATAATAGTCGGTCACACTTTCATGCTTGCTGTCTTATTTCCAGGTGGAATTTTGAGAGGTT
1 TCAAATAATAGTCGGTCACACTTTCATGCTTGCTGTCTTATTTCCAGGTGGAATTTTGAGAGGTT
348078 CCAGAAGGGAAAGGTTGTTAAGTAAATTTGTTGAGAATGAATGTGAGAAGATAGACCGTCTTATA
66 CCAGAAGGGAAAGGTTGTTAAGTAAATTTGTTGAGAATGAATGTGAGAAGATAGACCGTCTTATA
348143 GAGCTATATATAAGCTATTCGCTTATTTCACTT
131 GAGCTATATATAAGCTATTCGCTTATTTCACTT
348176 TCAAATAATAGTCGGTCACACTTTCATGCTTGCTGTCTTATTTCCAGGTGGAATTTTGAGAGGTT
1 TCAAATAATAGTCGGTCACACTTTCATGCTTGCTGTCTTATTTCCAGGTGGAATTTTGAGAGGTT
348241 CCAGAAGGGAAAGGTTGTTAAGTAAATTTGTTGAGAATGAATGTGAGAAGATAGACCGTCTTATA
66 CCAGAAGGGAAAGGTTGTTAAGTAAATTTGTTGAGAATGAATGTGAGAAGATAGACCGTCTTATA
348306 GAGCTATATATAAGCTATTCGCTTATTTCACTT
131 GAGCTATATATAAGCTATTCGCTTATTTCACTT
348339 GTTTTATTTC
Statistics
Matches: 163, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
163 163 1.00
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.35
Consensus pattern (163 bp):
TCAAATAATAGTCGGTCACACTTTCATGCTTGCTGTCTTATTTCCAGGTGGAATTTTGAGAGGTT
CCAGAAGGGAAAGGTTGTTAAGTAAATTTGTTGAGAATGAATGTGAGAAGATAGACCGTCTTATA
GAGCTATATATAAGCTATTCGCTTATTTCACTT
Found at i:350826 original size:952 final size:952
Alignment explanation
Indices: 348977--351816 Score: 5419
Period size: 952 Copynumber: 3.0 Consensus size: 952
348967 GCATTTTTGT
*
348977 AATTGTCAGGGTTATATATCTTACGCTTGTATTATACATACATTCCTTGACATAGATATGAAAGT
1 AATTATCAGGGTTATATATCTTACGCTTGTATTATACATACATTCCTTGACATAGATATGAAAGT
*
349042 TTTTTTGTATGCATATTGCTCCTCACTTTCTTGTTCAAATGCTGTTTTGTGTCTACATCTTCAGC
66 TTTTTTGTATGCATATTGCTCCTCACTTTCTTGTTCAAATGTTGTTTTGTGTCTACATCTTCAGC
349107 AATATAATTATTCTAGCACCTAGTGTGTGATTTGTGCCCATGAAAACACTGATTAGGCTATAATT
131 AATATAATTATTCTAGCACCTAGTGTGTGATTTGTGCCCATGAAAACACTGATTAGGCTATAATT
349172 GTCAGGTCATTCATGATTAAAATCTGGAAATATAATTTCTTAGAAAGGTCCTTCTGTATTCTAAG
196 GTCAGGTCATTCATGATTAAAATCTGGAAATATAATTTCTTAGAAAGGTCCTTCTGTATTCTAAG
349237 AGTAAGCAAATACAATGTGTTCATGGTTGAAGAATCAGCATAAATACTGCATGAAAAGCTGGGTG
261 AGTAAGCAAATACAATGTGTTCATGGTTGAAGAATCAGCATAAATACTGCATGAAAAGCTGGGTG
349302 GATGCAATGAGTTCATGTCTAGGGTTTATAATATTCATTTGAATGAAAATTCAGTTCTTCATCAG
326 GATGCAATGAGTTCATGTCTAGGGTTTATAATATTCATTTGAATGAAAATTCAGTTCTTCATCAG
349367 TCAACAATTATATTCTTAATCTTCAACTCTGAATTAATTATTTTTCATAATAGACATCATTTTAA
391 TCAACAATTATATTCTTAATCTTCAACTCTGAATTAATTATTTTTCATAATAGACATCATTTTAA
349432 ACAATGTAATATATGTTGTTATTAACCAATGTGTTTATTGGTTTTGACCTTATATTGTTTTGGAT
456 ACAATGTAATATATGTTGTTATTAACCAATGTGTTTATTGGTTTTGACCTTATATTGTTTTGGAT
349497 TTCAGTTGATTGCTGTTATTCTGGGTCATCTTTGGTGCGCACATTAAGTTTTCTTACCTTTCTCT
521 TTCAGTTGATTGCTGTTATTCTGGGTCATCTTTGGTGCGCACATTAAGTTTTCTTACCTTTCTCT
349562 TGTTCGTTTCTATTTAATAGTTGCTTGGTTTGTAGTCTTTGCTCTTTTTAAACTTTGTTAAACCA
586 TGTTCGTTTCTATTTAATAGTTGCTTGGTTTGTAGTCTTTGCTCTTTTTAAACTTTGTTAAACCA
349627 AGTTTATTGAATACTATGCAGACACCCTCAAATGAAGGCAATAATTGAATTACTACTTAAGCAGC
651 AGTTTATTGAATACTATGCAGACACCCTCAAATGAAGGCAATAATTGAATTACTACTTAAGCAGC
*
349692 AGAAGCTTACTAAAAAAGATATCAAGGATATACTTCAGGTATTTTCCCCCTTAAAAACTATATTC
716 AGAAGCTTACTAAAAAAGATGTCAAGGATATACTTCAGGTATTTTCCCCCTTAAAAACTATATTC
349757 AAGTTGTAAAATTTGTAGGAAAAATATTAGTTACATGTCAGCTTGTTGATAAACAAAATCGTTAA
781 AAGTTGTAAAATTTGTAGGAAAAATATTAGTTACATGTCAGCTTGTTGATAAACAAAATCGTTAA
349822 GGCTTTGCTTGGTGTGAAGAATAGAAAATTGTTAATCAAATGGTTCATAACTACTTTCTTCCTTT
846 GGCTTTGCTTGGTGTGAAGAATAGAAAATTGTTAATCAAATGGTTCATAACTACTTTCTTCCTTT
349887 GCAACTTAGCAATTAGATTAACAAATTGTTAATCAAATGTTG
911 GCAACTTAGCAATTAGATTAACAAATTGTTAATCAAATGTTG
349929 AATTATCAGGGTTATATATCTTACGCTTGTATTATACATACATTCCTTGACATAGATATGAAAGT
1 AATTATCAGGGTTATATATCTTACGCTTGTATTATACATACATTCCTTGACATAGATATGAAAGT
349994 TTTTTTGTATGCATATTGCTCCTCACTTTCTTGTTCAAATGTTGTTTTGTGTCTACATCTTCAGC
66 TTTTTTGTATGCATATTGCTCCTCACTTTCTTGTTCAAATGTTGTTTTGTGTCTACATCTTCAGC
*
350059 AATATAATTATTCTAGCACCTATTGTGTGATTTGTGCCCATGAAAACACTGATTAGGCTATAATT
131 AATATAATTATTCTAGCACCTAGTGTGTGATTTGTGCCCATGAAAACACTGATTAGGCTATAATT
* *
