Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008420.1 Hibiscus syriacus cultivar Beakdansim tig00111200_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: 1020524
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 6
Found at i:745824 original size:14 final size:14
Alignment explanation
Indices: 745805--745851 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
745795 AATTCATTGC
745805 TGATGATTTCACAG
1 TGATGATTTCACAG
* *
745819 TGATGA-CT-ACTGG
1 TGATGATTTCAC-AG
745832 TGATGATTTCACAG
1 TGATGATTTCACAG
745846 TGATGA
1 TGATGA
745852 CTACTGGCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
12 2 0.08
13 8 0.31
14 14 0.54
15 2 0.08
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.34
Consensus pattern (14 bp):
TGATGATTTCACAG
Found at i:745843 original size:27 final size:27
Alignment explanation
Indices: 745805--745858 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
745795 AATTCATTGC
745805 TGATGATTTCACAGTGATGACTACTGG
1 TGATGATTTCACAGTGATGACTACTGG
745832 TGATGATTTCACAGTGATGACTACTGG
1 TGATGATTTCACAGTGATGACTACTGG
745859 CTTATTTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (27 bp):
TGATGATTTCACAGTGATGACTACTGG
Found at i:752144 original size:23 final size:23
Alignment explanation
Indices: 752101--752144 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
752091 TTAGTGTAAA
* *
752101 TAATAAAATTAATAAGTTATTGG
1 TAATAAAATAAATAAGATATTGG
752124 TAATAAAATAAAATAA-ATATT
1 TAATAAAAT-AAATAAGATATT
752145 AGTATTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 13 0.72
24 5 0.28
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (23 bp):
TAATAAAATAAATAAGATATTGG
Found at i:754046 original size:3 final size:3
Alignment explanation
Indices: 754038--754071 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
754028 ATATTAATTA
754038 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
754072 TTTATAATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:754254 original size:77 final size:74
Alignment explanation
Indices: 754117--754463 Score: 253
Period size: 77 Copynumber: 4.6 Consensus size: 74
754107 TGTCTACAAG
* ** * *
754117 TAGGTTGCGATCTGGAATGTTAATATTTTTTATTAATAAAATGGGTTACGTCCAAGAATGTCATG
1 TAGGTTGCAATCAAGAATGTTAATA-TTTTTATTAATAAAATGAGTT-CG-CCAAAAATGTCAT-
*
754182 GTTCACTAAGAAA
62 GTTCAATAAGAAA
* * * * *
754195 TAAGTTGCAATCAAGAATGTTAATACTTTTATTAATAAAATTAGTTGCGCCAAAAAATGTTACTA
1 TAGGTTGCAATCAAGAATGTTAATATTTTTATTAATAAAATGAGTT-CGCC-AAAAATGTCA-TG
754260 TTCAATAAGAAA
63 TTCAATAAGAAA
** * * *
754272 TAGGTGTG--ATCTCGAATGTTAATATTTTTATTAATAAAATGGGATT-G-CACACAA-G-AATG
1 TAGGT-TGCAATCAAGAATGTTAATATTTTTATTAATAAAATGAG-TTCGCCA-AAAATGTCATG
754331 -TC-ATAAGAAA
63 TTCAATAAGAAA
* *
754341 TAGGTTGCAAT-ATGAAATGTTAATATTTTTATTAATAAAATGAGTTTCATCCAAAAATGTCATG
1 TAGGTTGCAATCAAG-AATGTTAATATTTTTATTAATAAAATGAG-TTC-GCCAAAAATGTCAT-
*
754405 GTTTAATAAGAAA
62 GTTCAATAAGAAA
* ** *
754418 TATGTTGTGATCTAGAATGTTATATTAATATTTTTATTAATAAAAT
1 TAGGTTGCAATCAAGAATG-----TTAATATTTTTATTAATAAAAT
754464 AGGTTACGCA
Statistics
Matches: 213, Mismatches: 34, Indels: 40
0.74 0.12 0.14
Matches are distributed among these distances:
68 2 0.01
69 14 0.07
70 34 0.16
71 1 0.00
72 4 0.02
73 5 0.02
74 6 0.03
75 2 0.01
76 33 0.15
77 65 0.31
78 25 0.12
82 22 0.10
ACGTcount: A:0.39, C:0.08, G:0.16, T:0.37
Consensus pattern (74 bp):
TAGGTTGCAATCAAGAATGTTAATATTTTTATTAATAAAATGAGTTCGCCAAAAATGTCATGTTC
AATAAGAAA
Found at i:754373 original size:146 final size:148
Alignment explanation
Indices: 754188--754463 Score: 355
Period size: 146 Copynumber: 1.9 Consensus size: 148
754178 CATGGTTCAC
*
754188 TAAGAAATAAGTTGCAATCAAGAATGTTAATACTTTTATTAATAAAATTAGTTGC-GCCAAAAAA
1 TAAGAAATAAGTTGCAATCAAGAATGTTAATACTTTTATTAATAAAATGAGTTGCAGCC-AAAAA
* *
754252 TGTTACT-ATTCAATAAGAAATA-GGTGTGATCTCGAATG-TTAATATTTTTATTAATAAAATGG
65 TGTCA-TGATTCAATAAGAAATATGGTGTGATCTAGAATGTTTAATATTTTTATTAATAAAATGG
754314 GATTGCACACAAGAATGTCA
129 GATTGCACACAAGAATGTCA
* * * * *
754334 TAAGAAATAGGTTGCAAT-ATGAAATGTTAATATTTTTATTAATAAAATGAGTTTCATCCAAAAA
1 TAAGAAATAAGTTGCAATCAAG-AATGTTAATACTTTTATTAATAAAATGAGTTGCAGCCAAAAA
* * *
754398 TGTCATGGTTTAATAAGAAATATGTTGTGATCTAGAATGTTATATTAATATTTTTATTAATAAAA
65 TGTCATGATTCAATAAGAAATATGGTGTGATCTAGAATG---T-TTAATATTTTTATTAATAAAA
754463 T
126 T
754464 AGGTTACGCA
Statistics
Matches: 110, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
145 3 0.03
146 69 0.63
147 16 0.15
152 22 0.20
ACGTcount: A:0.42, C:0.07, G:0.14, T:0.37
Consensus pattern (148 bp):
TAAGAAATAAGTTGCAATCAAGAATGTTAATACTTTTATTAATAAAATGAGTTGCAGCCAAAAAT
GTCATGATTCAATAAGAAATATGGTGTGATCTAGAATGTTTAATATTTTTATTAATAAAATGGGA
TTGCACACAAGAATGTCA
Found at i:754524 original size:21 final size:21
Alignment explanation
Indices: 754480--754539 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 21
754470 CGCATAAAAA
* *
754480 ATAGTTTGAAATTTTAAATATCG
1 ATAGTTT-AAATATT-ATTATCG
754503 ATA-TTTAATATATTATTATCG
1 ATAGTTTAA-ATATTATTATCG
754524 ATAGTTTTAAATATTA
1 ATAG-TTTAAATATTA
754540 AAAAATTGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
21 11 0.34
22 13 0.41
23 8 0.25
ACGTcount: A:0.40, C:0.03, G:0.08, T:0.48
Consensus pattern (21 bp):
ATAGTTTAAATATTATTATCG
Found at i:754596 original size:72 final size:72
Alignment explanation
Indices: 754520--754655 Score: 168
Period size: 72 Copynumber: 1.9 Consensus size: 72
754510 ATATATTATT
* * * * * *
754520 ATCGATAGTTTTAAATATTAAAAAATTGA-AGATAAG-ATCAAAAGTTAAAATATCGATATTTAT
1 ATCGATACTGTTAAAAATTAAAAAAGTGATA-AAAAGAAT-AAAAGTTAAAATATCGATACTTAT
754583 GAGGTAATG
64 GAGGTAATG
* *
754592 ATCGATACTGTTAAAAATTGAAAAAGTGATAAAAAGAATAAAATTTAAAATATCGATACTTATG
1 ATCGATACTGTTAAAAATTAAAAAAGTGATAAAAAGAATAAAAGTTAAAATATCGATACTTATG
754656 CGATGATGTT
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
72 51 0.94
73 3 0.06
ACGTcount: A:0.49, C:0.05, G:0.14, T:0.32
Consensus pattern (72 bp):
ATCGATACTGTTAAAAATTAAAAAAGTGATAAAAAGAATAAAAGTTAAAATATCGATACTTATGA
GGTAATG
Found at i:755154 original size:59 final size:60
Alignment explanation
Indices: 755082--755196 Score: 178
Period size: 59 Copynumber: 1.9 Consensus size: 60
755072 ACATAATATA
** *
755082 AACGGTTTCATACTTATAACTTAAATTGTTAACATAAAAAAA-GTGTTACCTACTACGTT
1 AACGGTTTCATACTTATAACTTAAACGGTTAACATAAAAAAATGAGTTACCTACTACGTT
* *
755141 AACGGTTTCATACTTATAACTTAAACGGTTCACATAAAAAAATGAGTTACTTACTA
1 AACGGTTTCATACTTATAACTTAAACGGTTAACATAAAAAAATGAGTTACCTACTA
755197 TGTTGTAATG
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
59 39 0.78
60 11 0.22
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.34
Consensus pattern (60 bp):
AACGGTTTCATACTTATAACTTAAACGGTTAACATAAAAAAATGAGTTACCTACTACGTT
Found at i:757171 original size:12 final size:12
Alignment explanation
Indices: 757137--757175 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
757127 TATTAGTTGA
*
757137 AAATAATTAATTT
1 AAATAA-TAATAT
757150 AAAT-ATAATAT
1 AAATAATAATAT
757161 AAATAATAATAT
1 AAATAATAATAT
757173 AAA
1 AAA
757176 AATTAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
11 9 0.38
12 11 0.46
13 4 0.17
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
AAATAATAATAT
Found at i:757196 original size:18 final size:19
Alignment explanation
Indices: 757160--757194 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
757150 AAATATAATA
757160 TAAATAATAATATAAAAAT
1 TAAATAATAATATAAAAAT
757179 TAAA-AATAAT-TAAAAA
1 TAAATAATAATATAAAAA
757195 ATGCAACGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 6 0.38
19 4 0.25
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (19 bp):
TAAATAATAATATAAAAAT
Found at i:757852 original size:16 final size:17
Alignment explanation
Indices: 757831--757864 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
757821 AATAATTTAA
757831 AATTAA-ATATTATTTT
1 AATTAATATATTATTTT
757847 AATTAATTATATTATTTT
1 AATTAA-TATATTATTTT
757865 TATAATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
18 10 0.62
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
AATTAATATATTATTTT
Found at i:760163 original size:19 final size:19
Alignment explanation
Indices: 760139--760178 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
760129 TTCCTAATCA
760139 CTTTAAGTACTTGCTCTTT
1 CTTTAAGTACTTGCTCTTT
760158 CTTTAAGTACTTGCTCTTT
1 CTTTAAGTACTTGCTCTTT
760177 CT
1 CT
760179 CTTCTCCAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.15, C:0.23, G:0.10, T:0.53
Consensus pattern (19 bp):
CTTTAAGTACTTGCTCTTT
Found at i:762628 original size:15 final size:15
Alignment explanation
Indices: 762608--762659 Score: 70
Period size: 15 Copynumber: 3.3 Consensus size: 15
762598 AATATTATTG
762608 TTAAAATATAATTAT
1 TTAAAATATAATTAT
762623 TTAAAATATAA-TAGT
1 TTAAAATATAATTA-T
762638 TGTAAAAATATAATTAT
1 T-T-AAAATATAATTAT
762655 TTAAA
1 TTAAA
762660 TAATATTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
14 2 0.06
15 16 0.48
16 2 0.06
17 11 0.33
18 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (15 bp):
TTAAAATATAATTAT
Found at i:762630 original size:32 final size:33
Alignment explanation
Indices: 762593--762666 Score: 109
Period size: 32 Copynumber: 2.3 Consensus size: 33
762583 ATGGGGGTGA
*
762593 AAAATAATATTA-TTGTTAAAATATAATTATTT
1 AAAATAATATTAGTTGTAAAAATATAATTATTT
*
762625 AAAAT-ATAATAGTTGTAAAAATATAATTATTT
1 AAAATAATATTAGTTGTAAAAATATAATTATTT
762657 -AAATAATATT
1 AAAATAATATT
762667 TAATTTTAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
31 9 0.24
32 28 0.76
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (33 bp):
AAAATAATATTAGTTGTAAAAATATAATTATTT
Found at i:762664 original size:17 final size:16
Alignment explanation
Indices: 762592--762665 Score: 73
Period size: 17 Copynumber: 4.5 Consensus size: 16
762582 TATGGGGGTG
762592 AAAAATA-ATATTATTGT
1 AAAAATATA-ATTATT-T
*
762609 TAAAATATAATTATTT
1 AAAAATATAATTATTT
762625 -AAAATATAA-TAGTTGT
1 AAAAATATAATTA-TT-T
762641 AAAAATATAATTATTT
1 AAAAATATAATTATTT
762657 AAATAATAT
1 AAA-AATAT
762666 TTAATTTTAA
Statistics
Matches: 50, Mismatches: 1, Indels: 12
0.79 0.02 0.19
Matches are distributed among these distances:
14 2 0.04
15 11 0.22
16 6 0.12
17 28 0.56
18 3 0.06
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (16 bp):
AAAAATATAATTATTT
Found at i:767730 original size:21 final size:22
Alignment explanation
Indices: 767706--767746 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
767696 AGATAGTGTG
767706 AGTTCTAGAATAG-TTGTTAGT
1 AGTTCTAGAATAGTTTGTTAGT
767727 AGTTCTAGAATAGTTTGTTA
1 AGTTCTAGAATAGTTTGTTA
767747 CCTTGTAGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.29, C:0.05, G:0.22, T:0.44
Consensus pattern (22 bp):
AGTTCTAGAATAGTTTGTTAGT
Found at i:771128 original size:21 final size:21
Alignment explanation
Indices: 771102--771155 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
771092 GACCATCTCT
771102 CTTGGAAATGCGGCAAATGGC
1 CTTGGAAATGCGGCAAATGGC
* *
771123 CTTGGAGATGCGGCAAGTGGC
1 CTTGGAAATGCGGCAAATGGC
771144 CTT-GAGAATGCG
1 CTTGGA-AATGCG
771156 CTTGGAGTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 2 0.07
