Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009624.1 Hibiscus syriacus cultivar Beakdansim tig00117016_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: 8249038
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 22 of 38
Found at i:4165144 original size:30 final size:30
Alignment explanation
Indices: 4165081--4165146 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
4165071 AGAACCGGAA
* * *
4165081 GAACCGGCCGAAAACCGGTAAAATCGGGGT
1 GAACCGGCCGAAAACCGGCAAAACCGAGGT
* **
4165111 GAACCGGCTGAAAACCGGCAAAACCGATTT
1 GAACCGGCCGAAAACCGGCAAAACCGAGGT
4165141 GAACCG
1 GAACCG
4165147 CCGGTTCACT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.35, C:0.26, G:0.29, T:0.11
Consensus pattern (30 bp):
GAACCGGCCGAAAACCGGCAAAACCGAGGT
Found at i:4165959 original size:20 final size:20
Alignment explanation
Indices: 4165934--4166068 Score: 121
Period size: 20 Copynumber: 6.7 Consensus size: 20
4165924 AATTGGGAAA
4165934 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
*
4165954 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
* *
4165974 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* *
4165995 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACTGACT
* * *
4166015 TTCGCAACGCGATTCTGACT
1 ATCGCAATGCGATACTGACT
* * *
4166035 TTCGCAACGCGATAAT-ACAT
1 ATCGCAATGCGATACTGAC-T
4166055 AATCGCAATGCGAT
1 -ATCGCAATGCGAT
4166069 TTTCAAAGCG
Statistics
Matches: 96, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
19 4 0.04
20 66 0.69
21 24 0.25
22 2 0.02
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.24
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:4165978 original size:61 final size:61
Alignment explanation
Indices: 4165931--4166062 Score: 165
Period size: 61 Copynumber: 2.2 Consensus size: 61
4165921 ACGAATTGGG
* * * * **
4165931 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACACGATAATAC
* * * *
4165992 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACACGATAATAC
*
4166053 ATAATCGCAA
1 AAAATCGCAA
4166063 TGCGATTTTC
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACACGATAATAC
Found at i:4166264 original size:22 final size:22
Alignment explanation
Indices: 4166236--4166279 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
4166226 CACTCTCTCA
4166236 CCCATCTCCAACGAAATCCGTC
1 CCCATCTCCAACGAAATCCGTC
**
4166258 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCAACGAAATCCGTC
4166280 TATCTCCATC
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:0.23, C:0.45, G:0.14, T:0.18
Consensus pattern (22 bp):
CCCATCTCCAACGAAATCCGTC
Found at i:4166577 original size:20 final size:20
Alignment explanation
Indices: 4166525--4166581 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
4166515 GATTCTCTCA
**
4166525 TTGCGATAGTCAAATTCGCG
1 TTGCGATAGTCATTTTCGCG
*
4166545 TTGCGATAGTCATTTTCGTG
1 TTGCGATAGTCATTTTCGCG
**
4166565 TTGCGATTTTCATTTTC
1 TTGCGATAGTCATTTTC
4166582 AGAAACTATT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.18, C:0.18, G:0.21, T:0.44
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCG
Found at i:4166772 original size:25 final size:24
Alignment explanation
Indices: 4166718--4166772 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
4166708 TGTTTATTAT
* *
4166718 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
4166742 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
4166768 TGTTT
1 TGTTT
4166773 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:4167922 original size:18 final size:18
Alignment explanation
Indices: 4167901--4167945 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
4167891 TCCACTTCGG
*
4167901 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
4167919 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
4167937 GAGCCATCA
1 GAGCCATCA
4167946 TCTAATCGAC
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:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:4168477 original size:20 final size:20
Alignment explanation
Indices: 4168427--4168493 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
4168417 TAGTTTACTT
* *
4168427 TCGCAACACAAAAATGACTA
1 TCGCAACGCGAAAATGACTA
*
4168447 TCGCAACGCGAAAATGGCTA
1 TCGCAACGCGAAAATGACTA
* **
4168467 TCGCAATGCG-AAATGAAAA
1 TCGCAACGCGAAAATGACTA
4168486 TCGCAACG
1 TCGCAACG
4168494 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 13 0.33
20 26 0.67
ACGTcount: A:0.42, C:0.24, G:0.19, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGAAAATGACTA
Found at i:4168501 original size:14 final size:14
Alignment explanation
Indices: 4168482--4168539 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
4168472 ATGCGAAATG
4168482 AAAATCGCAACGAC
1 AAAATCGCAACGAC
* *
4168496 AAAATCGCAATGTGAA
1 AAAATCGCAA--CGAC
*
4168512 ATGAAATCGCAACGTC
1 A--AAATCGCAACGAC
4168528 AAAATCGCAACG
1 AAAATCGCAACG
4168540 CGAAATGAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
14 21 0.60
16 5 0.14
18 9 0.26
ACGTcount: A:0.47, C:0.22, G:0.17, T:0.14
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:4168524 original size:32 final size:33
Alignment explanation
Indices: 4168466--4168556 Score: 148
Period size: 32 Copynumber: 2.8 Consensus size: 33
4168456 GAAAATGGCT
4168466 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
* *
4168499 ATCGCAATGTGAAATG-AAATCGCAACGTCAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
4168531 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
4168557 TGCGATTTGT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
32 29 0.55
33 24 0.45
ACGTcount: A:0.46, C:0.21, G:0.19, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:4168596 original size:14 final size:14
Alignment explanation
Indices: 4168573--4168663 Score: 56
Period size: 14 Copynumber: 5.9 Consensus size: 14
4168563 TTGTGTTTCG
*
4168573 CGTTGTGATTTTGT
1 CGTTGCGATTTTGT
*
4168587 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
4168603 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
* *
4168619 CGTTGCAATTTTCATTT
1 CGTTGCGA-TTT--TGT
4168636 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
*
4168652 CGTTACGATTTT
1 CGTTGCGATTTT
4168664 CATTTCGCAT
Statistics
Matches: 60, Mismatches: 8, Indels: 18
0.70 0.09 0.21
Matches are distributed among these distances:
14 24 0.40
15 3 0.05
16 12 0.20
17 4 0.07
18 12 0.20
19 5 0.08
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.49
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:4168637 original size:33 final size:33
Alignment explanation
Indices: 4168568--4168679 Score: 181
Period size: 33 Copynumber: 3.4 Consensus size: 33
4168558 GCGATTTGTG
* *
4168568 TTTCGCGTTGTGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
*
4168600 TTTCGCATTGCGATTTTGTCGTTGCAATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
*
4168633 TTTCGCATTGCGATTTTGTCGTTACGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
4168666 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
4168680 AGCCATTTTC
Statistics
Matches: 74, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
32 24 0.32
33 50 0.68
ACGTcount: A:0.13, C:0.18, G:0.21, T:0.48
Consensus pattern (33 bp):
TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
Found at i:4168691 original size:20 final size:20
Alignment explanation
Indices: 4168666--4168719 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
4168656 ACGATTTTCA
*
4168666 TTTCGCATTGCGATAGCCAT
1 TTTCGCGTTGCGATAGCCAT
*
4168686 TTTCGCGTTGCGATAGTCAT
1 TTTCGCGTTGCGATAGCCAT
4168706 TTTCGCGTTGCGAT
1 TTTCGCGTTGCGAT
4168720 TTTAAGTTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.15, C:0.22, G:0.24, T:0.39
Consensus pattern (20 bp):
TTTCGCGTTGCGATAGCCAT
Found at i:4168729 original size:20 final size:20
Alignment explanation
Indices: 4168666--4168738 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 20
4168656 ACGATTTTCA
* ** *
4168666 TTTCGCATTGCGATAGCCAT
1 TTTCGCGTTGCGATAGTAAG
* *
4168686 TTTCGCGTTGCGATAGTCAT
1 TTTCGCGTTGCGATAGTAAG
**
4168706 TTTCGCGTTGCGATTTTAAG
1 TTTCGCGTTGCGATAGTAAG
*
4168726 TTTCGTGTTGCGA
1 TTTCGCGTTGCGA
4168739 AAGCAAACTA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.15, C:0.19, G:0.25, T:0.41
Consensus pattern (20 bp):
TTTCGCGTTGCGATAGTAAG
Found at i:4169181 original size:41 final size:42
Alignment explanation
Indices: 4169085--4169172 Score: 124
Period size: 41 Copynumber: 2.1 Consensus size: 42
4169075 GACTCACCTG
* *
4169085 TCATCCCTCAAGAGTCCCCTCCAATCGTTCAAGAGGCCCCTA
1 TCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCACTA
* * *
4169127 TCCTCCCTCAAGAGTCCCC-CCCACCGTTCAAGAGGCCACTG
1 TCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCACTA
4169168 TCATC
1 TCATC
4169173 GTTGAAGAGG
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
41 22 0.55
42 18 0.45
ACGTcount: A:0.22, C:0.43, G:0.15, T:0.20
Consensus pattern (42 bp):
TCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCACTA
Found at i:4170596 original size:14 final size:14
Alignment explanation
Indices: 4170577--4170612 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
4170567 ATTGTTTAAT
4170577 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
4170591 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
4170605 TGATTTGT
1 TGATTTGT
4170613 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:4170765 original size:19 final size:19
Alignment explanation
Indices: 4170741--4170827 Score: 139
Period size: 19 Copynumber: 4.8 Consensus size: 19
4170731 ATCGCAACGA
4170741 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
4170760 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
4170779 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
4170798 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
4170812 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
4170828 TTTTCATTTC
Statistics
Matches: 65, Mismatches: 0, Indels: 8
0.89 0.00 0.11
Matches are distributed among these distances:
14 11 0.17
15 1 0.02
16 2 0.03
17 2 0.03
19 49 0.75
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:4170792 original size:38 final size:33
Alignment explanation
Indices: 4170731--4170827 Score: 149
Period size: 38 Copynumber: 2.8 Consensus size: 33
4170721 GAAGCTGACT
4170731 ATCGCAACGAGAAAATCGCAATGCGAAATGAAA
1 ATCGCAACGAGAAAATCGCAATGCGAAATGAAA
4170764 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAAAATCGCAATGCGAAATGAAA
4170802 ATCGCAACGAGAAAATCGCAATGCGA
1 ATCGCAACGAGAAAATCGCAATGCGA
4170828 TTTTCATTTC
Statistics
Matches: 59, Mismatches: 0, Indels: 10
0.86 0.00 0.14
Matches are distributed among these distances:
33 23 0.39
34 1 0.02
35 2 0.03
36 2 0.03
37 1 0.02
38 30 0.51
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.13
Consensus pattern (33 bp):
ATCGCAACGAGAAAATCGCAATGCGAAATGAAA
Found at i:4170871 original size:20 final size:20
Alignment explanation
Indices: 4170846--4170941 Score: 97
Period size: 20 Copynumber: 4.8 Consensus size: 20
4170836 TCGCATTGCG
*
4170846 ATTTTCTAGTTGCGATAGCC
1 ATTTTCGAGTTGCGATAGCC
***
4170866 ATTTTC-ACGTTGCGATTTTTC
1 ATTTTCGA-GTTGCGA-TAGCC
*
4170887 A-TTTCGAATTGCGATAGCC
1 ATTTTCGAGTTGCGATAGCC
*
4170906 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGAGTTGCGATAGCC
*
4170926 ATTTTCGCGTTGCGAT
1 ATTTTCGAGTTGCGAT
4170942 TTCCCCGTTG
Statistics
Matches: 63, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
19 4 0.06
20 55 0.87
21 4 0.06
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.41
Consensus pattern (20 bp):
ATTTTCGAGTTGCGATAGCC
Found at i:4170932 original size:40 final size:41
Alignment explanation
Indices: 4170846--4170941 Score: 115
Period size: 40 Copynumber: 2.4 Consensus size: 41
