Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006023.1 Hibiscus syriacus cultivar Beakdansim tig00014213_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: 1315283
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 8
Found at i:129743 original size:13 final size:13
Alignment explanation
Indices: 129725--129768 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
129715 CATCTAATGC
129725 AACATGAATTAAT
1 AACATGAATTAAT
*
129738 AACATGCAA-T-GT
1 AACATG-AATTAAT
129750 AACATGAATTAAT
1 AACATGAATTAAT
129763 AACATG
1 AACATG
129769 CAGTTTAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
11 2 0.08
12 8 0.31
13 14 0.54
14 2 0.08
ACGTcount: A:0.50, C:0.11, G:0.11, T:0.27
Consensus pattern (13 bp):
AACATGAATTAAT
Found at i:129777 original size:25 final size:25
Alignment explanation
Indices: 129683--129782 Score: 103
Period size: 25 Copynumber: 3.9 Consensus size: 25
129673 TATAAACAAT
* *
129683 ATAATATGCAATGTAACATACTAATTA
1 ATAACATGCAATGTAACAT--GAATTA
* *
129710 TCTAACAT-CTAATGCAACATGAATTA
1 -ATAACATGC-AATGTAACATGAATTA
129736 ATAACATGCAATGTAACATGAATTA
1 ATAACATGCAATGTAACATGAATTA
* *
129761 ATAACATGCAGTTTAACATGAA
1 ATAACATGCAATGTAACATGAA
129783 ATGCATCTAT
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
25 41 0.66
26 6 0.10
27 1 0.02
28 14 0.23
ACGTcount: A:0.46, C:0.14, G:0.10, T:0.30
Consensus pattern (25 bp):
ATAACATGCAATGTAACATGAATTA
Found at i:131477 original size:12 final size:11
Alignment explanation
Indices: 131468--131543 Score: 67
Period size: 10 Copynumber: 7.4 Consensus size: 11
131458 TTCACTTTGG
131468 TTTTTTCTTTC
1 TTTTTTCTTTC
131479 TTTTTTCTTT-
1 TTTTTTCTTTC
131489 TTTCTTT-TTTC
1 TTT-TTTCTTTC
131500 TTTTTTC---C
1 TTTTTTCTTTC
* *
131508 CTTTTCCTTT-
1 TTTTTTCTTTC
131518 TTTTTTCTTT-
1 TTTTTTCTTTC
131528 TTTTTTCTCTTC
1 TTTTTTCT-TTC
131540 TTTT
1 TTTT
131544 GCAAATGTTA
Statistics
Matches: 53, Mismatches: 4, Indels: 15
0.74 0.06 0.21
Matches are distributed among these distances:
8 6 0.11
10 25 0.47
11 18 0.34
12 4 0.08
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTTTCTTTC
Found at i:131484 original size:25 final size:21
Alignment explanation
Indices: 131468--131530 Score: 65
Period size: 25 Copynumber: 2.8 Consensus size: 21
131458 TTCACTTTGG
*
131468 TTTTTTCTTTCTTTTTT-CTT
1 TTTTTTTTTTCTTTTTTCCTT
131488 TTTTCTTTTTTCTTTTTTCCCTTT
1 TTTT-TTTTTTCTTTTTT-CC-TT
131512 TCCTTTTTTTTTCTTTTTT
1 T--TTTTTTTTTCTTTTTT
131531 TTTCTCTTCT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
20 4 0.11
21 12 0.33
23 1 0.03
24 3 0.08
25 13 0.36
26 3 0.08
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (21 bp):
TTTTTTTTTTCTTTTTTCCTT
Found at i:131487 original size:7 final size:7
Alignment explanation
Indices: 131475--131535 Score: 72
Period size: 7 Copynumber: 8.7 Consensus size: 7
131465 TGGTTTTTTC
131475 TTTCTTT
1 TTTCTTT
131482 TTTCTTT
1 TTTCTTT
131489 TTTCTTT
1 TTTCTTT
131496 TTTCTTT
1 TTTCTTT
*
131503 TTTCCCTT
1 TTT-CTTT
*
131511 TTCCTTT
1 TTTCTTT
131518 TTT-TTT
1 TTTCTTT
131524 CTTT-TTT
1 -TTTCTTT
131531 TTTCT
1 TTTCT
131536 CTTCTTTTGC
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
6 6 0.13
7 36 0.77
8 5 0.11
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTCTTT
Found at i:131501 original size:21 final size:21
Alignment explanation
Indices: 131475--131535 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 21
131465 TGGTTTTTTC
131475 TTTCTTTTTTCTTTTTTCTTT
1 TTTCTTTTTTCTTTTTTCTTT
* *
131496 TTTCTTTTTTCCCTTTTCCTTT
1 TTTCTTTTTT-CTTTTTTCTTT
131518 TTT-TTTCTTT-TTTTTTCT
1 TTTCTTT-TTTCTTTTTTCT
131536 CTTCTTTTGC
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
20 6 0.18
21 13 0.38
22 15 0.44
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (21 bp):
TTTCTTTTTTCTTTTTTCTTT
Found at i:131543 original size:14 final size:13
Alignment explanation
Indices: 131468--131543 Score: 54
Period size: 12 Copynumber: 5.9 Consensus size: 13
131458 TTCACTTTGG
131468 TTTT-TTCTTTCTT
1 TTTTCTTCTTT-TT
*
131481 TTTTCTT-TTTTC
1 TTTTCTTCTTTTT
131493 TTTT-TTCTTTTT
1 TTTTCTTCTTTTT
*
131505 TCCCTTT-TCCTTTTT
1 T---TTTCTTCTTTTT
131520 TTTTCTT-TTTTT
1 TTTTCTTCTTTTT
*
131532 TTCTCTTCTTTT
1 TTTTCTTCTTTT
131544 GCAAATGTTA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
11 2 0.04
12 24 0.47
13 12 0.24
14 2 0.04
15 11 0.22
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTCTTCTTTTT
Found at i:135440 original size:93 final size:93
Alignment explanation
Indices: 135334--135523 Score: 380
Period size: 93 Copynumber: 2.0 Consensus size: 93
135324 TATCCTTTAT
135334 ATATTTAGGTATAACTACAATAATATTCATCTCTCTATATTTTTTCAATTAAATCCATATTTTAT
1 ATATTTAGGTATAACTACAATAATATTCATCTCTCTATATTTTTTCAATTAAATCCATATTTTAT
135399 CAAATAAAAATAAGGATTATATATATAA
66 CAAATAAAAATAAGGATTATATATATAA
135427 ATATTTAGGTATAACTACAATAATATTCATCTCTCTATATTTTTTCAATTAAATCCATATTTTAT
1 ATATTTAGGTATAACTACAATAATATTCATCTCTCTATATTTTTTCAATTAAATCCATATTTTAT
135492 CAAATAAAAATAAGGATTATATATATAA
66 CAAATAAAAATAAGGATTATATATATAA
135520 ATAT
1 ATAT
135524 AAATATATTG
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 97 1.00
ACGTcount: A:0.43, C:0.11, G:0.04, T:0.42
Consensus pattern (93 bp):
ATATTTAGGTATAACTACAATAATATTCATCTCTCTATATTTTTTCAATTAAATCCATATTTTAT
CAAATAAAAATAAGGATTATATATATAA
Found at i:136454 original size:22 final size:23
Alignment explanation
Indices: 136421--136463 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
136411 TTTATAATAT
136421 TTTTAATAATTTATAATTTATCG
1 TTTTAATAATTTATAATTTATCG
*
136444 TTTT-ATAATTTATGATTTAT
1 TTTTAATAATTTATAATTTAT
136464 TTATAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (23 bp):
TTTTAATAATTTATAATTTATCG
Found at i:139415 original size:3 final size:3
Alignment explanation
Indices: 139407--139448 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
139397 TTGACATATG
* *
139407 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT ACT AAT TAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
139449 TATATATATA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:142472 original size:6 final size:5
Alignment explanation
Indices: 142459--142549 Score: 60
Period size: 5 Copynumber: 19.4 Consensus size: 5
142449 AATAAAATTA
142459 AATAT AATACT AATAT AA-ATT AATAT AATAT -ATA- ATATAT AATAT
1 AATAT AATA-T AATAT AATA-T AATAT AATAT AATAT A-ATAT AATAT
142504 -ATA- AATAAT AATAT -ATACT AA-AT AA-AT -ATAT AATAT -ATA- AATAT
1 AATAT AAT-AT AATAT AATA-T AATAT AATAT AATAT AATAT AATAT AATAT
142548 AA
1 AA
142550 CACACACACA
Statistics
Matches: 71, Mismatches: 0, Indels: 30
0.70 0.00 0.30
Matches are distributed among these distances:
3 1 0.01
4 25 0.35
5 34 0.48
6 11 0.15
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (5 bp):
AATAT
Found at i:142483 original size:21 final size:21
Alignment explanation
Indices: 142449--142545 Score: 83
Period size: 22 Copynumber: 4.4 Consensus size: 21
142439 AAGACCATAG
*
142449 AATA-AAATTAAATATAATACT
1 AATATAAATT-AATATAATAAT
142470 AATATAAATTAATATAATATAT
1 AATATAAATTAATATAATA-AT
*
142492 AATATATAATATATAAATAATAAT
1 AATATA-AAT-TA-ATATAATAAT
*
142516 ATATACTAAATAAATAT-ATAAT
1 A-ATA-TAAATTAATATAATAAT
142538 -ATATAAAT
1 AATATAAAT
142546 ATAACACACA
Statistics
Matches: 65, Mismatches: 4, Indels: 16
0.76 0.05 0.19
Matches are distributed among these distances:
19 5 0.08
20 3 0.05
21 13 0.20
22 17 0.26
23 6 0.09
24 6 0.09
25 13 0.20
26 2 0.03
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (21 bp):
AATATAAATTAATATAATAAT
Found at i:142493 original size:7 final size:7
Alignment explanation
Indices: 142460--142549 Score: 89
Period size: 7 Copynumber: 12.9 Consensus size: 7
142450 ATAAAATTAA
142460 ATATAAT
1 ATATAAT
*
142467 A-CTAAT
1 ATATAAT
142473 ATA-AATT
1 ATATAA-T
142480 AATATAAT
1 -ATATAAT
142488 ATATAAT
1 ATATAAT
142495 ATATAAT
1 ATATAAT
142502 ATATAA-
1 ATATAAT
142508 ATAATAAT
1 AT-ATAAT
*
142516 ATATACT
1 ATATAAT
*
142523 AAATAAAT
1 ATAT-AAT
142531 ATATAAT
1 ATATAAT
142538 ATATAA-
1 ATATAAT
142544 ATATAA
1 ATATAA
142550 CACACACACA
Statistics
Matches: 70, Mismatches: 6, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
6 15 0.21
7 42 0.60
8 11 0.16
9 2 0.03
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (7 bp):
ATATAAT
Found at i:144872 original size:27 final size:27
Alignment explanation
Indices: 144833--144885 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
144823 AATACTTTAA
** * *
144833 GTCATTTTCCACTTTAGGGGTATTTTG
1 GTCATTTAACACTTTAAGGGCATTTTG
144860 GTCATTTAACACTTTAAGGGCATTTT
1 GTCATTTAACACTTTAAGGGCATTTT
144886 CATAAATCCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.21, C:0.15, G:0.19, T:0.45
Consensus pattern (27 bp):
GTCATTTAACACTTTAAGGGCATTTTG
Found at i:145802 original size:22 final size:22
Alignment explanation
Indices: 145776--145818 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
145766 AAAGTCAACG
*
145776 GTCAATGGTCAGACCGGTCAAA
1 GTCAATGGTCAGACCGATCAAA
*
145798 GTCAATGGTCTGACCGATCAA
1 GTCAATGGTCAGACCGATCAA
145819 CGGTCAACGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.21
Consensus pattern (22 bp):
GTCAATGGTCAGACCGATCAAA
Found at i:145901 original size:13 final size:13
Alignment explanation
Indices: 145885--145914 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
145875 TCAACAGTTT
145885 GGGTCAGGCAGAC
1 GGGTCAGGCAGAC
*
145898 GGGTCAGGCAGGC
1 GGGTCAGGCAGAC
145911 GGGT
1 GGGT
145915 TGACTCGGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.20, G:0.53, T:0.10
Consensus pattern (13 bp):
GGGTCAGGCAGAC
Found at i:146699 original size:2 final size:2
Alignment explanation
Indices: 146687--146780 Score: 85
Period size: 2 Copynumber: 48.5 Consensus size: 2
146677 GGGGTGTGAC
*
146687 AT AT AT A- AT AT AT AA AT AT AT A- AT A- AT A- AT AT AT ACT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
*
146726 AT AT A- AT GT AT -T AT GAT AT AT AT AT AT AT AT ACT AT AT -T AT
1 AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT A-T AT AT AT AT
146767 AT ACT AT AT AT AT A
1 AT A-T AT AT AT AT A
146781 AAGCAAAAGG
Statistics
Matches: 77, Mismatches: 4, Indels: 22
0.75 0.04 0.21
Matches are distributed among these distances:
1 7 0.09
2 62 0.81
3 8 0.10
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:146699 original size:7 final size:7
Alignment explanation
Indices: 146687--146781 Score: 79
Period size: 7 Copynumber: 13.1 Consensus size: 7
146677 GGGGTGTGAC
146687 ATATATA
1 ATATATA
146694 ATATATAA
1 ATATAT-A
146702 ATATATA
1 ATATATA
146709 ATA-ATA
1 ATATATA
146715 ATATATA
1 ATATATA
146722 CTATATATA
1 --ATATATA
* *
146731 ATGTATT
1 ATATATA
146738 ATGATAT-
1 AT-ATATA
146745 ATATAT-
1 ATATATA
146751 ATATATA
1 ATATATA
* *
146758 CTATATT
1 ATATATA
146765 ATATACTA
1 ATATA-TA
146773 TATATATA
1 -ATATATA
146781 A
1 A
146782 AGCAAAAGGG
Statistics
Matches: 73, Mismatches: 7, Indels: 16
0.76 0.07 0.17
Matches are distributed among these distances:
6 16 0.22
7 32 0.44
8 13 0.18
9 12 0.16
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (7 bp):
ATATATA
Found at i:146718 original size:11 final size:11
Alignment explanation
Indices: 146687--146781 Score: 74
Period size: 11 Copynumber: 8.7 Consensus size: 11