21 27 0.93
ACGTcount: A:0.24, C:0.19, G:0.37, T:0.20
Consensus pattern (21 bp):
CTTGGAAATGCGGCAAATGGC
Found at i:772965 original size:21 final size:21
Alignment explanation
Indices: 772923--772965 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
772913 TTTCTGGGCT
* *
772923 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
* *
772944 AGGGGAATCGATTCCCCCTCA
1 AGGGGAATCGATACCCACTCA
772965 A
1 A
772966 AGAATATGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.19
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:774218 original size:30 final size:30
Alignment explanation
Indices: 773936--774215 Score: 497
Period size: 30 Copynumber: 9.3 Consensus size: 30
773926 AGTTCTTCGG
* *
773936 GACCTATGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGAGAGTTACCGAGGATCTTTAT
773966 GACCTCTGGAGAGTTACCGAGGATCTTTAT
1 GACCTCTGGAGAGTTACCGAGGATCTTTAT
773996 GACCTCTGGAGAGTTACCGAGGATCTTTAT
1 GACCTCTGGAGAGTTACCGAGGATCTTTAT
774026 GACCTCTGGAGAGTTACCGAGGATCTTTAT
1 GACCTCTGGAGAGTTACCGAGGATCTTTAT
*
774056 GACCTCTGGAGAGTTACTGAGGATCTTTAT
1 GACCTCTGGAGAGTTACCGAGGATCTTTAT
774086 GACCTCTGGAGAGTTACCGAGGATCTTTAT
1 GACCTCTGGAGAGTTACCGAGGATCTTTAT
774116 GACCTCTGGAGAGTTACCGAGGATCTTTAT
1 GACCTCTGGAGAGTTACCGAGGATCTTTAT
*
774146 GACCTATGGAGAGTTACCGAGGATCTTTAT
1 GACCTCTGGAGAGTTACCGAGGATCTTTAT
* * *
774176 GACCTCTGGATAGTTACCAAAGATCTTTAT
1 GACCTCTGGAGAGTTACCGAGGATCTTTAT
774206 GACCTCTGGA
1 GACCTCTGGA
774216 TAGGTCCTTC
Statistics
Matches: 241, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 241 1.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (30 bp):
GACCTCTGGAGAGTTACCGAGGATCTTTAT
Found at i:777519 original size:21 final size:21
Alignment explanation
Indices: 777477--777519 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
777467 TTTCTGGGCT
* *
777477 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
* *
777498 AGGGGAATCGATTCCCCCTCA
1 AGGGGAATCGATACCCACTCA
777519 A
1 A
777520 ACGAATATGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.19
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:778057 original size:2 final size:2
Alignment explanation
Indices: 778050--778082 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
778040 CATGTTACAG
778050 TA TA TA TA TA TA TA TA T- TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
778083 GAGTTGTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 27 0.93
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:778072 original size:11 final size:11
Alignment explanation
Indices: 778050--778082 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
778040 CATGTTACAG
778050 TATATA-TATA
1 TATATATTATA
778060 TATATATTATA
1 TATATATTATA
778071 TATATATTATA
1 TATATATTATA
778082 T
1 T
778083 GAGTTGTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 6 0.27
11 16 0.73
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
TATATATTATA
Found at i:778449 original size:31 final size:30
Alignment explanation
Indices: 778411--778506 Score: 79
Period size: 31 Copynumber: 3.1 Consensus size: 30
778401 GTCAAAGAAC
778411 TACCTATGTCTTTCGAGACATATGGACAGT
1 TACCTATGTCTTTCGAGACATATGGACAGT
*** *
778441 ATACCTATGTTCTAAGGA-ACATATGGATAGTT
1 -TACCTATG-TCTTTCGAGACATATGGACAG-T
* * *
778473 TACCTAGGT-TCTTCGGGACCTATGGACAGT
1 TACCTATGTCT-TTCGAGACATATGGACAGT
778503 TACC
1 TACC
778507 GAGGATCTTT
Statistics
Matches: 50, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
29 1 0.02
30 7 0.14
31 36 0.72
32 6 0.12
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (30 bp):
TACCTATGTCTTTCGAGACATATGGACAGT
Found at i:778771 original size:30 final size:30
Alignment explanation
Indices: 778489--778768 Score: 497
Period size: 30 Copynumber: 9.3 Consensus size: 30
778479 GGTTCTTCGG
* *
778489 GACCTATGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGAGAGTTACCGAGGATCTTTAT
778519 GACCTCTGGAGAGTTACCGAGGATCTTTAT
1 GACCTCTGGAGAGTTACCGAGGATCTTTAT
778549 GACCTCTGGAGAGTTACCGAGGATCTTTAT
1 GACCTCTGGAGAGTTACCGAGGATCTTTAT
778579 GACCTCTGGAGAGTTACCGAGGATCTTTAT
1 GACCTCTGGAGAGTTACCGAGGATCTTTAT
*
778609 GACCTCTGGAGAGTTACTGAGGATCTTTAT
1 GACCTCTGGAGAGTTACCGAGGATCTTTAT
778639 GACCTCTGGAGAGTTACCGAGGATCTTTAT
1 GACCTCTGGAGAGTTACCGAGGATCTTTAT
778669 GACCTCTGGAGAGTTACCGAGGATCTTTAT
1 GACCTCTGGAGAGTTACCGAGGATCTTTAT
*
778699 GACCTATGGAGAGTTACCGAGGATCTTTAT
1 GACCTCTGGAGAGTTACCGAGGATCTTTAT
* * *
778729 GACCTCTGGATAGTTACCAAAGATCTTTAT
1 GACCTCTGGAGAGTTACCGAGGATCTTTAT
778759 GACCTCTGGA
1 GACCTCTGGA
778769 TAGGTCCTTC
Statistics
Matches: 241, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 241 1.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (30 bp):
GACCTCTGGAGAGTTACCGAGGATCTTTAT
Found at i:781921 original size:20 final size:20
Alignment explanation
Indices: 781896--781936 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
781886 CAAGTGCGTT
*
781896 AAAATGTAAGATTATCAGTG
1 AAAATGTAAGATTACCAGTG
781916 AAAATGTAAGATTACCAGTG
1 AAAATGTAAGATTACCAGTG
781936 A
1 A
781937 GAATAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.46, C:0.07, G:0.20, T:0.27
Consensus pattern (20 bp):
AAAATGTAAGATTACCAGTG
Found at i:781969 original size:20 final size:20
Alignment explanation
Indices: 781903--781969 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 20
781893 GTTAAAATGT
* * **
781903 AAGATTATCAGTGAAAATGT
1 AAGATTACCAGTGAGAATAA
781923 AAGATTACCAGTGAGAATAA
1 AAGATTACCAGTGAGAATAA
* * *
781943 AAAATTACTAGTGAGAATAC
1 AAGATTACCAGTGAGAATAA
781963 AAGATTA
1 AAGATTA
781970 TCAGGGAATA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.49, C:0.07, G:0.18, T:0.25
Consensus pattern (20 bp):
AAGATTACCAGTGAGAATAA
Found at i:784092 original size:29 final size:29
Alignment explanation
Indices: 784049--784131 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
784039 CTCACCTAAC
784049 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
784079 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
784108 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
784132 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:788834 original size:29 final size:29
Alignment explanation
Indices: 788791--788873 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
788781 CTCACCTAAC
788791 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
788821 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
788850 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
788874 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:789009 original size:2 final size:2
Alignment explanation
Indices: 789004--789036 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
788994 CCCCCCACCT
789004 TC TC TC TC TC -C TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
789037 CTGGTTTTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:807065 original size:71 final size:71
Alignment explanation
Indices: 806938--807089 Score: 175
Period size: 71 Copynumber: 2.1 Consensus size: 71
806928 CAATCGCAAT
* *
806938 TTTTTCTTTGTTTCAAAAAAATGAAAGGTCGAGGGAGAAGGAAGGGGAGGGGGAGTTGAGAGTGA
1 TTTTT-TTTGTTTCAAAAAAATGAAA-GTCGAGGGAGAAGGAAGGGGAGGGAGAGTTGAGAGTAA
* *
807003 AAGTATAA
64 AAGCAGAA
* * *
807011 TTTTTTTTGTTTC-AGACAATGAAA-TCGGGGGATGAA-GAAGGGGGAGTGGAGAGTTGAGAGTA
1 TTTTTTTTGTTTCAAAAAAATGAAAGTCGAGGGA-GAAGGAA-GGGGAG-GGAGAGTTGAGAGTA
807073 AAAGCAGAA
63 AAAGCAGAA
807082 TTTTTTTT
1 TTTTTTTT
807090 CAGACAATGA
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
69 10 0.14
70 9 0.13
71 37 0.54
72 8 0.12
73 5 0.07
ACGTcount: A:0.33, C:0.05, G:0.34, T:0.29
Consensus pattern (71 bp):
TTTTTTTTGTTTCAAAAAAATGAAAGTCGAGGGAGAAGGAAGGGGAGGGAGAGTTGAGAGTAAAA
GCAGAA
Found at i:807160 original size:12 final size:13
Alignment explanation
Indices: 807143--807175 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
807133 TTTCTTTTAT
807143 TTTTTAAAATA-A
1 TTTTTAAAATATA
807155 TTTTTAAAATATA
1 TTTTTAAAATATA
*
807168 ATTTTAAA
1 TTTTTAAA
807176 GGATATATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TTTTTAAAATATA
Found at i:807314 original size:15 final size:15
Alignment explanation
Indices: 807270--807304 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
807260 ATTTAGTCTT
* *
807270 AATTTCAGTAATATA
1 AATTTCAGCAATTTA
807285 AATTTCAGCAATTTA
1 AATTTCAGCAATTTA
807300 AATTT
1 AATTT
807305 TACAATTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.43
Consensus pattern (15 bp):
AATTTCAGCAATTTA
Found at i:808034 original size:29 final size:29
Alignment explanation
Indices: 807991--808073 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
807981 CTCACCTAAC
807991 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
808021 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
808050 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
808074 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:811374 original size:15 final size:15
Alignment explanation
Indices: 811354--811383 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
811344 CTTTCTCATA
811354 GTTATTGTTGGAATT
1 GTTATTGTTGGAATT
*
811369 GTTATTGTTGTAATT
1 GTTATTGTTGGAATT
811384 CCAGCCTCGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.23, T:0.57
Consensus pattern (15 bp):
GTTATTGTTGGAATT
Found at i:812715 original size:29 final size:29
Alignment explanation
Indices: 812672--812754 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
812662 CTCACCTAAC
812672 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
812702 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
812731 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
812755 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:814729 original size:41 final size:41
Alignment explanation
Indices: 814702--814920 Score: 258
Period size: 41 Copynumber: 5.3 Consensus size: 41
814692 CAACAGAGTA
* *
814702 GTACTTTAGTGGTATTTTTATACAAACGCCACTATACACTC
1 GTACTTTAGTGGCATTTTTATACAAACGCCACTATAGACTC
* *
814743 GTACTTTAGTGGCGTTTTTATACAAACACCACTATAGACTC
1 GTACTTTAGTGGCATTTTTATACAAACGCCACTATAGACTC
* * *
814784 GTACTTTAGTGGCATTTTTATACAAACGCCACTATACAATT
1 GTACTTTAGTGGCATTTTTATACAAACGCCACTATAGACTC
* * * * *
814825 GTACTTTAGTGGCGTTTGTGTTTATAAACGCCGCTAAAGACTC
1 GTACTTTAGTGGCATTT-T-TATACAAACGCCACTATAGACTC
* * * * *
814868 GTAATTTAGTGGCGTTTATATACATACGCCGCTATAGACTC
1 GTACTTTAGTGGCATTTTTATACAAACGCCACTATAGACTC
*
814909 ATACTTTAGTGG
1 GTACTTTAGTGG
814921 TGTTTGTGTT
Statistics
Matches: 151, Mismatches: 25, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
41 118 0.78
42 1 0.01
43 32 0.21
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.36
Consensus pattern (41 bp):
GTACTTTAGTGGCATTTTTATACAAACGCCACTATAGACTC
Found at i:814761 original size:84 final size:83
Alignment explanation
Indices: 814682--814941 Score: 317
Period size: 84 Copynumber: 3.1 Consensus size: 83
814672 TTTTTTTTCA
* * *
814682 ACAAACGCCGCAACAGAGTAGTACTTTAGTGGTATTTTTATACAAACGCCACTATACACTCGTAC
1 ACAAACGCCGCAA-AGACTCGTACTTTAGTGGCATTTTTATACAAACGCCACTATACACTCGTAC
*
