Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004370.1 Hibiscus syriacus cultivar Beakdansim tig00009572_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: 77955
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
Found at i:2065 original size:42 final size:42
Alignment explanation
Indices: 2005--2127 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
1995 GCCCGACTCG
* * *
2005 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * *
2047 CCTATCATTCCTCGAGAGTCCTCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * ** * *
2089 ACTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CCTATCATCCCTCAAGA-GTCCACTCCCACCGTTCAAGAG
2128 CTCGATTCAC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 62 0.94
43 4 0.06
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.24
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:3500 original size:14 final size:14
Alignment explanation
Indices: 3481--3516 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
3471 ATTGTTTAAT
3481 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
3495 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
3509 TGATTTGT
1 TGATTTGT
3517 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:3716 original size:19 final size:19
Alignment explanation
Indices: 3694--3824 Score: 103
Period size: 19 Copynumber: 7.7 Consensus size: 19
3684 CGAAATTAAA
*
3694 TTCGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
3713 TTCGCATTGCGA--TTC-C
1 TTCGCATTGCGATTTTCAT
*
3729 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
3746 TTCGCATTGCGA-----AA
1 TTCGCATTGCGATTTTCAT
*
3760 TTAGCATTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
3779 TTCGCATTGCGA--TTC-T
1 TTCGCATTGCGATTTTCAT
*
3795 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
3812 TTCGCATTGCGAT
1 TTCGCATTGCGAT
3825 AGTAATTTCC
Statistics
Matches: 86, Mismatches: 11, Indels: 30
0.68 0.09 0.24
Matches are distributed among these distances:
14 24 0.28
16 13 0.15
17 13 0.15
19 36 0.42
ACGTcount: A:0.15, C:0.23, G:0.19, T:0.43
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:3740 original size:33 final size:32
Alignment explanation
Indices: 3698--3824 Score: 184
Period size: 33 Copynumber: 3.9 Consensus size: 32
3688 ATTAAATTCG
3698 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
**
3731 CGTTGCGATTTTCATTTCGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
*
3764 CATTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
3797 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
3825 AGTAATTTCC
Statistics
Matches: 84, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
31 3 0.04
33 78 0.93
35 3 0.04
ACGTcount: A:0.16, C:0.23, G:0.19, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:3787 original size:66 final size:66
Alignment explanation
Indices: 3691--3823 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
3681 ACGCGAAATT
* *
3691 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCATTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
3756 G
66 G
*
3757 AAATTAGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCATTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
3822 G
66 G
3823 A
1 A
3824 TAGTAATTTC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.17, C:0.23, G:0.19, T:0.41
Consensus pattern (66 bp):
AAATTAGCATTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
G
Found at i:6069 original size:12 final size:12
Alignment explanation
Indices: 6052--6076 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6042 TCTTCGGGGA
6052 CTTTTTCTTCTT
1 CTTTTTCTTCTT
6064 CTTTTTCTTCTT
1 CTTTTTCTTCTT
6076 C
1 C
6077 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:6284 original size:23 final size:24
Alignment explanation
Indices: 6251--6303 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
6241 CTGAAACATC
* *
6251 ATCAAAATCCGTGTA-TGACCAAT
1 ATCAAAATCCGGGTATTGACCAAG
*
6274 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGGGTATTGACCAAG
6298 ATCAAA
1 ATCAAA
6304 TTTCGAATAC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 13 0.50
24 13 0.50
ACGTcount: A:0.40, C:0.21, G:0.17, T:0.23
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTGACCAAG
Found at i:7384 original size:20 final size:20
Alignment explanation
Indices: 7359--7416 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
7349 ATTCATTTGA
7359 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
7379 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
*
7399 CTATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
7417 CGCAATGCGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:7459 original size:14 final size:16
Alignment explanation
Indices: 7439--7512 Score: 66
Period size: 19 Copynumber: 4.5 Consensus size: 16
7429 TGAAAATCGC
7439 ATTGCGATTTTC-TCG
1 ATTGCGATTTTCTTCG
7454 -TTGCGATTTTCATTTCG
1 ATTGCGATTTTC--TTCG
7471 CATTGCGATTTTCATTTCG
1 -ATTGCGATTTTC--TTCG
7490 CATTGCGATTTTC-TCG
1 -ATTGCGATTTTCTTCG
7506 -TTGCGAT
1 ATTGCGAT
7513 AGCCATTTCG
Statistics
Matches: 54, Mismatches: 0, Indels: 11
0.83 0.00 0.17
Matches are distributed among these distances:
14 18 0.33
16 3 0.06
17 3 0.06
19 30 0.56
ACGTcount: A:0.14, C:0.20, G:0.19, T:0.47
Consensus pattern (16 bp):