146677 GGGGTGTGAC
146687 ATATATAATAT
1 ATATATAATAT
*
146698 ATAAAT-ATAT
1 ATATATAATAT
146708 A-ATAATAATAT
1 ATAT-ATAATAT
146719 ATACTAT-ATAT
1 ATA-TATAATAT
* *
146730 A-ATGTATTAT
1 ATATATAATAT
146740 GATATAT-ATAT
1 -ATATATAATAT
*
146751 ATATATACTAT
1 ATATATAATAT
*
146762 ATTATATACTAT
1 A-TATATAATAT
146774 ATATATAA
1 ATATATAA
146782 AGCAAAAGGG
Statistics
Matches: 67, Mismatches: 8, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
9 3 0.04
10 17 0.25
11 29 0.43
12 17 0.25
13 1 0.01
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (11 bp):
ATATATAATAT
Found at i:157612 original size:19 final size:19
Alignment explanation
Indices: 157556--157617 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
157546 AAAATTGTCA
* *
157556 AAATAAATAAATAAATGTT
1 AAATAAATAAAAAAATATT
**
157575 AAAT-TGTAAAAAAATATT
1 AAATAAATAAAAAAATATT
157593 AAATAAATAAAAGAAA-ATT
1 AAATAAATAAAA-AAATATT
157612 AAATAA
1 AAATAA
157618 GAAATTATTA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
18 14 0.40
19 18 0.51
20 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (19 bp):
AAATAAATAAAAAAATATT
Found at i:166724 original size:73 final size:72
Alignment explanation
Indices: 166626--166805 Score: 229
Period size: 73 Copynumber: 2.5 Consensus size: 72
166616 GATTATTTTC
* * *
166626 TTTAAAACCAGATTTGTCTCGCTTGAGACAGTTTTTA-C-AAAAAAGACATTTCATTTCACTCAA
1 TTTAAAACAAGATTTGTCTCACTTGAGACAGTTTTTACCGAAAAAAGACATTTCATTTCAATCAA
* *
166689 TATTTTTT
66 GA-TTGTT
* *
166697 TTCTCAAAACAAGATTTGTCTCACTTGAGACAATTTTTACTCGAAAGAAGACATTTCATTTCAAT
1 TT-T-AAAACAAGATTTGTCTCACTTGAGACAGTTTTTAC-CGAAAAAAGACATTTCATTTCAAT
166762 CAAGATTGTT
63 CAAGATTGTT
* *
166772 TTTAAAACAAGATTTATCTCACTTGAGATAGTTT
1 TTTAAAACAAGATTTGTCTCACTTGAGACAGTTT
166806 CCTCGAAACA
Statistics
Matches: 94, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
71 2 0.02
72 1 0.01
73 59 0.63
74 1 0.01
75 7 0.07
76 24 0.26
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (72 bp):
TTTAAAACAAGATTTGTCTCACTTGAGACAGTTTTTACCGAAAAAAGACATTTCATTTCAATCAA
GATTGTT
Found at i:166861 original size:39 final size:39
Alignment explanation
Indices: 166780--167154 Score: 436
Period size: 39 Copynumber: 9.7 Consensus size: 39
166770 TTTTTAAAAC
* *
166780 AAGA-TTTATCTCACTTGAGATAGTTTC-CTCGAAACAA
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAG
* * *
166817 AAGATTTTATCTTGCTTGACATAGTTTCACTCGAAACAT
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAG
* *
166856 AAGATTTTTTCTCGCTTTAGATAGTTTCACTCGAAACAG
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAG
* * * * *
166895 AAGATTTTTTCTCGCTTAAGATTGTTTCACTCAAAATAG
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAG
*
166934 AAGA-TTTGTCTCGCTTGAGATAGTTTCACTCGAAA-ATG
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACA-G
* * *
166972 AAGATTTTATCTCGCTTTAGATAGTTTCACTCGAAATAC
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAG
* *
167011 AAGATTTTATCTTGCTTGAGATAGTTTCACTCGAAATAG
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAG
* * * * * * *
167050 AATATTTTATCTCACATAAGATAATTTTTACTCGACACAG
1 AAGATTTTATCTCGCTTGAGAT-AGTTTCACTCGAAACAG
*
167090 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAA
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAG
** *
167129 AAGA-TTTATCTTACTTGAGATTGTTT
1 AAGATTTTATCTCGCTTGAGATAGTTT
167155 TTCTTAAAAC
Statistics
Matches: 289, Mismatches: 43, Indels: 11
0.84 0.13 0.03
Matches are distributed among these distances:
37 5 0.02
38 71 0.25
39 181 0.63
40 32 0.11
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.38
Consensus pattern (39 bp):
AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAG
Found at i:166957 original size:116 final size:117
Alignment explanation
Indices: 166780--167139 Score: 433
Period size: 116 Copynumber: 3.1 Consensus size: 117
166770 TTTTTAAAAC
* * * * * * *
166780 AAGA-TTTATCTCACTTGAGATAGTTTC-CTCGAAACAAAAGATTTTATCTTGCTTGACATAGTT
1 AAGATTTTATCTCGCTTAAGATAGTTTCACTCAAAATAGAAGATTTTATCTCGCTTGAGATAGTT
* *
166843 TCACTCGAAACATAAGATTTTTTCTCGCTTTAGATAGTTTCACTCGAAACAG
66 TCACTCGAAACATAAGATTTTATCTCGCTTTAGATAGTTTCACTCGAAACAA
* * *
166895 AAGATTTTTTCTCGCTTAAGATTGTTTCACTCAAAATAGAAGA-TTTGTCTCGCTTGAGATAGTT
1 AAGATTTTATCTCGCTTAAGATAGTTTCACTCAAAATAGAAGATTTTATCTCGCTTGAGATAGTT
* *
166959 TCACTCGAAA-ATGAAGATTTTATCTCGCTTTAGATAGTTTCACTCGAAATAC
66 TCACTCGAAACAT-AAGATTTTATCTCGCTTTAGATAGTTTCACTCGAAACAA
* * * * * * * *
167011 AAGATTTTATCTTGCTTGAGATAGTTTCACTCGAAATAGAATATTTTATCTCACATAAGATAATT
1 AAGATTTTATCTCGCTTAAGATAGTTTCACTCAAAATAGAAGATTTTATCTCGCTTGAGAT-AGT
* * * *
167076 TTTACTCGACACAGAAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAA
65 TTCACTCGAAACATAAGATTTTATCTCGCTTTAGATAGTTTCACTCGAAACAA
167129 AAGA-TTTATCT
1 AAGATTTTATCT
167140 TACTTGAGAT
Statistics
Matches: 209, Mismatches: 30, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
115 6 0.03
116 120 0.57
117 31 0.15
118 51 0.24
119 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (117 bp):
AAGATTTTATCTCGCTTAAGATAGTTTCACTCAAAATAGAAGATTTTATCTCGCTTGAGATAGTT
TCACTCGAAACATAAGATTTTATCTCGCTTTAGATAGTTTCACTCGAAACAA
Found at i:167320 original size:59 final size:59
Alignment explanation
Indices: 167186--167341 Score: 172
Period size: 59 Copynumber: 2.6 Consensus size: 59
167176 CATTTGAGGG
* * *
167186 ATTAACATTTCCTTTGCTAGATTCGCAACACTTCGAATCATCAACGCCTCACTTAAGGA
1 ATTAACATTTCCTTTGCTAGATTCACAACACTTCGAATCAGCAACGCCCCACTTAAGGA
* * *
167245 ATTAACATTTCATTTGCTAGATTCACAACACTTTGAATCAGCAATGCCCCAC-T-AGAGA
1 ATTAACATTTCCTTTGCTAGATTCACAACACTTCGAATCAGCAACGCCCCACTTAAG-GA
* * * * * *
167303 GTTTAATATTCCCTTTGCTCGATTCACAATATTTCGAAT
1 -ATTAACATTTCCTTTGCTAGATTCACAACACTTCGAAT
167342 TAGTTTAAGT
Statistics
Matches: 81, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
57 2 0.02
58 3 0.04
59 76 0.94
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (59 bp):
ATTAACATTTCCTTTGCTAGATTCACAACACTTCGAATCAGCAACGCCCCACTTAAGGA
Found at i:167446 original size:42 final size:41
Alignment explanation
Indices: 167366--167506 Score: 183
Period size: 42 Copynumber: 3.4 Consensus size: 41
167356 CGGGTCATCA
**
167366 ATAAGTCTTTCAAGCATGATCTTAAATCCTTTGGGTAATCT
1 ATAAGTCTTTCAAGCATGATCTTAAATCCTTAAGGTAATCT
* * * *
167407 ATAAGTATTTCGAGCATGATATTTAAATCCTTAATGTAATCT
1 ATAAGTCTTTCAAGCATGAT-CTTAAATCCTTAAGGTAATCT
* * *
167449 ATAAGTCTTTCGAGCATGATGCTTAAATCCTTCAGGTCATCT
1 ATAAGTCTTTCAAGCATGAT-CTTAAATCCTTAAGGTAATCT
167491 ATAAGTCTTTCAAGCA
1 ATAAGTCTTTCAAGCA
167507 AGATGATAAG
Statistics
Matches: 86, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
41 18 0.21
42 68 0.79
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (41 bp):
ATAAGTCTTTCAAGCATGATCTTAAATCCTTAAGGTAATCT
Found at i:168081 original size:16 final size:17
Alignment explanation
Indices: 168060--168096 Score: 67
Period size: 16 Copynumber: 2.2 Consensus size: 17
168050 CTCAGACATC
168060 CCCAAACCAA-ACCCGA
1 CCCAAACCAAGACCCGA
168076 CCCAAACCAAGACCCGA
1 CCCAAACCAAGACCCGA
168093 CCCA
1 CCCA
168097 GAATCCTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.41, C:0.51, G:0.08, T:0.00
Consensus pattern (17 bp):
CCCAAACCAAGACCCGA
Found at i:169475 original size:20 final size:20
Alignment explanation
Indices: 169450--169488 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
169440 TCCTTGTATG
169450 TATGTT-TATTTTATTTATTT
1 TATGTTGTATTTT-TTTATTT
169470 TATGTTGTATTTTTTTATT
1 TATGTTGTATTTTTTTATT
169489 ATTTATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.18, C:0.00, G:0.08, T:0.74
Consensus pattern (20 bp):
TATGTTGTATTTTTTTATTT
Found at i:181384 original size:20 final size:20
Alignment explanation
Indices: 181359--181401 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
181349 TCTAAGAGCC
*
181359 CATTTAGGACCATTTAGATG
1 CATTTAGGACCATATAGATG
* *
181379 CATTTAGGAGCATATAGTTG
1 CATTTAGGACCATATAGATG
181399 CAT
1 CAT
181402 GTAGTGGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (20 bp):
CATTTAGGACCATATAGATG
Found at i:185736 original size:2 final size:2
Alignment explanation
Indices: 185731--186006 Score: 192
Period size: 2 Copynumber: 148.5 Consensus size: 2
185721 AATATAAAAA
* *
185731 AT AT AT A- AT AT A- AT AA AT A- AT AT AT AA AT AT AT AT ACT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
* *
185771 AT A- AT AT AA AT AT AT A- AT AT AT AT AT AT AT A- AT AT AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
185810 AT A- AT AT AT AT A- AT A- AT AT AT AT A- AT AT AA AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
185847 AT AGT A- AT A- AT AT AT -T GA- AT AT AA AT AT AT AT AT AT AT AT
1 AT A-T AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT
* * *
185887 -T AT AT AA AT AT AT AT AT AGT A- AT A- AT A- AT AC AT AT -T AA
1 AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT
* * *
185925 AT AT AT AC AT AT -T AT AT A- AT AT AT AA AT A- AT A- AT AT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
185963 ACT AT AT AT AT AT AT A- AT GT AT -T AT GAT A- AT AT AT AT AT AT
1 A-T AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT
186004 AT A
1 AT A
186007 GAGAAAATCG
Statistics
Matches: 215, Mismatches: 26, Indels: 66
0.70 0.08 0.21
Matches are distributed among these distances:
1 27 0.13
2 178 0.83
3 10 0.05
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.42
Consensus pattern (2 bp):
AT
Found at i:185760 original size:43 final size:43
Alignment explanation
Indices: 185690--185980 Score: 170
Period size: 43 Copynumber: 6.8 Consensus size: 43
185680 ATAAAATTAA
185690 ATATAATACTAATATAATAATA-A-AAATATATAATATAAAAAAT
1 ATATAATA-TAATA-AATAATATATAAATATATAATATAAAAAAT
* *
185733 ATATAATATAATAAATAATATATAAATATAT-ATACTATATAAT
1 ATATAATATAATAAATAATATATAAATATATAATA-TAAAAAAT
*
185776 ATA-AATAT-AT-AAT-ATATAT--ATATATAATAT-AAATAT
1 ATATAATATAATAAATAATATATAAATATATAATATAAAAAAT
*
185812 A-ATATATATAATAATATATATAATATAAATAT-T-ATATAGTAATAAT
1 ATATA-ATATAATAA-ATA-AT-ATATAAATATATAATATA--AAAAAT
* * * *
185858 ATATTGA-AT-ATAAAT-ATATATATATATATTATATAAATATAT
1 ATA-TAATATAATAAATAATATATAAATATATAATATAAA-AAAT
* * *
185900 ATATAGTAATAAT-AATACATAT-TAAATATATACATATTATATAAT
1 ATATAAT-ATAATAAATA-ATATATAAATATATA-ATA-TAAAAAAT
* *
185945 ATATAA-ATAATAATATGTACTATATATATATATAAT
1 ATATAATATAATAA-A--TAATATATAAATATATAAT
185981 GTATTATGAT
Statistics
Matches: 193, Mismatches: 21, Indels: 65
0.69 0.08 0.23
Matches are distributed among these distances:
35 1 0.01
36 5 0.03
37 11 0.06
38 5 0.03
39 7 0.04
40 5 0.03
41 21 0.11
42 24 0.12
43 48 0.25
44 14 0.07
45 23 0.12
46 15 0.08
47 13 0.07
48 1 0.01
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (43 bp):
ATATAATATAATAAATAATATATAAATATATAATATAAAAAAT
Found at i:185817 original size:80 final size:84
Alignment explanation
Indices: 185690--185979 Score: 295
Period size: 86 Copynumber: 3.5 Consensus size: 84
185680 ATAAAATTAA
* * * *
185690 ATATAATA-CTAATATAATAATAAAAATATATA-ATATA-AAAAAT-ATATAATATAATAAATA-
1 ATATAATATATAATATAATAATATATATATATATATATATAAATATAATATAATATAATAAATAC
185750 ATATATAAATATATATACT
66 ATATATAAATATATATACT
185769 ATATAATATA-AATAT-ATAATATATATATATATA-ATATAAATATAATAT-ATATAATAATATA
1 ATATAATATATAATATAATAATATATATATATATATATATAAATATAATATAATATAATAA-ATA