814747 TTTAGTGGCGTTT-T-TAT
65 TTTAGTGGCGTTTGTGTTT
* * * * *
814764 ACAAACACCACTATAGACTCGTACTTTAGTGGCATTTTTATACAAACGCCACTATACAATTGTAC
1 ACAAACGCCGC-AAAGACTCGTACTTTAGTGGCATTTTTATACAAACGCCACTATACACTCGTAC
814829 TTTAGTGGCGTTTGTGTTT
65 TTTAGTGGCGTTTGTGTTT
* * * * * * * *
814848 ATAAACGCCGCTAAAGACTCGTAATTTAGTGGCGTTTATATACATACGCCGCTATAGACTCATAC
1 ACAAACGCCGC-AAAGACTCGTACTTTAGTGGCATTTTTATACAAACGCCACTATACACTCGTAC
*
814913 TTTAGTGGTGTTTGTGTTT
65 TTTAGTGGCGTTTGTGTTT
814932 ACAAACGCCG
1 ACAAACGCCG
814942 TAAATTTATA
Statistics
Matches: 151, Mismatches: 24, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
82 68 0.45
83 2 0.01
84 81 0.54
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.33
Consensus pattern (83 bp):
ACAAACGCCGCAAAGACTCGTACTTTAGTGGCATTTTTATACAAACGCCACTATACACTCGTACT
TTAGTGGCGTTTGTGTTT
Found at i:814802 original size:125 final size:126
Alignment explanation
Indices: 814664--814920 Score: 299
Period size: 125 Copynumber: 2.0 Consensus size: 126
814654 GGTTCATTTA
* * *
814664 TAGTGGCATTTTTTTTCAACAAACGCCGC-A-ACAGAGTAGTACTTTAGTGGTATTT-T-TATAC
1 TAGTGGCATTTTTTAT--ACAAACGCCACTATACA-A-TAGTACTTTAGTGGCATTTGTGTATAC
* * * *
814725 AAACGCCACTATACACTCGTACTTTAGTGGCGTTTTTATACAAACACCACTATAGACTCGTACTT
62 AAACGCCACTAAACACTCGTAATTTAGTGGCGTTTATATACAAACACCACTATAGACTCATACTT
* * * *
814790 TAGTGGCA-TTTTTATACAAACGCCACTATACAATTGTACTTTAGTGGCGTTTGTGTTTATAAAC
1 TAGTGGCATTTTTTATACAAACGCCACTATACAATAGTACTTTAGTGGCATTTGTGTATACAAAC
* * * * *
814854 GCCGCTAAAGACTCGTAATTTAGTGGCGTTTATATACATACGCCGCTATAGACTCATACTT
66 GCCACTAAACACTCGTAATTTAGTGGCGTTTATATACAAACACCACTATAGACTCATACTT
814915 TAGTGG
1 TAGTGG
814921 TGTTTGTGTT
Statistics
Matches: 111, Mismatches: 16, Indels: 9
0.82 0.12 0.07
Matches are distributed among these distances:
123 26 0.23
124 3 0.03
125 74 0.67
126 8 0.07
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (126 bp):
TAGTGGCATTTTTTATACAAACGCCACTATACAATAGTACTTTAGTGGCATTTGTGTATACAAAC
GCCACTAAACACTCGTAATTTAGTGGCGTTTATATACAAACACCACTATAGACTCATACTT
Found at i:818833 original size:43 final size:43
Alignment explanation
Indices: 818775--818919 Score: 218
Period size: 43 Copynumber: 3.3 Consensus size: 43
818765 AACAGAGTGC
*
818775 TAGATCTGACCTTTTGCGGCGTTTGTATCCAAAAACGCTGCTA
1 TAGATCTGACCTTTTGCGGCGTTTGTATCCAAAAACGCCGCTA
* * *
818818 TAGATCTGACATTTTGCGACGTTTGTATGCAAAAACGCCGCTA
1 TAGATCTGACCTTTTGCGGCGTTTGTATCCAAAAACGCCGCTA
* * *
818861 TAGAACTGACCTTTTGCGGTGTTTGTATCCAAAAACGCCACTA
1 TAGATCTGACCTTTTGCGGCGTTTGTATCCAAAAACGCCGCTA
818904 TAGATCTGACCCTTTT
1 TAGATCTGA-CCTTTT
818920 TGCAAAAAAG
Statistics
Matches: 90, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
43 84 0.93
44 6 0.07
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (43 bp):
TAGATCTGACCTTTTGCGGCGTTTGTATCCAAAAACGCCGCTA
Found at i:821933 original size:2 final size:2
Alignment explanation
Indices: 821926--821953 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
821916 CACAACTTTA
821926 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
821954 TTCTATGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:822514 original size:2 final size:2
Alignment explanation
Indices: 822496--822549 Score: 71
Period size: 2 Copynumber: 29.0 Consensus size: 2
822486 TTTTAAGAAA
*
822496 AT AT AT -T A- AT AT CT AT AT AT -T A- AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
822534 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
822550 TTAAGTTTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
1 4 0.09
2 42 0.91
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:822836 original size:147 final size:146
Alignment explanation
Indices: 822569--822952 Score: 404
Period size: 148 Copynumber: 2.6 Consensus size: 146
822559 TATAAATAAA
* * * * * *
822569 ATATTTATTTACTTAGAAATATCAGAAAATGTCTTCTAGCTGTTTTAAGACAGCTCATTTCTTAA
1 ATATTTATTTACTTAAAAATATCAGAAAAGGACATCTAGCTATTTTAAGACTGC-CATTTCTTAA
*
822634 TATTAAAAAATAAATAAATATTAATAAAGCATGTCTCTAAAAATAATAAAGTAAATT-AATATAT
65 TATTAAAAAATAAATAAATATT-ATAAAGCATGTCTCAAAAAATAATAAAGTAAATTAAATATAT
*
822698 ATAATTTATAAAAGTAGG
129 ATAATTTATAAAAGCAGG
* * * *
822716 ATATCTATTTACTTAAAAATATCAGAAAAGGACATCCAGCTATTTTAAGATTGCCTTTTCTTAAT
1 ATATTTATTTACTTAAAAATATCAGAAAAGGACATCTAGCTATTTTAAGACTGCCATTTCTTAAT
*
822781 ATTAAAAAATAAATAAATATTA-AAA-CATGAT-T-AAAATAATTTATATAAAATTAAATTAAAT
66 ATTAAAAAATAAATAAATATTATAAAGCATG-TCTCAAAA-AA--TA-AT-AAAGTAAATTAAAT
* * * *
822842 ATATATATTTTTTATAAGCATG
125 ATATATAATTTATAAAAGCAGG
* * * * * *
822864 ATATTTA-TTATTTTTAAGATA-CTAGAATAGGACATCTAGTTATTTTAAGACTGTCATTTCTTA
1 ATATTTATTTA-CTTAAAAATATC-AGAAAAGGACATCTAGCTATTTTAAGACTGCCATTTCTTA
*
822927 ATATTTTAAAAATAAATAAATATTAT
64 ATA-TTAAAAAATAAATAAATATTAT
822953 TAACTTATAA
Statistics
Matches: 198, Mismatches: 28, Indels: 19
0.81 0.11 0.08
Matches are distributed among these distances:
142 3 0.02
143 7 0.04
144 4 0.02
145 3 0.02
146 33 0.17
147 58 0.29
148 70 0.35
149 20 0.10
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (146 bp):
ATATTTATTTACTTAAAAATATCAGAAAAGGACATCTAGCTATTTTAAGACTGCCATTTCTTAAT
ATTAAAAAATAAATAAATATTATAAAGCATGTCTCAAAAAATAATAAAGTAAATTAAATATATAT
AATTTATAAAAGCAGG
Found at i:823020 original size:14 final size:13
Alignment explanation
Indices: 822991--823029 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
822981 TATTAAAATG
**
822991 ATTAAAATATTGA
1 ATTAAAATATAAA
823004 ATTAAACATATAAA
1 ATTAAA-ATATAAA
823018 ATTAAAATATAA
1 ATTAAAATATAA
823030 CTAAACATGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (13 bp):
ATTAAAATATAAA
Found at i:825004 original size:122 final size:123
Alignment explanation
Indices: 824614--825192 Score: 776
Period size: 122 Copynumber: 4.7 Consensus size: 123
824604 TTAAGGCAAG
* * * * *
824614 GTTGAACAAATTCTTCTCATTACGAACTTTTTC-TCCTTCTTCAGATGAGTTCTTTTCATTATGA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATGAATTCTTCTCATTATGA
* * * *
824678 ACTCTCTTTGGGAAATGAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAGT-TACGCAAAAG
65 ACTCT-TCT-GG--A--AATGTTGATGCTGATCTATCTCCTTCTGTGATAGAATCGACGCAAAAA
* * *
824742 GTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTCTTCAGATAAATTCTTCTCATTATAAA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAATTCTTCTCATTATGAA
* * * * *
824807 CTTTCTCTGGAAAAG-TGTATGCTGATCTATCTCTTTCTGTGATAGAATC-ATGCAAAAG
66 CTCT-TCTGGAAATGTTG-ATGCTGATCTATCTCCTTCTGTGATAGAATCGACGCAAAAA
*
824865 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAATTCTTCTCATTATGAA
* *
824930 CACTTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAATCGA-GAAAAAA
66 CTCTTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAATCGACGCAAAAA
*
824987 GTTGAACAAGTTATTCTCATTATGAACTTCTTC-TCCTTCTTCAGATGAATTCTTCTCATTATGA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATGAATTCTTCTCATTATGA
* * *
825051 ACTCTTCTGGAAATGTTGATGTTAATCTATCTCCTTCTGTTATAGAATCGA-GCAAAAA
65 ACTCTTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAATCGACGCAAAAA
* * *
825109 GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCTTGTTCAGATGAATTCTTCTCATTATGAA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAATTCTTCTCATTATGAA
825174 CTCTTCTGGAAATGTTGAT
66 CTCTTCTGGAAATGTTGAT
825193 CCATCGAGTG
Statistics
Matches: 409, Mismatches: 35, Indels: 20
0.88 0.08 0.04
Matches are distributed among these distances:
121 3 0.01
122 234 0.57
123 107 0.26
125 1 0.00
127 2 0.00
128 59 0.14
129 3 0.01
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (123 bp):
GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAATTCTTCTCATTATGAA
CTCTTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAATCGACGCAAAAA
Found at i:826287 original size:18 final size:18
Alignment explanation
Indices: 826250--826287 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
826240 TTATATAAAG
**
826250 AATAAATTGAATTTTGAA
1 AATAAATTGAATTTCAAA
826268 AATAAATTGAATTTCAAA
1 AATAAATTGAATTTCAAA
826286 AA
1 AA
826288 GATAAACTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.55, C:0.03, G:0.08, T:0.34
Consensus pattern (18 bp):
AATAAATTGAATTTCAAA
Found at i:833627 original size:15 final size:15
Alignment explanation
Indices: 833607--833638 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
833597 TGCAATGAAT
*
833607 AATGAATGTATGCAA
1 AATGAATATATGCAA
833622 AATGAATATATGCAA
1 AATGAATATATGCAA
833637 AA
1 AA
833639 GGTATTGATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.53, C:0.06, G:0.16, T:0.25
Consensus pattern (15 bp):
AATGAATATATGCAA
Found at i:837136 original size:37 final size:37
Alignment explanation
Indices: 837086--837156 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
837076 TTCCCATCCC
837086 ATGGGAATCCCACAATCCTTGAACCAAACACCCCCTA
1 ATGGGAATCCCACAATCCTTGAACCAAACACCCCCTA
837123 ATGGGAATCCCACAATCCTTGAACCAAACACCCC
1 ATGGGAATCCCACAATCCTTGAACCAAACACCCC
837157 ATAAAAGGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.35, C:0.38, G:0.11, T:0.15
Consensus pattern (37 bp):
ATGGGAATCCCACAATCCTTGAACCAAACACCCCCTA
Found at i:838461 original size:146 final size:152
Alignment explanation
Indices: 838292--838623 Score: 368
Period size: 152 Copynumber: 2.2 Consensus size: 152
838282 AAGACAACCC
*
838292 CTTTCTTAATATTAAAAAATAAATAAATATTAATAAAACAT-TTCTATAAA-AA-TA-AT-AAAT
1 CTTTCTTAATATT-AAAAATAAATAAATATT-ATAAAACATGAT-TA-AAATAATTATATAAAAT
* *
838352 TAAATTA-ATATATATA-AT-T-TA-TAAAAGTAGGATATCTATT-TATTTAAAAATATCAAAAA
62 TAAATTATATATATATATATATATATTAAAAGCAGGATATCTATTAT-TTTAAAAATACCAAAAA
838411 AGGACATCCAGTTATTTTAAGACTG-T
126 AGGACATCCAGTTATTTTAAGACTGCT
*
838437 ATTTTCTTAATATTAATAAATAAATAAATA-T-TAAAACATGATTAAAATAATTTATATAAAATT
1 -CTTTCTTAATATTAA-AAATAAATAAATATTATAAAACATGATTAAAATAA-TTATATAAAATT
* * * * * * *
838500 AAATTATATATATATATATATATATTATAAGCATGATATTTATTATTTTTAAGATACCAGAATAG
63 AAATTATATATATATATATATATATTAAAAGCAGGATATCTATTATTTTAAAAATACCAAAAAAG
*
838565 GACATCTAGTTATTTTAAGACTGCT
128 GACATCCAGTTATTTTAAGACTGCT
838590 CTTTCTTAATATTTTAAAAATAAATAAATATTAT
1 CTTTCTTAATA--TTAAAAATAAATAAATATTAT
838624 TAACTTATAA
Statistics
Matches: 155, Mismatches: 13, Indels: 27
0.79 0.07 0.14
Matches are distributed among these distances:
142 3 0.02
143 12 0.08
144 1 0.01
145 5 0.03
146 27 0.17
147 11 0.07
148 9 0.06
149 2 0.01
150 1 0.01
151 2 0.01
152 61 0.39
153 15 0.10
154 5 0.03
155 1 0.01
ACGTcount: A:0.48, C:0.06, G:0.05, T:0.40
Consensus pattern (152 bp):
CTTTCTTAATATTAAAAATAAATAAATATTATAAAACATGATTAAAATAATTATATAAAATTAAA
TTATATATATATATATATATATTAAAAGCAGGATATCTATTATTTTAAAAATACCAAAAAAGGAC
ATCCAGTTATTTTAAGACTGCT
Found at i:838670 original size:21 final size:22
Alignment explanation
Indices: 838646--838721 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 22
838636 TTAATCAAAT
*
838646 AATATATATTAAT-AT-GATTAA
1 AATATA-ATTAATAATAAATTAA
838667 AATA-AATTAATAATAAATTAA
1 AATATAATTAATAATAAATTAA
*
838688 AATATTTAATTAAACTTATAAAATTAA
1 AATA--TAATT-AA-TAAT-AAATTAA
838715 AATATAA
1 AATATAA
838722 CTAAACATGG
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
19 6 0.13
20 3 0.07
21 13 0.29
24 4 0.09
25 5 0.11