ATTGCGATTTTCTTCG
Found at i:7476 original size:19 final size:19
Alignment explanation
Indices: 7435--7502 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
7425 GAAATGAAAA
7435 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
7451 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
7468 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
7487 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
7503 TCGTTGCGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
14 11 0.23
16 3 0.06
17 3 0.06
19 30 0.64
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:7638 original size:14 final size:14
Alignment explanation
Indices: 7619--7655 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
7609 CATCAATTAA
7619 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
7633 ACAAATCATCTTTT
1 ACAAATCAACATTT
7647 ACAAATCAA
1 ACAAATCAA
7656 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:9558 original size:20 final size:19
Alignment explanation
Indices: 9523--9589 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
9513 GAAACTTAAA
9523 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
9542 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
9562 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
9581 ATCGCAACG
1 ATCGCAACG
9590 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 24 0.59
20 17 0.41
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:9597 original size:14 final size:14
Alignment explanation
Indices: 9578--9635 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
9568 ATGCGAAATG
9578 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
9592 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
*
9608 ATGAAATCACAACGAC
1 A--AAATCGCAACGAC
9624 AAAATCGCAACG
1 AAAATCGCAACG
9636 CGAAACACAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
14 20 0.56
16 8 0.22
18 8 0.22
ACGTcount: A:0.50, C:0.26, G:0.16, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:9621 original size:32 final size:33
Alignment explanation
Indices: 9562--9640 Score: 133
Period size: 32 Copynumber: 2.4 Consensus size: 33
9552 GGAAATGGCT
* *
9562 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCACAACGACAAA
9595 ATCGCAACGCGAAATG-AAATCACAACGACAAA
1 ATCGCAACGCGAAATGAAAATCACAACGACAAA
9627 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
9641 CACAAATCGC
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
32 29 0.66
33 15 0.34
ACGTcount: A:0.48, C:0.24, G:0.18, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCACAACGACAAA
Found at i:9669 original size:19 final size:17
Alignment explanation
Indices: 9647--9742 Score: 69
Period size: 19 Copynumber: 5.6 Consensus size: 17
9637 GAAACACAAA
9647 TCGCATTGCGATTTTCATT
1 TCGC-TTGCGA-TTTCATT
*
9666 TCGCGTTGCGATTT--TG
1 TCGC-TTGCGATTTCATT
9682 TCG-TTGCGATTTCATT
1 TCGCTTGCGATTTCATT
* *
9698 TCGCTTTACGATTT--TG
1 TCGC-TTGCGATTTCATT
9714 TCG-TTGCGATTTTCATT
1 TCGCTTGCGA-TTTCATT
9731 TCGCATTGCGAT
1 TCGC-TTGCGAT
9743 AGCCATTTCC
Statistics
Matches: 61, Mismatches: 7, Indels: 19
0.70 0.08 0.22
Matches are distributed among these distances:
14 14 0.23
15 3 0.05
16 12 0.20
17 4 0.07
18 12 0.20
19 16 0.26
ACGTcount: A:0.12, C:0.20, G:0.21, T:0.47
Consensus pattern (17 bp):
TCGCTTGCGATTTCATT
Found at i:9688 original size:14 final size:14
Alignment explanation
Indices: 9669--9726 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
9659 TTTCATTTCG
9669 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
9683 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
*
9699 CGCTTTACGATTTTGT
1 CG--TTGCGATTTTGT
9715 CGTTGCGATTTT
1 CGTTGCGATTTT
9727 CATTTCGCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
14 20 0.56
16 8 0.22
18 8 0.22
ACGTcount: A:0.10, C:0.17, G:0.22, T:0.50
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:9699 original size:32 final size:33
Alignment explanation
Indices: 9652--9742 Score: 148
Period size: 32 Copynumber: 2.8 Consensus size: 33
9642 ACAAATCGCA
*
9652 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
* *
9685 TTGCGA-TTTCATTTCGCTTTACGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
9717 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
9743 AGCCATTTCC
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
32 30 0.57
33 23 0.43
ACGTcount: A:0.12, C:0.19, G:0.21, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:9761 original size:20 final size:19
Alignment explanation
Indices: 9727--9781 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
9717 TTGCGATTTT
*
9727 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
9746 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
9766 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
9782 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:10288 original size:18 final size:18
Alignment explanation
Indices: 10262--10306 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
10252 GTCGATCAGA
*
10262 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
10280 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
10298 TGATGGCTC
1 TGATGGCTC
10307 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:11651 original size:20 final size:20
Alignment explanation