350124 GTCAGGTCATTCATGATTAAAATATGGAAATATAATTTCTTAGAAATGTCCTTCTGTATTCTAAG
196 GTCAGGTCATTCATGATTAAAATCTGGAAATATAATTTCTTAGAAAGGTCCTTCTGTATTCTAAG
350189 AGTAAGCAAATACAATGTGTTCATGGTTGAAGAATCAGCATAAATACTGCATGAAAAGCTGGGTG
261 AGTAAGCAAATACAATGTGTTCATGGTTGAAGAATCAGCATAAATACTGCATGAAAAGCTGGGTG
*
350254 GATGCAATGAGTTCATGTCTAGGGTTTATAATATTCATTTGAATGAAAATTCAGTTCTTAATCAG
326 GATGCAATGAGTTCATGTCTAGGGTTTATAATATTCATTTGAATGAAAATTCAGTTCTTCATCAG
350319 TCAACAATTATATTCTTAATCTTCAACTCTGAATTAATTATTTTTCATAATAGACATCATTTTAA
391 TCAACAATTATATTCTTAATCTTCAACTCTGAATTAATTATTTTTCATAATAGACATCATTTTAA
350384 ACAATGTAATATATGTTGTTATTAACCAATGTGTTTATTGGTTTTGACCTTATATTGTTTTGGAT
456 ACAATGTAATATATGTTGTTATTAACCAATGTGTTTATTGGTTTTGACCTTATATTGTTTTGGAT
350449 TTCAGTTGATTGCTGTTATTCTGGGTCATCTTTGGTGCGCACATTAAGTTTTCTTACCTTTCTCT
521 TTCAGTTGATTGCTGTTATTCTGGGTCATCTTTGGTGCGCACATTAAGTTTTCTTACCTTTCTCT
350514 TGTTCGTTTCTATTTAATAGTTGCTTGGTTTGTAGTCTTTGCTCTTTTTAAACTTTGTTAAACCA
586 TGTTCGTTTCTATTTAATAGTTGCTTGGTTTGTAGTCTTTGCTCTTTTTAAACTTTGTTAAACCA
350579 AGTTTATTGAATACTATGCAGACACCCTCAAATGAAGGCAATAATTGAATTACTACTTAAGCAGC
651 AGTTTATTGAATACTATGCAGACACCCTCAAATGAAGGCAATAATTGAATTACTACTTAAGCAGC
350644 AGAAGCTTACTAAAAAAGATGTCAAGGATATACTTCAGGTATTTTCCCCCTTAAAAACTATATTC
716 AGAAGCTTACTAAAAAAGATGTCAAGGATATACTTCAGGTATTTTCCCCCTTAAAAACTATATTC
350709 AAGTTGTAAAATTTGTAGGAAAAATATTAGTTACATGTCAGCTTGTTGATAAACAAAATCGTTAA
781 AAGTTGTAAAATTTGTAGGAAAAATATTAGTTACATGTCAGCTTGTTGATAAACAAAATCGTTAA
350774 GGCTTTGCTTGGTGTGAAGAATAGAAAATTGTTAATCAAATGGTTCATAACTACTTTCTTCCTTT
846 GGCTTTGCTTGGTGTGAAGAATAGAAAATTGTTAATCAAATGGTTCATAACTACTTTCTTCCTTT
350839 GCAACTTAGCAATTAGATTAACAAATTGTTAATCAAATGTTG
911 GCAACTTAGCAATTAGATTAACAAATTGTTAATCAAATGTTG
* *
350881 AATTATCAGGGTTATATATCTTACGCTTATATTATACATACATTCCTTGACATAGAAATGAAAGT
1 AATTATCAGGGTTATATATCTTACGCTTGTATTATACATACATTCCTTGACATAGATATGAAAGT
350946 TTTTTTGTATGCATATTGCTCCTCACTTTCTTGTTCAAATGTTGTTTTGTGTCTACATCTTCAGC
66 TTTTTTGTATGCATATTGCTCCTCACTTTCTTGTTCAAATGTTGTTTTGTGTCTACATCTTCAGC
351011 AATATAATTATTCTAGCACCTAGTGTGTGATTTGTGCCCATGAAAACACTGATTAGGCTATAATT
131 AATATAATTATTCTAGCACCTAGTGTGTGATTTGTGCCCATGAAAACACTGATTAGGCTATAATT
* *
351076 GTCAGGTCATTCATGATTAAAATCTGGAAATATAATTTCTTGGAAAGGTCCTTCTATATTCTAAG
196 GTCAGGTCATTCATGATTAAAATCTGGAAATATAATTTCTTAGAAAGGTCCTTCTGTATTCTAAG
* *
351141 AGTAAGCAAATACAATGTGTTCATGGTTGAAGAATCAACATAAATACTGCATGAAAAGTTGGGTG
261 AGTAAGCAAATACAATGTGTTCATGGTTGAAGAATCAGCATAAATACTGCATGAAAAGCTGGGTG
*
351206 GATGCAATGAGTTCATGTATAGGGTTTATAATATTCATTTGAATGAAAATTCAGTTCTTCATCAG
326 GATGCAATGAGTTCATGTCTAGGGTTTATAATATTCATTTGAATGAAAATTCAGTTCTTCATCAG
* *
351271 TCAACAATTATGTTCATAATCTTCAACTCTGAATTAATTATTTTTCATAATAGACATCATTTTAA
391 TCAACAATTATATTCTTAATCTTCAACTCTGAATTAATTATTTTTCATAATAGACATCATTTTAA
*
351336 ACAATGTAATATATGTTGTTATTAACCAATGTGTTTATTGGTTTTGACCTTATATTGTTTTAGAT
456 ACAATGTAATATATGTTGTTATTAACCAATGTGTTTATTGGTTTTGACCTTATATTGTTTTGGAT
* * * * *
351401 TGCAGTTGATTGCTGTTATTCTGGGTCATCTTTGGTGCTCACAGTAAGTTTTCTCACCTTTTTCT
521 TTCAGTTGATTGCTGTTATTCTGGGTCATCTTTGGTGCGCACATTAAGTTTTCTTACCTTTCTCT
* *
351466 TGTTCATTTTTATTTAATAGTTGCTTGGTTTGTAGTCTTTGCTCTTTTTAAACTTTGTTAAACCA
586 TGTTCGTTTCTATTTAATAGTTGCTTGGTTTGTAGTCTTTGCTCTTTTTAAACTTTGTTAAACCA
* * *
351531 AGTTTATTGAATGCTATGCAGACACCCTCAAATGAAGGCAAGAATTGAATTACTACTTGAGCAGC
651 AGTTTATTGAATACTATGCAGACACCCTCAAATGAAGGCAATAATTGAATTACTACTTAAGCAGC
351596 AGAAGCTTACTAAAAAAGATGTCAAGGATATACTTCAGGTATTTTCCCCCTTAAAAACTATATTC
716 AGAAGCTTACTAAAAAAGATGTCAAGGATATACTTCAGGTATTTTCCCCCTTAAAAACTATATTC
* *
351661 AAGTTGTAAAATTTGTAGGAAAAAAATTAGTTACATGCCAGCTTGTTGATAAACAAAATCGTTAA
781 AAGTTGTAAAATTTGTAGGAAAAATATTAGTTACATGTCAGCTTGTTGATAAACAAAATCGTTAA
351726 GGCTTTGCTTGGTGTGAAGAATAGAAAATTGTTAATCAAATGGTTCATAACTACTTTCTTCCTTT
846 GGCTTTGCTTGGTGTGAAGAATAGAAAATTGTTAATCAAATGGTTCATAACTACTTTCTTCCTTT
351791 GCAACTTAGCAATTAGATTAACAAAT
911 GCAACTTAGCAATTAGATTAACAAAT
351817 GAATTCTTGT