26 3 0.07
27 11 0.24
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (22 bp):
AATATAATTAATAATAAATTAA
Found at i:838681 original size:11 final size:10
Alignment explanation
Indices: 838662--838691 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
838652 TATTAATATG
838662 ATTAAAATAA
1 ATTAAAATAA
838672 ATTAATAATAA
1 ATTAA-AATAA
838683 ATTAAAATA
1 ATTAAAATA
838692 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
ATTAAAATAA
Found at i:839091 original size:109 final size:113
Alignment explanation
Indices: 838970--839204 Score: 352
Period size: 121 Copynumber: 2.0 Consensus size: 113
838960 ATTAAAATAT
*
838970 TAATTAATAAAAATACAATGGCTAAATCGGTTATTTGCC-TA-A-A-ATATATATATATATATAT
1 TAATAAATAAAAATACAATGGCTAAATCGGTTATTTGCCATATATATATATATATATATATATAT
839031 TATGTTAAGGATTAAATTATAATGAACTAAAATTCTAATACCAAATTA
66 TATGTTAAGGATTAAATTATAATGAACTAAAATTCTAATACCAAATTA
839079 TAATAAATAAAAATACAATGGCTAAATCGGTTATTTGCCTAAAATATATATATATATATATATAT
1 TAATAAATAAAAATACAATGGCTAAATCGGTTATTTGCC--------ATATATATATATATATAT
*
839144 ATATATATTATGTTAAGGATTAAATTATAATGAACTAAAATTCTAATACCAAATTC
58 ATATATATTATGTTAAGGATTAAATTATAATGAACTAAAATTCTAATACCAAATTA
839200 TAATA
1 TAATA
839205 CACAAGGGTC
Statistics
Matches: 112, Mismatches: 2, Indels: 12
0.89 0.02 0.10
Matches are distributed among these distances:
109 38 0.34
118 2 0.02
119 1 0.01
120 1 0.01
121 70 0.62
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.37
Consensus pattern (113 bp):
TAATAAATAAAAATACAATGGCTAAATCGGTTATTTGCCATATATATATATATATATATATATAT
TATGTTAAGGATTAAATTATAATGAACTAAAATTCTAATACCAAATTA
Found at i:839129 original size:2 final size:2
Alignment explanation
Indices: 839122--839151 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
839112 TTTGCCTAAA
839122 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
839152 TATGTTAAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:839199 original size:13 final size:13
Alignment explanation
Indices: 839181--839205 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
839171 TAATGAACTA
839181 AAATTCTAATACC
1 AAATTCTAATACC
839194 AAATTCTAATAC
1 AAATTCTAATAC
839206 ACAAGGGTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.32
Consensus pattern (13 bp):
AAATTCTAATACC
Found at i:840103 original size:3 final size:3
Alignment explanation
Indices: 840095--840148 Score: 72
Period size: 3 Copynumber: 17.7 Consensus size: 3
840085 TTTGAAATGA
* * *
840095 AAT AAT AAT AAT ATT AAT AAT AAT AGT AAAT AAT AAT AAT AAA AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT
840141 AAT AAT AA
1 AAT AAT AA
840149 AAACCAAATG
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
3 42 0.95
4 2 0.05
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:840131 original size:25 final size:25
Alignment explanation
Indices: 840098--840149 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
840088 GAAATGAAAT
* * *
840098 AATAATAATATTAATAATAATAGTA
1 AATAATAATAATAAAAATAATAATA
840123 AATAATAATAATAAAAATAATAATA
1 AATAATAATAATAAAAATAATAATA
840148 AA
1 AA
840150 AACCAAATGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (25 bp):
AATAATAATAATAAAAATAATAATA
Found at i:840134 original size:28 final size:28
Alignment explanation
Indices: 840094--840147 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
840084 GTTTGAAATG
**
840094 AAATAATAATAATATTAATAATAATAGT
1 AAATAATAATAATAAAAATAATAATAGT
840122 AAATAATAATAATAAAAATAATAATA
1 AAATAATAATAATAAAAATAATAATA
840148 AAAACCAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (28 bp):
AAATAATAATAATAAAAATAATAATAGT
Found at i:840982 original size:21 final size:21
Alignment explanation
Indices: 840956--841009 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
840946 TTTTCCAGAT
*
840956 TCGCAACGCGAACATCGACTA
1 TCGCAATGCGAACATCGACTA
* *
840977 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACATCGACTA
840998 TCGCAATGCGAA
1 TCGCAATGCGAA
841010 TATGTAAATC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.31, C:0.28, G:0.22, T:0.19
Consensus pattern (21 bp):
TCGCAATGCGAACATCGACTA
Found at i:841048 original size:21 final size:21
Alignment explanation
Indices: 841024--841092 Score: 120
Period size: 21 Copynumber: 3.3 Consensus size: 21
841014 TAAATCGCAA
841024 TGCGATAGTCGAAGTTCGCGT
1 TGCGATAGTCGAAGTTCGCGT
* *
841045 TGCGATAGTCCAAGTTCGCAT
1 TGCGATAGTCGAAGTTCGCGT
841066 TGCGATAGTCGAAGTTCGCGT
1 TGCGATAGTCGAAGTTCGCGT
841087 TGCGAT
1 TGCGAT
841093 TTTCCAAATT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.29
Consensus pattern (21 bp):
TGCGATAGTCGAAGTTCGCGT
Found at i:841099 original size:42 final size:42
Alignment explanation
Indices: 841018--841104 Score: 138
Period size: 42 Copynumber: 2.1 Consensus size: 42
841008 AATATGTAAA
*
841018 TCGCAATGCGATAGTCGAAGTTCGCGTTGCGATAGTCCAAGT
1 TCGCAATGCGATAGTCGAAGTTCGCGTTGCGATAGTCCAAAT
* **
841060 TCGCATTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAAT
1 TCGCAATGCGATAGTCGAAGTTCGCGTTGCGATAGTCCAAAT
841102 TCG
1 TCG
841105 ACTATCGCAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (42 bp):
TCGCAATGCGATAGTCGAAGTTCGCGTTGCGATAGTCCAAAT
Found at i:841104 original size:21 final size:21
Alignment explanation
Indices: 841024--841273 Score: 115
Period size: 21 Copynumber: 11.6 Consensus size: 21
841014 TAAATCGCAA
*
841024 TGCGATAGTCGAAGTTCGCGT
1 TGCGATAGTCCAAGTTCGCGT
*
841045 TGCGATAGTCCAAGTTCGCAT
1 TGCGATAGTCCAAGTTCGCGT
*
841066 TGCGATAGTCGAAGTTCGCGT
1 TGCGATAGTCCAAGTTCGCGT
** *
841087 TGCGATTTTCCAAATTCGAC-T
1 TGCGATAGTCCAAGTTCG-CGT
* *
841108 AT-CGCA-ACG-CGAACTTTGACTATCGCAT
1 -TGCG-ATA-GTCCAA----G--T-TCGCGT
* * *
841136 TGCGAT-TTACATA-TTCGCAT
1 TGCGATAGTCCA-AGTTCGCGT
*
841156 TGCGATAGTCCAAGTTCGCAT
1 TGCGATAGTCCAAGTTCGCGT
* *
841177 TGTGATAGTCGAAGTTCGCGT
1 TGCGATAGTCCAAGTTCGCGT
* *
841198 TGCGATTTATTCCAAATT--CGT
1 TGCGA--TAGTCCAAGTTCGCGT
*
841219 TGCGATAGTCGAAGTTCGCGT
1 TGCGATAGTCCAAGTTCGCGT
* *
841240 TGCGATTTATTCCAAATT--CGT
1 TGCGA--TAGTCCAAGTTCGCGT
841261 TGCGATAGTCCAA
1 TGCGATAGTCCAA
841274 AATCGCAACG
Statistics
Matches: 174, Mismatches: 31, Indels: 50
0.68 0.12 0.20
Matches are distributed among these distances:
19 15 0.09
20 13 0.07
21 115 0.66
22 3 0.02
23 16 0.09
27 5 0.03
28 7 0.04
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.32
Consensus pattern (21 bp):
TGCGATAGTCCAAGTTCGCGT
Found at i:841201 original size:42 final size:40
Alignment explanation
Indices: 841149--841270 Score: 145
Period size: 42 Copynumber: 2.9 Consensus size: 40
841139 GATTTACATA
* * *
841149 TTCGCATTGCGATAGTCCAAGTTCGCATTGTGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAATTCG--TTGCGATAGTCGAAG
*
841191 TTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGA--TAGTCCAAATTCGTTGCGATAGTCGAAG
*
841233 TTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTC
1 TTCGCGTTGCGA--TAGTCCAAATTCGTTGCGATAGTC
841271 CAAAATCGCA
Statistics
Matches: 74, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
42 63 0.85
44 11 0.15
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.35
Consensus pattern (40 bp):
TTCGCGTTGCGATAGTCCAAATTCGTTGCGATAGTCGAAG
Found at i:841220 original size:132 final size:131
Alignment explanation
Indices: 840970--841224 Score: 320
Period size: 132 Copynumber: 1.9 Consensus size: 131
840960 AACGCGAACA
* *
840970 TCGACTATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCG
1 TCGACTATCGCAACGCGAACTTGGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCC
* * *
841035 AAGTTCGCGTTGCGATAGTCCAAGTTCGCATTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAA
66 AAGTTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCCAAATTC-CGTTGCGATTTTCCAA
841100 AT
130 AT
* * *
841102 TCGACTATCGCAACGCGAACTTTGACTATCGCATTGCG-AT-T-TACATATTCGCATTGCGATAG
1 TCGACTATCGCAACGCGAACTTGGACTATCGCAATGCGAATATGTA-A-A-TCGCAATGCGATAG
* * * *
841164 TCCAAGTTCGCATTGTGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT-CGTTGCGAT
63 TCCAAGTTCGCATTGCGATAGTCCAAGTTCGCATTGCGA--TAGTCCAAATTCCGTTGCGAT
841225 AGTCGAAGTT
Statistics
Matches: 106, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
129 2 0.02
130 2 0.02
131 3 0.03
132 91 0.86
134 8 0.08
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.31
Consensus pattern (131 bp):
TCGACTATCGCAACGCGAACTTGGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCC
AAGTTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCCAAATTCCGTTGCGATTTTCCAAA
T
Found at i:841382 original size:5 final size:5
Alignment explanation
Indices: 841372--841399 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
841362 TACCACGACC
841372 ACGAG ACGAG ACGAG ACGAG ACGAG ACG
1 ACGAG ACGAG ACGAG ACGAG ACGAG ACG
841400 GCGGCGGCGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.21, G:0.39, T:0.00
Consensus pattern (5 bp):
ACGAG
Found at i:841892 original size:6 final size:6
Alignment explanation
Indices: 841881--841907 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
841871 TCTCGTCTCG
841881 GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGT
841908 AATGGTAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.52, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:842108 original size:21 final size:21
Alignment explanation
Indices: 842081--842153 Score: 101
Period size: 21 Copynumber: 3.5 Consensus size: 21
842071 GATTTACATA
* *
842081 TTCGCATTACGATAGTCCAAG
1 TTCGCATTGCGATAGTCGAAG
*
842102 TTTGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCGAAG
*
842123 TTCGCGTTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCGAAG
*
842144 TTCGCGTTGC
1 TTCGCATTGC
842154 AAATCTGGAA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.32
Consensus pattern (21 bp):
TTCGCATTGCGATAGTCGAAG
Found at i:846553 original size:55 final size:55
Alignment explanation
Indices: 846422--846646 Score: 337
Period size: 55 Copynumber: 4.1 Consensus size: 55
846412 CTCCCTATTG
* * *
846422 CTTCCACGATCGTGTCTGCCCCCTATATCTTCAGAGAGTATAAGAC-C-CACAAT
1 CTTCAACGATCGCGTCTGCCCCCTATATCTTCAGAGAGTATAAGACTCGAACAAT
* * *
846475 CTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAAT
1 CTTCAACGATCGCGTCTGCCCCCTATATCTTCAGAGAGTATAAGACTCGAACAAT
* * *
846530 CTTCAACGATCGTGTCTGCCCCCTATATCTTCAGAAAGTATAAGACTCAAACAAT
1 CTTCAACGATCGCGTCTGCCCCCTATATCTTCAGAGAGTATAAGACTCGAACAAT
* *
846585 CTTCAACGATCGCGTCTTCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAAT
1 CTTCAACGATCGCGTCTGCCCCCTATATCTTCAGAGAGTATAAGACTCGAACAAT
846640 CTTCAAC
1 CTTCAAC
846647 AAATGGGTTC
Statistics
Matches: 153, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
53 41 0.27
54 1 0.01
55 111 0.73
ACGTcount: A:0.28, C:0.30, G:0.14, T:0.28
Consensus pattern (55 bp):
CTTCAACGATCGCGTCTGCCCCCTATATCTTCAGAGAGTATAAGACTCGAACAAT
Found at i:846623 original size:110 final size:108
Alignment explanation
Indices: 846422--846646 Score: 378
Period size: 110 Copynumber: 2.1 Consensus size: 108
846412 CTCCCTATTG
* * * *
846422 CTTCCACGATCGTGTCTGCCCCCTATATCTTCAGAGAGTATAAGACCCACAATCTTCATCAATCG
1 CTTCAACGATCGTGTCTGCCCCCTATATCTTCAGAAAGTATAAGACCAACAATCTTCAACAATCG
