Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004028.1 Hibiscus syriacus cultivar Beakdansim tig00008800_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: 218703
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:2736 original size:3 final size:3
Alignment explanation
Indices: 2728--2762 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
2718 TTAAAAAATC
2728 TAT TAT TAT TA- TAT TAT TA- TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
2763 TTGAATTAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.13
3 26 0.87
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:2742 original size:8 final size:8
Alignment explanation
Indices: 2731--2762 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
2721 AAAAATCTAT
2731 TATTATTA
1 TATTATTA
2739 TATTATTA
1 TATTATTA
2747 TATTATTA
1 TATTATTA
2755 TTATTATT
1 -TATTATT
2763 TTGAATTAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 16 0.70
9 7 0.30
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (8 bp):
TATTATTA
Found at i:2742 original size:11 final size:11
Alignment explanation
Indices: 2728--2761 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
2718 TTAAAAAATC
2728 TATTATTATTA
1 TATTATTATTA
2739 TATTATTA-TA
1 TATTATTATTA
2749 TTATTATTATTA
1 -TATTATTATTA
2761 T
1 T
2762 TTTGAATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
10 2 0.10
11 17 0.81
12 2 0.10
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TATTATTATTA
Found at i:3378 original size:11 final size:12
Alignment explanation
Indices: 3358--3389 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
3348 TTATAAATTT
3358 TAATTAATTAAA
1 TAATTAATTAAA
3370 TAA-TAATT-AA
1 TAATTAATTAAA
3380 TAATTAATTA
1 TAATTAATTA
3390 TTTTATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
10 5 0.28
11 10 0.56
12 3 0.17
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TAATTAATTAAA
Found at i:7672 original size:17 final size:17
Alignment explanation
Indices: 7622--7755 Score: 99
Period size: 18 Copynumber: 7.6 Consensus size: 17
7612 ATTCTAAATG
* *
7622 TTTACAGTTATCAGACA
1 TTTACAGTTATAAGATA
7639 TTTCACAGTTATAAGATA
1 TTT-ACAGTTATAAGATA
* *
7657 TTTACATTTATTAGATGA
1 TTTACAGTTATAAGAT-A
*
7675 TTTTCAGTTATCAA-ATA
1 TTTACAGTTAT-AAGATA
* * *
7692 ATTAAAGTTATCAGATGA
1 TTTACAGTTATAAGAT-A
* * * *
7710 TTTTCAATTATCAGATG
1 TTTACAGTTATAAGATA
*
7727 TTTACAGTAATAAGATA
1 TTTACAGTTATAAGATA
7744 TTTTACAGTTAT
1 -TTTACAGTTAT
7756 CAATGTAGAT
Statistics
Matches: 89, Mismatches: 22, Indels: 11
0.73 0.18 0.09
Matches are distributed among these distances:
16 1 0.01
17 37 0.42
18 50 0.56
19 1 0.01
ACGTcount: A:0.37, C:0.10, G:0.11, T:0.43
Consensus pattern (17 bp):
TTTACAGTTATAAGATA
Found at i:7705 original size:70 final size:70
Alignment explanation
Indices: 7627--7758 Score: 162
Period size: 70 Copynumber: 1.9 Consensus size: 70
7617 AAATGTTTAC
* * *
7627 AGTTATCAGA-CA-TTTCACAGTTATAAGATATTTACATTTATTAGATGATTTT-CAGTTATCAA
1 AGTTATCAGATCATTTTCA-A-TTATAAGATATTTACAGTAATAAGAT-ATTTTACAGTTATCAA
7689 ATAATTAA
63 ATAATTAA
* * *
7697 AGTTATCAGATGATTTTCAATTATCAGATGTTTACAGTAATAAGATATTTTACAGTTATCAA
1 AGTTATCAGATCATTTTCAATTATAAGATATTTACAGTAATAAGATATTTTACAGTTATCAA
7759 TGTAGATTAA
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
69 5 0.09
70 41 0.77
71 2 0.04
72 5 0.09
ACGTcount: A:0.38, C:0.10, G:0.11, T:0.41
Consensus pattern (70 bp):
AGTTATCAGATCATTTTCAATTATAAGATATTTACAGTAATAAGATATTTTACAGTTATCAAATA
ATTAA
Found at i:7756 original size:35 final size:35
Alignment explanation
Indices: 7619--7761 Score: 130
Period size: 35 Copynumber: 4.1 Consensus size: 35
7609 TGGATTCTAA
* * *
7619 ATGTTTACAGTTATCAGA-CATTTCACAGTTATAAG
1 ATGTTTACAGTTATCAGATGATTT-TCAGTTATCAG
* * * *
7654 ATATTTACATTTATTAGATGATTTTCAGTTATCAA
1 ATGTTTACAGTTATCAGATGATTTTCAGTTATCAG
** * *
7689 ATAATTAAAGTTATCAGATGATTTTCAATTATCAG
1 ATGTTTACAGTTATCAGATGATTTTCAGTTATCAG
* *
7724 ATGTTTACAGTAATAAGAT-ATTTTACAGTTATCA-
1 ATGTTTACAGTTATCAGATGATTTT-CAGTTATCAG
7758 ATGT
1 ATGT
7762 AGATTAATAA
Statistics
Matches: 87, Mismatches: 19, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
34 9 0.10
35 74 0.85
36 4 0.05
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.42
Consensus pattern (35 bp):
ATGTTTACAGTTATCAGATGATTTTCAGTTATCAG
Found at i:8350 original size:23 final size:23
Alignment explanation
Indices: 8299--8350 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
8289 TTTATGTTTA
**
8299 GCTAT-ACTTACATATATATTTT
1 GCTATAACTTACATATATATTGG
* *
8321 ACGATAACTTACATATATATTGG
1 GCTATAACTTACATATATATTGG
8344 GCTATAA
1 GCTATAA
8351 TTTTCAGTTA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
22 3 0.13
23 20 0.87
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (23 bp):
GCTATAACTTACATATATATTGG
Found at i:9444 original size:21 final size:21
Alignment explanation
Indices: 9415--9461 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
9405 ATTCTGACTA
*
9415 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGACTTTCCAAAT
* *
9436 TCGCGTTGCGACTTTCCTAAT
1 TCGCATTGCGACTTTCCAAAT
9457 TCGCA
1 TCGCA
9462 ATATGAATTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGACTTTCCAAAT
Found at i:9482 original size:20 final size:20
Alignment explanation
Indices: 9466--9529 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
9456 TTCGCAATAT
*
9466 GAATTCGTAAATCGCAATGC
1 GAATACGTAAATCGCAATGC
9486 GAATACGTAAATCGCAATGC
1 GAATACGTAAATCGCAATGC
* *
9506 GAATACGTAGATCGCAACGC
1 GAATACGTAAATCGCAATGC
9526 GAAT
1 GAAT
9530 CTGACTATCG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (20 bp):
GAATACGTAAATCGCAATGC
Found at i:9766 original size:22 final size:21
Alignment explanation
Indices: 9728--9788 Score: 70
Period size: 22 Copynumber: 2.9 Consensus size: 21
9718 GACATCCGTT
9728 CCCATCT-GACGAAATCAGTC
1 CCCATCTCGACGAAATCAGTC
*
9748 CCCATCTCCGACGATATCAGTC
1 CCCATCT-CGACGAAATCAGTC
* *
9770 TCCATCTCTGGCGAAATCA
1 CCCATCTC-GACGAAATCA
9789 TTCACGGTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
20 7 0.21
21 1 0.03
22 26 0.76
ACGTcount: A:0.26, C:0.36, G:0.15, T:0.23
Consensus pattern (21 bp):
CCCATCTCGACGAAATCAGTC
Found at i:10205 original size:20 final size:20
Alignment explanation
Indices: 10152--10207 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
10142 GATAGTTAAA
* **
10152 TTCGCGTTGCGATAGTCATT
1 TTCGTGTTGCGATTTTCATT
10172 TTCGTGTTGCGATTTTCATT
1 TTCGTGTTGCGATTTTCATT
10192 TTCGTGTTGCGATTTT
1 TTCGTGTTGCGATTTT
10208 AAGTTTCAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.11, C:0.16, G:0.23, T:0.50
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTCATT
Found at i:10214 original size:20 final size:20
Alignment explanation
Indices: 10171--10214 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
10161 CGATAGTCAT
* *
10171 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTAAG
10191 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
10211 TTTC
1 TTTC
10215 AGAAACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.14, G:0.20, T:0.55
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Found at i:12154 original size:33 final size:34
Alignment explanation
Indices: 12084--12157 Score: 96
Period size: 33 Copynumber: 2.2 Consensus size: 34
12074 ATAGTTTACT
** * * *
12084 ATCGCAATGCGAAAATGACTATCGCAACGAGAGA
1 ATCGCAATGCGAAAATGAAAATCGCAACAACAAA
12118 ATCGCAATGCG-AAATGAAAATCGCAACAACAAA
1 ATCGCAATGCGAAAATGAAAATCGCAACAACAAA
12151 ATCGCAA
1 ATCGCAA
12158 CACACGCGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
33 24 0.69
34 11 0.31
ACGTcount: A:0.46, C:0.22, G:0.19, T:0.14
Consensus pattern (34 bp):
ATCGCAATGCGAAAATGAAAATCGCAACAACAAA
Found at i:12191 original size:20 final size:20
Alignment explanation
Indices: 12166--12221 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
12156 AACACACGCG
12166 AAAATGACTATCGCAATGCA
1 AAAATGACTATCGCAATGCA
*
12186 AAAATGACTATCGCAATGCG
1 AAAATGACTATCGCAATGCA
**
12206 AATTTGACTATCGCAA
1 AAAATGACTATCGCAA
12222 CGAAAGAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.23
Consensus pattern (20 bp):
AAAATGACTATCGCAATGCA
Found at i:12320 original size:20 final size:20
Alignment explanation
Indices: 12267--12331 Score: 94
Period size: 20 Copynumber: 3.2 Consensus size: 20
12257 CGATTCTCTT
** *
12267 GTTGCGATAGTCAAATTAGC
1 GTTGCGATAGTCATTTTCGC
*
12287 ATTGCGATAGTCATTTTCGC
1 GTTGCGATAGTCATTTTCGC
12307 GTTGCGATAGTCATTTTCGC
1 GTTGCGATAGTCATTTTCGC
12327 GTTGC
1 GTTGC
12332 AATTTTAAGT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGC
Found at i:12871 original size:42 final size:42
Alignment explanation
Indices: 12812--12904 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 42
12802 GCCCGACTCA