* *
185830 TATAATATAAATATTATATAGT
65 CAT-ATATAAATA-TATATACT
*
185852 A-ATAATATATTGAATAT-A-AATATATATATATATATTATATAAATATATATATAGTAATAAT-
1 ATATAATATA-T-AATATAATAATATATATATATATA-TATATAAATATA-ATATAAT-ATAATA
*
185913 AATACATAT-TAAATATATACATATT
61 AATACATATATAAATATAT--ATACT
*
185938 ATATAATATATAA-ATAATAATATGTACTATATATATATATAA
1 ATATAATATATAATATAATAATATATA-TATATATATATATAA
185980 TGTATTATGA
Statistics
Matches: 180, Mismatches: 9, Indels: 37
0.80 0.04 0.16
Matches are distributed among these distances:
78 17 0.09
79 28 0.16
80 7 0.04
81 2 0.01
82 17 0.09
83 8 0.04
84 21 0.12
85 15 0.08
86 33 0.18
87 25 0.14
88 2 0.01
89 5 0.03
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (84 bp):
ATATAATATATAATATAATAATATATATATATATATATATAAATATAATATAATATAATAAATAC
ATATATAAATATATATACT
Found at i:185931 original size:125 final size:114
Alignment explanation
Indices: 185688--186006 Score: 305
Period size: 123 Copynumber: 2.7 Consensus size: 114
185678 AAATAAAATT
*
185688 AAATAT-AATACTAATATAATAATAAAAATATATAATATAAA-A-A-ATAT-ATAATATAATAA-
1 AAATATAAATA-TAATATAATAAT--AAATATATAATATAAATATATATATAATAATATATTAAT
* *
185747 ATAATATATAAATATATATACTATATAATATAAATATATAATATATATATATA
63 ATAA-ATATATATATATATACTATATAATATAAATATATAATATATACATATA
*
185800 TAATATAAATATAATATATATAATAATATATATAATATAAATATTATATAGTAATAATATATTGA
1 AAATATAAATATAATATA-ATAATAA-ATATATAATATAAATA-TATATA-TAATAATATATT-A
* *
185865 ATATAAATATATATATATATATTATATAAATATATATATAGTAATAATAATACATATTA
61 ATATAAATATATATATATATACTATAT-AATATAAATATA-TAAT-AT-ATACATA-TA
* * * * *
185924 AATATATACATATTATATAATATATAAATA-ATAATATGTACTATATATATATATAATGTATT-A
1 AA-ATATAAATATAATATAATA-ATAAATATATAATAT-AAATATATATATA-ATAATATATTAA
185987 TGAT-AATATATATATATATA
62 T-ATAAATATATATATATATA
186007 GAGAAAATCG
Statistics
Matches: 174, Mismatches: 12, Indels: 33
0.79 0.05 0.15
Matches are distributed among these distances:
111 2 0.01
112 26 0.15
113 10 0.06
115 1 0.01
116 3 0.02
117 1 0.01
118 9 0.05
119 21 0.12
120 15 0.09
121 22 0.13
122 6 0.03
123 28 0.16
124 12 0.07
125 18 0.10
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (114 bp):
AAATATAAATATAATATAATAATAAATATATAATATAAATATATATATAATAATATATTAATATA
AATATATATATATATACTATATAATATAAATATATAATATATACATATA
Found at i:186173 original size:21 final size:20
Alignment explanation
Indices: 186087--186244 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 20
186077 AAATGACCAA
**
186087 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
186106 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
186126 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
186146 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
186167 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
186188 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
186208 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
* *
186229 GAAAATTGCAACGCGA
1 CAAAATCGCAACGCGA
186245 ACACATAAAT
Statistics
Matches: 103, Mismatches: 30, Indels: 11
0.72 0.21 0.08
Matches are distributed among these distances:
19 16 0.16
20 40 0.39
21 47 0.46
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.20
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:186273 original size:20 final size:20
Alignment explanation
Indices: 186250--186440 Score: 224
Period size: 20 Copynumber: 9.6 Consensus size: 20
186240 CGCGAACACA
186250 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACGCGTATCCG
*
186270 TAAATCGCAACGTGTATCCG
1 TAAATCGCAACGCGTATCCG
**
186290 TAAATCGCAACGCGTATGGG
1 TAAATCGCAACGCGTATCCG
*
186310 TAAATCGCAATGCGTATCCG
1 TAAATCGCAACGCGTATCCG
*
186330 TATATCGCAACGCGTATCCG
1 TAAATCGCAACGCGTATCCG
*
186350 TAAATCGCAACG-ATAATCCG
1 TAAATCGCAACGCGT-ATCCG
* * *
186370 TAAATCGCAACGAGAATCTG
1 TAAATCGCAACGCGTATCCG
*
186390 TAAATCGCAACG-ATAATCCG
1 TAAATCGCAACGCGT-ATCCG
* * *
186410 TAAATCGCAACGAGAATCTG
1 TAAATCGCAACGCGTATCCG
*
186430 TAAATCACAAC
1 TAAATCGCAAC
186441 ACTGAAATTT
Statistics
Matches: 146, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
19 1 0.01
20 145 0.99
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (20 bp):
TAAATCGCAACGCGTATCCG
Found at i:186280 original size:40 final size:40
Alignment explanation
Indices: 186211--186440 Score: 214
Period size: 40 Copynumber: 5.8 Consensus size: 40
186201 CGATTTTCCA
* ** * * *
186211 AAATCGCAACGCGAATATGAAAATTGCAACGCG-AACACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGTAAC-CGT
* *
186251 AAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGTAACCGT
** * *
186291 AAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGTAACCGT
* *
186331 ATATCGCAACGCGTATCCGTAAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGTAA-CCGT
* * * *
186371 AAATCGCAACGAGAATCTGTAAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGTAA-CCGT
* * * *
186411 AAATCGCAACGAGAATCTGTAAATCACAAC
1 AAATCGCAACGCGTATCCGTAAATCGCAAC
186441 ACTGAAATTT
Statistics
Matches: 165, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
39 2 0.01
40 161 0.98
41 2 0.01
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.20
Consensus pattern (40 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGTAACCGT
Found at i:187160 original size:24 final size:24
Alignment explanation
Indices: 187121--187167 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
187111 AAATTTGGTC
187121 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
187145 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
187168 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:189675 original size:33 final size:33
Alignment explanation
Indices: 189624--189785 Score: 218
Period size: 33 Copynumber: 4.7 Consensus size: 33
189614 CGGAAATTAC
*
189624 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAAAATCGCAATGCGAAATGAA
*
189657 AATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACGA-GAAAATCGCAATGC-GAAATGAA
*
189691 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAAAATCGCAATGCGAAATGAA
189724 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAAAATCGCAATGCGAAATGAA
*
189762 AATCGCAACGAGAGAATCGCAATG
1 AATCGCAACGAGAAAATCGCAATG
189786 TGAGGGATTT
Statistics
Matches: 115, Mismatches: 6, Indels: 16
0.84 0.04 0.12
Matches are distributed among these distances:
32 1 0.01
33 49 0.43
34 30 0.26
35 3 0.03
36 2 0.02
37 1 0.01
38 29 0.25
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.14
Consensus pattern (33 bp):
AATCGCAACGAGAAAATCGCAATGCGAAATGAA
Found at i:189713 original size:67 final size:69
Alignment explanation
Indices: 189605--189785 Score: 269
Period size: 67 Copynumber: 2.6 Consensus size: 69
189595 GCATTTGACT
** * *
189605 ATCGCAACACGGAAATTACAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAA-C-AT
1 ATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAAGCAAT
189668 GAAA
66 GAAA
*
189672 ATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGA
1 ATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAA-GC--
189737 AATGAAA
63 AATGAAA
189744 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATG
1 ATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATG
189786 TGAGGGATTT
Statistics
Matches: 104, Mismatches: 5, Indels: 6
0.90 0.04 0.05
Matches are distributed among these distances:
67 55 0.53
69 1 0.01
71 32 0.31
72 16 0.15
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.14
Consensus pattern (69 bp):
ATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAAGCAAT
GAAA
Found at i:189729 original size:19 final size:19
Alignment explanation
Indices: 189638--189769 Score: 167
Period size: 19 Copynumber: 7.4 Consensus size: 19
189628 GCAACGAGAG
189638 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
189657 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
189671 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
189691 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
189705 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
189724 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
189743 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
189762 AATCGCAA
1 AATCGCAA
189770 CGAGAGAATC
Statistics
Matches: 98, Mismatches: 4, Indels: 22
0.79 0.03 0.18
Matches are distributed among these distances:
14 22 0.22
15 1 0.01
16 3 0.03
17 2 0.02
18 2 0.02
19 55 0.56
20 13 0.13
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:189868 original size:21 final size:22
Alignment explanation
Indices: 189817--189870 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
189807 TGGTTGTGAG
**
189817 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
189839 GGAAATCTTCGGAGAT-GGGAC
1 GGATTTCTTCGGAGATGGGGAC
189860 GGATTTCTTCG
1 GGATTTCTTCG
189871 CGTAGAGAGT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 14 0.54
22 12 0.46
ACGTcount: A:0.20, C:0.17, G:0.39, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:190034 original size:20 final size:20
Alignment explanation
Indices: 190009--190199 Score: 194
Period size: 20 Copynumber: 9.7 Consensus size: 20
189999 CGCTTAAAAT
190009 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
190029 CGCGTTGC-ATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
190050 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
190069 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
190089 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
190109 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
190129 CACGTTGCGA-TTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
190148 CGCGTTGCGA-TTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
190167 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
190187 CGCGTTGCGATTT
1 CGCGTTGCGATTT
190200 TGGAAAATCG
Statistics
Matches: 142, Mismatches: 22, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
19 36 0.25
20 103 0.73
21 3 0.02
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:190412 original size:11 final size:11
Alignment explanation
Indices: 190389--190496 Score: 67
Period size: 11 Copynumber: 9.4 Consensus size: 11
190379 CACTGAGGCG
190389 ATATTAAATAT
1 ATATTAAATAT
190400 ATATTGAAAATAT
1 ATATT--AAATAT
*
190413 ATATTGAATAT
1 ATATTAAATAT
*
190424 ATA-AATAATAT
1 ATATTA-AATAT
*
190435 ATATTATATAT
1 ATATTAAATAT
** *
190446 ATATTGTATAA
1 ATATTAAATAT
190457 ATA-TAATATAT
1 ATATTAA-ATAT
* *
190468 AGTAATAATAATAC
1 A-T-ATTA-AATAT
190482 ATATTAAATAT
1 ATATTAAATAT
190493 ATAT
1 ATAT
190497 ACATATTATA
Statistics
Matches: 74, Mismatches: 14, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
10 1 0.01
11 49 0.66
12 5 0.07
13 13 0.18
14 5 0.07
15 1 0.01
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.43
Consensus pattern (11 bp):
ATATTAAATAT
Found at i:190412 original size:13 final size:13
Alignment explanation
Indices: 190394--190426 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
190384 AGGCGATATT
190394 AAATATATATTGA
1 AAATATATATTGA
190407 AAATATATATTGA
1 AAATATATATTGA
*
190420 ATATATA
1 AAATATA
190427 AATAATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (13 bp):
AAATATATATTGA
Found at i:190425 original size:2 final size:2
Alignment explanation
Indices: 190420--190573 Score: 97