4170836 TCGCATTGCG
* ***
4170846 ATTTTCTAGTTGCGATAGCCATTTTCACGTTGCGATTTTTC
1 ATTTTCGAGTTGCGATAGCCATTTTCACGTTGCGATTAGCC
* *
4170887 A-TTTCGAATTGCGATAGCCATTTTCGCGTTGCGA-TAGCC
1 ATTTTCGAGTTGCGATAGCCATTTTCACGTTGCGATTAGCC
*
4170926 ATTTTCGCGTTGCGAT
1 ATTTTCGAGTTGCGAT
4170942 TTCCCCGTTG
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
39 3 0.07
40 42 0.91
41 1 0.02
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.41
Consensus pattern (41 bp):
ATTTTCGAGTTGCGATAGCCATTTTCACGTTGCGATTAGCC
Found at i:4171275 original size:20 final size:21
Alignment explanation
Indices: 4171231--4171282 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
4171221 ATAGTCAGTA
*
4171231 TCGCATTGCGATTTTCTAAAT
1 TCGCATTGCGATTTACTAAAT
*
4171252 TCGCATTGCGATTTACT-TAT
1 TCGCATTGCGATTTACTAAAT
4171272 TCGCATTGCGA
1 TCGCATTGCGA
4171283 ATTAGGAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 13 0.45
21 16 0.55
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTACTAAAT
Found at i:4171498 original size:12 final size:12
Alignment explanation
Indices: 4171479--4171512 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
4171469 CTCTCCGGCG
4171479 ACATCCGTTCCT
1 ACATCCGTTCCT
*
4171491 ATATCCGTTCCT
1 ACATCCGTTCCT
4171503 ACATCC-TTCC
1 ACATCCGTTCC
4171513 CCATCCGGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.18, C:0.41, G:0.06, T:0.35
Consensus pattern (12 bp):
ACATCCGTTCCT
Found at i:4172094 original size:24 final size:24
Alignment explanation
Indices: 4172067--4172120 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
4172057 GTATTCGAAA
* *
4172067 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTAGTCAATACCCGGAC
* *
4172091 TTTGATATTAGTCAATACTCGGAT
1 TTTGATATTAGTCAATACCCGGAC
4172115 TTTGAT
1 TTTGAT
4172121 GATGTTTCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATATTAGTCAATACCCGGAC
Found at i:4172312 original size:12 final size:12
Alignment explanation
Indices: 4172295--4172319 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4172285 ATATAATCCT
4172295 GAAGAAGAAAAA
1 GAAGAAGAAAAA
4172307 GAAGAAGAAAAA
1 GAAGAAGAAAAA
4172319 G
1 G
4172320 TTCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:4174627 original size:19 final size:18
Alignment explanation
Indices: 4174605--4174735 Score: 61
Period size: 19 Copynumber: 7.7 Consensus size: 18
4174595 GGAAATTACT
4174605 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
*
4174624 ATCGC-AGCG--A-GAGA
1 ATCGCAAGCGAAATGAAA
4174638 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
* * *
4174657 ATCACAA-CG--CT-AAT
1 ATCGCAAGCGAAATGAAA
*
4174671 TTCGCAACGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
**
4174690 ATCGCAA-CG--A-GGGA
1 ATCGCAAGCGAAATGAAA
*
4174704 ATCACAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
4174723 ATCGCAACGCGAA
1 ATCGCAA-GCGAA
4174736 TTTAATTTCG
Statistics
Matches: 80, Mismatches: 17, Indels: 30
0.63 0.13 0.24
Matches are distributed among these distances:
14 23 0.29
15 4 0.05
16 7 0.09
17 7 0.09
18 4 0.05
19 35 0.44
ACGTcount: A:0.44, C:0.21, G:0.22, T:0.14
Consensus pattern (18 bp):
ATCGCAAGCGAAATGAAA
Found at i:4174647 original size:33 final size:33
Alignment explanation
Indices: 4174605--4174731 Score: 166
Period size: 33 Copynumber: 3.8 Consensus size: 33
4174595 GGAAATTACT
*
4174605 ATCGCAATGCGAAATGAAAATCGCAGCGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* **
4174638 ATCGCAATGCGAAATGAAAATCACAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* * *
4174670 TTTCGCAACGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
4174704 ATCACAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
4174732 CGAATTTAAT
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
32 1 0.01
33 77 0.97
34 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.22, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:4174712 original size:66 final size:66
Alignment explanation
Indices: 4174606--4174738 Score: 212
Period size: 66 Copynumber: 2.0 Consensus size: 66
4174596 GAAATTACTA
* * * *
4174606 TCGCAATGCGAAATGAAAATCGCAGCGAGAGAATCGCAATGCGAAATGAAAATCACAACGCTAAT
1 TCGCAACGCGAAATGAAAATCGCAACGAGAGAATCACAATGCGAAATGAAAATCACAACGCGAAT
4174671 T
66 T
* *
4174672 TCGCAACGCGAAATGAAAATCGCAACGAGGGAATCACAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAACGCGAAATGAAAATCGCAACGAGAGAATCACAATGCGAAATGAAAATCACAACGCGAAT
4174737 T
66 T
4174738 T
1 T
4174739 AATTTCGCGT
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.42, C:0.20, G:0.22, T:0.16
Consensus pattern (66 bp):
TCGCAACGCGAAATGAAAATCGCAACGAGAGAATCACAATGCGAAATGAAAATCACAACGCGAAT
T
Found at i:4174753 original size:19 final size:19
Alignment explanation
Indices: 4174731--4174772 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
4174721 AAATCGCAAC
4174731 GCGAATTTAATTTCGCGTT
1 GCGAATTTAATTTCGCGTT
* *
4174750 GCGATTTTCATTTCGCGTT
1 GCGAATTTAATTTCGCGTT
4174769 GCGA
1 GCGA
4174773 TTCTCTCGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.17, C:0.19, G:0.24, T:0.40
Consensus pattern (19 bp):
GCGAATTTAATTTCGCGTT
Found at i:4174773 original size:19 final size:19
Alignment explanation
Indices: 4174740--4174798 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 19
4174730 CGCGAATTTA
4174740 ATTTCGCGTTGCGATTTTC
1 ATTTCGCGTTGCGATTTTC
4174759 ATTTCGCGTTGCGA--TTC
1 ATTTCGCGTTGCGATTTTC
*
4174776 ---TCTCGTTGCGATTTTC
1 ATTTCGCGTTGCGATTTTC
4174792 ATTTCGC
1 ATTTCGC
4174799 ATTGTGATAG
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 10 0.30
16 3 0.09
17 3 0.09
19 17 0.52
ACGTcount: A:0.10, C:0.24, G:0.20, T:0.46
Consensus pattern (19 bp):
ATTTCGCGTTGCGATTTTC
Found at i:4174932 original size:14 final size:14
Alignment explanation
Indices: 4174913--4174949 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
4174903 CATCAATTAA
4174913 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
4174927 ACAAATCACCTTTT
1 ACAAATCAACTTTT
4174941 ACAAATCAA
1 ACAAATCAA
4174950 TTAAAAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:4176351 original size:21 final size:21
Alignment explanation
Indices: 4176327--4176437 Score: 55
Period size: 21 Copynumber: 5.3 Consensus size: 21
4176317 GTGGGAGGGA
4176327 CCTCTTCAACGATGACAGTGG
1 CCTCTTCAACGATGACAGTGG
* * ** *
4176348 CCTCTTGAACGGTGGGAGGGG
1 CCTCTTCAACGATGACAGTGG
* * * * *
4176369 ACTC-TCGAGGAATGATAGGGG
1 CCTCTTCAACG-ATGACAGTGG
*
4176390 CCTCTTCAACGAT-AGGAGTGG
1 CCTCTTCAACGATGA-CAGTGG
* * **
4176411 ACTCTTGAGGGATGACAGTGG
1 CCTCTTCAACGATGACAGTGG
4176432 CCTCTT
1 CCTCTT
4176438 GAATGGTGGG
Statistics
Matches: 63, Mismatches: 23, Indels: 8
0.67 0.24 0.09
Matches are distributed among these distances:
20 4 0.06
21 54 0.86
22 5 0.08
ACGTcount: A:0.22, C:0.22, G:0.33, T:0.23
Consensus pattern (21 bp):
CCTCTTCAACGATGACAGTGG
Found at i:4176366 original size:42 final size:41
Alignment explanation
Indices: 4176307--4176512 Score: 164
Period size: 42 Copynumber: 4.9 Consensus size: 41
4176297 GTGAATCGGG
* *
4176307 CTCTTGAATGGTGGGAGGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGA-CTCTTCAAGGATGACAGTGGC
* * *
4176349 CTCTTGAACGGTGGGAGGGGACTC-TCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGA-GGGACTCTTCAAGG-ATGACAGTGGC
* * * * *
4176391 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAGTGGC
1 CTCTTGAACGGTGGGAG-GGACTCTTCAAGGATGACAGTGGC
* * * *
4176433 CTCTTGAATGGTGGGAGGGGACTC-TCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGA-GGGACTCTTCAAGG-ATGACAGTGGC
* * * * *
4176475 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAG
1 CTCTTGAACGGTGGGAG-GGACTCTTCAAGGATGACAG
4176513 GCGAGTCGGG
Statistics
Matches: 126, Mismatches: 30, Indels: 16
0.73 0.17 0.09
Matches are distributed among these distances:
41 9 0.07
42 106 0.84
43 11 0.09
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.22
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGACTCTTCAAGGATGACAGTGGC
Found at i:4176448 original size:84 final size:84
Alignment explanation
Indices: 4176337--4176512 Score: 343
Period size: 84 Copynumber: 2.1 Consensus size: 84
4176327 CCTCTTCAAC
4176337 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
1 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
4176402 TAGGAGTGGACTCTTGAGG
66 TAGGAGTGGACTCTTGAGG
*
4176421 GATGACAGTGGCCTCTTGAATGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
1 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
4176486 TAGGAGTGGACTCTTGAGG
66 TAGGAGTGGACTCTTGAGG
4176505 GATGACAG
1 GATGACAG
4176513 GCGAGTCGGG
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 91 1.00
ACGTcount: A:0.23, C:0.17, G:0.38, T:0.22
Consensus pattern (84 bp):
GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
TAGGAGTGGACTCTTGAGG
Found at i:4176836 original size:93 final size:91
Alignment explanation
Indices: 4176731--4176915 Score: 277
Period size: 91 Copynumber: 2.0 Consensus size: 91
4176721 ATTTCAAACT
*
4176731 TTCAACCAAAAGAC-AAA-ATAAAGACAAATACTAACTTCACAGTGTTAA-AGAATACACAGTTT
1 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTTAATA-AAT----AGTTT
4176793 AGCAGAATTGGCAGCAACCGAATAAATTTAC
61 AGCAGAATTGGCAGCAACCGAATAAATTTAC
4176824 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTTAATAAATAGTTTAGCAG
1 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTTAATAAATAGTTTAGCAG
* *
4176889 TATTGGTAGCAACCGAATAAATTTAC
66 AATTGGCAGCAACCGAATAAATTTAC
4176915 T
1 T
4176916 AAACAATCTA
Statistics
Matches: 86, Mismatches: 3, Indels: 8
0.89 0.03 0.08
Matches are distributed among these distances:
91 35 0.41
93 14 0.16
94 3 0.03
95 33 0.38
96 1 0.01
ACGTcount: A:0.47, C:0.17, G:0.12, T:0.23
Consensus pattern (91 bp):
TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTTAATAAATAGTTTAGCAG
AATTGGCAGCAACCGAATAAATTTAC
Found at i:4178665 original size:19 final size:19
Alignment explanation
Indices: 4178601--4178770 Score: 163
Period size: 19 Copynumber: 9.1 Consensus size: 19
4178591 TCTTTTGGTT
*
4178601 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
* *
4178620 GATAATGAGAATCACAACGC
1 GA-AATGAAAATCGCAACGC
** *
4178640 GGAAATGACTATCGCAATGC
1 -GAAATGAAAATCGCAACGC
**
4178660 GAAATGACTAT--C-ACGAC
1 GAAATGAAAATCGCAACG-C
*
4178677 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
4178693 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
4178712 GAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
4178731 GAAATGAAAATCGCAACAC
1 GAAATGAAAATCGCAACGC
*
4178750 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
4178769 GA
1 GA
4178771 TTTTGGTTTT
Statistics
Matches: 126, Mismatches: 16, Indels: 18
0.79 0.10 0.11
Matches are distributed among these distances:
14 4 0.03
15 1 0.01
16 5 0.04
17 6 0.05
18 1 0.01
19 80 0.63
20 27 0.21
21 2 0.02
ACGTcount: A:0.46, C:0.20, G:0.21, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:4178790 original size:19 final size:19
Alignment explanation
Indices: 4178766--4178810 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
4178756 AAAATCGCAA
* *
4178766 TGCGATTTTGGTTTTGCGT
1 TGCGATTTTGATTTCGCGT
*
4178785 TGCGATTTTTATTTCGCGT
1 TGCGATTTTGATTTCGCGT
4178804 TGCGATT
1 TGCGATT
4178811 CTCTCGTTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.09, C:0.13, G:0.27, T:0.51
Consensus pattern (19 bp):
TGCGATTTTGATTTCGCGT
Found at i:4179456 original size:20 final size:20
Alignment explanation
Indices: 4179365--4179458 Score: 82
Period size: 20 Copynumber: 4.7 Consensus size: 20
4179355 CGCTATGTAA
* *
4179365 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * * *
4179385 ATCTCGTTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTCAGT
* *
4179406 ATCGCATTGCAATAGTAAGT
