Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009594.1 Hibiscus syriacus cultivar Beakdansim tig00116973_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: 563256
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 3
Found at i:11590 original size:21 final size:21
Alignment explanation
Indices: 11550--11591 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
11540 TAAAACATCC
**
11550 AATAATAATATTTTTGATAAA
1 AATAATAATATTTTAAATAAA
11571 AATAATAATATTTTAAATAAA
1 AATAATAATATTTTAAATAAA
11592 TTTTTATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (21 bp):
AATAATAATATTTTAAATAAA
Found at i:11781 original size:2 final size:2
Alignment explanation
Indices: 11774--11807 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
11764 CGAAAACGAC
*
11774 TA TA TA TA TA TA TA TA TA TA TA TA TA TA GA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11808 CAATTGATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:16316 original size:12 final size:10
Alignment explanation
Indices: 16275--16315 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
16265 TTTATCACAC
16275 CAAATTCTCT
1 CAAATTCTCT
16285 CAAATTCTCT
1 CAAATTCTCT
16295 -AAATTTCTCT
1 CAAA-TTCTCT
*
16305 CAAATACTCT
1 CAAATTCTCT
16315 C
1 C
16316 TTTTTAAGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 3 0.11
10 22 0.79
11 3 0.11
ACGTcount: A:0.32, C:0.29, G:0.00, T:0.39
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:16578 original size:110 final size:111
Alignment explanation
Indices: 16439--16659 Score: 372
Period size: 110 Copynumber: 2.0 Consensus size: 111
16429 TAGAAATCAT
* *
16439 ATATCTCTACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACATTTTAATTTAATTTAAATTATTAGTAA
* * * *
16504 TATTTAGTT-ATTTATTTAATGCATGATTATTATATTAATAATTAA
66 TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
*
16549 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACATTTTAATTTAATTTAAATTATTATTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACATTTTAATTTAATTTAAATTATTAGTAA
16614 TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
16660 TTTTTGTAAT
Statistics
Matches: 103, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
110 70 0.68
111 33 0.32
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.46
Consensus pattern (111 bp):
ATATCTCGACACTTTGCTGATACGGTAACATTTTAACATTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
Found at i:22049 original size:49 final size:51
Alignment explanation
Indices: 21932--22042 Score: 183
Period size: 51 Copynumber: 2.2 Consensus size: 51
21922 TTATACAAAA
*
21932 CGCGGTACCTGCCCCGCGCTATATAAAATTATGTCAGGAGTAAAGGTATGT
1 CGCGGTACCTGCCCCGCGCTATATAAAATTATGTCAGGAGTAAAAGTATGT
21983 CGCGGTACCTGCCCCGCGCTATATAAAATTAT-T-AGGAGTAAAAGTATAG-
1 CGCGGTACCTGCCCCGCGCTATATAAAATTATGTCAGGAGTAAAAGTAT-GT
22032 CGCGGTACCTG
1 CGCGGTACCTG
22043 ATCCGCGTTA
Statistics
Matches: 58, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
49 24 0.41
50 2 0.03
51 32 0.55
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (51 bp):
CGCGGTACCTGCCCCGCGCTATATAAAATTATGTCAGGAGTAAAAGTATGT
Found at i:24535 original size:42 final size:42
Alignment explanation
Indices: 24489--24789 Score: 258
Period size: 42 Copynumber: 7.2 Consensus size: 42
24479 TATGAAATTG
24489 AAAAATTAGGGGTCTCAATTATAAAGGTAAAAAGTGAGATTA
1 AAAAATTAGGGGTCTCAATTATAAAGGTAAAAAGTGAGATTA
* * *
24531 AAAAATTAGGGGTCT-AATTATAAATGCAAAAAGTGAGATTG
1 AAAAATTAGGGGTCTCAATTATAAAGGTAAAAAGTGAGATTA
* *
24572 AAAAATTACCGGG-CTCAATTATAAAGATAAAAAGTGAGATTA
1 AAAAATTA-GGGGTCTCAATTATAAAGGTAAAAAGTGAGATTA
* * * * ** *
24614 AAAAGCTT-GAGGCCTC-ATTTTAAA-GTAGGAAGTGAGGTTGAA
1 AAAA-ATTAGGGGTCTCAATTATAAAGGTAAAAAGTGAGATT--A
* *
24656 AAAAATTATGGGTCTCAATTATAAAGAT-AAAAGTGAGATTGA
1 AAAAATTAGGGGTCTCAATTATAAAGGTAAAAAGTGAGATT-A
* * * * * *
24698 CAAAATTATGTGCCTTAATTATAAAGGTGAAAAGTGAGATTGA
1 AAAAATTAGGGGTCTCAATTATAAAGGTAAAAAGTGAGATT-A
** * * *
24741 AAAAAACAAGGG-CTCAATTATAAAGGTAAAAGGCGAG-TTA
1 AAAAATTAGGGGTCTCAATTATAAAGGTAAAAAGTGAGATTA
24781 CAAAAATTA
1 -AAAAATTA
24790 TGAACTTTAA
Statistics
Matches: 206, Mismatches: 42, Indels: 23
0.76 0.15 0.08
Matches are distributed among these distances:
40 12 0.06
41 52 0.25
42 102 0.50
43 39 0.19
44 1 0.00
ACGTcount: A:0.46, C:0.07, G:0.21, T:0.26
Consensus pattern (42 bp):
AAAAATTAGGGGTCTCAATTATAAAGGTAAAAAGTGAGATTA
Found at i:24575 original size:83 final size:82
Alignment explanation
Indices: 24485--24789 Score: 287
Period size: 83 Copynumber: 3.7 Consensus size: 82
24475 ATTTTATGAA
* * *
24485 ATTG-AAAAATTAGGGGTCTCAATTATAAAGGTAAAAAGTGAGATTAAAAAATTAGGGGTCTAAT
1 ATTGAAAAAATTAAGGG-CTCAATTATAAAGATAAAAAGTGAGATTAAAAAATTAGGGGCCTAAT
*
24549 TATAAATGCAAAAAGTGAG
65 TATAAA-GTAAAAAGTGAG
* * * *
24568 ATTG-AAAAATTACCGGGCTCAATTATAAAGATAAAAAGTGAGATTAAAAAGCTT-GAGGCCTCA
1 ATTGAAAAAATTA-AGGGCTCAATTATAAAGATAAAAAGTGAGATTAAAAA-ATTAGGGGCCTAA
* **
24631 TTTTAAAGTAGGAAGTGAG
64 TTATAAAGTAAAAAGTGAG
* * * * *
24650 GTTGAAAAAAATTATGGGTCTCAATTATAAAGAT-AAAAGTGAGATTGACAAAATTATGTGCCTT
1 ATTG-AAAAAATTAAGGG-CTCAATTATAAAGATAAAAAGTGAGATT-AAAAAATTAGGGGCC-T
*
24714 AATTATAAAGGTGAAAAGTGAG
62 AATTATAAA-GTAAAAAGTGAG
** * * *
24736 ATTGAAAAAAACAAGGGCTCAATTATAAAGGTAAAAGGCGAG-TTACAAAAATTA
1 ATTGAAAAAATTAAGGGCTCAATTATAAAGATAAAAAGTGAGATTA-AAAAATTA
24790 TGAACTTTAA
Statistics
Matches: 181, Mismatches: 30, Indels: 21
0.78 0.13 0.09
Matches are distributed among these distances:
82 12 0.07
83 74 0.41
84 58 0.32
85 25 0.14
86 12 0.07
ACGTcount: A:0.46, C:0.07, G:0.21, T:0.26
Consensus pattern (82 bp):
ATTGAAAAAATTAAGGGCTCAATTATAAAGATAAAAAGTGAGATTAAAAAATTAGGGGCCTAATT
ATAAAGTAAAAAGTGAG
Found at i:24849 original size:36 final size:36
Alignment explanation
Indices: 24781--24849 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 36
24771 AGGCGAGTTA
* * **
24781 CAAAAATTATGAACTTTAATTATAAAGGTAAAATGG
1 CAAAAATTAAGAACTTCAATTATAAAAATAAAATGG
24817 CAAAAATTAAGAACTTCAATTATAAAAATAAAA
1 CAAAAATTAAGAACTTCAATTATAAAAATAAAA
24850 AAATTGATTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.57, C:0.07, G:0.09, T:0.28
Consensus pattern (36 bp):
CAAAAATTAAGAACTTCAATTATAAAAATAAAATGG
Found at i:42902 original size:26 final size:26
Alignment explanation
Indices: 42846--42902 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
42836 TAATAATAAT
* *
42846 AAATTAGTCAAACATGTTGGAAACAA
1 AAATTAGTCAAACATATCGGAAACAA
*
42872 CAATTAGTCAAACATATCCGGAAA-AA
1 AAATTAGTCAAACATAT-CGGAAACAA
42898 AAATT
1 AAATT
42903 GTTGTCAAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 21 0.81
27 5 0.19
ACGTcount: A:0.51, C:0.14, G:0.12, T:0.23
Consensus pattern (26 bp):
AAATTAGTCAAACATATCGGAAACAA
Found at i:44329 original size:21 final size:22
Alignment explanation
Indices: 44304--44345 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
44294 AAGAAACAAA
44304 AATCAACA-AGAATC-AAGAGAT
1 AATCAA-AGAGAATCAAAGAGAT
44325 AATCAAAGAGAATCAAAGAGA
1 AATCAAAGAGAATCAAAGAGA
44346 AAGCATCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 1 0.05
21 12 0.63
22 6 0.32
ACGTcount: A:0.60, C:0.12, G:0.17, T:0.12
Consensus pattern (22 bp):
AATCAAAGAGAATCAAAGAGAT
Found at i:44338 original size:10 final size:10
Alignment explanation
Indices: 44312--44346 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
44302 AAAATCAACA
44312 AGAATCAAGAG
1 AGAATCAA-AG
*
44323 ATAATCAAAG
1 AGAATCAAAG
44333 AGAATCAAAG
1 AGAATCAAAG
44343 AGAA
1 AGAA
44347 AGCATCAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 15 0.68
11 7 0.32
ACGTcount: A:0.60, C:0.09, G:0.20, T:0.11
Consensus pattern (10 bp):
AGAATCAAAG
Found at i:49353 original size:22 final size:22
Alignment explanation
Indices: 49327--49410 Score: 105
Period size: 22 Copynumber: 3.8 Consensus size: 22
49317 TTAGTACAGA
*
49327 GGGAATCGATACCCCCTTAAAG
1 GGGAATCGATACCCCCTTGAAG
*
49349 GGGAATCGATTCCCCCCTTGAAG
1 GGGAATCGA-TACCCCCTTGAAG
* * * *
49372 GGGAACCGATTCCCCCATGTAG
1 GGGAATCGATACCCCCTTGAAG
49394 GGGAATCGATACCCCCT
1 GGGAATCGATACCCCCT
49411 GAGGGTTCTG
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
22 33 0.63
23 19 0.37
ACGTcount: A:0.25, C:0.31, G:0.25, T:0.19
Consensus pattern (22 bp):
GGGAATCGATACCCCCTTGAAG
Found at i:51510 original size:64 final size:64
Alignment explanation
Indices: 51437--51597 Score: 193
Period size: 64 Copynumber: 2.5 Consensus size: 64
51427 TATTTGAATG
* * * *
51437 TGCACCGATGCATTGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAATACATCGAATGCAATTC
1 TGCATCGATGCATAGGTAGTGCATCGATGCATCTC-ATTAATAATAAA-ACAACGAATGCAATTC
51500 A
64 A
* * * **
51501 TGCATCGATGCATAAGTAATGCATCGATGCATCTCATTAATAATGAAACAACGAATGCAATTGG
1 TGCATCGATGCATAGGTAGTGCATCGATGCATCTCATTAATAATAAAACAACGAATGCAATTCA
51565 TGCATCGATGCATAAGG-AGTGCATCGATGCATC
1 TGCATCGATGCAT-AGGTAGTGCATCGATGCATC
51598 CCAACAATAT
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
64 73 0.88
65 10 0.12
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (64 bp):
TGCATCGATGCATAGGTAGTGCATCGATGCATCTCATTAATAATAAAACAACGAATGCAATTCA
Found at i:51620 original size:64 final size:64
Alignment explanation
Indices: 51482--51620 Score: 172
Period size: 64 Copynumber: 2.2 Consensus size: 64
51472 TTTAAAATAA
* * **
51482 ATACATCGAATGCAATTCATGCATCGATGCATAAGTAATGCATCGATGCATCTCATTAATAATG
1 ATACATCGAATGCAATTCATGCATCGATGCATAAGGAATGCATCGATGCATCCCAACAATAATG
* * ** * *
51546 AAACAACGAATGCAATTGGTGCATCGATGCATAAGGAGTGCATCGATGCATCCCAACAAT-ATT
1 ATACATCGAATGCAATTCATGCATCGATGCATAAGGAATGCATCGATGCATCCCAACAATAATG
51609 ACTACATCGAAT
1 A-TACATCGAAT
51621 ACCTTTTATG
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
63 3 0.05
64 59 0.95
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (64 bp):
ATACATCGAATGCAATTCATGCATCGATGCATAAGGAATGCATCGATGCATCCCAACAATAATG
Found at i:52194 original size:31 final size:31
Alignment explanation
Indices: 52155--52312 Score: 239
Period size: 31 Copynumber: 5.2 Consensus size: 31
52145 CAAGTCGAGG
*
52155 GTTTACATATGTTTAAAAGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
*
52186 TTTTACATATGTTTAAAGGCACATATG-A-A
1 GTTTACATATGTTTAAAGGCACATATGAACA
52215 GTTTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