Indices: 11626--11668 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
11616 AATAGTTTCT
11626 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
*
11646 GAAAATGAAAATCGCAACGC
1 GAAAATGAAAATCGCAACAC
11666 GAA
1 GAA
11669 TTCGACTATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.53, C:0.19, G:0.19, T:0.09
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:11964 original size:20 final size:21
Alignment explanation
Indices: 11939--11987 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
11929 TCTGAGAGAT
11939 GGAGAT-AGACGGATTTCGCC
1 GGAGATGAGACGGATTTCGCC
* **
11959 GGAGATGGGGACGGATTTCGTG
1 GGAGAT-GAGACGGATTTCGCC
11981 GGAGATG
1 GGAGATG
11988 GGTGAGAGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 6 0.25
21 1 0.04
22 17 0.71
ACGTcount: A:0.22, C:0.12, G:0.45, T:0.20
Consensus pattern (21 bp):
GGAGATGAGACGGATTTCGCC
Found at i:11973 original size:22 final size:22
Alignment explanation
Indices: 11946--11989 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
11936 GATGGAGATA
11946 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
**
11968 GACGGATTTCGTGGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
11990 TGAGAGAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.18, C:0.14, G:0.48, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:12203 original size:20 final size:20
Alignment explanation
Indices: 12177--12290 Score: 104
Period size: 20 Copynumber: 5.7 Consensus size: 20
12167 GATTATGTAT
12177 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
12197 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
12217 TATCGCGGTT-CGAAAGTAAG
1 TATCGC-GTTGCGAAAGTCAG
* *** * *
12237 TATCTCGTTGCGATTTTTTAT
1 TATCGCGTTGCGA-AAGTCAG
* *
12258 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
12278 TATCGCATTGCGA
1 TATCGCGTTGCGA
12291 TTTTCCCAAT
Statistics
Matches: 76, Mismatches: 15, Indels: 6
0.78 0.15 0.06
Matches are distributed among these distances:
19 3 0.04
20 57 0.75
21 16 0.21
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:12309 original size:21 final size:21
Alignment explanation
Indices: 12280--12372 Score: 91
Period size: 20 Copynumber: 4.5 Consensus size: 21
12270 ATAGTCAGTA
12280 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
12301 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
*
12321 TCGCATTGCTATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
12342 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
12362 TCGCATTGCGA
1 TCGCATTGCGA
12373 ATTGGGAAAA
Statistics
Matches: 56, Mismatches: 15, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
20 31 0.55
21 25 0.45
ACGTcount: A:0.17, C:0.25, G:0.17, T:0.41
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:12310 original size:41 final size:41
Alignment explanation
Indices: 12280--12372 Score: 141
Period size: 41 Copynumber: 2.3 Consensus size: 41
12270 ATAGTCAGTA
* *
12280 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTCACGTAT
* * *
12321 TCGCATTGCTATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTCACGTAT
12362 TCGCATTGCGA
1 TCGCATTGCGA
12373 ATTGGGAAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.17, C:0.25, G:0.17, T:0.41
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTCACGTAT
Found at i:16252 original size:57 final size:57
Alignment explanation
Indices: 16188--16746 Score: 382
Period size: 57 Copynumber: 9.9 Consensus size: 57
16178 ATGACTCCAG
* * * * *
16188 CACCATTTGAACAACCTTAAACCTTGAAACCAGCTCCGACGCCCACATCGACTGGAA
1 CACCATTTGAACGACCTTGAAGCTCGAAACCAGCTCCGACACCCACATCGACTGGAA
* ** * * *
16245 CACCATTTGCACGGTCTTGAAGAC-AGAAACCAACTCCGACACCCACATCGAC--CAA
1 CACCATTTGAACGACCTTGAAG-CTCGAAACCAGCTCCGACACCCACATCGACTGGAA
* * * * *
16300 -AACAGTT-ACACGACCTTGTAGCTCGAAACCAGCTCTGACACCTACATCGACTGGAA
1 CACCATTTGA-ACGACCTTGAAGCTCGAAACCAGCTCCGACACCCACATCGACTGGAA
* * ** *
16356 CACCATTT-ACACGACCTTGAAGATCGAAACCAACTCCGACTTCCACATCAACTGGAA
1 CACCATTTGA-ACGACCTTGAAGCTCGAAACCAGCTCCGACACCCACATCGACTGGAA
* * ** * * * *
16413 CACCATGTGCACGACCTTGAAGCTTAAAACTAGCTCTGACACCCACATCAACCGGAA
1 CACCATTTGAACGACCTTGAAGCTCGAAACCAGCTCCGACACCCACATCGACTGGAA
* * * * * *
16470 CACCATTTGTACGTCCTTGAAGCTCGAAACCAGCTCCGGCACCCATATCGACCGAAA
1 CACCATTTGAACGACCTTGAAGCTCGAAACCAGCTCCGACACCCACATCGACTGGAA
* * * * * * *
16527 CACCATCTGTACGACCTTGATGCACAAAACCAGCT-CTAGTACCCACATCGA-TCGGAA
1 CACCATTTGAACGACCTTGAAGCTCGAAACCAGCTCCGA-CACCCACATCGACT-GGAA
* ** * * * * * * *
16584 CACCATTTGCACGTTCTTGAAGCTTGAAACCAACT-CGGCATCCATATCGGCCGGAA
1 CACCATTTGAACGACCTTGAAGCTCGAAACCAGCTCCGACACCCACATCGACTGGAA
* * * ** ** * * *
16640 CACCATCTGCACGACCTTGAAGATAAAAACCA-CTCCGGTACCCACAACGACCGAAA
1 CACCATTTGAACGACCTTGAAGCTCGAAACCAGCTCCGACACCCACATCGACTGGAA
* * * * * * *
16696 CACCATTTGCATGGCCTTGAAGCTCGAAACAAGCTTCGATACCCAGATCGA
1 CACCATTTGAACGACCTTGAAGCTCGAAACCAGCTCCGACACCCACATCGA
16747 GCTGAGCATC
Statistics
Matches: 387, Mismatches: 103, Indels: 24
0.75 0.20 0.05
Matches are distributed among these distances:
53 1 0.00
54 38 0.10
55 4 0.01
56 81 0.21
57 262 0.68
58 1 0.00
ACGTcount: A:0.32, C:0.33, G:0.16, T:0.18
Consensus pattern (57 bp):
CACCATTTGAACGACCTTGAAGCTCGAAACCAGCTCCGACACCCACATCGACTGGAA
Found at i:16474 original size:114 final size:114
Alignment explanation