1 ATCGCATTGCGATAGTCAGT
*
4179426 ATCGTATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
4179446 ATCGCATTGCGAT
1 ATCGCATTGCGAT
4179459 TTTCCCAATT
Statistics
Matches: 58, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
19 3 0.05
20 42 0.72
21 11 0.19
22 2 0.03
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.35
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:4186408 original size:54 final size:55
Alignment explanation
Indices: 4186349--4186467 Score: 156
Period size: 54 Copynumber: 2.2 Consensus size: 55
4186339 ACGAATAACG
*
4186349 ATGAAATACA-AAAAAT-ACATAGGGGTGAAAATATAAATATTATCAAATGTCTAT
1 ATGAAATACATAAAAATAACA-AAGGGTGAAAATATAAATATTATCAAATGTCTAT
*** *
4186403 ATGAAA-ACATATTCATAACAAAGGGTGAAAATGTAAATATTATCAAATGTCTAT
1 ATGAAATACATAAAAATAACAAAGGGTGAAAATATAAATATTATCAAATGTCTAT
4186457 ATGAAAT-CATA
1 ATGAAATACATA
4186468 TTCATAACAA
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
53 3 0.05
54 51 0.89
55 3 0.05
ACGTcount: A:0.50, C:0.08, G:0.13, T:0.29
Consensus pattern (55 bp):
ATGAAATACATAAAAATAACAAAGGGTGAAAATATAAATATTATCAAATGTCTAT
Found at i:4186468 original size:54 final size:54
Alignment explanation
Indices: 4186371--4186478 Score: 198
Period size: 54 Copynumber: 2.0 Consensus size: 54
4186361 AAATACATAG
4186371 GGGTGAAAATATAAATATTATCAAATGTCTATATGAAAACATATTCATAACAAA
1 GGGTGAAAATATAAATATTATCAAATGTCTATATGAAAACATATTCATAACAAA
* *
4186425 GGGTGAAAATGTAAATATTATCAAATGTCTATATGAAATCATATTCATAACAAA
1 GGGTGAAAATATAAATATTATCAAATGTCTATATGAAAACATATTCATAACAAA
4186479 ATATTGATAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.48, C:0.09, G:0.12, T:0.31
Consensus pattern (54 bp):
GGGTGAAAATATAAATATTATCAAATGTCTATATGAAAACATATTCATAACAAA
Found at i:4196191 original size:11 final size:11
Alignment explanation
Indices: 4196165--4196255 Score: 50
Period size: 11 Copynumber: 8.3 Consensus size: 11
4196155 CATGAAAGTG
*
4196165 ATTTATTAAAT
1 ATTTATTATAT
4196176 ATTTATTATAT
1 ATTTATTATAT
*
4196187 GTTTA-TATATT
1 ATTTATTATA-T
*
4196198 ATTATATGATA-
1 ATT-TATTATAT
4196209 ATTTACTTATTAT
1 ATTTA-TTA-TAT
4196222 GATTTA-TATGAT
1 -ATTTATTAT-AT
4196234 A-TTA-TATAT
1 ATTTATTATAT
*
4196243 ATATA-TATAT
1 ATTTATTATAT
4196253 ATT
1 ATT
4196256 GATATGTTTT
Statistics
Matches: 64, Mismatches: 7, Indels: 19
0.71 0.08 0.21
Matches are distributed among these distances:
9 3 0.05
10 21 0.33
11 24 0.38
12 8 0.12
13 3 0.05
14 5 0.08
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.56
Consensus pattern (11 bp):
ATTTATTATAT
Found at i:4196260 original size:10 final size:9
Alignment explanation
Indices: 4196168--4196260 Score: 50
Period size: 10 Copynumber: 9.9 Consensus size: 9
4196158 GAAAGTGATT
*
4196168 TATTAAATA
1 TATTATATA
4196177 T-TTAT-TA
1 TATTATATA
*
4196184 TATGTTTATA
1 TAT-TATATA
4196194 TATTAT-TA
1 TATTATATA
* *
4196202 TATGATAATT
1 TATTAT-ATA
4196212 TACTTAT-TA
1 TA-TTATATA
4196221 TGATTTATATGA
1 T-A-TTATAT-A
4196233 TATTATATA
1 TATTATATA
4196242 TATATATATA
1 TAT-TATATA
4196252 TATTGATAT
1 TATT-ATAT
4196261 GTTTTAGTTT
Statistics
Matches: 65, Mismatches: 8, Indels: 21
0.69 0.09 0.22
Matches are distributed among these distances:
7 3 0.05
8 11 0.17
9 12 0.18
10 32 0.49
11 5 0.08
12 2 0.03
ACGTcount: A:0.39, C:0.01, G:0.05, T:0.55
Consensus pattern (9 bp):
TATTATATA
Found at i:4196556 original size:6 final size:6
Alignment explanation
Indices: 4196541--4196575 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
4196531 TTAATTGCGA
* *
4196541 AAATTG AAATTT AAATTG AAATTT AAATTG AAATT
1 AAATTG AAATTG AAATTG AAATTG AAATTG AAATT
4196576 TAGAATGTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (6 bp):
AAATTG
Found at i:4196558 original size:12 final size:12
Alignment explanation
Indices: 4196541--4196577 Score: 74
Period size: 12 Copynumber: 3.1 Consensus size: 12
4196531 TTAATTGCGA
4196541 AAATTGAAATTT
1 AAATTGAAATTT
4196553 AAATTGAAATTT
1 AAATTGAAATTT
4196565 AAATTGAAATTT
1 AAATTGAAATTT
4196577 A
1 A
4196578 GAATGTTCGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (12 bp):
AAATTGAAATTT
Found at i:4196672 original size:20 final size:20
Alignment explanation
Indices: 4196647--4196731 Score: 79
Period size: 20 Copynumber: 4.3 Consensus size: 20
4196637 AAATGTTATA
4196647 AAAAAATAAATAAATCAAAG
1 AAAAAATAAATAAATCAAAG
*
4196667 AAAAAATAAATAAATCAACG
1 AAAAAATAAATAAATCAAAG
**
4196687 GCAAAAT--ATAAAT-AAA-
1 AAAAAATAAATAAATCAAAG
*
4196703 AAAATATAAATAAAAATCAAAGG
1 AAAAAATAAAT--AAATCAAA-G
4196726 AAAAAA
1 AAAAAA
4196732 AATTAAATTT
Statistics
Matches: 50, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
16 4 0.08
17 2 0.04
18 8 0.16
20 28 0.56
21 3 0.06
23 5 0.10
ACGTcount: A:0.73, C:0.06, G:0.06, T:0.15
Consensus pattern (20 bp):
AAAAAATAAATAAATCAAAG
Found at i:4196708 original size:14 final size:14
Alignment explanation
Indices: 4196689--4196718 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
4196679 AATCAACGGC
4196689 AAAATATAAATAAA
1 AAAATATAAATAAA
4196703 AAAATATAAATAAA
1 AAAATATAAATAAA
4196717 AA
1 AA
4196719 TCAAAGGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (14 bp):
AAAATATAAATAAA
Found at i:4196898 original size:19 final size:20
Alignment explanation
Indices: 4196851--4196898 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 20
4196841 GTGGGAAAAT
4196851 GAAAAAATAACAGTAATAATA
1 GAAAAAA-AACAGTAATAATA
*
4196872 -AATTAAAAACA-TAATAATA
1 GAA-AAAAAACAGTAATAATA
4196891 GAAAAAAA
1 GAAAAAAA
4196899 TGAAAATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
19 12 0.52
20 8 0.35
21 3 0.13
ACGTcount: A:0.71, C:0.04, G:0.06, T:0.19
Consensus pattern (20 bp):
GAAAAAAAACAGTAATAATA
Found at i:4198287 original size:106 final size:106
Alignment explanation
Indices: 4198101--4198859 Score: 1199
Period size: 106 Copynumber: 7.2 Consensus size: 106
4198091 GTTTCGATGT
* *
4198101 CAATATCCTTCGCTGTGAAGTTGAAATTGACTCTG-AA-T--GAAA-T-TTTGTTGACAATCAGC
1 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTGTTGACAACCAGC
* * * *
4198160 CGCCCCTTCGTCGTGAAGTTGAGCTTGTGTTGTCTTGG-GTC
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TGGAGTC
* * * ** * * *
4198201 CAAGATCCTTCGTTGAGAAGTCAAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGC
1 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTGTTGACAACCAGC
* *
4198266 GGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTTTGGAGTC
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
*
4198307 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTATTGACAACCAGC
1 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTGTTGACAACCAGC
*
4198372 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTATGGAGTC
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
* * *
4198413 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGC
1 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTGTTGACAACCAGC
4198478 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
*
4198519 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTAGGAAATTATTTGTTGACAACCAGC
1 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTGTTGACAACCAGC
4198584 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
* *
4198625 CAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTAGGAAATTATTTGTTGACAACCAGC
1 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTGTTGACAACCAGC
4198690 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
* * *
4198731 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTTTTGACAACCAGC
1 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTGTTGACAACCAGC
* *
4198796 GGTCCCTTTGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTC
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
4198837 CAATATCCTTCGCTGTGAAGTTG
1 CAATATCCTTCGCTGTGAAGTTG
4198860 GGAAGTTGTT
Statistics
Matches: 611, Mismatches: 41, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
100 29 0.05
101 2 0.00
102 1 0.00
104 3 0.00
105 4 0.01
106 572 0.94
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.34
Consensus pattern (106 bp):
CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTGTTGACAACCAGC
GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
Found at i:4198442 original size:212 final size:212
Alignment explanation
Indices: 4198101--4199029 Score: 1332
Period size: 212 Copynumber: 4.5 Consensus size: 212
4198091 GTTTCGATGT
* * *
4198101 CAATATCCTTCGCTGTGAAGTTGAAATTGACTCTG-AA-T--GAAA-T-TTTGTTGACAATCAGC
1 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTATTGACAACCAGC
* * * * * * * **
4198160 CGCCCCTTCGTCGTGAAGTTGAGCTTGTGTTGTCTTGG-GTCCAAGATCCTTCGTTGAGAAGTCA
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TGGAGTCCAATATCCTTCGCTGTGAAGTTG
4198224 AAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
130 AAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
* *
4198289 CTTGCATTGTTTGGAGTC
195 CTTGCGTTGTCTGGAGTC
4198307 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTATTGACAACCAGC
1 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTATTGACAACCAGC
*
4198372 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTATGGAGTCCAATATCCTTCGCTGTGAAGTTGA
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGA
* *
4198437 AATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
131 AATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
4198502 TTGCGTTGTCTGGAGTC
196 TTGCGTTGTCTGGAGTC
* *
4198519 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTAGGAAATTATTTGTTGACAACCAGC
1 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTATTGACAACCAGC
*
4198584 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGA
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGA
* * * *
4198649 AATTGGCTCTGAAATTAGGAAATTATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
131 AATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
4198714 TTGCGTTGTCTGGAGTC
196 TTGCGTTGTCTGGAGTC
* * *
4198731 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTTTTGACAACCAGC
1 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTATTGACAACCAGC
* *
4198796 GGTCCCTTTGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATCCTTCGC--T---G-TG-
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGA
4198854 AA--------G---TTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
131 AATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
*
4198908 TTGCGTTGTCTTGAGTC
196 TTGCGTTGTCTGGAGTC
* * * * * *
4198925 CAATATCTTTCGCTGTGAAGTTGAAATTAGCTCTGCAATTGGGAAGTTTTTTATTGACAACCAGT
1 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTATTGACAACCAGC
* *
4198990 GGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTAGAGT
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
4199030 GGCACGATAT
Statistics
Matches: 670, Mismatches: 46, Indels: 26
0.90 0.06 0.04
Matches are distributed among these distances:
194 159 0.24
197 1 0.00
205 2 0.00
206 36 0.05
207 3 0.00
208 1 0.00
210 5 0.01
211 4 0.01
212 459 0.69
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.34
Consensus pattern (212 bp):
CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTATTGACAACCAGC
GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGA
AATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
TTGCGTTGTCTGGAGTC
Found at i:4198672 original size:318 final size:316
Alignment explanation
Indices: 4198101--4199022 Score: 1359
Period size: 318 Copynumber: 3.0 Consensus size: 316
4198091 GTTTCGATGT
* *
4198101 CAATATCCTTCGCTGTGAAGTTGAAATTGACTCTG-AA-TGA-AA--T-TTTGTTGACAATCAGC
1 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGC
* * * * * * * *
4198160 CGCCCCTTCGTCGTGAAGTTGAGCTTGTGTTGTCTTGG-GTCCAAGATCCTTCGTTGAGAAGTCA
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TGGAGTCCAATATCCTTCGCTGTGAAGT-G