** **
52246 GTTTATGTATGTTTAAAGTTACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
*
52277 GTCTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
52308 GTTTA
1 GTTTA
52313 TATTGTGACC
Statistics
Matches: 112, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
29 27 0.24
30 2 0.02
31 83 0.74
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.35
Consensus pattern (31 bp):
GTTTACATATGTTTAAAGGCACATATGAACA
Found at i:52227 original size:60 final size:62
Alignment explanation
Indices: 52155--52312 Score: 239
Period size: 60 Copynumber: 2.6 Consensus size: 62
52145 CAAGTCGAGG
* *
52155 GTTTACATATGTTTAAAAGCACATATGAACATTTTACATATGTTTAAAGGCACATATG-A-A
1 GTTTACATATGTTTAAAGGCACATATGAACAGTTTACATATGTTTAAAGGCACATATGAACA
** **
52215 GTTTACATATGTTTAAAGGCACATATGAACAGTTTATGTATGTTTAAAGTTACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACAGTTTACATATGTTTAAAGGCACATATGAACA
*
52277 GTCTACATATGTTTAAAGGCACATATGAACAGTTTA
1 GTTTACATATGTTTAAAGGCACATATGAACAGTTTA
52313 TATTGTGACC
Statistics
Matches: 89, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
60 52 0.58
61 1 0.01
62 36 0.40
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.35
Consensus pattern (62 bp):
GTTTACATATGTTTAAAGGCACATATGAACAGTTTACATATGTTTAAAGGCACATATGAACA
Found at i:52439 original size:61 final size:61
Alignment explanation
Indices: 52344--52466 Score: 246
Period size: 61 Copynumber: 2.0 Consensus size: 61
52334 ATCCTTCGGG
52344 ACGAATACTGAACTAAGGTTCGGTGCCCCATGAGGGAATTGATACGAGCTGTGGTGACAGC
1 ACGAATACTGAACTAAGGTTCGGTGCCCCATGAGGGAATTGATACGAGCTGTGGTGACAGC
52405 ACGAATACTGAACTAAGGTTCGGTGCCCCATGAGGGAATTGATACGAGCTGTGGTGACAGC
1 ACGAATACTGAACTAAGGTTCGGTGCCCCATGAGGGAATTGATACGAGCTGTGGTGACAGC
52466 A
1 A
52467 TTAGTACAGA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.28, C:0.20, G:0.31, T:0.21
Consensus pattern (61 bp):
ACGAATACTGAACTAAGGTTCGGTGCCCCATGAGGGAATTGATACGAGCTGTGGTGACAGC
Found at i:55363 original size:7 final size:7
Alignment explanation
Indices: 55351--55380 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
55341 ATGGTCTTTC
55351 TTTAAAA
1 TTTAAAA
55358 TTTAAAA
1 TTTAAAA
55365 TTTAAAA
1 TTTAAAA
55372 TTTAAAA
1 TTTAAAA
55379 TT
1 TT
55381 GTACCTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
TTTAAAA
Found at i:60146 original size:19 final size:18
Alignment explanation
Indices: 60124--60165 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
60114 GAAGTTTTGT
60124 TTTTCTTTCATCT-TTTTAC
1 TTTTCTTTCAT-TATTTT-C
60143 TTTTCTTTCATTATTTTC
1 TTTTCTTTCATTATTTTC
60161 TTTTC
1 TTTTC
60166 ACAATGCTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.10, C:0.19, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTCTTTCATTATTTTC
Found at i:61139 original size:26 final size:24
Alignment explanation
Indices: 61098--61147 Score: 82
Period size: 26 Copynumber: 2.0 Consensus size: 24
61088 ATCACGTGAC
61098 AAAAACAAACAATGAAGAGTTGGT
1 AAAAACAAACAATGAAGAGTTGGT
61122 AAAAACAAGCACAATGAAGAGTTGGT
1 AAAAACAA--ACAATGAAGAGTTGGT
61148 GATGTATACA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 8 0.33
26 16 0.67
ACGTcount: A:0.52, C:0.10, G:0.22, T:0.16
Consensus pattern (24 bp):
AAAAACAAACAATGAAGAGTTGGT
Found at i:64216 original size:20 final size:20
Alignment explanation
Indices: 64187--64319 Score: 67
Period size: 20 Copynumber: 6.7 Consensus size: 20
64177 AACGATATCT
64187 CAAATTCGCAACACGAATTC
1 CAAATTCGCAACACGAATTC
* * *
64207 CAATTTCGCAACTC-AGTTTC
1 CAAATTCGCAACACGA-ATTC
* *** *
64227 CAATTTCGCGTTACGATTTTC
1 CAAATTCGCAACACGA-ATTC
* *
64248 CAAATTCGCAACGCGAAAGT-
1 CAAATTCGCAACACG-AATTC
* * *
64268 CAAATTCACAAC-TGAATTT
1 CAAATTCGCAACACGAATTC
*
64287 CAAATTCGCAACGCGAATT-
1 CAAATTCGCAACACGAATTC
* *
64306 TAATTTCGCAACAC
1 CAAATTCGCAACAC
64320 AAATGTTTTG
Statistics
Matches: 85, Mismatches: 23, Indels: 11
0.71 0.19 0.09
Matches are distributed among these distances:
18 3 0.04
19 24 0.28
20 41 0.48
21 16 0.19
22 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.28
Consensus pattern (20 bp):
CAAATTCGCAACACGAATTC
Found at i:69038 original size:3 final size:3
Alignment explanation
Indices: 69032--69092 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
69022 AGACAACAAT
69032 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
69080 ATA ATA ATA ATA A
1 ATA ATA ATA ATA A
69093 CAGATGGGGT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:69741 original size:182 final size:182
Alignment explanation
Indices: 69391--70172 Score: 1070
Period size: 182 Copynumber: 4.3 Consensus size: 182
69381 GATACAAATA
* * * * *
69391 AAAAATGTATCGATCCATAGCAATATAACAGGTTAAAATATGATAAAACCGGTTTC-ATTATGA-
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGA-AATGAC
* * * * * **
69454 AAGAACCGGTAAAGTGGTACCAGATATGTTGAAAGTATCGATTAGATTGAA-ATAAGTATAAACA
65 AA-AACCGGTAAAGTGCTACCGGATATGTTGAAAGTGTCGA-TA-CTTTAATATAAGTATCGACA
* *
69518 CTTTTGGAATTTAAAAGAGAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTTAA
127 CGTTTGGAATTTAAAAGAGAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTTAT
* * *
69574 AAAAATGTATCGATCCATAACAATATAACAGGCAAAAATATGACAAAATCGGTATCGAAATGACA
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACA
* * *
69639 AAACCGGTAAAGTGCTATCGGATATATTGAAAGTGTCGATATTTTAATATAAGTATCGACACGTT
66 AAACCGGTAAAGTGCTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACGTT
* ** *
69704 TGGAATTTAAAAGAGAATCAGTAATAGCGTTTATAAAGTGTCGATAGTTTAT
131 TGGAATTTAAAAGAGAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTTAT
* * *
69756 AAAAATGTATCGATCCATAATAATATAATAGGTAAAAATATGACAAAACCGGTCTTGAAATGACA
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACA
* *
69821 AAACCGGTAAAGAGCTACCGGATATGTTGAACA-TGTCGATACTTTAATATAAGTATGGACA-GT
66 AAACCGGTAAAGTGCTACCGGATATGTTGAA-AGTGTCGATACTTTAATATAAGTATCGACACG-
* * * *
69884 TTTGGAATTTAAAAGAGAAGCAATTATAGCGCATATAAAGTGTCGATATTTTAT
129 TTTGGAATTTAAAAGAGAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTTAT
* *
69938 AAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAAACCGATCTCGAAATGACA
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACA
* * ** * *
70003 AAGCGGGTAAAACGCTACCGAATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACCTT
66 AAACCGGTAAAGTGCTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACGTT
* * * *
70068 TGGAATTAAAAAGAGAAGCATTAATACCACCTATAAAGTGTCGATACTTTAT
131 TGGAATTTAAAAGAGAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTTAT
70120 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGT
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGT
70173 TAAGCGCTAC
Statistics
Matches: 532, Mismatches: 60, Indels: 15
0.88 0.10 0.02
Matches are distributed among these distances:
181 6 0.01
182 435 0.82
183 88 0.17
184 3 0.01
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (182 bp):
AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACA
AAACCGGTAAAGTGCTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACGTT
TGGAATTTAAAAGAGAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTTAT
Found at i:72077 original size:20 final size:21
Alignment explanation
Indices: 72038--72077 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
72028 CAGTCTGAAT
72038 GCTGAACGGTTCAACATTCAAC
1 GCTGAACGGTTC-ACATTCAAC
*
72060 GCTGAATGGTTC-CATTCA
1 GCTGAACGGTTCACATTCA
72078 GAGCCAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
22 11 0.65
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (21 bp):
GCTGAACGGTTCACATTCAAC
Found at i:73089 original size:66 final size:66
Alignment explanation
Indices: 72960--73089 Score: 163
Period size: 66 Copynumber: 2.0 Consensus size: 66
72950 GGGGGAAGTT
* *
72960 GGTGGAAAAATAGATGAAGTGGTGAAAGAAGATTTGGAGTTGAAGGGTGAAGTTAAGATGGTGAT
1 GGTGGAAAAATAGATGAAGTGGTGAAAGAAGATTTGGAGTTGAAGGGTGAACTTAAGAGGGTGAT
73025 G
66 G
* * * * * * *
73026 GGTGGAAAAATTGATGGAGTGGTGAAGGAAG-TTGTGGATTTGAGGGGTGAACTTACGGGGGTGA
1 GGTGGAAAAATAGATGAAGTGGTGAAAGAAGATT-TGGAGTTGAAGGGTGAACTTAAGAGGGTGA
73090 AGAGAGTGGT
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
65 2 0.04
66 52 0.96
ACGTcount: A:0.32, C:0.02, G:0.42, T:0.25
Consensus pattern (66 bp):
GGTGGAAAAATAGATGAAGTGGTGAAAGAAGATTTGGAGTTGAAGGGTGAACTTAAGAGGGTGAT
G
Found at i:73217 original size:18 final size:18
Alignment explanation
Indices: 73194--73229 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
73184 GAAAAAATAT
73194 GAAGAAGAAAAGATGGAG
1 GAAGAAGAAAAGATGGAG
73212 GAAGAAGAAAAGATGGAG
1 GAAGAAGAAAAGATGGAG
73230 AAAGGAGGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.39, T:0.06
Consensus pattern (18 bp):
GAAGAAGAAAAGATGGAG
Found at i:76564 original size:200 final size:196
Alignment explanation
Indices: 76145--76635 Score: 625
Period size: 200 Copynumber: 2.5 Consensus size: 196
76135 GTAAACATAT
* * * *
76145 GTGTCAATACATTTTTTAAAAGTATCGACCCCAAAAACATCGAAACCAATAATTATAATATAATA
1 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATATAATA
* * * *
76210 TGTAAATTAACAATGTCACCGATAT-AATATACCAGTTAATTAAAAACATGTCAACATAATGTAT
66 AGTAAATTTACAATGTAACCGATATAAATATACCAGTTAATGAAAAACATGTCAACATAATGTAT
* * * * *
76274 CAACTTGTGGAATTTGTGTCGATATTATTGTCCATAATGAATGCCCAAACGATGTGCACACCTAA
131 CAACTTGTGAAATTTATGTCGATATTATTGTCCAGAATGAATGCCCAAACGAAGTGCACACATAA
76339 A
196 A
* *
76340 GTGTCGATACATTTATTAAAAGTATCTATCCCAAAAATATCGAAACCGATAATTATAATATAATA
1 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATATAATA
* * * *
76405 AGTAAATTTACAATGTAACCGATATAAATATACTAGTTTTATGAGAGAATATGTCAACATAATGT
66 AGTAAATTTACAATGTAACCGATATAAATATACCAG-TTAATGA-AAAACATGTCAACATAATGT
* *
76470 ATCGACACTTTTTAAATTTATGTCGATACATT-TTGTCCAGAATGAATG-CCAAACGAAGTGCAC
129 ATC-A-ACTTGTGAAATTTATGTCGAT--ATTATTGTCCAGAATGAATGCCCAAACGAAGTGCAC
*
76533 ACATTAA
190 ACATAAA
** * *
76540 GTGTCGATACATTTATTAAAAGTATCGATCAAAAAAACGTCGAAACCGATAATTATAATGTAAT-
1 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATATAATA
* * *
76604 A--AAATTTATAATGTTACCGGTATAAATATACC
66 AGTAAATTTACAATGTAACCGATATAAATATACC
76636 GTTTAATTAG
Statistics
Matches: 257, Mismatches: 32, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
195 81 0.32
196 9 0.04
197 32 0.12
198 21 0.08
199 2 0.01
200 94 0.37
201 15 0.06
202 3 0.01