846487 CGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAAT
66 CGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAAT
*
846530 CTTCAACGATCGTGTCTGCCCCCTATATCTTCAGAAAGTATAAGACTCAAACAATCTTCAACGAT
1 CTTCAACGATCGTGTCTGCCCCCTATATCTTCAGAAAGTATAAGAC-C-AACAATCTTCAACAAT
*
846595 CGCGTCTTCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAAT
64 CGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAAT
846640 CTTCAAC
1 CTTCAAC
846647 AAATGGGTTC
Statistics
Matches: 109, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
108 44 0.40
109 1 0.01
110 64 0.59
ACGTcount: A:0.28, C:0.30, G:0.14, T:0.28
Consensus pattern (108 bp):
CTTCAACGATCGTGTCTGCCCCCTATATCTTCAGAAAGTATAAGACCAACAATCTTCAACAATCG
CGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAAT
Found at i:846825 original size:51 final size:51
Alignment explanation
Indices: 846605--847156 Score: 597
Period size: 51 Copynumber: 10.5 Consensus size: 51
846595 CGCGTCTTCC
* * * * *
846605 CCCTATTTCTTCAGAGAGTATA-AGACTCGAACAATCTTCAACAAATGGGTTCACT
1 CCCTCTTTCTTTAGGGAGTATAGA-ACTCGAAC-ATCTT---CAAACGGGTTCGCT
* * * *
846660 CCCTATTTCTCTAGGGAGTATGGAACTCAGACATATTCTTCAAACGGGTTCGCT
1 CCCTCTTTCTTTAGGGAGTATAGAACTC-GA-ACA-TCTTCAAACGGGTTCGCT
* * *
846714 CCCCCTTTCTCTAGGGAGTATAGAACTCGAACATCTCTTCAAACGAGTTCGCT
1 CCCTCTTTCTTTAGGGAGTATAGAACTCGAACA--TCTTCAAACGGGTTCGCT
* *
846767 CCTTCTTTCTTTAAGGAGTATAGAACTCGAACATCTTCAAACGGGTTCGCT
1 CCCTCTTTCTTTAGGGAGTATAGAACTCGAACATCTTCAAACGGGTTCGCT
* *
846818 CCTTCTTTCTTTAAGGAGTATAGAACTCGAACATCTTCAAACGGGTTCGCT
1 CCCTCTTTCTTTAGGGAGTATAGAACTCGAACATCTTCAAACGGGTTCGCT
*
846869 CCCTCTTTCTTTAGGGATTATAGAACTCGAACATCTTC-AACTGGGTTCGCT
1 CCCTCTTTCTTTAGGGAGTATAGAACTCGAACATCTTCAAAC-GGGTTCGCT
* * * **
846920 CCCTCTTTCTTCAGGGAGTATAGAACTCAAAAATCTTCTTCTTACGGGTTCGCT
1 CCCTCTTTCTTTAGGGAGTATAGAACTC--GAA-CATCTTCAAACGGGTTCGCT
* * **
846974 CCTTCTCTCTTTAAAGAGTATAGAACTCGAACATCTTCAAACGGGTTCGCT
1 CCCTCTTTCTTTAGGGAGTATAGAACTCGAACATCTTCAAACGGGTTCGCT
* * * * * * *
847025 CCTTCTTTCATTAAGGAGTATGGAACTCGGATATCTTCATACGGGTTCGCT
1 CCCTCTTTCTTTAGGGAGTATAGAACTCGAACATCTTCAAACGGGTTCGCT
* *
847076 CCCTCTTTCTCTAGGGAGTATGGAACTC-AGACATCTCTTCAAACGGGTTCGCT
1 CCCTCTTTCTTTAGGGAGTATAGAACTCGA-ACA--TCTTCAAACGGGTTCGCT
* *
847129 CCCTCTTTCTCTAGGGAGTATGGAACTC
1 CCCTCTTTCTTTAGGGAGTATAGAACTC
847157 AAATAATCTT
Statistics
Matches: 435, Mismatches: 49, Indels: 28
0.85 0.10 0.05
Matches are distributed among these distances:
50 3 0.01
51 225 0.52
52 4 0.01
53 95 0.22
54 75 0.17
55 24 0.06
56 4 0.01
57 5 0.01
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.32
Consensus pattern (51 bp):
CCCTCTTTCTTTAGGGAGTATAGAACTCGAACATCTTCAAACGGGTTCGCT
Found at i:847003 original size:207 final size:209
Alignment explanation
Indices: 846620--847166 Score: 757
Period size: 207 Copynumber: 2.6 Consensus size: 209
846610 TTTCTTCAGA
* * *
846620 GAGTATA-AGACTCGAACAATCTTCAACAAATGGGTTCACTCCCTATTTCTCTAGGGAGTATGGA
1 GAGTATAGA-ACTCGAAC-ATCTT---CAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGA
* * * *
846684 ACTCAGACATATTCTTCAAACGGGTTCGCTCCCCCTTTCTCTAGGGAGTATAGAACTCGAACATC
61 ACTC-GACACATTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCAAAAATC
* *
846749 -TCTTCAAACGAGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCGAACATCTTCAAACGGGT
125 TTCTTCAAACGAGTTCGCTCCTTCTCTCTTTAAAGAGTATAGAACTCGAACATCTTCAAACGGGT
*
846813 TCGCTCCTTCTTTCTTTAAG
190 TCGCTCCTTCTTTCATTAAG
* * *
846833 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTTTAGGGATTATAGAACTCG
1 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCG
846898 A-ACA-TCTTC-AACTGGGTTCGCTCCCTCTTTCT-TCAGGGAGTATAGAACTCAAAAATCTTCT
66 ACACATTCTTCAAAC-GGGTTCGCTCCCTCTTTCTCT-AGGGAGTATAGAACTCAAAAATCTTCT
** *
846959 TCTTACGGGTTCGCTCCTTCTCTCTTTAAAGAGTATAGAACTCGAACATCTTCAAACGGGTTCGC
129 TCAAACGAGTTCGCTCCTTCTCTCTTTAAAGAGTATAGAACTCGAACATCTTCAAACGGGTTCGC
847024 TCCTTCTTTCATTAAG
194 TCCTTCTTTCATTAAG
* * * *
847040 GAGTATGGAACTCGGATATCTTCATACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTC-
1 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCG
* *
847104 AGACATCTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCAAATAATCTT
66 ACACAT-TCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCAAA-AATCTT
847167 TATTTTCTTC
Statistics
Matches: 300, Mismatches: 24, Indels: 23
0.86 0.07 0.07
Matches are distributed among these distances:
205 4 0.01
206 45 0.15
207 140 0.47
208 2 0.01
209 78 0.26
210 10 0.03
212 5 0.02
213 15 0.05
214 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (209 bp):
GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCG
ACACATTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCAAAAATCTTCTTC
AAACGAGTTCGCTCCTTCTCTCTTTAAAGAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTC
CTTCTTTCATTAAG
Found at i:847010 original size:156 final size:153
Alignment explanation
Indices: 846696--847130 Score: 579
Period size: 156 Copynumber: 2.8 Consensus size: 153
846686 TCAGACATAT
* * *
846696 TCTTCAAACGGGTTCGCTCCCCCTTTCTCTAGGGAGTATAGAACTCGAACATCTCTTCAAACGAG
1 TCTTCAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACA--TCTTC-AACGGG
* * * *
846761 TTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTC-GAA-CATCTTCAAACGGGTTCGCTCCTTCT
63 TTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCAAAATC-TCTTCAAACGGGTTCGCTCCTTCT
* *
846824 TTCTTTAAGGAGTATAGAACTCGAACA
127 CTCTTTAAAGAGTATAGAACTCGAACA
*
846851 TCTTCAAACGGGTTCGCTCCCTCTTTCTTTAGGGATTATAGAACTCGAACATCTTCAACTGGGTT
1 TCTTCAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACATCTTCAAC-GGGTT
**
846916 CGCTCCCTCTTTCTTCAGGGAGTATAGAACTCAAAAATCTTCTTCTTACGGGTTCGCTCCTTCTC
65 CGCTCCCTCTTTCTTCAGGGAGTATAGAACTC-AAAATC-TCTTCAAACGGGTTCGCTCCTTCTC
846981 TCTTTAAAGAGTATAGAACTCGAACA
128 TCTTTAAAGAGTATAGAACTCGAACA
* * * * * *
847007 TCTTCAAACGGGTTCGCTCCTTCTTTCATTAAGGAGTATGGAACTCGGATATCTTCATACGGGTT
1 TCTTCAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACATCTTCA-ACGGGTT
* *
847072 CGCTCCCTCTTTC-TCTAGGGAGTATGGAACTCAGACATCTCTTCAAACGGGTTCGCTCC
65 CGCTCCCTCTTTCTTC-AGGGAGTATAGAACTCA-AAATCTCTTCAAACGGGTTCGCTCC
847131 CTCTTTCTCT
Statistics
Matches: 249, Mismatches: 24, Indels: 14
0.87 0.08 0.05
Matches are distributed among these distances:
152 3 0.01
153 38 0.15
155 71 0.29
156 135 0.54
157 2 0.01
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (153 bp):
TCTTCAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACATCTTCAACGGGTTC
GCTCCCTCTTTCTTCAGGGAGTATAGAACTCAAAATCTCTTCAAACGGGTTCGCTCCTTCTCTCT
TTAAAGAGTATAGAACTCGAACA
Found at i:847166 original size:156 final size:152
Alignment explanation
Indices: 846646--847166 Score: 562
Period size: 156 Copynumber: 3.3 Consensus size: 152
846636 CAATCTTCAA
* * * * * *
846646 CAAATGGGTTCACTCCCTATTTCTCTAGGGAGTATGGAACTCAGACATATTCTTCAAACGGGTTC
1 CAAACGGGTTCGCTCCCTCTTTCTCTAAGGAGTATAGAACTCA-A-A-AATCTTCAAACGGGTTC
* * * *
846711 GCTCCCCCTTTCTCTAGGGAGTATAGAACTCGAACATCTCTTCAAACGAGTTCGCTCCTTCTTTC
63 GCTCCCTCTTTCT-TAGGGAGTATAGAACTCG-A-ATATCTTC-AACGGGTTCGCTCCCTCTTTC
*
846776 TTTAAGGAGTATAGAACTC-GAA-CATCTT
124 -TTAGGGAGTATAGAACTCAGAATCATCTT
* * * *
846804 CAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCGAACATCTTCAAACGGGTTCGCT
1 CAAACGGGTTCGCTCCCTCTTTCTCTAAGGAGTATAGAACTCAAAAATCTTCAAACGGGTTCGCT
* *
846869 CCCTCTTTCTTTAGGGATTATAGAACTCGAACATCTTCAACTGGGTTCGCTCCCTCTTTCTTCAG
66 CCCTCTTTC-TTAGGGAGTATAGAACTCGAATATCTTCAAC-GGGTTCGCTCCCTCTTTCTT-AG
* *
846934 GGAGTATAGAACTCAAAAATCTTCTT
128 GGAGTATAGAACTC-AGAATCATCTT
** * * * * * *
846960 CTTACGGGTTCGCTCCTTCTCTCTTTAAAGAGTATAGAACTCGAACATCTTCAAACGGGTTCGCT
1 CAAACGGGTTCGCTCCCTCTTTCTCTAAGGAGTATAGAACTCAAAAATCTTCAAACGGGTTCGCT
* * * *
847025 CCTTCTTTCATTAAGGAGTATGGAACTCGGATATCTTCATACGGGTTCGCTCCCTCTTTCTCTAG
66 CCCTCTTTC-TTAGGGAGTATAGAACTCGAATATCTTCA-ACGGGTTCGCTCCCTCTTTCT-TAG
*
847090 GGAGTATGGAACTCAGACATC-TCTT
128 GGAGTATAGAACTCAGA-ATCATCTT
* *
847115 CAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCAAATAATCTT
1 CAAACGGGTTCGCTCCCTCTTTCTCTAAGGAGTATAGAACTCAAA-AATCTT
847167 TATTTTCTTC
Statistics
Matches: 311, Mismatches: 42, Indels: 22
0.83 0.11 0.06
Matches are distributed among these distances:
152 5 0.02
153 37 0.12
154 1 0.00
155 87 0.28
156 142 0.46
157 4 0.01
158 35 0.11
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (152 bp):
CAAACGGGTTCGCTCCCTCTTTCTCTAAGGAGTATAGAACTCAAAAATCTTCAAACGGGTTCGCT
CCCTCTTTCTTAGGGAGTATAGAACTCGAATATCTTCAACGGGTTCGCTCCCTCTTTCTTAGGGA
GTATAGAACTCAGAATCATCTT
Found at i:847596 original size:36 final size:36
Alignment explanation
Indices: 847538--847767 Score: 293
Period size: 36 Copynumber: 6.4 Consensus size: 36
847528 ACTCTTCTGA
* * **
847538 GAAGGCTTAAAATGGATCTGCTTCACTACTT-TTTGGT
1 GAAGGCTTAAGATGG-TTTGCTTCACTA-TTCTCCGGT
* * *
847575 GAAGACTTAAGATGGTTTGCTTCACTACTCTCTGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
* *
847611 GAAGACTTATGATGGTTTGCTTCACTATTCTCCGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
*
847647 GAAGGCTTCAGATGGTTTGCTTCACTATTCTCCGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
* *
847683 GAAGGCTTAGGATGGTTTGCTTCACTATTCTCCAGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
* *
847719 GAAGGCTTCAGATGGTTTGCTTCACT-TCTCTTCGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTAT-TCTCCGGT
847755 GAAGGCTTAAGAT
1 GAAGGCTTAAGAT
847768 TGACTTTGCT
Statistics
Matches: 172, Mismatches: 19, Indels: 5
0.88 0.10 0.03
Matches are distributed among these distances:
35 2 0.01
36 157 0.91
37 13 0.08
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.37
Consensus pattern (36 bp):
GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
Found at i:850439 original size:16 final size:16
Alignment explanation
Indices: 850420--850508 Score: 58
Period size: 16 Copynumber: 5.5 Consensus size: 16
850410 TTTTCTTTCA
850420 TTCTTTTTTTTCATTT
1 TTCTTTTTTTTCATTT
** *
850436 TTCTCATTTTTAATTT
1 TTCTTTTTTTTCATTT
* *
850452 TCTCTTTCTTTTCCTTTT
1 T-TCTTT-TTTTTCATTT
*
850470 TTATTTTTTTTTCA--T
1 TT-CTTTTTTTTCATTT
*
850485 TTCATTTTTTT-ATCTT
1 TTCTTTTTTTTCAT-TT
850501 TTCTTTTT
1 TTCTTTTT
850509 CTCTTTCTAT
Statistics
Matches: 53, Mismatches: 14, Indels: 12
0.67 0.18 0.15
Matches are distributed among these distances:
13 1 0.02
14 7 0.13
15 3 0.06
16 22 0.42
17 9 0.17
18 11 0.21
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (16 bp):
TTCTTTTTTTTCATTT
Found at i:850452 original size:24 final size:24
Alignment explanation
Indices: 850425--850533 Score: 66
Period size: 24 Copynumber: 4.5 Consensus size: 24
850415 TTTCATTCTT
850425 TTTTTTCATTT-TTCTCATTTTTAA
1 TTTTTTC-TTTCTTCTCATTTTTAA
* * * *
850449 TTTTCTCTTTCTTTTCCTTTTTTA
1 TTTTTTCTTTCTTCTCATTTTTAA
*
850473 TTTTTT-TTTCATT-TCATTTTTTTA
1 TTTTTTCTTTC-TTCTCA-TTTTTAA
* *
850497 TCTTTTCTTT-TTCTC-TTTCTATA
1 TTTTTTCTTTCTTCTCATTTTTA-A
850520 TTTCTCTTCTTTCT
1 TTT-T-TTCTTTCT
850534 CTTTATGATG
Statistics
Matches: 66, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
22 4 0.06
23 14 0.21
24 38 0.58
25 9 0.14
26 1 0.02