Statistics
Matches: 1855, Mismatches: 33, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
952 1855 1.00
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.39
Consensus pattern (952 bp):
AATTATCAGGGTTATATATCTTACGCTTGTATTATACATACATTCCTTGACATAGATATGAAAGT
TTTTTTGTATGCATATTGCTCCTCACTTTCTTGTTCAAATGTTGTTTTGTGTCTACATCTTCAGC
AATATAATTATTCTAGCACCTAGTGTGTGATTTGTGCCCATGAAAACACTGATTAGGCTATAATT
GTCAGGTCATTCATGATTAAAATCTGGAAATATAATTTCTTAGAAAGGTCCTTCTGTATTCTAAG
AGTAAGCAAATACAATGTGTTCATGGTTGAAGAATCAGCATAAATACTGCATGAAAAGCTGGGTG
GATGCAATGAGTTCATGTCTAGGGTTTATAATATTCATTTGAATGAAAATTCAGTTCTTCATCAG
TCAACAATTATATTCTTAATCTTCAACTCTGAATTAATTATTTTTCATAATAGACATCATTTTAA
ACAATGTAATATATGTTGTTATTAACCAATGTGTTTATTGGTTTTGACCTTATATTGTTTTGGAT
TTCAGTTGATTGCTGTTATTCTGGGTCATCTTTGGTGCGCACATTAAGTTTTCTTACCTTTCTCT
TGTTCGTTTCTATTTAATAGTTGCTTGGTTTGTAGTCTTTGCTCTTTTTAAACTTTGTTAAACCA
AGTTTATTGAATACTATGCAGACACCCTCAAATGAAGGCAATAATTGAATTACTACTTAAGCAGC
AGAAGCTTACTAAAAAAGATGTCAAGGATATACTTCAGGTATTTTCCCCCTTAAAAACTATATTC
AAGTTGTAAAATTTGTAGGAAAAATATTAGTTACATGTCAGCTTGTTGATAAACAAAATCGTTAA
GGCTTTGCTTGGTGTGAAGAATAGAAAATTGTTAATCAAATGGTTCATAACTACTTTCTTCCTTT
GCAACTTAGCAATTAGATTAACAAATTGTTAATCAAATGTTG
Found at i:360368 original size:18 final size:18
Alignment explanation
Indices: 360347--360395 Score: 98
Period size: 18 Copynumber: 2.7 Consensus size: 18
360337 AATGTAAATT
360347 GTGCATCGATGCATGGTA
1 GTGCATCGATGCATGGTA
360365 GTGCATCGATGCATGGTA
1 GTGCATCGATGCATGGTA
360383 GTGCATCGATGCA
1 GTGCATCGATGCA
360396 CCTGTTAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.27
Consensus pattern (18 bp):
GTGCATCGATGCATGGTA
Found at i:360429 original size:20 final size:20
Alignment explanation
Indices: 360404--360441 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
360394 CACCTGTTAA
*
360404 AGAATGCATCAATGCACTAT
1 AGAATGCACCAATGCACTAT
*
360424 AGAATGCACCGATGCACT
1 AGAATGCACCAATGCACT
360442 TTAATGGGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.21
Consensus pattern (20 bp):
AGAATGCACCAATGCACTAT
Found at i:360524 original size:2 final size:2
Alignment explanation
Indices: 360517--360551 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
360507 ATACTGATAG
360517 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
360552 GATTGTGTAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:364361 original size:20 final size:20
Alignment explanation
Indices: 364336--364373 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
364326 CACCTGTTAA
*
364336 AGAATGCATCAATGCACTAT
1 AGAATGCACCAATGCACTAT
*
364356 AGAATGCACCGATGCACT
1 AGAATGCACCAATGCACT
364374 TTAATGGGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.21
Consensus pattern (20 bp):
AGAATGCACCAATGCACTAT
Found at i:364456 original size:2 final size:2
Alignment explanation
Indices: 364449--364473 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
364439 ATACTGATAG
364449 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
364474 GATTGTGTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:381059 original size:21 final size:21
Alignment explanation
Indices: 381033--381072 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
381023 CCCCCTTTGA
*
381033 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
381054 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
381073 TGGGGTTCTG
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:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:388300 original size:204 final size:204
Alignment explanation
Indices: 387947--388755 Score: 1293
Period size: 204 Copynumber: 4.0 Consensus size: 204
387937 TAACGAATAA
*
387947 AAATGAAGATATTCATGAACAGGCCAAGCCATTTTCAGATTCCATACAACAGAAAACAA-GCATT
1 AAATGAAGATATTCATGAACAGGCCAAGCCATTTTCAGATTCCATACAACTGAAAACAAGGC-TT
* *
388011 GAGGCAAGATGCTGTGATTCACCAAAAATTGCAAAGCCAAGGACACCCTTGAAGGGTAAATCGAA
65 GAAGCAAGATGCTGTGAATCACCAAAAATTGCAAAGCCAAGGACACCCTTGAAGGGTAAATCGAA