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (196 bp):
GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATATAATA
AGTAAATTTACAATGTAACCGATATAAATATACCAGTTAATGAAAAACATGTCAACATAATGTAT
CAACTTGTGAAATTTATGTCGATATTATTGTCCAGAATGAATGCCCAAACGAAGTGCACACATAA
A
Found at i:76917 original size:15 final size:15
Alignment explanation
Indices: 76897--76926 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
76887 ATATCCACTA
76897 ACATTGTACTTTAGC
1 ACATTGTACTTTAGC
76912 ACATTGTACTTTAGC
1 ACATTGTACTTTAGC
76927 TGTTCTCTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (15 bp):
ACATTGTACTTTAGC
Found at i:82986 original size:106 final size:109
Alignment explanation
Indices: 82872--83087 Score: 411
Period size: 108 Copynumber: 2.0 Consensus size: 109
82862 CTCCAATCTC
82872 TCTCTCTCTCTTTAAAGTGTATGTTGTGC-AAAGGCACCTCTG-TTTGTTTTCTTTTACTTTGAT
1 TCTCTCTCTCTTTAAAGTGTATGTTGTGCAAAAGGCACCTCTGTTTTGTTTTCTTTTACTTTGAT
82935 CACTAATTTTTTTTT-TATTAGATTTTTTATGATACTAGATTTA
66 CACTAATTTTTTTTTCTATTAGATTTTTTATGATACTAGATTTA
82978 TCTCTCTCTCTTTAAAGTGTATGTTGTGCAAAAGGCACCTCTGTTTTGTTTTCTTTTACTTTGAT
1 TCTCTCTCTCTTTAAAGTGTATGTTGTGCAAAAGGCACCTCTGTTTTGTTTTCTTTTACTTTGAT
83043 CACTAATTTTTTTTTCTATTAGATTTTTTATGATACTAGATTTA
66 CACTAATTTTTTTTTCTATTAGATTTTTTATGATACTAGATTTA
83087 T
1 T
83088 AAGTCAAAAC
Statistics
Matches: 107, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
106 29 0.27
107 13 0.12
108 36 0.34
109 29 0.27
ACGTcount: A:0.21, C:0.14, G:0.12, T:0.53
Consensus pattern (109 bp):
TCTCTCTCTCTTTAAAGTGTATGTTGTGCAAAAGGCACCTCTGTTTTGTTTTCTTTTACTTTGAT
CACTAATTTTTTTTTCTATTAGATTTTTTATGATACTAGATTTA
Found at i:83474 original size:12 final size:11
Alignment explanation
Indices: 83457--83492 Score: 56
Period size: 10 Copynumber: 3.3 Consensus size: 11
83447 TGCGAAAATA
83457 ACCACGACCACG
1 ACCACGACC-CG
83469 ACCACGACCCG
1 ACCACGACCCG
83480 ACC-CGACCCG
1 ACCACGACCCG
83490 ACC
1 ACC
83493 CGAGAGGACG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 10 0.42
11 5 0.21
12 9 0.38
ACGTcount: A:0.28, C:0.56, G:0.17, T:0.00
Consensus pattern (11 bp):
ACCACGACCCG
Found at i:83483 original size:5 final size:5
Alignment explanation
Indices: 83461--83495 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
83451 AAAATAACCA
83461 CGACC ACGACC ACGACC CGACC CGACC CGACC CGA
1 CGACC -CGACC -CGACC CGACC CGACC CGACC CGA
83496 GAGGACGGCG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 18 0.62
6 11 0.38
ACGTcount: A:0.26, C:0.54, G:0.20, T:0.00
Consensus pattern (5 bp):
CGACC
Found at i:83977 original size:5 final size:5
Alignment explanation
Indices: 83963--83993 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
83953 CCGCCGCCGC
83963 CGTC- CGTCT CGTCT CGTCT CGTCT CGTCT CG
1 CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT CG
83994 GGTCGGGTCG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.00, C:0.42, G:0.23, T:0.35
Consensus pattern (5 bp):
CGTCT
Found at i:84009 original size:20 final size:21
Alignment explanation
Indices: 83986--84024 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
83976 TCGTCTCGTC
83986 TCGTCTCGGGTCG-GGTCGGG
1 TCGTCTCGGGTCGTGGTCGGG
84006 TCGTCTCGGGTCGTGGTCG
1 TCGTCTCGGGTCGTGGTCG
84025 TGGTAATACG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.00, C:0.26, G:0.46, T:0.28
Consensus pattern (21 bp):
TCGTCTCGGGTCGTGGTCGGG
Found at i:84016 original size:15 final size:16
Alignment explanation
Indices: 83996--84025 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
83986 TCGTCTCGGG
83996 TCGGGTCG-GGTCGTC
1 TCGGGTCGTGGTCGTC
84011 TCGGGTCGTGGTCGT
1 TCGGGTCGTGGTCGT
84026 GGTAATACGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.00, C:0.23, G:0.47, T:0.30
Consensus pattern (16 bp):
TCGGGTCGTGGTCGTC
Found at i:84126 original size:22 final size:22
Alignment explanation
Indices: 84093--84149 Score: 96
Period size: 22 Copynumber: 2.6 Consensus size: 22
84083 TTTTTTTTTA
*
84093 ACTACCGCAACGACAACTGTAG
1 ACTATCGCAACGACAACTGTAG
*
84115 ACTTTCGCAACGACAACTGTAG
1 ACTATCGCAACGACAACTGTAG
84137 ACTATCGCAACGA
1 ACTATCGCAACGA
84150 ATTTGGAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.35, C:0.30, G:0.18, T:0.18
Consensus pattern (22 bp):
ACTATCGCAACGACAACTGTAG
Found at i:87764 original size:23 final size:23
Alignment explanation
Indices: 87738--87794 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
87728 CTCGTATAAA
*
87738 TGCACCTAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
* *
87761 TGCATCGAAGTGCCGCGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
87784 TGCACCGAAGT
1 TGCACCGAAGT
87795 TCCATATAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.28, C:0.25, G:0.26, T:0.21
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:93956 original size:28 final size:31
Alignment explanation
Indices: 93899--93957 Score: 97
Period size: 28 Copynumber: 2.0 Consensus size: 31
93889 ACATTTAAGG
93899 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
93930 CAAAAT-G-TTTTGGACTT-AATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
93958 TTCAAAGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 11 0.39
29 10 0.36
30 1 0.04
31 6 0.21
ACGTcount: A:0.34, C:0.07, G:0.17, T:0.42
Consensus pattern (31 bp):
CAAAATGGTTTTTGGACTTGAATTGAATTTA
Found at i:94126 original size:20 final size:20
Alignment explanation
Indices: 94101--94174 Score: 96
Period size: 20 Copynumber: 3.6 Consensus size: 20
94091 AATGCAATTA
*
94101 GTGCATCGATGCATCCTTCT
1 GTGCATCGATGCATCCTACT
*
94121 GTGCATCGATGCAT-CAAGGCT
1 GTGCATCGATGCATCCTA--CT
94142 GTGCATCGATGCATCCTACT
1 GTGCATCGATGCATCCTACT
*
94162 GTGCATCCATGCA
1 GTGCATCGATGCA
94175 CGAAGGCTGC
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
19 1 0.02
20 28 0.60
21 16 0.34
22 2 0.04
ACGTcount: A:0.20, C:0.28, G:0.23, T:0.28
Consensus pattern (20 bp):
GTGCATCGATGCATCCTACT
Found at i:94145 original size:21 final size:20
Alignment explanation
Indices: 94101--94156 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 20
94091 AATGCAATTA
***
94101 GTGCATCGATGCATCCTTCT
1 GTGCATCGATGCATCAGGCT
94121 GTGCATCGATGCATCAAGGCT
1 GTGCATCGATGCATC-AGGCT
94142 GTGCATCGATGCATC
1 GTGCATCGATGCATC
94157 CTACTGTGCA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 15 0.47
21 17 0.53
ACGTcount: A:0.20, C:0.27, G:0.25, T:0.29
Consensus pattern (20 bp):
GTGCATCGATGCATCAGGCT
Found at i:94149 original size:41 final size:41
Alignment explanation
Indices: 94101--94183 Score: 132
Period size: 41 Copynumber: 2.0 Consensus size: 41
94091 AATGCAATTA
* *
94101 GTGCATCGATGCATCCTTCTGTGCATCGATGCATC-AAGGCT
1 GTGCATCGATGCATCCTACTGTGCATCCATGCA-CGAAGGCT
94142 GTGCATCGATGCATCCTACTGTGCATCCATGCACGAAGGCT
1 GTGCATCGATGCATCCTACTGTGCATCCATGCACGAAGGCT
94183 G
1 G
94184 CAACGGCTAG
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
40 1 0.03
41 38 0.97
ACGTcount: A:0.20, C:0.28, G:0.25, T:0.27
Consensus pattern (41 bp):
GTGCATCGATGCATCCTACTGTGCATCCATGCACGAAGGCT
Found at i:94317 original size:20 final size:21
Alignment explanation
Indices: 94287--94325 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
94277 TTTGAGTAGA
94287 AAAATCATCCCAAATGGCTCC
1 AAAATCATCCCAAATGGCTCC
*
94308 AAAA-CATCCCCAATGGCT
1 AAAATCATCCCAAATGGCT
94326 ATATACAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.38, C:0.33, G:0.10, T:0.18
Consensus pattern (21 bp):
AAAATCATCCCAAATGGCTCC
Found at i:95622 original size:15 final size:15
Alignment explanation
Indices: 95592--95637 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
95582 ACACTTGAAG
*
95592 AAGAAG-AAAAAGAA
1 AAGAAGCAAAGAGAA
95606 AAGAAGCAAAGAGAA
1 AAGAAGCAAAGAGAA
95621 AATGAA-CAAAGA-AA
1 AA-GAAGCAAAGAGAA
95635 AAG
1 AAG
95638 GGACAGAAGC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
13 1 0.03
14 10 0.34
15 15 0.52
16 3 0.10
ACGTcount: A:0.72, C:0.04, G:0.22, T:0.02
Consensus pattern (15 bp):
AAGAAGCAAAGAGAA
Found at i:96578 original size:21 final size:21
Alignment explanation
Indices: 96552--96600 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
96542 AGGAACCGTG
96552 TCATCACCCGACCTGATCTCC
1 TCATCACCCGACCTGATCTCC
*
96573 TCATCACTCGACCTGATCTCC
1 TCATCACCCGACCTGATCTCC
96594 TCATCAC
1 TCATCAC
96601 GTAGGATCCG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.20, C:0.45, G:0.08, T:0.27
Consensus pattern (21 bp):
TCATCACCCGACCTGATCTCC
Found at i:96830 original size:126 final size:128
Alignment explanation
Indices: 96608--96910 Score: 405
Period size: 126 Copynumber: 2.4 Consensus size: 128
96598 CACGTAGGAT
*
96608 CCGTGTCAACCCCAGATAACCAACCATCCTCATCACGTAGGAACCGTGTTATTATCCTTAGATGG
1 CCGTGTCAA-CCCAGATAACCAACCATCCTCATCACGTAGGAACCGTGTTATTAACCTTAGATGG
* * * *
96673 TCTGTCGTCCTCATCACGTAGGAAACATGTCATC-ACCCACCAGAT-TTCCTCATTATGTAGGAG
65 CCTATCGTCCTCATCACATAGGAAACATGTCATCAACCCACCAGATCTT-CTCATTATGTAAGAG
** *
96736 TTGTGTCAACCCAGATAACCAACC-TCCTCATCACATAGGAACCGTGTTATTAACCTTAGATGGC
1 CCGTGTCAACCCAGATAACCAACCATCCTCATCACGTAGGAACCGTGTTATTAACCTTAGATGGC
* *** *** *
96800 CTATCGTCCTCATCACATATGAATTGTGTCATCAACTGGCCATATCTTCTCATTATGTAAGAG
66 CTATCGTCCTCATCACATAGGAAACATGTCATCAACCCACCAGATCTTCTCATTATGTAAGAG
* *
96863 CCATGTCAACCCAGATAGCCAACCATCCTCATCACGTAGGAACCGTGT
1 CCGTGTCAACCCAGATAACCAACCATCCTCATCACGTAGGAACCGTGT
96911 CATCACCCGA
Statistics
Matches: 151, Mismatches: 21, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
126 64 0.42
127 56 0.37
128 31 0.21
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (128 bp):
CCGTGTCAACCCAGATAACCAACCATCCTCATCACGTAGGAACCGTGTTATTAACCTTAGATGGC
CTATCGTCCTCATCACATAGGAAACATGTCATCAACCCACCAGATCTTCTCATTATGTAAGAG
Found at i:97042 original size:211 final size:208
Alignment explanation
Indices: 96679--97129 Score: 484
Period size: 211 Copynumber: 2.2 Consensus size: 208
96669 ATGGTCTGTC
* * *
96679 GTCCTCATCACGTAGGAAACATGTCATCACCCACCAGATTTCCTCATTATGTAGGAGTTGTGTCA
1 GTCCTCATCACGTAGGAACCGTGTCATCACCCACCAGATCTCCTCATTATGTAGGAGTTGTGTCA
* *
96744 ACCCAGATAACCAACCTCCTCATCACATAGGAACCGTGTTATTAACCTTAGATGGCCTATCGTCC
66 ACCCAGATAACCAAACTCCTCATCACATAGGAACCGTGTTATTAACCTTAGATGGCCTAACGTCC
* *
96809 TCATCACATATGAATTGTGTCATCA-ACTGGCCATATCTT-CTCATTATGTAAGAGCCATGTCAA