ACGTcount: A:0.09, C:0.17, G:0.00, T:0.73
Consensus pattern (24 bp):
TTTTTTCTTTCTTCTCATTTTTAA
Found at i:852839 original size:6 final size:6
Alignment explanation
Indices: 852818--852852 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
852808 AAACAAATAC
852818 ATGC-A ATGCAAA ATGCAA ATGCAA ATGCAA ATGCA
1 ATGCAA ATGC-AA ATGCAA ATGCAA ATGCAA ATGCA
852853 CGAGGTGTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 4 0.14
6 19 0.68
7 5 0.18
ACGTcount: A:0.49, C:0.17, G:0.17, T:0.17
Consensus pattern (6 bp):
ATGCAA
Found at i:857873 original size:2 final size:2
Alignment explanation
Indices: 857866--857913 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
857856 AAATCATTCA
857866 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
857908 AT AT AT
1 AT AT AT
857914 TCAAATTCTG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:860840 original size:12 final size:11
Alignment explanation
Indices: 860821--860850 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
860811 TAAGAACTCA
860821 AGTCGAGCTCG
1 AGTCGAGCTCG
860832 AGCTCGAGCTCG
1 AG-TCGAGCTCG
860844 AGTCGAG
1 AGTCGAG
860851 TCCATTCGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.20, C:0.27, G:0.37, T:0.17
Consensus pattern (11 bp):
AGTCGAGCTCG
Found at i:870117 original size:38 final size:37
Alignment explanation
Indices: 870043--870118 Score: 91
Period size: 38 Copynumber: 2.0 Consensus size: 37
870033 GTTGAAAAAT
*
870043 ATTTATATATTTTATTTAAAAAAATTAAATTCATAAA
1 ATTTATATATTTTATTTAAAAAAATTAAAATCATAAA
* * *
870080 ATTTATATAATTTTTTTTTACAAAATTGAAAAT-ATAAA
1 ATTTATAT-ATTTTATTTAAAAAAATT-AAAATCATAAA
870118 A
1 A
870119 AGGTTTAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
37 8 0.24
38 21 0.64
39 4 0.12
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (37 bp):
ATTTATATATTTTATTTAAAAAAATTAAAATCATAAA
Found at i:873416 original size:29 final size:30
Alignment explanation
Indices: 873382--873454 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 30
873372 AAATTTTCGA
*
873382 CTAGGGATTGAAAAGTAAATTT-CAAAAGT
1 CTAGGGATTAAAAAGTAAATTTGCAAAAGT
* ** *
873411 CTAGGGATCAAAGTGTAAATTTGTAAAAGT
1 CTAGGGATTAAAAAGTAAATTTGCAAAAGT
*
873441 GTAGGGATTAAAAA
1 CTAGGGATTAAAAA
873455 CTTAAAAAGT
Statistics
Matches: 34, Mismatches: 9, Indels: 1
0.77 0.20 0.02
Matches are distributed among these distances:
29 18 0.53
30 16 0.47
ACGTcount: A:0.44, C:0.05, G:0.23, T:0.27
Consensus pattern (30 bp):
CTAGGGATTAAAAAGTAAATTTGCAAAAGT
Found at i:873446 original size:30 final size:30
Alignment explanation
Indices: 873382--873537 Score: 111
Period size: 30 Copynumber: 5.0 Consensus size: 30
873372 AAATTTTCGA
* *
873382 CTAGGGATTGAAAA-GTAAATTTCAAAAGT
1 CTAGGGATTCAAAATGTAAATTTTAAAAGT
*
873411 CTAGGGA-TCAAAGTGTAAATTTGTAAAAGT
1 CTAGGGATTCAAAATGTAAATTT-TAAAAGT
* * *
873441 GTAGGGATTAAAAACTTAAAAAGTAAATTTTGAAAGT
1 CTAGGGATT-----C--AAAATGTAAATTTTAAAAGT
*
873478 CTAGGGATT-AAAGTGTAAATTTGTAAAAGT
1 CTAGGGATTCAAAATGTAAATTT-TAAAAGT
* * * *
873508 GTAAGGATTAAAAATATAAATTTTAAAAGT
1 CTAGGGATTCAAAATGTAAATTTTAAAAGT
873538 TATATTTTGG
Statistics
Matches: 100, Mismatches: 15, Indels: 23
0.72 0.11 0.17
Matches are distributed among these distances:
28 4 0.04
29 26 0.26
30 32 0.32
31 12 0.12
36 1 0.01
37 14 0.14
38 11 0.11
ACGTcount: A:0.46, C:0.04, G:0.20, T:0.31
Consensus pattern (30 bp):
CTAGGGATTCAAAATGTAAATTTTAAAAGT
Found at i:873500 original size:67 final size:67
Alignment explanation
Indices: 873392--873521 Score: 224
Period size: 67 Copynumber: 1.9 Consensus size: 67
873382 CTAGGGATTG
*
873392 AAAAGTAAATTTCAAAAGTCTAGGGATCAAAGTGTAAATTTGTAAAAGTGTAGGGATTAAAAACT
1 AAAAGTAAATTTCAAAAGTCTAGGGATCAAAGTGTAAATTTGTAAAAGTGTAAGGATTAAAAACT
873457 TA
66 TA
** *
873459 AAAAGTAAATTTTGAAAGTCTAGGGATTAAAGTGTAAATTTGTAAAAGTGTAAGGATTAAAAA
1 AAAAGTAAATTTCAAAAGTCTAGGGATCAAAGTGTAAATTTGTAAAAGTGTAAGGATTAAAAA
873522 TATAAATTTT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 59 1.00
ACGTcount: A:0.47, C:0.04, G:0.20, T:0.29
Consensus pattern (67 bp):
AAAAGTAAATTTCAAAAGTCTAGGGATCAAAGTGTAAATTTGTAAAAGTGTAAGGATTAAAAACT
TA
Found at i:881984 original size:17 final size:16
Alignment explanation
Indices: 881962--881995 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
881952 TAAAAACAGT
881962 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
881979 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
881995 A
1 A
881996 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:891517 original size:14 final size:15
Alignment explanation
Indices: 891498--891529 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
891488 CAAGTAAACT
891498 ATAC-AAAAAATAAA
1 ATACAAAAAAATAAA
891512 ATACAAAAAAATAAA
1 ATACAAAAAAATAAA
891527 ATA
1 ATA
891530 AAATGCTCTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.78, C:0.06, G:0.00, T:0.16
Consensus pattern (15 bp):
ATACAAAAAAATAAA
Found at i:891929 original size:16 final size:16
Alignment explanation
Indices: 891908--891940 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
891898 GTAAAACAGT
891908 AAATAA-AAGATAAATA
1 AAATAAGAAGA-AAATA
891924 AAATAAGAAGAAAATA
1 AAATAAGAAGAAAATA
891940 A
1 A
891941 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAGAAGAAAATA
Found at i:894068 original size:3 final size:3
Alignment explanation
Indices: 894060--894138 Score: 59
Period size: 3 Copynumber: 23.7 Consensus size: 3
894050 TAAACCCCGG
* *
894060 TCT TCT TCT TCCT TCT TCCT TCT TCCT TCTT TAT TCT TCTT TCT TCA
1 TCT TCT TCT T-CT TCT T-CT TCT T-CT TC-T TCT TCT TC-T TCT TCT
*
894107 TCT TCTT TCT TCTT TCT TATT TCT TCT TCT TC
1 TCT TC-T TCT TC-T TCT T-CT TCT TCT TCT TC
894139 CCTATCACCC
Statistics
Matches: 62, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
3 40 0.65
4 22 0.35
ACGTcount: A:0.04, C:0.32, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:894076 original size:7 final size:7
Alignment explanation
Indices: 894060--894139 Score: 67
Period size: 7 Copynumber: 11.9 Consensus size: 7
894050 TAAACCCCGG
894060 TCTT-CT
1 TCTTCCT
894066 TCTTCCT
1 TCTTCCT
894073 TCTTCCT
1 TCTTCCT
894080 TCTTCCT
1 TCTTCCT
**
894087 TCTTTAT
1 TCTTCCT
*
894094 TCTTCTT
1 TCTTCCT
*
894101 TCTT-CA
1 TCTTCCT
*
894107 TCTTCTT
1 TCTTCCT
*
894114 TCTTCTT
1 TCTTCCT
**
894121 TCTTATT
1 TCTTCCT
894128 TCTT-CT
1 TCTTCCT
894134 TCTTCC
1 TCTTCC
894140 CTATCACCCC
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
6 13 0.21
7 48 0.79
ACGTcount: A:0.04, C:0.33, G:0.00, T:0.64
Consensus pattern (7 bp):
TCTTCCT
Found at i:894083 original size:14 final size:13
Alignment explanation
Indices: 894060--894139 Score: 79
Period size: 14 Copynumber: 5.9 Consensus size: 13
894050 TAAACCCCGG
894060 TCTTCTTCTTCCT
1 TCTTCTTCTTCCT
894073 TCTTCCTTCTTCCT
1 TCTT-CTTCTTCCT
* *
894087 TCTTTATTCTTCTT
1 TC-TTCTTCTTCCT
* *
894101 TCTTCATCTTCTT
1 TCTTCTTCTTCCT
**
894114 TCTTCTTTCTTATT
1 TCTTC-TTCTTCCT
894128 TCTTCTTCTTCC
1 TCTTCTTCTTCC
894140 CTATCACCCC
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
13 23 0.41
14 31 0.55
15 2 0.04
ACGTcount: A:0.04, C:0.33, G:0.00, T:0.64
Consensus pattern (13 bp):
TCTTCTTCTTCCT
Found at i:894168 original size:37 final size:37
Alignment explanation
Indices: 894127--894204 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
894117 TCTTTCTTAT
*
894127 TTCTTCTTCTTCCCT-ATCACCCCCGTTAACCTCACTA
1 TTCTTCTTCTTCCCTCA-CACCCCCGTTAACCCCACTA
* * *
894164 TTCTTCTTCTTCTCTCACACCCCTGTTAACCCCACTC
1 TTCTTCTTCTTCCCTCACACCCCCGTTAACCCCACTA
894201 TTCT
1 TTCT
894205 CAACTGTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
37 35 0.97
38 1 0.03
ACGTcount: A:0.14, C:0.44, G:0.03, T:0.40
Consensus pattern (37 bp):
TTCTTCTTCTTCCCTCACACCCCCGTTAACCCCACTA
Found at i:895563 original size:3 final size:3
Alignment explanation
Indices: 895557--896511 Score: 1038
Period size: 3 Copynumber: 318.7 Consensus size: 3
895547 AGAGGATGAG
* * * * * *
895557 GAA GAA GAG GAG GAG GAA GAA GAA GAG GAG GAA GAA GAA GAA GAA GAG
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* * * * *
895605 GAA GAA GAG GAA GAA GAG GAA GAA G-A CAA GAA GAA GAA GAT GAT GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* *
895652 GAA GAA GAA GAT GAA GAG GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* * *
895700 TAA GAA GAA GAA GAA GAA GAA GAA GAC GAA GAC GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
*
895748 GAA GAA GAA GAA GAA GAG GAA GAA GAA GAA -AA GGAA GAA GAA GAAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA -GAA GAA GAA G-AA
* *
895794 GAA GAA GAA GAA GAAA GAA GAA GAG GAA GAA GAA GAA GAG GAA GAA
1 GAA GAA GAA GAA G-AA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* * *
895840 GAA GAA GAG GAA GAA GAA GAA GAG GAA GAA GAA GAT GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* * * *
895888 GAA GAA GAA GAA GAA GAA TAA TAA GAA GAA TAA GAA GAA TAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* * * * * * *
895936 GAG GAA GAG GAA GAG GAA GAG GAA GAG GAA GAG GAA GAA GAA GAA GAG
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* * * * *
895984 GAA GAA GAA GAG GAA GAA GAA GAA GAA TAA GAA TAA GAG GAA GAA GAG
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* * * * * * * * *
896032 GGA GAA GAG GAA GAA GAT GAG GAG GAA GAG GAG GAA GAG GAA GAG GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* * * * *
896080 GAA GAG GAA GAT GAA GAA GAT GAA GAA GAA GAA GAT GAA GAA GAT GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* * *
896128 GAA GAA GAA GAG GAA GAA AAA GAA GAA GAA GAA GAA GAA GAA GAG GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* * * * * * *
896176 GAA GAA GAA GAG GAG GAA GAA GAT GAA GAG GAG GAA GAA GAT GAA GAG
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* * * * * * * * *
896224 GAG GAA GAG GAT GAA GAG GAG GAA GAG GAG GAA GAA AAA GAA GAA GAG
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
*
896272 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAG GAA GAA -AA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* * * * *
896319 TAA GAA GAA GAG GAA GAA GAA GAA GAA GAA GAG GTA G-A GAAA GAC
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G-AA GAA
* * * * * * * * *
896364 GAG GAA GAA GAG GAC GAG GAA GAA GAG GTA GAG GAA TAC GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
*
896412 GAA GAA GAA GAG GAA GAA GAA GAA GAA GAA G-A GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* *
896459 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAG GAA GAG GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
896507 GAA GA
1 GAA GA
896512 TCGGGGGCTT
Statistics
Matches: 796, Mismatches: 147, Indels: 18
0.83 0.15 0.02
Matches are distributed among these distances:
2 9 0.01
3 777 0.98
4 10 0.01
ACGTcount: A:0.59, C:0.01, G:0.38, T:0.02
Consensus pattern (3 bp):
GAA
Found at i:902490 original size:36 final size:31
Alignment explanation
Indices: 902417--902501 Score: 170
Period size: 31 Copynumber: 2.7 Consensus size: 31
902407 AGTATTGCTG