*
4198224 AAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
129 AAATTGGCTCTGAAATTAGGAA-TTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
* *
4198289 CTTGCATTGTTTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAAT
193 CTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAAT
4198354 TATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTATGGAGTC
258 TATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTATGGAGTC
4198413 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGC
1 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGC
4198478 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGA
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAG-TGA
* *
4198543 AATTGGCTCTGAAATTAGGAAATTATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
130 AATTGGCTCTGAAATTAGG-AATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
* *
4198608 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTAGGAAATT
194 TTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATT
* *
4198673 ATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
259 ATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTATGGAGTC
* *
4198731 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTTTTGACAACCAGC
1 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGC
* *
4198796 GGTCCCTTTGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATCCTTCGCTGTGAA--G--
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTGAA
4198857 -TTGG----G--A--A-G--TTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
131 ATTGGCTCTGAAATTAGGAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
* * * * * *
4198910 GCGTTGTCTTGAGTCCAATATCTTTCGCTGTGAAGTTGAAATTAGCTCTGCAATTGGGAAGTTTT
196 GCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTAT
* *
4198975 TTATTGACAACCAGTGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGT
261 TTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
4199023 CTAGAGTGGC
Statistics
Matches: 565, Mismatches: 36, Indels: 30
0.90 0.06 0.05
Matches are distributed among these distances:
300 145 0.26
303 1 0.00
304 1 0.00
306 1 0.00
308 1 0.00
312 38 0.07
313 2 0.00
314 3 0.01
315 3 0.01
317 4 0.01
318 363 0.64
319 3 0.01
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.34
Consensus pattern (316 bp):
CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGC
GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTGAA
ATTGGCTCTGAAATTAGGAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
GCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTAT
TTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTATGGAGTC
Found at i:4198900 original size:45 final size:45
Alignment explanation
Indices: 4198764--4198904 Score: 114
Period size: 45 Copynumber: 3.2 Consensus size: 45
4198754 AAATTGGCTC
* * *
4198764 TGAAATTGGGAAGTTGTTTTTTGACAACCAGCGGTCCCTTTGTCG
1 TGAAGTTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCG
* * ** ***
4198809 TGAAGTT--GAACTTGCGTTGTCTTGA-GTCCA-ATAT-CCTTCG-CTG
1 TGAAGTTGGGAAGTT--GTT-TATTGACAACCAGCGGTCCCTTCGTC-G
4198852 TGAAGTTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCG
1 TGAAGTTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCG
4198897 TGAAGTTG
1 TGAAGTTG
4198905 AACTTGCGTT
Statistics
Matches: 70, Mismatches: 16, Indels: 20
0.66 0.15 0.19
Matches are distributed among these distances:
42 6 0.09
43 24 0.34
44 2 0.03
45 32 0.46
46 6 0.09
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.35
Consensus pattern (45 bp):
TGAAGTTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCG
Found at i:4198918 original size:88 final size:88
Alignment explanation
Indices: 4198764--4198947 Score: 332
Period size: 88 Copynumber: 2.1 Consensus size: 88
4198754 AAATTGGCTC
* * *
4198764 TGAAATTGGGAAGTTGTTTTTTGACAACCAGCGGTCCCTTTGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAGTTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
4198829 CTTGAGTCCAATATCCTTCGCTG
66 CTTGAGTCCAATATCCTTCGCTG
4198852 TGAAGTTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAGTTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
*
4198917 CTTGAGTCCAATATCTTTCGCTG
66 CTTGAGTCCAATATCCTTCGCTG
4198940 TGAAGTTG
1 TGAAGTTG
4198948 AAATTAGCTC
Statistics
Matches: 92, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
88 92 1.00
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (88 bp):
TGAAGTTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
CTTGAGTCCAATATCCTTCGCTG
Found at i:4198947 original size:43 final size:43
Alignment explanation
Indices: 4198808--4198949 Score: 130
Period size: 43 Copynumber: 3.3 Consensus size: 43
4198798 TCCCTTTGTC
4198808 GTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATCCTTCGCT
1 GTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATCCTTCGCT
* * ** ***
4198851 GTGAAGTTGGGAAGTT--GTT-TATTGACAACCAGCGGTCCCTTCG-T
1 GTGAAGTT--GAACTTGCGTTGTCTTGA-GTCCA-ATAT-CCTTCGCT
*
4198895 CGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATCTTTCGCT
1 -GTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATCCTTCGCT
4198939 GTGAAGTTGAA
1 GTGAAGTTGAA
4198950 ATTAGCTCTG
Statistics
Matches: 74, Mismatches: 15, Indels: 20
0.68 0.14 0.18
Matches are distributed among these distances:
42 5 0.07
43 35 0.47
44 4 0.05
45 25 0.34
46 5 0.07
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.35
Consensus pattern (43 bp):
GTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATCCTTCGCT
Found at i:4199009 original size:194 final size:194
Alignment explanation
Indices: 4198678--4199029 Score: 616
Period size: 194 Copynumber: 1.8 Consensus size: 194
4198668 AAATTATTTG
4198678 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCG
1 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCG
* *
4198743 CTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTTTTGACAACCAGCGGTCCCTTTGTC
66 CTGTGAAGTTGAAATTAGCTCTGAAATTGGGAAGTTGTTTTTTGACAACCAGCGGTCCCTTCGTC
* *
4198808 GTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGGGAAGTTGTTTA
131 ATGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGCTGTGAAGTTGGGAAGTTGTTTA
* *
4198872 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATCTTTCG
1 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCG
* *
4198937 CTGTGAAGTTGAAATTAGCTCTGCAATTGGGAAGTT-TTTTATTGACAACCAGTGGTCCCTTCGT
66 CTGTGAAGTTGAAATTAGCTCTGAAATTGGGAAGTTGTTTT-TTGACAACCAGCGGTCCCTTCGT
4199001 CATGAAGTTGAACTTGCGTTGTCTAGAGT
130 CATGAAGTTGAACTTGCGTTGTCTAGAGT
4199030 GGCACGATAT
Statistics
Matches: 149, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
193 4 0.03
194 145 0.97
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (194 bp):
TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCG
CTGTGAAGTTGAAATTAGCTCTGAAATTGGGAAGTTGTTTTTTGACAACCAGCGGTCCCTTCGTC
ATGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGCTGTGAAGTTGGGAAGTTGTTTA
Found at i:4200600 original size:22 final size:22
Alignment explanation
Indices: 4200575--4200618 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
4200565 CATTTTTGTC
*
4200575 CATTTGATGCTCAATGGTTTGA
1 CATTTGATGCTCAAAGGTTTGA
*
4200597 CATTTGATGTTCAAAGGTTTGA
1 CATTTGATGCTCAAAGGTTTGA
4200619 TGGGGTAGCT
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:0.25, C:0.11, G:0.23, T:0.41
Consensus pattern (22 bp):
CATTTGATGCTCAAAGGTTTGA
Found at i:4201270 original size:8 final size:8
Alignment explanation
Indices: 4201220--4201302 Score: 55
Period size: 8 Copynumber: 10.4 Consensus size: 8
4201210 TTTTGTCCCC
4201220 TTTTCTTT
1 TTTTCTTT
*
4201228 TTGATC-TT
1 TT-TTCTTT
*
4201236 TGTTCTTT
1 TTTTCTTT
*
4201244 CTTTT-TTC
1 -TTTTCTTT
*
4201252 TTTTGTTT
1 TTTTCTTT
*
4201260 TTTCCTTT
1 TTTTCTTT
*
4201268 TTTTGTTT
1 TTTTCTTT
*
4201276 TTTTGTTT
1 TTTTCTTT
4201284 TTTGT-TTT
1 TTT-TCTTT
4201292 TTTTCTTT
1 TTTTCTTT
4201300 TTT
1 TTT
4201303 GCTTCTTATT
Statistics
Matches: 59, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
7 7 0.12
8 46 0.78
9 6 0.10
ACGTcount: A:0.01, C:0.10, G:0.07, T:0.82
Consensus pattern (8 bp):
TTTTCTTT
Found at i:4201279 original size:24 final size:24
Alignment explanation
Indices: 4201252--4201302 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
4201242 TTCTTTTTTC
*
4201252 TTTTGTTTTTTCCTTTTTTTGTTT
1 TTTTGTTTTTTCCTTTTTTTCTTT
**
4201276 TTTTGTTTTTTGTTTTTTTTCTTT
1 TTTTGTTTTTTCCTTTTTTTCTTT
4201300 TTT
1 TTT
4201303 GCTTCTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.00, C:0.06, G:0.08, T:0.86
Consensus pattern (24 bp):
TTTTGTTTTTTCCTTTTTTTCTTT
Found at i:4201293 original size:15 final size:14
Alignment explanation
Indices: 4201245--4201301 Score: 69
Period size: 15 Copynumber: 3.8 Consensus size: 14
4201235 TTGTTCTTTC
*
4201245 TTTTTTCTTTTGTT
1 TTTTTTTTTTTGTT
4201259 TTTTCCTTTTTTTGTT
1 TTTT--TTTTTTTGTT
4201275 TTTTTGTTTTTTGTT
1 TTTTT-TTTTTTGTT
4201290 TTTTTTCTTTTT
1 TTTTTT-TTTTT
4201302 TGCTTCTTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
14 6 0.16
15 19 0.50
16 13 0.34
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.86
Consensus pattern (14 bp):
TTTTTTTTTTTGTT
Found at i:4201295 original size:16 final size:15
Alignment explanation
Indices: 4201245--4201303 Score: 73
Period size: 16 Copynumber: 3.8 Consensus size: 15
4201235 TTGTTCTTTC
*
4201245 TTTTTTCTTTTGTTT
1 TTTTTTTTTTTGTTT
*
4201260 TTTCCTTTTTTTGTTT
1 TTT-TTTTTTTTGTTT
*
4201276 TTTTGTTTTTTGTTT
1 TTTTTTTTTTTGTTT
4201291 TTTTTCTTTTTTG
1 TTTTT-TTTTTTG
4201304 CTTCTTATTG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
15 17 0.46
16 20 0.54
ACGTcount: A:0.00, C:0.07, G:0.08, T:0.85
Consensus pattern (15 bp):
TTTTTTTTTTTGTTT
Found at i:4204198 original size:12 final size:12
Alignment explanation
Indices: 4204181--4204205 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4204171 TTAATTACGA
4204181 AAATTGAAATTT
1 AAATTGAAATTT
4204193 AAATTGAAATTT
1 AAATTGAAATTT
4204205 A
1 A
4204206 GAATGTTCGA
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:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (12 bp):
AAATTGAAATTT
Found at i:4204288 original size:20 final size:20
Alignment explanation
Indices: 4204274--4204358 Score: 79
Period size: 20 Copynumber: 4.3 Consensus size: 20
4204264 AAAATGTTAT
4204274 AAAAAATAAATAAATCAAAG
1 AAAAAATAAATAAATCAAAG
*
4204294 AAAAAATAAATAAATCAACG
1 AAAAAATAAATAAATCAAAG
**
4204314 GCAAAAT--ATAAAT-AAA-
1 AAAAAATAAATAAATCAAAG
*
4204330 AAAATATAAATAAAAATCAAAGG
1 AAAAAATAAAT--AAATCAAA-G
4204353 AAAAAA
1 AAAAAA
4204359 ATTAAATTTA
Statistics
Matches: 50, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
16 4 0.08
17 2 0.04
18 8 0.16
20 28 0.56
21 3 0.06
23 5 0.10
ACGTcount: A:0.73, C:0.06, G:0.06, T:0.15
Consensus pattern (20 bp):
AAAAAATAAATAAATCAAAG
Found at i:4204335 original size:14 final size:14
Alignment explanation
Indices: 4204316--4204345 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
4204306 AATCAACGGC
4204316 AAAATATAAATAAA
1 AAAATATAAATAAA
4204330 AAAATATAAATAAA
1 AAAATATAAATAAA
4204344 AA
1 AA
4204346 TCAAAGGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (14 bp):
AAAATATAAATAAA
Found at i:4204418 original size:15 final size:17
Alignment explanation
Indices: 4204384--4204425 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 17
4204374 TAATAAAGGG
*
4204384 AAAAATGAAATAGGACA
1 AAAAATGAAATAGGAAA
4204401 AAAAAT-AAATA-GAAA
1 AAAAATGAAATAGGAAA
*
4204416 AAAAAGGAAA
1 AAAAATGAAA
4204426 AAAAGAAACG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 8 0.36
16 8 0.36
17 6 0.27
ACGTcount: A:0.74, C:0.02, G:0.14, T:0.10
Consensus pattern (17 bp):
AAAAATGAAATAGGAAA