131 TCATCACATATGAATTGTGTCATCACACT-ACCAGAT-TTCCTCATTATGTAAGAGCCATGTCAA
*
96872 CCCAGATAGCCAACCA
194 CCCAGATAACC-ACCA
* * *
96888 -TCCTCATCACGTAGGAACCGTGTCATCACCCGATCTGATCTCTTCATTATGTAGGAGTTGTGTC
1 GTCCTCATCACGTAGGAACCGTGTCATCACCC-ACCAGATCTCCTCATTATGTAGGAGTTGTGTC
* * * * * **
96952 AA-TCATTGATAATCAGAACTCTTCATCACGTATGAGTCGTGTTATT-ACCTTTAGATGGCCATA
65 AACCCA--GATAACCA-AACTCCTCATCACATAGGAACCGTGTTATTAACC-TTAGATGGCC-TA
* * * * * * **
97015 AC-TCTTCATTACGTATG-ATTCGTGTCATCACCCTACTAGATTTCCTCATTATGTAGGAGTTAT
125 ACGTCCTCATCACATATGAATT-GTGTCATCACACTACCAGATTTCCTCATTATGTAAGAGCCAT
* **
97078 GTCAACCTAGATAACCAGTA
189 GTCAACCCAGATAACCACCA
* *
97098 GTCCTCATCACGTAGGAACCGAGTTATCACCC
1 GTCCTCATCACGTAGGAACCGTGTCATCACCC
97130 TTCCTAAAGA
Statistics
Matches: 201, Mismatches: 31, Indels: 18
0.80 0.12 0.07
Matches are distributed among these distances:
208 31 0.15
209 30 0.15
210 17 0.08
211 118 0.59
212 5 0.02
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.30
Consensus pattern (208 bp):
GTCCTCATCACGTAGGAACCGTGTCATCACCCACCAGATCTCCTCATTATGTAGGAGTTGTGTCA
ACCCAGATAACCAAACTCCTCATCACATAGGAACCGTGTTATTAACCTTAGATGGCCTAACGTCC
TCATCACATATGAATTGTGTCATCACACTACCAGATTTCCTCATTATGTAAGAGCCATGTCAACC
CAGATAACCACCA
Found at i:97176 original size:134 final size:127
Alignment explanation
Indices: 96891--97218 Score: 309
Period size: 134 Copynumber: 2.5 Consensus size: 127
96881 CCAACCATCC
* * * *
96891 TCATCACGTAGGAACCGTGTCATCACCCGATCT-GATCTCTTCATTATGTAGGAGTTGTGTCAAT
1 TCATCACGTATGAA-CGTGTCATCACCCTA-CTAGATTTCCTCATTATGTAGGAGTTGTGTCAA-
* * * * * ** * * *
96955 CATTGATAATCAGAACTCTTCATCACGTATGAGTCGTGTTATTACCTTTAGATGGCCATAACTCT
63 CCTAGATAACCAGAACTCCTCATCACGTAGGAACCGAGTTATCACCTTTAGATGGCCAGAACTCT
* * *
97020 TCATTACGTATGATTCGTGTCATCACCCTACTAGATTTCCTCATTATGTAGGAGTTATGTCAACC
1 TCATCACGTATGA-ACGTGTCATCACCCTACTAGATTTCCTCATTATGTAGGAGTTGTGTCAACC
* *
97085 TAGATAACCAGTAGTCCTCATCACGTAGGAACCGAGTTATCACCCTTCCTAAAGATGGCCAAGAA
65 TAGATAACCAGAACTCCTCATCACGTAGGAACCGAGTTATCA-CCTT--T--AGATGGCC-AGAA
97150 CTCT
124 CTCT
* * * * * *
97154 TCATCACGTATGAGCAGTGTCATC-CCCTAACTAGGTTTTCTTATTATGTAGAAGTCGTGTCAAC
1 TCATCACGTATGAAC-GTGTCATCACCCT-ACTAGATTTCCTCATTATGTAGGAGTTGTGTCAAC
97218 C
64 C
97219 CTTAAACGAC
Statistics
Matches: 162, Mismatches: 27, Indels: 15
0.79 0.13 0.07
Matches are distributed among these distances:
128 35 0.22
129 56 0.35
131 1 0.01
133 13 0.08
134 57 0.35
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (127 bp):
TCATCACGTATGAACGTGTCATCACCCTACTAGATTTCCTCATTATGTAGGAGTTGTGTCAACCT
AGATAACCAGAACTCCTCATCACGTAGGAACCGAGTTATCACCTTTAGATGGCCAGAACTCT
Found at i:98893 original size:29 final size:30
Alignment explanation
Indices: 98851--98924 Score: 71
Period size: 29 Copynumber: 2.4 Consensus size: 30
98841 AGTTGATATA
* *
98851 TTTTTTACTATTTAACT-CTTTAAGTTTCTAT
1 TTTTTTA-T-TTTAACTCCTTTAAATGTCTAT
* *
98882 TTTTTTATTTT-AGTCCTTTAAATGTCTGT
1 TTTTTTATTTTAACTCCTTTAAATGTCTAT
98911 TTTTATTATTTTAA
1 TTTT-TTATTTTAA
98925 TAATTTAACT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
28 2 0.06
29 18 0.50
30 8 0.22
31 8 0.22
ACGTcount: A:0.22, C:0.09, G:0.05, T:0.64
Consensus pattern (30 bp):
TTTTTTATTTTAACTCCTTTAAATGTCTAT
Found at i:98922 original size:30 final size:30
Alignment explanation
Indices: 98881--98968 Score: 95
Period size: 30 Copynumber: 2.9 Consensus size: 30
98871 TAAGTTTCTA
*
98881 TTTTTTTATTTTAGTCCTTTAAATGTCTGT
1 TTTTTTTATTTTAGTACTTTAAATGTCTGT
* * * * * *
98911 TTTTATTATTTTAATAATTTAACTTTTTGT
1 TTTTTTTATTTTAGTACTTTAAATGTCTGT
98941 TATTTTGTTATTTTAGTACTTTAAATGT
1 T-TTTT-TTATTTTAGTACTTTAAATGT
98969 TTATTAATAT
Statistics
Matches: 44, Mismatches: 12, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
30 24 0.55
31 3 0.07
32 17 0.39
ACGTcount: A:0.23, C:0.06, G:0.08, T:0.64
Consensus pattern (30 bp):
TTTTTTTATTTTAGTACTTTAAATGTCTGT
Found at i:99163 original size:30 final size:30
Alignment explanation
Indices: 99025--99166 Score: 105
Period size: 30 Copynumber: 4.8 Consensus size: 30
99015 AAAACTTAAA
* *
99025 AAATTT-TGTTTTTTCTATTTTAGTCTTTT
1 AAATTTCTATTTTTGCTATTTTAGTCTTTT
* * **
99054 AAATTTC-ATTTTGTGATA-TTTGGTCTTCA
1 AAATTTCTATTTT-TGCTATTTTAGTCTTTT
** *
99083 AAATTTCTATTTTTTAATATTCTAG-CTTTTT
1 AAATTTCTA-TTTTTGCTATTTTAGTC-TTTT
* *
99114 AAATTTTTGTTTGTT-CTATTTTAGTCTTTT
1 AAATTTCTATTT-TTGCTATTTTAGTCTTTT
*
99144 AATTTTCTATTTTTGCTATTTTA
1 AAATTTCTATTTTTGCTATTTTA
99167 ATACTTAAAG
Statistics
Matches: 86, Mismatches: 18, Indels: 17
0.71 0.15 0.14
Matches are distributed among these distances:
29 27 0.31
30 40 0.47
31 19 0.22
ACGTcount: A:0.21, C:0.08, G:0.08, T:0.63
Consensus pattern (30 bp):
AAATTTCTATTTTTGCTATTTTAGTCTTTT
Found at i:99165 original size:22 final size:21
Alignment explanation
Indices: 99127--99168 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
99117 TTTTTGTTTG
*
99127 TTCTATTTTAGTCTTTTAATT
1 TTCTATTTTAGTATTTTAATT
*
99148 TTCTATTTTTGCTATTTTAAT
1 TTCTATTTTAG-TATTTTAAT
99169 ACTTAAAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.19, C:0.10, G:0.05, T:0.67
Consensus pattern (21 bp):
TTCTATTTTAGTATTTTAATT
Found at i:107442 original size:20 final size:20
Alignment explanation
Indices: 107406--107443 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
107396 ATCCTATTCT
**
107406 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
107426 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
107444 GTGAACCAAA
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:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:108956 original size:16 final size:16
Alignment explanation
Indices: 108935--108966 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
108925 ATATATTTTT
108935 ATTTTTTAGTAATTTA
1 ATTTTTTAGTAATTTA
*
108951 ATTTTTTAGTATTTTA
1 ATTTTTTAGTAATTTA
108967 TTATATTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (16 bp):
ATTTTTTAGTAATTTA
Found at i:108965 original size:24 final size:23
Alignment explanation
Indices: 108930--108982 Score: 54
Period size: 24 Copynumber: 2.3 Consensus size: 23
108920 ATAGCATATA
* *
108930 TTTTTATTTTTTAGTAAT-TTAAT
1 TTTTTATATTTTAGT-ATATTTAT
*
108953 TTTTTAGTATTTTATTATATTTAT
1 TTTTTA-TATTTTAGTATATTTAT
108977 TTTTTA
1 TTTTTA
108983 AATAATTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 8 0.32
24 17 0.68
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.72
Consensus pattern (23 bp):
TTTTTATATTTTAGTATATTTAT
Found at i:119205 original size:21 final size:21
Alignment explanation
Indices: 119159--119214 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
119149 GATTCTGACT
119159 ATCGCATTGCGA-TTTCCCAA
1 ATCGCATTGCGATTTTCCCAA
* *
119179 ATTCGCGTTGCGATTTTCCTAA
1 A-TCGCATTGCGATTTTCCCAA
*
119201 ATCGCAATGCGATT
1 ATCGCATTGCGATT
119215 ACGTAAATCG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 1 0.03
21 21 0.70
22 8 0.27
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (21 bp):
ATCGCATTGCGATTTTCCCAA
Found at i:119223 original size:20 final size:20
Alignment explanation
Indices: 119198--119274 Score: 145
Period size: 20 Copynumber: 3.9 Consensus size: 20
119188 GCGATTTTCC
*
119198 TAAATCGCAATGCGATTACG
1 TAAATCGCAATGCGAATACG
119218 TAAATCGCAATGCGAATACG
1 TAAATCGCAATGCGAATACG
119238 TAAATCGCAATGCGAATACG
1 TAAATCGCAATGCGAATACG
119258 TAAATCGCAATGCGAAT
1 TAAATCGCAATGCGAAT
119275 CTGACTATCG
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 56 1.00
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.22
Consensus pattern (20 bp):
TAAATCGCAATGCGAATACG
Found at i:119497 original size:22 final size:22
Alignment explanation
Indices: 119472--119537 Score: 96
Period size: 22 Copynumber: 3.0 Consensus size: 22
119462 GGCGACATCC
119472 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
* *
119494 GTCCCCATCGCCGACGATATCA
1 GTCCCCATCTCCGACGAAATCA
* *
119516 GTCTCCATCTCCGGCGAAATCA
1 GTCCCCATCTCCGACGAAATCA
119538 TTCACGATCA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.24, C:0.39, G:0.17, T:0.20
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:119930 original size:20 final size:20
Alignment explanation
Indices: 119905--119954 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
119895 TGCGATTCTT
119905 GCGTTGCGATAGTCAAATTC
1 GCGTTGCGATAGTCAAATTC
**
119925 GCGTTGCGATAGTCATTTTC
1 GCGTTGCGATAGTCAAATTC
*
119945 GTGTTGCGAT
1 GCGTTGCGAT
119955 TTTCATTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.18, C:0.18, G:0.28, T:0.36
Consensus pattern (20 bp):
GCGTTGCGATAGTCAAATTC
Found at i:119960 original size:20 final size:20
Alignment explanation
Indices: 119922--119976 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
119912 GATAGTCAAA
* **
119922 TTCGCGTTGCGATAGTCATT
1 TTCGTGTTGCGATTTTCATT
119942 TTCGTGTTGCGATTTTCATT
1 TTCGTGTTGCGATTTTCATT
119962 TTCGTGTTGCGATTT
1 TTCGTGTTGCGATTT
119977 AAAGTTTCAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.11, C:0.16, G:0.24, T:0.49
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTCATT
Found at i:119984 original size:20 final size:20
Alignment explanation
Indices: 119941--119984 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
119931 CGATAGTCAT
** *
119941 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTAAAG
119961 TTTCGTGTTGCGATTTAAAG
1 TTTCGTGTTGCGATTTAAAG
119981 TTTC
1 TTTC
119985 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.20, T:0.52
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTAAAG
Found at i:121877 original size:20 final size:20
Alignment explanation
Indices: 121852--121990 Score: 99
Period size: 20 Copynumber: 7.6 Consensus size: 20
121842 AGAATAGTTT
121852 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
* *
121872 ACTATCGCAACGCGAAAACG
1 ACTATCGCAATGCGAAAATG
*
121892 ACTATCGCAA--CG-AGA-G
1 ACTATCGCAATGCGAAAATG
121908 A--ATCGCAATGCG-AAATG
1 ACTATCGCAATGCGAAAATG
**
121925 AAAATCGCAA--C-AACAA--
1 ACTATCGCAATGCGAA-AATG
121941 A--ATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
* **
121959 ACTATCGCAATACGAATTTG
1 ACTATCGCAATGCGAAAATG
121979 ACTATCGCAATG
1 ACTATCGCAATG
121991 AGAGAATCGC
Statistics
Matches: 97, Mismatches: 8, Indels: 28
0.73 0.06 0.21