** * *
12812 CCTATCATCGTTCAAGAGGCCTCTC-CTATCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGGCATCTCTC-ACCGTTCAAGAGGCC
*
12854 CCTATCATCCCTCAAGAGTCATCTCTCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGGCATCTCTCACCGTTCAAGAGGCC
* *
12896 ACTGTCATC
1 CCTATCATC
12905 GTTGAAGAGG
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
42 42 0.98
43 1 0.02
ACGTcount: A:0.23, C:0.35, G:0.16, T:0.26
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGGCATCTCTCACCGTTCAAGAGGCC
Found at i:12907 original size:21 final size:20
Alignment explanation
Indices: 12816--12914 Score: 74
Period size: 21 Copynumber: 4.8 Consensus size: 20
12806 GACTCACCTA
*
12816 TCATCGTTCAAGAGGCCTCT
1 TCATCGTTCAAGAGGCCACT
* *
12836 CCTATCGTTCAAGAGGCCCCT
1 TC-ATCGTTCAAGAGGCCACT
** *
12857 ATCATCCCTCAAGA-GTCATCT
1 -TCATCGTTCAAGAGGCCA-CT
*
12878 CTCACCGTTCAAGAGGCCACT
1 -TCATCGTTCAAGAGGCCACT
*
12899 GTCATCGTTGAAGAGG
1 -TCATCGTTCAAGAGG
12915 TCCCTCCCAA
Statistics
Matches: 60, Mismatches: 15, Indels: 7
0.73 0.18 0.09
Matches are distributed among these distances:
20 3 0.05
21 53 0.88
22 4 0.07
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.25
Consensus pattern (20 bp):
TCATCGTTCAAGAGGCCACT
Found at i:14317 original size:14 final size:14
Alignment explanation
Indices: 14298--14333 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
14288 GATGTTTAAT
14298 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
14312 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
14326 TGATTTGT
1 TGATTTGT
14334 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:14509 original size:20 final size:20
Alignment explanation
Indices: 14472--14525 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
14462 GCAACGAGAG
14472 AATCGCAATGCG-AAATGAA
1 AATCGCAATGCGAAAATGAA
14491 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCGAAAATGAA
*
14511 AATCGCAACGCGAAA
1 AATCGCAATGCGAAA
14526 CTAATTCGCG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 12 0.36
20 21 0.64
ACGTcount: A:0.48, C:0.19, G:0.20, T:0.13
Consensus pattern (20 bp):
AATCGCAATGCGAAAATGAA
Found at i:14573 original size:19 final size:20
Alignment explanation
Indices: 14530--14582 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
14520 GCGAAACTAA
*
14530 TTCGCGTTGCGATTTTCATT
1 TTCGCATTGCGATTTTCATT
14550 TTCGCATTGCGATTTTCA-T
1 TTCGCATTGCGATTTTCATT
14569 TTCGCATTGCGATT
1 TTCGCATTGCGATT
14583 CTCTCGTTGC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 15 0.47
20 17 0.53
ACGTcount: A:0.13, C:0.21, G:0.19, T:0.47
Consensus pattern (20 bp):
TTCGCATTGCGATTTTCATT
Found at i:14612 original size:20 final size:20
Alignment explanation
Indices: 14587--14661 Score: 107
Period size: 20 Copynumber: 3.8 Consensus size: 20
14577 GCGATTCTCT
14587 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCAATTCCG
*
14607 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCAATTCCG
* *
14627 TGTTGCGATAGTCACATT-CA
1 CGTTGCGATAGTCA-ATTCCG
14647 CGTTGCGATAGTCAA
1 CGTTGCGATAGTCAA
14662 ATGAATGTCT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
19 1 0.02
20 46 0.94
21 2 0.04
ACGTcount: A:0.21, C:0.23, G:0.24, T:0.32
Consensus pattern (20 bp):
CGTTGCGATAGTCAATTCCG
Found at i:17958 original size:20 final size:20
Alignment explanation
Indices: 17933--18039 Score: 169
Period size: 20 Copynumber: 5.3 Consensus size: 20
17923 AAATTCAGTA
*
17933 TTGCGATAGTCAGAATCGCG
1 TTGCGATAGTCAGAATCTCG
17953 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCTCG
17973 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCTCG
17993 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCTCG
* * * *
18013 TTACGATAGTTAGATTCGCG
1 TTGCGATAGTCAGAATCTCG
18033 TTGCGAT
1 TTGCGAT
18040 TTACGTATTC
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 81 1.00
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCTCG
Found at i:18049 original size:20 final size:20
Alignment explanation
Indices: 18026--18102 Score: 145
Period size: 20 Copynumber: 3.9 Consensus size: 20
18016 CGATAGTTAG
18026 ATTCGCGTTGCGATTTACGT
1 ATTCGCGTTGCGATTTACGT
*
18046 ATTCGCATTGCGATTTACGT
1 ATTCGCGTTGCGATTTACGT
18066 ATTCGCGTTGCGATTTACGT
1 ATTCGCGTTGCGATTTACGT
18086 ATTCGCGTTGCGATTTA
1 ATTCGCGTTGCGATTTA
18103 GGAAAGTCGC
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 55 1.00
ACGTcount: A:0.17, C:0.19, G:0.23, T:0.40
Consensus pattern (20 bp):
ATTCGCGTTGCGATTTACGT
Found at i:18119 original size:21 final size:20
Alignment explanation
Indices: 18095--18141 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
18085 TATTCGCGTT
*
18095 GCGATTTAGGAAAGTCGCAAC
1 GCGATTT-GGAAAATCGCAAC
*
18116 GCGAATTTGGAAAATCGCAAT
1 GCG-ATTTGGAAAATCGCAAC
18137 GCGAT
1 GCGAT
18142 AGTCAGAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 2 0.09
21 17 0.74
22 4 0.17
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (20 bp):
GCGATTTGGAAAATCGCAAC
Found at i:30185 original size:45 final size:45
Alignment explanation
Indices: 30099--30201 Score: 118
Period size: 45 Copynumber: 2.3 Consensus size: 45
30089 GTGATAACCT
*
30099 TGGGACCACACCGCTTGGAGCTATGCAAGACAATGCTCATGACCG
1 TGGGACCACACCACTTGGAGCTATGCAAGACAATGCTCATGACCG
* * * * * *
30144 TGGGACCACGCCACTTGGAGGTATGCCAGACATTG-TGCATGAACA
1 TGGGACCACACCACTTGGAGCTATGCAAGACAATGCT-CATGACCG
*
30189 TGGGGCCACACCA
1 TGGGACCACACCA
30202 TTTGAATTAA
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
44 1 0.02
45 47 0.98
ACGTcount: A:0.26, C:0.28, G:0.28, T:0.17
Consensus pattern (45 bp):
TGGGACCACACCACTTGGAGCTATGCAAGACAATGCTCATGACCG
Found at i:30278 original size:14 final size:14
Alignment explanation
Indices: 30259--30285 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
30249 TGCTCTTGAA
30259 CATGGCATGATGCG
1 CATGGCATGATGCG
30273 CATGGCATGATGC
1 CATGGCATGATGC
30286 CTTCAACAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.22, G:0.33, T:0.22
Consensus pattern (14 bp):
CATGGCATGATGCG
Found at i:30686 original size:27 final size:27
Alignment explanation
Indices: 30625--30687 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 27
30615 CAAGGAAGCT
* *
30625 ATGAAAGTGCGGCAAATTTGAACAATA
1 ATGATAGTGCGGCAAATTTAAACAATA
* * *
30652 AT-AGTAGTGCGGCCATTTTAAATAATA
1 ATGA-TAGTGCGGCAAATTTAAACAATA
30679 ATGATAGTG
1 ATGATAGTG
30688 ATGCCAGCTC
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
26 1 0.03
27 27 0.93
28 1 0.03
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.29
Consensus pattern (27 bp):
ATGATAGTGCGGCAAATTTAAACAATA
Found at i:38845 original size:21 final size:21
Alignment explanation
Indices: 38816--38882 Score: 116
Period size: 21 Copynumber: 3.2 Consensus size: 21
38806 ATTCTGACTA
* *
38816 TCGCATTGCGATTTTCCAAAT
1 TCGCGTTGCGATTTTCCTAAT
38837 TCGCGTTGCGATTTTCCTAAT
1 TCGCGTTGCGATTTTCCTAAT
38858 TCGCGTTGCGATTTTCCTAAT
1 TCGCGTTGCGATTTTCCTAAT
38879 TCGC
1 TCGC
38883 AATGCGAATA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.16, C:0.25, G:0.18, T:0.40
Consensus pattern (21 bp):
TCGCGTTGCGATTTTCCTAAT
Found at i:38904 original size:20 final size:20
Alignment explanation
Indices: 38879--38971 Score: 177
Period size: 20 Copynumber: 4.7 Consensus size: 20
38869 TTTTCCTAAT
38879 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
38899 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
38919 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
38939 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
38959 TCGCAACGCGAAT
1 TCGCAATGCGAAT
38972 CTGACTATCG
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
20 72 1.00
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.19
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:38981 original size:20 final size:20
Alignment explanation
Indices: 38958--39024 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
38948 GAATACGTAA
* *
38958 ATCGCAACGCGAATCTGACT
1 ATCGCAACGAGATTCTGACT
38978 ATCGCAACGAGATTCTGACT
1 ATCGCAACGAGATTCTGACT
38998 ATCGCAACGAGATTCTGACT
1 ATCGCAACGAGATTCTGACT
39018 ATCGCAA
1 ATCGCAA
39025 TACTGAATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.22
Consensus pattern (20 bp):
ATCGCAACGAGATTCTGACT
Found at i:39917 original size:24 final size:24
Alignment explanation
Indices: 39866--39919 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
39856 GTATTCGAAA
*
39866 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCAGAC
* *
39890 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTTGGTCAATACCCAGAC
39914 TTTGAT
1 TTTGAT
39920 GATTTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCAGAC
Found at i:42381 original size:20 final size:20
Alignment explanation
Indices: 42356--42444 Score: 117
Period size: 20 Copynumber: 4.5 Consensus size: 20
42346 TAACGCAGAA
42356 ATCGCAACGC-GAATATGACT
1 ATCGCAACGCGGAA-ATGACT