Found at i:4204528 original size:19 final size:20
Alignment explanation
Indices: 4204481--4204528 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 20
4204471 GTGGGAAAAT
4204481 GAAAAAATAACAGTAATAATA
1 GAAAAAA-AACAGTAATAATA
*
4204502 -AATTAAAAACA-TAATAATA
1 GAA-AAAAAACAGTAATAATA
4204521 GAAAAAAA
1 GAAAAAAA
4204529 TGAAAATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
19 12 0.52
20 8 0.35
21 3 0.13
ACGTcount: A:0.71, C:0.04, G:0.06, T:0.19
Consensus pattern (20 bp):
GAAAAAAAACAGTAATAATA
Found at i:4210251 original size:19 final size:19
Alignment explanation
Indices: 4210227--4210263 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4210217 AAGAAGACTC
4210227 TTCATAGAGTTGAATGTTT
1 TTCATAGAGTTGAATGTTT
**
4210246 TTCATAGCTTTGAATGTT
1 TTCATAGAGTTGAATGTT
4210264 ATTTGGTCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.08, G:0.19, T:0.49
Consensus pattern (19 bp):
TTCATAGAGTTGAATGTTT
Found at i:4215833 original size:102 final size:102
Alignment explanation
Indices: 4215657--4215842 Score: 318
Period size: 102 Copynumber: 1.8 Consensus size: 102
4215647 TCAACTCTTC
* * * *
4215657 TTTTTTTAAGCATACTTTAAGGGGAGTCATCTCATCACACTACCATCCCACACTCTAAGTGAAAG
1 TTTTTTTAAACATACTTTAAGGGGAGTCAGCTCATCACAATACCATCCCACACTCTAAGTGAAAA
4215722 GGAGCATACCTTCCACCCCCGATCTAATCAGGTAGAG
66 GGAGCATACCTTCCACCCCCGATCTAATCAGGTAGAG
* *
4215759 TTTTTTTAAACATACTTTAAGGGGAGTTAGCTCATCACAATGCCATCCCACACTCTAAGTGAAAA
1 TTTTTTTAAACATACTTTAAGGGGAGTCAGCTCATCACAATACCATCCCACACTCTAAGTGAAAA
4215824 GGAGCATACCTTCCACCCC
66 GGAGCATACCTTCCACCCC
4215843 GAGCTAGTCG
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 78 1.00
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (102 bp):
TTTTTTTAAACATACTTTAAGGGGAGTCAGCTCATCACAATACCATCCCACACTCTAAGTGAAAA
GGAGCATACCTTCCACCCCCGATCTAATCAGGTAGAG
Found at i:4226000 original size:42 final size:42
Alignment explanation
Indices: 4225954--4226034 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
4225944 CTGACGACAG
4225954 CGTAATTACTATGACCACATATTGATCAATAACGGTAACACA
1 CGTAATTACTATGACCACATATTGATCAATAACGGTAACACA
* * *
4225996 CGTAATTACTATTACCACATGTTGATCAATAGCGGTAAC
1 CGTAATTACTATGACCACATATTGATCAATAACGGTAAC
4226035 GACATGTGCG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28
Consensus pattern (42 bp):
CGTAATTACTATGACCACATATTGATCAATAACGGTAACACA
Found at i:4238920 original size:36 final size:36
Alignment explanation
Indices: 4238879--4238981 Score: 188
Period size: 36 Copynumber: 2.9 Consensus size: 36
4238869 AGCTGAGTAT
*
4238879 TATCAGCTTTGGTACATTCGTGTATGAATGTTATCA
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
*
4238915 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCC
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
4238951 TATCAGCTTTGGTACATTCGTGTATCAATGT
1 TATCAGCTTTGGTACATTCGTGTATCAATGT
4238982 CCAGCACCAT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 65 1.00
ACGTcount: A:0.23, C:0.17, G:0.18, T:0.42
Consensus pattern (36 bp):
TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
Found at i:4246838 original size:36 final size:36
Alignment explanation
Indices: 4246797--4246899 Score: 170
Period size: 36 Copynumber: 2.9 Consensus size: 36
4246787 AGTTGAATAT
4246797 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
* *
4246833 TATCAGCTTTGGTACATTGGTGTATCAATGTTATCC
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
* *
4246869 TATCAGCTTTGGTAGATTCGCGTATCAATGT
1 TATCAGCTTTGGTACATTCGTGTATCAATGT
4246900 CCAGCACCGT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 62 1.00
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.41
Consensus pattern (36 bp):
TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
Found at i:4251633 original size:6 final size:6
Alignment explanation
Indices: 4251622--4251671 Score: 52
Period size: 6 Copynumber: 8.5 Consensus size: 6
4251612 GCCTGATTAG
*
4251622 TTTATA TTTATA TTTATA TTT-TA TTTCAT- TTTAT- TTTATTT TTTATA
1 TTTATA TTTATA TTTATA TTTATA TTT-ATA TTTATA TTTA-TA TTTATA
4251669 TTT
1 TTT
4251672 TTTATATTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
5 11 0.28
6 23 0.59
7 5 0.13
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (6 bp):
TTTATA
Found at i:4251652 original size:5 final size:5
Alignment explanation
Indices: 4251626--4251681 Score: 53
Period size: 5 Copynumber: 11.2 Consensus size: 5
4251616 GATTAGTTTA
* * *
4251626 TATTT ATATTT ATATTT TATTT CATTT TATTT TATTT T-TTA TATTT T-TTA
1 TATTT -TATTT -TATTT TATTT TATTT TATTT TATTT TATTT TATTT TATTT
4251676 TATTT T
1 TATTT T
4251682 GTTATTTTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
4 6 0.14
5 25 0.60
6 11 0.26
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (5 bp):
TATTT
Found at i:4251658 original size:15 final size:16
Alignment explanation
Indices: 4251633--4251672 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
4251623 TTATATTTAT
4251633 ATTTATATTTTATTTC
1 ATTTATATTTTATTTC
4251649 ATTT-TATTTTATTT-
1 ATTTATATTTTATTTC
4251663 -TTTATATTTT
1 ATTTATATTTT
4251673 TTATATTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 3 0.13
14 6 0.26
15 10 0.43
16 4 0.17
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (16 bp):
ATTTATATTTTATTTC
Found at i:4251672 original size:9 final size:10
Alignment explanation
Indices: 4251623--4251686 Score: 62
Period size: 10 Copynumber: 6.4 Consensus size: 10
4251613 CCTGATTAGT
4251623 TTATATTTATA
1 TTATATTT-TA
4251634 TTTATATTTTA
1 -TTATATTTTA
4251645 TT-TCATTTTA
1 TTAT-ATTTTA
*
4251655 TTTTATTTT-
1 TTATATTTTA
4251664 TTATATTTT-
1 TTATATTTTA
*
4251673 TTATATTTTG
1 TTATATTTTA
4251683 TTAT
1 TTAT
4251687 TTTATTAGTT
Statistics
Matches: 48, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
9 18 0.38
10 19 0.40
11 3 0.06
12 8 0.17
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (10 bp):
TTATATTTTA
Found at i:4251676 original size:16 final size:15
Alignment explanation
Indices: 4251634--4251701 Score: 50
Period size: 17 Copynumber: 4.2 Consensus size: 15
4251624 TATATTTATA
*
4251634 TTTATATTTTATTTCAT
1 TTTATTTTTTATTT--T
4251651 TTTA--TTTTATTTT
1 TTTATTTTTTATTTT
4251664 TTATATTTTTTATATTT
1 TT-TATTTTTTAT-TTT
4251681 TGTTATTTTATTAGTTTT
1 T-TTATTTT-TTA-TTTT
4251699 TTT
1 TTT
4251702 TTCTTTTTAG
Statistics
Matches: 44, Mismatches: 0, Indels: 14
0.76 0.00 0.24
Matches are distributed among these distances:
13 3 0.07
14 2 0.05
15 8 0.18
16 6 0.14
17 16 0.36
18 8 0.18
19 1 0.02
ACGTcount: A:0.19, C:0.01, G:0.03, T:0.76
Consensus pattern (15 bp):
TTTATTTTTTATTTT
Found at i:4251687 original size:17 final size:17
Alignment explanation
Indices: 4251634--4251709 Score: 62
Period size: 19 Copynumber: 4.1 Consensus size: 17
4251624 TATATTTATA
4251634 TTTATATTTTATTTCATTT
1 TTTATATTTT-TTT-ATTT
*
4251653 TATTTTATTTTTTATATTT
1 T-TTATATTTTTT-TATTT
*
4251672 TTTATATTTTGTTATTT
1 TTTATATTTTTTTATTT
* *
4251689 TATTAGTTTTTTTTTCTTT
1 T-TTA-TATTTTTTTATTT
4251708 TT
1 TT
4251710 AGCTCATGCT
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
17 6 0.13
18 13 0.28
19 19 0.40
20 9 0.19
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.78
Consensus pattern (17 bp):
TTTATATTTTTTTATTT
Found at i:4251689 original size:8 final size:9
Alignment explanation
Indices: 4251634--4251686 Score: 54
Period size: 9 Copynumber: 5.6 Consensus size: 9
4251624 TATATTTATA
4251634 TTTATATTT
1 TTTATATTT
4251643 TATT-TCATTT
1 T-TTAT-ATTT
*
4251653 TATTTTATTT
1 T-TTATATTT
4251663 TTTATATTT
1 TTTATATTT
4251672 TTTATATTT
1 TTTATATTT
4251681 TGTTAT
1 T-TTAT
4251687 TTTATTAGTT
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
9 19 0.49
10 19 0.49
11 1 0.03
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (9 bp):
TTTATATTT
Found at i:4252030 original size:14 final size:14
Alignment explanation
Indices: 4252011--4252053 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
4252001 TATTGTCCAT
4252011 TTGTGTTGTTCATA
1 TTGTGTTGTTCATA
**
4252025 TTGTGTCATTCAT-
1 TTGTGTTGTTCATA
*
4252038 TTATGTTGTTCATA
1 TTGTGTTGTTCATA
4252052 TT
1 TT
4252054 TATATTTTTC
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
13 10 0.43
14 13 0.57
ACGTcount: A:0.16, C:0.09, G:0.16, T:0.58
Consensus pattern (14 bp):
TTGTGTTGTTCATA
Found at i:4252439 original size:33 final size:34
Alignment explanation
Indices: 4252402--4252481 Score: 117
Period size: 38 Copynumber: 2.3 Consensus size: 34
4252392 GACCCCAATA
4252402 TTTTAGGA-AATAAGTTGGAATCTCCAACATTAG
1 TTTTAGGAGAATAAGTTGGAATCTCCAACATTAG
4252435 TTTTAGGAAGTAGAATAAGTTGGAATCTCCAACATTAG
1 TTTTA-G--G-AGAATAAGTTGGAATCTCCAACATTAG
4252473 TTTTAGGAG
1 TTTTAGGAG
4252482 GGTTGCTACA
Statistics
Matches: 42, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
33 5 0.12
34 3 0.07
35 1 0.02
36 1 0.02
37 2 0.05
38 30 0.71
ACGTcount: A:0.35, C:0.10, G:0.21, T:0.34
Consensus pattern (34 bp):
TTTTAGGAGAATAAGTTGGAATCTCCAACATTAG
Found at i:4260620 original size:165 final size:167
Alignment explanation
Indices: 4260343--4260681 Score: 506
Period size: 165 Copynumber: 2.0 Consensus size: 167
4260333 AATACATTCC
* * * * *
4260343 ACCCGAACACCGATATGCATTTCCCCAGAACTGCATCCATAAGGACTTACCCTAGGCTCATTGGG
1 ACCCTAACACCGATATGCAGTTACCCAAAACTGCATCCATAAGGAATTACCCTAGGCTCATTGGG
* * * * *
4260408 CGTAGGAGCCAACCTAAGGAAACACCTTGAGTCCATAAGGACTTACCCTAGCTGAAACGTAGGAG
66 CATAGGAGCAAACCTAAGGAAACACATTGAGTCCATAAGGACTTACCCTAGCCGAAACGTAGAAG
4260473 TCACTT-AAGG-AGTG-CCCCTAGGTCCATAA-GAACTT
131 TCACTTGAAGGTAGTGTCCCC-AGGTCCATAACG-ACTT
4260508 ACCCTAACACCGATATGCAGTTACCCAAAACTGCATCCATAAGGAATTACCCTAGGCTCATTGGG
1 ACCCTAACACCGATATGCAGTTACCCAAAACTGCATCCATAAGGAATTACCCTAGGCTCATTGGG
* * *
4260573 CATAGGAGCAAACCTAAGGGAATACATTGAGTTCATAAGGACTTACCCTAGCCGAAACGTAGAAG
66 CATAGGAGCAAACCTAAGGAAACACATTGAGTCCATAAGGACTTACCCTAGCCGAAACGTAGAAG
*
4260638 TCACTTGAGGGTAGTGTCCCCAGGTCCATAACGACTT
131 TCACTTGAAGGTAGTGTCCCCAGGTCCATAACGACTT
4260675 ACCCTAA
1 ACCCTAA
4260682 GAAACTTCCT
Statistics
Matches: 156, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
165 123 0.79
166 3 0.02
167 25 0.16
168 5 0.03
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.21
Consensus pattern (167 bp):
ACCCTAACACCGATATGCAGTTACCCAAAACTGCATCCATAAGGAATTACCCTAGGCTCATTGGG
CATAGGAGCAAACCTAAGGAAACACATTGAGTCCATAAGGACTTACCCTAGCCGAAACGTAGAAG
TCACTTGAAGGTAGTGTCCCCAGGTCCATAACGACTT
Found at i:4265191 original size:17 final size:17
Alignment explanation
Indices: 4265169--4265201 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4265159 AAAACGATAC
4265169 AACTAAAAAATAAAAAG
1 AACTAAAAAATAAAAAG
*
4265186 AACTAAATAATAAAAA
1 AACTAAAAAATAAAAA
4265202 TAATTCAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.06, G:0.03, T:0.15
Consensus pattern (17 bp):
AACTAAAAAATAAAAAG
Found at i:4265800 original size:21 final size:21
Alignment explanation
Indices: 4265776--4265815 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4265766 ATGGTTGCAT
*
4265776 TGCCATCTGATACGGTTGTGG
1 TGCCATCTGAAACGGTTGTGG
*
4265797 TGCCATCTGAAACGTTTGT
1 TGCCATCTGAAACGGTTGT
4265816 AGCATATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.20, G:0.28, T:0.35
Consensus pattern (21 bp):
TGCCATCTGAAACGGTTGTGG
Found at i:4268356 original size:13 final size:13
Alignment explanation
Indices: 4268340--4268372 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
4268330 TTAAAAAATG
4268340 TGAAAACTATAAA
1 TGAAAACTATAAA
4268353 TGAAAACTATAAA
1 TGAAAACTATAAA
4268366 TGAAAAC
1 TGAAAAC
4268373 ACAAGCTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.61, C:0.09, G:0.09, T:0.21
Consensus pattern (13 bp):
TGAAAACTATAAA
Found at i:4270620 original size:16 final size:16
Alignment explanation