Matches are distributed among these distances:
14 14 0.14
16 10 0.10
17 8 0.08
18 5 0.05
19 7 0.07
20 53 0.55
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.17
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:122040 original size:87 final size:87
Alignment explanation
Indices: 121855--122020 Score: 278
Period size: 87 Copynumber: 1.9 Consensus size: 87
121845 ATAGTTTACT
*
121855 ATCGCAATGCGAAAATGACTATCGCAACGCGAAAACGACTATCGCAACGAGAGAATCGCAATGCG
1 ATCGCAATGCGAAAATGACTATCGCAACACGAAAACGACTATCGCAACGAGAGAATCGCAATGCG
121920 AAATGAAAATCGCAACAACAAA
66 AAATGAAAATCGCAACAACAAA
* *** *
121942 ATCGCAATGCGAAAATGACTATCGCAATACGAATTTGACTATCGCAATGAGAGAATCGCAATGCG
1 ATCGCAATGCGAAAATGACTATCGCAACACGAAAACGACTATCGCAACGAGAGAATCGCAATGCG
122007 AAATGAAAATCGCA
66 AAATGAAAATCGCA
122021 TTGCGATTCT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 73 1.00
ACGTcount: A:0.43, C:0.21, G:0.20, T:0.16
Consensus pattern (87 bp):
ATCGCAATGCGAAAATGACTATCGCAACACGAAAACGACTATCGCAACGAGAGAATCGCAATGCG
AAATGAAAATCGCAACAACAAA
Found at i:122087 original size:20 final size:20
Alignment explanation
Indices: 122035--122120 Score: 102
Period size: 20 Copynumber: 4.3 Consensus size: 20
122025 GATTCTCTCG
**
122035 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
122055 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
* *
122075 TTGCGATAGTCATTTACGCG
1 TTGCGATAGTCATTTTCGCA
** *
122095 TTGCGATTTTCA-TTTCGCT
1 TTGCGATAGTCATTTTCGCA
122114 TTGCGAT
1 TTGCGAT
122121 TCTCTCGTTG
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
19 12 0.21
20 46 0.79
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.40
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:122573 original size:21 final size:21
Alignment explanation
Indices: 122482--122586 Score: 95
Period size: 21 Copynumber: 5.0 Consensus size: 21
122472 GACTCACCTG
*
122482 TCATCGTTCAAGAGGCCTCCCC
1 TCATCGTTCAAGAGGCC-CCTC
*
122504 T-ATCGTTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTC
** *
122524 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* * * *
122545 CCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCCCTC
* *
122566 TCATCGTTGAAGAGGTCCCTC
1 TCATCGTTCAAGAGGCCCCTC
122587 CCAACATTCT
Statistics
Matches: 63, Mismatches: 19, Indels: 3
0.74 0.22 0.04
Matches are distributed among these distances:
20 3 0.05
21 59 0.94
22 1 0.02
ACGTcount: A:0.21, C:0.37, G:0.19, T:0.23
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:122579 original size:42 final size:42
Alignment explanation
Indices: 122479--122589 Score: 118
Period size: 42 Copynumber: 2.6 Consensus size: 42
122469 CCCGACTCAC
* * * *
122479 CTGTCATCGTTCAAGAGGCCTCC-CCTATCGTTCAAGAGGCCC
1 CTGTCATCGTTCAAGAGTCC-CCTCCCACCGTTCAAGAGGCCA
* **
122521 CTATCATCCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCA
1 CTGTCATCGTTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCA
*
122563 CTGTCATCGTTGAAGAGGT-CCCTCCCA
1 CTGTCATCGTTCAAGA-GTCCCCTCCCA
122590 ACATTCTAGA
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
41 2 0.04
42 52 0.93
43 2 0.04
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.23
Consensus pattern (42 bp):
CTGTCATCGTTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCA
Found at i:123992 original size:14 final size:14
Alignment explanation
Indices: 123973--124008 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
123963 ATTGTTTAAT
123973 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
123987 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
124001 TGATTTGT
1 TGATTTGT
124009 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:124164 original size:33 final size:33
Alignment explanation
Indices: 124114--124242 Score: 195
Period size: 33 Copynumber: 3.8 Consensus size: 33
124104 AAAACAGACT
* ** *
124114 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGTGA
124148 ATCGCAATGCGAAATGAAAATCGCAACGAGTGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGTGA
*
124181 ATCACAATGCGAAATGAAAATCGCAACGAGTGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGTGA
124214 ATCGCAATGCGAAAATGAAAATCGCAACG
1 ATCGCAATGCG-AAATGAAAATCGCAACG
124243 CGAAATTCTC
Statistics
Matches: 88, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
33 62 0.70
34 26 0.30
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGTGA
Found at i:124308 original size:20 final size:20
Alignment explanation
Indices: 124254--124308 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
124244 GAAATTCTCT
*
124254 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
124274 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
124294 TGTTGCGATAGTCAT
1 CGTTGCGATAGTCAT
124309 AGCTCGTTGC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.18, C:0.22, G:0.25, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:125494 original size:201 final size:194
Alignment explanation
Indices: 125130--125526 Score: 715
Period size: 201 Copynumber: 2.0 Consensus size: 194
125120 TTCTTGTAGT
125130 ACCACTGTTGAATAGCTCGAAAAACACCATTAACATAGTAATGGGTAATTTCCGGGAATGACGAC
1 ACCACTGTTGAATAGCTCGAAAAACACCATTAACATAGTAATGGGTAATTTCCGGGAATGACGAC
125195 TTAGAGCGTTGATTGATTCTGCACTATTAGACGTCATGAAACCATATCTTGCTCAAGTTGATGTA
66 TTAGAGCGTTGATTGATTCTGCACTATTAGACGTCATGAAACCATATCTTGCTCAAGTTGATGTA
125260 CTCTTAACCATCTTTCAAACTGACATCTTCTAGTGTGTGAGCACACTGAGGCAAAACACGTCTTA
131 CTCTTAACCATCTTTCAAACTGACATCTTCTA--GTGTGAGCACACTGAGGCAAAACACGTCTTA
125325 A
194 A
125326 ACCACTGTTGAATAGAAGCTCGAAAAAAACACCATTAACATAGTAATGGGTAATTTCCGGGAATG
1 ACCACTGTTGAAT---AGCTCG--AAAAACACCATTAACATAGTAATGGGTAATTTCCGGGAATG
125391 ACGACTTAGAGCGTTGATTGATTCTGCACTATTAGACGTCATGAAACCATATCTTGCTCAAGTTG
61 ACGACTTAGAGCGTTGATTGATTCTGCACTATTAGACGTCATGAAACCATATCTTGCTCAAGTTG
125456 ATGTACTCTTAACCATC-TTCAAACCTGACATCTTCTAGTGTGAGCACACTGAGGCAAAACACGT
126 ATGTACTCTTAACCATCTTTCAAA-CTGACATCTTCTAGTGTGAGCACACTGAGGCAAAACACGT
125520 CTTAA
190 CTTAA
125525 AC
1 AC
125527 AGTTTATATG
Statistics
Matches: 195, Mismatches: 0, Indels: 9
0.96 0.00 0.04
Matches are distributed among these distances:
196 13 0.07
199 40 0.21
200 6 0.03
201 136 0.70
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.28
Consensus pattern (194 bp):
ACCACTGTTGAATAGCTCGAAAAACACCATTAACATAGTAATGGGTAATTTCCGGGAATGACGAC
TTAGAGCGTTGATTGATTCTGCACTATTAGACGTCATGAAACCATATCTTGCTCAAGTTGATGTA
CTCTTAACCATCTTTCAAACTGACATCTTCTAGTGTGAGCACACTGAGGCAAAACACGTCTTAA
Found at i:127782 original size:20 final size:20
Alignment explanation
Indices: 127757--127802 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
127747 AAATTAAGTA
*
127757 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCGCG
127777 TTGCGATAGTCAGAATCGCG
1 TTGCGATAGTCAGAATCGCG
127797 TTGCGA
1 TTGCGA
127803 ATCTGGAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCGCG
Found at i:134373 original size:20 final size:20
Alignment explanation
Indices: 134350--134393 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
134340 TTTCAAATTT
134350 GCAACGCGAATATGTAAATC
1 GCAACGCGAATATGTAAATC
* *
134370 GCAACGCGAATTTGTAATTC
1 GCAACGCGAATATGTAAATC
134390 GCAA
1 GCAA
134394 AGCGCGTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.23
Consensus pattern (20 bp):
GCAACGCGAATATGTAAATC
Found at i:134425 original size:20 final size:20
Alignment explanation
Indices: 134368--134429 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
134358 AATATGTAAA
*
134368 TCGCAACGCGAATTTGTA-AT
1 TCGCAACGCGAATTT-TATTT
* **
134388 TCGCAAAGCG-CGTTTATTT
1 TCGCAACGCGAATTTTATTT
134407 TCGCAACGCGAATTTTATTT
1 TCGCAACGCGAATTTTATTT
134427 TCG
1 TCG
134430 AATTCGAAAC
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
18 2 0.06
19 12 0.36
20 19 0.58
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.35
Consensus pattern (20 bp):
TCGCAACGCGAATTTTATTT
Found at i:136440 original size:42 final size:42
Alignment explanation
Indices: 136374--136472 Score: 144
Period size: 42 Copynumber: 2.4 Consensus size: 42
136364 CCCCCCACTT
* * * *
136374 CGAGAGCCATCACCTGATCAAGCCGATTCTACAGCTCGACAC
1 CGAGAGCCATCACCTGATCAAGCCGATTATACACCTCCACAA
* *
136416 CTAGAGCCATCACCTGATCGAGCCGATTATACACCTCCACAA
1 CGAGAGCCATCACCTGATCAAGCCGATTATACACCTCCACAA
136458 CGAGAGCCATCACCT
1 CGAGAGCCATCACCT
136473 ATTCCATCAC
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.29, C:0.36, G:0.17, T:0.17
Consensus pattern (42 bp):
CGAGAGCCATCACCTGATCAAGCCGATTATACACCTCCACAA
Found at i:137093 original size:21 final size:21
Alignment explanation
Indices: 137067--137116 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
137057 CCCCCTATAT
*
137067 TTCAAGAGGCTCATCCCACCG
1 TTCAAGAGGCCCATCCCACCG
*
137088 TTCAAGAGGCCCCTCCCACCG
1 TTCAAGAGGCCCATCCCACCG
137109 TTCAAGAG
1 TTCAAGAG
137117 CCCGATTCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.24, C:0.38, G:0.20, T:0.18
Consensus pattern (21 bp):
TTCAAGAGGCCCATCCCACCG
Found at i:138660 original size:20 final size:20
Alignment explanation
Indices: 138614--138662 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
138604 TTCGTGTTGC
*
138614 GATTTTCGCGTTGCGAGTTT
1 GATTTTCGCGTTGCGAATTT
* * *
138634 TACTTTCGCGTTTCGAATTT
1 GATTTTCGCGTTGCGAATTT
138654 GATTTTCGC
1 GATTTTCGC
138663 AACAATCGCA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.12, C:0.18, G:0.22, T:0.47
Consensus pattern (20 bp):
GATTTTCGCGTTGCGAATTT
Found at i:138681 original size:29 final size:29
Alignment explanation
Indices: 138647--138703 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
138637 TTTCGCGTTT
* *
138647 CGAATTTGATTTTCGCAACAATCGCAACG
1 CGAATTTGACTTTCGCAACAATCACAACG
*
138676 CGAATTTGACTTTCGTAACAATCACAAC
1 CGAATTTGACTTTCGCAACAATCACAAC
138704 AAAAAATCAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (29 bp):
CGAATTTGACTTTCGCAACAATCACAACG
Found at i:138968 original size:18 final size:18
Alignment explanation
Indices: 138945--138980 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
138935 AAGCCGGTTG
138945 TGATTGAAATTTTGATTT
1 TGATTGAAATTTTGATTT
**
138963 TGATTGTGATTTTGATTT
1 TGATTGAAATTTTGATTT
138981 CCATTTGCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.00, G:0.19, T:0.58
Consensus pattern (18 bp):
TGATTGAAATTTTGATTT