Period size: 2 Copynumber: 83.5 Consensus size: 2
190410 TATATATTGA
* * *
190420 AT AT AT AA AT A- AT AT AT AT -T AT AT AT AT AT -T GT AT AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
190459 AT A- AT AT AT AGT A- AT A- AT A- AT AC AT AT -T AA AT AT AT AT
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
190497 AC AT AT -T AT AT A- AT AT AT A- AT A- AT A- AT AT GT ACT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
*
190535 AT AT A- AT GT AT -T AT GAT A- AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT A
190574 GCAAAAGGGT
Statistics
Matches: 118, Mismatches: 15, Indels: 38
0.69 0.09 0.22
Matches are distributed among these distances:
1 16 0.14
2 96 0.81
3 6 0.05
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (2 bp):
AT
Found at i:190447 original size:31 final size:31
Alignment explanation
Indices: 190409--190840 Score: 178
Period size: 29 Copynumber: 14.2 Consensus size: 31
190399 TATATTGAAA
190409 ATATATATTGAATATATAAATAATATATATTAT
1 ATATATATT-AATATATAAATAATATATA-TAT
*
190442 ATATATATT-GTATA-AATATAATATATAGTA-
1 ATATATATTAATATATAA-ATAATATATA-TAT
* *
190472 ATA-ATAATACATAT-TAAAT-ATATATACAT
1 ATATATATTA-ATATATAAATAATATATATAT
*
190501 AT-TATA-TAATATATAATAATAATATGTACTAT
1 ATATATATTAATATAT-A-AATAATATATA-TAT
*
190533 ATATATAATGTATTATGAT-AATATATATATATAT
1 ATATAT-AT-TAATAT-ATAAATA-ATATATATAT
** * *** ** * *
190567 ATATATAGCAAAAGGGTCGGACGAAAATA-AGTGT
1 ATATATATTAATA---TATAAATAATATATA-TAT
* *
190601 CTACATATT-ATATAT--AT-ATATAT-TGA-
1 ATATATATTAATATATAAATAATATATAT-AT
*
190627 ATATATA--AATATAT-TAT-ATAGTA-ATA-
1 ATATATATTAATATATAAATAATA-TATATAT
190653 ATATATATTGAATATATAAATAATATATATTAT
1 ATATATATT-AATATATAAATAATATATA-TAT
190686 ATATATATT-ATATA-AATATAATATATAGTA-
1 ATATATATTAATATATAA-ATAATATATA-TAT
* *
190716 ATA-ATAATACATAT-TAAAT-ATATATACAT
1 ATATATATTA-ATATATAAATAATATATATAT
*
190745 AT-TATA-TAATATATAAATAATA-ATATGT
1 ATATATATTAATATATAAATAATATATATAT
*
190773 ACTATATA-T-ATATATATAT-ATATATATAT
1 A-TATATATTAATATATAAATAATATATATAT
*
190802 ATATATA-TATATATATATATATATATATATAT
1 ATATATATTA-ATATATAAATA-ATATATATAT
190834 ATATATA
1 ATATATA
190841 GCAAAAGGGT
Statistics
Matches: 308, Mismatches: 40, Indels: 103
0.68 0.09 0.23
Matches are distributed among these distances:
25 6 0.02
26 19 0.06
27 15 0.05
28 27 0.09
29 59 0.19
30 37 0.12
31 54 0.18
32 25 0.08
33 25 0.08
34 25 0.08
35 9 0.03
36 5 0.02
37 2 0.01
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (31 bp):
ATATATATTAATATATAAATAATATATATAT
Found at i:190498 original size:17 final size:18
Alignment explanation
Indices: 190471--190515 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 18
190461 AATATATAGT
190471 AATAATA-ATACATATTA
1 AATAATATATACATATTA
190488 AAT-ATATATACATATTA
1 AATAATATATACATATTA
*
190505 TATAATATATA
1 AATAATATATA
190516 ATAATAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 3 0.12
17 15 0.60
18 7 0.28
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (18 bp):
AATAATATATACATATTA
Found at i:190616 original size:2 final size:2
Alignment explanation
Indices: 190605--190840 Score: 215
Period size: 2 Copynumber: 125.5 Consensus size: 2
190595 AAGTGTCTAC
*
190605 AT AT -T AT AT AT AT AT AT AT -T GA- AT AT AT AA AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT
*
190644 AT AGT A- AT A- AT AT AT AT -T GA- AT AT AT AA AT A- AT AT AT AT
1 AT A-T AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT
*
190683 -T AT AT AT AT AT -T AT AT AA AT AT A- AT AT AT AGT A- AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT
* * *
190721 A- AT AC AT AT -T AA AT AT AT AT AC AT AT -T AT AT A- 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
* *
190759 AA AT A- AT A- AT AT GT ACT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT
190800 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
190841 GCAAAAGGGT
Statistics
Matches: 193, Mismatches: 16, Indels: 50
0.75 0.06 0.19
Matches are distributed among these distances:
1 20 0.10
2 167 0.87
3 6 0.03
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:190630 original size:13 final size:12
Alignment explanation
Indices: 190614--190839 Score: 131
Period size: 11 Copynumber: 18.8 Consensus size: 12
190604 CATATTATAT
190614 ATATATATATTGA
1 ATATATATATT-A
*
190627 ATATATA-AAT-
1 ATATATATATTA
*
190637 ATATTATATAGTA
1 ATA-TATATATTA
*
190650 ATAATATATATTG
1 AT-ATATATATTA
190663 A-ATATATA--A
1 ATATATATATTA
190672 ATAATATATATT-
1 AT-ATATATATTA
190684 ATATATATATT-
1 ATATATATATTA
*
190695 ATATAAATA-TA
1 ATATATATATTA
*
190706 ATATATAGTAATA
1 ATATATA-TATTA
*
190719 ATAATACATATTA
1 AT-ATATATATTA
190732 A-ATATATA-TA
1 ATATATATATTA
190742 CATAT-TATA-TA
1 -ATATATATATTA
*
190753 ATATATA-AATA
1 ATATATATATTA
*
190764 ATA-ATAT-GTA
1 ATATATATATTA
*
190774 CTATATATATATA
1 ATATATATAT-TA
190787 TATATATATATATA
1 -ATATATATAT-TA
190801 TATATATATATATA
1 -ATATATATAT-TA
190815 TATATATATATATA
1 -ATATATATAT-TA
190829 TATATATATAT
1 -ATATATATAT
190840 AGCAAAAGGG
Statistics
Matches: 178, Mismatches: 14, Indels: 41
0.76 0.06 0.18
Matches are distributed among these distances:
9 1 0.01
10 18 0.10
11 65 0.37
12 10 0.06
13 28 0.16
14 56 0.31
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (12 bp):
ATATATATATTA
Found at i:192597 original size:5 final size:5
Alignment explanation
Indices: 192587--192765 Score: 284
Period size: 5 Copynumber: 37.2 Consensus size: 5
192577 TGTAATACTG
*
192587 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTC TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
192637 TATTA TATTA TA-TA TATTA TATTA TA-T- TATTA TATTA TA-T- TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
192682 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TA-TA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
192731 TATTTA TATTA TA-T- TATTA TATTA TATTA TATTA T
1 TA-TTA TATTA TATTA TATTA TATTA TATTA TATTA T
192766 TATAGAGATA
Statistics
Matches: 163, Mismatches: 2, Indels: 18
0.89 0.01 0.10
Matches are distributed among these distances:
3 6 0.04
4 14 0.09
5 138 0.85
6 5 0.03
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:194042 original size:14 final size:14
Alignment explanation
Indices: 194009--194043 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
193999 TAATTATATA
*
194009 GTTTTATTATTTAT
1 GTTTTCTTATTTAT
194023 -TTTTCTTATTTAT
1 GTTTTCTTATTTAT
194036 GTTTTCTT
1 GTTTTCTT
194044 GATCTATACC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.14, C:0.06, G:0.06, T:0.74
Consensus pattern (14 bp):
GTTTTCTTATTTAT
Found at i:194121 original size:26 final size:26
Alignment explanation
Indices: 194085--194142 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
194075 ACATGTATAT
194085 TCTATATTACTACT-ATATTTTATTA
1 TCTATATTACTACTAATATTTTATTA
**
194110 TCTATATGTACTTTTAATATTTTATTA
1 TCTATAT-TACTACTAATATTTTATTA
194137 -CTATAT
1 TCTATAT
194143 ACTTTAGTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 7 0.24
26 11 0.38
27 11 0.38
ACGTcount: A:0.31, C:0.10, G:0.02, T:0.57
Consensus pattern (26 bp):
TCTATATTACTACTAATATTTTATTA
Found at i:194155 original size:24 final size:26
Alignment explanation
Indices: 194099--194147 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
194089 TATTACTACT
194099 ATATTTTATTATCTATATGTACTTTTA
1 ATATTTTATTATCTATA-GTACTTTTA
194126 ATATTTTATTA-CTATA-TACTTT
1 ATATTTTATTATCTATAGTACTTT
194148 AGTTATTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 6 0.27
26 5 0.23
27 11 0.50
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.59
Consensus pattern (26 bp):
ATATTTTATTATCTATAGTACTTTTA
Found at i:194185 original size:26 final size:25
Alignment explanation
Indices: 194156--194206 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
194146 TTAGTTATTT
*
194156 GTCACTGAT-TATTTTATTATTTATAA
1 GTCA-TGATATATTGTA-TATTTATAA
*
194182 GTCATTATATATTGTATATTTATAA
1 GTCATGATATATTGTATATTTATAA
194207 CTAATATCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.33, C:0.06, G:0.08, T:0.53
Consensus pattern (25 bp):
GTCATGATATATTGTATATTTATAA
Found at i:205781 original size:105 final size:105
Alignment explanation
Indices: 205629--206041 Score: 484
Period size: 105 Copynumber: 4.0 Consensus size: 105
205619 TCGTGCCACT
* ** *
205629 CAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAACAATTTCCTAGTT
1 CAAGACAACACAAGCTCAACTTCACAACGAAGGGACGGCTGACTGTCAACAACAATTTCCCAGTT
* * *
205694 TCAGGGCCAATTTCAACTTCACAGCGAAGGATATTGGACC
66 CCAGAGCCAATCTCAACTTCACAGCGAAGGATATTGGACC
* * *
205734 CAAGACAGCACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAATTT--C-G-
1 CAAGACAACACAAGCTCAACTTCACAACGAAGGGACGGCTGACTGTCAAC-AACAATTTCCCAGT
* *
205795 ----GAGCCAATCTCAACTTCACAACGAAGGATATTGGACT
65 TCCAGAGCCAATCTCAACTTCACAGCGAAGGATATTGGACC
* * * * **
205832 CGAGACAACACAAGTTCAACTTCACAATGAAGGGACGGTTGGTTGTCAACAACAATTTCCCAGTT
1 CAAGACAACACAAGCTCAACTTCACAACGAAGGGACGGCTGACTGTCAACAACAATTTCCCAGTT
* * *
205897 CCAGGGCCAGTTTCAACTTCACAGCGAAGGATATTGGACC
66 CCAGAGCCAATCTCAACTTCACAGCGAAGGATATTGGACC
* * * * * *
205937 CAAGACAGCACAAGCTCAACTTCGCAGCGAAGGGGCGGCTGACTGTCAATAAACAATTTCCCGGT
1 CAAGACAACACAAGCTCAACTTCACAACGAAGGGACGGCTGACTGTCAA-CAACAATTTCCCAGT
*
206002 TCCAGAACCAATCTCAACTTCACAGC-AGAGGATATTGGAC
65 TCCAGAGCCAATCTCAACTTCACAGCGA-AGGATATTGGAC
206042 TCAGAACAAT
Statistics
Matches: 256, Mismatches: 41, Indels: 21
0.81 0.13 0.07
Matches are distributed among these distances:
97 8 0.03
98 74 0.29
99 1 0.00
100 1 0.00
103 1 0.00
105 116 0.45
106 55 0.21
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.20
Consensus pattern (105 bp):
CAAGACAACACAAGCTCAACTTCACAACGAAGGGACGGCTGACTGTCAACAACAATTTCCCAGTT
CCAGAGCCAATCTCAACTTCACAGCGAAGGATATTGGACC
Found at i:205980 original size:203 final size:203
Alignment explanation
Indices: 205626--205996 Score: 670
Period size: 203 Copynumber: 1.8 Consensus size: 203
205616 ATATCGTGCC
*
205626 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAACAATTTCCTA
1 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAACAATTTCCCA
*
205691 GTTTCAGGGCCAATTTCAACTTCACAGCGAAGGATATTGGACCCAAGACAGCACAAGCTCAACTT
66 GTTCCAGGGCCAATTTCAACTTCACAGCGAAGGATATTGGACCCAAGACAGCACAAGCTCAACTT
205756 CACAGCGAAGGGGCGGCTGACTGTCAACAAACAATTTCGGAGCCAATCTCAACTTCACAACGAAG
131 CACAGCGAAGGGGCGGCTGACTGTCAACAAACAATTTCGGAGCCAATCTCAACTTCACAACGAAG
205821 GATATTGG
196 GATATTGG
* * *
205829 ACTCGAGACAACACAAGTTCAACTTCACAATGAAGGGACGGTTGGTTGTCAACAACAATTTCCCA
1 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAACAATTTCCCA
*
205894 GTTCCAGGGCCAGTTTCAACTTCACAGCGAAGGATATTGGACCCAAGACAGCACAAGCTCAACTT
66 GTTCCAGGGCCAATTTCAACTTCACAGCGAAGGATATTGGACCCAAGACAGCACAAGCTCAACTT
* *
205959 CGCAGCGAAGGGGCGGCTGACTGTCAATAAACAATTTC
131 CACAGCGAAGGGGCGGCTGACTGTCAACAAACAATTTC
205997 CCGGTTCCAG
Statistics
Matches: 160, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
203 160 1.00
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.20
Consensus pattern (203 bp):
ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAACAATTTCCCA
GTTCCAGGGCCAATTTCAACTTCACAGCGAAGGATATTGGACCCAAGACAGCACAAGCTCAACTT
CACAGCGAAGGGGCGGCTGACTGTCAACAAACAATTTCGGAGCCAATCTCAACTTCACAACGAAG
GATATTGG