Indices: 4270599--4270642 Score: 88
Period size: 16 Copynumber: 2.8 Consensus size: 16
4270589 ACCGTCGGCT
4270599 GAGGCGGCTGGAGGCA
1 GAGGCGGCTGGAGGCA
4270615 GAGGCGGCTGGAGGCA
1 GAGGCGGCTGGAGGCA
4270631 GAGGCGGCTGGA
1 GAGGCGGCTGGA
4270643 TTAGGGTTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.18, C:0.18, G:0.57, T:0.07
Consensus pattern (16 bp):
GAGGCGGCTGGAGGCA
Found at i:4270768 original size:3 final size:3
Alignment explanation
Indices: 4270760--4270894 Score: 135
Period size: 3 Copynumber: 45.0 Consensus size: 3
4270750 TATATATATT
* * *
4270760 TAA TAA TAA TAT TAA TAA TAA TAA TAT TTA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * * * * *
4270808 TAT TTA TAG TAA TAA TAA TAT TTA TAG TAA TAA TAA TAT TTA TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
4270856 TAA TAA TAA TAA TAA TTA TTA TAG TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4270895 ACAAATCAAA
Statistics
Matches: 104, Mismatches: 28, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 104 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:4271304 original size:109 final size:112
Alignment explanation
Indices: 4271157--4271757 Score: 728
Period size: 109 Copynumber: 5.5 Consensus size: 112
4271147 TCTTGATGAG
* *
4271157 TTCTTCTCATTATGAACTTCTTCATCCTTCTTTC-GATGAGTTCTTCTCATTATGATCTTTCTCT
1 TTCTTCTCATTATGAACTTCTTCTTCCTTC-TTCAGATGAGTTCTTCTCATTATGAACTTTCTCT
*
4271221 AGAAAAGTTGATCCATCAAGTGATGGATTGAGCAAAAGGTTGAAC-AA
65 GGAAAAGTTGATCCATCAAGTGATGGATTGAGCAAAAGGTTGAACAAA
4271268 TTCTTCTCATTATG-ACTTCTT-TTCCTTCTTTC-GATGAGTTCTTCTCATTATGAACTTTCTCT
1 TTCTTCTCATTATGAACTTCTTCTTCCTTC-TTCAGATGAGTTCTTCTCATTATGAACTTTCTCT
* *
4271330 AGAAAAGTTAATCCATCAAGTGATGGATTGAGCAAAAGGTTGAACAAA
65 GGAAAAGTTGATCCATCAAGTGATGGATTGAGCAAAAGGTTGAACAAA
** * *
4271378 TTCTTCTCATTA-GAA---CTTCTTCC-T-TAGATGACGAGTTCTTCTCATTATGAACTCTAC-C
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA-GATGAGTTCTTCTCATTATGAACT-TTCTC
* * * * * *
4271436 TGGCAATGTTAATCCATCATA-TGATGAATTTAAACAAAA-G-TGAACAAA
64 TGGAAAAGTTGATCCATCA-AGTGATGGA-TTGAGCAAAAGGTTGAACAAA
* * *
4271484 TTCTTCTCATTATGAACTTCTTCATCCTTC-TCAGATGAG---TTATCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* * * *
4271545 GAAAAGCTGATCCATTAAGTGATGAATTCAGGCAAAAGGTTGAACAAA
66 GAAAAGTTGATCCATCAAGTGATGGATTGA-GCAAAAGGTTGAACAAA
*
4271593 TTCTTC-CATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTT-TCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* *
4271656 GAAAAGTTGATCCATCAAATGATGGATTGAGCAAAAGG-TGAACAAG
66 GAAAAGTTGATCCATCAAGTGATGGATTGAGCAAAAGGTTGAACAAA
* *
4271702 CTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTC-T-TCATTATGAACT
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
4271758 CGAACTGGAA
Statistics
Matches: 426, Mismatches: 40, Indels: 51
0.82 0.08 0.10
Matches are distributed among these distances:
105 1 0.00
106 26 0.06
107 94 0.22
108 49 0.12
109 120 0.28
110 76 0.18
111 45 0.11
112 15 0.04
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (112 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
GAAAAGTTGATCCATCAAGTGATGGATTGAGCAAAAGGTTGAACAAA
Found at i:4271728 original size:110 final size:111
Alignment explanation
Indices: 4271410--4271757 Score: 394
Period size: 110 Copynumber: 3.2 Consensus size: 111
4271400 CTTAGATGAC
** * * * * * *
4271410 GAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCATCATA-TGATGAATTTAAACAAA
1 GAGTTCTTCTCATTATGAACT-TTTCTGGAAAAGTTGATCCATCA-AGTGATGGA-TTGAGCAAA
*
4271474 A-G-TGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTC-TCAGAT
63 AGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
* * * * * *
4271520 GAG---TTATCATTATGAACCTTCTCTGGAAAAGCTGATCCATTAAGTGATGAATTCAGGCAAAA
1 GAGTTCTTCTCATTATGAA-CTTTTCTGGAAAAGTTGATCCATCAAGTGATGGATTGA-GCAAAA
*
4271582 GGTTGAACAAATTCTTC-CATTATGAATTTCTTCTTCCTTCTTCAGAT
64 GGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
*
4271629 GAGTTCTTCTCATTATGAACTTTTCTGGAAAAGTTGATCCATCAAATGATGGATTGAGCAAAAGG
1 GAGTTCTTCTCATTATGAACTTTTCTGGAAAAGTTGATCCATCAAGTGATGGATTGAGCAAAAGG
** *
4271694 -TGAACAAGCTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGAT
66 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
4271739 GAGTTC-T-TCATTATGAACT
1 GAGTTCTTCTCATTATGAACT
4271758 CGAACTGGAA
Statistics
Matches: 205, Mismatches: 23, Indels: 22
0.82 0.09 0.09
Matches are distributed among these distances:
106 4 0.02
107 40 0.20
108 36 0.18
109 36 0.18
110 45 0.22
111 32 0.16
112 12 0.06
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (111 bp):
GAGTTCTTCTCATTATGAACTTTTCTGGAAAAGTTGATCCATCAAGTGATGGATTGAGCAAAAGG
TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
Found at i:4272791 original size:80 final size:83
Alignment explanation
Indices: 4272651--4272981 Score: 457
Period size: 81 Copynumber: 4.1 Consensus size: 83
4272641 CTTATTTCTA
* *
4272651 CTATGAACAAA-TCATCTTCCAAATTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGTCAAACCAGATCAGATAACTCAAA
* *
4272715 GAACACTTCCAGAAGATA
66 GAACAATTCCAGAAGATG
*
4272733 CTATG-GCAAATTCATCTTCTAAA-TCAATGATTGGTT-TGTCAAACCAGATCAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGTCAAACCAGATCAGATAACTCAAA
4272795 GAACAATTCCAGAAGATG
66 GAACAATTCCAGAAGATG
* * * *
4272813 TTATGAGCACATTCATCTTTCAATTTCAATGATTGGTTCTG-CGAAACCAGATC--ATAACTCAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGTC-AAACCAGATCAGATAACTCAA
4272875 AGAACAATTCCAGAAGATG
65 AGAACAATTCCAGAAGATG
** **
4272894 CTATGAGCCCATT-ATTCTTCCAAATTCAATGATTGGTT-TACCAAACCAGATCAGATAACTCAA
1 CTATGAGCAAATTCA-TCTTCCAAATTCAATGATTGGTTCTGTCAAACCAGATCAGATAACTCAA
4272957 AGAACAATT-CAGAAGATG
65 AGAACAATTCCAGAAGATG
4272975 CTATGAG
1 CTATGAG
4272982 TACATTGCAT
Statistics
Matches: 225, Mismatches: 15, Indels: 19
0.87 0.06 0.07
Matches are distributed among these distances:
80 57 0.25
81 108 0.48
82 48 0.21
83 12 0.05
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.27
Consensus pattern (83 bp):
CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGTCAAACCAGATCAGATAACTCAAA
GAACAATTCCAGAAGATG
Found at i:4272864 original size:163 final size:162
Alignment explanation
Indices: 4272662--4272987 Score: 471
Period size: 163 Copynumber: 2.0 Consensus size: 162
4272652 TATGAACAAA
* *
4272662 TCATCTTCCAAATTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAG
1 TCATCTTCCAAATTCAATGATTGGTTCTGTCAAACCAGATC--ATAACTCAAAGAACAATTCCAG
* **
4272727 AAGATACTATG-GCAAATTCA-TCTTCTAAA-TCAATGATTGGTTTGTCAAACCAGATCAGATAA
64 AAGATACTATGAGCAAATT-ATTCTTCCAAATTCAATGATTGGTTTACCAAACCAGATCAGATAA
*
4272789 CTCAAAGAACAATTCCAGAAGATGTTATGAGCACAT
128 CTCAAAGAACAATT-CAGAAGATGCTATGAGCACAT
* *
4272825 TCATCTTTCAATTTCAATGATTGGTTCTG-CGAAACCAGATCATAACTCAAAGAACAATTCCAGA
1 TCATCTTCCAAATTCAATGATTGGTTCTGTC-AAACCAGATCATAACTCAAAGAACAATTCCAGA
* **
4272889 AGATGCTATGAGCCCATTATTCTTCCAAATTCAATGATTGGTTTACCAAACCAGATCAGATAACT
65 AGATACTATGAGCAAATTATTCTTCCAAATTCAATGATTGGTTTACCAAACCAGATCAGATAACT
*
4272954 CAAAGAACAATTCAGAAGATGCTATGAGTACAT
130 CAAAGAACAATTCAGAAGATGCTATGAGCACAT
4272987 T
1 T
4272988 GCATTATTCC
Statistics
Matches: 147, Mismatches: 12, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
161 32 0.22
162 34 0.23
163 81 0.55
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28
Consensus pattern (162 bp):
TCATCTTCCAAATTCAATGATTGGTTCTGTCAAACCAGATCATAACTCAAAGAACAATTCCAGAA
GATACTATGAGCAAATTATTCTTCCAAATTCAATGATTGGTTTACCAAACCAGATCAGATAACTC
AAAGAACAATTCAGAAGATGCTATGAGCACAT
Found at i:4273942 original size:5 final size:5
Alignment explanation
Indices: 4273921--4273962 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
4273911 GACCCCCCCT
* *
4273921 TTTTC TTCTTT TTTTC TTTTC -TTTC TTTTC TTTTT TTTTC TT
1 TTTTC TT-TTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TT
4273963 CAAGCATAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
4 4 0.13
5 23 0.74
6 4 0.13
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTC
Found at i:4286449 original size:16 final size:16
Alignment explanation
Indices: 4286428--4286471 Score: 88
Period size: 16 Copynumber: 2.8 Consensus size: 16
4286418 ACCGTCGGCT
4286428 GAGGCGGCTGGAGGCA
1 GAGGCGGCTGGAGGCA
4286444 GAGGCGGCTGGAGGCA
1 GAGGCGGCTGGAGGCA
4286460 GAGGCGGCTGGA
1 GAGGCGGCTGGA
4286472 TTAGGGTTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.18, C:0.18, G:0.57, T:0.07
Consensus pattern (16 bp):
GAGGCGGCTGGAGGCA
Found at i:4286595 original size:3 final size:3
Alignment explanation
Indices: 4286587--4286721 Score: 135
Period size: 3 Copynumber: 45.0 Consensus size: 3
4286577 TATATATATT
* * *
4286587 TAA TAA TAA TAT TAA TAA TAA TAA TAT TTA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * * * * *
4286635 TAT TTA TAG TAA TAA TAA TAT TTA TAG TAA TAA TAA TAT TTA TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
4286683 TAA TAA TAA TAA TTA TAA TTA TAG TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4286722 ACAAATCAAA
Statistics
Matches: 102, Mismatches: 30, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 102 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:4291678 original size:105 final size:104
Alignment explanation
Indices: 4291591--4291808 Score: 251
Period size: 105 Copynumber: 2.1 Consensus size: 104
4291581 CAACATAATT
* * * *
4291591 ATCAATATAAATTGTGATGAATTTGTTTGACACTAAAAATATATTTTGTGACCATCAATATTGTC
1 ATCAATAGAAATTGTGATAAATTTATTTGACACTAAAAATATATTTTGTGACCACCAATATTGTC
* *
4291656 ACAC-AAAGTATTTTTTAGTGACCTAATGTTTGATACTATC
66 ACACTAAA-TATTTTTTAGTGACC-AATGATTCATACTATC
* * * * *
4291696 ATTAATAGAAATTGTGATAAATTTATTTGACATTGAAAGTATATTTTGTGACCACCAATGTTGTC
1 ATCAATAGAAATTGTGATAAATTTATTTGACACTAAAAATATATTTTGTGACCACCAATATTGTC
* * *
4291761 ACACTACATATTTTTTTAGTGACCAAATG-TTCAAAACTATT
66 ACACTAAATA-TTTTTTAGTGACC-AATGATTC-ATACTATC
4291802 ATCAATA
1 ATCAATA
4291809 ACTCGTCACT
Statistics
Matches: 95, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
105 64 0.67
106 31 0.33
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.39
Consensus pattern (104 bp):
ATCAATAGAAATTGTGATAAATTTATTTGACACTAAAAATATATTTTGTGACCACCAATATTGTC
ACACTAAATATTTTTTAGTGACCAATGATTCATACTATC
Found at i:4295898 original size:3 final size:3
Alignment explanation
Indices: 4295892--4295926 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
4295882 TTTATTTATT
*
4295892 ATA ATA ATA ACA ATA ATA ATA ATA ATAA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA A
4295927 CAATTAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:4295906 original size:9 final size:9
Alignment explanation
Indices: 4295894--4295930 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
4295884 TATTTATTAT
4295894 AATAATAAC
1 AATAATAAC
*
4295903 AATAATAAT
1 AATAATAAC
4295912 AATAAT-A-
1 AATAATAAC
4295919 AATAATAAC
1 AATAATAAC
4295928 AAT
1 AAT
4295931 TAATTTCGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
7 6 0.24
8 2 0.08
9 17 0.68
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (9 bp):
AATAATAAC
Found at i:4296143 original size:2 final size:2
Alignment explanation
Indices: 4296136--4296185 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
4296126 TTTTAAGAGT
4296136 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
4296178 TA TA TA TA
1 TA TA TA TA
4296186 ATTTTACCTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4299627 original size:145 final size:146
Alignment explanation
Indices: 4299363--4299653 Score: 496
Period size: 145 Copynumber: 2.0 Consensus size: 146
4299353 GTACTTTTAG
* * * *
4299363 GTTTTTCAATTTCCTCATTGAACTTTATACATTGAATATTTTTTAACCACTTAAATGTTTCCTGT
1 GTTTTTCAATTTCCTCATTAAACTTTATACATTAAATATTATTTAACCACTTAAATGTTTCCTCT