902417 AGCTCGACTCGACTCGAAAACTTTGAAATGA
1 AGCTCGACTCGACTCGAAAACTTTGAAATGA
902448 AGCTCGACTCGACTCGAAAACTTTGAAATGA
1 AGCTCGACTCGACTCGAAAACTTTGAAATGA
902479 AGCTCGACTCGACTCGAAAACTT
1 AGCTCGACTCGACTCGAAAACTT
902502 GCGAGCTTAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 54 1.00
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (31 bp):
AGCTCGACTCGACTCGAAAACTTTGAAATGA
Found at i:904383 original size:14 final size:14
Alignment explanation
Indices: 904337--904385 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
904327 TTTTAAAATT
*
904337 TAAATTTTAAAAAA
1 TAAATTCTAAAAAA
* * *
904351 TGAATTACTAGAAAT
1 TAAATT-CTAAAAAA
904366 TAAATTCTAAAAAA
1 TAAATTCTAAAAAA
904380 TAAATT
1 TAAATT
904386 ATATTTTTGA
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
14 17 0.63
15 10 0.37
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.35
Consensus pattern (14 bp):
TAAATTCTAAAAAA
Found at i:909936 original size:106 final size:106
Alignment explanation
Indices: 909769--910791 Score: 1645
Period size: 106 Copynumber: 9.6 Consensus size: 106
909759 TCCAATTTCA
* * ** * * * *
909769 TTCAGAGTCTATTTCAACTTTGCAACGAAGAAAATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCA
* *
909834 CGACGAAGGGACCGCTGGTTGTTAATAAACAA-TTTTCCAA-
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCT-CAAT
* * * *
909874 TACTAGAGCCAATTTCAACTTCACAGCGAAGGATAGTGGACTCCAGACAACACAAGTTCAACTTC
1 TTC-AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTC
* *
909939 ACGACGAAGGGACCGCTGGTTGTCAATAAATAACTTCCCAAT
65 ACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAAT
* * *
909981 TTCATAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGTATGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCA
910046 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAAT
* * * *
910087 TTTAGAGCCAATTTCAACTTCACAACGAATGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCA
* *
910152 CGACGAAGGGACCGCTGGTTGTTAATAAACAACTTCCCAAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAAT
*
910193 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACACATGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCA
* *
910258 CGATGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAAT
910299 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCA
* *
910364 TGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAAT
*
910405 TTCAGAGCCAATTTAAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCA
*
910470 CGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAAT
* * *
910511 TTCAGAGCCAATTTAAAACTTCACAACGAAGGATATTGGACTCCAGAAAACGCATGTTCAACTTC
1 TTCAGAGCCAATTT-CAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTC
*
910576 ACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAAT
65 ACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAAT
* *
910618 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCA
*
910683 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAAT
*
910724 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCA
910789 CGA
66 CGA
910792 TGAGGGATAT
Statistics
Matches: 860, Mismatches: 54, Indels: 7
0.93 0.06 0.01
Matches are distributed among these distances:
105 2 0.00
106 750 0.87
107 108 0.13
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.24
Consensus pattern (106 bp):
TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCA
CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAAT
Found at i:913494 original size:21 final size:22
Alignment explanation
Indices: 913465--913506 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
913455 TTATTAAAAT
913465 ATTATGTATATTTTAAATATTA
1 ATTATGTATATTTTAAATATTA
913487 ATTA-GTATATTTTAAATATT
1 ATTATGTATATTTTAAATATT
913507 TTATTAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (22 bp):
ATTATGTATATTTTAAATATTA
Found at i:913518 original size:22 final size:21
Alignment explanation
Indices: 913472--913519 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
913462 AATATTATGT
**
913472 ATATTTTAAATATTAATTAGT
1 ATATTTTAAATATTAATTAAA
*
913493 ATATTTTAAATATTTTATTAAA
1 ATATTTTAAATA-TTAATTAAA
913515 ATATT
1 ATATT
913520 ATTAGATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (21 bp):
ATATTTTAAATATTAATTAAA
Found at i:913528 original size:8 final size:8
Alignment explanation
Indices: 913442--913591 Score: 78
Period size: 8 Copynumber: 18.6 Consensus size: 8
913432 AAATATTATA
913442 ATTATATT
1 ATTATATT
913450 ATTAT-TT
1 ATTATATT
913457 ATTAAAATATT
1 ATT---ATATT
913468 ATGTATATT
1 AT-TATATT
*
913477 -TTA-AAT
1 ATTATATT
913483 ATTA-ATT
1 ATTATATT
*
913490 AGTATATT
1 ATTATATT
*
913498 -TTA-AAT
1 ATTATATT
*
913504 ATTTTATT
1 ATTATATT
**
913512 AAAATATT
1 ATTATATT
*
913520 ATTAGATT
1 ATTATATT
913528 ATTATATT
1 ATTATATT
913536 ATTATATT
1 ATTATATT
913544 ATTTATATT
1 A-TTATATT
* * *
913553 AATAAATA
1 ATTATATT
*
913561 ATAATTATT
1 ATTA-TATT
*
913570 ATTATATA
1 ATTATATT
*
913578 ATTAATAAT
1 ATT-ATATT
913587 ATTAT
1 ATTAT
913592 TTCTATGAAA
Statistics
Matches: 105, Mismatches: 25, Indels: 24
0.68 0.16 0.16
Matches are distributed among these distances:
6 4 0.04
7 19 0.18
8 51 0.49
9 24 0.23
10 2 0.02
11 4 0.04
12 1 0.01
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (8 bp):
ATTATATT
Found at i:913539 original size:11 final size:11
Alignment explanation
Indices: 913434--913592 Score: 52
Period size: 11 Copynumber: 14.7 Consensus size: 11
913424 TGAAATAAAA
*
913434 ATATTATAATT
1 ATATTATTATT
913445 ATATTATTATTT
1 ATATTATTA-TT
*
913457 ATTAAAATATTATGT
1 A-T--ATTATTAT-T
*
913472 ATATT-TTA-A
1 ATATTATTATT
*
913481 ATATTAATTAGT
1 ATATT-ATTATT
*
913493 ATATT-TTA-A
1 ATATTATTATT
913502 ATATT-TTATT
1 ATATTATTATT
* *
913512 AAAATATTATT
1 ATATTATTATT
*
913523 AGATTATTA-T
1 ATATTATTATT
913533 ATTATTA-TATT
1 A-TATTATTATT
913544 AT-TTA-TATT
1 ATATTATTATT
* * *
913553 A-ATAAATAAT
1 ATATTATTATT
913563 A-ATTATTATT
1 ATATTATTATT
* *
913573 ATATAATTAATA
1 ATATTATT-ATT
913585 ATATTATT
1 ATATTATT
913593 TCTATGAAAT
Statistics
Matches: 112, Mismatches: 20, Indels: 31
0.69 0.12 0.19
Matches are distributed among these distances:
9 23 0.21
10 22 0.20
11 37 0.33
12 19 0.17
13 1 0.01
14 2 0.02
15 8 0.07
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (11 bp):
ATATTATTATT
Found at i:913590 original size:23 final size:24
Alignment explanation
Indices: 913540--913613 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 24
913530 TATATTATTA
*
913540 TATTATTTATATTAATAAATAATAAT
1 TATTA-TTATA-TAATTAATAATAAT
913566 TATTATTATATAATTAATAAT-AT
1 TATTATTATATAATTAATAATAAT
913589 TATT-TCTATGA-AATTAATAAATAAT
1 TATTAT-TAT-ATAATTAAT-AATAAT
913614 ATAAAGTTTA
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
22 1 0.02
23 16 0.37
24 14 0.33
25 7 0.16
26 5 0.12
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (24 bp):
TATTATTATATAATTAATAATAAT
Found at i:913719 original size:22 final size:23
Alignment explanation
Indices: 913691--913737 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
913681 TTGATTATTT
913691 TATTATAATATTAAAAATA-TAA
1 TATTATAATATTAAAAATATTAA
* *
913713 TATTATATTATTAGAAATATTAA
1 TATTATAATATTAAAAATATTAA
913736 TA
1 TA
913738 AATATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (23 bp):
TATTATAATATTAAAAATATTAA
Found at i:913742 original size:22 final size:22
Alignment explanation
Indices: 913699--913759 Score: 54
Period size: 22 Copynumber: 2.8 Consensus size: 22
913689 TTTATTATAA
*
913699 TATTAAAAATATAATATTATAT
1 TATTAAAAATATAATATAATAT
*
913721 TATTAGAAATATTAATA-AATAT
1 TATTAAAAATA-TAATATAATAT
* *
913743 ATTTTAATAAT-TAATAT
1 -TATTAAAAATATAATAT
913760 TTTGATTAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
21 5 0.16
22 14 0.45
23 12 0.39
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (22 bp):
TATTAAAAATATAATATAATAT
Found at i:913808 original size:25 final size:25
Alignment explanation
Indices: 913754--913809 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
913744 TTTTAATAAT
*
913754 TAATATTTTGATTAAAATGATATTA
1 TAATATTTTGATTAAAATGAAATTA
* * *
913779 AAATATTTT-ATTAATATTAAATTCA
1 TAATATTTTGATTAAAATGAAATT-A
913804 TAATAT
1 TAATAT
913810 AAAATTATTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
24 11 0.44
25 14 0.56
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (25 bp):
TAATATTTTGATTAAAATGAAATTA
Found at i:914502 original size:39 final size:39
Alignment explanation
Indices: 914458--914580 Score: 101
Period size: 39 Copynumber: 3.2 Consensus size: 39
914448 CATAGTTCAC
914458 TAATAAATATGTTAAGATCTAGAATGTTAATATTTTTAT
1 TAATAAATATGTTAAGATCTAGAATGTTAATATTTTTAT
* * ** ** *
914497 TAATAAA-ATGATTTAA-ACCCAAGAATG-TCGT-GGTTCAT
1 TAATAAATATG--TTAAGA-TCTAGAATGTTAATATTTTTAT
* * *
914535 TAAAAAATATGTTAAGATCTAAAATATTAATATTTTTAT
1 TAATAAATATGTTAAGATCTAGAATGTTAATATTTTTAT
914574 TAATAAA
1 TAATAAA
914581 ATGGGTTACG
Statistics
Matches: 59, Mismatches: 18, Indels: 14
0.65 0.20 0.15
Matches are distributed among these distances:
37 9 0.15
38 16 0.27
39 23 0.39
40 11 0.19
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.40
Consensus pattern (39 bp):
TAATAAATATGTTAAGATCTAGAATGTTAATATTTTTAT
Found at i:914524 original size:77 final size:77
Alignment explanation
Indices: 914405--914737 Score: 357
Period size: 77 Copynumber: 4.3 Consensus size: 77
914395 ATAATCTATT
* * * * * * *
914405 ATGTTAATATATTT-TTAATAAAATGGGTTGCACTCAATAATGTCATAGTTCACTAATAAATATG
1 ATGTTAATATTTTTATTAATAAAATGAGTTACACCCAAGAATGTCATGGTTCACTAAGAAATATG
*
914469 TTAAGATCTAGA
66 TTAAGATATAGA
* * * * *
914481 ATGTTAATATTTTTATTAATAAAATGATTTAAACCCAAGAATGTCGTGGTTCATTAAAAAATATG
1 ATGTTAATATTTTTATTAATAAAATGAGTTACACCCAAGAATGTCATGGTTCACTAAGAAATATG
* *
914546 TTAAGATCTAAA
66 TTAAGATATAGA
* * * *
914558 ATATTAATATTTTTATTAATAAAATGGGTTACGCCCAAGAATGTCATGATTCACTAAGAAATA-G
1 ATGTTAATATTTTTATTAATAAAATGAGTTACACCCAAGAATGTCATGGTTCACTAAGAAATATG
** *
914622 ATTGTGATATATA
66 -TTAAGATATAGA
** * *
914635 ATGTTAATATTTTTATTAATAAAAT-AGGTTACGTCCAAGAATGTTATGGTTCACTAAGAAATAA
1 ATGTTAATATTTTTATTAATAAAATGA-GTTACACCCAAGAATGTCATGGTTCACTAAGAAATAT
** *
914699 GTTGGGATATGGA
65 GTTAAGATATAGA
*
914712 ATGTTAAAATTTTTATTAATAAAATG
1 ATGTTAATATTTTTATTAATAAAATG
914738 GGTTGTGCAT
Statistics
Matches: 218, Mismatches: 34, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
76 14 0.06
77 203 0.93
78 1 0.00
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.38
Consensus pattern (77 bp):
ATGTTAATATTTTTATTAATAAAATGAGTTACACCCAAGAATGTCATGGTTCACTAAGAAATATG
TTAAGATATAGA
Found at i:915149 original size:83 final size:81
Alignment explanation
Indices: 915045--915243 Score: 262
Period size: 83 Copynumber: 2.4 Consensus size: 81
915035 ATAAGGCTAC
* *
915045 AAAGTATGG-TACTTTTCCAAAAGTATTAATACTTTTAAATTTGAAAATTAAAATATTATTTTTC
1 AAAGTATGGATACTTTTCCAAAAGTATTAATACTTTTAAATTTAAAAATTAAAATATCATTTTTC
*
915109 ACATTTTTTAAAAAAATT-G
66 AAATTTTTT----AAATTCG
*
915128 AAAGTATGGATACTTTT-CAAAAATA-TAGATACTTTTAAATTTAAAAATTAAAATATCATTTTT
1 AAAGTATGGATACTTTTCCAAAAGTATTA-ATACTTTTAAATTTAAAAATTAAAATATCATTTTT
*
915191 CAAATTTTTTTAATTCG