Found at i:207552 original size:12 final size:12
Alignment explanation
Indices: 207517--207564 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
207507 GTTTATTAGC
207517 ATTTATATTTAATT
1 ATTTAT-TTT-ATT
*
207531 ATATAGTTTTATT
1 ATTTA-TTTTATT
*
207544 ATTTATTTTCTT
1 ATTTATTTTATT
207556 ATTTATTTT
1 ATTTATTTT
207565 TTTTCTTGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
12 15 0.50
13 7 0.23
14 7 0.23
15 1 0.03
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (12 bp):
ATTTATTTTATT
Found at i:207640 original size:28 final size:30
Alignment explanation
Indices: 207615--207669 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
207605 ATGTTTATAT
207615 TCTATAT-TACTACT-ATATTTTATTATTA
1 TCTATATGTACTACTAATATTTTATTATTA
**
207643 TCTATATGTACTTTTAATATTTTATTA
1 TCTATATGTACTACTAATATTTTATTA
207670 CTATATACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 7 0.30
29 5 0.22
30 11 0.48
ACGTcount: A:0.31, C:0.09, G:0.02, T:0.58
Consensus pattern (30 bp):
TCTATATGTACTACTAATATTTTATTATTA
Found at i:207711 original size:9 final size:9
Alignment explanation
Indices: 207697--207725 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
207687 TTGTCACTTG
207697 ATTATTTTT
1 ATTATTTTT
207706 ATTATTTTT
1 ATTATTTTT
207715 ATTATTTTT
1 ATTATTTTT
207724 AT
1 AT
207726 AAGTCATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
ATTATTTTT
Found at i:208668 original size:13 final size:13
Alignment explanation
Indices: 208652--208678 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
208642 ATAATTTTAT
208652 TTTTAAAAATATA
1 TTTTAAAAATATA
208665 TTTTAAAAATATA
1 TTTTAAAAATATA
208678 T
1 T
208679 GGTATCATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TTTTAAAAATATA
Found at i:217222 original size:3 final size:3
Alignment explanation
Indices: 217214--217239 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
217204 CCTTTACCTT
217214 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
217240 CATAGAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:217321 original size:18 final size:19
Alignment explanation
Indices: 217300--217338 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
217290 ATAAGAAAAC
217300 TTATTAAATTA-AGTTTTA
1 TTATTAAATTATAGTTTTA
* *
217318 TTATTAATTTATATTTTTA
1 TTATTAAATTATAGTTTTA
217337 TT
1 TT
217339 TGATTAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (19 bp):
TTATTAAATTATAGTTTTA
Found at i:217719 original size:18 final size:18
Alignment explanation
Indices: 217696--217730 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
217686 ACATGATGAC
217696 TGAGATT-TGATAATCATT
1 TGAGATTATGAT-ATCATT
217714 TGAGATTATGATATCAT
1 TGAGATTATGATATCAT
217731 ATTTTATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.34, C:0.06, G:0.17, T:0.43
Consensus pattern (18 bp):
TGAGATTATGATATCATT
Found at i:218095 original size:2 final size:2
Alignment explanation
Indices: 218088--218126 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
218078 AACTGTTGAA
218088 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
218127 AAAAATATCC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:220193 original size:51 final size:52
Alignment explanation
Indices: 220120--220381 Score: 436
Period size: 54 Copynumber: 5.0 Consensus size: 52
220110 TCTTAAAAAC
220120 TAAAAAAGTCAAATTCAATAATTAAATGTTATCTTATCCCTATTAAAATTAT
1 TAAAAAAGTCAAATTCAATAATTAAATGTTATCTTATCCCTATTAAAATTAT
220172 TAAAAAAGTCAAA-TCAATAATTAAATGTTATCTTATCCCTATTAAAATTAT
1 TAAAAAAGTCAAATTCAATAATTAAATGTTATCTTATCCCTATTAAAATTAT
*
220223 TTAAAAAGTCAAATTCAATAATTAAATGTTATCTTATCCCTATTAAAATTAAT
1 TAAAAAAGTCAAATTCAATAATTAAATGTTATCTTATCCCTATTAAAATT-AT
* * *
220276 AAAAAAAAGTTAAATTCAATAATTAAATGTTATCTTATCCATATTAAAATTAT
1 -TAAAAAAGTCAAATTCAATAATTAAATGTTATCTTATCCCTATTAAAATTAT
*
220329 TAAAAAAAGTTAAATTCAATAATTAAATGTTATCTTATCCCTATTGAAAATTA
1 T-AAAAAAGTCAAATTCAATAATTAAATGTTATCTTATCCCTATT-AAAATTA
220382 GATCCGGTGA
Statistics
Matches: 198, Mismatches: 7, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
51 50 0.25
52 49 0.25
53 46 0.23
54 53 0.27
ACGTcount: A:0.47, C:0.10, G:0.04, T:0.38
Consensus pattern (52 bp):
TAAAAAAGTCAAATTCAATAATTAAATGTTATCTTATCCCTATTAAAATTAT
Found at i:220237 original size:103 final size:106
Alignment explanation
Indices: 220121--220381 Score: 438
Period size: 103 Copynumber: 2.5 Consensus size: 106
220111 CTTAAAAACT
*
220121 AAAAAAGTCAAATTCAATAATTAAATGTTATCTTATCCCTATTAAAATTAT-TAAAAAAGTCAAA
1 AAAAAAGTCAAATTCAATAATTAAATGTTATCTTATCCCTATTAAAATTATAAAAAAAAGTCAAA
*
220185 -TCAATAATTAAATGTTATCTTATCCCTATTAAAATTATT-
66 TTCAATAATTAAATGTTATCTTATCCATATTAAAATTATTA
* *
220224 TAAAAAGTCAAATTCAATAATTAAATGTTATCTTATCCCTATTAAAATTAATAAAAAAAAGTTAA
1 AAAAAAGTCAAATTCAATAATTAAATGTTATCTTATCCCTATTAAAATT-ATAAAAAAAAGTCAA
220289 ATTCAATAATTAAATGTTATCTTATCCATATTAAAATTATTA
65 ATTCAATAATTAAATGTTATCTTATCCATATTAAAATTATTA
*
220331 AAAAAAGTTAAATTCAATAATTAAATGTTATCTTATCCCTATTGAAAATTA
1 AAAAAAGTCAAATTCAATAATTAAATGTTATCTTATCCCTATT-AAAATTA
220382 GATCCGGTGA
Statistics
Matches: 147, Mismatches: 6, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
103 48 0.33
104 2 0.01
105 11 0.07
106 38 0.26
107 42 0.29
108 6 0.04
ACGTcount: A:0.48, C:0.10, G:0.04, T:0.38
Consensus pattern (106 bp):
AAAAAAGTCAAATTCAATAATTAAATGTTATCTTATCCCTATTAAAATTATAAAAAAAAGTCAAA
TTCAATAATTAAATGTTATCTTATCCATATTAAAATTATTA
Found at i:222333 original size:15 final size:15
Alignment explanation
Indices: 222313--222385 Score: 119
Period size: 15 Copynumber: 4.9 Consensus size: 15
222303 ATAAGGTTAT
222313 TTATTTTAAAATAAA
1 TTATTTTAAAATAAA
222328 TTATTTTAAAATAAA
1 TTATTTTAAAATAAA
* *
222343 TTATTATAAAATAAT
1 TTATTTTAAAATAAA
222358 TTATTTTAAAATAAA
1 TTATTTTAAAATAAA
*
222373 TTATTATAAAATA
1 TTATTTTAAAATA
222386 TGGATTGATT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 53 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TTATTTTAAAATAAA
Found at i:222413 original size:36 final size:32
Alignment explanation
Indices: 222356--222490 Score: 110
Period size: 32 Copynumber: 4.4 Consensus size: 32
222346 TTATAAAATA
222356 ATTTATTTTAAAATAAATTATTATAAAATATGGATTG
1 ATTTATTTT-AAATAAATTA-T-T--AATATGGATTG
* *
222393 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAAATTATTAATATGGATTG
222425 ATTTA-TTT---T--A--A--AATATGGATTG
1 ATTTATTTTAAATAAATTATTAATATGGATTG
* * *
222447 ATTTATTTTAAATAATTTATTAGTATAGATTG
1 ATTTATTTTAAATAAATTATTAATATGGATTG
222479 ATTTATTTTAAA
1 ATTTATTTTAAA
222491 ATATGGATTG
Statistics
Matches: 81, Mismatches: 7, Indels: 25
0.72 0.06 0.22
Matches are distributed among these distances:
22 15 0.19
23 3 0.04
24 1 0.01
26 1 0.01
28 1 0.01
30 1 0.01
31 3 0.04
32 36 0.44
34 1 0.01
35 1 0.01
36 9 0.11
37 9 0.11
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.51
Consensus pattern (32 bp):
ATTTATTTTAAATAAATTATTAATATGGATTG
Found at i:222420 original size:32 final size:32
Alignment explanation
Indices: 222384--222490 Score: 135
Period size: 32 Copynumber: 3.7 Consensus size: 32
222374 TATTATAAAA
222384 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
222416 TATGGATTGATTTA-TTT---TAA---A--A-
1 TATGGATTGATTTATTTTAAATAATTTATTAG
222438 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
*
222470 TATAGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
222491 ATATGGATTG
Statistics
Matches: 64, Mismatches: 1, Indels: 20
0.75 0.01 0.24
Matches are distributed among these distances:
22 14 0.22
23 4 0.06
25 1 0.02
26 3 0.05
28 3 0.05
29 1 0.02
31 4 0.06
32 34 0.53
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (32 bp):
TATGGATTGATTTATTTTAAATAATTTATTAG
Found at i:222439 original size:54 final size:54
Alignment explanation
Indices: 222373--222721 Score: 276
Period size: 54 Copynumber: 6.5 Consensus size: 54
222363 TTAAAATAAA
*
222373 TTATTATAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
1 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
*
222427 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGAT
1 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
* * * *
222481 TTATTTTAAAATATGGATTGATTTATTATT--GTAGTTGTA-TAG-ATTGATTTAT
1 TTATTTTAAAATATGGATTGATTTATT-TTAAATAATT-TATTAGTATGGATTGAT
* * *
222533 TTCAAATAATTTATTAGTATGGATTGATTTA--TT--AT--TGTAGTT-GTATGGATTGAT
1 TT---AT--TTTA-AAATATGGATTGATTTATTTTAAATAATTTA-TTAGTATGGATTGAT
** ** * *
222587 TTATTTTAAAATATGGATTGATTTATTTTAAA-ATATGGATT-G-ATTTATTTTAA
1 TTATTTTAAAATATGGATTGATTTATTTTAAATA-ATTTATTAGTATGGA-TTGAT
* * * * * * * *
222640 ATAATTTATTAGTATGAATTGATTTATTTTAAATAATTTATTTGTATGCATTAAT
1 TTATTTTA-AAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
*
222695 TTATTTTAAAATATAGATTGATTTATT
1 TTATTTTAAAATATGGATTGATTTATT
222722 ATTATAGTTG
Statistics
Matches: 236, Mismatches: 36, Indels: 46
0.74 0.11 0.14
Matches are distributed among these distances:
48 15 0.06
49 4 0.02
50 2 0.01
51 2 0.01
52 16 0.07
53 21 0.09
54 136 0.58
55 18 0.08
56 3 0.01
57 4 0.02
58 15 0.06
ACGTcount: A:0.35, C:0.01, G:0.13, T:0.52
Consensus pattern (54 bp):
TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
Found at i:222441 original size:22 final size:22
Alignment explanation
Indices: 222416--222458 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
222406 AATTTATTAG
222416 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
222438 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
222459 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:222601 original size:22 final size:22
Alignment explanation
Indices: 222576--222640 Score: 130
Period size: 22 Copynumber: 3.0 Consensus size: 22
222566 ATTGTAGTTG
222576 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
222598 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
222620 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
222641 TAATTTATTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:222606 original size:80 final size:76
Alignment explanation
Indices: 222414--222614 Score: 249
Period size: 80 Copynumber: 2.5 Consensus size: 76
222404 ATAATTTATT
*
222414 AGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTG
1 AGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTCAAATAATTTATTAGTATAGATTG
222479 ATTTATTTTAA
66 ATTTATTTTAA
* *** * *
222490 AATATGGATTGATTTATTATTGTAGTTGTATAGATTGATTTATTTCAAATAATTTATTAGTATGG
1 AGTATGGATTGATTTA-T-TT-TA-AAATATGGATTGATTTATTTCAAATAATTTATTAGTATAG
*
222555 ATTGATTTATTATTGTAGT
62 ATTGATTTA-T-TT-TA-A
*
222574 TGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTT
1 AGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTT
222615 TAAAATATGG
Statistics
Matches: 103, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
76 15 0.15
77 1 0.01
78 2 0.02
79 2 0.02
80 59 0.57
81 3 0.03
82 4 0.04
83 3 0.03
84 14 0.14
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.52
Consensus pattern (76 bp):
AGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTCAAATAATTTATTAGTATAGATTG
ATTTATTTTAA
Found at i:222648 original size:14 final size:14
Alignment explanation
Indices: 222629--222682 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
222619 ATATGGATTG
222629 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
222643 ATTTATTAGTATGAATTG