4299428 TAACTCTATGATTATATGAAATTCTTTTATTATTTTTAACTATTTAATATTTTATTAATATTATT
66 TAACTCTATGATTATATGAAATTCTTTTATTATTTTTAACTATTTAATATTTTATTAATATTATT
4299493 TATATAGTTTTTATCA
131 TATATAGTTTTTATCA
* *
4299509 GTTTTTCAATTTTCTCATTAAACTTTATATATTAAATA-TATTTAACCACTTAAATGTTTCCTCT
1 GTTTTTCAATTTCCTCATTAAACTTTATACATTAAATATTATTTAACCACTTAAATGTTTCCTCT
*
4299573 TAACTCTTTGATTATAT-ATAATTCTTTTATTATTTTTAACTATTTAATATTTTATTAATATTAT
66 TAACTCTATGATTATATGA-AATTCTTTTATTATTTTTAACTATTTAATATTTTATTAATATTAT
4299637 TTATATAGTTTTTATCA
130 TTATATAGTTTTTATCA
4299654 TCCACACCCA
Statistics
Matches: 137, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
144 1 0.01
145 102 0.74
146 34 0.25
ACGTcount: A:0.31, C:0.11, G:0.04, T:0.54
Consensus pattern (146 bp):
GTTTTTCAATTTCCTCATTAAACTTTATACATTAAATATTATTTAACCACTTAAATGTTTCCTCT
TAACTCTATGATTATATGAAATTCTTTTATTATTTTTAACTATTTAATATTTTATTAATATTATT
TATATAGTTTTTATCA
Found at i:4301534 original size:522 final size:522
Alignment explanation
Indices: 4300550--4301597 Score: 2096
Period size: 522 Copynumber: 2.0 Consensus size: 522
4300540 ACCCTTAAAG
4300550 CTAACCTCATGACTCCTCTTGCCCCGCTGATCCTGAATCCATGTCCCAAACACCTAAAGAACCAC
1 CTAACCTCATGACTCCTCTTGCCCCGCTGATCCTGAATCCATGTCCCAAACACCTAAAGAACCAC
4300615 CACAACGTCACCGATCTATCATCAAAGGTTTGATTTTTACCTTCGTTTCTTGATGTCGATTCATT
66 CACAACGTCACCGATCTATCATCAAAGGTTTGATTTTTACCTTCGTTTCTTGATGTCGATTCATT
4300680 TCCCGATGACGATTGGTTTTCTCCGATGATCTTCCCCTCTTGATGAAAAAATGTAATTAGTACTC
131 TCCCGATGACGATTGGTTTTCTCCGATGATCTTCCCCTCTTGATGAAAAAATGTAATTAGTACTC
4300745 ATCTCTCACTCTTCAATTATTTTTGATATTTTGTGGGTGTTCGAAGCCATGAAAGAACTTATCAC
196 ATCTCTCACTCTTCAATTATTTTTGATATTTTGTGGGTGTTCGAAGCCATGAAAGAACTTATCAC
4300810 TCTTCTTTGAATTTTGTATAATTTTATATGACACTTAAAAAGATTTCTTTCATTCGATCGGAGAT
261 TCTTCTTTGAATTTTGTATAATTTTATATGACACTTAAAAAGATTTCTTTCATTCGATCGGAGAT
4300875 GTGGATCCTTAAACTGTCGTGATTTGCTTCTTTTGTTTTTGATTTCATTTTGGTTTCCATTTTCT
326 GTGGATCCTTAAACTGTCGTGATTTGCTTCTTTTGTTTTTGATTTCATTTTGGTTTCCATTTTCT
4300940 TTGTGATTGGTCAATTTTTGGGATGGTTGGGATTTGTGTGCTAAATCAACAGAAGGATATGTTTC
391 TTGTGATTGGTCAATTTTTGGGATGGTTGGGATTTGTGTGCTAAATCAACAGAAGGATATGTTTC
4301005 CTTTTCATTTTGAATTTGATCATGTTTTGATTTAGCTACCTTTGGAAAGATTTCTTGCTCAAATC
456 CTTTTCATTTTGAATTTGATCATGTTTTGATTTAGCTACCTTTGGAAAGATTTCTTGCTCAAATC
4301070 AT
521 AT
4301072 CTAACCTCATGACTCCTCTTGCCCCGCTGATCCTGAATCCATGTCCCAAACACCTAAAGAACCAC
1 CTAACCTCATGACTCCTCTTGCCCCGCTGATCCTGAATCCATGTCCCAAACACCTAAAGAACCAC
4301137 CACAACGTCACCGATCTATCATCAAAGGTTTGATTTTTACCTTCGTTTCTTGATGTCGATTCATT
66 CACAACGTCACCGATCTATCATCAAAGGTTTGATTTTTACCTTCGTTTCTTGATGTCGATTCATT
4301202 TCCCGATGACGATTGGTTTTCTCCGATGATCTTCCCCTCTTGATGAAAAAATGTAATTAGTACTC
131 TCCCGATGACGATTGGTTTTCTCCGATGATCTTCCCCTCTTGATGAAAAAATGTAATTAGTACTC
4301267 ATCTCTCACTCTTCAATTATTTTTGATATTTTGTGGGTGTTCGAAGCCATGAAAGAACTTATCAC
196 ATCTCTCACTCTTCAATTATTTTTGATATTTTGTGGGTGTTCGAAGCCATGAAAGAACTTATCAC
4301332 TCTTCTTTGAATTTTGTATAATTTTATATGACACTTAAAAAGATTTCTTTCATTCGATCGGAGAT
261 TCTTCTTTGAATTTTGTATAATTTTATATGACACTTAAAAAGATTTCTTTCATTCGATCGGAGAT
4301397 GTGGATCCTTAAACTGTCGTGATTTGCTTCTTTTGTTTTTGATTTCATTTTGGTTTCCATTTTCT
326 GTGGATCCTTAAACTGTCGTGATTTGCTTCTTTTGTTTTTGATTTCATTTTGGTTTCCATTTTCT
4301462 TTGTGATTGGTCAATTTTTGGGATGGTTGGGATTTGTGTGCTAAATCAACAGAAGGATATGTTTC
391 TTGTGATTGGTCAATTTTTGGGATGGTTGGGATTTGTGTGCTAAATCAACAGAAGGATATGTTTC
4301527 CTTTTCATTTTGAATTTGATCATGTTTTGATTTAGCTACCTTTGGAAAGATTTCTTGCTCAAATC
456 CTTTTCATTTTGAATTTGATCATGTTTTGATTTAGCTACCTTTGGAAAGATTTCTTGCTCAAATC
4301592 AT
521 AT
4301594 CTAA
1 CTAA
4301598 AATGGACTGA
Statistics
Matches: 526, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
522 526 1.00
ACGTcount: A:0.24, C:0.19, G:0.16, T:0.41
Consensus pattern (522 bp):
CTAACCTCATGACTCCTCTTGCCCCGCTGATCCTGAATCCATGTCCCAAACACCTAAAGAACCAC
CACAACGTCACCGATCTATCATCAAAGGTTTGATTTTTACCTTCGTTTCTTGATGTCGATTCATT
TCCCGATGACGATTGGTTTTCTCCGATGATCTTCCCCTCTTGATGAAAAAATGTAATTAGTACTC
ATCTCTCACTCTTCAATTATTTTTGATATTTTGTGGGTGTTCGAAGCCATGAAAGAACTTATCAC
TCTTCTTTGAATTTTGTATAATTTTATATGACACTTAAAAAGATTTCTTTCATTCGATCGGAGAT
GTGGATCCTTAAACTGTCGTGATTTGCTTCTTTTGTTTTTGATTTCATTTTGGTTTCCATTTTCT
TTGTGATTGGTCAATTTTTGGGATGGTTGGGATTTGTGTGCTAAATCAACAGAAGGATATGTTTC
CTTTTCATTTTGAATTTGATCATGTTTTGATTTAGCTACCTTTGGAAAGATTTCTTGCTCAAATC
AT
Found at i:4303125 original size:88 final size:87
Alignment explanation
Indices: 4302976--4303153 Score: 329
Period size: 88 Copynumber: 2.0 Consensus size: 87
4302966 GTGAATAAAT
4302976 TACTCATTTAATTCCAATGCAAGATACAAAGAAAATTGGGATTTCAAAGAAAAGATTTTTTTTAT
1 TACTCATTTAATTCCAATGCAAGATACAAAGAAAATTGGGATTTCAAAGAAAAGATTTTTTTT-T
4303041 AAGTGAAAAGAGTCTTTGACAAG
65 AAGTGAAAAGAGTCTTTGACAAG
*
4303064 TACTCGTTTAATTCCAATGCAAGATACAAAGAAAATTGGGATTTCAAAGAAAAGATTTTTTTTTA
1 TACTCATTTAATTCCAATGCAAGATACAAAGAAAATTGGGATTTCAAAGAAAAGATTTTTTTTTA
*
4303129 AGTGAAAAGAGTCTTTGACAGG
66 AGTGAAAAGAGTCTTTGACAAG
4303151 TAC
1 TAC
4303154 ATGAAAACCA
Statistics
Matches: 88, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
87 26 0.30
88 62 0.70
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.32
Consensus pattern (87 bp):
TACTCATTTAATTCCAATGCAAGATACAAAGAAAATTGGGATTTCAAAGAAAAGATTTTTTTTTA
AGTGAAAAGAGTCTTTGACAAG
Found at i:4303186 original size:88 final size:86
Alignment explanation
Indices: 4302989--4303174 Score: 243
Period size: 88 Copynumber: 2.2 Consensus size: 86
4302979 TCATTTAATT
* *
4302989 CCAATGCAAGATACAAAGAAAATTGGGATTTCAAAGAAAAGATTTTTTTTATAAGTGAAAAGAGT
1 CCAATGAAAGAAACAAAGAAAATTGGGATTTCAAAGAAAAGATTTTTTTTATAAGTGAAAAGAGT
**
4303054 CTTTGACAAGTACTCGTTTAATT
66 CTTTGACAAGTACTCG--TAAAA
* *
4303077 CCAATGCAAGATACAAAGAAAATTGGGATTTCAAAGAAAAGATTTTTTTT-TAAGTGAAAAGAGT
1 CCAATGAAAGAAACAAAGAAAATTGGGATTTCAAAGAAAAGATTTTTTTTATAAGTGAAAAGAGT
*
4303141 CTTTGACAGGTACAT-G-AAAA
66 CTTTGACAAGTAC-TCGTAAAA
*
4303161 CCATTTGAAAGAAA
1 CCA-ATGAAAGAAA
4303175 AACAATAGAA
Statistics
Matches: 90, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
84 5 0.06
85 7 0.08
87 27 0.30
88 51 0.57
ACGTcount: A:0.43, C:0.10, G:0.18, T:0.29
Consensus pattern (86 bp):
CCAATGAAAGAAACAAAGAAAATTGGGATTTCAAAGAAAAGATTTTTTTTATAAGTGAAAAGAGT
CTTTGACAAGTACTCGTAAAA
Found at i:4307169 original size:41 final size:42
Alignment explanation
Indices: 4307123--4307214 Score: 100
Period size: 42 Copynumber: 2.2 Consensus size: 42
4307113 TTATGAATGG
* *
4307123 CCCGAATGACTT-ATCATCTTGCTCGAAA-AGCTTA-TAGATGA
1 CCCGAATGACTTAAACATCATGCTCGAAAGA-CTTACT-GATGA
* *
4307164 CCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGA
1 CCCGAATGACTTAAACATCATGCTCGAAAGACTTACTGATGA
*
4307206 CCCGGATGA
1 CCCGAATGA
4307215 TTTACTTTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
41 10 0.24
42 30 0.71
43 2 0.05
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.25
Consensus pattern (42 bp):
CCCGAATGACTTAAACATCATGCTCGAAAGACTTACTGATGA
Found at i:4307205 original size:42 final size:42
Alignment explanation
Indices: 4307137--4307218 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
4307127 AATGACTTAT
*
4307137 CATCTTGCTCGAAAAGCTTATAGATGACCCGAAGGATTTAAA
1 CATCATGCTCGAAAAGCTTATAGATGACCCGAAGGATTTAAA
* *
4307179 CATCATGCTCG-AAAGACTTACT-GATGACCCGGATGATTTA
1 CATCATGCTCGAAAAG-CTTA-TAGATGACCCGAAGGATTTA
4307219 CTTTAATCTC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
41 4 0.11
42 30 0.86
43 1 0.03
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.27
Consensus pattern (42 bp):
CATCATGCTCGAAAAGCTTATAGATGACCCGAAGGATTTAAA
Found at i:4307842 original size:260 final size:260
Alignment explanation
Indices: 4307365--4307930 Score: 907
Period size: 260 Copynumber: 2.2 Consensus size: 260
4307355 AAGGTCTTAT
* * * * * ** *
4307365 CATCTTGCTTGAAAGGCTTACAGATGACCCGAAGGACTTATGAATCAAGAAACCATCGAAAGCTT
1 CATCATGCTCGAAAGACTTACAGATGACCCAAAGGATTTACAAATTAAGAAACCATCGAAAGCTT
* *
4307430 AGTTTCTTAGTTATCAAGGAACCCTTTTGTTAGGCTTATCTTCCTTTAACAACTCTTTTGAGATA
66 AGTTTCTTAGTTATCAAGGAACCCCTTTGTTAGGCTTAACTTCCTTTAACAACTCTTTTGAGATA
* *
4307495 ATTAGGAAACCCCTGAATGGCTTAGTTTCTAAAATCTCATTTATAAACATATTGCCCAAAGGTCT
131 ATTAGAAAACCCCTGAAAGGCTTAGTTTCTAAAATCTCATTTATAAACATATTGCCCAAAGGTCT
* * * * *
4307560 TATGGATGGCCCGAAGGTCTTATCATTTTGCTCGATAGGCTTATAGATAACCTGAATGATTTAAA
196 TATGGATGGCCCGAAGGTCTTATCATCTTGCTCGAAAGGCTTACAGATAACCCGAAGGATTTAAA
*
4307625 CATCATGCTCGAAAGACTTACAGATGACCCAAAGGATTTACAAATTAAGAAACCCTCGAAAGCTT
1 CATCATGCTCGAAAGACTTACAGATGACCCAAAGGATTTACAAATTAAGAAACCATCGAAAGCTT
*
4307690 AGTTTCTTAGTTGTCAAGGAACCCCTTTGTTAGGCTTAACTTCCTTTAACAACTCTTTTGAGATA
66 AGTTTCTTAGTTATCAAGGAACCCCTTTGTTAGGCTTAACTTCCTTTAACAACTCTTTTGAGATA
* * ***
4307755 ATTAGAAAACCCCTGAAAGGCTTAGTTTCTAAAATCTCATTTGTAAACATCTTGCTTGAAGGTCT
131 ATTAGAAAACCCCTGAAAGGCTTAGTTTCTAAAATCTCATTTATAAACATATTGCCCAAAGGTCT
*
4307820 TATGGATGGCCCGAAGGTCTTATCATCTTGCTCGAAAGGCTTACAGATGACCCGAAGGATTTAAA
196 TATGGATGGCCCGAAGGTCTTATCATCTTGCTCGAAAGGCTTACAGATAACCCGAAGGATTTAAA
4307885 CATCATGCTCGAAAGACTTACAGATGACCCAAAGGATTTACAAATT
1 CATCATGCTCGAAAGACTTACAGATGACCCAAAGGATTTACAAATT
4307931 CAGGAAATAG
Statistics
Matches: 281, Mismatches: 25, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
260 281 1.00
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (260 bp):
CATCATGCTCGAAAGACTTACAGATGACCCAAAGGATTTACAAATTAAGAAACCATCGAAAGCTT
AGTTTCTTAGTTATCAAGGAACCCCTTTGTTAGGCTTAACTTCCTTTAACAACTCTTTTGAGATA
ATTAGAAAACCCCTGAAAGGCTTAGTTTCTAAAATCTCATTTATAAACATATTGCCCAAAGGTCT
TATGGATGGCCCGAAGGTCTTATCATCTTGCTCGAAAGGCTTACAGATAACCCGAAGGATTTAAA
Found at i:4307874 original size:41 final size:42
Alignment explanation
Indices: 4307798--4307924 Score: 143
Period size: 42 Copynumber: 3.0 Consensus size: 42
4307788 ATCTCATTTG
* ** *
4307798 TAAACATCTTGCTTG-AAGGTCTTATGGATGGCCCGAAGG-TCT
1 TAAACATCTTGCTCGAAAGG-CTTACAGATGACCCGAAGGAT-T
*
4307840 T-ATCATCTTGCTCGAAAGGCTTACAGATGACCCGAAGGATT
1 TAAACATCTTGCTCGAAAGGCTTACAGATGACCCGAAGGATT
* * *
4307881 TAAACATCATGCTCGAAAGACTTACAGATGACCCAAAGGATT
1 TAAACATCTTGCTCGAAAGGCTTACAGATGACCCGAAGGATT
4307923 TA
1 TA
4307925 CAAATTCAGG
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
41 29 0.40
42 44 0.60
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.27
Consensus pattern (42 bp):
TAAACATCTTGCTCGAAAGGCTTACAGATGACCCGAAGGATT
Found at i:4312653 original size:19 final size:19
Alignment explanation
Indices: 4312629--4312678 Score: 100
Period size: 19 Copynumber: 2.6 Consensus size: 19
4312619 AATGCATTTG
4312629 ATGCATCGATGCGCTAGCC
1 ATGCATCGATGCGCTAGCC
4312648 ATGCATCGATGCGCTAGCC
1 ATGCATCGATGCGCTAGCC
4312667 ATGCATCGATGC
1 ATGCATCGATGC
4312679 ACTCAGGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.22, C:0.30, G:0.26, T:0.22
Consensus pattern (19 bp):
ATGCATCGATGCGCTAGCC
Found at i:4318499 original size:23 final size:23
Alignment explanation
Indices: 4318430--4318509 Score: 94
Period size: 23 Copynumber: 3.6 Consensus size: 23
4318420 ACACTTAATA
*
4318430 GTGCATCGTTGCA-TCCTTGAAT
1 GTGCATCGATGCACTCCTTGAAT
* * *
4318452 GTGCATCGAT--ACACCATGAAG
1 GTGCATCGATGCACTCCTTGAAT
*
4318473 GTGCACCGATGCACTCCTTGAAT
1 GTGCATCGATGCACTCCTTGAAT
4318496 GTGCATCGATGCAC
1 GTGCATCGATGCAC
4318510 AAGGACATGC
Statistics
Matches: 46, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
20 1 0.02
21 15 0.33
22 9 0.20
23 21 0.46
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (23 bp):
GTGCATCGATGCACTCCTTGAAT
Found at i:4320365 original size:23 final size:22
Alignment explanation
Indices: 4320317--4320366 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
4320307 ATCTTTGCTC
* * *
4320317 ATTATTTCTTCGATTTTGTCGA
1 ATTATTTCTGCGAATTGGTCGA
*
4320339 ATTATTTCTGCTGAATTGGTCGT
1 ATTATTTCTGC-GAATTGGTCGA
4320362 ATTAT
1 ATTAT
4320367 ACTTGTTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.20, C:0.12, G:0.16, T:0.52