* * *
388076 GAATGAGGTGT-CTATAAAGCAAGGATCCAACAGCCAACAACATCCCTTCCTTGGCTCACGAGAA
130 GAATGAGGTGTAC-ATAAAGCAAGGGTCCAACAGCCAACAACATCTCTTCCTTGGCTCACAAGAA
**
388140 ACTGTAACAAG
194 ACTGTAACTCG
* *
388151 AAATGAAGGTAGTCATGAACAGGCCAAGCCATTTTCAGATTCCATACAACTGAAAACAAGGCTTG
1 AAATGAAGATATTCATGAACAGGCCAAGCCATTTTCAGATTCCATACAACTGAAAACAAGGCTTG
*
388216 AAGCAAGATGCTGTGAATCACCAAAAATTGCAAAGCCAAGGACACCCTTGAAGGGTAAATCAAAG
66 AAGCAAGATGCTGTGAATCACCAAAAATTGCAAAGCCAAGGACACCCTTGAAGGGTAAATCGAAG
* * *
388281 AATGAGGTGTACGTAAAGCAAGGGTCCAACAGCCAGCAACATCTTTTCCTTGGCTCACAAGAAAC
131 AATGAGGTGTACATAAAGCAAGGGTCCAACAGCCAACAACATCTCTTCCTTGGCTCACAAGAAAC
388346 TGTAACTCG
196 TGTAACTCG
* *
388355 AAATGAAGATATTCATGAACAGGGCAAGCCATTTTCAGATTCCATACAACTGAAAACATGGCTTG
1 AAATGAAGATATTCATGAACAGGCCAAGCCATTTTCAGATTCCATACAACTGAAAACAAGGCTTG
*
388420 AAGCAAGATGCTGTGAATCACCAAAAATTGCAAAGCCAAGGACACCCTTGAAGGGTAAATTGAAG
66 AAGCAAGATGCTGTGAATCACCAAAAATTGCAAAGCCAAGGACACCCTTGAAGGGTAAATCGAAG
* * * *
388485 AATGAGATGTCCATAAAGCAAGGGTTCAACAGTCAACAACATCTCTTCCTTGGCTCACAAGAAAC
131 AATGAGGTGTACATAAAGCAAGGGTCCAACAGCCAACAACATCTCTTCCTTGGCTCACAAGAAAC
388550 TGTAACTCG
196 TGTAACTCG
*
388559 AAATGAAGATATTCATGAACAGGCCAAGTCATTTTCAGATTCCATACAACAT-AAAACAAGGCTT
1 AAATGAAGATATTCATGAACAGGCCAAGCCATTTTCAGATTCCATACAAC-TGAAAACAAGGCTT
* * * * *
388623 GAAGCAAGATGCTCTGAATCACCAAAAATTGCAAAGCCAAGGACACCCTTGAAGCGTCAATTGGA
65 GAAGCAAGATGCTGTGAATCACCAAAAATTGCAAAGCCAAGGACACCCTTGAAGGGTAAATCGAA
* *
388688 GAATGAGGTG-ACCATAAGGCAAGGGTCCAACAGCCAAGAACATCTCTTCCTTGGCTCACAAGAA
130 GAATGAGGTGTA-CATAAAGCAAGGGTCCAACAGCCAACAACATCTCTTCCTTGGCTCACAAGAA
388752 ACTG
194 ACTG
388756 CAGAAACTGC
Statistics
Matches: 561, Mismatches: 40, Indels: 8
0.92 0.07 0.01
Matches are distributed among these distances:
204 557 0.99
205 4 0.01
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (204 bp):
AAATGAAGATATTCATGAACAGGCCAAGCCATTTTCAGATTCCATACAACTGAAAACAAGGCTTG
AAGCAAGATGCTGTGAATCACCAAAAATTGCAAAGCCAAGGACACCCTTGAAGGGTAAATCGAAG
AATGAGGTGTACATAAAGCAAGGGTCCAACAGCCAACAACATCTCTTCCTTGGCTCACAAGAAAC
TGTAACTCG
Found at i:389149 original size:78 final size:78
Alignment explanation
Indices: 388869--389188 Score: 356
Period size: 78 Copynumber: 4.1 Consensus size: 78
388859 GAATTTTAGC
* * * * * *
388869 GTAGAGAACGAGATAGGTGAAGAAGAGGGCAATTATCATCATCAACATCTCAAGCTACAGTCTCA
1 GTAGAGAATGAGATTGGTGAAGAAGAGGGCAATGATCATCATCAGCATCTCGAGCTAGAGTCTCA
388934 GTCTCAGGATACT
66 GTCTCAGGATACT
*** * * * *
388947 GTAGAGAATGAGAACAGTGAAGAAGA-GTCGAATGGTCATCATCAGCATCTCGGGCCAGAGTCTC
1 GTAGAGAATGAGATTGGTGAAGAAGAGGGC-AATGATCATCATCAGCATCTCGAGCTAGAGTCTC
*
389011 AGTCTCAGGATACC
65 AGTCTCAGGATACT
** * * * *
389025 GTAGAGAATGAGATTGGTGAAGAAGAGGGGGATGGTCATCATCAGCATCTCGGGCTAGATTTTCA
1 GTAGAGAATGAGATTGGTGAAGAAGAGGGCAATGATCATCATCAGCATCTCGAGCTAGAGTCTCA
389090 GTCTCAGGATACT
66 GTCTCAGGATACT
* * * * *
389103 GTAGAGAATGAGATTGGTGAAGAAGAGGGCAATGATAAT-AGGCAGCATCCCGAGTTAGACTCTC
1 GTAGAGAATGAGATTGGTGAAGAAGAGGGCAATGATCATCA-TCAGCATCTCGAGCTAGAGTCTC
* *
389167 AATCTCAGGATGCT
65 AGTCTCAGGATACT
*
389181 TTAGAGAA
1 GTAGAGAA
389189 GTCAACAACA
Statistics
Matches: 203, Mismatches: 36, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
77 3 0.01
78 199 0.98
79 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.22
Consensus pattern (78 bp):
GTAGAGAATGAGATTGGTGAAGAAGAGGGCAATGATCATCATCAGCATCTCGAGCTAGAGTCTCA
GTCTCAGGATACT
Found at i:389952 original size:3 final size:3
Alignment explanation
Indices: 389944--389976 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
389934 TGATCAGGGT
389944 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
389977 AGGAGCTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:390045 original size:141 final size:141
Alignment explanation
Indices: 389827--390101 Score: 496
Period size: 141 Copynumber: 2.0 Consensus size: 141
389817 CGACAACGAC