* *
42376 ATCGCAACACGGAAATGACC
1 ATCGCAACGCGGAAATGACT
* *
42396 ATCGCAACGTGGAATTGACT
1 ATCGCAACGCGGAAATGACT
42416 ATCGCAACGCGGAAATGACT
1 ATCGCAACGCGGAAATGACT
*
42436 ATCACAACG
1 ATCGCAACG
42445 AGAGAATCGC
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
20 56 0.95
21 3 0.05
ACGTcount: A:0.36, C:0.26, G:0.21, T:0.17
Consensus pattern (20 bp):
ATCGCAACGCGGAAATGACT
Found at i:42473 original size:19 final size:18
Alignment explanation
Indices: 42449--42508 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 18
42439 ACAACGAGAG
42449 AATCGCAATGCGAAACGAA
1 AATCGCAATGCGAAA-GAA
**
42468 AATCGCAA--CG--AGTG
1 AATCGCAATGCGAAAGAA
42482 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAA-GAA
42501 AATCGCAA
1 AATCGCAA
42509 CGAGTGAATC
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
14 9 0.28
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 17 0.53
ACGTcount: A:0.45, C:0.20, G:0.22, T:0.13
Consensus pattern (18 bp):
AATCGCAATGCGAAAGAA
Found at i:42479 original size:33 final size:33
Alignment explanation
Indices: 42416--42544 Score: 177
Period size: 33 Copynumber: 3.8 Consensus size: 33
42406 GGAATTGACT
* ** * *
42416 ATCGCAACGCGGAAATGACTATCACAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGTGA
*
42450 ATCGCAATGCGAAACGAAAATCGCAACGAGTGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGTGA
42483 ATCGCAATGCGAAATGAAAATCGCAACGAGTGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGTGA
*
42516 ATCGCAATGCGAAAATGAAAATCACAACG
1 ATCGCAATGCG-AAATGAAAATCGCAACG
42545 CGAATTTAGT
Statistics
Matches: 86, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
33 61 0.71
34 25 0.29
ACGTcount: A:0.43, C:0.21, G:0.22, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGTGA
Found at i:42487 original size:14 final size:14
Alignment explanation
Indices: 42468--42522 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
42458 GCGAAACGAA
42468 AATCGCAACGAGTG
1 AATCGCAACGAGTG
*
42482 AATCGCAATGCGAAATG
1 AATCGCAA--CG-AGTG
42499 AAAATCGCAACGAGTG
1 --AATCGCAACGAGTG
42515 AATCGCAA
1 AATCGCAA
42523 TGCGAAAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 16 0.47
16 5 0.15
17 5 0.15
19 8 0.24
ACGTcount: A:0.42, C:0.20, G:0.24, T:0.15
Consensus pattern (14 bp):
AATCGCAACGAGTG
Found at i:44221 original size:42 final size:42
Alignment explanation
Indices: 44114--44225 Score: 111
Period size: 42 Copynumber: 2.7 Consensus size: 42
44104 TATAGAATGT
* * *
44114 TGGGAG-GGACCTCTTCAACGATGACAGTGGCCTCTTGAACGG
1 TGGGAGAGG-CCTCTTGAACGATGACAGGGGCCTCTTGAACGA
* * ** *
44156 TGGGAGGGGACTCTTGAGGGATGATAGGGGCCTCTTGAACGA
1 TGGGAGAGGCCTCTTGAACGATGACAGGGGCCTCTTGAACGA
*
44198 TAGGG-GATGCCTCTTGAACGATGACAGG
1 T-GGGAGAGGCCTCTTGAACGATGACAGG
44226 TGAGTCGAGC
Statistics
Matches: 55, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
42 50 0.91
43 5 0.09
ACGTcount: A:0.22, C:0.19, G:0.38, T:0.21
Consensus pattern (42 bp):
TGGGAGAGGCCTCTTGAACGATGACAGGGGCCTCTTGAACGA
Found at i:44728 original size:20 final size:20
Alignment explanation
Indices: 44705--44793 Score: 124
Period size: 20 Copynumber: 4.5 Consensus size: 20
44695 GAAACTTAAA
44705 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
44725 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
**
44745 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
** **
44765 ATCGCAATACGAATTTGACT
1 ATCGCAACGCGAAAATGACT
44785 ATCGCAACG
1 ATCGCAACG
44794 AGAGAATCGC
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 63 1.00
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:44857 original size:34 final size:34
Alignment explanation
Indices: 44816--44971 Score: 125
Period size: 34 Copynumber: 4.4 Consensus size: 34
44806 TGCGATTTTC
44816 ATTTCGCATTGCGATTCTCTCGTTGCGATAGTCA
1 ATTTCGCATTGCGATTCTCTCGTTGCGATAGTCA
* * *
44850 AATTCGCATTACGATAGTCATTTTCGCATTGCGATAGTCA
1 ATTTCGCATTGCGAT--TC--TCTCG--TTGCGATAGTCA
* * * * * * * **
44890 TTTTGGCGTTGCGATTTTGTTGTTTCGATTTTC-
1 ATTTCGCATTGCGATTCTCTCGTTGCGATAGTCA
44923 ATTTCGCATTGCGATTCTCTCGTTGCGATAGTCA
1 ATTTCGCATTGCGATTCTCTCGTTGCGATAGTCA
* *
44957 TTTTCGCGTTGCGAT
1 ATTTCGCATTGCGAT
44972 AGTCATTTTC
Statistics
Matches: 90, Mismatches: 25, Indels: 14
0.70 0.19 0.11
Matches are distributed among these distances:
33 24 0.27
34 34 0.38
36 5 0.06
38 5 0.06
40 22 0.24
ACGTcount: A:0.17, C:0.20, G:0.21, T:0.42
Consensus pattern (34 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATAGTCA
Found at i:44890 original size:20 final size:20
Alignment explanation
Indices: 44838--44994 Score: 117
Period size: 20 Copynumber: 8.5 Consensus size: 20
44828 GATTCTCTCG
**
44838 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
*
44858 TTACGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
* *
44878 TTGCGATAGTCATTTTGGCG
1 TTGCGATAGTCATTTTCGCA
44898 TTGCGAT--T--TTGTT-G--
1 TTGCGATAGTCATT-TTCGCA
* **
44912 TTTCGATTTTCA-TTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
44931 TTGCGAT--TC--TCTCG--
1 TTGCGATAGTCATTTTCGCA
*
44945 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
44965 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
44985 TTGCGATAGT
1 TTGCGATAGT
44995 AAACTATTCT
Statistics
Matches: 112, Mismatches: 11, Indels: 28
0.74 0.07 0.19
Matches are distributed among these distances:
14 13 0.12
16 12 0.11
17 6 0.05
18 5 0.04
19 6 0.05
20 70 0.62
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.42
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:46906 original size:20 final size:20
Alignment explanation
Indices: 46883--46920 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
46873 AACACTAAAA
46883 TGACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATT
*
46903 TGACTATCGTAACGCGAA
1 TGACTATCGCAACGCGAA
46921 ATGAAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.24
Consensus pattern (20 bp):
TGACTATCGCAACGCGAATT
Found at i:47181 original size:20 final size:20
Alignment explanation
Indices: 47153--47248 Score: 149
Period size: 20 Copynumber: 4.8 Consensus size: 20
47143 CCAGTAAACT
47153 TATTGCGATTTACGTATTCG
1 TATTGCGATTTACGTATTCG
* *
47173 TATTACGATTTACATATTC-
1 TATTGCGATTTACGTATTCG
47192 TCATTGCGATTTACGTATTCG
1 T-ATTGCGATTTACGTATTCG
47213 TATTGCGATTTACGTATTCG
1 TATTGCGATTTACGTATTCG
*
47233 CATTGCGATTTACGTA
1 TATTGCGATTTACGTA
47249 AATCGCAATG
Statistics
Matches: 69, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
19 1 0.01
20 67 0.97
21 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.44
Consensus pattern (20 bp):
TATTGCGATTTACGTATTCG
Found at i:53706 original size:8 final size:8
Alignment explanation
Indices: 53693--53768 Score: 152
Period size: 8 Copynumber: 9.5 Consensus size: 8
53683 CTTTTTCCCC
53693 TATGCATG
1 TATGCATG
53701 TATGCATG
1 TATGCATG
53709 TATGCATG
1 TATGCATG
53717 TATGCATG
1 TATGCATG
53725 TATGCATG
1 TATGCATG
53733 TATGCATG
1 TATGCATG
53741 TATGCATG
1 TATGCATG
53749 TATGCATG
1 TATGCATG
53757 TATGCATG
1 TATGCATG
53765 TATG
1 TATG
53769 TACAACAATG
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 68 1.00
ACGTcount: A:0.25, C:0.12, G:0.25, T:0.38
Consensus pattern (8 bp):
TATGCATG
Found at i:62514 original size:12 final size:12
Alignment explanation
Indices: 62494--62528 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
62484 CGATTTCGCT
*
62494 TGAACTTGATTC
1 TGAATTTGATTC
62506 TGAATTTGATTC
1 TGAATTTGATTC
*
62518 TGGATTTGATT
1 TGAATTTGATT
62529 GTTATCTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.23, C:0.09, G:0.20, T:0.49
Consensus pattern (12 bp):
TGAATTTGATTC
Found at i:66673 original size:21 final size:21
Alignment explanation
Indices: 66649--66688 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
66639 AGTTTATTTT
66649 AACTTTATTTCAATTATCGTA
1 AACTTTATTTCAATTATCGTA
*
66670 AACTTTGTTTCAATTATCG
1 AACTTTATTTCAATTATCG
66689 AACTTGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.47
Consensus pattern (21 bp):
AACTTTATTTCAATTATCGTA
Found at i:66736 original size:33 final size:33
Alignment explanation
Indices: 66683--66781 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
66673 TTTGTTTCAA
66683 TTATCGAACTT-GAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
66715 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
* * *
66748 TTATCAAACTTGGAAGTATTTAAGTATTTCAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
66781 T
1 T
66782 ATGTTGAGTT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 11 0.17
33 52 0.83
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.45
Consensus pattern (33 bp):
TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
Found at i:66810 original size:13 final size:13
Alignment explanation
Indices: 66767--66821 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