1 ATTTATT--T-T-AAATA
222661 ATTTATTTTAAATA
1 ATTTATTTTAAATA
222675 ATTTATTT
1 ATTTATTT
222683 GTATGCATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 18 0.56
15 1 0.03
16 2 0.06
17 1 0.03
18 10 0.31
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:222663 original size:32 final size:32
Alignment explanation
Indices: 222620--222704 Score: 134
Period size: 32 Copynumber: 2.7 Consensus size: 32
222610 TATTTTAAAA
*
222620 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGAATTGATTTATTTTAAATAATTTATTAG
*
222652 TATGAATTGATTTATTTTAAATAATTTATTTG
1 TATGAATTGATTTATTTTAAATAATTTATTAG
* *
222684 TATGCATTAATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
222705 ATATAGATTG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 49 1.00
ACGTcount: A:0.35, C:0.01, G:0.09, T:0.54
Consensus pattern (32 bp):
TATGAATTGATTTATTTTAAATAATTTATTAG
Found at i:222736 original size:134 final size:126
Alignment explanation
Indices: 222384--222752 Score: 395
Period size: 134 Copynumber: 2.8 Consensus size: 126
222374 TATTATAAAA
*
222384 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
*
222449 TTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTA
66 TTA-TTT---T-A--TATT-GTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTA
222514 GTTG
123 GTTG
* ***
222518 TAT-AGATTGATTTATTTCAAATAATTTATTAGTATGGATTGATTTATTATTGTAGTTGTATGGA
1 TATGA-ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-T-TT-TA-AAATATGGA
**
222582 TTGATTTATTTTA-A-AATATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAAT
61 TTGATTTATTTTATATTGTATGGATTGATTTATTTTAAAATATGGATTGATTTA--TT--AT--T
*
222645 TTA-TTAG
120 GTAGTT-G
* * * *
222652 TATGAATTGATTTATTTTAAATAATTTATTTGTATGCATTAATTTATTTTAAAATATAGATTGAT
1 TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
222717 TTATTATTATAGTTGTATGGATTGATTTATTTTAAA
66 TTATT-TTATA-TTGTATGGATTGATTTATTTTAAA
222753 TAATTTATTA
Statistics
Matches: 199, Mismatches: 19, Indels: 34
0.79 0.08 0.13
Matches are distributed among these distances:
128 35 0.18
130 18 0.09
131 5 0.03
132 5 0.03
133 4 0.02
134 109 0.55
135 2 0.01
136 2 0.01
137 5 0.03
138 14 0.07
ACGTcount: A:0.34, C:0.01, G:0.13, T:0.52
Consensus pattern (126 bp):
TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
TTATTTTATATTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
Found at i:222759 original size:80 final size:83
Alignment explanation
Indices: 222598--222810 Score: 299
Period size: 80 Copynumber: 2.6 Consensus size: 83
222588 TATTTTAAAA
222598 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGAT
1 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTT-AATAA--TATTAGTATGAATTGAT
*
222663 TTATTTTAAATAATTTATTTG
63 TTATTTTAAATAATTTATTAG
* * * * *
222684 TATGCATTAATTTATTTTAAAATATAGATTGATTTATTATT-AT-A-GTT-GTATGGATTGATTT
1 TATGGATTGATTTATTTTAAAATATGGATTGATTTATT-TTAATAATATTAGTATGAATTGATTT
222745 ATTTTAAATAATTTATTAG
65 ATTTTAAATAATTTATTAG
222764 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAAT
1 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTT-AATAAT
222811 TTATTATTGT
Statistics
Matches: 113, Mismatches: 9, Indels: 13
0.84 0.07 0.10
Matches are distributed among these distances:
79 2 0.02
80 66 0.58
81 4 0.04
82 1 0.01
84 1 0.01
85 2 0.02
86 35 0.31
87 2 0.02
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (83 bp):
TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAATAATATTAGTATGAATTGATTTA
TTTTAAATAATTTATTAG
Found at i:222789 original size:22 final size:22
Alignment explanation
Indices: 222764--222806 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
222754 AATTTATTAG
222764 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
222786 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
222807 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:224468 original size:173 final size:173
Alignment explanation
Indices: 224158--224484 Score: 564
Period size: 173 Copynumber: 1.9 Consensus size: 173
224148 GGACATGCCA
* *
224158 ATGTAACATGTGTCATGATCATATATTAACATGTGTCACCTATTGATTGTATAGTTAATTTATTA
1 ATGTAACATGTGTCATGATCATATATTAACATATGTCACCTATTGATTGTATAGTTAAATTATTA
* *
224223 AATAAAATTAATATTAGGACTAAGTTGATTAAATGTATAAGTATTGAGGATCAAATATGTAATTA
66 AATAAAATTAATATTAGGACTAAGTTGATTAAATGTACAAGTATTGAGGATCAAATATATAATTA
*
224288 AACTAATTTTATTAATTGTTACGTTGGAGTTGACACAAGTCAG
131 AACTAATTTTATTAATTGTCACGTTGGAGTTGACACAAGTCAG
* *
224331 ATGTAACATGTGTCATGATCATATATTAACATATGTCACCTCTTGATTGTATGGTTAAATTATTA
1 ATGTAACATGTGTCATGATCATATATTAACATATGTCACCTATTGATTGTATAGTTAAATTATTA
*
224396 AATAAAATTAATATTAGGACTAAGTTGATTAAATGTACAAGTATTGAGGATGAAATATATAATTA
66 AATAAAATTAATATTAGGACTAAGTTGATTAAATGTACAAGTATTGAGGATCAAATATATAATTA
* *
224461 TACTAATTTTGTTAATTGTCACGT
131 AACTAATTTTATTAATTGTCACGT
224485 AAGCAGTTCC
Statistics
Matches: 144, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
173 144 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.39
Consensus pattern (173 bp):
ATGTAACATGTGTCATGATCATATATTAACATATGTCACCTATTGATTGTATAGTTAAATTATTA
AATAAAATTAATATTAGGACTAAGTTGATTAAATGTACAAGTATTGAGGATCAAATATATAATTA
AACTAATTTTATTAATTGTCACGTTGGAGTTGACACAAGTCAG
Found at i:229669 original size:34 final size:34
Alignment explanation
Indices: 229626--229692 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
229616 TCCACACATT
229626 TTAGTGGAGCAGTAAGTGAAAATGAGTTGTCTAC
1 TTAGTGGAGCAGTAAGTGAAAATGAGTTGTCTAC
*
229660 TTAGTGGAGCAGTAAGTGGAAATGAGTTGTCTA
1 TTAGTGGAGCAGTAAGTGAAAATGAGTTGTCTA
229693 TAGCTGCCCC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.31, C:0.07, G:0.31, T:0.30
Consensus pattern (34 bp):
TTAGTGGAGCAGTAAGTGAAAATGAGTTGTCTAC
Found at i:229958 original size:48 final size:48
Alignment explanation
Indices: 229906--230064 Score: 205
Period size: 48 Copynumber: 3.3 Consensus size: 48
229896 TATCACTCAA
* * *
229906 GGAATATCAAATCTTGAATG-AGAGGGATTTGTTCCACTT-TTGCTGAAG
1 GGAATATCAAATCTTGAA-GAAGAGAGATTTGTTCCGCTTACT-CTGAAG
* *
229954 GGAATATTAAATCTTGAAGAAGAGAGACTTGTTCCGCTTACTCTGAAG
1 GGAATATCAAATCTTGAAGAAGAGAGATTTGTTCCGCTTACTCTGAAG
* *
230002 GGAATATCAAATCCTTGGAGAAGAGAGATATGTTCCGCTTACTCTGAAG
1 GGAATATCAAAT-CTTGAAGAAGAGAGATTTGTTCCGCTTACTCTGAAG
*
230051 GGAATATCAGATCT
1 GGAATATCAAATCT
230065 GGGGGAATTG
Statistics
Matches: 98, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
47 1 0.01
48 52 0.53
49 45 0.46
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (48 bp):
GGAATATCAAATCTTGAAGAAGAGAGATTTGTTCCGCTTACTCTGAAG
Found at i:230056 original size:97 final size:95
Alignment explanation
Indices: 229883--230057 Score: 223
Period size: 97 Copynumber: 1.8 Consensus size: 95
229873 GAATCAAGGC
* * *
229883 AGACTTGTTCCGCTATCACTCAAGGAATATCAAATCTTGAATGAGAGGGATTTGTTCCACTTTTG
1 AGACTTGTTCCGCTATCACTCAAGGAATATCAAATCTTGAATGAGAGAGATATGTTCCACTTCTG
229948 CTGAAGGGAATATTAAATCTTGAAGAAGAG
66 CTGAAGGGAATATTAAATCTTGAAGAAGAG
* *
229978 AGACTTGTTCCGCT-T-ACTCTGAAGGGAATATCAAATCCTTGGA-GAAGAGAGATATGTTCCGC
1 AGACTTGTTCCGCTATCACTC--AA-GGAATATCAAAT-CTTGAATG-AGAGAGATATGTTCCAC
230040 TTACT-CTGAAGGGAATAT
61 TT-CTGCTGAAGGGAATAT
230058 CAGATCTGGG
Statistics
Matches: 69, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
93 4 0.06
94 1 0.01
95 16 0.23
96 13 0.19
97 34 0.49
98 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (95 bp):
AGACTTGTTCCGCTATCACTCAAGGAATATCAAATCTTGAATGAGAGAGATATGTTCCACTTCTG
CTGAAGGGAATATTAAATCTTGAAGAAGAG
Found at i:230148 original size:46 final size:47
Alignment explanation
Indices: 230087--230223 Score: 204
Period size: 48 Copynumber: 2.9 Consensus size: 47
230077 ACATTGAATC
*
230087 GAAGCAGATTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTG-GA
1 GAAG-AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGAGA
230134 GAAGAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGAAGA
1 GAAGAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTG-AGA
* * * *
230182 AAAGAGACATGTTCCGCTTACTCTGAAGGGAATATCAGATCT
1 GAAGAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCT
230224 GGGAAAGTTG
Statistics
Matches: 83, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
46 39 0.47
47 4 0.05
48 40 0.48
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.28
Consensus pattern (47 bp):
GAAGAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGAGA
Found at i:230235 original size:159 final size:162
Alignment explanation
Indices: 229931--230283 Score: 536
Period size: 159 Copynumber: 2.2 Consensus size: 162
229921 GAATGAGAGG
* * *
229931 GATTTGTTCCACTT-TTGCTGAAGGGAATATTAAATCTTGAAGAAGAGAGACTTGTTCCGCTTAC
1 GATTTGTTCCACTTACT-CTGAAGGGAATATCAAATCTTGAAGAAGAGAGACTTGTTCCACTTAC
* * *
229995 TCTGAAGGGAATATCAAATCCTTGGAGAAGAGAGATATGTTCCGCTTACTCTGAAGGGAATATCA
65 TCTGAAGGGAATATCAAATCCTTGAAGAAAAGAGACATGTTCCGCTTACTCTGAAGGGAATATCA
*
230060 GATCTGGGGGAATTGATACATTGAATCGAAGCA
130 GATCTGGGGAAATTGATACATTGAATCGAAGCA
*
230093 GATTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAG-A-AGAGACTTGTTCCACTTACT
1 GATTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGAAGAAGAGAGACTTGTTCCACTTACT
230156 CTGAAGGGAATATCAAAT-CTTGAAGAAAAGAGACATGTTCCGCTTACTCTGAAGGGAATATCAG
66 CTGAAGGGAATATCAAATCCTTGAAGAAAAGAGACATGTTCCGCTTACTCTGAAGGGAATATCAG
* *
230220 ATCT-GGGAAAGTTGATCCATTGAATCGAAGTA
131 ATCTGGGGAAA-TTGATACATTGAATCGAAGCA
* * *
230252 GACTTATTCCACTTACTCTGAAGAGAATATCA
1 GATTTGTTCCACTTACTCTGAAGGGAATATCA
230284 TATATGGGGA
Statistics
Matches: 176, Mismatches: 13, Indels: 7
0.90 0.07 0.04
Matches are distributed among these distances:
158 5 0.03
159 95 0.54
160 37 0.21
161 1 0.01
162 37 0.21
163 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (162 bp):
GATTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGAAGAAGAGAGACTTGTTCCACTTACT
CTGAAGGGAATATCAAATCCTTGAAGAAAAGAGACATGTTCCGCTTACTCTGAAGGGAATATCAG
ATCTGGGGAAATTGATACATTGAATCGAAGCA
Found at i:230274 original size:65 final size:65
Alignment explanation
Indices: 230193--230418 Score: 355
Period size: 65 Copynumber: 3.5 Consensus size: 65
230183 AAGAGACATG
* * * *
230193 TTCCGCTTACTCTGAAGGGAATATCAGATCTGGGAAAGTTGATCCATTGAATCGAAGTAGACTTA
1 TTCCACTTACTCTGAAGGGAATATCATATCTGGGGAAGTTGATCCATTGAATCGAAGCAGACTTA
* *
230258 TTCCACTTACTCTGAAGAGAATATCATATATGGGGAAGTTGATCCATTGAATCGAAGCAGACTTA
1 TTCCACTTACTCTGAAGGGAATATCATATCTGGGGAAGTTGATCCATTGAATCGAAGCAGACTTA
*
230323 TTCCACTTACTCTGAAGGGAATATCATATAC-GGGGAAGTTGATCCATTGAATCAAAGCAGACTT
1 TTCCACTTACTCTGAAGGGAATATCATAT-CTGGGGAAGTTGATCCATTGAATCGAAGCAGACTT
*
230387 G
65 A
*
230388 TTCCACTTACTCTGAAGGGAATATCAAATCT
1 TTCCACTTACTCTGAAGGGAATATCATATCT
230419 TGGAGAAGAG
Statistics
Matches: 148, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
64 1 0.01
65 147 0.99
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.29
Consensus pattern (65 bp):
TTCCACTTACTCTGAAGGGAATATCATATCTGGGGAAGTTGATCCATTGAATCGAAGCAGACTTA
Found at i:230437 original size:48 final size:48
Alignment explanation
Indices: 230381--230558 Score: 277
Period size: 48 Copynumber: 3.7 Consensus size: 48
230371 GAATCAAAGC
*
230381 AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGAG
1 AGACTTGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGGAGAAGAG
*
230429 AGACTTGTTCCGCTTACCCTGAAGGGAATATCAAATCTTTGGAGGAA-AG