389827 GAAGAAGAAAGGAGCTTAAGCAGCCATGAATGTCAGCAAGAAGTTGAGGGTAAGGAAGAAACCAT
1 GAAGAAGAAAGGAGCTTAAGCAGCCATGAATGTCAGCAAGAAGTTGAGGGTAAGGAAGAAACCAT
* * *
389892 CCAACCAATGTGTTGCCTGCAGACAAATTTGCATTCAGAAGGTGATCAGGGTGAAGAAGAAGAAG
66 CCAACCAATGTGTTGCCAGCAGACAAATTTGCATCCAGAAGGTGATCAGGGTGAAGAAGAACAAG
389957 AAGAAGAAGAA
131 AAGAAGAAGAA
* *
389968 GAAGAAGAAAGGAGCTTAAGCAGCCATGAATGTCAGCAAGAGGTTGAGGGTAAGGAAGAAACCCT
1 GAAGAAGAAAGGAGCTTAAGCAGCCATGAATGTCAGCAAGAAGTTGAGGGTAAGGAAGAAACCAT
*
390033 CCAACCAATGTGTTGCCAGCAGACAAATTTGCATCCAGAAGGTGATCAGGGTGCAGAAGAACAAG
66 CCAACCAATGTGTTGCCAGCAGACAAATTTGCATCCAGAAGGTGATCAGGGTGAAGAAGAACAAG
390098 AAGA
131 AAGA
390102 TGACGGCGAC
Statistics
Matches: 128, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
141 128 1.00
ACGTcount: A:0.40, C:0.15, G:0.29, T:0.15
Consensus pattern (141 bp):
GAAGAAGAAAGGAGCTTAAGCAGCCATGAATGTCAGCAAGAAGTTGAGGGTAAGGAAGAAACCAT
CCAACCAATGTGTTGCCAGCAGACAAATTTGCATCCAGAAGGTGATCAGGGTGAAGAAGAACAAG
AAGAAGAAGAA
Found at i:392636 original size:42 final size:42
Alignment explanation
Indices: 392534--392905 Score: 354
Period size: 42 Copynumber: 8.7 Consensus size: 42
392524 ATAGGTCAAA
* *
392534 ATCTATAGCGGCGTTTTTCGAAACAAACGCCGTAATAA-GTCGAG
1 ATCTATAGCGGCGTTTTT-GGAACAAACGCCGCAA-AAGGTC-AG
* *
392578 CTCTATAGCGGTGTTTTTGGAGA-AAACGCCGCAAAAGGTCAG
1 ATCTATAGCGGCGTTTTTGGA-ACAAACGCCGCAAAAGGTCAG
* * *
392620 ATCTATAGAGGCGTTTTTGGAACAAACGCCGCAATAGGTTGAG
1 ATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGG-TCAG
** * * *
392663 ATCTATAGCGGCGTTTTTATAGA-AAATGCCGCAAAATGTCGG
1 ATCTATAGCGGCGTTTTTGGA-ACAAACGCCGCAAAAGGTCAG
* *** * *
392705 ATCTATAGCGACGTTTTTGGAACAAACATTGTAGAAGGTCGAG
1 ATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTC-AG
* * *
392748 ATATATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGATTAG
1 ATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTCAG
* * * *
392790 ATCTATAGCGGCATTTTTGGAACAAACACTGCAGAAGGTCGAG
1 ATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTC-AG
* * * * **
392833 ATATATAACGGCGTTTTTGGAATAAACGCCGTAAAATTTCAG
1 ATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTCAG
*
392875 ATCTATAGCGGCGTTTTTGGATGCAAACGCC
1 ATCTATAGCGGCGTTTTTGGA-ACAAACGCC
392906 ACTAATTATC
Statistics
Matches: 261, Mismatches: 58, Indels: 19
0.77 0.17 0.06
Matches are distributed among these distances:
41 2 0.01
42 122 0.47
43 119 0.46
44 18 0.07
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.26
Consensus pattern (42 bp):
ATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTCAG
Found at i:392669 original size:85 final size:85
Alignment explanation
Indices: 392534--392905 Score: 392
Period size: 85 Copynumber: 4.4 Consensus size: 85
392524 ATAGGTCAAA
* * * * * *
392534 ATCTATAGCGGCGTTTTTCGAAACAAACGCCGTA-ATAAGTCGAGCTCTATAGCGGTGTTTTTGG
1 ATCTATAGCGGCGTTTTT-GGAACAAACGCCGCAGA-AGGTCGAGATATATAGCGGCGTTTTTGG
392598 AGA-AAACGCCGCAAAAGGTCAG
64 A-ACAAACGCCGCAAAAGGTCAG
* * * **
392620 ATCTATAGAGGCGTTTTTGGAACAAACGCCGCA-ATAGGTTGAGATCTATAGCGGCGTTTTTATA
1 ATCTATAGCGGCGTTTTTGGAACAAACGCCGCAGA-AGGTCGAGATATATAGCGGCGTTTTTGGA
* * *
392684 GA-AAATGCCGCAAAATGTCGG
65 -ACAAACGCCGCAAAAGGTCAG
* *** *
392705 ATCTATAGCGACGTTTTTGGAACAAACATTGTAGAAGGTCGAGATATATAGCGGCGTTTTTGGAA
1 ATCTATAGCGGCGTTTTTGGAACAAACGCCGCAGAAGGTCGAGATATATAGCGGCGTTTTTGGAA
* *
392770 CAAACGCCGCAAAAGATTAG
66 CAAACGCCGCAAAAGGTCAG
* * * *
392790 ATCTATAGCGGCATTTTTGGAACAAACACTGCAGAAGGTCGAGATATATAACGGCGTTTTTGGAA
1 ATCTATAGCGGCGTTTTTGGAACAAACGCCGCAGAAGGTCGAGATATATAGCGGCGTTTTTGGAA
* * **
392855 TAAACGCCGTAAAATTTCAG
66 CAAACGCCGCAAAAGGTCAG
*
392875 ATCTATAGCGGCGTTTTTGGATGCAAACGCC
1 ATCTATAGCGGCGTTTTTGGA-ACAAACGCC
392906 ACTAATTATC
Statistics
Matches: 242, Mismatches: 41, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
84 1 0.00
85 217 0.90
86 24 0.10
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.26
Consensus pattern (85 bp):