Indices: 16214--16725 Score: 509
Period size: 114 Copynumber: 4.5 Consensus size: 114
16204 TTAAACCTTG
* * * * *
16214 AAACCAGCTCCGACGCCCACATCGACTGGAACACCATTTGCACGGTCTTGAAGAC-AGAAACCAA
1 AAACCAGCTCTGACACCCACATCGACCGGAACACCATTTGCACGGCCTTGAAG-CTCGAAACCAA
* * * *
16278 CTCCGACACCCACATCGACC--AA-AACAGT-TACACGACCTTGTAGCTCG
65 CTCCGACACCCACATCGACCGGAACACCA-TCTGCACGACCTTGAAGCTCA
* * * * *
16325 AAACCAGCTCTGACACCTACATCGACTGGAACACCATTTACACGACCTTGAAGATCGAAACCAAC
1 AAACCAGCTCTGACACCCACATCGACCGGAACACCATTTGCACGGCCTTGAAGCTCGAAACCAAC
** * * * *
16390 TCCGACTTCCACATCAACTGGAACACCATGTGCACGACCTTGAAGCTTA
66 TCCGACACCCACATCGACCGGAACACCATCTGCACGACCTTGAAGCTCA
* * * * *
16439 AAACTAGCTCTGACACCCACATCAACCGGAACACCATTTGTACGTCCTTGAAGCTCGAAACCAGC
1 AAACCAGCTCTGACACCCACATCGACCGGAACACCATTTGCACGGCCTTGAAGCTCGAAACCAAC
* * * * * *
16504 TCCGGCACCCATATCGACCGAAACACCATCTGTACGACCTTGATGCACA
66 TCCGACACCCACATCGACCGGAACACCATCTGCACGACCTTGAAGCTCA
* * ** *
16553 AAACCAGCTCT-AGTACCCACATCGATCGGAACACCATTTGCACGTTCTTGAAGCTTGAAACCAA
1 AAACCAGCTCTGA-CACCCACATCGACCGGAACACCATTTGCACGGCCTTGAAGCTCGAAACCAA
* * * * * *
16617 CT-CGGCATCCATATCGGCCGGAACACCATCTGCACGACCTTGAAGATAA
65 CTCCGACACCCACATCGACCGGAACACCATCTGCACGACCTTGAAGCTCA
* ** * * *
16666 AAACCA-CTCCGGTACCCACAACGACCGAAACACCATTTGCATGGCCTTGAAGCTCGAAAC
1 AAACCAGCTCTGACACCCACATCGACCGGAACACCATTTGCACGGCCTTGAAGCTCGAAAC
16726 AAGCTTCGAT
Statistics
Matches: 331, Mismatches: 63, Indels: 13
0.81 0.15 0.03
Matches are distributed among these distances:
111 71 0.21
112 44 0.13
113 49 0.15
114 167 0.50
ACGTcount: A:0.32, C:0.34, G:0.16, T:0.18
Consensus pattern (114 bp):
AAACCAGCTCTGACACCCACATCGACCGGAACACCATTTGCACGGCCTTGAAGCTCGAAACCAAC
TCCGACACCCACATCGACCGGAACACCATCTGCACGACCTTGAAGCTCA
Found at i:17974 original size:2 final size:2
Alignment explanation
Indices: 17967--18015 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
17957 GGGGAATTAG
17967 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18009 TA TA TA T
1 TA TA TA T
18016 CGAATGTTTG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:22620 original size:22 final size:23
Alignment explanation
Indices: 22573--22620 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
22563 AGTGTTCTTA
* *
22573 AAAATAAATTTGAGTAACACATT
1 AAAATAAATTTGAGTAACAAAAT
*
22596 AAAATAAATTTG-TTAACAAAAT
1 AAAATAAATTTGAGTAACAAAAT
22618 AAA
1 AAA
22621 GGAGTATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.29
Consensus pattern (23 bp):
AAAATAAATTTGAGTAACAAAAT
Found at i:23941 original size:18 final size:19
Alignment explanation
Indices: 23918--23958 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
23908 AATCCCCAAT
23918 TTTTTA-GGATTTAACCCA
1 TTTTTAGGGATTTAACCCA
23936 TTTTTAGGGATTTAACCCA
1 TTTTTAGGGATTTAACCCA
23955 TTTT
1 TTTT
23959 CAATGGGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.49
Consensus pattern (19 bp):
TTTTTAGGGATTTAACCCA
Found at i:24367 original size:3 final size:3
Alignment explanation
Indices: 24359--24445 Score: 86
Period size: 3 Copynumber: 28.0 Consensus size: 3
24349 TTAGTGTTTT
* * *
24359 ATA ATA ATA ATA ATA ATA ATA ATA ATTA ATGA AT- ACA ATT ATA TTA
1 ATA ATA ATA ATA ATA ATA ATA ATA A-TA AT-A ATA ATA ATA ATA ATA
* *
24405 ATA ATA ATA ATA ATCA AAA ATA ATA ATCA ATA CTA ATA ATA
1 ATA ATA ATA ATA AT-A ATA ATA ATA AT-A ATA ATA ATA ATA
24446 TTATTCAAAC
Statistics
Matches: 69, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
2 1 0.01
3 57 0.83
4 11 0.16
ACGTcount: A:0.61, C:0.05, G:0.01, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:24428 original size:13 final size:13
Alignment explanation
Indices: 24410--24444 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
24400 TATTAATAAT
24410 AATAATAATCAAA
1 AATAATAATCAAA
*
24423 AATAATAATCAAT
1 AATAATAATCAAA
*
24436 ACTAATAAT
1 AATAATAAT
24445 ATTATTCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.29
Consensus pattern (13 bp):
AATAATAATCAAA
Found at i:26229 original size:30 final size:30
Alignment explanation
Indices: 26186--26254 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
26176 ACAAGCCTTA
* * * *
26186 GAAAAATTTGGGGACC-ATCCTATAATTTTT
1 GAAAAGTTAGGGGACCAATCATA-AATTTTG
26216 GAAAAGTTAGGGGACCAAATCATAAATTTTG
1 GAAAAGTTAGGGGACC-AATCATAAATTTTG
26247 GAAAAGTT
1 GAAAAGTT
26255 GTGGATTGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
30 14 0.42
31 14 0.42
32 5 0.15
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.30
Consensus pattern (30 bp):
GAAAAGTTAGGGGACCAATCATAAATTTTG
Found at i:27824 original size:59 final size:59
Alignment explanation
Indices: 27749--27870 Score: 190
Period size: 59 Copynumber: 2.1 Consensus size: 59
27739 CAGCAGGCTG
* * * * * *
27749 CATATTCGGGATTGCACTGAAGTATAACTAGTGCATATGGTGGGCACGACCTTGTGTGT
1 CATATTCGGGACTGCACTAAAGTACAACTAGTGCAGATGGTGGGCACAACCTTATGTGT
27808 CATATTCGGGACTGCACTAAAGTACAACTAGTGCAGATGGTGGGCACAACCTTATGTGT
1 CATATTCGGGACTGCACTAAAGTACAACTAGTGCAGATGGTGGGCACAACCTTATGTGT
27867 CATA
1 CATA
27871 CTAGGGTTAG
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (59 bp):
CATATTCGGGACTGCACTAAAGTACAACTAGTGCAGATGGTGGGCACAACCTTATGTGT
Found at i:31226 original size:53 final size:54
Alignment explanation
Indices: 31162--31301 Score: 214