66757 TTGGAAGTAT
66767 TTAAGTATTTCAA
1 TTAAGTATTTCAA
* *
66780 TTATGTTGAGTT-AA
1 TTAAG-T-ATTTCAA
66794 TTAAGTATTTCAA
1 TTAAGTATTTCAA
*
66807 TTAAGTATTTGAA
1 TTAAGTATTTCAA
66820 TT
1 TT
66822 TATCGAACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.49
Consensus pattern (13 bp):
TTAAGTATTTCAA
Found at i:67069 original size:21 final size:21
Alignment explanation
Indices: 67017--67073 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
67007 TGGAGCGTGG
**
67017 GGGAATCGGTACCCTCTCATA
1 GGGAATCGGTTTCCTCTCATA
67038 GGGAATCGGTTTCCTCTCATA
1 GGGAATCGGTTTCCTCTCATA
67059 GGGAATCGGTTTCCT
1 GGGAATCGGTTTCCT
67074 AAGTGTAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.19, C:0.25, G:0.26, T:0.30
Consensus pattern (21 bp):
GGGAATCGGTTTCCTCTCATA
Found at i:67249 original size:15 final size:15
Alignment explanation
Indices: 67218--67274 Score: 60
Period size: 15 Copynumber: 3.6 Consensus size: 15
67208 ATCTGGAATA
*
67218 TTAAAATCGGTTTTTT
1 TTAAAACCGG-TTTTT
*
67234 TTATAACCGGTTTTT
1 TTAAAACCGGTTTTT
*
67249 TAAAAAAACCGGTTTTT
1 T--TAAAACCGGTTTTT
67266 TTAAAACCG
1 TTAAAACCG
67275 AAACCGGTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
15 13 0.38
16 8 0.24
17 13 0.38
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (15 bp):
TTAAAACCGGTTTTT
Found at i:67271 original size:16 final size:16
Alignment explanation
Indices: 67220--67271 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
67210 CTGGAATATT
* *
67220 AAAATCGGTTTTTTTT
1 AAAACCGGTTTTTTTA
* *
67236 ATAACCGGTTTTTTAAA
1 AAAACCGGTTTTTT-TA
67253 AAAACCGGTTTTTTTA
1 AAAACCGGTTTTTTTA
67269 AAA
1 AAA
67272 CCGAAACCGG
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
16 16 0.55
17 13 0.45
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.44
Consensus pattern (16 bp):
AAAACCGGTTTTTTTA
Found at i:67283 original size:21 final size:18
Alignment explanation
Indices: 67238--67271 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
67228 TTTTTTTTAT
67238 AACCGG-TTTTTTAAAAA
1 AACCGGTTTTTTTAAAAA
67255 AACCGGTTTTTTTAAAA
1 AACCGGTTTTTTTAAAA
67272 CCGAAACCGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (18 bp):
AACCGGTTTTTTTAAAAA
Found at i:67391 original size:15 final size:17
Alignment explanation
Indices: 67365--67396 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
67355 TTCTATGAGA
67365 AAAAACCGGAT-CGGAT
1 AAAAACCGGATCCGGAT
67381 AAAAACC-GATCCGGAT
1 AAAAACCGGATCCGGAT
67397 CGGATTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.20
16 12 0.80
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (17 bp):
AAAAACCGGATCCGGAT
Found at i:76917 original size:9 final size:9
Alignment explanation
Indices: 76903--76929 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
76893 GACGCTTCAG
76903 AGCACGTTC
1 AGCACGTTC
76912 AGCACGTTC
1 AGCACGTTC
76921 AGCACGTTC
1 AGCACGTTC
76930 TTGTTCTCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.33, G:0.22, T:0.22
Consensus pattern (9 bp):
AGCACGTTC
Found at i:86070 original size:50 final size:51
Alignment explanation
Indices: 85989--86130 Score: 173
Period size: 51 Copynumber: 2.8 Consensus size: 51
85979 CTGAAAACCC
* * *
85989 TAACCTCCAAAAAAAT-AAAAATCCCGAAAATCATAACCCCATTAAAAATCA
1 TAACCTCAAAAAAAATCAAAAA-CCCAAAAATCATAACCCCATTAAAAATAA
* * * * *
86040 TAAGCTC-CACAAAATCAGAAATCCAAAAATCATAA-CCCATTAAAAATAA
1 TAACCTCAAAAAAAATCAAAAACCCAAAAATCATAACCCCATTAAAAATAA
86089 TAACCTCAAAAAAAAATCAAAAACCCAAAAATCATAACCCCA
1 TAACCTC-AAAAAAAATCAAAAACCCAAAAATCATAACCCCA
86131 CAAAATGATT
Statistics
Matches: 75, Mismatches: 12, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
49 19 0.25
50 18 0.24
51 34 0.45
52 4 0.05
ACGTcount: A:0.56, C:0.25, G:0.02, T:0.16
Consensus pattern (51 bp):
TAACCTCAAAAAAAATCAAAAACCCAAAAATCATAACCCCATTAAAAATAA
Found at i:86105 original size:19 final size:19
Alignment explanation
Indices: 86081--86119 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
86071 ATAACCCATT
*
86081 AAAAAT-AATAACCTCAAAA
1 AAAAATCAAAAACC-CAAAA
86100 AAAAATCAAAAACCCAAAA
1 AAAAATCAAAAACCCAAAA
86119 A
1 A
86120 TCATAACCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.72, C:0.18, G:0.00, T:0.10
Consensus pattern (19 bp):
AAAAATCAAAAACCCAAAA
Found at i:86134 original size:17 final size:17
Alignment explanation
Indices: 86015--86135 Score: 56
Period size: 17 Copynumber: 7.2 Consensus size: 17
86005 AAAAATCCCG
*
86015 AAAATCATAACCCCATTA
1 AAAATCATAACCCCA-CA
*
86033 AAAATCATAAGCTCCAC-
1 AAAATCATAA-CCCCACA
* **
86050 AAAATCAGAA-ATC-CA
1 AAAATCATAACCCCACA
*
86065 AAAATCATAA-CCCATTA
1 AAAATCATAACCCCA-CA
* * *
86082 AAAATAATAACCTCAAAAA
1 AAAATCATAACC-C-CACA
**
86101 AAAATCA-AAAACC-CA
1 AAAATCATAACCCCACA
86116 AAAATCATAACCCCACA
1 AAAATCATAACCCCACA
86133 AAA
1 AAA
86136 TGATTCTCCA
Statistics
Matches: 75, Mismatches: 19, Indels: 19
0.66 0.17 0.17
Matches are distributed among these distances:
14 1 0.01
15 19 0.25
16 4 0.05
17 25 0.33
18 13 0.17
19 12 0.16
20 1 0.01
ACGTcount: A:0.58, C:0.25, G:0.02, T:0.16
Consensus pattern (17 bp):
AAAATCATAACCCCACA
Found at i:87235 original size:23 final size:23
Alignment explanation
Indices: 87209--87286 Score: 102
Period size: 23 Copynumber: 3.3 Consensus size: 23
87199 CACCACAACT
87209 CATATAATTGCACCGAAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
* *
87232 CATATAATTGCACCGGAGTGCCG
1 CATATAATTGCACCGAAGTGCCA
* *
87255 CATAGAATTGCACCGTAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
*
87278 TATAATAAT
1 CAT-ATAAT
87287 GTCCATAAGG
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
23 43 0.91
24 4 0.09
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.24
Consensus pattern (23 bp):
CATATAATTGCACCGAAGTGCCA
Found at i:87464 original size:103 final size:103
Alignment explanation
Indices: 87293--87510 Score: 391
Period size: 103 Copynumber: 2.1 Consensus size: 103
87283 TAATGTCCAT
* * * *
87293 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATTTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTAACCA
87358 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
87396 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTAACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTAACCA
87461 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
87499 AAGGACCACATA
1 AAGGACCACATA
87511 GACCCTCGAA
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 110 1.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTAACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:88273 original size:2 final size:2
Alignment explanation
Indices: 88266--88316 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
88256 ACTGATAAAC
88266 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
88308 AT AT AT AT A
1 AT AT AT AT A
88317 CTTCTATTAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:93810 original size:17 final size:17
Alignment explanation
Indices: 93788--93829 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
93778 TTTGGGTTTT
93788 TGATTTTGTAAA-GGTTA
1 TGATTTT-TAAAGGGTTA
93805 TGA-TTTTAAATGGGTTA
1 TGATTTTTAAA-GGGTTA
93822 TGATTTTT
1 TGATTTTT
93830 GTGTTTTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 4 0.18
16 3 0.14
17 11 0.50
18 4 0.18
ACGTcount: A:0.26, C:0.00, G:0.21, T:0.52
Consensus pattern (17 bp):
TGATTTTTAAAGGGTTA
Found at i:93899 original size:50 final size:50
Alignment explanation
Indices: 93767--93903 Score: 179
Period size: 49 Copynumber: 2.8 Consensus size: 50
93757 ATATTTTGTA
* ** *
93767 GAGTTATGATTTTTGGGTTTTTGATTTTGTAAAGGTTATGATTTTAAATG
1 GAGTTATGATTTTTGAGTTTTTGATTTTGTGGAGGTTATAATTTTAAATG
* * *
93817 G-GTTATGATTTTTGTGTTTTTGATTTTGTGGAGGTTATAATTTTCAGTG
1 GAGTTATGATTTTTGAGTTTTTGATTTTGTGGAGGTTATAATTTTAAATG
*
93866 GAGTTATGATTTTTGAG-TTTTGATTTTTTTGGAGGTTA
1 GAGTTATGATTTTTGAGTTTTTGA-TTTTGTGGAGGTTA
93904 GGGTTTTAAT
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
49 49 0.64
50 28 0.36
ACGTcount: A:0.20, C:0.01, G:0.26, T:0.54
Consensus pattern (50 bp):
GAGTTATGATTTTTGAGTTTTTGATTTTGTGGAGGTTATAATTTTAAATG
Found at i:100173 original size:3 final size:3
Alignment explanation
Indices: 100167--100191 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
100157 TTATGATGAT
100167 GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA G
100192 GTGTAGGTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:101605 original size:23 final size:23
Alignment explanation
Indices: 101538--101607 Score: 95
Period size: 25 Copynumber: 2.9 Consensus size: 23
101528 TGTAAAATTT
101538 TAAATATATATTTTTGAATAATAA
1 TAAA-ATATATTTTTGAATAATAA
*
101562 TAAAATATAACATTTTGAATAATAA
1 TAAAATAT-A-TTTTTGAATAATAA
*
101587 TAAAATATATTTTTAAATAAT
1 TAAAATATATTTTTGAATAAT
101608 TTGATATTCG
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