ATCTATAGCGGCGTTTTTGGAACAAACGCCGCAGAAGGTCGAGATATATAGCGGCGTTTTTGGAA
CAAACGCCGCAAAAGGTCAG
Found at i:396796 original size:42 final size:42
Alignment explanation
Indices: 396728--396909 Score: 160
Period size: 42 Copynumber: 4.4 Consensus size: 42
396718 ATGTCTATAG
* * * *
396728 CGGCGTTTGTAT--AGAACGCCGCTAAAGTACTACTCTTTTG
1 CGGCGTTTGTATAAAAAACGCCACTAAAGTACTACTCTGTTA
* * * *
396768 TGGCGTTTGTATAAAAAACGCCACTAAAGTACTATTATGTCA
1 CGGCGTTTGTATAAAAAACGCCACTAAAGTACTACTCTGTTA
* * * * *
396810 CGACATTTGTTTAAAAAACGCCACTATAG-A-TGAAC-CTATTA
1 CGGCGTTTGTATAAAAAACGCCACTAAAGTACT--ACTCTGTTA
*
396851 CGGCGTTTGTAT-AAAAACGCCACTAAAGTACTACTCTGTTG
1 CGGCGTTTGTATAAAAAACGCCACTAAAGTACTACTCTGTTA
*
396892 CGACGTTTTGTATAAAAA
1 CGGCG-TTTGTATAAAAA
396910 CGCTGTTAAA
Statistics
Matches: 109, Mismatches: 24, Indels: 15
0.74 0.16 0.10
Matches are distributed among these distances:
40 29 0.27
41 22 0.20
42 54 0.50
43 4 0.04
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (42 bp):
CGGCGTTTGTATAAAAAACGCCACTAAAGTACTACTCTGTTA
Found at i:396910 original size:42 final size:41
Alignment explanation
Indices: 396620--396912 Score: 208
Period size: 40 Copynumber: 7.1 Consensus size: 41
396610 TTTTAAACAC
* * * *
396620 AAACGCCACTAAAGTACGAGTCTATAGCGGTGTTTGTATAA
1 AAACGCCACTAAAGTACTACTCTATTGCGGCGTTTGTATAA
** * * * * *
396661 AAATACCGCTAAAG-ATCTA-TTTATAGCGGCATTTGAATAA
1 AAACGCCACTAAAGTA-CTACTCTATTGCGGCGTTTGTATAA
* * *
396701 AAACGCCGCTAAAGTA-TATGTCTATAGCGGCGTTTGTAT-A
1 AAACGCCACTAAAGTACTA-CTCTATTGCGGCGTTTGTATAA
* * * *
396741 GAACGCCGCTAAAGTACTACTCTTTTGTGGCGTTTGTATAAA
1 AAACGCCACTAAAGTACTACTCTATTGCGGCGTTTGTAT-AA
* * * *
396783 AAACGCCACTAAAGTACTA-T-TATGTCACGACATTTGTTTAAA
1 AAACGCCACTAAAGTACTACTCTAT-T-GCGGCGTTTGTAT-AA
* *
396825 AAACGCCACTATAG-A-TGAAC-CTATTACGGCGTTTGTATAA
1 AAACGCCACTAAAGTACT--ACTCTATTGCGGCGTTTGTATAA
* *
396865 AAACGCCACTAAAGTACTACTCTGTTGCGACGTTTTGTATAA
1 AAACGCCACTAAAGTACTACTCTATTGCGGCG-TTTGTATAA
396907 AAACGC
1 AAACGC
396913 TGTTAAAGTT
Statistics
Matches: 201, Mismatches: 34, Indels: 33
0.75 0.13 0.12
Matches are distributed among these distances:
39 2 0.01
40 82 0.41
41 54 0.27
42 60 0.30
43 3 0.01
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (41 bp):
AAACGCCACTAAAGTACTACTCTATTGCGGCGTTTGTATAA
Found at i:397219 original size:23 final size:22
Alignment explanation
Indices: 397195--397309 Score: 117
Period size: 23 Copynumber: 5.0 Consensus size: 22
397185 TTATATATAT
397195 ATATATAATATAGTTTTG-AAA
1 ATATATAATATAGTTTTGAAAA
397216 ATATAT-ATATAGTTTCTGAAAA
1 ATATATAATATAGTTT-TGAAAA
* *
397238 ACATATTATATAGGTTTTGAAAA
1 ATATATAATATA-GTTTTGAAAA
397261 ATATATAATATAAAGTTTTGAAAA
1 ATATATAATAT--AGTTTTGAAAA
* *
397285 CATATAATGTATATATTTTTGAAAA
1 -ATAT-AT-AATATAGTTTTGAAAA
397310 CATAGTTTTT
Statistics
Matches: 80, Mismatches: 5, Indels: 14
0.81 0.05 0.14
Matches are distributed among these distances:
20 9 0.11
21 8 0.10
22 8 0.10
23 20 0.25
24 14 0.17
25 15 0.19
26 2 0.03
27 4 0.05
ACGTcount: A:0.47, C:0.03, G:0.10, T:0.41
Consensus pattern (22 bp):
ATATATAATATAGTTTTGAAAA
Found at i:397219 original size:25 final size:24
Alignment explanation
Indices: 397193--397309 Score: 97
Period size: 25 Copynumber: 5.0 Consensus size: 24
397183 TATTATATAT
397193 ATATATATAATATAGTTTTG--AA
1 ATATATATAATATAGTTTTGAAAA
397215 A-ATATAT-ATATAGTTTCTGAAAA
1 ATATATATAATATAGTTT-TGAAAA
*
397238 ACATAT-T-ATATAGGTTTTGAAAA
1 ATATATATAATATA-GTTTTGAAAA
*
397261 ATATATA-ATATAAAGTTTTGAAAA
1 ATATATATA-ATATAGTTTTGAAAA
* *
397285 CATATA-ATGTATATATTTTTGAAAA
1 -ATATATAT-AATATAGTTTTGAAAA
397310 CATAGTTTTT
Statistics
Matches: 79, Mismatches: 5, Indels: 19
0.77 0.05 0.18
Matches are distributed among these distances:
20 9 0.11
21 8 0.10
22 1 0.01
23 20 0.25
24 19 0.24
25 22 0.28
ACGTcount: A:0.47, C:0.03, G:0.09, T:0.41
Consensus pattern (24 bp):
ATATATATAATATAGTTTTGAAAA
Found at i:397226 original size:2 final size:2
Alignment explanation