Period size: 53 Copynumber: 2.6 Consensus size: 54
31152 ATTATGCGCG
*
31162 AAAACTAAGAAATTCATAATAAGTTTATGAATTTCAGTAT-GGCACTGTGTTTGC
1 AAAACTAAGAAATTCATAATAAG-TTATGAATTTCAGTATGGGCACTGTGTGTGC
* *
31216 -AAACTAAGAAATTCATAATAAGCTTATGAATTTTAGTATGGGCATTGTGTGTGC
1 AAAACTAAGAAATTCATAATAAG-TTATGAATTTCAGTATGGGCACTGTGTGTGC
31270 AAAACTAAGAAATTCATAATAAGTTA-GAATTT
1 AAAACTAAGAAATTCATAATAAGTTATGAATTT
31302 ATAATGAAAT
Statistics
Matches: 80, Mismatches: 4, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
53 43 0.54
54 15 0.19
55 22 0.28
ACGTcount: A:0.40, C:0.09, G:0.16, T:0.34
Consensus pattern (54 bp):
AAAACTAAGAAATTCATAATAAGTTATGAATTTCAGTATGGGCACTGTGTGTGC
Found at i:31470 original size:81 final size:81
Alignment explanation
Indices: 31365--32074 Score: 908
Period size: 81 Copynumber: 8.8 Consensus size: 81
31355 TGTTCTAAAA
* * * * *
31365 TAAAATATTATTGGCCTAGTTGTGCATTTGATAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
31430 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * *
31446 TAAAAGATTAATGGCCTAGCTGTGCATTTGATAGAAATGTGTCAATTATGCCAATTAGATGAAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
31511 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
31527 TAAAAGATTAATGGCCTAGCTGTGCATTTGACA-AAAGGTGTCAATTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
*
31591 GTTAAATACATTTGAG
66 GTTAAATACCTTTGAG
* * * *
31607 TAAAAGATTAATGGCCTAGCTGTGCATTTCACAGAAAGGTATCAATTATGACAGTTAGATGAAAA
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
*
31672 GTTCAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * *
31688 TAAAAGATTAATGACCTAGCTGTGCATTTGAGAGAAAGATGTCAATTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
* *
31753 TTTAAATACCTTTGTG
66 GTTAAATACCTTTGAG
* *
31769 TAAAAGATTAATGGCCTAGCAT-TGCATTTGACAGAAAGGTGTCATTTATGCCAGTTCGATGAAA
1 TAAAAGATTAATGGCCTAGC-TGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAA
*
31833 GGATAAATACCTTTGAG
65 GGTTAAATACCTTTGAG
* * * * * * * *
31850 TAAAAGATTAATGGCATAGTTGTGCATTTGATAGAAATGTATCAATTATTCTAGTTAGATAAAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
31915 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* ** ** * * * * * *
31931 TAAAAGACTAAAAGCCTAATTGTTCCTTTGGCATAAAGGTGTCAATCATGCCAGTTAGATGAACG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
31996 GTTAAATACCTTT-AGG
66 GTTAAATACCTTTGA-G
* * * * * * * *
32012 TAAAAGACTAAAT-GTCTA-ATGGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTGGATGAA
1 TAAAAGA-TTAATGGCCTAGCT-GTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
32075 GGACTAATTG
Statistics
Matches: 551, Mismatches: 72, Indels: 12
0.87 0.11 0.02
Matches are distributed among these distances:
80 79 0.14
81 469 0.85
82 3 0.01
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (81 bp):
TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
GTTAAATACCTTTGAG
Found at i:32178 original size:2 final size:2
Alignment explanation
Indices: 32171--32213 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
32161 CTATAAATGA
32171 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
32213 A
1 A
32214 CAGTGCATAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:32947 original size:81 final size:81
Alignment explanation
Indices: 32855--33477 Score: 857
Period size: 81 Copynumber: 7.8 Consensus size: 81
32845 TATTCTAAAA
* *
32855 TAAAAGATTAATGGCCTAGCTATGCATTTGACAGAAAGGTGTTAATTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
32920 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * *
32936 TAAAAGATTAATGACCTAGCTGTACATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGTAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
33001 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
33017 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
33082 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * *
33098 TAAAAGATTAATGACCTAGCTGGGCATTTGACAGAAAGGTGTCAATTATGGCAGTT--A-G--A-
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
33157 -TTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * *
33172 TAAAAGATTAATGGCCTAGCAGTGCATTTGACAGAAAGGTGTAAATTATGTCAGTTAAATGAAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
*
33237 GTTAAATAACTTTGAG
66 GTTAAATACCTTTGAG
* * * *
33253 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAAGTGTTAATTATGCCAGTAAGATGAAAT
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
33318 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
** * ** *
33334 TAAAAGATTAATGGCCTAATTGTGCCTTTGGTAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
*
33399 GTTAAATACCTTTGGG
66 GTTAAATACCTTTGAG
* * * * * * * * * * *
33415 TAAACGACTAAAT-GTCTAACGGTGCATTTGGCAGAAATGTGCCAATAATGCAAGTTGGATGAA
1 TAAAAGA-TTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
33478 GGACTAATTG
Statistics
Matches: 484, Mismatches: 50, Indels: 16
0.88 0.09 0.03
Matches are distributed among these distances:
74 66 0.14
76 2 0.00
77 1 0.00
78 1 0.00
79 2 0.00
81 408 0.84
82 4 0.01
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.30
Consensus pattern (81 bp):
TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
GTTAAATACCTTTGAG
Found at i:33275 original size:236 final size:236
Alignment explanation
Indices: 32855--33393 Score: 799
Period size: 236 Copynumber: 2.3 Consensus size: 236