23 14 0.34
24 6 0.15
25 21 0.51
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43
Consensus pattern (23 bp):
TAAAATATATTTTTGAATAATAA
Found at i:102202 original size:3 final size:3
Alignment explanation
Indices: 102194--102257 Score: 121
Period size: 3 Copynumber: 21.7 Consensus size: 3
102184 AAATGAATAG
102194 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-T
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
102241 ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT AT
102258 ATATATACTG
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 58 0.97
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:108544 original size:24 final size:24
Alignment explanation
Indices: 108512--108569 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 24
108502 TTCTCTTTAT
108512 TCTTCATCTATCTCTTTTCTCTCC
1 TCTTCATCTATCTCTTTTCTCTCC
*
108536 TCTTCATCTATCTCTTTTCTCTCT
1 TCTTCATCTATCTCTTTTCTCTCC
*
108560 TCTTCGTCTA
1 TCTTCATCTA
108570 ATTTTCTTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.09, C:0.34, G:0.02, T:0.55
Consensus pattern (24 bp):
TCTTCATCTATCTCTTTTCTCTCC
Found at i:119668 original size:229 final size:226
Alignment explanation
Indices: 119264--119711 Score: 781
Period size: 229 Copynumber: 2.0 Consensus size: 226
119254 GTAAATTATC
* * *
119264 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
**
119329 TAATATTGTTAAATTTAAAATCTAAATAATATTTATAAAATATCAAAACAATCAAATAATTTTTT
66 TAATATTGTTAAATTTAAAATCTAAATAATATTTATAAAATATCAAAACAATCAAATAAAATTTT
119394 GTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGA
131 GTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGA
119459 AACATAAATTACATAACTTTCAAAAAAGTATA
196 AACATAAATTACATAACTTT-AAAAAAGTATA
119491 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTT-G
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAG
*
119555 ATTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAAT
65 -TTAATATTGTTAAATTTAAAATCTAAATAATA-TTTATAAAATATCAAAACAATCAAATAAAAT
* *
119620 TTTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAAT
128 TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAT
119685 TGAAACATAAATTACATAACTTTAAAA
193 TGAAACATAAATTACATAACTTTAAAA
119712 GCAGTTTTAA
Statistics
Matches: 210, Mismatches: 8, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
227 37 0.18
228 58 0.28
229 115 0.55
ACGTcount: A:0.46, C:0.08, G:0.07, T:0.39
Consensus pattern (226 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
TAATATTGTTAAATTTAAAATCTAAATAATATTTATAAAATATCAAAACAATCAAATAAAATTTT
GTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGA
AACATAAATTACATAACTTTAAAAAAGTATA
Found at i:119965 original size:20 final size:19
Alignment explanation
Indices: 119942--119988 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
119932 CGATATAACA
119942 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
119962 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
119982 GGTAAAA
1 GGTAAAA
119989 TGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:119990 original size:17 final size:19
Alignment explanation
Indices: 119951--119993 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
119941 AGGTAAAAAT
119951 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
119971 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
119988 ATGATA
1 ATGATA
119994 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:122267 original size:21 final size:21
Alignment explanation
Indices: 122220--122284 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
122210 AAGACAATCA
* * *
122220 AGAGTCGAAGATAAACTTGATC
1 AGAGTCGAAGAGAAACTCGA-G
*
122242 A-AGTCGTAGAGAAACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
* *
122262 AGAGTCGAAGATACACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
122283 AG
1 AG
122285 GCATAAGGGG
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
20 1 0.03
21 33 0.94
22 1 0.03
ACGTcount: A:0.40, C:0.15, G:0.28, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTCGAG
Found at i:122365 original size:33 final size:33
Alignment explanation
Indices: 122318--122383 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
122308 AAATAGATGG
* *
122318 AGTGGTGAATGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
122351 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
122384 TATTAAGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.27, C:0.00, G:0.48, T:0.24
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:124201 original size:19 final size:19
Alignment explanation
Indices: 124177--124225 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
124167 AATGTAGGGT
124177 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
124196 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
124215 TATTTTTGTAT
1 TAATTTTGTAT
124226 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:125037 original size:198 final size:199
Alignment explanation
Indices: 124344--125113 Score: 1431
Period size: 199 Copynumber: 3.9 Consensus size: 199
124334 CAATATGGCC
*
124344 AACAGGATGCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAAC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAAC
*
124409 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGATACAATTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
124474 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
124539 TGGAA
195 TGGAA
124544 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
* ***
124609 CAAAAGTATAATGTAATATATAATTTTTCAATCTAACCGGTACAATTATACTTATTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
124674 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
124738 GGAA
196 GGAA
124742 AACAGGGTGCACCCATAAAGTGTCGATCC--ATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
124805 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACAGGTACAATTATACC-GTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
124869 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
124934 GGAA
196 GGAA
124938 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
125003 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
125068 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
125114 CTAATTTAAA
Statistics
Matches: 553, Mismatches: 13, Indels: 9
0.96 0.02 0.02
Matches are distributed among these distances:
195 56 0.10
196 134 0.24
198 136 0.25
199 193 0.35
200 34 0.06
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.31
Consensus pattern (199 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
GGAA
Found at i:125109 original size:394 final size:397
Alignment explanation
Indices: 124344--125113 Score: 1438
Period size: 394 Copynumber: 1.9 Consensus size: 397
124334 CAATATGGCC
124344 AACAGGATGCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAAC
1 AACAGGATGCACCCATAAAGTGTCGATCCA-ATATAAAAAAGTGTCGATCCCAAAATCATCGAAC
*
124409 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGATACAATTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACAGATACAATTATACCGGTTTTATGAGA
124474 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
124539 TGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATC
195 TGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATC
**
124604 GAACCCAAAAGTATAATGTAATATATAATTTTTCAATCTAACCGGTACAATTATACTTATTTTAT
260 GAACCCAAAAGTATAATGTAATATATAATTTTTCAATCTAACCGGTACAATTATACCGATTTTAT
124669 GAGAGAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAAT
325 GAGAGAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAAT
124734 GAATGGAA
390 GAATGGAA
*
124742 AACAGGGTGCACCCATAAAGTGTCGATCC-ATAT-AAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGATGCACCCATAAAGTGTCGATCCAATATAAAAAAGTGTCGATCCCAAAATCATCGAACC
*
124805 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACAGGTACAATTATACC-GTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACAGATACAATTATACCGGTTTTATGAGAG
124869 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
124934 GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
196 GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
* *
124999 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
261 AACCCAAAAGTATAATGTAATATATAATTTTTCAATCTAACCGGTACAATTATACCGATTTTATG
*
125064 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
326 AGAGAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
125114 CTAATTTAAA
Statistics
Matches: 364, Mismatches: 8, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
394 252 0.69
395 80 0.22
396 4 0.01
398 28 0.08
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.31
Consensus pattern (397 bp):
AACAGGATGCACCCATAAAGTGTCGATCCAATATAAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACAGATACAATTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