Indices: 397163--397206 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
397153 ATTTCTATTT
397163 TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
397203 TA TA
1 TA TA
397207 GTTTTGAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 38 0.95
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:397333 original size:17 final size:17
Alignment explanation
Indices: 397294--397347 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
397284 ACATATAATG
397294 TATATA-TTTTTG-AAA
1 TATATAGTTTTTGAAAA
*
397309 -ACATAGTTTTTGAAAA
1 TATATAGTTTTTGAAAA
397325 TATATAGTTTTT-AAATA
1 TATATAGTTTTTGAAA-A
397342 TATATA
1 TATATA
397348 TATATATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
14 4 0.12
15 6 0.18
16 6 0.18
17 17 0.52
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (17 bp):
TATATAGTTTTTGAAAA
Found at i:397340 original size:15 final size:16
Alignment explanation
Indices: 397294--397345 Score: 65
Period size: 15 Copynumber: 3.4 Consensus size: 16
397284 ACATATAATG
397294 TATATA-TTTTTGAAA
1 TATATAGTTTTTGAAA
*
397309 -ACATAGTTTTTGAAAA
1 TATATAGTTTTTG-AAA
397325 TATATAGTTTTT-AAA
1 TATATAGTTTTTGAAA
397340 TATATA
1 TATATA
397346 TATATATATA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
14 4 0.12
15 15 0.47
16 3 0.09
17 10 0.31
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.48
Consensus pattern (16 bp):
TATATAGTTTTTGAAA
Found at i:397344 original size:2 final size:2
Alignment explanation
Indices: 397339--397416 Score: 128
Period size: 2 Copynumber: 41.0 Consensus size: 2
397329 TAGTTTTTAA
397339 AT AT AT AT AT AT AT AT AT AT AT -T AT -T AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
397379 AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
397417 TCTATATTAT
Statistics
Matches: 72, Mismatches: 0, Indels: 8
0.90 0.00 0.10
Matches are distributed among these distances:
1 4 0.06
2 68 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:398806 original size:15 final size:15
Alignment explanation
Indices: 398786--398817 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
398776 ATCATAGTAA
*
398786 TTATTTTATTTTTAT
1 TTATTTTATTCTTAT
398801 TTATTTTATTCTTAT
1 TTATTTTATTCTTAT
398816 TT
1 TT
398818 TAGTTATTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (15 bp):
TTATTTTATTCTTAT
Found at i:398818 original size:20 final size:20
Alignment explanation
Indices: 398786--398826 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
398776 ATCATAGTAA
*
398786 TTATTTTATTTTTATTTATT
1 TTATTTTATTTTTAGTTATT
398806 TTATTCTTA-TTTTAGTTATT
1 TTATT-TTATTTTTAGTTATT
398826 T
1 T
398827 CCTTTTCCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (20 bp):
TTATTTTATTTTTAGTTATT
Found at i:411289 original size:21 final size:21
Alignment explanation
Indices: 411263--411304 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
411253 TGAACTATGG
411263 CTTTGTAA-AAGTGTTACTTGA
1 CTTTGTAACAAGT-TTACTTGA
*
411284 CTTTGTAACAAGTTTCCTTGA
1 CTTTGTAACAAGTTTACTTGA
411305 TTTTTAATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.26, C:0.14, G:0.17, T:0.43
Consensus pattern (21 bp):
CTTTGTAACAAGTTTACTTGA
Found at i:417344 original size:21 final size:21
Alignment explanation
Indices: 417318--417372 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
417308 ACCAAGGGTA
417318 GAGTATCGATACTCCTAGTAG
1 GAGTATCGATACTCCTAGTAG
417339 GAGTATCGATACTCCTAGTAG
1 GAGTATCGATACTCCTAGTAG
* *
417360 GGGTATCAATACT
1 GAGTATCGATACT
417373 AAGATATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (21 bp):
GAGTATCGATACTCCTAGTAG
Found at i:426728 original size:17 final size:17
Alignment explanation
Indices: 426706--426738 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
426696 TAGCTTGACA
426706 GTCATGTGAAAACACTG
1 GTCATGTGAAAACACTG
426723 GTCATGTGAAAACACT
1 GTCATGTGAAAACACT
426739 ACAGCCCAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.24