32845 TATTCTAAAA
* *
32855 TAAAAGATTAATGGCCTAGCTATGCATTTGACAGAAAGGTGTTAATTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTT--A-G--A-
* * *
32920 GTTAAATACCTTTGAGTAAAAGATTAATGACCTAGCTGTACATTTGACAGAAATGTGTCAATTAT
60 -TTAAATACCTTTGAGTAAAAGATTAATGACCTAGCAGTACATTTGACAGAAAGGTGTAAATTAT
* * *
32985 GCCAGTTAGATGTAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGACA
124 GCCAGTTAAATGAAAGGTTAAATAACTTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGACA
* *
33050 GAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAG
189 GAAAAGTGTCAATTATGCCAGTAAGATGAAAGGTTAAATACCTTTGAG
* * *
33098 TAAAAGATTAATGACCTAGCTGGGCATTTGACAGAAAGGTGTCAATTATGGCAGTTAGATTAAAT
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATTAAAT
* * *
33163 ACCTTTGAGTAAAAGATTAATGGCCTAGCAGTGCATTTGACAGAAAGGTGTAAATTATGTCAGTT
66 ACCTTTGAGTAAAAGATTAATGACCTAGCAGTACATTTGACAGAAAGGTGTAAATTATGCCAGTT
33228 AAATGAAAGGTTAAATAACTTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAAGT
131 AAATGAAAGGTTAAATAACTTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAAGT
* *
33293 GTTAATTATGCCAGTAAGATGAAATGTTAAATACCTTTGAG
196 GTCAATTATGCCAGTAAGATGAAAGGTTAAATACCTTTGAG
** * ** *
33334 TAAAAGATTAATGGCCTAATTGTGCCTTTGGTAGAAAGGTGTCAATCATGCCAGTTAGAT
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGAT
33394 GAAAGGTTAA
Statistics
Matches: 269, Mismatches: 27, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
236 215 0.80
238 1 0.00
240 1 0.00
241 1 0.00
243 51 0.19
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.31
Consensus pattern (236 bp):
TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATTAAAT
ACCTTTGAGTAAAAGATTAATGACCTAGCAGTACATTTGACAGAAAGGTGTAAATTATGCCAGTT
AAATGAAAGGTTAAATAACTTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAAGT
GTCAATTATGCCAGTAAGATGAAAGGTTAAATACCTTTGAG
Found at i:33444 original size:317 final size:317
Alignment explanation
Indices: 32855--33460 Score: 939
Period size: 317 Copynumber: 1.9 Consensus size: 317
32845 TATTCTAAAA
* *
32855 TAAAAGATTAATGGCCTAGCTATGCATTTGACAGAAAGGTGTTAATTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGCTATGCATTTGACAGAAAGGTGTAAATTATGCCAGTTAAATGAAAG
* *
32920 GTTAAATACCTTTGAGTAAAAGATTAATGACCTAGCTGTACATTTGACAGAAATGTGTCAATTAT
66 GTTAAATAACTTTGAGTAAAAGATTAATGACCTAGCTGTACATTTGACAGAAAAGTGTCAATTAT
* * *
32985 GCCAGTTAGATGTAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGACA
131 GCCAGTAAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAACTGTGCATTTGACA
* *
33050 GAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGACCT
196 GAAAGGTGTCAATCATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATAAATGACCT
* *
33115 AGCTGGGCATTTGACAGAAAGGTGTCAATTATGGCAGTTAGATTAAATACCTTTGAG
261 AACTGGGCATTTGACAGAAAGGTGCCAATTATGGCAGTTAGATTAAATACCTTTGAG
*
33172 TAAAAGATTAATGGCCTAGC-AGTGCATTTGACAGAAAGGTGTAAATTATGTCAGTTAAATGAAA
1 TAAAAGATTAATGGCCTAGCTA-TGCATTTGACAGAAAGGTGTAAATTATGCCAGTTAAATGAAA
* * *
33236 GGTTAAATAACTTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAAGTGTTAATTA
65 GGTTAAATAACTTTGAGTAAAAGATTAATGACCTAGCTGTACATTTGACAGAAAAGTGTCAATTA
* * * **
33301 TGCCAGTAAGATGAAATGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAATTGTGCCTTTGGT
130 TGCCAGTAAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAACTGTGCATTTGAC
* * *
33366 AGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGTTAAATACCTTTGGGTAAACGACTAAATG-T
195 AGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGA-TAAATGAC
* *
33430 CTAAC-GGTGCATTTGGCAGAAATGTGCCAAT
259 CTAACTGG-GCATTTGACAGAAAGGTGCCAAT
33461 AATGCAAGTT
Statistics
Matches: 261, Mismatches: 25, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
316 3 0.01
317 253 0.97
318 5 0.02
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.30
Consensus pattern (317 bp):
TAAAAGATTAATGGCCTAGCTATGCATTTGACAGAAAGGTGTAAATTATGCCAGTTAAATGAAAG
GTTAAATAACTTTGAGTAAAAGATTAATGACCTAGCTGTACATTTGACAGAAAAGTGTCAATTAT
GCCAGTAAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAACTGTGCATTTGACA
GAAAGGTGTCAATCATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATAAATGACCT
AACTGGGCATTTGACAGAAAGGTGCCAATTATGGCAGTTAGATTAAATACCTTTGAG
Found at i:38133 original size:163 final size:160
Alignment explanation
Indices: 37940--38621 Score: 678
Period size: 163 Copynumber: 4.2 Consensus size: 160
37930 ATCTGCGACT
* ** *
37940 CTTTTTT-GGTAAACATATCAATACTGGAAGACGTGTCTGCTCCACTATTCATTCAGGAGAAATC
1 CTTTTTTGGGTAGACATATCAATGTTGGAAGACGTGTCTGCTCCACCATTCATTCAGG-GAAATC
* * * *
38004 AGACAAGAATTGTGCCTCTTTTTTAGGTATACAGATCAATGTTGGAAGACGTGTTTACTTTACCA
65 AGAC-AGAATTGTGCCTCTTTTTTAGGTAGACAGATCAATGTTGGAAGACGTGTCTGCTTCACCA
* *
38069 TTCATTCAGGGGAAATCAAATTGGATCTGTGC
129 TTCATTCAGGGGAAATCAGACTGGATCTGTGC
* * *
38101 CTTTTTTAGAGTAGACATATCAATGTTGGAAGATGTGTCTGCTCCACCATTTATTCATGGGAAAT
1 CTTTTTT-GGGTAGACATATCAATGTTGGAAGACGTGTCTGCTCCACCATTCATTCA-GGGAAAT
** * *
38166 CAGATTGGATTTTTGCCTCTTTTTTTA--TAGACAGATCAATGTTGGAAGACGTGTCTGCTTCAC
64 CAGA-CAGAATTGTGCCTC-TTTTTTAGGTAGACAGATCAATGTTGGAAGACGTGTCTGCTTCAC
* *
38229 CATTCATTCAGGGGAAATTAGACTGGATCTGGGC
127 CATTCATTCAGGGGAAATCAGACTGGATCTGTGC
* * * *
38263 TTATTTTTTGGGTAGACAGATCAATGTTGGAAGACGTATCTGCTCCACCATTCATTAAGGGGAAA
1 --CTTTTTTGGGTAGACATATCAATGTTGGAAGACGTGTCTGCTCCACCATTCATTCA-GGGAAA