1 AGACTTGTTCCGCTTACTCTGAAGGGAATATCAAATC-TTGGA-GAAGAG
* * *
230478 AGACCTATTCCGCTTACTCTGAAGGGAATATCAAATCTTTGAGAAGAG
1 AGACTTGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGGAGAAGAG
*
230526 AGACATGTTCCGCTTACTCTGAAGGGAATATCA
1 AGACTTGTTCCGCTTACTCTGAAGGGAATATCA
230559 TATTTGGGGA
Statistics
Matches: 119, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
47 3 0.03
48 72 0.61
49 41 0.34
50 3 0.03
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (48 bp):
AGACTTGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGGAGAAGAG
Found at i:231777 original size:9 final size:9
Alignment explanation
Indices: 231747--231883 Score: 119
Period size: 9 Copynumber: 15.1 Consensus size: 9
231737 TTGAACCCTT
*
231747 ATTTTATTTT
1 ATTTT-TTTC
231757 ATTTTCTTTC
1 ATTTT-TTTC
231767 ATTTTTTTC
1 ATTTTTTTC
231776 ATTTTTCTTTC
1 A-TTTT-TTTC
231787 A-TTTTTTC
1 ATTTTTTTC
231795 ATTTTTTT-
1 ATTTTTTTC
231803 ATTTTTTTC
1 ATTTTTTTC
231812 ATTTCATTTT-
1 ATTT--TTTTC
*
231822 -TTTCATTTC
1 ATTT-TTTTC
231831 ATTTTTTTC
1 ATTTTTTTC
231840 ATTTTTTT-
1 ATTTTTTTC
231848 ACTTTTTTT-
1 A-TTTTTTTC
231857 ATTTTTTTC
1 ATTTTTTTC
231866 ATTTTCTTT-
1 ATTTT-TTTC
231875 -TTTTTTTC
1 ATTTTTTTC
231883 A
1 A
231884 GGCGAAATAC
Statistics
Matches: 109, Mismatches: 5, Indels: 27
0.77 0.04 0.19
Matches are distributed among these distances:
7 3 0.03
8 28 0.26
9 46 0.42
10 23 0.21
11 9 0.08
ACGTcount: A:0.12, C:0.11, G:0.00, T:0.77
Consensus pattern (9 bp):
ATTTTTTTC
Found at i:231870 original size:14 final size:14
Alignment explanation
Indices: 231748--231878 Score: 103
Period size: 14 Copynumber: 9.3 Consensus size: 14
231738 TGAACCCTTA
231748 TTTT-ATTTTATTT
1 TTTTCATTTTATTT
*
231761 TCTTTCATTTTTTTCAT
1 T-TTTCATTTTATT--T
*
231778 TTTTC-TTTCA-TT
1 TTTTCATTTTATTT
231790 TTTTCATTTTTTTATTT
1 TTTTCA---TTTTATTT
*
231807 TTTTCATTTCATTT
1 TTTTCATTTTATTT
*
231821 TTTTCATTTCATTT
1 TTTTCATTTTATTT
231835 TTTTCATTTT-TTT
1 TTTTCATTTTATTT
*
231848 ACTTT--TTTTATTT
1 -TTTTCATTTTATTT
*
231861 TTTTCATTTTCTTT
1 TTTTCATTTTATTT
231875 TTTT
1 TTTT
231879 TTTCAGGCGA
Statistics
Matches: 96, Mismatches: 9, Indels: 25
0.74 0.07 0.19
Matches are distributed among these distances:
12 13 0.14
13 7 0.07
14 48 0.50
15 10 0.10
16 8 0.08
17 10 0.10
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTCATTTTATTT
Found at i:231876 original size:54 final size:53
Alignment explanation
Indices: 231745--231883 Score: 176
Period size: 54 Copynumber: 2.5 Consensus size: 53
231735 TATTGAACCC
*
231745 TTATTTTATTTTATTTTCTTTCATTTTTTTCATTTTTCTTTCATTTTTTCATTTTT
1 TTATTTT-TTTCATTTTCTTT--TTTTTTTCATTTTTCTTTCATTTTTTCATTTTT
*
231801 TTATTTTTTTCA-TTTCATTTTTTTCATTTCA-TTTT-TTTCATTTTTTTACTTTTT
1 TTATTTTTTTCATTTTC-TTTTTTT--TTTCATTTTTCTTTCATTTTTTCA-TTTTT
231855 TTATTTTTTTCATTTTCTTTTTTTTTTCA
1 TTATTTTTTTCATTTTCTTTTTTTTTTCA
231884 GGCGAAATAC
Statistics
Matches: 76, Mismatches: 2, Indels: 14
0.83 0.02 0.15
Matches are distributed among these distances:
52 5 0.07
53 16 0.21
54 32 0.42
55 16 0.21
56 7 0.09
ACGTcount: A:0.12, C:0.11, G:0.00, T:0.77
Consensus pattern (53 bp):
TTATTTTTTTCATTTTCTTTTTTTTTTCATTTTTCTTTCATTTTTTCATTTTT
Found at i:231881 original size:45 final size:45
Alignment explanation
Indices: 231753--231881 Score: 151
Period size: 45 Copynumber: 2.9 Consensus size: 45
231743 CCTTATTTTA
*
231753 TTTTATTTTCTTTCATTTTTTTCATTTTTCTTTCA-TTTTTTCATTT
1 TTTTATTTT-TTTCATTTTTTTCA-TTTTCTTTTATTTTTTTCATTT
* *
231799 TTTTATTTTTTTCATTTCATTT--TTTTCATTTCATTTTTTTCATTT
1 TTTTATTTTTTTCATTT-TTTTCATTTTC-TTTTATTTTTTTCATTT
231844 TTTTACTTTTTTT-ATTTTTTTCATTTTCTTTT-TTTTTT
1 TTTTA-TTTTTTTCATTTTTTTCATTTTCTTTTATTTTTT
231882 CAGGCGAAAT
Statistics
Matches: 74, Mismatches: 3, Indels: 14
0.81 0.03 0.15
Matches are distributed among these distances:
43 5 0.07
44 14 0.19
45 31 0.42
46 24 0.32
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (45 bp):
TTTTATTTTTTTCATTTTTTTCATTTTCTTTTATTTTTTTCATTT
Found at i:235320 original size:2 final size:2
Alignment explanation
Indices: 235313--235339 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
235303 AAACGAGATG
235313 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
235340 CAAATATAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:235401 original size:4 final size:4
Alignment explanation
Indices: 235368--235417 Score: 50
Period size: 4 Copynumber: 12.0 Consensus size: 4
235358 TCTTATATCA
235368 AAAT AGAAT GAAAT -AAT AATAT ATAAT AAAT AAAT AAAT AAAT AAA-
1 AAAT A-AAT -AAAT AAAT AA-AT A-AAT AAAT AAAT AAAT AAAT AAAT
235414 AAAT
1 AAAT
235418 GCAATGGACG
Statistics
Matches: 40, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
3 6 0.15
4 20 0.50
5 12 0.30
6 2 0.05
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:236976 original size:24 final size:24
Alignment explanation
Indices: 236944--236998 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
236934 GTGAAGTGGC
* *
236944 CTACCTCATCCATATCTTTCTTAA
1 CTACCTCATCCACATCTTCCTTAA
236968 CTACCTCATCCACATCTTCCTTAA
1 CTACCTCATCCACATCTTCCTTAA
*
236992 CAACCTC
1 CTACCTC
236999 TGAACTCTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.25, C:0.40, G:0.00, T:0.35
Consensus pattern (24 bp):
CTACCTCATCCACATCTTCCTTAA
Found at i:243571 original size:20 final size:20
Alignment explanation
Indices: 243548--243598 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
243538 TACTGAATGG
243548 AAGATTACCAGTAGGAATAA
1 AAGATTACCAGTAGGAATAA
243568 AAGATTACCAGTAGGAATAA
1 AAGATTACCAGTAGGAATAA
243588 AAGATTACCAG
1 AAGATTACCAG
243599 GGAATAGGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.49, C:0.12, G:0.20, T:0.20
Consensus pattern (20 bp):
AAGATTACCAGTAGGAATAA
Found at i:245103 original size:33 final size:33
Alignment explanation
Indices: 245061--245123 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
245051 TCCACACATT
*
245061 TTAGTGGAGCAATAAGTGGAAATGAGTTGTTAC
1 TTAGTGGAGCAATAAGTGAAAATGAGTTGTTAC
*
245094 TTAGTGGAGCAGTAAGTGAAAATGAGTTGT
1 TTAGTGGAGCAATAAGTGAAAATGAGTTGT
245124 CTACAATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.33, C:0.05, G:0.32, T:0.30
Consensus pattern (33 bp):
TTAGTGGAGCAATAAGTGAAAATGAGTTGTTAC
Found at i:249931 original size:169 final size:168
Alignment explanation
Indices: 249725--250055 Score: 580
Period size: 170 Copynumber: 2.0 Consensus size: 168
249715 TTATCTAACT
249725 TTTTTATTCAAAAAAATGGACACATTACATAAAGACTA-TTTCAACATGAATGTAAGATTTTACG
1 TTTTTATTCAAAAAAATGGACACATTACATAAAGACTATTTTCAACATGAATGTAAGATTTTACG
*
249789 TCGGATGATGAA-TTATAAAAATTTTAAAATTTTAAAGATAAAAATAA-ATTATTAATAAAATAC
66 TCGGATGATGAATTTAT-AAAATTTTAAAATTTTAAAGATAAAAA-AATATTAATAA-AAAATAC
249852 ATAAAATATCTAAAATATAATAAAAATTTAAATAAATATCTA
128 ATAAAATATCTAAAATATAAT-AAAATTTAAATAAATATCTA
249894 TTTTT-TTCAAAAAAATGGACTACATTACATAAAGACTATTTTCAACATGAATGTAAGATTTTAC
1 TTTTTATTCAAAAAAATGGAC-ACATTACATAAAGACTATTTTCAACATGAATGTAAGATTTTAC
249958 GTCGGATGATGAATTTATAAAATTTTAAAATTTTAAAGATAAAAAAATATTAATAAAAAATACAT
65 GTCGGATGATGAATTTATAAAATTTTAAAATTTTAAAGATAAAAAAATATTAATAAAAAATACAT
250023 AAAATATCTAAAATATAATAAAATTTAAATAAA
130 AAAATATCTAAAATATAATAAAATTTAAATAAA
250056 AAAAACTACA
Statistics
Matches: 157, Mismatches: 1, Indels: 9
0.94 0.01 0.05
Matches are distributed among these distances:
168 29 0.18
169 52 0.33
170 72 0.46
171 4 0.03
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.34
Consensus pattern (168 bp):
TTTTTATTCAAAAAAATGGACACATTACATAAAGACTATTTTCAACATGAATGTAAGATTTTACG
TCGGATGATGAATTTATAAAATTTTAAAATTTTAAAGATAAAAAAATATTAATAAAAAATACATA
AAATATCTAAAATATAATAAAATTTAAATAAATATCTA
Found at i:251775 original size:19 final size:19
Alignment explanation
Indices: 251751--251834 Score: 96
Period size: 19 Copynumber: 4.2 Consensus size: 19
251741 TCGTTGCGAT
251751 TTTGGACTATCGCAACGAA
1 TTTGGACTATCGCAACGAA
*
251770 TTTGGAATAAATCGCAACGCGAA
1 TTTGGACT--ATCGCAA--CGAA
* *
251793 CTTCGACTATCGCAACGAA
1 TTTGGACTATCGCAACGAA
*
251812 CTTGGACTATCGCAACGAA
1 TTTGGACTATCGCAACGAA
251831 TTTG
1 TTTG
251835 TAAATCGCAA
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
19 32 0.58
21 14 0.25
23 9 0.16
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (19 bp):
TTTGGACTATCGCAACGAA
Found at i:251843 original size:18 final size:19
Alignment explanation
Indices: 251752--251844 Score: 71
Period size: 19 Copynumber: 4.7 Consensus size: 19
251742 CGTTGCGATT
* *
251752 TTGGACTATCGCAACGAAT
1 TTGGACAATCGCAACGAAC
*
251771 TTGGAATAAATCGCAACGCGAAC
1 TTGG-A-CAATCGCAA--CGAAC
* *
251794 TTCGACTATCGCAACGAAC
1 TTGGACAATCGCAACGAAC
* *
251813 TTGGACTATCGCAACGAAT
1 TTGGACAATCGCAACGAAC
*
251832 TTGTA-AATCGCAA
1 TTGGACAATCGCAA
251845 TGCGATAGTT
Statistics
Matches: 60, Mismatches: 10, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
18 7 0.12
19 30 0.50
20 1 0.02
21 14 0.23
22 1 0.02
23 7 0.12
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (19 bp):
TTGGACAATCGCAACGAAC
Found at i:252756 original size:2 final size:2
Alignment explanation
Indices: 252749--252789 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
252739 AAACAATTAT
252749 TA TA TA 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 TA TA TA T
252790 TATTTTTAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:255552 original size:3 final size:3
Alignment explanation
Indices: 255544--255583 Score: 62
Period size: 3 Copynumber: 12.7 Consensus size: 3
255534 AACTAAAGAC
255544 AAT AAT AAT ATAT AAT AAT AAT AAT AAT AAAT AAT AAT AA
1 AAT AAT AAT A-AT AAT AAT AAT AAT AAT -AAT AAT AAT AA
255584 CTTAGCCAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
3 29 0.83
4 6 0.17
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:255565 original size:16 final size:16
Alignment explanation
Indices: 255544--255583 Score: 64
Period size: 16 Copynumber: 2.5 Consensus size: 16
255534 AACTAAAGAC
255544 AATAATAAT-ATATAAT
1 AATAATAATAATA-AAT
255560 AATAATAATAATAAAT
1 AATAATAATAATAAAT
255576 AATAATAA
1 AATAATAA
255584 CTTAGCCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 20 0.87
17 3 0.13
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATAATAATAATAAAT
Found at i:255568 original size:19 final size:19
Alignment explanation
Indices: 255544--255583 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
255534 AACTAAAGAC
*
255544 AATAATAATATATAATAAT
1 AATAATAATAAATAATAAT
255563 AATAATAATAAATAATAAT
1 AATAATAATAAATAATAAT
255582 AA
1 AA
255584 CTTAGCCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
AATAATAATAAATAATAAT
Found at i:258823 original size:60 final size:60
Alignment explanation
Indices: 258699--258816 Score: 148
Period size: 60 Copynumber: 2.0 Consensus size: 60
258689 GGAGAACGAA
* * * ** *
258699 GGTCATAGTTTAGGGATGAAATTGAAATGTTTAAAAGTTTGAGGATTAATTTAGAATGGT
1 GGTCAGAGTTTAGGGATAAAATTGAAACGTTTAAAAGTTTGAGGACCAATTTAAAATGGT
* *
258759 GGTCAGAGTTTAGGGATAAAATTGGAGCGTTTAAAAGTTT-AGGGACCAATTTAAAATG
1 GGTCAGAGTTTAGGGATAAAATTGAAACGTTTAAAAGTTTGA-GGACCAATTTAAAATG
258817 AGGGTCATAT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
59 1 0.02
60 48 0.98
ACGTcount: A:0.36, C:0.04, G:0.27, T:0.33
Consensus pattern (60 bp):
GGTCAGAGTTTAGGGATAAAATTGAAACGTTTAAAAGTTTGAGGACCAATTTAAAATGGT