AACCCAAAAGTATAATGTAATATATAATTTTTCAATCTAACCGGTACAATTATACCGATTTTATG
AGAGAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATG
AATGGAA
Found at i:126594 original size:12 final size:12
Alignment explanation
Indices: 126577--126641 Score: 76
Period size: 12 Copynumber: 5.4 Consensus size: 12
126567 GGTCGCAGAA
*
126577 GATGAAGCTGAC
1 GATGAAGATGAC
126589 GATGAAGATGAC
1 GATGAAGATGAC
*
126601 GATGATGATGAC
1 GATGAAGATGAC
* *
126613 GATGATGATGAT
1 GATGAAGATGAC
* *
126625 GATGATGATGAA
1 GATGAAGATGAC
126637 GATGA
1 GATGA
126642 TCCAAACAAG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 49 1.00
ACGTcount: A:0.37, C:0.06, G:0.34, T:0.23
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:126598 original size:6 final size:6
Alignment explanation
Indices: 126574--126641 Score: 64
Period size: 6 Copynumber: 11.3 Consensus size: 6
126564 AGCGGTCGCA
* * * * * *
126574 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GACGAT GATGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
* *
126622 GATGAT GATGAT GAAGAT GA
1 GAAGAT GAAGAT GAAGAT GA
126642 TCCAAACAAG
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 53 1.00
ACGTcount: A:0.38, C:0.06, G:0.34, T:0.22
Consensus pattern (6 bp):
GAAGAT
Found at i:126609 original size:3 final size:3
Alignment explanation
Indices: 126589--126642 Score: 72
Period size: 3 Copynumber: 18.0 Consensus size: 3
126579 TGAAGCTGAC
* * * *
126589 GAT GAA GAT GAC GAT GAT GAT GAC GAT GAT GAT GAT GAT GAT GAT GAA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
126637 GAT GAT
1 GAT GAT
126643 CCAAACAAGT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.37, C:0.04, G:0.33, T:0.26
Consensus pattern (3 bp):
GAT
Found at i:126642 original size:12 final size:12
Alignment explanation
Indices: 126585--126642 Score: 89
Period size: 12 Copynumber: 4.8 Consensus size: 12
126575 AAGATGAAGC
*
126585 TGACGATGAAGA
1 TGACGATGATGA
126597 TGACGATGATGA
1 TGACGATGATGA
126609 TGACGATGATGA
1 TGACGATGATGA
*
126621 TGATGATGATGA
1 TGACGATGATGA
*
126633 TGAAGATGAT
1 TGACGATGAT
126643 CCAAACAAGT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 43 1.00
ACGTcount: A:0.36, C:0.05, G:0.33, T:0.26
Consensus pattern (12 bp):
TGACGATGATGA
Found at i:128627 original size:183 final size:183
Alignment explanation
Indices: 128062--128766 Score: 1247
Period size: 183 Copynumber: 3.9 Consensus size: 183
128052 CTTTCAACAT
** * * *
128062 ATTATAATAAAATAGGTAAATTTGCAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
*
128127 GGTCTACAAACTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
128192 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
128245 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
128310 GGTCTACAACC--TATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAG-AA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
*
128372 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCAGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
*
128425 ATTATAATGTAATAGATAATTTTATAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
128490 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
* *
128555 AATGTGTCGATACGATTTAAAAAAGTATCGACATTTACACATCGGAACCCAGA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
* *
128608 TTTATAATGTAATAGATAATTTTGTGATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
* *
128673 GGTCTACAACCTATATCGACACTTTAT-ATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
*
128737 AATGTGTCGATACCATTTAAAAAAGTGTCG
131 AATGTGTCGATACGATTTAAAAAAGTGTCG
128767 GTAATTTTAA
Statistics
Matches: 501, Mismatches: 18, Indels: 7
0.95 0.03 0.01
Matches are distributed among these distances:
180 129 0.26
181 49 0.10
182 113 0.23
183 210 0.42
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (183 bp):
ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
Found at i:131258 original size:25 final size:25
Alignment explanation
Indices: 131224--131288 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
131214 TTATCATTAA
131224 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
131249 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
131274 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
131289 TCTTTTGAGT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:131663 original size:23 final size:23
Alignment explanation
Indices: 131632--131695 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
131622 ATAGGTAAAC
*
131632 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
131655 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
131678 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
131696 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:131702 original size:23 final size:23
Alignment explanation
Indices: 131632--131704 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
131622 ATAGGTAAAC
* **
131632 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
131655 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
131678 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
131701 ATAT
1 ATAT
131705 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:131732 original size:20 final size:20
Alignment explanation
Indices: 131707--131745 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
131697 GGTTATATTG
* *
131707 TAAAGTGTCTATCCTTTTTA
1 TAAAGTGTCCATACTTTTTA
131727 TAAAGTGTCCATACTTTTT
1 TAAAGTGTCCATACTTTTT
131746 TCACTGTGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.15, G:0.10, T:0.49
Consensus pattern (20 bp):
TAAAGTGTCCATACTTTTTA
Found at i:132006 original size:25 final size:25
Alignment explanation
Indices: 131972--132022 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
131962 ACAACAAATC
* *
131972 AATTAAACATTGTTGTGGGTACATT
1 AATTAAACATTATTATGGGTACATT
*
131997 AATTGAACATTATTATGGGTACATT
1 AATTAAACATTATTATGGGTACATT
132022 A
1 A
132023 TTTGGAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.39
Consensus pattern (25 bp):
AATTAAACATTATTATGGGTACATT
Found at i:132745 original size:36 final size:36
Alignment explanation
Indices: 132705--132775 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
132695 TCCGATGCTC
*
132705 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAA
*
132741 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAA
132776 GGAAATCAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.48, C:0.23, G:0.11, T:0.18
Consensus pattern (36 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAA
Found at i:133223 original size:23 final size:23
Alignment explanation
Indices: 133192--133264 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
133182 ATAGGTAAAC
*
133192 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
133215 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
133238 ATATAATGTAATATGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
133261 ATAT
1 ATAT
133265 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.34, C:0.04, G:0.21, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:148746 original size:24 final size:24
Alignment explanation
Indices: 148714--148777 Score: 128
Period size: 24 Copynumber: 2.7 Consensus size: 24
148704 ATACGATATT
148714 AAATATTACTAACCAACAGCATTC
1 AAATATTACTAACCAACAGCATTC
148738 AAATATTACTAACCAACAGCATTC
1 AAATATTACTAACCAACAGCATTC
148762 AAATATTACTAACCAA
1 AAATATTACTAACCAA
148778 ATCTCTAGCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.48, C:0.23, G:0.03, T:0.25
Consensus pattern (24 bp):
AAATATTACTAACCAACAGCATTC
Found at i:150412 original size:30 final size:30
Alignment explanation
Indices: 150378--150436 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
150368 AAGTGTCCTC
150378 GTTTCAGACATTTCAATGTCTACTGGTAGT
1 GTTTCAGACATTTCAATGTCTACTGGTAGT
150408 GTTTCAGACATTTCAATGTCTACTGGTAG
1 GTTTCAGACATTTCAATGTCTACTGGTAG
150437 AGTGAGAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (30 bp):
GTTTCAGACATTTCAATGTCTACTGGTAGT
Found at i:150703 original size:30 final size:30
Alignment explanation
Indices: 150646--150703 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
150636 AAAGTAAGAA
* * * **
150646 ATGTTCTTGGTGTTCTTCTAAGCTCAAGCG
1 ATGTGCTTGGTGTTCCTCAAAAATCAAGCG
150676 ATGTGCTTGGTGTTCCTCAAAAATCAAG
1 ATGTGCTTGGTGTTCCTCAAAAATCAAG
150704 AGTCATTCTC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.36
Consensus pattern (30 bp):
ATGTGCTTGGTGTTCCTCAAAAATCAAGCG
Found at i:164192 original size:21 final size:21
Alignment explanation
Indices: 164145--164196 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
164135 GGAAGTAACC
* *
164145 AGAGCAGCAGTGGAAGCAGAA
1 AGAGAAGCAGTGGAAGCACAA
* * *
164166 AAAGAAGCAGTGGCAGCACAG
1 AGAGAAGCAGTGGAAGCACAA
164187 AGAGAAGCAG
1 AGAGAAGCAG