Consensus pattern (22 bp):
ATTATTTCTGCGAATTGGTCGA
Found at i:4331183 original size:64 final size:66
Alignment explanation
Indices: 4331025--4331184 Score: 202
Period size: 65 Copynumber: 2.5 Consensus size: 66
4331015 AAATAAATTG
* * *
4331025 AACATCGAATGCATTTTATGAATCGATGCA-CATACCATGCATCGATGCACTCAGGGCTTTATGA
1 AACATCGAATGCATTTTATGCATCGATGCACCATACCATGCATCGATGAACTCAGAGCTTTATGA
4331089 A
66 A
* ** * * *
4331090 AACATCGAATGCATTTGATGCATTAATGCACCA-ACCATGCGTCGATTAACTCA-AGCTATTTTG
1 AACATCGAATGCATTTTATGCATCGATGCACCATACCATGCATCGATGAACTCAGAGCT-TTATG
4331153 -A
65 AA
4331154 AACATCGAATGCATTTTATGCATCGATGCAC
1 AACATCGAATGCATTTTATGCATCGATGCAC
4331185 TCTTAGTGCA
Statistics
Matches: 81, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
64 32 0.40
65 47 0.58
66 2 0.02
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.29
Consensus pattern (66 bp):
AACATCGAATGCATTTTATGCATCGATGCACCATACCATGCATCGATGAACTCAGAGCTTTATGA
A
Found at i:4333282 original size:23 final size:24
Alignment explanation
Indices: 4333256--4333319 Score: 87
Period size: 23 Copynumber: 2.8 Consensus size: 24
4333246 CAACTCATAT
4333256 AATTGCACCGAAGTGCCA-CGTAG
1 AATTGCACCGAAGTGCCAGCGTAG
* *
4333279 AATTGTACCGGAGTG-CAGCGTAG
1 AATTGCACCGAAGTGCCAGCGTAG
*
4333302 AATTGCACCGTAGTGCCA
1 AATTGCACCGAAGTGCCA
4333320 TATAATAATG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
22 2 0.06
23 31 0.89
24 2 0.06
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.20
Consensus pattern (24 bp):
AATTGCACCGAAGTGCCAGCGTAG
Found at i:4334386 original size:64 final size:62
Alignment explanation
Indices: 4334278--4334502 Score: 240
Period size: 64 Copynumber: 3.5 Consensus size: 62
4334268 TAATGAAGGT
* * * *
4334278 ATGCATCGATGCACTACTGATGCATCGGTGCA-TAAAATGTATTCGATGTTGTATTATTACTAGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACT-AATTGCATTCGATGTT-TATTATTA-TAGG
* * *
4334342 ATGCATCGATGCA-TGCCTTATGCATCGATGCACTAATTGCATTCGATGTTTCCTTATTAATGGG
1 ATGCATCGATGCACT-ACTTATGCATCGATGCACTAATTGCATTCGATGTTT-ATTATT-ATAGG
* * *
4334406 ATGCATCGATGCACTACTTATGCATCGATGCACAAATTGCATTCGATGTATTTATT-TTAAAAG
1 ATGCATCGATGCACTACTTATGCATCGATGCACTAATTGCATTCGATG--TTTATTATTATAGG
**
4334469 AGTGCATCGATGCACTACCAATGCATCGATGCAC
1 A-TGCATCGATGCACTACTTATGCATCGATGCAC
4334503 CTTCAAACAA
Statistics
Matches: 138, Mismatches: 15, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
63 5 0.04
64 125 0.91
65 5 0.04
66 3 0.02
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.33
Consensus pattern (62 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACTAATTGCATTCGATGTTTATTATTATAGG
Found at i:4338846 original size:23 final size:23
Alignment explanation
Indices: 4338820--4338883 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 23
4338810 CAGCTCATAT
4338820 AATTGCACCGAAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
* * * *
4338843 AATTACACCGGAGTGTCGCGTAG
1 AATTGCACCGAAGTGCCACGTAG
*
4338866 AATTGCACCGTAGTGCCA
1 AATTGCACCGAAGTGCCA
4338884 TATAATAATG
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.28, C:0.25, G:0.27, T:0.20
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACGTAG
Found at i:4339063 original size:101 final size:102
Alignment explanation
Indices: 4338894--4339114 Score: 417
Period size: 101 Copynumber: 2.2 Consensus size: 102
4338884 TATAATAATG
*
4338894 TCCCGAAGGACCATATATCACTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCT
1 TCCCGAAGGACCACATATCACTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCT
4338959 CACCAGACTTCACACATGTTCCAAAGAATAC-ATATA
66 CACCAGACTTCACACATGTTCCAAAGAATACAATATA
4338995 TCCCGAAGGACCACATATCACTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCT
1 TCCCGAAGGACCACATATCACTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCT
4339060 CACCAGACTTCACACATGTTCCAAAGAATACATATATA
66 CACCAGACTTCACACATGTTCCAAAGAATACA-ATATA
4339098 TCCCGAAGGACCACATA
1 TCCCGAAGGACCACATA
4339115 GACCCTCGAA
Statistics
Matches: 117, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
101 95 0.81
103 22 0.19
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.25
Consensus pattern (102 bp):
TCCCGAAGGACCACATATCACTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCT
CACCAGACTTCACACATGTTCCAAAGAATACAATATA
Found at i:4339332 original size:24 final size:24
Alignment explanation
Indices: 4339305--4339383 Score: 64
Period size: 24 Copynumber: 3.6 Consensus size: 24
4339295 GAATTCATAT
*
4339305 TCATATGTCACATAAGATTCACCC
1 TCATATATCACATAAGATTCACCC
* *
4339329 TCATGTATCACAT---A-T-A--T
1 TCATATATCACATAAGATTCACCC
*
4339346 TCATATGTCACATAAGATTCACCC
1 TCATATATCACATAAGATTCACCC
*
4339370 TCATGTATCACATA
1 TCATATATCACATA
4339384 TACTTTCTCT
Statistics
Matches: 40, Mismatches: 8, Indels: 14
0.65 0.13 0.23
Matches are distributed among these distances:
17 11 0.28
19 1 0.03
20 2 0.05
21 2 0.05
22 1 0.03
24 23 0.57
ACGTcount: A:0.34, C:0.25, G:0.08, T:0.33
Consensus pattern (24 bp):
TCATATATCACATAAGATTCACCC
Found at i:4339355 original size:41 final size:41
Alignment explanation
Indices: 4339301--4339385 Score: 170
Period size: 41 Copynumber: 2.1 Consensus size: 41
4339291 ATATGAATTC
4339301 ATATTCATATGTCACATAAGATTCACCCTCATGTATCACAT
1 ATATTCATATGTCACATAAGATTCACCCTCATGTATCACAT
4339342 ATATTCATATGTCACATAAGATTCACCCTCATGTATCACAT
1 ATATTCATATGTCACATAAGATTCACCCTCATGTATCACAT
4339383 ATA
1 ATA
4339386 CTTTCTCTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.35, C:0.24, G:0.07, T:0.34
Consensus pattern (41 bp):
ATATTCATATGTCACATAAGATTCACCCTCATGTATCACAT
Found at i:4339990 original size:64 final size:61
Alignment explanation
Indices: 4339885--4340081 Score: 167
Period size: 64 Copynumber: 3.2 Consensus size: 61
4339875 TAATGAAGGT
* * *
4339885 ATGCATCGATGCACTGATGCATCGGTGCATAAAATGTATTCGATGTTGT-ATTATTACTGGG
1 ATGCATCGATGCACTGATGCATCGATGCATAAAATGCATTCGATGTT-TCATTATTAATGGG
* * *
4339946 ATGCATCGATGCATGCCTTATGCATCGATGCACT-AATTGCATTCGATGTTTCCTTATTAATGGG
1 ATGCATCGATGCA---CTGATGCATCGATGCA-TAAAATGCATTCGATGTTTCATTATTAATGGG
* * * * **
4340010 ATGCATCGATGCACT-ACT-TAT-GATGCACAAATTGCATTCGATATTT-ATT-TTAA-AAG
1 ATGCATCGATGCACTGA-TGCATCGATGCATAAAATGCATTCGATGTTTCATTATTAATGGG
4340066 AGTGCATCGATGCACT
1 A-TGCATCGATGCACT
4340082 ACCAATGCAT
Statistics
Matches: 116, Mismatches: 12, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
56 2 0.02
57 18 0.16
58 2 0.02
59 22 0.19
60 3 0.03
61 16 0.14
63 1 0.01
64 51 0.44
65 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (61 bp):
ATGCATCGATGCACTGATGCATCGATGCATAAAATGCATTCGATGTTTCATTATTAATGGG
Found at i:4343958 original size:14 final size:14
Alignment explanation
Indices: 4343939--4343979 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
4343929 CAAAAATTAA
*
4343939 AAATTAAAGTAATG
1 AAATTAAAGAAATG
*
4343953 AAATTAAAGAAATT
1 AAATTAAAGAAATG
*
4343967 AAATTAAATAAAT
1 AAATTAAAGAAAT
4343980 AAAAACTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.29
Consensus pattern (14 bp):
AAATTAAAGAAATG
Found at i:4344029 original size:25 final size:26
Alignment explanation
Indices: 4343972--4344033 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 26
4343962 AAATTAAATT
* *
4343972 AAAT-AAATAAAAACTAAATGGCATA
1 AAATAAAATATAAACTAAATGACATA
* *
4343997 AATTAAAATATAAAGTAAATGAC-TA
1 AAATAAAATATAAACTAAATGACATA
4344022 AAATAAAATATA
1 AAATAAAATATA
4344034 TCAAAATATA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
25 16 0.52
26 15 0.48
ACGTcount: A:0.65, C:0.05, G:0.06, T:0.24
Consensus pattern (26 bp):
AAATAAAATATAAACTAAATGACATA
Found at i:4345421 original size:45 final size:45
Alignment explanation
Indices: 4345357--4345458 Score: 159
Period size: 45 Copynumber: 2.3 Consensus size: 45
4345347 CTGTTATTGT
* * *
4345357 TGGAAGCTGCTGGAACGCTGCGTGGTGGATGGACAATTGGTTTAG
1 TGGAAGCTGCTGGAACGCTGCGTGATGGAGGGACAATTGGCTTAG
* *
4345402 TGGAAGCTGTTGGAACGCTGCGTGATGGAGGGACAGTTGGCTTAG
1 TGGAAGCTGCTGGAACGCTGCGTGATGGAGGGACAATTGGCTTAG
4345447 TGGAAGCTGCTG
1 TGGAAGCTGCTG
4345459 AAGAGCTAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 51 1.00
ACGTcount: A:0.20, C:0.14, G:0.41, T:0.25
Consensus pattern (45 bp):
TGGAAGCTGCTGGAACGCTGCGTGATGGAGGGACAATTGGCTTAG
Found at i:4347334 original size:174 final size:174
Alignment explanation
Indices: 4346925--4347506 Score: 795
Period size: 174 Copynumber: 3.3 Consensus size: 174
4346915 TAGAAATAAA
* ** * *
4346925 ATCATTCAAATGAGAATTCCATCCTAGACCAATTAAAAAATATAAGAGCACCTAAATTAATTAAA
1 ATCATTCAAATGAGGATTTAAACCTAGACCAATTATAAAATATAAGAGCACCTAAATTAATTAAA
* ** * * * *
4346990 CAA-ATATAAAATTTTCATATCA-AAATAGATTATATGTATTATAAACTGTGTTTAATACAAGGT
66 -AATATATAAAATTTTCATA-AAGAAATAGATTATATGTATTATAAGTTTTATTGAATAAAAGGT
*** *
4347053 TTAAAATTTTAAAAAAATTAT-TCTTTTCGCATTTTTAAATT--A--A-ATTT
129 TTAAAA---TAAATGTATTATAT-TTAT---ATTTTTAAATTAAATTATATTT
* *
4347100 ATCATTCAAATGAGG-TTTCAAACCTAAACCAATTATAAAATATAAGAACACCTAAATTAATTAA
1 ATCATTCAAATGAGGATTT-AAACCTAGACCAATTATAAAATATAAGAGCACCTAAATTAATTAA
4347164 AAATATATAAAATTTTCATAAAGAAATAGATTATATGTATTATAAGTTTTATTGAATAAAAGGTT
65 AAATATATAAAATTTTCATAAAGAAATAGATTATATGTATTATAAGTTTTATTGAATAAAAGGTT
4347229 TAAAATAAATGTATTATATTTATATTTTTAAATTAAATTATATTT
130 TAAAATAAATGTATTATATTTATATTTTTAAATTAAATTATATTT
4347274 ATCATTCAAATGAGGATTTAAACCTAGACCAATTATAAAATATAAGAGCACCTAAATTAATTAAA
1 ATCATTCAAATGAGGATTTAAACCTAGACCAATTATAAAATATAAGAGCACCTAAATTAATTAAA
* * * *
4347339 AATAAATAAATTTTTCATAAAGAAATAGATTATATGTATTATAAGTTTTATTGATTGAAAGGTTT
66 AATATATAAAATTTTCATAAAGAAATAGATTATATGTATTATAAGTTTTATTGAATAAAAGGTTT
*
4347404 AAAACAAATGTATTATATTTATATTTTTAAATTAAATTATATTT
131 AAAATAAATGTATTATATTTATATTTTTAAATTAAATTATATTT
*
4347448 ATCATTCAAATGAGGATTTAAACCTAGACCAATTATAAAATATAAGAGCACCAAAATTA
1 ATCATTCAAATGAGGATTTAAACCTAGACCAATTATAAAATATAAGAGCACCTAAATTA
4347507 GTTGGGTGGG
Statistics
Matches: 371, Mismatches: 26, Indels: 21
0.89 0.06 0.05
Matches are distributed among these distances:
169 11 0.03
171 1 0.00
172 12 0.03
173 2 0.01
174 230 0.62
175 115 0.31
ACGTcount: A:0.47, C:0.09, G:0.08, T:0.37
Consensus pattern (174 bp):
ATCATTCAAATGAGGATTTAAACCTAGACCAATTATAAAATATAAGAGCACCTAAATTAATTAAA
AATATATAAAATTTTCATAAAGAAATAGATTATATGTATTATAAGTTTTATTGAATAAAAGGTTT
AAAATAAATGTATTATATTTATATTTTTAAATTAAATTATATTT
Found at i:4351312 original size:12 final size:12
Alignment explanation
Indices: 4351291--4351321 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
4351281 CGAAGTATGA
4351291 CAAAAA-AAAAT
1 CAAAAACAAAAT
4351302 CAAAAACAAAAT
1 CAAAAACAAAAT
4351314 CAAAAACA
1 CAAAAACA
4351322 TCAAAGTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.32
12 13 0.68
ACGTcount: A:0.77, C:0.16, G:0.00, T:0.06
Consensus pattern (12 bp):
CAAAAACAAAAT
Found at i:4352731 original size:27 final size:27
Alignment explanation
Indices: 4352693--4352747 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
4352683 AACTAGAAGA
4352693 AGATCAGTGATCAACATTGAAATGCAT
1 AGATCAGTGATCAACATTGAAATGCAT
4352720 AGATCAGTGATCAACATTGAAATGCAT
1 AGATCAGTGATCAACATTGAAATGCAT
4352747 A
1 A
4352748 CATTGACAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.42, C:0.15, G:0.18, T:0.25
Consensus pattern (27 bp):
AGATCAGTGATCAACATTGAAATGCAT
Found at i:4352752 original size:14 final size:16
Alignment explanation
Indices: 4352733--4352767 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
4352723 TCAGTGATCA
4352733 ACATTGA-AATG-CAT
1 ACATTGACAATGCCAT
4352747 ACATTGACAATGCCAT
1 ACATTGACAATGCCAT
4352763 ACATT
1 ACATT
4352768 ACATTTAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.37
15 4 0.21
16 8 0.42
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (16 bp):
ACATTGACAATGCCAT
Done.