* * * * *
38328 TCAGACTGGATATGTGCCTCTTTTTTGGGTAGACAAATCAATGTTGGAAGACGTGTCTGCTCCAC
63 TCAGACAGAAT-TGTGCCTCTTTTTTAGGTAGACAGATCAATGTTGGAAGACGTGTCTGCTTCAC
*
38393 CATTCATTCAGGGGAAATCAGACTGGATTTGTGAC
127 CATTCATTCAGGGGAAATCAGACTGGATCTGTG-C
* * * * * * * *
38428 TCTTTTTTGGGTAGACATATCAATGTTGGAAGATGTCTATGCTCCACTATTCATTTATGGAGATG
1 -CTTTTTTGGGTAGACATATCAATGTTGGAAGACGTGTCTGCTCCACCATTCATTCAGGGAAATC
* * * * * *
38493 AAACATG-GTATGTGCCTC-TTCTTAGGGTAGACAGATCAACT-TTGGAAAATGTGTATGC-TCT
65 AGACA-GAAT-TGTGCCTCTTTTTTA-GGTAGACAGATCAA-TGTTGGAAGACGTGTCTGCTTC-
** * * *
38554 AATATTCATTCAGGGGAGATCAGACTCGATATGTGC
125 ACCATTCATTCAGGGGAAATCAGACTGGATCTGTGC
* *
38590 CTCTTCTTCGGGTAGACAGATCAACT-TTGGAA
1 CT-TT-TTTGGGTAGACATATCAA-TGTTGGAA
38622 AAGGTTTTCT
Statistics
Matches: 438, Mismatches: 65, Indels: 34
0.82 0.12 0.06
Matches are distributed among these distances:
161 9 0.02
162 78 0.18
163 218 0.50
164 132 0.30
165 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (160 bp):
CTTTTTTGGGTAGACATATCAATGTTGGAAGACGTGTCTGCTCCACCATTCATTCAGGGAAATCA
GACAGAATTGTGCCTCTTTTTTAGGTAGACAGATCAATGTTGGAAGACGTGTCTGCTTCACCATT
CATTCAGGGGAAATCAGACTGGATCTGTGC
Found at i:38623 original size:82 final size:82
Alignment explanation
Indices: 37938--38621 Score: 700
Period size: 82 Copynumber: 8.4 Consensus size: 82
37928 CGATCTGCGA
* * ** * * *
37938 CTCTTTTTT-GGTAAACATATCAATACTGGAAGACGTGTCTGCTCCACTATTCATTCAGGAGAAA
1 CTCTTTTTTGGGTAGACAGATCAATGTTGGAAGACGTGTATGCTCCACCATTCATTCAGGGGAAA
**
38002 TCAGACAAGA-ATTGTGC
66 TCAGACTGGATA-TGTGC
* * * * **
38019 CTCTTTTTTAGGTATACAGATCAATGTTGGAAGACGTGTTTACTTTACCATTCATTCAGGGGAAA
1 CTCTTTTTTGGGTAGACAGATCAATGTTGGAAGACGTGTATGCTCCACCATTCATTCAGGGGAAA
* * *
38084 TCAAATTGGATCTGTGC
66 TCAGACTGGATATGTGC
* * * * * * *
38101 CT-TTTTTAGAGTAGACATATCAATGTTGGAAGATGTGTCTGCTCCACCATTTATTCATGGGAAA
1 CTCTTTTTTGGGTAGACAGATCAATGTTGGAAGACGTGTATGCTCCACCATTCATTCAGGGGAAA
* * *
38165 TCAGATTGGATTTTTGC
66 TCAGACTGGATATGTGC
** * *
38182 CTCTTTTTT-TATAGACAGATCAATGTTGGAAGACGTGTCTGCTTCACCATTCATTCAGGGGAAA
1 CTCTTTTTTGGGTAGACAGATCAATGTTGGAAGACGTGTATGCTCCACCATTCATTCAGGGGAAA
* * *
38246 TTAGACTGGATCTGGGC
66 TCAGACTGGATATGTGC
* * * * *
38263 TTATTTTTTGGGTAGACAGATCAATGTTGGAAGACGTATCTGCTCCACCATTCATTAAGGGGAAA
1 CTCTTTTTTGGGTAGACAGATCAATGTTGGAAGACGTGTATGCTCCACCATTCATTCAGGGGAAA
38328 TCAGACTGGATATGTGC
66 TCAGACTGGATATGTGC
* *
38345 CTCTTTTTTGGGTAGACAAATCAATGTTGGAAGACGTGTCTGCTCCACCATTCATTCAGGGGAAA
1 CTCTTTTTTGGGTAGACAGATCAATGTTGGAAGACGTGTATGCTCCACCATTCATTCAGGGGAAA
* *
38410 TCAGACTGGATTTGTGA
66 TCAGACTGGATATGTGC
* * * * * * *
38427 CTCTTTTTTGGGTAGACATATCAATGTTGGAAGATGTCTATGCTCCACTATTCATTTA-TGGAGA
1 CTCTTTTTTGGGTAGACAGATCAATGTTGGAAGACGTGTATGCTCCACCATTCATTCAGGGGAAA
* *
38491 TGAAACATGG-TATGTGC
66 TCAGAC-TGGATATGTGC
* * * * * ** *
38508 CTCTTCTTAGGGTAGACAGATCAACT-TTGGAAAATGTGTATGCTCTAATATTCATTCAGGGGAG
1 CTCTTTTTTGGGTAGACAGATCAA-TGTTGGAAGACGTGTATGCTCCACCATTCATTCAGGGGAA
*
38572 ATCAGACTCGATATGTGC
65 ATCAGACTGGATATGTGC
* *
38590 CTCTTCTTCGGGTAGACAGATCAACT-TTGGAA
1 CTCTTTTTTGGGTAGACAGATCAA-TGTTGGAA
38622 AAGGTTTTCT
Statistics
Matches: 510, Mismatches: 85, Indels: 15
0.84 0.14 0.02
Matches are distributed among these distances:
81 205 0.40
82 305 0.60
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (82 bp):
CTCTTTTTTGGGTAGACAGATCAATGTTGGAAGACGTGTATGCTCCACCATTCATTCAGGGGAAA
TCAGACTGGATATGTGC
Found at i:39013 original size:229 final size:227
Alignment explanation
Indices: 38612--39138 Score: 705
Period size: 229 Copynumber: 2.3 Consensus size: 227
38602 TAGACAGATC
** * *
38612 AACTTTGGAAAAGGTTTTCTTACTTTTCAAACATTTCATTTTCTGACAACACTGAATGAGAAACG
1 AACTTTGGAAATCGTTTTCTTACTTTTCAAAAATTTCATTTTCTGACAACACTGAATGAGAAACT
** * *
38677 TTGGAAGTCTCTTCCTCATCATATGAAAACATCCTACCCGTAGGTCTTATAGATGGCCCTAAGGA
66 TTGGAAGTCTCTTCCTCATCATATGAAAACATCCTACCCAAAGGTCTTATAGATGGCCCAAAGAA
* *
38742 CTTATCATCTTACTCGGAAGCGAGACATATGACCCAAAGGATTTAATCATCATGCTCGGAAGGCT
131 CTTATCATCTTACTCAGAAGCCAGACATATGACCCAAAGGATTTAATCATCATGCTCGGAAGGCT
* * *
38807 TACTGATGGCTCGAAGGACTTACTATGTAAGA
196 TACTGATGGCCCGAAGGACTTACTAAGTAAAA
* *
38839 AACTTTGGAAATCATTTTCTTACTTTTCAAAAAAATTCCATTTTCTGACAACACTGAATGAGAAA
1 AACTTTGGAAATCGTTTTCTTACTTTTC--AAAAATTTCATTTTCTGACAACACTGAATGAGAAA
* * * * *
38904 CTTTGGAAGT-TGGTTTCTCATCATGTGAAAACATCCTGCCTAAAGGTCTTATAGATGGCCCAAA
64 CTTTGGAAGTCT-CTTCCTCATCATATGAAAACATCCTACCCAAAGGTCTTATAGATGGCCCAAA
* * * * **
38968 TAACTTATCATCTTGCTCAGAAGCCTGACATGTGACCTGAAGGATTTAATCATCATGCTCGGAAG
128 GAACTTATCATCTTACTCAGAAGCCAGACATATGACCCAAAGGATTTAATCATCATGCTCGGAAG
*
39033 GCTTACTGGTGGCCCGAAGGACTTACTAAGTAAAA
193 GCTTACTGATGGCCCGAAGGACTTACTAAGTAAAA
* * * * * * * *
39068 AACTTTGGAAATTGCTTTCTTACTTTTCAAAGATTTCGTTTTCTTAAAACATTAAATGAGAAACT
1 AACTTTGGAAATCGTTTTCTTACTTTTCAAAAATTTCATTTTCTGACAACACTGAATGAGAAACT
39133 TTGGAA
66 TTGGAA
39139 ATCAGTTTCT
Statistics
Matches: 260, Mismatches: 37, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
227 61 0.23
228 1 0.00
229 198 0.76
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (227 bp):
AACTTTGGAAATCGTTTTCTTACTTTTCAAAAATTTCATTTTCTGACAACACTGAATGAGAAACT
TTGGAAGTCTCTTCCTCATCATATGAAAACATCCTACCCAAAGGTCTTATAGATGGCCCAAAGAA
CTTATCATCTTACTCAGAAGCCAGACATATGACCCAAAGGATTTAATCATCATGCTCGGAAGGCT