Consensus pattern (17 bp):
GTCATGTGAAAACACTG
Found at i:443471 original size:64 final size:64
Alignment explanation
Indices: 443385--443544 Score: 198
Period size: 65 Copynumber: 2.5 Consensus size: 64
443375 TGCACTAAGA
* * * *
443385 GTGCATCGATGCATCAAGTGCATTCGATGTTTGA-AAATAGCCAGAGTGCATCGATGCATGGCT-
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCATAAA-AGCCACAGTGCATCGATACATGG-TA
443448 G
64 G
* * *
443449 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATCCTCAGTGCATCGATACATGGTAT
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCATAAAAGCCACAGTGCATCGATACATGGTAG
* *
443514 GCGCATCGATGCATGAAATGCATTCGATGTT
1 GTGCATCGATGCATCAAATGCATTCGATGTT
443545 CAATTTAATT
Statistics
Matches: 84, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
64 31 0.37
65 50 0.60
66 3 0.04
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCATAAAAGCCACAGTGCATCGATACATGGTAG
Found at i:443585 original size:65 final size:63
Alignment explanation
Indices: 443387--443586 Score: 185
Period size: 65 Copynumber: 3.1 Consensus size: 63
443377 CACTAAGAGT
* * * *
443387 GCATCGATGCATCAAGTGCATTCGATGTTTGA-AAATAGC-CAGAGTGCATCGATGCATGGCTGG
1 GCATCGATGCATCAAATGCATTCGATGTTTCATAAA-ATCTC--AGTGCATCGATGCATGGTTGG
*
443450 T
63 C
*
443451 GCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATCCTCAGTGCATCGATACATGGTAT-G
1 GCATCGATGCATCAAATGCATTCGATG-TTTCATAAAAT-CTCAGTGCATCGATGCATGGT-TGG
443515 C
63 C
* **
443516 GCATCGATGCATGAAATGCATTCGATG-TTCAATTTAAT-TCATGGTGCATCGATGCATGGATTG
1 GCATCGATGCATCAAATGCATTCGATGTTTC-ATAAAATCTCA--GTGCATCGATGCATGG-TTG
*
443579 GG
62 GC
443581 GCATCG
1 GCATCG
443587 GGGCATCACT
Statistics
Matches: 115, Mismatches: 11, Indels: 19
0.79 0.08 0.13
Matches are distributed among these distances:
62 3 0.03
63 3 0.03
64 47 0.41
65 56 0.49
66 5 0.04
67 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.29
Consensus pattern (63 bp):
GCATCGATGCATCAAATGCATTCGATGTTTCATAAAATCTCAGTGCATCGATGCATGGTTGGC
Found at i:448678 original size:12 final size:14
Alignment explanation
Indices: 448644--448672 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
448634 TAAGTATCAT
448644 AAAATATCTTTTAA
1 AAAATATCTTTTAA
448658 AAAATATCTTTTAA
1 AAAATATCTTTTAA
448672 A
1 A
448673 GAATCTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (14 bp):
AAAATATCTTTTAA
Found at i:453328 original size:20 final size:21
Alignment explanation
Indices: 453302--453358 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
453292 TTTATTCTTC
453302 ATGCATCGATACACC-TAACA-
1 ATGCATCGATACACCTTAA-AT
* *
453322 GTGCATCGATGCATCCTTAAAT
1 ATGCATCGATACA-CCTTAAAT
453344 ATGCATCGATACACC
1 ATGCATCGATACACC
453359 ATGAAGGTGC
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
20 11 0.37
21 5 0.17
22 14 0.47
ACGTcount: A:0.33, C:0.28, G:0.14, T:0.25
Consensus pattern (21 bp):
ATGCATCGATACACCTTAAAT
Found at i:454951 original size:14 final size:15
Alignment explanation
Indices: 454926--454955 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
454916 TTGATTTTGA
454926 TGTTTCTGGATTGTT
1 TGTTTCTGGATTGTT
454941 TGTTT-TGGATTGTT
1 TGTTTCTGGATTGTT
454955 T
1 T
454956 AATGTTTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.07, C:0.03, G:0.27, T:0.63
Consensus pattern (15 bp):
TGTTTCTGGATTGTT
Found at i:457260 original size:18 final size:18
Alignment explanation
Indices: 457237--457301 Score: 53
Period size: 18 Copynumber: 3.4 Consensus size: 18
457227 ATGATAAACA
457237 ATATCATACATAATAGTC
1 ATATCATACATAATAGTC
**
457255 ATATCA-A-ATTAATGAAAAAC
1 ATATCATACA-TAAT---AGTC
457275 AATATCATACATAATAGTC
1 -ATATCATACATAATAGTC
457294 ATATCATA
1 ATATCATA
457302 TTCTTTTTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
16 1 0.03
17 5 0.14
18 14 0.39
19 2 0.06
20 2 0.06
21 6 0.17
22 5 0.14
23 1 0.03
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.31
Consensus pattern (18 bp):
ATATCATACATAATAGTC
Done.