65 CAAATTTTTTAAATTCG
**
915208 AAAGTATGGATACTTTTCCAAAAGTATCCATACTTT
1 AAAGTATGGATACTTTTCCAAAAGTATTAATACTTT
915244 CGAGTTTAAA
Statistics
Matches: 103, Mismatches: 8, Indels: 12
0.84 0.07 0.10
Matches are distributed among these distances:
79 4 0.04
80 18 0.17
81 14 0.14
82 2 0.02
83 58 0.56
84 7 0.07
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.42
Consensus pattern (81 bp):
AAAGTATGGATACTTTTCCAAAAGTATTAATACTTTTAAATTTAAAAATTAAAATATCATTTTTC
AAATTTTTTAAATTCG
Found at i:915500 original size:100 final size:99
Alignment explanation
Indices: 915396--916004 Score: 614
Period size: 100 Copynumber: 6.0 Consensus size: 99
915386 AGGTAACACA
** * **
915396 TTTTTTAATGTCAACCGTTTAAATTATAAGTATGAAACCATTTATATGATACAAAAGTAAGACAA
1 TTTTTTAATGTCAACCGTTTAAATTATAAGTATGAAACTGTTTATATTATGTAAAAGTAAGACAA
** *
915461 AACATGTTTCTCATGATAATGTAGTAGGTAGCGT
66 AACATGTTTCTCATGATAACATACTAGGTAGCGT
* * *
915495 ATTTTTT-ATGCCAATCGTTTAAGTTATAAGTATGAAACTGTTTATATTATGTAAAAGTAAGACA
1 -TTTTTTAATGTCAACCGTTTAAATTATAAGTATGAAACTGTTTATATTATGTAAAAGTAAGAC-
* * * *
915559 AAAACATATTAT-TCATGATAAACATATTAGGTGGTGTTT
64 AAAACATGTT-TCTCATGAT-AACATACTAGGTAGCG--T
* * ** *
915598 TTTTCTTAATATTAATTGTTTCAATTATAAGTATGAAACTGTTTATATTATGTAAAAGTAAGACA
1 TTTT-TTAATGTCAACCGTTTAAATTATAAGTATGAAACTGTTTATATTATGTAAAAGTAAGACA
* * *
915663 AAACATGTTGCTCATAATAACATACTAGGTAGAGT
65 AAACATGTTTCTCATGATAACATACTAGGTAGCGT
* * * *
915698 TTGGTTTAATGTTAATCGTTAAAATTATAAGTATGAAACTGTTTATATTATGTAAAAGTAAGACA
1 TT-TTTTAATGTCAACCGTTTAAATTATAAGTATGAAACTGTTTATATTATGTAAAAGTAAGACA
* * * * *
915763 AAATATGTTGTTATGTTATTCATAATAACATACTAGATAGTGT
65 AAACA---TG---T-TT-CTCATGATAACATACTAGGTAGCGT
* * **
915806 TTTTTTAATGTCAACCATTTAAATTATAAGTATGAAATTGTTTATATTATACAAAAGTAAGACAA
1 TTTTTTAATGTCAACCGTTTAAATTATAAGTATGAAACTGTTTATATTATGTAAAAGTAAGACAA
*
915871 AACATGTTGCTCATGATAAACATACTAGGTAGCGCCTT
66 AACATGTTTCTCATGAT-AACATACTAGGTAGCG---T
* * * *
915909 TTTTTTAATGTTAACCGTTTAAGTTATAAGTATGAAACCGTTTATATTATGTAAAAGTAAAACAA
1 TTTTTTAATGTCAACCGTTTAAATTATAAGTATGAAACTGTTTATATTATGTAAAAGTAAGACAA
* * *
915974 CAGAT-TTT-TCATGATAACATAATAGGTAGCG
66 AACATGTTTCTCATGATAACATACTAGGTAGCG
916005 CCTTTTTATG
Statistics
Matches: 426, Mismatches: 62, Indels: 42
0.80 0.12 0.08
Matches are distributed among these distances:
99 54 0.13
100 115 0.27
101 21 0.05
102 19 0.04
103 81 0.19
104 52 0.12
106 1 0.00
107 59 0.14
108 24 0.06
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (99 bp):
TTTTTTAATGTCAACCGTTTAAATTATAAGTATGAAACTGTTTATATTATGTAAAAGTAAGACAA
AACATGTTTCTCATGATAACATACTAGGTAGCGT
Found at i:916367 original size:25 final size:25
Alignment explanation
Indices: 916339--916391 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
916329 TGAATTAAAA
*
916339 AAAATATGGATAATGAGAAGACTGT
1 AAAATATGGAAAATGAGAAGACTGT
*
916364 AAAATATGGAAAATGAGAAGATTGT
1 AAAATATGGAAAATGAGAAGACTGT
916389 AAA
1 AAA
916392 GTATCTAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.53, C:0.02, G:0.23, T:0.23
Consensus pattern (25 bp):
AAAATATGGAAAATGAGAAGACTGT
Found at i:917320 original size:15 final size:15
Alignment explanation
Indices: 917300--917350 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
917290 TTTTAAAAAA
*
917300 TGAATTAATGAAATT
1 TGAATTACTGAAATT
**
917315 TGAATTACTGAAAAA
1 TGAATTACTGAAATT
*
917330 TAAATTACTGAAATT
1 TGAATTACTGAAATT
917345 TGAATT
1 TGAATT
917351 CTGTAAAATG
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.47, C:0.04, G:0.12, T:0.37
Consensus pattern (15 bp):
TGAATTACTGAAATT
Found at i:917336 original size:30 final size:29
Alignment explanation
Indices: 917295--917365 Score: 106
Period size: 30 Copynumber: 2.4 Consensus size: 29
917285 TGATTTTTTA
917295 AAAAATGAATTAATGAAATTTGAATTACTG
1 AAAAATGAATTAATGAAATTTGAATT-CTG
* *
917325 AAAAATAAATTACTGAAATTTGAATTCTG
1 AAAAATGAATTAATGAAATTTGAATTCTG
*
917354 TAAAATGAATTA
1 AAAAATGAATTA
917366 CATTTCTGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 13 0.35
30 24 0.65
ACGTcount: A:0.51, C:0.04, G:0.11, T:0.34
Consensus pattern (29 bp):
AAAAATGAATTAATGAAATTTGAATTCTG
Found at i:917728 original size:90 final size:86
Alignment explanation
Indices: 917571--917740 Score: 200
Period size: 88 Copynumber: 1.9 Consensus size: 86
917561 ACTATTATTT
* * * * *
917571 TAAAATATTAAAATAAATTAGTTATTATTAAATATTATTTTTATAATTTTATTAATAAAAATATT
1 TAAAATATTAAAATAAATTAATTATTATTAAATAATAGTGTTATAATTATATTAATAAAAATATT
*
917636 AATATTGGTATATTTTAGTGAAA
66 -A-ATTAGTATATTTTAGTGAAA
* *
917659 TAAAATATTATAAATTATATTAATTATTTATTAAAGTAATAGTGTTAT-ATTATATT-TTAAAAA
1 TAAAATATTA-AAA-TAAATTAATTA-TTATTAAA-TAATAGTGTTATAATTATATTAATAAAAA
917722 TATTAATTAGTATATTTTA
62 TATTAATTAGTATATTTTA
917741 AATATCTTTA
Statistics
Matches: 70, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
88 23 0.33
89 4 0.06
90 19 0.27
91 15 0.21
92 9 0.13
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (86 bp):
TAAAATATTAAAATAAATTAATTATTATTAAATAATAGTGTTATAATTATATTAATAAAAATATT
AATTAGTATATTTTAGTGAAA
Found at i:917738 original size:23 final size:23
Alignment explanation
Indices: 917709--917782 Score: 76
Period size: 23 Copynumber: 3.1 Consensus size: 23
917699 AGTGTTATAT
*
917709 TATATTTTAAAAATATTAATTAG
1 TATATTTTAAAAATATTAATTAA
* * *
917732 TATATTTTAAATATCTTTATTAA
1 TATATTTTAAAAATATTAATTAA
* *
917755 AATATTATTAAAAATATATAAATAA
1 TATATT-TTAAAAATAT-TAATTAA
917780 TAT
1 TAT
917783 TATTCATTAT
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
23 24 0.62
24 8 0.21
25 7 0.18
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (23 bp):
TATATTTTAAAAATATTAATTAA
Found at i:917792 original size:30 final size:30
Alignment explanation
Indices: 917756--917827 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 30
917746 CTTTATTAAA
*
917756 ATATTATTAAAAATATATAAATAA-TATTAT
1 ATATTATTAAAAATATA-AAAAAATTATTAT
*
917786 -TCATTATTAAATATATAAAAAAATTATTAT
1 AT-ATTATTAAAAATATAAAAAAATTATTAT
917816 ATATTATTAAAA
1 ATATTATTAAAA
917828 TAAAAATATA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
29 6 0.17
30 29 0.81
31 1 0.03
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (30 bp):
ATATTATTAAAAATATAAAAAAATTATTAT
Found at i:917827 original size:20 final size:20
Alignment explanation
Indices: 917748--917827 Score: 65
Period size: 20 Copynumber: 4.0 Consensus size: 20
917738 TTAAATATCT
917748 TTATTAAAATATTATTAAAAA
1 TTATT-AAATATTATTAAAAA
* ***
917769 -TATATAAATAATATTATTCA
1 TTAT-TAAATATTATTAAAAA
*
917789 TTATTAAATA-TATAAAAAAA
1 TTATTAAATATTAT-TAAAAA
*
917809 TTATTATATATTATTAAAA
1 TTATTAAATATTATTAAAA
917828 TAAAAATATA
Statistics
Matches: 45, Mismatches: 10, Indels: 9
0.70 0.16 0.14
Matches are distributed among these distances:
19 3 0.07
20 35 0.78
21 7 0.16
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTAAATATTATTAAAAA
Found at i:917887 original size:30 final size:31
Alignment explanation
Indices: 917853--917937 Score: 79
Period size: 30 Copynumber: 2.7 Consensus size: 31
917843 CTATATTATT
917853 ATATAATTGATTATTTTATATAATATT-A-AA
1 ATATAATT-ATTATTTTATATAATATTAATAA
*
917883 ATATAA-TATTATATTATTATAAATATTAATAA
1 ATATAATTATTATTTTA-TAT-AATATTAATAA
* *
917915 ATATATTTAAATATTTTA-ATAAT
1 ATATAATT-ATTATTTTATATAAT
917938 TAATATTTTG
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
28 8 0.18
29 4 0.09
30 12 0.27
31 4 0.09
32 9 0.20
33 1 0.02
34 7 0.16
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (31 bp):
ATATAATTATTATTTTATATAATATTAATAA
Found at i:919674 original size:19 final size:19
Alignment explanation
Indices: 919650--919699 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
919640 ATGCAATTAA
919650 TGCATCGATGCATAAGGAG
1 TGCATCGATGCATAAGGAG
*
919669 TGCATCAATGCATAAGGAG
1 TGCATCGATGCATAAGGAG
919688 TGCATCGATGCA
1 TGCATCGATGCA
919700 CATGTTAAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.32, C:0.18, G:0.28, T:0.22
Consensus pattern (19 bp):
TGCATCGATGCATAAGGAG
Found at i:919715 original size:24 final size:20
Alignment explanation
Indices: 919688--919745 Score: 53
Period size: 20 Copynumber: 2.7 Consensus size: 20
919678 GCATAAGGAG
*
919688 TGCATCGATGCACATGTTAAGGGA
1 TGCATCGATGCAC-TG-T-A-GAA
* *
919712 TGCATTGATACACTGTAGAA
1 TGCATCGATGCACTGTAGAA
919732 TGCATCGATGCACT
1 TGCATCGATGCACT
919746 TCAAGGGGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
20 14 0.48
21 1 0.03
22 1 0.03
23 2 0.07
24 11 0.38
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (20 bp):
TGCATCGATGCACTGTAGAA
Found at i:919745 original size:20 final size:23
Alignment explanation
Indices: 919681--919745 Score: 64
Period size: 24 Copynumber: 2.9 Consensus size: 23
919671 CATCAATGCA
*
919681 TAAGGAGTGCATCGATGCACATGT
1 TAAGGAATGCATCGATGCAC-TGT
* * *
919705 TAAGGGATGCATTGATACACTG-
1 TAAGGAATGCATCGATGCACTGT
919727 T-A-GAATGCATCGATGCACT
1 TAAGGAATGCATCGATGCACT
919746 TCAAGGGGAA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
20 14 0.41
21 1 0.03
22 1 0.03
23 2 0.06
24 16 0.47
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (23 bp):
TAAGGAATGCATCGATGCACTGT
Found at i:921290 original size:23 final size:23
Alignment explanation
Indices: 921260--921317 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
921250 TTTTATATGG
*
921260 CACTTCGGTGCAATTCTACGCGA
1 CACTTCGGTGCAATTCTACACGA
* *
921283 CACTTCGGTGCAATTCTACATGG
1 CACTTCGGTGCAATTCTACACGA
921306 CACTTCGGTGCA
1 CACTTCGGTGCA
921318 TTTATACGAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.28
Consensus pattern (23 bp):
CACTTCGGTGCAATTCTACACGA
Found at i:921821 original size:12 final size:12
Alignment explanation
Indices: 921801--921839 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
921791 CATAGGTTAC
*
921801 AGAAACGAGAAG
1 AGAAGCGAGAAG
921813 AGAAGCGAGAAG
1 AGAAGCGAGAAG
*
921825 AGAAGTGAAGAAG
1 AGAAGCG-AGAAG
921838 AG
1 AG
921840 CAAAACAGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 17 0.71
13 7 0.29
ACGTcount: A:0.54, C:0.05, G:0.38, T:0.03
Consensus pattern (12 bp):
AGAAGCGAGAAG
Found at i:923301 original size:18 final size:19
Alignment explanation
Indices: 923259--923303 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
923249 TTTGGTTCAC
*
923259 GGAATATAAGATTACCAGT
1 GGAATAAAAGATTACCAGT
*
923278 GAGAATAAAAGATTATCAG-
1 G-GAATAAAAGATTACCAGT
923297 GGAATAA
1 GGAATAA
923304 GATTACTAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 6 0.26
19 2 0.09
20 15 0.65
ACGTcount: A:0.49, C:0.07, G:0.22, T:0.22
Consensus pattern (19 bp):
GGAATAAAAGATTACCAGT
Found at i:923526 original size:37 final size:37
Alignment explanation
Indices: 923453--923527 Score: 91
Period size: 37 Copynumber: 2.0 Consensus size: 37
923443 GTTGGAAAAT
* *
923453 ATTTATATATTTTCTTTAAAAAATTTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
*
923490 ATTTATATAAATTTT-TTTACAAAATTGAAAAT-ATAAA
1 ATTTATAT--ATTTTCTTTAAAAAATTGAAAATCATAAA
923527 A
1 A
923528 AGATTTAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
37 14 0.42
38 14 0.42
39 5 0.15
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
Done.