Found at i:141312 original size:24 final size:24
Alignment explanation
Indices: 141262--141312 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
141252 TCTGAGTATA
** *
141262 GACCAAGATCAAAGTCCGGGTATT
1 GACCAAGATCAAAGTCCGAATACT
* *
141286 GACCAAGATCAAATTTCGAATACT
1 GACCAAGATCAAAGTCCGAATACT
141310 GAC
1 GAC
141313 TAGTACTCAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.22
Consensus pattern (24 bp):
GACCAAGATCAAAGTCCGAATACT
Found at i:157049 original size:35 final size:35
Alignment explanation
Indices: 157002--157070 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
156992 TTGGACCAAA
* *
157002 AAGTGAAGTTCAGGTACCAGATT-GAACCAAAAAAT
1 AAGTCAAGTTCAGGTA-CAAATTGGAACCAAAAAAT
*
157037 AAGTCAAGTTCAGGTACAAATTGGACCCAAAAAA
1 AAGTCAAGTTCAGGTACAAATTGGAACCAAAAAA
157071 ACTTTAGGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 5 0.17
35 25 0.83
ACGTcount: A:0.46, C:0.16, G:0.19, T:0.19
Consensus pattern (35 bp):
AAGTCAAGTTCAGGTACAAATTGGAACCAAAAAAT
Found at i:166980 original size:21 final size:21
Alignment explanation
Indices: 166955--166995 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
166945 ATTTAAAAAA
166955 TATTTATAGCAAAAATATTTT
1 TATTTATAGCAAAAATATTTT
166976 TATTTATAGCAAAAATATTT
1 TATTTATAGCAAAAATATTT
166996 ATGGAGCACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (21 bp):
TATTTATAGCAAAAATATTTT
Found at i:167733 original size:2 final size:2
Alignment explanation
Indices: 167728--167801 Score: 148
Period size: 2 Copynumber: 37.0 Consensus size: 2
167718 TATATATAAT
167728 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
167770 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
167802 GCCTATGTAA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 72 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:173201 original size:173 final size:174
Alignment explanation
Indices: 172912--173258 Score: 687
Period size: 173 Copynumber: 2.0 Consensus size: 174
172902 GAAATCGATT
172912 TCTGAAATCATTTCATTAAGCTTTGTTCATCTTCAGGCATCGTCTACGTATCCCTTTCCGGTATC
1 TCTGAAATCATTTCATTAAGCTTTGTTCATCTTCAGGCATCGTCTACGTATCCCTTTCCGGTATC
172977 AACCAATGCAATCAACATAGACTTCAAGCAACGAGATGCAGTCCGAATGCCATTGGAGAGAGCTT
66 AACCAATGCAATCAACATAGACTTCAAGCAACGAGATGCAGTCCGAATGCCATTGGAGAGAGCTT
173042 TTGTAATCTACAGAGTA-TGTCCTAGGACGGGGTTTGTACCATC
131 TTGTAATCTACAGAGTATTGTCCTAGGACGGGGTTTGTACCATC
173085 TCTGAAATCATTTCATTAAGCTTTGTTCATCTTCAGGCATCGTCTACGTATCCCTTTCCGGTATC
1 TCTGAAATCATTTCATTAAGCTTTGTTCATCTTCAGGCATCGTCTACGTATCCCTTTCCGGTATC
173150 AACCAATGCAATCAACATAGACTTCAAGCAACGAGATGCAGTCCGAATGCCATTGGAGAGAGCTT
66 AACCAATGCAATCAACATAGACTTCAAGCAACGAGATGCAGTCCGAATGCCATTGGAGAGAGCTT
173215 TTGTAATCTACAGAGTATTGTCCTAGGACGGGGTTTGTACCATC
131 TTGTAATCTACAGAGTATTGTCCTAGGACGGGGTTTGTACCATC
173259 ATCTTTCTTG
Statistics
Matches: 173, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
173 147 0.85
174 26 0.15
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (174 bp):
TCTGAAATCATTTCATTAAGCTTTGTTCATCTTCAGGCATCGTCTACGTATCCCTTTCCGGTATC
AACCAATGCAATCAACATAGACTTCAAGCAACGAGATGCAGTCCGAATGCCATTGGAGAGAGCTT
TTGTAATCTACAGAGTATTGTCCTAGGACGGGGTTTGTACCATC
Found at i:182300 original size:20 final size:20
Alignment explanation
Indices: 182264--182301 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
182254 TCTACCGGTT
*
182264 AAAAGAAATTGCCAAAAAAA
1 AAAAGAAATTGCAAAAAAAA
182284 AAAAGATAATT-CAAAAAA
1 AAAAGA-AATTGCAAAAAA
182302 GAGATATCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.71, C:0.08, G:0.08, T:0.13
Consensus pattern (20 bp):
AAAAGAAATTGCAAAAAAAA
Found at i:182467 original size:6 final size:6
Alignment explanation
Indices: 182456--182495 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
182446 ATTCACATAC
182456 CCATTT CCATTT CCATTT CCATTT CCATTT CCATTT CCAT
1 CCATTT CCATTT CCATTT CCATTT CCATTT CCATTT CCAT
182496 GGATTCCTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.17, C:0.35, G:0.00, T:0.47
Consensus pattern (6 bp):
CCATTT
Found at i:189699 original size:16 final size:16
Alignment explanation
Indices: 189680--189713 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
189670 CAATATACGA
189680 ATAAAAATATATTTAT
1 ATAAAAATATATTTAT
**
189696 ATAAATGTATATTTAT
1 ATAAAAATATATTTAT
189712 AT
1 AT
189714 TTAGATGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
ATAAAAATATATTTAT
Found at i:189787 original size:16 final size:18
Alignment explanation
Indices: 189755--189788 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
189745 TATTAATGTA
189755 TGAATCATTTATATTTTT
1 TGAATCATTTATATTTTT
189773 TGAAT-ATTT-TATTTTT
1 TGAATCATTTATATTTTT
189789 AATAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (18 bp):
TGAATCATTTATATTTTT
Found at i:190458 original size:130 final size:130
Alignment explanation
Indices: 190254--190501 Score: 424
Period size: 130 Copynumber: 1.9 Consensus size: 130
190244 AATTTTCTTC
* *
190254 TAATTAGGTGGTGACATGTGTCACCAATAACATATATCATGATCATGTGTTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
** *
190319 CCTGGTTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
* * *
190384 TAATTAGGTGGTGACATGTGTCACCAATGACACGTGTCATGATCATGTGCTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
190449 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
190502 TATATAAATA
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
130 110 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.36
Consensus pattern (130 bp):
TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
Found at i:190948 original size:35 final size:35
Alignment explanation
Indices: 190898--190973 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
190888 AATTGAATTT
* *
190898 AATTGAATTATTTTGGAATTTAGGGTTTAGAATGA
1 AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
*
190933 AATTGAATTACTTTGGAAATTGGGGTTTAGAATGA
1 AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
190968 AATTGA
1 AATTGA
190974 GGACTGTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.36, C:0.01, G:0.24, T:0.39
Consensus pattern (35 bp):
AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
Found at i:192587 original size:19 final size:19
Alignment explanation
Indices: 192565--192710 Score: 141
Period size: 19 Copynumber: 8.1 Consensus size: 19
192555 GAAACCAAAA
*
192565 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
192584 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
192603 TCGCGTTGAGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
192617 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
192636 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
192650 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
192669 TCCGCGTTGCGATTTTCATT
1 T-CGCGTTGCGATTTTCATT
*
192689 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
192709 TC
1 TC
192711 AACCAAAAGA
Statistics
Matches: 104, Mismatches: 11, Indels: 24
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.18
16 5 0.05
17 6 0.06
19 41 0.39
20 32 0.31
21 1 0.01
ACGTcount: A:0.12, C:0.23, G:0.20, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:192629 original size:33 final size:33
Alignment explanation
Indices: 192587--192710 Score: 149
Period size: 33 Copynumber: 3.5 Consensus size: 33
192577 TTTCATTTCG
192587 CGTTGCGATTTTCATTTCGCGTTGAGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGAGATTCTCT
*
192620 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGAGATTCTCT
** *
192653 CGTTGCGATAGTCATTTCCGCGTTGCGATTTTCATTCTCT
1 CGTTGCGATTTTCATTT-CGCGTT--GA----GATTCTCT
192693 CGTTGCGATTTTCATTTC
1 CGTTGCGATTTTCATTTC
192711 AACCAAAAGA
Statistics
Matches: 77, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
33 47 0.61
34 6 0.08
36 1 0.01
39 1 0.01
40 22 0.29
ACGTcount: A:0.11, C:0.23, G:0.20, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCGTTGAGATTCTCT
Found at i:192648 original size:52 final size:52
Alignment explanation
Indices: 192570--192710 Score: 164
Period size: 52 Copynumber: 2.7 Consensus size: 52
192560 CAAAATCGCA
* *
192570 TTGCGATTTTCATTTCGCGTTGCGATTTTCATTTCGCGTTGAG-A-TTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTCATTTCGCGAT-AGCATTTC-CGCG
*
192622 TTGCGATTTTCATTTCGCGTTGCGATTCTCTC-GTT-GCGATAGTCATTTCCGCG
1 TTGCGATTTTCATTTCGCGTTGCGATT-T-TCATTTCGCGATAG-CATTTCCGCG
*
192675 TTGCGATTTTCATTCTCTCGTTGCGATTTTCATTTC
1 TTGCGATTTTCATT-TCGCGTTGCGATTTTCATTTC
192711 AACCAAAAGA
Statistics
Matches: 76, Mismatches: 5, Indels: 14
0.80 0.05 0.15
Matches are distributed among these distances:
51 2 0.03
52 33 0.43
53 24 0.32
54 17 0.22
ACGTcount: A:0.11, C:0.23, G:0.20, T:0.46
Consensus pattern (52 bp):
TTGCGATTTTCATTTCGCGTTGCGATTTTCATTTCGCGATAGCATTTCCGCG
Found at i:194714 original size:187 final size:183
Alignment explanation
Indices: 194403--194777 Score: 585
Period size: 187 Copynumber: 2.0 Consensus size: 183
194393 TAGATTGCTT
*
194403 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTAACACTGTGAAGTTAGTATTT
1 AGTAAATTTATTCGGTTGCTGCCAATACTACTAAACTGTTTATTAACACTGTGAAGTTAGTATTT
*
194468 GTCTTTTGTTTTGTCTTTTGGTTGAAGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTG
66 GTCTTTTGTTTTGTCATTTGGTTGAAGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTG
*
194533 TATTCTTTAACACTGTGAAGTTAGTATTTGTCTTTGTTTTGT-TTTTGGTTGAA
131 TATTCTTTAACACTCTGAAGTTAGTATTTGTCTTTGTTTTGTCTTTTGGTTG-A
* *
194586 AGTAAATTTGTTCGGTTGCTGCCAA-ATCTACTAAACTGTGTATTCTTTAACACTGTGAAGTTAG
1 AGTAAATTTATTCGGTTGCTGCCAATA-CTACTAAAC--TGT-TT-ATTAACACTGTGAAGTTAG
* * *
194650 TATTTGTC-TTTGTTTTGTCATTTGGTTGAAAGTAAATTTGTTCGTTTGGTGCCAATTCTGCTAA
61 TATTTGTCTTTTGTTTTGTCATTTGGTTG-AAGTAAATTTATTCGGTTGCTGCCAATTCTGCTAA
*
194714 ACTGTGTATTCTTTAATACTCTGAAGTTAGTATTTGTCTTTGTTTTGTCTTTTGGTTGA
125 ACTGTGTATTCTTTAACACTCTGAAGTTAGTATTTGTCTTTGTTTTGTCTTTTGGTTGA
194773 AGTAA
1 AGTAA
194778 TGCAATCCAT
Statistics
Matches: 176, Mismatches: 9, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
182 1 0.01
183 32 0.18
185 3 0.02
186 21 0.12
187 110 0.62
188 9 0.05
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.47
Consensus pattern (183 bp):
AGTAAATTTATTCGGTTGCTGCCAATACTACTAAACTGTTTATTAACACTGTGAAGTTAGTATTT
GTCTTTTGTTTTGTCATTTGGTTGAAGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTG
TATTCTTTAACACTCTGAAGTTAGTATTTGTCTTTGTTTTGTCTTTTGGTTGA
Found at i:194739 original size:94 final size:93
Alignment explanation
Indices: 194403--194777 Score: 589
Period size: 94 Copynumber: 4.1 Consensus size: 93
194393 TAGATTGCTT
* *
194403 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAAC--TGT-TT-ATTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
194464 ATTTGTCTTTTGTTTTGTCTTTTGGTTGA
66 ATTTGTC-TTTGTTTTGTCTTTTGGTTGA
194493 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
194558 ATTTGTCTTTGTTTTGT-TTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
* * *
194586 AGTAAATTTGTTCGGTTGCTGCCAAATCTACTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
194651 ATTTGTCTTTGTTTTGTCATTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
* * * * *
194680 AGTAAATTTGTTCGTTTGGTGCCAATTCTGCTAAACTGTGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
194745 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
194773 AGTAA
1 AGTAA
194778 TGCAATCCAT
Statistics
Matches: 266, Mismatches: 13, Indels: 9
0.92 0.05 0.03
Matches are distributed among these distances:
90 35 0.13
92 12 0.05
93 98 0.37
94 121 0.45
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.47
Consensus pattern (93 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGA
Found at i:194895 original size:20 final size:19
Alignment explanation
Indices: 194869--194925 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 19
194859 CTTTTGGTTG
194869 AAATGAAAATCGCAACG-A
1 AAATGAAAATCGCAACGCA
194887 GAGAATGAAAATCGCAACGCA
1 -A-AATGAAAATCGCAACGCA
*
194908 AAACGAAAATCGCAACGC
1 AAATGAAAATCGCAACGC
194926 GAAACTATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
19 17 0.49
20 17 0.49
21 1 0.03
ACGTcount: A:0.51, C:0.21, G:0.19, T:0.09
Consensus pattern (19 bp):
AAATGAAAATCGCAACGCA
Found at i:194958 original size:19 final size:19
Alignment explanation
Indices: 194936--195038 Score: 81
Period size: 19 Copynumber: 5.6 Consensus size: 19
194926 GAAACTATAA
194936 TCGCGTTGCGATTTTAATT
1 TCGCGTTGCGATTTTAATT
* *
194955 TCGCATTGCGA---T--TC
1 TCGCGTTGCGATTTTAATT
* *
194969 TCTCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTAATT
* *
194988 TCGCGTTGCAATTTTCATTT
1 TCGCGTTGCGATTTT-AATT
* *
195008 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTAATT
*
195027 TTGCGTTGCGAT
1 TCGCGTTGCGAT
195039 AATCATTTTT
Statistics
Matches: 63, Mismatches: 15, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
14 10 0.16
16 1 0.02
17 1 0.02
19 36 0.57
20 15 0.24
ACGTcount: A:0.13, C:0.19, G:0.19, T:0.49
Consensus pattern (19 bp):
TCGCGTTGCGATTTTAATT
Found at i:195014 original size:20 final size:20
Alignment explanation
Indices: 194969--195062 Score: 102
Period size: 19 Copynumber: 4.8 Consensus size: 20
194959 ATTGCGATTC
*
194969 TCTCGTTGCGATTTTTA-TT
1 TCTCGTTGCGATTTTCATTT
* *
194988 TCGCGTTGCAATTTTCATTT
1 TCTCGTTGCGATTTTCATTT
195008 TCTCGTTGCGATTTTCATTT
1 TCTCGTTGCGATTTTCATTT
* **
195028 T-GCGTTGCGATAATCATTTT
1 TCTCGTTGCGATTTTCA-TTT
*
195048 TCACGTTGCGATTTT
1 TCTCGTTGCGATTTT
195063 AAGTTCCAGA
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
19 26 0.43
20 25 0.41
21 10 0.16
ACGTcount: A:0.14, C:0.18, G:0.17, T:0.51
Consensus pattern (20 bp):
TCTCGTTGCGATTTTCATTT
Found at i:195022 original size:39 final size:40
Alignment explanation
Indices: 194969--195062 Score: 127
Period size: 39 Copynumber: 2.4 Consensus size: 40
194959 ATTGCGATTC
* **
194969 TCTCGTTGCGATTTTTATTTCGCGTTGCAATTTTCA-TTT
1 TCTCGTTGCGATTTTCATTTCGCGTTGCAATAATCATTTT
* *
195008 TCTCGTTGCGATTTTCATTTTGCGTTGCGATAATCATTTT
1 TCTCGTTGCGATTTTCATTTCGCGTTGCAATAATCATTTT
*
195048 TCACGTTGCGATTTT
1 TCTCGTTGCGATTTT
195063 AAGTTCCAGA
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 31 0.65
40 17 0.35
ACGTcount: A:0.14, C:0.18, G:0.17, T:0.51
Consensus pattern (40 bp):
TCTCGTTGCGATTTTCATTTCGCGTTGCAATAATCATTTT
Found at i:195513 original size:42 final size:42
Alignment explanation
Indices: 195453--195575 Score: 115
Period size: 42 Copynumber: 2.9 Consensus size: 42
195443 GCCTGACTCG
* * *
195453 CCTATCATCCCTCAAGAGTC-CACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCTC-CTCCCACCGTTCAAGAGGCC
* *
195495 CCTATCATTCCTCGAGAGTCTCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCTCCTCCCACCGTTCAAGAGGCC
* * ** * *
195537 ACTGTCATCGTTGAAGAGGTC-CCTCCCACCATTCAAGAG
1 CCTATCATCCCTCAAGA-GTCTCCTCCCACCGTTCAAGAG
195576 CCCGATTCAC
Statistics
Matches: 66, Mismatches: 13, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
42 62 0.94
43 4 0.06
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.24
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCTCCTCCCACCGTTCAAGAGGCC
Found at i:196926 original size:14 final size:14
Alignment explanation
Indices: 196907--196942 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
196897 ATTGTTTAAT
196907 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
196921 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
196935 TGATTTGT
1 TGATTTGT
196943 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:197167 original size:33 final size:33
Alignment explanation
Indices: 197124--197250 Score: 200
Period size: 33 Copynumber: 3.8 Consensus size: 33
197114 ACTAAATTCG
* * *
197124 CGTTGCGATTTTCATTTCACTTTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
*
197157 CGTTGTGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
*
197190 CGTTGCGATTTTCATTTCGCATTGTGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
*
197223 CGTTGCGATTTTCATTTTGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
197251 AGTCATTTCC
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 86 1.00
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:197269 original size:20 final size:20
Alignment explanation
Indices: 197244--197316 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 20
197234 TCATTTTGCA
*
197244 TTGCGATAGTCATTTCCGCG
1 TTGCGATAGTCATTTCCGTG
* **
197264 TTGCGATAGACA-TTAAGATG
1 TTGCGATAGTCATTTCCG-TG
197284 ATTGCGA-ACGTCATTTCCGTG
1 -TTGCGATA-GTCATTTCCGTG
197305 TTGCGATAGTCA
1 TTGCGATAGTCA
197317 AATGAATGCC
Statistics
Matches: 41, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
19 3 0.07
20 23 0.56
21 12 0.29
22 3 0.07
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (20 bp):
TTGCGATAGTCATTTCCGTG
Found at i:200724 original size:20 final size:20
Alignment explanation
Indices: 200701--201053 Score: 184
Period size: 20 Copynumber: 17.3 Consensus size: 20
200691 AGAATCTCGT
200701 TGCGATTTACTAAATCGCAA
1 TGCGATTTACTAAATCGCAA
200721 TGCGA-TTACGTAAATCGCAA
1 TGCGATTTAC-TAAATCGCAA
* ** *
200741 TGCGAATTAGGAAAATCACAA
1 TGCGATTTA-CTAAATCGCAA
200762 TGCGA-TTACGTAAATCGCAA
1 TGCGATTTAC-TAAATCGCAA
200782 TGCGA-TTACGTAAATCGCAA
1 TGCGATTTAC-TAAATCGCAA
* **
200802 TGCGAATTAGGAAAATCGCAA
1 TGCGATTTA-CTAAATCGCAA
200823 TGCGA-TTACGTAAATCGCAA
1 TGCGATTTAC-TAAATCGCAA
* **
200843 TGCGAATTAGGAAAATCGCAA
1 TGCGATTTA-CTAAATCGCAA
* *
200864 TGCGA-TTACGT-ATTCGCAT
1 TGCGATTTAC-TAAATCGCAA
*
200883 TGCGATTTACGT-AATCGCAT
1 TGCGATTTAC-TAAATCGCAA
* * * **
200903 TACGATTTCCCAAATTCGCGT
1 TGCGATTTACTAAA-TCGCAA
* * * *
200924 TACGATTTTCCTAATTCGCAT
1 TGCGA-TTTACTAAATCGCAA
*
200945 TGCGATTTACGT-AATCGCAT
1 TGCGATTTAC-TAAATCGCAA
* * *
200965 TGCGATTTTCCTAATTCGCAT
1 TGCGA-TTTACTAAATCGCAA
* * *
200986 TGCGATTTACGT-ATTCACAT
1 TGCGATTTAC-TAAATCGCAA
* *
201006 TGCGAATTAGGTAAATCGCAA
1 TGCGATTTA-CTAAATCGCAA
* ***
201027 CGCGAATTTGGGAAATCGCAA
1 TGCG-ATTTACTAAATCGCAA
201048 TGCGAT
1 TGCGAT
201054 AGTCAGAATC
Statistics
Matches: 271, Mismatches: 41, Indels: 42
0.77 0.12 0.12
Matches are distributed among these distances:
19 15 0.06
20 138 0.51
21 108 0.40
22 10 0.04
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.29
Consensus pattern (20 bp):
TGCGATTTACTAAATCGCAA
Found at i:200757 original size:41 final size:40
Alignment explanation
Indices: 200701--201053 Score: 257
Period size: 41 Copynumber: 8.7 Consensus size: 40
200691 AGAATCTCGT
200701 TGCGATTTAC-TAAATCGCAATGCGATTACGTAAATCGCAA
1 TGCGA-TTACGTAAATCGCAATGCGATTACGTAAATCGCAA
* * *
200741 TGCGAATTAGGAAAATCACAATGCGATTACGTAAATCGCAA
1 TGCG-ATTACGTAAATCGCAATGCGATTACGTAAATCGCAA
* *
200782 TGCGATTACGTAAATCGCAATGCGAATTAGGAAAATCGCAA
1 TGCGATTACGTAAATCGCAATGCG-ATTACGTAAATCGCAA
* *
200823 TGCGATTACGTAAATCGCAATGCGAATTAGGAAAATCGCAA
1 TGCGATTACGTAAATCGCAATGCG-ATTACGTAAATCGCAA
* * *
200864 TGCGATTACGT-ATTCGCATTGCGATTTACGT-AATCGCAT
1 TGCGATTACGTAAATCGCAATGCGA-TTACGTAAATCGCAA
* * ** ** * * * * *
200903 TACGATTTCCCAAATTCGCGTTACGATTTTCCTAATTCGCAT
1 TGCGATTACGTAAA-TCGCAATGCGA-TTACGTAAATCGCAA
* * * * *
200945 TGCGATTTACGT-AATCGCATTGCGATTTTCCTAATTCGCAT
1 TGCGA-TTACGTAAATCGCAATGCGA-TTACGTAAATCGCAA
* * * *
200986 TGCGATTTACGT-ATTCACATTGCGAATTAGGTAAATCGCAA
1 TGCGA-TTACGTAAATCGCAATGCG-ATTACGTAAATCGCAA
* ** *
201027 CGCGAATTTGGGAAATCGCAATGCGAT
1 TGCG-ATTACGTAAATCGCAATGCGAT
201054 AGTCAGAATC
Statistics
Matches: 259, Mismatches: 43, Indels: 21
0.80 0.13 0.07
Matches are distributed among these distances:
39 15 0.06
40 39 0.15
41 178 0.69
42 24 0.09
43 3 0.01
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.29
Consensus pattern (40 bp):
TGCGATTACGTAAATCGCAATGCGATTACGTAAATCGCAA
Found at i:200796 original size:61 final size:61
Alignment explanation
Indices: 200701--200868 Score: 284
Period size: 61 Copynumber: 2.7 Consensus size: 61
200691 AGAATCTCGT
200701 TGCGATTTAC-TAAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGAAAATCACAA
1 TGCGA-TTACGTAAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGAAAATCACAA
*
200762 TGCGATTACGTAAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGAAAATCGCAA
1 TGCGATTACGTAAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGAAAATCACAA
* *
200823 TGCGATTACGTAAATCGCAATGCGAATTAGGAAAATCGCAATGCGA
1 TGCGATTACGTAAATCGCAATGCG-ATTACGTAAATCGCAATGCGA
200869 TTACGTATTC
Statistics
Matches: 102, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
60 4 0.04
61 79 0.77
62 19 0.19
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (61 bp):
TGCGATTACGTAAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGAAAATCACAA
Found at i:200926 original size:21 final size:21
Alignment explanation
Indices: 200875--200993 Score: 89
Period size: 21 Copynumber: 5.8 Consensus size: 21
200865 GCGATTACGT
* * **
200875 ATTCGCATTGCGATTTACGTA
1 ATTCGCATTACGATTTCCCAA
200896 A-TCGCATTACGATTTCCCAA
1 ATTCGCATTACGATTTCCCAA
* * *
200916 ATTCGCGTTACGATTTTCCTA
1 ATTCGCATTACGATTTCCCAA
* * **
200937 ATTCGCATTGCGATTTACGTA
1 ATTCGCATTACGATTTCCCAA
* * *
200958 A-TCGCATTGCGATTTTCCTA
1 ATTCGCATTACGATTTCCCAA
*
200978 ATTCGCATTGCGATTT
1 ATTCGCATTACGATTT
200994 ACGTATTCAC
Statistics
Matches: 83, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
20 34 0.41
21 49 0.59
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.39
Consensus pattern (21 bp):
ATTCGCATTACGATTTCCCAA
Found at i:200949 original size:62 final size:61
Alignment explanation
Indices: 200869--201025 Score: 197
Period size: 62 Copynumber: 2.5 Consensus size: 61
200859 CGCAATGCGA
* *
200869 TTACGTATTCGCATTGCGATTTACGTAATCGCATTACGATTTCCCAAATTCGCGTTACGAT
1 TTACCTATTCGCATTGCGATTTACGTAATCGCATTACGATTTCCCAAATTCGCATTACGAT
* * * * *
200930 TTTCCTAATTCGCATTGCGATTTACGTAATCGCATTGCGATTTTCCTAATTCGCATTGCGAT
1 TTACCT-ATTCGCATTGCGATTTACGTAATCGCATTACGATTTCCCAAATTCGCATTACGAT
* * * *
200992 TTACGTATTCACATTGCGAATTAGGTAAATCGCA
1 TTACCTATTCGCATTGCGATTTACGT-AATCGCA
201026 ACGCGAATTT
Statistics
Matches: 82, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
61 21 0.26
62 61 0.74
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.37
Consensus pattern (61 bp):
TTACCTATTCGCATTGCGATTTACGTAATCGCATTACGATTTCCCAAATTCGCATTACGAT
Found at i:201033 original size:21 final size:21
Alignment explanation
Indices: 201007--201052 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
200997 TATTCACATT
*
201007 GCGAATTAGGTAAATCGCAAC
1 GCGAATTAGGGAAATCGCAAC
* *
201028 GCGAATTTGGGAAATCGCAAT
1 GCGAATTAGGGAAATCGCAAC
201049 GCGA
1 GCGA
201053 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.35, C:0.17, G:0.28, T:0.20
Consensus pattern (21 bp):
GCGAATTAGGGAAATCGCAAC
Found at i:201046 original size:62 final size:61
Alignment explanation
Indices: 200700--201053 Score: 209
Period size: 61 Copynumber: 5.8 Consensus size: 61
200690 CAGAATCTCG
* * ** * * * * *
200700 TTGCGATTTAC-TAAATCGCAATGCG-ATTACGTAAATCGCAATGCGAATTAGGAAAATCACA
1 TTGCGAATTACGT-AATCGCAATGCGAATTTCCAAAATCGCAATGCGATTTACG-TATTCGCA
* * ** * * * *
200761 ATGCG-ATTACGTAAATCGCAATGCG-ATTACGTAAATCGCAATGCGAATTAGGAAAATCGCA
1 TTGCGAATTACGT-AATCGCAATGCGAATTTCCAAAATCGCAATGCGATTTACG-TATTCGCA
* ***
200822 ATGCG-ATTACGTAAATCGCAATGCGAATTAGGAAAATCGCAATGCGA-TTACGTATTCGCA
1 TTGCGAATTACGT-AATCGCAATGCGAATTTCCAAAATCGCAATGCGATTTACGTATTCGCA
* * * * ** * * *
200882 TTGCGATTTACGTAATCGCATTACG-ATTTCCCAAATTCGCGTTACGATTTTCCTAATTCGCA
1 TTGCGAATTACGTAATCGCAATGCGAATTT-CCAAAATCGCAATGCGATTTACGT-ATTCGCA
* * * * * * *
200944 TTGCGATTTACGTAATCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGTATTCACA
1 TTGCGAATTACGTAATCGCAATGCGAATTTCCAAAATCGCAATGCGATTTACGTATTCGCA
* * ***
201005 TTGCGAATTAGGTAAATCGCAACGCGAATTTGGGAAATCGCAATGCGAT
1 TTGCGAATTACGT-AATCGCAATGCGAATTTCCAAAATCGCAATGCGAT
201054 AGTCAGAATC
Statistics
Matches: 246, Mismatches: 39, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
59 3 0.01
60 35 0.14
61 109 0.44
62 96 0.39
63 3 0.01
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.29
Consensus pattern (61 bp):
TTGCGAATTACGTAATCGCAATGCGAATTTCCAAAATCGCAATGCGATTTACGTATTCGCA
Found at i:208680 original size:59 final size:56
Alignment explanation
Indices: 208568--208685 Score: 132
Period size: 59 Copynumber: 2.1 Consensus size: 56
208558 ACTCGTTGTA
* *
208568 TATCAACATAAATAATTATTAAATCTCTCAAATATTTACAAAATAATTATTAAATAT
1 TATCAACATAAATAATTATTAAATCTATCAAATATTTACAAAATAATCATTAAAT-T
* * *
208625 TATCAATCATAAAATGATTATTAAA-CATATCAAAT-TGTTATAAAATAATCCTTAAATT
1 TATCAA-CAT-AAATAATTATTAAATC-TATCAAATAT-TTACAAAATAATCATTAAATT
208683 TAT
1 TAT
208686 AAAATATTTA
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
57 6 0.12
58 9 0.17
59 37 0.71
ACGTcount: A:0.49, C:0.10, G:0.02, T:0.39
Consensus pattern (56 bp):
TATCAACATAAATAATTATTAAATCTATCAAATATTTACAAAATAATCATTAAATT
Found at i:208746 original size:19 final size:20
Alignment explanation
Indices: 208722--208765 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
208712 TGCCATTGTC
208722 ATTTT-ATAACTGTTTTAAA
1 ATTTTAATAACTGTTTTAAA
* *
208741 ATTTTAATGACTGTTTTATA
1 ATTTTAATAACTGTTTTAAA
208761 ATTTT
1 ATTTT
208766 TGAAACATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.32, C:0.05, G:0.07, T:0.57
Consensus pattern (20 bp):
ATTTTAATAACTGTTTTAAA
Found at i:208966 original size:11 final size:11
Alignment explanation
Indices: 208946--208984 Score: 71
Period size: 11 Copynumber: 3.6 Consensus size: 11
208936 TTATAAATAT
208946 TAAA-TGATAA
1 TAAAGTGATAA
208956 TAAAGTGATAA
1 TAAAGTGATAA
208967 TAAAGTGATAA
1 TAAAGTGATAA
208978 TAAAGTG
1 TAAAGTG
208985 GGATGACGTC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
10 4 0.14
11 24 0.86
ACGTcount: A:0.54, C:0.00, G:0.18, T:0.28
Consensus pattern (11 bp):
TAAAGTGATAA
Found at i:211769 original size:27 final size:27
Alignment explanation
Indices: 211738--211805 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
211728 TCTATTTACA
*
211738 AAATCATATCTCTATAGGAATGGTAAC
1 AAATCATATCTCTATAGGAATGATAAC
*
211765 AAATCATATATCTATAGGAATGATAAC
1 AAATCATATCTCTATAGGAATGATAAC
211792 AAATC--ATCTCTATA
1 AAATCATATCTCTATA
211806 ATTCCTAAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
25 8 0.21
27 30 0.79
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATCATATCTCTATAGGAATGATAAC
Found at i:215519 original size:27 final size:27
Alignment explanation
Indices: 215484--215544 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
215474 TCTATTTACA
*
215484 AAATCATATCTCTAGAGGAATGGTAAC
1 AAATCATATCTCTAGAGGAATGATAAC
*
215511 AAATCATATCTCTATAGGAATGATAAC
1 AAATCATATCTCTAGAGGAATGATAAC
215538 AAATCAT
1 AAATCAT
215545 CTCTATAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (27 bp):
AAATCATATCTCTAGAGGAATGATAAC
Found at i:217690 original size:15 final size:15
Alignment explanation
Indices: 217670--217706 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
217660 TTAGGCATTC
217670 AACCAGAATAAAAGA
1 AACCAGAATAAAAGA
217685 AACCAGAATAAAAGA
1 AACCAGAATAAAAGA
217700 AA-CAGAA
1 AACCAGAA
217707 AAACATTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 5 0.23
15 17 0.77
ACGTcount: A:0.68, C:0.14, G:0.14, T:0.05
Consensus pattern (15 bp):
AACCAGAATAAAAGA
Found at i:221068 original size:16 final size:16
Alignment explanation
Indices: 221038--221079 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
221028 CGATTTTTCG
*
221038 TTATAATT-TTTTTTA
1 TTATAATTATTGTTTA
*
221053 TTATACTTATTGTTTA
1 TTATAATTATTGTTTA
221069 TTATAATTATT
1 TTATAATTATT
221080 TGAAAACATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 7 0.30
16 16 0.70
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (16 bp):
TTATAATTATTGTTTA
Found at i:224435 original size:35 final size:34
Alignment explanation
Indices: 224350--224436 Score: 88
Period size: 35 Copynumber: 2.5 Consensus size: 34
224340 AATATAATTT
* *
224350 TAAATACAACAAACTTACAATAAGAATTAAATGG
1 TAAATACAACAAAATTACAATAAGAATTAAATAG
* *
224384 TAAATGATAACCAAATTACAATAACTGATATTAAATAG
1 TAAAT-ACAACAAAATTACAATAA--GA-ATTAAATAG
224422 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
224437 ACTGAAATAC
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.55
36 1 0.02
37 5 0.11
38 9 0.20
ACGTcount: A:0.56, C:0.10, G:0.07, T:0.26
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGAATTAAATAG
Found at i:225006 original size:18 final size:18
Alignment explanation
Indices: 224983--225018 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
224973 AAGGCGGCGA
*
224983 CATCATATATGGCTGCGG
1 CATCATAAATGGCTGCGG
225001 CATCATAAATGGCTGCGG
1 CATCATAAATGGCTGCGG
225019 TGGCTTGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (18 bp):
CATCATAAATGGCTGCGG
Found at i:231262 original size:96 final size:96
Alignment explanation
Indices: 231098--231282 Score: 370
Period size: 96 Copynumber: 1.9 Consensus size: 96
231088 TATTACTACA
231098 CTCCTTACTGATTTCTTAAACATATAAACAATTGAGTTTTCATTGCCCACCTTTCGTATTATCTT
1 CTCCTTACTGATTTCTTAAACATATAAACAATTGAGTTTTCATTGCCCACCTTTCGTATTATCTT
231163 TTCAAATTTTCTCACTGATTGCTGTAATACC
66 TTCAAATTTTCTCACTGATTGCTGTAATACC
231194 CTCCTTACTGATTTCTTAAACATATAAACAATTGAGTTTTCATTGCCCACCTTTCGTATTATCTT
1 CTCCTTACTGATTTCTTAAACATATAAACAATTGAGTTTTCATTGCCCACCTTTCGTATTATCTT
231259 TTCAAATTTTCTCACTGATTGCTG
66 TTCAAATTTTCTCACTGATTGCTG
231283 GGACATTCAT
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
96 89 1.00
ACGTcount: A:0.25, C:0.23, G:0.09, T:0.43
Consensus pattern (96 bp):
CTCCTTACTGATTTCTTAAACATATAAACAATTGAGTTTTCATTGCCCACCTTTCGTATTATCTT
TTCAAATTTTCTCACTGATTGCTGTAATACC
Found at i:231899 original size:20 final size:20
Alignment explanation
Indices: 231871--231909 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
231861 ACAGAAAGAT
* *
231871 TAAATTGATGAATTTAATAG
1 TAAACTGATGAAATTAATAG
*
231891 TAAACTGATTAAATTAATA
1 TAAACTGATGAAATTAATA
231910 CAATATTTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.49, C:0.03, G:0.10, T:0.38
Consensus pattern (20 bp):
TAAACTGATGAAATTAATAG
Found at i:238850 original size:20 final size:21
Alignment explanation
Indices: 238827--238868 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
238817 CTTATTTTAT
238827 TATTTAA-AAAAATAATAAAA
1 TATTTAATAAAAATAATAAAA
*
238847 TATTTAATGAAAATAATAAAA
1 TATTTAATAAAAATAATAAAA
238868 T
1 T
238869 TCCATTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (21 bp):
TATTTAATAAAAATAATAAAA
Found at i:240348 original size:21 final size:21
Alignment explanation
Indices: 240308--240349 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
240298 TTGGTTTTCC
*
240308 GGAAAATGAATTATTAGAATT
1 GGAAAATGAATTACTAGAATT
*
240329 GGAAAATGAATTACTGGAATT
1 GGAAAATGAATTACTAGAATT
240350 TGAATTCTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.45, C:0.02, G:0.21, T:0.31
Consensus pattern (21 bp):
GGAAAATGAATTACTAGAATT
Done.