TACTGATGGCCCGAAGGACTTACTAAGTAAAA
Found at i:42035 original size:20 final size:20
Alignment explanation
Indices: 41976--42035 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
41966 ACTATGAATG
*
41976 AATAAAAATGCA-ATGTAAA
1 AATAAAAATGCATATGCAAA
* *
41995 AATTAAGATGCAT-TGCGAAA
1 AATAAAAATGCATATGC-AAA
*
42015 AGTAAAAATGCATATGCAAA
1 AATAAAAATGCATATGCAAA
42035 A
1 A
42036 TGCAGGGTGT
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
19 12 0.38
20 17 0.53
21 3 0.09
ACGTcount: A:0.55, C:0.08, G:0.15, T:0.22
Consensus pattern (20 bp):
AATAAAAATGCATATGCAAA
Found at i:64015 original size:41 final size:41
Alignment explanation
Indices: 63894--64017 Score: 117
Period size: 41 Copynumber: 3.0 Consensus size: 41
63884 GTTCAGTCAT
63894 TTCACCC-TTGAAGATGAATTTCACTTCGGATTATTAGT-GA
1 TTCACCCTTTGAA-ATGAATTTCACTTCGGATTATTAGTGGA
* * *** * * * *
63934 TTTCAACCTTCGGGGTGAATTTAACTTTGGATTGTCAGTGGA
1 -TTCACCCTTTGAAATGAATTTCACTTCGGATTATTAGTGGA
* *
63976 TTCACCCTTTGAAATAAATTTCACTTCAGATTATTAGTGGA
1 TTCACCCTTTGAAATGAATTTCACTTCGGATTATTAGTGGA
64017 T
1 T
64018 AATCCCTTCA
Statistics
Matches: 61, Mismatches: 20, Indels: 4
0.72 0.24 0.05
Matches are distributed among these distances:
41 57 0.93
42 4 0.07
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.39
Consensus pattern (41 bp):
TTCACCCTTTGAAATGAATTTCACTTCGGATTATTAGTGGA
Found at i:66206 original size:18 final size:17
Alignment explanation
Indices: 66166--66207 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
66156 GGTTATGTCA
66166 TTTATTTTCAGAGGAAC
1 TTTATTTTCAGAGGAAC
66183 TATTATTTTCAGTATGG-AC
1 T-TTATTTTCAG-A-GGAAC
66202 TTTATT
1 TTTATT
66208 CGGATTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 1 0.05
18 15 0.68
19 4 0.18
20 2 0.09
ACGTcount: A:0.26, C:0.10, G:0.14, T:0.50
Consensus pattern (17 bp):
TTTATTTTCAGAGGAAC
Found at i:66582 original size:14 final size:14
Alignment explanation
Indices: 66563--66590 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
66553 AAGGTTGGAG
66563 AGAAAGTATTTCTT
1 AGAAAGTATTTCTT
66577 AGAAAGTATTTCTT
1 AGAAAGTATTTCTT
66591 TAAGTCTCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (14 bp):
AGAAAGTATTTCTT
Found at i:67462 original size:138 final size:137
Alignment explanation
Indices: 67141--67420 Score: 409
Period size: 137 Copynumber: 2.0 Consensus size: 137
67131 ATTACATGGA
* * * *
67141 ATAATGACTAAAATGAAAGAAAGTAATTATGTAAGC-TTAAAGTGAAAATAAAGAAAGAGTGAGA
1 ATAATGACTAAAATGAAAGAAAGTGATGATGCAA-CTTTAAAGTGAAAATAAAGAAAGAGTGAAA
* * *
67205 TCCTTTCATGAACAATTCCACCAAAAAATATGGAAACTTTTGCAATCAATTGATATTAACATAGG
65 TCCTTTAATGAACAATTCCACCAAAAAACAGGGAAACTTTTGCAATCAATTGATATTAACATAGG
67270 GAATCCAT
130 GAATCCAT
* * *
67278 ATAATGACTAAAATGAAAGAAAGTGATTATGTAAGTTTAAAGTGAAAATAAAGAAAGAGTGAAAT
1 ATAATGACTAAAATGAAAGAAAGTGATGATGCAACTTTAAAGTGAAAATAAAGAAAGAGTGAAAT
* *
67343 CCTTTAATGAACAATTTCACCTGAAAAACAGGGAAACTTTTGCAATCAATTGATATTAACCATAG
66 CCTTTAATGAACAATTCCACC-AAAAAACAGGGAAACTTTTGCAATCAATTGATATTAA-CATAG
*
67408 GGTATCCAT
129 GGAATCCAT
67417 ATAA
1 ATAA
67421 AATGTCATAA
Statistics
Matches: 131, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
137 80 0.61
138 34 0.26
139 17 0.13
ACGTcount: A:0.46, C:0.11, G:0.16, T:0.27
Consensus pattern (137 bp):
ATAATGACTAAAATGAAAGAAAGTGATGATGCAACTTTAAAGTGAAAATAAAGAAAGAGTGAAAT
CCTTTAATGAACAATTCCACCAAAAAACAGGGAAACTTTTGCAATCAATTGATATTAACATAGGG
AATCCAT
Found at i:68106 original size:2 final size:2
Alignment explanation
Indices: 68099--68135 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
68089 TATACACCTC
68099 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
68136 AATACATATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:74884 original size:14 final size:14
Alignment explanation
Indices: 74850--74894 Score: 72
Period size: 14 Copynumber: 3.1 Consensus size: 14
74840 ATATTGCTAC
74850 CTGTAGAAAACAGA
1 CTGTAGAAAACAGA
74864 CTGTGTAGAAAACAGA
1 C--TGTAGAAAACAGA
74880 CTGTAGAAAACAGA
1 CTGTAGAAAACAGA
74894 C
1 C
74895 AAGTCTGTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
14 15 0.52
16 14 0.48
ACGTcount: A:0.47, C:0.16, G:0.22, T:0.16
Consensus pattern (14 bp):
CTGTAGAAAACAGA
Found at i:77544 original size:102 final size:104
Alignment explanation
Indices: 77369--77581 Score: 351
Period size: 102 Copynumber: 2.1 Consensus size: 104
77359 CGGATTAATA
* *
77369 AAACCCTATGGACCCAATCAAACCTAATACAAAATTAAGGCAATAATTAACCAAATTCACCAAAA
1 AAACCCCATGGACCCAATCAAACCTAATACAAAATTAAGACAATAATTAACCAAATTCACCAAAA
77434 CCCGCCAAAATTCTCAACTAT-AATCC-AA-AGGAAAAG
66 CCCGCCAAAATTCTCAACTATAAATCCAAAGAGGAAAAG
*
77470 AAACCCCATGGACCCAAATCAAACCTAATACCAAATTAAGACAATAATTAACCAAATTCACCAAA
1 AAACCCCATGGACCC-AATCAAACCTAATACAAAATTAAGACAATAATTAACCAAATTCACCAAA
*
77535 ACCCGCCAAAATTCTCAAGTATAAAATCCAAAGAGGAAAAG
65 ACCCGCCAAAATTCTCAACTAT-AAATCCAAAGAGGAAAAG
77576 AAACCC
1 AAACCC
77582 TATCAAAATC
Statistics
Matches: 103, Mismatches: 4, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
101 14 0.14
102 68 0.66
104 5 0.05
105 2 0.02
106 14 0.14
ACGTcount: A:0.49, C:0.26, G:0.08, T:0.16
Consensus pattern (104 bp):
AAACCCCATGGACCCAATCAAACCTAATACAAAATTAAGACAATAATTAACCAAATTCACCAAAA
CCCGCCAAAATTCTCAACTATAAATCCAAAGAGGAAAAG
Done.