164197 CATATCAGTA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.44, C:0.15, G:0.37, T:0.04
Consensus pattern (21 bp):
AGAGAAGCAGTGGAAGCACAA
Found at i:164595 original size:43 final size:43
Alignment explanation
Indices: 164512--164656 Score: 134
Period size: 43 Copynumber: 3.4 Consensus size: 43
164502 ATTCTATGTT
* * * * *
164512 ATTTAGCGACGTTTGTAA-AAAAAACGCCACCATATGCCATAC
1 ATTTAGCGGCGTTTGTAACTAAAAACGCCGCAATATACCATAC
*
164554 ATTTAGCGGCGTTTGTAACTACAAACGCCGCAATATACCATAC
1 ATTTAGCGGCGTTTGTAACTAAAAACGCCGCAATATACCATAC
* * * ** *
164597 ATTTAGCAGTGTTTGTATACTAGAAACGTTGCTATATACCGA-AC
1 ATTTAGCGGCGTTTGTA-ACTAAAAACGCCGCAATATACC-ATAC
*
164641 -TTTAGCGGTGTTTGTA
1 ATTTAGCGGCGTTTGTA
164657 TGAAAATGCC
Statistics
Matches: 87, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
42 17 0.20
43 49 0.56
44 20 0.23
45 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (43 bp):
ATTTAGCGGCGTTTGTAACTAAAAACGCCGCAATATACCATAC
Found at i:164657 original size:43 final size:44
Alignment explanation
Indices: 164533--164657 Score: 139
Period size: 43 Copynumber: 2.9 Consensus size: 44
164523 TTTGTAAAAA
* * * *
164533 AAACGCCACCATATGCCATACATTTAGCGGCGTTTGTA-ACTAC
1 AAACGCCGCAATATACCATACATTTAGCGGTGTTTGTATACTAC
* *
164576 AAACGCCGCAATATACCATACATTTAGCAGTGTTTGTATACTAG
1 AAACGCCGCAATATACCATACATTTAGCGGTGTTTGTATACTAC
** *
164620 AAACGTTGCTATATACCGA-AC-TTTAGCGGTGTTTGTAT
1 AAACGCCGCAATATACC-ATACATTTAGCGGTGTTTGTAT
164658 GAAAATGCCG
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
43 49 0.70
44 20 0.29
45 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (44 bp):
AAACGCCGCAATATACCATACATTTAGCGGTGTTTGTATACTAC
Found at i:164878 original size:43 final size:43
Alignment explanation
Indices: 164750--164887 Score: 143
Period size: 43 Copynumber: 3.2 Consensus size: 43
164740 CGATACAAAT
* * *
164750 GCCGCTAAATCTGAAAAACTACTACGAAGTTTGT-GGGAAAAAC
1 GCCGCTAAATCTCAAAACCTACTACGACGTTTGTAGGG-AAAAC
* * * * * * *
164793 GCCGCAAAATATCAAAACCTTCTACGGCATTTGTAAGTAAAAC
1 GCCGCTAAATCTCAAAACCTACTACGACGTTTGTAGGGAAAAC
* *
164836 GCCGCTAAATCTCAATACCTACTGCGACGTTTGTAGGGAAAAC
1 GCCGCTAAATCTCAAAACCTACTACGACGTTTGTAGGGAAAAC
*
164879 GCTGCTAAA
1 GCCGCTAAA
164888 CATCAACACA
Statistics
Matches: 74, Mismatches: 20, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
43 73 0.99
44 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.22
Consensus pattern (43 bp):
GCCGCTAAATCTCAAAACCTACTACGACGTTTGTAGGGAAAAC
Found at i:164905 original size:43 final size:43
Alignment explanation
Indices: 164822--164906 Score: 100
Period size: 43 Copynumber: 2.0 Consensus size: 43
164812 TTCTACGGCA
* * *
164822 TTTGTAAGTAAAACGCCGCTAAATCTCAATACCTACTGCGACG
1 TTTGTAAGGAAAACGCCGCTAAATCTCAACACATACTGCGACG
* * *
164865 TTTGTAGGGAAAACGCTGCTAAA-CATCAACACATATTGCGAC
1 TTTGTAAGGAAAACGCCGCTAAATC-TCAACACATACTGCGAC
164907 ATTTTTTTGA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
42 1 0.03
43 34 0.97
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.25
Consensus pattern (43 bp):
TTTGTAAGGAAAACGCCGCTAAATCTCAACACATACTGCGACG
Found at i:165263 original size:52 final size:52
Alignment explanation
Indices: 165181--165290 Score: 168
Period size: 52 Copynumber: 2.1 Consensus size: 52
165171 ATACCAATTC
* ** *
165181 TTTTATTAAACCTACCAAAAGATTGGTGTAATGATTATGTTTTTTTTCTATTT
1 TTTTATTAAAACTACCAAAAGATTAATGTAATGATTATATTTTTTTT-TATTT
165234 TTTTATTAAAAC-ACCAAAAGATTAATGTAATGATTATATTTTTTTTTATTT
1 TTTTATTAAAACTACCAAAAGATTAATGTAATGATTATATTTTTTTTTATTT
165285 TTTTAT
1 TTTTAT
165291 GAAAGCTTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
51 11 0.21
52 31 0.58
53 11 0.21
ACGTcount: A:0.32, C:0.07, G:0.08, T:0.53
Consensus pattern (52 bp):
TTTTATTAAAACTACCAAAAGATTAATGTAATGATTATATTTTTTTTTATTT
Found at i:165390 original size:31 final size:31
Alignment explanation
Indices: 165329--165392 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
165319 ATGTCTTTTT
* *
165329 TTATTAAAGTTTTCTATTAAGGTCTCTTTCA
1 TTATTAAAGTTTTCTATTAAAGTATCTTTCA
* *
165360 TTATTAAAGTTTTCTATTAAATTATTTTTCA
1 TTATTAAAGTTTTCTATTAAAGTATCTTTCA
165391 TT
1 TT
165393 TATTTCTTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.28, C:0.09, G:0.06, T:0.56
Consensus pattern (31 bp):
TTATTAAAGTTTTCTATTAAAGTATCTTTCA
Found at i:167731 original size:5 final size:5
Alignment explanation
Indices: 167707--167759 Score: 63
Period size: 5 Copynumber: 10.8 Consensus size: 5
167697 TTCTTGCAAC
* * * *
167707 AAAAT AAAA- AAGAT ATAAT AAAAT AAAAT TATAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
167756 AAAA
1 AAAA
167760 AAATCAGACC
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
4 3 0.08
5 36 0.92
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (5 bp):
AAAAT
Found at i:168071 original size:26 final size:26
Alignment explanation
Indices: 168035--168090 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
168025 ACAGCAAAAA
168035 AATTGTTGTTTCCAACATATTTGACT
1 AATTGTTGTTTCCAACATATTTGACT
*
168061 AATTGTTGTTTCCAACATGTTTGACT
1 AATTGTTGTTTCCAACATATTTGACT
168087 AATT
1 AATT
168091 TTTTTATTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.27, C:0.14, G:0.12, T:0.46
Consensus pattern (26 bp):
AATTGTTGTTTCCAACATATTTGACT
Found at i:168245 original size:18 final size:18
Alignment explanation
Indices: 168214--168257 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
168204 ACCAGAAACA
168214 TTATTATTTCTACCGATT
1 TTATTATTTCTACCGATT
* * *
168232 TTATTTTTTTTACCGGTT
1 TTATTATTTCTACCGATT
*
168250 TTGTTATT
1 TTATTATT
168258 GTTGGGCACT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.16, C:0.11, G:0.09, T:0.64
Consensus pattern (18 bp):
TTATTATTTCTACCGATT
Found at i:170797 original size:17 final size:16
Alignment explanation
Indices: 170775--170817 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
170765 TTTAGGATAA
170775 AAAAATAATATTATTAT
1 AAAAATAATATTATT-T
170792 AAAAAT-ATAATTATTT
1 AAAAATAAT-ATTATTT
170808 -AAAATAATAT
1 AAAAATAATAT
170818 ATAAATTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
15 7 0.29
16 5 0.21
17 12 0.50
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AAAAATAATATTATTT
Found at i:172171 original size:6 final size:6
Alignment explanation
Indices: 172160--172201 Score: 84
Period size: 6 Copynumber: 7.0 Consensus size: 6
172150 TCCCGTCTCG
172160 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
172202 ACGTGTCTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.00, C:0.17, G:0.50, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:172320 original size:21 final size:21
Alignment explanation
Indices: 172291--172416 Score: 130
Period size: 21 Copynumber: 5.8 Consensus size: 21
172281 ATTTTGGACT
172291 ATCGCAACGAACTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
* * *
172312 ATCGTAACGTGAACTTCGACT--
1 ATCGCAAC--GAACTTGGAATAA
* *
172333 ATCGCAACGAATTTGAAATAA
1 ATCGCAACGAACTTGGAATAA
172354 ATCGCAATGCGAACTTGGAATAA
1 ATCGCAA--CGAACTTGGAATAA
*
172377 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
172398 ATCGCAACGCGAACTTGGA
1 ATCGCAA--CGAACTTGGA
172417 CTATCGCAAT
Statistics
Matches: 85, Mismatches: 12, Indels: 14
0.77 0.11 0.13
Matches are distributed among these distances:
19 7 0.08
21 41 0.48
23 37 0.44
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (21 bp):
ATCGCAACGAACTTGGAATAA
Found at i:172353 original size:42 final size:42
Alignment explanation
Indices: 172284--172425 Score: 203
Period size: 42 Copynumber: 3.3 Consensus size: 42
172274 CGTTGCGATT
* * *
172284 TTGGACTATCGCAACGAACTTGGAATAAATCGTAACGTGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
* * *
172326 TTCGACTATCGCAACGAATTTGAAATAAATCGCAATGCGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
*
172368 TTGGAATAAATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
172412 TTGGACTATCGCAA
1 TTGGACTATCGCAA
172426 TGCGAATATG
Statistics
Matches: 87, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
42 48 0.55
44 39 0.45
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (42 bp):
TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
Found at i:172386 original size:86 final size:84
Alignment explanation
Indices: 172291--172450 Score: 232
Period size: 86 Copynumber: 1.9 Consensus size: 84
172281 ATTTTGGACT
* * *
172291 ATCGCAACGAACTTGGAATAAATCGTAACGTGAACTTCGACTATCGCAA-CGAATTTGAAATAAA
1 ATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAAGCGAATATG---TAAA
172355 TCGCAATGCGAACTTGGAATAA
63 TCGCAATGCGAACTTGGAATAA
* *
172377 ATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAATGCGAATATGTAAATC
1 ATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAA-GCGAATATGTAAATC
172442 GCAATGCGA
65 GCAATGCGA
172451 TAGTCGAAGT
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