Found at i:260091 original size:26 final size:25
Alignment explanation
Indices: 260062--260139 Score: 75
Period size: 26 Copynumber: 3.0 Consensus size: 25
260052 AAGTCGAGTA
*
260062 GAGAGTATATATTTTTGGGTCGGGT
1 GAGAGTATATATTTTAGGGTCGGGT
* *
260087 GGAGAGCATATATTTTAGGGTCAGGT
1 -GAGAGTATATATTTTAGGGTCGGGT
* * *
260113 GAAAGATATACAATTTTCGGGTCGGGT
1 GAGAG-TATA-TATTTTAGGGTCGGGT
260140 CAAGTTGGCC
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
25 4 0.10
26 25 0.60
27 13 0.31
ACGTcount: A:0.26, C:0.08, G:0.33, T:0.33
Consensus pattern (25 bp):
GAGAGTATATATTTTAGGGTCGGGT
Found at i:270554 original size:60 final size:59
Alignment explanation
Indices: 270478--270631 Score: 188
Period size: 59 Copynumber: 2.6 Consensus size: 59
270468 TGTCCTCAAG
* * *
270478 TATGATCCTCATTTTAAATTGGTCCCTAAACTTTTAA-ATGTTTCAATTCCATCCCTAAAC
1 TATGATCTTCATTTTAAATTGGTCCCTAAACTTTTAACA--ATTCAATTCCATCCCCAAAC
* * *
270538 TATGA-CTATCATTTTAAATTAGT-CCTCAAATTTTTAACAATTCAATTTCATCCCCAAAC
1 TATGATCT-TCATTTTAAATTGGTCCCT-AAACTTTTAACAATTCAATTCCATCCCCAAAC
*
270597 TATGATCTTCATTCTAAATTGGTCCCTAAACTTTT
1 TATGATCTTCATTTTAAATTGGTCCCTAAACTTTT
270632 TGAACATTCT
Statistics
Matches: 80, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
59 46 0.57
60 33 0.41
61 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.41
Consensus pattern (59 bp):
TATGATCTTCATTTTAAATTGGTCCCTAAACTTTTAACAATTCAATTCCATCCCCAAAC
Found at i:270609 original size:59 final size:59
Alignment explanation
Indices: 270478--270659 Score: 194
Period size: 60 Copynumber: 3.1 Consensus size: 59
270468 TGTCCTCAAG
* * * * *
270478 TATGATCCTCATTTTAAATTGGTCCCTAAACTTTTAA-ATGTTTCAATTCCATCCCTAAAC
1 TATGATCTTCATTTTAAATTGGTCCCTAAATTTTTAACA--ATTCAATTTCATCCCCAAAC
*
270538 TATGA-CTATCATTTTAAATTAGT-CCTCAAATTTTTAACAATTCAATTTCATCCCCAAAC
1 TATGATCT-TCATTTTAAATTGGTCCCT-AAATTTTTAACAATTCAATTTCATCCCCAAAC
* *
270597 TATGATCTTCATTCTAAATTGGTCCCTAAACTTTTTGAAC-ATTCTAATTTCAT-CTCAAAC
1 TATGATCTTCATTTTAAATTGGTCCCTAAA-TTTTT-AACAATTC-AATTTCATCCCCAAAC
270657 TAT
1 TAT
270660 ACGTATATAC
Statistics
Matches: 105, Mismatches: 9, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
59 42 0.40
60 51 0.49
61 12 0.11
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (59 bp):
TATGATCTTCATTTTAAATTGGTCCCTAAATTTTTAACAATTCAATTTCATCCCCAAAC
Found at i:270933 original size:61 final size:61
Alignment explanation
Indices: 270848--270973 Score: 159
Period size: 61 Copynumber: 2.1 Consensus size: 61
270838 TCATATTTTA
* * *
270848 GGGATGAAATTAGAATGCTTAAAAGTTTAAGGAC-ACATTTAGAAT-AAGAATCATAGTTTGG
1 GGGATGAAATTAGAATGATTAAAAGTTTAAAGACTA-ATTTAAAATGAAG-ATCATAGTTTGG
* *
270909 GGGATGAAATTAGAAT-ATTCAAAAGTTTAAAGACTAATTTAAAATGAAGGTTATAGTTTGG
1 GGGATGAAATTAGAATGATT-AAAAGTTTAAAGACTAATTTAAAATGAAGATCATAGTTTGG
270970 GGGA
1 GGGA
270974 CATAATATGC
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
60 2 0.04
61 51 0.89
62 4 0.07
ACGTcount: A:0.41, C:0.05, G:0.24, T:0.30
Consensus pattern (61 bp):
GGGATGAAATTAGAATGATTAAAAGTTTAAAGACTAATTTAAAATGAAGATCATAGTTTGG
Found at i:275694 original size:30 final size:30
Alignment explanation
Indices: 275660--275720 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
275650 AATTTAGGCG
*
275660 AAGTTTATTTCTCTCTATCATATTATTTTT
1 AAGTTTATTTCTCTCTATCATATTATATTT
275690 AAGTTTATTTCTCTCTATCATATTATATTT
1 AAGTTTATTTCTCTCTATCATATTATATTT
275720 A
1 A
275721 CTAAAATGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.26, C:0.13, G:0.03, T:0.57
Consensus pattern (30 bp):
AAGTTTATTTCTCTCTATCATATTATATTT
Found at i:280484 original size:35 final size:35
Alignment explanation
Indices: 280416--280489 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 35
280406 AACAATCCTT
* * *
280416 AATTTCATTCTAAATCCCAATTTTCAAAGTAATTC
1 AATTTCATTCTAAATCCCAAATTCCAAAATAATTC
*
280451 AATTTCATTCTAAA-CCTTAAATTCCAAAATAATTC
1 AATTTCATTCTAAATCC-CAAATTCCAAAATAATTC
280486 AATT
1 AATT
280490 AAATTCAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 2 0.06
35 32 0.94
ACGTcount: A:0.41, C:0.19, G:0.01, T:0.39
Consensus pattern (35 bp):
AATTTCATTCTAAATCCCAAATTCCAAAATAATTC
Found at i:281028 original size:130 final size:130
Alignment explanation
Indices: 280887--281134 Score: 415
Period size: 130 Copynumber: 1.9 Consensus size: 130
280877 TATTTATATA
* **
280887 ATCAATTTGGTCCTAAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* *
280952 TTAGCACATGATCATGACACGTGTCATTGGTGACACATGTCACCTCCTAATTATTTATATATGCT
66 TTAACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
281017 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* * * *
281082 TTAACACATGATCATGATATGTTTTATTGGTGACACATGTCACCACCTAATTA
66 TTAACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTA
281135 GAAGAAAATT
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 109 1.00
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.36
Consensus pattern (130 bp):
ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
TTAACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
Found at i:281165 original size:130 final size:129
Alignment explanation
Indices: 280901--281165 Score: 300
Period size: 130 Copynumber: 2.0 Consensus size: 129
280891 ATTTGGTCCT
* ** *
280901 AAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTGTTAGCACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
* *** * * **** *
280966 TGACACGTGTCATTGGTGACACATGTCACCTCCTAATTATTTATATATGCTATCAATTTGGTCCT
66 TGACACGTGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGT-CA
281031 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
* * * * *
281096 TGATATGTTTTATTGGTGACACATGTCACCACCTAATTAGAAGAAAATTAAGTTA-CAAAGAAGT
66 TGACACGTGTCATTGGTGACACATGTCACCACCTAATT--AAGAAAA-TAAGCTATCAAAGAAGT
281160 -A
128 CA
281161 AAATT
1 AAATT
281166 TGGGTCTTGG
Statistics
Matches: 112, Mismatches: 20, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
130 99 0.88
132 8 0.07
133 5 0.04
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.34
Consensus pattern (129 bp):
AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
TGACACGTGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGTCA
Found at i:281601 original size:16 final size:18
Alignment explanation
Indices: 281580--281613 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
281570 ATTTCTTATT
281580 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
281596 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
281614 TACATTAATA
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:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:284999 original size:3 final size:3
Alignment explanation
Indices: 284991--285021 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
284981 ATCGGAATCC
284991 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
285022 CCCTATGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:285378 original size:25 final size:25
Alignment explanation
Indices: 285331--285380 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
285321 AAATCAACGC
* *
285331 CAGTCAACGGTTGGCCAACGGTCAA
1 CAGTCAACGGTTGACCAAAGGTCAA
*
285356 CAGTCAACGGTTGATCAAAGGTCAA
1 CAGTCAACGGTTGACCAAAGGTCAA
285381 TGGTTCAGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.32, C:0.24, G:0.26, T:0.18
Consensus pattern (25 bp):
CAGTCAACGGTTGACCAAAGGTCAA
Found at i:291387 original size:39 final size:39
Alignment explanation
Indices: 291338--291428 Score: 121
Period size: 39 Copynumber: 2.3 Consensus size: 39
291328 AAGGACCTGT
* **
291338 GGTAAGGACTTACCCTGAGCACAAAATTAAGGAG-CATGC
1 GGTAAAGACTTACCCTGAGCACAAAACCAAGGAGTC-TGC
* *
291377 GGTAAAGACTTACCCTGAGCACAAAGCCGAGGAGTCTGC
1 GGTAAAGACTTACCCTGAGCACAAAACCAAGGAGTCTGC
291416 GGTAAAGACTTAC
1 GGTAAAGACTTAC
291429 AAGTCATAGA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
39 45 0.98
40 1 0.02
ACGTcount: A:0.34, C:0.22, G:0.26, T:0.18
Consensus pattern (39 bp):
GGTAAAGACTTACCCTGAGCACAAAACCAAGGAGTCTGC
Found at i:294026 original size:2 final size:2
Alignment explanation
Indices: 293987--294011 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
293977 AATTTAACAA
293987 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
294012 ATCAATATAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:294293 original size:24 final size:24
Alignment explanation
Indices: 294266--294338 Score: 58
Period size: 24 Copynumber: 3.0 Consensus size: 24
294256 CGTTCATTTA
294266 CGTTC-GTGAACGTTCGGTTATGTT
1 CGTTCGGT-AACGTTCGGTTATGTT
* * * *
294290 CGTTTGGTTATGTTCGTTTATGTT
1 CGTTCGGTAACGTTCGGTTATGTT
* * * *
294314 CGTTCGATTATGTTCGTTTATGTT
1 CGTTCGGTAACGTTCGGTTATGTT
294338 C
1 C
294339 ATTCATTTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
24 40 0.95
25 2 0.05
ACGTcount: A:0.11, C:0.14, G:0.25, T:0.51
Consensus pattern (24 bp):
CGTTCGGTAACGTTCGGTTATGTT
Found at i:294298 original size:14 final size:14
Alignment explanation
Indices: 294276--294332 Score: 59
Period size: 14 Copynumber: 4.4 Consensus size: 14
294266 CGTTCGTGAA
*
294276 CGTTCGGTTATGTT
1 CGTTTGGTTATGTT
294290 CGTTTGGTTATGTT
1 CGTTTGGTTATGTT
294304 CG--T--TTATGTT
1 CGTTTGGTTATGTT
* *
294314 CGTTCGATTATGTT
1 CGTTTGGTTATGTT
294328 CGTTT
1 CGTTT
294333 ATGTTCATTC
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
10 9 0.25
12 1 0.03
14 26 0.72
ACGTcount: A:0.09, C:0.12, G:0.25, T:0.54
Consensus pattern (14 bp):
CGTTTGGTTATGTT
Found at i:294348 original size:24 final size:24
Alignment explanation
Indices: 294277--294351 Score: 89
Period size: 24 Copynumber: 3.1 Consensus size: 24
294267 GTTCGTGAAC
* * * *
294277 GTTCGGTTATGTTCGTTTGGTTAT
1 GTTCGTTTATGTTCATTCGATTAT
*
294301 GTTCGTTTATGTTCGTTCGATTAT
1 GTTCGTTTATGTTCATTCGATTAT
294325 GTTCGTTTATGTTCATTC-ATTTAT
1 GTTCGTTTATGTTCATTCGA-TTAT
294349 GTT
1 GTT
294352 TAACACAATC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
23 1 0.02
24 45 0.98
ACGTcount: A:0.12, C:0.11, G:0.21, T:0.56
Consensus pattern (24 bp):
GTTCGTTTATGTTCATTCGATTAT
Found at i:295090 original size:10 final size:10
Alignment explanation
Indices: 295075--295149 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
295065 GGGTCTCCAA
295075 CGTTTATGTT
1 CGTTTATGTT
295085 CGTTTATGTT
1 CGTTTATGTT
295095 CGTGTTCAT-TT
1 CGT-TT-ATGTT
* **
295106 ATGTTCGTGTT
1 -CGTTTATGTT
295117 CGTTTATGTT
1 CGTTTATGTT
295127 CG----TGTT
1 CGTTTATGTT
295133 CGTTTATGTT
1 CGTTTATGTT
295143 CGTTTAT
1 CGTTTAT
295150 TTATTAAATG
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
6 6 0.12
10 34 0.67
11 7 0.14
12 4 0.08
ACGTcount: A:0.09, C:0.12, G:0.21, T:0.57
Consensus pattern (10 bp):
CGTTTATGTT
Found at i:295106 original size:16 final size:16
Alignment explanation
Indices: 295081--295145 Score: 121
Period size: 16 Copynumber: 4.1 Consensus size: 16
295071 CCAACGTTTA
295081 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
295097 TGTTCATTTATGTTCG
1 TGTTCGTTTATGTTCG
295113 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
295129 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
295145 T
1 T
295146 TTATTTATTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.08, C:0.12, G:0.23, T:0.57
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Done.