85 15 0.22
86 45 0.67
88 7 0.10
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.23
Consensus pattern (84 bp):
ATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAAGCGAATATGTAAATCG
CAATGCGAACTTGGAATAA
Found at i:172422 original size:21 final size:21
Alignment explanation
Indices: 172291--172431 Score: 103
Period size: 21 Copynumber: 6.6 Consensus size: 21
172281 ATTTTGGACT
172291 ATCGCAA-CGAACTTGGAATAA
1 ATCGCAAGCGAACTTGGAAT-A
* * * *
172312 ATCGTAACGTGAACTTCGACT-
1 ATCGCAA-GCGAACTTGGAATA
* *
172333 ATCGCAA-CGAATTTGAAATAA
1 ATCGCAAGCGAACTTGGAAT-A
172354 ATCGCAATGCGAACTTGGAATAA
1 ATCGCAA-GCGAACTTGGAAT-A
*
172377 ATCGCAA-CGAATTTGGAATAA
1 ATCGCAAGCGAACTTGGAAT-A
*
172398 ATCGCAACGCGAACTTGGACT-
1 ATCGCAA-GCGAACTTGGAATA
172419 ATCGCAATGCGAA
1 ATCGCAA-GCGAA
172432 TATGTAAATC
Statistics
Matches: 96, Mismatches: 16, Indels: 16
0.75 0.12 0.12
Matches are distributed among these distances:
19 7 0.07
21 51 0.53
23 38 0.40
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (21 bp):
ATCGCAAGCGAACTTGGAATA
Found at i:176826 original size:15 final size:15
Alignment explanation
Indices: 176802--176840 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
176792 TTTCTTAATG
176802 ATATCGATACCCCCA
1 ATATCGATACCCCCA
*
176817 ATATCTATACCCCCA
1 ATATCGATACCCCCA
176832 ATATCGATA
1 ATATCGATA
176841 TTACTCCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.36, C:0.33, G:0.05, T:0.26
Consensus pattern (15 bp):
ATATCGATACCCCCA
Found at i:180504 original size:25 final size:25
Alignment explanation
Indices: 180476--180532 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
180466 AGTAACTATT
180476 TGTCAAAAGAACCCACTAGTGACAC
1 TGTCAAAAGAACCCACTAGTGACAC
*
180501 TGTCAAAAGAACCCACTAGTGTCAC
1 TGTCAAAAGAACCCACTAGTGACAC
*
180526 TGACAAA
1 TGTCAAA
180533 TACACATCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.40, C:0.26, G:0.16, T:0.18
Consensus pattern (25 bp):
TGTCAAAAGAACCCACTAGTGACAC
Found at i:183375 original size:31 final size:31
Alignment explanation
Indices: 183337--183430 Score: 136
Period size: 31 Copynumber: 3.0 Consensus size: 31
183327 CCCGAAGGAC
* * *
183337 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
183368 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
183399 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
183430 C
1 C
183431 CCTCGACCCT
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
31 56 0.98
32 1 0.02
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:187593 original size:31 final size:31
Alignment explanation
Indices: 187555--187648 Score: 136
Period size: 31 Copynumber: 3.0 Consensus size: 31
187545 CCCGAAGGAC
* * *
187555 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
187586 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
187617 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
187648 C
1 C
187649 CCTCGACCCT
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
31 56 0.98
32 1 0.02
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:188603 original size:21 final size:21
Alignment explanation
Indices: 188579--188623 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
188569 TGTTGTTCGT
* *
188579 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
188600 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
188621 TTG
1 TTG
188624 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:200707 original size:24 final size:24
Alignment explanation
Indices: 200663--200711 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
200653 GGTGGTTGAA
*
200663 TTAATGGTTGTTTAAACTTTATTT
1 TTAATGGTTATTTAAACTTTATTT
*
200687 TTAATGGTATATTT-AAGTTTATTT
1 TTAATGGT-TATTTAAACTTTATTT
200711 T
1 T
200712 GGTTCTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.27, C:0.02, G:0.12, T:0.59
Consensus pattern (24 bp):
TTAATGGTTATTTAAACTTTATTT
Found at i:201217 original size:17 final size:16
Alignment explanation
Indices: 201186--201219 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
201176 CACGTGAGGA
201186 TTATTTTCTTCTTATT
1 TTATTTTCTTCTTATT
*
201202 TTATTTATCTTTTTATT
1 TTATTT-TCTTCTTATT
201219 T
1 T
201220 ACTGTCTTTA
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:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTTCTTCTTATT
Found at i:207590 original size:19 final size:21
Alignment explanation
Indices: 207553--207595 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
207543 TAACTTTTTC
207553 TTTTATCTTTCATTATTAA-T
1 TTTTATCTTTCATTATTAACT
*
207573 TTTTCTCTTTCATT-TTAACT
1 TTTTATCTTTCATTATTAACT
207593 TTT
1 TTT
207596 ACCTTTTCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.19, C:0.14, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTATCTTTCATTATTAACT
Found at i:207601 original size:19 final size:20
Alignment explanation
Indices: 207552--207601 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
207542 TTAACTTTTT
*
207552 CTTTTATCTTTCATTATTAA
1 CTTTTACCTTTCATTATTAA
*
207572 -TTTTTCTCTTTCATT-TTAA
1 CTTTTAC-CTTTCATTATTAA
207591 CTTTTACCTTT
1 CTTTTACCTTT
207602 TCTCTTTCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.64
Consensus pattern (20 bp):
CTTTTACCTTTCATTATTAA
Found at i:210928 original size:24 final size:24
Alignment explanation
Indices: 210899--210948 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
210889 TGATGGTTGA
*
210899 TTTAATGGT-TGTTTAAACTTTATT
1 TTTAATGGTATATTT-AACTTTATT
*
210923 TTTAATGGTATATTTAAGTTTATT
1 TTTAATGGTATATTTAACTTTATT
210947 TT
1 TT
210949 GGTTCTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.26, C:0.02, G:0.12, T:0.60
Consensus pattern (24 bp):
TTTAATGGTATATTTAACTTTATT
Found at i:211454 original size:17 final size:16
Alignment explanation
Indices: 211423--211456 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
211413 CACGTGAGGA
211423 TTATTTTCTTCTTATT
1 TTATTTTCTTCTTATT
*
211439 TTATTTATCTTTTTATT
1 TTATTT-TCTTCTTATT
211456 T
1 T
211457 ACTGTCTTTA
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:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTTCTTCTTATT
Found at i:214470 original size:21 final size:22
Alignment explanation
Indices: 214441--214499 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
214431 TGCATCCCTT
214441 TGAATGTGCATCGATACA-CCA
1 TGAATGTGCATCGATACAGCCA
* * * *
214462 TGAAGGTGCACCGATGCATGCCT
1 TGAATGTGCATCGATACA-GCCA
214485 TGAATGTGCATCGAT
1 TGAATGTGCATCGAT
214500 GCACACTGTC
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
21 15 0.50
23 15 0.50
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.25
Consensus pattern (22 bp):
TGAATGTGCATCGATACAGCCA
Found at i:214493 original size:23 final size:22
Alignment explanation
Indices: 214422--214502 Score: 92
Period size: 23 Copynumber: 3.6 Consensus size: 22
214412 ACACTTAACA
214422 GTGCATCGATGCATCCCTTTGAAT
1 GTGCATCGATGCAT-CC-TTGAAT
* * *
214446 GTGCATCGATACA-CCATGAAG
1 GTGCATCGATGCATCCTTGAAT
*
214467 GTGCACCGATGCATGCCTTGAAT
1 GTGCATCGATGCAT-CCTTGAAT
214490 GTGCATCGATGCA
1 GTGCATCGATGCA
214503 CACTGTCATG
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
21 15 0.32
22 2 0.04
23 18 0.38
24 12 0.26
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.26
Consensus pattern (22 bp):
GTGCATCGATGCATCCTTGAAT
Found at i:217223 original size:65 final size:63
Alignment explanation
Indices: 217106--217313 Score: 208
Period size: 65 Copynumber: 3.2 Consensus size: 63
217096 TTTCAAAGTG
* * * ** *
217106 ATGCACCGATGCACCAATCCATACATCGATGCAC-CATGGAATAAATTG-AACATCGAATGTATT
1 ATGCATCGATGCA-CAA-CCATGCATCGATGCACTCA-GG-CTATTTTGAAACATCGAATGCATT
217169 TC
62 TC
*
217171 ATGCATCGATGCACATACTATGCATCGATGCACTCAGAG-T-TTTATGAAAACATCGAATGCATT
1 ATGCATCGATGCACA-ACCATGCATCGATGCACTCAG-GCTATTT-TG-AAACATCGAATGCATT
*
217234 TG
62 TC
* * *
217236 ATGCATCGATGCACCAGCCATGCATTGATGCACTCAGGCTATTTTGAAACATCGAATGCATTTT
1 ATGCATCGATGCA-CAACCATGCATCGATGCACTCAGGCTATTTTGAAACATCGAATGCATTTC
217300 ATGCATCGATGCAC
1 ATGCATCGATGCAC
217314 TCTTAGTGCA
Statistics
Matches: 123, Mismatches: 11, Indels: 20
0.80 0.07 0.13
Matches are distributed among these distances:
62 1 0.01
63 4 0.03
64 48 0.39
65 65 0.53
66 5 0.04
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (63 bp):
ATGCATCGATGCACAACCATGCATCGATGCACTCAGGCTATTTTGAAACATCGAATGCATTTC
Found at i:218648 original size:22 final size:23
Alignment explanation
Indices: 218620--218667 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
218610 TTAATTTATG
218620 TTGGGTGCTA-TTTATGTAAA-AT
1 TTGGGTGCTAGTTTA-GTAAATAT
*
218642 TTGGGTGTTAGTTTAGTAAATAT
1 TTGGGTGCTAGTTTAGTAAATAT
218665 TTG
1 TTG
218668 CAGAATGTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.25, C:0.02, G:0.25, T:0.48
Consensus pattern (23 bp):
TTGGGTGCTAGTTTAGTAAATAT
Done.